Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 62 of 185
Found at i:19478364 original size:6 final size:6
Alignment explanation
Indices: 19478353--19478378 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
19478343 GGTCGCAACC
19478353 TTTCCT TTTCCT TTTCCT TTTCCT TT
1 TTTCCT TTTCCT TTTCCT TTTCCT TT
19478379 ACATCGTTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTCCT
Found at i:19484500 original size:74 final size:74
Alignment explanation
Indices: 19484369--19484515 Score: 195
Period size: 74 Copynumber: 2.0 Consensus size: 74
19484359 GTGAAAATAA
** * * *
19484369 TATCAACTGCTCGTTTGAGTTAATCAAAAACAATAGTGTTTGGTTACCCATTCGGGTTAAACCTA
1 TATCAACTGCTCGACTGAGCTAATCAAAAACAATAGTGCTTCGTTACCCATTCGGGTTAAACCTA
19484434 CACAACAAT
66 CACAACAAT
* * * ** *
19484443 TATCAATTGCTCGACTGAGCTATTCATAAACAATAGTGCTTCGTTACTTATTTGGGTTAAACCTA
1 TATCAACTGCTCGACTGAGCTAATCAAAAACAATAGTGCTTCGTTACCCATTCGGGTTAAACCTA
19484508 CACAACAA
66 CACAACAA
19484516 ATAGTCTGGC
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
74 62 1.00
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.32
Consensus pattern (74 bp):
TATCAACTGCTCGACTGAGCTAATCAAAAACAATAGTGCTTCGTTACCCATTCGGGTTAAACCTA
CACAACAAT
Found at i:19495624 original size:33 final size:33
Alignment explanation
Indices: 19495587--19495665 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 33
19495577 CTCTTCTGTA
* *
19495587 TTTACTATCCCAGTGGA-CTATTTCTATTCTATG
1 TTTACTATCCCAAT-GATCTATCTCTATTCTATG
*
19495620 TTTACTATCCCAATGATCTATCTCTGTTCTATG
1 TTTACTATCCCAATGATCTATCTCTATTCTATG
*
19495653 TTTACTGTCCCAA
1 TTTACTATCCCAA
19495666 CAGACTATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
32 2 0.05
33 39 0.95
ACGTcount: A:0.22, C:0.24, G:0.10, T:0.44
Consensus pattern (33 bp):
TTTACTATCCCAATGATCTATCTCTATTCTATG
Found at i:19498593 original size:27 final size:27
Alignment explanation
Indices: 19498548--19498619 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
19498538 GGTGAAATCT
* *
19498548 GGGTAAAATGATCGAAATACCCTCGTA-A
1 GGGTAAAATGACCGTAATACCC-C-TATA
19498576 -GGTAAAATGACCGTAATACCCCTATA
1 GGGTAAAATGACCGTAATACCCCTATA
*
19498602 GGGTAAAATGACCATAAT
1 GGGTAAAATGACCGTAAT
19498620 GCTTTTGTGG
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
25 2 0.05
26 2 0.05
27 35 0.90
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.22
Consensus pattern (27 bp):
GGGTAAAATGACCGTAATACCCCTATA
Found at i:19498957 original size:32 final size:32
Alignment explanation
Indices: 19498886--19498960 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
19498876 TGCTGCGATG
* *
19498886 TACTGATGGCTTTGTGCCGATCACAGTACAAT
1 TACTGATGGCTTTGTACCGATCACAATACAAT
* * * **
19498918 TATTGATGGCTTTGTACTGATCATAATACCGT
1 TACTGATGGCTTTGTACCGATCACAATACAAT
19498950 TACTGATGGCT
1 TACTGATGGCT
19498961 GTGTGCTAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (32 bp):
TACTGATGGCTTTGTACCGATCACAATACAAT
Found at i:19498984 original size:32 final size:33
Alignment explanation
Indices: 19498948--19499030 Score: 89
Period size: 32 Copynumber: 2.6 Consensus size: 33
19498938 TCATAATACC
* *
19498948 GTTACTGATGGCTGTGTGCT-AATCATTTCATT
1 GTTACTGATGGCTGTGTGCTCAATCATATCACT
* * *
19498980 GTTACTGGTGGTTGTGTG-TCGATCATATCACT
1 GTTACTGATGGCTGTGTGCTCAATCATATCACT
* *
19499012 GCTACTGATGGCTTTGTGC
1 GTTACTGATGGCTGTGTGC
19499031 CAAACACATT
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
31 1 0.03
32 39 0.98
ACGTcount: A:0.16, C:0.17, G:0.27, T:0.41
Consensus pattern (33 bp):
GTTACTGATGGCTGTGTGCTCAATCATATCACT
Found at i:19499073 original size:22 final size:21
Alignment explanation
Indices: 19499048--19499112 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 21
19499038 ATTAATGTAC
19499048 TTATGGCTTGTAGCCATTCTGT
1 TTATGGCTT-TAGCCATTCTGT
* * *
19499070 TTATAGCTTATAGCTATCCTGT
1 TTATGGCTT-TAGCCATTCTGT
*
19499092 TTACGGCTCTTAGCCATTCTG
1 TTATGGCT-TTAGCCATTCTG
19499113 ACTATTGGTA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
22 33 0.97
23 1 0.03
ACGTcount: A:0.17, C:0.22, G:0.18, T:0.43
Consensus pattern (21 bp):
TTATGGCTTTAGCCATTCTGT
Found at i:19513465 original size:26 final size:26
Alignment explanation
Indices: 19513436--19513486 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
19513426 CGGAGAGCAG
*
19513436 TTAAACAGGATGCTCACAAAGAGCCT
1 TTAAACAGGAAGCTCACAAAGAGCCT
* * *
19513462 TTAATCGGGAAGCTCACGAAGAGCC
1 TTAAACAGGAAGCTCACAAAGAGCC
19513487 ATATAACGGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.18
Consensus pattern (26 bp):
TTAAACAGGAAGCTCACAAAGAGCCT
Found at i:19513496 original size:26 final size:26
Alignment explanation
Indices: 19513447--19513503 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
19513437 TAAACAGGAT
*
19513447 GCTCACAAAGAGCCTTTAATCGGGAA
1 GCTCACAAAGAGCCTATAATCGGGAA
* *
19513473 GCTCACGAAGAGCCATATAA-CGGGAC
1 GCTCACAAAGAGCC-TATAATCGGGAA
19513499 GCTCA
1 GCTCA
19513504 TAAGAGGTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 23 0.85
27 4 0.15
ACGTcount: A:0.33, C:0.26, G:0.25, T:0.16
Consensus pattern (26 bp):
GCTCACAAAGAGCCTATAATCGGGAA
Found at i:19513980 original size:5 final size:5
Alignment explanation
Indices: 19513951--19513990 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
19513941 TAAATTTAAC
* *
19513951 TCAAT TTAAT ACAAT TCATAT TCAAT TCAAT TCAAT TCAA
1 TCAAT TCAAT TCAAT TCA-AT TCAAT TCAAT TCAAT TCAA
19513991 ATCTTAGGCA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 25 0.83
6 5 0.17
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.40
Consensus pattern (5 bp):
TCAAT
Found at i:19525262 original size:15 final size:17
Alignment explanation
Indices: 19525242--19525277 Score: 58
Period size: 15 Copynumber: 2.2 Consensus size: 17
19525232 TATTCTATTA
19525242 CTTTTTCA-TTTCT-TC
1 CTTTTTCATTTTCTCTC
19525257 CTTTTTCATTTTCTCTC
1 CTTTTTCATTTTCTCTC
19525274 CTTT
1 CTTT
19525278 ATGAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.42
16 5 0.26
17 6 0.32
ACGTcount: A:0.06, C:0.28, G:0.00, T:0.67
Consensus pattern (17 bp):
CTTTTTCATTTTCTCTC
Found at i:19525870 original size:17 final size:17
Alignment explanation
Indices: 19525839--19525886 Score: 80
Period size: 17 Copynumber: 2.9 Consensus size: 17
19525829 GAATTTAGAA
*
19525839 GAATTTT-TGAATTAGT
1 GAATTTTGTGATTTAGT
19525855 GAATTTTGTGATTTAGT
1 GAATTTTGTGATTTAGT
19525872 GAATTTTGTGATTTA
1 GAATTTTGTGATTTA
19525887 AAAAGAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
16 7 0.23
17 23 0.77
ACGTcount: A:0.27, C:0.00, G:0.21, T:0.52
Consensus pattern (17 bp):
GAATTTTGTGATTTAGT
Found at i:19527173 original size:45 final size:46
Alignment explanation
Indices: 19527105--19527289 Score: 291
Period size: 46 Copynumber: 4.0 Consensus size: 46
19527095 CTATGGAAAA
* *
19527105 TTGTGAAAATTAGGTATGATGTTTCAGTGAAGAAAGCCATACTGAG
1 TTGTGAAAAGTAGGTATGATGTTTCAGTGAAGAAAACCATACTGAG
* *
19527151 TTGTGAAAAGTA-GTATGGTGTTTCAATGAAGAAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGATGTTTCAGTGAAGAAAACCATACTGAG
*
19527196 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGATGTTTCAGTGAAGAAAACCATACTGAG
* * *
19527242 TTGTGAAAAGTAGGTACGATATTTCAGTGAAGGAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGATGTTTCAGTGAAGAAAACCATACTGAG
19527288 TT
1 TT
19527290 ATAGCATTGT
Statistics
Matches: 129, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
45 42 0.33
46 87 0.67
ACGTcount: A:0.36, C:0.09, G:0.26, T:0.29
Consensus pattern (46 bp):
TTGTGAAAAGTAGGTATGATGTTTCAGTGAAGAAAACCATACTGAG
Found at i:19531715 original size:48 final size:48
Alignment explanation
Indices: 19531642--19531837 Score: 248
Period size: 48 Copynumber: 4.1 Consensus size: 48
19531632 AGATTTCTCA
* * * * * ** * *
19531642 GTGGCCTACACATAGTCCATACCACCTTTGTGTAATAACAGACTCTCG
1 GTGGCCTACACACAGTCCGTGCCACCCTTGTATCTTAACAGAATATCG
* *
19531690 GTGGCCTACACAAAGTCCGTGCCACCCTTGTATCTTAACAGAATATTG
1 GTGGCCTACACACAGTCCGTGCCACCCTTGTATCTTAACAGAATATCG
* *
19531738 GTGGCCTGCACACAGTCCGTGCCACCCTTGTATCTTAACAGAATATTG
1 GTGGCCTACACACAGTCCGTGCCACCCTTGTATCTTAACAGAATATCG
* * *
19531786 GTGGCCTGCACACAGTCCGTGCCACCCTTATATCTTAACAGAATATTG
1 GTGGCCTACACACAGTCCGTGCCACCCTTGTATCTTAACAGAATATCG
19531834 GTGG
1 GTGG
19531838 TCTGCACTTA
Statistics
Matches: 135, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 135 1.00
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (48 bp):
GTGGCCTACACACAGTCCGTGCCACCCTTGTATCTTAACAGAATATCG
Found at i:19531843 original size:48 final size:48
Alignment explanation
Indices: 19531689--19531853 Score: 276
Period size: 48 Copynumber: 3.4 Consensus size: 48
19531679 ACAGACTCTC
* *
19531689 GGTGGCCTACACAAAGTCCGTGCCACCCTTGTATCTTAACAGAATATT
1 GGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCTTAACAGAATATT
19531737 GGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCTTAACAGAATATT
1 GGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCTTAACAGAATATT
*
19531785 GGTGGCCTGCACACAGTCCGTGCCACCCTTATATCTTAACAGAATATT
1 GGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCTTAACAGAATATT
* **
19531833 GGTGGTCTGCACTTAGTCCGT
1 GGTGGCCTGCACACAGTCCGT
19531854 ACTACACGTG
Statistics
Matches: 111, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 111 1.00
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (48 bp):
GGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCTTAACAGAATATT
Found at i:19540244 original size:6 final size:6
Alignment explanation
Indices: 19540233--19540276 Score: 88
Period size: 6 Copynumber: 7.3 Consensus size: 6
19540223 GTCGAAAAAT
19540233 AATCCC AATCCC AATCCC AATCCC AATCCC AATCCC AATCCC AA
1 AATCCC AATCCC AATCCC AATCCC AATCCC AATCCC AATCCC AA
19540277 ATGCAAATGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.36, C:0.48, G:0.00, T:0.16
Consensus pattern (6 bp):
AATCCC
Found at i:19540707 original size:21 final size:21
Alignment explanation
Indices: 19540682--19540749 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
19540672 GTCTAGACCG
19540682 TGTGATAAGGGTACAGGGCTA
1 TGTGATAAGGGTACAGGGCTA
** * *** *
19540703 TGTGATTGGGGCACAAACCCA
1 TGTGATAAGGGTACAGGGCTA
19540724 TGTGATAAGGGTACAGGGCTA
1 TGTGATAAGGGTACAGGGCTA
19540745 TGTGA
1 TGTGA
19540750 CTGGGGCACA
Statistics
Matches: 33, Mismatches: 14, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.28, C:0.13, G:0.35, T:0.24
Consensus pattern (21 bp):
TGTGATAAGGGTACAGGGCTA
Found at i:19540741 original size:42 final size:42
Alignment explanation
Indices: 19540682--19540770 Score: 160
Period size: 42 Copynumber: 2.1 Consensus size: 42
19540672 GTCTAGACCG
*
19540682 TGTGATAAGGGTACAGGGCTATGTGATTGGGGCACAAACCCA
1 TGTGATAAGGGTACAGGGCTATGTGACTGGGGCACAAACCCA
*
19540724 TGTGATAAGGGTACAGGGCTATGTGACTGGGGCACAAACCCG
1 TGTGATAAGGGTACAGGGCTATGTGACTGGGGCACAAACCCA
19540766 TGTGA
1 TGTGA
19540771 GTGAGGGACA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.27, C:0.17, G:0.35, T:0.21
Consensus pattern (42 bp):
TGTGATAAGGGTACAGGGCTATGTGACTGGGGCACAAACCCA
Found at i:19540790 original size:42 final size:42
Alignment explanation
Indices: 19540682--19540794 Score: 138
Period size: 42 Copynumber: 2.7 Consensus size: 42
19540672 GTCTAGACCG
* * *
19540682 TGTGATAAGGGTACAGGGCTATGTGATTGGGGCACAAACCCA
1 TGTGATAAGGGTACAGGACCATGTGACTGGGGCACAAACCCA
* * *
19540724 TGTGATAAGGGTACAGGGCTATGTGACTGGGGCACAAACCCG
1 TGTGATAAGGGTACAGGACCATGTGACTGGGGCACAAACCCA
* *
19540766 TGTGAGTGAGGG-ACATGACCATGTGACTG
1 TGTGA-TAAGGGTACAGGACCATGTGACTG
19540795 AGAGACAAGC
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
42 59 0.92
43 5 0.08
ACGTcount: A:0.27, C:0.17, G:0.35, T:0.21
Consensus pattern (42 bp):
TGTGATAAGGGTACAGGACCATGTGACTGGGGCACAAACCCA
Found at i:19540830 original size:21 final size:19
Alignment explanation
Indices: 19540763--19540832 Score: 50
Period size: 21 Copynumber: 3.4 Consensus size: 19
19540753 GGGCACAAAC
* *
19540763 CCGTGTGAGTGAGGGACATGA
1 CCGTGTGACTGA-GGACA-GG
* *
19540784 CCATGTGACTGAGAGACAAG
1 CCGTGTGACTGAG-GACAGG
19540804 CTCGTGTGACTGAGGTACACGG
1 C-CGTGTGACTGAGG-ACA-GG
19540826 CCGTGTG
1 CCGTGTG
19540833 GGTAGGCTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
20 3 0.08
21 34 0.87
22 2 0.05
ACGTcount: A:0.23, C:0.20, G:0.37, T:0.20
Consensus pattern (19 bp):
CCGTGTGACTGAGGACAGG
Found at i:19545508 original size:12 final size:12
Alignment explanation
Indices: 19545490--19545524 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
19545480 TTGAAGGCAT
19545490 CAAAACTCCATA
1 CAAAACTCCATA
* *
19545502 TAAAACTCCAAA
1 CAAAACTCCATA
19545514 CAAAACTCCAT
1 CAAAACTCCAT
19545525 TTCTAATCCC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.51, C:0.31, G:0.00, T:0.17
Consensus pattern (12 bp):
CAAAACTCCATA
Found at i:19548499 original size:14 final size:15
Alignment explanation
Indices: 19548477--19548511 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
19548467 ACAACTAAAA
*
19548477 CTTTGTTTTTC-TTT
1 CTTTTTTTTTCTTTT
19548491 CTTTTTTTTTCTTTT
1 CTTTTTTTTTCTTTT
19548506 CTTTTT
1 CTTTTT
19548512 AAAACAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.00, C:0.14, G:0.03, T:0.83
Consensus pattern (15 bp):
CTTTTTTTTTCTTTT
Found at i:19556062 original size:46 final size:46
Alignment explanation
Indices: 19555930--19556097 Score: 142
Period size: 46 Copynumber: 3.7 Consensus size: 46
19555920 TTCATATTCA
* * * *
19555930 TGTATTCTCGAGTTCACAACATATGAAGGAACTCGGAACCTAATCC
1 TGTATTCTCGAGTTCACAACATATGCAGGAACTTGAAACCTAATCT
* * * * * * *
19555976 CGTACTCTTGAGTCCACAACATATGCAAGAGC-TCAGAACCTAATCT
1 TGTATTCTCGAGTTCACAACATATGCAGGAACTTGA-AACCTAATCT
* * *
19556022 TGTATTCTCGAG-TCTGCAACATATGCAGGATCTTGAAACCTATTCT
1 TGTATTCTCGAGTTC-ACAACATATGCAGGAACTTGAAACCTAATCT
* * * *
19556068 TGTATTCTTGGGTTCGCAACATATGTAGGA
1 TGTATTCTCGAGTTCACAACATATGCAGGA
19556098 GCTCAGAACC
Statistics
Matches: 95, Mismatches: 23, Indels: 8
0.75 0.18 0.06
Matches are distributed among these distances:
45 1 0.01
46 90 0.95
47 4 0.04
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (46 bp):
TGTATTCTCGAGTTCACAACATATGCAGGAACTTGAAACCTAATCT
Found at i:19556088 original size:92 final size:92
Alignment explanation
Indices: 19555930--19556107 Score: 214
Period size: 92 Copynumber: 1.9 Consensus size: 92
19555920 TTCATATTCA
*
19555930 TGTATTCTCGAGTTCACAACATATGAAGGAACTCGGAACCTAATCCCGTACTCTTGAGTCCACAA
1 TGTATTCTCGAGTTCACAACATATGAAGGAACTCGAAACCTAATCCCGTACTCTTGAGTCCACAA
19555995 CATATGCAAGAGCTCAGAACCTAATCT
66 CATATGCAAGAGCTCAGAACCTAATCT
* * * * * ** * * * *
19556022 TGTATTCTCGAG-TCTGCAACATATGCAGGATCTTGAAACCTATTCTTGTATTCTTGGGTTCGCA
1 TGTATTCTCGAGTTC-ACAACATATGAAGGAACTCGAAACCTAATCCCGTACTCTTGAGTCCACA
* *
19556086 ACATATGTAGGAGCTCAGAACC
65 ACATATGCAAGAGCTCAGAACC
19556108 AGGGCAAACT
Statistics
Matches: 71, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
91 2 0.03
92 69 0.97
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (92 bp):
TGTATTCTCGAGTTCACAACATATGAAGGAACTCGAAACCTAATCCCGTACTCTTGAGTCCACAA
CATATGCAAGAGCTCAGAACCTAATCT
Found at i:19560414 original size:9 final size:9
Alignment explanation
Indices: 19560400--19560430 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
19560390 GTTAAACGAA
19560400 TCGAGTTAT
1 TCGAGTTAT
*
19560409 TCGAGTTAA
1 TCGAGTTAT
19560418 TCGAGTTAT
1 TCGAGTTAT
19560427 TCGA
1 TCGA
19560431 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:19560594 original size:30 final size:31
Alignment explanation
Indices: 19560560--19560620 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
19560550 AAACCTTTTT
* *
19560560 ACTTTTCCCTCAAAACTTTTACT-CCTTCCC
1 ACTTTCCCCCCAAAACTTTTACTCCCTTCCC
19560590 ACTTTCCCCCCAAAACTTTTACTCCCTTCCC
1 ACTTTCCCCCCAAAACTTTTACTCCCTTCCC
19560621 CTCCCAACCC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 21 0.75
31 7 0.25
ACGTcount: A:0.20, C:0.44, G:0.00, T:0.36
Consensus pattern (31 bp):
ACTTTCCCCCCAAAACTTTTACTCCCTTCCC
Found at i:19570014 original size:28 final size:27
Alignment explanation
Indices: 19569983--19570037 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
19569973 AAAAATAATT
*
19569983 AAAATTCAA-TATGTTAATAATTTAAGTG
1 AAAATT-AATTAT-TTAATAATTAAAGTG
*
19570011 AAAATTAATTATTTTATAATTAAAGTG
1 AAAATTAATTATTTAATAATTAAAGTG
19570038 TGAATTTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 15 0.62
28 9 0.38
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (27 bp):
AAAATTAATTATTTAATAATTAAAGTG
Found at i:19571441 original size:19 final size:19
Alignment explanation
Indices: 19571417--19571455 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
19571407 ACAATATTTC
19571417 CCAAGGTGATACACTCGGT
1 CCAAGGTGATACACTCGGT
19571436 CCAAGGTGATACACTCGGT
1 CCAAGGTGATACACTCGGT
19571455 C
1 C
19571456 TATTGGTACC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.21
Consensus pattern (19 bp):
CCAAGGTGATACACTCGGT
Found at i:19573219 original size:16 final size:17
Alignment explanation
Indices: 19573188--19573220 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
19573178 GCAGATAAAA
*
19573188 TTTCATATACTTTCACC
1 TTTCACATACTTTCACC
19573205 TTTCACATA-TTTCACC
1 TTTCACATACTTTCACC
19573221 CCATGCATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.24, C:0.30, G:0.00, T:0.45
Consensus pattern (17 bp):
TTTCACATACTTTCACC
Found at i:19573612 original size:4 final size:4
Alignment explanation
Indices: 19573603--19573636 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
19573593 AAAAGAAAAG
*
19573603 GAAA GAAA GAAA GAAA GAAA GAAA -AGA GAAA GAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAA
19573637 GAATGCACAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
3 2 0.07
4 25 0.93
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:19574768 original size:18 final size:18
Alignment explanation
Indices: 19574745--19574792 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
19574735 ATGGCAAAGT
* *
19574745 TGAGAAATGAATATGAGA
1 TGAGAAATGAATATAAAA
19574763 TGAGAAATGAAATATAAAA
1 TGAGAAATG-AATATAAAA
19574782 TGATGAAATGA
1 TGA-GAAATGA
19574793 GATGTGAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 9 0.35
19 11 0.42
20 6 0.23
ACGTcount: A:0.54, C:0.00, G:0.23, T:0.23
Consensus pattern (18 bp):
TGAGAAATGAATATAAAA
Found at i:19584305 original size:50 final size:48
Alignment explanation
Indices: 19584251--19584388 Score: 125
Period size: 48 Copynumber: 2.8 Consensus size: 48
19584241 TGTAAGTATG
* * * *
19584251 TGGCAGTTTATTTGCAAATAAATTGTGGTTTGTCCACAAAGTGTTATCAA
1 TGGCAGTTTATCTGC--ATAAATGGTGGCTTGTCCACAAAGTGCTATCAA
* * ** *
19584301 TGGCAATATATCTGCATATGTGGTGGCTTGTCCACAAAGTGCTATCAG
1 TGGCAGTTTATCTGCATAAATGGTGGCTTGTCCACAAAGTGCTATCAA
* *
19584349 TGGCAGTTTATCTACA-AATCAGTGGTGGCTTGTCTACAAA
1 TGGCAGTTTATCTGCATAA--A-TGGTGGCTTGTCCACAAA
19584389 TGGAGTTTCG
Statistics
Matches: 70, Mismatches: 15, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
47 1 0.01
48 40 0.57
50 29 0.41
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (48 bp):
TGGCAGTTTATCTGCATAAATGGTGGCTTGTCCACAAAGTGCTATCAA
Found at i:19584333 original size:48 final size:49
Alignment explanation
Indices: 19584275--19584388 Score: 140
Period size: 48 Copynumber: 2.3 Consensus size: 49
19584265 CAAATAAATT
* * * *
19584275 GTGGTTTGTCCACAAAGTGTTATCAATGGCAATATATCTGCATAT-GTG
1 GTGGCTTGTCCACAAAGTGCTATCAATGGCAATATATCTACAAATAGTG
* * *
19584323 GTGGCTTGTCCACAAAGTGCTATCAGTGGCAGTTTATCTACAAATCAGTG
1 GTGGCTTGTCCACAAAGTGCTATCAATGGCAATATATCTACAAAT-AGTG
*
19584373 GTGGCTTGTCTACAAA
1 GTGGCTTGTCCACAAA
19584389 TGGAGTTTCG
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
48 38 0.68
50 18 0.32
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (49 bp):
GTGGCTTGTCCACAAAGTGCTATCAATGGCAATATATCTACAAATAGTG
Found at i:19593524 original size:9 final size:10
Alignment explanation
Indices: 19593501--19593526 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
19593491 CCATAATTAT
19593501 TTTTTTACAA
1 TTTTTTACAA
19593511 TTTTTTACAA
1 TTTTTTACAA
19593521 TTTTTT
1 TTTTTT
19593527 CAAAGTCAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTTTTACAA
Found at i:19593870 original size:23 final size:22
Alignment explanation
Indices: 19593827--19593870 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
19593817 TTCTAAGTCG
19593827 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
19593850 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
19593871 TTAGTAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:19594032 original size:51 final size:49
Alignment explanation
Indices: 19593969--19594155 Score: 205
Period size: 51 Copynumber: 3.7 Consensus size: 49
19593959 TCGGTTCACA
* * *
19593969 TAGTAGCTTGCACATAGTACTACACATGTGACCATTACCATCCGATACATG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATCCG-TACACG
* * * *
19594020 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTATCCCGTACACA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCAT-CCGTACACG
* * * * *
19594071 TAGTAGCCTGTACATAGTACTACATATGCGACC-TATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TCC-GTACACG
19594121 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
19594156 CATTTTCACT
Statistics
Matches: 111, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
49 4 0.04
50 37 0.33
51 65 0.59
52 5 0.05
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATACCATCCGTACACG
Found at i:19594143 original size:101 final size:101
Alignment explanation
Indices: 19593965--19594151 Score: 286
Period size: 101 Copynumber: 1.8 Consensus size: 101
19593955 ATGTTCGGTT
* * *
19593965 CACATAGTAGCTTGCACATAGTACTACACATGTGACCATTACCATCCGATACATGTAGTAGCCTG
1 CACATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATCCGATACACGTAGTAGCCTG
19594030 CACATAGTACTACACACGTGATCGAAACTATCCCGTA
65 CACATAGTACTACACACGTGATCGAAACTATCCCGTA
* * * *
19594067 CACATAGTAGCCTGTACATAGTACTACATATGCGACC-TATCATTCCGGTACACGTAGTAGCCTG
1 CACATAGTAGCCTGCACATAGTACTACACATGCGACCATACCA-TCCGATACACGTAGTAGCCTG
19594131 CACATAGTACTACACACGTGA
65 CACATAGTACTACACACGTGA
19594152 CCATCATTTT
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
100 4 0.05
101 40 0.52
102 33 0.43
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.25
Consensus pattern (101 bp):
CACATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCCGATACACGTAGTAGCCTGC
ACATAGTACTACACACGTGATCGAAACTATCCCGTA
Found at i:19596161 original size:23 final size:24
Alignment explanation
Indices: 19596126--19596171 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
19596116 AATTTGAATC
*
19596126 ATTTGACATTAAACAGAAATATTT
1 ATTTGACATTAAACAAAAATATTT
*
19596150 ATTTGA-ATTAAATAAAAATATT
1 ATTTGACATTAAACAAAAATATT
19596172 CAAATACACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.50, C:0.04, G:0.07, T:0.39
Consensus pattern (24 bp):
ATTTGACATTAAACAAAAATATTT
Found at i:19606510 original size:33 final size:33
Alignment explanation
Indices: 19606446--19606512 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
19606436 AAGTAGAGAG
* *
19606446 ACTAAATTCTTGAAAATAAAAGTATAGGGACTA
1 ACTAAATTCTTGAAAATAAAAATACAGGGACTA
* *
19606479 ACTAAATT-TTTAAAAGTAAAAATACATGGACTA
1 ACTAAATTCTTGAAAA-TAAAAATACAGGGACTA
19606512 A
1 A
19606513 ATTCTAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 6 0.21
33 23 0.79
ACGTcount: A:0.51, C:0.09, G:0.12, T:0.28
Consensus pattern (33 bp):
ACTAAATTCTTGAAAATAAAAATACAGGGACTA
Found at i:19606787 original size:14 final size:14
Alignment explanation
Indices: 19606749--19606787 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
19606739 AATAATTTAT
19606749 TATATGATTAAATA
1 TATATGATTAAATA
* *
19606763 TAAATAATTAAATA
1 TATATGATTAAATA
*
19606777 TATATGTTTAA
1 TATATGATTAA
19606788 TAATATTTAA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (14 bp):
TATATGATTAAATA
Found at i:19606828 original size:28 final size:28
Alignment explanation
Indices: 19606760--19606828 Score: 69
Period size: 28 Copynumber: 2.6 Consensus size: 28
19606750 ATATGATTAA
*
19606760 ATATAAATA-ATTAAA-TATATATGTTT
1 ATATTAATATATTAAATTATATATGTTT
19606786 A-A-TAATAT-TTAAAATTATAATAT-TTT
1 ATATTAATATATT-AAATTAT-ATATGTTT
19606812 ATATTAATATATTAAAT
1 ATATTAATATATTAAAT
19606829 ATTTAAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
24 6 0.17
25 4 0.11
26 8 0.23
27 5 0.14
28 10 0.29
29 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (28 bp):
ATATTAATATATTAAATTATATATGTTT
Found at i:19609530 original size:43 final size:43
Alignment explanation
Indices: 19609482--19609706 Score: 290
Period size: 43 Copynumber: 5.3 Consensus size: 43
19609472 TTACTTTTGT
*
19609482 AAACGCCACTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCCAC
1 AAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTTTTTCCAC
* * ** * *
19609525 AAACGCCATTAAAGATCATGTTCTTTAGCGACGCTCCTTGCTC
1 AAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTTTTTCCAC
* * * **
19609568 AAACGCCGCTAAAGATCATGTCCTTTAGTGGCGCTCCTTCCAC
1 AAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTTTTTCCAC
*
19609611 AAACGCCTCTAAAGATCATGTTCTTTAGCGGCGCTTTTTCCAC
1 AAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTTTTTCCAC
* * * *
19609654 AAACGCCGCTAAAGATCATGTTCTTTAGTGGAGC-TTTTACAC
1 AAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTTTTTCCAC
19609696 AAACGCCACTA
1 AAACGCCACTA
19609707 TTTTGTTTGT
Statistics
Matches: 158, Mismatches: 24, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
42 17 0.11
43 141 0.89
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (43 bp):
AAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTTTTTCCAC
Found at i:19610073 original size:21 final size:21
Alignment explanation
Indices: 19610047--19610095 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
19610037 TTTGCTCTGC
*
19610047 TCTGCTTCCCTCGCTG-CAGCA
1 TCTGCTTCCCTCGATGCCA-CA
*
19610068 TCTGCTTCTCTCGATGCCACA
1 TCTGCTTCCCTCGATGCCACA
19610089 TCTGCTT
1 TCTGCTT
19610096 TAAGTTGTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 23 0.92
22 2 0.08
ACGTcount: A:0.10, C:0.39, G:0.16, T:0.35
Consensus pattern (21 bp):
TCTGCTTCCCTCGATGCCACA
Found at i:19610180 original size:87 final size:87
Alignment explanation
Indices: 19610061--19610222 Score: 245
Period size: 87 Copynumber: 1.9 Consensus size: 87
19610051 CTTCCCTCGC
*
19610061 TGCAGCATCTGCTTCTCTCGATGCCACATCTGCTTTAAGTTGTACCTGGAGTTCTTCATATTTCT
1 TGCAGCATCTGCTTCTCTCGATGCCACATCTGCTTTAAGTTGTACCTGGAGTTCTTCATATTTCC
19610126 TTTGAACCTCTACTTCTTTCGT
66 TTTGAACCTCTACTTCTTTCGT
* * * * **
19610148 TGCAGCCTCTGCTTC-CGTCGCTGCCGCCTCTGCTTTAAGTTGTAGTTGGAGTTCTTCATATTTC
1 TGCAGCATCTGCTTCTC-TCGATGCCACATCTGCTTTAAGTTGTACCTGGAGTTCTTCATATTTC
19610212 CTTTGAACCTC
65 CTTTGAACCTC
19610223 AACTGTGGTC
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
86 1 0.01
87 66 0.99
ACGTcount: A:0.14, C:0.28, G:0.17, T:0.41
Consensus pattern (87 bp):
TGCAGCATCTGCTTCTCTCGATGCCACATCTGCTTTAAGTTGTACCTGGAGTTCTTCATATTTCC
TTTGAACCTCTACTTCTTTCGT
Found at i:19612021 original size:19 final size:19
Alignment explanation
Indices: 19611985--19612022 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
19611975 GGAAAGGGCA
* *
19611985 AAGTTATGTATTATGAAAT
1 AAGTTATGTAATACGAAAT
19612004 AAGTTATGTAATACGAAAT
1 AAGTTATGTAATACGAAAT
19612023 TTTATCTTAA
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:0.45, C:0.03, G:0.16, T:0.37
Consensus pattern (19 bp):
AAGTTATGTAATACGAAAT
Found at i:19612049 original size:20 final size:20
Alignment explanation
Indices: 19612024--19612067 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
19612014 ATACGAAATT
19612024 TTATCTTAATATTATATAAC
1 TTATCTTAATATTATATAAC
*
19612044 TTATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAC
19612064 TTAT
1 TTAT
19612068 GTAATTAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (20 bp):
TTATCTTAATATTATATAAC
Found at i:19612085 original size:37 final size:37
Alignment explanation
Indices: 19612044--19612137 Score: 153
Period size: 32 Copynumber: 2.7 Consensus size: 37
19612034 ATTATATAAC
19612044 TTATCTTAATATTATATAAGTTATGTAATTAGAAATT
1 TTATCTTAATATTATATAAGTTATGTAATTAGAAATT
19612081 TTATCTTAATA-T-TAT---TTATGTAATTAGAAATT
1 TTATCTTAATATTATATAAGTTATGTAATTAGAAATT
19612113 TTATCTTAATATTATATAAGTTATG
1 TTATCTTAATATTATATAAGTTATG
19612138 AAGTATCCTG
Statistics
Matches: 52, Mismatches: 0, Indels: 10
0.84 0.00 0.16
Matches are distributed among these distances:
32 28 0.54
33 1 0.02
34 3 0.06
35 3 0.06
36 1 0.02
37 16 0.31
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.51
Consensus pattern (37 bp):
TTATCTTAATATTATATAAGTTATGTAATTAGAAATT
Found at i:19612474 original size:30 final size:30
Alignment explanation
Indices: 19612429--19612517 Score: 81
Period size: 30 Copynumber: 3.0 Consensus size: 30
19612419 ATGTTTAACT
* *
19612429 AAATTTTTGTAAGTTATCTAAAATTAAACA
1 AAATTGTTGAAAGTTATCTAAAATTAAACA
* ** * *
19612459 AAATATGTT-AAAGTTATGTAAGTTTTAACT
1 AAAT-TGTTGAAAGTTATCTAAAATTAAACA
* *
19612489 AAATTTTTGTAAGTTATCTAAAATTAAAC
1 AAATTGTTGAAAGTTATCTAAAATTAAAC
19612518 TTAAAAATAA
Statistics
Matches: 44, Mismatches: 13, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
29 3 0.07
30 38 0.86
31 3 0.07
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.42
Consensus pattern (30 bp):
AAATTGTTGAAAGTTATCTAAAATTAAACA
Found at i:19616229 original size:14 final size:15
Alignment explanation
Indices: 19616212--19616240 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
19616202 TCTATAACCC
19616212 TAAACCCTAA-GTCT
1 TAAACCCTAACGTCT
19616226 TAAACCCTAACGTCT
1 TAAACCCTAACGTCT
19616241 AACCTCTAAA
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:0.34, C:0.31, G:0.07, T:0.28
Consensus pattern (15 bp):
TAAACCCTAACGTCT
Found at i:19617197 original size:114 final size:111
Alignment explanation
Indices: 19616881--19617212 Score: 400
Period size: 114 Copynumber: 2.9 Consensus size: 111
19616871 ACGGCCGGAT
* *
19616881 CATTAGCGGCGCTTTTCACAAAACGCCGCTAAAGGCCCAAAAACAT-AGAAAACGGCGTTGTTGG
1 CATTAGCGGCGCTTTTCA-AAAACGCCGCTAAAGGCCAAAAAAC-TCAGAAAACGGCGTCGTTGG
* * *
19616945 CCTTAGGTTTTTTTGCGGCGCTTTTCAGAAAACGCCACTAAAGACAAGAG
64 CCTTAGG-TTTTTTGCGGCGCTTTTTAGAAATCGCCGCT-AAGACAAGAG
* *
19616995 CATTAGCGTCGCTTTTCAAAAAACGCCGC-AACAGG-GACAAAAACTCAGAAAACGGCGTCGTTG
1 CATTAGCGGCGCTTTTC-AAAAACGCCGCTAA-AGGCCA-AAAAACTCAGAAAACGGCGTCGTTG
* * **
19617058 GCTTTAGGTTTTTTGCGGCGCTTTTTAGAAATCGCCGCTAAGTCCCCCGAG
63 GCCTTAGGTTTTTTGCGGCGCTTTTTAGAAATCGCCGCTAAG--ACAAGAG
* * *
19617109 CATTAGCGGCGTTTTTCTAAAAACGCCGCTAGAGGCCAAAAAACTCAGAAAATGGCGTCGTTGGC
1 CATTAGCGGCGCTTTTC-AAAAACGCCGCTAAAGGCCAAAAAACTCAGAAAACGGCGTCGTTGGC
* * *
19617174 CTTATGTTTTTTGCGACGCTTTTTATAAATCGCCGCTAA
65 CTTAGGTTTTTTGCGGCGCTTTTTAGAAATCGCCGCTAA
19617213 TGCTTATTAT
Statistics
Matches: 189, Mismatches: 21, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
112 3 0.02
113 31 0.16
114 152 0.80
115 3 0.02
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.26
Consensus pattern (111 bp):
CATTAGCGGCGCTTTTCAAAAACGCCGCTAAAGGCCAAAAAACTCAGAAAACGGCGTCGTTGGCC
TTAGGTTTTTTGCGGCGCTTTTTAGAAATCGCCGCTAAGACAAGAG
Found at i:19617247 original size:39 final size:40
Alignment explanation
Indices: 19617199--19617293 Score: 106
Period size: 40 Copynumber: 2.4 Consensus size: 40
19617189 ACGCTTTTTA
*
19617199 TAAAT-CGCCGCTAATGCT-TAT-TATTAGCGGCGTTTTCC
1 TAAATGCGCCGCTAATGCTCGATCT-TTAGCGGCGTTTTCC
* **
19617237 TAAATGCGCCGCTAATTCTCGATCTTTAGCGGCGTTTTTG
1 TAAATGCGCCGCTAATGCTCGATCTTTAGCGGCGTTTTCC
* *
19617277 TAGATGCGCTGCTAATG
1 TAAATGCGCCGCTAATG
19617294 TTCAAATTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
38 5 0.11
39 12 0.26
40 29 0.62
41 1 0.02
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (40 bp):
TAAATGCGCCGCTAATGCTCGATCTTTAGCGGCGTTTTCC
Found at i:19620225 original size:29 final size:29
Alignment explanation
Indices: 19620192--19620268 Score: 129
Period size: 29 Copynumber: 2.7 Consensus size: 29
19620182 TATATATATT
19620192 ATTCGGTCCATCCCCATTTCTCTTTAAAC
1 ATTCGGTCCATCCCCATTTCTCTTTAAAC
19620221 ATTCGGTCCATCCCCATTTCTCTTTAAAC
1 ATTCGGTCCATCCCCATTTCTCTTTAAAC
*
19620250 ATTCTGAT-CATCCCCATTT
1 ATTC-GGTCCATCCCCATTT
19620269 ATATATATTA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
29 44 0.96
30 2 0.04
ACGTcount: A:0.21, C:0.34, G:0.06, T:0.39
Consensus pattern (29 bp):
ATTCGGTCCATCCCCATTTCTCTTTAAAC
Found at i:19626562 original size:41 final size:40
Alignment explanation
Indices: 19626506--19626633 Score: 211
Period size: 41 Copynumber: 3.1 Consensus size: 40
19626496 AGACAAATTA
*
19626506 AAAGCCTGAGCATTAGCGGCTCTTTTTCAAAAACGCCGCT
1 AAAGCCTGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCT
*
19626546 AAAGCCTTGAGCATTAGCGGCGCTTTTTCAAAAACACCGCT
1 AAAGCC-TGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCT
*
19626587 AAAAGCCTGAGAATTAGCGGCGCTTTTTCAAAAACGCCGCT
1 -AAAGCCTGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCT
19626628 AAAGCC
1 AAAGCC
19626634 CCAAAAGGTC
Statistics
Matches: 82, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
40 12 0.15
41 64 0.78
42 6 0.07
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (40 bp):
AAAGCCTGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCT
Found at i:19629719 original size:16 final size:16
Alignment explanation
Indices: 19629698--19629729 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
19629688 GAGTTTATTT
19629698 TAGCATAATTTAACTA
1 TAGCATAATTTAACTA
19629714 TAGCATAATTTAACTA
1 TAGCATAATTTAACTA
19629730 GCCTGGGGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (16 bp):
TAGCATAATTTAACTA
Found at i:19644147 original size:15 final size:16
Alignment explanation
Indices: 19644127--19644160 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
19644117 AAGAGAGAAA
19644127 ATGTGTGT-GTGAGAG
1 ATGTGTGTGGTGAGAG
*
19644142 ATGTGTGTGGTGAGGG
1 ATGTGTGTGGTGAGAG
19644158 ATG
1 ATG
19644161 ACTTTTGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.18, C:0.00, G:0.50, T:0.32
Consensus pattern (16 bp):
ATGTGTGTGGTGAGAG
Found at i:19647938 original size:27 final size:27
Alignment explanation
Indices: 19647821--19647947 Score: 112
Period size: 27 Copynumber: 4.7 Consensus size: 27
19647811 CACGACAGTG
*
19647821 AAGAATAGCCTTTGTGGCAAATTATGA
1 AAGAATAGCCTTTGTGGCAAACTATGA
* ** *
19647848 AAGAATAACCTTTGTGGTGAACTCTGA
1 AAGAATAGCCTTTGTGGCAAACTATGA
* * *
19647875 AAGAATAACCTTAGTGGCAAACTCTGA
1 AAGAATAGCCTTTGTGGCAAACTATGA
* *
19647902 AAGGGAT-GCCTTTGTGGCAAATTATGA
1 AA-GAATAGCCTTTGTGGCAAACTATGA
* * * *
19647929 ATGGATTGCCTTAGTGGCA
1 AAGAATAGCCTTTGTGGCA
19647948 TACTCTATCT
Statistics
Matches: 83, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
26 4 0.05
27 76 0.92
28 3 0.04
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.28
Consensus pattern (27 bp):
AAGAATAGCCTTTGTGGCAAACTATGA
Found at i:19653666 original size:3 final size:3
Alignment explanation
Indices: 19653658--19653695 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
19653648 ATCTTCTCTA
*
19653658 TTC TTC TTC TTC TTC TTC TT- TATC TTC ATC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC T-TC TTC TTC TTC TTC TT
19653696 TAGTTATTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 1 0.03
3 29 0.94
4 1 0.03
ACGTcount: A:0.05, C:0.29, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:19653683 original size:18 final size:18
Alignment explanation
Indices: 19653662--19653697 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
19653652 TCTCTATTCT
*
19653662 TCTTCTTCTTCTTCTTTA
1 TCTTCATCTTCTTCTTTA
19653680 TCTTCATCTTCTTCTTTA
1 TCTTCATCTTCTTCTTTA
19653698 GTTATTAGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.08, C:0.28, G:0.00, T:0.64
Consensus pattern (18 bp):
TCTTCATCTTCTTCTTTA
Found at i:19657784 original size:28 final size:26
Alignment explanation
Indices: 19657730--19657784 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 26
19657720 AAACTCTTCT
* *
19657730 AAAAGAAAACTTAAGAGAAATTCTTA
1 AAAAGAAAACTAAAGAGAAATTATTA
*
19657756 AAAAGAAAAACTCAAAGAGAATTTATTA
1 AAAAG-AAAACT-AAAGAGAAATTATTA
19657784 A
1 A
19657785 CTTAAAAGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 5 0.21
27 6 0.25
28 13 0.54
ACGTcount: A:0.60, C:0.07, G:0.11, T:0.22
Consensus pattern (26 bp):
AAAAGAAAACTAAAGAGAAATTATTA
Found at i:19663448 original size:433 final size:434
Alignment explanation
Indices: 19662739--19663608 Score: 1311
Period size: 433 Copynumber: 2.0 Consensus size: 434
19662729 TCAAGCTTTT
* * *
19662739 ACTTATGTAACATCCAAAAATATCAGGGGTTAGTAGAATCGGGTTTGTGAATCAAGAGAGAGTGG
1 ACTTATGTAACATCCAAAAATATCAGGGGTCAGTAGAATCAGGTTTGTGAATCAAGAAAGAGTGG
* * * *
19662804 TCATGCCTTAATTTTTTAGATTATTTATGGATTTTTAGGAAATAAATGAGGTTGGTTTGTTGGTT
66 TCATGCCTTAATTTTTTAGATTATCTATGCATTTTTAAGAAATAAAAGAGGTTGGTTTGTTGGTT
* * * *
19662869 AAGTATTAGTAAAATGTTTCTTGAAACCCAAGTTCAAATCCCTTGTCTCGCGTCATTTTTATTAT
131 AAGTATTAGTAAAACGTTTCTTAAAACCCAAGTTCAAATCCCTTCTCTCGCATCATTTTTATTAT
* * * *
19662934 TTTGAAAATTTTTCCTTAAAGCCTAGTATGTGACATGCCTTATTTTTAAAATAAATATTGCAAAA
196 TTTGAAAATTTTTCCTTAAACCCTAGTATGTGACATGCATTATCTTTAAAATAAATATTGAAAAA
19662999 TTATTTCAAGAATGAGGAAAAAGCATAATGGTTAAAAGAAATATGAGAAAGCATGGAAATTAAAT
261 TTATTTCAAGAATGAGGAAAAAGCATAATGGTTAAAAGAAATATGAGAAAGCATGGAAATTAAAT
* **
19663064 GAGGTCCCAAGTATGAATCCTTTCCTTTGTGAAATAATTAAATTTTGCAAAATCCC-TTG-TTTT
326 GAGGTCCCAAGTATGAATCCTTTCCCTTGCAAAATAATTAAATTTTGCAAAA-CCCTTTGTTTTT
*
19663127 TAATTTGTGTGTCATCCATACCCTTGAAACCTAAGTATAAATACA
390 TAATATGTGTGTCATCCATACCCTTGAAACCTAAGTATAAATACA
* * *
19663172 ACTT-TGTAACATTCCAAAAAT-T-GGGGGTCAGTAGAATCAGGTTTGTGAATCGAGAAAGAGTT
1 ACTTATGTAACA-TCCAAAAATATCAGGGGTCAGTAGAATCAGGTTTGTGAATCAAGAAAGAGTG
* *
19663234 GTCATGCGTTAATTTTTTAGATTATCTATGCATTTTTAAGAAATAAAAGAGGTATTGGTTTTTTG
65 GTCATGCCTTAATTTTTTAGATTATCTATGCATTTTTAAGAAATAAAAGAGG--TTGGTTTGTTG
* * *
19663299 GTTAAGTGTTAGTGAAACGTTTCTTAAAACCCAAGTTCAAATCCCTTCTCTCGCATGATTTTTAT
128 GTTAAGTATTAGTAAAACGTTTCTTAAAACCCAAGTTCAAATCCCTTCTCTCGCATCATTTTTAT
* *
19663364 TATTTTGCAAATTTTGT-CTTAAACCCTAGTATGTGACATGTATTATCTTTAAAATAAATATTGA
193 TATTTTGAAAATTTT-TCCTTAAACCCTAGTATGTGACATGCATTATCTTTAAAATAAATATTGA
* * *
19663428 AAAATTATTTCAAGAATGAGGAAAAATCCTAATGGTTAAAAGAAATATGAGAAAGTATGGAAATT
257 AAAATTATTTCAAGAATGAGGAAAAAGCATAATGGTTAAAAGAAATATGAGAAAGCATGGAAATT
* *
19663493 AAATGAGGTCCCAAGTTTGAATCTTTTCCCTTGCAAAATAATTAAATTTTGCAAAACCCTTTTGT
322 AAATGAGGTCCCAAGTATGAATCCTTTCCCTTGCAAAATAATTAAATTTTGCAAAACCC-TTTG-
* *
19663558 TTTTTTAATATGTGTGTCATCCATACTCTTGAACCCTAAGTATAAATACA
385 TTTTTTAATATGTGTGTCATCCATACCCTTGAAACCTAAGTATAAATACA
19663608 A
1 A
19663609 ATTTTTATTT
Statistics
Matches: 393, Mismatches: 36, Indels: 13
0.89 0.08 0.03
Matches are distributed among these distances:
431 81 0.21
432 11 0.03
433 250 0.64
434 4 0.01
436 47 0.12
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.37
Consensus pattern (434 bp):
ACTTATGTAACATCCAAAAATATCAGGGGTCAGTAGAATCAGGTTTGTGAATCAAGAAAGAGTGG
TCATGCCTTAATTTTTTAGATTATCTATGCATTTTTAAGAAATAAAAGAGGTTGGTTTGTTGGTT
AAGTATTAGTAAAACGTTTCTTAAAACCCAAGTTCAAATCCCTTCTCTCGCATCATTTTTATTAT
TTTGAAAATTTTTCCTTAAACCCTAGTATGTGACATGCATTATCTTTAAAATAAATATTGAAAAA
TTATTTCAAGAATGAGGAAAAAGCATAATGGTTAAAAGAAATATGAGAAAGCATGGAAATTAAAT
GAGGTCCCAAGTATGAATCCTTTCCCTTGCAAAATAATTAAATTTTGCAAAACCCTTTGTTTTTT
AATATGTGTGTCATCCATACCCTTGAAACCTAAGTATAAATACA
Found at i:19665548 original size:19 final size:19
Alignment explanation
Indices: 19665513--19665550 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
19665503 TTGTATTGAA
*
19665513 TGTTATCGAAATTAATGAT
1 TGTTATCGAAATGAATGAT
19665532 TGTTACTCG-AATGAATGAT
1 TGTTA-TCGAAATGAATGAT
19665551 GGCCTATGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.39
Consensus pattern (19 bp):
TGTTATCGAAATGAATGAT
Found at i:19668554 original size:77 final size:77
Alignment explanation
Indices: 19668427--19668588 Score: 279
Period size: 77 Copynumber: 2.1 Consensus size: 77
19668417 CTATTCGACT
* *
19668427 CACACTGAGCTTTCATAAGCTCACCCCTAATAGTGTTTAACTTTTCAAGTAAACCTCAAAACTAG
1 CACACTGAGCTTTCATAAGCTCACCCCCAATAGTGTTTAACTTTTCAAGTAAACCTAAAAACTAG
*
19668492 GACTAGACCCAC
66 GACCAGACCCAC
*
19668504 CACACTGAGCTTTCATGAGCTCACCCCCAATAGTGTTTAACTTTTCAAGTAAACCTAAAAACTAG
1 CACACTGAGCTTTCATAAGCTCACCCCCAATAGTGTTTAACTTTTCAAGTAAACCTAAAAACTAG
*
19668569 GACCAGACCCAG
66 GACCAGACCCAC
19668581 CACACTGA
1 CACACTGA
19668589 AAATCTCCTT
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
77 80 1.00
ACGTcount: A:0.34, C:0.29, G:0.13, T:0.24
Consensus pattern (77 bp):
CACACTGAGCTTTCATAAGCTCACCCCCAATAGTGTTTAACTTTTCAAGTAAACCTAAAAACTAG
GACCAGACCCAC
Found at i:19670632 original size:44 final size:44
Alignment explanation
Indices: 19670577--19670674 Score: 187
Period size: 44 Copynumber: 2.2 Consensus size: 44
19670567 AATTTTTTTT
*
19670577 GCTTAAGCCAATTTTTCATATGAACATTTGGGCTTGAGTAGGTA
1 GCTTAACCCAATTTTTCATATGAACATTTGGGCTTGAGTAGGTA
19670621 GCTTAACCCAATTTTTCATATGAACATTTGGGCTTGAGTAGGTA
1 GCTTAACCCAATTTTTCATATGAACATTTGGGCTTGAGTAGGTA
19670665 GCTTAACCCA
1 GCTTAACCCA
19670675 TATAGAAATC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 53 1.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (44 bp):
GCTTAACCCAATTTTTCATATGAACATTTGGGCTTGAGTAGGTA
Found at i:19681100 original size:4 final size:4
Alignment explanation
Indices: 19681091--19681136 Score: 67
Period size: 4 Copynumber: 11.5 Consensus size: 4
19681081 GGATAAGTTT
*
19681091 ATAC ATAC ATA- AGCAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC A-TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
19681137 GAATACTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
3 1 0.03
4 36 0.95
5 1 0.03
ACGTcount: A:0.50, C:0.24, G:0.02, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:19682397 original size:45 final size:48
Alignment explanation
Indices: 19682289--19682400 Score: 151
Period size: 50 Copynumber: 2.4 Consensus size: 48
19682279 AATATATTCT
*
19682289 AATAAAAGGAGTGTAGTAAGGTTAAAACACCTTATTCTAATCAAATATCA
1 AATAAAAGAAGTGTAGTAAGGTTAAAACACCTTATTCTAA-CAAATA-CA
*
19682339 AATAAATGAAGTGTAGTAAGGTTGAAAA-ACCTTATTCT-A-AAATA-A
1 AATAAAAGAAGTGTAGTAAGGTT-AAAACACCTTATTCTAACAAATACA
19682384 AATAAAAGAAGTGTAGT
1 AATAAAAGAAGTGTAGT
19682401 TCTATATGGA
Statistics
Matches: 58, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
45 17 0.29
47 5 0.09
49 1 0.02
50 31 0.53
51 4 0.07
ACGTcount: A:0.48, C:0.08, G:0.16, T:0.28
Consensus pattern (48 bp):
AATAAAAGAAGTGTAGTAAGGTTAAAACACCTTATTCTAACAAATACA
Found at i:19687718 original size:27 final size:27
Alignment explanation
Indices: 19687685--19687844 Score: 193
Period size: 27 Copynumber: 5.9 Consensus size: 27
19687675 AAAAAACCCC
19687685 ATAGGGTAAAATGACTGAAATACCCTT
1 ATAGGGTAAAATGACTGAAATACCCTT
*
19687712 A-ATGGGTAAAATGA-TCGAAATACCCTC
1 ATA-GGGTAAAATGACT-GAAATACCCTT
*
19687739 ATAGGGTAAAAT-AATCGAAATA-CCTT
1 ATAGGGTAAAATGACT-GAAATACCCTT
*
19687765 CATAGGGTAAAATGACTGAAATACCATT
1 -ATAGGGTAAAATGACTGAAATACCCTT
* * *
19687793 ATAGGGTAAAATAACCGAAATACCCCT
1 ATAGGGTAAAATGACTGAAATACCCTT
*
19687820 ATAGGGTAAAATGACTGATATACCC
1 ATAGGGTAAAATGACTGAAATACCC
19687845 CTAGGAGATG
Statistics
Matches: 115, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
26 6 0.05
27 103 0.90
28 6 0.05
ACGTcount: A:0.42, C:0.16, G:0.17, T:0.24
Consensus pattern (27 bp):
ATAGGGTAAAATGACTGAAATACCCTT
Found at i:19688029 original size:26 final size:26
Alignment explanation
Indices: 19688000--19688070 Score: 106
Period size: 26 Copynumber: 2.7 Consensus size: 26
19687990 GGAAGTATAT
*
19688000 TGTTACTGGCAGCTTTGTTGCGATAC
1 TGTTACTGGCAGCTTTGCTGCGATAC
*
19688026 TGTTATTGGCAGCTTTGCTGCGATAC
1 TGTTACTGGCAGCTTTGCTGCGATAC
* *
19688052 TATTACTGGTAGCTTTGCT
1 TGTTACTGGCAGCTTTGCT
19688071 ACAGTATTGG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.15, C:0.18, G:0.25, T:0.41
Consensus pattern (26 bp):
TGTTACTGGCAGCTTTGCTGCGATAC
Found at i:19688249 original size:33 final size:28
Alignment explanation
Indices: 19688187--19688244 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
19688177 ATACTGATTT
19688187 TGTATTGGGCTAAGGCCCACACTGTTAC
1 TGTATTGGGCTAAGGCCCACACTGTTAC
*
19688215 TGTATTGGGCTAAGGCCCACATTG-TAC
1 TGTATTGGGCTAAGGCCCACACTGTTAC
19688242 TGT
1 TGT
19688245 TACTGAATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 6 0.21
28 23 0.79
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (28 bp):
TGTATTGGGCTAAGGCCCACACTGTTAC
Found at i:19694403 original size:17 final size:17
Alignment explanation
Indices: 19694381--19694413 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
19694371 CACTAACATT
19694381 AAAATGCAATGACAATA
1 AAAATGCAATGACAATA
*
19694398 AAAATGTAATGACAAT
1 AAAATGCAATGACAAT
19694414 GTGCACAAAC
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:0.58, C:0.09, G:0.12, T:0.21
Consensus pattern (17 bp):
AAAATGCAATGACAATA
Found at i:19694842 original size:15 final size:15
Alignment explanation
Indices: 19694822--19694859 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
19694812 ATTGACAATG
19694822 TTCTCAGCAGATTCT
1 TTCTCAGCAGATTCT
* *
19694837 TTCTCAACAGCTTCT
1 TTCTCAGCAGATTCT
19694852 TTCTCAGC
1 TTCTCAGC
19694860 CTTCTCGTTT
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:0.18, C:0.32, G:0.11, T:0.39
Consensus pattern (15 bp):
TTCTCAGCAGATTCT
Found at i:19696632 original size:21 final size:20
Alignment explanation
Indices: 19696586--19696634 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
19696576 TATTTTGAAA
19696586 AAATAA-AAAAGTAAAAAAC
1 AAATAATAAAAGTAAAAAAC
19696605 AAA-AATAAAA-TAAAATAAC
1 AAATAATAAAAGTAAAA-AAC
19696624 ATAATAATAAA
1 A-AATAATAAA
19696635 TTCCATAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 7 0.27
19 11 0.42
20 2 0.08
21 6 0.23
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.16
Consensus pattern (20 bp):
AAATAATAAAAGTAAAAAAC
Found at i:19702210 original size:17 final size:16
Alignment explanation
Indices: 19702179--19702212 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
19702169 AAATATTATG
19702179 AAATAAAAACAAACAA
1 AAATAAAAACAAACAA
*
19702195 AAATAAACATCAAACAA
1 AAATAAA-AACAAACAA
19702212 A
1 A
19702213 CACCATCCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.76, C:0.15, G:0.00, T:0.09
Consensus pattern (16 bp):
AAATAAAAACAAACAA
Found at i:19704116 original size:33 final size:33
Alignment explanation
Indices: 19704076--19704141 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
19704066 ATAGAGTTAG
19704076 AGAAATTAGTTACATTCGGAAATGAATGTGGTT
1 AGAAATTAGTTACATTCGGAAATGAATGTGGTT
19704109 AGAAATTAGTTACATTCGGAAATGAATGTGGTT
1 AGAAATTAGTTACATTCGGAAATGAATGTGGTT
19704142 TCTCACTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.36, C:0.06, G:0.24, T:0.33
Consensus pattern (33 bp):
AGAAATTAGTTACATTCGGAAATGAATGTGGTT
Found at i:19706900 original size:24 final size:25
Alignment explanation
Indices: 19706872--19706919 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
19706862 ATATTCAAGA
*
19706872 AAAAAAGAAAGAAAAGAAA-ATGAAC
1 AAAAAA-ATAGAAAAGAAATATGAAC
*
19706897 AAAAAAATAGCAAAGAAATATGA
1 AAAAAAATAGAAAAGAAATATGA
19706920 TGAAAATAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.73, C:0.04, G:0.15, T:0.08
Consensus pattern (25 bp):
AAAAAAATAGAAAAGAAATATGAAC
Found at i:19709848 original size:16 final size:16
Alignment explanation
Indices: 19709827--19709857 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19709817 ATTGGGTTGA
*
19709827 GAAAATTATTTAATTG
1 GAAAATTAATTAATTG
19709843 GAAAATTAATTAATT
1 GAAAATTAATTAATT
19709858 TAAATTAAGA
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:0.00, G:0.10, T:0.42
Consensus pattern (16 bp):
GAAAATTAATTAATTG
Found at i:19711379 original size:43 final size:40
Alignment explanation
Indices: 19711272--19711391 Score: 116
Period size: 42 Copynumber: 2.9 Consensus size: 40
19711262 CATAGGATTT
* * *
19711272 CGATATGTGATTACGTGTAAGACCATGTCTGGGACATCGA
1 CGATATATGATTACGTGTAAGACCCTGTCTGGGACATCAA
* *
19711312 TGTCATATATGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCAA
1 CG--ATATATGATTACGTGTAAGACCCTGTCTGGGACA-T--CAA
* *
19711357 CGATATTTGATTACATGTAAGACCAC-GTCTGGGAC
1 CGATATATGATTACGTGTAAGACC-CTGTCTGGGAC
19711392 GTTAGCATTG
Statistics
Matches: 65, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
40 1 0.02
42 31 0.48
43 29 0.45
44 1 0.02
45 3 0.05
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (40 bp):
CGATATATGATTACGTGTAAGACCCTGTCTGGGACATCAA
Found at i:19715477 original size:18 final size:17
Alignment explanation
Indices: 19715435--19715478 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
19715425 TGTCGTTCGT
19715435 TTTCAAAACATTATTCA
1 TTTCAAAACATTATTCA
* *
19715452 TTTACAAATCGTTATTCAA
1 TTT-CAAAACATTATTC-A
19715471 TTTCAAAA
1 TTTCAAAA
19715479 TGTTTTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 3 0.14
18 15 0.68
19 4 0.18
ACGTcount: A:0.41, C:0.16, G:0.02, T:0.41
Consensus pattern (17 bp):
TTTCAAAACATTATTCA
Found at i:19724266 original size:18 final size:17
Alignment explanation
Indices: 19724236--19724271 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
19724226 AACCTACACC
19724236 TTTCCCTTTCTTTCTCT
1 TTTCCCTTTCTTTCTCT
*
19724253 TTTCCCTCTTCTTTTTCT
1 TTTCCCT-TTCTTTCTCT
19724271 T
1 T
19724272 CACCCATCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTCCCTTTCTTTCTCT
Found at i:19727551 original size:29 final size:29
Alignment explanation
Indices: 19727506--19727569 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
19727496 GGGTAGATTG
* *
19727506 AAAGATTGAATAATTGAAGTTGGCTGGAT
1 AAAGATTGAAGAATTGAAATTGGCTGGAT
* *
19727535 AAAGATTGAAGATTTGAAATTGGTTGGAT
1 AAAGATTGAAGAATTGAAATTGGCTGGAT
19727564 AAAGAT
1 AAAGAT
19727570 CAAATTATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.41, C:0.02, G:0.27, T:0.31
Consensus pattern (29 bp):
AAAGATTGAAGAATTGAAATTGGCTGGAT
Found at i:19727629 original size:18 final size:17
Alignment explanation
Indices: 19727608--19727641 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
19727598 TTGTAATTAG
19727608 TTTAAATTTGATCTTTAC
1 TTTAAATTTGAT-TTTAC
19727626 TTTAAATTTGATTTTA
1 TTTAAATTTGATTTTA
19727642 AAATTTTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (17 bp):
TTTAAATTTGATTTTAC
Found at i:19729062 original size:20 final size:20
Alignment explanation
Indices: 19729025--19729063 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
19729015 TTTATTTTGA
*
19729025 ATTTTTTTTTAGATAATTAC
1 ATTTTTTTTTAGAAAATTAC
19729045 ATTTATTTTTTA-AAAATTA
1 ATTT-TTTTTTAGAAAATTA
19729064 AGAGTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (20 bp):
ATTTTTTTTTAGAAAATTAC
Found at i:19732483 original size:27 final size:27
Alignment explanation
Indices: 19732453--19732506 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
19732443 TGATTTCTTT
*
19732453 GATTAAATCATATTTATTTGATTCATG
1 GATTAAATAATATTTATTTGATTCATG
19732480 GATTAAATAATATTTATTTGATTCATG
1 GATTAAATAATATTTATTTGATTCATG
19732507 CTTATAATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.35, C:0.06, G:0.11, T:0.48
Consensus pattern (27 bp):
GATTAAATAATATTTATTTGATTCATG
Found at i:19739174 original size:10 final size:10
Alignment explanation
Indices: 19739152--19739186 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
19739142 TATTAAAAAC
19739152 GAGAGAG-TT
1 GAGAGAGTTT
19739161 GAGAGAGTTT
1 GAGAGAGTTT
*
19739171 GAGAGAATTT
1 GAGAGAGTTT
19739181 GAGAGA
1 GAGAGA
19739187 ATTAAGAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 7 0.29
10 17 0.71
ACGTcount: A:0.37, C:0.00, G:0.40, T:0.23
Consensus pattern (10 bp):
GAGAGAGTTT
Found at i:19742123 original size:17 final size:17
Alignment explanation
Indices: 19742103--19742137 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
19742093 TTCTTATGTA
*
19742103 TATTAGTTTCTATTATT
1 TATTAGTTTATATTATT
*
19742120 TATTTGTTTATATTATT
1 TATTAGTTTATATTATT
19742137 T
1 T
19742138 CTATGTCATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.23, C:0.03, G:0.06, T:0.69
Consensus pattern (17 bp):
TATTAGTTTATATTATT
Found at i:19742135 original size:13 final size:14
Alignment explanation
Indices: 19742101--19742141 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
19742091 CTTTCTTATG
19742101 TATATTAGTTTCTAT
1 TATATTA-TTTCTAT
*
19742116 TAT-TTATTTGT-T
1 TATATTATTTCTAT
19742128 TATATTATTTCTAT
1 TATATTATTTCTAT
19742142 GTCATTTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
12 4 0.18
13 11 0.50
14 4 0.18
15 3 0.14
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (14 bp):
TATATTATTTCTAT
Found at i:19749395 original size:88 final size:88
Alignment explanation
Indices: 19749241--19749573 Score: 438
Period size: 88 Copynumber: 3.8 Consensus size: 88
19749231 AACAAATCAG
* *
19749241 TGAAGATAGCAGATCTTGCCTTTCTGTACCGGCAGCGAAGCAGATC-AATGACACCAGCCTTGCC
1 TGAAAATAGCAGATCTTGCCTTTCTGTACCGACAGCGAAGCAGATCGAA-GACACCAGCCTTGCC
*
19749305 TCCTTGGGTTGCAGCGGAGCAAGT
65 TCCCTGGGTTGCAGCGGAGCAAGT
* * * *
19749329 TGAAAATAGCAGATGTTG-CTTTCCTGTACTGACAGCGAAGCAGATTGAAGACACTAGCCTTGCC
1 TGAAAATAGCAGATCTTGCCTTT-CTGTACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCC
** * *
19749393 TCCCTCAGTGGCAGCGGAGCAGGT
65 TCCCTGGGTTGCAGCGGAGCAAGT
* *
19749417 T-AAAGATAGCAGATCTTGCCTTTCTGTACCGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCC
1 TGAAA-ATAGCAGATCTTGCCTTTCTGTACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCC
*
19749481 TCCCTGGGTTGTAGCGGAGCAAGT
65 TCCCTGGGTTGCAGCGGAGCAAGT
* * * * * *
19749505 TAAAAATAGTAGATCTTGCCTTCCTGTACTGACAGCGAAGTAGATCGAAGACACTAGCCTTGCCT
1 TGAAAATAGCAGATCTTGCCTTTCTGTACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
19749570 CCCT
66 CCCT
19749574 CAGTGGTAGT
Statistics
Matches: 211, Mismatches: 29, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
87 7 0.03
88 195 0.92
89 9 0.04
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.23
Consensus pattern (88 bp):
TGAAAATAGCAGATCTTGCCTTTCTGTACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
CCCTGGGTTGCAGCGGAGCAAGT
Found at i:19749467 original size:45 final size:45
Alignment explanation
Indices: 19749243--19749467 Score: 117
Period size: 45 Copynumber: 5.1 Consensus size: 45
19749233 CAAATCAGTG
19749243 AAGATAGCAGATCTTGCCTTTCTGTACCGGCAGCGAAGCAGATCA
1 AAGATAGCAGATCTTGCCTTTCTGTACCGGCAGCGAAGCAGATCA
* * * * ** * * * *
19749288 ATGACACCAG-CCTTGCCTCCTTGGGT---TGCAGCGGAGCAAGTTGA
1 AAGATAGCAGATCTTGCCT--TTCTGTACCGGCAGCGAAGC-AGATCA
* * * **
19749332 AA-ATAGCAGATGTTG-CTTTCCTGTACTGACAGCGAAGCAGATTG
1 AAGATAGCAGATCTTGCCTTT-CTGTACCGGCAGCGAAGCAGATCA
* * ** * ** * * *
19749376 AAGACA-CTAG-CCTTGCCTCCCT-CAGTGGCAGCGGAGCAGGTTA
1 AAGATAGC-AGATCTTGCCTTTCTGTACCGGCAGCGAAGCAGATCA
19749419 AAGATAGCAGATCTTGCCTTTCTGTACCGGCAGCGAAGCAGATCA
1 AAGATAGCAGATCTTGCCTTTCTGTACCGGCAGCGAAGCAGATCA
19749464 AAGA
1 AAGA
19749468 CACCAGCCTT
Statistics
Matches: 122, Mismatches: 44, Indels: 28
0.63 0.23 0.14
Matches are distributed among these distances:
41 2 0.02
42 2 0.02
43 38 0.31
44 36 0.30
45 40 0.33
46 4 0.03
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.22
Consensus pattern (45 bp):
AAGATAGCAGATCTTGCCTTTCTGTACCGGCAGCGAAGCAGATCA
Found at i:19749479 original size:44 final size:44
Alignment explanation
Indices: 19749255--19749481 Score: 115
Period size: 44 Copynumber: 5.2 Consensus size: 44
19749245 GATAGCAGAT
*
19749255 CTTGCCTTTCTGTACCGGCAGCGAAGCAGATCAATGACACCAGC
1 CTTGCCTTTCTGTACCGGCAGCGAAGCAGATCAAAGACACCAGC
** * * * * * * *
19749299 CTTGCCTCCTTGGGT---TGCAGCGGAGCAAGTTGAAA-ATAGCAGAT
1 CTTGCCT--TTCTGTACCGGCAGCGAAGC-AGATCAAAGACACCAG-C
* * * ** *
19749343 GTTG-CTTTCCTGTACTGACAGCGAAGCAGATTGAAGACACTAGC
1 CTTGCCTTT-CTGTACCGGCAGCGAAGCAGATCAAAGACACCAGC
** * ** * * * * * *
19749387 CTTGCCTCCCT-CAGTGGCAGCGGAGCAGGTTAAAGATAGCAGAT
1 CTTGCCTTTCTGTACCGGCAGCGAAGCAGATCAAAGACACCAG-C
19749431 CTTGCCTTTCTGTACCGGCAGCGAAGCAGATCAAAGACACCAGC
1 CTTGCCTTTCTGTACCGGCAGCGAAGCAGATCAAAGACACCAGC
19749475 CTTGCCT
1 CTTGCCT
19749482 CCCTGGGTTG
Statistics
Matches: 124, Mismatches: 47, Indels: 24
0.64 0.24 0.12
Matches are distributed among these distances:
41 2 0.02
42 2 0.02
43 38 0.31
44 41 0.33
45 37 0.30
46 4 0.03
ACGTcount: A:0.25, C:0.27, G:0.26, T:0.22
Consensus pattern (44 bp):
CTTGCCTTTCTGTACCGGCAGCGAAGCAGATCAAAGACACCAGC
Found at i:19749537 original size:176 final size:176
Alignment explanation
Indices: 19749243--19749593 Score: 594
Period size: 176 Copynumber: 2.0 Consensus size: 176
19749233 CAAATCAGTG
*
19749243 AAGATAGCAGATCTTGCCTTTCTGTACCGGCAGCGAAGCAGATCAATGACACCAGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTTCTGTACCGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCC
* * * *
19749308 TTGGGTTGCAGCGGAGCAAGTTGAAAATAGCAGATGTTGCTTTCCTGTACTGACAGCGAAGCAGA
66 CTGGGTTGCAGCGGAGCAAGTTAAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGA
*
19749373 TTGAAGACACTAGCCTTGCCTCCCTCAGTGGCAGCGGAGCAGGTTA
131 TCGAAGACACTAGCCTTGCCTCCCTCAGTGGCAGCGGAGCAGGTTA
19749419 AAGATAGCAGATCTTGCCTTTCTGTACCGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTTCTGTACCGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCC
* * *
19749484 CTGGGTTGTAGCGGAGCAAGTTAAAAATAGTAGATCTTGCCTTCCTGTACTGACAGCGAAGTAGA
66 CTGGGTTGCAGCGGAGCAAGTTAAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGA
* * *
19749549 TCGAAGACACTAGCCTTGCCTCCCTCAGTGGTAGTGGAGTAGGTT
131 TCGAAGACACTAGCCTTGCCTCCCTCAGTGGCAGCGGAGCAGGTT
19749594 TGTGACAGCC
Statistics
Matches: 163, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
176 163 1.00
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (176 bp):
AAGATAGCAGATCTTGCCTTTCTGTACCGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCC
CTGGGTTGCAGCGGAGCAAGTTAAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGA
TCGAAGACACTAGCCTTGCCTCCCTCAGTGGCAGCGGAGCAGGTTA
Found at i:19751195 original size:40 final size:40
Alignment explanation
Indices: 19751164--19751453 Score: 422
Period size: 40 Copynumber: 7.3 Consensus size: 40
19751154 GGACTAAGAT
* * * *
19751164 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGTTATTAAA-TCCGGGTTAAGTC
* * * *
19751204 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
19751244 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
19751284 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
19751324 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
19751364 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
19751404 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
19751443 CCGAAGGCATT
1 CCGAAGGCATT
19751454 TGAACGAGGA
Statistics
Matches: 235, Mismatches: 14, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
39 34 0.14
40 198 0.84
41 3 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:19751248 original size:80 final size:80
Alignment explanation
Indices: 19751111--19751453 Score: 424
Period size: 80 Copynumber: 4.3 Consensus size: 80
19751101 TTGAATGCTG
* * * * * * **
19751111 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
* * *
19751174 TTGTGCGAGATA-CAAA
64 TCGTGCGAGTTATTAAA
* * * * *
19751190 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 -TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
19751255 CGTGCGAGTTATTAAA
65 CGTGCGAGTTATTAAA
19751271 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
19751336 GTGCGAGTTATTAAA
66 GTGCGAGTTATTAAA
* *
19751351 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATT-
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
19751415 GTGTGAGTTACTAAA
66 GTGCGAGTTATTAAA
* * *
19751430 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
19751454 TGAACGAGGA
Statistics
Matches: 236, Mismatches: 24, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
79 35 0.15
80 191 0.81
81 10 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
GTGCGAGTTATTAAA
Found at i:19751327 original size:120 final size:118
Alignment explanation
Indices: 19751111--19751455 Score: 424
Period size: 120 Copynumber: 2.9 Consensus size: 118
19751101 TTGAATGCTG
* * * * * * **
19751111 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCA-
* * * *
19751174 TTGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
63 TTGTGCGAGTTATAAA-TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
19751231 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT-
* * *
19751296 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
65 GTGCGAGTTA-TAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* *
19751351 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTG
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTG
* * * *
19751416 TGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
66 TGCGAGTTA-TAAATCCGGGTTAAGTCCCGAAGGCATTTG
19751456 AACGAGGAGC
Statistics
Matches: 198, Mismatches: 23, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
119 38 0.19
120 151 0.76
121 9 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (118 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTG
TGCGAGTTATAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:19762569 original size:45 final size:44
Alignment explanation
Indices: 19762444--19762577 Score: 121
Period size: 44 Copynumber: 3.0 Consensus size: 44
19762434 CAGGTTGAAA
* * *
19762444 ATAGAAGATCTTGCTTTCCTGTACTGACAGTGAAGCAGATCAAAG
1 ATAGCAGATCTTGCCTTCCT-TACTGGCAGTGAAGCAGATCAAAG
* * * * * * *
19762489 ACA-CTAG-CCTTGCCTCCCTCAGTGGCAGCGGAGCAGGAT-AAAG
1 ATAGC-AGATCTTGCCTTCCTTACTGGCAGTGAAGCA-GATCAAAG
19762532 ATAGCAGATCTTGCCTTCCTATACTGGCAGTGAAGCAGATCAAAG
1 ATAGCAGATCTTGCCTTCCT-TACTGGCAGTGAAGCAGATCAAAG
19762577 A
1 A
19762578 CCCCAGCCTT
Statistics
Matches: 66, Mismatches: 17, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
43 19 0.29
44 26 0.39
45 21 0.32
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.22
Consensus pattern (44 bp):
ATAGCAGATCTTGCCTTCCTTACTGGCAGTGAAGCAGATCAAAG
Found at i:19762588 original size:88 final size:88
Alignment explanation
Indices: 19762362--19762631 Score: 317
Period size: 88 Copynumber: 3.1 Consensus size: 88
19762352 GAAGATTGTT
* * * * ** *
19762362 GATCTTGCCTTCCTGTACCGGCAGCGAAGCAGATCAAAGACACCAGCCTTACTTCCCTGGGTTGC
1 GATCTTGCCTTCCTGTACTGGCAGTGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTCAGTGGC
*
19762427 AGCGGAGCAGGTTGAAAATAGAA
66 AGCGGAGCAGGATGAAAATAGAA
* * *
19762450 GATCTTGCTTTCCTGTACTGACAGTGAAGCAGATCAAAGACACTAGCCTTGCCTCCCTCAGTGGC
1 GATCTTGCCTTCCTGTACTGGCAGTGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTCAGTGGC
*
19762515 AGCGGAGCAGGAT-AAAGATAGCA
66 AGCGGAGCAGGATGAAA-ATAGAA
* * * * * **
19762538 GATCTTGCCTTCCTATACTGGCAGTGAAGCAGATCAAAGACCCCAGCCTTGTCTCCATAAGCAGC
1 GATCTTGCCTTCCTGTACTGGCAGTGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTCAGTGGC
* * * *
19762603 AGTGGAGTAGGTTGAAAATAAAA
66 AGCGGAGCAGGATGAAAATAGAA
19762626 GATCTT
1 GATCTT
19762632 ATCTCTCTGA
Statistics
Matches: 153, Mismatches: 27, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
87 3 0.02
88 147 0.96
89 3 0.02
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.22
Consensus pattern (88 bp):
GATCTTGCCTTCCTGTACTGGCAGTGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTCAGTGGC
AGCGGAGCAGGATGAAAATAGAA
Found at i:19762940 original size:217 final size:217
Alignment explanation
Indices: 19762617--19763117 Score: 903
Period size: 217 Copynumber: 2.3 Consensus size: 217
19762607 GAGTAGGTTG
* *
19762617 AAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTCTTATCTCCTTG
1 AAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATTAGGTCTTATCTCCCTG
19762682 AGCAGCAGCGGAGCAGACCGAAGAACTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
66 AGCAGCAGCGGAGCAGACCGAAGAACTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
* *
19762747 AAGATGGCAGGTCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAGGCTAGTAATCCTATCTCCC
131 AAGATGGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAGGCCAGTAATCCTATCTCCC
19762812 TGAAGTTGAAATGGAGTGGATT
196 TGAAGTTGAAATGGAGTGGATT
*
19762834 AAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAAATCGCATTAGGTCTTATCTCCCTG
1 AAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATTAGGTCTTATCTCCCTG
* * *
19762899 AGCAGCAGCGGAGCAGACCGGAGAACTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTG
66 AGCAGCAGCGGAGCAGACCGAAGAACTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
*
19762964 AAGATGGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAGGCCAGTAATCCTATCTCCT
131 AAGATGGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAGGCCAGTAATCCTATCTCCC
* *
19763029 TGAAGTTGCAGTGGAGTGGATT
196 TGAAGTTGAAATGGAGTGGATT
19763051 AAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATTAGGTCTTATCTCCCTG
1 AAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATTAGGTCTTATCTCCCTG
19763116 AG
66 AG
19763118 GTTGCAGTGG
Statistics
Matches: 272, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
217 272 1.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (217 bp):
AAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATTAGGTCTTATCTCCCTG
AGCAGCAGCGGAGCAGACCGAAGAACTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
AAGATGGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAGGCCAGTAATCCTATCTCCC
TGAAGTTGAAATGGAGTGGATT
Found at i:19763006 original size:44 final size:44
Alignment explanation
Indices: 19762669--19763008 Score: 210
Period size: 44 Copynumber: 7.8 Consensus size: 44
19762659 TCGCATCAGG
* * * * **
19762669 TCTTATCTCCTTGAGCAGCAGCGGAGCAGACCGAAGAACTA-CAGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAG-A-TAGCAGA
* * *
19762714 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATAGCAGA
* * *
19762758 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAGGCTAGTA-A
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATAGCAGA
* ** * * ** * **
19762801 TCCTATCTCCCTGAAGTTGAAATGGAGTGGATT-AAAATAAAAGA
1 TCTTATCTCCCT-AAGCAGTAGTGGAGCAGATTGAAGATAGCAGA
* ** * * * * * * *
19762845 TCTTATCTCTCTGAAGTTGCAGTAGAGTAAATCGCA-TTAG--G-
1 TCTTATCTCCCT-AAGCAGTAGTGGAGCAGATTGAAGATAGCAGA
* * * ** * *
19762886 TCTTATCTCCCTGAGCAGCAGCGGAGCAGACCGGAGAACTA-TAGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAG-A-TAGCAGA
*
19762931 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGGCAGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATAGCAGA
19762975 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGA
19763009 GGCCAGTAAT
Statistics
Matches: 229, Mismatches: 55, Indels: 23
0.75 0.18 0.07
Matches are distributed among these distances:
40 14 0.06
41 11 0.05
42 1 0.00
43 19 0.08
44 122 0.53
45 62 0.27
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (44 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATAGCAGA
Found at i:19763148 original size:129 final size:129
Alignment explanation
Indices: 19763010--19763249 Score: 372
Period size: 129 Copynumber: 1.9 Consensus size: 129
19763000 GCAGATTGAG
* * * * ***
19763010 GCCAGTAATCCTATCTCCTTGAAGTTGCAGTGGAGTGGATTAAAATAAAAGATCTTATCTCTCTG
1 GCCAATAATCCTATCTCCCTGAAGTTACAGCGGAACAGATTAAAATAAAAGATCTTATCTCTCTG
* * *
19763075 AAGTTGCAGTAGAGTAGATCGCATTAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAAACCAAA
66 AAGTTGCAGTAGAGTAGATCGCATCAAGTCTTATCTCCCTAAGGTTGCAGTGGAGCAAACCAAA
* *
19763139 GCCAATAATCCTATCTCCCTGAGGTTACAGCGGAACAGATTAAAATAACAGATCTTATCTCTCTG
1 GCCAATAATCCTATCTCCCTGAAGTTACAGCGGAACAGATTAAAATAAAAGATCTTATCTCTCTG
19763204 AAGTTGCAGTAGAGTAGATCGCATCAAGTCTTATCTCCCTAAGGTT
66 AAGTTGCAGTAGAGTAGATCGCATCAAGTCTTATCTCCCTAAGGTT
19763250 ACGGTAGAGC
Statistics
Matches: 99, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
129 99 1.00
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (129 bp):
GCCAATAATCCTATCTCCCTGAAGTTACAGCGGAACAGATTAAAATAAAAGATCTTATCTCTCTG
AAGTTGCAGTAGAGTAGATCGCATCAAGTCTTATCTCCCTAAGGTTGCAGTGGAGCAAACCAAA
Found at i:19763198 original size:44 final size:44
Alignment explanation
Indices: 19763103--19763430 Score: 159
Period size: 44 Copynumber: 7.5 Consensus size: 44
19763093 TCGCATTAGG
* * ** ** *
19763103 TCTTATCTCCCTGAGGTTGCAGTGGAGCAAACCAAAGCCAATA-A
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAAA-ATAACAGA
* * *
19763147 TCCTATCTCCCTGAGGTTACAGCGGAACAGATTAAAATAACAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAAAATAACAGA
* * * * * *** *
19763191 TCTTATCTCTCTGAAGTTGCAGTAGAGTAGA-TCGCATCA-AG-
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAAAATAACAGA
* * * * * * *
19763232 TCTTATCTCCCTAAGGTTACGGTAGAGCAGACT-GAGTAAGCAGG
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAAAATAA-CAGA
* * * * * ** *
19763276 TCTTATCCCCCTAAAG-TAGCAGTGGA-CAGACTGAAGATGGCAAA
1 TCTTATCTCCCTGAGGTTA-CAGTGGAGCAGA-TTAAAATAACAGA
* ** *
19763320 TCTTATCTCCCTGGGGTTACAGTGGAGCAGATTAAAGCCAATA-A
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAAA-ATAACAGA
* * *
19763364 TCCTATCTCCCTGAGGTTACAGCGGAGCGGATTAAAATAACAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAAAATAACAGA
* **
19763408 TCTTATCTCTCTGAAATTACAGT
1 TCTTATCTCCCTGAGGTTACAGT
19763431 AGGGCAGGTC
Statistics
Matches: 205, Mismatches: 67, Indels: 24
0.69 0.23 0.08
Matches are distributed among these distances:
41 28 0.14
42 3 0.01
43 18 0.09
44 148 0.72
45 8 0.04
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (44 bp):
TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAAAATAACAGA
Found at i:19765562 original size:13 final size:14
Alignment explanation
Indices: 19765528--19765565 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
19765518 CTTTCTTATG
19765528 TATATTAGTTTCGTT
1 TATATTA-TTTCGTT
19765543 TAT-TTATTT-GTT
1 TATATTATTTCGTT
19765555 TATATTATTTC
1 TATATTATTTC
19765566 TATGTCATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.29
13 9 0.43
14 3 0.14
15 3 0.14
ACGTcount: A:0.21, C:0.05, G:0.08, T:0.66
Consensus pattern (14 bp):
TATATTATTTCGTT
Found at i:19767286 original size:125 final size:125
Alignment explanation
Indices: 19766939--19767334 Score: 565
Period size: 118 Copynumber: 3.2 Consensus size: 125
19766929 TCCTCTCAAT
* * * *
19766939 TTCCAGGACCTACTGTAACGAAAGCGGGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATA
1 TTCCAGGACCTACTGTAGCAAAAGCGCGTCCACGAGGACGCGATTTCACAAATTCTTCTCAAATA
19767004 GCATCCTGCTAGAAGCGATTTTATATTATTTGCTTAGAAACGTCAACCCGAAATTATTTC
66 GCATCCTGCTAGAAGCGATTTTATATTATTTGCTTAGAAACGTCAACCCGAAATTATTTC
** * *
19767064 TTCCAGGACCTACAATAGCAAAA----G--CAC-ATGACGTGATTTCACAAATTCTTCTCAAATA
1 TTCCAGGACCTACTGTAGCAAAAGCGCGTCCACGAGGACGCGATTTCACAAATTCTTCTCAAATA
*
19767122 GCATCCTGCTAGAAGCGATTTTATATTATTTGCTTAGAAACGTCAGCCCGAAATTATTTC
66 GCATCCTGCTAGAAGCGATTTTATATTATTTGCTTAGAAACGTCAACCCGAAATTATTTC
* * * *
19767182 TTCCAGGACCTACTGTAGCAAAAGCGCGTCCACGAGGCCACGATTTCACAAATTCTTATCAAACA
1 TTCCAGGACCTACTGTAGCAAAAGCGCGTCCACGAGGACGCGATTTCACAAATTCTTCTCAAATA
* * * *
19767247 GCATCCTGCTAGAAGCCATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-
66 GCATCCTGCTAGAAGCGATTTTATATTATTTGCTTAGAAACGTCAACCCGAAATTATTTC
* *
19767306 TTTCAGGACCTATTGTAGCAAAAGCGCGT
1 TTCCAGGACCTACTGTAGCAAAAGCGCGT
19767335 AAACGTGGGC
Statistics
Matches: 241, Mismatches: 23, Indels: 15
0.86 0.08 0.05
Matches are distributed among these distances:
118 108 0.45
119 3 0.01
121 1 0.00
122 1 0.00
124 30 0.12
125 98 0.41
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (125 bp):
TTCCAGGACCTACTGTAGCAAAAGCGCGTCCACGAGGACGCGATTTCACAAATTCTTCTCAAATA
GCATCCTGCTAGAAGCGATTTTATATTATTTGCTTAGAAACGTCAACCCGAAATTATTTC
Found at i:19769028 original size:275 final size:275
Alignment explanation
Indices: 19768532--19769080 Score: 1089
Period size: 275 Copynumber: 2.0 Consensus size: 275
19768522 CCTAGTCCTT
19768532 TTCAACAAGCATCTAAATGATCTCCCAAGGTATTTGGCCCATTCTGCTGGTAACCCTCCTCCAGT
1 TTCAACAAGCATCTAAATGATCTCCCAAGGTATTTGGCCCATTCTGCTGGTAACCCTCCTCCAGT
19768597 GAGCCAAACCGAGAATTGGGATTGATCACCTCTGGCAGCTACCTCGGCCCTGTAGAATCTTGCCA
66 GAGCCAAACCGAGAATTGGGATTGATCACCTCTGGCAGCTACCTCGGCCCTGTAGAATCTTGCCA
19768662 GTTCGCTAAGCATAGATGGCTGAAGTGGAAGCACAGCCACAAATTCAGCCACAAACTCTTCTGTG
131 GTTCGCTAAGCATAGATGGCTGAAGTGGAAGCACAGCCACAAATTCAGCCACAAACTCTTCTGTG
19768727 AGTTCTGGATTGAGCATCTGATTCCAAAGGACTAGGGCCCATTCTGTCGGCTGATTAAGACCATA
196 AGTTCTGGATTGAGCATCTGATTCCAAAGGACTAGGGCCCATTCTGTCGGCTGATTAAGACCATA
19768792 GGCTTCTGCAACAAC
261 GGCTTCTGCAACAAC
*
19768807 TTCAGCAAGCATCTAAATGATCTCCCAAGGTATTTGGCCCATTCTGCTGGTAACCCTCCTCCAGT
1 TTCAACAAGCATCTAAATGATCTCCCAAGGTATTTGGCCCATTCTGCTGGTAACCCTCCTCCAGT
19768872 GAGCCAAACCGAGAATTGGGATTGATCACCTCTGGCAGCTACCTCGGCCCTGTAGAATCTTGCCA
66 GAGCCAAACCGAGAATTGGGATTGATCACCTCTGGCAGCTACCTCGGCCCTGTAGAATCTTGCCA
19768937 GTTCGCTAAGCATAGATGGCTGAAGTGGAAGCACAGCCACAAATTCAGCCACAAACTCTTCTGTG
131 GTTCGCTAAGCATAGATGGCTGAAGTGGAAGCACAGCCACAAATTCAGCCACAAACTCTTCTGTG
19769002 AGTTCTGGATTGAGCATCTGATTCCAAAGGACTAGGGCCCATTCTGTCGGCTGATTAAGACCATA
196 AGTTCTGGATTGAGCATCTGATTCCAAAGGACTAGGGCCCATTCTGTCGGCTGATTAAGACCATA
19769067 GGCTTCTGCAACAA
261 GGCTTCTGCAACAA
19769081 TAAGAGCCTC
Statistics
Matches: 273, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
275 273 1.00
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (275 bp):
TTCAACAAGCATCTAAATGATCTCCCAAGGTATTTGGCCCATTCTGCTGGTAACCCTCCTCCAGT
GAGCCAAACCGAGAATTGGGATTGATCACCTCTGGCAGCTACCTCGGCCCTGTAGAATCTTGCCA
GTTCGCTAAGCATAGATGGCTGAAGTGGAAGCACAGCCACAAATTCAGCCACAAACTCTTCTGTG
AGTTCTGGATTGAGCATCTGATTCCAAAGGACTAGGGCCCATTCTGTCGGCTGATTAAGACCATA
GGCTTCTGCAACAAC
Found at i:19776182 original size:37 final size:37
Alignment explanation
Indices: 19776132--19776206 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
19776122 ACTACGACAA
* * *
19776132 GGGTGCTGTAAGCATAGCTCAAAATCCCATCCAACAC
1 GGGTGCTATAAGCATAGCCCAAAATCCAATCCAACAC
19776169 GGGTGCTATAAGCATAGCCCAAAATCCAATCCAACAC
1 GGGTGCTATAAGCATAGCCCAAAATCCAATCCAACAC
19776206 G
1 G
19776207 ATTGAACAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.35, C:0.29, G:0.19, T:0.17
Consensus pattern (37 bp):
GGGTGCTATAAGCATAGCCCAAAATCCAATCCAACAC
Found at i:19782195 original size:2 final size:2
Alignment explanation
Indices: 19782188--19782212 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
19782178 AAGGTAACAT
19782188 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
19782213 GAAGGGAGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:19782532 original size:2 final size:2
Alignment explanation
Indices: 19782525--19782574 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
19782515 AAGGTAACAT
*
19782525 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GG GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
19782567 GA GA GA GA
1 GA GA GA GA
19782575 CCTGCACATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:19791222 original size:26 final size:26
Alignment explanation
Indices: 19791167--19791227 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
19791157 GACTACTTAC
*
19791167 ACAACATAATCACTAAATTTCATATG
1 ACAACATAATCACTAAATCTCATATG
* *
19791193 ACAACATAATCACTGAATCTCCTAAT-
1 ACAACATAATCACTAAATCTCAT-ATG
19791219 ACAACATAA
1 ACAACATAA
19791228 AAGCAATATG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
26 29 0.94
27 2 0.06
ACGTcount: A:0.48, C:0.23, G:0.03, T:0.26
Consensus pattern (26 bp):
ACAACATAATCACTAAATCTCATATG
Found at i:19801344 original size:26 final size:26
Alignment explanation
Indices: 19801315--19801364 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
19801305 TCTCATCCCT
*
19801315 ATTTTA-CCCTTAGTAAAATTTTGACA
1 ATTTTATCCC-TAGTAAAAATTTGACA
*
19801341 ATTTTATCCCTGGTAAAAATTTGA
1 ATTTTATCCCTAGTAAAAATTTGA
19801365 GAAAATATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 18 0.86
27 3 0.14
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (26 bp):
ATTTTATCCCTAGTAAAAATTTGACA
Found at i:19811749 original size:27 final size:27
Alignment explanation
Indices: 19811706--19812040 Score: 286
Period size: 27 Copynumber: 12.4 Consensus size: 27
19811696 TGCGATTCGT
19811706 GGGT-AAATGACCAAAATACCCTCGAA
1 GGGTAAAATGACCAAAATACCCTCGAA
* ***
19811732 GGGTAAAATAATTGAAATA-CCTCCGAA
1 GGGTAAAATGACCAAAATACCCT-CGAA
* *
19811759 GGGTAAAATGACAAAAATACCCTCAAA
1 GGGTAAAATGACCAAAATACCCTCGAA
*
19811786 GGGTAAAATAACCAAAATACCC-CTGAA
1 GGGTAAAATGACCAAAATACCCTC-GAA
* * * * *
19811813 AGGTAAAATAATCGAAATACCCTTGAA
1 GGGTAAAATGACCAAAATACCCTCGAA
* * * *
19811840 AGGTAAAATTATCGAAATA-CCTCCGAA
1 GGGTAAAATGACCAAAATACCCT-CGAA
*
19811867 GGGTAAAATGACCAAAATACCCTCTAA
1 GGGTAAAATGACCAAAATACCCTCGAA
* ** * *
19811894 GGGTAAAATAACTGAAATACCCCCAAA
1 GGGTAAAATGACCAAAATACCCTCGAA
* *
19811921 GGGTAAAATGACTAAAATTCCCTCGAA
1 GGGTAAAATGACCAAAATACCCTCGAA
* * * *
19811948 GCGTAAAATGATCAAAATAGCCACGAA
1 GGGTAAAATGACCAAAATACCCTCGAA
* * * *
19811975 GGGTAAAATGATCGAAATACCCCCAAA
1 GGGTAAAATGACCAAAATACCCTCGAA
*
19812002 GGGTAAAATGACACAAAA-ACCC-CTATA
1 GGGTAAAATGAC-CAAAATACCCTCGA-A
19812029 GGGTAAAATGAC
1 GGGTAAAATGAC
19812041 TGTTATACCC
Statistics
Matches: 253, Mismatches: 47, Indels: 17
0.80 0.15 0.05
Matches are distributed among these distances:
26 13 0.05
27 230 0.91
28 10 0.04
ACGTcount: A:0.46, C:0.19, G:0.17, T:0.18
Consensus pattern (27 bp):
GGGTAAAATGACCAAAATACCCTCGAA
Found at i:19811770 original size:54 final size:53
Alignment explanation
Indices: 19811706--19812040 Score: 327
Period size: 54 Copynumber: 6.2 Consensus size: 53
19811696 TGCGATTCGT
*
19811706 GGGT-AAATGACCAAAATACCCTCGAAGGGTAAAATAATTGAAATACCTCCGAA
1 GGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATAATCGAAATACC-CCGAA
* * * *
19811759 GGGTAAAATGACAAAAATACCCTCAAAGGGTAAAATAACCAAAATACCCCTGAA
1 GGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATAATCGAAATACCCC-GAA
* * * * * * *
19811813 AGGTAAAATAATCGAAATACCCTTGAAAGGTAAAATTATCGAAATACCTCCGAA
1 GGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATAATCGAAATACC-CCGAA
* *
19811867 GGGTAAAATGACCAAAATACCCTCTAAGGGTAAAATAA-CTGAAATACCCCCAAA
1 GGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATAATC-GAAATA-CCCCGAA
* * * * * *
19811921 GGGTAAAATGACTAAAATTCCCTCGAAGCGTAAAATGATCAAAATAGCCACGAA
1 GGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATAATCGAAATA-CCCCGAA
* * * * * *
19811975 GGGTAAAATGATCGAAATACCCCCAAAGGGTAAAATGACA-C-AAAAACCCCTATA
1 GGGTAAAATGACCAAAATACCCTCGAAGGGTAAAAT-A-ATCGAAATACCCCGA-A
19812029 GGGTAAAATGAC
1 GGGTAAAATGAC
19812041 TGTTATACCC
Statistics
Matches: 227, Mismatches: 46, Indels: 17
0.78 0.16 0.06
Matches are distributed among these distances:
53 11 0.05
54 209 0.92
55 6 0.03
56 1 0.00
ACGTcount: A:0.46, C:0.19, G:0.17, T:0.18
Consensus pattern (53 bp):
GGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATAATCGAAATACCCCGAA
Found at i:19811818 original size:81 final size:81
Alignment explanation
Indices: 19811706--19812040 Score: 357
Period size: 81 Copynumber: 4.1 Consensus size: 81
19811696 TGCGATTCGT
* * *
19811706 GGGT-AAATGACCAAAATA-CCCTCGAAGGGTAAAATAATTGAAATACCTCCGAAGGGTAAAATG
1 GGGTAAAATGACCAAAATACCCCT-GAAGGGTAAAATAATCGAAATACCCCCAAAGGGTAAAATG
19811769 ACAAAAATACCCTCAAA
65 ACAAAAATACCCTCAAA
* * ** *
19811786 GGGTAAAATAACCAAAATACCCCTGAAAGGTAAAATAATCGAAATACCCTTGAAA-GGTAAAATT
1 GGGTAAAATGACCAAAATACCCCTGAAGGGTAAAATAATCGAAATACCC-CCAAAGGGTAAAATG
* *
19811850 ATC-GAAATA-CCTCCGAA
65 A-CAAAAATACCCT-CAAA
19811867 GGGTAAAATGACCAAAATACCCTCT-AAGGGTAAAATAA-CTGAAATACCCCCAAAGGGTAAAAT
1 GGGTAAAATGACCAAAATACCC-CTGAAGGGTAAAATAATC-GAAATACCCCCAAAGGGTAAAAT
* * *
19811930 GACTAAAATTCCCTCGAA
64 GACAAAAATACCCTCAAA
* * * *
19811948 GCGTAAAATGATCAAAATAGCCAC-GAAGGGTAAAATGATCGAAATACCCCCAAAGGGTAAAATG
1 GGGTAAAATGACCAAAATA-CCCCTGAAGGGTAAAATAATCGAAATACCCCCAAAGGGTAAAATG
*
19812012 ACACAAAA-ACCC-CTATA
65 ACA-AAAATACCCTC-AAA
19812029 GGGTAAAATGAC
1 GGGTAAAATGAC
19812041 TGTTATACCC
Statistics
Matches: 213, Mismatches: 27, Indels: 29
0.79 0.10 0.11
Matches are distributed among these distances:
80 13 0.06
81 181 0.85
82 19 0.09
ACGTcount: A:0.46, C:0.19, G:0.17, T:0.18
Consensus pattern (81 bp):
GGGTAAAATGACCAAAATACCCCTGAAGGGTAAAATAATCGAAATACCCCCAAAGGGTAAAATGA
CAAAAATACCCTCAAA
Found at i:19812286 original size:26 final size:26
Alignment explanation
Indices: 19812236--19812286 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
19812226 ACATATACTG
* *
19812236 TTACTAGCAGCTTTGCTGTGTTATTA
1 TTACTAGCAGCTTTGCTGCGATATTA
* *
19812262 TTACTGGCAGCTTTGTTGCGATATT
1 TTACTAGCAGCTTTGCTGCGATATT
19812287 GGTGTGTTGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.22, T:0.45
Consensus pattern (26 bp):
TTACTAGCAGCTTTGCTGCGATATTA
Found at i:19812432 original size:28 final size:28
Alignment explanation
Indices: 19812391--19812472 Score: 119
Period size: 28 Copynumber: 2.9 Consensus size: 28
19812381 CATTGTACTA
*
19812391 ATTACTGTATTGGGATAAGGCCCACATT
1 ATTACTGTATTGGGCTAAGGCCCACATT
* * *
19812419 GTTACTATATTGGGCTAAGGCCCATATT
1 ATTACTGTATTGGGCTAAGGCCCACATT
*
19812447 ATTACTGTAATGGGCTAAGGCCCACA
1 ATTACTGTATTGGGCTAAGGCCCACA
19812473 CTATATTGAT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (28 bp):
ATTACTGTATTGGGCTAAGGCCCACATT
Found at i:19818332 original size:51 final size:51
Alignment explanation
Indices: 19818119--19818563 Score: 374
Period size: 51 Copynumber: 8.8 Consensus size: 51
19818109 TATCATTCGA
* * * *
19818119 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATC--AGTTTTACAG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCATAGCTTTCCGG
* * * *
19818168 TTCACGTAGTAGCCTTCACATAGTACTACACACGTGATCA-AGTTTTACGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCATAGCTTTCCGG
* * **
19818218 CT-CACGTAGTAGCCTTCACATAGTACTACATACGTGACCAAAGCTTTTTGG
1 -TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCATAGCTTTCCGG
* * * * * * *
19818269 TACCCATTGTAGCCTTCACTTAGTACTACACATGTAACCATAG-TTTACCGA
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCATAGCTTT-CCGG
* * * * *
19818320 TACACGTAGTAGCATTCACACAATACTACACACGTG-CTTAAAGC-TTCTCGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGAC-CATAGCTTTC-CGG
* * * * * *
19818371 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACTATTA--TTTATCGA
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-TAGCTTT-CCGG
* * *
19818422 TACACGTAGTAGCCTTCACACAGTACTACACACGTGATCAAAGCTATT-CGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCATAGCT-TTCCGG
* * * * * *
19818473 TACGCATAGTAGCCTGCACATAGTACTACACATGCGACCCAT--CATTCCGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGA-CCATAGCTTTCCGG
*
19818523 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAT
19818564 CACTTTTACT
Statistics
Matches: 319, Mismatches: 60, Indels: 34
0.77 0.15 0.08
Matches are distributed among these distances:
49 44 0.14
50 89 0.28
51 179 0.56
52 5 0.02
53 2 0.01
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.28
Consensus pattern (51 bp):
TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCATAGCTTTCCGG
Found at i:19818355 original size:102 final size:101
Alignment explanation
Indices: 19818116--19818562 Score: 478
Period size: 102 Copynumber: 4.4 Consensus size: 101
19818106 TTTTATCATT
* * * *
19818116 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC--AG-TTTTACAGTTCACGTAGT
1 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTT-CGGTACACATAGT
* * *
19818178 AGCCTTCACATAGTACTACACACGTGATCA-AGTTTTAC
65 AGCCTTCACATAGTACTACACATGTAACCATA--TTTAC
* * * * * *
19818216 GGCT-CACGTAGTAGCCTTCACATAGTACTACATACGTGACCAAAGCTTTTTGGTACCCATTGTA
1 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGTA
*
19818280 GCCTTCACTTAGTACTACACATGTAACCATAGTTTAC
66 GCCTTCACATAGTACTACACATGTAACCATA-TTTAC
* * * * *
19818317 CGATACACGTAGTAGCATTCACACAATACTACACACGTG-CTTAAAGCTTCTCGGTACACATAGT
1 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGAC-CAAAGCTTTTCGGTACACATAGT
* * * *
19818381 AGCCTTCACTTAGTACTACACATGTGACTATTATTTAT
65 AGCCTTCACATAGTACTACACATGTAACCA-TATTTAC
* * * *
19818419 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGATCAAAGCTATTCGGTACGCATAGTA
1 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGTA
* * *
19818484 GCCTGCACATAGTACTACACATGCGACCCATCA-TT-C
66 GCCTTCACATAGTACTACACATG-TAACCAT-ATTTAC
* *
19818520 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA
1 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA
19818563 TCACTTTTAC
Statistics
Matches: 290, Mismatches: 47, Indels: 19
0.81 0.13 0.05
Matches are distributed among these distances:
99 35 0.12
100 2 0.01
101 82 0.28
102 166 0.57
103 5 0.02
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (101 bp):
CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGTA
GCCTTCACATAGTACTACACATGTAACCATATTTAC
Found at i:19824167 original size:13 final size:13
Alignment explanation
Indices: 19824149--19824173 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19824139 TTCCTTTTAT
19824149 TCTTTTTGTTTTC
1 TCTTTTTGTTTTC
19824162 TCTTTTTGTTTT
1 TCTTTTTGTTTT
19824174 TGTTTTGACC
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:0.00, C:0.12, G:0.08, T:0.80
Consensus pattern (13 bp):
TCTTTTTGTTTTC
Found at i:19825058 original size:27 final size:27
Alignment explanation
Indices: 19825015--19825294 Score: 318
Period size: 27 Copynumber: 10.4 Consensus size: 27
19825005 TGCGATTCAT
*
19825015 GGGT-AAATGACCAAAATACCCTCGAA
1 GGGTAAAATGACCGAAATACCCTCGAA
*
19825041 GGGTAAAATGACCGAAATACCC-CTAAA
1 GGGTAAAATGACCGAAATACCCTC-GAA
* *
19825068 AGGTAAAATAACCGAAATACCCTCGAA
1 GGGTAAAATGACCGAAATACCCTCGAA
* * *
19825095 GGATAAAATGACCGAAATACCCCCAAA
1 GGGTAAAATGACCGAAATACCCTCGAA
*
19825122 GGGTAAAATGATCGAAATACCCTCGAA
1 GGGTAAAATGACCGAAATACCCTCGAA
** * *
19825149 TTGTAAAATGACCGAAATACCCCCAAA
1 GGGTAAAATGACCGAAATACCCTCGAA
* *
19825176 GGGTAAAATGACCGAAATACTCTTGAA
1 GGGTAAAATGACCGAAATACCCTCGAA
* *
19825203 GGGTAAAATGATCGAAATACCCCCGAA
1 GGGTAAAATGACCGAAATACCCTCGAA
*
19825230 GGGTAAAAT-ATCTGAAATA-CCTCCGAA
1 GGGTAAAATGA-CCGAAATACCCT-CGAA
* *
19825257 GGGTAAAATGCCCGAAATACCCT-TATA
1 GGGTAAAATGACCGAAATACCCTCGA-A
19825284 GGGTAAAATGA
1 GGGTAAAATGA
19825295 TCATTATACC
Statistics
Matches: 210, Mismatches: 36, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
26 9 0.04
27 197 0.94
28 4 0.02
ACGTcount: A:0.43, C:0.21, G:0.19, T:0.17
Consensus pattern (27 bp):
GGGTAAAATGACCGAAATACCCTCGAA
Found at i:19825090 original size:54 final size:54
Alignment explanation
Indices: 19825015--19825294 Score: 368
Period size: 54 Copynumber: 5.2 Consensus size: 54
19825005 TGCGATTCAT
* *
19825015 GGGT-AAATGACCAAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCTAAA
1 GGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCCAAA
* * *
19825068 AGGTAAAATAACCGAAATACCCTCGAAGGATAAAATGACCGAAATACCCCCAAA
1 GGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCCAAA
* **
19825122 GGGTAAAATGATCGAAATACCCTCGAATTGTAAAATGACCGAAATACCCCCAAA
1 GGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCCAAA
* * * *
19825176 GGGTAAAATGACCGAAATACTCTTGAAGGGTAAAATGATCGAAATACCCCCGAA
1 GGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCCAAA
* * ** *
19825230 GGGTAAAAT-ATCTGAAATA-CCTCCGAAGGGTAAAATGCCCGAAATACCCTTATA
1 GGGTAAAATGA-CCGAAATACCCT-CGAAGGGTAAAATGACCGAAATACCCCCAAA
19825284 GGGTAAAATGA
1 GGGTAAAATGA
19825295 TCATTATACC
Statistics
Matches: 196, Mismatches: 27, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
53 6 0.03
54 189 0.96
55 1 0.01
ACGTcount: A:0.43, C:0.21, G:0.19, T:0.17
Consensus pattern (54 bp):
GGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCCAAA
Found at i:19825521 original size:26 final size:26
Alignment explanation
Indices: 19825490--19825592 Score: 188
Period size: 26 Copynumber: 4.0 Consensus size: 26
19825480 ACATATACTG
19825490 TTACTGGCAGCTTTCCTGCGTTATTA
1 TTACTGGCAGCTTTCCTGCGTTATTA
19825516 TTACTGGCAGCTTTCCTGCGTTATTA
1 TTACTGGCAGCTTTCCTGCGTTATTA
19825542 TTACTGGCAGCTTTCCTGCGTTATTA
1 TTACTGGCAGCTTTCCTGCGTTATTA
* *
19825568 TTACTGGCAGCTTTGCTGCGATATT
1 TTACTGGCAGCTTTCCTGCGTTATT
19825593 GGTGTGTTGG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.16, C:0.22, G:0.20, T:0.42
Consensus pattern (26 bp):
TTACTGGCAGCTTTCCTGCGTTATTA
Found at i:19825738 original size:28 final size:28
Alignment explanation
Indices: 19825693--19825786 Score: 127
Period size: 28 Copynumber: 3.4 Consensus size: 28
19825683 ACTGCATTGT
* *
19825693 ACTGATTACTGTATTGGGATAAGGCTCAC
1 ACTG-TTACTGTATTGGGCTAAGGCCCAC
* *
19825722 ATTGTTACTGTATTGGGCTAAGACCCAC
1 ACTGTTACTGTATTGGGCTAAGGCCCAC
*
19825750 ACTGTTACTGTAATGGGCTAAGGCCCAC
1 ACTGTTACTGTATTGGGCTAAGGCCCAC
19825778 ACTG-TACTG
1 ACTGTTACTG
19825787 ATACTGTATA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 5 0.09
28 50 0.86
29 3 0.05
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (28 bp):
ACTGTTACTGTATTGGGCTAAGGCCCAC
Found at i:19827172 original size:15 final size:15
Alignment explanation
Indices: 19827152--19827192 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
19827142 GAGATGGAAT
*
19827152 TCGAATCAAATCGAG
1 TCGAATCAAATCGAA
19827167 TCGAATCAAATCGAA
1 TCGAATCAAATCGAA
19827182 TCGAATCAAAT
1 TCGAATCAAAT
19827193 ATATTTGTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.44, C:0.20, G:0.15, T:0.22
Consensus pattern (15 bp):
TCGAATCAAATCGAA
Found at i:19827582 original size:22 final size:22
Alignment explanation
Indices: 19827557--19827598 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
19827547 ATAGTCCAAT
19827557 AAACCAACAACAATAACACACC
1 AAACCAACAACAATAACACACC
* *
19827579 AAACTAATAACAATAACACA
1 AAACCAACAACAATAACACA
19827599 TCAGTTCGAA
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:0.62, C:0.29, G:0.00, T:0.10
Consensus pattern (22 bp):
AAACCAACAACAATAACACACC
Done.