Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 293 of 311
Found at i:95366409 original size:29 final size:28
Alignment explanation
Indices: 95366358--95366440 Score: 82
Period size: 31 Copynumber: 3.0 Consensus size: 28
95366348 ATTTTTAAAA
95366358 TTTTAATTTTAAAAATATATATTTTTAT
1 TTTTAATTTTAAAAATATATATTTTTAT
* * *
95366386 TTTTGAATTTTAAAAGTTTTTATTTTTTTAT
1 TTTT-AATTTTAAAA--ATATATATTTTTAT
*
95366417 TTTTAA---TAAAATTATATATTTTTA
1 TTTTAATTTTAAAAATATATATTTTTA
95366441 AAAAATTAAG
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
25 11 0.23
27 5 0.11
28 4 0.09
29 10 0.21
30 2 0.04
31 15 0.32
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (28 bp):
TTTTAATTTTAAAAATATATATTTTTAT
Found at i:95366438 original size:19 final size:19
Alignment explanation
Indices: 95366414--95366477 Score: 73
Period size: 19 Copynumber: 3.5 Consensus size: 19
95366404 TTTATTTTTT
95366414 TATTTTTAATAAAATTATA
1 TATTTTTAATAAAATTATA
95366433 TATTTTTAA-AAAATTA-A
1 TATTTTTAATAAAATTATA
* *
95366450 GA-TTTTATTAAAA-TATGA
1 TATTTTTAATAAAATTAT-A
95366468 TATTTTTAAT
1 TATTTTTAAT
95366478 TTTGTTAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
16 7 0.19
17 6 0.16
18 9 0.24
19 15 0.41
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (19 bp):
TATTTTTAATAAAATTATA
Found at i:95367541 original size:6 final size:6
Alignment explanation
Indices: 95367530--95367557 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
95367520 CCATCAACTT
95367530 TGCTCA TGCTCA TGCTCA TGCTCA TGCT
1 TGCTCA TGCTCA TGCTCA TGCTCA TGCT
95367558 GTCGCTCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.32, G:0.18, T:0.36
Consensus pattern (6 bp):
TGCTCA
Found at i:95375524 original size:51 final size:51
Alignment explanation
Indices: 95375443--95375551 Score: 209
Period size: 51 Copynumber: 2.1 Consensus size: 51
95375433 CAAGCTTAGC
95375443 TCTAGTGCTTACTTTTCATATTTATCTCTTCATATCACTTACAAAGGGATAG
1 TCTA-TGCTTACTTTTCATATTTATCTCTTCATATCACTTACAAAGGGATAG
95375495 TCTATGCTTACTTTTCATATTTATCTCTTCATATCACTTACAAAGGGATAG
1 TCTATGCTTACTTTTCATATTTATCTCTTCATATCACTTACAAAGGGATAG
95375546 TCTATG
1 TCTATG
95375552 TCTTTTTATA
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
51 53 0.93
52 4 0.07
ACGTcount: A:0.27, C:0.19, G:0.11, T:0.43
Consensus pattern (51 bp):
TCTATGCTTACTTTTCATATTTATCTCTTCATATCACTTACAAAGGGATAG
Found at i:95378068 original size:30 final size:30
Alignment explanation
Indices: 95378033--95378089 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
95378023 ATCAGTTCCC
*
95378033 CCTCCCCACCTCATCAT-GCATATCATCCAA
1 CCTCCCCACCTCACCATAGC-TATCATCCAA
*
95378063 CCTCCCCCCCTCACCATAGCTATCATC
1 CCTCCCCACCTCACCATAGCTATCATC
95378090 AGCCCACCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.23, C:0.51, G:0.04, T:0.23
Consensus pattern (30 bp):
CCTCCCCACCTCACCATAGCTATCATCCAA
Found at i:95390023 original size:115 final size:115
Alignment explanation
Indices: 95389894--95390134 Score: 455
Period size: 115 Copynumber: 2.1 Consensus size: 115
95389884 GTTTAAAACT
95389894 AATTATTAATAATACATAAAATTTGTATACTATTAAAATGAAAATATTAAATATTAACAATTTTA
1 AATTATTAATAATACATAAAATTTGTATACTATTAAAATGAAAATATTAAATATTAACAATTTTA
*
95389959 ACATTAAGATAAATTAATTTACCAATATATAAAATAAATATCATGTAAGA
66 ACATTAAGATAAATAAATTTACCAATATATAAAATAAATATCATGTAAGA
*
95390009 AATTATTAATAATACATAAAATTTGTATACTATTAAAATGAAAATATTGAATATTAACAATTTTA
1 AATTATTAATAATACATAAAATTTGTATACTATTAAAATGAAAATATTAAATATTAACAATTTTA
95390074 ACATTAAGATAAATAAATTTACCAATATATAAAATAAATATCATGTAAGA
66 ACATTAAGATAAATAAATTTACCAATATATAAAATAAATATCATGTAAGA
*
95390124 AATTAATAATA
1 AATTATTAATA
95390135 TTATTATTAT
Statistics
Matches: 123, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
115 123 1.00
ACGTcount: A:0.54, C:0.06, G:0.05, T:0.36
Consensus pattern (115 bp):
AATTATTAATAATACATAAAATTTGTATACTATTAAAATGAAAATATTAAATATTAACAATTTTA
ACATTAAGATAAATAAATTTACCAATATATAAAATAAATATCATGTAAGA
Found at i:95390507 original size:27 final size:27
Alignment explanation
Indices: 95390441--95390507 Score: 66
Period size: 27 Copynumber: 2.5 Consensus size: 27
95390431 AAATTAATTT
*
95390441 AATTATT-TTAAAATTATAAATATATA
1 AATTATTATTATAATTATAAATATATA
** *
95390467 AATTATTAAAATAATTTTAAAT-TATA
1 AATTATTATTATAATTATAAATATATA
*
95390493 ATTTTATTATTATAA
1 A-ATTATTATTATAA
95390508 AAATATACGA
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
26 12 0.38
27 20 0.62
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (27 bp):
AATTATTATTATAATTATAAATATATA
Found at i:95392516 original size:19 final size:20
Alignment explanation
Indices: 95392492--95392539 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
95392482 GACGCGATCC
95392492 TTTTTTATATTAAAAT-ATT
1 TTTTTTATATTAAAATAATT
*
95392511 TTTTTTAGA-TAAAATAATT
1 TTTTTTATATTAAAATAATT
95392530 TTTTTT-TATT
1 TTTTTTATATT
95392540 TTCAAATCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (20 bp):
TTTTTTATATTAAAATAATT
Found at i:95392649 original size:27 final size:26
Alignment explanation
Indices: 95392584--95392651 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 26
95392574 ACAGGTTGCG
* *
95392584 CCTATCTTAAAGGCGCGACTAGTTGA
1 CCTATCTTAAAGGCGCAACTAATTGA
* * *
95392610 GCTTTTTTCAAAGGCGCAACTAATTGTA
1 CCTATCTT-AAAGGCGCAACTAATTG-A
95392638 CCTATCTTAAAGGC
1 CCTATCTTAAAGGC
95392652 ACAGATGGTG
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
26 5 0.16
27 21 0.66
28 6 0.19
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (26 bp):
CCTATCTTAAAGGCGCAACTAATTGA
Found at i:95392749 original size:15 final size:16
Alignment explanation
Indices: 95392726--95392762 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
95392716 AAAATAAAAA
95392726 ATTAAAT-AAAATTAC
1 ATTAAATAAAAATTAC
*
95392741 ATTATATAAAAATTAC
1 ATTAAATAAAAATTAC
95392757 ATTAAA
1 ATTAAA
95392763 AATTAGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.35
Consensus pattern (16 bp):
ATTAAATAAAAATTAC
Found at i:95393532 original size:18 final size:17
Alignment explanation
Indices: 95393497--95393538 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
95393487 ATAAAAATTA
95393497 AAAATAATATTTTATTT
1 AAAATAATATTTTATTT
95393514 AAAATATATATATTT-TTT
1 AAAATA-ATAT-TTTATTT
*
95393532 AATATAA
1 AAAATAA
95393539 AAAAAGAGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 7 0.32
18 12 0.55
19 3 0.14
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AAAATAATATTTTATTT
Found at i:95397938 original size:24 final size:24
Alignment explanation
Indices: 95397911--95397962 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
95397901 TTAGTAAGTC
*
95397911 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
95397935 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
95397959 AAAT
1 AAAT
95397963 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:95399907 original size:24 final size:24
Alignment explanation
Indices: 95399880--95399931 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
95399870 TTAGTAAGTC
*
95399880 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
95399904 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
95399928 AAAT
1 AAAT
95399932 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:95410827 original size:19 final size:18
Alignment explanation
Indices: 95410785--95410828 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
95410775 TTTTTGTTTG
*
95410785 GATTGTTTTAAATATTCTT
1 GATTG-TTTAAATATTATT
*
95410804 TATTGTTTAAATATATATT
1 GATTGTTTAAATAT-TATT
95410823 GATTGT
1 GATTGT
95410829 CAATTTAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (18 bp):
GATTGTTTAAATATTATT
Found at i:95412410 original size:18 final size:18
Alignment explanation
Indices: 95412372--95412408 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
95412362 AATTCTACTT
*
95412372 AATTCTAACATATAAATA
1 AATTCAAACATATAAATA
95412390 AATTCAAACATA-AAATA
1 AATTCAAACATATAAATA
95412407 AA
1 AA
95412409 ATAGGGTGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.62, C:0.11, G:0.00, T:0.27
Consensus pattern (18 bp):
AATTCAAACATATAAATA
Found at i:95416100 original size:28 final size:29
Alignment explanation
Indices: 95416035--95416101 Score: 84
Period size: 28 Copynumber: 2.3 Consensus size: 29
95416025 AGATCTAATT
*
95416035 TTTTAAATTTGAAAAATAAAAAGACTAAA
1 TTTTAAATATGAAAAATAAAAAGACTAAA
* *
95416064 TTTCT-AATAT-AAAACTATAAAGACTAAA
1 TTT-TAAATATGAAAAATAAAAAGACTAAA
95416092 TTTTAAATAT
1 TTTTAAATAT
95416102 TCAAAGAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
27 1 0.03
28 24 0.73
29 7 0.21
30 1 0.03
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.36
Consensus pattern (29 bp):
TTTTAAATATGAAAAATAAAAAGACTAAA
Found at i:95417346 original size:29 final size:30
Alignment explanation
Indices: 95417300--95417358 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
95417290 GAATTGGACC
95417300 AAATCAAAATTTCATGTATAAAATTACACA
1 AAATCAAAATTTCATGTATAAAATTACACA
*
95417330 AAATCAAAATTT-ATGTATACAATTACACA
1 AAATCAAAATTTCATGTATAAAATTACACA
95417359 TTAAATCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 16 0.57
30 12 0.43
ACGTcount: A:0.53, C:0.14, G:0.03, T:0.31
Consensus pattern (30 bp):
AAATCAAAATTTCATGTATAAAATTACACA
Found at i:95419237 original size:42 final size:42
Alignment explanation
Indices: 95419190--95419272 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
95419180 GTGCTTGATA
* *
95419190 ATGTAAAGGAGGAAGATGAGTACTATGAAAAG-TCAATATCTG
1 ATGTAAAGAAGGAAGACGAGTACTATGAAAAGCT-AATATCTG
* * *
95419232 ATGTAAAGAAGGAAGGCGAGTACTGTGATAAGCTAATATCT
1 ATGTAAAGAAGGAAGACGAGTACTATGAAAAGCTAATATCT
95419273 TGCCTAAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 34 0.97
43 1 0.03
ACGTcount: A:0.41, C:0.08, G:0.27, T:0.24
Consensus pattern (42 bp):
ATGTAAAGAAGGAAGACGAGTACTATGAAAAGCTAATATCTG
Found at i:95422308 original size:108 final size:108
Alignment explanation
Indices: 95422052--95422310 Score: 371
Period size: 108 Copynumber: 2.4 Consensus size: 108
95422042 ATAACTAATA
* * *
95422052 TTGTTAATTACTCTGTTAAAGTTTTTGACGTGCTTTTTT-AA-AATGATATGTTAAGTTAGAATA
1 TTGTTAATTACTCTGATAAAATTTTTGACGTGTTTTTTTAAACAATGATATGTTAAGTTAGAATA
*
95422115 AATTTTAAATAATAAAATTTCTAATAAAATTGTATTAAAATTT
66 AATTTTAAATAATAAAATTTCTAACAAAATTGTATTAAAATTT
* * *** *
95422158 TTGTTAATTACTTTGATAAAATTTTTGA-TTAGTTTAACTAAACAATGATATGTTAAGTTGGAAT
1 TTGTTAATTACTCTGATAAAATTTTTGACGT-GTTTTTTTAAACAATGATATGTTAAGTTAGAAT
* *
95422222 AAGTTTTAAATAATAAAATTTTTAACAAAATTGTATTAAAATTT
65 AAATTTTAAATAATAAAATTTCTAACAAAATTGTATTAAAATTT
*
95422266 TTGTTAATTACTCTGATAAAATTTTTAACGTGTTTTTTTAAACAA
1 TTGTTAATTACTCTGATAAAATTTTTGACGTGTTTTTTTAAACAA
95422311 AATATTAATT
Statistics
Matches: 131, Mismatches: 18, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
105 1 0.01
106 29 0.22
107 2 0.02
108 98 0.75
109 1 0.01
ACGTcount: A:0.39, C:0.05, G:0.10, T:0.46
Consensus pattern (108 bp):
TTGTTAATTACTCTGATAAAATTTTTGACGTGTTTTTTTAAACAATGATATGTTAAGTTAGAATA
AATTTTAAATAATAAAATTTCTAACAAAATTGTATTAAAATTT
Found at i:95423957 original size:22 final size:22
Alignment explanation
Indices: 95423932--95423975 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
95423922 GGCCAAAACG
*
95423932 ACGTCGTTTTGGCCTCTAACCC
1 ACGTCGTTTTGACCTCTAACCC
*
95423954 ACGTTGTTTTGACCTCTAACCC
1 ACGTCGTTTTGACCTCTAACCC
95423976 GAGACCCAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.16, C:0.34, G:0.16, T:0.34
Consensus pattern (22 bp):
ACGTCGTTTTGACCTCTAACCC
Found at i:95425456 original size:25 final size:27
Alignment explanation
Indices: 95425411--95425484 Score: 71
Period size: 28 Copynumber: 2.7 Consensus size: 27
95425401 TTTAAAATTT
* * *
95425411 ATATATTGTTTATTCTGAACC-GTTTC
1 ATATATTATTTATTTTAAACCTGTTTC
* *
95425437 ATATATTA-TTATTTTAAACCTTTTTTTT
1 ATATATTATTTATTTTAAACC--TGTTTC
95425465 ATATATTATTTATTTTAAAC
1 ATATATTATTTATTTTAAAC
95425485 TTTTTATTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
25 10 0.26
26 7 0.18
28 11 0.28
29 11 0.28
ACGTcount: A:0.30, C:0.09, G:0.04, T:0.57
Consensus pattern (27 bp):
ATATATTATTTATTTTAAACCTGTTTC
Found at i:95425488 original size:25 final size:25
Alignment explanation
Indices: 95425396--95425491 Score: 72
Period size: 25 Copynumber: 3.8 Consensus size: 25
95425386 TGATTTATAC
* *
95425396 TTTATTTTAAA--ATTTATATATTG
1 TTTATTTTAAACTTTTTATATATTA
* * * *
95425419 TTTATTCTGAACCGTTTCATATATTA
1 TTTATT-TTAAACTTTTTATATATTA
95425445 -TTATTTTAAACCTTTTTTTTATATATTA
1 TTTATTTTAAA-C---TTTTTATATATTA
95425473 TTTATTTTAAACTTTTTAT
1 TTTATTTTAAACTTTTTAT
95425492 TTTGTACTTT
Statistics
Matches: 56, Mismatches: 9, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
23 6 0.11
24 6 0.11
25 13 0.23
26 9 0.16
28 12 0.21
29 10 0.18
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.60
Consensus pattern (25 bp):
TTTATTTTAAACTTTTTATATATTA
Found at i:95425501 original size:14 final size:14
Alignment explanation
Indices: 95425445--95425494 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 14
95425435 TCATATATTA
95425445 TTATTTTAAACCTTT
1 TTATTTTAAA-CTTT
*
95425460 TT-TTTATATA-TTAT
1 TTATTT-TAAACTT-T
95425474 TTATTTTAAACTTT
1 TTATTTTAAACTTT
95425488 TTATTTT
1 TTATTTT
95425495 GTACTTTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
13 2 0.07
14 17 0.59
15 10 0.34
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (14 bp):
TTATTTTAAACTTT
Found at i:95426177 original size:127 final size:127
Alignment explanation
Indices: 95426022--95426394 Score: 406
Period size: 127 Copynumber: 2.9 Consensus size: 127
95426012 GTTGACTTTA
* * * *
95426022 TAAAACGAAAGTGATGTTTGATGTTTAGAAATTCGAGGTATTGTGCCTTAATGTGTTGGGTTTCG
1 TAAAACGAAAGCGATGTTTGATGTTTAGAAATTCGAGGAATCGTGCCCTAATGTGTTGGGTTTCG
* * * ** *
95426087 GTCTTTCGTTTGTCTAAATAGTCAAATTTTCCTTTAAAATTTTGTCCGCGTTTTCTAAACCT
66 ATCTTTTGTTTGTCTAAATAATCAAATTTTCCTTTAAAATTTCATCCGCATTTTCTAAACCT
* * * *
95426149 TAAAACGAAGGCGATATTTGATGTTTAGAAATTCGAGGGATCGTGCCCTAATGTGTTGGGCTTCG
1 TAAAACGAAAGCGATGTTTGATGTTTAGAAATTCGAGGAATCGTGCCCTAATGTGTTGGGTTTCG
* * * * * * * *
95426214 ATCTTTTATTTGTCTAAACAATCAGATTTTCATTTTAAATTTCATTCGCATTTTCTAAGCTT
66 ATCTTTTGTTTGTCTAAATAATCAAATTTTCCTTTAAAATTTCATCCGCATTTTCTAAACCT
* * * * * *
95426276 TAAAACAAAAGCGACGGTTGATGTTTGGGAATTCG-GGAAATCGTGCCCTAATGTGCTGGGTTTC
1 TAAAACGAAAGCGATGTTTGATGTTTAGAAATTCGAGG-AATCGTGCCCTAATGTGTTGGGTTTC
* * ** * ** *
95426340 GATTTTTTGTTTATCTAAATAATCAAACATCCCTTTAAAATCCCATCTGCATTTT
65 GATCTTTTGTTTGTCTAAATAATCAAATTTTCCTTTAAAATTTCATCCGCATTTT
95426395 TCTTCATAAA
Statistics
Matches: 200, Mismatches: 45, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
126 2 0.01
127 198 0.99
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (127 bp):
TAAAACGAAAGCGATGTTTGATGTTTAGAAATTCGAGGAATCGTGCCCTAATGTGTTGGGTTTCG
ATCTTTTGTTTGTCTAAATAATCAAATTTTCCTTTAAAATTTCATCCGCATTTTCTAAACCT
Found at i:95427507 original size:42 final size:42
Alignment explanation
Indices: 95427444--95427607 Score: 186
Period size: 42 Copynumber: 3.7 Consensus size: 42
95427434 CTTCGTTTTC
**
95427444 TCGATGCCATAGTTCAGCTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACAT-A
* * *
95427487 T-GATGCCATAGCCCAACTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
* *
95427528 TCGATGCTATAGACCAGCTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC---AT--C-T-TCACATA
95427577 TCGATGCCATAGCCCAGCTATGGTCTTACAC
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC
95427608 GAATCACATA
Statistics
Matches: 101, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
41 2 0.02
42 60 0.59
43 1 0.01
45 2 0.02
48 1 0.01
49 35 0.35
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
Found at i:95427594 original size:49 final size:48
Alignment explanation
Indices: 95427514--95427697 Score: 180
Period size: 49 Copynumber: 3.8 Consensus size: 48
95427504 TATGGTCTTA
* * * *
95427514 CACATATTCATATATCGATGCTATAGACCAGCTATGGTCTTACACGTAAT
1 CACATA-TCACATAT-GATGCCATAGCCCAGATATGGTCTTACACGTAAT
*
95427564 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACG-AAT
1 CACATATCACATAT-GATGCCATAGCCCAGATATGGTCTTACACGTAAT
* * * *
95427612 CACATATCTCACTA--ATGCCATATCCCAGATATGGTCTTATACAGT-AG
1 CACATATCACA-TATGATGCCATAGCCCAGATATGGTCTTACAC-GTAAT
* * *
95427659 CATATATCACA-CTGATGCCATATCCCAGATATGGTCTTA
1 CACATATCACATATGATGCCATAGCCCAGATATGGTCTTA
95427698 TACGGAAATC
Statistics
Matches: 118, Mismatches: 11, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
46 25 0.21
47 36 0.31
48 13 0.11
49 38 0.32
50 6 0.05
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.29
Consensus pattern (48 bp):
CACATATCACATATGATGCCATAGCCCAGATATGGTCTTACACGTAAT
Found at i:95427682 original size:47 final size:46
Alignment explanation
Indices: 95427541--95427701 Score: 178
Period size: 47 Copynumber: 3.4 Consensus size: 46
95427531 ATGCTATAGA
* * * * *
95427541 CCAGCTATGGTCTTACACGTAATCACATATCACATATCGATGCCATAGC
1 CCAGATATGGTCTTATACG-AAGCACATATCACA-CT-GATGCCATATC
* * * * *
95427590 CCAGCTATGGTCTTACACGAATCACATATCTCACTAATGCCATATC
1 CCAGATATGGTCTTATACGAAGCACATATCACACTGATGCCATATC
* *
95427636 CCAGATATGGTCTTATACAGTAGCATATATCACACTGATGCCATATC
1 CCAGATATGGTCTTATAC-GAAGCACATATCACACTGATGCCATATC
95427683 CCAGATATGGTCTTATACG
1 CCAGATATGGTCTTATACG
95427702 GAAATCACTT
Statistics
Matches: 100, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
46 26 0.26
47 42 0.42
48 13 0.13
49 19 0.19
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (46 bp):
CCAGATATGGTCTTATACGAAGCACATATCACACTGATGCCATATC
Found at i:95427799 original size:31 final size:31
Alignment explanation
Indices: 95427719--95427799 Score: 126
Period size: 31 Copynumber: 2.6 Consensus size: 31
95427709 CTTGTCACTT
* * *
95427719 GTAGCAGAGGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
95427750 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
95427781 GTAGCCGAAGCTACCACTT
1 GTAGCCGAAGCTACCACTT
95427800 CACTTGTTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:95427875 original size:50 final size:50
Alignment explanation
Indices: 95427810--95427905 Score: 165
Period size: 50 Copynumber: 1.9 Consensus size: 50
95427800 CACTTGTTAT
**
95427810 TTGTCCTTGATCAGATAAGTGTAGCCGAAGGTATCACTTATCACTTTCAC
1 TTGTCCTTGATCAGATAAGTGTAGCCGAAACTATCACTTATCACTTTCAC
*
95427860 TTGTCTTTGATCAGATAAGTGTAGCCGAAACTATCACTTATCACTT
1 TTGTCCTTGATCAGATAAGTGTAGCCGAAACTATCACTTATCACTT
95427906 GTTGCCATGG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (50 bp):
TTGTCCTTGATCAGATAAGTGTAGCCGAAACTATCACTTATCACTTTCAC
Found at i:95433612 original size:13 final size:13
Alignment explanation
Indices: 95433594--95433620 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
95433584 GATGAAATAA
95433594 TATTAAATTGTAC
1 TATTAAATTGTAC
95433607 TATTAAATTGTAC
1 TATTAAATTGTAC
95433620 T
1 T
95433621 CATACAATAA
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:0.37, C:0.07, G:0.07, T:0.48
Consensus pattern (13 bp):
TATTAAATTGTAC
Found at i:95435446 original size:21 final size:22
Alignment explanation
Indices: 95435405--95435446 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
95435395 TGTGAAAAAC
*
95435405 TAAATAAAACAAAAAGTTAAAT
1 TAAATAAAACAAAAAGCTAAAT
95435427 TAAA-AAAACAAATAA-CTAAA
1 TAAATAAAACAAA-AAGCTAAA
95435447 CATATGATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.71, C:0.07, G:0.02, T:0.19
Consensus pattern (22 bp):
TAAATAAAACAAAAAGCTAAAT
Found at i:95436604 original size:13 final size:13
Alignment explanation
Indices: 95436586--95436617 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
95436576 TTTCCAGCAA
95436586 TTATGAATTTATT
1 TTATGAATTTATT
95436599 TTATGAATTTATT
1 TTATGAATTTATT
*
95436612 TGATGA
1 TTATGA
95436618 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:95436821 original size:49 final size:50
Alignment explanation
Indices: 95436712--95436951 Score: 252
Period size: 49 Copynumber: 4.7 Consensus size: 50
95436702 ATTTGGGTAA
* * *
95436712 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA--C-TGAGA-C--G
*
95436768 AGAGGTCCCCTGTAAGACCATGT-TGGGACATGGCATGGGCACTGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACTGAGACG
* * * * *
95436817 AGAGGTCCCATGTAAGACTATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACTGAGACG
* * * *
95436867 AGA-GTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCAC-CATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACTGA-GACG
**
95436916 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
95436952 TTTGGCATGT
Statistics
Matches: 159, Mismatches: 21, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
48 1 0.01
49 60 0.38
50 26 0.16
51 29 0.18
52 4 0.03
53 1 0.01
55 17 0.11
56 21 0.13
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACTGAGACG
Found at i:95444137 original size:12 final size:12
Alignment explanation
Indices: 95444122--95444178 Score: 78
Period size: 12 Copynumber: 4.8 Consensus size: 12
95444112 GTGGCAAGTA
* *
95444122 GTTTGTGTTCGT
1 GTTTGTGCTCGG
*
95444134 GTTTGTCCTCGG
1 GTTTGTGCTCGG
95444146 GTTTGTGCTCGG
1 GTTTGTGCTCGG
*
95444158 GTTTGTCCTCGG
1 GTTTGTGCTCGG
95444170 GTTTGTGCT
1 GTTTGTGCT
95444179 TGTACTTACG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 39 1.00
ACGTcount: A:0.00, C:0.18, G:0.35, T:0.47
Consensus pattern (12 bp):
GTTTGTGCTCGG
Found at i:95444161 original size:24 final size:24
Alignment explanation
Indices: 95444122--95444178 Score: 96
Period size: 24 Copynumber: 2.4 Consensus size: 24
95444112 GTGGCAAGTA
* *
95444122 GTTTGTGTTCGTGTTTGTCCTCGG
1 GTTTGTGCTCGGGTTTGTCCTCGG
95444146 GTTTGTGCTCGGGTTTGTCCTCGG
1 GTTTGTGCTCGGGTTTGTCCTCGG
95444170 GTTTGTGCT
1 GTTTGTGCT
95444179 TGTACTTACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.00, C:0.18, G:0.35, T:0.47
Consensus pattern (24 bp):
GTTTGTGCTCGGGTTTGTCCTCGG
Found at i:95446687 original size:63 final size:61
Alignment explanation
Indices: 95446545--95446687 Score: 151
Period size: 63 Copynumber: 2.3 Consensus size: 61
95446535 GACTTGGTCT
* * ** * **
95446545 CCCCAAAATTTTAAGAAATTTTGATTTCTCCCTTGAATTTTTTAGAAACTTTTAATTAGAC
1 CCCCAAAATTTTAAAAAAATTACATTTCTCCCTTGAAGTTTTTAGAAAAATTTAATTAGAC
* * * *
95446606 TCCCGAAATTTTCAAAAAAAATTACATTTCTCTCTTGAAGTTTTTAGAAAAATTTAATTAGTC
1 CCCCAAAATTTT--AAAAAAATTACATTTCTCCCTTGAAGTTTTTAGAAAAATTTAATTAGAC
95446669 CCCTTCAAAATTTTAAAAA
1 CCC--CAAAATTTTAAAAA
95446688 TTCTCATTAT
Statistics
Matches: 65, Mismatches: 13, Indels: 6
0.77 0.15 0.07
Matches are distributed among these distances:
61 10 0.15
63 47 0.72
65 8 0.12
ACGTcount: A:0.37, C:0.16, G:0.07, T:0.40
Consensus pattern (61 bp):
CCCCAAAATTTTAAAAAAATTACATTTCTCCCTTGAAGTTTTTAGAAAAATTTAATTAGAC
Found at i:95447951 original size:29 final size:30
Alignment explanation
Indices: 95447908--95447966 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
95447898 GAATTGAATC
* *
95447908 AAATCAAAATTTCATGTATAAAATTGCACA
1 AAATCAAAAGTTCATGTATAAAATTACACA
*
95447938 AAATC-AAAGTTCATGTATACAATTACACA
1 AAATCAAAAGTTCATGTATAAAATTACACA
95447967 TTAAAATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.49, C:0.15, G:0.07, T:0.29
Consensus pattern (30 bp):
AAATCAAAAGTTCATGTATAAAATTACACA
Found at i:95448762 original size:9 final size:9
Alignment explanation
Indices: 95448750--95448788 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
95448740 AAAAATCAGA
95448750 AAAAATATT
1 AAAAATATT
95448759 -AAAATATT
1 AAAAATATT
**
95448767 AAAAATGCT
1 AAAAATATT
95448776 AAAAATATT
1 AAAAATATT
95448785 AAAA
1 AAAA
95448789 TTGATATAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
8 8 0.32
9 17 0.68
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (9 bp):
AAAAATATT
Found at i:95448804 original size:20 final size:19
Alignment explanation
Indices: 95448781--95448819 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
95448771 ATGCTAAAAA
*
95448781 TATTAAAATTGATATAAACT
1 TATTAAAATT-ATAAAAACT
95448801 TATTAAAATTATAAAAACT
1 TATTAAAATTATAAAAACT
95448820 AATAAGTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (19 bp):
TATTAAAATTATAAAAACT
Found at i:95448868 original size:17 final size:19
Alignment explanation
Indices: 95448837--95448871 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
95448827 ATTATAAAAA
95448837 TAAAAAATCTAATAAATTG
1 TAAAAAATCTAATAAATTG
95448856 TAAAAAAT-T-ATAAATT
1 TAAAAAATCTAATAAATT
95448872 AATAAAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 1 0.06
19 8 0.50
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (19 bp):
TAAAAAATCTAATAAATTG
Found at i:95448952 original size:27 final size:27
Alignment explanation
Indices: 95448775--95448952 Score: 77
Period size: 27 Copynumber: 6.5 Consensus size: 27
95448765 TTAAAAATGC
*
95448775 TAAAAATATTAAAATTGATATAAACTTA
1 TAAAAAT-TAAAAATTGATATAAACTTA
* *
95448803 TTAAAATTATAAAAACT-A-ATAAGTA-TTA
1 -TAAAAAT-TAAAAATTGATATAA--ACTTA
* *
95448831 TAAAAATAAAAAATCT-A-ATAAA-TTG
1 TAAAAATTAAAAAT-TGATATAAACTTA
* *
95448856 TAAAAAATTATAAATTAATA-AAACTTA
1 T-AAAAATTAAAAATTGATATAAACTTA
* ** *
95448883 TTTAAAATTAAAGAA-TG-TATTGGACTTCT
1 -TAAAAATTAAA-AATTGATA-TAAACTT-A
*
95448912 TAAAAATAATAAAATTGATATAAACTTA
1 TAAAAATTA-AAAATTGATATAAACTTA
95448940 TAAAAATTAAAAA
1 TAAAAATTAAAAA
95448953 AAATCATAAA
Statistics
Matches: 112, Mismatches: 22, Indels: 32
0.67 0.13 0.19
Matches are distributed among these distances:
25 5 0.04
26 22 0.20
27 32 0.29
28 28 0.25
29 23 0.21
30 2 0.02
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (27 bp):
TAAAAATTAAAAATTGATATAAACTTA
Found at i:95451054 original size:18 final size:20
Alignment explanation
Indices: 95451019--95451055 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
95451009 GAAAAAGAAT
*
95451019 TATACTTTTTAATTGATTTA
1 TATACTTTTTAATAGATTTA
95451039 TATA-TTTTTAA-AGATTT
1 TATACTTTTTAATAGATTT
95451056 TTTTTATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 5 0.31
19 7 0.44
20 4 0.25
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.59
Consensus pattern (20 bp):
TATACTTTTTAATAGATTTA
Found at i:95458396 original size:12 final size:12
Alignment explanation
Indices: 95458379--95458404 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
95458369 GAACTGAACC
95458379 AGGAGAAGCTGA
1 AGGAGAAGCTGA
95458391 AGGAGAAGCTGA
1 AGGAGAAGCTGA
95458403 AG
1 AG
95458405 AAAAATCAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.08, G:0.42, T:0.08
Consensus pattern (12 bp):
AGGAGAAGCTGA
Found at i:95459970 original size:3 final size:3
Alignment explanation
Indices: 95459962--95459992 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
95459952 AAACTAAAGT
95459962 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
95459993 AATTAGAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:95460689 original size:13 final size:13
Alignment explanation
Indices: 95460671--95460699 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
95460661 ATGATCAAAC
95460671 TTATGTATGGTAT
1 TTATGTATGGTAT
95460684 TTATGTATGGTAT
1 TTATGTATGGTAT
95460697 TTA
1 TTA
95460700 AAGCGGTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.21, T:0.55
Consensus pattern (13 bp):
TTATGTATGGTAT
Found at i:95471664 original size:22 final size:22
Alignment explanation
Indices: 95471630--95471671 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
95471620 CCCTTCCCTC
*
95471630 TAGTATCTCCTTTTTTTTTTTT
1 TAGTATCTCCTTTTCTTTTTTT
* *
95471652 TAGTATTTTCTTTTCTTTTT
1 TAGTATCTCCTTTTCTTTTT
95471672 CTCCATCTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.10, C:0.12, G:0.05, T:0.74
Consensus pattern (22 bp):
TAGTATCTCCTTTTCTTTTTTT
Found at i:95476695 original size:55 final size:55
Alignment explanation
Indices: 95476629--95476736 Score: 216
Period size: 55 Copynumber: 2.0 Consensus size: 55
95476619 CATAACAATT
95476629 TTCGCATTTGCATTGAACCCACAAATTCTTGTATAGATCGAGATCATTAGAACAA
1 TTCGCATTTGCATTGAACCCACAAATTCTTGTATAGATCGAGATCATTAGAACAA
95476684 TTCGCATTTGCATTGAACCCACAAATTCTTGTATAGATCGAGATCATTAGAAC
1 TTCGCATTTGCATTGAACCCACAAATTCTTGTATAGATCGAGATCATTAGAAC
95476737 CGGAGGAGTA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.31
Consensus pattern (55 bp):
TTCGCATTTGCATTGAACCCACAAATTCTTGTATAGATCGAGATCATTAGAACAA
Found at i:95477329 original size:43 final size:43
Alignment explanation
Indices: 95477244--95477330 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 43
95477234 TGCCATGATC
* * * *
95477244 GTATTTCCAAACAATTTTGTCTCTACCATAATAAATTGAGAGA
1 GTATTTCAAAACAATCTTGTCTCTACCACAATAAATTAAGAGA
* *
95477287 GTATTTCAAAACAATCTTGTC-CTTACCACATTGAATTAAGAGA
1 GTATTTCAAAACAATCTTGTCTC-TACCACAATAAATTAAGAGA
95477330 G
1 G
95477331 GTCCGAGACG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
42 1 0.03
43 36 0.97
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (43 bp):
GTATTTCAAAACAATCTTGTCTCTACCACAATAAATTAAGAGA
Found at i:95479913 original size:7 final size:7
Alignment explanation
Indices: 95479901--95479926 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
95479891 AATACATAAA
95479901 AAAAAAG
1 AAAAAAG
95479908 AAAAAAG
1 AAAAAAG
95479915 AAAAAAG
1 AAAAAAG
95479922 AAAAA
1 AAAAA
95479927 GATGATTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:95481267 original size:13 final size:13
Alignment explanation
Indices: 95481230--95481267 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
95481220 AGTTCTTCAT
*
95481230 TGCTTTTGAAAAG
1 TGCTTTTGAGAAG
*
95481243 TGCTTTTCAGAAG
1 TGCTTTTGAGAAG
95481256 TGCTTTTGAGAA
1 TGCTTTTGAGAA
95481268 ATTTGAGTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.26, C:0.11, G:0.24, T:0.39
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:95486829 original size:32 final size:32
Alignment explanation
Indices: 95486748--95486834 Score: 104
Period size: 33 Copynumber: 2.6 Consensus size: 32
95486738 TATTTTAACT
95486748 TTAAATTT-AATATAATGGATTTACATTTTTAAAA
1 TTAAATTTAAATA-AAT--ATTTACATTTTTAAAA
* * *
95486782 GTAAATTTTAAATAAATATTTATATTTTTATAA
1 TTAAA-TTTAAATAAATATTTACATTTTTAAAA
95486815 TTAAATTTAAATAAATATTT
1 TTAAATTTAAATAAATATTT
95486835 TTATATATTG
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
32 15 0.32
33 18 0.38
34 4 0.09
35 6 0.13
36 4 0.09
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.49
Consensus pattern (32 bp):
TTAAATTTAAATAAATATTTACATTTTTAAAA
Found at i:95499817 original size:32 final size:30
Alignment explanation
Indices: 95499781--95499841 Score: 88
Period size: 32 Copynumber: 2.0 Consensus size: 30
95499771 TTTTTTAAAA
95499781 TTTAAAAATTCAAAAA-AATTATAAAAATTATT
1 TTTAAAAATT-AAAAATAA-T-TAAAAATTATT
95499813 TTTAAAAATTAAAAATAATTAAAAATTAT
1 TTTAAAAATTAAAAATAATTAAAAATTAT
95499842 AAAATATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
30 10 0.36
31 6 0.21
32 12 0.43
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (30 bp):
TTTAAAAATTAAAAATAATTAAAAATTATT
Found at i:95499836 original size:17 final size:18
Alignment explanation
Indices: 95499814--95499847 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
95499804 AAAATTATTT
95499814 TTAAAAATTA-AAAATAA
1 TTAAAAATTATAAAATAA
95499831 TTAAAAATTATAAAATA
1 TTAAAAATTATAAAATA
95499848 TATATAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
TTAAAAATTATAAAATAA
Found at i:95503162 original size:11 final size:11
Alignment explanation
Indices: 95503148--95503190 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
95503138 AGAATTTATA
95503148 AATATAAATAT
1 AATATAAATAT
95503159 AATAT-AATAT
1 AATATAAATAT
95503169 AAT-TATAATAT
1 AATATA-AATAT
95503180 AATCATAAATA
1 AAT-ATAAATA
95503191 CGAGTACATT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
9 1 0.04
10 8 0.29
11 13 0.46
12 4 0.14
13 2 0.07
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (11 bp):
AATATAAATAT
Found at i:95503164 original size:5 final size:5
Alignment explanation
Indices: 95503148--95503187 Score: 53
Period size: 5 Copynumber: 7.4 Consensus size: 5
95503138 AGAATTTATA
95503148 AATAT AAATAT AATAT AATAT AATTAT AATAT AATCAT AA
1 AATAT -AATAT AATAT AATAT AA-TAT AATAT AAT-AT AA
95503188 ATACGAGTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 18 0.56
6 14 0.44
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (5 bp):
AATAT
Found at i:95503169 original size:16 final size:16
Alignment explanation
Indices: 95503148--95503190 Score: 68
Period size: 16 Copynumber: 2.6 Consensus size: 16
95503138 AGAATTTATA
95503148 AATATAAATATAATAT
1 AATATAAATATAATAT
*
95503164 AATATAATTATAATAT
1 AATATAAATATAATAT
95503180 AATCATAAATA
1 AAT-ATAAATA
95503191 CGAGTACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 18 0.75
17 6 0.25
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (16 bp):
AATATAAATATAATAT
Found at i:95505148 original size:51 final size:51
Alignment explanation
Indices: 95505089--95505201 Score: 199
Period size: 51 Copynumber: 2.2 Consensus size: 51
95505079 ACACTGATCA
95505089 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTAT
1 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTAT
*
95505140 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTAT
* *
95505191 CACTTGTCACT
1 CATTTATCACT
95505202 GATCAGAAGT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.34
Consensus pattern (51 bp):
CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTAT
Found at i:95516081 original size:31 final size:31
Alignment explanation
Indices: 95516043--95516106 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
95516033 CATTTTTCTT
95516043 TAATTATTCTCTAAATAAATAATAAATAAAA
1 TAATTATTCTCTAAATAAATAATAAATAAAA
*
95516074 TAATTATTCTCTAAATCAATAATAAATAAAA
1 TAATTATTCTCTAAATAAATAATAAATAAAA
95516105 TA
1 TA
95516107 TAGATATAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (31 bp):
TAATTATTCTCTAAATAAATAATAAATAAAA
Found at i:95516879 original size:17 final size:17
Alignment explanation
Indices: 95516857--95516896 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
95516847 ATCTTAAGCG
95516857 GATTTGCAATCTTAGAA
1 GATTTGCAATCTTAGAA
* *
95516874 GATTTGTAATTTTAGAA
1 GATTTGCAATCTTAGAA
*
95516891 AATTTG
1 GATTTG
95516897 ATTCTGTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.35, C:0.05, G:0.17, T:0.42
Consensus pattern (17 bp):
GATTTGCAATCTTAGAA
Found at i:95516923 original size:24 final size:23
Alignment explanation
Indices: 95516874--95516924 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
95516864 AATCTTAGAA
*
95516874 GATT-TGTAATTTTAGAAAATTT
1 GATTCTGTAATTTTAGAAAATTC
* *
95516896 GATTCTGTAAATTTTAGGAGATTC
1 GATTCTGT-AATTTTAGAAAATTC
95516920 GATTC
1 GATTC
95516925 GTAGATTACT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 4 0.17
23 3 0.12
24 17 0.71
ACGTcount: A:0.31, C:0.06, G:0.18, T:0.45
Consensus pattern (23 bp):
GATTCTGTAATTTTAGAAAATTC
Found at i:95521594 original size:28 final size:28
Alignment explanation
Indices: 95521558--95521613 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
95521548 CTAAATAATG
95521558 TTTAACTAAAAGTACAAATTAGTTGGAA
1 TTTAACTAAAAGTACAAATTAGTTGGAA
*
95521586 TTTAGCTAAAAGTACAAATTAGTTGGAA
1 TTTAACTAAAAGTACAAATTAGTTGGAA
95521614 CAATGGTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.45, C:0.07, G:0.16, T:0.32
Consensus pattern (28 bp):
TTTAACTAAAAGTACAAATTAGTTGGAA
Found at i:95521735 original size:52 final size:52
Alignment explanation
Indices: 95521665--95521818 Score: 193
Period size: 52 Copynumber: 2.9 Consensus size: 52
95521655 GACGGAAAAG
** *
95521665 ATGTGATATGTGCGCCCGTATAAAACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATATGTGTTCCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGCA
* * * *
95521717 ATGTGATACGTGTTCCCGTATAAGACCAGAGCTAGGCTATGGCATCGGTGTA
1 ATGTGATATGTGTTCCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGCA
* * *
95521769 ATATGATAATGTGATT-CCGTATAAGACCATATCTGGGATATGGCATCGGT
1 ATGTGAT-ATGTG-TTCCCGTATAAGACCATAGCTGGGCTATGGCATCGGT
95521819 ATTATATGTG
Statistics
Matches: 87, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
52 51 0.59
53 34 0.39
54 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (52 bp):
ATGTGATATGTGTTCCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGCA
Found at i:95521998 original size:31 final size:31
Alignment explanation
Indices: 95521960--95522023 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
95521950 TTGTCAATGG
95521960 AAGTGAATGATAAATGGGCCCAAAGGAGTTA
1 AAGTGAATGATAAATGGGCCCAAAGGAGTTA
95521991 AAGTGAATGATAAATGGGCCCAAAGGAGTTA
1 AAGTGAATGATAAATGGGCCCAAAGGAGTTA
95522022 AA
1 AA
95522024 TTGTGAATAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (31 bp):
AAGTGAATGATAAATGGGCCCAAAGGAGTTA
Found at i:95530378 original size:17 final size:17
Alignment explanation
Indices: 95530345--95530390 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
95530335 TTTCAGTCCA
*
95530345 ATTG-ATTAAATCTAATT
1 ATTGAATTAAAT-AAATT
95530362 ATTGAATTAAATAAATT
1 ATTGAATTAAATAAATT
*
95530379 ATTTAA-TAAATA
1 ATTGAATTAAATA
95530391 TATAATTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 6 0.23
17 13 0.50
18 7 0.27
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.43
Consensus pattern (17 bp):
ATTGAATTAAATAAATT
Found at i:95534416 original size:32 final size:32
Alignment explanation
Indices: 95534375--95534440 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
95534365 ATAAGATACA
95534375 CGACTCAGTACAACAATTAAACAGTCGGCAAT
1 CGACTCAGTACAACAATTAAACAGTCGGCAAT
95534407 CGACTCAGTACAACAATTAAACAGTCGGCAAT
1 CGACTCAGTACAACAATTAAACAGTCGGCAAT
95534439 CG
1 CG
95534441 TTTGACACTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.39, C:0.26, G:0.17, T:0.18
Consensus pattern (32 bp):
CGACTCAGTACAACAATTAAACAGTCGGCAAT
Found at i:95540099 original size:12 final size:13
Alignment explanation
Indices: 95540082--95540119 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
95540072 TTTATTCAAT
95540082 TTATA-TTTATTA
1 TTATATTTTATTA
*
95540094 TTATATTTTAATA
1 TTATATTTTATTA
95540107 TTA-ATTTTATTA
1 TTATATTTTATTA
95540119 T
1 T
95540120 AAATTTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 14 0.61
13 9 0.39
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
TTATATTTTATTA
Found at i:95543237 original size:21 final size:23
Alignment explanation
Indices: 95543190--95543243 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
95543180 CATTCAAGAT
**
95543190 AAAATAATATATAAAACTCTTTA
1 AAAATAATATATAAAACTAATTA
*
95543213 AAAATAATATAT-AAAC-AATTC
1 AAAATAATATATAAAACTAATTA
95543234 AAAAT-ATATA
1 AAAATAATATA
95543244 ATGTATAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 7 0.25
22 4 0.14
23 12 0.43
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAATAATATATAAAACTAATTA
Found at i:95543313 original size:25 final size:24
Alignment explanation
Indices: 95543191--95543314 Score: 74
Period size: 25 Copynumber: 5.0 Consensus size: 24
95543181 ATTCAAGATA
* *
95543191 AAATAATATAT-AAAACTCTTTAA-
1 AAATAATATATAAAAAAT-TTAAAT
* *
95543214 AAATAATATATAAACAATTCAAAAT
1 AAATAATATATAAAAAATT-TAAAT
* *
95543239 ATATAATGTATAAAAAAAAGTTTGAAAT
1 AAATAA--TATATAAAAAA-TTT-AAAT
* *
95543267 ACATAATATAT-GAAAATATTAAAGT
1 AAATAATATATAAAAAAT-TTAAA-T
*
95543292 AAATAATGTATAAAAAATTTAAA
1 AAATAATATATAAAAAATTTAAA
95543315 ATGAGCGTTA
Statistics
Matches: 77, Mismatches: 14, Indels: 18
0.71 0.13 0.17
Matches are distributed among these distances:
23 12 0.16
24 10 0.13
25 26 0.34
26 9 0.12
27 9 0.12
28 11 0.14
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.31
Consensus pattern (24 bp):
AAATAATATATAAAAAATTTAAAT
Found at i:95543495 original size:17 final size:15
Alignment explanation
Indices: 95543455--95543500 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
95543445 ATATATATAG
*
95543455 AAATAAAAATATAAT
1 AAATAGAAATATAAT
95543470 AAATAGAAATATAAT
1 AAATAGAAATATAAT
95543485 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
95543501 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:95543500 original size:14 final size:15
Alignment explanation
Indices: 95543480--95543520 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
95543470 AAATAGAAAT
95543480 ATAATAATAGTAGAA
1 ATAATAATAGTAGAA
*
95543495 AT-ATAAATAG-ATAA
1 ATAAT-AATAGTAGAA
95543509 ATAATAATAGTA
1 ATAATAATAGTA
95543521 TTAGAATAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (15 bp):
ATAATAATAGTAGAA
Found at i:95543515 original size:15 final size:14
Alignment explanation
Indices: 95543455--95543515 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 14
95543445 ATATATATAG
*
95543455 AAATAAAAATATAAT
1 AAATAGAAA-ATAAT
95543470 AAATAGAAATATAAT
1 AAATAGAAA-ATAAT
95543485 -AATAGTAGAAAT-AT
1 AAATAG-A-AAATAAT
95543499 AAATAGATAAATAAT
1 AAATAGA-AAATAAT
95543514 AA
1 AA
95543516 TAGTATTAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
14 12 0.30
15 26 0.65
16 2 0.05
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (14 bp):
AAATAGAAAATAAT
Found at i:95551106 original size:22 final size:22
Alignment explanation
Indices: 95551081--95551133 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
95551071 TAGTTTTTGA
95551081 TTCTATGAAAGAAATTGGAAGT
1 TTCTATGAAAGAAATTGGAAGT
95551103 TTCTATGAAAGAAATTGGAAGT
1 TTCTATGAAAGAAATTGGAAGT
95551125 TTCTATGAA
1 TTCTATGAA
95551134 TATGTGCTGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.40, C:0.06, G:0.21, T:0.34
Consensus pattern (22 bp):
TTCTATGAAAGAAATTGGAAGT
Found at i:95552015 original size:29 final size:30
Alignment explanation
Indices: 95551956--95552013 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
95551946 TCCGAGCCTT
*
95551956 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
95551986 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
95552014 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:95552451 original size:50 final size:50
Alignment explanation
Indices: 95552338--95552579 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
95552328 ATTTGGGTAA
* * *
95552338 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
95552394 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
95552444 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
95552494 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
95552544 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
95552580 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:95552527 original size:100 final size:103
Alignment explanation
Indices: 95552338--95552587 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
95552328 ATTTGGGTAA
95552338 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
95552403 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
95552444 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
95552506 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
95552544 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
95552588 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:95555324 original size:18 final size:18
Alignment explanation
Indices: 95555262--95555325 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
95555252 GCTCTAGTGA
*
95555262 GCTTCAGTTAGCCTTCGG
1 GCTTCAGTTAGACTTCGG
* * *
95555280 GCTTCCGTTTAGCACTTATGT
1 GCTTCAG-TTAG-ACTT-CGG
95555301 GCTTCAGTTAGACTTCGG
1 GCTTCAGTTAGACTTCGG
95555319 GCTTCAG
1 GCTTCAG
95555326 ATCACAATGT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
18 14 0.39
19 8 0.22
20 7 0.19
21 7 0.19
ACGTcount: A:0.14, C:0.25, G:0.25, T:0.36
Consensus pattern (18 bp):
GCTTCAGTTAGACTTCGG
Found at i:95557623 original size:53 final size:53
Alignment explanation
Indices: 95557467--95557632 Score: 221
Period size: 53 Copynumber: 3.1 Consensus size: 53
95557457 GACGAAAAAT
* **
95557467 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
95557519 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
* * *
95557572 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A
95557626 TATGTGA
1 -ATGTGA
95557633 ACCGTGTAAG
Statistics
Matches: 103, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
51 4 0.04
52 11 0.11
53 81 0.79
54 1 0.01
55 6 0.06
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
Found at i:95563202 original size:21 final size:22
Alignment explanation
Indices: 95563170--95563210 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
95563160 TTAATGGTAA
95563170 ATGTGATGCATTTAGGATATTG
1 ATGTGATGCATTTAGGATATTG
*
95563192 ATGTGAT-CATTTATGATAT
1 ATGTGATGCATTTAGGATAT
95563211 CCAACAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.29, C:0.05, G:0.22, T:0.44
Consensus pattern (22 bp):
ATGTGATGCATTTAGGATATTG
Found at i:95564523 original size:27 final size:30
Alignment explanation
Indices: 95564493--95564571 Score: 94
Period size: 30 Copynumber: 2.8 Consensus size: 30
95564483 GTCTCTATAC
95564493 ACTTTTTATATTT-AGAATTTAGT-C-TCT
1 ACTTTTTATATTTAAGAATTTAGTCCTTCT
* *
95564520 AC-TTTTATTTTTAAGAATCTAGTCCTTCT
1 ACTTTTTATATTTAAGAATTTAGTCCTTCT
* *
95564549 ACTTTTTAAATTTAAAAATTTAG
1 ACTTTTTATATTTAAGAATTTAG
95564572 GTCCGATTGT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
26 9 0.21
27 11 0.26
28 1 0.02
29 5 0.12
30 16 0.38
ACGTcount: A:0.30, C:0.11, G:0.06, T:0.52
Consensus pattern (30 bp):
ACTTTTTATATTTAAGAATTTAGTCCTTCT
Found at i:95565240 original size:26 final size:24
Alignment explanation
Indices: 95565190--95565243 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 24
95565180 TATATAGAGT
*
95565190 TAATAATATTTAAATAATTTAAAA
1 TAATAATATTTAAATAAATTAAAA
95565214 TAATAATATTTGTAAATACAATT-AAA
1 TAATAATA-TT-TAAATA-AATTAAAA
95565240 TAAT
1 TAAT
95565244 TTAATATAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 8 0.31
25 2 0.08
26 13 0.50
27 3 0.12
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (24 bp):
TAATAATATTTAAATAAATTAAAA
Found at i:95565649 original size:31 final size:31
Alignment explanation
Indices: 95565548--95565651 Score: 100
Period size: 31 Copynumber: 3.2 Consensus size: 31
95565538 TAAAATTTTG
* * *
95565548 AATATAATGATAAACGATATTTTAACAATTT
1 AATATAATGATAAATGATATTTAAATAATTT
* * * *
95565579 AATATAATGATATTTTAATAATATTTAATTAAATC
1 AATATAATGATA----AATGATATTTAAATAATTT
*
95565614 AATATAGTGATAAATGATATTTAAATAATTT
1 AATATAATGATAAATGATATTTAAATAATTT
95565645 AATATAA
1 AATATAA
95565652 CAATTTAATA
Statistics
Matches: 56, Mismatches: 13, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
31 33 0.59
35 23 0.41
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.41
Consensus pattern (31 bp):
AATATAATGATAAATGATATTTAAATAATTT
Found at i:95569264 original size:25 final size:25
Alignment explanation
Indices: 95569225--95569284 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
95569215 CGCCTTCTCA
95569225 AAAAGAAAAAAAAAAAGAAGAAAAG-
1 AAAAG-AAAAAAAAAAGAAGAAAAGT
* * *
95569250 AAAAGAAAGATAAAAGAATAAAAGT
1 AAAAGAAAAAAAAAAGAAGAAAAGT
*
95569275 AAATGAAAAA
1 AAAAGAAAAA
95569285 TTTCTCTCGT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
24 16 0.55
25 13 0.45
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (25 bp):
AAAAGAAAAAAAAAAGAAGAAAAGT
Found at i:95570111 original size:27 final size:27
Alignment explanation
Indices: 95570080--95570133 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
95570070 AACCAAATAA
95570080 TTGTTGAACCATAATTTATGAAATTCT
1 TTGTTGAACCATAATTTATGAAATTCT
95570107 TTGTTGAACCATAATTTATGAAATTCT
1 TTGTTGAACCATAATTTATGAAATTCT
95570134 CTGCCACAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.44
Consensus pattern (27 bp):
TTGTTGAACCATAATTTATGAAATTCT
Found at i:95572829 original size:16 final size:16
Alignment explanation
Indices: 95572808--95572838 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
95572798 TCTATATATA
*
95572808 TATATATGTATGTATG
1 TATATATGAATGTATG
95572824 TATATATGAATGTAT
1 TATATATGAATGTAT
95572839 ATATTCAGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.48
Consensus pattern (16 bp):
TATATATGAATGTATG
Found at i:95574004 original size:2 final size:2
Alignment explanation
Indices: 95573997--95574022 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
95573987 GCGCATTCTA
95573997 GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT
95574023 TTTTTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:95576874 original size:105 final size:104
Alignment explanation
Indices: 95576685--95576894 Score: 393
Period size: 105 Copynumber: 2.0 Consensus size: 104
95576675 ATGGCTACTT
95576685 TTCATTTCATCTGCTGAAATTAGGATGACAGGCAGGAAAAGGAGACAGTTTAATTTAAGAACACA
1 TTCATTTCATCTGCTGAAATTAGGATGACAGGCAGGAAAAGGAGACAGTTTAATTTAAGAACACA
95576750 TGAAATGGAAATGTTATAAAGGAGAAGAAGCAACAAATA
66 TGAAATGGAAATGTTATAAAGGAGAAGAAGCAACAAATA
*
95576789 TTCATTTCATCTGCTGAAATTAGGATGACATGCAGGAAAAGGAAGACAGTTTAATTTAAGAACAC
1 TTCATTTCATCTGCTGAAATTAGGATGACAGGCAGGAAAAGG-AGACAGTTTAATTTAAGAACAC
*
95576854 GTGAAATGGAAATGTTATAAAGGAGAAGAAGCAACAAATA
65 ATGAAATGGAAATGTTATAAAGGAGAAGAAGCAACAAATA
95576894 T
1 T
95576895 GTAGTAGGAC
Statistics
Matches: 103, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
104 41 0.40
105 62 0.60
ACGTcount: A:0.44, C:0.10, G:0.22, T:0.24
Consensus pattern (104 bp):
TTCATTTCATCTGCTGAAATTAGGATGACAGGCAGGAAAAGGAGACAGTTTAATTTAAGAACACA
TGAAATGGAAATGTTATAAAGGAGAAGAAGCAACAAATA
Found at i:95586686 original size:2 final size:2
Alignment explanation
Indices: 95586679--95586739 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
95586669 CAACTCAAAA
95586679 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
95586721 AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG A
95586740 AATCCATTTC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:95588258 original size:4 final size:4
Alignment explanation
Indices: 95588249--95588273 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
95588239 AGTTAAAGGG
95588249 TCAC TCAC TCAC TCAC TCAC TCAC T
1 TCAC TCAC TCAC TCAC TCAC TCAC T
95588274 TTTCTCTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.48, G:0.00, T:0.28
Consensus pattern (4 bp):
TCAC
Found at i:95593890 original size:24 final size:25
Alignment explanation
Indices: 95593863--95593910 Score: 64
Period size: 24 Copynumber: 1.9 Consensus size: 25
95593853 TTACTGCTAC
95593863 TCTTTTCCT-TCTTTT-TTCCTTTCT
1 TCTTTT-CTATCTTTTCTTCCTTTCT
95593887 TCTTTTCTATCTTTTCCTTCCTTT
1 TCTTTTCTATCTTTT-CTTCCTTT
95593911 TTTTCATAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 2 0.10
24 12 0.57
26 7 0.33
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (25 bp):
TCTTTTCTATCTTTTCTTCCTTTCT
Found at i:95594837 original size:23 final size:23
Alignment explanation
Indices: 95594811--95594854 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
95594801 AGGTAAGTTT
95594811 ACAAGTACAA-ATAATGTACAATC
1 ACAAGTACAATATAAT-TACAATC
95594834 ACAAGTACAATATAATTACAA
1 ACAAGTACAATATAATTACAA
95594855 ATGGTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.55, C:0.16, G:0.07, T:0.23
Consensus pattern (23 bp):
ACAAGTACAATATAATTACAATC
Found at i:95595609 original size:20 final size:18
Alignment explanation
Indices: 95595564--95595633 Score: 72
Period size: 17 Copynumber: 3.8 Consensus size: 18
95595554 ATCGATATTT
*
95595564 TTAAATATA-TTTAATATA
1 TTAAATAAATTTTAA-ATA
95595582 TATAAATAAGATTCTTAAATA
1 T-TAAATAA-ATT-TTAAATA
95595603 TTAAATAAATTTTAAA-A
1 TTAAATAAATTTTAAATA
*
95595620 ATAAATAAATTTTA
1 TTAAATAAATTTTA
95595634 TAAACAAACA
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
17 14 0.30
18 6 0.13
19 9 0.20
20 8 0.17
21 5 0.11
22 4 0.09
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (18 bp):
TTAAATAAATTTTAAATA
Found at i:95606210 original size:41 final size:42
Alignment explanation
Indices: 95606132--95606210 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 42
95606122 AATATATATT
* ** * **
95606132 TTTTAAAATATTATAGAAATTAAATGGATAATGAAAAATTAA
1 TTTTAAAATACTATAGAAATTAAAAAGAAAAAAAAAAATTAA
95606174 TTTTAAAA-ACTATAGAAATTAAAAAGAAAAAAAAAAA
1 TTTTAAAATACTATAGAAATTAAAAAGAAAAAAAAAAA
95606211 GGAATAGATG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
41 23 0.74
42 8 0.26
ACGTcount: A:0.62, C:0.01, G:0.08, T:0.29
Consensus pattern (42 bp):
TTTTAAAATACTATAGAAATTAAAAAGAAAAAAAAAAATTAA
Found at i:95612381 original size:108 final size:108
Alignment explanation
Indices: 95612192--95612405 Score: 419
Period size: 108 Copynumber: 2.0 Consensus size: 108
95612182 GAATCGGTCA
95612192 TTTGGAATTTTATTGTTAGAACCCCCATTTAGAAGGAATGAAGTTAGCCAAGTCAAGCTCCAGAG
1 TTTGGAATTTTATTGTTAGAACCCCCATTTAGAAGGAATGAAGTTAGCCAAGTCAAGCTCCAGAG
95612257 TCAGGACCCAATCACCAGCCATCAGTTTCTGCACATCTATATC
66 TCAGGACCCAATCACCAGCCATCAGTTTCTGCACATCTATATC
*
95612300 TTTGGAATTTTATTGTTGGAACCCCCATTTAGAAGGAATGAAGTTAGCCAAGTCAAGCTCCAGAG
1 TTTGGAATTTTATTGTTAGAACCCCCATTTAGAAGGAATGAAGTTAGCCAAGTCAAGCTCCAGAG
95612365 TCAGGACCCAATCACCAGCCATCAGTTTCTGCACATCTATA
66 TCAGGACCCAATCACCAGCCATCAGTTTCTGCACATCTATA
95612406 ACTTCAAACC
Statistics
Matches: 105, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
108 105 1.00
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (108 bp):
TTTGGAATTTTATTGTTAGAACCCCCATTTAGAAGGAATGAAGTTAGCCAAGTCAAGCTCCAGAG
TCAGGACCCAATCACCAGCCATCAGTTTCTGCACATCTATATC
Found at i:95615186 original size:12 final size:12
Alignment explanation
Indices: 95615169--95615194 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
95615159 AGAATAGGAG
95615169 AAGGATTAGTTA
1 AAGGATTAGTTA
95615181 AAGGATTAGTTA
1 AAGGATTAGTTA
95615193 AA
1 AA
95615195 AGAAAACAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (12 bp):
AAGGATTAGTTA
Found at i:95626370 original size:31 final size:28
Alignment explanation
Indices: 95626335--95626393 Score: 73
Period size: 31 Copynumber: 2.0 Consensus size: 28
95626325 TATACTAAAT
*
95626335 TAGTATATTACTAATACATAAACTAATATTA
1 TAGTATATAACTAATAC-TAAA--AATATTA
*
95626366 TAGTATATAACTATTACTAAAAATATTA
1 TAGTATATAACTAATACTAAAAATATTA
95626394 GTACATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 7 0.27
30 4 0.15
31 15 0.58
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.39
Consensus pattern (28 bp):
TAGTATATAACTAATACTAAAAATATTA
Found at i:95626410 original size:18 final size:17
Alignment explanation
Indices: 95626389--95626422 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
95626379 TTACTAAAAA
95626389 TATTAGTACATATATCAC
1 TATTAGTACA-ATATCAC
*
95626407 TATTATTACAATATCA
1 TATTAGTACAATATCA
95626423 TAAAATAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.15, G:0.03, T:0.41
Consensus pattern (17 bp):
TATTAGTACAATATCAC
Found at i:95632071 original size:21 final size:21
Alignment explanation
Indices: 95632045--95632115 Score: 124
Period size: 21 Copynumber: 3.4 Consensus size: 21
95632035 GTGACACTTA
*
95632045 CAGGAGGAGGTGCAAAAGCAG
1 CAGGAGGCGGTGCAAAAGCAG
*
95632066 CAGGAGGCGGTGCAAAAGCGG
1 CAGGAGGCGGTGCAAAAGCAG
95632087 CAGGAGGCGGTGCAAAAGCAG
1 CAGGAGGCGGTGCAAAAGCAG
95632108 CAGGAGGC
1 CAGGAGGC
95632116 AATTTGTAGT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.32, C:0.18, G:0.45, T:0.04
Consensus pattern (21 bp):
CAGGAGGCGGTGCAAAAGCAG
Found at i:95633401 original size:25 final size:26
Alignment explanation
Indices: 95633383--95633431 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
95633373 AAGAAGGAGG
95633383 AATCAAAGGAAAGGAAAG-AGAAAAA
1 AATCAAAGGAAAGGAAAGAAGAAAAA
95633408 AATCAAAGGAAAGGAAAG-AGAAAA
1 AATCAAAGGAAAGGAAAGAAGAAAA
95633432 CTAACAGACG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.67, C:0.04, G:0.24, T:0.04
Consensus pattern (26 bp):
AATCAAAGGAAAGGAAAGAAGAAAAA
Found at i:95636001 original size:15 final size:16
Alignment explanation
Indices: 95635971--95636009 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
95635961 TAGTAAAAAT
95635971 ATAATTTTATTATTTTA
1 ATAA-TTTATTATTTTA
*
95635988 ATAATTTA-TATTTTT
1 ATAATTTATTATTTTA
95636003 ATAATTT
1 ATAATTT
95636010 TTAAAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.62
16 4 0.19
17 4 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATAATTTATTATTTTA
Found at i:95649048 original size:47 final size:47
Alignment explanation
Indices: 95648976--95649105 Score: 138
Period size: 47 Copynumber: 2.8 Consensus size: 47
95648966 ATCTACACAA
* *
95648976 TACTAT-AGAATTTGAGATGAACATTTCCCGAACTACAGCATAAAAAG
1 TACTATAAG-ATTTCAGATGAACATTTCCCAAACTACAGCATAAAAAG
* * * ** *
95649023 TACTATAAGATTTCAGATGAGCATTTTCCAAACTATAGTGTAAACAG
1 TACTATAAGATTTCAGATGAACATTTCCCAAACTACAGCATAAAAAG
* *
95649070 AACTATAAGATTTCAGATGAATATCTT-CCAAACTAC
1 TACTATAAGATTTCAGATGAACAT-TTCCCAAACTAC
95649106 TGTCTACAAC
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
47 65 0.94
48 4 0.06
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (47 bp):
TACTATAAGATTTCAGATGAACATTTCCCAAACTACAGCATAAAAAG
Found at i:95649638 original size:43 final size:42
Alignment explanation
Indices: 95649577--95649663 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 42
95649567 TGGCATTAGT
95649577 CTATGATTGCTTATCAGGATTGAACAACTATCTGATTGCACAA
1 CTATGATTGCTTATCAGGATTGAACAA-TATCTGATTGCACAA
95649620 CTATGATTGCTTATCAGGATTGAACAATATCTGATTGCACAA
1 CTATGATTGCTTATCAGGATTGAACAATATCTGATTGCACAA
95649662 CT
1 CT
95649664 TTCACCTGAA
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 17 0.39
43 27 0.61
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.33
Consensus pattern (42 bp):
CTATGATTGCTTATCAGGATTGAACAATATCTGATTGCACAA
Found at i:95655887 original size:1 final size:1
Alignment explanation
Indices: 95655881--95655908 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
95655871 AATATTGCTC
95655881 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
95655909 CCTTCTTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:95659496 original size:20 final size:20
Alignment explanation
Indices: 95659473--95659510 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
95659463 TATTTTATTT
*
95659473 ATTTTTTAAATATTTTTATA
1 ATTTTGTAAATATTTTTATA
*
95659493 ATTTTGTATATATTTTTA
1 ATTTTGTAAATATTTTTA
95659511 CAGAACTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (20 bp):
ATTTTGTAAATATTTTTATA
Found at i:95660176 original size:19 final size:17
Alignment explanation
Indices: 95660152--95660188 Score: 56
Period size: 19 Copynumber: 2.1 Consensus size: 17
95660142 ATTTTGAAAA
95660152 TATAAAATAAATAAAATAT
1 TATAAAAT-AAT-AAATAT
95660171 TATAAAATAATAAATAT
1 TATAAAATAATAAATAT
95660188 T
1 T
95660189 TGAATCTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 3 0.17
19 8 0.44
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TATAAAATAATAAATAT
Found at i:95666817 original size:20 final size:20
Alignment explanation
Indices: 95666794--95666846 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
95666784 TATAATATAA
*
95666794 TTTTTTAATTAATAAATATC
1 TTTTATAATTAATAAATATC
95666814 TTTTATAATTAATAAATATC
1 TTTTATAATTAATAAATATC
*
95666834 TATTAATAATTAA
1 T-TTTATAATTAA
95666847 ATACATATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 20 0.67
21 10 0.33
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTTATAATTAATAAATATC
Found at i:95666948 original size:16 final size:15
Alignment explanation
Indices: 95666925--95666959 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
95666915 ACAATTTAAT
*
95666925 TTATTTATCATATAA
1 TTATTTATAATATAA
95666940 TTATCTTATAATATAA
1 TTAT-TTATAATATAA
95666956 TTAT
1 TTAT
95666960 AATAAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (15 bp):
TTATTTATAATATAA
Found at i:95668839 original size:40 final size:40
Alignment explanation
Indices: 95668770--95668935 Score: 271
Period size: 40 Copynumber: 4.2 Consensus size: 40
95668760 AACCCAAGTA
* *
95668770 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
95668809 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
95668849 CCTTCGAGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
95668889 CCTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
95668929 CCTTCGG
1 CCTTCGG
95668936 ATCTTAGTCC
Statistics
Matches: 120, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 13 0.11
40 107 0.89
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:95673541 original size:13 final size:13
Alignment explanation
Indices: 95673525--95673564 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
95673515 CAATCTCATA
95673525 TCTCAATTTCAAT
1 TCTCAATTTCAAT
95673538 TCTCAA-TTCAATT
1 TCTCAATTTCAA-T
95673551 TCTC-ATTTC-AT
1 TCTCAATTTCAAT
95673562 TCT
1 TCT
95673565 AATAGCTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 4 0.16
12 7 0.28
13 14 0.56
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (13 bp):
TCTCAATTTCAAT
Found at i:95673550 original size:18 final size:19
Alignment explanation
Indices: 95673512--95673552 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
95673502 TGGTTCATGT
95673512 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
95673531 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
95673549 TTTC
1 TTTC
95673553 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:95673687 original size:23 final size:23
Alignment explanation
Indices: 95673657--95673722 Score: 123
Period size: 23 Copynumber: 2.8 Consensus size: 23
95673647 GCGGATTCCT
95673657 CCCAAACACACCAGAATATCCAA
1 CCCAAACACACCAGAATATCCAA
95673680 CCCAAACACACCAGAATATCCAA
1 CCCAAACACACCAGAATATCCAA
95673703 CCCAAACACACCCAGAATAT
1 CCCAAACACA-CCAGAATAT
95673723 TATAAATCCT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
23 33 0.79
24 9 0.21
ACGTcount: A:0.47, C:0.39, G:0.05, T:0.09
Consensus pattern (23 bp):
CCCAAACACACCAGAATATCCAA
Found at i:95673767 original size:27 final size:28
Alignment explanation
Indices: 95673653--95673772 Score: 93
Period size: 23 Copynumber: 4.6 Consensus size: 28
95673643 ATACGCGGAT
*
95673653 TCCTCCCAAACACACCAGAATATC-CAA
1 TCCTCCCAAACACACCAGAATATCATAA
*
95673680 ----CCCAAACACACCAGAATATC-CAA
1 TCCTCCCAAACACACCAGAATATCATAA
*
95673703 ----CCCAAACACACCCAGAATATTATAAA
1 TCCTCCCAAACACA-CCAGAATATCAT-AA
*
95673729 TCCT-CCATAACACACCAGTATATCAT-A
1 TCCTCCCA-AACACACCAGAATATCATAA
95673756 TCCTCCCAAACACACCA
1 TCCTCCCAAACACACCA
95673773 ATAAGGCATT
Statistics
Matches: 80, Mismatches: 4, Indels: 18
0.78 0.04 0.18
Matches are distributed among these distances:
23 33 0.41
24 9 0.11
26 2 0.03
27 14 0.17
28 3 0.04
29 13 0.16
30 6 0.08
ACGTcount: A:0.42, C:0.38, G:0.03, T:0.16
Consensus pattern (28 bp):
TCCTCCCAAACACACCAGAATATCATAA
Found at i:95674103 original size:15 final size:15
Alignment explanation
Indices: 95674083--95674129 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
95674073 TATTATATAT
95674083 TTCAATCAATATAAA
1 TTCAATCAATATAAA
* * *
95674098 TTCAATCAAAATGAT
1 TTCAATCAATATAAA
95674113 TTCAATCAATATAAA
1 TTCAATCAATATAAA
95674128 TT
1 TT
95674130 TGATAAATTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (15 bp):
TTCAATCAATATAAA
Found at i:95675024 original size:19 final size:18
Alignment explanation
Indices: 95674976--95675024 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
95674966 GTAATACTTA
95674976 TTTATTATTT-ATACATG
1 TTTATTATTTAATACATG
95674993 TGTATATTA-TTAATACATG
1 T-T-TATTATTTAATACATG
95675012 TTTATCTATTTAA
1 TTTAT-TATTTAA
95675025 AACCATACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 4 0.15
18 6 0.22
19 17 0.63
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.55
Consensus pattern (18 bp):
TTTATTATTTAATACATG
Found at i:95676940 original size:28 final size:28
Alignment explanation
Indices: 95676883--95676941 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
95676873 TGTATAAATA
* *
95676883 ATAAATAAGTATTACTTATTATTTAAGT
1 ATAAATAAGTATTACATATTATATAAGT
*
95676911 ATAAATAA-TATTACATATATATATATGT
1 ATAAATAAGTATTACATAT-TATATAAGT
95676939 ATA
1 ATA
95676942 TAAAACAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 9 0.33
28 18 0.67
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.44
Consensus pattern (28 bp):
ATAAATAAGTATTACATATTATATAAGT
Found at i:95679509 original size:27 final size:27
Alignment explanation
Indices: 95679478--95679532 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
95679468 TTTTAATCAC
95679478 TTACATTAACATGTTGTAACATTTTAG
1 TTACATTAACATGTTGTAACATTTTAG
* *
95679505 TTACATTAACGTGTTGTAATATTTTAG
1 TTACATTAACATGTTGTAACATTTTAG
95679532 T
1 T
95679533 CACTGAGTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.47
Consensus pattern (27 bp):
TTACATTAACATGTTGTAACATTTTAG
Found at i:95680169 original size:15 final size:15
Alignment explanation
Indices: 95680143--95680181 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
95680133 GTGACTAGGC
*
95680143 TAAAATAT-AATATT
1 TAAAATATAAATAAT
*
95680157 TTAAATATAAATAAT
1 TAAAATATAAATAAT
95680172 TAAAATATAA
1 TAAAATATAA
95680182 TTTGAGATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
TAAAATATAAATAAT
Found at i:95687626 original size:16 final size:17
Alignment explanation
Indices: 95687605--95687647 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
95687595 GAGTGAAAAG
95687605 AAAATTAAAAGGAT-GA
1 AAAATTAAAAGGATAGA
*
95687621 AAAATTGAAAGGGATAGA
1 AAAATT-AAAAGGATAGA
95687639 AAAA-TAAAA
1 AAAATTAAAA
95687648 TGACAGTGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 9 0.39
17 8 0.35
18 6 0.26
ACGTcount: A:0.65, C:0.00, G:0.19, T:0.16
Consensus pattern (17 bp):
AAAATTAAAAGGATAGA
Found at i:95691506 original size:13 final size:13
Alignment explanation
Indices: 95691488--95691521 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
95691478 AGTTCGGTTT
95691488 TTAATTTTTTATA
1 TTAATTTTTTATA
* *
95691501 TTAATTTTTTGTT
1 TTAATTTTTTATA
95691514 TTAATTTT
1 TTAATTTT
95691522 CTAATTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (13 bp):
TTAATTTTTTATA
Found at i:95691574 original size:21 final size:21
Alignment explanation
Indices: 95691548--95691611 Score: 58
Period size: 21 Copynumber: 2.9 Consensus size: 21
95691538 AAAATGAGTT
*
95691548 TTATTTTAT-AACTTTTAAATA
1 TTATTTTATAAAATTTT-AATA
*
95691569 TTATTTGATAAAATTTTAATA
1 TTATTTTATAAAATTTTAATA
*
95691590 TCTATTTTTTTAAATATTTTAA
1 T-TA-TTTTATAAA-ATTTTAA
95691612 AAAAATATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
21 13 0.37
22 8 0.23
23 7 0.20
24 7 0.20
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.58
Consensus pattern (21 bp):
TTATTTTATAAAATTTTAATA
Found at i:95691661 original size:16 final size:16
Alignment explanation
Indices: 95691637--95691671 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
95691627 TAAGAATTTT
*
95691637 TAAATTATTTTTAATA
1 TAAAATATTTTTAATA
*
95691653 TAAAATATTTTTTATA
1 TAAAATATTTTTAATA
95691669 TAA
1 TAA
95691672 TAAAAATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TAAAATATTTTTAATA
Done.