Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009592.1 Hibiscus syriacus cultivar Beakdansim tig00116971_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: 7920512
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 24 of 39
Found at i:4657189 original size:61 final size:61
Alignment explanation
Indices: 4657070--4657190 Score: 138
Period size: 61 Copynumber: 2.0 Consensus size: 61
4657060 AAGATTTGCA
* * * ** * *
4657070 TTGCGATTTACGTATTCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACTTAATCGCG
1 TTGCGATTTACGTATTCGCATTGCGATTATCCAAAATCGCAACGCGATATACTAAATCGCG
*
4657131 TTGCGATTTACGTATTCGCATTGCGAATTAT-GAAAATCGCAACGCGA-ATACATAAATCGC
1 TTGCGATTTACGTATTCGCATTGCG-ATTATCCAAAATCGCAACGCGATATAC-TAAATCGC
4657191 AATACGAATT
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
60 3 0.06
61 43 0.86
62 4 0.08
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (61 bp):
TTGCGATTTACGTATTCGCATTGCGATTATCCAAAATCGCAACGCGATATACTAAATCGCG
Found at i:4657272 original size:20 final size:21
Alignment explanation
Indices: 4657228--4657279 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
4657218 ATAGTCAGTA
*
4657228 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
**
4657249 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
4657269 TCGCATTGCGA
1 TCGCATTGCGA
4657280 ATTGGGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:4658586 original size:2 final size:2
Alignment explanation
Indices: 4658579--4658605 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4658569 TACACCTTTC
4658579 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
4658606 GTCTTCTGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4666015 original size:8 final size:8
Alignment explanation
Indices: 4666004--4666030 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
4665994 TAAATTGAAT
4666004 AAAATATA
1 AAAATATA
4666012 AAAATATA
1 AAAATATA
4666020 AAAATATA
1 AAAATATA
4666028 AAA
1 AAA
4666031 TTTAGCATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (8 bp):
AAAATATA
Found at i:4669414 original size:2 final size:2
Alignment explanation
Indices: 4669407--4669444 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
4669397 TATTTAGACA
* *
4669407 AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4669445 GATAAAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
AT
Found at i:4669884 original size:29 final size:29
Alignment explanation
Indices: 4669858--4669933 Score: 125
Period size: 29 Copynumber: 2.6 Consensus size: 29
4669848 TTTTTTTAAT
4669858 CACCTAAAATTAACTTAACGTTCTTTAGG
1 CACCTAAAATTAACTTAACGTTCTTTAGG
* *
4669887 CTCCTAAAATTAACTTCACGTTCTTTAGG
1 CACCTAAAATTAACTTAACGTTCTTTAGG
*
4669916 CACCTAAAATCAACTTAA
1 CACCTAAAATTAACTTAA
4669934 TGTATAATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.33
Consensus pattern (29 bp):
CACCTAAAATTAACTTAACGTTCTTTAGG
Found at i:4670398 original size:27 final size:27
Alignment explanation
Indices: 4670346--4670422 Score: 127
Period size: 27 Copynumber: 2.8 Consensus size: 27
4670336 ATTAATAAAC
*
4670346 TTTTAAAAGTACATATATTTTTTGACTAA
1 TTTTGAAAGTAC--ATATTTTTTGACTAA
4670375 TTTTGAAAGTACATATTTTTTGACTAA
1 TTTTGAAAGTACATATTTTTTGACTAA
4670402 TTTTGAAAGTACATATTTTTT
1 TTTTGAAAGTACATATTTTTT
4670423 TATATGTTAC
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
27 36 0.77
29 11 0.23
ACGTcount: A:0.34, C:0.06, G:0.09, T:0.51
Consensus pattern (27 bp):
TTTTGAAAGTACATATTTTTTGACTAA
Found at i:4670851 original size:42 final size:42
Alignment explanation
Indices: 4670788--4670900 Score: 163
Period size: 42 Copynumber: 2.7 Consensus size: 42
4670778 TTCTTCAAAA
* *
4670788 TCTCGTGTTTGTTTTATGTAATTCATTTTTTGAAAAATATTT
1 TCTCGTGTTTGTTTCATGTAATTCATTTTTCGAAAAATATTT
* * *
4670830 TCTCGTGTTTGTTTCACGTAATTCGTTTTTCGGAAAATATTT
1 TCTCGTGTTTGTTTCATGTAATTCATTTTTCGAAAAATATTT
* *
4670872 TCCCGTGTTTGTTTCATATAATTCATTTT
1 TCTCGTGTTTGTTTCATGTAATTCATTTT
4670901 CCGGAACGTA
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.20, C:0.12, G:0.13, T:0.54
Consensus pattern (42 bp):
TCTCGTGTTTGTTTCATGTAATTCATTTTTCGAAAAATATTT
Found at i:4671213 original size:20 final size:19
Alignment explanation
Indices: 4671181--4671261 Score: 58
Period size: 20 Copynumber: 4.1 Consensus size: 19
4671171 TTATATTTTT
4671181 ATTTTAATAATATATAATA
1 ATTTTAATAATATATAATA
* *
4671200 ATTTTTATATATATTTAATA
1 ATTTTAATA-ATATATAATA
* *
4671220 A--TGAATAATATTATTTATA
1 ATTTTAATAATA-TA-TAATA
*
4671239 TATTTTAAATAATATTTAATA
1 -ATTTT-AATAATATATAATA
4671260 AT
1 AT
4671262 AAATAAATTA
Statistics
Matches: 46, Mismatches: 9, Indels: 13
0.68 0.13 0.19
Matches are distributed among these distances:
17 3 0.07
18 5 0.11
19 12 0.26
20 13 0.28
21 4 0.09
22 2 0.04
23 7 0.15
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (19 bp):
ATTTTAATAATATATAATA
Found at i:4671219 original size:30 final size:30
Alignment explanation
Indices: 4671118--4671261 Score: 113
Period size: 30 Copynumber: 4.8 Consensus size: 30
4671108 AATACAATAT
* * **
4671118 TATATTTATAATATTATATAA-AATAATCAA
1 TATATTT-TAATAATATATAATAATTATTTA
*
4671148 TTATATTATAATAATATA-AGAT-ATTATATT-
1 -TATATTTTAATAATATATA-ATAATTAT-TTA
*
4671178 TTTATTTTAATAATATATAATAATT-TTTA
1 TATATTTTAATAATATATAATAATTATTTA
4671207 TATATATTTAATAATGA-ATAAT-ATTATTTA
1 TATAT-TTTAATAAT-ATATAATAATTATTTA
*
4671237 TATATTTTAAATAATATTTAATAAT
1 TATATTTT-AATAATATATAATAAT
4671262 AAATAAATTA
Statistics
Matches: 92, Mismatches: 9, Indels: 24
0.74 0.07 0.19
Matches are distributed among these distances:
28 2 0.02
29 30 0.33
30 51 0.55
31 9 0.10
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (30 bp):
TATATTTTAATAATATATAATAATTATTTA
Found at i:4671272 original size:39 final size:40
Alignment explanation
Indices: 4671198--4671292 Score: 126
Period size: 40 Copynumber: 2.4 Consensus size: 40
4671188 TAATATATAA
* *
4671198 TAAT-TTTTATAT-ATATTTAATAATGAATAATATTA-TT
1 TAATATTTTAAATAATATTTAATAATAAATAATATTATTT
4671235 TATATATTTTAAATAATATTTAATAATAAATAA-ATTATTT
1 TA-ATATTTTAAATAATATTTAATAATAAATAATATTATTT
4671275 TAATATTTTAAAATAATA
1 TAATATTTT-AAATAATA
4671293 ATATTAAGTT
Statistics
Matches: 51, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
37 2 0.04
38 2 0.04
39 18 0.35
40 29 0.57
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (40 bp):
TAATATTTTAAATAATATTTAATAATAAATAATATTATTT
Found at i:4671278 original size:20 final size:20
Alignment explanation
Indices: 4671213--4671279 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
4671203 TTTATATATA
*
4671213 TTTAATAATGAATAATATTAT
1 TTTAATAATAAATAA-ATTAT
**
4671234 TTATATATTTTAAAT-AA-TA-
1 TT-TA-ATAATAAATAAATTAT
4671253 TTTAATAATAAATAAATTAT
1 TTTAATAATAAATAAATTAT
4671273 TTTAATA
1 TTTAATA
4671280 TTTTAAAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 11
0.69 0.10 0.21
Matches are distributed among these distances:
17 7 0.19
18 4 0.11
19 4 0.11
20 9 0.25
21 3 0.08
22 3 0.08
23 6 0.17
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (20 bp):
TTTAATAATAAATAAATTAT
Found at i:4671487 original size:20 final size:20
Alignment explanation
Indices: 4671429--4671478 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
4671419 TTTCCAGATG
*
4671429 TTTTCCAGAAGTGTAATTCA
1 TTTTCCAGAAATGTAATTCA
4671449 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
4671469 TTTTCCAGAA
1 TTTTCCAGAA
4671479 TTCAAATTCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (20 bp):
TTTTCCAGAAATGTAATTCA
Found at i:4671497 original size:15 final size:15
Alignment explanation
Indices: 4671461--4671556 Score: 115
Period size: 15 Copynumber: 6.5 Consensus size: 15
4671451 TTCCAGAAAT
**
4671461 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
4671476 G-AATTCAAATTCCA
1 GTAATTCAAATTCCA
**
4671490 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
4671505 G-AATTCAAATTCCA
1 GTAATTCAAATTCCA
**
4671519 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
*
4671534 ATAATTCAAATTCCA
1 GTAATTCAAATTCCA
4671549 GTAATTCA
1 GTAATTCA
4671557 TTTTTCGGAA
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
14 24 0.36
15 43 0.64
ACGTcount: A:0.35, C:0.20, G:0.06, T:0.39
Consensus pattern (15 bp):
GTAATTCAAATTCCA
Found at i:4671503 original size:29 final size:29
Alignment explanation
Indices: 4671461--4671560 Score: 182
Period size: 29 Copynumber: 3.4 Consensus size: 29
4671451 TTCCAGAAAT
4671461 GTAATTCATTTTCCAGAATTCAAATTCCA
1 GTAATTCATTTTCCAGAATTCAAATTCCA
4671490 GTAATTCATTTTCCAGAATTCAAATTCCA
1 GTAATTCATTTTCCAGAATTCAAATTCCA
*
4671519 GTAATTCATTTTCCAATAATTCAAATTCCA
1 GTAATTCATTTTCC-AGAATTCAAATTCCA
4671549 GTAATTCATTTT
1 GTAATTCATTTT
4671561 TCGGAAAACC
Statistics
Matches: 69, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
29 43 0.62
30 26 0.38
ACGTcount: A:0.34, C:0.19, G:0.06, T:0.41
Consensus pattern (29 bp):
GTAATTCATTTTCCAGAATTCAAATTCCA
Found at i:4672841 original size:24 final size:24
Alignment explanation
Indices: 4672809--4672854 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
4672799 GTTCATGACG
* *
4672809 TTGTTCACTGAACTCTCCATTACC
1 TTGTCCACTGAACTCACCATTACC
*
4672833 TTGTCCACTGAGCTCACCATTA
1 TTGTCCACTGAACTCACCATTA
4672855 TACTGTCCAC
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:0.22, C:0.33, G:0.11, T:0.35
Consensus pattern (24 bp):
TTGTCCACTGAACTCACCATTACC
Found at i:4678553 original size:21 final size:21
Alignment explanation
Indices: 4678527--4678601 Score: 62
Period size: 21 Copynumber: 3.4 Consensus size: 21
4678517 TTGTGCATAA
4678527 TGCATCGATACACTATGAAAG
1 TGCATCGATACACTATGAAAG
* * *
4678548 TGCATCGATGCATCCCTTTGAATG
1 TGCATCGAT--A-CACTATGAAAG
*
4678572 TGCATCGATACA-TCATGAAGG
1 TGCATCGATACACT-ATGAAAG
*
4678593 TGCACCGAT
1 TGCATCGAT
4678602 GCACGCCTTG
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
20 1 0.02
21 23 0.53
22 1 0.02
23 1 0.02
24 17 0.40
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (21 bp):
TGCATCGATACACTATGAAAG
Found at i:4678596 original size:45 final size:44
Alignment explanation
Indices: 4678527--4678624 Score: 137
Period size: 45 Copynumber: 2.2 Consensus size: 44
4678517 TTGTGCATAA
*
4678527 TGCATCGATACACTATGAAAGTGCATCGATGCATC-CCTTTGAATG
1 TGCATCGATACACTATGAAAGTGCACCGATGCA-CGCC-TTGAATG
*
4678572 TGCATCGATACA-TCATGAAGGTGCACCGATGCACGCCTTGAATG
1 TGCATCGATACACT-ATGAAAGTGCACCGATGCACGCCTTGAATG
4678616 TGCATCGAT
1 TGCATCGAT
4678625 GCACAAGGCC
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
44 18 0.37
45 31 0.63
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (44 bp):
TGCATCGATACACTATGAAAGTGCACCGATGCACGCCTTGAATG
Found at i:4684517 original size:43 final size:43
Alignment explanation
Indices: 4684462--4684695 Score: 256
Period size: 43 Copynumber: 5.4 Consensus size: 43
4684452 TTTCAAGAAA
4684462 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTT-GACAGAC
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGGA-AGAC
* *
4684505 AAACGCCACAATAGATGTTGATATTTAGCGGCGTTTGGAAGAC
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGGAAGAC
* *
4684548 AAACGCCGCAATAGATGTTGATATTTAGCGGCATTTGGAAGAC
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGGAAGAC
* * ***** *
4684591 AAACGCCGCAGTAGGT-TTCGATTTTTAGCGGCGTTTTTCCCAG
1 AAACGCCGCAATAGGTGTT-GATATTTAGCGGCGTTTGGAAGAC
* * * ** **
4684634 AAACGCCGCAGTAGGTGTTGATGTTTAGTGGCGTTTTTATTAC
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGGAAGAC
*
4684677 AAACGCCGCAATAAGTGTT
1 AAACGCCGCAATAGGTGTT
4684696 AAGGTTTCAC
Statistics
Matches: 166, Mismatches: 22, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
42 2 0.01
43 160 0.96
44 4 0.02
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (43 bp):
AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGGAAGAC
Found at i:4684709 original size:129 final size:129
Alignment explanation
Indices: 4684462--4684738 Score: 292
Period size: 129 Copynumber: 2.1 Consensus size: 129
4684452 TTTCAAGAAA
*
4684462 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGACAGACAAACGCCACAATAGATGTTGAT
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGACACACAAACGCCACAATAGATGTTGAT
* *
4684527 ATTTAGCGGCGTTTGGAAGACAAACGCCGCAATAGATGTTGATATTTAGCGGCATTTGGAAGA-C
66 ATTTAGCGGCGTTTGGAAGACAAACGCCGCAATAGATGTTAAGATTTAGCGGCATTT-GAAGATC
* * ** * * * * *
4684591 AAACGCCGCAGTAGGT-TTCGATTTTTAGCGGCGTTTTTCCCAGAAACGCCGCAGTAGGTGTTGA
1 AAACGCCGCAATAGGTGTT-GATATTTAGCGGCGTTTGACACACAAACGCCACAATAGATGTTGA
* * ** ** * *
4684655 TGTTTAGTGGCGTTTTTATTACAAACGCCGCAATA-AGTGTTAAGGTTTCA-CGGCATTTTAAGA
65 TATTTAGCGGCGTTTGGAAGACAAACGCCGCAATAGA-TGTTAAGATTT-AGCGGCATTTGAAGA
*
4684718 TT
128 TC
*
4684720 AAACGCCGCAATATGTGTT
1 AAACGCCGCAATAGGTGTT
4684739 TGATTTGGCG
Statistics
Matches: 120, Mismatches: 23, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
128 7 0.06
129 110 0.92
130 3 0.03
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (129 bp):
AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGACACACAAACGCCACAATAGATGTTGAT
ATTTAGCGGCGTTTGGAAGACAAACGCCGCAATAGATGTTAAGATTTAGCGGCATTTGAAGATC
Found at i:4685205 original size:21 final size:21
Alignment explanation
Indices: 4685138--4685194 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
4685128 ATATGTTGCT
*
4685138 TCTCTTTGTGCTGTCGCTGCC
1 TCTCTTTGTGCTGCCGCTGCC
4685159 TCTCTTTGTGCTGCCGCTGCC
1 TCTCTTTGTGCTGCCGCTGCC
4685180 TCTCTTTGTGCTGCC
1 TCTCTTTGTGCTGCC
4685195 ACTGTTTCTC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.00, C:0.35, G:0.23, T:0.42
Consensus pattern (21 bp):
TCTCTTTGTGCTGCCGCTGCC
Found at i:4685205 original size:42 final size:42
Alignment explanation
Indices: 4685138--4685220 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
4685128 ATATGTTGCT
* * * *
4685138 TCTCTTTGTGCTGTCGCTGCCTCTCTTTGTGCTGCCGCTGCC
1 TCTCTTTGTGCTGCCACTGCCTCTCTCTCTGCTGCCGCTGCC
** *
4685180 TCTCTTTGTGCTGCCACTGTTTCTCTCTCTGCTTCCGCTGC
1 TCTCTTTGTGCTGCCACTGCCTCTCTCTCTGCTGCCGCTGC
4685221 TGCTCTGGCT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.01, C:0.36, G:0.20, T:0.42
Consensus pattern (42 bp):
TCTCTTTGTGCTGCCACTGCCTCTCTCTCTGCTGCCGCTGCC
Found at i:4685263 original size:21 final size:21
Alignment explanation
Indices: 4685202--4685257 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
4685192 GCCACTGTTT
4685202 CTCTCTCTGCTTCCGCTGCTG
1 CTCTCTCTGCTTCCGCTGCTG
** *
4685223 CTCTGGCTACTTCCGCTGCTG
1 CTCTCTCTGCTTCCGCTGCTG
4685244 CTCTCTCTGCTTCC
1 CTCTCTCTGCTTCC
4685258 CTTGCTTCAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.02, C:0.43, G:0.18, T:0.38
Consensus pattern (21 bp):
CTCTCTCTGCTTCCGCTGCTG
Found at i:4692502 original size:46 final size:46
Alignment explanation
Indices: 4692435--4692525 Score: 164
Period size: 46 Copynumber: 2.0 Consensus size: 46
4692425 TAGCGATTCT
*
4692435 GAAATAACTACATAGTCAAACAAGACAGAGGAACGAAGGCAAGTAC
1 GAAATAACTACATAGTCAAACAAGAAAGAGGAACGAAGGCAAGTAC
*
4692481 GAAATAACTACATGGTCAAACAAGAAAGAGGAACGAAGGCAAGTA
1 GAAATAACTACATAGTCAAACAAGAAAGAGGAACGAAGGCAAGTA
4692526 AGTACCTTAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.51, C:0.15, G:0.23, T:0.11
Consensus pattern (46 bp):
GAAATAACTACATAGTCAAACAAGAAAGAGGAACGAAGGCAAGTAC
Found at i:4693422 original size:42 final size:42
Alignment explanation
Indices: 4693351--4693569 Score: 118
Period size: 41 Copynumber: 5.3 Consensus size: 42
4693341 TAAAAACATC
* *
4693351 TGCGGCGTTTTTTGTCAAAACGCCACTAAAGTACGCAT-CATT
1 TGCGGCGTTTTTAGTCAAAACGCCACTAAAGTACGAATAC-TT
** * *
4693393 TGCGGCGTTTGTTAG-CAAAACGCTGCTAAATTACTAATACTT
1 TGCGGCGTTT-TTAGTCAAAACGCCACTAAAGTACGAATACTT
* * * *
4693435 TGCGGCGTTTCTA--CGAAAACGCCACAAAAGTACGAGT-CTAC
1 TGCGGCGTTTTTAGTC-AAAACGCCACTAAAGTACGAATACT-T
* *
4693476 AGCGGCGTTTTTA-T-ACGAACGCCACTAAAGTA-GAAGT-CTAT
1 TGCGGCGTTTTTAGTCA-AAACGCCACTAAAGTACGAA-TACT-T
* * * * * * *
4693517 AGCGACGTGTTCA-T-ACAAACGCCACTAAAATACAAATATTT
1 TGCGGCGTTTTTAGTCA-AAACGCCACTAAAGTACGAATACTT
4693558 TGCGGCGTTTTT
1 TGCGGCGTTTTT
4693570 TATATAAAAA
Statistics
Matches: 137, Mismatches: 31, Indels: 19
0.73 0.17 0.10
Matches are distributed among these distances:
40 6 0.04
41 84 0.61
42 43 0.31
43 4 0.03
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (42 bp):
TGCGGCGTTTTTAGTCAAAACGCCACTAAAGTACGAATACTT
Found at i:4694028 original size:57 final size:57
Alignment explanation
Indices: 4693809--4693996 Score: 367
Period size: 57 Copynumber: 3.3 Consensus size: 57
4693799 ATTAAAACAG
4693809 AAGTACTTATGCATAAAACTACTTAACAACAAAATACATTATAATTTAGAAACATTA
1 AAGTACTTATGCATAAAACTACTTAACAACAAAATACATTATAATTTAGAAACATTA
4693866 AAGTACTTATGCATAAAACTACTTAACAACAAAATACATTATAATTTAGAAACATTA
1 AAGTACTTATGCATAAAACTACTTAACAACAAAATACATTATAATTTAGAAACATTA
*
4693923 AAGTACTTATGCATAAAACTACTTAAAAACAAAATACATTATAATTTAGAAACATTA
1 AAGTACTTATGCATAAAACTACTTAACAACAAAATACATTATAATTTAGAAACATTA
4693980 AAGTACTTATGCATAAA
1 AAGTACTTATGCATAAA
4693997 CAGTCTTCAC
Statistics
Matches: 130, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
57 130 1.00
ACGTcount: A:0.51, C:0.13, G:0.06, T:0.30
Consensus pattern (57 bp):
AAGTACTTATGCATAAAACTACTTAACAACAAAATACATTATAATTTAGAAACATTA
Found at i:4695053 original size:41 final size:41
Alignment explanation
Indices: 4695006--4695110 Score: 117
Period size: 41 Copynumber: 2.5 Consensus size: 41
4694996 ATGTTTTTTG
* * *
4695006 CGGCGTTTATACAATAAACGTCGCTATAT-TAC-ACTATATTA
1 CGGCGTTT-TACTATAAACGCCGCTAAATGT-CTACTATATTA
*
4695047 CGGCGTTTTAGCTA-AAACGCCGCTAAATGTCTACTATATTG
1 CGGCGTTTTA-CTATAAACGCCGCTAAATGTCTACTATATTA
4695088 CGGCGTTTTTACTATAAACGCCG
1 CGGCG-TTTTACTATAAACGCCG
4695111 TTATTGTTTA
Statistics
Matches: 55, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
40 15 0.27
41 27 0.49
42 13 0.24
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (41 bp):
CGGCGTTTTACTATAAACGCCGCTAAATGTCTACTATATTA
Found at i:4702368 original size:16 final size:16
Alignment explanation
Indices: 4702347--4702379 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
4702337 AAGATAGACT
4702347 ACTATGGATATGAAGC
1 ACTATGGATATGAAGC
4702363 ACTATGGATATGAAGC
1 ACTATGGATATGAAGC
4702379 A
1 A
4702380 GTCAAGGGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.24
Consensus pattern (16 bp):
ACTATGGATATGAAGC
Found at i:4708741 original size:35 final size:35
Alignment explanation
Indices: 4708700--4708774 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 35
4708690 TTCATGTTCA
4708700 AAATTCCAAAACACTTCAATTACATTCTAAACCCC
1 AAATTCCAAAACACTTCAATTACATTCTAAACCCC
* * * *
4708735 AAATTCCAAAATACTTTAATTACATTCTAAATCCT
1 AAATTCCAAAACACTTCAATTACATTCTAAACCCC
4708770 AAATT
1 AAATT
4708775 GAAGTATTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (35 bp):
AAATTCCAAAACACTTCAATTACATTCTAAACCCC
Found at i:4708845 original size:35 final size:34
Alignment explanation
Indices: 4708769--4708846 Score: 111
Period size: 35 Copynumber: 2.2 Consensus size: 34
4708759 TTCTAAATCC
*
4708769 TAAATTGAAGTATTTTGAAATTTGAGGTTTAAAA
1 TAAATTGAAGTATTTTGAAATTTAAGGTTTAAAA
* *
4708803 TATAATTGAATTATTTTGAAATTTAAGGTTTAGAA
1 TA-AATTGAAGTATTTTGAAATTTAAGGTTTAAAA
4708838 TGAAATTGA
1 T-AAATTGA
4708847 GGATTGTGTT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
34 2 0.05
35 36 0.92
36 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.17, T:0.42
Consensus pattern (34 bp):
TAAATTGAAGTATTTTGAAATTTAAGGTTTAAAA
Found at i:4713380 original size:14 final size:14
Alignment explanation
Indices: 4713348--4713380 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
4713338 ATTTTCAATC
*
4713348 TTTAAATTTCAGCT
1 TTTACATTTCAGCT
4713362 TTTACATTTCAGCT
1 TTTACATTTCAGCT
4713376 TTTAC
1 TTTAC
4713381 TTTTTTGCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.24, C:0.18, G:0.06, T:0.52
Consensus pattern (14 bp):
TTTACATTTCAGCT
Found at i:4717426 original size:20 final size:20
Alignment explanation
Indices: 4717395--4717440 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 20
4717385 ATGGTTTTAT
4717395 TTGAATTTTTTTCATTGTGCA
1 TTGAATTTTTTTC-TTGTGCA
*
4717416 TTGAATTTTTTTCTTTTGCA
1 TTGAATTTTTTTCTTGTGCA
4717436 TTGAA
1 TTGAA
4717441 CTGCAAGTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.20, C:0.09, G:0.13, T:0.59
Consensus pattern (20 bp):
TTGAATTTTTTTCTTGTGCA
Found at i:4718178 original size:85 final size:85
Alignment explanation
Indices: 4718086--4718461 Score: 520
Period size: 85 Copynumber: 4.4 Consensus size: 85
4718076 AGGTCTTATA
* * * * *
4718086 CTTGCACATAACAAAAGAGCCTGTGGAAACTGTAAGGCTTACCCTTGCACACAGCAAATGAACAT
1 CTTGCACACAGCAAAAGAACCTG-GGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACCT
*
4718151 -GGGAAACTGTAAGGCTTACC
65 GGGGGAACTGTAAGGCTTACC
*
4718171 CTTGCACACAGCAAAGGAACCTGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACCTG
1 CTTGCACACAGCAAAAGAACCTGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACCTG
* *
4718236 GGGGAACTATAAGACTTACC
66 GGGGAACTGTAAGGCTTACC
* * * *
4718256 CTTGCACACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACTT
1 CTTGCACACAGCAAAAGAACCT-GGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACCT
4718321 GGGGGAACTGTAAGGCTTACC
65 GGGGGAACTGTAAGGCTTACC
* * ** *
4718342 CTTGCACACAGCAAAGGGACCTGGGGGACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCTG
1 CTTGCACACAGCAAAAGAACCTGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACCTG
4718407 GGGGAACTGTAAGGCTTACC
66 GGGGAACTGTAAGGCTTACC
* * * *
4718427 CTTGCACACAACAAAGGGACCTGGGGAAATTGTAA
1 CTTGCACACAGCAAAAGAACCT-GGGAAACTGTAA
4718462 CAGTAATTAA
Statistics
Matches: 267, Mismatches: 21, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
84 39 0.15
85 140 0.52
86 88 0.33
ACGTcount: A:0.32, C:0.24, G:0.26, T:0.18
Consensus pattern (85 bp):
CTTGCACACAGCAAAAGAACCTGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACCTG
GGGGAACTGTAAGGCTTACC
Found at i:4718268 original size:43 final size:43
Alignment explanation
Indices: 4718086--4718461 Score: 551
Period size: 43 Copynumber: 8.8 Consensus size: 43
4718076 AGGTCTTATA
* * * * * *
4718086 CTTGCACATAACAAAAGAGCCTGTGGAAACTGTAAGGCTTACC
1 CTTGCACACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACC
* * *
4718129 CTTGCACACAGCAAATGAACAT-GGGAAACTGTAAGGCTTACC
1 CTTGCACACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACC
*
4718171 CTTGCACACAGCAAAGGAACCT-GGGAAACTGTAAGGCTTACC
1 CTTGCACACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACC
* *
4718213 CTTGCACACAGCAAAGGAACCTGGGGGAACTATAAGACTTACC
1 CTTGCACACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACC
4718256 CTTGCACACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACC
1 CTTGCACACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACC
* *
4718299 CTTGCACACAGCAAAGGGACTTGGGGGAACTGTAAGGCTTACC
1 CTTGCACACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACC
*
4718342 CTTGCACACAGCAAAGGGACCTGGGGG-ACTGTAAGGCTTACC
1 CTTGCACACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACC
*
4718384 CTTGCACACAGCAAAGGGACCTGGGGGAACTGTAAGGCTTACC
1 CTTGCACACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACC
* * * *
4718427 CTTGCACACAACAAAGGGACCTGGGGAAATTGTAA
1 CTTGCACACAGCAAAGGAACCTGGGGGAACTGTAA
4718462 CAGTAATTAA
Statistics
Matches: 312, Mismatches: 19, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
42 123 0.39
43 189 0.61
ACGTcount: A:0.32, C:0.24, G:0.26, T:0.18
Consensus pattern (43 bp):
CTTGCACACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACC
Found at i:4719932 original size:18 final size:18
Alignment explanation
Indices: 4719911--4719945 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4719901 TGCCATCCAG
*
4719911 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
4719929 TCTTATCATTTATTTCA
1 TCTTATCATTTAATTCA
4719946 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.00, T:0.57
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:4721330 original size:23 final size:22
Alignment explanation
Indices: 4721277--4721330 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
4721267 AATGTGTCAA
* *
4721277 CGGGTCAGATCGGGTCAATGGGT
1 CGGGTC-GGTCGGGTCAAGGGGT
4721300 CGGGTCGGTCGGGTCAACGGGGT
1 CGGGTCGGTCGGGTCAA-GGGGT
4721323 CGGGTCGG
1 CGGGTCGG
4721331 GCTGTGACCG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.11, C:0.20, G:0.50, T:0.19
Consensus pattern (22 bp):
CGGGTCGGTCGGGTCAAGGGGT
Found at i:4723266 original size:10 final size:10
Alignment explanation
Indices: 4723249--4723327 Score: 52
Period size: 10 Copynumber: 7.4 Consensus size: 10
4723239 TCAAATGGTC
4723249 TCAACATATT
1 TCAACATATT
* *
4723259 TCATCATATA
1 TCAACATATT
*
4723269 GCAACATATT
1 TCAACATATT
4723279 TCAACAGCATATCT
1 TC-A-A-CATAT-T
*
4723293 T-AGCATATT
1 TCAACATATT
4723302 TCATAGCATATT
1 TCA-A-CATATT
*
4723314 TCAACATATC
1 TCAACATATT
4723324 TCAA
1 TCAA
4723328 AAAAAATATT
Statistics
Matches: 53, Mismatches: 9, Indels: 14
0.70 0.12 0.18
Matches are distributed among these distances:
9 2 0.04
10 31 0.58
11 2 0.04
12 11 0.21
13 5 0.09
14 2 0.04
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.35
Consensus pattern (10 bp):
TCAACATATT
Found at i:4724253 original size:236 final size:236
Alignment explanation
Indices: 4723840--4724303 Score: 919
Period size: 236 Copynumber: 2.0 Consensus size: 236
4723830 GTTTGTATAA
4723840 ATATGCCTTACATAATTTCTGGTTTCAACATTAAGGAATAACTCTGTCACAGCTTCAACAAGTCT
1 ATATGCCTTACATAATTTCTGGTTTCAACATTAAGGAATAACTCTGTCACAGCTTCAACAAGTCT
4723905 CTACAAGGATAACATCATAAATAATTATGATAAATATGCTTAATATTTTATAATAAATTCAAAAG
66 CTACAAGGATAACATCATAAATAATTATGATAAATATGCTTAATATTTTATAATAAATTCAAAAG
4723970 TTAATAACATAACCTTTTGTTTATCAGACATAAAACACCATCCATATGAGTTTTCAATGTCTAAG
131 TTAATAACATAACCTTTTGTTTATCAGACATAAAACACCATCCATATGAGTTTTCAATGTCTAAG
*
4724035 TCTCTTCCAAGAATTTCCAGAAACCATACCCATAGTGGTTC
196 TCTCTTCCAAGAATTTCCAGAAACCATAACCATAGTGGTTC
4724076 ATATGCCTTACATAATTTCTGGTTTCAACATTAAGGAATAACTCTGTCACAGCTTCAACAAGTCT
1 ATATGCCTTACATAATTTCTGGTTTCAACATTAAGGAATAACTCTGTCACAGCTTCAACAAGTCT
4724141 CTACAAGGATAACATCATAAATAATTATGATAAATATGCTTAATATTTTATAATAAATTCAAAAG
66 CTACAAGGATAACATCATAAATAATTATGATAAATATGCTTAATATTTTATAATAAATTCAAAAG
4724206 TTAATAACATAACCTTTTGTTTATCAGACATAAAACACCATCCATATGAGTTTTCAATGTCTAAG
131 TTAATAACATAACCTTTTGTTTATCAGACATAAAACACCATCCATATGAGTTTTCAATGTCTAAG
4724271 TCTCTTCCAAGAATTTCCAGAAACCATAACCAT
196 TCTCTTCCAAGAATTTCCAGAAACCATAACCAT
4724304 GAATAGTGGT
Statistics
Matches: 227, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
236 227 1.00
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (236 bp):
ATATGCCTTACATAATTTCTGGTTTCAACATTAAGGAATAACTCTGTCACAGCTTCAACAAGTCT
CTACAAGGATAACATCATAAATAATTATGATAAATATGCTTAATATTTTATAATAAATTCAAAAG
TTAATAACATAACCTTTTGTTTATCAGACATAAAACACCATCCATATGAGTTTTCAATGTCTAAG
TCTCTTCCAAGAATTTCCAGAAACCATAACCATAGTGGTTC
Found at i:4725397 original size:15 final size:15
Alignment explanation
Indices: 4725377--4725410 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
4725367 TCAATGTCCC
*
4725377 TTTCAACACTACCCA
1 TTTCAACAATACCCA
*
4725392 TTTCAACAATATCCA
1 TTTCAACAATACCCA
4725407 TTTC
1 TTTC
4725411 TATACCACCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (15 bp):
TTTCAACAATACCCA
Found at i:4725426 original size:30 final size:30
Alignment explanation
Indices: 4725392--4725457 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
4725382 ACACTACCCA
* *
4725392 TTTCAACAATATCCATTTCTATACCACCAC
1 TTTCAACAATATCCATTTCTACAACACCAC
* *
4725422 TTTCAGCATTATCCATTTCTACAACACCAC
1 TTTCAACAATATCCATTTCTACAACACCAC
4725452 TTTCAA
1 TTTCAA
4725458 AACTACCACT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.32, C:0.32, G:0.02, T:0.35
Consensus pattern (30 bp):
TTTCAACAATATCCATTTCTACAACACCAC
Found at i:4725797 original size:13 final size:13
Alignment explanation
Indices: 4725771--4725804 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
4725761 AATAAAGTGC
*
4725771 TTAAATTTTATGT
1 TTAAATTGTATGT
*
4725784 TTACATTGTATGT
1 TTAAATTGTATGT
4725797 TTAAATTG
1 TTAAATTG
4725805 AATATTCAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.29, C:0.03, G:0.12, T:0.56
Consensus pattern (13 bp):
TTAAATTGTATGT
Found at i:4726461 original size:12 final size:12
Alignment explanation
Indices: 4726440--4726473 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
4726430 AAGTTGTATA
*
4726440 ATATATCATATC
1 ATATAACATATC
4726452 ATATAACATATC
1 ATATAACATATC
4726464 ATATCAACAT
1 ATAT-AACAT
4726474 GAAAAGTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 15 0.75
13 5 0.25
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (12 bp):
ATATAACATATC
Found at i:4726462 original size:17 final size:17
Alignment explanation
Indices: 4726436--4726469 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4726426 TGTAAAGTTG
*
4726436 TATAATATATCATATCA
1 TATAACATATCATATCA
4726453 TATAACATATCATATCA
1 TATAACATATCATATCA
4726470 ACATGAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.38
Consensus pattern (17 bp):
TATAACATATCATATCA
Found at i:4726564 original size:13 final size:13
Alignment explanation
Indices: 4726545--4726578 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
4726535 TCAACAACAT
4726545 TATTTCAT-AAAA
1 TATTTCATAAAAA
4726557 TGATTTCATAAAAA
1 T-ATTTCATAAAAA
4726571 TATTTCAT
1 TATTTCAT
4726579 CAACCTATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 1 0.05
13 14 0.70
14 5 0.25
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (13 bp):
TATTTCATAAAAA
Found at i:4727842 original size:21 final size:20
Alignment explanation
Indices: 4727756--4727913 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
4727746 AAATGACCAA
**
4727756 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
4727775 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
4727795 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
4727815 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
4727836 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
4727857 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* * *
4727877 CCAGAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
4727898 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
4727914 ACACATAAAT
Statistics
Matches: 102, Mismatches: 31, Indels: 11
0.71 0.22 0.08
Matches are distributed among these distances:
19 16 0.16
20 40 0.39
21 46 0.45
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:4728071 original size:20 final size:20
Alignment explanation
Indices: 4727881--4728109 Score: 244
Period size: 20 Copynumber: 11.4 Consensus size: 20
4727871 GATTTTCCAG
** *
4727881 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATCCGTA
*
4727901 AATCGCAACGCGAA-CACATA
1 AATCGCAACGCGAATC-CGTA
*
4727921 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
* * *
4727941 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGAATCCGTA
*
4727961 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
4727981 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
*
4728001 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
**
4728021 AATCGCAACGATAATCCGTA
1 AATCGCAACGCGAATCCGTA
* **
4728041 AATCGCAACGAGAATCTATA
1 AATCGCAACGCGAATCCGTA
**
4728061 AATCGCAACGATAATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
4728081 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGAATCCGTA
*
4728101 AATCACAAC
1 AATCGCAAC
4728110 ACTGAAATTT
Statistics
Matches: 183, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
20 182 0.99
21 1 0.01
ACGTcount: A:0.38, C:0.26, G:0.17, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAATCCGTA
Found at i:4728841 original size:24 final size:24
Alignment explanation
Indices: 4728802--4728848 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
4728792 AAATTTGGTC
4728802 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
4728826 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
4728849 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:4729040 original size:12 final size:12
Alignment explanation
Indices: 4729023--4729047 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4729013 ATATAATCCT
4729023 GAAGAAGAAAAA
1 GAAGAAGAAAAA
4729035 GAAGAAGAAAAA
1 GAAGAAGAAAAA
4729047 G
1 G
4729048 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:4731320 original size:33 final size:34
Alignment explanation
Indices: 4731281--4731432 Score: 111
Period size: 33 Copynumber: 4.4 Consensus size: 34
4731271 CTATCGCACA
* * *
4731281 CGGAAATTACAATCGCAACGA-GAGAATCGCAATG
1 CGGAAATGAAAATCGCAAC-ATGAAAATCGCAATG
*
4731315 C-GAAATGAAAATCCCAACATGAAAATCGCAATG
1 CGGAAATGAAAATCGCAACATGAAAATCGCAATG
4731348 CGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--
1 CGGAAATGAAAATCGCAA--C---ATGAAAATCGCAATG
* *
4731385 CGAGAGAATCG-CAATGCGGAA-ATGAAAATCGCAATG
1 CG-GA-AAT-GAAAAT-CGCAACATGAAAATCGCAATG
4731421 C-GAAATGAAAAT
1 CGGAAATGAAAAT
4731433 TGCATTGTGA
Statistics
Matches: 96, Mismatches: 8, Indels: 29
0.72 0.06 0.22
Matches are distributed among these distances:
32 2 0.02
33 33 0.34
34 31 0.32
36 2 0.02
37 2 0.02
38 2 0.02
39 19 0.20
40 5 0.05
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (34 bp):
CGGAAATGAAAATCGCAACATGAAAATCGCAATG
Found at i:4731356 original size:20 final size:19
Alignment explanation
Indices: 4731305--4731432 Score: 150
Period size: 19 Copynumber: 7.2 Consensus size: 19
4731295 GCAACGAGAG
4731305 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
4731324 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
4731338 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
4731358 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
4731377 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
4731391 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
4731411 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
4731430 AAT
1 AAT
4731433 TGCATTGTGA
Statistics
Matches: 93, Mismatches: 4, Indels: 24
0.77 0.03 0.20
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 4 0.04
19 35 0.38
20 29 0.31
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:4731395 original size:53 final size:53
Alignment explanation
Indices: 4731305--4731432 Score: 222
Period size: 53 Copynumber: 2.4 Consensus size: 53
4731295 GCAACGAGAG
4731305 AATCGCAATGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGGAAATGAA
* *
4731358 AATCGCAATGCGAAATGAAAATCGCAACGA-GAGAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
4731411 AATCGCAATGCGAAATGAAAAT
1 AATCGCAATGCGAAATGAAAAT
4731433 TGCATTGTGA
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
53 71 0.99
54 1 0.01
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (53 bp):
AATCGCAATGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGGAAATGAA
Found at i:4731493 original size:19 final size:19
Alignment explanation
Indices: 4731451--4731547 Score: 125
Period size: 19 Copynumber: 5.4 Consensus size: 19
4731441 GATTCTCTCG
*
4731451 TTGCGATTTTCATTCCGC-
1 TTGCGATTTTCATTTCGCA
4731469 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
4731488 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
4731502 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
4731521 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
4731541 TTGCGAT
1 TTGCGAT
4731548 AGTCATTTTT
Statistics
Matches: 69, Mismatches: 3, Indels: 12
0.82 0.04 0.14
Matches are distributed among these distances:
14 6 0.09
16 7 0.10
17 7 0.10
18 17 0.25
19 21 0.30
20 11 0.16
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.45
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:4731496 original size:51 final size:53
Alignment explanation
Indices: 4731434--4731547 Score: 196
Period size: 51 Copynumber: 2.2 Consensus size: 53
4731424 AATGAAAATT
*
4731434 GCATTGTGATTCTCTCGTTGCGATTTTCATTCCGC-TTGCGATTTTCATTT-C
1 GCATTGCGATTCTCTCGTTGCGATTTTCATTCCGCATTGCGATTTTCATTTCC
*
4731485 GCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCC
1 GCATTGCGATTCTCTCGTTGCGATTTTCATTCCGCATTGCGATTTTCATTTCC
4731538 GCATTGCGAT
1 GCATTGCGAT
4731548 AGTCATTTTT
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
51 33 0.56
52 15 0.25
53 11 0.19
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.45
Consensus pattern (53 bp):
GCATTGCGATTCTCTCGTTGCGATTTTCATTCCGCATTGCGATTTTCATTTCC
Found at i:4731672 original size:14 final size:14
Alignment explanation
Indices: 4731653--4731689 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
4731643 CATCAAGTAA
4731653 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
4731667 ACAAATCATCTTTT
1 ACAAATCAACTTTT
4731681 ACAAATCAA
1 ACAAATCAA
4731690 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:4731773 original size:12 final size:12
Alignment explanation
Indices: 4731756--4731790 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
4731746 AACTTTTACA
4731756 AATCAATTAAAC
1 AATCAATTAAAC
**
4731768 AATCAAAAAAAC
1 AATCAATTAAAC
4731780 AATCAATTAAA
1 AATCAATTAAA
4731791 TATTGAATCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.66, C:0.14, G:0.00, T:0.20
Consensus pattern (12 bp):
AATCAATTAAAC
Found at i:4732998 original size:21 final size:21
Alignment explanation
Indices: 4732968--4733034 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
4732958 GTGAATCGGG
4732968 CTCTTGAATGGTGGGAGGGAC
1 CTCTTGAATGGTGGGAGGGAC
* * **
4732989 CTCTTCAATGATGATAGTGG-C
1 CTCTTGAATGGTGGGAG-GGAC
* *
4733010 CTCTTGAACGGTGGGAGGGAA
1 CTCTTGAATGGTGGGAGGGAC
4733031 CTCT
1 CTCT
4733035 CGAGGAATGA
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
20 2 0.06
21 30 0.88
22 2 0.06
ACGTcount: A:0.21, C:0.18, G:0.34, T:0.27
Consensus pattern (21 bp):
CTCTTGAATGGTGGGAGGGAC
Found at i:4733045 original size:42 final size:42
Alignment explanation
Indices: 4732968--4733047 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
4732958 GTGAATCGGG
* * *
4732968 CTCTTGAATGGTGGGAGGGACCTCTTCAATGATGATAGTGGC
1 CTCTTGAACGGTGGGAGGGAACTCTTCAAGGATGATAGTGGC
*
4733010 CTCTTGAACGGTGGGAGGGAACTC-TCGAGGAATGATAG
1 CTCTTGAACGGTGGGAGGGAACTCTTCAAGG-ATGATAG
4733048 GGGGCCCTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 4 0.12
42 29 0.88
ACGTcount: A:0.24, C:0.16, G:0.35, T:0.25
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGGGAACTCTTCAAGGATGATAGTGGC
Found at i:4733525 original size:19 final size:19
Alignment explanation
Indices: 4733483--4733655 Score: 159
Period size: 19 Copynumber: 9.6 Consensus size: 19
4733473 TAGTTTACTT
* *
4733483 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
*
4733503 TCGCAACGCGAAATGAGAA
1 TCGCAACGCGAAATGAAAA
* **
4733522 TCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
**
4733541 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
4733560 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
4733579 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
4733593 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
4733612 TCGCAA--CG--A-GAGAA
1 TCGCAACGCGAAATGAAAA
4733626 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
4733645 TCGCAATGCGA
1 TCGCAACGCGA
4733656 TTTTGGTTTC
Statistics
Matches: 128, Mismatches: 15, Indels: 21
0.78 0.09 0.13
Matches are distributed among these distances:
14 18 0.14
15 1 0.01
16 7 0.05
17 7 0.05
18 1 0.01
19 82 0.64
20 12 0.09
ACGTcount: A:0.46, C:0.24, G:0.20, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:4733596 original size:14 final size:14
Alignment explanation
Indices: 4733577--4733633 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
4733567 GCGAAATGAA
*
4733577 AATCGCAACGACAG
1 AATCGCAACGAAAG
4733591 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
*
4733608 AAAATCGCAACGAGAG
1 --AATCGCAACGAAAG
4733624 AATCGCAACG
1 AATCGCAACG
4733634 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 18 0.50
16 5 0.14
17 5 0.14
19 8 0.22
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:4733604 original size:33 final size:33
Alignment explanation
Indices: 4733558--4733650 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
4733548 GCGAAACCAA
4733558 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
* *
4733591 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
4733624 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
4733651 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.46, C:0.22, G:0.22, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGACAG
Found at i:4733647 original size:52 final size:52
Alignment explanation
Indices: 4733517--4733655 Score: 147
Period size: 52 Copynumber: 2.7 Consensus size: 52
4733507 AACGCGAAAT
* * * *
4733517 GAGAATCGCAACGAGAAACCAAAATCGCAACGCGAAACCAAAATCGCAACGC
1 GAGAATCGCAACGCGAAACGAAAATCGCAATGCGAAACCAAAATCGCAACGA
* ** * **
4733569 GA-AAT-GAAAATCGCAACGACAGAATCGCAATGCGAAATGAAAATCGCAACGA
1 GAGAATCGCAACGCGAAACGA-A-AATCGCAATGCGAAACCAAAATCGCAACGA
*
4733621 GAGAATCGCAACGCGAAATGAAAATCGCAATGCGA
1 GAGAATCGCAACGCGAAACGAAAATCGCAATGCGA
4733656 TTTTGGTTTC
Statistics
Matches: 68, Mismatches: 15, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
50 8 0.12
51 4 0.06
52 43 0.63
53 4 0.06
54 9 0.13
ACGTcount: A:0.46, C:0.23, G:0.22, T:0.09
Consensus pattern (52 bp):
GAGAATCGCAACGCGAAACGAAAATCGCAATGCGAAACCAAAATCGCAACGA
Found at i:4733686 original size:14 final size:14
Alignment explanation
Indices: 4733667--4733725 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
4733657 TTTGGTTTCG
4733667 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
4733681 CGTTGCGATTTTGGTTT
1 CGTTGCGATTTT-G--T
*
4733698 CGCGTTGCGATTCTGT
1 --CGTTGCGATTTTGT
4733714 CGTTGCGATTTT
1 CGTTGCGATTTT
4733726 CATTTCGCGT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 23 0.61
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 11 0.29
ACGTcount: A:0.07, C:0.17, G:0.29, T:0.47
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:4733693 original size:33 final size:33
Alignment explanation
Indices: 4733651--4733745 Score: 163
Period size: 33 Copynumber: 2.9 Consensus size: 33
4733641 AAAATCGCAA
4733651 TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
*
4733684 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
**
4733717 TGCGATTTTCATTTCGCGTTGCGATTTTG
1 TGCGATTTTGGTTTCGCGTTGCGATTTTG
4733746 GTTTCGCGTT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.07, C:0.17, G:0.28, T:0.47
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
Found at i:4733705 original size:19 final size:19
Alignment explanation
Indices: 4733651--4733779 Score: 134
Period size: 19 Copynumber: 7.3 Consensus size: 19
4733641 AAAATCGCAA
4733651 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
4733670 TGCGATTTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
4733684 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
4733703 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
4733717 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
4733736 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
4733755 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
4733775 TGCGA
1 TGCGA
4733780 AAGTAAACTA
Statistics
Matches: 92, Mismatches: 7, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 23 0.25
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 49 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.16, G:0.29, T:0.47
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:4735725 original size:20 final size:20
Alignment explanation
Indices: 4735695--4735758 Score: 101
Period size: 20 Copynumber: 3.1 Consensus size: 20
4735685 TTTTGGTTGA
4735695 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
**
4735715 AATGACTATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
4735735 AAATGAAAATCGCAACGAGAG
1 -AATGAAAATCGCAACGAGAG
4735756 AAT
1 AAT
4735759 CGCAACGCGA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 21 0.54
21 18 0.46
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.12
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:4735746 original size:21 final size:21
Alignment explanation
Indices: 4735693--4735757 Score: 105
Period size: 21 Copynumber: 3.1 Consensus size: 21
4735683 TCTTTTGGTT
4735693 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
**
4735714 G-AATGACTATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
4735734 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
4735755 GAA
1 GAA
4735758 TCGCAACGCG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 18 0.46
21 21 0.54
ACGTcount: A:0.49, C:0.15, G:0.25, T:0.11
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:4735926 original size:14 final size:14
Alignment explanation
Indices: 4735905--4735960 Score: 58
Period size: 14 Copynumber: 3.7 Consensus size: 14
4735895 CTAACTTGAA
4735905 AATCGCAACGAGAG
1 AATCGCAACGAGAG
* *
4735919 AATAGCAACGCGAAATG
1 AATCGCAA--CGAGA-G
4735936 AAATCGCAACGAGAG
1 -AATCGCAACGAGAG
4735951 AATCGCAACG
1 AATCGCAACG
4735961 CGAAATGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
14 17 0.50
15 1 0.03
16 8 0.24
17 1 0.03
18 7 0.21
ACGTcount: A:0.45, C:0.21, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:4735943 original size:32 final size:32
Alignment explanation
Indices: 4735904--4735972 Score: 129
Period size: 32 Copynumber: 2.2 Consensus size: 32
4735894 ACTAACTTGA
4735904 AAATCGCAACGAGAGAATAGCAACGCGAAATG
1 AAATCGCAACGAGAGAATAGCAACGCGAAATG
*
4735936 AAATCGCAACGAGAGAATCGCAACGCGAAATG
1 AAATCGCAACGAGAGAATAGCAACGCGAAATG
4735968 AAATC
1 AAATC
4735973 TAAGTGAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.46, C:0.20, G:0.23, T:0.10
Consensus pattern (32 bp):
AAATCGCAACGAGAGAATAGCAACGCGAAATG
Found at i:4736364 original size:20 final size:20
Alignment explanation
Indices: 4736339--4736552 Score: 315
Period size: 20 Copynumber: 10.7 Consensus size: 20
4736329 CTTTAAAAAT
4736339 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
4736359 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
4736379 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
4736400 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
4736420 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
4736440 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
4736460 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
4736480 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
4736500 CACGTTGCGGTTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
4736520 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
4736540 CGCGTTGCGATTT
1 CGCGTTGCGATTT
4736553 TCATATTCTC
Statistics
Matches: 176, Mismatches: 14, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
20 158 0.90
21 18 0.10
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.34
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:4736624 original size:21 final size:21
Alignment explanation
Indices: 4736600--4736657 Score: 107
Period size: 21 Copynumber: 2.8 Consensus size: 21
4736590 AATTTGTACT
*
4736600 ATCGCATTGCGATTTTCAAGA
1 ATCGCGTTGCGATTTTCAAGA
4736621 ATCGCGTTGCGATTTTCAAGA
1 ATCGCGTTGCGATTTTCAAGA
4736642 ATCGCGTTGCGATTTT
1 ATCGCGTTGCGATTTT
4736658 GGAAACTGAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.36
Consensus pattern (21 bp):
ATCGCGTTGCGATTTTCAAGA
Found at i:4736707 original size:19 final size:19
Alignment explanation
Indices: 4736683--4736735 Score: 106
Period size: 19 Copynumber: 2.8 Consensus size: 19
4736673 ATTCTGGGGA
4736683 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTTATT
4736702 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTTATT
4736721 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
4736736 GTTGGTCATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.09, C:0.17, G:0.23, T:0.51
Consensus pattern (19 bp):
TCGCGTTGCGATTTTTATT
Found at i:4739459 original size:20 final size:20
Alignment explanation
Indices: 4739434--4739473 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
4739424 TGTACATTCT
4739434 TAAATAGAGATACCGTCTTA
1 TAAATAGAGATACCGTCTTA
4739454 TAAATAGAGATACCGTCTTA
1 TAAATAGAGATACCGTCTTA
4739474 AATTGAAGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (20 bp):
TAAATAGAGATACCGTCTTA
Found at i:4741097 original size:36 final size:36
Alignment explanation
Indices: 4741035--4741104 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 36
4741025 GTTTCATCCG
** *
4741035 AGCTGGCGCCAGGTCATGAAAGGCGCGGATGGTCCA
1 AGCTGGCGCCACATAATGAAAGGCGCGGATGGTCCA
4741071 AGCTGGCGCCACATAATGACAA-GCGCGGATGGTC
1 AGCTGGCGCCACATAATGA-AAGGCGCGGATGGTC
4741105 ATTTGCGCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
36 28 0.93
37 2 0.07
ACGTcount: A:0.24, C:0.26, G:0.36, T:0.14
Consensus pattern (36 bp):
AGCTGGCGCCACATAATGAAAGGCGCGGATGGTCCA
Found at i:4742298 original size:60 final size:59
Alignment explanation
Indices: 4742204--4742316 Score: 136
Period size: 60 Copynumber: 1.9 Consensus size: 59
4742194 ACACAATGCC
* * * * * *
4742204 TTCAAGCTCTAGGGGAGGCATTCAACTGCGAGCTTCTTCAACCTCAATGTCGAGATACG
1 TTCAAGCTCAAGGGGAGGCATGCAACTACCAGCTTCTTCAACCTAAACGTCGAGATACG
* * *
4742263 TTCAAGTTCAAGGGGAAGGCATGCAACTACCAGCTTGTTCGACCTAAACGTCGA
1 TTCAAGCTCAAGGGG-AGGCATGCAACTACCAGCTTCTTCAACCTAAACGTCGA
4742317 CAGTGTGGAA
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
59 13 0.30
60 31 0.70
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (59 bp):
TTCAAGCTCAAGGGGAGGCATGCAACTACCAGCTTCTTCAACCTAAACGTCGAGATACG
Found at i:4743164 original size:64 final size:65
Alignment explanation
Indices: 4743050--4743173 Score: 189
Period size: 64 Copynumber: 1.9 Consensus size: 65
4743040 AATGCATTTT
*
4743050 ATGCATCGATGCACTCAGGGTTTTATGAAAACATCAAATGCAGTTGATGCATCGATGCACCAGCC
1 ATGCATCGATGCACTCAGGCTTTTATGAAAACATCAAATGCAGTTGATGCATCGATGCACCAGCC
* * *
4743115 ATGCATCGATGCACTCAGGCTATTT-TG-AAACATCGAATGCATTTTATGCATCGATGCAC
1 ATGCATCGATGCACTCAGGCT-TTTATGAAAACATCAAATGCAGTTGATGCATCGATGCAC
4743174 TAAGGGTCCA
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
64 29 0.54
65 22 0.41
66 3 0.06
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (65 bp):
ATGCATCGATGCACTCAGGCTTTTATGAAAACATCAAATGCAGTTGATGCATCGATGCACCAGCC
Found at i:4746008 original size:3 final size:3
Alignment explanation
Indices: 4746000--4746050 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
4745990 CTTCTCAATG
* * * *
4746000 TCA TCA TCA TCA TCA CCA TAA TCA TCA TTA TCA TCA TCA TCA TCA TTA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
4746048 TCA
1 TCA
4746051 GGAGAAGATA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.35, C:0.29, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:4747183 original size:16 final size:19
Alignment explanation
Indices: 4747148--4747189 Score: 54
Period size: 16 Copynumber: 2.4 Consensus size: 19
4747138 GAAATAATTT
4747148 TTATTATATACTAAATAAA
1 TTATTATATACTAAATAAA
4747167 TTATTA-ATA-TAAA-AAA
1 TTATTATATACTAAATAAA
*
4747183 TCATTAT
1 TTATTAT
4747190 TGTAATTACC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 8 0.38
17 4 0.19
18 3 0.14
19 6 0.29
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (19 bp):
TTATTATATACTAAATAAA
Found at i:4748123 original size:24 final size:24
Alignment explanation
Indices: 4748096--4748156 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 24
4748086 AAAAATAAAA
4748096 AAAATTAATATAATA-CAATTTAAT
1 AAAATTAATA-AATATCAATTTAAT
* *
4748120 AAAA-TAATAAATAATTAATTTATT
1 AAAATTAATAAAT-ATCAATTTAAT
4748144 AAAATATAATAAA
1 AAAAT-TAATAAA
4748157 ATATTTTACA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
22 3 0.10
23 6 0.19
24 15 0.48
26 7 0.23
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAATTAATAAATATCAATTTAAT
Found at i:4748138 original size:34 final size:33
Alignment explanation
Indices: 4748079--4748159 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 33
4748069 TTCATTTTAT
*
4748079 AATTGTAA-AAAATAAAAAAAATTAATATAATAC
1 AATT-TAATAAAATAAAAAAAATTAATATAATAA
* * *
4748112 AATTTAATAAAATAATAAATAATTAATTTATTAA
1 AATTTAATAAAATAA-AAAAAATTAATATAATAA
*
4748146 AATATAATAAAATA
1 AATTTAATAAAATA
4748160 TTTTACATTC
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
32 3 0.07
33 11 0.27
34 27 0.66
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (33 bp):
AATTTAATAAAATAAAAAAAATTAATATAATAA
Found at i:4761691 original size:6 final size:6
Alignment explanation
Indices: 4761680--4761705 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
4761670 CGGCTCGAGA
4761680 TGGTCG TGGTCG TGGTCG TGGTCG TG
1 TGGTCG TGGTCG TGGTCG TGGTCG TG
4761706 TTTTCTACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.50, T:0.35
Consensus pattern (6 bp):
TGGTCG
Found at i:4767063 original size:6 final size:6
Alignment explanation
Indices: 4767052--4767082 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
4767042 TCGGCTCGGC
*
4767052 TCGTGG TCGTGG TCGTGC TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
4767083 AATACGTGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.19, G:0.45, T:0.35
Consensus pattern (6 bp):
TCGTGG
Found at i:4769789 original size:21 final size:21
Alignment explanation
Indices: 4769760--4769806 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
4769750 TAAACATATA
*
4769760 AAATTTTAAGAAAATTAAAAG
1 AAATATTAAGAAAATTAAAAG
*
4769781 AAATATTAATAAAATTAAAAG
1 AAATATTAAGAAAATTAAAAG
4769802 AAATA
1 AAATA
4769807 ATTTAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (21 bp):
AAATATTAAGAAAATTAAAAG
Found at i:4769820 original size:21 final size:20
Alignment explanation
Indices: 4769770--4769825 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
4769760 AAATTTTAAG
4769770 AAAATTAAAAGAAATATTAAT
1 AAAATTAAAAGAAATATT-AT
4769791 AAAATTAAAAGAAATAATT-T
1 AAAATTAAAAGAAAT-ATTAT
4769811 AAAATATAAAA-AAAT
1 AAAAT-TAAAAGAAAT
4769826 TAAAAATTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
20 10 0.30
21 20 0.61
22 3 0.09
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.27
Consensus pattern (20 bp):
AAAATTAAAAGAAATATTAT
Found at i:4774458 original size:37 final size:37
Alignment explanation
Indices: 4774417--4774589 Score: 210
Period size: 37 Copynumber: 4.8 Consensus size: 37
4774407 ACTACTCTAG
4774417 CATACATCTACGTGTTCATGCATG-ACTACACTCTTAA
1 CATACATCTACGTGTTCATGCATGCA-TACACTCTTAA
* * *
4774454 CATACATCAACGTGTCCATGCATGCATACA--C-TAG
1 CATACATCTACGTGTTCATGCATGCATACACTCTTAA
* * * * *
4774488 CATACCTCTACATGTTTATACATGCATACACTCTTAG
1 CATACATCTACGTGTTCATGCATGCATACACTCTTAA
* *
4774525 CATACATCTACATGTTCATGCATGCATACATTCTTAA
1 CATACATCTACGTGTTCATGCATGCATACACTCTTAA
*
4774562 CATACATCTACGTGTTCACGCATGCATA
1 CATACATCTACGTGTTCATGCATGCATA
4774590 TATATATATA
Statistics
Matches: 116, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
34 26 0.22
35 1 0.01
36 1 0.01
37 87 0.75
38 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.11, T:0.31
Consensus pattern (37 bp):
CATACATCTACGTGTTCATGCATGCATACACTCTTAA
Found at i:4774529 original size:71 final size:71
Alignment explanation
Indices: 4774413--4774579 Score: 201
Period size: 71 Copynumber: 2.3 Consensus size: 71
4774403 ATCTACTACT
* * *
4774413 CTAGCATACATCTACGTGTTCATGCATGACTACACTCTTAACATACATCAACGTGTCCATGCATG
1 CTAGCATACATCTACATGTTCATACATGACTACACTCTTAACATACATCAACATGTCCATGCATG
4774478 CATACA
66 CATACA
* * * * *
4774484 CTAGCATACCTCTACATGTTTATACATG-CATACACTCTTAGCATACATCTACATGTTCATGCAT
1 CTAGCATACATCTACATGTTCATACATGAC-TACACTCTTAACATACATCAACATGTCCATGCAT
4774548 GCATACA
65 GCATACA
* *
4774555 TTCTTAACATACATCTACGTGTTCA
1 --C-TAGCATACATCTACATGTTCA
4774580 CGCATGCATA
Statistics
Matches: 80, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
70 1 0.01
71 61 0.76
73 1 0.01
74 17 0.21
ACGTcount: A:0.31, C:0.27, G:0.11, T:0.32
Consensus pattern (71 bp):
CTAGCATACATCTACATGTTCATACATGACTACACTCTTAACATACATCAACATGTCCATGCATG
CATACA
Found at i:4774781 original size:21 final size:22
Alignment explanation
Indices: 4774757--4774803 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
4774747 ATATATATAT
4774757 TAAAAATT-C-TTTAAAAATGCA
1 TAAAAATTACTTTTAAAAATG-A
*
4774778 TAAAAATTACTTTTTAAAATGA
1 TAAAAATTACTTTTAAAAATGA
4774800 TAAA
1 TAAA
4774804 TTCAAGATAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 8 0.35
22 6 0.26
23 9 0.39
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.36
Consensus pattern (22 bp):
TAAAAATTACTTTTAAAAATGA
Found at i:4775497 original size:13 final size:13
Alignment explanation
Indices: 4775479--4775504 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4775469 TTAATAGTAG
4775479 TTTCTTTTAAAAT
1 TTTCTTTTAAAAT
4775492 TTTCTTTTAAAAT
1 TTTCTTTTAAAAT
4775505 GTCTATAAAT
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:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTCTTTTAAAAT
Found at i:4776944 original size:13 final size:13
Alignment explanation
Indices: 4776926--4776954 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
4776916 CGAATTCAAA
4776926 TTAAAGTACAGAT
1 TTAAAGTACAGAT
4776939 TTAAAGTACAGAT
1 TTAAAGTACAGAT
4776952 TTA
1 TTA
4776955 CTGAAAAAAA
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:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (13 bp):
TTAAAGTACAGAT
Found at i:4782136 original size:182 final size:182
Alignment explanation
Indices: 4781829--4782256 Score: 622
Period size: 182 Copynumber: 2.4 Consensus size: 182
4781819 TCGATTTATG
* * * *** * *
4781829 TCGATACTTTATAAAAATATATCGATCCATATTAATATAACAGATAAAAATATGACAAAATCGGT
1 TCGATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAATCGGA
* * ** *
4781894 CTCGAAAAGACAAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTTGATACTTTAATATAAG
66 CTCGAAAAGACAAAACCGGTAAAGAGCGACCAAATATATTGAAAGTGTCGATACTTTAATATAAG
* * * *
4781959 TATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGTGTTTATAAAGTA
131 TATCGACACTTTGTGAATTTAAAAGAGAAACAATTTTAGAGTCTATAAAGTA
*
4782011 TCGATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGGCAAAATCGGA
1 TCGATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAATCGGA
* * * * **
4782076 CTCTAAAGGAGAAAATCGGTGTAGAGCGACCAAATATATTGAAAGTGTCGATACTTTAATATAAG
66 CTCGAAAAGACAAAACCGGTAAAGAGCGACCAAATATATTGAAAGTGTCGATACTTTAATATAAG
*
4782141 TATCGACACTTTGTGAATTTAAAAGAGAAACAATTTTAGAGTCTATAAAGTG
131 TATCGACACTTTGTGAATTTAAAAGAGAAACAATTTTAGAGTCTATAAAGTA
*
4782193 TCGATACTTTATAACAATGTATCGATCCACAACGATATAACAAGTAAAAATATGACAAAATCGG
1 TCGATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAATCGG
4782257 TATAGAGCAA
Statistics
Matches: 219, Mismatches: 27, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
182 219 1.00
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.28
Consensus pattern (182 bp):
TCGATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAATCGGA
CTCGAAAAGACAAAACCGGTAAAGAGCGACCAAATATATTGAAAGTGTCGATACTTTAATATAAG
TATCGACACTTTGTGAATTTAAAAGAGAAACAATTTTAGAGTCTATAAAGTA
Found at i:4782354 original size:162 final size:162
Alignment explanation
Indices: 4782087--4782414 Score: 539
Period size: 162 Copynumber: 2.0 Consensus size: 162
4782077 TCTAAAGGAG
* * * *
4782087 AAAATCGGTGTAGAGCGACCAAATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTT
1 AAAATCGGTATAGAGCAACCAAATATATTGAAAGTGTCGATACATTAATATAAGTATCAACACTT
* *
4782152 TGTGAATTTAAAAGAGAAACAATTTTAGAGTCTATAAAGTGTCGATACTTTATAACAATGTATCG
66 TGTGAATTTAAAAGAGAAACAATTTTAGAGCCTATAAAGTGTCGATACTTTATAAAAATGTATCG
4782217 ATCCACAACGATATAACAAGTAAAAATATGAC
131 ATCCACAACGATATAACAAGTAAAAATATGAC
* *
4782249 AAAATCGGTATAGAGCAATCGAATATATTGAAAGTGTCGATACATTAATATAAGTATCAACACTT
1 AAAATCGGTATAGAGCAACCAAATATATTGAAAGTGTCGATACATTAATATAAGTATCAACACTT
* * * *
4782314 TGTGGATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTATAAAAATGTATCG
66 TGTGAATTTAAAAGAGAAACAATTTTAGAGCCTATAAAGTGTCGATACTTTATAAAAATGTATCG
*
4782379 ATCCATAACGATATAACAAGTAAAAATATGAC
131 ATCCACAACGATATAACAAGTAAAAATATGAC
4782411 AAAA
1 AAAA
4782415 CTGGTCTCGA
Statistics
Matches: 153, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
162 153 1.00
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (162 bp):
AAAATCGGTATAGAGCAACCAAATATATTGAAAGTGTCGATACATTAATATAAGTATCAACACTT
TGTGAATTTAAAAGAGAAACAATTTTAGAGCCTATAAAGTGTCGATACTTTATAAAAATGTATCG
ATCCACAACGATATAACAAGTAAAAATATGAC
Found at i:4785002 original size:33 final size:33
Alignment explanation
Indices: 4784965--4785031 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
4784955 AAATAGATGG
4784965 AGTGGTGAAAGAAGTTAAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTTAAGGTGTTGAGGGGTGA
*
4784998 AGTGGTGAAAGAAGTTGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTTAAGGTGTTGAGGGGTGA
4785031 A
1 A
4785032 CTTAAGATGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.00, G:0.46, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTTAAGGTGTTGAGGGGTGA
Found at i:4787537 original size:213 final size:206
Alignment explanation
Indices: 4787157--4788130 Score: 1033
Period size: 200 Copynumber: 4.8 Consensus size: 206
4787147 GTAAGCAGAT
*
4787157 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * * ** * * * **
4787222 GGTAATTTTGTAATATAACTGGTATAAATGTACCAGTTTTATGTGAGAATATATCTACATAATGT
66 GGTAAATTTGCAATGTAACCAGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGT
* * * *
4787287 ATCAACACTTTTGAAATTGGTGTTGATACTTTTTGTCCGGAATGAATGTCCAGAATGAATGCCCA
131 ATCAACACTTGTGTAATTTGTGTCGATAC-TTTTGTCC---ATG-ATG-CCAGAA-GAATGCCCA
* *
4787352 AAATGGTGAACGCATAAA
189 AAATGGTGCACCCATAAA
* * *
4787370 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAATATTGAAACTCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
*
4787435 GGTAAATTTACAATGTAACCAGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGT
66 GGTAAATTTGCAATGTAACCAGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGT
* * * *
4787500 ATCAACACTTATGGAATTTGTGTCGATACTGTTTGTCCA-GA----AG--GAATGCCTAAAAGGG
131 ATCAACACTTGTGTAATTTGTGTCGATACT-TTTGTCCATGATGCCAGAAGAATGCCCAAAATGG
*
4787558 TGCACCCATTAA
195 TGCACCCATAAA
* * * * * *
4787570 GTGTCAATACATTTTTTAAAAGTGTCGATCCCAGAGACATTGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * ** *
4787635 GGTAATTTTGTAATGTAACCAGTATAAATATACCAATTTTATGTGAGAATAGGTCTACATAATGT
66 GGTAAATTTGCAATGTAACCAGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGT
* * * * *
4787700 ATCGACACTT-TTTAATTTTGTATCGATACATTT-T---T--T-CCAGAATAAATGCCCAAAAAA
131 ATCAACACTTGTGTAA-TTTGTGTCGATACTTTTGTCCATGATGCCAGAA-GAATGCCC---AAA
* *
4787757 ATGGTGCACGCAAAAA
191 ATGGTGCACCCATAAA
* *
4787773 GTGTCGGTACATTTATAAAAAGTATCGATCCCAGAAATATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * *
4787838 GGT-AATTGTTCAATGTAACCAGTATAAATATACCGGTTTTATGAGAGAATAGGTCTAGAAAATG
66 GGTAAATT-TGCAATGTAACCAGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATG
* * * *
4787902 TATCAACACTTGTGTATTTTGTTTCGATAC-TTT-T---TG-T-CCAGAATGAATACCCAAAAAG
130 TATCAACACTTGTGTAATTTGTGTCGATACTTTTGTCCATGATGCCAGAA-GAATGCCCAAAATG
4787960 GATGCACCCATAAA
194 G-TGCACCCATAAA
* * * * * **
4787974 GTGTCGATATATTTTTAAAAAGTGTCGATCTCAAAAACATCGAAACAAATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * * *
4788039 GGTAAATTT-CAATGTAACCGGTATAAATATACCGGTTTTATAAGAGAATAGGTCTAGAAAATGT
66 GGTAAATTTGCAATGTAACCAGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGT
* * *
4788103 ATCGATACTTGTGTATTTTGTGTCGATA
131 ATCAACACTTGTGTAATTTGTGTCGATA
4788131 TATTTTTAAA
Statistics
Matches: 657, Mismatches: 87, Indels: 47
0.83 0.11 0.06
Matches are distributed among these distances:
197 2 0.00
198 1 0.00
199 6 0.01
200 250 0.38
201 70 0.11
202 12 0.02
203 162 0.25
204 3 0.00
208 1 0.00
209 1 0.00
210 1 0.00
212 1 0.00
213 147 0.22
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (206 bp):
GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
GGTAAATTTGCAATGTAACCAGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGT
ATCAACACTTGTGTAATTTGTGTCGATACTTTTGTCCATGATGCCAGAAGAATGCCCAAAATGGT
GCACCCATAAA
Found at i:4787931 original size:403 final size:400
Alignment explanation
Indices: 4787335--4788137 Score: 1162
Period size: 403 Copynumber: 2.0 Consensus size: 400
4787325 GGAATGAATG
* *
4787335 TCCAGAATGAATGCCCAAAATGGTGAACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATC
1 TCCAGAATAAATGCCCAAAATGGTGAACGCAAAAAGTGTCGATACATTTATAAAAAGTATCGATC
* *
4787400 CCAGAAATATTGAAACTCATAATTATAATGTAATAGGTAAATTTACAATGTAACCAGTATAAATA
66 CCAGAAATATCGAAACCCATAATTATAATGTAATAGGTAAATTTACAATGTAACCAGTATAAATA
*
4787465 TACCGGTTTTATGAGAGAATAGGTCTACATAATGTATCAACACTTATGGAATTTGTGTCGATACT
131 TACCGGTTTTATGAGAGAATAGGTCTACAAAATGTATCAACACTTATGGAATTTGTGTCGATACT
* * * * *
4787530 GTTTGTCCAGAAGGAAT-GCCTAAAAGGGTGCACCCATTAAGTGTCAATACATTTTTTAAAAGTG
196 GTTTGTCCAGAAGGAATACCCAAAAAGGATGCACCCATAAAGTGTCAATACATTTTTAAAAAGTG
* * * ** * *
4787594 TCGATCCCAGAGACATTGAAACCCATAATTATAATGTAATAGGTAATTTTGTAATGTAACCAGTA
261 TCGATCCCAAAAACATCGAAACAAATAATTATAATGTAATAGGTAAATTT-CAATGTAACCAGTA
** * *
4787659 TAAATATACCAATTTTATGTGAGAATAGGTCTACATAATGTATCGACACTT-TTTAATTTTGTAT
325 TAAATATACCAATTTTATAAGAGAATAGGTCTACAAAATGTATCGACACTTGTGT-ATTTTGTAT
4787723 CGATACATTTTT
389 CGATACATTTTT
* *
4787735 TCCAGAATAAATGCCCAAAAAAATGGTGCACGCAAAAAGTGTCGGTACATTTATAAAAAGTATCG
1 TCCAGAATAAATGCCC---AAAATGGTGAACGCAAAAAGTGTCGATACATTTATAAAAAGTATCG
*
4787800 ATCCCAGAAATATCGAAACCCATAATTATAATGTAATAGGT-AATTGTTCAATGTAACCAGTATA
63 ATCCCAGAAATATCGAAACCCATAATTATAATGTAATAGGTAAATT-TACAATGTAACCAGTATA
* * * * *
4787864 AATATACCGGTTTTATGAGAGAATAGGTCTAGAAAATGTATCAACACTTGTGTATTTTGTTTCGA
127 AATATACCGGTTTTATGAGAGAATAGGTCTACAAAATGTATCAACACTTATGGAATTTGTGTCGA
* * * *
4787929 TACTTTTTGTCCAGAATGAATACCCAAAAAGGATGCACCCATAAAGTGTCGATATATTTTTAAAA
192 TACTGTTTGTCCAGAAGGAATACCCAAAAAGGATGCACCCATAAAGTGTCAATACATTTTTAAAA
* *
4787994 AGTGTCGATCTCAAAAACATCGAAACAAATAATTATAATGTAATAGGTAAATTTCAATGTAACCG
257 AGTGTCGATCCCAAAAACATCGAAACAAATAATTATAATGTAATAGGTAAATTTCAATGTAACCA
** * *
4788059 GTATAAATATACCGGTTTTATAAGAGAATAGGTCTAGAAAATGTATCGATACTTGTGTATTTTGT
322 GTATAAATATACCAATTTTATAAGAGAATAGGTCTACAAAATGTATCGACACTTGTGTATTTTGT
* *
4788124 GTCGATATATTTTT
387 ATCGATACATTTTT
4788138 AAAAAATGTC
Statistics
Matches: 356, Mismatches: 41, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
400 15 0.04
402 4 0.01
403 252 0.71
404 85 0.24
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (400 bp):
TCCAGAATAAATGCCCAAAATGGTGAACGCAAAAAGTGTCGATACATTTATAAAAAGTATCGATC
CCAGAAATATCGAAACCCATAATTATAATGTAATAGGTAAATTTACAATGTAACCAGTATAAATA
TACCGGTTTTATGAGAGAATAGGTCTACAAAATGTATCAACACTTATGGAATTTGTGTCGATACT
GTTTGTCCAGAAGGAATACCCAAAAAGGATGCACCCATAAAGTGTCAATACATTTTTAAAAAGTG
TCGATCCCAAAAACATCGAAACAAATAATTATAATGTAATAGGTAAATTTCAATGTAACCAGTAT
AAATATACCAATTTTATAAGAGAATAGGTCTACAAAATGTATCGACACTTGTGTATTTTGTATCG
ATACATTTTT
Found at i:4789754 original size:6 final size:6
Alignment explanation
Indices: 4789717--4789750 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
4789707 TAAGAGGTCA
* *
4789717 ATGAAG ATGAAG ATGACG ATGAAG ATGATG ATGA
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGA
4789751 TGATTATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.44, C:0.03, G:0.32, T:0.21
Consensus pattern (6 bp):
ATGAAG
Found at i:4791127 original size:24 final size:24
Alignment explanation
Indices: 4791082--4791129 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
4791072 ATGTAATTGG
* *
4791082 AGTTTGAATTTAAATTTCAATTTC
1 AGTTTGAATTTAAATATAAATTTC
*
4791106 AGTTTGAATTTCAATATAAATTTC
1 AGTTTGAATTTAAATATAAATTTC
4791130 GACTCCACTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.48
Consensus pattern (24 bp):
AGTTTGAATTTAAATATAAATTTC
Found at i:4791866 original size:148 final size:149
Alignment explanation
Indices: 4791593--4791872 Score: 411
Period size: 149 Copynumber: 1.9 Consensus size: 149
4791583 TATCTATCCA
* * *
4791593 AAAAACATCGAAACCGAAAATTATAATGTAATAGGTAAATTTACAATGTAACTGGTATAAATATA
1 AAAAACATCGAAACCGAAAATTATAATGTAATAGGTAAATTTACAATGTAACCGATATAAACATA
** * * *
4791658 TCGGTTTTATGAGAAAATATGTATACATAATGTATCGTCACTGTTTAAATTTGTGTCGATACATT
66 TCCATTTTATAAGAAAATAGGTATACATAATGTATCGACACTGTTTAAATTTGTGTCGATACATT
4791723 TTTAAAAAGCATCAATCTC
131 TTTAAAAAGCATCAATCTC
* * * *
4791742 AAAAATATCGAAACCGATAATTATAATGTAATAGGTAAATTTATAATGTAACCGATATAAGCATA
1 AAAAACATCGAAACCGAAAATTATAATGTAATAGGTAAATTTACAATGTAACCGATATAAACATA
* *
4791807 -CCATTTTATAAGAAAATAGGTGA-ACATAATGTATCGACACTTTTTAGATTTGTGTCGATACAT
66 TCCATTTTATAAGAAAATAGGT-ATACATAATGTATCGACACTGTTTAAATTTGTGTCGATACAT
4791870 TTT
130 TTT
4791873 GTCCAGAATG
Statistics
Matches: 116, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
148 57 0.49
149 59 0.51
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (149 bp):
AAAAACATCGAAACCGAAAATTATAATGTAATAGGTAAATTTACAATGTAACCGATATAAACATA
TCCATTTTATAAGAAAATAGGTATACATAATGTATCGACACTGTTTAAATTTGTGTCGATACATT
TTTAAAAAGCATCAATCTC
Found at i:4791999 original size:347 final size:347
Alignment explanation
Indices: 4791362--4792074 Score: 972
Period size: 347 Copynumber: 2.1 Consensus size: 347
4791352 TTCCCATAAA
* * *
4791362 GTGTCGATACATTTTTAAAAAGTATCGATCCAAAAAACATCGAAACTGAAAATTATAATGTAATA
1 GTGTCGATACATTTTTAAAAAGCATCAATCCAAAAAACATCGAAACCGAAAATTATAATGTAATA
* * * * * * *
4791427 GGTAAATTTACAATGTGACCGGTATAAATATACTGATTTTATGAGCAAATAGGTCAGCATAAAGT
66 GGTAAATTTACAATGTAACCGATATAAACATACTCATTTTATAAGAAAATAGGTCAACATAAAGT
* ** * * *
4791492 ATCAACACATTTTAAATTTGTGTCGATACTTTTTGTCCGAGCCTTTGCTCAACGAGCTTCACGCA
131 ATCAACACATTTTAAATTTGTGTCGATACATTTTGTCCGAGAATATGCACAACGAGCTGCACGCA
* ** *
4791557 TAAAAGTGTCGATACATTTAAAATTGTATCTATCCAAAAAACATCGAAACCGAAAATTATAATGT
196 TAAAAGTGTCAATACATTTAAAAAAGTATCGATCCAAAAAACATCGAAACCGAAAATTATAATGT
*
4791622 AATAGGTAAATTTACAATGTAACTGGTATAAATATATCGGTTTTATGAGAAAATATG-TATACAT
261 AATAGGTAAATTTACAATGTAACTGGTATAAATATACCGGTTTTATGAGAAAATATGTTA-ACAT
*
4791686 AATGTATCGTCACTGTTTAAATTT
325 AATGTATCGACACT-TTTAAATTT
* *
4791710 GTGTCGATACATTTTTAAAAAGCATCAATCTC-AAAAATATCGAAACCGATAATTATAATGTAAT
1 GTGTCGATACATTTTTAAAAAGCATCAATC-CAAAAAACATCGAAACCGAAAATTATAATGTAAT
* * * *
4791774 AGGTAAATTTATAATGTAACCGATATAAGCATAC-CATTTTATAAGAAAATAGGTGAACATAATG
65 AGGTAAATTTACAATGTAACCGATATAAACATACTCATTTTATAAGAAAATAGGTCAACATAAAG
* * * * * *
4791838 TATCGACACTTTTTAGATTTGTGTCGATACATTTTGTCC-AGAATGAATGCAGAATG-GGTGCAC
130 TATCAACACATTTTAAATTTGTGTCGATACATTTTGTCCGAGAAT--ATGCACAACGAGCTGCAC
* *
4791901 GTAT-AAAGTGTCAATACATTTATAAAAAGTATCGATTCAAAAAACATCGAAACCGAAAATTATA
193 GCATAAAAGTGTCAATACATTTA-AAAAAGTATCGATCCAAAAAACATCGAAACCGAAAATTATA
4791965 ATGTAATAGGTAAATTTACAATGTAA-TCGGTATAAATATACCGGTTTTATGAGAAAATATGTTA
257 ATGTAATAGGTAAATTTACAATGTAACT-GGTATAAATATACCGGTTTTATGAGAAAATATGTTA
*
4792029 ACATAGTGTATCGACACTTTTAAATTT
321 ACATAATGTATCGACACTTTTAAATTT
*
4792056 GTGTCGATACGTTTTTAAA
1 GTGTCGATACATTTTTAAA
4792075 TTACGTGTTT
Statistics
Matches: 321, Mismatches: 38, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
346 48 0.15
347 178 0.55
348 94 0.29
349 1 0.00
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (347 bp):
GTGTCGATACATTTTTAAAAAGCATCAATCCAAAAAACATCGAAACCGAAAATTATAATGTAATA
GGTAAATTTACAATGTAACCGATATAAACATACTCATTTTATAAGAAAATAGGTCAACATAAAGT
ATCAACACATTTTAAATTTGTGTCGATACATTTTGTCCGAGAATATGCACAACGAGCTGCACGCA
TAAAAGTGTCAATACATTTAAAAAAGTATCGATCCAAAAAACATCGAAACCGAAAATTATAATGT
AATAGGTAAATTTACAATGTAACTGGTATAAATATACCGGTTTTATGAGAAAATATGTTAACATA
ATGTATCGACACTTTTAAATTT
Found at i:4792058 original size:198 final size:198
Alignment explanation
Indices: 4791710--4792070 Score: 528
Period size: 198 Copynumber: 1.8 Consensus size: 198
4791700 GTTTAAATTT
* * * *
4791710 GTGTCGATACATTTTTAAAAAGCATCAATCTCAAAAATATCGAAACCGATAATTATAATGTAATA
1 GTGTCAATACATTTATAAAAAGCATCAATCTCAAAAACATCGAAACCGAAAATTATAATGTAATA
* *
4791775 GGTAAATTTATAATGTAACCGATATAAGCATACCATTTTATAAGAAAATAGGTGAACATAATGTA
66 GGTAAATTTACAATGTAACCGATATAAACATACCATTTTATAAGAAAATAGGTGAACATAATGTA
*
4791840 TCGACACTTTTTAGATTTGTGTCGATACATTTTGTCCAGAATGAATGCAGAATGGGTGCACGTAT
131 TCGACACTTTTTAAATTTGTGTCGATACATTTTGTCCAGAATGAATGCAGAATGGGTGCACGTAT
4791905 AAA
196 AAA
* *
4791908 GTGTCAATACATTTATAAAAAGTATCGAT-TCAAAAAACATCGAAACCGAAAATTATAATGTAAT
1 GTGTCAATACATTTATAAAAAGCATCAATCTC-AAAAACATCGAAACCGAAAATTATAATGTAAT
* * * * * * * *
4791972 AGGTAAATTTACAATGTAATCGGTATAAATATACCGGTTTTATGAGAAAATATGTTAACATAGTG
65 AGGTAAATTTACAATGTAACCGATATAAACATACC-ATTTTATAAGAAAATAGGTGAACATAATG
*
4792037 TATCGACAC-TTTTAAATTTGTGTCGATACGTTTT
129 TATCGACACTTTTTAAATTTGTGTCGATACATTTT
4792071 TAAATTACGT
Statistics
Matches: 143, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
197 2 0.01
198 108 0.76
199 33 0.23
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.33
Consensus pattern (198 bp):
GTGTCAATACATTTATAAAAAGCATCAATCTCAAAAACATCGAAACCGAAAATTATAATGTAATA
GGTAAATTTACAATGTAACCGATATAAACATACCATTTTATAAGAAAATAGGTGAACATAATGTA
TCGACACTTTTTAAATTTGTGTCGATACATTTTGTCCAGAATGAATGCAGAATGGGTGCACGTAT
AAA
Found at i:4795220 original size:17 final size:17
Alignment explanation
Indices: 4795165--4795229 Score: 64
Period size: 17 Copynumber: 3.9 Consensus size: 17
4795155 GAAATATAAG
*
4795165 TTCAAAC-ATCCATAAA
1 TTCAAACAATCCAAAAA
*
4795181 TTCAAACAAATTC--AAA
1 TTCAAAC-AATCCAAAAA
*
4795197 GTCAAACAATCCAAAAA
1 TTCAAACAATCCAAAAA
*
4795214 TTCAAACATTCCAAAA
1 TTCAAACAATCCAAAA
4795230 TATCCAAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
15 4 0.10
16 16 0.40
17 17 0.43
18 3 0.08
ACGTcount: A:0.54, C:0.23, G:0.02, T:0.22
Consensus pattern (17 bp):
TTCAAACAATCCAAAAA
Found at i:4795516 original size:18 final size:18
Alignment explanation
Indices: 4795495--4795533 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
4795485 GCATTTGATA
*
4795495 CTCTGGACGAGGTTGTTC
1 CTCTGGACGAGCTTGTTC
* *
4795513 CTCTGGAGGTGCTTGTTC
1 CTCTGGACGAGCTTGTTC
4795531 CTC
1 CTC
4795534 GTGTTGCTCT
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:0.08, C:0.26, G:0.31, T:0.36
Consensus pattern (18 bp):
CTCTGGACGAGCTTGTTC
Found at i:4797136 original size:21 final size:20
Alignment explanation
Indices: 4797110--4797171 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 20
4797100 ACAAAACCTC
4797110 CAGGGGGTATCGATTCCCTT
1 CAGGGGGTATCGATTCCCTT
* *
4797130 ACAGGGGGAATCGGTTCCCCTT
1 -CAGGGGGTATCGATT-CCCTT
4797152 CAAGGGGGTATCGATTCCCT
1 C-AGGGGGTATCGATTCCCT
4797172 CCGCACCAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
21 18 0.51
22 17 0.49
ACGTcount: A:0.18, C:0.26, G:0.31, T:0.26
Consensus pattern (20 bp):
CAGGGGGTATCGATTCCCTT
Found at i:4797150 original size:22 final size:21
Alignment explanation
Indices: 4797110--4797170 Score: 79
Period size: 22 Copynumber: 2.9 Consensus size: 21
4797100 ACAAAACCTC
4797110 CAGGGGGTATCGATT-CCCTT
1 CAGGGGGTATCGATTCCCCTT
* *
4797130 ACAGGGGGAATCGGTTCCCCTT
1 -CAGGGGGTATCGATTCCCCTT
4797152 CAAGGGGGTATCGATTCCC
1 C-AGGGGGTATCGATTCCC
4797171 TCCGCACCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 14 0.41
22 20 0.59
ACGTcount: A:0.18, C:0.26, G:0.31, T:0.25
Consensus pattern (21 bp):
CAGGGGGTATCGATTCCCCTT
Found at i:4801988 original size:17 final size:17
Alignment explanation
Indices: 4801935--4802000 Score: 59
Period size: 16 Copynumber: 4.1 Consensus size: 17
4801925 GAAATATAAG
*
4801935 TTCAAAC-ATCCATAAA
1 TTCAAACAATCCACAAA
*
4801951 TTCAAACAAAT--TCAAA
1 TTCAAAC-AATCCACAAA
*
4801967 GTCAAACAATCCACAAA
1 TTCAAACAATCCACAAA
*
4801984 TTCAAACATTCCA-AAA
1 TTCAAACAATCCACAAA
4802000 T
1 T
4802001 ATCCAAAATG
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
15 3 0.08
16 20 0.50
17 15 0.38
18 2 0.05
ACGTcount: A:0.52, C:0.24, G:0.02, T:0.23
Consensus pattern (17 bp):
TTCAAACAATCCACAAA
Found at i:4803933 original size:23 final size:22
Alignment explanation
Indices: 4803882--4803964 Score: 105
Period size: 22 Copynumber: 3.8 Consensus size: 22
4803872 CAGAACCTCC
* *
4803882 AGGGGGTATCGATT-CCCTTAC
1 AGGGGGAATCGATTCCCCTTAA
*
4803903 AGGGGGAATCGGTTCCCCTTGAA
1 AGGGGGAATCGATTCCCCTT-AA
*
4803926 AGGGGGAATCGATTCCCCTTCA
1 AGGGGGAATCGATTCCCCTTAA
*
4803948 AGGGGGTATCGATTCCC
1 AGGGGGAATCGATTCCC
4803965 TCTGCACCAA
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.22
22 22 0.41
23 20 0.37
ACGTcount: A:0.20, C:0.24, G:0.31, T:0.24
Consensus pattern (22 bp):
AGGGGGAATCGATTCCCCTTAA
Found at i:4807792 original size:22 final size:21
Alignment explanation
Indices: 4807750--4807789 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4807740 GAGTTTATTT
*
4807750 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
4807771 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
4807790 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:4811425 original size:196 final size:196
Alignment explanation
Indices: 4811072--4811504 Score: 579
Period size: 196 Copynumber: 2.2 Consensus size: 196
4811062 TGTCCATAAT
*
4811072 ATAAAGTGTCGATATATTTATTAAAAGTATCGATCCCAATAACATCGAAACCGATAATTATCATG
1 ATAAAGTGTCGATACATTTATTAAAAGTATCGAT-CC-A-AACATCGAAACCGATAATTATCATG
* * * * *
4811137 TAATAGATAAATTTACAATGTAACTGGTATAAATATATCGGTTTTATAAGAAAATAGGTCAGCAT
63 TAATAGATAAATTTACAATGTAACCGATAGAAATATACCGGTTTTATAAGAAAATAGGTCAGAAT
* * *
4811202 AAAGTATCGACACCATTTAAATTTGTGTCGATACTTTTTGTCCATAATGAATGTCAAACGGGGTG
128 AAAGTATCGACACCATTTAAATTTGTGTCGATACTTTTT-TCCAGAATGAATGGCAAACGAGGTG
4811267 CACGC
192 CACGC
* *
4811272 ATAAAGTGTCGATACATTTATTAAAAGTATCGATCCAAACATCGAAATCGATAATTA-CAATGTG
1 ATAAAGTGTCGATACATTTATTAAAAGTATCGATCCAAACATCGAAACCGATAATTATC-ATGTA
* * *
4811336 ATAGGTAAATTTACAATGT-ACCGATAGAAATATACCGGTTTTATGAGAAAATATGTCTA-AATA
65 ATAGATAAATTTACAATGTAACCGATAGAAATATACCGGTTTTATAAGAAAATAGGTC-AGAATA
* ** * *
4811399 ATGTATCGACACTTTTTAAGTTTGTGTCGATACTTTTTTCCAGAATGAATGGCCAACGAGGTGCA
129 AAGTATCGACACCATTTAAATTTGTGTCGATACTTTTTTCCAGAATGAATGGCAAACGAGGTGCA
*
4811464 TGC
194 CGC
*
4811467 ATAAAGTGTCGATACATTTA--AAATTGTATCGATCCAAA
1 ATAAAGTGTCGATACATTTATTAAA-AGTATCGATCCAAA
4811505 AAATATATAA
Statistics
Matches: 209, Mismatches: 21, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
193 3 0.01
194 13 0.06
195 45 0.22
196 70 0.33
197 42 0.20
198 1 0.00
199 2 0.01
200 33 0.16
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (196 bp):
ATAAAGTGTCGATACATTTATTAAAAGTATCGATCCAAACATCGAAACCGATAATTATCATGTAA
TAGATAAATTTACAATGTAACCGATAGAAATATACCGGTTTTATAAGAAAATAGGTCAGAATAAA
GTATCGACACCATTTAAATTTGTGTCGATACTTTTTTCCAGAATGAATGGCAAACGAGGTGCACG
C
Found at i:4811668 original size:87 final size:87
Alignment explanation
Indices: 4811573--4811822 Score: 437
Period size: 87 Copynumber: 2.9 Consensus size: 87
4811563 AAATAGGTCA
*
4811573 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACATATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
4811638 CCGGTTAAATGTCTATTTTATT
66 CCGGTTAAATGTCTATTTTATT
4811660 ATATAAGCGCTACATATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACATATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
*
4811725 CCAGTTAAATGTCTATTTTATT
66 CCGGTTAAATGTCTATTTTATT
* * * *
4811747 ATATAAGTGCTACATATTACATTATATAAACGCTACCTAATATTTTATTGTACTTAATAATATTT
1 ATATAAGCGCTACATATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
*
4811812 TCGGTTAAATG
66 CCGGTTAAATG
4811823 ATATAACATA
Statistics
Matches: 155, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 155 1.00
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (87 bp):
ATATAAGCGCTACATATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
CCGGTTAAATGTCTATTTTATT
Found at i:4811707 original size:23 final size:23
Alignment explanation
Indices: 4811657--4811701 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
4811647 TGTCTATTTT
*
4811657 ATTATATAAGCGCTACATATTAC
1 ATTATATAAGCGCTACATAATAC
*
4811680 ATTATATAAGCGCTACCTAATA
1 ATTATATAAGCGCTACATAATA
4811702 TGTTATTGTA
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:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (23 bp):
ATTATATAAGCGCTACATAATAC
Found at i:4812490 original size:2 final size:2
Alignment explanation
Indices: 4812485--4812557 Score: 139
Period size: 2 Copynumber: 37.0 Consensus size: 2
4812475 TTTTATTACC
4812485 AT AT AT A- 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
4812526 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
4812558 TTCTTCATAT
Statistics
Matches: 70, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 69 0.99
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4828746 original size:20 final size:21
Alignment explanation
Indices: 4828700--4828760 Score: 79
Period size: 20 Copynumber: 2.9 Consensus size: 21
4828690 TTCCCCTGTG
4828700 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TCAAA
4828723 GGGGGAATCGGTTCCCTC-AA
1 GGGGGAATCGGTTCCCTCAAA
* *
4828743 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
4828761 TGCACCAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 18 0.50
21 2 0.06
22 3 0.08
23 13 0.36
ACGTcount: A:0.18, C:0.26, G:0.34, T:0.21
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:4838622 original size:22 final size:20
Alignment explanation
Indices: 4838597--4838643 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
4838587 TTCTTCATCC
*
4838597 AATAAAATAATTAAGTGAAAAA
1 AATAAAATAA-TAA-TAAAAAA
*
4838619 AATAAAGTAATAATAAAAAA
1 AATAAAATAATAATAAAAAA
4838639 AATAA
1 AATAA
4838644 GAAAAGATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 11 0.48
21 3 0.13
22 9 0.39
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.21
Consensus pattern (20 bp):
AATAAAATAATAATAAAAAA
Found at i:4839073 original size:60 final size:61
Alignment explanation
Indices: 4838990--4839119 Score: 165
Period size: 60 Copynumber: 2.2 Consensus size: 61
4838980 TTGTATTATA
* * * **
4838990 CATCCTCAAAGTGTGACACTCATTTTAAATTGGTCTCCAAA-CTTTTGAATATTTTAATTT
1 CATCCTCAAACTATGACACTCATTTTAAATTGGTCTCCAAAGCTTTTGAACATTCCAATTT
** * *
4839050 CATCCTCAAACTATGACTTTCATTTTCAATTGGTCTCCAAAGTTTTTGAACATTCCAATTT
1 CATCCTCAAACTATGACACTCATTTTAAATTGGTCTCCAAAGCTTTTGAACATTCCAATTT
4839111 CAT-CTCAAA
1 CATCCTCAAA
4839120 TTATATGTAG
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
60 42 0.70
61 18 0.30
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.40
Consensus pattern (61 bp):
CATCCTCAAACTATGACACTCATTTTAAATTGGTCTCCAAAGCTTTTGAACATTCCAATTT
Found at i:4839814 original size:24 final size:23
Alignment explanation
Indices: 4839778--4839823 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
4839768 TTAAACTTTC
* *
4839778 ATAATAGTTATTAAATCTTATTTG
1 ATAATAGTAATT-AATATTATTTG
4839802 ATAATAGTAATTAATATTATTT
1 ATAATAGTAATTAATATTATTT
4839824 TTTGTTCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (23 bp):
ATAATAGTAATTAATATTATTTG
Found at i:4842622 original size:20 final size:20
Alignment explanation
Indices: 4842597--4842642 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
4842587 TAAAAAAAAT
4842597 CGATTTAGCTTACGATTGTA
1 CGATTTAGCTTACGATTGTA
4842617 CGATTTAGCTTACGATTGTA
1 CGATTTAGCTTACGATTGTA
4842637 CGATTT
1 CGATTT
4842643 TCGTGCAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (20 bp):
CGATTTAGCTTACGATTGTA
Found at i:4843335 original size:25 final size:22
Alignment explanation
Indices: 4843288--4843331 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
4843278 ACAAGTAACA
4843288 AAGAAAATGAGTATGGGCTTTC
1 AAGAAAATGAGTATGGGCTTTC
4843310 AAGAAGAA-GAGTATGGGCTTTC
1 AAGAA-AATGAGTATGGGCTTTC
4843332 TTCACTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.36, C:0.09, G:0.30, T:0.25
Consensus pattern (22 bp):
AAGAAAATGAGTATGGGCTTTC
Found at i:4844931 original size:60 final size:60
Alignment explanation
Indices: 4844785--4844933 Score: 183
Period size: 60 Copynumber: 2.5 Consensus size: 60
4844775 TGCATGACTA
** * * *
4844785 AAAAGTTTTGGGATCAATTTAGAATGAAAATTATAGTTTGGGGATGAAATTAAAATATTC
1 AAAAGTTTAAGGATCAATTTAGAATGAGAATCATAATTTGGGGATGAAATTAAAATATTC
* * * * *
4844845 AAAAGTTTAAGGACCAATATAGAATGAGAATCATAATTTGGGGATGAATTTAGAATATTT
1 AAAAGTTTAAGGATCAATTTAGAATGAGAATCATAATTTGGGGATGAAATTAAAATATTC
*
4844905 AAAAGTTTGAA-GATCAATTTAAAATGAGA
1 AAAAGTTT-AAGGATCAATTTAGAATGAGA
4844934 GTGAAGATGC
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
60 73 0.97
61 2 0.03
ACGTcount: A:0.44, C:0.04, G:0.19, T:0.32
Consensus pattern (60 bp):
AAAAGTTTAAGGATCAATTTAGAATGAGAATCATAATTTGGGGATGAAATTAAAATATTC
Found at i:4847072 original size:8 final size:8
Alignment explanation
Indices: 4847059--4847092 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
4847049 TAAAAATTAT
4847059 ATTTGAAA
1 ATTTGAAA
4847067 ATTTGAAA
1 ATTTGAAA
4847075 ATATT-AAA
1 AT-TTGAAA
4847083 ATTTGAAA
1 ATTTGAAA
4847091 AT
1 AT
4847093 ATTTAAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 2 0.08
8 20 0.83
9 2 0.08
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (8 bp):
ATTTGAAA
Found at i:4847110 original size:17 final size:17
Alignment explanation
Indices: 4847057--4847100 Score: 72
Period size: 16 Copynumber: 2.6 Consensus size: 17
4847047 AATAAAAATT
4847057 ATATTTGAAAATTTGAAA
1 ATATTT-AAAATTTGAAA
4847075 ATA-TTAAAATTTGAAA
1 ATATTTAAAATTTGAAA
4847091 ATATTTAAAA
1 ATATTTAAAA
4847101 ACTTAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.56
17 8 0.32
18 3 0.12
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.39
Consensus pattern (17 bp):
ATATTTAAAATTTGAAA
Found at i:4847497 original size:17 final size:17
Alignment explanation
Indices: 4847475--4847526 Score: 50
Period size: 19 Copynumber: 2.9 Consensus size: 17
4847465 GCCTCAGTTT
4847475 AATATTTTAAAATTTAA
1 AATATTTTAAAATTTAA
* *
4847492 AATATTATTTTAAATTTTA
1 AATA-T-TTTAAAATTTAA
*
4847511 TATAATTTTAAAATTT
1 AAT-ATTTTAAAATTT
4847527 TGAGAATATT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
17 4 0.14
18 10 0.36
19 13 0.46
20 1 0.04
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
AATATTTTAAAATTTAA
Found at i:4847769 original size:17 final size:17
Alignment explanation
Indices: 4847747--4847780 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
4847737 ATAATTTGAA
4847747 TATATTAAAGATAATTT
1 TATATTAAAGATAATTT
4847764 TATATTAAAGATAATTT
1 TATATTAAAGATAATTT
4847781 CAATTGGGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (17 bp):
TATATTAAAGATAATTT
Done.