Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 167 of 444
Found at i:46093268 original size:23 final size:23
Alignment explanation
Indices: 46093203--46093283 Score: 92
Period size: 23 Copynumber: 3.4 Consensus size: 23
46093193 CTGGAGGCCT
*
46093203 AGCCTCTTTTAATAACTGGGGCCA-A
1 AGCC-CTTTT-ATAACT-GGGACATA
*
46093228 AGCCCTTTCAATAACTGGGACATA
1 AGCCCTTT-TATAACTGGGACATA
*
46093252 AGCCCTTTTATAACTGGGGCATA
1 AGCCCTTTTATAACTGGGACATA
46093275 AGCCCTTTT
1 AGCCCTTTT
46093284 TCACTTCCTT
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
23 27 0.54
24 19 0.38
25 4 0.08
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.30
Consensus pattern (23 bp):
AGCCCTTTTATAACTGGGACATA
Found at i:46093359 original size:20 final size:20
Alignment explanation
Indices: 46093334--46093393 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
46093324 TATGATTACC
46093334 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
46093354 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
46093374 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
46093394 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:46093468 original size:25 final size:25
Alignment explanation
Indices: 46093436--46093483 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
46093426 ATACATAAAC
* * *
46093436 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
46093461 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
46093484 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:46111271 original size:31 final size:31
Alignment explanation
Indices: 46111230--46111293 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
46111220 CCTTTTCATA
*
46111230 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
46111261 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
46111292 TT
1 TT
46111294 ACGTAAACGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:46111535 original size:24 final size:24
Alignment explanation
Indices: 46111484--46111602 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
46111474 GCTTTATCAT
*
46111484 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
46111509 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
46111533 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
46111556 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
46111580 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
46111603 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
23 23 0.26
24 52 0.60
25 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:46111563 original size:47 final size:48
Alignment explanation
Indices: 46111484--46111602 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
46111474 GCTTTATCAT
*
46111484 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCA
* **
46111533 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
46111580 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
46111603 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 44 0.68
48 9 0.14
49 12 0.18
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
Found at i:46111677 original size:20 final size:20
Alignment explanation
Indices: 46111652--46111712 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
46111642 TTATGATTAC
46111652 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
46111672 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
46111692 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
46111712 A
1 A
46111713 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:46111787 original size:25 final size:25
Alignment explanation
Indices: 46111755--46111802 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
46111745 ATACATAAAC
* * *
46111755 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
46111780 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
46111803 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:46113056 original size:27 final size:27
Alignment explanation
Indices: 46113036--46113327 Score: 349
Period size: 27 Copynumber: 10.9 Consensus size: 27
46113026 AGGGTATTTT
*
46113036 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
46113063 AGTAATTTTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
46113090 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
46113117 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
46113144 -GATAATTATGTAAATCG-GGGTAAAAC
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * *
46113170 GGTAATTATGTAAAT-TAGGGGTAAAAC
1 AGTAATTCTGTAAATCGA-GGGTAAAAC
* * *
46113197 GGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
46113224 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
46113251 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
46113278 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
46113305 GGTAATTCTATAAATCGAGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
46113328 CTTTGGTAAT
Statistics
Matches: 235, Mismatches: 23, Indels: 14
0.86 0.08 0.05
Matches are distributed among these distances:
26 24 0.10
27 209 0.89
28 2 0.01
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:46113335 original size:27 final size:27
Alignment explanation
Indices: 46113278--46113527 Score: 220
Period size: 27 Copynumber: 9.3 Consensus size: 27
46113268 AGGGTAAAAC
****
46113278 GGTAATTTTACAAATCGAGGGTAAAAC
1 GGTAATTTTACAAATCGAGGGTATTTT
* * *
46113305 GGTAATTCTATAAATCGAGGGTACTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* *
46113332 GGTAATTTTACAAGTCGAGGGTATTTC
1 GGTAATTTTACAAATCGAGGGTATTTT
** ** *
46113359 AATAATTTTACATGTCGAGGGTATTTC
1 GGTAATTTTACAAATCGAGGGTATTTT
* * *
46113386 AGTAATTTCACAAAT-TAGGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
*
46113412 GGTAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* * *
46113439 GATAATTTTATAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* * *
46113466 GGTAATTTTATAAACCAAGGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* *
46113493 AGTAATTTTACAAAGC-AGGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
46113519 GGTAATTTT
1 GGTAATTTT
46113528 GTAAACCAAA
Statistics
Matches: 190, Mismatches: 30, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
26 41 0.22
27 147 0.77
28 2 0.01
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.39
Consensus pattern (27 bp):
GGTAATTTTACAAATCGAGGGTATTTT
Found at i:46113420 original size:53 final size:51
Alignment explanation
Indices: 46113322--46113527 Score: 180
Period size: 53 Copynumber: 3.9 Consensus size: 51
46113312 CTATAAATCG
* * * *** ** *
46113322 AGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTACATGTCG
1 AGGGTA-TTTAGTAATTTTACAA-ACTAGGGTATTTTGGTAATTTTACA-AACA
* *
46113376 AGGGTATTTCAGTAATTTCACAAATTAGGGTATTTTGGTAATTTTACAAACTA
1 AGGGTATTT-AGTAATTTTACAAACTAGGGTATTTTGGTAATTTTACAAAC-A
* * * *
46113429 GGGGTATTTTGATAATTTTATAAACTAGGGGTATTTTGGTAATTTTATAAACCA
1 AGGGTATTTAG-TAATTTTACAAACTA-GGGTATTTTGGTAATTTTACAAA-CA
46113483 AGGGTATTTTAGTAATTTTACAAAGC-AGGGTATTTTGGTAATTTT
1 AGGGTA-TTTAGTAATTTTACAAA-CTAGGGTATTTTGGTAATTTT
46113528 GTAAACCAAA
Statistics
Matches: 125, Mismatches: 20, Indels: 15
0.78 0.12 0.09
Matches are distributed among these distances:
52 2 0.02
53 60 0.48
54 57 0.46
55 6 0.05
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (51 bp):
AGGGTATTTAGTAATTTTACAAACTAGGGTATTTTGGTAATTTTACAAACA
Found at i:46113541 original size:26 final size:26
Alignment explanation
Indices: 46113402--46113544 Score: 169
Period size: 27 Copynumber: 5.4 Consensus size: 26
46113392 TTCACAAATT
* *
46113402 AGGGTATTTTGGTAATTTTACAAACT
1 AGGGTATTTTGGTAATTTTATAAACC
* *
46113428 AGGGGTATTTTGATAATTTTATAAACT
1 A-GGGTATTTTGGTAATTTTATAAACC
46113455 AGGGGTATTTTGGTAATTTTATAAACC
1 A-GGGTATTTTGGTAATTTTATAAACC
* * *
46113482 AAGGGTATTTTAGTAATTTTACAAAGC
1 -AGGGTATTTTGGTAATTTTATAAACC
*
46113509 AGGGTATTTTGGTAATTTTGTAAACC
1 AGGGTATTTTGGTAATTTTATAAACC
**
46113535 AAAGTATTTT
1 AGGGTATTTT
46113545 AAATGGATAA
Statistics
Matches: 102, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
26 31 0.30
27 70 0.69
28 1 0.01
ACGTcount: A:0.32, C:0.06, G:0.20, T:0.42
Consensus pattern (26 bp):
AGGGTATTTTGGTAATTTTATAAACC
Found at i:46116355 original size:31 final size:31
Alignment explanation
Indices: 46116314--46116377 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
46116304 CCTTTTCATA
*
46116314 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
46116345 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
46116376 TT
1 TT
46116378 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:46116647 original size:23 final size:24
Alignment explanation
Indices: 46116568--46116709 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
46116558 GCTTTATCAT
* *
46116568 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* **
46116593 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTG
46116617 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTG
46116640 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
46116664 ATAACT-GGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
46116687 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
46116710 CACTTCCTCC
Statistics
Matches: 109, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
23 46 0.42
24 51 0.47
25 12 0.11
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:46116709 original size:47 final size:47
Alignment explanation
Indices: 46116568--46116709 Score: 198
Period size: 47 Copynumber: 3.0 Consensus size: 47
46116558 GCTTTATCAT
* * *
46116568 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTT-ATAACTGGGGCATAAGCCCTTTTA
*
46116617 ATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCCCTTTTA
46116664 ATAACT-GGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTT
46116710 CACTTCCTCC
Statistics
Matches: 87, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
46 16 0.18
47 50 0.57
48 9 0.10
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (47 bp):
ATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCCCTTTTA
Found at i:46116783 original size:20 final size:20
Alignment explanation
Indices: 46116758--46116818 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
46116748 TTATGATTAC
46116758 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
46116778 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
46116798 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
46116818 A
1 A
46116819 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:46118302 original size:134 final size:135
Alignment explanation
Indices: 46118143--46118433 Score: 381
Period size: 134 Copynumber: 2.2 Consensus size: 135
46118133 GGGTATTTTA
* * * *
46118143 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATA
1 GTAATTATGTAAATAGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAACAGTAATTCTATA
* ** *
46118208 AA-TCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTATGTAAATC-GGGGT
66 AACT-GAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGATAATTATACAAATCAAGGGT
46118271 AAAACG
130 AAAACG
* * * *
46118277 GTAATTATGTAAATTAG-GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGT
1 GTAATTATGTAAA-TAGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAACAGTAATTCTAT
* * *
46118341 AAACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACAAATCAAGGGT
65 AAACTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGATAATTATACAAATCAAGGGT
46118406 AAAACG
130 AAAACG
* * *
46118412 GTAATTCTATAAATCGAGGGTA
1 GTAATTATGTAAATAGAGGGTA
46118434 CTTTGGTAAT
Statistics
Matches: 135, Mismatches: 18, Indels: 7
0.84 0.11 0.04
Matches are distributed among these distances:
134 106 0.79
135 29 0.21
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (135 bp):
GTAATTATGTAAATAGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAACAGTAATTCTATA
AACTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGATAATTATACAAATCAAGGGTA
AAACG
Found at i:46118444 original size:27 final size:27
Alignment explanation
Indices: 46118143--46118433 Score: 354
Period size: 27 Copynumber: 10.8 Consensus size: 27
46118133 GGGTATTTTA
* * *
46118143 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
46118170 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
*
46118197 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
46118224 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
46118251 ATAATTATGTAAATCG-GGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
46118277 GTAATTATGTAAAT-TAGGGGTAAAACG
1 GTAATTCTATAAATCGA-GGGTAAAACG
**
46118304 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAACG
*
46118331 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTATAAATC-GAGGGTAAAACG
*
46118358 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
46118385 GTAATTTTACAAATCAAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
46118412 GTAATTCTATAAATCGAGGGTA
1 GTAATTCTATAAATCGAGGGTA
46118434 CTTTGGTAAT
Statistics
Matches: 232, Mismatches: 27, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
26 24 0.10
27 206 0.89
28 2 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:46118455 original size:27 final size:27
Alignment explanation
Indices: 46118384--46118633 Score: 213
Period size: 27 Copynumber: 9.3 Consensus size: 27
46118374 AGGGTAAAAC
* ****
46118384 GGTAATTTTACAAATCAAGGGTAAAAC
1 GGTAATTTTACAAATCGAGGGTATTTT
* * *
46118411 GGTAATTCTATAAATCGAGGGTACTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* *
46118438 GGTAATTTTACAAGTCGAGGGTATTTC
1 GGTAATTTTACAAATCGAGGGTATTTT
** **
46118465 AATAATTTTACAGGTCGAGGGTA-TTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* * *
46118491 AGTAATTTCACAAAT-TAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
*
46118518 GGTAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* *
46118545 GATAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* * *
46118572 GGTAATTTTATAAACCAAGGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* *
46118599 AGTAATTTTACAAAGC-AGGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
46118625 GGTAATTTT
1 GGTAATTTT
46118634 GTAAACCAAA
Statistics
Matches: 188, Mismatches: 31, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
25 1 0.01
26 36 0.19
27 149 0.79
28 2 0.01
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.38
Consensus pattern (27 bp):
GGTAATTTTACAAATCGAGGGTATTTT
Found at i:46118471 original size:54 final size:53
Alignment explanation
Indices: 46118170--46118505 Score: 183
Period size: 54 Copynumber: 6.3 Consensus size: 53
46118160 GGGTAAAACA
** * **
46118170 GTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTTTACAAATCAAGGGTAAAACAATAATTCTATAAATCGAGGGT-ATTTG
* * * * * * ***
46118224 GTAATTCTATAAATCGAGGGTAAAACGATAATTATGTAAATCG-GGGTAAAACG
1 GTAATTTTACAAATCAAGGGTAAAACAATAATTCTATAAATCGAGGGT-ATTTG
* ** * * ** ** *
46118277 GTAATTATGTAAATTAGGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTTTACAAATCAAGGGTAAAACAATAATTCTATAAATCGAGGGT-ATTTG
* * ** * ***
46118331 GTAATTCTGTA-AACT-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATT-T-TACAAATCAAGGGTAAAACAATAATTCTATAAATCGAGGGT-ATTTG
**
46118385 GTAATTTTACAAATCAAGGGTAAAACGGTAATTCTATAAATCGAGGGTACTTTG
1 GTAATTTTACAAATCAAGGGTAAAACAATAATTCTATAAATCGAGGGTA-TTTG
* * *** * * ** *
46118439 GTAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAGGTCGAGGGTATTTA
1 GTAATTTTACAAATCAAGGGTAAAACAATAATTCTATAAATCGAGGGTATTTG
*
46118492 GTAATTTCACAAAT
1 GTAATTTTACAAAT
46118506 TAGGGGTATT
Statistics
Matches: 230, Mismatches: 46, Indels: 13
0.80 0.16 0.04
Matches are distributed among these distances:
52 2 0.01
53 64 0.28
54 160 0.70
55 3 0.01
56 1 0.00
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.30
Consensus pattern (53 bp):
GTAATTTTACAAATCAAGGGTAAAACAATAATTCTATAAATCGAGGGTATTTG
Found at i:46118567 original size:80 final size:81
Alignment explanation
Indices: 46118428--46118633 Score: 206
Period size: 80 Copynumber: 2.6 Consensus size: 81
46118418 CTATAAATCG
* * * ** ** *
46118428 AGGGTACTTTGGTAATTTTAC-AAGTCGAGGGTATTTCAATAATTTTACAGGTCGAGGGTA-TTT
1 AGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGATAATTTTACAACTAGAGGGTATTTT
**
46118491 AGTAATTTCACAAATTA
65 AGTAATTTCACAAACCA
*
46118508 GGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACTAG-GGGTATTTT
1 AGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTAC-AACTAGAGGGTATTTT
* * *
46118572 GGTAATTTTATAAACCA
65 AGTAATTTCACAAACCA
* *
46118589 AGGGTATTTTAGTAATTTTACAAAGC-A-GGGTATTTTGGTAATTTT
1 AGGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGATAATTTT
46118634 GTAAACCAAA
Statistics
Matches: 105, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
80 59 0.56
81 45 0.43
82 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (81 bp):
AGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAACTAGAGGGTATTTTA
GTAATTTCACAAACCA
Found at i:46118569 original size:54 final size:54
Alignment explanation
Indices: 46118482--46118650 Score: 204
Period size: 54 Copynumber: 3.2 Consensus size: 54
46118472 TTACAGGTCG
* * * *
46118482 AGGGTATTTAG-TAATTTCACAAATTAGGGGTATTTTGGTAATTTTACAAACTA
1 AGGGTATTTTGATAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCA
* *
46118535 GGGGTATTTTGATAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCA
1 AGGGTATTTTGATAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCA
**
46118589 AGGGTATTTT-AGTAATTTTACAAAGC-A-GGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTGA-TAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACCA
*
46118642 A-AGTATTTT
1 AGGGTATTTT
46118651 AAATAGGGAT
Statistics
Matches: 104, Mismatches: 9, Indels: 7
0.87 0.08 0.06
Matches are distributed among these distances:
52 7 0.07
53 36 0.35
54 60 0.58
55 1 0.01
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.41
Consensus pattern (54 bp):
AGGGTATTTTGATAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCA
Found at i:46118647 original size:26 final size:26
Alignment explanation
Indices: 46118510--46118650 Score: 138
Period size: 27 Copynumber: 5.3 Consensus size: 26
46118500 ACAAATTAGG
* * *
46118510 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTATAAACCA-A
* * * *
46118537 GGTATTTTGATAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTATAAACCA-A
46118564 GGTATTTTGGTAATTTTATAAACCAA
1 GGTATTTTGGTAATTTTATAAACCAA
* * * *
46118590 GGGTATTTTAGTAATTTTACAAAGCAG
1 -GGTATTTTGGTAATTTTATAAACCAA
*
46118617 GGTATTTTGGTAATTTTGTAAACCAA
1 GGTATTTTGGTAATTTTATAAACCAA
*
46118643 AGTATTTT
1 GGTATTTT
46118651 AAATAGGGAT
Statistics
Matches: 98, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
26 28 0.29
27 70 0.71
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.42
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTATAAACCAA
Found at i:46120491 original size:35 final size:35
Alignment explanation
Indices: 46120447--46120518 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
46120437 TTACTTACAA
*
46120447 AAACACAAACCATTTGGTACCAATTGCCATTTTAT
1 AAACACAAACCATTTGGTACCAATTGCCATTCTAT
*
46120482 AAACGCAAACCATTTGGTACCAATTGCCATTCTAT
1 AAACACAAACCATTTGGTACCAATTGCCATTCTAT
46120517 AA
1 AA
46120519 CTAGTATAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.29
Consensus pattern (35 bp):
AAACACAAACCATTTGGTACCAATTGCCATTCTAT
Found at i:46122512 original size:43 final size:43
Alignment explanation
Indices: 46122463--46122607 Score: 168
Period size: 43 Copynumber: 3.4 Consensus size: 43
46122453 TATCCCAAAT
* * * *
46122463 ATGGTCTTACATGTTATCACATATCGATGCCACTGTCCCAGGC
1 ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGAC
* * *
46122506 AGGGTCTTACACGAAATCGA-ATAACGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATC-ACATATCGATGCCAATGTCCCAGAC
**
46122549 ATGGTCTTACACGTAATCACA-ATAAAATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCACATAT-CGATGCCAATGTCCCAGAC
*
46122592 ATGGTCTTACATGTAA
1 ATGGTCTTACACGTAA
46122608 GACCATATAT
Statistics
Matches: 86, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
42 2 0.02
43 83 0.97
44 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGAC
Found at i:46129328 original size:28 final size:28
Alignment explanation
Indices: 46129288--46129344 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
46129278 TTTGTCGAAC
46129288 CTCTTACACATGGCAGTCTCAGTTTACA
1 CTCTTACACATGGCAGTCTCAGTTTACA
*
46129316 CTCTTACACATGGTAGTCTCAGTTTACA
1 CTCTTACACATGGCAGTCTCAGTTTACA
46129344 C
1 C
46129345 AAGGTAGTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.28, G:0.14, T:0.33
Consensus pattern (28 bp):
CTCTTACACATGGCAGTCTCAGTTTACA
Found at i:46137290 original size:24 final size:24
Alignment explanation
Indices: 46137240--46137293 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
46137230 AATCGAATTT
*
46137240 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
46137264 GCACACATAGTGCCATAGT-ACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
46137288 GCACAC
1 GCACAC
46137294 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 5 0.19
26 3 0.11
ACGTcount: A:0.30, C:0.37, G:0.17, T:0.17
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:46138939 original size:46 final size:47
Alignment explanation
Indices: 46138888--46139018 Score: 155
Period size: 46 Copynumber: 2.8 Consensus size: 47
46138878 ATGGTTGAGC
46138888 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T-G
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTC-CTTATGGATG-GAACTAG
* * *
46138935 -TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGA--GATGTAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCCTTATGGATGGAACTA-G
46138980 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTC-CTTATGG
46139019 GCGGGTTACA
Statistics
Matches: 71, Mismatches: 5, Indels: 13
0.80 0.06 0.15
Matches are distributed among these distances:
42 2 0.03
43 5 0.07
45 3 0.04
46 29 0.41
47 29 0.41
48 2 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (47 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCCTTATGGATGGAACTAG
Found at i:46139004 original size:47 final size:46
Alignment explanation
Indices: 46138886--46139011 Score: 152
Period size: 47 Copynumber: 2.7 Consensus size: 46
46138876 GGATGGTTGA
* *
46138886 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GGATGCGAAT
*
46138934 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGA-GATG-TAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGGATGCGAA-T
46138977 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCG
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCG
46139012 CTTATGGGCG
Statistics
Matches: 70, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
42 2 0.03
43 5 0.07
45 3 0.04
46 29 0.41
47 30 0.43
48 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGGATGCGAAT
Found at i:46147938 original size:24 final size:24
Alignment explanation
Indices: 46147888--46147941 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
46147878 TAATCAATTT
*
46147888 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
46147912 GCACACATAGTGCCATAGT-ACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
46147936 GCACAC
1 GCACAC
46147942 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 5 0.19
26 3 0.11
ACGTcount: A:0.30, C:0.37, G:0.17, T:0.17
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:46149867 original size:40 final size:40
Alignment explanation
Indices: 46149823--46149923 Score: 166
Period size: 40 Copynumber: 2.5 Consensus size: 40
46149813 TTGGCTCGGA
* *
46149823 TATAACAACCAGCACGAATGCCTTCGGGACTTAACCCGAT
1 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGAT
* *
46149863 TATAATAACCCGCACGAATGCCTTTGGGACTTAACCCGGT
1 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGAT
46149903 TATAATAACCCGCACGAATGC
1 TATAATAACCCGCACGAATGC
46149924 TATGCACATA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.22
Consensus pattern (40 bp):
TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGAT
Found at i:46156486 original size:57 final size:57
Alignment explanation
Indices: 46156398--46156512 Score: 214
Period size: 57 Copynumber: 2.0 Consensus size: 57
46156388 AATTCCAAAC
46156398 ATTATCCAAAATTTTCATATCACATTAAGAACAATACAAA-TATGTATTTGCAATATA
1 ATTATCCAAAATTTTCATATCACATTAAGAACAATA-AAACTATGTATTTGCAATATA
46156455 ATTATCCAAAATTTTCATATCACATTAAGAACAATAAAACTATGTATTTGCAATATA
1 ATTATCCAAAATTTTCATATCACATTAAGAACAATAAAACTATGTATTTGCAATATA
46156512 A
1 A
46156513 CAAACTTCAT
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
56 3 0.05
57 54 0.95
ACGTcount: A:0.46, C:0.14, G:0.05, T:0.35
Consensus pattern (57 bp):
ATTATCCAAAATTTTCATATCACATTAAGAACAATAAAACTATGTATTTGCAATATA
Found at i:46158462 original size:86 final size:86
Alignment explanation
Indices: 46158312--46158473 Score: 220
Period size: 86 Copynumber: 1.9 Consensus size: 86
46158302 ACACATATCG
* * ** **
46158312 TACAATGTCAATGTCCCAGACGTGGTCTTACGTGTAATCACATGTCGATGCCACTGTCCCAGACA
1 TACAATGCCAATGTCCCAGACATGGTCTTACGTAAAATCACATAACGATGCCACTGTCCCAGACA
46158377 GGGTCTTACACAAATCACAAT
66 GGGTCTTACACAAATCACAAT
*
46158398 TACAATGCCAATGTCCCAGACATGGTCTTAC-TCAAAATCACATAACGATGCCAAC-GTCCTAGA
1 TACAATGCCAATGTCCCAGACATGGTCTTACGT-AAAATCACATAACGATGCC-ACTGTCCCAGA
*
46158461 CATGGTCTTACAC
64 CAGGGTCTTACAC
46158474 GAGAACACAT
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
85 1 0.02
86 63 0.95
87 2 0.03
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (86 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACGTAAAATCACATAACGATGCCACTGTCCCAGACA
GGGTCTTACACAAATCACAAT
Found at i:46158484 original size:43 final size:42
Alignment explanation
Indices: 46158324--46158473 Score: 149
Period size: 43 Copynumber: 3.5 Consensus size: 42
46158314 CAATGTCAAT
* *** **
46158324 GTCCCAGACGTGGTCTTACGTGTAATCACATGTCGATGCC-AC
1 GTCCCAGACATGGTCTTAC-ACAAATCACATAACGATGCCAAC
* * * *
46158366 TGTCCCAGACAGGGTCTTACACAAATCACAATTACAATGCCAAT
1 -GTCCCAGACATGGTCTTACACAAATCAC-ATAACGATGCCAAC
*
46158410 GTCCCAGACATGGTCTTACTCAAAATCACATAACGATGCCAAC
1 GTCCCAGACATGGTCTTACAC-AAATCACATAACGATGCCAAC
*
46158453 GTCCTAGACATGGTCTTACAC
1 GTCCCAGACATGGTCTTACAC
46158474 GAGAACACAT
Statistics
Matches: 88, Mismatches: 16, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
42 6 0.07
43 74 0.84
44 8 0.09
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACAAATCACATAACGATGCCAAC
Found at i:46159618 original size:14 final size:15
Alignment explanation
Indices: 46159601--46159629 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
46159591 GCACGAAAAT
46159601 TTCACACAT-ATAAA
1 TTCACACATAATAAA
46159615 TTCACACATAATAAA
1 TTCACACATAATAAA
46159630 CACTGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:46165537 original size:17 final size:19
Alignment explanation
Indices: 46165495--46165538 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
46165485 ATGAAATTTT
*
46165495 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
46165514 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
46165532 AA-TATTA
1 AATTATTA
46165539 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:46167365 original size:28 final size:28
Alignment explanation
Indices: 46167332--46167400 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
46167322 GCGTAGATCA
46167332 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
46167360 TGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
46167388 CGATA-TACCCCTA
1 CGAAATTACCCCTA
46167401 GAGTTTTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
27 8 0.21
28 30 0.79
ACGTcount: A:0.43, C:0.26, G:0.10, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:46168709 original size:86 final size:86
Alignment explanation
Indices: 46168564--46168723 Score: 209
Period size: 86 Copynumber: 1.9 Consensus size: 86
46168554 ATATCGTACA
* * * * *
46168564 ATGCCAACGTCCTAGACGTGATCTTACATGTAATCACATGTCGATGCCACTGTCCTAGACAG-GG
1 ATGCCAACGTCCCAGACATGATCTTACATGAAATCACATATCGATGCCACTCTCCTAGAC-GTGG
46168628 TCTTACACGAATCACAATTACG
65 TCTTACACGAATCACAATTACG
* *
46168650 ATGCCAATGTCCCAGACATGGTCTTAC-TCGAAATCACATATCGATGCCAAC-CTCCTAGACGTG
1 ATGCCAACGTCCCAGACATGATCTTACAT-GAAATCACATATCGATGCC-ACTCTCCTAGACGTG
46168713 GTCTTACACGA
64 GTCTTACACGA
46168724 GAACACATAT
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
85 2 0.03
86 60 0.94
87 2 0.03
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (86 bp):
ATGCCAACGTCCCAGACATGATCTTACATGAAATCACATATCGATGCCACTCTCCTAGACGTGGT
CTTACACGAATCACAATTACG
Found at i:46168731 original size:43 final size:42
Alignment explanation
Indices: 46168564--46168733 Score: 166
Period size: 43 Copynumber: 4.0 Consensus size: 42
46168554 ATATCGTACA
* * * *
46168564 ATGCCAACGTCCTAGACGTGATCTTACATGTAATCACATGTCG
1 ATGCCAACGTCCTAGACGTGGTCTTACACG-AAACACATATCG
*
46168607 ATGCC-ACTGTCCTAGACAG-GGTCTTACACGAATCACA-ATTACG
1 ATGCCAAC-GTCCTAGAC-GTGGTCTTACACGAAACACATA-T-CG
* * * *
46168650 ATGCCAATGTCCCAGACATGGTCTTACTCGAAATCACATATCG
1 ATGCCAACGTCCTAGACGTGGTCTTACACGAAA-CACATATCG
*
46168693 ATGCCAACCTCCTAGACGTGGTCTTACACGAGAACACATAT
1 ATGCCAACGTCCTAGACGTGGTCTTACACGA-AACACATAT
46168734 GAAAAATCCT
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 10 0.10
43 85 0.81
44 9 0.09
45 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCTAGACGTGGTCTTACACGAAACACATATCG
Found at i:46172536 original size:40 final size:40
Alignment explanation
Indices: 46172481--46172628 Score: 217
Period size: 40 Copynumber: 3.7 Consensus size: 40
46172471 TGAATGATAC
* * *
46172481 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
46172521 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
46172561 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
46172601 CCGGGTTAAGACCCGAAGGCAATTGTGC
1 CCGGGCTAAGACCCGAAGGCATTTGTGC
46172629 TTGTGATTGT
Statistics
Matches: 100, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 98 0.98
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:46174556 original size:46 final size:47
Alignment explanation
Indices: 46174501--46174668 Score: 182
Period size: 46 Copynumber: 3.6 Consensus size: 47
46174491 TCTCATAGCT
*
46174501 GATGCATGTCCCAGACATGTCTTACACTGGCT-TATATCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTATATCTCGAGGCA
* ** * * *
46174547 GATGCATGTCCCAGACATGTCTTACACTAGCTCT-CGTCTCAATGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTATATCTCGAGGCA
* *
46174593 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-AT-GTGGCA
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCT-ATATCTCGAGGCA
* *
46174641 TATGCATGTCCCATACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
46174669 AGAGCACAAA
Statistics
Matches: 101, Mismatches: 16, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
46 52 0.51
47 28 0.28
48 20 0.20
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.30
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTATATCTCGAGGCA
Found at i:46174646 original size:94 final size:91
Alignment explanation
Indices: 46174446--46174671 Score: 262
Period size: 94 Copynumber: 2.4 Consensus size: 91
46174436 AACTATCAAA
* * *
46174446 ATCGAGGCTGACGCCATGTCGCAGACATGGTCTTACACTA-ACACGTCTCATAGCTGATGCATGT
1 ATCGAGGCAGATG-CATGTCCCAGACAT-GTCTTACACTAGACACGTCTCATAGCTGATGCATGT
46174510 CCCAGACATGTCTTACACTGGCTTATAT
64 CCCAGACATGTCTTACACTGGCTTATAT
* * * *
46174538 CTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCA-ATGCTGATGCCATG
1 ATCGAGGCAGATGCATGTCCCAGACATGTCTTACACTAG-ACACGTCTCATA-GCTGATG-CATG
46174602 TCCCAGACATGGTCTTACACTGGCTCTCATA-
63 TCCCAGACAT-GTCTTACACTGGCT-T-ATAT
* * *
46174633 AT-GTGGCATATGCATGTCCCATACATGTCTTACACTAGA
1 ATCGAGGCAGATGCATGTCCCAGACATGTCTTACACTAGA
46174672 GCACAAATGA
Statistics
Matches: 115, Mismatches: 12, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
90 11 0.10
91 14 0.12
92 25 0.22
93 14 0.12
94 46 0.40
95 2 0.02
96 3 0.03
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (91 bp):
ATCGAGGCAGATGCATGTCCCAGACATGTCTTACACTAGACACGTCTCATAGCTGATGCATGTCC
CAGACATGTCTTACACTGGCTTATAT
Found at i:46176502 original size:30 final size:32
Alignment explanation
Indices: 46176470--46176530 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
46176460 TTTTAAATTA
*
46176470 TTTTCACTATTTTAAATA-T-AAATTATTTTAT
1 TTTTCAC-ATTTTAAAAATTAAAATTATTTTAT
*
46176501 TTTTTACATTTTAAAAATTAAAATTATTTT
1 TTTTCACATTTTAAAAATTAAAATTATTTT
46176531 TAAATTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 9 0.35
31 7 0.27
32 10 0.38
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (32 bp):
TTTTCACATTTTAAAAATTAAAATTATTTTAT
Found at i:46177072 original size:19 final size:18
Alignment explanation
Indices: 46177036--46177073 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
46177026 TACACACGAA
46177036 ATATTTAAATACAAATAT
1 ATATTTAAATACAAATAT
* *
46177054 ATATTTTAATA-TAATAT
1 ATATTTAAATACAAATAT
46177071 ATA
1 ATA
46177074 ATAAATAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (18 bp):
ATATTTAAATACAAATAT
Found at i:46179418 original size:11 final size:11
Alignment explanation
Indices: 46179402--46179431 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
46179392 TAACATTAAG
46179402 AATATATATAT
1 AATATATATAT
*
46179413 AATATAAATAT
1 AATATATATAT
46179424 AATATATA
1 AATATATA
46179432 CAATATACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATATATATAT
Found at i:46179525 original size:12 final size:13
Alignment explanation
Indices: 46179508--46179544 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
46179498 GTACTAATGC
46179508 TAATAATAT-TAA
1 TAATAATATATAA
46179520 TAATAA-ATATAA
1 TAATAATATATAA
46179532 TAATAGATATATA
1 TAATA-ATATATA
46179545 TGCATACAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 2 0.09
12 14 0.64
13 1 0.05
14 5 0.23
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (13 bp):
TAATAATATATAA
Found at i:46179983 original size:18 final size:18
Alignment explanation
Indices: 46179948--46180001 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
46179938 CGAAAAAAGG
46179948 AAAAA-AATAAA-AA-AT
1 AAAAATAATAAAGAAGAT
*
46179963 AAAAATAA-AAATAAGAGT
1 AAAAATAATAAAGAAGA-T
46179981 -AAAATAATAAAGAAGAT
1 AAAAATAATAAAGAAGAT
46179998 AAAA
1 AAAA
46180002 TCACCTTTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
15 8 0.25
16 4 0.12
17 9 0.28
18 11 0.34
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (18 bp):
AAAAATAATAAAGAAGAT
Found at i:46179986 original size:17 final size:17
Alignment explanation
Indices: 46179964--46180002 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
46179954 ATAAAAAATA
*
46179964 AAAATAA-AAATAAGAGT
1 AAAATAATAAAGAAGA-T
46179981 AAAATAATAAAGAAGAT
1 AAAATAATAAAGAAGAT
46179998 AAAAT
1 AAAAT
46180003 CACCTTTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.18
Consensus pattern (17 bp):
AAAATAATAAAGAAGAT
Found at i:46180229 original size:15 final size:15
Alignment explanation
Indices: 46180211--46180278 Score: 55
Period size: 15 Copynumber: 4.3 Consensus size: 15
46180201 TTTTTTATCT
46180211 TTTTTTTTGGTTAGG
1 TTTTTTTTGGTTAGG
** ***
46180226 TTTTTCTTTTTTCTTTT
1 TTTTT-TTTGGT-TAGG
46180243 TTTTTTTTGGGTTAGG
1 TTTTTTTT-GGTTAGG
*
46180259 TTTTTTTTGGGTAGG
1 TTTTTTTTGGTTAGG
46180274 TTTTT
1 TTTTT
46180279 CTTTTTCTTT
Statistics
Matches: 39, Mismatches: 11, Indels: 6
0.70 0.20 0.11
Matches are distributed among these distances:
15 16 0.41
16 16 0.41
17 7 0.18
ACGTcount: A:0.04, C:0.03, G:0.21, T:0.72
Consensus pattern (15 bp):
TTTTTTTTGGTTAGG
Found at i:46180262 original size:16 final size:15
Alignment explanation
Indices: 46180243--46180278 Score: 63
Period size: 16 Copynumber: 2.3 Consensus size: 15
46180233 TTTTTCTTTT
46180243 TTTTTTTTGGGTTAGG
1 TTTTTTTTGGG-TAGG
46180259 TTTTTTTTGGGTAGG
1 TTTTTTTTGGGTAGG
46180274 TTTTT
1 TTTTT
46180279 CTTTTTCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.06, C:0.00, G:0.28, T:0.67
Consensus pattern (15 bp):
TTTTTTTTGGGTAGG
Found at i:46180274 original size:48 final size:49
Alignment explanation
Indices: 46180211--46180314 Score: 183
Period size: 49 Copynumber: 2.1 Consensus size: 49
46180201 TTTTTTATCT
*
46180211 TTTTTTTTGGTTAGGTTTTTCTTTTT-TCTTTTTTTTTTTTGGGTTAGG
1 TTTTTTTTGGGTAGGTTTTTCTTTTTCTCTTTTTTTTTTTTGGGTTAGG
*
46180259 TTTTTTTTGGGTAGGTTTTTCTTTTTCTTTTTTTTTTTTTTGGGTTAGG
1 TTTTTTTTGGGTAGGTTTTTCTTTTTCTCTTTTTTTTTTTTGGGTTAGG
46180308 TTTTTTT
1 TTTTTTT
46180315 GGGGGGCTTA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
48 25 0.47
49 28 0.53
ACGTcount: A:0.04, C:0.04, G:0.18, T:0.74
Consensus pattern (49 bp):
TTTTTTTTGGGTAGGTTTTTCTTTTTCTCTTTTTTTTTTTTGGGTTAGG
Found at i:46181316 original size:72 final size:73
Alignment explanation
Indices: 46181199--46181518 Score: 374
Period size: 74 Copynumber: 4.3 Consensus size: 73
46181189 TTTTTTTTTG
* * * * **
46181199 TTTTGAAAATAGAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
1 TTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
*
46181264 AGTTGA-A
66 AGTTGATT
* * *
46181271 TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATA
1 TTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
46181336 AGTTGATT
66 AGTTGATT
* * * **
46181344 TTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATAT
1 TTTTGAAA-ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
46181409 GAGTTGATTTTTT
65 GAGTTGA----TT
* * * *
46181422 TTTTGACAACAGAAATTGAAATTACCTCAGCGTATCCTGAGGCTTC-ACTCACCTCTCACAATAT
1 TTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGC-TCAACTCACCTCTCGCAATAT
46181486 GAGTTGATTT
65 GAGTTGA-TT
*
46181496 TTTTGAAAGGCAGAAATTGAAAA
1 TTTTGAAA-ACAGAAATTGAAAA
46181519 ACGGAAATTG
Statistics
Matches: 210, Mismatches: 30, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
72 62 0.30
73 8 0.04
74 65 0.31
75 12 0.06
77 52 0.25
78 11 0.05
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (73 bp):
TTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATT
Found at i:46181472 original size:77 final size:76
Alignment explanation
Indices: 46181074--46182374 Score: 707
Period size: 72 Copynumber: 16.5 Consensus size: 76
46181064 AGTATGTGAT
* *
46181074 CTGAAGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTTTGAAAGACAGAAATTGAAAATA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAA-ACAGAAATTGAAAATA
*
46181139 CCTCAGCATGTGAAC
65 CCTCAGC--GTG-TC
* * *
46181154 C-GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTGTTTTGAAAATAGAAATTAA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-----TTTTT-TTTTGAAAACAGAAATTGA
*
46181218 AAATACCTCAACGTGTC
60 AAATACCTCAGCGTGTC
* ** * *
46181235 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA----ATTTTGAAAACAGAAATTGAAATTAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAACAGAAATTGAAAATAC
46181296 CTCAGCGTGTC
66 CTCAGCGTGTC
* * *
46181307 CCGAGGCTCAACTCACCTCTCGCAATATAAGTTGA---TTTTTTGAAAGACAAAAATTGAAAATA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAA-ACAGAAATTGAAAATA
*
46181369 CCTCAGCATGTC
65 CCTCAGCGTGTC
* ** * *
46181381 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTGACAACAGAAATTGAAATTA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTTTGAAAACAGAAATTGAAAATA
*
46181446 CCTCAGCGTATC
65 CCTCAGCGTGTC
* *
46181458 CTGAGGCTTC-ACTCACCTCTCACAATATGAGTTGA--TTTTTTTGAAAGGCAGAAATTGAAAA-
1 CTGAGGC-TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAA-ACAGAAATTGAAAAT
** ***
46181519 A-CGGAAATTGAAAATAC
64 ACCTCAGCGTG----T-C
* * * * * * **
46181536 CTCGGCGTGTGAGTCAAGGCTCAACTCAC-C-AT-TCGCAATATGAGCTAATTTTTTTGAAACAC
1 CT----GAG-G-CTCAA--CTCACCTCTCGCAATAT-G-AGT-TGA-TTTTTTTT--TGAAA-AC
* * ** *
46181598 AGAAATTAAAGAACAGAAATGGAAAACACCTCAGCGTC
51 AGAAATT---G---A-AAAT----ACCTCAGC-GTGTC
* * * * *** *
46181636 TTGAGGTTCAACTCACCTCTCGTAATATGAGCTGA-TTTTTTAAAAAAATAGAAATTGAAAATAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAACAGAAATTGAAAATAC
*
46181700 CTCAACGTGTC
66 CTCAGCGTGTC
*
46181711 TTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACTTAACTTG-AAA-AGAAGAT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-----TT---TTGAAAACAGAA-AT
*** * ** *
46181774 TTTGAA-A-ATGCCTCGATAT-
57 TGAAAATACCT-CAGCG-TGTC
* ** * * *
46181793 GTGACTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTGAAAAATATAAATTGA
1 CTGAGGC-T----CAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTG-AAAACAGAAATTG-
* *
46181854 AAAAAAAAAATACCTCAGTGTGTGAT
59 ------AAAATACCTCAGCGTGT--C
*
46181880 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTTGAAAGACAGAAATTGAAAATA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAA-ACAGAAATTGAAAATA
**
46181944 CCTCAGCATGTGAA
65 CCTCAGC--GTGTC
* * * *
46181958 CTGAGGCTCAACTTACCTCTCGCAATATAAGTTGGTTTTTTTTTTCAAAACAGAAATTGAAAATA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTT-GATTTTTTTTTGAAAACAGAAATTGAAAATA
*
46182023 CCTCAACGTGTC
65 CCTCAGCGTGTC
* ** * *
46182035 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA----ATTTTGAAAACAGAAATTGAAATTAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAACAGAAATTGAAAATAC
46182096 CTCAGCGTGTC
66 CTCAGCGTGTC
* * * * *
46182107 CCGAGGCTCAACTCACCAT-TCGCAATATAAGCTGA--TTTTTTTGAAATACAGAAATGGAAAAC
1 CTGAGGCTCAACTCACC-TCTCGCAATATGAGTTGATTTTTTTTTGAAA-ACAGAAATTGAAAAT
46182169 ACCTCAGC--GTC
64 ACCTCAGCGTGTC
* * * *
46182180 TTGAGGTTCAACTCATCTCTCGCAATATGAGCTGA--TTTTTTTGAAAAACAGAAATTGAAAATA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTG-AAAACAGAAATTGAAAATA
*
46182243 CCTCAACGTGTC
65 CCTCAGCGTGTC
* * * * *
46182255 TTGAGGCTCAACTCACCGCTCGTAATACGAGTTGATTTTTTTTTTTTTGACAACAGAAATTGAAA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTTTTTGAAAACAGAAATTGAAA
*
46182320 TTACCTCAGCGTGTC
62 ATACCTCAGCGTGTC
* *
46182335 CTGAGGTTCAACTCACCTCTCGCAATATGAGTTGAATTTT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
46182375 GAAATAAAAC
Statistics
Matches: 944, Mismatches: 169, Indels: 220
0.71 0.13 0.17
Matches are distributed among these distances:
72 123 0.13
73 71 0.08
74 77 0.08
75 103 0.11
76 13 0.01
77 90 0.10
78 61 0.06
79 53 0.06
80 77 0.08
81 13 0.01
82 74 0.08
83 15 0.02
84 37 0.04
85 28 0.03
86 12 0.01
87 39 0.04
88 3 0.00
89 4 0.00
90 4 0.00
91 13 0.01
92 11 0.01
93 1 0.00
94 8 0.01
95 2 0.00
96 2 0.00
97 1 0.00
98 3 0.00
100 2 0.00
101 1 0.00
103 1 0.00
104 1 0.00
105 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.31
Consensus pattern (76 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAACAGAAATTGAAAATAC
CTCAGCGTGTC
Found at i:46181725 original size:75 final size:75
Alignment explanation
Indices: 46181603--46182374 Score: 610
Period size: 75 Copynumber: 10.0 Consensus size: 75
46181593 AACACAGAAA
* * * * * *
46181603 TTAAAGAACAGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGTAATATGA
1 TTAAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
46181666 GCTGATTTTT
66 GTTGATTTTT
* *
46181676 TAAAAAAATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTAAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
46181741 GTTGATTTTT
66 GTTGATTTTT
* * * * **
46181751 GAAACTTAACTTGAAA-AGAAGATTTTGAAAATGCCTCGATATGTGACTCAAGGCTCAACTCACC
1 -----TTAA---AAAACAGAA-A--TTGAAAATACCTC-A-ACGTGTCTTGAGGCTCAACTCACC
46181815 TCTCGCAATATGAGTTGATTTTT
53 TCTCGCAATATGAGTTGATTTTT
** * *** ** * *
46181838 GAAAAATATAAATTGAAAAAAAAAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGC
1 TTAAAA-A-ACA--G-AAATTGAAAATACCTCAACGTGT-CT-TGAGGCTCAACTCACCTCTCGC
46181903 AATATGAGTTGATTTTTT
59 AATATGAGTTGA-TTTTT
* * * * *
46181921 TTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAAC-TGAGGCTCAACTTACCTCTCGCAATA
1 TTAAAAAACAGAAATTGAAAATACCTCA--ACGTG-TCTTGAGGCTCAACTCACCTCTCGCAATA
* *
46181985 TAAGTTGGTTTTTTT
63 TGAGTT-G-ATTTTT
** **
46182000 TTTCAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTAAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
46182065 GTTGA--ATT
66 GTTGATTTTT
* * * ** *
46182073 TT-GAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCAT-TCGCAATATA
1 TTAAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACC-TCTCGCAATATG
*
46182136 AGCTGATTTTT
65 AGTTGATTTTT
* * * * * * *
46182147 TTGAAATACAGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCATCTCTCGCAATATGA
1 TTAAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
46182210 GCTGATTTTT
66 GTTGATTTTT
* * * *
46182220 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCGCTCGTAATACGA
1 TTAAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
46182285 GTTGATTTTTTTTTT
66 GTTGA-----TTTTT
** * * * * *
46182300 TTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTAAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
46182365 GTTGAATTTT
66 GTTGATTTTT
46182375 GAAATAAAAC
Statistics
Matches: 559, Mismatches: 98, Indels: 82
0.76 0.13 0.11
Matches are distributed among these distances:
72 57 0.10
73 88 0.16
74 6 0.01
75 97 0.17
76 2 0.00
77 32 0.06
78 43 0.08
79 33 0.06
80 77 0.14
81 5 0.01
82 47 0.08
83 12 0.02
84 2 0.00
85 14 0.03
86 1 0.00
87 43 0.08
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.31
Consensus pattern (75 bp):
TTAAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTT
Found at i:46182203 original size:73 final size:72
Alignment explanation
Indices: 46181885--46182374 Score: 466
Period size: 80 Copynumber: 6.5 Consensus size: 72
46181875 GTGATCTGAA
46181885 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAAAATACCTCAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAA-ACAGAAATTGAAAATACCTCAG
46181950 CATGTGAAC-TGAG
64 C--GT---CTTGAG
* * * *
46181963 GCTCAACTTACCTCTCGCAATATAAGTTGGTTTTTTTTTTCAAAACAGAAATTGAAAATACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTT-G--ATTTTTTTGAAAACAGAAATTGAAAATACCTC-
*
46182028 ACGTGTCTTGAG
62 A-GCGTCTTGAG
** * *
46182040 GCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCTCAGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGC-
**
46182103 TGTCCCGAG
65 -GTCTTGAG
* * * *
46182112 GCTCAACTCACCAT-TCGCAATATAAGCTGATTTTTTTGAAATACAGAAATGGAAAACACCTCAG
1 GCTCAACTCACC-TCTCGCAATATGAGTTGATTTTTTTGAAA-ACAGAAATTGAAAATACCTCAG
46182176 CGTCTTGAG
64 CGTCTTGAG
* * *
46182185 GTTCAACTCATCTCTCGCAATATGAGCTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAAC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAACAGAAATTGAAAATACCTC-A-
*
46182250 GTGTCTTGAG
63 GCGTCTTGAG
* * * * *
46182260 GCTCAACTCACCGCTCGTAATACGAGTTGATTTTTTTTTTTTTGACAACAGAAATTGAAATTACC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA------TTTTTTTGAAAACAGAAATTGAAAATACC
*
46182325 TCAGCGTGTCCTGAG
60 TCAGC--GTCTTGAG
* *
46182340 GTTCAACTCACCTCTCGCAATATGAGTTGAATTTT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
46182375 GAAATAAAAC
Statistics
Matches: 341, Mismatches: 47, Indels: 52
0.77 0.11 0.12
Matches are distributed among these distances:
70 1 0.00
71 1 0.00
72 57 0.17
73 58 0.17
74 16 0.05
75 53 0.16
76 2 0.01
77 28 0.08
78 27 0.08
79 24 0.07
80 65 0.19
81 9 0.03
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (72 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCG
TCTTGAG
Found at i:46195959 original size:11 final size:11
Alignment explanation
Indices: 46195943--46195972 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
46195933 TAACATTAAG
46195943 AATATATATAT
1 AATATATATAT
*
46195954 AATATAAATAT
1 AATATATATAT
46195965 AATATATA
1 AATATATA
46195973 CAATATACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATATATATAT
Found at i:46196508 original size:18 final size:18
Alignment explanation
Indices: 46196473--46196526 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
46196463 CGAAAAAAGG
46196473 AAAAA-AATAAA-AA-AT
1 AAAAATAATAAAGAAGAT
*
46196488 AAAAATAA-AAATAAGAGT
1 AAAAATAATAAAGAAGA-T
46196506 -AAAATAATAAAGAAGAT
1 AAAAATAATAAAGAAGAT
46196523 AAAA
1 AAAA
46196527 TCACCTTTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
15 8 0.25
16 4 0.12
17 9 0.28
18 11 0.34
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (18 bp):
AAAAATAATAAAGAAGAT
Found at i:46196511 original size:17 final size:17
Alignment explanation
Indices: 46196489--46196527 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
46196479 ATAAAAAATA
*
46196489 AAAATAA-AAATAAGAGT
1 AAAATAATAAAGAAGA-T
46196506 AAAATAATAAAGAAGAT
1 AAAATAATAAAGAAGAT
46196523 AAAAT
1 AAAAT
46196528 CACCTTTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.18
Consensus pattern (17 bp):
AAAATAATAAAGAAGAT
Found at i:46196768 original size:32 final size:33
Alignment explanation
Indices: 46196724--46196788 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
46196714 GGTGGCTAGG
46196724 TTTTTTTATCTTTTTTTTTT-GTTAGGTTTTTC
1 TTTTTTTATCTTTTTTTTTTGGTTAGGTTTTTC
46196756 TTTTTTCT-TCTTTTTTTTTTGGGTTAGGTTTTT
1 TTTTTT-TATCTTTTTTTTTT-GGTTAGGTTTTT
46196789 TTGGGGTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 18 0.60
33 1 0.03
34 11 0.37
ACGTcount: A:0.05, C:0.06, G:0.12, T:0.77
Consensus pattern (33 bp):
TTTTTTTATCTTTTTTTTTTGGTTAGGTTTTTC
Found at i:46196787 original size:15 final size:15
Alignment explanation
Indices: 46196769--46196840 Score: 63
Period size: 15 Copynumber: 4.7 Consensus size: 15
46196759 TTTCTTCTTT
46196769 TTTTTTTGGGTTAGG
1 TTTTTTTGGGTTAGG
*
46196784 TTTTTTTGGGGTAGG
1 TTTTTTTGGGTTAGG
*** ***
46196799 TTTTTCTTTTTCTTTTT
1 -TTTT-TTTGGGTTAGG
46196816 TTTTTTTGGGTTAGG
1 TTTTTTTGGGTTAGG
46196831 TTTTTTTGGG
1 TTTTTTTGGG
46196841 GGCTTAATGG
Statistics
Matches: 41, Mismatches: 14, Indels: 4
0.69 0.24 0.07
Matches are distributed among these distances:
15 29 0.71
16 8 0.20
17 4 0.10
ACGTcount: A:0.04, C:0.03, G:0.26, T:0.67
Consensus pattern (15 bp):
TTTTTTTGGGTTAGG
Found at i:46196840 original size:47 final size:49
Alignment explanation
Indices: 46196746--46196841 Score: 178
Period size: 47 Copynumber: 2.0 Consensus size: 49
46196736 TTTTTTTTGT
46196746 TAGGTTTTTCTTTTTTCTTCTTTTTTTTTTGGGTTAGGTTTTTTTGGGG
1 TAGGTTTTTCTTTTTTCTTCTTTTTTTTTTGGGTTAGGTTTTTTTGGGG
46196795 TAGGTTTTTC-TTTTTCTT-TTTTTTTTTTGGGTTAGGTTTTTTTGGGG
1 TAGGTTTTTCTTTTTTCTTCTTTTTTTTTTGGGTTAGGTTTTTTTGGGG
46196842 GCTTAATGGG
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
47 29 0.62
48 8 0.17
49 10 0.21
ACGTcount: A:0.04, C:0.05, G:0.23, T:0.68
Consensus pattern (49 bp):
TAGGTTTTTCTTTTTTCTTCTTTTTTTTTTGGGTTAGGTTTTTTTGGGG
Found at i:46204155 original size:32 final size:32
Alignment explanation
Indices: 46204108--46204192 Score: 116
Period size: 32 Copynumber: 2.7 Consensus size: 32
46204098 ACGGGAGTGT
* * *
46204108 CCCAAGCCATACGGGCGTGTGTGACCACACGG
1 CCCAACCCACACGGGCGTGTGTAACCACACGG
*
46204140 CCTAACCCACACGGGCGTGTGTAACCACACGG
1 CCCAACCCACACGGGCGTGTGTAACCACACGG
* *
46204172 CCCAACCCATACAGGCGTGTG
1 CCCAACCCACACGGGCGTGTG
46204193 ACTCTCCAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 46 1.00
ACGTcount: A:0.24, C:0.36, G:0.27, T:0.13
Consensus pattern (32 bp):
CCCAACCCACACGGGCGTGTGTAACCACACGG
Found at i:46210369 original size:16 final size:16
Alignment explanation
Indices: 46210348--46210385 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
46210338 TCGGTTAGGC
46210348 TTGAATTGCAAAGAAA
1 TTGAATTGCAAAGAAA
*
46210364 TTGAATTGCAAGGAAA
1 TTGAATTGCAAAGAAA
46210380 TTGAAT
1 TTGAAT
46210386 AAAAATCACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.45, C:0.05, G:0.21, T:0.29
Consensus pattern (16 bp):
TTGAATTGCAAAGAAA
Found at i:46211925 original size:40 final size:40
Alignment explanation
Indices: 46211880--46212067 Score: 279
Period size: 40 Copynumber: 4.7 Consensus size: 40
46211870 ATAACCACAA
* * * *
46211880 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
46211920 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
*
46211960 GTACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
* *
46212000 GCACAAATTCCTTCGGGTCTTAGCCCGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAA-CAACTC
* *
46212040 GCATAAATGCCTTCGGGGCTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
46212068 GTATCATTCA
Statistics
Matches: 136, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
40 135 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
Found at i:46216631 original size:27 final size:26
Alignment explanation
Indices: 46216596--46216706 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
46216586 AGTATGGCTG
** *
46216596 CCAGAACAGATAATGTGATAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
46216622 CCAGATACAGAT-ATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
46216649 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
46216676 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
46216703 CCAG
1 CCAG
46216707 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
26 14 0.19
27 59 0.79
28 2 0.03
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:46216659 original size:53 final size:54
Alignment explanation
Indices: 46216596--46216706 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
46216586 AGTATGGCTG
* *
46216596 CCAGAACAGATA-ATGTGATAGAGTCACCAGATACAGAT-ATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * *
46216649 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
46216703 CCAG
1 CCAG
46216707 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
53 17 0.33
54 34 0.67
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:46216874 original size:27 final size:26
Alignment explanation
Indices: 46216812--46216874 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
46216802 AAAGTAATCC
* *
46216812 CTAGGGGTATAATGGTAATTTTGCAT
1 CTAGGGGTATAATAGTAATTTTCCAT
*
46216838 CTAGGGGTATATTAGTAA-TTTCCAT
1 CTAGGGGTATAATAGTAATTTTCCAT
46216863 ACATAGGGGTAT
1 -C-TAGGGGTAT
46216875 TCAAGTAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 6 0.19
26 17 0.53
27 9 0.28
ACGTcount: A:0.29, C:0.10, G:0.25, T:0.37
Consensus pattern (26 bp):
CTAGGGGTATAATAGTAATTTTCCAT
Found at i:46218110 original size:25 final size:24
Alignment explanation
Indices: 46218089--46218145 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 24
46218079 AACTCTTGCT
46218089 CCTTGATCAGCTCCTAAATCTTCTCC
1 CCTT-ATCAGCTCCTAAATCTTCT-C
46218115 CCTTATCAGCTCCTAAATCTTCTC
1 CCTTATCAGCTCCTAAATCTTCTC
*
46218139 TCTTATC
1 CCTTATC
46218146 CCCTCCCTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 7 0.23
25 19 0.63
26 4 0.13
ACGTcount: A:0.19, C:0.37, G:0.05, T:0.39
Consensus pattern (24 bp):
CCTTATCAGCTCCTAAATCTTCTC
Found at i:46224509 original size:27 final size:27
Alignment explanation
Indices: 46224478--46224582 Score: 142
Period size: 27 Copynumber: 3.9 Consensus size: 27
46224468 CTGCCAGAAA
* *
46224478 AGATAATGTGACAGAGTCACCAGATAC
1 AGATAATGTGGCAGAGCCACCAGATAC
46224505 AGATAATCGTGGCAGAGCCACCAGA-AC
1 AGATAAT-GTGGCAGAGCCACCAGATAC
46224532 AGATATATGTGGCAGAGCCACCAGAT-C
1 AGATA-ATGTGGCAGAGCCACCAGATAC
*
46224559 AGATAATTGTGGCATAGCCACCAG
1 AGATAA-TGTGGCAGAGCCACCAG
46224583 GATGCTTCCT
Statistics
Matches: 71, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
26 1 0.01
27 53 0.75
28 17 0.24
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.17
Consensus pattern (27 bp):
AGATAATGTGGCAGAGCCACCAGATAC
Found at i:46224562 original size:54 final size:54
Alignment explanation
Indices: 46224471--46224582 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
46224461 AGCATGGCTG
*
46224471 CCAGAAAAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAAAAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * * *
46224525 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAAAAGATA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
46224579 CCAG
1 CCAG
46224583 GATGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (54 bp):
CCAGAAAAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:46224731 original size:26 final size:27
Alignment explanation
Indices: 46224687--46224761 Score: 75
Period size: 26 Copynumber: 2.8 Consensus size: 27
46224677 AAAAGTAATC
* *
46224687 CCTAGGGGTATAAT-GGTAATTT-TGCA
1 CCTAGGGGTAT-ATCAGTAATTTCTACA
*
46224713 CCTAGGGGTATATCAGTAATTTCTATA
1 CCTAGGGGTATATCAGTAATTTCTACA
*
46224740 CATAGGGGTAT-TCAAGTAATTT
1 CCTAGGGGTATATC-AGTAATTT
46224762 ATCTATTCTT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
25 2 0.05
26 20 0.48
27 20 0.48
ACGTcount: A:0.29, C:0.12, G:0.23, T:0.36
Consensus pattern (27 bp):
CCTAGGGGTATATCAGTAATTTCTACA
Found at i:46225996 original size:25 final size:24
Alignment explanation
Indices: 46225963--46226019 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 24
46225953 AACTCTTGCT
46225963 CCTTGATCAGCTCCTAAATCTTCTCC
1 CCTT-ATCAGCTCCTAAATCTTCT-C
46225989 CCTTATCAGCTCCTAAATCTTCTC
1 CCTTATCAGCTCCTAAATCTTCTC
46226013 CCTTATC
1 CCTTATC
46226020 CCCTCCCTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 8 0.26
25 19 0.61
26 4 0.13
ACGTcount: A:0.19, C:0.39, G:0.05, T:0.37
Consensus pattern (24 bp):
CCTTATCAGCTCCTAAATCTTCTC
Found at i:46229018 original size:15 final size:15
Alignment explanation
Indices: 46228998--46229045 Score: 69
Period size: 15 Copynumber: 3.2 Consensus size: 15
46228988 TGTTGTAAAT
*
46228998 TGGATTTCCTTATCC
1 TGGATTTCTTTATCC
*
46229013 TGGATTTCTTTATCT
1 TGGATTTCTTTATCC
*
46229028 TGGATTTCTTTATTC
1 TGGATTTCTTTATCC
46229043 TGG
1 TGG
46229046 GCTTCTCTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.12, C:0.17, G:0.17, T:0.54
Consensus pattern (15 bp):
TGGATTTCTTTATCC
Found at i:46229740 original size:14 final size:15
Alignment explanation
Indices: 46229721--46229749 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
46229711 AAAGTTCATA
46229721 TGGATT-TTCTTGTC
1 TGGATTATTCTTGTC
46229735 TGGATTATTCTTGTC
1 TGGATTATTCTTGTC
46229750 CTTGAAAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.10, C:0.14, G:0.21, T:0.55
Consensus pattern (15 bp):
TGGATTATTCTTGTC
Found at i:46232515 original size:40 final size:40
Alignment explanation
Indices: 46232460--46232677 Score: 280
Period size: 40 Copynumber: 5.5 Consensus size: 40
46232450 TGGATGATAA
* * *
46232460 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
46232500 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
46232540 CCGGCCTAAGTCCCGATGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
46232580 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
46232620 CTGGGCTATGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
46232660 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
46232678 TACTTGGCTT
Statistics
Matches: 158, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 16 0.10
40 142 0.90
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:46236957 original size:16 final size:16
Alignment explanation
Indices: 46236936--46236973 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
46236926 TCAGCTAGGC
46236936 TTGAATTGCAAGGAAA
1 TTGAATTGCAAGGAAA
*
46236952 TTGAATTGTAAGGAAA
1 TTGAATTGCAAGGAAA
46236968 TTGAAT
1 TTGAAT
46236974 AAAAATCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.42, C:0.03, G:0.24, T:0.32
Consensus pattern (16 bp):
TTGAATTGCAAGGAAA
Found at i:46239209 original size:101 final size:101
Alignment explanation
Indices: 46239077--46239363 Score: 349
Period size: 101 Copynumber: 2.8 Consensus size: 101
46239067 CTATCAATCT
* * * * * *** * * *
46239077 GGTACACATAATAGTCTGTACTTACTACTACACACGTGGTTTATCCATCTGATACTTGTAGTAGC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACATGTAGTAGC
** ** *
46239142 CTGCACTTAGTACTACACACGTGATTGAAGTTAACG
66 CTGCACTTAGTACTACACACGTGATCAAAACTAACA
* *
46239178 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTAAATGTAGTAGC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACATGTAGTAGC
* *
46239243 CTGCACTTAGTATTACACACGTGATCAAAACTATCA
66 CTGCACTTAGTACTACACACGTGATCAAAACTAACA
* * * *
46239279 GGTACACATAGTAGCCTGCACTTAGTACCACACATGCGACCTAACAATCTGGTACACGTAGTAGC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACATGTAGTAGC
*
46239344 CCGCACTTAGTACTACACAC
66 CTGCACTTAGTACTACACAC
46239364 ATGACCTAAA
Statistics
Matches: 158, Mismatches: 28, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
101 158 1.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (101 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACATGTAGTAGC
CTGCACTTAGTACTACACACGTGATCAAAACTAACA
Found at i:46239333 original size:151 final size:151
Alignment explanation
Indices: 46239024--46239371 Score: 360
Period size: 151 Copynumber: 2.3 Consensus size: 151
46239014 ACCGAAGCTC
* * * *
46239024 TCTGGTACGCATAGTAGCATGCATTTAGTACTATACATGTGACCTATCAATCTGGTACACATAAT
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTAAACATAAT
* * * ** * * ***
46239089 AGTCTGTACTTACTACTACACACGTGGTTTATCCATCTGATACTTGTAGTAGCCTGCACTTAGTA
66 AGCCTGCACTTACTACTACACACGTGATAAAACCATCAGATACACATAGTAGCCTGCACTTAGTA
* * * *
46239154 CTACACACGTGATTGAAGTTAA
131 CCACACACGCGACTGAAG-CAA
* ** *
46239176 -CGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTAAATGTAGT
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTAAACATAAT
* * * *
46239240 AGCCTGCACTTAGTATTACACACGTGATCAAAACTATCAGGTACACATAGTAGCCTGCACTTAGT
66 AGCCTGCACTTACTACTACACACGTGAT-AAAACCATCAGATACACATAGTAGCCTGCACTTAGT
*
46239305 ACCACACATGCGACCT-AA-CAA
130 ACCACACACGCGA-CTGAAGCAA
* * * **
46239326 TCTGGTACACGTAGTAGCCCGCACTTAGTACTACACACATGACCTA
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTA
46239372 AAACTGTCTT
Statistics
Matches: 160, Mismatches: 33, Indels: 7
0.80 0.17 0.04
Matches are distributed among these distances:
150 2 0.01
151 118 0.74
152 39 0.24
153 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (151 bp):
TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTAAACATAAT
AGCCTGCACTTACTACTACACACGTGATAAAACCATCAGATACACATAGTAGCCTGCACTTAGTA
CCACACACGCGACTGAAGCAA
Found at i:46239341 original size:50 final size:50
Alignment explanation
Indices: 46239024--46239372 Score: 279
Period size: 50 Copynumber: 6.9 Consensus size: 50
46239014 ACCGAAGCTC
* * * * * *
46239024 TCTGGTACGCATAGTAGCATGCATTTAGTACTATACATGTGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
* * * * * * *** * *
46239074 TCTGGTACACATAATAGTCTGTACTTACTACTACACACGTGGTTTATCCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
* ** * * *
46239124 TCTGATACTTGTAGTAGCCTGCACTTAGTACTACACACGTGA-TTGAAGTTAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCT-AA--CAA
* * * *
46239176 -CGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
* * * * ** *
46239225 TCTGGTAAATGTAGTAGCCTGCACTTAGTATTACACACGTGATCAAAACTA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGA-CCTAACAA
* * * *
46239276 TCAGGTACACATAGTAGCCTGCACTTAGTACCACACATGCGACCTAACAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
* **
46239326 TCTGGTACACGTAGTAGCCCGCACTTAGTACTACACACATGACCTAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
46239373 AACTGTCTTA
Statistics
Matches: 230, Mismatches: 63, Indels: 12
0.75 0.21 0.04
Matches are distributed among these distances:
49 4 0.02
50 150 0.65
51 74 0.32
52 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.28
Consensus pattern (50 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
Found at i:46241667 original size:13 final size:13
Alignment explanation
Indices: 46241649--46241679 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
46241639 GGGAGTGTGT
46241649 ACTTGAGATGATC
1 ACTTGAGATGATC
46241662 ACTTGAGATGATC
1 ACTTGAGATGATC
46241675 ACTTG
1 ACTTG
46241680 TATGACTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (13 bp):
ACTTGAGATGATC
Found at i:46253042 original size:42 final size:43
Alignment explanation
Indices: 46252992--46253097 Score: 144
Period size: 42 Copynumber: 2.5 Consensus size: 43
46252982 ATAGGTTTTC
* * *
46252992 CGATATTTGATTTCGTGTAAGACCCTGTCTGGGACA-TCGGCAT
1 CGATATTTGATTTCATGTAAGACCCTATCTAGGACAGT-GGCAT
*
46253035 CG-TATTTGATTTCATGTAAGACCCTATCTAGGATAGTGGCAT
1 CGATATTTGATTTCATGTAAGACCCTATCTAGGACAGTGGCAT
*
46253077 CGATATTTGATTACATGTAAG
1 CGATATTTGATTTCATGTAAG
46253098 GCCACGTCTG
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
42 36 0.64
43 20 0.36
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (43 bp):
CGATATTTGATTTCATGTAAGACCCTATCTAGGACAGTGGCAT
Found at i:46256121 original size:27 final size:27
Alignment explanation
Indices: 46256085--46256208 Score: 185
Period size: 27 Copynumber: 4.6 Consensus size: 27
46256075 CGATTTACAA
*
46256085 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
46256112 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
46256139 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
46256166 AAATACCGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
46256193 AATTACCGAGATACCC
1 AATTACTGAAATACCC
46256209 TTATGGGGTA
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 89 1.00
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:46256217 original size:27 final size:27
Alignment explanation
Indices: 46256092--46256226 Score: 171
Period size: 27 Copynumber: 5.0 Consensus size: 27
46256082 CAAAATTATT
* *
46256092 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTATAGGGTAGAATTACC
* *
46256119 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTATAGGGTAGAATTACC
* * *
46256146 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTATAGGGTAGAATTACC
46256173 GAAATACCCCTATAGGGTAGAATTACC
1 GAAATACCCCTATAGGGTAGAATTACC
* * * *
46256200 GAGATACCCTTATGGGGTAAAATTACC
1 GAAATACCCCTATAGGGTAGAATTACC
46256227 ATTTTGCCCC
Statistics
Matches: 98, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 98 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.24
Consensus pattern (27 bp):
GAAATACCCCTATAGGGTAGAATTACC
Found at i:46256789 original size:22 final size:22
Alignment explanation
Indices: 46256737--46256797 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
46256727 GCCAATTATT
* *
46256737 CTGATTATGGCTTTGCGCTAAC
1 CTGATTATGGCTTTGTGCCAAC
*
46256759 CT-ACATATGGCTTTGTGCCAAC
1 CTGA-TTATGGCTTTGTGCCAAC
*
46256781 CTGATTATGGCTGTGTG
1 CTGATTATGGCTTTGTG
46256798 TTGTTATTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
21 1 0.03
22 30 0.94
23 1 0.03
ACGTcount: A:0.18, C:0.21, G:0.25, T:0.36
Consensus pattern (22 bp):
CTGATTATGGCTTTGTGCCAAC
Found at i:46257073 original size:6 final size:6
Alignment explanation
Indices: 46257064--46257151 Score: 65
Period size: 6 Copynumber: 14.3 Consensus size: 6
46257054 TTGCATTCAC
* *
46257064 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TCACCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * *
46257114 ATTCTG ATTCTG ATCCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
46257152 AATGTTTCTT
Statistics
Matches: 64, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
5 4 0.06
6 51 0.80
7 7 0.11
8 2 0.03
ACGTcount: A:0.18, C:0.20, G:0.15, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:46257095 original size:25 final size:25
Alignment explanation
Indices: 46257067--46257127 Score: 104
Period size: 25 Copynumber: 2.4 Consensus size: 25
46257057 CATTCACATT
*
46257067 CTGATTCTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTCACCTGATA
*
46257092 CTGATTCTGATTCTGTCACCTGATT
1 CTGATTCTGATTCTGTCACCTGATA
46257117 CTGATTCTGAT
1 CTGATTCTGAT
46257128 CCTCATTTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.18, C:0.21, G:0.16, T:0.44
Consensus pattern (25 bp):
CTGATTCTGATTCTGTCACCTGATA
Found at i:46264049 original size:2 final size:2
Alignment explanation
Indices: 46264042--46264068 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
46264032 TCGAAAACAA
46264042 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
46264069 CTTGTTACTT
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:46271442 original size:37 final size:37
Alignment explanation
Indices: 46271387--46271473 Score: 140
Period size: 37 Copynumber: 2.3 Consensus size: 37
46271377 TGCGAAGTCT
46271387 TACCCGGACATAATCTCCACACGTAGTCATCGGGTCG
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTCG
*
46271424 TACCTGGACATAATCTCCACACGTAGTCATCGGGTC-
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTCG
46271460 TCACCCGGAACATA
1 T-ACCCGG-ACATA
46271474 TTTCCAAGTT
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
36 1 0.02
37 40 0.87
38 5 0.11
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.22
Consensus pattern (37 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTCG
Found at i:46271603 original size:49 final size:49
Alignment explanation
Indices: 46271542--46271893 Score: 632
Period size: 49 Copynumber: 7.2 Consensus size: 49
46271532 TTTGCCACAT
* *
46271542 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
46271591 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
46271640 ACATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
46271689 ATATATACACACTTTCACATTCATCTCATCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* * *
46271738 ACATATACGCATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
46271787 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAT
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
46271836 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
46271885 ATATATACA
1 ATATATACA
46271894 TCTCATACAT
Statistics
Matches: 289, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 289 1.00
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (49 bp):
ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:46274698 original size:40 final size:41
Alignment explanation
Indices: 46274654--46274751 Score: 112
Period size: 41 Copynumber: 2.4 Consensus size: 41
46274644 TCGATTGTCC
* * **
46274654 TCGGGACATAGCCCGG-TTATAGTGA-TTCGCACAATTGCCT
1 TCGGGACATAGCCCGGATT-TAGTAACTTAGCACAAAAGCCT
46274694 TCGGGA-ATTAGCCCGGATTTAGTAACTTAGCACAAAAGCCT
1 TCGGGACA-TAGCCCGGATTTAGTAACTTAGCACAAAAGCCT
*
46274735 TCGGGACTTAGCCCGGA
1 TCGGGACATAGCCCGGA
46274752 CACCATTCGA
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
39 1 0.02
40 19 0.39
41 29 0.59
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (41 bp):
TCGGGACATAGCCCGGATTTAGTAACTTAGCACAAAAGCCT
Found at i:46275545 original size:40 final size:40
Alignment explanation
Indices: 46275496--46275766 Score: 456
Period size: 40 Copynumber: 6.8 Consensus size: 40
46275486 CCAGCGCGAT
* * *
46275496 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
46275536 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
46275576 TGCTCCTT-GGAACTTAGTCC-GATACATCACTAGCACGAA
1 TGCT-CTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
46275615 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
46275655 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
46275695 TGCTCTTCGGAACTTAGTCCGGATACAACACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
46275735 TGCTCTTCGGAACTTAGCCCGGATACATCACT
1 TGCTCTTCGGAACTTAGTCCGGATACATCACT
46275767 CTCAATTCTC
Statistics
Matches: 220, Mismatches: 8, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
38 2 0.01
39 35 0.16
40 180 0.82
41 3 0.01
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:46275653 original size:119 final size:120
Alignment explanation
Indices: 46275496--46275766 Score: 465
Period size: 119 Copynumber: 2.3 Consensus size: 120
46275486 CCAGCGCGAT
* * *
46275496 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCCTCGGAACTTAGTCCGGATA
*
46275561 CATCACTAGCACGAATGCTCCTT-GGAACTTAGTCC-GATACATCACTAGCACGAA
66 CATCACTAGCACGAATGCT-CTTCGGAACTTAGTCCGGATACAACACTAGCACGAA
* *
46275615 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCCTCGGAACTTAGTCCGGATA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCCTCGGAACTTAGTCCGGATA
46275680 CATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACAACACTAGCACGAA
66 CATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACAACACTAGCACGAA
46275735 TGCTCTTCGGAACTTAGCCCGGATACATCACT
1 TGCTCTTCGGAACTTAGCCCGGATACATCACT
46275767 CTCAATTCTC
Statistics
Matches: 142, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
118 3 0.02
119 91 0.64
120 48 0.34
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.24
Consensus pattern (120 bp):
TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCCTCGGAACTTAGTCCGGATA
CATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACAACACTAGCACGAA
Found at i:46277701 original size:37 final size:36
Alignment explanation
Indices: 46277651--46277737 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
46277641 TGCGAAGTCT
46277651 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
46277687 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
46277724 TCACCCGGAACATA
1 T-ACCCGG-ACATA
46277738 TTTCCAAGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.88
38 5 0.10
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:46277867 original size:49 final size:49
Alignment explanation
Indices: 46277806--46278156 Score: 641
Period size: 49 Copynumber: 7.2 Consensus size: 49
46277796 TTTGCCACAT
* *
46277806 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
46277855 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
46277904 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
46277953 AGATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
46278002 ACATATACGCA-TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
46278050 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAT
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
46278099 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
46278148 ATATATACA
1 ATATATACA
46278157 TCTCATACAT
Statistics
Matches: 292, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
48 46 0.16
49 246 0.84
ACGTcount: A:0.31, C:0.30, G:0.09, T:0.31
Consensus pattern (49 bp):
ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:46278062 original size:146 final size:147
Alignment explanation
Indices: 46277808--46278156 Score: 637
Period size: 146 Copynumber: 2.4 Consensus size: 147
46277798 TGCCACATAT
* *
46277808 ATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATACACACTTTCAC
1 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCAC
46277873 ATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGGCC
66 ATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGGCC
46277938 ATTAGGCCTTATCACAG
131 ATTAGGCCTTATCACAG
* *
46277955 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACGCA-TTTCAC
1 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCAC
46278019 ATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGGCC
66 ATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGGCC
* *
46278084 ATTAGGCCTTATCATAT
131 ATTAGGCCTTATCACAG
46278101 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
1 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
46278157 TCTCATACAT
Statistics
Matches: 194, Mismatches: 8, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
146 140 0.72
147 54 0.28
ACGTcount: A:0.31, C:0.30, G:0.09, T:0.31
Consensus pattern (147 bp):
ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCAC
ATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGGCC
ATTAGGCCTTATCACAG
Found at i:46281546 original size:39 final size:39
Alignment explanation
Indices: 46281499--46281681 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
46281489 AATGTTCGAG
46281499 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
46281538 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
46281577 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
46281616 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
46281656 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
46281682 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:46283318 original size:40 final size:40
Alignment explanation
Indices: 46283261--46283354 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 40
46283251 CACAGTCTTA
* * * *
46283261 CACACTAAGTGCCATATATAACCAAAGTTAT-TCCGATACG
1 CACACTAAGTGCTATATATAACCAAAGCTATCT-CAAAACG
* *
46283301 CACACTAAGTGCTATATATAGCCGAAGCTATCTCAAAACG
1 CACACTAAGTGCTATATATAACCAAAGCTATCTCAAAACG
46283341 CACACTAAGTGCTA
1 CACACTAAGTGCTA
46283355 AACATAGTTG
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 46 0.98
41 1 0.02
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.23
Consensus pattern (40 bp):
CACACTAAGTGCTATATATAACCAAAGCTATCTCAAAACG
Found at i:46296372 original size:40 final size:39
Alignment explanation
Indices: 46296207--46296390 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
46296197 AAATTGAATG
* * *
46296207 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
46296247 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
46296287 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
46296327 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
46296366 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
46296391 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:46296415 original size:80 final size:81
Alignment explanation
Indices: 46296247--46296435 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
46296237 GCTGGAAATT
* * * *
46296247 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
46296312 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
46296328 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
46296391 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
46296407 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
46296436 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:46302175 original size:79 final size:80
Alignment explanation
Indices: 46302074--46302256 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 80
46302064 ACGACTCGCT
** *
46302074 CAAATGCCTTCGGGACAAAGCCCGGTTATAGTAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGTT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCCG
* *
46302138 GGTTTAGTAACTT-GCA
64 GATATAGTAACTTAGCA
* * **
46302154 CAAATGCCTTCGGG-CTTAGCCCAGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCC-GGTTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
46302218 ATATAGTCACTTAGCA
65 ATATAGTAACTTAGCA
46302234 C-AA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
46302257 ACATCATTCG
Statistics
Matches: 88, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
78 13 0.15
79 54 0.61
80 21 0.24
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGGA
TATAGTAACTTAGCA
Found at i:46302257 original size:39 final size:40
Alignment explanation
Indices: 46302067--46302257 Score: 183
Period size: 40 Copynumber: 4.8 Consensus size: 40
46302057 AGATATAACG
* * ** *
46302067 ACTCGCTCAAATGCCTTCGGGACAAAGCCCGGTTATAGTA
1 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
46302107 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGATATAGTA
* * * * *
46302147 ACTTGCACAAATGCCTTCGGG-CTTAGCCCAGATTTATTA
1 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
46302186 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCACGAATGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
46302226 ACTTAGCAC-AA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACGAATGCCTTCGGGACTTAGCCCGGA
46302258 CATCATTCGA
Statistics
Matches: 123, Mismatches: 24, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
38 2 0.02
39 45 0.37
40 71 0.58
41 5 0.04
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
ACTCGCACGAATGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:46305335 original size:43 final size:43
Alignment explanation
Indices: 46305189--46305334 Score: 159
Period size: 43 Copynumber: 3.4 Consensus size: 43
46305179 TATGTGTTCT
* * * *
46305189 CATGTAAGACAACATCTAGGACATTGGCATCAATATGTGATTA
1 CATGTAAGACCACGTCTAGGACACTGGCATTAATATGTGATTA
* **
46305232 CGTGTAAGACCATTTCTAGGACACTGGCATTAATATGTGATTA
1 CATGTAAGACCACGTCTAGGACACTGGCATTAATATGTGATTA
* * * * *
46305275 CCTGTAAGACC-CTGTCTGGGATAGTGGCATTGATATGTGATTA
1 CATGTAAGACCAC-GTCTAGGACACTGGCATTAATATGTGATTA
*
46305318 TATGTAAGACCACGTCT
1 CATGTAAGACCACGTCT
46305335 GAGACGTTGG
Statistics
Matches: 86, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
43 85 0.99
44 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (43 bp):
CATGTAAGACCACGTCTAGGACACTGGCATTAATATGTGATTA
Found at i:46305346 original size:43 final size:43
Alignment explanation
Indices: 46305176--46305349 Score: 156
Period size: 43 Copynumber: 4.0 Consensus size: 43
46305166 ATAGGATTTC
* * *
46305176 TGATATGTG-TTCTCATGTAAGACAACATCTAGGACATTGGCAT
1 TGATATGTGATT-ACATGTAAGACCACGTCTAGGACATTGGCAT
** * ** *
46305219 CAATATGTGATTACGTGTAAGACCATTTCTAGGACACTGGCAT
1 TGATATGTGATTACATGTAAGACCACGTCTAGGACATTGGCAT
* * * * *
46305262 TAATATGTGATTACCTGTAAGACC-CTGTCTGGGATAGTGGCAT
1 TGATATGTGATTACATGTAAGACCAC-GTCTAGGACATTGGCAT
* *
46305305 TGATATGTGATTATATGTAAGACCACGTCT-GAGACGTTGGCAT
1 TGATATGTGATTACATGTAAGACCACGTCTAG-GACATTGGCAT
46305348 TG
1 TG
46305350 TACGATATGT
Statistics
Matches: 106, Mismatches: 21, Indels: 8
0.79 0.16 0.06
Matches are distributed among these distances:
42 1 0.01
43 102 0.96
44 3 0.03
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (43 bp):
TGATATGTGATTACATGTAAGACCACGTCTAGGACATTGGCAT
Found at i:46315744 original size:13 final size:13
Alignment explanation
Indices: 46315726--46315752 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
46315716 ACTTGGTAGG
46315726 GACACGCCCGTGT
1 GACACGCCCGTGT
46315739 GACACGCCCGTGT
1 GACACGCCCGTGT
46315752 G
1 G
46315753 CGATTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:46325250 original size:40 final size:39
Alignment explanation
Indices: 46325195--46325407 Score: 206
Period size: 40 Copynumber: 5.5 Consensus size: 39
46325185 GCTCGATTGT
* *
46325195 CTTCGGGACA-TAGCCCGGTTATAGTAATTCGCACAATTGC
1 CTTCGGGA-ATTAGCCCGGTT-TAGTAACTCGCACAAATGC
46325235 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGAATTAGCCCGG-TTTAGTAACTCGCACAAATGC
* * *
46325275 CTTCGGGACTTA-ACC----TGGTAACTCGCACAAATGC
1 CTTCGGGAATTAGCCCGGTTTAGTAACTCGCACAAATGC
* * *
46325309 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGAATTAGCCCGG-TTTAGTAACTCGCACAAATGC
* * *
46325349 CTTCGGGAATT-GACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGAATTAG-CCCGG-TTTAGTAAC-TCGCACAAATGC
*
46325390 CTTCGGGACTTAGCCCGG
1 CTTCGGGAATTAGCCCGG
46325408 ACATCATTCG
Statistics
Matches: 148, Mismatches: 14, Indels: 21
0.81 0.08 0.11
Matches are distributed among these distances:
34 30 0.20
35 2 0.01
39 3 0.02
40 85 0.57
41 27 0.18
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (39 bp):
CTTCGGGAATTAGCCCGGTTTAGTAACTCGCACAAATGC
Found at i:46325301 original size:34 final size:36
Alignment explanation
Indices: 46325258--46325356 Score: 148
Period size: 34 Copynumber: 2.7 Consensus size: 36
46325248 CCCGGATTTA
46325258 GTAACTCGCACAAATGCCTTCGGGACTTAA-CC-TG
1 GTAACTCGCACAAATGCCTTCGGGACTTAACCCTTG
46325292 GTAACTCGCACAAATGCCTTCGGGACTTAACCCGGTTTTG
1 GTAACTCGCACAAATGCCTTCGGGACTTAACCC----TTG
46325332 GTAACTCGCACAAATGCCTTCGGGA
1 GTAACTCGCACAAATGCCTTCGGGA
46325357 ATTGACCCGG
Statistics
Matches: 59, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
34 30 0.51
35 2 0.03
40 27 0.46
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (36 bp):
GTAACTCGCACAAATGCCTTCGGGACTTAACCCTTG
Found at i:46325312 original size:74 final size:74
Alignment explanation
Indices: 46325218--46325356 Score: 224
Period size: 74 Copynumber: 1.9 Consensus size: 74
46325208 CCCGGTTATA
* * *
46325218 GTAATTCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGA
1 GTAACTCGCACAAATGCCTTCGGGAATTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGA
46325283 CTTAACCTG
66 CTTAACCTG
* * *
46325292 GTAACTCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGA
1 GTAACTCGCACAAATGCCTTCGGGAATTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGA
46325357 ATTGACCCGG
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
74 59 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (74 bp):
GTAACTCGCACAAATGCCTTCGGGAATTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGA
CTTAACCTG
Found at i:46333383 original size:39 final size:40
Alignment explanation
Indices: 46333298--46333494 Score: 236
Period size: 40 Copynumber: 5.0 Consensus size: 40
46333288 AGCCTGGTTA
* * * *
46333298 TAGTAATTCGCACAATTGCCTTCGGGAATTAGCCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
* *
46333338 TAGTAACTCGTACAAATGCCTTC-GGACTTAACCCGGTTT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
* *
46333377 TGGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGTTT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
* * *
46333417 TGGTAACTCGCACAAATGCCTTC-GGAATTGACCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
* * * *
46333456 TAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 TAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGA
46333495 CATCATTCGA
Statistics
Matches: 136, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
39 52 0.38
40 73 0.54
41 11 0.08
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
Found at i:46333397 original size:79 final size:79
Alignment explanation
Indices: 46333298--46333494 Score: 259
Period size: 79 Copynumber: 2.5 Consensus size: 79
46333288 AGCCTGGTTA
* * * *
46333298 TAGTAATTCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAACTCGTACAAATGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGG
* *
46333363 ACTTAACCCGGTTT
66 AATTAACCCGGATT
* * * *
46333377 TGGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGG
*
46333442 AATTGACCCGGATT
66 AATTAACCCGGATT
* * *
46333456 TAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 TAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
46333495 CATCATTCGA
Statistics
Matches: 100, Mismatches: 17, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
79 73 0.73
80 27 0.27
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (79 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGG
AATTAACCCGGATT
Found at i:46344638 original size:12 final size:12
Alignment explanation
Indices: 46344623--46344647 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46344613 TTTTTGCCTT
46344623 ATTAATGTGTGA
1 ATTAATGTGTGA
46344635 ATTAATGTGTGA
1 ATTAATGTGTGA
46344647 A
1 A
46344648 AATCTCGTTT
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:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (12 bp):
ATTAATGTGTGA
Found at i:46345825 original size:43 final size:43
Alignment explanation
Indices: 46345774--46345903 Score: 138
Period size: 43 Copynumber: 3.0 Consensus size: 43
46345764 CATAGGATTT
* * *
46345774 TCAATATGTG-TTCTCGTGTAAGACTAGGTCTGGGACATTGGCA
1 TCAATATGTGATT-ACGTGTAAGACCAGGTCTGGGACAGTGGCA
* ** *
46345817 TCGATATGTGATTACGTGTAAGACCCTGTGTGGGACAGTGGCA
1 TCAATATGTGATTACGTGTAAGACCAGGTCTGGGACAGTGGCA
* * *
46345860 TCAATATGTGATTACATGTAAGACCACGTTTGGGAC-GTTGGCA
1 TCAATATGTGATTACGTGTAAGACCAGGTCTGGGACAG-TGGCA
46345903 T
1 T
46345904 TGTACGATAT
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
42 1 0.01
43 70 0.96
44 2 0.03
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (43 bp):
TCAATATGTGATTACGTGTAAGACCAGGTCTGGGACAGTGGCA
Found at i:46353657 original size:43 final size:42
Alignment explanation
Indices: 46353516--46353668 Score: 134
Period size: 43 Copynumber: 3.6 Consensus size: 42
46353506 TTTTCGCATT
* *
46353516 AGACCACATCTGGAACGTTGGCAT--TGACTTATGATTTACGTGTA
1 AGACCACGTCTGGGACGTTGGCATCAT-A-TT-TGA-TTACGTGTA
* * * **
46353560 AGACCACGTCTGGGATGTTGGTATCGTATTTGATTTTGTGTA
1 AGACCACGTCTGGGACGTTGGCATCATATTTGATTACGTGTA
* *
46353602 AGACC-CTATCTGGGACAG-TGGCATCAATATTTGATTACATGTA
1 AGACCAC-GTCTGGGAC-GTTGGCATC-ATATTTGATTACGTGTA
46353645 AGACCACGTCTGGGACGTTGGCAT
1 AGACCACGTCTGGGACGTTGGCAT
46353669 TGTACGAGCT
Statistics
Matches: 88, Mismatches: 14, Indels: 15
0.75 0.12 0.13
Matches are distributed among these distances:
41 1 0.01
42 26 0.30
43 36 0.41
44 23 0.26
45 1 0.01
46 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (42 bp):
AGACCACGTCTGGGACGTTGGCATCATATTTGATTACGTGTA
Found at i:46355127 original size:44 final size:44
Alignment explanation
Indices: 46355076--46355168 Score: 177
Period size: 44 Copynumber: 2.1 Consensus size: 44
46355066 AATTAGAAAT
46355076 TTCAAAACTTTAATACAATTTCAAATTCTACCATTTAATATTTA
1 TTCAAAACTTTAATACAATTTCAAATTCTACCATTTAATATTTA
46355120 TTCAAAACTTTAATACAATTTCAAATTCTACCATTTAATATTTA
1 TTCAAAACTTTAATACAATTTCAAATTCTACCATTTAATATTTA
*
46355164 CTCAA
1 TTCAA
46355169 CTTGATTACC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.41, C:0.17, G:0.00, T:0.42
Consensus pattern (44 bp):
TTCAAAACTTTAATACAATTTCAAATTCTACCATTTAATATTTA
Found at i:46355147 original size:25 final size:25
Alignment explanation
Indices: 46355076--46355147 Score: 68
Period size: 25 Copynumber: 3.1 Consensus size: 25
46355066 AATTAGAAAT
46355076 TTCAAAACTTTAATACAATTTCAAA
1 TTCAAAACTTTAATACAATTTCAAA
* *
46355101 TTC-TACCATTTAAT---ATTT---A
1 TTCAAAAC-TTTAATACAATTTCAAA
46355120 TTCAAAACTTTAATACAATTTCAAA
1 TTCAAAACTTTAATACAATTTCAAA
46355145 TTC
1 TTC
46355148 TACCATTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 16
0.64 0.07 0.29
Matches are distributed among these distances:
19 10 0.29
20 2 0.06
22 8 0.23
24 2 0.06
25 13 0.37
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.42
Consensus pattern (25 bp):
TTCAAAACTTTAATACAATTTCAAA
Found at i:46355156 original size:25 final size:25
Alignment explanation
Indices: 46355084--46355159 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
46355074 ATTTCAAAAC
46355084 TTTAATACAATTTCAAATTCTACCA
1 TTTAATACAATTTCAAATTCTACCA
**
46355109 TTTAAT---ATTT---ATTC-AAAA
1 TTTAATACAATTTCAAATTCTACCA
46355127 CTTTAATACAATTTCAAATTCTACCA
1 -TTTAATACAATTTCAAATTCTACCA
46355153 TTTAATA
1 TTTAATA
46355160 TTTACTCAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 16
0.66 0.07 0.27
Matches are distributed among these distances:
18 2 0.05
19 10 0.26
22 8 0.21
25 17 0.44
26 2 0.05
ACGTcount: A:0.41, C:0.16, G:0.00, T:0.43
Consensus pattern (25 bp):
TTTAATACAATTTCAAATTCTACCA
Found at i:46357161 original size:56 final size:56
Alignment explanation
Indices: 46357101--46357219 Score: 177
Period size: 56 Copynumber: 2.1 Consensus size: 56
46357091 TCCTAGACGG
*
46357101 GGTCTTACTCGCACACAAATATCAGAGTCACATATCAATGCCAACGTATTAAAC-A
1 GGTCTTACTCGCACACAAATATCAAAGTCACATATCAATGCCAACGTATTAAACGA
* ** *
46357156 TGGTCTTACTCGCACACATATATCAAAGTCACATATTGATTCCAACGTATTAAACGA
1 -GGTCTTACTCGCACACAAATATCAAAGTCACATATCAATGCCAACGTATTAAACGA
46357213 GGTCTTA
1 GGTCTTA
46357220 ATCACCACAT
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
56 56 0.98
57 1 0.02
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCGCACACAAATATCAAAGTCACATATCAATGCCAACGTATTAAACGA
Found at i:46359535 original size:31 final size:31
Alignment explanation
Indices: 46359492--46359606 Score: 169
Period size: 31 Copynumber: 3.7 Consensus size: 31
46359482 TTAGTCTTGA
* * *
46359492 CATAT-ACTGGGCCAAAGACTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
46359522 CATATCACTGGGCCGAAGCATTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
**
46359553 CATATCACTGGGCCGAAGCCTTTTTGTAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
46359584 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
46359607 ACTATAAACG
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
30 5 0.06
31 72 0.94
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:46359689 original size:42 final size:42
Alignment explanation
Indices: 46359630--46359763 Score: 250
Period size: 42 Copynumber: 3.2 Consensus size: 42
46359620 TGGCCCTTAG
*
46359630 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
46359672 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
*
46359714 GCCCATTTCAATATCACATGTAATGTTAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
46359756 GCCCATTT
1 GCCCATTT
46359764 GGGGAGACTA
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 90 1.00
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:46359939 original size:25 final size:25
Alignment explanation
Indices: 46359911--46359980 Score: 115
Period size: 25 Copynumber: 2.8 Consensus size: 25
46359901 CTCTTTTAAT
46359911 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
*
46359936 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
46359961 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
46359981 AGCACTTCCT
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
25 39 0.91
26 4 0.09
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:46360838 original size:26 final size:27
Alignment explanation
Indices: 46360778--46360840 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
46360768 GGCATATTCC
46360778 TCATTTTACCATACAAGGGTATTACAG
1 TCATTTTACCATACAAGGGTATTACAG
* * * *
46360805 TCACTTTACCCTACAGGGGT-TTACGG
1 TCATTTTACCATACAAGGGTATTACAG
*
46360831 TCTTTTTACC
1 TCATTTTACC
46360841 TATTAGGGGT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 13 0.43
27 17 0.57
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (27 bp):
TCATTTTACCATACAAGGGTATTACAG
Done.