Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009605.1 Hibiscus syriacus cultivar Beakdansim tig00116989_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: 9158330
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 19 of 35
Found at i:4368308 original size:41 final size:42
Alignment explanation
Indices: 4368229--4368314 Score: 120
Period size: 41 Copynumber: 2.1 Consensus size: 42
4368219 AAGCCTGGCC
* * *
4368229 TATTTAACTAAACAGGCCAGGCCCAGGCCTTTTTAAAAG-CT
1 TATTTAACTAAACAGGCCAGGCCCAGGCATATTAAAAAGCCT
**
4368270 TATTTAACTAAACAGGCCAGGCTTAGGCATATTAAAAAGCCT
1 TATTTAACTAAACAGGCCAGGCCCAGGCATATTAAAAAGCCT
4368312 TAT
1 TAT
4368315 AAGCCTGATA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
41 34 0.87
42 5 0.13
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (42 bp):
TATTTAACTAAACAGGCCAGGCCCAGGCATATTAAAAAGCCT
Found at i:4370650 original size:32 final size:32
Alignment explanation
Indices: 4370614--4370677 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
4370604 ATGAATTTCC
*
4370614 GTATAGGGCACTTCGTGTGCTAAAATGATAAG
1 GTATAGGGCACTTCGTATGCTAAAATGATAAG
4370646 GTATAGGGCACTTCGTATGCTAAAATGATAAG
1 GTATAGGGCACTTCGTATGCTAAAATGATAAG
4370678 AAATTAATAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.28
Consensus pattern (32 bp):
GTATAGGGCACTTCGTATGCTAAAATGATAAG
Found at i:4370727 original size:91 final size:92
Alignment explanation
Indices: 4370563--4370736 Score: 296
Period size: 91 Copynumber: 1.9 Consensus size: 92
4370553 TCTCACCATT
* * *
4370563 CTTCGTATGTGCTAAAATGATAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
1 CTTCGTA-GTGCTAAAATGATAAGAAATTAATACTAAGTGTATGAATTTCCATATAAGGCACTTC
4370628 GTGTGCTAAAATGATAAGGTATAGGGCA
65 GTGTGCTAAAATGATAAGGTATAGGGCA
*
4370656 CTTCGTA-TGCTAAAATGATAAGAAATTAATACTATGTGTATGAATTTCCATATAAGGCACTTCG
1 CTTCGTAGTGCTAAAATGATAAGAAATTAATACTAAGTGTATGAATTTCCATATAAGGCACTTCG
4370720 TGTGCTAAAATGATAAG
66 TGTGCTAAAATGATAAG
4370737 AAATTCATAC
Statistics
Matches: 77, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
91 70 0.91
93 7 0.09
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.32
Consensus pattern (92 bp):
CTTCGTAGTGCTAAAATGATAAGAAATTAATACTAAGTGTATGAATTTCCATATAAGGCACTTCG
TGTGCTAAAATGATAAGGTATAGGGCA
Found at i:4370813 original size:58 final size:59
Alignment explanation
Indices: 4370646--4370825 Score: 274
Period size: 59 Copynumber: 3.1 Consensus size: 59
4370636 AAATGATAAG
* *
4370646 GTATAGGGCACTTCGTATGCTAAAATGATAAGAAATTAATACTATGTGTATGAATTTCC
1 GTATAGGGCACTTCGTGTGCTAAAATGATAAGAAATTCATACTATGTGTATGAATTTCC
* * * *
4370705 ATATAAGGCACTTCGTGTGCTAAAATGATAAGAAATTCATACTAAGTGTATGAATTTCT
1 GTATAGGGCACTTCGTGTGCTAAAATGATAAGAAATTCATACTATGTGTATGAATTTCC
*
4370764 GTATTGGGCACCTT-GTGTGCT-AAATGATAAGAAATTCATACTATGTGTATGAATTTCC
1 GTATAGGGCA-CTTCGTGTGCTAAAATGATAAGAAATTCATACTATGTGTATGAATTTCC
4370822 GTAT
1 GTAT
4370826 GAGAAATAAT
Statistics
Matches: 109, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
58 39 0.36
59 67 0.61
60 3 0.03
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.35
Consensus pattern (59 bp):
GTATAGGGCACTTCGTGTGCTAAAATGATAAGAAATTCATACTATGTGTATGAATTTCC
Found at i:4373924 original size:16 final size:17
Alignment explanation
Indices: 4373890--4373930 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
4373880 TTATGAGGTG
4373890 AAAATATAATTATTGTA
1 AAAATATAATTATTGTA
*
4373907 AAAATGTAATTATT-TA
1 AAAATATAATTATTGTA
4373923 AATAATAT
1 AA-AATAT
4373931 TTAATTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (17 bp):
AAAATATAATTATTGTA
Found at i:4374199 original size:2 final size:2
Alignment explanation
Indices: 4374192--4374241 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
4374182 TACTTGTTAA
4374192 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4374234 AT AT AT AT
1 AT AT AT AT
4374242 CACAAGGATA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4378362 original size:29 final size:30
Alignment explanation
Indices: 4378287--4378353 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 30
4378277 GACTAAATTA
*
4378287 AAATTTTAACTAAATTTAGGGGCCAAAGTG
1 AAATTTTAACTAAATTTAGGGGCCAAAATG
*
4378317 AAATTTTAACTAAATTTGGGGGCCAAAATG
1 AAATTTTAACTAAATTTAGGGGCCAAAATG
4378347 AAATTTT
1 AAATTTT
4378354 GATTAATTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.33
Consensus pattern (30 bp):
AAATTTTAACTAAATTTAGGGGCCAAAATG
Found at i:4378513 original size:22 final size:23
Alignment explanation
Indices: 4378483--4378530 Score: 80
Period size: 22 Copynumber: 2.1 Consensus size: 23
4378473 AAACCCTTTT
*
4378483 TTTCTCTCTTATAGAAGGAAACC
1 TTTCTCTCTTATAGAAGAAAACC
4378506 TTTC-CTCTTATAGAAGAAAACC
1 TTTCTCTCTTATAGAAGAAAACC
4378528 TTT
1 TTT
4378531 GATCAACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 20 0.83
23 4 0.17
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (23 bp):
TTTCTCTCTTATAGAAGAAAACC
Found at i:4379273 original size:3 final size:3
Alignment explanation
Indices: 4379265--4379326 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
4379255 TAAATATGGG
4379265 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4379313 TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
4379327 CATATTAGGA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4379812 original size:39 final size:38
Alignment explanation
Indices: 4379769--4379846 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 38
4379759 CGTAGACTCT
*
4379769 TCTACTTTGTGCTCAGGGTAAGTCCTTACCGCAGGCTCC
1 TCTACTTTGTACTCAGGGTAAGTCCTTACCGCAGG-TCC
* *
4379808 TCTACTTTGTATTCAGGGTATGTCCTTACCGCAGGTCC
1 TCTACTTTGTACTCAGGGTAAGTCCTTACCGCAGGTCC
4379846 T
1 T
4379847 TATGCTATAC
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
38 4 0.11
39 32 0.89
ACGTcount: A:0.15, C:0.28, G:0.22, T:0.35
Consensus pattern (38 bp):
TCTACTTTGTACTCAGGGTAAGTCCTTACCGCAGGTCC
Found at i:4381855 original size:62 final size:62
Alignment explanation
Indices: 4381750--4381929 Score: 236
Period size: 62 Copynumber: 2.9 Consensus size: 62
4381740 GCATCATCTA
* * *
4381750 CTCTATGAATCTAACGTCTAT-AATTCATAATAATTCAATAATCGTTAGTAGTACTCCTTTAT
1 CTCTATGAATCTGACGTCTATCAA-TCATAATAATTCAATAATCGTTAATAGTACTCATTTAT
* * * * * * *
4381812 CTCTCTGAATCTGAGGTCTATCAATCATAATAATTAAAAAATCGTTAACAATACTCATTTTT
1 CTCTATGAATCTGACGTCTATCAATCATAATAATTCAATAATCGTTAATAGTACTCATTTAT
* *
4381874 CTCTATCAATCTGACGTCTATCATTCATAATAATTCAATAATCGTTAATAGTACTC
1 CTCTATGAATCTGACGTCTATCAATCATAATAATTCAATAATCGTTAATAGTACTC
4381930 TTTTGTTTAT
Statistics
Matches: 99, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
62 97 0.98
63 2 0.02
ACGTcount: A:0.35, C:0.19, G:0.08, T:0.38
Consensus pattern (62 bp):
CTCTATGAATCTGACGTCTATCAATCATAATAATTCAATAATCGTTAATAGTACTCATTTAT
Found at i:4385199 original size:95 final size:95
Alignment explanation
Indices: 4385025--4385204 Score: 245
Period size: 95 Copynumber: 1.9 Consensus size: 95
4385015 TAACCAGTAG
* *
4385025 ATTCAATGATCCATAAATCAGGAACAATTATATTTTCCAGTGAAAATAGGAAACCAAATAACACA
1 ATTCAATGATCCATAAATCAGGAACAATTATATTTTCCAGTGAAAACAGGAAACCAAAGAACACA
*
4385090 TTTCAGGTAACCATAGTTCATACACAATAT
66 TATCAGGTAACCATAGTTCATACACAATAT
* * * * * *
4385120 ATTCCATGATCCATAAATCAGGAACGATTGTATTTTCCAGTGAAAACA-GATAATCAGAGGACAC
1 ATTCAATGATCCATAAATCAGGAACAATTATATTTTCCAGTGAAAACAGGA-AACCAAAGAACAC
* *
4385184 ATATCATGTAGCCATAGTTCA
65 ATATCAGGTAACCATAGTTCA
4385205 GTTAAAAGTA
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
94 2 0.03
95 71 0.97
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.27
Consensus pattern (95 bp):
ATTCAATGATCCATAAATCAGGAACAATTATATTTTCCAGTGAAAACAGGAAACCAAAGAACACA
TATCAGGTAACCATAGTTCATACACAATAT
Found at i:4387232 original size:16 final size:17
Alignment explanation
Indices: 4387200--4387234 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
4387190 TGTCGAAAAA
4387200 CAAAAAATATTATTTTT
1 CAAAAAATATTATTTTT
*
4387217 CAAAAAATTTTATTTTT
1 CAAAAAATATTATTTTT
4387234 C
1 C
4387235 GGTCAAAGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (17 bp):
CAAAAAATATTATTTTT
Found at i:4387252 original size:13 final size:13
Alignment explanation
Indices: 4387234--4387259 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4387224 TTTTATTTTT
4387234 CGGTCAAAGTCAA
1 CGGTCAAAGTCAA
4387247 CGGTCAAAGTCAA
1 CGGTCAAAGTCAA
4387260 TAGGTTAACT
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:0.38, C:0.23, G:0.23, T:0.15
Consensus pattern (13 bp):
CGGTCAAAGTCAA
Found at i:4389550 original size:21 final size:22
Alignment explanation
Indices: 4389525--4389646 Score: 105
Period size: 21 Copynumber: 5.7 Consensus size: 22
4389515 GTAATTTGCA
*
4389525 CCGAAGTG-CCAAATAATTGTC
1 CCGAAGTGACCACATAATTGTC
*
4389546 CCGAA-TGACCACATAGGTT-TGC
1 CCGAAGTGACCACATA-ATTGT-C
* * *
4389568 ACCAAAGTG-CCATATATTTGTC
1 -CCGAAGTGACCACATAATTGTC
4389590 CCGAAG-GACCACATAATTGTC
1 CCGAAGTGACCACATAATTGTC
* *
4389611 CCAAAG-GACCACATAATTATC
1 CCGAAGTGACCACATAATTGTC
4389632 CCGAAG-GACCACATA
1 CCGAAGTGACCACATA
4389647 GACCCTCGAC
Statistics
Matches: 83, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
20 3 0.04
21 61 0.73
22 6 0.07
23 11 0.13
24 2 0.02
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.21
Consensus pattern (22 bp):
CCGAAGTGACCACATAATTGTC
Found at i:4389570 original size:44 final size:44
Alignment explanation
Indices: 4389519--4389647 Score: 149
Period size: 44 Copynumber: 3.0 Consensus size: 44
4389509 CAACTCGTAA
* *
4389519 TTTGCACCGAAGTGCCAAATAATTGTCCCGAATGACCACATAGG
1 TTTGCACCAAAGTGCCAAATAATTGTCCCGAAGGACCACATAGG
* *
4389563 TTTGCACCAAAGTGCCATATATTTGTCCCGAAGGACCACATA--
1 TTTGCACCAAAGTGCCAAATAATTGTCCCGAAGGACCACATAGG
* * *
4389605 ATTGTC-CCAAAG-GACCACATAATTATCCCGAAGGACCACATAG
1 TTTG-CACCAAAGTG-CCAAATAATTGTCCCGAAGGACCACATAG
4389648 ACCCTCGACT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
41 1 0.01
42 34 0.46
43 1 0.01
44 38 0.51
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.22
Consensus pattern (44 bp):
TTTGCACCAAAGTGCCAAATAATTGTCCCGAAGGACCACATAGG
Found at i:4389892 original size:31 final size:31
Alignment explanation
Indices: 4389856--4389926 Score: 133
Period size: 31 Copynumber: 2.3 Consensus size: 31
4389846 CACATACATC
4389856 TTATTCACATAGCGCTCTCATATGTTATTAT
1 TTATTCACATAGCGCTCTCATATGTTATTAT
*
4389887 TTATTCACATAGCGTTCTCATATGTTATTAT
1 TTATTCACATAGCGCTCTCATATGTTATTAT
4389918 TTATTCACA
1 TTATTCACA
4389927 ATCAAACATT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.27, C:0.18, G:0.08, T:0.46
Consensus pattern (31 bp):
TTATTCACATAGCGCTCTCATATGTTATTAT
Found at i:4395362 original size:21 final size:21
Alignment explanation
Indices: 4395337--4395458 Score: 124
Period size: 21 Copynumber: 5.7 Consensus size: 21
4395327 GTAATTTGCA
4395337 CCAAAGTG-CCACATAATTATC
1 CCAAAG-GACCACATAATTATC
*
4395358 CCAAAGGACCACATAGGTT-TGC
1 CCAAAGGACCACATA-ATTAT-C
* *
4395380 ACCGAAGTG-CCACATATTTATC
1 -CCAAAG-GACCACATAATTATC
*
4395402 CCGAAGGACCACATAATTATC
1 CCAAAGGACCACATAATTATC
4395423 CCAAAGGACCACATAATTATC
1 CCAAAGGACCACATAATTATC
* *
4395444 CCGAATGACCACATA
1 CCAAAGGACCACATA
4395459 GACCCTCGAC
Statistics
Matches: 87, Mismatches: 7, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
20 2 0.02
21 65 0.75
22 6 0.07
23 13 0.15
24 1 0.01
ACGTcount: A:0.37, C:0.29, G:0.14, T:0.20
Consensus pattern (21 bp):
CCAAAGGACCACATAATTATC
Found at i:4395388 original size:44 final size:44
Alignment explanation
Indices: 4395330--4395460 Score: 171
Period size: 44 Copynumber: 3.0 Consensus size: 44
4395320 ACAACTCGTA
*
4395330 ATTTGCACCAAAGTGCCACATAATTATCCCAAAGGACCACATAG
1 ATTTGCACCAAAGTGCCACATAATTATCCCGAAGGACCACATAG
* * *
4395374 GTTTGCACCGAAGTGCCACATATTTATCCCGAAGGACCACATA-
1 ATTTGCACCAAAGTGCCACATAATTATCCCGAAGGACCACATAG
*
4395417 ATTAT-C-CCAAAG-GACCACATAATTATCCCGAATGACCACATAG
1 ATT-TGCACCAAAGTG-CCACATAATTATCCCGAAGGACCACATAG
4395460 A
1 A
4395461 CCCTCGACTC
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
41 1 0.01
42 31 0.41
43 4 0.05
44 40 0.53
ACGTcount: A:0.37, C:0.27, G:0.15, T:0.21
Consensus pattern (44 bp):
ATTTGCACCAAAGTGCCACATAATTATCCCGAAGGACCACATAG
Found at i:4396452 original size:21 final size:21
Alignment explanation
Indices: 4396428--4396474 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
4396418 AAAACTCTCT
4396428 TAAACACATACTTTGAGTTTA
1 TAAACACATACTTTGAGTTTA
4396449 TAAACACATACTTTGAGTTTA
1 TAAACACATACTTTGAGTTTA
4396470 TAAAC
1 TAAAC
4396475 TCACATTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.36
Consensus pattern (21 bp):
TAAACACATACTTTGAGTTTA
Found at i:4397655 original size:42 final size:41
Alignment explanation
Indices: 4397608--4397699 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 41
4397598 CCCGAAATTT
* *
4397608 CGTGTTTGTTTCACGTAATTCGTTTTCCTGA-AAATGTTTTTC
1 CGTGTTTGTTTCACGAAATTCATTTTCC-GACAAATG-TTTTC
4397650 CGTGTTTGTTTCACGAAATTCATTTTCCGACAAATGTTTTC
1 CGTGTTTGTTTCACGAAATTCATTTTCCGACAAATGTTTTC
4397691 CAGTGTTTG
1 C-GTGTTTG
4397700 GTTGGAGGAA
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
41 8 0.17
42 38 0.83
ACGTcount: A:0.18, C:0.17, G:0.17, T:0.47
Consensus pattern (41 bp):
CGTGTTTGTTTCACGAAATTCATTTTCCGACAAATGTTTTC
Found at i:4398312 original size:82 final size:80
Alignment explanation
Indices: 4398163--4398331 Score: 186
Period size: 82 Copynumber: 2.1 Consensus size: 80
4398153 TAAAGATATT
* * * * * *
4398163 TAAAATATACTAATTAATATTTTTAAATAAAATATAACACTATTACTTTAATAAATAATTTATAT
1 TAAAATATACAAATTAATATTTTTAAATAAAATATAAAAATAATACTTTAATAAATAATATAAAT
4398228 TATTTT-TATTTTCAA
66 TATTTTATATTTT-AA
4398243 TAAAATATACCAATATTAATATTTTTATTAATAAAATTATAAAAATAATA-TTTAAT-AATAA-A
1 TAAAATATA-CAA-ATTAATATTTTTA--AATAAAA-TATAAAAATAATACTTTAATAAATAATA
4398305 TAAATTATTTTAATATTTTAA
61 TAAATTATTTT-ATATTTTAA
4398326 -AAAATA
1 TAAAATA
4398332 AATATTAAGT
Statistics
Matches: 76, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
80 9 0.12
81 2 0.03
82 29 0.38
83 7 0.09
84 19 0.25
85 10 0.13
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (80 bp):
TAAAATATACAAATTAATATTTTTAAATAAAATATAAAAATAATACTTTAATAAATAATATAAAT
TATTTTATATTTTAA
Found at i:4398551 original size:14 final size:14
Alignment explanation
Indices: 4398532--4398590 Score: 64
Period size: 14 Copynumber: 4.1 Consensus size: 14
4398522 CCAGAAATGT
*
4398532 AATTCATTTTCCAG
1 AATTCAATTTCCAG
* *
4398546 AATTCAAATTCCAAT
1 AATTCAATTTCC-AG
* *
4398561 AATTCATTTTCCAT
1 AATTCAATTTCCAG
4398575 AATTCAATTTCCAG
1 AATTCAATTTCCAG
4398589 AA
1 AA
4398591 AACCAATTAC
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
14 26 0.70
15 11 0.30
ACGTcount: A:0.37, C:0.20, G:0.03, T:0.39
Consensus pattern (14 bp):
AATTCAATTTCCAG
Found at i:4398555 original size:20 final size:20
Alignment explanation
Indices: 4398518--4398556 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4398508 CCTGAAAACG
**
4398518 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATCAAATTCA
*
4398538 TTTTCCAGAATTCAAATTC
1 TTTTCCAGAAATCAAATTC
4398557 CAATAATTCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (20 bp):
TTTTCCAGAAATCAAATTCA
Found at i:4398573 original size:29 final size:29
Alignment explanation
Indices: 4398531--4398587 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
4398521 TCCAGAAATG
4398531 TAATTCATTTTCCAGAATTCAAATTCCAA
1 TAATTCATTTTCCAGAATTCAAATTCCAA
* *
4398560 TAATTCATTTTCCATAATTCAATTTCCA
1 TAATTCATTTTCCAGAATTCAAATTCCA
4398588 GAAAACCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.35, C:0.21, G:0.02, T:0.42
Consensus pattern (29 bp):
TAATTCATTTTCCAGAATTCAAATTCCAA
Found at i:4401144 original size:35 final size:36
Alignment explanation
Indices: 4401085--4401160 Score: 102
Period size: 35 Copynumber: 2.1 Consensus size: 36
4401075 GCAAAATCTT
* *
4401085 AATATGGTATCGATACTGAAGTGGAAGTATCGGTAC
1 AATATGGTATCGATACTCAAGTGGAAGTATCAGTAC
4401121 AATA-GGTATCGATAC-CAAGGTGGAAGTATCAGTAC
1 AATATGGTATCGATACTCAA-GTGGAAGTATCAGTAC
*
4401156 CATAT
1 AATAT
4401161 TTACAATGGA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
34 2 0.06
35 29 0.83
36 4 0.11
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.26
Consensus pattern (36 bp):
AATATGGTATCGATACTCAAGTGGAAGTATCAGTAC
Found at i:4402067 original size:21 final size:21
Alignment explanation
Indices: 4401941--4402072 Score: 95
Period size: 21 Copynumber: 6.2 Consensus size: 21
4401931 TACACGGTAA
* * *
4401941 TTCGGGAAATATATGTGATCT
1 TTCGGGACATATATGTGGTCC
* * *
4401962 TTTGGAACATATATGCGGTCC
1 TTCGGGACATATATGTGGTCC
* *
4401983 TTCGGGACATATATTTGGTTC
1 TTCGGGACATATATGTGGTCC
* **
4402004 TTTGAAACATATATGTGG-CC
1 TTCGGGACATATATGTGGTCC
* * * *
4402024 CTCAGGGACATTTCTACGTGGTCA
1 TTC-GGGACA--TATATGTGGTCC
4402048 TTCGGGACATATATGTGGTCC
1 TTCGGGACATATATGTGGTCC
4402069 TTCG
1 TTCG
4402073 AGATAATTCT
Statistics
Matches: 80, Mismatches: 27, Indels: 8
0.70 0.23 0.07
Matches are distributed among these distances:
20 2 0.03
21 62 0.77
23 13 0.16
24 3 0.04
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.36
Consensus pattern (21 bp):
TTCGGGACATATATGTGGTCC
Found at i:4405577 original size:59 final size:59
Alignment explanation
Indices: 4405485--4405897 Score: 675
Period size: 59 Copynumber: 7.0 Consensus size: 59
4405475 ATTATTTCTC
* * *
4405485 ATATGTAAATTCATACACTTAGTATGAAATCCTTCTCATGTTAGCACAGAAAGTGCCCT
1 ATATGGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACAAAGTGCCCT
* *
4405544 ATATGGAAATTTATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCT
1 ATATGGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACAAAGTGCCCT
*
4405603 ATATGGAAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACAAAGTGCCCT
1 ATATGGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACAAAGTGCCCT
* *
4405662 ATATGAAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACAAAATGCCCT
1 ATATGGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACAAAGTGCCCT
*
4405721 ATATGGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACATAAAGTGCCCT
1 ATATGGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACAAAGTGCCCT
*
4405780 ATATGGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACATAAAGTGCCCT
1 ATATGGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACAAAGTGCCCT
* * * * *
4405839 ATATGTAAATTCATACACTTAGTATGAATTTCTTGAT-ATTTTAGCACACGAAGTGCCCT
1 ATATGGAAATTCATACACTTAGTATGAATTCCTT-CTCATGTTAGCACACAAAGTGCCCT
4405898 TTTGGTAATC
Statistics
Matches: 333, Mismatches: 20, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
59 332 1.00
60 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.34
Consensus pattern (59 bp):
ATATGGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACAAAGTGCCCT
Found at i:4407740 original size:42 final size:42
Alignment explanation
Indices: 4407662--4407746 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 42
4407652 AGGGCTCTAC
* *
4407662 GCGGTCCTTCGGGACAAATATGTGATCCTTTGGAACATATAT
1 GCGGTCCTTCGGGACAAATATGTGATCATTTAGAACATATAT
* * *
4407704 GCGGTCCTTCGGGACATATATTTGGTCATTTAGAACATATAT
1 GCGGTCCTTCGGGACAAATATGTGATCATTTAGAACATATAT
4407746 G
1 G
4407747 TAGTCCTTAG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.33
Consensus pattern (42 bp):
GCGGTCCTTCGGGACAAATATGTGATCATTTAGAACATATAT
Found at i:4407753 original size:42 final size:42
Alignment explanation
Indices: 4407665--4407759 Score: 118
Period size: 42 Copynumber: 2.3 Consensus size: 42
4407655 GCTCTACGCG
* * *
4407665 GTCCTTCGGGACAAATATGTGATCCTTTGGAACATATATGCG
1 GTCCTTCGGGACAAATATGTGATCATTTAGAACATATATGCA
* * * *
4407707 GTCCTTCGGGACATATATTTGGTCATTTAGAACATATATGTA
1 GTCCTTCGGGACAAATATGTGATCATTTAGAACATATATGCA
*
4407749 GTCCTTAGGGA
1 GTCCTTCGGGA
4407760 GAATTCTATG
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (42 bp):
GTCCTTCGGGACAAATATGTGATCATTTAGAACATATATGCA
Found at i:4407827 original size:21 final size:21
Alignment explanation
Indices: 4407664--4407828 Score: 105
Period size: 21 Copynumber: 7.7 Consensus size: 21
4407654 GGCTCTACGC
*
4407664 GGTCCTTCGGGACAAATATGT
1 GGTCCTTCGGGACATATATGT
* * * *
4407685 GATCCTTTGGAACATATATGC
1 GGTCCTTCGGGACATATATGT
*
4407706 GGTCCTTCGGGACATATATTT
1 GGTCCTTCGGGACATATATGT
* ** *
4407727 GGTCATTTAGAACATATATGT
1 GGTCCTTCGGGACATATATGT
* * * *
4407748 AGTCCTTAGGGAGAATTCTATGT
1 GGTCCTTCGGGA-CA-TATATGT
* * * *
4407771 GGTCATTTGGGACATTTCTACGT
1 GGTCCTTCGGGACA--TATATGT
* *
4407794 GGTTCTTCAGGACATATATGT
1 GGTCCTTCGGGACATATATGT
*
4407815 GGTCATTCGGGACA
1 GGTCCTTCGGGACA
4407829 ATTCTACAAG
Statistics
Matches: 105, Mismatches: 36, Indels: 6
0.71 0.24 0.04
Matches are distributed among these distances:
21 71 0.68
22 2 0.02
23 32 0.30
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (21 bp):
GGTCCTTCGGGACATATATGT
Found at i:4407847 original size:44 final size:44
Alignment explanation
Indices: 4407766--4407851 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 44
4407756 GGGAGAATTC
* * **
4407766 TATGTGGTCATTTGGGACATTTCTACGTGGTTCTTCAGGACATA
1 TATGTGGTCATTCGGGACAATTCTACAAGGTTCTTCAGGACATA
4407810 TATGTGGTCATTCGGGACAATTCTACAAGG-TCATTCAGGACA
1 TATGTGGTCATTCGGGACAATTCTACAAGGTTC-TTCAGGACA
4407852 ATTTTATATG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 2 0.05
44 35 0.95
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.34
Consensus pattern (44 bp):
TATGTGGTCATTCGGGACAATTCTACAAGGTTCTTCAGGACATA
Found at i:4409513 original size:2 final size:2
Alignment explanation
Indices: 4409508--4409554 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
4409498 TTTATGTGTT
4409508 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4409550 TA TA T
1 TA TA T
4409555 CATGCTCAAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4414889 original size:44 final size:44
Alignment explanation
Indices: 4414823--4414953 Score: 142
Period size: 43 Copynumber: 3.0 Consensus size: 44
4414813 TAGAAAGTGG
* *
4414823 GATTG-AAAAAATTAAGGCCCTCAATTAT-AAGGTAAAAAATGA
1 GATTGAAAAAAATTAGGGACCTCAATTATAAAGGTAAAAAATGA
* * * *
4414865 GATTGAAAAAAAATTAGGAACCTCAATTATAAAGATCAAAAA-GT
1 GATTG-AAAAAAATTAGGGACCTCAATTATAAAGGTAAAAAATGA
* * * *
4414909 GATTGAAAAAAATTAGGGTCTTCAATTATAAAAGTAGAAAATGA
1 GATTGAAAAAAATTAGGGACCTCAATTATAAAGGTAAAAAATGA
4414953 G
1 G
4414954 GGCCCTAAGC
Statistics
Matches: 71, Mismatches: 14, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
42 5 0.07
43 29 0.41
44 28 0.39
45 9 0.13
ACGTcount: A:0.51, C:0.08, G:0.17, T:0.24
Consensus pattern (44 bp):
GATTGAAAAAAATTAGGGACCTCAATTATAAAGGTAAAAAATGA
Found at i:4418948 original size:113 final size:113
Alignment explanation
Indices: 4418654--4419014 Score: 618
Period size: 113 Copynumber: 3.2 Consensus size: 113
4418644 AACTTTCAAC
* * * *
4418654 AAAGTATCGATACATTTTTATAAAAA-TATCTATACTTTCAACATATTAGGTAAATTTTATCGGT
1 AAAGTATCGATACATTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGGT
*
4418718 TTTGTCATAATGAAATTGGTTTTGTCATATTTTTACCTGTTATATTGT
66 TTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
4418766 AAAGTATCGAT-CATTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGGT
1 AAAGTATCGATACATTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGGT
* * *
4418830 TTTGTCATAATGAAACTGATTTTGTCATACTTTTACTTGTTATATTGT
66 TTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
* *
4418878 AAAGTATCGATATATTTTTATAAAAAGGATCGATACTTTCAACATATCCGGTAAATTTTACCGGT
1 AAAGTATCGATACATTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGGT
4418943 TTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
66 TTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
4418991 AAAGTATCGATACATTTTTATAAA
1 AAAGTATCGATACATTTTTATAAA
4419015 GTATCGATAC
Statistics
Matches: 233, Mismatches: 14, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
111 14 0.06
112 100 0.43
113 119 0.51
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (113 bp):
AAAGTATCGATACATTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGGT
TTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
Found at i:4419296 original size:23 final size:23
Alignment explanation
Indices: 4419270--4419319 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
4419260 TCCTATTTTA
*
4419270 TTATATAAGCTCTACCTAATACG
1 TTATATAAGCGCTACCTAATACG
*
4419293 TTATATAAGCGCTACCTAATATG
1 TTATATAAGCGCTACCTAATACG
4419316 TTAT
1 TTAT
4419320 TGTGCTTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.38
Consensus pattern (23 bp):
TTATATAAGCGCTACCTAATACG
Found at i:4419387 original size:87 final size:87
Alignment explanation
Indices: 4419254--4419453 Score: 328
Period size: 87 Copynumber: 2.3 Consensus size: 87
4419244 ACAAATTAAA
* *
4419254 TAATTATCCTATTTTATTATATAAGCTCTACCTAATACGTTATATAAGCGCTACCTAATATGTTA
1 TAATTAACCTATTTTATTATATAAGCTCTACCTAATACATTATATAAGCGCTACCTAATATGTTA
*
4419319 TTGTGCTTGATAACGTTTCCAG
66 TTATGCTTGATAACGTTTCCAG
* * *
4419341 TAATTAACCTATTTTATTATATAAGCTCTACTTATTACATTATATAAGCGGTACCTAATATGTTA
1 TAATTAACCTATTTTATTATATAAGCTCTACCTAATACATTATATAAGCGCTACCTAATATGTTA
*
4419406 TTATGCTTGATAATGTTTCCAG
66 TTATGCTTGATAACGTTTCCAG
*
4419428 TAATTAACTTATTTTATTATATAAGC
1 TAATTAACCTATTTTATTATATAAGC
4419454 GCTATCTATG
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 105 1.00
ACGTcount: A:0.32, C:0.14, G:0.10, T:0.43
Consensus pattern (87 bp):
TAATTAACCTATTTTATTATATAAGCTCTACCTAATACATTATATAAGCGCTACCTAATATGTTA
TTATGCTTGATAACGTTTCCAG
Found at i:4419961 original size:90 final size:90
Alignment explanation
Indices: 4419799--4419991 Score: 314
Period size: 90 Copynumber: 2.1 Consensus size: 90
4419789 ATTTTTATAA
* * * *
4419799 AAAGTATCTATACTTTCAACATATTAGGTAAATTTTACCGGTTTTGTCATAATGAAACTGGTTTT
1 AAAGTATCGATACTTTCAACATATCAGGTAAATTTTACCAGTTTTGTCATAATGAAACTGATTTT
4419864 GTCATATTTTTACCTGTTATATTGT
66 GTCATATTTTTACCTGTTATATTGT
* *
4419889 AAAGGATCGATACTTTCAACATATCATGTAAATTTTACCAGTTTTGTCATAATGAAACTGATTTT
1 AAAGTATCGATACTTTCAACATATCAGGTAAATTTTACCAGTTTTGTCATAATGAAACTGATTTT
*
4419954 GTCATATTTTTACTTGTTATATTGT
66 GTCATATTTTTACCTGTTATATTGT
*
4419979 AAAATATCGATAC
1 AAAGTATCGATAC
4419992 ATTTTTATAA
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
90 94 1.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (90 bp):
AAAGTATCGATACTTTCAACATATCAGGTAAATTTTACCAGTTTTGTCATAATGAAACTGATTTT
GTCATATTTTTACCTGTTATATTGT
Found at i:4420035 original size:113 final size:113
Alignment explanation
Indices: 4419889--4420127 Score: 376
Period size: 113 Copynumber: 2.1 Consensus size: 113
4419879 GTTATATTGT
*
4419889 AAAGGATCGATACTTTCAACATATCATGTAAATTTTACCAGTTTTGTCATAATGAAACTGATTTT
1 AAAGGATCGATACTTTCAACATATCACGTAAATTTTACCAGTTTTGTCATAATGAAACTGATTTT
*
4419954 GTCATATTTTTACTTGTTATATTGTAAAATATCGATACATTTTTATAA
66 GTCATATTTTTACCTGTTATATTGTAAAATATCGATACATTTTTATAA
* * *
4420002 AAAGGATCGATATTTTCAACATATC-CGATAAATTTTACCGGTTTTGTCATAATGAAACTGGTTT
1 AAAGGATCGATACTTTCAACATATCACG-TAAATTTTACCAGTTTTGTCATAATGAAACTGATTT
* *
4420066 TGTCATATTTTTACCTGTTATATTGTAAAGTATCGATATATTTTTAT--
65 TGTCATATTTTTACCTGTTATATTGTAAAATATCGATACATTTTTATAA
*
4420113 AAAGTATCGATACTT
1 AAAGGATCGATACTT
4420128 ATAGGTTCTA
Statistics
Matches: 116, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
111 13 0.11
112 1 0.01
113 102 0.88
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (113 bp):
AAAGGATCGATACTTTCAACATATCACGTAAATTTTACCAGTTTTGTCATAATGAAACTGATTTT
GTCATATTTTTACCTGTTATATTGTAAAATATCGATACATTTTTATAA
Found at i:4420557 original size:23 final size:23
Alignment explanation
Indices: 4420531--4420574 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
4420521 TCAATAATTA
**
4420531 ACCTATTTTATTATATAAGTGCT
1 ACCTATTACATTATATAAGTGCT
4420554 ACCTATTACATTATATAAGTG
1 ACCTATTACATTATATAAGTG
4420575 GTATCTAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.43
Consensus pattern (23 bp):
ACCTATTACATTATATAAGTGCT
Found at i:4420589 original size:23 final size:23
Alignment explanation
Indices: 4420539--4420590 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
4420529 TAACCTATTT
*
4420539 TATTATATAAGTGCTACCTATTA
1 TATTATATAAGTGCTACCTAATA
* * *
4420562 CATTATATAAGTGGTATCTAATA
1 TATTATATAAGTGCTACCTAATA
4420585 TATTAT
1 TATTAT
4420591 TATGCTTGAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.44
Consensus pattern (23 bp):
TATTATATAAGTGCTACCTAATA
Found at i:4420591 original size:87 final size:87
Alignment explanation
Indices: 4420353--4420609 Score: 342
Period size: 86 Copynumber: 3.0 Consensus size: 87
4420343 TAACAAATTA
* * ***
4420353 AATAATTATCCTATTTTATTATATAAGCGCTA-C--TTACGTTATATAAGCACTACCTAATATGT
1 AATAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGTGGTACCTAATATGT
* * *
4420415 TATTGTGCTTGATAACGTTTCC
66 TATTATGCTTGATAATGTTTTC
* * *
4420437 AGTAATTAACTTATTTTATTAT-TAAGCGCTTCCTATTACATTATATAAGTGGTACCTAATATGT
1 AATAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGTGGTACCTAATATGT
*
4420501 TATTCTGCTTGATAATGTTTTC
66 TATTATGCTTGATAATGTTTTC
* * *
4420523 AATAATTAACCTATTTTATTATATAAGTGCTACCTATTACATTATATAAGTGGTATCTAATATAT
1 AATAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGTGGTACCTAATATGT
*
4420588 TATTATGCTTGATAATATTTTC
66 TATTATGCTTGATAATGTTTTC
4420610 GGTTAAATAA
Statistics
Matches: 150, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
83 8 0.05
84 20 0.13
86 64 0.43
87 58 0.39
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.45
Consensus pattern (87 bp):
AATAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGTGGTACCTAATATGT
TATTATGCTTGATAATGTTTTC
Found at i:4420592 original size:26 final size:24
Alignment explanation
Indices: 4420531--4420593 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 24
4420521 TCAATAATTA
4420531 ACCTATT-TTATTATATAAGTGCT
1 ACCTATTATTATTATATAAGTGCT
* *
4420554 ACCTATTA-CATTATATAAGTGGT
1 ACCTATTATTATTATATAAGTGCT
*
4420577 ATCTAATATATTATTAT
1 ACCT-AT-TATTATTAT
4420594 GCTTGATAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
23 23 0.72
24 2 0.06
25 2 0.06
26 5 0.16
ACGTcount: A:0.35, C:0.11, G:0.08, T:0.46
Consensus pattern (24 bp):
ACCTATTATTATTATATAAGTGCT
Found at i:4421708 original size:2 final size:2
Alignment explanation
Indices: 4421701--4421726 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4421691 AAACATAGAA
4421701 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
4421727 CTTAAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4421954 original size:25 final size:25
Alignment explanation
Indices: 4421808--4422028 Score: 167
Period size: 25 Copynumber: 8.7 Consensus size: 25
4421798 TTTCTGCAGC
*
4421808 GAAAGTAACACATAATT-CAAGCAAT
1 GAAAGTAACACATAATTCCAA-CAGT
* * * *
4421833 GAAAGTACCACATAATTTCAGTAGTACT
1 GAAAGTAACACATAATTCCA--A-CAGT
** *
4421861 GAAAGTAACACATAATTCCAGTACT
1 GAAAGTAACACATAATTCCAACAGT
* *
4421886 GAAAGTAAGACTTAATTCCAACAGT
1 GAAAGTAACACATAATTCCAACAGT
*
4421911 GAAAGTAATACATAATTCCAACAGT
1 GAAAGTAACACATAATTCCAACAGT
4421936 GAAAGTAACACATAATTCCAACA-T
1 GAAAGTAACACATAATTCCAACAGT
* * * * * * *
4421960 TAAACTTATCACAGACTTACACCAGT
1 GAAA-GTAACACATAATTCCAACAGT
* * ** *
4421986 GAAATTTCACACATAATTCCAGTATT
1 GAAA-GTAACACATAATTCCAACAGT
4422012 GAAAGTAACACATAATT
1 GAAAGTAACACATAATT
4422029 TCAATAATGA
Statistics
Matches: 158, Mismatches: 33, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
24 4 0.03
25 109 0.69
26 23 0.15
28 22 0.14
ACGTcount: A:0.45, C:0.19, G:0.11, T:0.25
Consensus pattern (25 bp):
GAAAGTAACACATAATTCCAACAGT
Found at i:4422028 original size:76 final size:76
Alignment explanation
Indices: 4421920--4422076 Score: 208
Period size: 76 Copynumber: 2.1 Consensus size: 76
4421910 TGAAAGTAAT
*
4421920 ACATAATTCCAACAGTGAAAGTAACACATAATTCCAACATTAAACTTATCACAGACTTACACCA-
1 ACATAATTCCAACAGTGAAAGTAACACATAATTCCAACAATAAACTTATCACAGACTTACA-CAG
*
4421984 GTGAAATTTCAC
65 GTGAAATTTAAC
** * * * * *
4421996 ACATAATTCCAGTATTGAAAGTAACACATAATTTCAATAATGAACTTATCACAGGCTTACACAGG
1 ACATAATTCCAACAGTGAAAGTAACACATAATTCCAACAATAAACTTATCACAGACTTACACAGG
*
4422061 TTAAATTTAAC
66 TGAAATTTAAC
4422072 ACATA
1 ACATA
4422077 CTCATTACCC
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
75 2 0.03
76 68 0.97
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.27
Consensus pattern (76 bp):
ACATAATTCCAACAGTGAAAGTAACACATAATTCCAACAATAAACTTATCACAGACTTACACAGG
TGAAATTTAAC
Found at i:4424208 original size:371 final size:365
Alignment explanation
Indices: 4423557--4424263 Score: 1081
Period size: 371 Copynumber: 1.9 Consensus size: 365
4423547 TCTCACGAGC
4423557 GATCCAAGTACAATAAAACCAAAACTGAGAGGAAAAGATACAATTATTTTACCTTATGTTCCTTG
1 GATCCAAGTACAATAAAACCAAAACTGAGAGGAAAAGATACAATTATTTTACCTTATGTTCCTTG
* * * *
4423622 CAAAGAAGCAGTAGTCACGAGTGGTTCAAATCGTAAAGATCCACGAAATTACGTCTCGGCCTCTA
66 CAAAGAAGCAGTAGTCACAAGCGGTTCAAATCGTAAAGATCCACGAAATTACGTATCGACCTCTA
* * *
4423687 CTTGGTTCACCTGGTTAGAGCAAAATTTTACTTTTTCCCAAAACTGTTTTTGAGAAAAACATGCA
131 CTTGGTTCACCCGATTAGAGCAAAATTTTACTTTTTCCCAAAACTATTTTTGAGAAAAACATGCA
* *
4423752 ATGTCTAAGGAGAAGAAGAGAGGCTGCTAGACCAATCTTTTCCTTTTATAATGTTGTTACCCTAA
196 ATGTCTAAGGAGAAGAAGAGAGGCTACCAGACCAATCTTTTCCTTTTATAATGTTGTTACCCTAA
* *
4423817 CACTTAGGATTTTATGAATTAATTAAAAGAAAAATATTTAAATTAATTATATTCCTTTTAATATC
261 CACTTAGGATTTTATGAATTAATTAAAAGAAAAATAATTAAATTAATTATATTCATTTTAATATC
*
4423882 TATTTAGCATAGCGAAAACAAACTCGACAGTCTCAGTACT
326 TATTTACCATAGCGAAAACAAACTCGACAGTCTCAGTACT
* * * * ** *
4423922 GATCCATGTACGATAAAACCAAAATTGGGAGGAAAAGATATGATTATTTTACCTTGTGTTCCTTG
1 GATCCAAGTACAATAAAACCAAAACTGAGAGGAAAAGATACAATTATTTTACCTTATGTTCCTTG
* * * * *
4423987 CAAAGCAGTAGTAGTCACAAGCGGTTCGAATCGTAAAGCCTCCACGAAATTATGTATCGACCTCT
66 CAAAGAAGCAGTAGTCACAAGCGGTTCAAATCGTAAAG-ATCCACGAAATTACGTATCGACCTCT
* **
4424052 ACTTGGTTCACCCGATTAAGAGCAAATTTTTTTGTTTTTCCCAAAACTATTTTTGAGAAGAAGAA
130 ACTTGGTTCACCCGATT-AGAGCAAA-ATTTTACTTTTTCCCAAAACTATTTTTGAG-A-AA-AA
* *
4424117 CATGCAATGTCTAAGGAGAAGAAGAGTGGCTACCAGGCCAATCTTTTCCTTTTATAATGTTGTTA
190 CATGCAATGTCTAAGGAGAAGAAGAGAGGCTACCAGACCAATCTTTTCCTTTTATAATGTTGTTA
* *
4424182 CCCTAACACTTAGGGTTTTATGAATTAATTAAAAGAAAAATAATTACATTAATTATATTCATTTT
255 CCCTAACACTTAGGATTTTATGAATTAATTAAAAGAAAAATAATTAAATTAATTATATTCATTTT
4424247 AATATCTATTTACCATA
320 AATATCTATTTACCATA
4424264 TACATGATAA
Statistics
Matches: 305, Mismatches: 31, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
365 91 0.30
366 37 0.12
367 8 0.03
368 26 0.09
369 1 0.00
370 2 0.01
371 140 0.46
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (365 bp):
GATCCAAGTACAATAAAACCAAAACTGAGAGGAAAAGATACAATTATTTTACCTTATGTTCCTTG
CAAAGAAGCAGTAGTCACAAGCGGTTCAAATCGTAAAGATCCACGAAATTACGTATCGACCTCTA
CTTGGTTCACCCGATTAGAGCAAAATTTTACTTTTTCCCAAAACTATTTTTGAGAAAAACATGCA
ATGTCTAAGGAGAAGAAGAGAGGCTACCAGACCAATCTTTTCCTTTTATAATGTTGTTACCCTAA
CACTTAGGATTTTATGAATTAATTAAAAGAAAAATAATTAAATTAATTATATTCATTTTAATATC
TATTTACCATAGCGAAAACAAACTCGACAGTCTCAGTACT
Found at i:4427924 original size:35 final size:35
Alignment explanation
Indices: 4427858--4427996 Score: 122
Period size: 35 Copynumber: 3.9 Consensus size: 35
4427848 CTTAGATCTG
* * * *
4427858 TAAGGAATTACTAGCTCGATCG-GTCTAAACCTATA
1 TAAGGAATTACCAGTTTGATCGAGT-TGAACCTATA
* * **
4427893 CAAGGAATTACCAATTTGA-CAGAGTTGAACCTGCCA
1 TAAGGAATTACCAGTTTGATC-GAGTTGAACCT-ATA
*
4427929 TAAGGAATTACCAGTTCGATCG-GTTTGAACCTATA
1 TAAGGAATTACCAGTTTGATCGAG-TTGAACCTATA
* *
4427964 TAAAGAATTACCAGTTTGATCGAGCTGAACCTA
1 TAAGGAATTACCAGTTTGATCGAGTTGAACCTA
4427997 CAGAGACTTC
Statistics
Matches: 82, Mismatches: 16, Indels: 12
0.75 0.15 0.11
Matches are distributed among these distances:
34 1 0.01
35 51 0.62
36 29 0.35
37 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (35 bp):
TAAGGAATTACCAGTTTGATCGAGTTGAACCTATA
Found at i:4427974 original size:71 final size:71
Alignment explanation
Indices: 4427858--4427995 Score: 188
Period size: 71 Copynumber: 1.9 Consensus size: 71
4427848 CTTAGATCTG
* * *
4427858 TAAGGAATTACTAGCTCGATCGGTCTAAACCTATACAAGGAATTACCAATTTGA-CAGAGTTGAA
1 TAAGGAATTACCAGCTCGATCGGTCTAAACCTATACAAAGAATTACCAATTTGATC-GAGCTGAA
4427922 CCTGCCA
65 CCTGCCA
* * * * *
4427929 TAAGGAATTACCAGTTCGATCGGTTTGAACCTATATAAAGAATTACCAGTTTGATCGAGCTGAAC
1 TAAGGAATTACCAGCTCGATCGGTCTAAACCTATACAAAGAATTACCAATTTGATCGAGCTGAAC
4427994 CT
66 CT
4427996 ACAGAGACTT
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
71 57 0.98
72 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.28
Consensus pattern (71 bp):
TAAGGAATTACCAGCTCGATCGGTCTAAACCTATACAAAGAATTACCAATTTGATCGAGCTGAAC
CTGCCA
Found at i:4429760 original size:18 final size:18
Alignment explanation
Indices: 4429737--4429775 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
4429727 ACCGGTAAAC
*
4429737 AGTCAACAAGTCATGTCA
1 AGTCAACAAGTCAGGTCA
**
4429755 AGTCAACGGGTCAGGTCA
1 AGTCAACAAGTCAGGTCA
4429773 AGT
1 AGT
4429776 TGACTCGATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.21
Consensus pattern (18 bp):
AGTCAACAAGTCAGGTCA
Found at i:4437126 original size:45 final size:45
Alignment explanation
Indices: 4437075--4437240 Score: 190
Period size: 45 Copynumber: 3.7 Consensus size: 45
4437065 TTTGTAGACA
4437075 CAAAAGTAAAATCAAAGGATTAATTCCTTTTGATTATTAAGTTGC
1 CAAAAGTAAAATCAAAGGATTAATTCCTTTTGATTATTAAGTTGC
* * * * *
4437120 CAAAAGTAAAATTAAATGATTAGTTCCTTTTGATTATTGAGTTGT
1 CAAAAGTAAAATCAAAGGATTAATTCCTTTTGATTATTAAGTTGC
* * * *
4437165 CAAAATTAAAATCAAATGATTAGTTCCTTTTGATTACTCAA-TTGC
1 CAAAAGTAAAATCAAAGGATTAATTCCTTTTGATTA-TTAAGTTGC
** * * *
4437210 GGATATTAAAATTAAAGGATTAATTCCTTTT
1 CAAAAGTAAAATCAAAGGATTAATTCCTTTT
4437241 TAATTACTGA
Statistics
Matches: 104, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
45 102 0.98
46 2 0.02
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.39
Consensus pattern (45 bp):
CAAAAGTAAAATCAAAGGATTAATTCCTTTTGATTATTAAGTTGC
Found at i:4437231 original size:90 final size:91
Alignment explanation
Indices: 4437075--4437265 Score: 242
Period size: 90 Copynumber: 2.1 Consensus size: 91
4437065 TTTGTAGACA
* * *
4437075 CAAAAGTAAAATCAAAGGATTAATTCCTTTTGATTATTAAGTTGCCAAAAGTAAAATTAAATGAT
1 CAAAATTAAAATCAAAGGATTAATTCCTTTTGATTATCAAGTTGCCAAAAGTAAAATTAAAGGAT
* * *
4437140 TAGTTCC-TTTTGATTATTGAGTTGT
66 TAATTCCTTTTTAATTACTGAGTTGT
* * ** * *
4437165 CAAAATTAAAATCAAATGATTAGTTCCTTTTGATTACTCAA-TTGCGGATATTAAAATTAAAGGA
1 CAAAATTAAAATCAAAGGATTAATTCCTTTTGATTA-TCAAGTTGCCAAAAGTAAAATTAAAGGA
4437229 TTAATTCCTTTTTAATTACTGAGTTGT
65 TTAATTCCTTTTTAATTACTGAGTTGT
*
4437256 TAAAATTAAA
1 CAAAATTAAA
4437266 GGATTATTTG
Statistics
Matches: 86, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
90 58 0.67
91 28 0.33
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (91 bp):
CAAAATTAAAATCAAAGGATTAATTCCTTTTGATTATCAAGTTGCCAAAAGTAAAATTAAAGGAT
TAATTCCTTTTTAATTACTGAGTTGT
Found at i:4437538 original size:58 final size:57
Alignment explanation
Indices: 4437440--4437779 Score: 337
Period size: 58 Copynumber: 5.9 Consensus size: 57
4437430 CATTGATTCA
* ** * ** * *
4437440 TTTGTAAGGAAATAAATAATTGGATTTATTTTATTTAGAATCTTGAATAATTCTAAC
1 TTTGTAAGAAAATAAATTGTTAGATTTATTTCCTTGAGAATCTTGAATAATTCTAAT
* *
4437497 TTTGTAAAGAAAATGAATAGTTAGATTTATTTCCTTGAGAATCTTGAATAATTCTAAT
1 TTTGT-AAGAAAATAAATTGTTAGATTTATTTCCTTGAGAATCTTGAATAATTCTAAT
* * * *
4437555 TTTGTAAAGAAAATAAGTTGTTGGATTTATTTCCTTGAGAGTCTTGAATGATTCT-AT
1 TTTGT-AAGAAAATAAATTGTTAGATTTATTTCCTTGAGAATCTTGAATAATTCTAAT
*
4437612 ATTTGTAAGAAAAATAAATTGTTTA-ATTTATTTCCTTGAGAATCTTGAATGATTCTAAAT
1 -TTTGTAAG-AAAATAAATTG-TTAGATTTATTTCCTTGAGAATCTTGAATAATTCT-AAT
* * * * * * *
4437672 TTATCTGA-AAAATAAATCGTTAAATTTATTTTCTTGAGAATCTTAAATGATTCT-AT
1 TT-TGTAAGAAAATAAATTGTTAGATTTATTTCCTTGAGAATCTTGAATAATTCTAAT
* * * *
4437728 TTTGTAAAAAGAAATAAATTGTTAAATTTATTTTCTTGATAATCTTGAATAA
1 TTTGT-AAGA-AAATAAATTGTTAGATTTATTTCCTTGAGAATCTTGAATAA
4437780 AAAATAAATT
Statistics
Matches: 244, Mismatches: 28, Indels: 21
0.83 0.10 0.07
Matches are distributed among these distances:
55 2 0.01
56 5 0.02
57 14 0.06
58 214 0.88
59 4 0.02
60 5 0.02
ACGTcount: A:0.37, C:0.06, G:0.13, T:0.44
Consensus pattern (57 bp):
TTTGTAAGAAAATAAATTGTTAGATTTATTTCCTTGAGAATCTTGAATAATTCTAAT
Found at i:4437609 original size:116 final size:114
Alignment explanation
Indices: 4437449--4437779 Score: 371
Period size: 116 Copynumber: 2.9 Consensus size: 114
4437439 ATTTGTAAGG
** * * * *
4437449 AAATAAATAATTGGATTTATTTTATTTAGAATCTTGAATAATTCTAACTTTGTAAAGAAAATGAA
1 AAATAAATCGTTGGATTTATTTTCTTGAGAATCTTGAATGATTCTAA-TTTGTAAAGAAAATAAA
* *
4437514 TAGTTAGATTTATTTCCTTGAGAATCTTGAATAATTCT-AATTT-TGTAAAGA
65 TTGTTA-ATTTATTTCCTTGAGAATCTTGAATAATTCTAAATTTATCT-AA-A
* * * *
4437565 AAATAAGTTGTTGGATTTATTTCCTTGAGAGTCTTGAATGATTCTATATTTGT-AAGAAAAATAA
1 AAATAAATCGTTGGATTTATTTTCTTGAGAATCTTGAATGATTCTA-ATTTGTAAAG-AAAATAA
* *
4437629 ATTGTTTAATTTATTTCCTTGAGAATCTTGAATGATTCTAAATTTATCTGAA
64 ATTG-TTAATTTATTTCCTTGAGAATCTTGAATAATTCTAAATTTATCTAAA
** * * *
4437681 AAATAAATCGTTAAATTTATTTTCTTGAGAATCTTAAATGATTCTATTTTGTAAAAAGAAATAAA
1 AAATAAATCGTTGGATTTATTTTCTTGAGAATCTTGAATGATTCTAATTTGTAAAGA-AAATAAA
* *
4437746 TTGTTAAATTTATTTTCTTGATAATCTTGAATAA
65 TTGTT-AATTTATTTCCTTGAGAATCTTGAATAA
4437780 AAAATAAATT
Statistics
Matches: 182, Mismatches: 25, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
115 11 0.06
116 159 0.87
117 10 0.05
118 2 0.01
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.44
Consensus pattern (114 bp):
AAATAAATCGTTGGATTTATTTTCTTGAGAATCTTGAATGATTCTAATTTGTAAAGAAAATAAAT
TGTTAATTTATTTCCTTGAGAATCTTGAATAATTCTAAATTTATCTAAA
Found at i:4437871 original size:58 final size:60
Alignment explanation
Indices: 4437781--4437943 Score: 188
Period size: 58 Copynumber: 2.8 Consensus size: 60
4437771 CTTGAATAAA
* *
4437781 AAATAAATTATTGAATTTATTTTCTTAAGAATATTAAATGATTCTAGCA-AGTAAAAA-T
1 AAATAAATCATTGAATTTATTTTCTTGAGAATATTAAATGATTCTAGCATAGTAAAAAGT
* * * * * * * *
4437839 AAATAAATCGTTGAATTTATATTCATGTGAATATTATATGATT-TTGGATTGTAAAAAGT
1 AAATAAATCATTGAATTTATTTTCTTGAGAATATTAAATGATTCTAGCATAGTAAAAAGT
* * *
4437898 AAATAATTCATTAAATTTATTTTCTTGAGAATATTGAATGATTCTA
1 AAATAAATCATTGAATTTATTTTCTTGAGAATATTAAATGATTCTA
4437944 TTTTGAAAAA
Statistics
Matches: 83, Mismatches: 19, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
57 3 0.04
58 43 0.52
59 36 0.43
60 1 0.01
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.42
Consensus pattern (60 bp):
AAATAAATCATTGAATTTATTTTCTTGAGAATATTAAATGATTCTAGCATAGTAAAAAGT
Found at i:4437961 original size:217 final size:215
Alignment explanation
Indices: 4437681--4438073 Score: 562
Period size: 217 Copynumber: 1.8 Consensus size: 215
4437671 TTTATCTGAA
* *
4437681 AAATAAATCGTTAAATTTATTTTCTTGAGAATCTTAAATGATTCTATTTTGTAAAAAGAAATAAA
1 AAATAAATCATTAAATTTATTTTCTTGAGAATATTAAATGATTCTATTTTGTAAAAAGAAATAAA
4437746 TTGTTAAATTTATTTTCTTGATAATCTTG-AATAA-AAAATAAATTATTGAATTTATTTT-CTTA
66 TTGTTAAATTTATTTTCTT-AT--TCTTGTAA-AAGAAAATAAATTATTGAATTTATTTTCCTT-
*
4437808 AGAATATTAAATGATTCTAGCAAGTAAAA-ATAAATAAATCGTTGAATTTATATTCATGTGAATA
126 AGAATATTAAATGATTCTAGCAAGTAAAAGA-AAATAAATCGATGAATTTATATTCATGTGAATA
4437872 TTATATGATTTTGGATTGTAAAAAGT
190 TTATATGATTTTGGATTGTAAAAAGT
* *
4437898 AAATAATTCATTAAATTTATTTTCTTGAGAATATTGAATGATTCTATTTTG-AAAAAGGAAATAA
1 AAATAAATCATTAAATTTATTTTCTTGAGAATATTAAATGATTCTATTTTGTAAAAA-GAAATAA
* * * **
4437962 ATTGTTCAATTTATTTTCTTATTTTTGTAAAAGGAAATAAATTATTGAATTTATTTTCCTTATTA
65 ATTGTTAAATTTATTTTCTTATTCTTGTAAAAGAAAATAAATTATTGAATTTATTTTCCTTAGAA
* ***
4438027 TCTTAAATGATTCTAGTTTGTAAAAGAAAATAAATCGATGAATTTAT
130 TATTAAATGATTCTAGCAAGTAAAAGAAAATAAATCGATGAATTTAT
4438074 TTTCTTGTTT
Statistics
Matches: 157, Mismatches: 14, Indels: 12
0.86 0.08 0.07
Matches are distributed among these distances:
214 6 0.04
215 67 0.43
216 11 0.07
217 73 0.46
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (215 bp):
AAATAAATCATTAAATTTATTTTCTTGAGAATATTAAATGATTCTATTTTGTAAAAAGAAATAAA
TTGTTAAATTTATTTTCTTATTCTTGTAAAAGAAAATAAATTATTGAATTTATTTTCCTTAGAAT
ATTAAATGATTCTAGCAAGTAAAAGAAAATAAATCGATGAATTTATATTCATGTGAATATTATAT
GATTTTGGATTGTAAAAAGT
Found at i:4437976 original size:58 final size:57
Alignment explanation
Indices: 4437781--4437981 Score: 174
Period size: 58 Copynumber: 3.5 Consensus size: 57
4437771 CTTGAATAAA
* ** *
4437781 AAATAAATTATTGAATTTATTTTCTTAAGAATATTAAATGATTCTAGCAAGTAAAAA-T
1 AAATAAATTATTGAATTTATTTTCTTGAGAATATT-AATGATTCTATTATG-AAAAAGT
** * * * * *
4437839 AAATAAATCGTTGAATTTATATTCATGTGAATATTATATGATTTTGGATTGT-AAAAAGT
1 AAATAAATTATTGAATTTATTTTCTTGAGAATATTA-ATGATTCT--ATTATGAAAAAGT
* * *
4437898 AAAT-AATTCATTAAATTTATTTTCTTGAGAATATTGAATGATTCTATTTTGAAAAAGG
1 AAATAAATT-ATTGAATTTATTTTCTTGAGAATATT-AATGATTCTATTATGAAAAAGT
* *
4437956 AAATAAATTGTTCAATTTATTTTCTT
1 AAATAAATTATTGAATTTATTTTCTT
4437982 ATTTTTGTAA
Statistics
Matches: 113, Mismatches: 22, Indels: 16
0.75 0.15 0.11
Matches are distributed among these distances:
57 5 0.04
58 69 0.61
59 37 0.33
60 2 0.02
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.43
Consensus pattern (57 bp):
AAATAAATTATTGAATTTATTTTCTTGAGAATATTAATGATTCTATTATGAAAAAGT
Found at i:4437996 original size:40 final size:41
Alignment explanation
Indices: 4437944--4438025 Score: 130
Period size: 40 Copynumber: 2.0 Consensus size: 41
4437934 AATGATTCTA
*
4437944 TTTTGAAAAAGGAAATAAATTGTTCAATTTATTTT-CTTAT
1 TTTTGAAAAAGGAAATAAATTATTCAATTTATTTTCCTTAT
* *
4437984 TTTTGTAAAAGGAAATAAATTATTGAATTTATTTTCCTTAT
1 TTTTGAAAAAGGAAATAAATTATTCAATTTATTTTCCTTAT
4438025 T
1 T
4438026 ATCTTAAATG
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
40 32 0.84
41 6 0.16
ACGTcount: A:0.37, C:0.05, G:0.10, T:0.49
Consensus pattern (41 bp):
TTTTGAAAAAGGAAATAAATTATTCAATTTATTTTCCTTAT
Found at i:4438000 original size:98 final size:96
Alignment explanation
Indices: 4437887--4438116 Score: 257
Period size: 98 Copynumber: 2.4 Consensus size: 96
4437877 TGATTTTGGA
* * *
4437887 TTGTAAAAAGTAAATAATTCATTAAATTTATTTTCTTGAGAATATTGAATGATTCTATTTTGAAA
1 TTGT-AAAAGGAAATAATTCATTAAATTTATTTTCTT-AGAATATTAAATGATTCTAGTTTGAAA
* * * *
4437952 AAGGAAATAAATTGTTCAATTTATTTTCTTATTT
64 AAGAAAATAAATCGATCAATTTATTTTCTT-GTT
* ** * *
4437986 TTGTAAAAGGAAATAAATT-ATTGAATTTATTTTCCTTATTATCTTAAATGATTCTAGTTTGTAA
1 TTGTAAAAGGAAAT-AATTCATTAAATTTATTTT-CTTAGAATATTAAATGATTCTAGTTTGAAA
*
4438050 AAGAAAATAAATCGATGAATTTATTTTCTTGTT
64 AAGAAAATAAATCGATCAATTTATTTTCTTGTT
* *
4438083 TTGTAAAAGGAAATAAATC-TTCAGATTTATTTTC
1 TTGTAAAAGGAAATAATTCATT-AAATTTATTTTC
4438117 ATATTTTATA
Statistics
Matches: 111, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
96 6 0.05
97 25 0.23
98 69 0.62
99 11 0.10
ACGTcount: A:0.38, C:0.06, G:0.11, T:0.45
Consensus pattern (96 bp):
TTGTAAAAGGAAATAATTCATTAAATTTATTTTCTTAGAATATTAAATGATTCTAGTTTGAAAAA
GAAAATAAATCGATCAATTTATTTTCTTGTT
Found at i:4438097 original size:39 final size:39
Alignment explanation
Indices: 4438043--4438154 Score: 145
Period size: 39 Copynumber: 2.9 Consensus size: 39
4438033 ATGATTCTAG
* * *
4438043 TTTGTAAAAGAAAATAAATCGATGAATTTATTTTCTTGT
1 TTTGTAAAAGAAAATAAATCGTTGAATTTATTTTCATAT
* *
4438082 TTTGTAAAAGGAAATAAATC-TTCAGATTTATTTTCATAT
1 TTTGTAAAAGAAAATAAATCGTTGA-ATTTATTTTCATAT
* *
4438121 TTTATAATAGAAAATAAATCGTTGAATTTATTTT
1 TTTGTAAAAGAAAATAAATCGTTGAATTTATTTT
4438155 TATGAGAATC
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
38 2 0.03
39 57 0.92
40 3 0.05
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.45
Consensus pattern (39 bp):
TTTGTAAAAGAAAATAAATCGTTGAATTTATTTTCATAT
Found at i:4438185 original size:136 final size:137
Alignment explanation
Indices: 4437944--4438199 Score: 345
Period size: 136 Copynumber: 1.9 Consensus size: 137
4437934 AATGATTCTA
* * * * *
4437944 TTTTGAAAAAGGAAATAAATTGTTCAATTTATTTTCTTATTTTTGTAAAAGGAAATAAATTATTG
1 TTTTGAAAAAGGAAATAAATTCTTCAATTTATTTTCATATTTTTATAAAAGAAAATAAATCATTG
* * ** *
4438009 AATTTATTTTCCTTATTATCTTAAATGATTCTAGTTTGTAAAAGAAAATAAATCGATGAATTTAT
66 AATTTATTTTCATGAGAATCTCAAATGATTCTAGTTTGTAAAAGAAAATAAATCGATGAATTTAT
4438074 TTTCTTG
131 TTTCTTG
* * *
4438081 TTTTGTAAAAGGAAATAAA-TCTTCAGATTTATTTTCATA-TTTTATAATAGAAAATAAATCGTT
1 TTTTGAAAAAGGAAATAAATTCTTCA-ATTTATTTTCATATTTTTATAAAAGAAAATAAATCATT
* * *
4438144 GAATTTATTTTTATGAGAATCTCATATTATTCTAGTTTGTAAAAGAAAATAAATCG
65 GAATTTATTTTCATGAGAATCTCAAATGATTCTAGTTTGTAAAAGAAAATAAATCG
4438200 TTAATTTGTT
Statistics
Matches: 102, Mismatches: 16, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
136 72 0.71
137 30 0.29
ACGTcount: A:0.39, C:0.06, G:0.11, T:0.44
Consensus pattern (137 bp):
TTTTGAAAAAGGAAATAAATTCTTCAATTTATTTTCATATTTTTATAAAAGAAAATAAATCATTG
AATTTATTTTCATGAGAATCTCAAATGATTCTAGTTTGTAAAAGAAAATAAATCGATGAATTTAT
TTTCTTG
Found at i:4443452 original size:20 final size:22
Alignment explanation
Indices: 4443388--4443457 Score: 67
Period size: 20 Copynumber: 3.3 Consensus size: 22
4443378 GAATGGGTAT
* *
4443388 CGATACCCTAC-AT-GTAGTAT
1 CGATACCATACAATGGTAGTAC
*
4443408 CGATACCATAGACAATGGTACTAC
1 CGATACCAT--ACAATGGTAGTAC
4443432 CGATACCAT-CAA-GGTAGTAC
1 CGATACCATACAATGGTAGTAC
4443452 CGATAC
1 CGATAC
4443458 TACCATGAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
20 21 0.50
21 3 0.07
22 2 0.05
23 2 0.05
24 14 0.33
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (22 bp):
CGATACCATACAATGGTAGTAC
Found at i:4445268 original size:97 final size:98
Alignment explanation
Indices: 4445098--4445293 Score: 326
Period size: 97 Copynumber: 2.0 Consensus size: 98
4445088 ATACTAATAT
* *
4445098 TCAAATTAAAAATTATCTTTTAATTTGCAATAGTCAAATGACCATGAATTTAATATAAATATTAA
1 TCAAATTAAAAATTATCTTTTAATTTGCAATAGCCAAAGGACCATGAATTTAATATAAATATTAA
4445163 ATTCATCAATTAAATTCACCCTTTTTCCAACAA
66 ATTCATCAATTAAATTCACCCTTTTTCCAACAA
*
4445196 TCAAATTAAAATTTATCTTTTAATTTGCAATAGCCAAAAGGA-C-TGAATTTAATATAAATATTA
1 TCAAATTAAAAATTATCTTTTAATTTGCAATAGCC-AAAGGACCATGAATTTAATATAAATATTA
4445259 AA-TCTATCAATTAAATTCACCCTTTTTCCAACAA
65 AATTC-ATCAATTAAATTCACCCTTTTTCCAACAA
4445293 T
1 T
4445294 GCCCCACATG
Statistics
Matches: 93, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
96 2 0.02
97 52 0.56
98 34 0.37
99 5 0.05
ACGTcount: A:0.42, C:0.15, G:0.05, T:0.38
Consensus pattern (98 bp):
TCAAATTAAAAATTATCTTTTAATTTGCAATAGCCAAAGGACCATGAATTTAATATAAATATTAA
ATTCATCAATTAAATTCACCCTTTTTCCAACAA
Found at i:4450324 original size:24 final size:24
Alignment explanation
Indices: 4450281--4450336 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
4450271 AATATAAACG
*
4450281 AATGAACATAAGTAACCGAACATA
1 AATGAACATAAATAACCGAACATA
*
4450305 AATGAACATAAATGAA-CGAATATA
1 AATGAACATAAAT-AACCGAACATA
*
4450329 AACGAACA
1 AATGAACA
4450337 GATTATTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 26 0.93
25 2 0.07
ACGTcount: A:0.57, C:0.14, G:0.12, T:0.16
Consensus pattern (24 bp):
AATGAACATAAATAACCGAACATA
Found at i:4451859 original size:20 final size:20
Alignment explanation
Indices: 4451834--4451876 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
4451824 GGGTATGTAC
4451834 GGGGACATGCCACGGTGGCA
1 GGGGACATGCCACGGTGGCA
* *
4451854 GGGGACGTGCCATGGTGGCA
1 GGGGACATGCCACGGTGGCA
4451874 GGG
1 GGG
4451877 TATGGCTGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.16, C:0.21, G:0.51, T:0.12
Consensus pattern (20 bp):
GGGGACATGCCACGGTGGCA
Found at i:4455069 original size:2 final size:2
Alignment explanation
Indices: 4455062--4455114 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
4455052 CTCTTTATTC
4455062 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4455104 AT AT AT AT AT A
1 AT AT AT AT AT A
4455115 GGGAGTCAGC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4469977 original size:73 final size:74
Alignment explanation
Indices: 4469830--4470009 Score: 195
Period size: 73 Copynumber: 2.4 Consensus size: 74
4469820 GAAACCCCGT
* * *
4469830 TTCTAGACTTAATATTAT-AGTTTGAGTCTT-AAGATTTGACACTTTAATATTATGATTTGATTA
1 TTCTAAACTTAATATTGTGA-TTTGAATCTTGAA-A-TTGACACTTTAATATTATGATTTGATTA
4469893 TGAATTATATTG
63 TGAATTATATTG
*** * * * *
4469905 TTCTAGGGTTAATATTGTGATTTGAATCTTGAAATTGACA-TTTAATATTGTGGTTTGTTTATGG
1 TTCTAAACTTAATATTGTGATTTGAATCTTGAAATTGACACTTTAATATTATGATTTGATTATGA
*
4469969 ATTTTATTG
66 ATTATATTG
* *
4469978 TTCTAAACTTAATATTGTGGTTTGAGTCTTGA
1 TTCTAAACTTAATATTGTGATTTGAATCTTGA
4470010 TTGATTTTTT
Statistics
Matches: 89, Mismatches: 14, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
73 55 0.62
74 6 0.07
75 25 0.28
76 3 0.03
ACGTcount: A:0.28, C:0.06, G:0.17, T:0.49
Consensus pattern (74 bp):
TTCTAAACTTAATATTGTGATTTGAATCTTGAAATTGACACTTTAATATTATGATTTGATTATGA
ATTATATTG
Found at i:4471274 original size:33 final size:33
Alignment explanation
Indices: 4471237--4471313 Score: 100
Period size: 33 Copynumber: 2.3 Consensus size: 33
4471227 GGCTGAAGCA
* * *
4471237 AAGCCTACAGAAGCTCAAGCTGAAGGAGAGGCG
1 AAGCCCACAGAAGCTCAAGCAGAAGCAGAGGCG
* *
4471270 AAGCCCACAGAAGCTCAAGCAGAAGCAGAGACA
1 AAGCCCACAGAAGCTCAAGCAGAAGCAGAGGCG
*
4471303 AAGCCCGCAGA
1 AAGCCCACAGA
4471314 GGCTGTTGCC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.40, C:0.26, G:0.29, T:0.05
Consensus pattern (33 bp):
AAGCCCACAGAAGCTCAAGCAGAAGCAGAGGCG
Found at i:4475078 original size:11 final size:11
Alignment explanation
Indices: 4475062--4475120 Score: 59
Period size: 11 Copynumber: 5.2 Consensus size: 11
4475052 AGACTAAGAT
4475062 TAAAATAATAA
1 TAAAATAATAA
4475073 TAAAATAATAA
1 TAAAATAATAA
*
4475084 TGAAATCAATAA
1 TAAAAT-AATAA
4475096 TTAAAAT-ATAA
1 -TAAAATAATAA
4475107 -AAGTAATAATAA
1 TAA--AATAATAA
4475119 TA
1 TA
4475121 TTGAAAATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
9 2 0.05
11 23 0.57
12 9 0.22
13 6 0.15
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (11 bp):
TAAAATAATAA
Found at i:4475106 original size:23 final size:22
Alignment explanation
Indices: 4475064--4475120 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
4475054 ACTAAGATTA
4475064 AAATAATAATAAAATAATAATG
1 AAATAATAATAAAATAATAATG
*
4475086 AAATCAATAATTAAAAT-ATAAAAG
1 AAAT-AATAA-TAAAATAAT-AATG
*
4475110 TAATAATAATA
1 AAATAATAATA
4475121 TTGAAAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
22 6 0.20
23 12 0.40
24 12 0.40
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.28
Consensus pattern (22 bp):
AAATAATAATAAAATAATAATG
Found at i:4475135 original size:16 final size:16
Alignment explanation
Indices: 4475114--4475147 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
4475104 TAAAAGTAAT
4475114 AATAAT-ATTGAAAATA
1 AATAATGATT-AAAATA
4475130 AATAATGATTAAAATA
1 AATAATGATTAAAATA
4475146 AA
1 AA
4475148 AGAATTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.82
17 3 0.18
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (16 bp):
AATAATGATTAAAATA
Found at i:4476661 original size:3 final size:3
Alignment explanation
Indices: 4476653--4476790 Score: 160
Period size: 3 Copynumber: 47.0 Consensus size: 3
4476643 ATATTTATTA
4476653 AAT AAT AAT AAT AAT AAT -AT AAT AAT -AT AAT -AT AAT -AT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
4476696 AAT AAT AAT AAT AAT AAT AAT AAT ATT TAT AGT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* ** *
4476744 AAT AATT AATT AAT AAT AAT AAT AAT AGT AAT TTT AAA AAT AAT AAT
1 AAT AA-T AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4476791 TTAAGTAAAA
Statistics
Matches: 115, Mismatches: 14, Indels: 12
0.82 0.10 0.09
Matches are distributed among these distances:
2 10 0.09
3 98 0.85
4 7 0.06
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:4476798 original size:24 final size:24
Alignment explanation
Indices: 4476659--4476790 Score: 92
Period size: 23 Copynumber: 5.4 Consensus size: 24
4476649 ATTAAATAAT
**
4476659 AATAATAATAATA-TAATAATATAA
1 AATAATAATAATAGTAATTTTA-AA
* ** *
4476683 TATAAT-ATAATA-TAATAATAAT
1 AATAATAATAATAGTAATTTTAAA
*
4476705 AATAATAATAATAAT-ATTTATAGTAA
1 AATAATAATAATAGTAATTT-TA--AA
* *
4476731 TAATAATAATAATAATAATTAATTAAT
1 -AATAATAATAATAGTAATT--TTAAA
4476758 AATAATAATAATAGTAATTTTAAA
1 AATAATAATAATAGTAATTTTAAA
4476782 AATAATAAT
1 AATAATAAT
4476791 TTAAGTAAAA
Statistics
Matches: 90, Mismatches: 9, Indels: 18
0.77 0.08 0.15
Matches are distributed among these distances:
22 6 0.07
23 22 0.24
24 21 0.23
26 19 0.21
27 16 0.18
28 3 0.03
29 2 0.02
30 1 0.01
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (24 bp):
AATAATAATAATAGTAATTTTAAA
Found at i:4482966 original size:11 final size:10
Alignment explanation
Indices: 4482927--4482980 Score: 51
Period size: 11 Copynumber: 5.4 Consensus size: 10
4482917 TTTTGAATTC
4482927 TTTTTCTT-T
1 TTTTTCTTCT
4482936 TCTTTTCTTCT
1 T-TTTTCTTCT
4482947 TTTCTTCTTC-
1 TTT-TTCTTCT
*
4482957 TTTTT-GTCT
1 TTTTTCTTCT
4482966 TTTTTCTTTCT
1 TTTTTC-TTCT
4482977 TTTT
1 TTTT
4482981 GCACTCCAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
8 2 0.05
9 8 0.22
10 12 0.32
11 15 0.41
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.80
Consensus pattern (10 bp):
TTTTTCTTCT
Found at i:4482981 original size:19 final size:19
Alignment explanation
Indices: 4482927--4482981 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 19
4482917 TTTTGAATTC
4482927 TTTTTCTTTTCTTTTCT-TCT
1 TTTTTC-TTTCTTTT-TGTCT
4482947 TTTCTTC-TTCTTTTTGTCT
1 TTT-TTCTTTCTTTTTGTCT
4482966 TTTTTCTTTCTTTTTG
1 TTTTTCTTTCTTTTTG
4482982 CACTCCAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
18 4 0.12
19 22 0.69
20 3 0.09
21 3 0.09
ACGTcount: A:0.00, C:0.18, G:0.04, T:0.78
Consensus pattern (19 bp):
TTTTTCTTTCTTTTTGTCT
Found at i:4490195 original size:43 final size:43
Alignment explanation
Indices: 4490140--4490416 Score: 237
Period size: 43 Copynumber: 6.4 Consensus size: 43
4490130 TTTCAAGAAA
4490140 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGATAGAC
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGATAGAC
* *
4490183 AAACGCCACAATAGATGTTGATATTTAGCGGCGTTTGGA-AGAC
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTT-GATAGAC
* *
4490226 AAACGCCGCAATAGCTGTTGATATTTAGCGGCATTTGGA-AGAC
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTT-GATAGAC
* * * * **
4490269 AAACGCCACAGTAGGTTTTGAT-TTATAGCAGCGTTTTTCTCAG--
1 AAACGCCGCAATAGGTGTTGATATT-TAGCGGCG-TTTGAT-AGAC
* * * * *
4490312 AAACGCCGCAGTAGGTGTTGATTTTTAGTGGCGTTT-TTATCAC
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGATA-GAC
* * ** *
4490355 AAACGCCGCAATAAGTGTTAAGGTTTAGCGGCGTTT-TTAG-C
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGATAGAC
*
4490396 TTAAACGCCGCAATATGTGTT
1 --AAACGCCGCAATAGGTGTT
4490417 TGATTTGGCG
Statistics
Matches: 196, Mismatches: 27, Indels: 22
0.80 0.11 0.09
Matches are distributed among these distances:
40 1 0.01
41 2 0.01
42 5 0.03
43 179 0.91
44 7 0.04
45 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (43 bp):
AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGATAGAC
Found at i:4490444 original size:42 final size:44
Alignment explanation
Indices: 4490353--4490448 Score: 108
Period size: 42 Copynumber: 2.2 Consensus size: 44
4490343 CGTTTTTATC
* * *
4490353 ACAAACGCCGCAATAAGTGTTAAGGTTTAGCGGCGTTTTTAGCT
1 ACAAACGCCGCAATAAGTGTTAAGATTTAGCGGCGTCTTTAGAT
* * * *
4490397 -TAAACGCCGCAATATGTGTT-TGATTTGGCGGCGTCTTTA-AT
1 ACAAACGCCGCAATAAGTGTTAAGATTTAGCGGCGTCTTTAGAT
4490438 ACAAACGCCGC
1 ACAAACGCCGC
4490449 TAAAGATCGA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
41 1 0.02
42 24 0.56
43 18 0.42
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (44 bp):
ACAAACGCCGCAATAAGTGTTAAGATTTAGCGGCGTCTTTAGAT
Found at i:4492419 original size:98 final size:98
Alignment explanation
Indices: 4492307--4492489 Score: 237
Period size: 98 Copynumber: 1.9 Consensus size: 98
4492297 AAAATACAAA
* *
4492307 ATATATTAACAGTAAA-AAAATAAATTTTGCATGTAACATA-ATTTAATAATATC-ATAAGTTCT
1 ATATATTAACAGTAAATAAAAT-AATTTTACATGTAACATACA-ATAATAATATCAATAAGTTCT
*
4492369 AATTCTTGTTTTATTTAGAAATAGAAAAAATAATAT
64 AATTCTTGTTCT-TTTAGAAATAGAAAAAATAATAT
* * **
4492405 ATATATTAAGAGTAAATAAAATATTTTTACATGTAATTTACAATAATAATATCATATAAGTTCTA
1 ATATATTAACAGTAAATAAAATAATTTTACATGTAACATACAATAATAATATCA-ATAAGTTCTA
*
4492470 GTTCTTGTTCTTTTAGAAAT
65 ATTCTTGTTCTTTTAGAAAT
4492490 TTTTAAAAAA
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
98 39 0.53
99 15 0.21
100 19 0.26
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.41
Consensus pattern (98 bp):
ATATATTAACAGTAAATAAAATAATTTTACATGTAACATACAATAATAATATCAATAAGTTCTAA
TTCTTGTTCTTTTAGAAATAGAAAAAATAATAT
Found at i:4497090 original size:23 final size:23
Alignment explanation
Indices: 4497055--4497099 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
4497045 GTGCCAAATA
*
4497055 TTTGTCTCAAAGGACCACATAGG
1 TTTGTCCCAAAGGACCACATAGG
*
4497078 TTTGTCCCGAAGGACCACATAG
1 TTTGTCCCAAAGGACCACATAG
4497100 AACCCTCGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.24
Consensus pattern (23 bp):
TTTGTCCCAAAGGACCACATAGG
Found at i:4509488 original size:24 final size:24
Alignment explanation
Indices: 4509456--4509501 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
4509446 GGTATGCTTG
*
4509456 AAATGTTTATCATTGTGTTCTTCC
1 AAATGTTTAGCATTGTGTTCTTCC
* *
4509480 AAATTTTTAGCTTTGTGTTCTT
1 AAATGTTTAGCATTGTGTTCTT
4509502 TTAGCAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.20, C:0.13, G:0.13, T:0.54
Consensus pattern (24 bp):
AAATGTTTAGCATTGTGTTCTTCC
Found at i:4515306 original size:128 final size:128
Alignment explanation
Indices: 4515078--4515334 Score: 478
Period size: 128 Copynumber: 2.0 Consensus size: 128
4515068 AAAACCTCTC
*
4515078 TAAGGTAGGTGTTTATAAGAATTAAGATCACAAGAACATAAATATTTACAAGAGAAAGATGAAAT
1 TAAGGTAGGTGTTTACAAGAATTAAGATCACAAGAACATAAATATTTACAAGAGAAAGATGAAAT
*
4515143 AAGAATGAAAAACTCTTCTCTCGTGTTTGATTGCTTGGATAGTTGTTCTCTTACTTCTTCAAG
66 AAGAATGAAAAACTATTCTCTCGTGTTTGATTGCTTGGATAGTTGTTCTCTTACTTCTTCAAG
*
4515206 TAAGGTAGGTGTTTACAAGAATTAAGCTCACAAGAACATAAATATTTACAAGAGAAAGATGAAAT
1 TAAGGTAGGTGTTTACAAGAATTAAGATCACAAGAACATAAATATTTACAAGAGAAAGATGAAAT
*
4515271 AAGAATGAAAAACTATTCTCTTGTGTTTGATTGCTTGGATAGTTGTTCTCTTACTTCTTCAAG
66 AAGAATGAAAAACTATTCTCTCGTGTTTGATTGCTTGGATAGTTGTTCTCTTACTTCTTCAAG
4515334 T
1 T
4515335 TTCTTCAGCT
Statistics
Matches: 125, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
128 125 1.00
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.34
Consensus pattern (128 bp):
TAAGGTAGGTGTTTACAAGAATTAAGATCACAAGAACATAAATATTTACAAGAGAAAGATGAAAT
AAGAATGAAAAACTATTCTCTCGTGTTTGATTGCTTGGATAGTTGTTCTCTTACTTCTTCAAG
Found at i:4515738 original size:21 final size:21
Alignment explanation
Indices: 4515710--4515759 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
4515700 CATGTAGGGC
4515710 ATCGATACCCATTCATGTGGT
1 ATCGATACCCATTCATGTGGT
*
4515731 ATTGATACCCATTCATGTGGT
1 ATCGATACCCATTCATGTGGT
4515752 ATCGATAC
1 ATCGATAC
4515760 TACAAAGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (21 bp):
ATCGATACCCATTCATGTGGT
Found at i:4524574 original size:12 final size:12
Alignment explanation
Indices: 4524547--4524581 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
4524537 CATATTATAT
*
4524547 TTTTCAAACTTAG
1 TTTTCAAA-ATAG
4524560 TTTTCAAAATAG
1 TTTTCAAAATAG
4524572 TTTTCAAAAT
1 TTTTCAAAAT
4524582 TGCCCATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 13 0.62
13 8 0.38
ACGTcount: A:0.37, C:0.11, G:0.06, T:0.46
Consensus pattern (12 bp):
TTTTCAAAATAG
Found at i:4524807 original size:23 final size:23
Alignment explanation
Indices: 4524780--4524826 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
4524770 TTCCACCTCC
4524780 AAATCCCAATCCTAATGAACCCG
1 AAATCCCAATCCTAATGAACCCG
4524803 AAATCCCAATCCTAATGAACCCG
1 AAATCCCAATCCTAATGAACCCG
4524826 A
1 A
4524827 TATGACCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.34, G:0.09, T:0.17
Consensus pattern (23 bp):
AAATCCCAATCCTAATGAACCCG
Found at i:4527688 original size:44 final size:46
Alignment explanation
Indices: 4527568--4527693 Score: 152
Period size: 47 Copynumber: 2.8 Consensus size: 46
4527558 TATAAAATCT
4527568 CTTACCATTT-A-TCTCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTAATTC-CATAAGCTCGTAAGCTTATTTTACCAAAATA
* * *
4527613 CTTACCATTTAAATTCCACAAGCTCGTAAGCTTATTTTTCCAATATA
1 CTTACCATTT-AATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * *
4527660 CTTGCCA-TT-ATTCCGTAAGCTCATAAGCTTATTT
1 CTTACCATTTAATTCCATAAGCTCGTAAGCTTATTT
4527694 GCATGGTTAC
Statistics
Matches: 71, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
44 22 0.31
45 10 0.14
46 2 0.03
47 35 0.49
48 2 0.03
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (46 bp):
CTTACCATTTAATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
Found at i:4527853 original size:40 final size:40
Alignment explanation
Indices: 4527798--4527959 Score: 306
Period size: 40 Copynumber: 4.0 Consensus size: 40
4527788 ACCGTAGTAC
*
4527798 TACACATAAGGTCGTGCCCACCATATACACCTAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
4527838 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
4527878 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
4527918 TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
4527958 TA
1 TA
4527960 TAAACCTGCA
Statistics
Matches: 120, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 120 1.00
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.23
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:4537217 original size:21 final size:22
Alignment explanation
Indices: 4537177--4537217 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
4537167 TAAGATAGTG
*
4537177 GATTAAGATGGTTTAATTGGCT
1 GATTAAGATGGTTAAATTGGCT
*
4537199 GATTAATAT-GTTAAATTGG
1 GATTAAGATGGTTAAATTGG
4537218 ACGTTTGGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.32, C:0.02, G:0.24, T:0.41
Consensus pattern (22 bp):
GATTAAGATGGTTAAATTGGCT
Found at i:4548965 original size:20 final size:20
Alignment explanation
Indices: 4548940--4548994 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
4548930 TTGGGGCCTG
4548940 ATGGTATCGATACTATGCTT
1 ATGGTATCGATACTATGCTT
4548960 ATGGTATCGATACTATGCTT
1 ATGGTATCGATACTATGCTT
*
4548980 ATGGTATCAATACTA
1 ATGGTATCGATACTA
4548995 CTATACAAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (20 bp):
ATGGTATCGATACTATGCTT
Found at i:4549094 original size:20 final size:20
Alignment explanation
Indices: 4549065--4549120 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
4549055 TGAGCATTGC
4549065 TAGT-AGTATCGATACTACG
1 TAGTGAGTATCGATACTACG
4549084 TAGTGAGTATCGATACTACG
1 TAGTGAGTATCGATACTACG
4549104 TAGTGAGTATCGATACT
1 TAGTGAGTATCGATACT
4549121 TCCCTTACCT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 4 0.11
20 32 0.89
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.32
Consensus pattern (20 bp):
TAGTGAGTATCGATACTACG
Found at i:4552372 original size:21 final size:21
Alignment explanation
Indices: 4552347--4552386 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4552337 CCATAACAGG
*
4552347 GGGTACCGGTACCCCTTCAAA
1 GGGTACCGGTACACCTTCAAA
*
4552368 GGGTATCGGTACACCTTCA
1 GGGTACCGGTACACCTTCA
4552387 TTAAATTCAA
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:0.23, C:0.30, G:0.25, T:0.23
Consensus pattern (21 bp):
GGGTACCGGTACACCTTCAAA
Found at i:4552462 original size:20 final size:19
Alignment explanation
Indices: 4552426--4552500 Score: 66
Period size: 20 Copynumber: 4.0 Consensus size: 19
4552416 CCATTGCAGC
* *
4552426 CAGGGTGTATAGATACACT
1 CAGGGTGTATTGGTACACT
4552445 GCAGGGTGTATTGGTACAC-
1 -CAGGGTGTATTGGTACACT
*
4552464 CA--GTGTATCGGTACACT
1 CAGGGTGTATTGGTACACT
* *
4552481 CATAGGTGTATTAGTACACT
1 CA-GGGTGTATTGGTACACT
4552501 TTTTGCATTT
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
16 13 0.28
17 2 0.04
18 2 0.04
20 29 0.63
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (19 bp):
CAGGGTGTATTGGTACACT
Found at i:4552479 original size:36 final size:36
Alignment explanation
Indices: 4552430--4552499 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
4552420 TGCAGCCAGG
* *
4552430 GTGTATAGATACACTGCA-GGGTGTATTGGTACACCA
1 GTGTATAGATACACT-CATAGGTGTATTAGTACACCA
* *
4552466 GTGTATCGGTACACTCATAGGTGTATTAGTACAC
1 GTGTATAGATACACTCATAGGTGTATTAGTACAC
4552500 TTTTTGCATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 2 0.07
36 27 0.93
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (36 bp):
GTGTATAGATACACTCATAGGTGTATTAGTACACCA
Found at i:4552861 original size:18 final size:19
Alignment explanation
Indices: 4552814--4552867 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 19
4552804 ATGTTTAATG
*
4552814 AAAAAGATCTCAATTGTTA
1 AAAAAGATATCAATTGTTA
4552833 ACAAAATGATATCAATTGTT-
1 A-AAAA-GATATCAATTGTTA
*
4552853 AAAAAGATACCAATT
1 AAAAAGATATCAATT
4552868 ATTGGAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 9 0.29
19 5 0.16
20 5 0.16
21 12 0.39
ACGTcount: A:0.50, C:0.11, G:0.09, T:0.30
Consensus pattern (19 bp):
AAAAAGATATCAATTGTTA
Found at i:4555905 original size:21 final size:21
Alignment explanation
Indices: 4555880--4555919 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4555870 CCATAACAGG
* *
4555880 GGGTATCGGTACCCCTTCAAA
1 GGGTATCGATACACCTTCAAA
4555901 GGGTATCGATACACCTTCA
1 GGGTATCGATACACCTTCA
4555920 TTAAATTCAA
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:0.28, G:0.23, T:0.25
Consensus pattern (21 bp):
GGGTATCGATACACCTTCAAA
Found at i:4556780 original size:20 final size:21
Alignment explanation
Indices: 4556755--4556793 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
4556745 AGATGTGGTT
4556755 TTTCTAGCC-GTTGGGGATTA
1 TTTCTAGCCAGTTGGGGATTA
*
4556775 TTTCTAGCCATTTGGGGAT
1 TTTCTAGCCAGTTGGGGAT
4556794 GAAATCTCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.15, C:0.15, G:0.28, T:0.41
Consensus pattern (21 bp):
TTTCTAGCCAGTTGGGGATTA
Found at i:4559053 original size:39 final size:39
Alignment explanation
Indices: 4558999--4559084 Score: 163
Period size: 39 Copynumber: 2.2 Consensus size: 39
4558989 AATGCACCAT
4558999 AGTGCTTACACATAAGGTCGTGCCCACCATATACACCGA
1 AGTGCTTACACATAAGGTCGTGCCCACCATATACACCGA
*
4559038 AGTGCTTACACATAAGGTCGTGCCCACCATATGCACCGA
1 AGTGCTTACACATAAGGTCGTGCCCACCATATACACCGA
4559077 AGTGCTTA
1 AGTGCTTA
4559085 ATCGATATGC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (39 bp):
AGTGCTTACACATAAGGTCGTGCCCACCATATACACCGA
Found at i:4563048 original size:85 final size:85
Alignment explanation
Indices: 4562957--4563217 Score: 400
Period size: 85 Copynumber: 3.1 Consensus size: 85
4562947 TTCTTTGAGT
** *
4562957 GTCATTGAATTCCCCGTCATAAATTAAGATGACACATATTTGTGCGTCATAAATTTATGACATGC
1 GTCATTGAAGCCCCCGTCATAAATTAAGATGACACACATTTGTGCGTCATAAATTTATGACATGC
4563022 ATGTATGACTTACATTGCGC
66 ATGTATGACTTACATTGCGC
*
4563042 GTCATTGAAGCCCCCGTCATAAATTAAGATGACACGCATTTGTGCGTCATAAATTTATGACATGC
1 GTCATTGAAGCCCCCGTCATAAATTAAGATGACACACATTTGTGCGTCATAAATTTATGACATGC
4563107 ATGTATGACTTACATTGCGC
66 ATGTATGACTTACATTGCGC
* * *
4563127 GTCATTGAAGCCCCCGTCATAAATCT--GCTTGACATACATTTGTGTGTCATAAATTTATGACAT
1 GTCATTGAAGCCCCCGTCATAAAT-TAAG-ATGACACACATTTGTGCGTCATAAATTTATGACAT
* * *
4563190 GCATATATGACTTACATTACGT
64 GCATGTATGACTTACATTGCGC
4563212 GTCATT
1 GTCATT
4563218 AATGCACACG
Statistics
Matches: 163, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
84 1 0.01
85 161 0.99
86 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.34
Consensus pattern (85 bp):
GTCATTGAAGCCCCCGTCATAAATTAAGATGACACACATTTGTGCGTCATAAATTTATGACATGC
ATGTATGACTTACATTGCGC
Found at i:4563251 original size:85 final size:84
Alignment explanation
Indices: 4562957--4563251 Score: 344
Period size: 85 Copynumber: 3.5 Consensus size: 84
4562947 TTCTTTGAGT
** * * *
4562957 GTCATTGAATTCCCCGTCATAAATTAAGATGACACATATTTGTGCGTCATAAATTTATGACATGC
1 GTCATTGAAGCCCCCGTCATAAA-TAAGACGACAAACATTTGTGCGTCATAAATTTATGACATGC
4563022 ATGTATGACTTACATTGCGC
65 ATGTATGACTTACATTGCGC
* **
4563042 GTCATTGAAGCCCCCGTCATAAATTAAGATGACACGCATTTGTGCGTCATAAATTTATGACATGC
1 GTCATTGAAGCCCCCGTCATAAA-TAAGACGACAAACATTTGTGCGTCATAAATTTATGACATGC
4563107 ATGTATGACTTACATTGCGC
65 ATGTATGACTTACATTGCGC
** * *
4563127 GTCATTGAAGCCCCCGTCATAAATCTG-CTTGACATACATTTGTGTGTCATAAATTTATGACATG
1 GTCATTGAAGCCCCCGTCATAAATAAGAC--GACAAACATTTGTGCGTCATAAATTTATGACATG
* * *
4563191 CATATATGACTTACATTACGT
64 CATGTATGACTTACATTGCGC
* * *
4563212 GTCATT-AATGCACACGTCATTTAAA-AAGACCACAAACATT
1 GTCATTGAA-GCCCCCGTCA--TAAATAAGACGACAAACATT
4563252 CATGTGTTGT
Statistics
Matches: 185, Mismatches: 19, Indels: 12
0.86 0.09 0.06
Matches are distributed among these distances:
84 4 0.02
85 175 0.95
86 1 0.01
87 5 0.03
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (84 bp):
GTCATTGAAGCCCCCGTCATAAATAAGACGACAAACATTTGTGCGTCATAAATTTATGACATGCA
TGTATGACTTACATTGCGC
Found at i:4563286 original size:2 final size:2
Alignment explanation
Indices: 4563279--4563367 Score: 128
Period size: 2 Copynumber: 45.5 Consensus size: 2
4563269 TTTCGGAAAT
4563279 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
4563321 TA -A TA TA AA TA AA TA AA TA AA TA -A TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4563361 TA TA TA T
1 TA TA TA T
4563368 TGTAGATTGA
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
1 2 0.03
2 75 0.97
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:4565335 original size:26 final size:25
Alignment explanation
Indices: 4565312--4565400 Score: 81
Period size: 26 Copynumber: 3.5 Consensus size: 25
4565302 TTTTTTCTTT
4565312 CTTTCCCTCTTCGGTGTCCCTTCTC
1 CTTTCCCTCTTCGGTGTCCCTTCTC
* * * * *
4565337 CTTTACCCTATTC-CTTTTCTTTCTC
1 CTTT-CCCTCTTCGGTGTCCCTTCTC
* *
4565362 TTTTTCCGTCTTCGGTGTCCCTTCTC
1 -CTTTCCCTCTTCGGTGTCCCTTCTC
4565388 CTTTCTCCTCTTC
1 CTTTC-CCTCTTC
4565401 TTTTTCAACA
Statistics
Matches: 46, Mismatches: 14, Indels: 7
0.69 0.21 0.10
Matches are distributed among these distances:
25 22 0.48
26 24 0.52
ACGTcount: A:0.02, C:0.39, G:0.08, T:0.51
Consensus pattern (25 bp):
CTTTCCCTCTTCGGTGTCCCTTCTC
Found at i:4569246 original size:15 final size:15
Alignment explanation
Indices: 4569194--4569246 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
4569184 GATGCTTTCT
4569194 TTTTCCTTCTTTGACG
1 TTTT-CTTCTTTGACG
* *
4569210 TTTTATTCTTTGACA
1 TTTTCTTCTTTGACG
*
4569225 TTTTCTTCTTAGACG
1 TTTTCTTCTTTGACG
*
4569240 TTGTCTT
1 TTTTCTT
4569247 TTTACCCCAT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
15 27 0.87
16 4 0.13
ACGTcount: A:0.11, C:0.19, G:0.11, T:0.58
Consensus pattern (15 bp):
TTTTCTTCTTTGACG
Found at i:4574784 original size:2 final size:2
Alignment explanation
Indices: 4574777--4574801 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4574767 ATGATTAGGT
4574777 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
4574802 TTAAAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4575380 original size:2 final size:2
Alignment explanation
Indices: 4575375--4575439 Score: 103
Period size: 2 Copynumber: 32.5 Consensus size: 2
4575365 TATATATATA
* *
4575375 TG TG TG TG TG TG TG TG TG TT TG TG TG TG TG TA TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
*
4575417 TG TG TG TG TG AG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG T
4575440 TTCTGTATAC
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.03, C:0.00, G:0.46, T:0.51
Consensus pattern (2 bp):
TG
Found at i:4575956 original size:45 final size:45
Alignment explanation
Indices: 4575896--4576207 Score: 329
Period size: 45 Copynumber: 6.9 Consensus size: 45
4575886 ACTATAATAC
* * * *
4575896 ATACTTTTCTTTTGATATTGCACCCATATGCATTTCAACTACATT
1 ATACTTTTCTGTTGATAATGCACCCATATACATTTCAACTACAGT
* * *
4575941 ATACTTTTCTGTTGATAATGTACCCATATACATTTCAACCATAGT
1 ATACTTTTCTGTTGATAATGCACCCATATACATTTCAACTACAGT
* *** *
4575986 ATACTTTTCTGTTGATAATGTACCCATATACATTTCAACTTTTGC
1 ATACTTTTCTGTTGATAATGCACCCATATACATTTCAACTACAGT
* * * ** *
4576031 ATACTTTTCTGTTGACAATGCACCCATATGCATTTCAATTTTAGC
1 ATACTTTTCTGTTGATAATGCACCCATATACATTTCAACTACAGT
* * ** * **
4576076 ATAATTTTATGTTGATAATGCACATATATGCATTTCAACT-CTAAC
1 ATACTTTTCTGTTGATAATGCACCCATATACATTTCAACTAC-AGT
* * *
4576121 ATAGTTTCCTGTTGATAATGCACCCATATACATTTCAACCTAAAGT
1 ATACTTTTCTGTTGATAATGCACCCATATACATTTCAA-CTACAGT
* *
4576167 ATAATTTTCTGTTGATAATGTACCCATATACATTTCAACTA
1 ATACTTTTCTGTTGATAATGCACCCATATACATTTCAACTA
4576208 TGGCATCCTT
Statistics
Matches: 228, Mismatches: 36, Indels: 6
0.84 0.13 0.02
Matches are distributed among these distances:
45 190 0.83
46 38 0.17
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.41
Consensus pattern (45 bp):
ATACTTTTCTGTTGATAATGCACCCATATACATTTCAACTACAGT
Found at i:4576137 original size:135 final size:136
Alignment explanation
Indices: 4575895--4576207 Score: 369
Period size: 135 Copynumber: 2.3 Consensus size: 136
4575885 AACTATAATA
* * ** * *
4575895 CATACTTTTCTTTTGATATTGCACCCATATGCATTTCAACTACATTATACTTTTCTGTTGATAAT
1 CATACTTTTCTGTTGATAATGCACCCATATGCATTTCAACTACAGCATAATTTTATGTTGATAAT
* * ** * *
4575960 GTACCCATATACATTTCAACCATAGTATACTTTTCTGTTGATAATGTACCCATATACATTTCAA-
66 GCACACATATACATTTCAACCATAACATACTTTCCTGTTGATAATGCACCCATATACATTTCAAC
***
4576024 CTTTTG
131 CTAAAG
* * **
4576030 CATACTTTTCTGTTGACAATGCACCCATATGCATTTCAATTTTAGCATAATTTTATGTTGATAAT
1 CATACTTTTCTGTTGATAATGCACCCATATGCATTTCAACTACAGCATAATTTTATGTTGATAAT
* * *
4576095 GCACATATATGCATTTCAACTC-TAACATAGTTTCCTGTTGATAATGCACCCATATACATTTCAA
66 GCACACATATACATTTCAAC-CATAACATACTTTCCTGTTGATAATGCACCCATATACATTTCAA
4576159 CCTAAAG
130 CCTAAAG
* * * *
4576166 TATAATTTTCTGTTGATAATGTACCCATATACATTTCAACTA
1 CATACTTTTCTGTTGATAATGCACCCATATGCATTTCAACTA
4576208 TGGCATCCTT
Statistics
Matches: 147, Mismatches: 29, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
135 108 0.73
136 39 0.27
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.41
Consensus pattern (136 bp):
CATACTTTTCTGTTGATAATGCACCCATATGCATTTCAACTACAGCATAATTTTATGTTGATAAT
GCACACATATACATTTCAACCATAACATACTTTCCTGTTGATAATGCACCCATATACATTTCAAC
CTAAAG
Found at i:4583011 original size:14 final size:13
Alignment explanation
Indices: 4582992--4583034 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
4582982 TTAAGATTTT
*
4582992 ATATTCGATTTCAA
1 ATATTCGAATT-AA
4583006 ATATTCGAATTAA
1 ATATTCGAATTAA
4583019 ATTATTCGAATATAA
1 A-TATTCGAAT-TAA
4583034 A
1 A
4583035 AAATATTACT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 3 0.12
14 19 0.73
15 4 0.15
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (13 bp):
ATATTCGAATTAA
Found at i:4588746 original size:21 final size:20
Alignment explanation
Indices: 4588718--4588756 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
4588708 CACTATAGGA
*
4588718 ATTTATGGCCTCGACAAAAG
1 ATTTATGGCCTCAACAAAAG
*
4588738 ATTTCATGGCTTCAACAAA
1 ATTT-ATGGCCTCAACAAA
4588757 GACCTTGATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (20 bp):
ATTTATGGCCTCAACAAAAG
Found at i:4593532 original size:23 final size:23
Alignment explanation
Indices: 4593499--4593543 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
4593489 AAATTTGACA
* *
4593499 TAATATCTTATTTTTACTAAATT
1 TAATATCTTATTGTGACTAAATT
*
4593522 TAATATGTTATTGTGACTAAAT
1 TAATATCTTATTGTGACTAAAT
4593544 AATTTTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.51
Consensus pattern (23 bp):
TAATATCTTATTGTGACTAAATT
Found at i:4595399 original size:24 final size:24
Alignment explanation
Indices: 4595372--4595453 Score: 58
Period size: 26 Copynumber: 3.2 Consensus size: 24
4595362 TTATATAGAT
4595372 AATTAAACATTAAAAACTAGTTAA
1 AATTAAACATTAAAAACTAGTTAA
* ** *
4595396 AATTTTAATTTATAACTAAAATA-TATAGA
1 AA-TTAAACAT-TAA--AAACTAGT-TA-A
4595425 TAATTAAACATTAAAAACTAGTTAA
1 -AATTAAACATTAAAAACTAGTTAA
4595450 AATT
1 AATT
4595454 TTTAATTTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 16
0.64 0.12 0.24
Matches are distributed among these distances:
24 6 0.14
25 6 0.14
26 10 0.24
27 2 0.05
28 10 0.24
29 6 0.14
30 2 0.05
ACGTcount: A:0.55, C:0.06, G:0.04, T:0.35
Consensus pattern (24 bp):
AATTAAACATTAAAAACTAGTTAA
Found at i:4595421 original size:54 final size:55
Alignment explanation
Indices: 4595363--4595472 Score: 213
Period size: 54 Copynumber: 2.0 Consensus size: 55
4595353 GGAAAAATAT
4595363 TATATAGATAATTAAACATTAAAAACTAGTTAAAA-TTTTAATTTATAACTAAAA
1 TATATAGATAATTAAACATTAAAAACTAGTTAAAATTTTTAATTTATAACTAAAA
4595417 TATATAGATAATTAAACATTAAAAACTAGTTAAAATTTTTAATTTATAACTAAAA
1 TATATAGATAATTAAACATTAAAAACTAGTTAAAATTTTTAATTTATAACTAAAA
4595472 T
1 T
4595473 TTTCATTTTT
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
54 35 0.64
55 20 0.36
ACGTcount: A:0.53, C:0.05, G:0.04, T:0.38
Consensus pattern (55 bp):
TATATAGATAATTAAACATTAAAAACTAGTTAAAATTTTTAATTTATAACTAAAA
Found at i:4596198 original size:21 final size:21
Alignment explanation
Indices: 4596156--4596220 Score: 98
Period size: 21 Copynumber: 3.1 Consensus size: 21
4596146 AATAGTTATG
*
4596156 TTTTATGTTTTATTAT-AA-AT
1 TTTTA-GTTTTTTTATAAATAT
4596176 TTTTAGTTTTTTTATAAATAT
1 TTTTAGTTTTTTTATAAATAT
4596197 TTTTAGTTTTTTTATAAATAT
1 TTTTAGTTTTTTTATAAATAT
4596218 TTT
1 TTT
4596221 CAAATAATTA
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
19 9 0.21
20 7 0.17
21 26 0.62
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (21 bp):
TTTTAGTTTTTTTATAAATAT
Found at i:4596779 original size:181 final size:181
Alignment explanation
Indices: 4596424--4596950 Score: 631
Period size: 181 Copynumber: 2.9 Consensus size: 181
4596414 GTATATAACT
* * * *
4596424 TTTTTGTGTCAAAAAATT-GAGGGAAATATTTATGACAATATATTTCTCACTATAATTAAAATAT
1 TTTTTGTG-CCAAAAATTGGAGGAAAATATTTATGACTATATATTTGTCACTATAATTAAAATAT
* *
4596488 ATAACTACAAACATAATTTTTCACCAAAAATTTAAATCTCAATATTTGTTGTGATAATTTTTTCT
65 ATAACTACAAACATAATTTGTCACAAAAAATTTAAATCTCAATATTTGTTGTGATAATTTTTTCT
* *
4596553 ATAACAATAACTATAAGTTATAGTTACAAAACATGTCATTCTATAACTTTTG
130 ATAACAATAACTATAAATTATAGTTACAAAACATGTCACTCTATAACTTTTG
* * **
4596605 TTTTTGTGCCAAAAATTGGAGGAAAACATTTATGACTATATATTTTGTCAGTGCAATTAAAATAT
1 TTTTTGTGCCAAAAATTGGAGGAAAATATTTATGACTATATA-TTTGTCACTATAATTAAAATAT
* *
4596670 ATAACTACAAACATAATTTGTCACAAAAAATTTGAATCTCAATATTTTTTGTGATAA-TTTTTC-
65 ATAACTACAAACATAATTTGTCACAAAAAATTTAAATCTCAATATTTGTTGTGATAATTTTTTCT
* *
4596733 AGTAACATTAATTATAAATTATAGTTACAAAACATGTCACTCTATAACTTTTG
130 A-TAACAATAACTATAAATTATAGTTACAAAACATGTCACTCTATAACTTTTG
* * * * * * * *
4596786 TTTTTGCGCCAAAAACTGAAAGAAAATATTTGTGACTATACA-TTGTCATTATAATTATAATATA
1 TTTTTGTGCCAAAAATTGGAGGAAAATATTTATGACTATATATTTGTCACTATAATTAAAATATA
* * * * * *
4596850 TAACTACAAACAAAAATTGTCA-TAAAAA--TAAATCTCATTATTTGTTATGACAATTTTTTCT-
66 TAACTACAAACATAATTTGTCACAAAAAATTTAAATCTCAATATTTGTTGTGATAATTTTTTCTA
* * * * *
4596911 T-GCCATAATTACTAAACTTATAGTCACAAAACTTGTCACT
131 TAACAATAACTA-TAAA-TTATAGTTACAAAACATGTCACT
4596951 ATATGTCATA
Statistics
Matches: 299, Mismatches: 40, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
175 7 0.02
176 25 0.08
177 27 0.09
178 5 0.02
179 38 0.13
180 9 0.03
181 117 0.39
182 71 0.24
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.39
Consensus pattern (181 bp):
TTTTTGTGCCAAAAATTGGAGGAAAATATTTATGACTATATATTTGTCACTATAATTAAAATATA
TAACTACAAACATAATTTGTCACAAAAAATTTAAATCTCAATATTTGTTGTGATAATTTTTTCTA
TAACAATAACTATAAATTATAGTTACAAAACATGTCACTCTATAACTTTTG
Found at i:4600233 original size:32 final size:32
Alignment explanation
Indices: 4600163--4600236 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 32
4600153 TTGATACTTG
* * * *
4600163 TGCATTATCTGAATGCAAACCTAATCATATTG
1 TGCATTATCTAAATGCAAACCTAACCATAATA
* * *
4600195 TTCATTATCTAAATGCAAGCTTAACCATAATA
1 TGCATTATCTAAATGCAAACCTAACCATAATA
4600227 TGCATTATCT
1 TGCATTATCT
4600237 GAGTGCACCA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.36
Consensus pattern (32 bp):
TGCATTATCTAAATGCAAACCTAACCATAATA
Found at i:4600612 original size:36 final size:36
Alignment explanation
Indices: 4600558--4600626 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
4600548 AACCCACTCC
*
4600558 TCATGAGTGTTTAGGCCTTGCGCCCTAGTTAGCTCG
1 TCATGAGTGTTGAGGCCTTGCGCCCTAGTTAGCTCG
*
4600594 TCATGAGTGTTCGA-GCCTTGTGCCCTAGTTAGC
1 TCATGAGTGTT-GAGGCCTTGCGCCCTAGTTAGC
4600627 CCATAAAGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
36 29 0.97
37 1 0.03
ACGTcount: A:0.14, C:0.25, G:0.28, T:0.33
Consensus pattern (36 bp):
TCATGAGTGTTGAGGCCTTGCGCCCTAGTTAGCTCG
Found at i:4604445 original size:12 final size:12
Alignment explanation
Indices: 4604428--4604454 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
4604418 AGTTTCTTCC
4604428 TCCAATACTAAT
1 TCCAATACTAAT
4604440 TCCAATACTAAT
1 TCCAATACTAAT
4604452 TCC
1 TCC
4604455 TTGGAGTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.30, G:0.00, T:0.33
Consensus pattern (12 bp):
TCCAATACTAAT
Found at i:4618407 original size:19 final size:18
Alignment explanation
Indices: 4618361--4618412 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
4618351 GAATTCATGG
*
4618361 AAATATTTATGGTGACAT
1 AAATATTTATGTTGACAT
* **
4618379 AAATAATTATGTTGGGAT
1 AAATATTTATGTTGACAT
4618397 ATAATATTTATGTTGA
1 A-AATATTTATGTTGA
4618413 ACCGATGTGA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
18 15 0.56
19 12 0.44
ACGTcount: A:0.38, C:0.02, G:0.17, T:0.42
Consensus pattern (18 bp):
AAATATTTATGTTGACAT
Found at i:4620675 original size:19 final size:19
Alignment explanation
Indices: 4620651--4620713 Score: 117
Period size: 19 Copynumber: 3.3 Consensus size: 19
4620641 CTTTTAGTAT
4620651 TAGGGTACATGTGGAAACA
1 TAGGGTACATGTGGAAACA
4620670 TAGGGTACATGTGGAAACA
1 TAGGGTACATGTGGAAACA
*
4620689 TAGGGTACATGTGGAAATA
1 TAGGGTACATGTGGAAACA
4620708 TAGGGT
1 TAGGGT
4620714 TCACGCTCAC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 43 1.00
ACGTcount: A:0.35, C:0.08, G:0.33, T:0.24
Consensus pattern (19 bp):
TAGGGTACATGTGGAAACA
Found at i:4623321 original size:2 final size:2
Alignment explanation
Indices: 4623314--4623353 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
4623304 GGCATTATGC
4623314 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4623354 GACAACACAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4624037 original size:12 final size:13
Alignment explanation
Indices: 4624008--4624040 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
4623998 AGAATTGCTG
4624008 ATGTCAATGAGGGT
1 ATGTCAATGA-GGT
4624022 ATGTCAATGA-GT
1 ATGTCAATGAGGT
4624034 ATGTCAA
1 ATGTCAA
4624041 AAGGTGACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 9 0.47
14 10 0.53
ACGTcount: A:0.33, C:0.09, G:0.27, T:0.30
Consensus pattern (13 bp):
ATGTCAATGAGGT
Found at i:4633798 original size:2 final size:2
Alignment explanation
Indices: 4633791--4633828 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
4633781 AAAGGACCCG
4633791 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4633829 TTACAAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.