Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008495.1 Hibiscus syriacus cultivar Beakdansim tig00111338_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: 5120959
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 21
Found at i:2086240 original size:75 final size:71
Alignment explanation
Indices: 2086015--2086227 Score: 214
Period size: 75 Copynumber: 2.9 Consensus size: 71
2086005 TAAAACATCT
* * * **
2086015 TAAATCCTAATTAAAACACTTAAACATATTTAAACTAAAAT-ACCTACAAAA-ATAATATTTAAA
1 TAAAACCTAATTAAAATACTAAAACATATTTAAACTAAAATCA-AAACAAAATATAAT-TTTAAA
2086078 ATAATATTC
64 ATAATA-TC
* * * *
2086087 TAAATCCTAATTAAAATACTAAAACATATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
1 TAAAACCTAATTAAAATACTAAAACATATTTAAACTAAAAT--C-AAAACAAA-ATATAATTTTA
2086152 AAATAATATC
62 AAATAATATC
* * *
2086162 TAAAACTTAATTAAAATACTAAAACCTATTTAAACTAAAATGCAAAGATAAAATATAATGTTTAA
1 TAAAACCTAATTAAAATACTAAAACATATTTAAACTAAAAT-CAAA-ACAAAATATAAT-TTTAA
2086227 A
63 A
2086228 TTATTATCCT
Statistics
Matches: 118, Mismatches: 15, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
72 39 0.33
73 9 0.08
74 9 0.08
75 45 0.38
76 12 0.10
77 4 0.03
ACGTcount: A:0.57, C:0.12, G:0.02, T:0.30
Consensus pattern (71 bp):
TAAAACCTAATTAAAATACTAAAACATATTTAAACTAAAATCAAAACAAAATATAATTTTAAAAT
AATATC
Found at i:2087014 original size:243 final size:244
Alignment explanation
Indices: 2086565--2087051 Score: 951
Period size: 243 Copynumber: 2.0 Consensus size: 244
2086555 ACTAAGTCCA
2086565 TGATATTTGCTGAATTCAAGTAACAATCAAGCAAAGGTACAACCTAGAAAATTTAAAGTAAGCAA
1 TGATATTTGCTGAATTCAAGTAACAATCAAGCAAAGGTACAACCTAGAAAATTTAAAGTAAGCAA
2086630 GATATCTCAATTAATTGTCAACTTCAATGAAACATGACTTAATACCTCACAAAGATTCACACATA
66 GATATCTCAATTAATTGTCAACTTCAATGAAACATGACTTAATACCTCACAAAGATTCACACATA
2086695 TCCGCTCAAAGTGTTTGGGGTAAATGAAATCGCTTCAAACCGAAACTTACCAAAATATTACCATA
131 TCCGCTCAAAGTGTTTGGGGTAAATGAAATCGCTTCAAACCGAAACTTACCAAAATATTACCATA
2086760 GGCTTGAATCCAATCAAGTCTCCACTACGAAAAATGAAC-TAATGCAAT
196 GGCTTGAATCCAATCAAGTCTCCACTACGAAAAATGAACATAATGCAAT
2086808 TGATATTTGCTGAATTCAAGTAACAATCAAGCAAAGGTACAACCTAGAAAATTTAAAGTAAGCAA
1 TGATATTTGCTGAATTCAAGTAACAATCAAGCAAAGGTACAACCTAGAAAATTTAAAGTAAGCAA
2086873 GATATCTCAATTAATTGTCAACTTCAATGAAACATGACTTAATACCTCACAAAGATTCACACATA
66 GATATCTCAATTAATTGTCAACTTCAATGAAACATGACTTAATACCTCACAAAGATTCACACATA
2086938 TCCGCTCAAAGTGTTTGGGGTAAATGAAATCGC-TCAAACCGAAACTTACCAAAATATTACCATA
131 TCCGCTCAAAGTGTTTGGGGTAAATGAAATCGCTTCAAACCGAAACTTACCAAAATATTACCATA
2087002 GGCTTGGAATCCAATCAAGTCTCCACTACGAAAAATGAACATAATGCAAT
196 GGCTT-GAATCCAATCAAGTCTCCACTACGAAAAATGAACATAATGCAAT
2087052 AATCAAGGGG
Statistics
Matches: 242, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
242 36 0.15
243 197 0.81
244 9 0.04
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (244 bp):
TGATATTTGCTGAATTCAAGTAACAATCAAGCAAAGGTACAACCTAGAAAATTTAAAGTAAGCAA
GATATCTCAATTAATTGTCAACTTCAATGAAACATGACTTAATACCTCACAAAGATTCACACATA
TCCGCTCAAAGTGTTTGGGGTAAATGAAATCGCTTCAAACCGAAACTTACCAAAATATTACCATA
GGCTTGAATCCAATCAAGTCTCCACTACGAAAAATGAACATAATGCAAT
Found at i:2088148 original size:30 final size:30
Alignment explanation
Indices: 2088111--2088185 Score: 105
Period size: 30 Copynumber: 2.5 Consensus size: 30
2088101 AAAATTTTAT
*
2088111 TGCACTGTTCGAATCTACTATGTATTTTTC
1 TGCACTGTTCGAACCTACTATGTATTTTTC
* ** *
2088141 TGTACTGTTCGAACCTGTTGTGTATTTTTC
1 TGCACTGTTCGAACCTACTATGTATTTTTC
2088171 TGCACTGTTCGAACC
1 TGCACTGTTCGAACC
2088186 AATTTTTTCT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.44
Consensus pattern (30 bp):
TGCACTGTTCGAACCTACTATGTATTTTTC
Found at i:2088252 original size:27 final size:29
Alignment explanation
Indices: 2088214--2088279 Score: 100
Period size: 27 Copynumber: 2.3 Consensus size: 29
2088204 CTGTTCAAAC
* *
2088214 TTTTCTGTACAGTTC-AACCAAATC-TTT
1 TTTTCTGCACAGTTCGAACCAAATCAGTT
2088241 TTTTCTGCACAGTTCGAACCAAATCAGTT
1 TTTTCTGCACAGTTCGAACCAAATCAGTT
2088270 TTTTCTGCAC
1 TTTTCTGCAC
2088280 TGTTATGTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 14 0.40
28 9 0.26
29 12 0.34
ACGTcount: A:0.24, C:0.24, G:0.11, T:0.41
Consensus pattern (29 bp):
TTTTCTGCACAGTTCGAACCAAATCAGTT
Found at i:2088317 original size:5 final size:5
Alignment explanation
Indices: 2088302--2088390 Score: 51
Period size: 5 Copynumber: 18.2 Consensus size: 5
2088292 ATATGCTCAA
* * * ** *
2088302 AAAAT -AAAT AAAAT -AAAT AGAAT GAAAT AAAGT TTACT AAAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT
* **
2088351 AAAA- AAAA- AAATT GTAAT AAAAT AAAAT AAAAT AAGAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA-AAT A
2088391 GATCAGAATA
Statistics
Matches: 62, Mismatches: 17, Indels: 9
0.70 0.19 0.10
Matches are distributed among these distances:
4 15 0.24
5 41 0.66
6 6 0.10
ACGTcount: A:0.71, C:0.01, G:0.06, T:0.22
Consensus pattern (5 bp):
AAAAT
Found at i:2090620 original size:116 final size:116
Alignment explanation
Indices: 2090416--2090649 Score: 468
Period size: 116 Copynumber: 2.0 Consensus size: 116
2090406 AAGCATATTT
2090416 TAAGCACATTAGTTAAATTATCAAGACATTCATTAAAAGAGTTACCATAAACCGTGAAGTCATCC
1 TAAGCACATTAGTTAAATTATCAAGACATTCATTAAAAGAGTTACCATAAACCGTGAAGTCATCC
2090481 ATAAAGACTTTGATGCCCTTCTCCACATAGTCAGAAAATATACTTAACATG
66 ATAAAGACTTTGATGCCCTTCTCCACATAGTCAGAAAATATACTTAACATG
2090532 TAAGCACATTAGTTAAATTATCAAGACATTCATTAAAAGAGTTACCATAAACCGTGAAGTCATCC
1 TAAGCACATTAGTTAAATTATCAAGACATTCATTAAAAGAGTTACCATAAACCGTGAAGTCATCC
2090597 ATAAAGACTTTGATGCCCTTCTCCACATAGTCAGAAAATATACTTAACATG
66 ATAAAGACTTTGATGCCCTTCTCCACATAGTCAGAAAATATACTTAACATG
2090648 TA
1 TA
2090650 TCTTTCGAAG
Statistics
Matches: 118, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
116 118 1.00
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.29
Consensus pattern (116 bp):
TAAGCACATTAGTTAAATTATCAAGACATTCATTAAAAGAGTTACCATAAACCGTGAAGTCATCC
ATAAAGACTTTGATGCCCTTCTCCACATAGTCAGAAAATATACTTAACATG
Found at i:2094720 original size:73 final size:72
Alignment explanation
Indices: 2094600--2094824 Score: 258
Period size: 73 Copynumber: 3.1 Consensus size: 72
2094590 TAAAACATCT
*
2094600 TAAATCCTAATT-AAACACTTAAAACTATTTAAACTAAAATACATAAAAATA-ATAATATTTAAA
1 TAAATCCTAATTAAAACAC-TAAAACTATTTAAACTAAAATAC-TAAAAAAAGATAATATTTAAA
2094663 ATAATATTC
64 ATAATATTC
* * *
2094672 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACTTAAAACAAAGATAAAATATAA
1 TAAATCCTAATTAAAACACTAAAA-CTATTTAAACTAAAATAC-TAAAA-AAAGATAATAT-TTA
2094737 AAATAATA-TC
62 AAATAATATTC
* * * * *
2094747 TAAAACTTAATTAAAACACTAAAAATATTTAAACTAAAATACAAAGATAAAATATAATATTTAAA
1 TAAATCCTAATTAAAACACTAAAACTATTTAAACTAAAATACTAA-A-AAAAGATAATATTTAAA
* *
2094812 ATATTATCC
64 ATAATATTC
2094821 TAAA
1 TAAA
2094825 CTTGAGTTTA
Statistics
Matches: 130, Mismatches: 15, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
72 17 0.13
73 39 0.30
74 34 0.26
75 30 0.23
76 10 0.08
ACGTcount: A:0.58, C:0.11, G:0.01, T:0.31
Consensus pattern (72 bp):
TAAATCCTAATTAAAACACTAAAACTATTTAAACTAAAATACTAAAAAAAGATAATATTTAAAAT
AATATTC
Found at i:2095752 original size:3 final size:3
Alignment explanation
Indices: 2095744--2095951 Score: 208
Period size: 3 Copynumber: 67.7 Consensus size: 3
2095734 GTGGGTGGTT
2095744 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
2095792 GAG GAG GAG GA- GAG GA- GAG GAG GAG GAGG GAG GAG GAG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GA-G GAG GAG GAG GAG GAG
** *** ** * * **
2095836 GAG GAG GAG GTT TTT TTG TTACTG TGATTG TG-G GTG GTT GAG GAG GAG
1 GAG GAG GAG GAG GAG GAG -GA--G -GA--G -GAG GAG GAG GAG GAG GAG
2095884 GAG G-G GAG GAG GAG GAG GAG GAG GAG GAG GAG AGAG GAG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG -GAG GAG GAG GAG
2095929 GAG GAG GAG GAG GAG GAG GAG GA
1 GAG GAG GAG GAG GAG GAG GAG GA
2095952 AAAAGAATAC
Statistics
Matches: 186, Mismatches: 10, Indels: 18
0.87 0.05 0.08
Matches are distributed among these distances:
2 7 0.04
3 165 0.89
4 7 0.04
6 7 0.04
ACGTcount: A:0.30, C:0.00, G:0.62, T:0.08
Consensus pattern (3 bp):
GAG
Found at i:2098553 original size:24 final size:23
Alignment explanation
Indices: 2098521--2098577 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 23
2098511 TTTTCTTTTA
2098521 TGTTCGTTTACGCTAGTTTATTAG
1 TGTTCGTTTACGCTAGTTTATT-G
* *
2098545 TGTTCGTTTACGTTCGTTTATTG
1 TGTTCGTTTACGCTAGTTTATTG
*
2098568 TGTTTGTTTA
1 TGTTCGTTTA
2098578 TCATTTAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 10 0.33
24 20 0.67
ACGTcount: A:0.12, C:0.11, G:0.21, T:0.56
Consensus pattern (23 bp):
TGTTCGTTTACGCTAGTTTATTG
Found at i:2104735 original size:21 final size:21
Alignment explanation
Indices: 2104709--2104748 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2104699 CCCCTTTTGA
*
2104709 AGGGGAACCGATTCCCCCCAT
1 AGGGGAACCGATACCCCCCAT
*
2104730 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
2104749 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.38, G:0.25, T:0.12
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAT
Found at i:2109126 original size:18 final size:19
Alignment explanation
Indices: 2109091--2109127 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
2109081 CGCGGAATGT
2109091 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
2109111 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
2109128 TGATTACTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:2112011 original size:19 final size:19
Alignment explanation
Indices: 2111987--2112025 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
2111977 TTTCAATTAA
2111987 AAAATTTAAA-AATTATAAT
1 AAAATTTAAAGAATTA-AAT
2112006 AAAATTTAAAGAATTAAAT
1 AAAATTTAAAGAATTAAAT
2112025 A
1 A
2112026 TTTAAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (19 bp):
AAAATTTAAAGAATTAAAT
Found at i:2116625 original size:32 final size:30
Alignment explanation
Indices: 2116558--2116646 Score: 110
Period size: 32 Copynumber: 2.9 Consensus size: 30
2116548 GAAGGACCTA
2116558 TCCATATGTTCCG-AAGAACATAGGT-AACTG
1 TCCATATG-TCCGAAAG-ACATAGGTAAACTG
2116588 TCCATATGTCCTGAAAGACATAGGTAATACTG
1 TCCATATGTCC-GAAAGACATAGGTAA-ACTG
*
2116620 TCCATATGTCCCAAAGGACATAGGTAA
1 TCCATATGTCCGAAA-GACATAGGTAA
2116647 CCCTCGACTC
Statistics
Matches: 53, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
29 3 0.06
30 17 0.32
31 7 0.13
32 26 0.49
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (30 bp):
TCCATATGTCCGAAAGACATAGGTAAACTG
Found at i:2131701 original size:32 final size:32
Alignment explanation
Indices: 2131656--2131732 Score: 75
Period size: 32 Copynumber: 2.4 Consensus size: 32
2131646 ATCTAGTACA
* **
2131656 CATTATCTAAATGT-GTTACTGGCTCTACTGTG
1 CATTATCTGAATGTCG-TACTAACTCTACTGTG
* **
2131688 CATTATGTGAATGTCGTACTAACTCTGTTGTG
1 CATTATCTGAATGTCGTACTAACTCTACTGTG
*
2131720 CATTATTTGAATG
1 CATTATCTGAATG
2131733 CAATACTGAC
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
32 36 0.97
33 1 0.03
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (32 bp):
CATTATCTGAATGTCGTACTAACTCTACTGTG
Found at i:2131745 original size:32 final size:32
Alignment explanation
Indices: 2131684--2131750 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
2131674 CTGGCTCTAC
*
2131684 TGTGCATTATGTGAATGTCGTACTAACTCTGT
1 TGTGCATTATGTGAATGTCATACTAACTCTGT
* *
2131716 TGTGCATTATTTGAATG-CAATACTGACTCTGT
1 TGTGCATTATGTGAATGTC-ATACTAACTCTGT
2131748 TGT
1 TGT
2131751 AACTCATACA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
31 1 0.03
32 30 0.97
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.42
Consensus pattern (32 bp):
TGTGCATTATGTGAATGTCATACTAACTCTGT
Found at i:2132200 original size:21 final size:22
Alignment explanation
Indices: 2132158--2132212 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
2132148 GACATCCTAG
*
2132158 CTATTATTGTTTATAGTTGTTA
1 CTATTATTGTTTAGAGTTGTTA
*
2132180 CTATTATTGTTTGGA-TTGTTA
1 CTATTATTGTTTAGAGTTGTTA
* *
2132201 CTGTTTTTGTTT
1 CTATTATTGTTT
2132213 TTAGCTGTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 16 0.55
22 13 0.45
ACGTcount: A:0.16, C:0.05, G:0.16, T:0.62
Consensus pattern (22 bp):
CTATTATTGTTTAGAGTTGTTA
Found at i:2133399 original size:157 final size:157
Alignment explanation
Indices: 2133109--2133422 Score: 547
Period size: 157 Copynumber: 2.0 Consensus size: 157
2133099 AAACTAATAT
*
2133109 TTTAGGCTCGAGAAAACACCTAAAATTATCCTAAATGACTTGGGTTGGTTTCTAATCTTGTTCTG
1 TTTAGGCTCAAGAAAACACCTAAAATTATCCTAAATGACTTGGGTTGGTTTCTAATCTTGTTCTG
* * **
2133174 AAGTTTTAGTGAGTTATTTAGGGTCTTAAGGTGTCTTAAAAATACATTTTTAACGCTTAAAATGT
66 AAGTTTTAGTGAGTTATTTAGGGTCTTAAGGTGTCTTAAAAACACATTTTTAACACTTAAAACAT
* *
2133239 GGTTGAGTCATGAAATCAAAGATAAAC
131 GGTTGAATCATAAAATCAAAGATAAAC
2133266 TTTAGGCTCAAGAAAACACCTAAAATTATCCTAAATGACTTGGGTTGGTTTCTAATCTTGTTCTG
1 TTTAGGCTCAAGAAAACACCTAAAATTATCCTAAATGACTTGGGTTGGTTTCTAATCTTGTTCTG
* *
2133331 AAGTTTTAGTGAGTTGTTTAGGGTTTTAAGGTGTCTTAAAAACACATTTTTAACACTTAAAACAT
66 AAGTTTTAGTGAGTTATTTAGGGTCTTAAGGTGTCTTAAAAACACATTTTTAACACTTAAAACAT
2133396 GGTTGAATCATAAAATCAAAGATAAAC
131 GGTTGAATCATAAAATCAAAGATAAAC
2133423 CCTAAACATG
Statistics
Matches: 148, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
157 148 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (157 bp):
TTTAGGCTCAAGAAAACACCTAAAATTATCCTAAATGACTTGGGTTGGTTTCTAATCTTGTTCTG
AAGTTTTAGTGAGTTATTTAGGGTCTTAAGGTGTCTTAAAAACACATTTTTAACACTTAAAACAT
GGTTGAATCATAAAATCAAAGATAAAC
Found at i:2135697 original size:23 final size:23
Alignment explanation
Indices: 2135650--2135698 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
2135640 AAGAACATAT
* **
2135650 TAGGTAGCTCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATAAAA
2135673 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAGCGCTTATATAATAAAA
2135696 TAG
1 TAG
2135699 ACATTTAACC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.08, G:0.18, T:0.35
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATAAAA
Found at i:2135763 original size:23 final size:23
Alignment explanation
Indices: 2135737--2135798 Score: 124
Period size: 23 Copynumber: 2.7 Consensus size: 23
2135727 AATAACATAT
2135737 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATGTAA
2135760 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATGTAA
2135783 TAGGTAGCGCTTATAT
1 TAGGTAGCGCTTATAT
2135799 CGACCTATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.32, C:0.10, G:0.23, T:0.35
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATGTAA
Found at i:2135785 original size:87 final size:87
Alignment explanation
Indices: 2135613--2135778 Score: 305
Period size: 87 Copynumber: 1.9 Consensus size: 87
2135603 TATGTTATAT
*
2135613 CATTTAACCGAAAATATTATCAAGTACAAGAACATATTAGGTAGCTCTTATATAATGTAATAGGT
1 CATTTAACCGAAAATATTATCAAGTACAAGAACATATTAGGTAGCGCTTATATAATGTAATAGGT
2135678 AGCGCTTATATAATAAAATAGA
66 AGCGCTTATATAATAAAATAGA
* *
2135700 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1 CATTTAACCGAAAATATTATCAAGTACAAGAACATATTAGGTAGCGCTTATATAATGTAATAGGT
2135765 AGCGCTTATATAAT
66 AGCGCTTATATAAT
2135779 GTAATAGGTA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 76 1.00
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (87 bp):
CATTTAACCGAAAATATTATCAAGTACAAGAACATATTAGGTAGCGCTTATATAATGTAATAGGT
AGCGCTTATATAATAAAATAGA
Found at i:2136269 original size:200 final size:197
Alignment explanation
Indices: 2135839--2136322 Score: 618
Period size: 200 Copynumber: 2.4 Consensus size: 197
2135829 TATACTGGTA
*
2135839 ACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTTGGATCGATACAATTT
1 ACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATG--TTTTGGATCGATAC-TTTT
* *
2135904 --TAAATGTATCGACACTTTATGCATACACCTCGTTGGGCATTCATTTTGGAAAAAAGTATCGAC
63 AATAAATGTATCGACACTTTATGCATACACCTCATTGGGCATTCATTATGGAAAAAAGTATCGAC
* * *
2135967 AAAAACTTAAAAAGTGTCGATACATTATTTATACCTATTTTCTCATAAAACCGGTATATTTCTAT
128 AAAAACTTAAAAAGTGTCGATACATTATCTATACCTATTTTCTCATAAAACCAGTATATTTCTAC
* *
2136032 CGGGT
193 CAGAT
* *
2136037 ACATTGTAAATTTACCTATCACATTGTAATTATCGGTTTCGATGTTTGTGGTATCGATACTTTTA
1 ACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT-TGG-ATCGATACTTTTA
* * *
2136102 ATAAATGTATCGACACTTTATGCGTGCA-CTCCATTTGGCATTCATTAT-GAACAAAACGTATCG
64 ATAAATGTATCGACACTTTATGCATACACCT-CATTGGGCATTCATTATGGAA-AAAA-GTATCG
* * * * * *
2136165 ACACAAATTTAAATAGTGTCGATACTTTATGCTA-ACCTATTTTCTTATAAAACCAGTATATTTT
126 ACAAAAACTTAAAAAGTGTCGATACATTAT-CTATACCTATTTTCTCATAAAACCAGTATATTTC
2136229 TACCAGAT
190 TACCAGAT
* * * * *
2136237 ACATTATAAATGTACATATTACATTATAATTATTGTTTTCGATGTTATTGAGATCGATACTTTTA
1 ACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTT-TTG-GATCGATACTTTTA
2136302 ATAAATGTATCGACACTTTAT
64 ATAAATGTATCGACACTTTAT
2136323 ATTCTGGACA
Statistics
Matches: 250, Mismatches: 26, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
196 3 0.01
197 6 0.02
198 55 0.22
199 43 0.17
200 139 0.56
201 4 0.02
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.39
Consensus pattern (197 bp):
ACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTGGATCGATACTTTTAAT
AAATGTATCGACACTTTATGCATACACCTCATTGGGCATTCATTATGGAAAAAAGTATCGACAAA
AACTTAAAAAGTGTCGATACATTATCTATACCTATTTTCTCATAAAACCAGTATATTTCTACCAG
AT
Found at i:2136476 original size:177 final size:178
Alignment explanation
Indices: 2136159--2136494 Score: 424
Period size: 177 Copynumber: 1.9 Consensus size: 178
2136149 TGAACAAAAC
* * * * * *
2136159 GTATCGACACAAATTTAAATAGTGTCGATACTTTATGCTAACCTATTTTCTTATAAAACCAGTAT
1 GTATCGACACAAATTAAAAAAGTGTCAATACATTATGCTAACATATTTTCTAATAAAACCAGTAT
*
2136224 ATTTTTACCAGATACATTATAAATGTACATATTACATTATAATTATTGTTTTCGATGTTATTGAG
66 ATTTATACCAGATACATTATAAATGTACATATTACATTATAATTATTGTTTTCGATGTTATTGAG
* *
2136289 ATCGATACTTTTAATAAATGTATCGACACTTTATATTCTGGACAATAA
131 ATCAATACTTTTAAGAAATGTATCGACACTTTATATTCTGGACAATAA
* * * * *
2136337 GTATTGACACAAATTAAAAAAGTGTCAATACATTATGTTGACATATTTTCTAAT-TAACCGGTAT
1 GTATCGACACAAATTAAAAAAGTGTCAATACATTATGCTAACATATTTTCTAATAAAACCAGTAT
* * * * * * * * *
2136401 ATTTATATCGGTTACATTGTTAATTTACCTATTACATTATAATTATTGGTTTT-GATGTTTTTGG
66 ATTTATACCAGATACATTATAAATGTACATATTACATTATAATTATT-GTTTTCGATGTTATTGA
* *
2136465 GGTCAATACTTTTAGGAAATGTATCGACAC
130 GATCAATACTTTTAAGAAATGTATCGACAC
2136495 ATATTTAGCT
Statistics
Matches: 132, Mismatches: 25, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
177 82 0.62
178 50 0.38
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.41
Consensus pattern (178 bp):
GTATCGACACAAATTAAAAAAGTGTCAATACATTATGCTAACATATTTTCTAATAAAACCAGTAT
ATTTATACCAGATACATTATAAATGTACATATTACATTATAATTATTGTTTTCGATGTTATTGAG
ATCAATACTTTTAAGAAATGTATCGACACTTTATATTCTGGACAATAA
Found at i:2141219 original size:199 final size:199
Alignment explanation
Indices: 2140602--2141960 Score: 1564
Period size: 200 Copynumber: 6.8 Consensus size: 199
2140592 CACGTTATTT
* * * *
2140602 AAAAAGTATCGACAAAAATTTAAAA-GTGTCGATACATTATGTTGACCTATTCTCTCATAAAACC
1 AAAAAGTATCGACACAAATCTAAAACGTGTCGATACATTATGTTCACCTATTTTCTCATAAAACC
* * *
2140666 AGTATATTTATATCGGTTACATTGTAAATTTACCTATTACGTTATAATTAAT-GGTTTCGATGTT
66 GGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATT-ATCGGTTTCGATGTT
** * * * *
2140730 TTTGGGATCGATACAATTTCAAATGTATCGACACTTTTTTCCTGCACCACGTTTGGCATTCATTC
130 TTTGGGATCGATACTTTTTAAAATGTATCGACACTTTATGCCTGCACAACGTTTGGCATTCATTC
2140795 TGGAC
195 TGGAC
** *
2140800 AAAATA-TATCGACACAAATCTAAATTGTGTCTATACATTATGTTCACCTATTTTCTCATAAAAC
1 AAAA-AGTATCGACACAAATCTAAAACGTGTCGATACATTATGTTCACCTATTTTCTCATAAAAC
** * * *
2140864 TAGTAAATTTATACCGATTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTTGATGTT
65 CGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTT
* ** * * *
2140929 TTT-GGATCAATACAATTTCAAATGTATCGACACTTTTTGCCTGAACAACGTTTGGCATTCATTC
130 TTTGGGATCGATACTTTTTAAAATGTATCGACACTTTATGCCTGCACAACGTTTGGCATTCATTC
2140993 TGGAC
195 TGGAC
* * *
2140998 AAAATGTATCGACACAAATCTAAAACGTGTCGATATATTATGTTCACCTATTTTCTTATAAAACC
1 AAAAAGTATCGACACAAATCTAAAACGTGTCGATACATTATGTTCACCTATTTTCTCATAAAACC
* * * *
2141063 GGTAAATTTATATCGGTTACATTGTAAATTTACCAATTACATTATAATTATCGGTTTTGATGTTT
66 GGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
* ** * * * *
2141128 TTTGGATCGATACAATTTCAAATGTATCGACACTTTTTGCTTGAACAACGTTTGGCATTCATTCT
131 TTGGGATCGATACTTTTTAAAATGTATCGACACTTTATGCCTGCACAACGTTTGGCATTCATTCT
2141193 GGAC
196 GGAC
* * * * *
2141197 AAAATGTATCGACTCAAATCTAAAACGTGTCGATAGAATATGTTCACCTATTTTCTTATAAAACC
1 AAAAAGTATCGACACAAATCTAAAACGTGTCGATACATTATGTTCACCTATTTTCTCATAAAACC
* * * *
2141262 GGTAAATTTCTACCGGTTACATTGTAAATTTACTTATTACATTATAATTATCAGTTTCGATGTTT
66 GGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
* * *
2141327 TTGGGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTGCA-ACCCTTCTGGCATTCATT
131 TTGGGATCGATACTTTTT-AAAATGTATCGACACTTTATGCCTGCACAACGTT-TGGCATTCATT
* *
2141391 TTAGAC
194 CTGGAC
* * ** * * *
2141397 AAAAAGTATCGACACAAATTCCATAA-GTGTCGATACATTATGTAGACCTATTCTCACATAAAAT
1 AAAAAGTATCGACACAAA-TCTAAAACGTGTCGATACATTATGTTCACCTATTTTCTCATAAAAC
** * *
2141461 CGGTATAGCTATACTGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTT
65 CGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTT
* * * * *
2141526 TCTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTTCACCA-TTTTGGGCATTCAT
130 TTTGGGATCGATACTTTTTA-AAATGTATCGACACTTTATGCCTGCACAACGTTT-GGCATTCAT
2141590 TCTGGAC
193 TCTGGAC
* * * * * ** * *
2141597 AAAAAATATCGAGACAAAAT-TAAAAAGTTTAGATACATTATGTAGACCTATTCTCACATAAAAC
1 AAAAAGTATCGACAC-AAATCTAAAACGTGTCGATACATTATGTTCACCTATTTTCTCATAAAAC
* * * * * ** * *
2141661 TGGTATATTTTTATCGATTATATTACAAAATTGCCTATTACATTATAATTAT-GAGTTTCGATGT
65 CGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCG-GTTTCGATGT
* * *
2141725 TTTTGGGATCGATACTTTTTAAAAATGTATCGACACTGTATGCGTGCACCACGTTTGGCATTCAT
129 TTTTGGGATCGATACTTTTT-AAAATGTATCGACACTTTATGCCTGCACAACGTTTGGCATTCAT
* *
2141790 TTTGGATA
193 TCTGGA-C
* ** * *
2141798 AAAAAATATCGACACAAAT-T----C--CACGATACATTATGTAT-ATCTATTTTCTCAAAAAAC
1 AAAAAGTATCGACACAAATCTAAAACGTGTCGATACATTATGT-TCACCTATTTTCTCATAAAAC
* *
2141855 CGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTTTCGGTTTAGATGTT
65 CGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTT
*
2141920 TTTGGGATCGATACTTTTTAAACATGTATCGACGCTTTATG
130 TTTGGGATCGATACTTTTTAAA-ATGTATCGACACTTTATG
2141961 GGAAACTTTA
Statistics
Matches: 1017, Mismatches: 124, Indels: 44
0.86 0.10 0.04
Matches are distributed among these distances:
193 3 0.00
194 114 0.11
195 1 0.00
198 204 0.20
199 305 0.30
200 364 0.36
201 26 0.03
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (199 bp):
AAAAAGTATCGACACAAATCTAAAACGTGTCGATACATTATGTTCACCTATTTTCTCATAAAACC
GGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
TTGGGATCGATACTTTTTAAAATGTATCGACACTTTATGCCTGCACAACGTTTGGCATTCATTCT
GGAC
Found at i:2145769 original size:400 final size:394
Alignment explanation
Indices: 2145014--2146168 Score: 1473
Period size: 400 Copynumber: 2.9 Consensus size: 394
2145004 CGCAATTTTT
* * * * *
2145014 AAAATGGTATCGACATAAATTTAACAATTGTCGATACTTTATGCT-GACCTATTTTCTCATAAAA
1 AAAAT-GTATCGACACAAA-TTAAAAAGTGTCGATACATTATG-TAGACCTATTCTCTCATAAAA
* * * * *
2145078 CATGTATATTTATACTGGTTACATTAATAATTTACCTATTACATTATAATTACTGGTTTTGATCT
63 CAGGTATATTTATACCGGTTACATTAA-AAATTACCTATTACATTATAATTA-TGGGTTCGAT-T
* * * * *
2145143 TT-TAGGGATCGACAC-TTTTAAAAATGTATCGACACTTAATGGGTGCACCCTTTTGGCATTAAT
125 TTCT-GGGATCGACACTTTTTAAAAATGTATCGACACTTTATGCGTTCACCATTTTGGCATTCAT
* * * * *
2145206 TCTGGACAAAAAGTATCGA-AACAAATTCCAGAAGTGTCGATACATTTTCTATACATATTCTCGC
189 TCTGGACAAAAAGTATCGACAAC-AATTTCA-AAGTGTCGATACATTATGTAGACATATTCTCAC
*
2145270 ATAAAACCGGTATATTTATACCGGTTACATTGA-AAAATTACCTATTACATTATAATCATGGGTT
252 ATAAAACCGGTATATTTATACCGGTTACATT-ACAAAATTACCTATTACATTATAATTATGGGTT
* * *
2145334 TCAATGTTTCTGGGATCGATACTTTTTATAAATGTATCGACAGTTTATGCGTGCACCATTTTTTG
316 TCGATGTTT-TGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACC--CTTTTG
*
2145399 GGCATTTATTCTAGA-A
378 GGCATTCATTCTAGACA
*
2145415 AAAATGTATCGACACATAATTAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAA-A
1 AAAATGTATCGACACA-AATTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACA
*
2145479 CGGTATATTTATACCGGTTACATTACAAAAATACCTATTACATTATAATTATGGGTTCGATTTCT
65 -GGTATATTTATACCGGTTACATTA-AAAATTACCTATTACATTATAATTATGGGTTCGATTT-T
* *
2145544 CTGGGATTGACACTTTTTAAAAATGTATTGACACTTTATGCGTTCACCATTTTGGCATTCATTCT
127 CTGGGATCGACACTTTTTAAAAATGTATCGACACTTTATGCGTTCACCATTTTGGCATTCATTCT
* *
2145609 GGACAAAAAGTATCGACAGCAATTTCAAATGTGTCGATACATTATGTAGACCTATTCTCACATAA
192 GGACAAAAAGTATCGACAACAATTTCAAA-GTGTCGATACATTATGTAGACATATTCTCACATAA
2145674 AACCGGTATATTTATACCGGTTACATTACAAAATTACCTATTACATTATAATTATGGGTTTCGAT
256 AACCGGTATATTTATACCGGTTACATTACAAAATTACCTATTACATTATAATTATGGGTTTCGAT
* * * **
2145739 GTCTTTGGGATCG-TCACTTTTAAAAAATGTATCGACTCTTTATTTGTGCACCCTTTTGGGCATT
321 GT-TTTGGGATCGAT-ACTTTTTATAAATGTATCGACACTTTATGCGTGCACCCTTTTGGGCATT
*
2145803 CCTTCTAGACA
384 CATTCTAGACA
* * * *
2145814 AACA-GTATCGACACAAATTCCATAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACT
1 AAAATGTATCGACACAAATT-AAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACA
** *
2145878 GGTATAGTTT-TACCGGTTATGTTGAAAAATTACCTATTACATTATAATTATGGGTTTCGAAGTT
65 GGTATA-TTTATACCGGTTACATT-AAAAATTACCTATTACATTATAATTATGGG-TTCG-ATTT
* * * *
2145942 TCTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGTGTTCACCATTTTGGGATTCATTC
126 TCTGGGATCGACACTTTTTAAAAATGTATCGACACTTTATGCGTTCACCATTTTGGCATTCATTC
* * *
2146007 TGGA-AGAAAAGTATCGACACCAATTTCGAAAGTGTTGATACATTATGTAGACATGTTCTCACAT
191 TGGACA-AAAAGTATCGACAACAATTTC-AAAGTGTCGATACATTATGTAGACATATTCTCACAT
2146071 AAAACCGGTATATTTATA-C-----C-TTACAAAATTACCTATTACATTATAATTATGGGTTTCG
254 AAAACCGGTATATTTATACCGGTTACATTACAAAATTACCTATTACATTATAATTATGGGTTTCG
2146129 ATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACAC
319 ATG-TTTTGGGATCGATACTTTTTATAAATGTATCGACAC
2146169 ATCTGCTTAC
Statistics
Matches: 672, Mismatches: 59, Indels: 55
0.85 0.08 0.07
Matches are distributed among these distances:
392 71 0.11
393 3 0.00
397 4 0.01
398 117 0.17
399 168 0.25
400 297 0.44
401 12 0.02
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (394 bp):
AAAATGTATCGACACAAATTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACAG
GTATATTTATACCGGTTACATTAAAAATTACCTATTACATTATAATTATGGGTTCGATTTTCTGG
GATCGACACTTTTTAAAAATGTATCGACACTTTATGCGTTCACCATTTTGGCATTCATTCTGGAC
AAAAAGTATCGACAACAATTTCAAAGTGTCGATACATTATGTAGACATATTCTCACATAAAACCG
GTATATTTATACCGGTTACATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTT
GGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCCTTTTGGGCATTCATTCTA
GACA
Found at i:2145909 original size:200 final size:197
Alignment explanation
Indices: 2145042--2146168 Score: 1374
Period size: 198 Copynumber: 5.7 Consensus size: 197
2145032 ATTTAACAAT
* * * ** *
2145042 TGTCGATACTTTATGCT-GACCTATTTTCTCATAAAACATGTATATTTATACTGGTTACATTAAT
1 TGTCGATACATTATG-TAGACCTATTCTCACATAAAACCGGTATATTTATACCGGTTACATTAA-
* * * *
2145106 AATTTACCTATTACATTATAATTACT-GGTTTTGATCTTTTAGGGATCGACAC-TTTTAAAAATG
64 AAATTACCTATTACATTATAATTA-TGGGTTTCGATGTTTT-GGGATCGATACTTTTTAAAAATG
* * * * *
2145169 TATCGACACTTAATGGGTGCACCCTTTT-GGCATTAATTCTGGACAAAAAGTATCGAAACAAATT
127 TATCGACACTTTATGCGTGCACCATTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAATT
2145233 CCAGAAG
192 CCA-AAG
* * * * *
2145240 TGTCGATACATTTTCTATACATATTCTCGCATAAAACCGGTATATTTATACCGGTTACATTGAAA
1 TGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTATATTTATACCGGTTACATT-AAA
* * *
2145305 AATTACCTATTACATTATAATCATGGGTTTCAATGTTTCTGGGATCGATACTTTTTATAAATGTA
65 AATTACCTATTACATTATAATTATGGGTTTCGATGTTT-TGGGATCGATACTTTTTAAAAATGTA
* * *
2145370 TCGACAGTTTATGCGTGCACCATTTTTTGGGCATTTATTCTAGA-AAAAATGTATCGACACATAA
129 TCGACACTTTATGCGTGCACCA--TTTTGGGCATTCATTCTGGACAAAAA-GTATCGACACA-AA
**
2145434 TTAAAAAG
190 TTCCAAAG
*
2145442 TGTCGATACATTATGTAGACCTATTCTCACATAAAAACGGTATATTTATACCGGTTACATTACAA
1 TGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTATATTTATACCGGTTACATTA-AA
* * *
2145507 AAATACCTATTACATTATAATTATGGG-TTCGAT-TTCTCTGGGATTGACACTTTTTAAAAATGT
65 AATTACCTATTACATTATAATTATGGGTTTCGATGTT-T-TGGGATCGATACTTTTTAAAAATGT
* *
2145570 ATTGACACTTTATGCGTTCACCATTTT-GGCATTCATTCTGGACAAAAAGTATCGACAGC-AATT
128 ATCGACACTTTATGCGTGCACCATTTTGGGCATTCATTCTGGACAAAAAGTATCGACA-CAAATT
*
2145633 TCAAATG
192 CCAAA-G
2145640 TGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTATATTTATACCGGTTACATTACAA
1 TGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTATATTTATACCGGTTACATTA-AA
*
2145705 AATTACCTATTACATTATAATTATGGGTTTCGATGTCTTTGGGATCG-TCACTTTTAAAAAATGT
65 AATTACCTATTACATTATAATTATGGGTTTCGATGT-TTTGGGATCGAT-ACTTTTTAAAAATGT
* ** * * * *
2145769 ATCGACTCTTTATTTGTGCACCCTTTTGGGCATTCCTTCTAGACAAACAGTATCGACACAAATTC
128 ATCGACACTTTATGCGTGCACCATTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAATTC
2145834 CATAAG
193 CA-AAG
* * **
2145840 TGTCGATACATTATGTAGACCTATTCTCTCATAAAACTGGTATAGTTT-TACCGGTTATGTTGAA
1 TGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTATA-TTTATACCGGTTACATT-AA
* *
2145904 AAATTACCTATTACATTATAATTATGGGTTTCGAAGTTTCTGGGATCGATACTTTTTATAAATGT
64 AAATTACCTATTACATTATAATTATGGGTTTCGATGTTT-TGGGATCGATACTTTTTAAAAATGT
* * *
2145969 ATCGACACTTTATGTGTTCACCATTTTGGG-ATTCATTCTGGA-AGAAAAGTATCGACACCAATT
128 ATCGACACTTTATGCGTGCACCATTTTGGGCATTCATTCTGGACA-AAAAGTATCGACA-CAAAT
*
2146032 TCGAAAG
191 TCCAAAG
* * *
2146039 TGTTGATACATTATGTAGACATGTTCTCACATAAAACCGGTATATTTATACC--TTAC----AAA
1 TGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTATATTTATACCGGTTACATTAAAA
*
2146098 ATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGATACTTTTTATAAATGTAT
66 ATTACCTATTACATTATAATTATGGGTTTCGATG-TTTTGGGATCGATACTTTTTAAAAATGTAT
2146163 CGACAC
130 CGACAC
2146169 ATCTGCTTAC
Statistics
Matches: 816, Mismatches: 83, Indels: 66
0.85 0.09 0.07
Matches are distributed among these distances:
192 69 0.08
193 3 0.00
197 12 0.01
198 208 0.25
199 162 0.20
200 182 0.22
201 67 0.08
202 108 0.13
203 5 0.01
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (197 bp):
TGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTATATTTATACCGGTTACATTAAAA
ATTACCTATTACATTATAATTATGGGTTTCGATGTTTTGGGATCGATACTTTTTAAAAATGTATC
GACACTTTATGCGTGCACCATTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAATTCCAA
AG
Found at i:2146550 original size:19 final size:19
Alignment explanation
Indices: 2146502--2146542 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
2146492 TTCTCATCTC
2146502 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
2146521 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
2146540 ATA
1 ATA
2146543 AAATATTAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.54, C:0.10, G:0.02, T:0.34
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:2150654 original size:182 final size:181
Alignment explanation
Indices: 2150342--2151015 Score: 858
Period size: 182 Copynumber: 3.7 Consensus size: 181
2150332 TACGCGTACT
* * * * * *
2150342 TATTAAAGTATCGACACTTTAAATATAT-TCGGTCGCTCTATACCGGTTTTGTCATTTCGAGACT
1 TATTAAAGTATCAACACTTTCAATATATCT-GATCGCT-TATACCGGTTTTGTCCTTTAGAGACC
* * ** *
2150406 GGTTTTGTCATATTTTTACGTGTTATATCTTTTTGGATCGATACA-TTGTTATAAAGTATCGACA
64 GATTTTGTCATATTTTTACATGTTATATCGATGTGGATCGATACAGTT-TTATAAAGTATCGACA
* * *
2150470 CTTTATGGGCGCTAAAACTGTTTCACTTTTAAATTCACGAAGTGTCGATACTTA
128 CTTTATAGGCGCTAAAACTGTTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
* *
2150524 TATTAAAGTATCAACACTTTCAATATATTTGGTCGCTCTATACCGGTTTTGTCCTTTAGAGACCG
1 TATTAAAGTATCAACACTTTCAATATATCTGATCGCT-TATACCGGTTTTGTCCTTTAGAGACCG
* * * *
2150589 ATTTTGTCATAATTTTATATGTTATATCAATGTGGATCGATACA-TTGTTATAAAGTATTGACAC
65 ATTTTGTCATATTTTTACATGTTATATCGATGTGGATCGATACAGTT-TTATAAAGTATCGACAC
* * *
2150653 TTTATAAGCGCTAAAACTGGTTCTCTTTTAAATTTACAAAGTGTCGATACTTA
129 TTTATAGGCGCTAAAACTGTTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
* * * * *
2150706 TATTAAAGTATCAACACTTTCAATATATCCAGTATCG-TTTTACCGATTTTGTCTTTTCGAGACC
1 TATTAAAGTATCAACACTTTCAATATAT-CTG-ATCGCTTATACCGGTTTTGTCCTTTAGAGACC
* * * *
2150770 GGTTTTGTCATATTTTTACCTGTTATATTGATGTGGATCGATTCAGTTTTATAAAGTATCGACAC
64 GATTTTGTCATATTTTTACATGTTATATCGATGTGGATCGATACAGTTTTATAAAGTATCGACAC
* *
2150835 TTTATAGGCTCTGAAACTGTTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
129 TTTATAGGCGCTAAAACTGTTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
* * *
2150888 TATTAAAGTATCGACACTTTCAATATATCTGATAC-CGTTTTACCAGTTTTGT-CTTATCA-AGA
1 TATTAAAGTATCAACACTTTCAATATATCTGAT-CGC-TTATACCGGTTTTGTCCTT-T-AGAGA
*
2150950 CCGATTTTGTCATATTTTTACATGTTATATTGATGTGGATCGATACAGTTTTATAAAGTATCGAC
62 CCGATTTTGTCATATTTTTACATGTTATATCGATGTGGATCGATACAGTTTTATAAAGTATCGAC
2151015 A
127 A
2151016 TAAACCGCCA
Statistics
Matches: 435, Mismatches: 48, Indels: 18
0.87 0.10 0.04
Matches are distributed among these distances:
180 2 0.00
181 5 0.01
182 420 0.97
183 5 0.01
184 3 0.01
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (181 bp):
TATTAAAGTATCAACACTTTCAATATATCTGATCGCTTATACCGGTTTTGTCCTTTAGAGACCGA
TTTTGTCATATTTTTACATGTTATATCGATGTGGATCGATACAGTTTTATAAAGTATCGACACTT
TATAGGCGCTAAAACTGTTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
Found at i:2153425 original size:27 final size:26
Alignment explanation
Indices: 2153395--2153445 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
2153385 GGATATTGTC
*
2153395 AAATGTATCA-AAGAAGTGGTTAGAATA
1 AAATGTATAAGAAGAA-T-GTTAGAATA
2153422 AAATGTATAAGAAGAATGTTAGAA
1 AAATGTATAAGAAGAATGTTAGAA
2153446 ATGATCCTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 7 0.32
27 10 0.45
28 5 0.23
ACGTcount: A:0.51, C:0.02, G:0.22, T:0.25
Consensus pattern (26 bp):
AAATGTATAAGAAGAATGTTAGAATA
Found at i:2164501 original size:21 final size:21
Alignment explanation
Indices: 2164475--2164528 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
2164465 GGTACTCCCA
*
2164475 GAGTATCGATACTTACCGTAG
1 GAGTATTGATACTTACCGTAG
*
2164496 GAGTATTGATACTTCCCGTAG
1 GAGTATTGATACTTACCGTAG
2164517 GAGTATTGATAC
1 GAGTATTGATAC
2164529 AAAGGTAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (21 bp):
GAGTATTGATACTTACCGTAG
Found at i:2172582 original size:21 final size:21
Alignment explanation
Indices: 2172558--2172599 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2172548 CCATGAACAG
* *
2172558 TGCTATAGTATACCGCTGCAC
1 TGCTACAGTATACCGATGCAC
*
2172579 TGCTACAGTGTACCGATGCAC
1 TGCTACAGTATACCGATGCAC
2172600 AAAAACATCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (21 bp):
TGCTACAGTATACCGATGCAC
Found at i:2173245 original size:23 final size:23
Alignment explanation
Indices: 2173168--2173246 Score: 65
Period size: 23 Copynumber: 3.4 Consensus size: 23
2173158 AGCTCGTATA
* *
2173168 AATTGTACTGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
*
2173191 AATTTGTC-CCGAAG-GACCGCGTAGG
1 AA-TTG-CACCGAAGTG-CCACGTA-G
*
2173216 AA-GGCACCGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
2173238 AATTGCACC
1 AATTGCACC
2173247 ATAATGCCAT
Statistics
Matches: 43, Mismatches: 6, Indels: 14
0.68 0.10 0.22
Matches are distributed among these distances:
22 4 0.09
23 21 0.49
24 15 0.35
25 3 0.07
ACGTcount: A:0.29, C:0.24, G:0.28, T:0.19
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACGTAG
Found at i:2174481 original size:9 final size:9
Alignment explanation
Indices: 2174467--2174493 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
2174457 CGTTGGAGAA
2174467 GAAGAAGAT
1 GAAGAAGAT
2174476 GAAGAAGAT
1 GAAGAAGAT
2174485 GAAGAAGAT
1 GAAGAAGAT
2174494 AAGTCTGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.33, T:0.11
Consensus pattern (9 bp):
GAAGAAGAT
Found at i:2179448 original size:57 final size:57
Alignment explanation
Indices: 2179360--2179471 Score: 215
Period size: 57 Copynumber: 2.0 Consensus size: 57
2179350 TAGTCCTTAA
*
2179360 CAAGTTGCTAGTAGTGGAGGCTTGAATTCTTATATGGATTTCGTCAATAACACTCAG
1 CAAGTTGCTAGTAGTGGAGGCTTGAATTCTTATATGGATTTCATCAATAACACTCAG
2179417 CAAGTTGCTAGTAGTGGAGGCTTGAATTCTTATATGGATTTCATCAATAACACTC
1 CAAGTTGCTAGTAGTGGAGGCTTGAATTCTTATATGGATTTCATCAATAACACTC
2179472 CTAAATCCTA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (57 bp):
CAAGTTGCTAGTAGTGGAGGCTTGAATTCTTATATGGATTTCATCAATAACACTCAG
Found at i:2181131 original size:5 final size:5
Alignment explanation
Indices: 2181121--2181147 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
2181111 GTTCGGGTTT
2181121 TTCGG TTCGG TTCGG TTCGG TTCGG TT
1 TTCGG TTCGG TTCGG TTCGG TTCGG TT
2181148 TTTTTCGGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.19, G:0.37, T:0.44
Consensus pattern (5 bp):
TTCGG
Found at i:2181154 original size:15 final size:15
Alignment explanation
Indices: 2181090--2181157 Score: 66
Period size: 15 Copynumber: 4.5 Consensus size: 15
2181080 GTTTTTTCAG
2181090 TTCGGTTCGGGTTTTT
1 TTCGGTTC-GGTTTTT
* *
2181106 TAACGGTTCGG-GTTT
1 T-TCGGTTCGGTTTTT
***
2181121 TTCGGTTCGGTTCGG
1 TTCGGTTCGGTTTTT
2181136 TTCGGTTCGGTTTTT
1 TTCGGTTCGGTTTTT
2181151 TTCGGTT
1 TTCGGTT
2181158 TTTCAATGAA
Statistics
Matches: 40, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
14 8 0.20
15 23 0.57
16 3 0.08
17 6 0.15
ACGTcount: A:0.03, C:0.15, G:0.32, T:0.50
Consensus pattern (15 bp):
TTCGGTTCGGTTTTT
Found at i:2184453 original size:33 final size:34
Alignment explanation
Indices: 2184412--2184479 Score: 120
Period size: 33 Copynumber: 2.0 Consensus size: 34
2184402 ATGGCTAATA
2184412 GATTCTCGACAGCTGTACATTCTATAA-TTAGTT
1 GATTCTCGACAGCTGTACATTCTATAATTTAGTT
*
2184445 GATTCTCGATAGCTGTACATTCTATAATTTAGTT
1 GATTCTCGACAGCTGTACATTCTATAATTTAGTT
2184479 G
1 G
2184480 TAACAACTAC
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 26 0.79
34 7 0.21
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.41
Consensus pattern (34 bp):
GATTCTCGACAGCTGTACATTCTATAATTTAGTT
Found at i:2184769 original size:16 final size:16
Alignment explanation
Indices: 2184748--2184785 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
2184738 CTTTATTGAA
2184748 AGGATTTAAAATTTGG
1 AGGATTTAAAATTTGG
2184764 AGGATTTAAAATTTGG
1 AGGATTTAAAATTTGG
2184780 AGGATT
1 AGGATT
2184786 AATTTGAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.26, T:0.37
Consensus pattern (16 bp):
AGGATTTAAAATTTGG
Found at i:2186176 original size:45 final size:45
Alignment explanation
Indices: 2186121--2186456 Score: 474
Period size: 45 Copynumber: 7.5 Consensus size: 45
2186111 AAATCTATGA
*
2186121 ATCGGCATAAAAGGTGCCACTAATGAAAATGTATAACGGTGCATT
1 ATCGGCATAAAAGGTGCCACTAATGAAAATGCATAACGGTGCATT
* * *
2186166 ATCGACATAAAAGATGTCACTAATGAAAATGCATAACGGTGCATT
1 ATCGGCATAAAAGGTGCCACTAATGAAAATGCATAACGGTGCATT
* * * ** *
2186211 ATCAGCATAAAAGGTTCCACAAATGAAAATGCATAACAATGAATT
1 ATCGGCATAAAAGGTGCCACTAATGAAAATGCATAACGGTGCATT
*
2186256 ATCGACATAAAAGGTGCCACTAATGAAAATGCATAACGGTGCATT
1 ATCGGCATAAAAGGTGCCACTAATGAAAATGCATAACGGTGCATT
* *
2186301 ATCGGCATAAAATGTGCCACTAATGAAAATGCATAACGGTCCATT
1 ATCGGCATAAAAGGTGCCACTAATGAAAATGCATAACGGTGCATT
* * * *
2186346 ATCTGCATAAAAGGTTCCACTAATGAAAATGAATAATGGTGCATT
1 ATCGGCATAAAAGGTGCCACTAATGAAAATGCATAACGGTGCATT
* * *
2186391 ATCGGCATCAAATGTACCACTAATGAAAATGCATAACGGTGCATT
1 ATCGGCATAAAAGGTGCCACTAATGAAAATGCATAACGGTGCATT
* *
2186436 ATCGGTATCAAAGGTGCCACT
1 ATCGGCATAAAAGGTGCCACT
2186457 CATGGTATTC
Statistics
Matches: 253, Mismatches: 38, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 253 1.00
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.24
Consensus pattern (45 bp):
ATCGGCATAAAAGGTGCCACTAATGAAAATGCATAACGGTGCATT
Found at i:2192204 original size:45 final size:45
Alignment explanation
Indices: 2192153--2192485 Score: 549
Period size: 45 Copynumber: 7.4 Consensus size: 45
2192143 TCTATTAATT
*
2192153 GGCATAAAAGGTGTCACTAATGAAAATGCATAACGGTGCATTATC
1 GGCATAAAAGGTGCCACTAATGAAAATGCATAACGGTGCATTATC
2192198 GGCATAAAAGGTGCCACTAATGAAAATGCATAACGGTGCATTATC
1 GGCATAAAAGGTGCCACTAATGAAAATGCATAACGGTGCATTATC
* * * *
2192243 GACATAAAATGTGTCAGTAATGAAAATGCATAACGGTGCATTATC
1 GGCATAAAAGGTGCCACTAATGAAAATGCATAACGGTGCATTATC
* * *
2192288 GGCATAAAAGGTACAAGTAATGAAAATGCATAACGGTGCATTATC
1 GGCATAAAAGGTGCCACTAATGAAAATGCATAACGGTGCATTATC
*
2192333 GGCATAAAAGGTGCCACTAATGAAAATGTATAACGGTGCATTATC
1 GGCATAAAAGGTGCCACTAATGAAAATGCATAACGGTGCATTATC
*
2192378 GGCATAAAAGGTGTCACTAATGAAAATGCATAACGGTGCATTATC
1 GGCATAAAAGGTGCCACTAATGAAAATGCATAACGGTGCATTATC
* * *
2192423 GGCATAAACGGTCCCGCTAATGAAAATGCATAACGGTGCATTATC
1 GGCATAAAAGGTGCCACTAATGAAAATGCATAACGGTGCATTATC
2192468 GGCATAAAAGGTGCCACT
1 GGCATAAAAGGTGCCACT
2192486 CATGGTATTC
Statistics
Matches: 265, Mismatches: 23, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 265 1.00
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (45 bp):
GGCATAAAAGGTGCCACTAATGAAAATGCATAACGGTGCATTATC
Found at i:2196241 original size:38 final size:37
Alignment explanation
Indices: 2196190--2196265 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 37
2196180 ACTGCCACTA
2196190 TCTACTTGGTCTGGATGATCTTCACGGGCCGTCGCGAG
1 TCTACTTGGTCTGGATGATCTTCACGGGCCG-CGCGAG
2196228 TCTACTTGGTCTGGATGATCTTCACGGGCCGCGCGAG
1 TCTACTTGGTCTGGATGATCTTCACGGGCCGCGCGAG
2196265 T
1 T
2196266 ACCTTGAGGA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 7 0.18
38 31 0.82
ACGTcount: A:0.13, C:0.26, G:0.32, T:0.29
Consensus pattern (37 bp):
TCTACTTGGTCTGGATGATCTTCACGGGCCGCGCGAG
Found at i:2200081 original size:227 final size:217
Alignment explanation
Indices: 2199668--2200105 Score: 646
Period size: 227 Copynumber: 2.0 Consensus size: 217
2199658 GTAAATTATC
* *
2199668 TATCCTTTTTATAAATGTCCATACTTATTTCACTGTGAAAAATATATTTATTATCTTTAGTTAAT
1 TATCATTTTTATAAATGTCCATACTTATTTCACTGTGAAAAATATATTAATTA-CTTTAGTTAAT
* * *
2199733 ATTGTTAAATTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGT
65 ATTGTTAAATTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAATTTGTGTAT
2199798 GAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAA
130 GAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAA
2199863 TTACATAACTTTCAAAAAAGTATA
195 TTACATAACTTT-AAAAAAGTATA
* *
2199887 TATCATTTTTATAAAAGTGTTCATACTTATTTCACTGTTGAAAACATATTATTAAATTA-TTTGG
1 TATCATTTTTAT-AAA-TGTCCATACTTATTTCACTG-TGAAAA-ATA-TATT-AATTACTTTAG
*
2199951 TTAATATTGTTAAATTTAAATTCTAAAT-ATATTTTATAAAATATCAAAACAAATCAAATAAAAT
60 TTAATATTGTTAAA-TTAAAATCTAAATAATATTTTATAAAATATCAAAAC-AATCAAAT-AAAT
* * *
2200015 TTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGGAAACATGAAACACTATTAAATAAATT
122 TTGTGT--ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATT
2200080 GAAACATAAATTACATAACTTTAAAA
185 GAAACATAAATTACATAACTTTAAAA
2200106 GCAGTTTTAA
Statistics
Matches: 197, Mismatches: 11, Indels: 15
0.88 0.05 0.07
Matches are distributed among these distances:
219 11 0.06
220 3 0.02
221 19 0.10
222 6 0.03
223 43 0.22
224 24 0.12
225 12 0.06
226 4 0.02
227 75 0.38
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (217 bp):
TATCATTTTTATAAATGTCCATACTTATTTCACTGTGAAAAATATATTAATTACTTTAGTTAATA
TTGTTAAATTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAATTTGTGTATG
AAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAAT
TACATAACTTTAAAAAAGTATA
Found at i:2200201 original size:20 final size:21
Alignment explanation
Indices: 2200168--2200214 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
2200158 ACGATATCCA
*
2200168 GGTAAAAAATATGATAAAACC
1 GGTAAAAAATATGATAAAAAC
*
2200189 GGTAACAAA-ATGATAAAAAC
1 GGTAAAAAATATGATAAAAAC
2200209 GGTAAA
1 GGTAAA
2200215 TTTAAAAGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.57, C:0.09, G:0.17, T:0.17
Consensus pattern (21 bp):
GGTAAAAAATATGATAAAAAC
Found at i:2200356 original size:20 final size:19
Alignment explanation
Indices: 2200333--2200379 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
2200323 CGATATAACA
2200333 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
2200353 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
2200373 GGTAAAA
1 GGTAAAA
2200380 TGATACCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:2200381 original size:17 final size:18
Alignment explanation
Indices: 2200337--2200384 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 18
2200327 ATAACAGGTA
2200337 AAAATATGATAAAACCGGT
1 AAAA-ATGATAAAACCGGT
2200356 AACAAAATGATAAAACCGGT
1 -A-AAAATGATAAAACCGGT
2200376 -AAAATGATA
1 AAAAATGATA
2200385 CCGGATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 9 0.33
20 15 0.56
21 3 0.11
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.19
Consensus pattern (18 bp):
AAAAATGATAAAACCGGT
Found at i:2202587 original size:21 final size:21
Alignment explanation
Indices: 2202541--2202605 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
2202531 AAGACAATCA
* *
2202541 AGAGTCGAAGAG-AACTTGATC
1 AGAGTCGAAGAGAAACTCGA-G
*
2202562 A-AGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
* *
2202582 AGAGTCGAAGATACACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
2202603 AGA
1 AGA
2202606 ATAAGGGGGT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 10 0.28
21 26 0.72
ACGTcount: A:0.40, C:0.15, G:0.29, T:0.15
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTCGAG
Found at i:2204469 original size:17 final size:18
Alignment explanation
Indices: 2204447--2204491 Score: 74
Period size: 17 Copynumber: 2.5 Consensus size: 18
2204437 TGTCGAGTTA
2204447 ATTTTGTATA-GATTTAT
1 ATTTTGTATACGATTTAT
2204464 ATTTTGTATACGATTTAT
1 ATTTTGTATACGATTTAT
2204482 ATTTTTGTAT
1 A-TTTTGTAT
2204492 GTGAATATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 10 0.38
18 8 0.31
19 8 0.31
ACGTcount: A:0.27, C:0.02, G:0.11, T:0.60
Consensus pattern (18 bp):
ATTTTGTATACGATTTAT
Found at i:2205205 original size:193 final size:196
Alignment explanation
Indices: 2204612--2205469 Score: 1486
Period size: 196 Copynumber: 4.4 Consensus size: 196
2204602 TGGCCAACAG
*
2204612 GCACCCATAAGTGTCGATCCTATATAAAAAAGTGTCAATCCCAAAATCATCGAACCCAAAAGTAT
1 GCACCCATAAGTGTCGATCCTATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCC-AAAGTAT
2204677 AATG---TATGTAA-TTTTCAATCTAACC-GTACAATTATACCGGTTTTATGAGAGAATATGTCT
64 AATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCT
2204737 AAATAATGTGTCGACACTAATA-AGTTTGTGTCGATACTTTTTTCCCAGAATGAATGGAAAACAA
129 AAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAATGGAAAACAA
2204801 GGT
194 GGT
2204804 GCACCCATAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAGTATA
1 GCACCCATAAGTGTCGATCC-TATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAGTATA
2204869 ATGTAATATGTAATTTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCT
65 ATGTAATATGTAA-TTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCT
2204934 AAATAATGTGTCG--ACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAATGGAAAACAA
129 AAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAATGGAAAACAA
2204997 GGT
194 GGT
2205000 GCACCC-TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAGT-T
1 GCACCCAT-AAGTGTCGATCC-TATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAGTAT
2205063 AATGT-ATATGT-ATTTTTCAATCTAACCGGTAC-ATTATACCGGTTTTATGAGAGAATATGTCT
64 AATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCT
2205125 AAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAATGGAAAAC-A
129 AAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAATGGAAAACAA
2205189 GGT
194 GGT
2205192 GCACCCATAAAGTGTCGATCCTATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAGTAT
1 GCACCCAT-AAGTGTCGATCCTATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAGTAT
2205257 AATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAA-ATGTCT
64 AATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCT
2205321 AAATAATGTGTCGACACT-A-ATAGTTTGTGTCGATACTTTTTTCCCAGAATGAATGG-AAACAA
129 AAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAATGGAAAACAA
2205383 GGT
194 GGT
2205386 GCACCCATAAGTGTCGATCCTATAT-AAAAGTGTCGATCCC-AAATCATCGAACCCAAAAGTATA
1 GCACCCATAAGTGTCGATCCTATATAAAAAGTGTCGATCCCAAAATCATCGAACCC-AAAGTATA
2205449 ATGTAATATGTAATTTTTCAA
65 ATGTAATATGTAATTTTTCAA
2205470 CAGATGTGGA
Statistics
Matches: 646, Mismatches: 1, Indels: 39
0.94 0.00 0.06
Matches are distributed among these distances:
190 14 0.02
191 98 0.15
192 85 0.13
193 125 0.19
194 68 0.11
195 21 0.03
196 164 0.25
197 71 0.11
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (196 bp):
GCACCCATAAGTGTCGATCCTATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAGTATAA
TGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAA
ATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAATGGAAAACAAGG
T
Found at i:2205519 original size:3 final size:3
Alignment explanation
Indices: 2205511--2205585 Score: 78
Period size: 3 Copynumber: 25.0 Consensus size: 3
2205501 TGAAGCTGAC
* * * ** * *
2205511 GAT GAT GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA GAT GAT GAC GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
*
2205559 GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT
2205586 CCAAACAAGT
Statistics
Matches: 57, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.35, C:0.05, G:0.35, T:0.25
Consensus pattern (3 bp):
GAT
Found at i:2207144 original size:180 final size:178
Alignment explanation
Indices: 2206768--2207439 Score: 1069
Period size: 180 Copynumber: 3.8 Consensus size: 178
2206758 CAAAGTTTTC
* * * *
2206768 ACACTTTTTAATATGTGTCTTACTTTATGTCCAGAATGAAAGAAAAATGTGTCGATACCATTTAA
1 ACACTTTCTAATATGTGTCGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAA
* * *
2206833 AAAGTGTCG--ATTGAAAAAACTCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATA
66 AAAGTGTCGACATT-TACACA-TCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATA
*
2206896 ACCGTATAAATATACCGGTTTTATGAGCG-ATAGGTCTACAACCTATATCG
129 ACCGTATAAAAATACC-GTTTTATGAGCGAATAGGTCTACAACCTATATCG
2206946 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTCTAATA-TGTGTC-GTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
2207011 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
64 -AAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
2207076 AACCGGTATAAAAATACCGTTTTATGAGCGAATAGGTCTACAACCTATATCG
128 AACC-GTATAAAAATACCGTTTTATGAGCGAATAGGTCTACAACCTATATCG
2207128 ACACTTTCTAAT-TGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTA
1 ACACTTTCTAATATGTGTC-GTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTA
*
2207192 AAAAGTGTCGACATTT--ACATCGGAACCCATATTTATAATGT-ATAGATAATTTTGTAATATAA
65 AAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAA
* *
2207254 CCGTAT-AAAAT-CCGGTTTATGAGCGAATAGGTCTACAACCTTTATCG
130 CCGTATAAAAATACCGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
2207301 ACACTTTCTAATAT-TGT-GTACTTTATGTTCAGATTGGAAGAAAAATGTGTCGATACCATTTAA
1 ACACTTTCTAATATGTGTCGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT-A
2207364 AAAAGTGTCGACATTTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATA
65 AAAAGTGTCGACA-TTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATA
2207429 ACCGTATAAAA
129 ACCGTATAAAA
2207440 TGTGTCGATA
Statistics
Matches: 467, Mismatches: 13, Indels: 29
0.92 0.03 0.06
Matches are distributed among these distances:
171 43 0.09
172 14 0.03
173 52 0.11
174 6 0.01
175 28 0.06
176 50 0.11
177 27 0.06
178 12 0.03
179 23 0.05
180 92 0.20
181 69 0.15
182 48 0.10
183 3 0.01
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (178 bp):
ACACTTTCTAATATGTGTCGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAA
AAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAAC
CGTATAAAAATACCGTTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:2210584 original size:23 final size:23
Alignment explanation
Indices: 2210553--2210616 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
2210543 ATAGGTAAAC
*
2210553 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
2210576 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
2210599 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
2210617 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:2210623 original size:23 final size:23
Alignment explanation
Indices: 2210553--2210625 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
2210543 ATAGGTAAAC
* **
2210553 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
2210576 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
2210599 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
2210622 ATAT
1 ATAT
2210626 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:2211013 original size:22 final size:23
Alignment explanation
Indices: 2210985--2211040 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
2210975 AAACATATGA
2210985 GTAATAGGTAGC-CCTATATAAT
1 GTAATAGGTAGCGCCTATATAAT
* **
2211007 GTAATAGGTATCGTTTATATAAT
1 GTAATAGGTAGCGCCTATATAAT
2211030 GTAATAGGTAG
1 GTAATAGGTAG
2211041 TGGTTATATT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 11 0.38
23 18 0.62
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (23 bp):
GTAATAGGTAGCGCCTATATAAT
Found at i:2211047 original size:23 final size:23
Alignment explanation
Indices: 2210999--2211049 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
2210989 TAGGTAGCCC
*
2210999 TATATAATGTAATAGGTATCGTT
1 TATATAATGTAATAGGTATCGGT
2211022 TATATAATGTAATAGGTAGT-GGT
1 TATATAATGTAATAGGTA-TCGGT
2211045 TATAT
1 TATAT
2211050 TGTAAAGTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 25 0.96
24 1 0.04
ACGTcount: A:0.35, C:0.02, G:0.20, T:0.43
Consensus pattern (23 bp):
TATATAATGTAATAGGTATCGGT
Found at i:2211345 original size:25 final size:24
Alignment explanation
Indices: 2211313--2211362 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 24
2211303 AACACAAATC
* *
2211313 AATTAACATTGTTGTGGGTACATT
1 AATTAACATTGTTATGAGTACATT
2211337 AATTGAACATTGTTATGAGTACATT
1 AATT-AACATTGTTATGAGTACATT
2211362 A
1 A
2211363 TTTGGATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.40
Consensus pattern (24 bp):
AATTAACATTGTTATGAGTACATT
Found at i:2211630 original size:18 final size:18
Alignment explanation
Indices: 2211609--2211645 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
2211599 GTAATTGGAG
2211609 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
*
2211627 TTTGAATTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
2211645 T
1 T
2211646 ATATATTTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.35, C:0.05, G:0.08, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:2211943 original size:39 final size:39
Alignment explanation
Indices: 2211900--2212024 Score: 216
Period size: 39 Copynumber: 3.2 Consensus size: 39
2211890 TCCGATGCTC
* *
2211900 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
*
2211939 ATC-AAATCAAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
2211977 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
2212016 ATCAAAATC
1 ATCAAAATC
2212025 TACAACTTGA
Statistics
Matches: 81, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
38 35 0.43
39 46 0.57
ACGTcount: A:0.49, C:0.20, G:0.14, T:0.18
Consensus pattern (39 bp):
ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
Found at i:2211956 original size:38 final size:38
Alignment explanation
Indices: 2211904--2212021 Score: 200
Period size: 38 Copynumber: 3.1 Consensus size: 38
2211894 ATGCTCATCA
* *
2211904 AAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAAATC
1 AAATCCAAATCTCATATGATGCCAAGCAAAAGGAAATC
*
2211942 AAATCAAAATCTCATATGATGCCAAGCAAAAGGAAATC
1 AAATCCAAATCTCATATGATGCCAAGCAAAAGGAAATC
2211980 AAAATCCAAATCTCATATGATGCCAAGCAAAAGGAAATC
1 -AAATCCAAATCTCATATGATGCCAAGCAAAAGGAAATC
2212019 AAA
1 AAA
2212022 ATCTACAACT
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
38 38 0.51
39 37 0.49
ACGTcount: A:0.49, C:0.19, G:0.14, T:0.17
Consensus pattern (38 bp):
AAATCCAAATCTCATATGATGCCAAGCAAAAGGAAATC
Found at i:2212450 original size:23 final size:23
Alignment explanation
Indices: 2212419--2212482 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
2212409 ATAGGTAAAC
*
2212419 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
2212442 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
2212465 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
2212483 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:2212489 original size:23 final size:23
Alignment explanation
Indices: 2212419--2212491 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
2212409 ATAGGTAAAC
* **
2212419 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
2212442 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
2212465 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
2212488 ATAT
1 ATAT
2212492 TTAGTAATTA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:2213768 original size:346 final size:338
Alignment explanation
Indices: 2213275--2213971 Score: 1252
Period size: 346 Copynumber: 2.0 Consensus size: 338
2213265 TAAACTTATA
* *
2213275 TTTTAAATAATTATAATAGGTATCATATTGATTTATATAAAATATATATATAAAAAAAATAATAT
1 TTTTAATTTATTATAATAGGTATCATATTGATTTATATAAAATATATATATAAAAAAAATAATAT
*
2213340 TATGGTCTCGAGTTAATAATATATTTTTTCAATGTTTAAGATTCATTTTTTAATAATTCAAAGTT
66 TATGGTCTCGAGTCAATAATATATTTTTTCAATGTTTAAGATTCATTTTTTAATAATTCAAAGTT
2213405 ATACATTATTTTAAATAATTACATTTTTACAATAATATCATTTTCGTCTCATACAATTACAAATA
131 ATACATTATTTTAAATAATTACATTTTTACAATAATATCATTTTCGTCTCATACAATTACAAATA
2213470 ATTAATATGTTGAATATTAAAAATATAAAATAATTTTAACTACTGAAATTTATTAATATTTTACT
196 ATTAATATGTTGAATATTAAAAATATAAAATAATTTTAACTACTGAAATTTATTAATATTTTACT
2213535 AAATCAAACTCTTTGTATATTATTAAAATGTTTATAATTTTGAGCAGAGCACAAAAAATAATAAT
261 AAATCAAACTCTTTGTATATTATTAAAATGTTTATAATTTTGAGCAGAGCACAAAAAATAATAAT
2213600 TAAGAATGATCAT
326 TAAGAATGATCAT
2213613 TTTTAATTTATTATAATAGGTATCATATTGATTTATATAAAATATAATATAATATAAAAAAATAA
1 TTTTAATTTATTATAATAGGTATCATATTGATTTATAT-AAA-AT-ATAT-ATAT-AAAAAA-AA
* *
2213678 TAATATTATGGTCTTGAGTCAATAAATATATTATTTTTCGATGTTTAAGATTCA-TTTTTAATAA
60 TAATATTATGGTCTCGAGTCAAT-AATATA-T-TTTTTCAATGTTTAAGATTCATTTTTTAATAA
*
2213742 TTCAAAGTTATACATTATTTTAAATAATTACATTTTTACAATAATATCATTTTTGTCTCATACAA
122 TTCAAAGTTATACATTATTTTAAATAATTACATTTTTACAATAATATCATTTTCGTCTCATACAA
2213807 TTACAAATAATTAATATGTTGAATATTAAAAATATAAAATAATTTTAACTACTGAAATTTATTAA
187 TTACAAATAATTAATATGTTGAATATTAAAAATATAAAATAATTTTAACTACTGAAATTTATTAA
2213872 TATTTTACTAAATCAAACTCTTTGTATATTATTAAAATGTTTATAATTTTGAGCAGAGCACAAAA
252 TATTTTACTAAATCAAACTCTTTGTATATTATTAAAATGTTTATAATTTTGAGCAGAGCACAAAA
2213937 AATAATAATTAAGAATGATCAT
317 AATAATAATTAAGAATGATCAT
2213959 TTTTAATTTATTA
1 TTTTAATTTATTA
2213972 ATTTAAGGAA
Statistics
Matches: 344, Mismatches: 6, Indels: 10
0.96 0.02 0.03
Matches are distributed among these distances:
338 36 0.10
339 3 0.01
340 2 0.01
341 4 0.01
342 4 0.01
343 6 0.02
344 23 0.07
345 6 0.02
346 240 0.70
347 20 0.06
ACGTcount: A:0.43, C:0.07, G:0.06, T:0.43
Consensus pattern (338 bp):
TTTTAATTTATTATAATAGGTATCATATTGATTTATATAAAATATATATATAAAAAAAATAATAT
TATGGTCTCGAGTCAATAATATATTTTTTCAATGTTTAAGATTCATTTTTTAATAATTCAAAGTT
ATACATTATTTTAAATAATTACATTTTTACAATAATATCATTTTCGTCTCATACAATTACAAATA
ATTAATATGTTGAATATTAAAAATATAAAATAATTTTAACTACTGAAATTTATTAATATTTTACT
AAATCAAACTCTTTGTATATTATTAAAATGTTTATAATTTTGAGCAGAGCACAAAAAATAATAAT
TAAGAATGATCAT
Found at i:2230195 original size:31 final size:31
Alignment explanation
Indices: 2230157--2230220 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
2230147 TATGTGATAA
2230157 GCGATATAATGTCTTGTTGAGTTTAATAGTT
1 GCGATATAATGTCTTGTTGAGTTTAATAGTT
2230188 GCGATATAATGTCTTGTTGAGTTTAATAGTT
1 GCGATATAATGTCTTGTTGAGTTTAATAGTT
2230219 GC
1 GC
2230221 AAAAATGTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.25, C:0.08, G:0.23, T:0.44
Consensus pattern (31 bp):
GCGATATAATGTCTTGTTGAGTTTAATAGTT
Found at i:2235105 original size:42 final size:43
Alignment explanation
Indices: 2235050--2235165 Score: 146
Period size: 42 Copynumber: 2.7 Consensus size: 43
2235040 TAGCGGCATT
* *
2235050 TTTTGGAACAAACGCCGCAAAAGGTCAAGATATATTGTAG-C-G
1 TTTTGGAACAAACGCCGCAAAAGGTCGAGATATATAG-AGACAG
* * *
2235092 TTTTGGAACAAACGCCGTAAAAGGTCGAGATCTATAGAGACAT
1 TTTTGGAACAAACGCCGCAAAAGGTCGAGATATATAGAGACAG
* *
2235135 TTTTTGAACAAACGCCACAAAAGGTCGAGAT
1 TTTTGGAACAAACGCCGCAAAAGGTCGAGAT
2235166 CTGTAGCGGT
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
41 2 0.03
42 34 0.53
43 28 0.44
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.23
Consensus pattern (43 bp):
TTTTGGAACAAACGCCGCAAAAGGTCGAGATATATAGAGACAG
Found at i:2235181 original size:43 final size:43
Alignment explanation
Indices: 2234990--2235181 Score: 179
Period size: 43 Copynumber: 4.5 Consensus size: 43
2234980 CCATAGGTAA
* * * * **
2234990 AGATTTATAACGGCGTTTTTTGAACAAATGACGCAAAAAATCG
1 AGATCTATAGCGGCGTTTTTTGAACAAACGCCGCAAAAGGTCG
* * *
2235033 ATATCTATAGCGGCATTTTTTGGAACAAACGCCGCAAAAGGTCA
1 AGATCTATAGCGGCGTTTTTT-GAACAAACGCCGCAAAAGGTCG
* * ** * *
2235077 AGATATATTGTAGCG-TTTTGGAACAAACGCCGTAAAAGGTCG
1 AGATCTATAGCGGCGTTTTTTGAACAAACGCCGCAAAAGGTCG
* * * *
2235119 AGATCTATAGAGACATTTTTTGAACAAACGCCACAAAAGGTCG
1 AGATCTATAGCGGCGTTTTTTGAACAAACGCCGCAAAAGGTCG
* *
2235162 AGATCTGTAGCGGTGTTTTT
1 AGATCTATAGCGGCGTTTTT
2235182 ACCTCTATCG
Statistics
Matches: 115, Mismatches: 32, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
42 29 0.25
43 60 0.52
44 26 0.23
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (43 bp):
AGATCTATAGCGGCGTTTTTTGAACAAACGCCGCAAAAGGTCG
Found at i:2236384 original size:45 final size:45
Alignment explanation
Indices: 2236321--2236437 Score: 112
Period size: 43 Copynumber: 2.6 Consensus size: 45
2236311 GAGAGACACA
* * * * * * *
2236321 AAAAAATCGATATCTATAGCAGCGTTTTTTTGGAACAAATATCGC
1 AAAAGATCGAGATATATAGCGGCGTTTTTTCGGAACAAACACCGC
* * *
2236366 AAAAGGTCGAGATATATAGTGGCG--TTTTCGGAACAAACGCCGC
1 AAAAGATCGAGATATATAGCGGCGTTTTTTCGGAACAAACACCGC
* *
2236409 AAAAGATCGAGATTTATAGCGGTGTTTTT
1 AAAAGATCGAGATATATAGCGGCGTTTTT
2236438 ACCTCTTTCC
Statistics
Matches: 56, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
43 35 0.62
45 21 0.38
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (45 bp):
AAAAGATCGAGATATATAGCGGCGTTTTTTCGGAACAAACACCGC
Found at i:2243752 original size:83 final size:83
Alignment explanation
Indices: 2243573--2243764 Score: 224
Period size: 83 Copynumber: 2.3 Consensus size: 83
2243563 TGGCATTTTT
* * * * *
2243573 TAAAAACGCAGCTAAAGTACTAATTTGTTGTAGCGTTTGTCGAAAAAAATGCCACTATAGATGGA
1 TAAAAACACCGCTAAAGTACTACTCTGTTGTAGCGTTTGTCGAAAAAAATGCCACTACAGATGGA
*
2243638 CCTATTGCGGAGTTTGTA
66 CCTATTGCGGAGTTTATA
* * * * * * * *
2243656 TAAAAACGCCGCTAAAGTAATACTCTGTTGTGGTGTTTGTGGAAAACAATGCCACTACATATGTA
1 TAAAAACACCGCTAAAGTACTACTCTGTTGTAGCGTTTGTCGAAAAAAATGCCACTACAGATGGA
2243721 CCTATTGC-GACGTTTATA
66 CCTATTGCGGA-GTTTATA
* *
2243739 TAAAAATATCGCTAAAGTACTACTCT
1 TAAAAACACCGCTAAAGTACTACTCT
2243765 ATTGCGGCAT
Statistics
Matches: 92, Mismatches: 16, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
82 2 0.02
83 90 0.98
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.31
Consensus pattern (83 bp):
TAAAAACACCGCTAAAGTACTACTCTGTTGTAGCGTTTGTCGAAAAAAATGCCACTACAGATGGA
CCTATTGCGGAGTTTATA
Found at i:2248757 original size:12 final size:13
Alignment explanation
Indices: 2248730--2248758 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
2248720 TAAAGAAAGA
2248730 TTTTAAATGAATT
1 TTTTAAATGAATT
2248743 TTTTAAATGAATT
1 TTTTAAATGAATT
2248756 TTT
1 TTT
2248759 GGCTTAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (13 bp):
TTTTAAATGAATT
Found at i:2251832 original size:27 final size:26
Alignment explanation
Indices: 2251759--2251835 Score: 70
Period size: 27 Copynumber: 2.9 Consensus size: 26
2251749 AATTTAAATA
2251759 TTTAATAATTCAA-TA-ATATTATTTT
1 TTTAATAATT-AATTATATATTATTTT
* *
2251784 TATAA-AATTAATAAATATTATTATTTT
1 TTTAATAATTAAT-TATA-TATTATTTT
*
2251811 TGTTAATAATTTATTATATATTATT
1 T-TTAATAATTAATTATATATTATT
2251836 AAAATAAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
23 2 0.05
24 4 0.10
25 5 0.12
26 1 0.02
27 17 0.41
28 6 0.15
29 6 0.15
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (26 bp):
TTTAATAATTAATTATATATTATTTT
Found at i:2251915 original size:22 final size:22
Alignment explanation
Indices: 2251890--2251962 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 22
2251880 TATTAAAAAA
2251890 TAAAATA-AATAATATTATTTAT
1 TAAAATATAATAATATTATTT-T
*
2251912 TAAAA-ATAATATTATTATTTT
1 TAAAATATAATAATATTATTTT
* *
2251933 AAAAATATTATAATATT-TTATT
1 TAAAATATAATAATATTATT-TT
*
2251955 TAATATAT
1 TAAAATAT
2251963 TTATGTCAGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
21 8 0.19
22 34 0.81
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TAAAATATAATAATATTATTTT
Found at i:2251918 original size:19 final size:20
Alignment explanation
Indices: 2251896--2251939 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
2251886 AAAATAAAAT
2251896 AAATAATATTATT-TATTAA
1 AAATAATATTATTATATTAA
*
2251915 AAATAATATTATTATTTTAA
1 AAATAATATTATTATATTAA
2251935 AAATA
1 AAATA
2251940 TTATAATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AAATAATATTATTATATTAA
Found at i:2251949 original size:19 final size:20
Alignment explanation
Indices: 2251896--2251952 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 20
2251886 AAAATAAAAT
2251896 AAATAATATT-AT-TTATTAA
1 AAATAATATTAATATT-TTAA
*
2251915 AAATAATATTATTATTTTAA
1 AAATAATATTAATATTTTAA
*
2251935 AAATATTA-TAATATTTTA
1 AAATAATATTAATATTTTA
2251953 TTTAATATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 19 0.58
20 12 0.36
21 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
AAATAATATTAATATTTTAA
Found at i:2252063 original size:9 final size:9
Alignment explanation
Indices: 2252051--2252145 Score: 52
Period size: 9 Copynumber: 11.4 Consensus size: 9
2252041 TTATTAAAAT
2252051 TTATATTAA
1 TTATATTAA
2252060 -T-TATTAA
1 TTATATTAA
2252067 TTA-A--AA
1 TTATATTAA
*
2252073 TAATATTAA
1 TTATATTAA
2252082 -TATATT-A
1 TTATATTAA
2252089 TTAT-TTACA
1 TTATATTA-A
2252098 TTA-ATT-A
1 TTATATTAA
2252105 TTA-ATTAAAA
1 TTATATT--AA
*
2252115 TAATATTAA
1 TTATATTAA
2252124 -TATTATTAA
1 TTA-TATTAA
2252133 TTATATTAA
1 TTATATTAA
2252142 TTAT
1 TTAT
2252146 CTATTAAAAT
Statistics
Matches: 67, Mismatches: 4, Indels: 30
0.66 0.04 0.30
Matches are distributed among these distances:
6 4 0.06
7 17 0.25
8 12 0.18
9 26 0.39
10 5 0.07
11 3 0.04
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (9 bp):
TTATATTAA
Found at i:2252063 original size:19 final size:19
Alignment explanation
Indices: 2252039--2252108 Score: 59
Period size: 22 Copynumber: 3.5 Consensus size: 19
2252029 TATTGAAATA
2252039 AATTATTAAAATTTATATT
1 AATTATTAAAATTTATATT
* *
2252058 AATTATTAATTAAAATAATATT
1 AATTATT-A--AAATTTATATT
** *
2252080 AATATATTATTATTTACATT
1 AAT-TATTAAAATTTATATT
2252100 AATTATTAA
1 AATTATTAA
2252109 TTAAAATAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
19 12 0.31
20 10 0.26
22 13 0.33
23 4 0.10
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (19 bp):
AATTATTAAAATTTATATT
Found at i:2252064 original size:32 final size:32
Alignment explanation
Indices: 2252002--2252081 Score: 74
Period size: 32 Copynumber: 2.5 Consensus size: 32
2251992 ATACTTTTAT
* * *
2252002 AAATAAAAATATTAAGATTATTTTATTTATTG
1 AAATAAAAATATTAAAATTATATTAATTATTG
*
2252034 AAAT-AAATTATTAAAATTTATATTAATTATT-
1 AAATAAAAATATTAAAA-TTATATTAATTATTG
*
2252065 AATTAAAATAATATTAA
1 AAAT-AAA-AATATTAA
2252082 TATATTATTA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
31 13 0.34
32 16 0.42
33 2 0.05
34 7 0.18
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (32 bp):
AAATAAAAATATTAAAATTATATTAATTATTG
Found at i:2252088 original size:26 final size:27
Alignment explanation
Indices: 2252059--2252109 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
2252049 ATTTATATTA
2252059 ATTATTAATTAAAATAA-TATTAATAT
1 ATTATTAATTAAAATAATTATTAATAT
* * *
2252085 ATTATTATTTACATTAATTATTAAT
1 ATTATTAATTAAAATAATTATTAAT
2252110 TAAAATAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 14 0.67
27 7 0.33
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (27 bp):
ATTATTAATTAAAATAATTATTAATAT
Found at i:2252095 original size:42 final size:42
Alignment explanation
Indices: 2252049--2252167 Score: 172
Period size: 42 Copynumber: 2.8 Consensus size: 42
2252039 AATTATTAAA
2252049 ATTTATATTAATTATTAATTAAAATAATATTAATATATTATT
1 ATTTATATTAATTATTAATTAAAATAATATTAATATATTATT
*
2252091 ATTTACATTAATTATTAATTAAAATAATATT-A-ATATTATT
1 ATTTATATTAATTATTAATTAAAATAATATTAATATATTATT
*
2252131 AATTATATTAATTATCT-ATTAAAATAAAATATTAATA
1 ATTTATATTAATTAT-TAATTAAAAT--AATATTAATA
2252168 AAATATTAAA
Statistics
Matches: 69, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
40 29 0.42
41 2 0.03
42 36 0.52
43 1 0.01
44 1 0.01
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.49
Consensus pattern (42 bp):
ATTTATATTAATTATTAATTAAAATAATATTAATATATTATT
Found at i:2252163 original size:13 final size:13
Alignment explanation
Indices: 2252147--2252198 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 13
2252137 ATTAATTATC
2252147 TATTAAAATAAAA
1 TATTAAAATAAAA
2252160 TATT--AATAAAA
1 TATTAAAATAAAA
*
2252171 TATTAAAAATTATAA
1 TATT-AAAA-TAAAA
*
2252186 TTTTAAAATAAAA
1 TATTAAAATAAAA
2252199 ATAGTATATT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
11 11 0.34
13 8 0.25
14 6 0.19
15 7 0.22
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
TATTAAAATAAAA
Found at i:2252347 original size:18 final size:17
Alignment explanation
Indices: 2252324--2252362 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
2252314 TAATAATGTA
*
2252324 ATTATAATATTCAAATAT
1 ATTATAATATT-AAAAAT
*
2252342 ATTATATTATTAAAAAT
1 ATTATAATATTAAAAAT
2252359 ATTA
1 ATTA
2252363 ATAAATATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (17 bp):
ATTATAATATTAAAAAT
Found at i:2256614 original size:24 final size:24
Alignment explanation
Indices: 2256554--2256614 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
2256544 ATATAGTGCA
* *
2256554 AGGAGTACACGAATGTACTAACAC
1 AGGAGTACACAAAGGTACTAACAC
* * *
2256578 ATGAGTACTCAAAGGTACTAATAC
1 AGGAGTACACAAAGGTACTAACAC
*
2256602 AGGAGTGCACAAA
1 AGGAGTACACAAA
2256615 TGCACTATTG
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.43, C:0.18, G:0.21, T:0.18
Consensus pattern (24 bp):
AGGAGTACACAAAGGTACTAACAC
Found at i:2256621 original size:24 final size:24
Alignment explanation
Indices: 2256594--2256683 Score: 65
Period size: 24 Copynumber: 3.7 Consensus size: 24
2256584 ACTCAAAGGT
2256594 ACTAATACAGGAGTGCACAAATGC
1 ACTAATACAGGAGTGCACAAATGC
* * * * * *
2256618 ACTATTGCCGAAATGCA-ACAAGGC
1 ACTAATACAGGAGTGCACA-AATGC
* *
2256642 ACTAAAATAGGAGTGCAACAAATGC
1 ACTAATACAGGAGTGC-ACAAATGC
* *
2256667 TCTAATACTGGAGTGCA
1 ACTAATACAGGAGTGCA
2256684 TGTATGCATT
Statistics
Matches: 45, Mismatches: 18, Indels: 6
0.65 0.26 0.09
Matches are distributed among these distances:
23 1 0.02
24 26 0.58
25 17 0.38
26 1 0.02
ACGTcount: A:0.40, C:0.20, G:0.21, T:0.19
Consensus pattern (24 bp):
ACTAATACAGGAGTGCACAAATGC
Found at i:2258883 original size:23 final size:24
Alignment explanation
Indices: 2258833--2258888 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
2258823 TGGTTCAAAA
2258833 ATTACATTACTGTAAGTACAATAC
1 ATTACATTACTGTAAGTACAATAC
2258857 ATTACATTACTGTAAGTAC-ATAC
1 ATTACATTACTGTAAGTACAATAC
2258880 ATTACATTA
1 ATTACATTA
2258889 GAAGAATTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 13 0.41
24 19 0.59
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.36
Consensus pattern (24 bp):
ATTACATTACTGTAAGTACAATAC
Found at i:2264753 original size:44 final size:43
Alignment explanation
Indices: 2264687--2264779 Score: 134
Period size: 44 Copynumber: 2.2 Consensus size: 43
2264677 AATACAGTTT
* * *
2264687 ATCA-TAGGCATCTTGTAACTCTTTAAATGAGTTAGAATTTGA
1 ATCATTAGGCATATTGTAACTCTTTAAATGAATAAGAATTTGA
2264729 ATCATTAGAGCATATTGTAACTCTTTAAATGAATAAGAATTTGA
1 ATCATTAG-GCATATTGTAACTCTTTAAATGAATAAGAATTTGA
*
2264773 ATTATTA
1 ATCATTA
2264780 AAGTTAAAAG
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 4 0.09
43 3 0.07
44 38 0.84
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.39
Consensus pattern (43 bp):
ATCATTAGGCATATTGTAACTCTTTAAATGAATAAGAATTTGA
Found at i:2268323 original size:235 final size:234
Alignment explanation
Indices: 2267912--2268377 Score: 862
Period size: 235 Copynumber: 2.0 Consensus size: 234
2267902 TTGAATTGAT
*
2267912 TCATTATCACATAGAGGTCTATCAGTTCGAATTTAAATTCAATTGAGTTAGAAATTAGCCTTATT
1 TCATTATCACATAGAGGTCTATCAATTCGAATTTAAATTCAATTGAGTTAGAAATTAGCCTTATT
2267977 GAAGATAAAAAAGAAAATTTTTAAATTTAGGATGATAATAGAAAGACCTATCATGTAATTTTCCT
66 GAAGATAAAAAAGAAAATTTTTAAATTTAGGATGATAATAGAAAGACCTATCATGTAATTTTCCT
*
2268042 ATTGAAAAAAAATAAGACATATTTGGGAGGATTTTTACTATTTCACGTGGGCCTATTTAGGGAAA
131 ATTGAAAAAAAATAAGACATATTTGGGAGGAATTTTACTATTTCACGTGGGCCTATTTAGGGAAA
2268107 TTTACCGACCCTTTTTCATCTCTTTTCTAACACTTTCATC
196 TTTACCGACCCTTTTTCATCTCTTTTCTAAC-CTTTCATC
*
2268147 TCATTATCGCATAGAGGTCTATCAATTCGAATTTAAATTCAATTGAGTTAGAAATTAGCCTTATT
1 TCATTATCACATAGAGGTCTATCAATTCGAATTTAAATTCAATTGAGTTAGAAATTAGCCTTATT
*
2268212 GAAGATAAAAAAAGAAAATTTTTAAATTTAGGATGATAGTAGAAAGACCTATCATGTAATTTTCC
66 GAAGAT-AAAAAAGAAAATTTTTAAATTTAGGATGATAATAGAAAGACCTATCATGTAATTTTCC
*
2268277 TATTG-AAAAAAATAAGACATATTTGGGAGGAATTTTACTATTTCACGTGGGCCTATTTAGGGCA
130 TATTGAAAAAAAATAAGACATATTTGGGAGGAATTTTACTATTTCACGTGGGCCTATTTAGGGAA
2268341 ATTTACCGACCCTTTTTCATCTCTTTTCTAACCTTTC
195 ATTTACCGACCCTTTTTCATCTCTTTTCTAACCTTTC
2268378 TACCTAGGGA
Statistics
Matches: 225, Mismatches: 5, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
234 5 0.02
235 158 0.70
236 62 0.28
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.36
Consensus pattern (234 bp):
TCATTATCACATAGAGGTCTATCAATTCGAATTTAAATTCAATTGAGTTAGAAATTAGCCTTATT
GAAGATAAAAAAGAAAATTTTTAAATTTAGGATGATAATAGAAAGACCTATCATGTAATTTTCCT
ATTGAAAAAAAATAAGACATATTTGGGAGGAATTTTACTATTTCACGTGGGCCTATTTAGGGAAA
TTTACCGACCCTTTTTCATCTCTTTTCTAACCTTTCATC
Found at i:2268913 original size:17 final size:17
Alignment explanation
Indices: 2268881--2268914 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2268871 TACTTAGTCC
*
2268881 CTTAACTTTGTATTTTA
1 CTTAACTTGGTATTTTA
*
2268898 CTTAACTTGGTCTTTTA
1 CTTAACTTGGTATTTTA
2268915 ATGCAACTGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.15, G:0.09, T:0.56
Consensus pattern (17 bp):
CTTAACTTGGTATTTTA
Found at i:2269259 original size:19 final size:19
Alignment explanation
Indices: 2269228--2269264 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
2269218 TCATAGTGAG
2269228 ATAAAACAGTTAAAATATC
1 ATAAAACAGTTAAAATATC
2269247 ATAAATACA-TTAAAATAT
1 ATAAA-ACAGTTAAAATAT
2269265 TTAAAAGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.30
Consensus pattern (19 bp):
ATAAAACAGTTAAAATATC
Found at i:2269801 original size:346 final size:346
Alignment explanation
Indices: 2269168--2269862 Score: 1273
Period size: 346 Copynumber: 2.0 Consensus size: 346
2269158 TCAAAACCTA
*
2269168 CACATAAAAATCATCAAGCGCTAAGTAAAACTTAGTGAAGCAGTAATAACTCATAGTGAGATAAA
1 CACATAAAAATCATCAAGCGCTAAGTAAAACTTAGTGAAGCAGTAATAACTCAGAGTGAGATAAA
* *
2269233 ACAGTTAAAATATCATAAATACATTAAAATATTTAAAAGTAACTCAATTAAAAATCTGTAGACTT
66 ACAATTAAAATATCATAAATACATTAAAATATTTAAAAGAAACTCAATTAAAAATCTGTAGACTT
2269298 TCAAACCAACTATTCAAGCCAATTTCTTCATCGTAAACCTAAAAATAAATCATCTCATGATTTCA
131 TCAAACCAACTATTCAAGCCAATTTCTTCATCGTAAACCTAAAAATAAATCATCTCATGATTTCA
2269363 TCAAAATCATGATAAACATTATCAGATAAAATAATCATCTCATATTTCCTTCCAATTTGACATAT
196 TCAAAATCATGATAAACATTATCAGATAAAATAATCATCTCATATTTCCTTCCAATTTGACATAT
*
2269428 TTCATAACTTTCATATTTCATTTTCATAGCCCAATGCATATTTAAGTGAATACAAGGTATGAATC
261 TTCATAACTTTCATATTTCATTTTCATAGCCCAATGCATATTTAAGAGAATACAAGGTATGAATC
2269493 GAACATAATGTGTGCACTAGG
326 GAACATAATGTGTGCACTAGG
* * *
2269514 CACATAAAAATCATCAAGCGCTAAGTAAAACTTAGTGAGGCATTAATAACTCAGGGTGAGATAAA
1 CACATAAAAATCATCAAGCGCTAAGTAAAACTTAGTGAAGCAGTAATAACTCAGAGTGAGATAAA
*
2269579 ACAATTAAAATATCATAAATACATTACAATATTTAAAAGAAACTCAATTAAAAATCTGTAGACTT
66 ACAATTAAAATATCATAAATACATTAAAATATTTAAAAGAAACTCAATTAAAAATCTGTAGACTT
*
2269644 TCAAACCAACTATTCAAGCTAATTTCTTCATCGTAAACCTAAAAATAAATCATCTCATGATTTCA
131 TCAAACCAACTATTCAAGCCAATTTCTTCATCGTAAACCTAAAAATAAATCATCTCATGATTTCA
*
2269709 TCAAAATCATGATAAACATTATCAGATAAAATAATCATCTCATATTTCTTTCCAATTTGACATAT
196 TCAAAATCATGATAAACATTATCAGATAAAATAATCATCTCATATTTCCTTCCAATTTGACATAT
* * *
2269774 TTCGTAACTTTCATATTTCATTTTCATAGCCCAATTCATATTTAAGAGAATACAAGGTATGAGTC
261 TTCATAACTTTCATATTTCATTTTCATAGCCCAATGCATATTTAAGAGAATACAAGGTATGAATC
2269839 GAACATAATGTGTGCACTAGG
326 GAACATAATGTGTGCACTAGG
2269860 CAC
1 CAC
2269863 TTCATTGTGC
Statistics
Matches: 336, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
346 336 1.00
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.31
Consensus pattern (346 bp):
CACATAAAAATCATCAAGCGCTAAGTAAAACTTAGTGAAGCAGTAATAACTCAGAGTGAGATAAA
ACAATTAAAATATCATAAATACATTAAAATATTTAAAAGAAACTCAATTAAAAATCTGTAGACTT
TCAAACCAACTATTCAAGCCAATTTCTTCATCGTAAACCTAAAAATAAATCATCTCATGATTTCA
TCAAAATCATGATAAACATTATCAGATAAAATAATCATCTCATATTTCCTTCCAATTTGACATAT
TTCATAACTTTCATATTTCATTTTCATAGCCCAATGCATATTTAAGAGAATACAAGGTATGAATC
GAACATAATGTGTGCACTAGG
Found at i:2271357 original size:193 final size:189
Alignment explanation
Indices: 2271031--2271381 Score: 576
Period size: 193 Copynumber: 1.8 Consensus size: 189
2271021 TAAACTCACT
*
2271031 ACTGAACACCCAAATTAACACATTTATGCATTAATGTCTCACAATTCTCAAAACTTACAAAATAC
1 ACTGAACACCCAAATTAACACATTTATGCATTAATGCCTCACAATTCTCAAAACTTACAAAATAC
2271096 CCCTTTTTTATTTCAAGCTTCCAAATTGATCCAATTCAATCTCCAAAGCATGTAGAATACATCTA
66 CCCTTTTTTATTTCAAGCTTCCAAATTGATCCAATTCAATCTCCAAAGCATGTAGAATACATCTA
*
2271161 ATATAAATTCTAGACTATAGGAAATTTTTCAATATTAAACTCATTTATGAGACACTAAAC
131 ATATAAATTCTAGACCATA-GAAATTTTTCAATATTAAACTCATTTATGAGACACTAAAC
* * *
2271221 ACTGAACACCCCAATTAACTCATTTATGCATTAATGCCTCACAATTCTCAAAACTTGCAAAATAG
1 ACTGAACACCCAAATTAACACATTTATGCATTAATGCCTCACAATTCTCAAAACTTACAAAATA-
***
2271286 GCTTTTTTTTCTATTTCAAGCTTCCAAATTGATCCAATTCAATCTCCAAAGCATGTAGAATACAT
65 -CCCCTTTTT-TATTTCAAGCTTCCAAATTGATCCAATTCAATCTCCAAAGCATGTAGAATACAT
* *
2271351 CTAATATCAATTCTAGACCATAGAATTTTTT
128 CTAATATAAATTCTAGACCATAGAAATTTTT
2271382 TTAATATTTT
Statistics
Matches: 148, Mismatches: 10, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
190 60 0.41
192 14 0.09
193 74 0.50
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.34
Consensus pattern (189 bp):
ACTGAACACCCAAATTAACACATTTATGCATTAATGCCTCACAATTCTCAAAACTTACAAAATAC
CCCTTTTTTATTTCAAGCTTCCAAATTGATCCAATTCAATCTCCAAAGCATGTAGAATACATCTA
ATATAAATTCTAGACCATAGAAATTTTTCAATATTAAACTCATTTATGAGACACTAAAC
Found at i:2273478 original size:14 final size:14
Alignment explanation
Indices: 2273461--2273492 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
2273451 TAAATATAAA
*
2273461 AACTCAAATAACTC
1 AACTCAAATAAATC
2273475 AACTCAAATAAATC
1 AACTCAAATAAATC
2273489 AACT
1 AACT
2273493 TGAGTTTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.53, C:0.25, G:0.00, T:0.22
Consensus pattern (14 bp):
AACTCAAATAAATC
Found at i:2273618 original size:10 final size:10
Alignment explanation
Indices: 2273605--2273648 Score: 54
Period size: 10 Copynumber: 4.3 Consensus size: 10
2273595 ATTCATCTCT
2273605 TTCTTCTTTC
1 TTCTTCTTTC
2273615 TTCTT-TCTTC
1 TTCTTCT-TTC
2273625 TTTCTTCTTTC
1 -TTCTTCTTTC
*
2273636 TTCTTCTATC
1 TTCTTCTTTC
2273646 TTC
1 TTC
2273649 ATCCAATCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
9 1 0.03
10 20 0.67
11 8 0.27
12 1 0.03
ACGTcount: A:0.02, C:0.30, G:0.00, T:0.68
Consensus pattern (10 bp):
TTCTTCTTTC
Found at i:2273648 original size:7 final size:7
Alignment explanation
Indices: 2273602--2273640 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
2273592 TCCATTCATC
2273602 TCTTTCT
1 TCTTTCT
2273609 TCTTTCT
1 TCTTTCT
2273616 TCTTTCT
1 TCTTTCT
2273623 TCTTTCT
1 TCTTTCT
2273630 TCTTTCT
1 TCTTTCT
2273637 TCTT
1 TCTT
2273641 CTATCTTCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (7 bp):
TCTTTCT
Found at i:2276992 original size:16 final size:16
Alignment explanation
Indices: 2276973--2277104 Score: 54
Period size: 16 Copynumber: 8.2 Consensus size: 16
2276963 AAATCAACTA
2276973 GAACCAAAATTAACCC
1 GAACCAAAATTAACCC
*
2276989 GAACCGAAAA-CAACCC
1 GAACC-AAAATTAACCC
* * *
2277005 GAACTAGAATTAATCC
1 GAACCAAAATTAACCC
* *
2277021 -AAACAGAAA-GAAGCCC
1 GAACCA-AAATTAA-CCC
**
2277037 GAACCGAATTTTAACCC
1 GAACC-AAAATTAACCC
* * *
2277054 GATCCAAAAGTAACTC
1 GAACCAAAATTAACCC
** *
2277070 GAACTGAATTTAACCC
1 GAACCAAAATTAACCC
* * *
2277086 GACCCGAAAGTAACCC
1 GAACCAAAATTAACCC
2277102 GAA
1 GAA
2277105 TAGATTGAAA
Statistics
Matches: 79, Mismatches: 30, Indels: 14
0.64 0.24 0.11
Matches are distributed among these distances:
15 8 0.10
16 53 0.67
17 15 0.19
18 3 0.04
ACGTcount: A:0.45, C:0.28, G:0.14, T:0.14
Consensus pattern (16 bp):
GAACCAAAATTAACCC
Found at i:2277087 original size:32 final size:33
Alignment explanation
Indices: 2277034--2277104 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 33
2277024 CAGAAAGAAG
*
2277034 CCCGAACCGAATTTTAACCCGATCCAAAAGTAA
1 CCCGAACCGAATTTTAACCCGACCCAAAAGTAA
* * *
2277067 CTCGAACTGAA-TTTAACCCGACCCGAAAGTAA
1 CCCGAACCGAATTTTAACCCGACCCAAAAGTAA
2277099 CCCGAA
1 CCCGAA
2277105 TAGATTGAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
32 24 0.73
33 9 0.27
ACGTcount: A:0.38, C:0.31, G:0.14, T:0.17
Consensus pattern (33 bp):
CCCGAACCGAATTTTAACCCGACCCAAAAGTAA
Found at i:2277728 original size:32 final size:31
Alignment explanation
Indices: 2277635--2277729 Score: 102
Period size: 32 Copynumber: 3.0 Consensus size: 31
2277625 ACCTAAATCG
* *
2277635 AAAATCAACCGATCTGATATTGACCCGACAC
1 AAAATCAACTGATCTGATATTGACCCGACCC
* *
2277666 AAAATCTAA-TCGATTTGATATTAACCCGACCC
1 AAAATC-AACT-GATCTGATATTGACCCGACCC
* *
2277698 AAAAATCAACTGATCCGGTATTGACCCGACCC
1 -AAAATCAACTGATCTGATATTGACCCGACCC
2277730 GATATTGACC
Statistics
Matches: 52, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
31 6 0.12
32 39 0.75
33 7 0.13
ACGTcount: A:0.37, C:0.28, G:0.13, T:0.22
Consensus pattern (31 bp):
AAAATCAACTGATCTGATATTGACCCGACCC
Found at i:2279049 original size:20 final size:20
Alignment explanation
Indices: 2279020--2279066 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
2279010 ATGCAAAATG
*
2279020 GTATCGATACTGCTACAGTA
1 GTATCAATACTGCTACAGTA
2279040 GTATCAATACTGCTACAGTA
1 GTATCAATACTGCTACAGTA
*
2279060 ATATCAA
1 GTATCAA
2279067 GCCCAACAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (20 bp):
GTATCAATACTGCTACAGTA
Found at i:2282305 original size:20 final size:19
Alignment explanation
Indices: 2282243--2282310 Score: 50
Period size: 20 Copynumber: 3.5 Consensus size: 19
2282233 ATTTTTTTTA
* *
2282243 TGAATAGTACTATACTATA
1 TGAATAGTACGATACTATG
*
2282262 TGAATATTACCGATA-T-TG
1 TGAATAGTA-CGATACTATG
2282280 AATGAATAGTATCGATACTATG
1 --TGAATAGTA-CGATACTATG
*
2282302 TGAACAGTA
1 TGAATAGTA
2282311 ATGAACAGTA
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
18 1 0.03
19 9 0.24
20 25 0.66
21 1 0.03
22 2 0.05
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (19 bp):
TGAATAGTACGATACTATG
Found at i:2282396 original size:20 final size:20
Alignment explanation
Indices: 2282352--2282389 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2282342 TGCAACATGG
*
2282352 GTATCGATACTACTGCAGAA
1 GTATCGATACTACTACAGAA
*
2282372 GTATCGATACTGCTACAG
1 GTATCGATACTACTACAG
2282390 TAATATCAAG
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:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (20 bp):
GTATCGATACTACTACAGAA
Found at i:2285604 original size:31 final size:31
Alignment explanation
Indices: 2285566--2285636 Score: 142
Period size: 31 Copynumber: 2.3 Consensus size: 31
2285556 GAAGCTTGAG
2285566 GAGGAAGAAGAATAAGAAAATGGAAAAATGA
1 GAGGAAGAAGAATAAGAAAATGGAAAAATGA
2285597 GAGGAAGAAGAATAAGAAAATGGAAAAATGA
1 GAGGAAGAAGAATAAGAAAATGGAAAAATGA
2285628 GAGGAAGAA
1 GAGGAAGAA
2285637 AATTAAATGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.61, C:0.00, G:0.31, T:0.08
Consensus pattern (31 bp):
GAGGAAGAAGAATAAGAAAATGGAAAAATGA
Found at i:2289525 original size:32 final size:32
Alignment explanation
Indices: 2289465--2289526 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
2289455 TCTATTGTGC
* * * *
2289465 ATTATCTGAATGTAATATTGATTATGTTGTTT
1 ATTATCTGAATGCAACACTGACTATGTTGTTT
*
2289497 ATTATCTGAATGCAACACTGACTCTGTTGT
1 ATTATCTGAATGCAACACTGACTATGTTGT
2289527 AACTCATACA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.45
Consensus pattern (32 bp):
ATTATCTGAATGCAACACTGACTATGTTGTTT
Found at i:2293975 original size:13 final size:13
Alignment explanation
Indices: 2293957--2293982 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2293947 AACCCTCATA
2293957 CAAAAATTAATAT
1 CAAAAATTAATAT
2293970 CAAAAATTAATAT
1 CAAAAATTAATAT
2293983 TTCATGATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
CAAAAATTAATAT
Found at i:2294504 original size:24 final size:23
Alignment explanation
Indices: 2294447--2294504 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
2294437 TAGTCGAAAC
*
2294447 TGCCACGTAGAATTTGCACGAAG
1 TGCCACGTAGAATATGCACGAAG
*
2294470 TGCTACGTAGAATATGCACCGAAG
1 TGCCACGTAGAATATGCA-CGAAG
*
2294494 TGCCACATAGA
1 TGCCACGTAGA
2294505 TTTGTCCCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 16 0.53
24 14 0.47
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.21
Consensus pattern (23 bp):
TGCCACGTAGAATATGCACGAAG
Found at i:2294527 original size:23 final size:23
Alignment explanation
Indices: 2294501--2294551 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
2294491 AAGTGCCACA
*
2294501 TAGATTTGTCC-CAAAGGACCGCG
1 TAGAATTGTCCACAAAGG-CCGCG
*
2294524 TAGAATTGTCCAGAAAGGCCGCG
1 TAGAATTGTCCACAAAGGCCGCG
2294547 TAGAA
1 TAGAA
2294552 CCCTCGACTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 20 0.80
24 5 0.20
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.20
Consensus pattern (23 bp):
TAGAATTGTCCACAAAGGCCGCG
Found at i:2294687 original size:15 final size:15
Alignment explanation
Indices: 2294669--2294721 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
2294659 ATAGAACGCA
2294669 TTCACATAGAAAATT
1 TTCACATAGAAAATT
*
2294684 TTCACATAGAACATT
1 TTCACATAGAAAATT
* * * *
2294699 TTCCCGTATAAAATA
1 TTCACATAGAAAATT
2294714 TTCACATA
1 TTCACATA
2294722 CTAATAAAAT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.42, C:0.19, G:0.06, T:0.34
Consensus pattern (15 bp):
TTCACATAGAAAATT
Found at i:2301303 original size:24 final size:24
Alignment explanation
Indices: 2301275--2301321 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
2301265 AATTACCGCG
**
2301275 TAGAATTTGCATTGAAGTGCCACA
1 TAGAATTTGCACAGAAGTGCCACA
2301299 TAGAATTTGCACAGAAGTGCCAC
1 TAGAATTTGCACAGAAGTGCCAC
2301322 GAATATTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (24 bp):
TAGAATTTGCACAGAAGTGCCACA
Found at i:2301395 original size:23 final size:23
Alignment explanation
Indices: 2301328--2301396 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
2301318 CCACGAATAT
* *
2301328 TTGTCCCGATGGACCATGTAGAA
1 TTGTCCCGAAGGACCACGTAGAA
* ** *
2301351 TTATCTAGAAGGACCACATAGAA
1 TTGTCCCGAAGGACCACGTAGAA
*
2301374 TTGTCCCGAAGGACCGCGTAGAA
1 TTGTCCCGAAGGACCACGTAGAA
2301397 CCCTCGACTC
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.22
Consensus pattern (23 bp):
TTGTCCCGAAGGACCACGTAGAA
Found at i:2303124 original size:83 final size:82
Alignment explanation
Indices: 2303017--2303172 Score: 204
Period size: 82 Copynumber: 1.9 Consensus size: 82
2303007 AAATATACCC
* * * *
2303017 ATGTCACAGTGTTCCATCCTATCCAAATTGAAAGGCACGTTCCAGGGGAAGCATTTTCCATTATT
1 ATGTCACAGTGTTCAATCCCATCC-AACTGAAAGGCACGTTCCAGGGGAAACATTTTCCATTATT
2303082 ATTCAGAGAATATCTGCT
65 ATTCAGAGAATATCTGCT
* * * ** * *
2303100 ATGTCATAGTGTTTAATCCCATCCAACTGAGAGGCGTGTTCTAGGGGAAACATTTTCTATTATTA
1 ATGTCACAGTGTTCAATCCCATCCAACTGAAAGGCACGTTCCAGGGGAAACATTTTCCATTATTA
2303165 TTCAGAGA
66 TTCAGAGA
2303173 GTGTTCCATC
Statistics
Matches: 62, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
82 42 0.68
83 20 0.32
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (82 bp):
ATGTCACAGTGTTCAATCCCATCCAACTGAAAGGCACGTTCCAGGGGAAACATTTTCCATTATTA
TTCAGAGAATATCTGCT
Found at i:2303311 original size:83 final size:83
Alignment explanation
Indices: 2303172--2303780 Score: 700
Period size: 83 Copynumber: 7.3 Consensus size: 83
2303162 TTATTCAGAG
* * * *
2303172 AGTGTTCCATCCTATCCAAATTGAAAGGCACGTTCCAGGGGAAGCATTTTCCATTATTATTCAGA
1 AGTGTTCCATCCCATCCAAAATGAAAGGCGCGTTCTAGGGGAAGCATTTTCCATTATTATTCAGA
* *
2303237 GAATATCTGCTATGTCAT
66 GAATCTCTGCCATGTCAT
** * * * *
2303255 AGTGTTTAATCCCATCCAAAATGAGAGGCGTGTTCTAGGGGAAACATTTTCTATTATTATTCAGA
1 AGTGTTCCATCCCATCCAAAATGAAAGGCGCGTTCTAGGGGAAGCATTTTCCATTATTATTCAGA
* *
2303320 GAATCGCTGCCATGTCAC
66 GAATCTCTGCCATGTCAT
* * * * * **
2303338 AGTGTTCCATCGCATCCGAAATGAATGGCGTGTTTTAGGGGAAGCATTTTCTTTTATTATTCAGA
1 AGTGTTCCATCCCATCCAAAATGAAAGGCGCGTTCTAGGGGAAGCATTTTCCATTATTATTCAGA
* * *
2303403 TAATCTCTGTCATGTAAT
66 GAATCTCTGCCATGTCAT
* * *
2303421 AGTGTTCCATCTCATCCAAAATGAAAGGCGCGTTGC-ATGGGAAGCGTTTTCCATTATTATTCAG
1 AGTGTTCCATCCCATCCAAAATGAAAGGCGCGTT-CTAGGGGAAGCATTTTCCATTATTATTCAG
* *
2303485 ATAATCTCTACCATGTCAT
65 AGAATCTCTGCCATGTCAT
* * * * * * **
2303504 AGTGTTCTATCCCACCCAAAAAGAAAGGCACGTTCCAGGGTAAGTTTTTTCCATTATTATTCAGA
1 AGTGTTCCATCCCATCCAAAATGAAAGGCGCGTTCTAGGGGAAGCATTTTCCATTATTATTCAGA
*
2303569 GAATCTTTGCCATGTCAT
66 GAATCTCTGCCATGTCAT
*
2303587 AGTGTTCCATCCCATCCGAAATGAAAGGCGCGTTGC-AGGGGAAGCATTTTCCATTATTATTCAG
1 AGTGTTCCATCCCATCCAAAATGAAAGGCGCGTT-CTAGGGGAAGCATTTTCCATTATTATTCAG
*
2303651 AGAATCTCTGCCGTGTCAT
65 AGAATCTCTGCCATGTCAT
* * * ** * * * *
2303670 AATGTTCCATCCCATCTAAAATAAAAGATGCGTTCTAAGGGAAACATTTTCCGTTATTATTTAGA
1 AGTGTTCCATCCCATCCAAAATGAAAGGCGCGTTCTAGGGGAAGCATTTTCCATTATTATTCAGA
* **
2303735 GAATATCTTTCATGTCAT
66 GAATCTCTGCCATGTCAT
* *
2303753 AGTGTTTCATCCCATCCGAAATGAAAGG
1 AGTGTTCCATCCCATCCAAAATGAAAGG
2303781 TGCATGTTCT
Statistics
Matches: 440, Mismatches: 82, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
82 2 0.00
83 437 0.99
84 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.33
Consensus pattern (83 bp):
AGTGTTCCATCCCATCCAAAATGAAAGGCGCGTTCTAGGGGAAGCATTTTCCATTATTATTCAGA
GAATCTCTGCCATGTCAT
Found at i:2310298 original size:25 final size:25
Alignment explanation
Indices: 2310245--2310309 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 25
2310235 ATTTTTCAAC
*
2310245 TTATATTTAAATTATTACTTTAAAA
1 TTATATTTAAATTATTAATTTAAAA
2310270 TTATATTT-AA-TATTTAATTT-AAA
1 TTATATTTAAATTA-TTAATTTAAAA
* *
2310293 TTTTATATAAATATATT
1 TTATATTTAAAT-TATT
2310310 TCAACGTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
23 11 0.33
24 10 0.30
25 10 0.30
26 2 0.06
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (25 bp):
TTATATTTAAATTATTAATTTAAAA
Found at i:2316568 original size:54 final size:54
Alignment explanation
Indices: 2316507--2316624 Score: 139
Period size: 54 Copynumber: 2.2 Consensus size: 54
2316497 AACGGTGAAT
* *
2316507 TTTCGACACTAAATGTGCAACCCATGGTAA-TCATAATGAGTTTATGAATAACCA
1 TTTCGACACTAAATATACAACCCATGG-AATTCATAATGAGTTTATGAATAACCA
** * * **
2316561 TTTCGACACTATGTATACAATCCATGGAATTCATAATGAGTTTGTGAATTTCCA
1 TTTCGACACTAAATATACAACCCATGGAATTCATAATGAGTTTATGAATAACCA
*
2316615 TTTCGGCACT
1 TTTCGACACT
2316625 TCGGTGCAAT
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
53 2 0.04
54 52 0.96
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (54 bp):
TTTCGACACTAAATATACAACCCATGGAATTCATAATGAGTTTATGAATAACCA
Found at i:2317946 original size:17 final size:16
Alignment explanation
Indices: 2317924--2317957 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
2317914 ATATAATTCA
2317924 TCTTTTGAGAGTTGCTT
1 TCTTTTGAGAGTT-CTT
*
2317941 TCTTTTGATAGTTCTT
1 TCTTTTGAGAGTTCTT
2317957 T
1 T
2317958 TAAGAACTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.12, C:0.12, G:0.18, T:0.59
Consensus pattern (16 bp):
TCTTTTGAGAGTTCTT
Found at i:2318495 original size:8 final size:8
Alignment explanation
Indices: 2318471--2318518 Score: 53
Period size: 8 Copynumber: 5.9 Consensus size: 8
2318461 CGGGTTAGTA
2318471 AAAAAAAG
1 AAAAAAAG
2318479 AAAAGAAAAG
1 -AAA-AAAAG
2318489 AAAAAAAG
1 AAAAAAAG
**
2318497 -AAAATCG
1 AAAAAAAG
2318504 AAAAAAAG
1 AAAAAAAG
2318512 AAAAAAA
1 AAAAAAA
2318519 ATACAAAGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
7 5 0.15
8 17 0.52
9 6 0.18
10 5 0.15
ACGTcount: A:0.83, C:0.02, G:0.12, T:0.02
Consensus pattern (8 bp):
AAAAAAAG
Found at i:2318506 original size:15 final size:13
Alignment explanation
Indices: 2318479--2318519 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 13
2318469 TAAAAAAAAG
2318479 AAAAGAAAAGAAA
1 AAAAGAAAAGAAA
2318492 AAAAGAAAATCGAAA
1 AAAAGAAAA--GAAA
2318507 AAAAGAAAA-AAA
1 AAAAGAAAAGAAA
2318519 A
1 A
2318520 TACAAAGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 4 0.15
13 9 0.35
15 13 0.50
ACGTcount: A:0.83, C:0.02, G:0.12, T:0.02
Consensus pattern (13 bp):
AAAAGAAAAGAAA
Found at i:2320128 original size:17 final size:17
Alignment explanation
Indices: 2320108--2320159 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
2320098 AATAAAGTTG
2320108 GTTCATATATTAAACTA
1 GTTCATATATTAAACTA
*
2320125 GTTCAT-TAAATAAACTA
1 GTTCATAT-ATTAAACTA
2320142 GTTCATCA-ATTAAACTA
1 GTTCAT-ATATTAAACTA
2320159 G
1 G
2320160 CTCTTTAATG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
16 1 0.03
17 29 0.97
ACGTcount: A:0.42, C:0.13, G:0.08, T:0.37
Consensus pattern (17 bp):
GTTCATATATTAAACTA
Found at i:2323457 original size:36 final size:37
Alignment explanation
Indices: 2323433--2323514 Score: 110
Period size: 37 Copynumber: 2.1 Consensus size: 37
2323423 TGATACATGT
2323433 ATATATAAGTATTAAAGTAAATAATATAAAACTATATA
1 ATATA-AAGTATTAAAGTAAATAATATAAAACTATATA
* * *
2323471 ATATAAAGTATTAAACTACATACTATAAAACTAATATA
1 ATATAAAGTATTAAAGTAAATAATATAAAACT-ATATA
2323509 AGTATA
1 A-TATA
2323515 TAATATAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
37 24 0.62
38 11 0.28
39 4 0.10
ACGTcount: A:0.56, C:0.06, G:0.05, T:0.33
Consensus pattern (37 bp):
ATATAAAGTATTAAAGTAAATAATATAAAACTATATA
Found at i:2323468 original size:8 final size:8
Alignment explanation
Indices: 2323457--2323581 Score: 64
Period size: 8 Copynumber: 15.8 Consensus size: 8
2323447 AAGTAAATAA
2323457 TATAAAAC
1 TATAAAAC
*
2323465 TATATAA-
1 TATAAAAC
*
2323472 TAT-AAAG
1 TATAAAAC
*
2323479 TATTAAAC
1 TATAAAAC
* *
2323487 TA-CATAC
1 TATAAAAC
2323494 TATAAAAC
1 TATAAAAC
* *
2323502 TAATATAAG
1 T-ATAAAAC
*
2323511 TATATAA-
1 TATAAAAC
2323518 TATAAAAC
1 TATAAAAC
2323526 TATAAAAC
1 TATAAAAC
2323534 TATATTTTAAAC
1 TATA----AAAC
* *
2323546 TACATAA-
1 TATAAAAC
2323553 TATAAAAC
1 TATAAAAC
2323561 TATAAAAC
1 TATAAAAC
*
2323569 TATATAA-
1 TATAAAAC
2323576 TATAAA
1 TATAAA
2323582 GTATATAGTT
Statistics
Matches: 91, Mismatches: 16, Indels: 21
0.71 0.12 0.16
Matches are distributed among these distances:
6 2 0.02
7 27 0.30
8 49 0.54
9 6 0.07
12 7 0.08
ACGTcount: A:0.57, C:0.09, G:0.02, T:0.33
Consensus pattern (8 bp):
TATAAAAC
Found at i:2323498 original size:37 final size:39
Alignment explanation
Indices: 2323433--2323916 Score: 194
Period size: 42 Copynumber: 12.2 Consensus size: 39
2323423 TGATACATGT
*
2323433 ATATATAAGTATTAAAGTAAATAATATAAAACT-ATATA
1 ATATATAAGTATTAAACTAAATAATATAAAACTAATATA
* *
2323471 ATATA-AAGTATTAAACTACATACTATAAAACTAATATA
1 ATATATAAGTATTAAACTAAATAATATAAAACTAATATA
* *
2323509 AGTATATAA-TATAAAACTATAA-AACTATATTTTAAACT-ACATA
1 A-TATATAAGTATTAAACTA-AATAA-TATA----AAACTAATATA
* * * *
2323552 ATATAAAACTATAAAACTATATAATATAAAGTA-TATAGTTATA
1 ATATATAAGTATTAAACTAAATAATATAAA--ACTA-A--TATA
* *
2323595 TATATATATGTATTGAACTAATATAAAACTATAAAACT-ATATA
1 -ATATATAAGTATTAAACTAA-AT--AA-TATAAAACTAATATA
* * * * * *
2323638 ATATAAGTATATTATTATATA-TGTATTTATATAAAATATAAAACTA
1 ATAT-A-TA-AGTATTA-A-ACT-AAATAATATAAAA-CTAATA-TA
*
2323684 TATAATATAAGTATT-AACTACATAATATAAAACTAATATA
1 -AT-ATATAAGTATTAAACTAAATAATATAAAACTAATATA
* *
2323724 AGTATATAA-TATAAAACT--AT-AT-T-ATA-TAA-AGT-
1 A-TATATAAGTATTAAACTAAATAATATAAAACTAATA-TA
* *
2323756 ATATAT-A-TATTGAACTACATAATATAAAACTAATATA
1 ATATATAAGTATTAAACTAAATAATATAAAACTAATATA
*
2323793 ACTATAT---TA-TAAACTACATAATATAAAACTAATATA
1 A-TATATAAGTATTAAACTAAATAATATAAAACTAATATA
* *
2323829 AGTATATAA-TATAAAACTATATAATATAAAGTA-TATATATA
1 A-TATATAAGTATTAAACTAAATAATATAAA--ACTA-ATATA
* **
2323870 TATATATATA-TATTGAACTGCATAATATAAAACTAATATA
1 -ATATATA-AGTATTAAACTAAATAATATAAAACTAATATA
2323910 ACTATAT
1 A-TATAT
2323917 TTTTAACTAT
Statistics
Matches: 345, Mismatches: 44, Indels: 112
0.69 0.09 0.22
Matches are distributed among these distances:
30 8 0.02
31 5 0.01
32 4 0.01
33 6 0.02
34 3 0.01
35 3 0.01
36 38 0.11
37 30 0.09
38 23 0.07
39 43 0.12
40 24 0.07
41 19 0.06
42 44 0.13
43 34 0.10
44 23 0.07
45 14 0.04
46 8 0.02
47 8 0.02
48 8 0.02
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.36
Consensus pattern (39 bp):
ATATATAAGTATTAAACTAAATAATATAAAACTAATATA
Found at i:2323581 original size:15 final size:15
Alignment explanation
Indices: 2323434--2323564 Score: 61
Period size: 15 Copynumber: 8.3 Consensus size: 15
2323424 GATACATGTA
* *
2323434 TATATAAGTATTAAAG
1 TATATAA-TATAAAAC
*
2323450 TAAATAATATAAAAC
1 TATATAATATAAAAC
*
2323465 TATATAATAT-AAAG
1 TATATAATATAAAAC
*
2323479 TAT-TAA-ACTACATAC
1 TATATAATA-TA-AAAC
* * *
2323494 TATAAAACTAATATAAG
1 TATATAA-T-ATAAAAC
2323511 TATATAATATAAAAC
1 TATATAATATAAAAC
*
2323526 TATAAAACTATATTTTAAAC
1 TATATAA-TATA----AAAC
*
2323546 TACATAATATAAAAC
1 TATATAATATAAAAC
2323561 TATA
1 TATA
2323565 AAACTATATA
Statistics
Matches: 85, Mismatches: 18, Indels: 25
0.66 0.14 0.20
Matches are distributed among these distances:
12 1 0.01
13 4 0.05
14 6 0.07
15 38 0.45
16 13 0.15
17 7 0.08
18 2 0.02
19 5 0.06
20 9 0.11
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.34
Consensus pattern (15 bp):
TATATAATATAAAAC
Found at i:2323622 original size:63 final size:54
Alignment explanation
Indices: 2323562--2323697 Score: 163
Period size: 50 Copynumber: 2.4 Consensus size: 54
2323552 ATATAAAACT
2323562 ATAAAACTATATAATATAAAGTATATAGTTATATATATATATGTATTGAACTAATATAAAACT
1 ATAAAACTATATAATAT-AAGTATATA--T-TAT-TATATATGTATT----TAATATAAAACT
2323625 ATAAAACTATATAATATAAG--TATATTATTATATATGTATTT-ATATAAAA-T
1 ATAAAACTATATAATATAAGTATATATTATTATATATGTATTTAATATAAAACT
2323675 ATAAAACTATATAATATAAGTAT
1 ATAAAACTATATAATATAAGTAT
2323698 TAACTACATA
Statistics
Matches: 71, Mismatches: 0, Indels: 15
0.83 0.00 0.17
Matches are distributed among these distances:
50 21 0.30
51 8 0.11
52 2 0.03
56 12 0.17
57 3 0.04
58 1 0.01
60 4 0.06
62 3 0.04
63 17 0.24
ACGTcount: A:0.51, C:0.04, G:0.05, T:0.40
Consensus pattern (54 bp):
ATAAAACTATATAATATAAGTATATATTATTATATATGTATTTAATATAAAACT
Found at i:2323734 original size:24 final size:23
Alignment explanation
Indices: 2323453--2323916 Score: 161
Period size: 22 Copynumber: 20.1 Consensus size: 23
2323443 ATTAAAGTAA
2323453 ATAATATAAAACTATATAA-TAT
1 ATAATATAAAACTATATAACTAT
* *
2323475 A-AAGTATTAAACTACAT-ACTAT
1 ATAA-TATAAAACTATATAACTAT
* * *
2323497 AAAACTAATATAAGTATATAA-TAT
1 ATAA-T-ATAAAACTATATAACTAT
* *
2323521 AAAACTATAAAACTATATTTTAAACTAC
1 ATAA-TATAAAACTATA---T-AACTAT
*
2323549 ATAATATAAAACTATAAAACTAT
1 ATAATATAAAACTATATAACTAT
* **
2323572 ATAATAT-AAAGTATATAGTTAT
1 ATAATATAAAACTATATAACTAT
* **
2323594 AT-ATATATATGTAT-TGAACTAAT
1 ATAATATAAAACTATAT-AACT-AT
2323617 ATAAAACTATAAAACTATATAA-TAT
1 AT--AA-TATAAAACTATATAACTAT
* ** * **
2323642 A-AGTATATTATTATATATGTAT
1 ATAATATAAAACTATATAACTAT
* *
2323664 -TTATATAAAA-TATAAAACTAT
1 ATAATATAAAACTATATAACTAT
* *
2323685 ATAATAT--AAGTAT-TAACTAC
1 ATAATATAAAACTATATAACTAT
*
2323705 ATAATATAAAACTAATATAAGTAT
1 ATAATATAAAACT-ATATAACTAT
*
2323729 ATAATATAAAACTATATTA-TAT
1 ATAATATAAAACTATATAACTAT
* *
2323751 A-AAGTAT-ATA-TATATTGAACTAC
1 ATAA-TATAAAACTATA-T-AACTAT
2323774 ATAATATAAAACTAATATAACTAT
1 ATAATATAAAACT-ATATAACTAT
*
2323798 AT--TAT-AAACTACATAA-TAT
1 ATAATATAAAACTATATAACTAT
* * *
2323817 AAAACTAATATAAGTATATAA-TAT
1 ATAA-T-ATAAAACTATATAACTAT
* * *
2323841 AAAACTATATAA-TATA-AAGTAT
1 ATAA-TATAAAACTATATAACTAT
**
2323863 ATATATATATATATA-TATATTGAACTGC
1 ATA-ATATA-A-A-ACTATA-T-AACTAT
2323891 ATAATATAAAACTAATATAACTAT
1 ATAATATAAAACT-ATATAACTAT
2323915 AT
1 AT
2323917 TTTTAACTAT
Statistics
Matches: 333, Mismatches: 60, Indels: 96
0.68 0.12 0.20
Matches are distributed among these distances:
19 4 0.01
20 23 0.07
21 42 0.13
22 78 0.23
23 50 0.15
24 71 0.21
25 14 0.04
26 10 0.03
27 29 0.09
28 12 0.04
ACGTcount: A:0.54, C:0.07, G:0.03, T:0.36
Consensus pattern (23 bp):
ATAATATAAAACTATATAACTAT
Found at i:2323750 original size:15 final size:15
Alignment explanation
Indices: 2323667--2324071 Score: 130
Period size: 15 Copynumber: 26.5 Consensus size: 15
2323657 TATGTATTTA
*
2323667 TATAAAATATAAAAC
1 TATATAATATAAAAC
2323682 TATATAATATAAGTATTAAC
1 TATATAATAT-A--A--AAC
*
2323702 TACATAATATAAAAC
1 TATATAATATAAAAC
*
2323717 ----TAATAT--AAG
1 TATATAATATAAAAC
2323726 TATATAATATAAAAC
1 TATATAATATAAAAC
* *
2323741 TATATTATAT-AAAG
1 TATATAATATAAAAC
**
2323755 TATATATATATTGAAC
1 TATATA-ATATAAAAC
*
2323771 TACATAATATAAAAC
1 TATATAATATAAAAC
2323786 TAATATAACTATATTATAAAC
1 T-ATAT-A--ATA-TA-AAAC
*
2323807 TACATAATATAAAAC
1 TATATAATATAAAAC
*
2323822 ----TAATAT--AAG
1 TATATAATATAAAAC
2323831 TATATAATATAAAAC
1 TATATAATATAAAAC
*
2323846 TATATAATAT-AAAG
1 TATATAATATAAAAC
*
2323860 TATAT-ATAT-ATA-
1 TATATAATATAAAAC
**
2323872 TATATATATATTGAAC
1 TATATA-ATATAAAAC
**
2323888 TGCATAATATAAAAC
1 TATATAATATAAAAC
*
2323903 TAATATAACTATATTTTTAAC
1 T-ATATAA-TATA----AAAC
* **
2323924 TATAT-GTATTGAAC
1 TATATAATATAAAAC
2323938 TATAATAATATAAAAC
1 TAT-ATAATATAAAAC
* *
2323954 TATAT-GTATTAAAC
1 TATATAATATAAAAC
* * **
2323968 TACAT-GTATTGAAC
1 TATATAATATAAAAC
2323982 TAATATAATATAAAAC
1 T-ATATAATATAAAAC
2323998 TAATATAAATATATTTTAAAC
1 T-ATAT-AATATA----AAAC
* *
2324019 TACATACTATAAAAC
1 TATATAATATAAAAC
*
2324034 TATATAATATGAAAC
1 TATATAATATAAAAC
* * *
2324049 TAGAAAACTAGAAAAC
1 TATATAA-TATAAAAC
2324065 TATATAA
1 TATATAA
2324072 AATATATAAA
Statistics
Matches: 293, Mismatches: 52, Indels: 89
0.68 0.12 0.21
Matches are distributed among these distances:
9 4 0.01
11 12 0.04
12 5 0.02
13 18 0.06
14 46 0.16
15 88 0.30
16 53 0.18
17 15 0.05
18 4 0.01
19 10 0.03
20 24 0.08
21 14 0.05
ACGTcount: A:0.53, C:0.08, G:0.04, T:0.35
Consensus pattern (15 bp):
TATATAATATAAAAC
Found at i:2323791 original size:11 final size:11
Alignment explanation
Indices: 2323775--2323852 Score: 56
Period size: 11 Copynumber: 6.7 Consensus size: 11
2323765 TTGAACTACA
2323775 TAATATAAAAC
1 TAATATAAAAC
2323786 TAATAT--AAC
1 TAATATAAAAC
2323795 TATATTATAAACTAC
1 TA-A-TATAAA--AC
2323810 ATAATATAAAAC
1 -TAATATAAAAC
2323822 TAATATAAGTATA-
1 TAATATAA--A-AC
2323835 TAATATAAAAC
1 TAATATAAAAC
2323846 T-ATATAA
1 TAATATAA
2323853 TATAAAGTAT
Statistics
Matches: 56, Mismatches: 0, Indels: 23
0.71 0.00 0.29
Matches are distributed among these distances:
9 5 0.09
10 8 0.14
11 19 0.34
12 2 0.04
13 10 0.18
14 7 0.12
15 3 0.05
16 2 0.04
ACGTcount: A:0.58, C:0.08, G:0.01, T:0.33
Consensus pattern (11 bp):
TAATATAAAAC
Found at i:2323828 original size:105 final size:104
Alignment explanation
Indices: 2323672--2323870 Score: 346
Period size: 105 Copynumber: 1.9 Consensus size: 104
2323662 ATTTATATAA
*
2323672 AATATAAAACTATATAATATAAGTATTAACTACATAATATAAAACTAATATAAGTATATAATATA
1 AATATAAAACTATATAATATAAGTATAAACTACATAATATAAAACTAATATAAGTATATAATATA
*
2323737 AAACTATATTATATAAAGTATATATATATTGAACTACAT
66 AAACTATATAATATAAAGTATATATATATTGAACTACAT
*
2323776 AATATAAAACTAATATAACTAT-ATTATAAACTACATAATATAAAACTAATATAAGTATATAATA
1 AATATAAAACT-ATATAA-TATAAGTATAAACTACATAATATAAAACTAATATAAGTATATAATA
2323840 TAAAACTATATAATATAAAGTATATATATAT
64 TAAAACTATATAATATAAAGTATATATATAT
2323871 ATATATATAT
Statistics
Matches: 90, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
104 11 0.12
105 76 0.84
106 3 0.03
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.35
Consensus pattern (104 bp):
AATATAAAACTATATAATATAAGTATAAACTACATAATATAAAACTAATATAAGTATATAATATA
AAACTATATAATATAAAGTATATATATATTGAACTACAT
Done.