Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 40 of 210
Found at i:14170748 original size:28 final size:28
Alignment explanation
Indices: 14170691--14170756 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 28
14170681 TATTTTGGAC
* *
14170691 TTGAGATTTGGGCTATAATTAATTTATT
1 TTGAGATTTGGGCTATAATGAATATATT
14170719 TTGAG-TTTGGG-TAATAATGAATATATTT
1 TTGAGATTTGGGCT-ATAATGAATATA-TT
*
14170747 TTTAGATTTG
1 TTGAGATTTG
14170757 ACTTTGTATA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
26 1 0.03
27 16 0.50
28 11 0.34
29 4 0.12
ACGTcount: A:0.29, C:0.02, G:0.20, T:0.50
Consensus pattern (28 bp):
TTGAGATTTGGGCTATAATGAATATATT
Found at i:14179210 original size:21 final size:21
Alignment explanation
Indices: 14179186--14179253 Score: 102
Period size: 21 Copynumber: 3.3 Consensus size: 21
14179176 AGAAGTGTCT
*
14179186 GTTAGTAGTTAGTAGTTAGTA
1 GTTAGTAGTTAGCAGTTAGTA
14179207 GTTAGTAGTTAGCAGTTAGTA
1 GTTAGTAGTTAGCAGTTAGTA
* *
14179228 GTTAGTAGTTATCAGTT-GTG
1 GTTAGTAGTTAGCAGTTAGTA
14179248 GTTAGT
1 GTTAGT
14179254 TACAACAGTA
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
20 8 0.18
21 36 0.82
ACGTcount: A:0.25, C:0.03, G:0.29, T:0.43
Consensus pattern (21 bp):
GTTAGTAGTTAGCAGTTAGTA
Found at i:14179244 original size:7 final size:7
Alignment explanation
Indices: 14179186--14179238 Score: 97
Period size: 7 Copynumber: 7.6 Consensus size: 7
14179176 AGAAGTGTCT
14179186 GTTAGTA
1 GTTAGTA
14179193 GTTAGTA
1 GTTAGTA
14179200 GTTAGTA
1 GTTAGTA
14179207 GTTAGTA
1 GTTAGTA
*
14179214 GTTAGCA
1 GTTAGTA
14179221 GTTAGTA
1 GTTAGTA
14179228 GTTAGTA
1 GTTAGTA
14179235 GTTA
1 GTTA
14179239 TCAGTTGTGG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 44 1.00
ACGTcount: A:0.28, C:0.02, G:0.28, T:0.42
Consensus pattern (7 bp):
GTTAGTA
Found at i:14180994 original size:140 final size:140
Alignment explanation
Indices: 14180742--14181021 Score: 533
Period size: 140 Copynumber: 2.0 Consensus size: 140
14180732 CTTCTACGCA
14180742 TTTAGAATGTGTTGCATGTTCCTGCAGTATGCAAGAACTTGATGTCTGTGGGTCAGTTTGCCAAA
1 TTTAGAATGTGTTGCATGTTCCTGCAGTATGCAAGAACTTGATGTCTGTGGGTCAGTTTGCCAAA
*
14180807 GATAATAATGTTTATTTTGAGTTTCACCCGGTTCTATATTTTGTGAATGACATACAGACAAGGAA
66 GATAATAATGTTTATTTTGAGTTTCACCCGGTTCTATAGTTTGTGAATGACATACAGACAAGGAA
14180872 GACACTGCTC
131 GACACTGCTC
14180882 TTTAGAATGTGTTGCATGTTCCTGCAGTATGCAAGAACTTGATGTCTGTGGGTCAGTTTGCCAAA
1 TTTAGAATGTGTTGCATGTTCCTGCAGTATGCAAGAACTTGATGTCTGTGGGTCAGTTTGCCAAA
*
14180947 GATAATAATGTTTATTTTGAGTTTCACCCGGTTCTATAGTTTGTGAATGACATACAGACAATGAA
66 GATAATAATGTTTATTTTGAGTTTCACCCGGTTCTATAGTTTGTGAATGACATACAGACAAGGAA
*
14181012 GATACTGCTC
131 GACACTGCTC
14181022 GAGGGCCACA
Statistics
Matches: 137, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
140 137 1.00
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.35
Consensus pattern (140 bp):
TTTAGAATGTGTTGCATGTTCCTGCAGTATGCAAGAACTTGATGTCTGTGGGTCAGTTTGCCAAA
GATAATAATGTTTATTTTGAGTTTCACCCGGTTCTATAGTTTGTGAATGACATACAGACAAGGAA
GACACTGCTC
Found at i:14195836 original size:18 final size:17
Alignment explanation
Indices: 14195808--14195842 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
14195798 ATTATTAAGA
*
14195808 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
14195825 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
14195843 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:14196499 original size:5 final size:5
Alignment explanation
Indices: 14196489--14196514 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
14196479 AAGTGATATT
14196489 AAATA AAATA AAATA AAATA AAATA A
1 AAATA AAATA AAATA AAATA AAATA A
14196515 TCTATTATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:14197386 original size:25 final size:25
Alignment explanation
Indices: 14197353--14197454 Score: 145
Period size: 25 Copynumber: 4.1 Consensus size: 25
14197343 CAGACACACC
*
14197353 ACAACTCGCATGAGCTTCCGGTTAT
1 ACAACTCGCATGAGCTTCCCGTTAT
14197378 ACAGA-TCGCATGAGCTTCCCGTTAT
1 ACA-ACTCGCATGAGCTTCCCGTTAT
14197403 ACAACTCGCATGAGCTTCCCGTTAT
1 ACAACTCGCATGAGCTTCCCGTTAT
* * *
14197428 TCAACTCGGAGGAGCTTCCCGTT-T
1 ACAACTCGCATGAGCTTCCCGTTAT
14197452 ACA
1 ACA
14197455 GCTCCTATGA
Statistics
Matches: 70, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
24 4 0.06
25 65 0.93
26 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (25 bp):
ACAACTCGCATGAGCTTCCCGTTAT
Found at i:14200903 original size:20 final size:22
Alignment explanation
Indices: 14200880--14200921 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
14200870 AATATTGCCA
14200880 AAAATTTT-AT-AATTATTTTT
1 AAAATTTTAATAAATTATTTTT
14200900 AAAATTTTGAATAAATTATTTT
1 AAAATTTT-AATAAATTATTTT
14200922 ATTTCTAGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.42
22 2 0.11
23 9 0.47
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
AAAATTTTAATAAATTATTTTT
Found at i:14206434 original size:27 final size:27
Alignment explanation
Indices: 14206404--14206457 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
14206394 AAAACTTATA
*
14206404 TATATAATTATCATT-TTTTTAATTTTT
1 TATATAATTATAATTATTTTT-ATTTTT
*
14206431 TATATTATTATAATTATTTTTATTTTT
1 TATATAATTATAATTATTTTTATTTTT
14206458 ATCTGAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 19 0.79
28 5 0.21
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.69
Consensus pattern (27 bp):
TATATAATTATAATTATTTTTATTTTT
Found at i:14215388 original size:13 final size:13
Alignment explanation
Indices: 14215370--14215394 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14215360 ATCGGCTATT
14215370 GGTACAAATTGAG
1 GGTACAAATTGAG
14215383 GGTACAAATTGA
1 GGTACAAATTGA
14215395 CGCATTTCCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.28, T:0.24
Consensus pattern (13 bp):
GGTACAAATTGAG
Found at i:14215613 original size:14 final size:15
Alignment explanation
Indices: 14215596--14215629 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
14215586 AATAATTATC
14215596 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
14215610 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
14215625 TAAAA
1 TAAAA
14215630 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:14215760 original size:28 final size:29
Alignment explanation
Indices: 14215727--14215784 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 29
14215717 TTGAAAATAT
14215727 TAAAAAT-TTTAAAATTATT-TTAAAAAAA
1 TAAAAATATTTAAAATT-TTCTTAAAAAAA
14215755 TAAAAATATTTAAAATTTTCTTAAAAAAA
1 TAAAAATATTTAAAATTTTCTTAAAAAAA
14215784 T
1 T
14215785 GAAATTGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 9 0.32
29 19 0.68
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (29 bp):
TAAAAATATTTAAAATTTTCTTAAAAAAA
Found at i:14215843 original size:22 final size:21
Alignment explanation
Indices: 14215818--14215868 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
14215808 TAATATGGAG
*
14215818 TTGAGAGATTTTTTGAAGGAAA
1 TTGAGAGA-TTTTGGAAGGAAA
*
14215840 TTGAGAGGATTTTGGAAGGAAT
1 TTGAGA-GATTTTGGAAGGAAA
14215862 TTGAGAG
1 TTGAGAG
14215869 TTTAAGAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 1 0.04
22 23 0.88
23 2 0.08
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (21 bp):
TTGAGAGATTTTGGAAGGAAA
Found at i:14216191 original size:30 final size:29
Alignment explanation
Indices: 14216133--14216191 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
14216123 TTCGCGAAAT
* **
14216133 TGGCCCATTCCGGTAAATAATTAAAAAAG
1 TGGCCCATTCCAGTAAATAAAAAAAAAAG
*
14216162 TGGCCCATTTCAGTAAATTAAAAAAAAAAG
1 TGGCCCATTCCAGTAAA-TAAAAAAAAAAG
14216192 GCTTTTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.24
Consensus pattern (29 bp):
TGGCCCATTCCAGTAAATAAAAAAAAAAG
Found at i:14226495 original size:28 final size:28
Alignment explanation
Indices: 14226462--14226519 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
14226452 TACATGAACT
*
14226462 CTAGCTTGGCAAACATATACCTGCAAGC
1 CTAGCTTGGCAAACATATACCTACAAGC
*
14226490 CTAGCTTGGCGAACATATACCTACAAGC
1 CTAGCTTGGCAAACATATACCTACAAGC
14226518 CT
1 CT
14226520 TACTTAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.22
Consensus pattern (28 bp):
CTAGCTTGGCAAACATATACCTACAAGC
Found at i:14228185 original size:20 final size:18
Alignment explanation
Indices: 14228137--14228186 Score: 50
Period size: 20 Copynumber: 2.7 Consensus size: 18
14228127 TTTATCTTGT
14228137 TATTAAATTAA-ATTTAA
1 TATTAAATTAATATTTAA
*
14228154 TGTTAAGA-TAATCACTTTAA
1 TATTAA-ATTAAT-A-TTTAA
14228174 TATTAAATTAATA
1 TATTAAATTAATA
14228187 AAATACTACC
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
17 8 0.31
18 1 0.04
19 3 0.12
20 14 0.54
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (18 bp):
TATTAAATTAATATTTAA
Found at i:14230161 original size:255 final size:255
Alignment explanation
Indices: 14229710--14230219 Score: 1002
Period size: 255 Copynumber: 2.0 Consensus size: 255
14229700 TATGGACTCG
* *
14229710 TTTAGATTATCTACTAAAGTAAGTGTCTTTCTCACAATGTAAATGTTTTTACAGTGTCGCTTATC
1 TTTAGATTATCTACTAAAGTAAGTGTCTTTCTCACAATGTAAATATTTTTACAGTGTCACTTATC
14229775 ATCAGTTTGAACTTAGACAATTAATAAGCTAATATTTGCTTGTCACAATTTCGCTATGCATGCAA
66 ATCAGTTTGAACTTAGACAATTAATAAGCTAATATTTGCTTGTCACAATTTCGCTATGCATGCAA
14229840 AACATGAAAGACATAAAAACAAAAGATATAATAGTAAAATGTGAAATTAATCTTATTTATTCATT
131 AACATGAAAGACATAAAAACAAAAGATATAATAGTAAAATGTGAAATTAATCTTATTTATTCATT
14229905 CATTGTTCAAATACATAGAAAATAATTACATGTTTATTACAATATGGACACATTTCTCAA
196 CATTGTTCAAATACATAGAAAATAATTACATGTTTATTACAATATGGACACATTTCTCAA
14229965 TTTAGATTATCTACTAAAGTAAGTGTCTTTCTCACAATGTAAATATTTTTACAGTGTCACTTATC
1 TTTAGATTATCTACTAAAGTAAGTGTCTTTCTCACAATGTAAATATTTTTACAGTGTCACTTATC
14230030 ATCAGTTTGAACTTAGACAATTAATAAGCTAATATTTGCTTGTCACAATTTCGCTATGCATGCAA
66 ATCAGTTTGAACTTAGACAATTAATAAGCTAATATTTGCTTGTCACAATTTCGCTATGCATGCAA
14230095 AACATGAAAGACATAAAAACAAAAGATATAATAGTAAAATGTGAAATTAATCTTATTTATTCATT
131 AACATGAAAGACATAAAAACAAAAGATATAATAGTAAAATGTGAAATTAATCTTATTTATTCATT
14230160 CATTGTTCAAATACATAGAAAATAATTACATGTTTATTACAATATGGACACATTTCTCAA
196 CATTGTTCAAATACATAGAAAATAATTACATGTTTATTACAATATGGACACATTTCTCAA
14230220 CAAAACAACC
Statistics
Matches: 253, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
255 253 1.00
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (255 bp):
TTTAGATTATCTACTAAAGTAAGTGTCTTTCTCACAATGTAAATATTTTTACAGTGTCACTTATC
ATCAGTTTGAACTTAGACAATTAATAAGCTAATATTTGCTTGTCACAATTTCGCTATGCATGCAA
AACATGAAAGACATAAAAACAAAAGATATAATAGTAAAATGTGAAATTAATCTTATTTATTCATT
CATTGTTCAAATACATAGAAAATAATTACATGTTTATTACAATATGGACACATTTCTCAA
Found at i:14232472 original size:19 final size:19
Alignment explanation
Indices: 14232448--14232495 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
14232438 GTAATTTGTA
*
14232448 TGAAATTAAACTTTCAAAT
1 TGAAATTAAACTTACAAAT
14232467 TGAAATTAAACTTACAAAT
1 TGAAATTAAACTTACAAAT
*
14232486 TAAAATTAAA
1 TGAAATTAAA
14232496 AGAGAAATCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.33
Consensus pattern (19 bp):
TGAAATTAAACTTACAAAT
Found at i:14235130 original size:42 final size:42
Alignment explanation
Indices: 14235073--14235230 Score: 151
Period size: 42 Copynumber: 3.8 Consensus size: 42
14235063 TCAACTCATA
* * *
14235073 TGAGTTTTAGATTAACCCTTCTGGGTTTCAGTTCAGCTCTTT
1 TGAGCTTTAGATTAACCCTTATGGGTTTCCGTTCAGCTCTTT
* * * *
14235115 TGAGCTTTAGTTTAACTCTAATGGGTTTCCGTTTAGCT-TTT
1 TGAGCTTTAGATTAACCCTTATGGGTTTCCGTTCAGCTCTTT
* * * *
14235156 ATGAGCTTCAGATTAACCCTTATGAGTTTCCGTTCAACTCCTAT
1 -TGAGCTTTAGATTAACCCTTATGGGTTTCCGTTCAGCT-CTTT
* * *
14235200 T-AGC-TTCGTTTAACCCTTACGGGTTTCCGTT
1 TGAGCTTTAGATTAACCCTTATGGGTTTCCGTT
14235231 TAGCACTTAT
Statistics
Matches: 93, Mismatches: 20, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
41 25 0.27
42 65 0.70
43 1 0.01
44 2 0.02
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.43
Consensus pattern (42 bp):
TGAGCTTTAGATTAACCCTTATGGGTTTCCGTTCAGCTCTTT
Found at i:14239675 original size:25 final size:25
Alignment explanation
Indices: 14239644--14239755 Score: 93
Period size: 25 Copynumber: 4.6 Consensus size: 25
14239634 GCCCTCTCTT
*
14239644 GAGCCATATAACGGGAAGCTCATGT
1 GAGCCATATAACGGGAAGCTCATGC
* * * * *
14239669 GAGCCATGTAGCGGGAATCTTATCC
1 GAGCCATATAACGGGAAGCTCATGC
* * * **
14239694 GGGCTATATAACGGGAAGCTTATAA
1 GAGCCATATAACGGGAAGCTCATGC
* *
14239719 GAGCCATA-ATCAGGAAGCTCATGC
1 GAGCCATATAACGGGAAGCTCATGC
14239743 GAGCCA-ATAACGG
1 GAGCCATATAACGG
14239756 ATAGCTTCGA
Statistics
Matches: 64, Mismatches: 22, Indels: 3
0.72 0.25 0.03
Matches are distributed among these distances:
23 1 0.02
24 20 0.31
25 43 0.67
ACGTcount: A:0.32, C:0.21, G:0.28, T:0.20
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCATGC
Found at i:14239735 original size:24 final size:24
Alignment explanation
Indices: 14239707--14239786 Score: 65
Period size: 24 Copynumber: 3.3 Consensus size: 24
14239697 CTATATAACG
14239707 GGAAGCTTATAAGAGCCATAATCA
1 GGAAGCTTATAAGAGCCATAATCA
* **
14239731 GGAAGCTCATGCGAGCCAATAA-C-
1 GGAAGCTTATAAGAGCC-ATAATCA
**
14239754 GGATAGCTTCGAAGAGCCATTAATCA
1 GGA-AGCTTATAAGAGCCA-TAATCA
*
14239780 AGAAGCT
1 GGAAGCT
14239787 CCGGATAGCC
Statistics
Matches: 42, Mismatches: 9, Indels: 9
0.70 0.15 0.15
Matches are distributed among these distances:
23 4 0.10
24 27 0.64
25 9 0.21
26 2 0.05
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.19
Consensus pattern (24 bp):
GGAAGCTTATAAGAGCCATAATCA
Found at i:14241959 original size:16 final size:17
Alignment explanation
Indices: 14241938--14241970 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
14241928 TCACTATCAG
14241938 TCTATTA-AATATTTTC
1 TCTATTATAATATTTTC
14241954 TCTATTATTAATATTTT
1 TCTATTA-TAATATTTT
14241971 TAAATACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.61
Consensus pattern (17 bp):
TCTATTATAATATTTTC
Found at i:14248746 original size:71 final size:71
Alignment explanation
Indices: 14248630--14248771 Score: 266
Period size: 71 Copynumber: 2.0 Consensus size: 71
14248620 TTGTCTTGTC
* *
14248630 TAATTTGTTGATGCTTCTTTATGTGAAACATTGCTGTTTTGTTCATTTTGATTTTATGACCTCTG
1 TAATTTGTTGATGCTTCTTTATGTGAAACATTGCTGTTTTATTCATTTTGATTTTATGACCTCAG
14248695 GACAAT
66 GACAAT
14248701 TAATTTGTTGATGCTTCTTTATGTGAAACATTGCTGTTTTATTCATTTTGATTTTATGACCTCAG
1 TAATTTGTTGATGCTTCTTTATGTGAAACATTGCTGTTTTATTCATTTTGATTTTATGACCTCAG
14248766 GACAAT
66 GACAAT
14248772 GCATCTGAAA
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 69 1.00
ACGTcount: A:0.23, C:0.13, G:0.16, T:0.49
Consensus pattern (71 bp):
TAATTTGTTGATGCTTCTTTATGTGAAACATTGCTGTTTTATTCATTTTGATTTTATGACCTCAG
GACAAT
Found at i:14260755 original size:55 final size:55
Alignment explanation
Indices: 14260689--14260792 Score: 145
Period size: 55 Copynumber: 1.9 Consensus size: 55
14260679 TGAACATGTT
* * *** *
14260689 ACATAACAATCGATTTAAATATATAAACAATTGGTTCAAAAGAAGCAATATTTTA
1 ACATAACAATCGATTTAAACATAAAAACAATCAATCCAAAAGAAGCAATATTTTA
*
14260744 ACATGACAATCGATTTAAACATAAAAACAATCAATCCAAAAGAAGCAAT
1 ACATAACAATCGATTTAAACATAAAAACAATCAATCCAAAAGAAGCAAT
14260793 GCTTTTGAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 42 1.00
ACGTcount: A:0.52, C:0.14, G:0.09, T:0.25
Consensus pattern (55 bp):
ACATAACAATCGATTTAAACATAAAAACAATCAATCCAAAAGAAGCAATATTTTA
Found at i:14266708 original size:20 final size:20
Alignment explanation
Indices: 14266680--14266720 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
14266670 AAGGGTGTGG
14266680 ATTTAGGTGTAATTGCTTGT
1 ATTTAGGTGTAATTGCTTGT
* *
14266700 ATTTGGGTGTAATTGTTTGT
1 ATTTAGGTGTAATTGCTTGT
14266720 A
1 A
14266721 ATTACACAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.02, G:0.27, T:0.51
Consensus pattern (20 bp):
ATTTAGGTGTAATTGCTTGT
Found at i:14268572 original size:22 final size:24
Alignment explanation
Indices: 14268518--14268572 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 24
14268508 TGATTTCGAG
*
14268518 TTTTATTCTCTTGCAATTTTTTTTC
1 TTTTATTCTCTTG-AATTTTGTTTC
**
14268543 TTCGATTCT-TTG-ATTTTGTTTC
1 TTTTATTCTCTTGAATTTTGTTTC
14268565 TTTTATTC
1 TTTTATTC
14268573 ACTGTTTGAG
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 15 0.60
24 3 0.12
25 7 0.28
ACGTcount: A:0.11, C:0.15, G:0.07, T:0.67
Consensus pattern (24 bp):
TTTTATTCTCTTGAATTTTGTTTC
Found at i:14280007 original size:82 final size:80
Alignment explanation
Indices: 14279913--14280116 Score: 286
Period size: 82 Copynumber: 2.5 Consensus size: 80
14279903 ATCATATATG
* * * *
14279913 TTTTTTTATTACAATATAGAGAATATTAACGGATAAAATTTGTTAATTTCGTTAGTGACGTGTGA
1 TTTTTTTATTACAATAAAGAGAATATTAACGAATAAAATTCGTTAATTTCGTTAGTGACATGTGA
14279978 GCGATCATCAAATAAA
66 GCGATCATCAAA-AAA
* * *
14279994 TTTTTTTTATTACAATAAAGAGAGTATTAACTAATAAAATTCGTTAATTTCGTTAGTGGCATGTG
1 -TTTTTTTATTACAATAAAGAGAATATTAACGAATAAAATTCGTTAATTTCGTTAGTGACATGTG
*
14280059 AGCGATCATCAAAGAA
65 AGCGATCATCAAAAAA
* *
14280075 --TTTTTATTACAATAAAGAGAATATTAACTAATAAAACTCGTT
1 TTTTTTTATTACAATAAAGAGAATATTAACGAATAAAATTCGTT
14280117 GCGTGAGCGA
Statistics
Matches: 112, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
78 40 0.36
81 2 0.02
82 70 0.62
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (80 bp):
TTTTTTTATTACAATAAAGAGAATATTAACGAATAAAATTCGTTAATTTCGTTAGTGACATGTGA
GCGATCATCAAAAAA
Found at i:14280218 original size:141 final size:146
Alignment explanation
Indices: 14279999--14280260 Score: 349
Period size: 141 Copynumber: 1.8 Consensus size: 146
14279989 ATAAATTTTT
* * * * * * *
14279999 TTTATTACAATAAAGAGAGTATTAACTAATAAAATTCGTTAATTTCGTTAGTGGCATGTGAGCGA
1 TTTATTACAATAAAGAGAATATTAACCAATAAAATTCGCTAATTTCATTAATGACATGTGAGAGA
* *
14280064 TCATCAAAGAA-TTTTTA-T-T-ACAATAAAGAGAATATTAACTAATAAAACTCGTTGCGTGAGC
66 TCATCAAAGAATTTTTTATTATGACAAAAAAGA-AATACTAACTAATAAAACTCGTTGCGTGAGC
14280125 GATCATTAAAGATATCA
130 GATCATTAAAGATATCA
* *
14280142 TTTATTATAATAAA-A-AATATTAACCGATAAAATTCGCTAATTTCATTAATGACAT-TGAGAGA
1 TTTATTACAATAAAGAGAATATTAACCAATAAAATTCGCTAATTTCATTAATGACATGTGAGAGA
*
14280204 TCATCAAAGAAATTTTTTATTATGACAAAAAAGAAATACTAACTAATAAAATTCGTT
66 TCATCAAAG-AATTTTTTATTATGACAAAAAAGAAATACTAACTAATAAAACTCGTT
14280261 AATTGATTGG
Statistics
Matches: 102, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
140 15 0.15
141 35 0.34
142 7 0.07
143 14 0.14
144 22 0.22
145 9 0.09
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.34
Consensus pattern (146 bp):
TTTATTACAATAAAGAGAATATTAACCAATAAAATTCGCTAATTTCATTAATGACATGTGAGAGA
TCATCAAAGAATTTTTTATTATGACAAAAAAGAAATACTAACTAATAAAACTCGTTGCGTGAGCG
ATCATTAAAGATATCA
Found at i:14284028 original size:3 final size:3
Alignment explanation
Indices: 14283974--14284010 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
14283964 CCTTTAATTC
14283974 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
14284011 AATTCACTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:14284640 original size:162 final size:160
Alignment explanation
Indices: 14284226--14284872 Score: 848
Period size: 160 Copynumber: 4.1 Consensus size: 160
14284216 AATTTGTGAC
* * * * * * *
14284226 GATCATTCATACATCACTAACG-AATTAACAAATTTTATTAGTTAATATTTATTTTGTTGTAATA
1 GATCACTCACACATCACTAACGAAATTAACGAATTTTATTAGTTAATGTTCACTTTATTGTAATA
* * ** *
14284290 AAAAAAAT-TTTAATGATCGCTCA-ACGTCACTAATGAAATTAAAAAATTTTATTAGTTAATATT
66 AAAAAATTATTTAATGATCGCTCACACGTCACTAACGAAATTAACGAATTTTATTAGTTAACATT
* * *
14284353 -T-TTTATTGTAATAAAAGACATCTTTAAT
131 CTCTTTATTGTAATAAAAAAAATCTTTGAT
* * *
14284381 GATCATTCA-ACGTCACTAACGAAATTAACGAATTTTATTAGTTAAAT-TT--TTTTATTGTAAT
1 GATCACTCACACATCACTAACGAAATTAACGAATTTTATTAGTT-AATGTTCACTTTATTGTAAT
* * * * *
14284442 AAAAGACA-TCTTTAATGACCGCTCACACGTCACTACCGAAATTAACGAGTTTTATTAGTTAACA
65 AAAA-AAATTATTTAATGATCGCTCACACGTCACTAACGAAATTAACGAATTTTATTAGTTAACA
14284506 TTCTCTTTATTGTAATAAAAAAAAATTCTTTGAT
129 TTCTCTTTATTGTAAT-AAAAAAAA-TCTTTGAT
14284540 GATCACTCACACATCACTAACGAAATTAACGAATTTTATTAGTTAATGTTCACTTTATTGTAATA
1 GATCACTCACACATCACTAACGAAATTAACGAATTTTATTAGTTAATGTTCACTTTATTGTAATA
* * *
14284605 AAAAAATTATTTGATGATCGCTCACACGTCACTACCGAAATTAACGAGTTTTATTAGTTAACATT
66 AAAAAATTATTTAATGATCGCTCACACGTCACTAACGAAATTAACGAATTTTATTAGTTAACATT
*
14284670 CTCTTTATTGTAAT-AAAAAATTCTTTGAT
131 CTCTTTATTGTAATAAAAAAAATCTTTGAT
*
14284699 GATCACTCACACATCACTAACGAAATTAACGAATTTTATTAGTTAATGTTCTCTTTATTGTAATA
1 GATCACTCACACATCACTAACGAAATTAACGAATTTTATTAGTTAATGTTCACTTTATTGTAATA
* * *
14284764 AAAAAATTTATTTGATGATCGCTCACACGTCACTAACGAAATTAACGAATTTTATCAGTTAATAT
66 AAAAAA-TTATTTAATGATCGCTCACACGTCACTAACGAAATTAACGAATTTTATTAGTTAACAT
* * *
14284829 TCTCCTTATTGTAAGAAAAAAACATATTTGAT
130 TCTCTTTATTGTAATAAAAAAA-ATCTTTGAT
*
14284861 GATCGCTCACAC
1 GATCACTCACAC
14284873 GTGTTGATGT
Statistics
Matches: 443, Mismatches: 32, Indels: 27
0.88 0.06 0.05
Matches are distributed among these distances:
153 16 0.04
154 27 0.06
155 65 0.15
156 4 0.01
157 11 0.02
158 6 0.01
159 96 0.22
160 108 0.24
161 8 0.02
162 102 0.23
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (160 bp):
GATCACTCACACATCACTAACGAAATTAACGAATTTTATTAGTTAATGTTCACTTTATTGTAATA
AAAAAATTATTTAATGATCGCTCACACGTCACTAACGAAATTAACGAATTTTATTAGTTAACATT
CTCTTTATTGTAATAAAAAAAATCTTTGAT
Found at i:14284809 original size:81 final size:80
Alignment explanation
Indices: 14284239--14284874 Score: 801
Period size: 81 Copynumber: 8.0 Consensus size: 80
14284229 CATTCATACA
* * * *
14284239 TCACTAACG-AATTAACAAATTTTATTAGTTAATATT-TATTTTGTTGTAATAAAAAAAAT-TTT
1 TCACTAACGAAATTAACGAATTTTATTAGTTAATATTCT-CTTTATTGTAATAAAAAAATTCTTT
*
14284301 AATGATCGCTCA-ACG
65 GATGATCGCTCACACG
* ** *
14284316 TCACTAATGAAATTAAAAAATTTTATTAGTTAATATT-T-TTTATTGTAATAAAAGACA-TCTTT
1 TCACTAACGAAATTAACGAATTTTATTAGTTAATATTCTCTTTATTGTAATAAAA-AAATTCTTT
* **
14284378 AATGATCATTCA-ACG
65 GATGATCGCTCACACG
* *
14284393 TCACTAACGAAATTAACGAATTTTATTAGTTAA-ATT-TTTTTATTGTAATAAAAGACA-TCTTT
1 TCACTAACGAAATTAACGAATTTTATTAGTTAATATTCTCTTTATTGTAATAAAA-AAATTCTTT
* *
14284455 AATGACCGCTCACACG
65 GATGATCGCTCACACG
* * *
14284471 TCACTACCGAAATTAACGAGTTTTATTAGTTAACATTCTCTTTATTGTAATAAAAAAAAATTCTT
1 TCACTAACGAAATTAACGAATTTTATTAGTTAATATTCTCTTTATTGTAAT--AAAAAAATTCTT
* *
14284536 TGATGATCACTCACACA
64 TGATGATCGCTCACACG
* * *
14284553 TCACTAACGAAATTAACGAATTTTATTAGTTAATGTTCACTTTATTGTAATAAAAAAATTATTTG
1 TCACTAACGAAATTAACGAATTTTATTAGTTAATATTCTCTTTATTGTAATAAAAAAATTCTTTG
14284618 ATGATCGCTCACACG
66 ATGATCGCTCACACG
* * *
14284633 TCACTACCGAAATTAACGAGTTTTATTAGTTAACATTCTCTTTATTGTAAT-AAAAAATTCTTTG
1 TCACTAACGAAATTAACGAATTTTATTAGTTAATATTCTCTTTATTGTAATAAAAAAATTCTTTG
* *
14284697 ATGATCACTCACACA
66 ATGATCGCTCACACG
* *
14284712 TCACTAACGAAATTAACGAATTTTATTAGTTAATGTTCTCTTTATTGTAATAAAAAAATTTATTT
1 TCACTAACGAAATTAACGAATTTTATTAGTTAATATTCTCTTTATTGTAATAAAAAAA-TTCTTT
14284777 GATGATCGCTCACACG
65 GATGATCGCTCACACG
* * * * *
14284793 TCACTAACGAAATTAACGAATTTTATCAGTTAATATTCTCCTTATTGTAAGAAAAAAACATATTT
1 TCACTAACGAAATTAACGAATTTTATTAGTTAATATTCTCTTTATTGTAATAAAAAAA-TTCTTT
14284858 GATGATCGCTCACACG
65 GATGATCGCTCACACG
14284874 T
1 T
14284875 GTTGATGTTT
Statistics
Matches: 498, Mismatches: 49, Indels: 20
0.88 0.09 0.04
Matches are distributed among these distances:
76 19 0.04
77 89 0.18
78 61 0.12
79 75 0.15
80 90 0.18
81 97 0.19
82 67 0.13
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (80 bp):
TCACTAACGAAATTAACGAATTTTATTAGTTAATATTCTCTTTATTGTAATAAAAAAATTCTTTG
ATGATCGCTCACACG
Found at i:14285034 original size:19 final size:18
Alignment explanation
Indices: 14285010--14285053 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
14285000 ATATTTTTAA
14285010 ATTTTTAATGAAACAT-TTT
1 ATTTTTAAT-AAA-ATGTTT
*
14285029 ATTTTTTATAAAATGTTT
1 ATTTTTAATAAAATGTTT
14285047 ATTTTTA
1 ATTTTTA
14285054 TCTATAACTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 12 0.55
19 8 0.36
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (18 bp):
ATTTTTAATAAAATGTTT
Found at i:14287957 original size:21 final size:22
Alignment explanation
Indices: 14287933--14287979 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
14287923 TGTTTAGAAC
*
14287933 AATAATA-TGTTAT-AATATTAA
1 AATAATATTGTAATAAAT-TTAA
14287954 AATAATATTGTAATAAATTTAA
1 AATAATATTGTAATAAATTTAA
14287976 AATA
1 AATA
14287980 TACTAACTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 7 0.30
22 13 0.57
23 3 0.13
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.40
Consensus pattern (22 bp):
AATAATATTGTAATAAATTTAA
Found at i:14289403 original size:27 final size:27
Alignment explanation
Indices: 14289373--14289425 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
14289363 GACTAAAACT
*
14289373 ATAGCATATTTTGTGCTTTCTATTCAA
1 ATAGCATATTCTGTGCTTTCTATTCAA
*
14289400 ATAGGATATTCTGTGCTTTCTATTCA
1 ATAGCATATTCTGTGCTTTCTATTCA
14289426 CTTCTCAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.25, C:0.15, G:0.13, T:0.47
Consensus pattern (27 bp):
ATAGCATATTCTGTGCTTTCTATTCAA
Found at i:14291393 original size:7 final size:7
Alignment explanation
Indices: 14291381--14291407 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
14291371 AATCTTAGTA
14291381 TAACATT
1 TAACATT
14291388 TAACATT
1 TAACATT
14291395 TAACATT
1 TAACATT
14291402 TAACAT
1 TAACAT
14291408 GTTATGTAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (7 bp):
TAACATT
Found at i:14294118 original size:21 final size:21
Alignment explanation
Indices: 14294080--14294132 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
14294070 CATTGTTTCT
** *
14294080 AATCTCACTACTACAATATCC
1 AATCTCACCGCTACAATAACC
* *
14294101 AATCTCACCGCTATAATAACT
1 AATCTCACCGCTACAATAACC
*
14294122 AACCTCACCGC
1 AATCTCACCGC
14294133 CACCGCTGTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.36, C:0.36, G:0.04, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAATAACC
Found at i:14294954 original size:20 final size:21
Alignment explanation
Indices: 14294920--14294961 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
14294910 CCCGCTATCC
14294920 AATAAAAACCTAAAATT-CCT
1 AATAAAAACCTAAAATTGCCT
14294940 AATAATAAACC-AAAATTGCCT
1 AATAA-AAACCTAAAATTGCCT
14294961 A
1 A
14294962 TCCGATTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.55, C:0.19, G:0.02, T:0.24
Consensus pattern (21 bp):
AATAAAAACCTAAAATTGCCT
Found at i:14295090 original size:32 final size:32
Alignment explanation
Indices: 14295049--14295114 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
14295039 GAACACAAAA
*
14295049 TATAAATTTATATCAAATTTGATTATTTAGCT
1 TATAAATTTATATCAAATTCGATTATTTAGCT
*
14295081 TATAAATTTATATCAAATTCGGTTATTTAGCT
1 TATAAATTTATATCAAATTCGATTATTTAGCT
14295113 TA
1 TA
14295115 GGTAAAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (32 bp):
TATAAATTTATATCAAATTCGATTATTTAGCT
Found at i:14304212 original size:10 final size:9
Alignment explanation
Indices: 14304144--14304217 Score: 58
Period size: 9 Copynumber: 8.0 Consensus size: 9
14304134 ATTATTATGA
14304144 TTTTTATAG
1 TTTTTATAG
* *
14304153 TTTTGATAA
1 TTTTTATAG
*
14304162 TTTTATATAA
1 TTTT-TATAG
* *
14304172 TTTTAATAC
1 TTTTTATAG
* *
14304181 TTGTAATAG
1 TTTTTATAG
*
14304190 TTTTTATAA
1 TTTTTATAG
14304199 TTTTTATGAG
1 TTTTTAT-AG
14304209 TTTTTATAG
1 TTTTTATAG
14304218 AATTTTTTTA
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
9 36 0.69
10 16 0.31
ACGTcount: A:0.30, C:0.01, G:0.09, T:0.59
Consensus pattern (9 bp):
TTTTTATAG
Found at i:14304213 original size:19 final size:18
Alignment explanation
Indices: 14304138--14304216 Score: 77
Period size: 19 Copynumber: 4.3 Consensus size: 18
14304128 TTTTTTATTA
*
14304138 TTATGATTTTTATAGTTT
1 TTATAATTTTTATAGTTT
* *
14304156 TGATAATTTTATATAATTT
1 TTATAATTTT-TATAGTTT
* * * *
14304175 TAATACTTGTAATAGTTT
1 TTATAATTTTTATAGTTT
14304193 TTATAATTTTTATGAGTTT
1 TTATAATTTTTAT-AGTTT
14304212 TTATA
1 TTATA
14304217 GAATTTTTTT
Statistics
Matches: 47, Mismatches: 12, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
18 23 0.49
19 24 0.51
ACGTcount: A:0.30, C:0.01, G:0.09, T:0.59
Consensus pattern (18 bp):
TTATAATTTTTATAGTTT
Found at i:14313365 original size:6 final size:6
Alignment explanation
Indices: 14313354--14313380 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
14313344 ATAAATAATA
14313354 AAATTT AAATTT AAATTT AAATTT AAA
1 AAATTT AAATTT AAATTT AAATTT AAA
14313381 ATACATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (6 bp):
AAATTT
Found at i:14314752 original size:9 final size:9
Alignment explanation
Indices: 14314738--14314774 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
14314728 TTATGTTTGA
14314738 TATTCGAAT
1 TATTCGAAT
14314747 TATTCGAAT
1 TATTCGAAT
*
14314756 TATTCGAGT
1 TATTCGAAT
*
14314765 TATTCAAAT
1 TATTCGAAT
14314774 T
1 T
14314775 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:14316116 original size:40 final size:40
Alignment explanation
Indices: 14316069--14316198 Score: 140
Period size: 40 Copynumber: 3.3 Consensus size: 40
14316059 ATACACAAGT
*
14316069 TTGACACCCAGTGCCTCATCAGATAATTCGAAGTAATAAA
1 TTGACACCCAGTGCCTCATCAGATAATCCGAAGTAATAAA
* * * *
14316109 TTAACACCCAGTGTCTCATCAGTTAAACCGAAG---TAAA
1 TTGACACCCAGTGCCTCATCAGATAATCCGAAGTAATAAA
* * * *
14316146 TTGGCACCCAGTACCTCATCAAACAAATCCGAAGTAATAAA
1 TTGACACCCAGTGCCTCATCAGA-TAATCCGAAGTAATAAA
*
14316187 TTGGCACCCAGT
1 TTGACACCCAGT
14316199 CATCAACTCA
Statistics
Matches: 73, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
37 21 0.29
38 8 0.11
40 28 0.38
41 16 0.22
ACGTcount: A:0.37, C:0.25, G:0.15, T:0.23
Consensus pattern (40 bp):
TTGACACCCAGTGCCTCATCAGATAATCCGAAGTAATAAA
Found at i:14321663 original size:29 final size:29
Alignment explanation
Indices: 14321582--14321664 Score: 130
Period size: 29 Copynumber: 2.9 Consensus size: 29
14321572 GAAGAAGTGG
* *
14321582 AGAACTTGTTCATTGAGAGTTCGCGATGA
1 AGAACTTGTTCGTTGAGAGTTCGTGATGA
14321611 AGAACTTGTTCGTTGAGAGTTCGTGATGA
1 AGAACTTGTTCGTTGAGAGTTCGTGATGA
* *
14321640 AGAACTTGTTCGTTTAGAATTCGTG
1 AGAACTTGTTCGTTGAGAGTTCGTG
14321665 TCAAGGTGGA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.25, C:0.12, G:0.28, T:0.35
Consensus pattern (29 bp):
AGAACTTGTTCGTTGAGAGTTCGTGATGA
Found at i:14322141 original size:19 final size:19
Alignment explanation
Indices: 14322090--14322147 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
14322080 ATATACTTAA
*
14322090 ATATTAAATAAACATAT-T
1 ATATTAAATATACATATGT
*
14322108 TTATTAATATATACATATGT
1 ATATTAA-ATATACATATGT
* *
14322128 ATATTAAATTTACACATGT
1 ATATTAAATATACATATGT
14322147 A
1 A
14322148 ATCACTAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
18 6 0.18
19 20 0.61
20 7 0.21
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (19 bp):
ATATTAAATATACATATGT
Found at i:14328044 original size:105 final size:105
Alignment explanation
Indices: 14327922--14328110 Score: 342
Period size: 105 Copynumber: 1.8 Consensus size: 105
14327912 AAATTATTAT
* *
14327922 GGAAATAATTTTGGTCAAAATTGTTTTGGGGTTGGTCAAAATAATGGTGTTTCTGGTCAAAATGT
1 GGAAATAATTTTGGTCAAAATTGTTTTGGGGGTGGACAAAATAATGGTGTTTCTGGTCAAAATGT
14327987 GTGTGCTGATGGCTATAATGGTTTTCTGGAACAACGTGCA
66 GTGTGCTGATGGCTATAATGGTTTTCTGGAACAACGTGCA
* *
14328027 GGAAATAATTTTGGTCAAAATTGTTTTGGGGGTGGACAAACTAATTGTGTTTCTGGTCAAAATGT
1 GGAAATAATTTTGGTCAAAATTGTTTTGGGGGTGGACAAAATAATGGTGTTTCTGGTCAAAATGT
14328092 GTGTGCTGATGGCTATAAT
66 GTGTGCTGATGGCTATAAT
14328111 TGTGCAGGAC
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
105 80 1.00
ACGTcount: A:0.27, C:0.09, G:0.28, T:0.37
Consensus pattern (105 bp):
GGAAATAATTTTGGTCAAAATTGTTTTGGGGGTGGACAAAATAATGGTGTTTCTGGTCAAAATGT
GTGTGCTGATGGCTATAATGGTTTTCTGGAACAACGTGCA
Found at i:14331082 original size:12 final size:12
Alignment explanation
Indices: 14331065--14331090 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14331055 AGCTCGTCAC
14331065 ATATTTCTAAGA
1 ATATTTCTAAGA
14331077 ATATTTCTAAGA
1 ATATTTCTAAGA
14331089 AT
1 AT
14331091 GACGGGGATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (12 bp):
ATATTTCTAAGA
Found at i:14335804 original size:27 final size:27
Alignment explanation
Indices: 14335774--14335835 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
14335764 CCTATCAGGT
14335774 AGGCGCCAATGAAGGTGCCTCATAGAG
1 AGGCGCCAATGAAGGTGCCTCATAGAG
*
14335801 AGGCGCCAATGAAGGTGCCTTATAGAG
1 AGGCGCCAATGAAGGTGCCTCATAGAG
14335828 AGGCGCCA
1 AGGCGCCA
14335836 TTATTAGACC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.29, C:0.23, G:0.34, T:0.15
Consensus pattern (27 bp):
AGGCGCCAATGAAGGTGCCTCATAGAG
Found at i:14336204 original size:19 final size:19
Alignment explanation
Indices: 14336182--14336219 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
14336172 AATTTAATTT
*
14336182 ATTAGTAATAAATTACTAA
1 ATTACTAATAAATTACTAA
*
14336201 ATTACTAATAAGTTACTAA
1 ATTACTAATAAATTACTAA
14336220 TAAATTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.37
Consensus pattern (19 bp):
ATTACTAATAAATTACTAA
Found at i:14336370 original size:22 final size:22
Alignment explanation
Indices: 14336315--14336401 Score: 129
Period size: 22 Copynumber: 3.7 Consensus size: 22
14336305 ATATACCGAC
14336315 ATTACAATATTCATACAAAATTATAA
1 ATTACAATATTCATAC-AAA--A-AA
14336341 TATTACAATATTCATACAAAAAA
1 -ATTACAATATTCATACAAAAAA
14336364 ATTACAATATTCATACAAAAAA
1 ATTACAATATTCATACAAAAAA
14336386 ATTACAATATTCATAC
1 ATTACAATATTCATAC
14336402 TAAATATAGA
Statistics
Matches: 60, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
22 38 0.63
23 2 0.03
24 1 0.02
26 3 0.05
27 16 0.27
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (22 bp):
ATTACAATATTCATACAAAAAA
Found at i:14336486 original size:27 final size:27
Alignment explanation
Indices: 14336449--14336524 Score: 116
Period size: 27 Copynumber: 2.8 Consensus size: 27
14336439 AAAATATTGC
* * *
14336449 AATTTTATATGAATATTGTAATTTTGT
1 AATTTTGTATGAATATTGTAATATTAT
*
14336476 ATTTTTGTATGAATATTGTAATATTAT
1 AATTTTGTATGAATATTGTAATATTAT
14336503 AATTTTGTATGAATATTGTAAT
1 AATTTTGTATGAATATTGTAAT
14336525 GTCGGTATAT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (27 bp):
AATTTTGTATGAATATTGTAATATTAT
Found at i:14336642 original size:19 final size:19
Alignment explanation
Indices: 14336620--14336657 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
14336610 TATAAATTTA
*
14336620 TTAGTAACTTATTAGTAAT
1 TTAGTAACTTATTACTAAT
*
14336639 TTAGTAATTTATTACTAAT
1 TTAGTAACTTATTACTAAT
14336658 AAATTAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.05, G:0.08, T:0.50
Consensus pattern (19 bp):
TTAGTAACTTATTACTAAT
Found at i:14339054 original size:34 final size:34
Alignment explanation
Indices: 14339011--14339079 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
14339001 TGTATTATAA
14339011 TTTAGTATATATACACACGCATATTCATGCATGC
1 TTTAGTATATATACACACGCATATTCATGCATGC
14339045 TTTAGTATATATACACACGCATATTCATGCATGC
1 TTTAGTATATATACACACGCATATTCATGCATGC
14339079 T
1 T
14339080 ATCTGATGAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (34 bp):
TTTAGTATATATACACACGCATATTCATGCATGC
Found at i:14341126 original size:108 final size:108
Alignment explanation
Indices: 14340959--14341256 Score: 488
Period size: 108 Copynumber: 2.8 Consensus size: 108
14340949 AATTTGGCTA
* *
14340959 AACGTGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTACC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
*
14341024 TTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTCG
66 TTATTTTGAAAATTTTTGAAAAGAATATTAAGTCATTTGGTCG
* * * *
14341067 AATGAGAAATCGAAACCCAATACCGTATGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
*
14341132 TTATTTTGAAAATTTTTGAAAAGAATATTAAGTCATTTGGTGG
66 TTATTTTGAAAATTTTTGAAAAGAATATTAAGTCATTTGGTCG
* *
14341175 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAATGCAAAACATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
*
14341240 TTATTTAGAAATATTTT
66 TTATTTTGAAA-ATTTT
14341257 CTTTTTTTGA
Statistics
Matches: 174, Mismatches: 15, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
108 169 0.97
109 5 0.03
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (108 bp):
AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
TTATTTTGAAAATTTTTGAAAAGAATATTAAGTCATTTGGTCG
Found at i:14344578 original size:44 final size:44
Alignment explanation
Indices: 14344441--14344578 Score: 115
Period size: 44 Copynumber: 3.1 Consensus size: 44
14344431 NNNNNNNNNN
*
14344441 GGCAAGATCTTTTATCTTCAACCAGCTCCATCAAAACCGAGAGA
1 GGCAAGATCTTTTATCTTCAACCAGCTCCATCACAACCGAGAGA
* * * * * ** *
14344485 GGTAAGGT-TTGTGTCTTCGACCTA-CTTCGC-TGTCAA-TGCAG-GAA
1 GGCAAGATCTTTTATCTTCAACC-AGC-TC-CATCACAACCG-AGAG-A
14344529 GGCAAGATCTTTTATCTTCAACCAGCTCCATCACAACCGAGAGA
1 GGCAAGATCTTTTATCTTCAACCAGCTCCATCACAACCGAGAGA
14344573 GGCAAG
1 GGCAAG
14344579 GTTTGTGTCT
Statistics
Matches: 67, Mismatches: 17, Indels: 20
0.64 0.16 0.19
Matches are distributed among these distances:
43 15 0.22
44 37 0.55
45 15 0.22
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (44 bp):
GGCAAGATCTTTTATCTTCAACCAGCTCCATCACAACCGAGAGA
Found at i:14344590 original size:88 final size:88
Alignment explanation
Indices: 14344441--14344628 Score: 340
Period size: 88 Copynumber: 2.1 Consensus size: 88
14344431 NNNNNNNNNN
*
14344441 GGCAAGATCTTTTATCTTCAACCAGCTCCATCAAAACCGAGAGAGGTAAGGTTTGTGTCTTCGAC
1 GGCAAGATCTTTTATCTTCAACCAGCTCCATCAAAACCGAGAGAGGCAAGGTTTGTGTCTTCGAC
14344506 CTACTTCGCTGTCAATGCAGGAA
66 CTACTTCGCTGTCAATGCAGGAA
*
14344529 GGCAAGATCTTTTATCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGAC
1 GGCAAGATCTTTTATCTTCAACCAGCTCCATCAAAACCGAGAGAGGCAAGGTTTGTGTCTTCGAC
* *
14344594 CTGCTTCGCTGTCAATGTAGGAA
66 CTACTTCGCTGTCAATGCAGGAA
14344617 GGCAAGATCTTT
1 GGCAAGATCTTT
14344629 AACTTCGTTG
Statistics
Matches: 96, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
88 96 1.00
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (88 bp):
GGCAAGATCTTTTATCTTCAACCAGCTCCATCAAAACCGAGAGAGGCAAGGTTTGTGTCTTCGAC
CTACTTCGCTGTCAATGCAGGAA
Found at i:14344620 original size:44 final size:43
Alignment explanation
Indices: 14344488--14344622 Score: 114
Period size: 44 Copynumber: 3.1 Consensus size: 43
14344478 CGAGAGAGGT
*
14344488 AAGGTTTGTGTCTTCGACCTACTTCGCTGTCAATGCAGGAAGGC
1 AAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATG-AGGAAGGC
* * * * * ** *
14344532 AAGATCTTTTATCTTCAACCAGC-TC-CATCACAACCGA-GAGAGGC
1 AAGGT-TTGTGTCTTCGACCTGCTTCGC-TGTCAA-TGAGGA-AGGC
14344576 AAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGTAGGAAGGC
1 AAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATG-AGGAAGGC
14344620 AAG
1 AAG
14344623 ATCTTTAACT
Statistics
Matches: 66, Mismatches: 17, Indels: 16
0.67 0.17 0.16
Matches are distributed among these distances:
43 17 0.26
44 33 0.50
45 16 0.24
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (43 bp):
AAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGAGGAAGGC
Found at i:14346701 original size:11 final size:11
Alignment explanation
Indices: 14346685--14346751 Score: 68
Period size: 11 Copynumber: 6.0 Consensus size: 11
14346675 TTGACCTCTC
14346685 CTTTTTCTTTTT
1 CTTTTTC-TTTT
14346697 CTTTTTCTTCTT
1 CTTTTTCTT-TT
*
14346709 -TTCTTCTTTT
1 CTTTTTCTTTT
14346719 -TTTCTTCTTTT
1 CTTT-TTCTTTT
14346730 CTTTTT-TTTT
1 CTTTTTCTTTT
14346740 CCTTTTTCTTTT
1 -CTTTTTCTTTT
14346752 TTCTTATTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
10 8 0.17
11 24 0.50
12 16 0.33
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (11 bp):
CTTTTTCTTTT
Found at i:14346712 original size:8 final size:8
Alignment explanation
Indices: 14346699--14346756 Score: 50
Period size: 8 Copynumber: 7.2 Consensus size: 8
14346689 TTCTTTTTCT
14346699 TTTTCTTC
1 TTTTCTTC
14346707 TTTTCTTC
1 TTTTCTTC
14346715 TTTTTTTCTTC
1 ---TTTTCTTC
14346726 TTTTCTT-
1 TTTTCTTC
*
14346733 TTTTTTTC
1 TTTTCTTC
*
14346741 CTTT-TTC
1 TTTTCTTC
14346748 TTTT-TTC
1 TTTTCTTC
14346755 TT
1 TT
14346757 ATTTTGACTT
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
7 17 0.40
8 18 0.42
11 8 0.19
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTCTTC
Found at i:14346722 original size:19 final size:18
Alignment explanation
Indices: 14346687--14346753 Score: 91
Period size: 19 Copynumber: 3.6 Consensus size: 18
14346677 GACCTCTCCT
14346687 TTTTCTTTTTCTTTTTCTTC
1 TTTTC-TTTT-TTTTTCTTC
14346707 TTTTCTTCTTTTTTTCTTC
1 TTTTCTT-TTTTTTTCTTC
*
14346726 TTTTCTTTTTTTTTCCT-
1 TTTTCTTTTTTTTTCTTC
14346743 TTTTCTTTTTT
1 TTTTCTTTTTT
14346754 CTTATTTTGA
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
17 11 0.24
18 9 0.20
19 18 0.40
20 7 0.16
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTCTTTTTTTTTCTTC
Found at i:14346761 original size:8 final size:7
Alignment explanation
Indices: 14346686--14346761 Score: 68
Period size: 7 Copynumber: 10.7 Consensus size: 7
14346676 TGACCTCTCC
14346686 TTTTTC-
1 TTTTTCT
14346692 TTTTTC-
1 TTTTTCT
14346698 TTTTTCT
1 TTTTTCT
14346705 TCTTTTCT
1 T-TTTTCT
14346713 TCTTTT-T
1 T-TTTTCT
*
14346720 TTCTTCT
1 TTTTTCT
*
14346727 TTTCTTTT
1 TTT-TTCT
*
14346735 TTTTTCC
1 TTTTTCT
14346742 TTTTTCT
1 TTTTTCT
14346749 TTTTTCT
1 TTTTTCT
14346756 TATTTT
1 T-TTTT
14346762 GACTTTGATT
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
6 15 0.25
7 22 0.37
8 22 0.37
ACGTcount: A:0.01, C:0.17, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTCT
Found at i:14360624 original size:17 final size:17
Alignment explanation
Indices: 14360602--14360636 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
14360592 TTTTTATGTT
14360602 TTATAT-ATATTATTTTA
1 TTATATAATA-TATTTTA
14360619 TTATATAATATATTTTA
1 TTATATAATATATTTTA
14360636 T
1 T
14360637 NNNNNNNNNN
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.82
18 3 0.18
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
TTATATAATATATTTTA
Found at i:14361029 original size:22 final size:22
Alignment explanation
Indices: 14360991--14361037 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
14360981 ATAAAAAGAC
14360991 AAAGAAACAAAAGAAGA-ACAGA
1 AAAGAAACAAAAGAAGAGAC-GA
*
14361013 AAAGAAAC-AGAGAAAGAGACGA
1 AAAGAAACAAAAG-AAGAGACGA
14361035 AAA
1 AAA
14361038 CAGGGGAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 3 0.14
22 17 0.77
23 2 0.09
ACGTcount: A:0.70, C:0.09, G:0.21, T:0.00
Consensus pattern (22 bp):
AAAGAAACAAAAGAAGAGACGA
Found at i:14361687 original size:24 final size:23
Alignment explanation
Indices: 14361660--14361706 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
14361650 TAACCATGGG
14361660 ACATTT-AAAGTAAGGTAAGTAATA
1 ACATTTGAAAGTAA-GTAAG-AATA
*
14361684 ACATTTGAAATTAAGTAAGAATA
1 ACATTTGAAAGTAAGTAAGAATA
14361707 TGTGTGAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 11 0.52
25 6 0.29
ACGTcount: A:0.51, C:0.04, G:0.15, T:0.30
Consensus pattern (23 bp):
ACATTTGAAAGTAAGTAAGAATA
Found at i:14363801 original size:22 final size:22
Alignment explanation
Indices: 14363768--14363856 Score: 115
Period size: 22 Copynumber: 4.0 Consensus size: 22
14363758 TGCACTAATG
*
14363768 AACAGAGAGCACTAAGGTGCTA
1 AACAGAGAGCACTAATGTGCTA
* * *
14363790 TACAAAGAGCACAAATGTGCTA
1 AACAGAGAGCACTAATGTGCTA
* *
14363812 AACGGAGAGCATTAATGTGCTA
1 AACAGAGAGCACTAATGTGCTA
*
14363834 AACTGAGAGCACTAATGTGCTA
1 AACAGAGAGCACTAATGTGCTA
14363856 A
1 A
14363857 TAATCGGAGA
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 56 1.00
ACGTcount: A:0.40, C:0.17, G:0.24, T:0.19
Consensus pattern (22 bp):
AACAGAGAGCACTAATGTGCTA
Found at i:14363843 original size:44 final size:44
Alignment explanation
Indices: 14363772--14363870 Score: 117
Period size: 44 Copynumber: 2.2 Consensus size: 44
14363762 CTAATGAACA
*
14363772 GAGAGCACTAAGGTGCTATACAAAGAGCACAAATGTGCTAAACG
1 GAGAGCACTAAGGTGCTAAACAAAGAGCACAAATGTGCTAAACG
* * ** *
14363816 GAGAGCATTAATGTGCTAAACTGAGAGCACTAATGTGCTAATAATCG
1 GAGAGCACTAAGGTGCTAAACAAAGAGCACAAATGTGCT-A-AA-CG
14363863 GAGAGCAC
1 GAGAGCAC
14363871 GCTAAGGTCC
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
44 33 0.73
45 1 0.02
46 2 0.04
47 9 0.20
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.19
Consensus pattern (44 bp):
GAGAGCACTAAGGTGCTAAACAAAGAGCACAAATGTGCTAAACG
Found at i:14365109 original size:70 final size:72
Alignment explanation
Indices: 14364994--14365134 Score: 223
Period size: 70 Copynumber: 2.0 Consensus size: 72
14364984 TCTCAGATAT
* * *
14364994 AAAAAAGAGATCATTACCCAGTAAGTTAGGACACGATCTTTTCTTACTTCCCGAGATCTTTTAAA
1 AAAAAAGAGATCATTACCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAA
14365059 ACTTGAG
66 ACTTGAG
* *
14365066 AAAAAA-AGATCA-TGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCTCGAGATCGTTTAAA
1 AAAAAAGAGATCATTACCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAA
14365129 ACTTGA
66 ACTTGA
14365135 TTTTGAAAAG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
70 52 0.81
71 6 0.09
72 6 0.09
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (72 bp):
AAAAAAGAGATCATTACCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAA
ACTTGAG
Found at i:14365787 original size:26 final size:27
Alignment explanation
Indices: 14365750--14365801 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
14365740 ATATATACAC
*
14365750 AAATTTACAATAAATAATATATAAAAG
1 AAATTTACAATAAATAATACATAAAAG
*
14365777 AAATTTA-AATAAATTATACATAAAA
1 AAATTTACAATAAATAATACATAAAA
14365802 CAGTTCAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 16 0.70
27 7 0.30
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (27 bp):
AAATTTACAATAAATAATACATAAAAG
Found at i:14366740 original size:19 final size:17
Alignment explanation
Indices: 14366697--14366732 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
14366687 TACAAAAACG
14366697 AAAAT-AAAAGAGATAA
1 AAAATAAAAAGAGATAA
*
14366713 AAAATAAAAAGTGATAA
1 AAAATAAAAAGAGATAA
14366730 AAA
1 AAA
14366733 CAATAAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.75, C:0.00, G:0.11, T:0.14
Consensus pattern (17 bp):
AAAATAAAAAGAGATAA
Found at i:14368674 original size:38 final size:39
Alignment explanation
Indices: 14368576--14368679 Score: 174
Period size: 39 Copynumber: 2.7 Consensus size: 39
14368566 AAATTATTCA
14368576 ACCCAACCCAATAAAACTAAAACTAAAGTCTACCCAATT
1 ACCCAACCCAATAAAACTAAAACTAAAGTCTACCCAATT
*
14368615 ACCCAACCAAATAAAACTAAAACTAAAGTCTACCCAATT
1 ACCCAACCCAATAAAACTAAAACTAAAGTCTACCCAATT
* *
14368654 A-TCAACCCAATAAAAATAAAACTAAA
1 ACCCAACCCAATAAAACTAAAACTAAA
14368680 ACTAAAGTTT
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
38 22 0.36
39 39 0.64
ACGTcount: A:0.54, C:0.27, G:0.02, T:0.17
Consensus pattern (39 bp):
ACCCAACCCAATAAAACTAAAACTAAAGTCTACCCAATT
Found at i:14371389 original size:17 final size:17
Alignment explanation
Indices: 14371328--14371390 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
14371318 TAATTTCAAG
* *
14371328 AATTATATAATGTTTTT
1 AATTATGTAATATTTTT
**
14371345 AATTATGTAATGATTCAAAT
1 AATTATGTAAT-ATT--TTT
*
14371365 ACTTATGTAATATTTTT
1 AATTATGTAATATTTTT
14371382 AATTATGTA
1 AATTATGTA
14371391 GTGATTCAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
17 19 0.54
18 2 0.06
19 3 0.09
20 11 0.31
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.51
Consensus pattern (17 bp):
AATTATGTAATATTTTT
Found at i:14371412 original size:9 final size:9
Alignment explanation
Indices: 14371398--14371428 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
14371388 GTAGTGATTC
*
14371398 AATTCGGGT
1 AATTCGGTT
14371407 AATTCGGTT
1 AATTCGGTT
14371416 AATTCGGTT
1 AATTCGGTT
14371425 AATT
1 AATT
14371429 TTTAACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:14376351 original size:12 final size:10
Alignment explanation
Indices: 14376326--14376369 Score: 61
Period size: 10 Copynumber: 4.2 Consensus size: 10
14376316 ACTAAATCCT
*
14376326 TTCTCTCAAC
1 TTCTCTCAAA
14376336 TTCTCTCTAATA
1 TTCTCTC-AA-A
14376348 TTCTCTCAAA
1 TTCTCTCAAA
14376358 TTCTCTCAAA
1 TTCTCTCAAA
14376368 TT
1 TT
14376370 TCCTATTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 20 0.65
11 4 0.13
12 7 0.23
ACGTcount: A:0.25, C:0.30, G:0.00, T:0.45
Consensus pattern (10 bp):
TTCTCTCAAA
Found at i:14378164 original size:18 final size:18
Alignment explanation
Indices: 14378141--14378183 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
14378131 TGCTAGGTGC
*
14378141 GTATCCTAACCCTTTTAT
1 GTATCCTAACCCTTATAT
14378159 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
14378177 GTTTCCT
1 GTATCCT
14378184 TTTCCTAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.28, G:0.07, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:14380882 original size:124 final size:124
Alignment explanation
Indices: 14380636--14380920 Score: 455
Period size: 124 Copynumber: 2.3 Consensus size: 124
14380626 CCCAAACATG
* *
14380636 CTACTGTAGTAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATTCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
* * *
14380701 TTGAAGCATTTTTTATACTATTTGCTTAGAAACGTCAACTCGAAATTATTTTTCAGGAC
66 TTGAAGCATTTTTTATACTATTTGCTCAAAAACGTCAACTCGAAAATATTTTTCAGGAC
*
14380760 CTACTGTAGCAAAAGCGCGTCCACGTGAGAGCGATTTCAGAAATTCTTCTGATAAA-CATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
* **
14380824 TTGAAGCGTTTTTTATACTATTTGCTCAAAAATTTCAACTCGAAAATATTTTTGCAGGAC
66 TTGAAGCATTTTTTATACTATTTGCTCAAAAACGTCAACTCGAAAATATTTTT-CAGGAC
* *
14380884 CTACTGTATCAAAAACGCGTCCACGTGGGAGCGATTT
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTT
14380921 TCTTAATAAA
Statistics
Matches: 148, Mismatches: 12, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
123 54 0.36
124 94 0.64
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
TTGAAGCATTTTTTATACTATTTGCTCAAAAACGTCAACTCGAAAATATTTTTCAGGAC
Found at i:14386138 original size:3 final size:3
Alignment explanation
Indices: 14386132--14386163 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
14386122 GGTTGCAGTG
14386132 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
14386164 TCTCCACATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:14407666 original size:17 final size:18
Alignment explanation
Indices: 14407637--14407673 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
14407627 TTTTTTTATT
14407637 TTATATAGATATAAATAC
1 TTATATAGATATAAATAC
*
14407655 TTATAT-GATATATATAC
1 TTATATAGATATAAATAC
14407672 TT
1 TT
14407674 TACACTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.46
Consensus pattern (18 bp):
TTATATAGATATAAATAC
Found at i:14414443 original size:100 final size:100
Alignment explanation
Indices: 14414270--14415696 Score: 1849
Period size: 100 Copynumber: 14.3 Consensus size: 100
14414260 AAACCATATT
* * * * *
14414270 TTGCAATTAAAAAGATTGAAACTACAACGGCAAATCTTACTTTTCAGGCGATGCAGCGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACGACGAATCTTACTTTCCAGGCGGTGCAGCGGAACAGA
* * *
14414335 TTGAAGCTACGACGGTGAATCTCACTTCCCCGACA
66 TTGAAGCTACAACGGCGAATCTTACTTCCCCGACA
* * * ** *
14414370 TTGCAATTTAAAAGATTGAAGCCACAACGACAAATCTTACAATCCAGGCGGTGCAGCGGAATAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACGACGAATCTTACTTTCCAGGCGGTGCAGCGGAACAGA
* *
14414435 TTGAAGCTACAACGGTGAATCTTACTTCCCCGACC
66 TTGAAGCTACAACGGCGAATCTTACTTCCCCGACA
* *
14414470 TTACAATTAAAAAGATTGAAGCTACAACGACGAATCTTA-TTTCCCAGGCGATGCAGCGGAACAG
1 TTGCAATTAAAAAGATTGAAGCTACAACGACGAATCTTACTTT-CCAGGCGGTGCAGCGGAACAG
* * * *
14414534 ATTGAAGCTACGATGGCGAATCTCACTTCCTCGACA
65 ATTGAAGCTACAACGGCGAATCTTACTTCCCCGACA
* * * * * * *
14414570 ATGTAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGGTGCAGCAGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACGACGAATCTTACTTTCCAGGCGGTGCAGCGGAACAGA
* * *
14414635 TTGAAACTACAACGGCGAATCTTGCTTCCCCAACA
66 TTGAAGCTACAACGGCGAATCTTACTTCCCCGACA
* * *
14414670 TTGTAATTAAAAAGATTGAAGCTACAA-TAGCGAATCTTACTTTCCAGGCGGTGCAGCGAAACAG
1 TTGCAATTAAAAAGATTGAAGCTACAACGA-CGAATCTTACTTTCCAGGCGGTGCAGCGGAACAG
* * *
14414734 ATTGAAGCTACAACGGTGAATCTTGCTTCCCTGACA
65 ATTGAAGCTACAACGGCGAATCTTACTTCCCCGACA
* * ** *
14414770 TTGCAATTAAAAAGATTGAAGCTACAATGGCGAATCTTACTTTTTAGGCGGTGCAGTGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACGACGAATCTTACTTTCCAGGCGGTGCAGCGGAACAGA
* * *
14414835 TTGAAGCTACGAA-GGTGAATCTCACTTCCTCGACA
66 TTGAAGCTAC-AACGGCGAATCTTACTTCCCCGACA
* * * * * **
14414870 TTGCAATTTAAAAGATTAAAGCCACAACGGCGAATCTTACTTCCCAGGCAATGCAGCGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACGACGAATCTTACTTTCCAGGCGGTGCAGCGGAACAGA
*
14414935 TTGAAGCTACAACGGCGAATCTTACTTCCCCAACA
66 TTGAAGCTACAACGGCGAATCTTACTTCCCCGACA
* * *
14414970 TTGCAATTAAAAAGATTGAAGCTACAATGACGAATCTTACTTTCTAGGCGGTGCAGCGAAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACGACGAATCTTACTTTCCAGGCGGTGCAGCGGAACAGA
*
14415035 TTGAAGCTACAACGGCGAATCTTGCTTCCCCGACA
66 TTGAAGCTACAACGGCGAATCTTACTTCCCCGACA
* * * * *
14415070 TTACAATTAAAAAGATTGAAGCTACAACGACGAATCTTACTTTTCAGGCGGTGCAGTGAAACTGA
1 TTGCAATTAAAAAGATTGAAGCTACAACGACGAATCTTACTTTCCAGGCGGTGCAGCGGAACAGA
* **
14415135 TTGAAGTTACAACGGCGAATCTTGTTTCCCCGACA
66 TTGAAGCTACAACGGCGAATCTTACTTCCCCGACA
* * * *
14415170 TTGCAATTAAAAAGATTGAAGCTACAATGGCTAATCTTACTTTCCAGGCGGTGCATCGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACGACGAATCTTACTTTCCAGGCGGTGCAGCGGAACAGA
** *
14415235 TTGAAGCTACAACGGCGAATCTTGTTTCACCGACA
66 TTGAAGCTACAACGGCGAATCTTACTTCCCCGACA
* * *
14415270 TTGCAATTGAAAAA-ATTGAAGCTACAATGGCGAATCTTACTTTCTAGGCGGTGCAGCGGAACAG
1 TTGCAATT-AAAAAGATTGAAGCTACAACGACGAATCTTACTTTCCAGGCGGTGCAGCGGAACAG
* * * *
14415334 ATTAAAGCTACAACAGTGAATCTTGCTTCCCCGACA
65 ATTGAAGCTACAACGGCGAATCTTACTTCCCCGACA
* * * * *
14415370 TTGCAATTAAAAAGATTGAAGCTACAATGGCGAATCTTACATTCTAGGCGGTGCAGAGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACGACGAATCTTACTTTCCAGGCGGTGCAGCGGAACAGA
* * * *
14415435 TTAAAACTACAACGGCGAATCTTGCTTCCCCAACA
66 TTGAAGCTACAACGGCGAATCTTACTTCCCCGACA
* * * *
14415470 TTGCAATTAAAAAGATTGAAGCTACAAC-AGCGAATCTTACTTCCCAGGCGATGCAGCTGAATAG
1 TTGCAATTAAAAAGATTGAAGCTACAACGA-CGAATCTTACTTTCCAGGCGGTGCAGCGGAACAG
* * *
14415534 ATTGAAGCTACGACGGCGAATCTCACTTCCTCGACA
65 ATTGAAGCTACAACGGCGAATCTTACTTCCCCGACA
* * *
14415570 TTGCAATTTAAAAGATTGAAGCCACAACGACGAATCTTACTTCCCAGGCGGTGCAGCGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACGACGAATCTTACTTTCCAGGCGGTGCAGCGGAACAGA
*
14415635 TTGAAGCTACAACGACGAATCTTACTTCCCCGACA
66 TTGAAGCTACAACGGCGAATCTTACTTCCCCGACA
*
14415670 TTACAATTAAAAAGATT-AATGCTACAA
1 TTGCAATTAAAAAGATTGAA-GCTACAA
14415697 GTCAAAACTC
Statistics
Matches: 1164, Mismatches: 152, Indels: 22
0.87 0.11 0.02
Matches are distributed among these distances:
99 10 0.01
100 1144 0.98
101 10 0.01
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (100 bp):
TTGCAATTAAAAAGATTGAAGCTACAACGACGAATCTTACTTTCCAGGCGGTGCAGCGGAACAGA
TTGAAGCTACAACGGCGAATCTTACTTCCCCGACA
Found at i:14419869 original size:26 final size:25
Alignment explanation
Indices: 14419826--14420061 Score: 153
Period size: 26 Copynumber: 9.0 Consensus size: 25
14419816 CAATTTGAGG
*
14419826 TAAATAGTATAAAA-CAATTTAAAA
1 TAAATAATATAAAAGCAATTTAAAA
*
14419850 TACATAATATACAAAGCAATTTAAAA
1 TAAATAATATA-AAAGCAATTTAAAA
* *
14419876 TAAATAACATATAAGACAATTTAAAA
1 TAAATAATATAAAAG-CAATTTAAAA
*
14419902 T-AAT-ATATAAAA--ATTTTAAAA
1 TAAATAATATAAAAGCAATTTAAAA
14419923 TAAATAATATGTAAAAAG-AAGTTTAAAA
1 TAAATAATA--T-AAAAGCAA-TTTAAAA
* * *
14419951 TAAATAATGTACAAAACAGTTTAAAAA
1 TAAATAATATA-AAAGCAATTT-AAAA
* *
14419978 TAAATGATATATATAAAAAAACAATTCAAAA
1 T-AA--ATA-ATAT--AAAAGCAATTTAAAA
* *
14420009 TAAATAATATATATGACAATTTAAAAA
1 TAAATAATATAAAAG-CAATTT-AAAA
*
14420036 TAAATAATATATAAA-AAATTTAAAA
1 TAAATAATATA-AAAGCAATTTAAAA
14420061 T
1 T
14420062 GGATAATAGT
Statistics
Matches: 168, Mismatches: 22, Indels: 43
0.72 0.09 0.18
Matches are distributed among these distances:
21 9 0.05
22 3 0.02
23 3 0.02
24 15 0.09
25 18 0.11
26 51 0.30
27 26 0.15
28 21 0.12
30 5 0.03
31 8 0.05
32 8 0.05
33 1 0.01
ACGTcount: A:0.61, C:0.05, G:0.04, T:0.30
Consensus pattern (25 bp):
TAAATAATATAAAAGCAATTTAAAA
Found at i:14419870 original size:50 final size:51
Alignment explanation
Indices: 14419802--14420061 Score: 178
Period size: 58 Copynumber: 5.0 Consensus size: 51
14419792 AACGAAACAA
* * ** *
14419802 AATAATATATAGAACAATTTGAGGTAAAT-A-GTATAAAACAATTTAAAAT
1 AATAATATACAGAACAATTTAAAATAAATAACATATAAAACAATTTAAAAT
*
14419851 ACATAATATACA-AAGCAATTTAAAATAAATAACATATAAGACAATTTAAAAT
1 A-ATAATATACAGAA-CAATTTAAAATAAATAACATATAAAACAATTTAAAAT
* * * *
14419903 AAT-ATATA-A-AA-ATTTTAAAATAAATAATATGTAAAAAGAAGTTTAAAAT
1 AATAATATACAGAACAATTTAAAATAAATAACATAT-AAAACAA-TTTAAAAT
* * * * *
14419952 AAATAATGTACAAAACAGTTTAAAAATAAATGATATATATAAAAAAACAATTCAAAAT
1 -AATAATATACAGAACAATTT-AAAATAAAT-A-ACATAT---AAAACAATTTAAAAT
* *
14420010 AAATAATATATATG-ACAATTTAAAAATAAATAATATATAAAA-AATTTAAAAT
1 -AATAATATACA-GAACAATTT-AAAATAAATAACATATAAAACAATTTAAAAT
14420062 GGATAATAGT
Statistics
Matches: 173, Mismatches: 21, Indels: 31
0.77 0.09 0.14
Matches are distributed among these distances:
47 18 0.10
48 5 0.03
49 14 0.08
50 29 0.17
51 7 0.04
52 28 0.16
53 6 0.03
54 4 0.02
55 9 0.05
56 7 0.04
57 6 0.03
58 33 0.19
59 7 0.04
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (51 bp):
AATAATATACAGAACAATTTAAAATAAATAACATATAAAACAATTTAAAAT
Found at i:14419881 original size:76 final size:74
Alignment explanation
Indices: 14419801--14419976 Score: 178
Period size: 75 Copynumber: 2.3 Consensus size: 74
14419791 AAACGAAACA
* ** * *
14419801 AAATAATATAT-AGAACAATTTGAGGTAAATAGTATAAAACAATTTAAAATACATAATA-TACAA
1 AAATAATATATAAG-ACAATTTAAAAT-AATA-TATAAAA-AATTTAAAATAAATAATAGTAAAA
14419864 AGCAA-TTTAAAAT
62 AG-AAGTTTAAAAT
* *
14419877 AAATAACATATAAGACAATTTAAAATAATATATAAAAATTTTAAAATAAATAATATGTAAAAAGA
1 AAATAATATATAAGACAATTTAAAATAATATATAAAAAATTTAAAATAAATAATA-GTAAAAAGA
14419942 AGTTTAAAAT
65 AGTTTAAAAT
* * * *
14419952 AAATAATGTACAAAACAGTTTAAAA
1 AAATAATATATAAGACAATTTAAAA
14419977 ATAAATGATA
Statistics
Matches: 84, Mismatches: 12, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
73 16 0.19
74 9 0.11
75 38 0.45
76 19 0.23
77 2 0.02
ACGTcount: A:0.59, C:0.05, G:0.07, T:0.29
Consensus pattern (74 bp):
AAATAATATATAAGACAATTTAAAATAATATATAAAAAATTTAAAATAAATAATAGTAAAAAGAA
GTTTAAAAT
Found at i:14419916 original size:20 final size:23
Alignment explanation
Indices: 14419877--14419925 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
14419867 AATTTAAAAT
14419877 AAATAACATATAAGACAA-TTTA
1 AAATAACATATAAGACAATTTTA
*
14419899 AAATAATATATAA-A-AATTTTA
1 AAATAACATATAAGACAATTTTA
14419920 AAATAA
1 AAATAA
14419926 ATAATATGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 2 0.08
21 11 0.44
22 12 0.48
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (23 bp):
AAATAACATATAAGACAATTTTA
Found at i:14419974 original size:75 final size:75
Alignment explanation
Indices: 14419828--14420061 Score: 181
Period size: 75 Copynumber: 3.0 Consensus size: 75
14419818 ATTTGAGGTA
* * * *
14419828 AATAGTATAAAACAATTTAAAATACATAATATACAAAGCAATTTAAAATAAATAACATATAAGAC
1 AATAGTATAAAACAATTTAAAATAAATAATATAAAAAGCAATTTAAAATAAATAACATACAAAAC
14419893 AATTTAAAAT
66 AATTTAAAAT
* **
14419903 AATA-TATAAAA-ATTTTAAAATAAATAATATGTAAAAAG-AAGTTTAAAATAAATAATGTACAA
1 AATAGTATAAAACAATTTAAAATAAATAATA--TAAAAAGCAA-TTTAAAATAAATAACATACAA
*
14419965 AACAGTTTAAAAAT
63 AACAATTT-AAAAT
* * * *
14419979 AAATGATATATATAAAAAAACAATTCAAAATAAATAATAT-ATATGACAATTTAAAAATAAATAA
1 --A--ATA-GTAT---AAAACAATTTAAAATAAATAATATAAAAAG-CAATTT-AAAATAAATAA
* *
14420043 TATATAAAA-AATTTAAAAT
56 CATACAAAACAATTTAAAAT
14420062 GGATAATAGT
Statistics
Matches: 127, Mismatches: 15, Indels: 26
0.76 0.09 0.15
Matches are distributed among these distances:
73 16 0.13
74 9 0.07
75 34 0.27
76 5 0.04
78 1 0.01
80 3 0.02
82 3 0.02
83 8 0.06
84 8 0.06
85 24 0.19
86 16 0.13
ACGTcount: A:0.62, C:0.05, G:0.04, T:0.29
Consensus pattern (75 bp):
AATAGTATAAAACAATTTAAAATAAATAATATAAAAAGCAATTTAAAATAAATAACATACAAAAC
AATTTAAAAT
Found at i:14419977 original size:27 final size:28
Alignment explanation
Indices: 14419916--14420052 Score: 95
Period size: 27 Copynumber: 4.9 Consensus size: 28
14419906 ATATAAAAAT
14419916 TTTAAAATAAATAATATGTAAAAAGAAG
1 TTTAAAATAAATAATATGTAAAAAGAAG
*
14419944 TTTAAAATAAAT-A-ATGTACAAAA-CAG
1 TTTAAAATAAATAATATGTA-AAAAGAAG
* * *
14419970 TTTAAAAATAAATGATATATATAAAAAAACAA
1 TTT-AAAATAAAT-A-ATATGTAAAAAGA-AG
* * ** *
14420002 TTCAAAATAAATAATATAT-ATGACAA-
1 TTTAAAATAAATAATATGTAAAAAGAAG
*
14420028 TTTAAAAATAAATAATATATAAAAA
1 TTT-AAAATAAATAATATGTAAAAA
14420053 ATTTAAAATG
Statistics
Matches: 88, Mismatches: 11, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
26 12 0.14
27 31 0.35
28 17 0.19
29 6 0.07
30 6 0.07
31 13 0.15
32 3 0.03
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (28 bp):
TTTAAAATAAATAATATGTAAAAAGAAG
Found at i:14420144 original size:29 final size:29
Alignment explanation
Indices: 14420112--14420179 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
14420102 GGAAAACTTA
*
14420112 AAATAAATAATAATAAAACA-ATTTAAAAT
1 AAATAAATAATAAGAAAA-ATATTTAAAAT
* *
14420141 AAAT-AATATATGAGAAAAATGTTTAAAAT
1 AAATAAATA-ATAAGAAAAATATTTAAAAT
14420170 AAATAAATAA
1 AAATAAATAA
14420180 CAAATTTGCA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
28 5 0.15
29 24 0.73
30 4 0.12
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.28
Consensus pattern (29 bp):
AAATAAATAATAAGAAAAATATTTAAAAT
Found at i:14420167 original size:54 final size:51
Alignment explanation
Indices: 14419801--14420175 Score: 244
Period size: 52 Copynumber: 7.1 Consensus size: 51
14419791 AAACGAAACA
* * ** * *
14419801 AAATAATATATAGAACAATTTGAGGTAAATAGTATA-AAACAATTTAAAAT
1 AAATAATATATAAAACAATTTAAAATAAATAATATATAAAAAATTTAAAAT
* * * * *
14419851 ACATAATATACAAAGCAATTTAAAATAAATAACATATAAGACAATTT---A-
1 AAATAATATATAAAACAATTTAAAATAAATAATATATAA-AAAATTTAAAAT
* *
14419899 AAATAATATATAAAA-ATTTTAAAATAAATAATATGTAAAAAGAAGTTTAAAAT
1 AAATAATATATAAAACAATTTAAAATAAATAATATAT-AAAA-AA-TTTAAAAT
* * * *
14419952 AAATAATGTACAAAACAGTTTAAAAATAAATGATATATATAAAAAAACAATTCAAAAT
1 AAATAATATATAAAACAATTT-AAAATAAAT-A-ATATAT---AAAA-AATTTAAAAT
**
14420010 AAATAATATATATGACAATTTAAAAATAAATAATATATAAAAAATTTAAAAT
1 AAATAATATATAAAACAATTT-AAAATAAATAATATATAAAAAATTTAAAAT
** * * * * * * ** *
14420062 GGATAATAGTTTGAAATAGTTTAAAA-AATACGTGATATGTGGAAAACTTAAAAT
1 AAATAATA-TATAAAACAATTTAAAATAA-A--TAATATATAAAAAATTTAAAAT
14420116 AAATAATA-ATAAAACAATTTAAAATAAATAATATATGAGAAAAATGTTTAAAAT
1 AAATAATATATAAAACAATTTAAAATAAATAATATAT-A-AAAAA--TTTAAAAT
14420170 AAATAA
1 AAATAA
14420176 ATAACAAATT
Statistics
Matches: 249, Mismatches: 52, Indels: 44
0.72 0.15 0.13
Matches are distributed among these distances:
47 19 0.08
48 16 0.06
49 4 0.02
50 33 0.13
51 4 0.02
52 45 0.18
53 26 0.10
54 40 0.16
55 9 0.04
56 7 0.03
57 6 0.02
58 33 0.13
59 7 0.03
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (51 bp):
AAATAATATATAAAACAATTTAAAATAAATAATATATAAAAAATTTAAAAT
Found at i:14421000 original size:19 final size:18
Alignment explanation
Indices: 14420974--14421009 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
14420964 TAAAAATGAT
14420974 AAACAGAAAACAAAAAAA
1 AAACAGAAAACAAAAAAA
*
14420992 AAACGAGAAAAGAAAAAA
1 AAAC-AGAAAACAAAAAA
14421010 GAGCAAACAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.81, C:0.08, G:0.11, T:0.00
Consensus pattern (18 bp):
AAACAGAAAACAAAAAAA
Found at i:14426635 original size:125 final size:124
Alignment explanation
Indices: 14426369--14426655 Score: 448
Period size: 124 Copynumber: 2.3 Consensus size: 124
14426359 ATTTATTAAG
* * * *
14426369 GAAATCGCTTCCATGTGGACGCGTTTTTGATACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGTTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTAAC
* * * *
14426434 GTTTCTGAGCAAATAGTATAAAAACGCTTTAAGCAGGATGCTTTATCAGAAGAATTTCT
66 GTTTCTGAGCAAAAAGTATAAAAACCCTTCAAGCAGGATGCTTTATCAAAAGAATTTCT
*
14426493 GAAATCGCTCCCACGTGGACGCATTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTAAC
1 GAAATCGCTCCCACGTGGACGCGTTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTAAC
* *
14426558 GTTTTTGAGCAAAAAGTATAAAAAACCCTTCAAGCAGGATGCTTTATCAAAAGAATTTTT
66 GTTTCTGAGCAAAAAGTAT-AAAAACCCTTCAAGCAGGATGCTTTATCAAAAGAATTTCT
* *
14426618 GAAATCGCTCCCACGTGGATGCGCTTTTGCTACAGTAG
1 GAAATCGCTCCCACGTGGACGCGTTTTTGCTACAGTAG
14426656 CATGTTTCGG
Statistics
Matches: 148, Mismatches: 14, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
124 77 0.52
125 71 0.48
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (124 bp):
GAAATCGCTCCCACGTGGACGCGTTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTAAC
GTTTCTGAGCAAAAAGTATAAAAACCCTTCAAGCAGGATGCTTTATCAAAAGAATTTCT
Found at i:14429808 original size:49 final size:49
Alignment explanation
Indices: 14429753--14430020 Score: 509
Period size: 49 Copynumber: 5.5 Consensus size: 49
14429743 TAAGAATATT
* * *
14429753 AACTATTTTGTATTTTATTAAATGAAATAATATCAAAAAATTCAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
14429802 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
14429851 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
14429900 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
14429949 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
14429998 AACTATTTTGTATTTTATTACAT
1 AACTATTTTGTATTTTATTACAT
14430021 TAATGTTACT
Statistics
Matches: 216, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
49 216 1.00
ACGTcount: A:0.46, C:0.09, G:0.03, T:0.42
Consensus pattern (49 bp):
AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
Found at i:14430183 original size:21 final size:21
Alignment explanation
Indices: 14430159--14430198 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
14430149 TTGTGGTTGC
14430159 TCCGGT-GAGGATTCTGGTTCA
1 TCCGGTAGAGGA-TCTGGTTCA
*
14430180 TCCGGTAGGGGATCTGGTT
1 TCCGGTAGAGGATCTGGTT
14430199 GTCGGTGTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.12, C:0.17, G:0.38, T:0.33
Consensus pattern (21 bp):
TCCGGTAGAGGATCTGGTTCA
Found at i:14431983 original size:50 final size:50
Alignment explanation
Indices: 14431908--14432037 Score: 215
Period size: 50 Copynumber: 2.6 Consensus size: 50
14431898 TACACGGAAT
* *
14431908 CACTTATCATTTATCTCTTGTCACTGATCAGATAAGTGTAGCTAAGCTAC
1 CACTTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTAC
*
14431958 CACTTAACACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTAC
1 CACTTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTAC
* *
14432008 CACTTATCACTTATCACTTATCACTTATCA
1 CACTTATCACTTATCACTTGTCACTGATCA
14432038 CTTATCACTT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
50 74 1.00
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.35
Consensus pattern (50 bp):
CACTTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTAC
Found at i:14432020 original size:7 final size:7
Alignment explanation
Indices: 14432008--14432054 Score: 94
Period size: 7 Copynumber: 6.7 Consensus size: 7
14431998 GCTAAGCTAC
14432008 CACTTAT
1 CACTTAT
14432015 CACTTAT
1 CACTTAT
14432022 CACTTAT
1 CACTTAT
14432029 CACTTAT
1 CACTTAT
14432036 CACTTAT
1 CACTTAT
14432043 CACTTAT
1 CACTTAT
14432050 CACTT
1 CACTT
14432055 GTTACTTGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.28, C:0.30, G:0.00, T:0.43
Consensus pattern (7 bp):
CACTTAT
Found at i:14432123 original size:37 final size:37
Alignment explanation
Indices: 14432069--14432141 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
14432059 CTTGTTACTA
14432069 ATCAGATAAGTGAAGCTAAAGCTACCACTTATCACTG
1 ATCAGATAAGTGAAGCTAAAGCTACCACTTATCACTG
*
14432106 ATCAGATAAGTGCAGCTAAAGCTACCACTTATCACT
1 ATCAGATAAGTGAAGCTAAAGCTACCACTTATCACT
14432142 TGTCACTGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (37 bp):
ATCAGATAAGTGAAGCTAAAGCTACCACTTATCACTG
Found at i:14442033 original size:19 final size:21
Alignment explanation
Indices: 14442000--14442041 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
14441990 TTTTTTAAAA
*
14442000 TTAAAAATTATTAAAA-TTAT
1 TTAAAAAGTATTAAAATTTAT
14442020 TTAAAAAGTA-TAAAATTTAT
1 TTAAAAAGTATTAAAATTTAT
14442040 TT
1 TT
14442042 TCTAAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (21 bp):
TTAAAAAGTATTAAAATTTAT
Found at i:14444325 original size:19 final size:21
Alignment explanation
Indices: 14444292--14444333 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
14444282 TTTTTTAAAA
*
14444292 TTAAAAATTATTAAAA-TTAT
1 TTAAAAAGTATTAAAATTTAT
14444312 TTAAAAAGTA-TAAAATTTAT
1 TTAAAAAGTATTAAAATTTAT
14444332 TT
1 TT
14444334 TCTAAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (21 bp):
TTAAAAAGTATTAAAATTTAT
Found at i:14450283 original size:7 final size:7
Alignment explanation
Indices: 14450271--14450305 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
14450261 AAATGCGTAC
14450271 AAAAAGA
1 AAAAAGA
14450278 AAAAAGA
1 AAAAAGA
14450285 AAAAAGA
1 AAAAAGA
14450292 AAAAAGA
1 AAAAAGA
14450299 AAAAAGA
1 AAAAAGA
14450306 GAGAGCCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:14462803 original size:21 final size:21
Alignment explanation
Indices: 14462779--14462823 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
14462769 AAAAAATTAT
* *
14462779 AAAATTTTATAAAATTGT-AAG
1 AAAATTATACAAAA-TGTAAAG
14462800 AAAATTATACAAAATGTAAAG
1 AAAATTATACAAAATGTAAAG
14462821 AAA
1 AAA
14462824 TATAAATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.29
Consensus pattern (21 bp):
AAAATTATACAAAATGTAAAG
Found at i:14463038 original size:19 final size:19
Alignment explanation
Indices: 14463000--14463039 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
14462990 TTTTAATGAT
**
14463000 TTTTTATAAAATTTTATAA
1 TTTTTATAAAAAATTATAA
*
14463019 TTTTTATAAAAAATTCTAA
1 TTTTTATAAAAAATTATAA
14463038 TT
1 TT
14463040 CTTAATAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTTTATAAAAAATTATAA
Found at i:14463249 original size:90 final size:91
Alignment explanation
Indices: 14463132--14463336 Score: 216
Period size: 90 Copynumber: 2.2 Consensus size: 91
14463122 GCTTAATTGC
* * * * * *
14463132 TTTTTTGAAAATTTTTGAGGGTATTTTTGATGTATTTTAAAAGTTCAAGTACTCAATTGAGTG-A
1 TTTTTTGAAAA-GTTTGAGGGCATTTTTGATATACTTTAAAAGCTCAAGTACTCAATTAAGTGCA
* *
14463196 ATAAAAAA-GGAGGGGATTAATTACTT
65 AAAAAAAAGGGAGGAGATTAATTACTT
* * *
14463222 TTTTTTGAAGAAGTTTGAGGGCCTTTTTGATATACTTTGAAAGCTCAAGTGCTCAATTAAGTGCC
1 TTTTTTGAA-AAGTTTGAGGGCATTTTTGATATACTTTAAAAGCTCAAGTACTCAATTAAGTG-C
*
14463287 AAAAAAAAAAGGGAGGAGCTTAATTACTTT
64 -AAAAAAAAAGGGAGGAGATTAATTAC-TT
* *
14463317 TATTTTTAAAAAGATTGAGG
1 T-TTTTTGAAAAGTTTGAGG
14463337 ACTTTTTACT
Statistics
Matches: 94, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
90 51 0.54
91 2 0.02
93 8 0.09
94 14 0.15
95 12 0.13
96 7 0.07
ACGTcount: A:0.35, C:0.07, G:0.20, T:0.38
Consensus pattern (91 bp):
TTTTTTGAAAAGTTTGAGGGCATTTTTGATATACTTTAAAAGCTCAAGTACTCAATTAAGTGCAA
AAAAAAAGGGAGGAGATTAATTACTT
Found at i:14473565 original size:19 final size:20
Alignment explanation
Indices: 14473538--14473575 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
14473528 TTGTAAAGGT
*
14473538 TATATTTTA-ATATCTAAAA
1 TATAATTTATATATCTAAAA
*
14473557 TATAATTTATATATTTAAA
1 TATAATTTATATATCTAAA
14473576 TTAAATAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
TATAATTTATATATCTAAAA
Found at i:14482023 original size:21 final size:21
Alignment explanation
Indices: 14481997--14482038 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
14481987 TTTTTAAGAC
14481997 CGAAACAATAAATGAGTGGCA
1 CGAAACAATAAATGAGTGGCA
*
14482018 CGAAACCATAAATGAGTGGCA
1 CGAAACAATAAATGAGTGGCA
14482039 ATGCGAGGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.17, G:0.24, T:0.14
Consensus pattern (21 bp):
CGAAACAATAAATGAGTGGCA
Found at i:14483901 original size:19 final size:18
Alignment explanation
Indices: 14483867--14483943 Score: 57
Period size: 19 Copynumber: 3.8 Consensus size: 18
14483857 AAAGAAATCT
*
14483867 AAAATAATTTTTAAAATTA
1 AAAAT-ATTTTAAAAATTA
14483886 AAAATATTTATAAAAATTCA
1 AAAATATTT-TAAAAATT-A
14483906 AAACTTATATTTTTAACAAATTA
1 AAA---ATA-TTTTAA-AAATTA
14483929 TAAAA-ATTTTAAAAA
1 -AAAATATTTTAAAAA
14483944 ATTCTAAAGT
Statistics
Matches: 49, Mismatches: 1, Indels: 17
0.73 0.01 0.25
Matches are distributed among these distances:
18 7 0.14
19 18 0.37
20 5 0.10
21 1 0.02
23 7 0.14
24 11 0.22
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (18 bp):
AAAATATTTTAAAAATTA
Found at i:14484046 original size:17 final size:17
Alignment explanation
Indices: 14484020--14484053 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14484010 TCTTATCATA
14484020 TTAAAGTATTTTATTTT
1 TTAAAGTATTTTATTTT
* *
14484037 TTAAATTATTTTGTTTT
1 TTAAAGTATTTTATTTT
14484054 GAACTTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (17 bp):
TTAAAGTATTTTATTTT
Found at i:14484406 original size:7 final size:7
Alignment explanation
Indices: 14484383--14484441 Score: 75
Period size: 7 Copynumber: 8.6 Consensus size: 7
14484373 CCGTAACAGG
14484383 ATTTT-A
1 ATTTTAA
* *
14484389 ATTTGAC
1 ATTTTAA
14484396 ATTTTAA
1 ATTTTAA
14484403 ATTTTAA
1 ATTTTAA
14484410 ATTTTAA
1 ATTTTAA
*
14484417 ATTTCAA
1 ATTTTAA
*
14484424 ATTTCAA
1 ATTTTAA
14484431 ATTTTAA
1 ATTTTAA
14484438 ATTT
1 ATTT
14484442 AACTTAAATA
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
6 4 0.09
7 42 0.91
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (7 bp):
ATTTTAA
Found at i:14486585 original size:28 final size:28
Alignment explanation
Indices: 14486545--14486601 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
14486535 AAGTAAAAAA
14486545 ATTAAAAATTTATGAAAATGACCTTAAT
1 ATTAAAAATTTATGAAAATGACCTTAAT
14486573 ATTAAAAATTTATGAAAATGACCTTAAT
1 ATTAAAAATTTATGAAAATGACCTTAAT
14486601 A
1 A
14486602 CTAGATTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.35
Consensus pattern (28 bp):
ATTAAAAATTTATGAAAATGACCTTAAT
Found at i:14490076 original size:52 final size:51
Alignment explanation
Indices: 14489973--14490094 Score: 163
Period size: 52 Copynumber: 2.4 Consensus size: 51
14489963 TAAGTGATTA
* **
14489973 AAATAATATGGCGGCACCAAAAGATAATTTTTATTCAATTTAGGTGCCTCC
1 AAATAATATGGCGGCACCAAAAAATAATTTTTATTCAATTTAGGCACCTCC
* ** *
14490024 AAATAATGTGGCGGCACCAAAAAATAAATTTTTATTTTATTTTGGCACCTCC
1 AAATAATATGGCGGCACCAAAAAAT-AATTTTTATTCAATTTAGGCACCTCC
*
14490076 AAATAACATGGCGGCACCA
1 AAATAATATGGCGGCACCA
14490095 CAAATATTAA
Statistics
Matches: 61, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
51 23 0.38
52 38 0.62
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.30
Consensus pattern (51 bp):
AAATAATATGGCGGCACCAAAAAATAATTTTTATTCAATTTAGGCACCTCC
Found at i:14490386 original size:17 final size:17
Alignment explanation
Indices: 14490361--14490393 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14490351 CAAATACTCT
*
14490361 AAACCTTGAAAGATGAC
1 AAACATTGAAAGATGAC
14490378 AAACATTGAAAGATGA
1 AAACATTGAAAGATGA
14490394 AAATAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.12, G:0.18, T:0.18
Consensus pattern (17 bp):
AAACATTGAAAGATGAC
Found at i:14499224 original size:22 final size:22
Alignment explanation
Indices: 14499207--14499248 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
14499197 AAGAGCAGTA
*
14499207 AAGTGCTATACAGAGAGCACAT
1 AAGTGCTAAACAGAGAGCACAT
*
14499229 ATGTGCTAAACAGAGAGCAC
1 AAGTGCTAAACAGAGAGCAC
14499249 TGCCGTGCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.19, G:0.24, T:0.17
Consensus pattern (22 bp):
AAGTGCTAAACAGAGAGCACAT
Found at i:14499923 original size:8 final size:8
Alignment explanation
Indices: 14499897--14499996 Score: 72
Period size: 8 Copynumber: 13.1 Consensus size: 8
14499887 NNNNNNNNNN
*
14499897 TAATAATA
1 TAATATTA
*
14499905 TAATTAATA
1 TAA-TATTA
14499914 TAATATTA
1 TAATATTA
14499922 TAATATTA
1 TAATATTA
14499930 T-A-A-T-
1 TAATATTA
*
14499934 TAATATTG
1 TAATATTA
14499942 TAATATTA
1 TAATATTA
14499950 TAATATTA
1 TAATATTA
14499958 T-A-A-T-
1 TAATATTA
14499962 TAATATTA
1 TAATATTA
*
14499970 TAATAATA
1 TAATATTA
*
14499978 TAATTAATA
1 TAA-TATTA
14499987 TAATACTTA
1 TAATA-TTA
14499996 T
1 T
14499997 TTATTAAGTA
Statistics
Matches: 77, Mismatches: 4, Indels: 21
0.75 0.04 0.21
Matches are distributed among these distances:
4 2 0.03
5 4 0.05
6 4 0.05
7 4 0.05
8 44 0.57
9 19 0.25
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (8 bp):
TAATATTA
Found at i:14499939 original size:20 final size:20
Alignment explanation
Indices: 14499922--14499987 Score: 89
Period size: 20 Copynumber: 3.3 Consensus size: 20
14499912 TATAATATTA
* *
14499922 TAATATTATAAT-TAATATT
1 TAATATTATAATATTATAAT
14499941 GTAATATTATAATATTATAAT
1 -TAATATTATAATATTATAAT
*
14499962 TAATATTATAATAATATAAT
1 TAATATTATAATATTATAAT
14499982 TAATAT
1 TAATAT
14499988 AATACTTATT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
20 37 0.88
21 5 0.12
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
TAATATTATAATATTATAAT
Found at i:14499953 original size:28 final size:27
Alignment explanation
Indices: 14499897--14499990 Score: 120
Period size: 28 Copynumber: 3.4 Consensus size: 27
14499887 NNNNNNNNNN
14499897 TAATAATATAATTAATA--TAATATTA
1 TAATAATATAATTAATATTTAATATTA
*
14499922 TAATATTATAATTAATATTGTAATATTA
1 TAATAATATAATTAATATT-TAATATTA
* *
14499950 TAATATTATAATTAATATTATAATAATA
1 TAATAATATAATTAATATT-TAATATTA
14499978 TAATTAATATAAT
1 TAA-TAATATAAT
14499991 ACTTATTTAT
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
25 16 0.26
28 37 0.61
29 8 0.13
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (27 bp):
TAATAATATAATTAATATTTAATATTA
Found at i:14502684 original size:23 final size:23
Alignment explanation
Indices: 14502658--14502753 Score: 113
Period size: 23 Copynumber: 4.2 Consensus size: 23
14502648 ATAAGTGCCA
14502658 CACTAATATGTAGCCGAAGCTAC
1 CACTAATATGTAGCCGAAGCTAC
* * * * *
14502681 CACTGATAAGTAACTGTAGCTAC
1 CACTAATATGTAGCCGAAGCTAC
14502704 CACTGAA-ATGTAGCCGAAGCTAC
1 CACT-AATATGTAGCCGAAGCTAC
* *
14502727 CACTAATGTGTAGCCGTAGCTAC
1 CACTAATATGTAGCCGAAGCTAC
14502750 CACT
1 CACT
14502754 GATCAATAAC
Statistics
Matches: 59, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
22 2 0.03
23 56 0.95
24 1 0.02
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (23 bp):
CACTAATATGTAGCCGAAGCTAC
Found at i:14502746 original size:46 final size:46
Alignment explanation
Indices: 14502665--14502755 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
14502655 CCACACTAAT
* *
14502665 ATGTAGCCGAAGCTACCACTGATAAGTAACTGTAGCTACCACTGAA
1 ATGTAGCCGAAGCTACCACTAATAAGTAACCGTAGCTACCACTGAA
** *
14502711 ATGTAGCCGAAGCTACCACTAATGTGTAGCCGTAGCTACCACTGA
1 ATGTAGCCGAAGCTACCACTAATAAGTAACCGTAGCTACCACTGA
14502756 TCAATAACAC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (46 bp):
ATGTAGCCGAAGCTACCACTAATAAGTAACCGTAGCTACCACTGAA
Found at i:14505740 original size:38 final size:38
Alignment explanation
Indices: 14505691--14505765 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 38
14505681 AAACACAAAC
**
14505691 TTGGCACATGAAGTGCATACTGGTGCATAAGCGCATAT
1 TTGGCACATGAAGTGCATACTGGCACATAAGCGCATAT
*
14505729 TTGGCACATGAAGTGCATACTGGCACATAAGCTCATA
1 TTGGCACATGAAGTGCATACTGGCACATAAGCGCATA
14505766 ATATTGTACT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (38 bp):
TTGGCACATGAAGTGCATACTGGCACATAAGCGCATAT
Found at i:14505754 original size:19 final size:19
Alignment explanation
Indices: 14505692--14505756 Score: 78
Period size: 19 Copynumber: 3.4 Consensus size: 19
14505682 AACACAAACT
14505692 TGGCACATGAAGTGCATAC
1 TGGCACATGAAGTGCATAC
** * *
14505711 TGGTGCAT-AAGCGCATATT
1 TGGCACATGAAGTGCATA-C
14505730 TGGCACATGAAGTGCATAC
1 TGGCACATGAAGTGCATAC
14505749 TGGCACAT
1 TGGCACAT
14505757 AAGCTCATAA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
18 8 0.22
19 20 0.56
20 8 0.22
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (19 bp):
TGGCACATGAAGTGCATAC
Found at i:14506548 original size:5 final size:5
Alignment explanation
Indices: 14506505--14506529 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
14506495 AACAAAGAGT
14506505 ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA
14506530 GATATAAGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:14507427 original size:23 final size:22
Alignment explanation
Indices: 14507384--14507441 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
14507374 AAAGGGTATC
* *
14507384 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
14507405 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
14507428 TGCATATCATATCT
1 TACAAATCATATCT
14507442 AACATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:14512174 original size:11 final size:11
Alignment explanation
Indices: 14512158--14512189 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
14512148 CATTATATAG
14512158 AAAAAAATAAT
1 AAAAAAATAAT
14512169 AAAAAAATAAT
1 AAAAAAATAAT
*
14512180 TAAAAAATAA
1 AAAAAAATAA
14512190 GTAATATGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (11 bp):
AAAAAAATAAT
Found at i:14512416 original size:46 final size:45
Alignment explanation
Indices: 14512359--14512472 Score: 124
Period size: 46 Copynumber: 2.5 Consensus size: 45
14512349 TCGAAATAAC
*
14512359 AATATTAATGATAAATTTAAAATAAATATACATGA-T-AAATTTAAAT
1 AATATTAATGATAAATTTAAAAT-AATA-ACAT-ATTAAAATTAAAAT
* * *
14512405 AATGTTAATGATGAGTTTAAAATAATAACATATTAAAAATTAAAAT
1 AATATTAATGATAAATTTAAAATAATAACATATT-AAAATTAAAAT
* *
14512451 AATATTGATAATAAATTTAAAA
1 AATATTAATGATAAATTTAAAA
14512473 ATATATTAAG
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
43 1 0.02
44 5 0.09
45 4 0.07
46 46 0.82
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.36
Consensus pattern (45 bp):
AATATTAATGATAAATTTAAAATAATAACATATTAAAATTAAAAT
Found at i:14512470 original size:23 final size:23
Alignment explanation
Indices: 14512359--14512481 Score: 101
Period size: 23 Copynumber: 5.3 Consensus size: 23
14512349 TCGAAATAAC
14512359 AATATTAATGATAAATTTAAAAT
1 AATATTAATGATAAATTTAAAAT
14512382 AA-ATATACATGATAAATTT-AAAT
1 AATAT-TA-ATGATAAATTTAAAAT
* * *
14512405 AATGTTAATGATGAGTTTAAAAT
1 AATATTAATGATAAATTTAAAAT
** * *
14512428 AATAACATATTA-AAAATTAAAAT
1 AATATTA-ATGATAAATTTAAAAT
* *
14512451 AATATTGATAATAAATTTAAAA-
1 AATATTAATGATAAATTTAAAAT
14512473 ATATATTAA
1 A-ATATTAA
14512482 GCTTGAACAT
Statistics
Matches: 77, Mismatches: 16, Indels: 14
0.72 0.15 0.13
Matches are distributed among these distances:
22 15 0.19
23 47 0.61
24 15 0.19
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.37
Consensus pattern (23 bp):
AATATTAATGATAAATTTAAAAT
Done.