Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009625.1 Hibiscus syriacus cultivar Beakdansim tig00117017_pilon, whole genome shotgun sequence
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: 6938204
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 25
Found at i:4037024 original size:19 final size:19
Alignment explanation
Indices: 4037002--4037048 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
4036992 ACATTTCAGG
* *
4037002 TTGGAAACCGGATTTTAGC
1 TTGGGAACCGAATTTTAGC
* *
4037021 TTGGGAACTGAATTTTAGG
1 TTGGGAACCGAATTTTAGC
4037040 TTGGGAACC
1 TTGGGAACC
4037049 AAATCTTTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.26, C:0.13, G:0.30, T:0.32
Consensus pattern (19 bp):
TTGGGAACCGAATTTTAGC
Found at i:4040633 original size:18 final size:18
Alignment explanation
Indices: 4040610--4040644 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
4040600 TTGGCCCAAC
4040610 CCGACCCGAACTGTTGAT
1 CCGACCCGAACTGTTGAT
4040628 CCGACCCGAACTGTTGA
1 CCGACCCGAACTGTTGA
4040645 CTTGACTGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.23, C:0.34, G:0.23, T:0.20
Consensus pattern (18 bp):
CCGACCCGAACTGTTGAT
Found at i:4043598 original size:29 final size:29
Alignment explanation
Indices: 4043566--4043623 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
4043556 TTGTTTAATC
*
4043566 GGTTTCTAATTTGTATCTTGTATTTATTT
1 GGTTTCTAATTTGTATCGTGTATTTATTT
*
4043595 GGTTTCTAATTTGTATGGTGTATTTATTT
1 GGTTTCTAATTTGTATCGTGTATTTATTT
4043624 CAGTCTATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.17, C:0.05, G:0.17, T:0.60
Consensus pattern (29 bp):
GGTTTCTAATTTGTATCGTGTATTTATTT
Found at i:4045826 original size:25 final size:25
Alignment explanation
Indices: 4045788--4045838 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
4045778 AATCCCCACA
* * *
4045788 GTTTTTTAAGCGGGGACGGGTACGG
1 GTTTTTTAAACGGGGAAGGGGACGG
4045813 GTTTTTTAAACGGGGAAGGGGACGG
1 GTTTTTTAAACGGGGAAGGGGACGG
4045838 G
1 G
4045839 GGGACCAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.20, C:0.10, G:0.45, T:0.25
Consensus pattern (25 bp):
GTTTTTTAAACGGGGAAGGGGACGG
Found at i:4046895 original size:267 final size:267
Alignment explanation
Indices: 4046420--4046952 Score: 1041
Period size: 267 Copynumber: 2.0 Consensus size: 267
4046410 TTTAGGACTC
4046420 TAAGTGACAATCTAACCCTAGGCTTTATCTTATGTAGTAAACTCGAGATCCACCAAGGTGAGAGC
1 TAAGTGACAATCTAACCCTAGGCTTTATCTTATGTAGTAAACTCGAGATCCACCAAGGTGAGAGC
4046485 TAGACATGGTCTCGATCTAGCCATAGGATTGGTCGAGTGACTAGATTTGTAGACCAAGTAGATGA
66 TAGACATGGTCTCGATCTAGCCATAGGATTGGTCGAGTGACTAGATTTGTAGACCAAGTAGATGA
4046550 GATACGTGTAGATCCCCCACCTCCGATAGATGATCCTGCTCCTACGACCCCGATGGATCTACCTT
131 GATACGTGTAGATCCCCCACCTCCGATAGATGATCCTGCTCCTACGACCCCGATGGATCTACCTT
4046615 ATGCCTCTTGTATTGGCTTGACTACTCCGATTAGAGGAGCGACTGTTATTGAGCCCAAGTCTACT
196 ATGCCTCTTGTATTGGCTTGACTACTCCGATTAGAGGAGCGACTGTTATTGAGCCCAAGTCTACT
4046680 AGAGTTG
261 AGAGTTG
4046687 TAAGTGACAATCTAACCCTAGGCTTTATCTTATGTAGTAAACTCGAGATCCACCAAGGTGAGAGC
1 TAAGTGACAATCTAACCCTAGGCTTTATCTTATGTAGTAAACTCGAGATCCACCAAGGTGAGAGC
*
4046752 TATACATGGTCTCGATCTAGCCATAGGCA-TGGTCGAGTGACTAGATTTGTAGACCAAGTAGATG
66 TAGACATGGTCTCGATCTAGCCATAGG-ATTGGTCGAGTGACTAGATTTGTAGACCAAGTAGATG
4046816 AGATACGTGTAGATCCCCCACCTCCGATAGATGATCCTGCTCCTACGACCCCGATGGATCTACCT
130 AGATACGTGTAGATCCCCCACCTCCGATAGATGATCCTGCTCCTACGACCCCGATGGATCTACCT
4046881 TATGCCTCTTGTATTGGCTTGACTACTCCGATTAGAGGAGCGACTGTTATTGAGCCCAAGTCTAC
195 TATGCCTCTTGTATTGGCTTGACTACTCCGATTAGAGGAGCGACTGTTATTGAGCCCAAGTCTAC
4046946 TAGAGTT
260 TAGAGTT
4046953 ATATTAGATG
Statistics
Matches: 264, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
267 263 1.00
268 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (267 bp):
TAAGTGACAATCTAACCCTAGGCTTTATCTTATGTAGTAAACTCGAGATCCACCAAGGTGAGAGC
TAGACATGGTCTCGATCTAGCCATAGGATTGGTCGAGTGACTAGATTTGTAGACCAAGTAGATGA
GATACGTGTAGATCCCCCACCTCCGATAGATGATCCTGCTCCTACGACCCCGATGGATCTACCTT
ATGCCTCTTGTATTGGCTTGACTACTCCGATTAGAGGAGCGACTGTTATTGAGCCCAAGTCTACT
AGAGTTG
Found at i:4050025 original size:31 final size:31
Alignment explanation
Indices: 4049987--4050063 Score: 84
Period size: 32 Copynumber: 2.5 Consensus size: 31
4049977 TAAGGCGACC
* **
4049987 CTTGGGTAGGCTCTGCGGCC-CTGATATTTTT
1 CTTGGGTAGGCTCTGCGGCCTC-GAAAACTTT
* *
4050018 CTTGGGTAAGCCTCTGTGGCCTCGAAAACTTT
1 CTTGGGT-AGGCTCTGCGGCCTCGAAAACTTT
4050050 CTTGGGTAGGCTCT
1 CTTGGGTAGGCTCT
4050064 CAGGCCCCAT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
31 13 0.34
32 24 0.63
33 1 0.03
ACGTcount: A:0.13, C:0.23, G:0.29, T:0.35
Consensus pattern (31 bp):
CTTGGGTAGGCTCTGCGGCCTCGAAAACTTT
Found at i:4061247 original size:68 final size:68
Alignment explanation
Indices: 4061086--4061339 Score: 355
Period size: 68 Copynumber: 3.7 Consensus size: 68
4061076 ATTAATAGGT
* * * *
4061086 CTAACTGTGCATTTGACAGAAATGTGCCATTTATGCCAGTTAGATGAAATGATAAGTGCCTTTTT
1 CTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCC--TTT
*
4061151 GAGTC
64 GAGGC
* * *
4061156 CTAACTGTGCATTTGACAGAAAGGTGTCATTTTTACTAGTTAGATGAAAGGCTAAGTGCCTTTGA
1 CTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
4061221 GGC
66 GGC
* * *
4061224 CTAACTGTGTATTTGATAGAAAGGCGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
1 CTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
4061289 GGC
66 GGC
* * * *
4061292 CTAACTGTGCATTTGGCATAAAGGTGTCAATTATGCTAGTTAGATGAA
1 CTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAA
4061340 CGATTAAATA
Statistics
Matches: 163, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
68 110 0.67
70 53 0.33
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.33
Consensus pattern (68 bp):
CTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
GGC
Found at i:4061428 original size:81 final size:81
Alignment explanation
Indices: 4061297--4061691 Score: 454
Period size: 81 Copynumber: 4.9 Consensus size: 81
4061287 GAGGCCTAAC
* * *
4061297 TGTGCATTTGGCATAAAGGTGTCAATTATGCTAGTTAGATGAACGATTAAATACCATTGAGTAAA
1 TGTGCATTTGGCATAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAA
4061362 AGAATAATGGCCTAGT
66 AGAATAATGGCCTAGT
* * * * * * * *
4061378 TGTGTATTTGCCATAAAGGTTTCAATTATGCCAGTTAGACGAATGGTTAAATATCGTTCAATAAA
1 TGTGCATTTGGCATAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAA
*
4061443 A-TATGAATGGCCTAGT
66 AGAAT-AATGGCCTAGT
* * *
4061459 TGTGCATTTAGCATAAAGGTGTCAATTATGCTAGTTAGATGAACGGTTAAATACCGTTAAGTAAA
1 TGTGCATTTGGCATAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAA
* *
4061524 AG-TTGAATGGCCTAGC
66 AGAAT-AATGGCCTAGT
* * * * *
4061540 TGTGCATTTGGCAGAAAGGTGTCAATTATGTCAGTTAGATGAACAGTTAAACACTGTTGAGTAAA
1 TGTGCATTTGGCATAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAA
*
4061605 AGAATAATGGACTAGT
66 AGAATAATGGCCTAGT
* * * * * * * * * *
4061621 TGTGAATTTGACAGAAA-GTGTTAAATATGCAAGTTAGATGAAAGGCTAAATACCTTTGGGTAAA
1 TGTGCATTTGGCATAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAA
4061685 AGAATAA
66 AGAATAA
4061692 AGAAATTATA
Statistics
Matches: 263, Mismatches: 48, Indels: 7
0.83 0.15 0.02
Matches are distributed among these distances:
80 45 0.17
81 217 0.83
82 1 0.00
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.31
Consensus pattern (81 bp):
TGTGCATTTGGCATAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAA
AGAATAATGGCCTAGT
Found at i:4064671 original size:19 final size:21
Alignment explanation
Indices: 4064631--4064706 Score: 93
Period size: 22 Copynumber: 3.6 Consensus size: 21
4064621 TGCAAAAATG
* *
4064631 GTATCGGTACCATA-AT-GGA
1 GTATCGATACCATAGATAGTA
4064650 GTATCGATACCATAGTATAGTA
1 GTATCGATACCATAG-ATAGTA
*
4064672 GTATCGATACCATATTATAGTA
1 GTATCGATACCATA-GATAGTA
4064694 GTATCGATACCAT
1 GTATCGATACCAT
4064707 GGTGGGTATC
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
19 13 0.26
21 2 0.04
22 35 0.70
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (21 bp):
GTATCGATACCATAGATAGTA
Found at i:4064677 original size:22 final size:22
Alignment explanation
Indices: 4064649--4064706 Score: 107
Period size: 22 Copynumber: 2.6 Consensus size: 22
4064639 ACCATAATGG
4064649 AGTATCGATACCATAGTATAGT
1 AGTATCGATACCATAGTATAGT
*
4064671 AGTATCGATACCATATTATAGT
1 AGTATCGATACCATAGTATAGT
4064693 AGTATCGATACCAT
1 AGTATCGATACCAT
4064707 GGTGGGTATC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (22 bp):
AGTATCGATACCATAGTATAGT
Found at i:4065189 original size:54 final size:55
Alignment explanation
Indices: 4065053--4065212 Score: 207
Period size: 55 Copynumber: 2.9 Consensus size: 55
4065043 ATAGCACTAA
* * * *
4065053 GTGTGCAAAAACTTAAGAAATTCATACAAAGTGTATGTATTTCTGAATGGTCACTTT
1 GTGTGC-AAAAC-TAAGAAATTCATACTAAGTGTATGAATTTCTGTATGGGCACTTT
* *
4065110 GTGTGCAAAACTAAGAAATTCATACTAACTGTATGAATTTCCGTATGGGCA-TTAT
1 GTGTGCAAAACTAAGAAATTCATACTAAGTGTATGAATTTCTGTATGGGCACTT-T
* *
4065165 GTGTGC-GAACTAAGAAATTCATACTAAGTGTATGAATTTTTGTATGGG
1 GTGTGCAAAACTAAGAAATTCATACTAAGTGTATGAATTTCTGTATGGG
4065213 AAACATATGA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
54 40 0.43
55 41 0.45
56 5 0.05
57 6 0.07
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (55 bp):
GTGTGCAAAACTAAGAAATTCATACTAAGTGTATGAATTTCTGTATGGGCACTTT
Found at i:4065762 original size:68 final size:68
Alignment explanation
Indices: 4065421--4065744 Score: 531
Period size: 68 Copynumber: 4.8 Consensus size: 68
4065411 TAAGATTAAT
** * *
4065421 AGGCCTAACTGTGCATCGGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGTCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
4065486 TTG
66 TTG
* *
4065489 AGGCCTAACTGTGCATTTGACATAAAGGTGTCATTTTTGCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
4065554 TTG
66 TTG
* * *
4065557 AGGCCTAACTGTGTATTTGACAGAAATGTGTCATTTACGCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
4065622 TTG
66 TTG
*
4065625 AGGCCTAACTGTGCATTTGACAGAAAGGTGTTATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
4065690 TTG
66 TTG
* * *
4065693 AGGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATTATGCTAGTTAGATGAA
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAA
4065745 CGGTTAAATA
Statistics
Matches: 237, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 237 1.00
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (68 bp):
AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
TTG
Found at i:4065951 original size:81 final size:81
Alignment explanation
Indices: 4065694--4066091 Score: 439
Period size: 81 Copynumber: 4.9 Consensus size: 81
4065684 GTGCCTTTGA
*
4065694 GGCCTA-ACTGTGCATTTGGCAGAAAGGTGTCAATTATGCTAGTTAGATGAACGGTTAAATACCG
1 GGCCTAGA-TGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCG
*
4065758 TTGAGTAAAATAAT-AAT
65 TTGAGTAAAA-GATGAAT
* * * * *
4065775 GGCCTAGATATGCATTTGGCAGAAATGTGACAATTATGCCAGTTAGATGAAC-TTTAAATATCGT
1 GGCCTAGATGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
4065839 TGAGTAAAAGATGAAT
66 TGAGTAAAAGATGAAT
* * *
4065855 GGTCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTATATGAACGGTTAAATACCGT
1 GGCCTAGATGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
4065920 TGAGTAAAAGATGAAT
66 TGAGTAAAAGATGAAT
** * * * * **
4065936 GGCCTATTTGTGCATTTGGCATAAAGGTGTCAATTATGCAAGTTAGATGAATGGTTAAACACTAT
1 GGCCTAGATGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
4066001 TGAGTAAAAGAAT-AAT
66 TGAGTAAAAG-ATGAAT
* * * * * * * * * * * *
4066017 GGACTGGCTGTGCATTTGACAGAGAGCGT-T-AAATATACAAGTTAGATTAAAGGCTAAATACCA
1 GGCCTAGATGTGCATTTGGCAGAAAG-GTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCG
*
4066080 TTGGGTAAAAGA
65 TTGAGTAAAAGA
4066092 ATAAAGGAAT
Statistics
Matches: 272, Mismatches: 40, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
79 3 0.01
80 104 0.38
81 160 0.59
82 5 0.02
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (81 bp):
GGCCTAGATGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
TGAGTAAAAGATGAAT
Found at i:4065972 original size:161 final size:161
Alignment explanation
Indices: 4065701--4066039 Score: 470
Period size: 161 Copynumber: 2.1 Consensus size: 161
4065691 TGAGGCCTAA
*
4065701 CTGTGCATTTGGCAGAAAGGTGTCAATTATGCTAGTTAGATGAACGGTTAAATACCGTTGAGTAA
1 CTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAA
* *
4065766 AATAATAATGGCCTAGATATGCATTTGGCAGAAATGTGACAATTATGCCAGTTAGATGAACT-TT
66 AATAATAATGGCCTAGATATGCATTTGGCAGAAAGGTGACAATTATGCAAGTTAGATGAA-TGTT
* * *
4065830 AAATA-TCGTTGAGTAAAAG-ATGAATGGTCTAG
130 AAACACT-ATTGAGTAAAAGAAT-AATGGACTAG
*
4065862 CTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTATATGAACGGTTAAATACCGTTGAGTAA
1 CTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAA
* ** * * *
4065927 AA-GATGAATGGCCTATTTGTGCATTTGGCATAAAGGTGTCAATTATGCAAGTTAGATGAATGGT
66 AATAAT-AATGGCCTAGATATGCATTTGGCAGAAAGGTGACAATTATGCAAGTTAGATGAAT-GT
*
4065991 TAAACACTATTGAGTAAAAGAATAATGGACTGG
129 TAAACACTATTGAGTAAAAGAATAATGGACTAG
*
4066024 CTGTGCATTTGACAGA
1 CTGTGCATTTGGCAGA
4066040 GAGCGTTAAA
Statistics
Matches: 158, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
160 3 0.02
161 112 0.71
162 40 0.25
163 3 0.02
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (161 bp):
CTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAA
AATAATAATGGCCTAGATATGCATTTGGCAGAAAGGTGACAATTATGCAAGTTAGATGAATGTTA
AACACTATTGAGTAAAAGAATAATGGACTAG
Found at i:4066077 original size:161 final size:160
Alignment explanation
Indices: 4065701--4066091 Score: 441
Period size: 161 Copynumber: 2.4 Consensus size: 160
4065691 TGAGGCCTAA
* * * *
4065701 CTGTGCATTTGGCAGAAAGGTGTCAATTATGCTAGTTAGATGAACGGTTAAATACCGTTGAGTAA
1 CTGTGCATTTGACAGAAAGGTGTCAAATATACAAGTTAGATGAACGGTTAAATACCGTTGAGTAA
* * *
4065766 AATAATAATGGCCTAGATATGCATTTGGCAGAAATGTGACAATTATGCCAGTTAGATGAACTTTA
66 AA-GATAATGGCCTAGATATGCATTTGGCAGAAAGGTGACAATTATGCAAGTTAGATGAACTTTA
* * *
4065831 AATATCGTTGAGTAAAAGATGAATGGTCTAG
130 AACATCATTGAGTAAAAGATGAATGGACTAG
* * * * *
4065862 CTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTATATGAACGGTTAAATACCGTTGAGTAA
1 CTGTGCATTTGACAGAAAGGTGTCAAATATACAAGTTAGATGAACGGTTAAATACCGTTGAGTAA
** * * *
4065927 AAGATGAATGGCCTATTTGTGCATTTGGCATAAAGGTGTCAATTATGCAAGTTAGATGAA-TGGT
66 AAGAT-AATGGCCTAGATATGCATTTGGCAGAAAGGTGACAATTATGCAAGTTAGATGAACT--T
*
4065991 TAAACA-CTATTGAGTAAAAGAAT-AATGGACTGG
128 TAAACATC-ATTGAGTAAAAG-ATGAATGGACTAG
* * * * * *
4066024 CTGTGCATTTGACAGAGAGCGT-T-AAATATACAAGTTAGATTAAAGGCTAAATACCATTGGGTA
1 CTGTGCATTTGACAGAAAG-GTGTCAAATATACAAGTTAGATGAACGGTTAAATACCGTTGAGTA
4066087 AAAGA
65 AAAGA
4066092 ATAAAGGAAT
Statistics
Matches: 199, Mismatches: 25, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
160 3 0.02
161 149 0.75
162 43 0.22
163 4 0.02
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (160 bp):
CTGTGCATTTGACAGAAAGGTGTCAAATATACAAGTTAGATGAACGGTTAAATACCGTTGAGTAA
AAGATAATGGCCTAGATATGCATTTGGCAGAAAGGTGACAATTATGCAAGTTAGATGAACTTTAA
ACATCATTGAGTAAAAGATGAATGGACTAG
Found at i:4066157 original size:2 final size:2
Alignment explanation
Indices: 4066150--4066224 Score: 150
Period size: 2 Copynumber: 37.5 Consensus size: 2
4066140 GAAGGGATGC
4066150 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4066192 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4066225 GTACAATAAT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 73 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4067986 original size:710 final size:709
Alignment explanation
Indices: 4066620--4068039 Score: 2362
Period size: 710 Copynumber: 2.0 Consensus size: 709
4066610 ATATCTTTAC
*
4066620 AATATTATGTCTCACTAAGTAAATACTTAACGTGTGTTGATTTTACGCGTAGGTAAAGACAAAGA
1 AATATGATGTCTCACTAAGTAAATACTTAACGTGTGTTGATTTTACGCGTAGGTAAAGACAAAGA
* * * *
4066685 TTAGTTGCGTAAGGAGTATAGTAGTAGCATCAGCTTTCATCAATTAAAGGTTGACTCATCAGTAA
66 TTAGTTGCATAAGGAGTACAGCAGTAGCAGCAGCTTTCATCAATTAAAGGTTGACTCATCAGTAA
* * *
4066750 CATTATGAAATCTTATTCATTTTGAGAACTTTGTTGGCTTGTAATTAAACTATAGTAAATATTTT
131 CATTATGAAATCTTATTCATTTTGAGAACTTAGTTGGCATGAAATTAAACTATAGTAAATATTTT
* *
4066815 GTAATATACTTAAGTGATAGTTTTAGTATTTTACTTCTATGAATATCATATTTTGTAGTTGTTCA
196 GTAATATACATAAGTGATAGTTTTAGTATTTTACTTCTATAAATATCATATTTTGTAGTTGTTCA
* * *
4066880 AATTAAAACAAAATTTTATGGGTTTTCAAATGAAAAAATGTTTTATAAAGTGATGTGACCTTTGT
261 AATTAAAACAAAATTTGACGGGTTTTAAAATGAAAAAATGTTTTATAAAGTGATGTGACCTTTGT
*
4066945 ATCTCGTGTACGGAAAGGTATACGAGATATGGGTGTTACAAGAAAGATGTCCATGGTTTTAAGGA
326 ATCTCGTGTACGAAAAGGTATACGAGATATGGGTGTTACAAGAAAGATGTCCATGGTTTTAAGGA
* *
4067010 CATACCCATGAGAACTAAATTCTTGTCAGATGGATAGTTGTGTGAAGTATGTCATCATTTACACA
391 CATACCCATGAGAACTAAATTCTTGTCAGAGGGATAGTTGTGTGAAGTATGTCATCATTTACAAA
4067075 AATGACAGAACAGCTTAAGGACATCGCATCTACTGTTTAACCAGTAAAGTAAATATACTTTCACA
456 AATGACAGAACAGCTTAAGGACATCGCATCTACTGTTTAACCAGTAAAGTAAATATACTTTCACA
*
4067140 AGGGAAGGTTCAAATGAAGACACCTACCTATCCTATGCAACTATCTATCATAGAGGTTATCACCT
521 AGGGAAGGTTCAAAGGAAGACACCTACCTATCCTATGCAACTATCTATCATAGAGGTTATCACCT
* *
4067205 CATTGTGCCGAATGTTTTTGATTAAATCATCAATTTCATTCATGTGGGAGATTGTTGGAAAAAAG
586 CATCGTGCCGAATGTTTTTGATTAAAGCATCAATTTCATTCATGTGGGAGATTGTTGGAAAAAAG
* * *
4067270 GTGAATTTAGTTGATGTATTTAATGTTTATATTAAAATATAACTTTTAATTTGAATATT
651 GTGAATTTAATTGATGAATTTAATATTTATATTAAAATATAACTTTTAATTTGAATATT
*
4067329 AATATGATGTCTCACTAAGTAAATACTTAACGTGTGTTGATTTTACGTGTAGGTAAAGACAAAGA
1 AATATGATGTCTCACTAAGTAAATACTTAACGTGTGTTGATTTTACGCGTAGGTAAAGACAAAGA
* *
4067394 TTAGTTTCATAAGGAGTGCAGCAGTAGCAGCAG-TTTCATCAATTAAAGGTTGACTCATCAGTAA
66 TTAGTTGCATAAGGAGTACAGCAGTAGCAGCAGCTTTCATCAATTAAAGGTTGACTCATCAGTAA
4067458 CATTATGACAATCTTATTCATTTTTGAGAACTTAGTTGGCATGAAATTAAACTATAGTAAATATT
131 CATTATGA-AATCTTATTCA-TTTTGAGAACTTAGTTGGCATGAAATTAAACTATAGTAAATATT
* *
4067523 TTGTAATGTACATAAGTGATAGTTTTAGTA-TTTGCTTCTATAAATATCATATTTTGTAGTTGTT
194 TTGTAATATACATAAGTGATAGTTTTAGTATTTTACTTCTATAAATATCATATTTTGTAGTTGTT
* * * *
4067587 CAAATTGAAATAAAATTTGACGGGTTTTTAAAATTACAAAATGTTTTATAAAGTGATGTGACCTT
259 CAAATTAAAACAAAATTTGACGGG-TTTTAAAATGAAAAAATGTTTTATAAAGTGATGTGACCTT
* *
4067652 TGTATCTCGTGTACGAAAAGGTATACGGGATATGGGTGTTACAAGGAAGATGTCCATGGTTTTAA
323 TGTATCTCGTGTACGAAAAGGTATACGAGATATGGGTGTTACAAGAAAGATGTCCATGGTTTTAA
* *
4067717 GGACATACCCATGAGAACTAAATTCTTGTCAGAGGGGTAGTTGTGTGAAGTATGTCATCGTTTAC
388 GGACATACCCATGAGAACTAAATTCTTGTCAGAGGGATAGTTGTGTGAAGTATGTCATCATTTAC
* *
4067782 AAAAATGACAGAACAG-TTCAAGGACATTGCATCTATTGTTTAACCAGTAAAGTAAATATACTTT
453 AAAAATGACAGAACAGCTT-AAGGACATCGCATCTACTGTTTAACCAGTAAAGTAAATATACTTT
* * *
4067846 CACAAGGGAAGGTTCAAAGGAGGACATCTACCTATCCTATGCAACTATCTATCGTAGAGGTTATC
517 CACAAGGGAAGGTTCAAAGGAAGACACCTACCTATCCTATGCAACTATCTATCATAGAGGTTATC
* *
4067911 A-CTACATCGTGTCGAATGTTTTTGATTAAAGCATCAATTTCATTCATGTGGGGGATTGTTGGAA
582 ACCT-CATCGTGCCGAATGTTTTTGATTAAAGCATCAATTTCATTCATGTGGGAGATTGTTGGAA
* * *
4067975 AAAATGTGAATTTAATTGATGAATTTAATATTTATATTAAAATGTAATTTTTAATTTGAATATT
646 AAAAGGTGAATTTAATTGATGAATTTAATATTTATATTAAAATATAACTTTTAATTTGAATATT
4068039 A
1 A
4068040 GTACGATAAT
Statistics
Matches: 661, Mismatches: 45, Indels: 9
0.92 0.06 0.01
Matches are distributed among these distances:
708 39 0.06
709 157 0.24
710 465 0.70
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (709 bp):
AATATGATGTCTCACTAAGTAAATACTTAACGTGTGTTGATTTTACGCGTAGGTAAAGACAAAGA
TTAGTTGCATAAGGAGTACAGCAGTAGCAGCAGCTTTCATCAATTAAAGGTTGACTCATCAGTAA
CATTATGAAATCTTATTCATTTTGAGAACTTAGTTGGCATGAAATTAAACTATAGTAAATATTTT
GTAATATACATAAGTGATAGTTTTAGTATTTTACTTCTATAAATATCATATTTTGTAGTTGTTCA
AATTAAAACAAAATTTGACGGGTTTTAAAATGAAAAAATGTTTTATAAAGTGATGTGACCTTTGT
ATCTCGTGTACGAAAAGGTATACGAGATATGGGTGTTACAAGAAAGATGTCCATGGTTTTAAGGA
CATACCCATGAGAACTAAATTCTTGTCAGAGGGATAGTTGTGTGAAGTATGTCATCATTTACAAA
AATGACAGAACAGCTTAAGGACATCGCATCTACTGTTTAACCAGTAAAGTAAATATACTTTCACA
AGGGAAGGTTCAAAGGAAGACACCTACCTATCCTATGCAACTATCTATCATAGAGGTTATCACCT
CATCGTGCCGAATGTTTTTGATTAAAGCATCAATTTCATTCATGTGGGAGATTGTTGGAAAAAAG
GTGAATTTAATTGATGAATTTAATATTTATATTAAAATATAACTTTTAATTTGAATATT
Found at i:4068170 original size:64 final size:63
Alignment explanation
Indices: 4068099--4068358 Score: 155
Period size: 58 Copynumber: 4.1 Consensus size: 63
4068089 CTTTTTAATT
*
4068099 TTTGAATATTAAAAGATAATTATATACTTTTGTATATTTCAAATTAAAATAATATATGTTTAAG
1 TTTGAATATTAAAAGATAATTATATACTTTTGTATATTTCAAATTAAAATAATAT-TATTTAAG
* * * * * *
4068163 TTTGAATAGTAAAA-AGAGTT-TA-CCTTTTG-ACCATTACAAATT-AAAT-ATATTATTTAA-
1 TTTGAATATTAAAAGATAATTATATACTTTTGTA-TATTTCAAATTAAAATAATATTATTTAAG
* * * * * * * ** *
4068220 TTTGAATGTTAGTAGGATAATTA-CT-C-TTTGAATATGTCAATTTAAAAAGCTTTTTGTTTCCT
1 TTTGAATATTA-AAAGATAATTATATACTTTTGTATATTTCAAATT-AAAA-----TAATAT--T
* *
4068282 TTTTAAC
57 ATTTAAG
*
4068289 TTTGAATATT-AAAGATAATTATATACTTTTGTATATTTCAAATGAAAATAATATCTATTTAAG
1 TTTGAATATTAAAAGATAATTATATACTTTTGTATATTTCAAATTAAAATAATAT-TATTTAAG
4068352 TTTGAAT
1 TTTGAAT
4068359 GGTAAATAGA
Statistics
Matches: 142, Mismatches: 34, Indels: 41
0.65 0.16 0.19
Matches are distributed among these distances:
57 9 0.06
58 18 0.13
59 10 0.07
60 8 0.06
61 15 0.11
62 2 0.01
63 18 0.13
64 16 0.11
65 1 0.01
66 2 0.01
67 9 0.06
68 7 0.05
69 14 0.10
70 13 0.09
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.45
Consensus pattern (63 bp):
TTTGAATATTAAAAGATAATTATATACTTTTGTATATTTCAAATTAAAATAATATTATTTAAG
Found at i:4068352 original size:189 final size:191
Alignment explanation
Indices: 4068024--4068372 Score: 560
Period size: 189 Copynumber: 1.8 Consensus size: 191
4068014 AAATGTAATT
* *
4068024 TTTAATTTGAATATTAGTACGATAATTACTCTTTTAATAAGTCAATTTAAAAAGGTATTTGTTAT
1 TTTAATTTGAATATTAGTACGATAATTACTCTTTGAATAAGTCAATTTAAAAAGCTATTTGTTAT
* *
4068089 CTTTTTAATTTTTGAATATTAAAAGATAATTATATACTTTTGTATATTTCAAATTAAAATAATAT
66 CTTTTTAATCTTTGAATATTAAAAGATAATTATATACTTTTGTATATTTCAAATGAAAATAATAT
*
4068154 ATGTTTAAGTTTGAATAGTAAAAAGAGTTTACCTTTTGACCATTACAAATTAAATATATTA
131 ATATTTAAGTTTGAATAGTAAAAAGAGTTTACCTTTTGACCATTACAAATTAAATATATTA
* * * *
4068215 TTTAATTTGAATGTTAGTAGGATAATTACTCTTTGAATATGTCAATTTAAAAAGCTTTTTGTT-T
1 TTTAATTTGAATATTAGTACGATAATTACTCTTTGAATAAGTCAATTTAAAAAGCTATTTGTTAT
4068279 CCTTTTTAA-CTTTGAATATT-AAAGATAATTATATACTTTTGTATATTTCAAATGAAAATAATA
66 -CTTTTTAATCTTTGAATATTAAAAGATAATTATATACTTTTGTATATTTCAAATGAAAATAATA
* * *
4068342 TCTATTTAAGTTTGAATGGTAAATAGAGTTT
130 TATATTTAAGTTTGAATAGTAAAAAGAGTTT
4068373 TATGTTTTGA
Statistics
Matches: 145, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
189 69 0.48
190 11 0.08
191 65 0.45
ACGTcount: A:0.38, C:0.06, G:0.10, T:0.46
Consensus pattern (191 bp):
TTTAATTTGAATATTAGTACGATAATTACTCTTTGAATAAGTCAATTTAAAAAGCTATTTGTTAT
CTTTTTAATCTTTGAATATTAAAAGATAATTATATACTTTTGTATATTTCAAATGAAAATAATAT
ATATTTAAGTTTGAATAGTAAAAAGAGTTTACCTTTTGACCATTACAAATTAAATATATTA
Found at i:4077928 original size:32 final size:32
Alignment explanation
Indices: 4077873--4077947 Score: 96
Period size: 32 Copynumber: 2.3 Consensus size: 32
4077863 GCGTAGGAGT
* *
4077873 CTACCCAAGGGAGTACCTTGGGGCCTAAGAGC
1 CTACCCAAGGGAGCACCTCGGGGCCTAAGAGC
* * * *
4077905 TTACCCAATGGAGCATCTCGGGGCCTATGAGC
1 CTACCCAAGGGAGCACCTCGGGGCCTAAGAGC
4077937 CTACCCAAGGG
1 CTACCCAAGGG
4077948 TCACCTTAGA
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:0.29, G:0.29, T:0.17
Consensus pattern (32 bp):
CTACCCAAGGGAGCACCTCGGGGCCTAAGAGC
Found at i:4080089 original size:90 final size:90
Alignment explanation
Indices: 4079968--4080143 Score: 298
Period size: 90 Copynumber: 2.0 Consensus size: 90
4079958 TAATCTCAAA
* * * * *
4079968 TATTTAATTTCAATTAATTAAATATATATTTAATTATTTTGAAATAATAAAATCCCTAATATGAT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAT
4080033 TAGGGTAACTTGGATATAAAATGAT
66 TAGGGTAACTTGGATATAAAATGAT
4080058 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAT
*
4080123 TAGGGTAACTTGGCTATAAAA
66 TAGGGTAACTTGGATATAAAA
4080144 GGGTGTGTTA
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
90 80 1.00
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (90 bp):
TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAT
TAGGGTAACTTGGATATAAAATGAT
Found at i:4088092 original size:27 final size:26
Alignment explanation
Indices: 4088062--4088121 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
4088052 TTAATGGAAG
*
4088062 AAAATGACCAAAATATCCTTGAACTCT
1 AAAATGACCAAAAT-GCCTTGAACTCT
* * *
4088089 AAAAAGGCCAAAATGGCTTGAACTCT
1 AAAATGACCAAAATGCCTTGAACTCT
4088115 AAAATGA
1 AAAATGA
4088122 TCGAAGTAAC
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 15 0.56
27 12 0.44
ACGTcount: A:0.47, C:0.18, G:0.13, T:0.22
Consensus pattern (26 bp):
AAAATGACCAAAATGCCTTGAACTCT
Found at i:4092212 original size:19 final size:19
Alignment explanation
Indices: 4092177--4092213 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4092167 ATGGCCAACA
* *
4092177 AAATCGCAATGCTATCTCT
1 AAATCGCAACGCGATCTCT
4092196 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
4092214 CAGTATCGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:4092305 original size:42 final size:42
Alignment explanation
Indices: 4092266--4092411 Score: 172
Period size: 42 Copynumber: 3.5 Consensus size: 42
4092256 CTATCGCATT
*
4092266 GCGATTTTACAAAATCGCAACGCGAATTTGGAAAATCGCAAC
1 GCGAATTTACAAAATCGCAACGCGAATTTGGAAAATCGCAAC
**
4092308 GCGAATTTGGAAAATCGCAACGCGAATTTGGAAAATCGCAAC
1 GCGAATTTACAAAATCGCAACGCGAATTTGGAAAATCGCAAC
* ** * *
4092350 GCGAATAT-GTAAATCGCAACGCGAATAT-GTAAATCGCAAC
1 GCGAATTTACAAAATCGCAACGCGAATTTGGAAAATCGCAAC
* *
4092390 GCG-ATAATACATAATCGCAACG
1 GCGAAT-TTACAAAATCGCAACG
4092412 ACTGTCGCAA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 2 0.02
40 16 0.17
41 28 0.30
42 46 0.50
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.20
Consensus pattern (42 bp):
GCGAATTTACAAAATCGCAACGCGAATTTGGAAAATCGCAAC
Found at i:4092365 original size:20 final size:21
Alignment explanation
Indices: 4092276--4092393 Score: 186
Period size: 21 Copynumber: 5.7 Consensus size: 21
4092266 GCGATTTTAC
4092276 AAAATCGCAACGCGAATTTGG
1 AAAATCGCAACGCGAATTTGG
4092297 AAAATCGCAACGCGAATTTGG
1 AAAATCGCAACGCGAATTTGG
4092318 AAAATCGCAACGCGAATTTGG
1 AAAATCGCAACGCGAATTTGG
*
4092339 AAAATCGCAACGCGAATAT-G
1 AAAATCGCAACGCGAATTTGG
* *
4092359 TAAATCGCAACGCGAATAT-G
1 AAAATCGCAACGCGAATTTGG
*
4092379 TAAATCGCAACGCGA
1 AAAATCGCAACGCGA
4092394 TAATACATAA
Statistics
Matches: 95, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
20 35 0.37
21 60 0.63
ACGTcount: A:0.40, C:0.20, G:0.22, T:0.18
Consensus pattern (21 bp):
AAAATCGCAACGCGAATTTGG
Found at i:4093294 original size:24 final size:24
Alignment explanation
Indices: 4093243--4093296 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
4093233 GTATTCGAAA
*
4093243 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCAGAC
* *
4093267 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
4093291 TTTGAT
1 TTTGAT
4093297 GAAGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:4093504 original size:12 final size:13
Alignment explanation
Indices: 4093489--4093521 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
4093479 AAAAGAATAA
4093489 GAAGAAA-TCCCC
1 GAAGAAAGTCCCC
4093501 GAAGAAAAGTCCCC
1 GAAG-AAAGTCCCC
4093515 GAAGAAA
1 GAAGAAA
4093522 ATGCCACTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 4 0.21
13 6 0.32
14 9 0.47
ACGTcount: A:0.48, C:0.24, G:0.21, T:0.06
Consensus pattern (13 bp):
GAAGAAAGTCCCC
Found at i:4093515 original size:14 final size:14
Alignment explanation
Indices: 4093496--4093522 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4093486 TAAGAAGAAA
4093496 TCCCCGAAGAAAAG
1 TCCCCGAAGAAAAG
4093510 TCCCCGAAGAAAA
1 TCCCCGAAGAAAA
4093523 TGCCACTGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.30, G:0.19, T:0.07
Consensus pattern (14 bp):
TCCCCGAAGAAAAG
Found at i:4095570 original size:18 final size:18
Alignment explanation
Indices: 4095547--4095581 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
4095537 AGAAAAAGGT
*
4095547 AATCAAAATCGCAATCAA
1 AATCAAAATCCCAATCAA
4095565 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
4095582 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.26, G:0.03, T:0.17
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:4095891 original size:140 final size:140
Alignment explanation
Indices: 4095639--4095921 Score: 539
Period size: 140 Copynumber: 2.0 Consensus size: 140
4095629 GCAAACGTTG
4095639 TATTATGTGTATTTTATGTGTAAACTTTTAACATATCCAGTTAGGCATGTATTAGTAACTTGAGT
1 TATTATGTGTATTTTATGTGTAAACTTTTAACATATCCAGTTAGGCATGTATTAGTAACTTGAGT
4095704 TTGAACATTGCTATGATCTGTTCAATTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
66 TTGAACATTGCTATGATCTGTTCAATTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
4095769 CGAATTTGAC
131 CGAATTTGAC
* *
4095779 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
1 TATTATGTGTATTTTATGTGTAAACTTTTAACATATCCAGTTAGGCATGTATTAGTAACTTGAGT
*
4095844 TTGAACATTGCTATGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
66 TTGAACATTGCTATGATCTGTTCAATTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
4095909 CGAATTTGAC
131 CGAATTTGAC
4095919 TAT
1 TAT
4095922 CGCAACGCGA
Statistics
Matches: 140, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
140 140 1.00
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (140 bp):
TATTATGTGTATTTTATGTGTAAACTTTTAACATATCCAGTTAGGCATGTATTAGTAACTTGAGT
TTGAACATTGCTATGATCTGTTCAATTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
CGAATTTGAC
Found at i:4095917 original size:20 final size:20
Alignment explanation
Indices: 4095892--4096042 Score: 197
Period size: 20 Copynumber: 7.8 Consensus size: 20
4095882 TTACACATTC
*
4095892 ATTTGAATATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
4095912 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
4095932 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
4095952 ATTTGATTATCGCAACTC-A
1 ATTTGACTATCGCAACGCGA
*
4095971 A----A-AATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
4095986 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
4096006 ATTTGACTATCGCAACGGGT
1 ATTTGACTATCGCAACGCGA
*
4096026 ATTTGACTATTGCAACG
1 ATTTGACTATCGCAACG
4096043 AGAAAATCAC
Statistics
Matches: 116, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
14 9 0.08
15 3 0.03
19 3 0.03
20 101 0.87
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:4096021 original size:74 final size:74
Alignment explanation
Indices: 4095900--4096091 Score: 271
Period size: 74 Copynumber: 2.6 Consensus size: 74
4095890 TCATTTGAAT
*
4095900 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGC
1 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGC
4095965 AACTCA-AAA
66 AAC-CAGAAA
* * *
4095974 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGGGTATTTGACTATTGC
1 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGC
*
4096039 AACGAGAAA
66 AACCAGAAA
* * * * *
4096048 ATCACAAAGCGTATTAGACTATCGCAACGCGAA-TTGACTTTCGC
1 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGC
4096092 GTTGCGATTT
Statistics
Matches: 107, Mismatches: 10, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
73 11 0.10
74 96 0.90
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.24
Consensus pattern (74 bp):
ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGC
AACCAGAAA
Found at i:4096110 original size:20 final size:20
Alignment explanation
Indices: 4096085--4096123 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4096075 CGCGAATTGA
* *
4096085 CTTTCGCGTTGCGATTTTGG
1 CTTTCGCATTACGATTTTGG
4096105 CTTTCGCATTACGATTTTG
1 CTTTCGCATTACGATTTTG
4096124 AGTTTAGCGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.10, C:0.21, G:0.23, T:0.46
Consensus pattern (20 bp):
CTTTCGCATTACGATTTTGG
Found at i:4096276 original size:29 final size:28
Alignment explanation
Indices: 4096242--4096296 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
4096232 ATAAGAATTA
*
4096242 TTTACACATCAATATTAAACAAATCAACT
1 TTTACAAATCAAT-TTAAACAAATCAACT
**
4096271 TTTACAAATCAATTTTTACAAATCAA
1 TTTACAAATCAATTTAAACAAATCAA
4096297 TTAAACAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (28 bp):
TTTACAAATCAATTTAAACAAATCAACT
Found at i:4096297 original size:14 final size:14
Alignment explanation
Indices: 4096237--4096298 Score: 70
Period size: 14 Copynumber: 4.3 Consensus size: 14
4096227 CACAAATAAG
*
4096237 AATTATTTACACATC
1 AATT-TTTACAAATC
**
4096252 AATATTAAACAAATC
1 AAT-TTTTACAAATC
*
4096267 AACTTTTACAAATC
1 AATTTTTACAAATC
4096281 AATTTTTACAAATC
1 AATTTTTACAAATC
4096295 AATT
1 AATT
4096299 AAACAAGAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
14 26 0.67
15 12 0.31
16 1 0.03
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (14 bp):
AATTTTTACAAATC
Found at i:4097476 original size:42 final size:42
Alignment explanation
Indices: 4097417--4097508 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 42
4097407 ATGAATCGGG
4097417 CTCTTGAATGGTGGGA-GGGATCTCTTCAACGATGACAGGGGC
1 CTCTTGAATGGTGGGAGGGGA-CTCTTCAACGATGACAGGGGC
* ** *
4097459 CTCTTGAATGGTGGGAGGGGACTCTTGAGGGATGATAGGGGC
1 CTCTTGAATGGTGGGAGGGGACTCTTCAACGATGACAGGGGC
*
4097501 CCCTTGAA
1 CTCTTGAA
4097509 CGATAGGAGA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 40 0.91
43 4 0.09
ACGTcount: A:0.21, C:0.17, G:0.38, T:0.24
Consensus pattern (42 bp):
CTCTTGAATGGTGGGAGGGGACTCTTCAACGATGACAGGGGC
Found at i:4097477 original size:21 final size:21
Alignment explanation
Indices: 4097417--4097531 Score: 70
Period size: 21 Copynumber: 5.5 Consensus size: 21
4097407 ATGAATCGGG
**
4097417 CTCTTGAATGGTGGGAGGGAT
1 CTCTTGAATGGTGGGAGGGGC
* * * **
4097438 CTCTTCAACGATGACAGGGGC
1 CTCTTGAATGGTGGGAGGGGC
*
4097459 CTCTTGAATGGTGGGAGGGGA
1 CTCTTGAATGGTGGGAGGGGC
* **
4097480 CTCTTG-AGGGATGATAGGGGC
1 CTCTTGAATGG-TGGGAGGGGC
* * * * *
4097501 CCCTTGAACGATAGGAGAGGC
1 CTCTTGAATGGTGGGAGGGGC
4097522 CTCTTGAATG
1 CTCTTGAATG
4097532 ATGACAGGTG
Statistics
Matches: 66, Mismatches: 26, Indels: 4
0.69 0.27 0.04
Matches are distributed among these distances:
20 3 0.05
21 61 0.92
22 2 0.03
ACGTcount: A:0.22, C:0.17, G:0.37, T:0.23
Consensus pattern (21 bp):
CTCTTGAATGGTGGGAGGGGC
Found at i:4097526 original size:42 final size:42
Alignment explanation
Indices: 4097447--4097539 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 42
4097437 TCTCTTCAAC
* * * * *
4097447 GATGACAGGGGCCTCTTGAATGGTGGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCCCTTGAACGATAGGAGAGGACTCTTGAGG
* * **
4097489 GATGATAGGGGCCCCTTGAACGATAGGAGAGGCCTCTTGAAT
1 GATGACAGGGGCCCCTTGAACGATAGGAGAGGACTCTTGAGG
4097531 GATGACAGG
1 GATGACAGG
4097540 TGAGTCGGGC
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.24, C:0.16, G:0.40, T:0.20
Consensus pattern (42 bp):
GATGACAGGGGCCCCTTGAACGATAGGAGAGGACTCTTGAGG
Found at i:4098047 original size:19 final size:20
Alignment explanation
Indices: 4098015--4098057 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
4098005 AATAGTTTCT
4098015 GAAACTTAAAATCGCAACAC
1 GAAACTTAAAATCGCAACAC
*
4098035 GAAACTT-AAATCGCAACGC
1 GAAACTTAAAATCGCAACAC
4098054 GAAA
1 GAAA
4098058 ATCGCAACGC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.49, C:0.23, G:0.14, T:0.14
Consensus pattern (20 bp):
GAAACTTAAAATCGCAACAC
Found at i:4098061 original size:14 final size:14
Alignment explanation
Indices: 4098042--4098070 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
4098032 CACGAAACTT
4098042 AAATCGCAACGCGA
1 AAATCGCAACGCGA
4098056 AAATCGCAACGCGA
1 AAATCGCAACGCGA
4098070 A
1 A
4098071 TTTGACTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.28, G:0.21, T:0.07
Consensus pattern (14 bp):
AAATCGCAACGCGA
Found at i:4098123 original size:19 final size:20
Alignment explanation
Indices: 4098091--4098129 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
4098081 GCAACGGGAT
*
4098091 AATCGCAATACGAAA-TAAA
1 AATCGCAACACGAAACTAAA
*
4098110 AATCGCAACGCGAAACTAAA
1 AATCGCAACACGAAACTAAA
4098130 TTCGCGTTGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.54, C:0.21, G:0.13, T:0.13
Consensus pattern (20 bp):
AATCGCAACACGAAACTAAA
Found at i:4098246 original size:20 final size:20
Alignment explanation
Indices: 4098223--4098269 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
4098213 CAACTTCTCA
4098223 TTGCGATAGTCATTTCCGCG
1 TTGCGATAGTCATTTCCGCG
*
4098243 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTCCGCG
4098263 TTGCGAT
1 TTGCGAT
4098270 TTAAGTTTCG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.15, C:0.21, G:0.26, T:0.38
Consensus pattern (20 bp):
TTGCGATAGTCATTTCCGCG
Found at i:4100204 original size:20 final size:19
Alignment explanation
Indices: 4100181--4100247 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 19
4100171 GAAACTTAAA
4100181 ATCGCAACACGAAAATGACT
1 ATCGCAACACG-AAATGACT
* **
4100201 ATCGCAACGCGAAATGAAA
1 ATCGCAACACGAAATGACT
4100220 ATCGCAACACGTAAATGACT
1 ATCGCAACACG-AAATGACT
4100240 ATCGCAAC
1 ATCGCAAC
4100248 GTGAATTTGA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
19 16 0.40
20 24 0.60
ACGTcount: A:0.43, C:0.25, G:0.16, T:0.15
Consensus pattern (19 bp):
ATCGCAACACGAAATGACT
Found at i:4100658 original size:22 final size:22
Alignment explanation
Indices: 4100631--4100681 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
4100621 GATGGAGATA
4100631 GATGGATTTCGCCGGAGATGGG
1 GATGGATTTCGCCGGAGATGGG
*
4100653 GATGGATTTCGTCGGAGATGGG
1 GATGGATTTCGCCGGAGATGGG
*
4100675 GACGGAT
1 GATGGAT
4100682 GTCGTCGTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.12, G:0.45, T:0.24
Consensus pattern (22 bp):
GATGGATTTCGCCGGAGATGGG
Found at i:4100686 original size:22 final size:22
Alignment explanation
Indices: 4100634--4100688 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
4100624 GGAGATAGAT
* *
4100634 GGATTTCGCCGGAGATGGGGAT
1 GGATTTCGTCGGAGATGGGGAC
4100656 GGATTTCGTCGGAGATGGGGAC
1 GGATTTCGTCGGAGATGGGGAC
*
4100678 GGATGTCGTCG
1 GGATTTCGTCG
4100689 TAGAGAGTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.16, C:0.15, G:0.45, T:0.24
Consensus pattern (22 bp):
GGATTTCGTCGGAGATGGGGAC
Found at i:4100850 original size:21 final size:21
Alignment explanation
Indices: 4100826--4100941 Score: 96
Period size: 21 Copynumber: 5.6 Consensus size: 21
4100816 CGCTTTGAAA
*
4100826 ATCGCATTGCGATTTTGTATT
1 ATCGCGTTGCGATTTTGTATT
* **
4100847 ATCGCGTTGCGA--TAGTCAGA
1 ATCGCGTTGCGATTTTGT-ATT
*
4100867 ATCGCGTTGCGATTATGTATT
1 ATCGCGTTGCGATTTTGTATT
* * **
4100888 ATCGCGTTGTGA--TAGTCAGA
1 ATCGCGTTGCGATTTTGT-ATT
*
4100908 ATCGCGTTGCGATTATGTATT
1 ATCGCGTTGCGATTTTGTATT
4100929 ATCGCGTTGCGAT
1 ATCGCGTTGCGAT
4100942 AGTCAGAATC
Statistics
Matches: 71, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
19 5 0.07
20 25 0.35
21 37 0.52
22 4 0.06
ACGTcount: A:0.21, C:0.16, G:0.26, T:0.37
Consensus pattern (21 bp):
ATCGCGTTGCGATTTTGTATT
Found at i:4100872 original size:20 final size:20
Alignment explanation
Indices: 4100847--4101000 Score: 143
Period size: 20 Copynumber: 7.6 Consensus size: 20
4100837 ATTTTGTATT
4100847 ATCGCGTTGCGATAGTCAGA
1 ATCGCGTTGCGATAGTCAGA
**
4100867 ATCGCGTTGCGATTATGT-ATT
1 ATCGCGTTGCGA-TA-GTCAGA
*
4100888 ATCGCGTTGTGATAGTCAGA
1 ATCGCGTTGCGATAGTCAGA
**
4100908 ATCGCGTTGCGATTATGT-ATT
1 ATCGCGTTGCGA-TA-GTCAGA
4100929 ATCGCGTTGCGATAGTCAGA
1 ATCGCGTTGCGATAGTCAGA
* *
4100949 ATCGCGTTGCGAT-TTACATA
1 ATCGCGTTGCGATAGT-CAGA
* * * *
4100969 TTCACATTGCGATAGTCAAA
1 ATCGCGTTGCGATAGTCAGA
4100989 ATCGCGTTGCGA
1 ATCGCGTTGCGA
4101001 ATCTGGAAAC
Statistics
Matches: 106, Mismatches: 20, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
19 5 0.05
20 67 0.63
21 30 0.28
22 4 0.04
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.32
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGA
Found at i:4100886 original size:41 final size:41
Alignment explanation
Indices: 4100825--4101000 Score: 257
Period size: 41 Copynumber: 4.3 Consensus size: 41
4100815 GCGCTTTGAA
* *
4100825 AATCGCATTGCGATTTTGTATTATCGCGTTGCGATAGTCAG
1 AATCGCGTTGCGATTATGTATTATCGCGTTGCGATAGTCAG
*
4100866 AATCGCGTTGCGATTATGTATTATCGCGTTGTGATAGTCAG
1 AATCGCGTTGCGATTATGTATTATCGCGTTGCGATAGTCAG
4100907 AATCGCGTTGCGATTATGTATTATCGCGTTGCGATAGTCAG
1 AATCGCGTTGCGATTATGTATTATCGCGTTGCGATAGTCAG
** * * *
4100948 AATCGCGTTGCGATT-TACA-TATTCACATTGCGATAGTCAA
1 AATCGCGTTGCGATTATGTATTA-TCGCGTTGCGATAGTCAG
4100988 AATCGCGTTGCGA
1 AATCGCGTTGCGA
4101001 ATCTGGAAAC
Statistics
Matches: 125, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 2 0.02
40 30 0.24
41 93 0.74
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (41 bp):
AATCGCGTTGCGATTATGTATTATCGCGTTGCGATAGTCAG
Found at i:4101038 original size:20 final size:19
Alignment explanation
Indices: 4101015--4101060 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
4101005 GGAAACTAAT
* *
4101015 TTGCGATACTGGAGATCGCG
1 TTGCGAT-CTAGAGATCGCA
*
4101035 TTGCGATTTAGAGATCGCA
1 TTGCGATCTAGAGATCGCA
4101054 TTGCGAT
1 TTGCGAT
4101061 TTTGTTGGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.30
Consensus pattern (19 bp):
TTGCGATCTAGAGATCGCA
Found at i:4101050 original size:19 final size:19
Alignment explanation
Indices: 4101026--4101062 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
4101016 TGCGATACTG
*
4101026 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
4101045 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
4101063 TGTTGGTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:4101662 original size:21 final size:22
Alignment explanation
Indices: 4101632--4101675 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
4101622 TTTTTTAATT
*
4101632 TTATTAAATTT-AAACATATTA
1 TTATTAAATTTCAAAAATATTA
*
4101653 TTATTTAATTTCAAAAATATTA
1 TTATTAAATTTCAAAAATATTA
4101675 T
1 T
4101676 CTTATAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (22 bp):
TTATTAAATTTCAAAAATATTA
Found at i:4101912 original size:53 final size:52
Alignment explanation
Indices: 4101875--4101993 Score: 159
Period size: 53 Copynumber: 2.2 Consensus size: 52
4101865 TTATTATAAG
* *
4101875 CATTTTTTATCCAATGTAATTTTAAATGTTTTTATTAAAATTATAGTTGTCAA
1 CATTTTTTATCCAATGTAATTTTAAATATTTTTATT-AAATTATAGTTATCAA
* *
4101928 CATTTTTTATCCAATGTGATTTTAAATATTTTTATTAAAATTATAATTATC-A
1 CATTTTTTATCCAATGTAATTTTAAATATTTTTATT-AAATTATAGTTATCAA
4101980 CTATGTTTTTATCC
1 C-AT-TTTTTATCC
4101994 GATACAATTT
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
52 2 0.03
53 49 0.82
54 9 0.15
ACGTcount: A:0.33, C:0.09, G:0.06, T:0.52
Consensus pattern (52 bp):
CATTTTTTATCCAATGTAATTTTAAATATTTTTATTAAATTATAGTTATCAA
Found at i:4111452 original size:17 final size:18
Alignment explanation
Indices: 4111413--4111459 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
4111403 TGTTTCTGAG
4111413 GGAATTGGAATCTGTGAA
1 GGAATTGGAATCTGTGAA
*
4111431 GGAATTGGAATCTGT-CA
1 GGAATTGGAATCTGTGAA
4111448 GGAATTGGAATC
1 GGAATTGGAATC
4111460 CGATTCCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 13 0.46
18 15 0.54
ACGTcount: A:0.32, C:0.09, G:0.32, T:0.28
Consensus pattern (18 bp):
GGAATTGGAATCTGTGAA
Found at i:4112056 original size:15 final size:16
Alignment explanation
Indices: 4112031--4112068 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
4112021 TTTACCCTAA
*
4112031 ACCCGAACCCGACCCG
1 ACCCGAACCCGAACCG
4112047 ACCC-AACCCGAACCG
1 ACCCGAACCCGAACCG
4112062 ACCCGAA
1 ACCCGAA
4112069 TATCACACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.32, C:0.53, G:0.16, T:0.00
Consensus pattern (16 bp):
ACCCGAACCCGAACCG
Found at i:4112130 original size:37 final size:37
Alignment explanation
Indices: 4112047--4112134 Score: 142
Period size: 38 Copynumber: 2.4 Consensus size: 37
4112037 ACCCGACCCG
*
4112047 ACCCAACCCGAACCGACCCGAATATCACACTTAAAAAA
1 ACCCGACCCG-ACCGACCCGAATATCACACTTAAAAAA
4112085 ACCCGACCCGACTCGACCCGAATATCACACTT-AAAAA
1 ACCCGACCCGAC-CGACCCGAATATCACACTTAAAAAA
4112122 ACCCGACCCGACC
1 ACCCGACCCGACC
4112135 CGAACAAAAT
Statistics
Matches: 48, Mismatches: 1, Indels: 4
0.91 0.02 0.08
Matches are distributed among these distances:
36 1 0.02
37 19 0.40
38 28 0.58
ACGTcount: A:0.39, C:0.41, G:0.10, T:0.10
Consensus pattern (37 bp):
ACCCGACCCGACCGACCCGAATATCACACTTAAAAAA
Found at i:4113130 original size:20 final size:20
Alignment explanation
Indices: 4113105--4113171 Score: 125
Period size: 20 Copynumber: 3.4 Consensus size: 20
4113095 AGTATCGATA
*
4113105 CCATTTTAGCTTTCTAGAAT
1 CCATTTTAGCATTCTAGAAT
4113125 CCATTTTAGCATTCTAGAAT
1 CCATTTTAGCATTCTAGAAT
4113145 CCATTTTAGCATTCTAGAAT
1 CCATTTTAGCATTCTAGAAT
4113165 CCATTTT
1 CCATTTT
4113172 TCAATTACAG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.27, C:0.21, G:0.09, T:0.43
Consensus pattern (20 bp):
CCATTTTAGCATTCTAGAAT
Found at i:4122890 original size:24 final size:24
Alignment explanation
Indices: 4122863--4122917 Score: 110
Period size: 24 Copynumber: 2.3 Consensus size: 24
4122853 GCGACTGAAC
4122863 GTGGGACGAACTCAGTCAGTGACT
1 GTGGGACGAACTCAGTCAGTGACT
4122887 GTGGGACGAACTCAGTCAGTGACT
1 GTGGGACGAACTCAGTCAGTGACT
4122911 GTGGGAC
1 GTGGGAC
4122918 TCAACTTTGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.24, C:0.20, G:0.36, T:0.20
Consensus pattern (24 bp):
GTGGGACGAACTCAGTCAGTGACT
Found at i:4122975 original size:17 final size:17
Alignment explanation
Indices: 4122953--4122986 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
4122943 ATGAAAATAT
4122953 ATTAGG-GTTAGGGTTAG
1 ATTAGGTGTTA-GGTTAG
4122970 ATTAGGTGTTAGGTTAG
1 ATTAGGTGTTAGGTTAG
4122987 GGTTTTGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.24, C:0.00, G:0.38, T:0.38
Consensus pattern (17 bp):
ATTAGGTGTTAGGTTAG
Found at i:4123051 original size:3 final size:3
Alignment explanation
Indices: 4123037--4123072 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
4123027 ATTTGGTTTG
4123037 TAA TATA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
4123073 TATTGGTTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:4123939 original size:42 final size:42
Alignment explanation
Indices: 4123893--4124065 Score: 195
Period size: 42 Copynumber: 4.1 Consensus size: 42
4123883 TAGAGACACA
* *
4123893 AAATAGTTATTCTAAGTTTAAATATAAACATTGTTTTGATGC
1 AAATAATTATTCTAAGTGTAAATATAAACATTGTTTTGATGC
* * * * *
4123935 AAATAATTATTCTAAGTGTAAATACAAATACTATTCTGATGC
1 AAATAATTATTCTAAGTGTAAATATAAACATTGTTTTGATGC
* * * *
4123977 AAATAATTATTATAAGTGTAATTATGAGCATTGTTTTGATGC
1 AAATAATTATTCTAAGTGTAAATATAAACATTGTTTTGATGC
* * * *
4124019 AAATAATTATT-TCAAGTATAAATATGAACATTGTTTTTATGT
1 AAATAATTATTCT-AAGTGTAAATATAAACATTGTTTTGATGC
4124061 AAATA
1 AAATA
4124066 TGTACTACTT
Statistics
Matches: 109, Mismatches: 21, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
41 1 0.01
42 108 0.99
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.41
Consensus pattern (42 bp):
AAATAATTATTCTAAGTGTAAATATAAACATTGTTTTGATGC
Found at i:4128735 original size:17 final size:14
Alignment explanation
Indices: 4128696--4128728 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
4128686 TATTTCTTGT
4128696 AAGG-TATTTTAGA
1 AAGGTTATTTTAGA
4128709 AAGGTTATTTTAGA
1 AAGGTTATTTTAGA
4128723 AAGGTT
1 AAGGTT
4128729 GTTATTTGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.39
Consensus pattern (14 bp):
AAGGTTATTTTAGA
Found at i:4134775 original size:2 final size:2
Alignment explanation
Indices: 4134697--4134759 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
4134687 TTACTTACTT
4134697 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4134739 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
4134760 GACTATCTTT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4137963 original size:138 final size:138
Alignment explanation
Indices: 4137711--4137966 Score: 352
Period size: 138 Copynumber: 1.9 Consensus size: 138
4137701 GTCTGTAATG
* *
4137711 GTTATCGATCGATTTTGTGTAATGCATAACGGTGCATTTTCGTATCAGTACTATTTGTACTTTCG
1 GTTATCGATCGATTTTGTGTAATGCATAACGGTGCAATTTCGTATCAGTACTATGTGTACTTTCG
* * * * *
4137776 GCACTAAATGTGCAATCATGGTATTCATAATGAGTTTGTGAATCACCATTTCGATATACAAATGT
66 ACAATAAATGTGCAATCATGGAATTCATAATAAGTTTATGAATCACCATTTCGATATACAAATGT
4137841 ATATAAAA
131 ATATAAAA
* * **
4137849 GTTATCGATCGATTTTGTTTAATGCATAATGGTGCAATTTCGTATCAGTGTTATGTGTACTTTCG
1 GTTATCGATCGATTTTGTGTAATGCATAACGGTGCAATTTCGTATCAGTACTATGTGTACTTTCG
** * **
4137914 ACAATATGTGTG-AATCCATGGAATTCATTATAAGTTTATGAATTTCCATTTCG
66 ACAATAAATGTGCAAT-CATGGAATTCATAATAAGTTTATGAATCACCATTTCG
4137967 GCACTTCAGT
Statistics
Matches: 101, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
137 3 0.03
138 98 0.97
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.40
Consensus pattern (138 bp):
GTTATCGATCGATTTTGTGTAATGCATAACGGTGCAATTTCGTATCAGTACTATGTGTACTTTCG
ACAATAAATGTGCAATCATGGAATTCATAATAAGTTTATGAATCACCATTTCGATATACAAATGT
ATATAAAA
Found at i:4138145 original size:9 final size:9
Alignment explanation
Indices: 4138131--4138158 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
4138121 TTAAGTATTG
4138131 ATATGATTT
1 ATATGATTT
4138140 ATATGATTT
1 ATATGATTT
4138149 ATATGATTT
1 ATATGATTT
4138158 A
1 A
4138159 AATTCGTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.54
Consensus pattern (9 bp):
ATATGATTT
Found at i:4141819 original size:58 final size:58
Alignment explanation
Indices: 4141728--4141874 Score: 267
Period size: 59 Copynumber: 2.5 Consensus size: 58
4141718 ACACATGCTA
*
4141728 ATTTATGACTTACAAAAAATGTGTGTCATAAAAATGTCATGTTTTTTAAAATCTGAACG
1 ATTTATGACTTAC-AATAATGTGTGTCATAAAAATGTCATGTTTTTTAAAATCTGAACG
4141787 ATTTATGACTTACAATAATGTGTGTCATAAAAAATGTCATGTTTTTTAAAATCTGAACG
1 ATTTATGACTTACAATAATGTGTGTCAT-AAAAATGTCATGTTTTTTAAAATCTGAACG
4141846 ATTTATGACTTACAATAATGTGTGTCATA
1 ATTTATGACTTACAATAATGTGTGTCATA
4141875 TTTAATAGTC
Statistics
Matches: 86, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
58 15 0.17
59 71 0.83
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (58 bp):
ATTTATGACTTACAATAATGTGTGTCATAAAAATGTCATGTTTTTTAAAATCTGAACG
Found at i:4147834 original size:16 final size:16
Alignment explanation
Indices: 4147810--4147842 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
4147800 TATCGCCGAC
*
4147810 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
4147826 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
4147842 C
1 C
4147843 ATGAATAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.33
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:4150962 original size:2 final size:2
Alignment explanation
Indices: 4150955--4150992 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
4150945 TTTTATTTCA
4150955 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4150993 TAATAACCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4154413 original size:28 final size:29
Alignment explanation
Indices: 4154381--4154449 Score: 122
Period size: 30 Copynumber: 2.4 Consensus size: 29
4154371 TATTATAAAT
4154381 AAAATAAAAAA-GGAATATATTCCTTGAC
1 AAAATAAAAAAGGGAATATATTCCTTGAC
4154409 AAAATAAAAAAGTGGAATATATTCCTTGAC
1 AAAATAAAAAAG-GGAATATATTCCTTGAC
4154439 AAAATAAAAAA
1 AAAATAAAAAA
4154450 AAAACAAATA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
28 11 0.28
30 28 0.72
ACGTcount: A:0.58, C:0.09, G:0.10, T:0.23
Consensus pattern (29 bp):
AAAATAAAAAAGGGAATATATTCCTTGAC
Found at i:4156014 original size:28 final size:27
Alignment explanation
Indices: 4155973--4156034 Score: 81
Period size: 28 Copynumber: 2.3 Consensus size: 27
4155963 ATTTACTATT
* *
4155973 TTTTAGGTTTTAAGTTAGTGTTTA-GAG
1 TTTTAGATTTTAAGTTAGGGTTTATG-G
4156000 TTTTAGATTTATAAGTTAGGGTTTATGG
1 TTTTAGATTT-TAAGTTAGGGTTTATGG
4156028 TTTTAGA
1 TTTTAGA
4156035 GCCATAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
27 9 0.29
28 21 0.68
29 1 0.03
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (27 bp):
TTTTAGATTTTAAGTTAGGGTTTATGG
Found at i:4156041 original size:28 final size:28
Alignment explanation
Indices: 4155983--4156049 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
4155973 TTTTAGGTTT
* ***
4155983 TAAGTTAGTGTTTAGAGTTTTAGATTTA
1 TAAGTTAGGGTTTAGAGTTTTAGAGCCA
4156011 TAAGTTAGGGTTTATG-GTTTTAGAGCCA
1 TAAGTTAGGGTTTA-GAGTTTTAGAGCCA
4156039 TAAGTTTAGGG
1 TAAG-TTAGGG
4156050 CTCGGGATTC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 26 0.79
29 7 0.21
ACGTcount: A:0.27, C:0.03, G:0.27, T:0.43
Consensus pattern (28 bp):
TAAGTTAGGGTTTAGAGTTTTAGAGCCA
Found at i:4156526 original size:82 final size:82
Alignment explanation
Indices: 4156435--4156591 Score: 287
Period size: 82 Copynumber: 1.9 Consensus size: 82
4156425 TAACCATATA
*
4156435 AAATAAAATAAAAAATAACTAAGAAAATAGCAATAGAATCACTCTAAAATATGTGAAATTTCTAC
1 AAATAAAATAAAAAATAACTAAGAAAATAGCAATAGAATCACTCTAAAATATGTAAAATTTCTAC
4156500 AAGGGATCGAGAATTGT
66 AAGGGATCGAGAATTGT
**
4156517 AAATAAAATAAAAAATAACTAAGAAAATAGCAATAGAATTGCTCTAAAATATGTAAAATTTCTAC
1 AAATAAAATAAAAAATAACTAAGAAAATAGCAATAGAATCACTCTAAAATATGTAAAATTTCTAC
4156582 AAGGGATCGA
66 AAGGGATCGA
4156592 AAATAGCAAT
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
82 72 1.00
ACGTcount: A:0.54, C:0.10, G:0.13, T:0.24
Consensus pattern (82 bp):
AAATAAAATAAAAAATAACTAAGAAAATAGCAATAGAATCACTCTAAAATATGTAAAATTTCTAC
AAGGGATCGAGAATTGT
Found at i:4156848 original size:14 final size:15
Alignment explanation
Indices: 4156818--4156854 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
4156808 ATAAATTAAT
4156818 TAAAA-ATTTAAAGA
1 TAAAATATTTAAAGA
4156832 TAAAATATTTAAA-A
1 TAAAATATTTAAAGA
4156846 TAAAATATT
1 TAAAATATT
4156855 AGTTACATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 15 0.68
15 7 0.32
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (15 bp):
TAAAATATTTAAAGA
Found at i:4159616 original size:25 final size:24
Alignment explanation
Indices: 4159578--4159625 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
4159568 TGAAAATAAA
*
4159578 ATAAAAATTGCATAACATACATAC
1 ATAAAAATTACATAACATACATAC
*
4159602 ATAAAAATGTACATACCATACATA
1 ATAAAAAT-TACATAACATACATA
4159626 AAATAGTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.54, C:0.17, G:0.04, T:0.25
Consensus pattern (24 bp):
ATAAAAATTACATAACATACATAC
Found at i:4161776 original size:55 final size:55
Alignment explanation
Indices: 4161719--4162409 Score: 1067
Period size: 55 Copynumber: 12.7 Consensus size: 55
4161709 CGGGTTCACT
* * * * * *
4161719 CCCTCTTTCTTTAGAGAGTAT-AGAACTCGGACAATCTTCAATAATCGTGTCTGCT
1 CCCTATTTCTTCAGAGAGTATAAG-ACTCGAACAATCTTCAACAATCGCGTCTGCC
*
4161774 CCCTATTTCTTCAGAGAGTATAAGAC-C-AACAATCTTCATCAATCGCGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCC
* *
4161827 CCCTATTTCTTCAGAGAGTATAAGACTCGAGCAATCTTCAACAATCGTGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCC
* *
4161882 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACATTCGCGTCTGTC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCC
*
4161937 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCC
*
4161992 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCC
* * *
4162047 CCCTATTTCTTCAGAGAGTATAAGAC-C-CACAATCTTCATA-AATCACGTATGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCA-ACAATCGCGTCTGCC
* *
4162100 CCCTATTTCTTCAGAGAGTATAAGACTCGAGCAATCTTCAACAATCGTGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCC
* *
4162155 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGTC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCC
*
4162210 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCC
*
4162265 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCC
* * *
4162320 CCCTATTTCTTCAGAGAGTATAAGAC-C-CACAATCTTCATA-AATCGCATATGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCA-ACAATCGCGTCTGCC
4162373 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCT
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCT
4162410 CCATCAAACG
Statistics
Matches: 590, Mismatches: 36, Indels: 20
0.91 0.06 0.03
Matches are distributed among these distances:
53 139 0.24
54 9 0.02
55 440 0.75
56 2 0.00
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (55 bp):
CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCC
Found at i:4162082 original size:218 final size:219
Alignment explanation
Indices: 4161719--4162409 Score: 1074
Period size: 218 Copynumber: 3.2 Consensus size: 219
4161709 CGGGTTCACT
* * * * *
4161719 CCCTCTTTCTTTAGAGAGTAT-AGAACTCGGACAATCTTCAATAATCGTGTCTGCTCCCTATTTC
1 CCCTATTTCTTCAGAGAGTATAAG-ACTCGAACAATCTTCAACAATCGTGTCTGCCCCCTATTTC
* *
4161783 TTCAGAGAGTATAAGAC-C-AACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGT
65 TTCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGT
* *
4161846 ATAAGACTCGAGCAATCTTCAACAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCG
130 ATAAGACTC-AACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCG
* *
4161911 AACAATCTTCAACATTCGCGTCTGTC
194 AACAATCTTCAACAATCGCGTCTGCC
* *
4161937 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTATTTCT
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCCCCCTATTTCT
4162002 TCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTA
66 TCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTA
* * *
4162067 TAAGAC-CCACAATCTTCATA-AATCACGTATGCCCCCTATTTCTTCAGAGAGTATAAGACTCGA
131 TAAGACTCAACAATCTTCA-ACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGA
* *
4162130 GCAATCTTCAACAATCGTGTCTGCC
195 ACAATCTTCAACAATCGCGTCTGCC
*
4162155 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGTCCCCTATTTCT
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCCCCCTATTTCT
4162220 TCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTA
66 TCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTA
* *
4162285 TAAGACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGAC-C-C
131 TAAGACTC-AACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGA
* *
4162348 ACAATCTTCATA-AATCGCATATGCC
195 ACAATCTTCA-ACAATCGCGTCTGCC
4162373 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCT
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCT
4162410 CCATCAAACG
Statistics
Matches: 435, Mismatches: 30, Indels: 16
0.90 0.06 0.03
Matches are distributed among these distances:
218 330 0.76
219 9 0.02
220 96 0.22
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (219 bp):
CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCCCCCTATTTCT
TCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTA
TAAGACTCAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAA
CAATCTTCAACAATCGCGTCTGCC
Found at i:4162183 original size:273 final size:273
Alignment explanation
Indices: 4161719--4162409 Score: 1231
Period size: 273 Copynumber: 2.5 Consensus size: 273
4161709 CGGGTTCACT
* * * ** * *
4161719 CCCTCTTTCTTTAGAGAGTAT-AGAACTCGGACAATCTTCAATAATCGTGTCTGCTCCCTATTTC
1 CCCTATTTCTTCAGAGAGTATAAG-ACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTATTTC
* * *
4161783 TTCAGAGAGTATAAGACCAACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTAT
65 TTCAGAGAGTATAAGACCCACAATCTTCATAAATCGCGTATGCCCCCTATTTCTTCAGAGAGTAT
4161848 AAGACTCGAGCAATCTTCAACAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAA
130 AAGACTCGAGCAATCTTCAACAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAA
*
4161913 CAATCTTCAACATTCGCGTCTGTCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAA
195 CAATCTTCAACAATCGCGTCTGTCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAA
4161978 CGATCGCGTCTGCC
260 CGATCGCGTCTGCC
4161992 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTATTTCT
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTATTTCT
*
4162057 TCAGAGAGTATAAGACCCACAATCTTCATAAATCACGTATGCCCCCTATTTCTTCAGAGAGTATA
66 TCAGAGAGTATAAGACCCACAATCTTCATAAATCGCGTATGCCCCCTATTTCTTCAGAGAGTATA
4162122 AGACTCGAGCAATCTTCAACAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
131 AGACTCGAGCAATCTTCAACAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
*
4162187 AATCTTCAACAATCGTGTCTGTCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAC
196 AATCTTCAACAATCGCGTCTGTCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAC
4162252 GATCGCGTCTGCC
261 GATCGCGTCTGCC
4162265 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTATTTCT
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTATTTCT
*
4162330 TCAGAGAGTATAAGACCCACAATCTTCATAAATCGCATATGCCCCCTATTTCTTCAGAGAGTATA
66 TCAGAGAGTATAAGACCCACAATCTTCATAAATCGCGTATGCCCCCTATTTCTTCAGAGAGTATA
*
4162395 AGACTCGAACAATCT
131 AGACTCGAGCAATCT
4162410 CCATCAAACG
Statistics
Matches: 401, Mismatches: 16, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
273 399 1.00
274 2 0.00
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (273 bp):
CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTATTTCT
TCAGAGAGTATAAGACCCACAATCTTCATAAATCGCGTATGCCCCCTATTTCTTCAGAGAGTATA
AGACTCGAGCAATCTTCAACAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
AATCTTCAACAATCGCGTCTGTCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAC
GATCGCGTCTGCC
Found at i:4174861 original size:25 final size:24
Alignment explanation
Indices: 4174823--4174870 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
4174813 TGAAAATAAA
*
4174823 ATAAAAATTGCATAACATACATAC
1 ATAAAAATTACATAACATACATAC
*
4174847 ATAAAAATGTACATACCATACATA
1 ATAAAAAT-TACATAACATACATA
4174871 AAATAGTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.54, C:0.17, G:0.04, T:0.25
Consensus pattern (24 bp):
ATAAAAATTACATAACATACATAC
Found at i:4177642 original size:40 final size:40
Alignment explanation
Indices: 4177556--4177654 Score: 112
Period size: 40 Copynumber: 2.5 Consensus size: 40
4177546 CGGAAAATAA
*
4177556 TGTACTTTAGTGGCGTTTTTATAAAAGCACCGCTAAATTC
1 TGTACTTTAGTGGCGTTTTTATAAAAGCACCGCTAAAGTC
* * * *
4177596 TCTACTTTAGTGGTGTTTTTAT-ACAGACGCCGCTAAAGGTC
1 TGTACTTTAGTGGCGTTTTTATAAAAG-CACCGCTAAA-GTC
*
4177637 -GTACTTTAGTGGCATTTT
1 TGTACTTTAGTGGCGTTTT
4177655 AAGCGCAAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
39 3 0.06
40 44 0.90
41 2 0.04
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.39
Consensus pattern (40 bp):
TGTACTTTAGTGGCGTTTTTATAAAAGCACCGCTAAAGTC
Found at i:4177688 original size:42 final size:42
Alignment explanation
Indices: 4177636--4178073 Score: 213
Period size: 42 Copynumber: 10.5 Consensus size: 42
4177626 CGCTAAAGGT
* *
4177636 CGTACTTTAGTGGCATTTTAAGCGCAAATGCCACTAATTACA
1 CGTACTTTAGTGGCATTTTAAGCACAAACGCCACTAATTACA
* * * *
4177678 TGTACTTTAGTGGCGTTTTACGCACAAACGCAAACGCCGCTAATTACA
1 CGTACTTTAGTGGCATTTTAAG--C--A--CAAACGCCACTAATTACA
* * * * * * *
4177726 CGTACTATAGTGACGTTTTTA-TATAAACGCCGA-TAAATACTA
1 CGTACTTTAGTGGCATTTTAAGCACAAACGCC-ACTAATTAC-A
* * * **
4177768 --TACTTTAGTGGCGTTTTTA-TACAAACGCCACTAA--AGGT
1 CGTACTTTAGTGGCATTTTAAGCACAAACGCCACTAATTA-CA
* *
4177806 CGTACTTTAGTGGCATTTTAAGCACAAATGCCAATAATTACA
1 CGTACTTTAGTGGCATTTTAAGCACAAACGCCACTAATTACA
* * *
4177848 CGTTCTTTAGTGGCATTTTATGCACAAACGCCTCTAATTACA
1 CGTACTTTAGTGGCATTTTAAGCACAAACGCCACTAATTACA
* * * * * * *
4177890 CGTACTCTAGTTGCATTTTTA-TATAAACGCCGA-GAAATACTA
1 CGTACTTTAGTGGCATTTTAAGCACAAACGCC-ACTAATTAC-A
* * * * *
4177932 --TACTTTAGTGGCGTTTTTA-TACAAATGCCGCTAACGTT---
1 CGTACTTTAGTGGCATTTTAAGCACAAACGCCACTAA--TTACA
* ** * *
4177970 CGTACTTTAGTGGCGTTGCAAGCACAAATGCCGCTAATTACA
1 CGTACTTTAGTGGCATTTTAAGCACAAACGCCACTAATTACA
* * * * * **
4178012 CATATTTTTTGTGGCGTTTTACGCACAAACGCCGTTAATTACA
1 CGTA-CTTTAGTGGCATTTTAAGCACAAACGCCACTAATTACA
*
4178055 CGTACTTTAGTGGCGTTTT
1 CGTACTTTAGTGGCATTTT
4178074 TAACATAAGC
Statistics
Matches: 304, Mismatches: 65, Indels: 54
0.72 0.15 0.13
Matches are distributed among these distances:
38 1 0.00
39 3 0.01
40 88 0.29
41 52 0.17
42 91 0.30
43 36 0.12
44 1 0.00
48 32 0.11
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (42 bp):
CGTACTTTAGTGGCATTTTAAGCACAAACGCCACTAATTACA
Found at i:4177783 original size:40 final size:39
Alignment explanation
Indices: 4177708--4178117 Score: 173
Period size: 40 Copynumber: 9.9 Consensus size: 39
4177698 CGCACAAACG
* * * *
4177708 CAAACGCCGCTAATTACACGTACTATAGTGACGTTTTTATA
1 CAAACGCCGATAAATACA--TACTTTAGTGGCGTTTTTATA
*
4177749 TAAACGCCGATAAATACTATACTTTAGTGGCGTTTTTATA
1 CAAACGCCGATAAATAC-ATACTTTAGTGGCGTTTTTATA
* * * *
4177789 CAAACGCC-ACTAAAGGT-CGTACTTTAGTGGCATTTTAAGCA
1 CAAACGCCGA-TAAA--TACATACTTTAGTGGCGTTTTTA-TA
* * * * *
4177830 CAAATGCCAATAATTACACGTTCTTTAGTGGC-ATTTTATGCA
1 CAAACGCCGATAAATACA--TACTTTAGTGGCGTTTTTAT--A
** * * * *
4177872 CAAACGCCTCTAATTACACGTACTCTAGTTGCATTTTTATA
1 CAAACGCCGATAAATACA--TACTTTAGTGGCGTTTTTATA
* *
4177913 TAAACGCCGAGAAATACTATACTTTAGTGGCGTTTTTATA
1 CAAACGCCGATAAATAC-ATACTTTAGTGGCGTTTTTATA
* * * * * *** *
4177953 CAAATGCCGCTAACGTTCGTACTTTAGTGGCGTTGCAAGCA
1 CAAACGCCGATAA-ATACATACTTTAGTGGCGTTTTTA-TA
* * * * * *
4177994 CAAATGCCGCTAATTACACATATTTTTTGTGGCG-TTTTACGCA
1 CAAACGCCGATAA--ATACATA-CTTTAGTGGCGTTTTTA--TA
* *
4178037 CAAACGCCGTTAATTACACGTACTTTAGTGGCGTTTTTA-A
1 CAAACGCCGATAAATACA--TACTTTAGTGGCGTTTTTATA
* *
4178077 CATAAGCGTCGCTAAATACTAGTACTTTAGTGGCGTTTTTA
1 CA-AA-CGCCGATAAATAC-A-TACTTTAGTGGCGTTTTTA
4178118 AAAAGCTGTC
Statistics
Matches: 283, Mismatches: 62, Indels: 47
0.72 0.16 0.12
Matches are distributed among these distances:
39 2 0.01
40 94 0.33
41 64 0.23
42 86 0.30
43 37 0.13
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (39 bp):
CAAACGCCGATAAATACATACTTTAGTGGCGTTTTTATA
Found at i:4177858 original size:170 final size:164
Alignment explanation
Indices: 4177557--4178117 Score: 710
Period size: 164 Copynumber: 3.4 Consensus size: 164
4177547 GGAAAATAAT
* * * * *
4177557 GTACTTTAGTGGCGTTTTTATA-AAAGCACCGCTAAATTCTCTACTTTAGTGGTGTTTTTATACA
1 GTACTTTAGTGGCGTTTTTATATAAA-CGCCGATAAATACTATACTTTAGTGGCGTTTTTATACA
* * * *
4177621 GACGCCGCTAAAGGTCGTACTTTAGTGGCATTTTAAGCGCAAATGCCACTAATTACATGTACTTT
65 AACGCCGCTAAAGGTCGTACTTTAGTGGCATTTTAAGCACAAATGCCACTAATTACACGTTCTTT
4177686 AGTGGCGTTTTACGCACAAACGCAAACGCCGCTAATTACAC
130 AGTGGCGTTTTACG--C--A--CAAACGCCGCTAATTACAC
* *
4177727 GTACTATAGTGACGTTTTTATATAAACGCCGATAAATACTATACTTTAGTGGCGTTTTTATACAA
1 GTACTTTAGTGGCGTTTTTATATAAACGCCGATAAATACTATACTTTAGTGGCGTTTTTATACAA
* *
4177792 ACGCCACTAAAGGTCGTACTTTAGTGGCATTTTAAGCACAAATGCCAATAATTACACGTTCTTTA
66 ACGCCGCTAAAGGTCGTACTTTAGTGGCATTTTAAGCACAAATGCCACTAATTACACGTTCTTTA
* * *
4177857 GTGGCATTTTATGCACAAACGCCTCTAATTACAC
131 GTGGCGTTTTACGCACAAACGCCGCTAATTACAC
* * * *
4177891 GTACTCTAGTTGCATTTTTATATAAACGCCGAGAAATACTATACTTTAGTGGCGTTTTTATACAA
1 GTACTTTAGTGGCGTTTTTATATAAACGCCGATAAATACTATACTTTAGTGGCGTTTTTATACAA
* * * * ** * * *
4177956 ATGCCGCTAACGTTCGTACTTTAGTGGCGTTGCAAGCACAAATGCCGCTAATTACACATATTTTT
66 ACGCCGCTAAAGGTCGTACTTTAGTGGCATTTTAAGCACAAATGCCACTAATTACACGT-TCTTT
* *
4178021 TGTGGCGTTTTACGCACAAACGCCGTTAATTACAC
130 AGTGGCGTTTTACGCACAAACGCCGCTAATTACAC
* * * *
4178056 GTACTTTAGTGGCGTTTTTAACATAAGCGTCGCTAAATACTAGTACTTTAGTGGCGTTTTTA
1 GTACTTTAGTGGCGTTTTT-ATATAAACGCCGATAAATACTA-TACTTTAGTGGCGTTTTTA
4178118 AAAAGCTGTC
Statistics
Matches: 342, Mismatches: 45, Indels: 11
0.86 0.11 0.03
Matches are distributed among these distances:
164 127 0.37
165 50 0.15
166 18 0.05
167 19 0.06
168 1 0.00
170 124 0.36
171 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.34
Consensus pattern (164 bp):
GTACTTTAGTGGCGTTTTTATATAAACGCCGATAAATACTATACTTTAGTGGCGTTTTTATACAA
ACGCCGCTAAAGGTCGTACTTTAGTGGCATTTTAAGCACAAATGCCACTAATTACACGTTCTTTA
GTGGCGTTTTACGCACAAACGCCGCTAATTACAC
Found at i:4178102 original size:42 final size:41
Alignment explanation
Indices: 4178056--4178134 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 41
4178046 TTAATTACAC
4178056 GTACTTTAGTGGCGTTTTTAACATAAGC-GTCGCTAAATACTA
1 GTACTTTAGTGGCGTTTTTAA-A-AAGCTGTCGCTAAATACTA
4178098 GTACTTTAGTGGCGTTTTTAAAAAGCTGTCGCTAAAT
1 GTACTTTAGTGGCGTTTTTAAAAAGCTGTCGCTAAAT
4178135 GTCGTCTTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
40 4 0.11
41 11 0.31
42 21 0.58
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (41 bp):
GTACTTTAGTGGCGTTTTTAAAAAGCTGTCGCTAAATACTA
Found at i:4180843 original size:21 final size:21
Alignment explanation
Indices: 4180819--4180861 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
4180809 CAACAACGAA
4180819 AGCAGAGAAAGAAGCAGCGAC
1 AGCAGAGAAAGAAGCAGCGAC
* * *
4180840 AGCATAGAGATAAGCAGCGAC
1 AGCAGAGAAAGAAGCAGCGAC
4180861 A
1 A
4180862 TCACAGAGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.47, C:0.19, G:0.30, T:0.05
Consensus pattern (21 bp):
AGCAGAGAAAGAAGCAGCGAC
Found at i:4180848 original size:23 final size:22
Alignment explanation
Indices: 4180821--4180870 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
4180811 ACAACGAAAG
4180821 CAGAGAAAGAAGCAGCGACAGCA
1 CAGAG-AAGAAGCAGCGACAGCA
* * *
4180844 TAGAG-ATAAGCAGCGACATCA
1 CAGAGAAGAAGCAGCGACAGCA
4180865 CAGAGA
1 CAGAGA
4180871 TAAGCAACAT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
21 18 0.82
23 4 0.18
ACGTcount: A:0.46, C:0.20, G:0.28, T:0.06
Consensus pattern (22 bp):
CAGAGAAGAAGCAGCGACAGCA
Found at i:4180869 original size:21 final size:21
Alignment explanation
Indices: 4180830--4180876 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
4180820 GCAGAGAAAG
*
4180830 AAGCAGCGACAGCATAGAGAT
1 AAGCAGCGACAGCACAGAGAT
*
4180851 AAGCAGCGACATCACAGAGAT
1 AAGCAGCGACAGCACAGAGAT
4180872 AAGCA
1 AAGCA
4180877 ACATATCAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.45, C:0.21, G:0.26, T:0.09
Consensus pattern (21 bp):
AAGCAGCGACAGCACAGAGAT
Found at i:4180889 original size:21 final size:21
Alignment explanation
Indices: 4180830--4180892 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
4180820 GCAGAGAAAG
* * *
4180830 AAGCAGCGACAGCATAGAGAT
1 AAGCAACGACATCACAGAGAT
*
4180851 AAGCAGCGACATCACAGAGAT
1 AAGCAACGACATCACAGAGAT
*
4180872 AAGCAAC-ATATCAGCAGAGAT
1 AAGCAACGACATCA-CAGAGAT
4180893 GTGAAGAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.14
21 32 0.86
ACGTcount: A:0.44, C:0.21, G:0.24, T:0.11
Consensus pattern (21 bp):
AAGCAACGACATCACAGAGAT
Found at i:4181561 original size:43 final size:43
Alignment explanation
Indices: 4181393--4181581 Score: 132
Period size: 43 Copynumber: 4.4 Consensus size: 43
4181383 ACAAATGCCT
* * * *
4181393 CTAAATCTGAAAACCTACTTCGACATTTGT-GGGAAAAACGCCG
1 CTAAATCTCAACACCTACTACGACATTTGTAGGG-AAAACACCG
* * * * * ** * *
4181436 CTAAATATCATCACATTCTGCGATGTTT-TTGGGACAAACGCCG
1 CTAAATCTCAACACCTACTACGACATTTGTAGGGA-AAACACCG
* * * * * * * *
4181479 CAAAATATCAAAACCTTCTACGGCATTTATAAGTAAAACACCG
1 CTAAATCTCAACACCTACTACGACATTTGTAGGGAAAACACCG
*
4181522 CTAAATCTCAACACCTACTACGACGTTTGTAGGGAAAACACCG
1 CTAAATCTCAACACCTACTACGACATTTGTAGGGAAAACACCG
4181565 CTAAA-CATCAACACCTA
1 CTAAATC-TCAACACCTA
4181582 TTGCGGCATT
Statistics
Matches: 112, Mismatches: 30, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
42 3 0.03
43 106 0.95
44 3 0.03
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.24
Consensus pattern (43 bp):
CTAAATCTCAACACCTACTACGACATTTGTAGGGAAAACACCG
Found at i:4181657 original size:45 final size:43
Alignment explanation
Indices: 4181555--4181657 Score: 134
Period size: 44 Copynumber: 2.3 Consensus size: 43
4181545 CGTTTGTAGG
* *
4181555 GAAAACACCGCTAAACATCAACACCTATTGCGGCATTTTTTTT
1 GAAAACACCGCTAAACAACAAAACCTATTGCGGCATTTTTTTT
* *
4181598 GACAAATACCGCTAAATAACAAAACCTATTGCGGCATTTTTTGTT
1 GA-AAACACCGCTAAACAACAAAACCTATTGCGGCATTTTTT-TT
*
4181643 AGAAAACGCCGCTAA
1 -GAAAACACCGCTAA
4181658 CTTTAGCGGT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
43 2 0.04
44 35 0.69
45 12 0.24
46 2 0.04
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (43 bp):
GAAAACACCGCTAAACAACAAAACCTATTGCGGCATTTTTTTT
Found at i:4182189 original size:2 final size:2
Alignment explanation
Indices: 4182182--4182249 Score: 127
Period size: 2 Copynumber: 34.0 Consensus size: 2
4182172 CTATTTAAAC
*
4182182 TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4182224 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
4182250 AAAGCTAGTA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4186730 original size:20 final size:20
Alignment explanation
Indices: 4186701--4186738 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4186691 CCCCTTCAAA
*
4186701 GGGGGAATCGGTTCCCTCAT
1 GGGGGAATCGATTCCCTCAT
*
4186721 GGGGGTATCGATTCCCTC
1 GGGGGAATCGATTCCCTC
4186739 TGCACCAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.26, G:0.34, T:0.26
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTCAT
Found at i:4205021 original size:89 final size:87
Alignment explanation
Indices: 4204913--4205073 Score: 216
Period size: 89 Copynumber: 1.8 Consensus size: 87
4204903 ATTCTCAGTA
* * * *
4204913 TTCACGAAAGAGTAGTGAAACAGATTCTTTCCAATTC-AATCTGATCTCCACGGAAGAGTACTGG
1 TTCACGAAAGAGTAATGAAACAGATTCTTT-CAATACAAATC-AACCTCCACGGAAGAGTACT-G
4204977 AAGCAAATCAACTTTGAGTATGATC
63 AAGCAAATCAACTTTGAGTATGATC
* * * *
4205002 TTCACGGAAGAGTAATGAAACAGATTCTTTTAATACAAATCAACCTTCACGGAAGAGTAGTGAAG
1 TTCACGAAAGAGTAATGAAACAGATTCTTTCAATACAAATCAACCTCCACGGAAGAGTACTGAAG
4205067 CAAATCA
66 CAAATCA
4205074 TTTGCAAGTC
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
87 11 0.17
88 20 0.32
89 32 0.51
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (87 bp):
TTCACGAAAGAGTAATGAAACAGATTCTTTCAATACAAATCAACCTCCACGGAAGAGTACTGAAG
CAAATCAACTTTGAGTATGATC
Found at i:4205321 original size:19 final size:17
Alignment explanation
Indices: 4205290--4205326 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
4205280 TTTTATATTT
4205290 TTATATATATAATAATA
1 TTATATATATAATAATA
*
4205307 TTATATAT-TATTAATA
1 TTATATATATAATAATA
4205323 TTAT
1 TTAT
4205327 TATTTACAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TTATATATATAATAATA
Found at i:4205327 original size:19 final size:17
Alignment explanation
Indices: 4205284--4205329 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
4205274 GTGACATTTT
*
4205284 ATATTTTTATATATATA
1 ATATTATTATATATATA
*
4205301 ATAATATTATATATTATTA
1 ATATTATTATATA-TA-TA
4205320 ATATTATTAT
1 ATATTATTAT
4205330 TTACAAAGCC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 11 0.46
18 2 0.08
19 11 0.46
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATATTATTATATATATA
Found at i:4208308 original size:22 final size:22
Alignment explanation
Indices: 4208283--4208328 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
4208273 TGGGGAGAGG
4208283 GAGTATCAATACTCA-TGAAGGA
1 GAGTATCAATACTCACT-AAGGA
*
4208305 GAGTATCGATACTCACTAAGGA
1 GAGTATCAATACTCACTAAGGA
4208327 GA
1 GA
4208329 ATATTTGTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (22 bp):
GAGTATCAATACTCACTAAGGA
Found at i:4210048 original size:2 final size:2
Alignment explanation
Indices: 4210041--4210074 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4210031 TATGTATTTA
4210041 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4210075 GAATAATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4214343 original size:29 final size:30
Alignment explanation
Indices: 4214301--4214357 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
4214291 TTAATCTTAC
*
4214301 TTTCAAGTTCACTA-TTTTTTTGGATAAAT
1 TTTCAAGATCACTATTTTTTTTGGATAAAT
4214330 TTTCAAGATCACTATTTTTTTTGGATAA
1 TTTCAAGATCACTATTTTTTTTGGATAA
4214358 TTCATATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 13 0.50
30 13 0.50
ACGTcount: A:0.28, C:0.11, G:0.11, T:0.51
Consensus pattern (30 bp):
TTTCAAGATCACTATTTTTTTTGGATAAAT
Found at i:4217499 original size:17 final size:18
Alignment explanation
Indices: 4217438--4217504 Score: 57
Period size: 17 Copynumber: 3.7 Consensus size: 18
4217428 AAACTTGTTT
*
4217438 AAAAGAAAATTAAATTAG
1 AAAAGAAAAATAAATTAG
* *
4217456 GAAA-AAAAATAAATTAT
1 AAAAGAAAAATAAATTAG
* *
4217473 AAAATTAAAAATGAATTA-
1 AAAA-GAAAAATAAATTAG
4217491 AAAAGAAAATATAA
1 AAAAGAAAA-ATAA
4217505 GGAGACAATT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
17 18 0.46
18 10 0.26
19 11 0.28
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.22
Consensus pattern (18 bp):
AAAAGAAAAATAAATTAG
Found at i:4218821 original size:18 final size:18
Alignment explanation
Indices: 4218798--4218837 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
4218788 ATGAAAGATA
4218798 GGAACCAAAAGTATCAAT
1 GGAACCAAAAGTATCAAT
4218816 GGAACCAAAAGTATCAAT
1 GGAACCAAAAGTATCAAT
4218834 GGAA
1 GGAA
4218838 AAGAAGAGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.50, C:0.15, G:0.20, T:0.15
Consensus pattern (18 bp):
GGAACCAAAAGTATCAAT
Found at i:4225162 original size:31 final size:31
Alignment explanation
Indices: 4225127--4225187 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
4225117 ACTATATTTA
*
4225127 TTTGAGACTCCAAAGTCATA-TCTTTACCTTT
1 TTTGAGACACCAAAGTCATACT-TTTACCTTT
*
4225158 TTTGAGACACCAAATTCATACTTTTACCTT
1 TTTGAGACACCAAAGTCATACTTTTACCTT
4225188 CTCGGGTAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 26 0.96
32 1 0.04
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.41
Consensus pattern (31 bp):
TTTGAGACACCAAAGTCATACTTTTACCTTT
Found at i:4225957 original size:8 final size:8
Alignment explanation
Indices: 4225944--4226064 Score: 52
Period size: 8 Copynumber: 14.9 Consensus size: 8
4225934 AGAGAGGAGA
4225944 AAAAAAAG
1 AAAAAAAG
4225952 AAAAAAA-
1 AAAAAAAG
*
4225959 AAGAAAAG
1 AAAAAAAG
*
4225967 ATAGAAAAG
1 A-AAAAAAG
4225976 AAAATGGAAAG
1 AAAA---AAAG
*
4225987 ATAGAAAAG
1 A-AAAAAAG
*
4225996 -GAAAAAG
1 AAAAAAAG
* *
4226003 AAATAAAT
1 AAAAAAAG
*
4226011 AAATAAAG
1 AAAAAAAG
**
4226019 ATGGAAAAG
1 A-AAAAAAG
*
4226028 AAAAATAG
1 AAAAAAAG
4226036 -AAAAAAG
1 AAAAAAAG
* *
4226043 AGAAAGAG
1 AAAAAAAG
4226051 -AAAAAAG
1 AAAAAAAG
4226058 AAAAAAA
1 AAAAAAA
4226065 AAAGCTAGAG
Statistics
Matches: 83, Mismatches: 20, Indels: 20
0.67 0.16 0.16
Matches are distributed among these distances:
7 22 0.27
8 37 0.45
9 17 0.20
11 5 0.06
12 2 0.02
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.07
Consensus pattern (8 bp):
AAAAAAAG
Found at i:4225986 original size:20 final size:20
Alignment explanation
Indices: 4225950--4226073 Score: 80
Period size: 20 Copynumber: 6.2 Consensus size: 20
4225940 GAGAAAAAAA
4225950 AGAAAA-AAAAAGAAAAGAT
1 AGAAAAGAAAAAGAAAAGAT
* *
4225969 AGAAAAGAAAATGGAAAGAT
1 AGAAAAGAAAAAGAAAAGAT
*
4225989 AGAAAAGGAAAAAGAAATAAAT
1 AGAAAA-GAAAAAGAAA-AGAT
*
4226011 AAATAAAGATGGAAAAGAAAA-AT
1 AGA-AAAGA---AAAAGAAAAGAT
*
4226034 AG-AAA-AAAGAGAAAGAGA-
1 AGAAAAGAAAAAGAAA-AGAT
* *
4226052 A-AAAAGAAAAAAAAAAGCT
1 AGAAAAGAAAAAGAAAAGAT
4226071 AGA
1 AGA
4226074 GAGAAAATAT
Statistics
Matches: 81, Mismatches: 11, Indels: 25
0.69 0.09 0.21
Matches are distributed among these distances:
17 7 0.09
18 7 0.09
19 15 0.19
20 19 0.23
21 11 0.14
22 7 0.09
23 6 0.07
24 1 0.01
25 8 0.10
ACGTcount: A:0.73, C:0.01, G:0.19, T:0.07
Consensus pattern (20 bp):
AGAAAAGAAAAAGAAAAGAT
Found at i:4226043 original size:15 final size:15
Alignment explanation
Indices: 4226023--4226062 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
4226013 ATAAAGATGG
*
4226023 AAAAGAAAAATAGAA
1 AAAAGAAAAAGAGAA
*
4226038 AAAAGAGAAAGAGAA
1 AAAAGAAAAAGAGAA
4226053 AAAAGAAAAA
1 AAAAGAAAAA
4226063 AAAAAGCTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (15 bp):
AAAAGAAAAAGAGAA
Found at i:4228431 original size:9 final size:9
Alignment explanation
Indices: 4228409--4228466 Score: 62
Period size: 10 Copynumber: 6.1 Consensus size: 9
4228399 CGGTCGGTCG
*
4228409 GGTCAGACC
1 GGTCAAACC
*
4228418 AGTCAAACC
1 GGTCAAACC
4228427 GGTCAAACC
1 GGTCAAACC
*
4228436 GGTTCGAACC
1 GG-TCAAACC
4228446 GGTCGAAACC
1 GGTC-AAACC
4228456 GGTCAGAACC
1 GGTCA-AACC
4228466 G
1 G
4228467 ATTGAAAACC
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
9 20 0.49
10 21 0.51
ACGTcount: A:0.29, C:0.31, G:0.28, T:0.12
Consensus pattern (9 bp):
GGTCAAACC
Found at i:4228456 original size:20 final size:21
Alignment explanation
Indices: 4228423--4228488 Score: 70
Period size: 20 Copynumber: 3.3 Consensus size: 21
4228413 AGACCAGTCA
4228423 AACCGGTC-AAACCGGTTC-G
1 AACCGGTCGAAACCGGTTCAG
4228442 AACCGGTCGAAACCGG-TCAG
1 AACCGGTCGAAACCGGTTCAG
* *
4228462 AACCGATTGAAAACCGGTT-A-
1 AACCGGTCG-AAACCGGTTCAG
4228482 AACCGGT
1 AACCGGT
4228489 TTCCAACAGC
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
19 10 0.25
20 21 0.52
21 8 0.20
22 1 0.03
ACGTcount: A:0.32, C:0.27, G:0.26, T:0.15
Consensus pattern (21 bp):
AACCGGTCGAAACCGGTTCAG
Found at i:4232707 original size:15 final size:16
Alignment explanation
Indices: 4232670--4232714 Score: 58
Period size: 15 Copynumber: 2.8 Consensus size: 16
4232660 TTTTTCTCGT
4232670 TAATATTA-TATATATA
1 TAATATTATTAT-TATA
4232686 TATATATTATTATTA-A
1 TA-ATATTATTATTATA
4232702 TAATATTATTATT
1 TAATATTATTATT
4232715 TAATTATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 11 0.41
16 5 0.19
17 8 0.30
18 3 0.11
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TAATATTATTATTATA
Found at i:4233699 original size:24 final size:24
Alignment explanation
Indices: 4233672--4233717 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
4233662 GTTGGCGTTA
*
4233672 GCGGCGGCACGACAGTCGACGATG
1 GCGGCGACACGACAGTCGACGATG
** *
4233696 GCGGTTACACGACGGTCGACGA
1 GCGGCGACACGACAGTCGACGA
4233718 CGGCATTGGT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.22, C:0.28, G:0.39, T:0.11
Consensus pattern (24 bp):
GCGGCGACACGACAGTCGACGATG
Found at i:4239079 original size:31 final size:31
Alignment explanation
Indices: 4239044--4239104 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
4239034 ACTATATTTA
*
4239044 TTTGAGACTCCAAAGTCATA-TCTTTACCTTT
1 TTTGAGACACCAAAGTCATACT-TTTACCTTT
*
4239075 TTTGAGACACCAAATTCATACTTTTACCTT
1 TTTGAGACACCAAAGTCATACTTTTACCTT
4239105 CTCGGGTAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 26 0.96
32 1 0.04
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.41
Consensus pattern (31 bp):
TTTGAGACACCAAAGTCATACTTTTACCTTT
Found at i:4239835 original size:10 final size:11
Alignment explanation
Indices: 4239817--4239859 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 11
4239807 AAGAGAAGAG
4239817 AGAAGAAAAAAA
1 AGAA-AAAAAAA
4239829 AGAAAAAAAAA
1 AGAAAAAAAAA
4239840 AGAAAAGATAGAAA
1 AGAAAA-A-A-AAA
4239854 AGAAAA
1 AGAAAA
4239860 TGGAAAGATA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
11 13 0.46
12 5 0.18
13 1 0.04
14 9 0.32
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.02
Consensus pattern (11 bp):
AGAAAAAAAAA
Found at i:4239932 original size:15 final size:15
Alignment explanation
Indices: 4239904--4239942 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
4239894 TAAAGATGGG
*
4239904 AAAGAAAAATAGAAA
1 AAAGAAAAAGAGAAA
*
4239919 AAAGAGAAAGAGAAA
1 AAAGAAAAAGAGAAA
4239934 AAAGAAAAA
1 AAAGAAAAA
4239943 AAAAAGCTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (15 bp):
AAAGAAAAAGAGAAA
Found at i:4239941 original size:7 final size:7
Alignment explanation
Indices: 4239904--4239947 Score: 54
Period size: 7 Copynumber: 6.1 Consensus size: 7
4239894 TAAAGATGGG
4239904 AAAGAAA
1 AAAGAAA
4239911 AATAGAAA
1 AA-AGAAA
4239919 AAAGAGAA
1 AAAGA-AA
*
4239927 AGAGAAA
1 AAAGAAA
4239934 AAAGAAA
1 AAAGAAA
4239941 AAA-AAA
1 AAAGAAA
4239947 A
1 A
4239948 GCTAGAGAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
6 4 0.12
7 16 0.48
8 13 0.39
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (7 bp):
AAAGAAA
Found at i:4241924 original size:38 final size:38
Alignment explanation
Indices: 4241868--4242061 Score: 226
Period size: 38 Copynumber: 5.1 Consensus size: 38
4241858 ACTTGACTCC
* * *
4241868 CTTTGTTATTCTTTACTTCCTCATGAAGAGAAATCAAC
1 CTTTGTTATTCTTGACTTCCTCATGAAGAGAAGTCAAT
* * *
4241906 CTTTGTTACTCTCGACTTCCTCGTGAAGAGAAGTCAAT
1 CTTTGTTATTCTTGACTTCCTCATGAAGAGAAGTCAAT
* * * *
4241944 CTTTATTATTCTTGACTTCCTCATCAAGAGATGTCGAT
1 CTTTGTTATTCTTGACTTCCTCATGAAGAGAAGTCAAT
* ** *
4241982 CTCTGTTATTCTTGACTTTATCATGAAGAGAAGTCGAT
1 CTTTGTTATTCTTGACTTCCTCATGAAGAGAAGTCAAT
** * *
4242020 CTTTGTTATTCTTGACTTCCTCGCGAAGAGAACTTAAT
1 CTTTGTTATTCTTGACTTCCTCATGAAGAGAAGTCAAT
4242058 CTTT
1 CTTT
4242062 TGGTATTGTT
Statistics
Matches: 129, Mismatches: 27, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 129 1.00
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.40
Consensus pattern (38 bp):
CTTTGTTATTCTTGACTTCCTCATGAAGAGAAGTCAAT
Found at i:4242233 original size:45 final size:44
Alignment explanation
Indices: 4242076--4242241 Score: 165
Period size: 45 Copynumber: 3.7 Consensus size: 44
4242066 ATTGTTTTCC
** * *
4242076 TTGACTTTCTCGTGAAGAGGAGTCAACCTCTCGATATTGTTA--CTC
1 TTGACTTTCTCGTGAAGAGGAGTCAA--TCT-TTTAATGTTATCCTA
* * * *
4242121 TTAACTTTCTCGTGAAGAGGAGTCAATATTTTAGTGTTATCTTA
1 TTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAATGTTATCCTA
* * * *
4242165 TTGATTTTTTTGTGAAGAGGAGTCAGTCTTTTAATGTTATCCCTA
1 TTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAATGTTAT-CCTA
*
4242210 TTTACTTTCTCGTGAAGAGGAGTCAATCTTTT
1 TTGACTTTCTCGTGAAGAGGAGTCAATCTTTT
4242242 TGTAATGTTG
Statistics
Matches: 98, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
42 7 0.07
43 2 0.02
44 34 0.35
45 55 0.56
ACGTcount: A:0.23, C:0.15, G:0.19, T:0.42
Consensus pattern (44 bp):
TTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAATGTTATCCTA
Found at i:4242937 original size:55 final size:55
Alignment explanation
Indices: 4242878--4243310 Score: 503
Period size: 55 Copynumber: 7.9 Consensus size: 55
4242868 CCGATTTTCC
* * *
4242878 AAAGATATCTCGAGTCTTATCTCCTTGAAAGAAGAGTGGAGCAGAATCGTCTTTA
1 AAAGATTTCTCGAGTCTTATCTCCTTGAAAGAAGAGTGGAGCAGACTCGTCTTCA
*
4242933 AAAGATTTCTCGAGTCTTATCTCCTTGAAAAAAGAGTGGAGCAGACTCGTCTTCA
1 AAAGATTTCTCGAGTCTTATCTCCTTGAAAGAAGAGTGGAGCAGACTCGTCTTCA
* * * * * * * *
4242988 AAAGACTTCTCGAGTCTTATCTCCCTGAAAGAATAGTGGAGTAGACCCATTTTCC
1 AAAGATTTCTCGAGTCTTATCTCCTTGAAAGAAGAGTGGAGCAGACTCGTCTTCA
* *
4243043 AAAGATTTCTCGAGTCTTATCACCTTGAAAGAAGAGTGGAGCAGACTCATCTTCA
1 AAAGATTTCTCGAGTCTTATCTCCTTGAAAGAAGAGTGGAGCAGACTCGTCTTCA
* * *
4243098 AAAGATTTCTCGAGTCTCATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCTTCA
1 AAAGATTTCTCGAGTCTTATCTCCTTGAAAGAAGAGTGGAGCAGACTCGTCTTCA
* * * ** *
4243153 AAAGATTTCTCGAGTCGTATCTCCCTGAAAGAACAGTGGAGTGGAC-CTGTCTTTA
1 AAAGATTTCTCGAGTCTTATCTCCTTGAAAGAAGAGTGGAGCAGACTC-GTCTTCA
* * * * * * *
4243208 AAAGATTTATTGGGTGTTATCTACC-TAAAAGAAGGGTGGAGCAGACTCATCTTCA
1 AAAGATTTCTCGAGTCTTATCT-CCTTGAAAGAAGAGTGGAGCAGACTCGTCTTCA
* * ** *
4243263 AAAAATTTATTTAGTCTTATCT-CTCTGAAAGAAGAGTGGAGTAGACTC
1 AAAGATTTCTCGAGTCTTATCTCCT-TGAAAGAAGAGTGGAGCAGACTC
4243311 ATTTTCCAAA
Statistics
Matches: 322, Mismatches: 51, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
53 1 0.00
54 1 0.00
55 317 0.98
56 3 0.01
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (55 bp):
AAAGATTTCTCGAGTCTTATCTCCTTGAAAGAAGAGTGGAGCAGACTCGTCTTCA
Found at i:4243135 original size:165 final size:165
Alignment explanation
Indices: 4242842--4243310 Score: 613
Period size: 165 Copynumber: 2.8 Consensus size: 165
4242832 GAAAGGTCTG
* * * *
4242842 ATCTCCCAT-AAAG-ACAGTGGAGTTGACCGATTTTCCAAAGATATCTCGAGTCTTATCTCCTTG
1 ATCTCCC-TGAAAGAACAGTGGAGTAGACCCATTTTCCAAAGATTTCTCGAGTCTTATCACCTTG
* * * * *
4242905 AAAGAAGAGTGGAGCAGAATCGTCTTTAAAAGATTTCTCGAGTCTTATCTCCTTGAAAAAAGAGT
65 AAAGAAGAGTGGAGCAGACTCATCTTCAAAAGATTTCTCGAGTCTTATCTCCCTGAAAGAAGAGT
*
4242970 GGAGCAGACTCGTCTTCAAAAGACTTCTCGAGTCTT
130 GGAGCAGACTCGTCTTCAAAAGACTTCTCGAGTCGT
*
4243006 ATCTCCCTGAAAGAATAGTGGAGTAGACCCATTTTCCAAAGATTTCTCGAGTCTTATCACCTTGA
1 ATCTCCCTGAAAGAACAGTGGAGTAGACCCATTTTCCAAAGATTTCTCGAGTCTTATCACCTTGA
*
4243071 AAGAAGAGTGGAGCAGACTCATCTTCAAAAGATTTCTCGAGTCTCATCTCCCTGAAAGAAGAGTG
66 AAGAAGAGTGGAGCAGACTCATCTTCAAAAGATTTCTCGAGTCTTATCTCCCTGAAAGAAGAGTG
* *
4243136 GAGCAGACCCGTCTTCAAAAGATTTCTCGAGTCGT
131 GAGCAGACTCGTCTTCAAAAGACTTCTCGAGTCGT
* ** * * * * *
4243171 ATCTCCCTGAAAGAACAGTGGAGTGGACCTGTCTTT-AAAAGATTTATTGGGTGTTATCTACC-T
1 ATCTCCCTGAAAGAACAGTGGAGTAGACCCAT-TTTCCAAAGATTTCTCGAGTCTTATC-ACCTT
* * * * ** *
4243234 AAAAGAAGGGTGGAGCAGACTCATCTTCAAAAAATTTATTTAGTCTTATCTCTCTGAAAGAAGAG
64 GAAAGAAGAGTGGAGCAGACTCATCTTCAAAAGATTTCTCGAGTCTTATCTCCCTGAAAGAAGAG
*
4243299 TGGAGTAGACTC
129 TGGAGCAGACTC
4243311 ATTTTCCAAA
Statistics
Matches: 268, Mismatches: 33, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
163 1 0.00
164 11 0.04
165 250 0.93
166 6 0.02
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.29
Consensus pattern (165 bp):
ATCTCCCTGAAAGAACAGTGGAGTAGACCCATTTTCCAAAGATTTCTCGAGTCTTATCACCTTGA
AAGAAGAGTGGAGCAGACTCATCTTCAAAAGATTTCTCGAGTCTTATCTCCCTGAAAGAAGAGTG
GAGCAGACTCGTCTTCAAAAGACTTCTCGAGTCGT
Found at i:4243471 original size:55 final size:55
Alignment explanation
Indices: 4243362--4243549 Score: 207
Period size: 55 Copynumber: 3.4 Consensus size: 55
4243352 ATCAAGTTTG
* * *** * *
4243362 ATCTCCCCTGAAAGAAGAGTGGAGAAGACTTGTCTTC-CAAGATTTTTCGAGTCTT
1 ATCT-CCCTAAAAGAAGAGTGGAGCAGACCCATCTTCAAAAGATTTCTCGAGTCTT
* * * * *
4243417 ATCTTCATGAAAGAAGAGTGGAGTAGACCCATCTTTAAAAGATTTCTCGAGTCTT
1 ATCTCCCTAAAAGAAGAGTGGAGCAGACCCATCTTCAAAAGATTTCTCGAGTCTT
* * * *
4243472 ATCTCCCTAAAAGAAGAGTGGAGCAGACCCGTCTTCAACAGATTTGTCAAGTCTT
1 ATCTCCCTAAAAGAAGAGTGGAGCAGACCCATCTTCAAAAGATTTCTCGAGTCTT
*
4243527 AACTCCCTAAAAGAAGAGTGGAG
1 ATCTCCCTAAAAGAAGAGTGGAG
4243550 AATACTCATT
Statistics
Matches: 113, Mismatches: 19, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
54 25 0.22
55 88 0.78
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (55 bp):
ATCTCCCTAAAAGAAGAGTGGAGCAGACCCATCTTCAAAAGATTTCTCGAGTCTT
Found at i:4243559 original size:246 final size:246
Alignment explanation
Indices: 4243110--4243682 Score: 754
Period size: 246 Copynumber: 2.3 Consensus size: 246
4243100 AGATTTCTCG
* *
4243110 AGTCTCATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCTTCAAAAGATTTCTCGAGTCGTATCT
1 AGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCTTCAAAAGATTTCTCGAGTCTTATCT
* * ** * * *
4243175 CCCTGAAAGAACAGTGGAGTGGACCTGTCTTTAAAAGATTTATTGGGTGTTATCTACCTAAAAGA
66 CCCTGAAAGAAGAGTGGAGTAGACCCATCTTTAAAAGATTTATCGAGTCTTATCTACCTAAAAGA
* * ** * * * *
4243240 AGGGTGGAGCAGACTCATCTTCAAAAAATTTATTTAGTCTTATCTCTCTGAAAGAAGAGTGGAGT
131 AGAGTGGAGCAGACCCATCTTCAAAAAATTTATCAAGTCTTAACTCCCTAAAAGAAGAGTGGAGA
* *
4243305 AGACTCATTTTCCAAAATTGATCTGACTACCAGAAAAATAGGAACAAATCA
196 AGACTCATTTTCCAAAATTGATATGACTACCAGAAAAAGAGGAACAAATCA
* ** * *
4243356 AGT-TTGATCTCCCCTGAAAGAAGAGTGGAGAAGACTTGTCTTC-CAAGATTTTTCGAGTCTTAT
1 AGTCTT-ATCT-CCCTGAAAGAAGAGTGGAGCAGACCCGTCTTCAAAAGATTTCTCGAGTCTTAT
* * * *
4243419 CTTCATGAAAGAAGAGTGGAGTAGACCCATCTTTAAAAGATTTCTCGAGTCTTATCTCCCTAAAA
64 CTCCCTGAAAGAAGAGTGGAGTAGACCCATCTTTAAAAGATTTATCGAGTCTTATCTACCTAAAA
* * * *
4243484 GAAGAGTGGAGCAGACCCGTCTTCAACAGATTTGTCAAGTCTTAACTCCCTAAAAGAAGAGTGGA
129 GAAGAGTGGAGCAGACCCATCTTCAAAAAATTTATCAAGTCTTAACTCCCTAAAAGAAGAGTGGA
* * * *
4243549 GAATACTCATTTTCCAAAATTGATATGACTCCCCGAAAAAGAGGAACATATCA
194 GAAGACTCATTTTCCAAAATTGATATGACTACCAGAAAAAGAGGAACAAATCA
* * *
4243602 AGTCTTATCTCCCTGAAAGAATAGTGGAGCATACCCATCTTCAAAAGATTTCTCGAGTCTTATCT
1 AGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCTTCAAAAGATTTCTCGAGTCTTATCT
*
4243667 CCCTAAAAGAAGAGTG
66 CCCTGAAAGAAGAGTG
4243683 AAACAGACTT
Statistics
Matches: 276, Mismatches: 47, Indels: 8
0.83 0.14 0.02
Matches are distributed among these distances:
245 27 0.10
246 218 0.79
247 31 0.11
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.28
Consensus pattern (246 bp):
AGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCTTCAAAAGATTTCTCGAGTCTTATCT
CCCTGAAAGAAGAGTGGAGTAGACCCATCTTTAAAAGATTTATCGAGTCTTATCTACCTAAAAGA
AGAGTGGAGCAGACCCATCTTCAAAAAATTTATCAAGTCTTAACTCCCTAAAAGAAGAGTGGAGA
AGACTCATTTTCCAAAATTGATATGACTACCAGAAAAAGAGGAACAAATCA
Found at i:4243722 original size:136 final size:136
Alignment explanation
Indices: 4243466--4243839 Score: 464
Period size: 136 Copynumber: 2.8 Consensus size: 136
4243456 AGATTTCTCG
* * * * * *
4243466 AGTCTTATCTCCCTAAAAGAAGAGTGGAGCAGACCCGTCTTCAACAGATTTGTCAAGTCTTAACT
1 AGTCTTATCTCCCTAAAAGAAGAGTGGAGCAAACCCATCTTCAAAAGATTTCTCGAGTCTTATCT
* * *
4243531 CCCTAAAAGAAGAGTGGAGA-ATACTCATTTTCCAAAATTGATATGACTCCCCGAAAAAGAGGAA
66 CCCTAAAAGAAGAGT-GAAACAGACTCATTTTCCAAAATTGATATGACTACCCGAAAAAGAGGAA
* *
4243595 CATATCA
130 CAAAACA
* * *
4243602 AGTCTTATCTCCCTGAAAGAATAGTGGAGCATACCCATCTTCAAAAGATTTCTCGAGTCTTATCT
1 AGTCTTATCTCCCTAAAAGAAGAGTGGAGCAAACCCATCTTCAAAAGATTTCTCGAGTCTTATCT
** * * * *
4243667 CCCTAAAAGAAGAGTGAAACAGACTTGTTTTCCAAAATTGATCTTACTACTCGAAAATGAGGAAC
66 CCCTAAAAGAAGAGTGAAACAGACTCATTTTCCAAAATTGATATGACTACCCGAAAAAGAGGAAC
4243732 AAAACA
131 AAAACA
* * * *
4243738 ACTCTTATCTCCCTAAAAGAAGAGTGGAGAAAACCCATTTTCCAAAGATTTCTCGAGTCTTATCT
1 AGTCTTATCTCCCTAAAAGAAGAGTGGAGCAAACCCATCTTCAAAAGATTTCTCGAGTCTTATCT
* * * *
4243803 CCCTTTAAAGAAGAGTGGAGCAGACTCATCTT-CAAAA
66 CCC-TAAAAGAAGAGTGAAACAGACTCATTTTCCAAAA
4243840 GATTTTTCAA
Statistics
Matches: 204, Mismatches: 32, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
135 3 0.01
136 179 0.88
137 22 0.11
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.26
Consensus pattern (136 bp):
AGTCTTATCTCCCTAAAAGAAGAGTGGAGCAAACCCATCTTCAAAAGATTTCTCGAGTCTTATCT
CCCTAAAAGAAGAGTGAAACAGACTCATTTTCCAAAATTGATATGACTACCCGAAAAAGAGGAAC
AAAACA
Found at i:4243885 original size:55 final size:55
Alignment explanation
Indices: 4243736--4243898 Score: 211
Period size: 56 Copynumber: 3.0 Consensus size: 55
4243726 AGGAACAAAA
* * *
4243736 CAACTCTTATCTCCCTAAAAGAAGAGTGGAGAAAACCCATTTTCCAAAGATTTCT
1 CAACTCTTATCTCCCTAAAAGAAGAGTGGAGCAAACTCATTTTCAAAAGATTTCT
* * * * * *
4243791 CGAGTCTTATCTCCCTTTAAAGAAGAGTGGAGCAGACTCATCTTCAAAAGATTTTT
1 CAACTCTTATCTCCC-TAAAAGAAGAGTGGAGCAAACTCATTTTCAAAAGATTTCT
* *
4243847 CAACTCTTATCTCCCTGAAAGAAGAGTAGAGCAAACTCATTTTCAAAA-ATTT
1 CAACTCTTATCTCCCTAAAAGAAGAGTGGAGCAAACTCATTTTCAAAAGATTT
4243899 ATCTGACTAC
Statistics
Matches: 92, Mismatches: 15, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
54 4 0.04
55 42 0.46
56 46 0.50
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.29
Consensus pattern (55 bp):
CAACTCTTATCTCCCTAAAAGAAGAGTGGAGCAAACTCATTTTCAAAAGATTTCT
Found at i:4243917 original size:20 final size:20
Alignment explanation
Indices: 4243892--4243942 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
4243882 CTCATTTTCA
*
4243892 AAAATTTATCTGACTACTCT
1 AAAATTTATCTGACTACCCT
4243912 AAAATTTATCTGACTACCCT
1 AAAATTTATCTGACTACCCT
4243932 AAAATTTATCT
1 AAAATTTATCT
4243943 CCTTGATCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.37, C:0.20, G:0.04, T:0.39
Consensus pattern (20 bp):
AAAATTTATCTGACTACCCT
Found at i:4244116 original size:2 final size:2
Alignment explanation
Indices: 4244104--4244157 Score: 83
Period size: 2 Copynumber: 27.5 Consensus size: 2
4244094 TCTTTAAAAT
* *
4244104 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA GA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4244145 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
4244158 TAATTATTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Done.