Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 32 of 292
Found at i:8498083 original size:21 final size:21
Alignment explanation
Indices: 8498058--8498098 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
8498048 CATTGATTTA
8498058 GTAAATTAGTTTATGAAATTC
1 GTAAATTAGTTTATGAAATTC
8498079 GTAAATTAGTTTATGAAATT
1 GTAAATTAGTTTATGAAATT
8498099 AGAATATGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.02, G:0.15, T:0.44
Consensus pattern (21 bp):
GTAAATTAGTTTATGAAATTC
Found at i:8498798 original size:39 final size:39
Alignment explanation
Indices: 8498744--8498835 Score: 159
Period size: 39 Copynumber: 2.4 Consensus size: 39
8498734 GCATGATATT
8498744 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
1 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
*
8498783 TGGAAACATATCCGGACTTGAGGTTCGCAGGCTACGTGC
1 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
*
8498822 TGG-AATATATCCGG
1 TGGAAACATATCCGG
8498836 GCCTAAAGTC
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 10 0.20
39 41 0.80
ACGTcount: A:0.24, C:0.23, G:0.30, T:0.23
Consensus pattern (39 bp):
TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
Found at i:8498851 original size:39 final size:39
Alignment explanation
Indices: 8498744--8498854 Score: 125
Period size: 39 Copynumber: 2.8 Consensus size: 39
8498734 GCATGATATT
* * *
8498744 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
1 TGGAAACATATCCGGACCTAAAGTCCGCAGGCTACGTGC
* * * *
8498783 TGGAAACATATCCGGACTTGAGGTTCGCAGGCTACGTGC
1 TGGAAACATATCCGGACCTAAAGTCCGCAGGCTACGTGC
* *
8498822 TGG-AATATATCCGGGCCTAAAGTCCCGCAGGCT
1 TGGAAACATATCCGGACCTAAAGT-CCGCAGGCT
8498855 TTGTTCTAGT
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
38 15 0.23
39 49 0.77
ACGTcount: A:0.23, C:0.25, G:0.30, T:0.22
Consensus pattern (39 bp):
TGGAAACATATCCGGACCTAAAGTCCGCAGGCTACGTGC
Found at i:8505960 original size:21 final size:21
Alignment explanation
Indices: 8505935--8505975 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
8505925 CATTGATTTA
8505935 GTAAATTAGTTTATGAAATTC
1 GTAAATTAGTTTATGAAATTC
8505956 GTAAATTAGTTTATGAAATT
1 GTAAATTAGTTTATGAAATT
8505976 AGAATATGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.02, G:0.15, T:0.44
Consensus pattern (21 bp):
GTAAATTAGTTTATGAAATTC
Found at i:8510468 original size:21 final size:21
Alignment explanation
Indices: 8510429--8510468 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
8510419 AATTTTTATT
*
8510429 TTTTATTATTATTTCTTTTTC
1 TTTTATTATTATTTATTTTTC
8510450 TTTTATTATT-TATTATTTT
1 TTTTATTATTAT-TTATTTT
8510469 ATTTTTGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTATTATTATTTATTTTTC
Found at i:8510474 original size:21 final size:19
Alignment explanation
Indices: 8510421--8510474 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 19
8510411 GGTAACCCAA
8510421 TTTTTATTTTTTATTATTAT
1 TTTTTA-TTTTTATTATTAT
*
8510441 TTCTTTTTCTTTTATTATTTAT
1 TT-TTTAT-TTTTATTA-TTAT
8510463 TATTTTATTTTT
1 T-TTTTATTTTT
8510475 GGGATATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 3 0.11
21 15 0.54
22 9 0.32
23 1 0.04
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTTATTTTTATTATTAT
Found at i:8511744 original size:99 final size:99
Alignment explanation
Indices: 8511564--8511762 Score: 274
Period size: 99 Copynumber: 2.0 Consensus size: 99
8511554 AATAATTTTT
8511564 TTAGGAATATATTGCGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAA
1 TTAGGAATATATTGCGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAA
* *
8511629 AGGTTCGATATGTTCTTAAG-AAAAATATAATAAA
66 AGGTTCAATATATTCTTAAGCAAAAATA-AATAAA
* * * * * * * * *
8511663 TTAGGAGTATGTTGGGCTGAGTAACCGGGGTGGGGTGCTTGGTTGTTATTTTTCTTTGCGTCAAA
1 TTAGGAATATATTGCGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAA
*
8511728 ATGTTCAATATATTCTTAAGCAAAAATAAATAAA
66 AGGTTCAATATATTCTTAAGCAAAAATAAATAAA
8511762 T
1 T
8511763 AAATAAATTA
Statistics
Matches: 87, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
99 80 0.92
100 7 0.08
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.34
Consensus pattern (99 bp):
TTAGGAATATATTGCGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAA
AGGTTCAATATATTCTTAAGCAAAAATAAATAAA
Found at i:8512209 original size:17 final size:18
Alignment explanation
Indices: 8512187--8512220 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
8512177 TTTTAGGGAC
8512187 TAAATTGAAGG-CAAAAG
1 TAAATTGAAGGTCAAAAG
*
8512204 TAAATTTAAGGTCAAAA
1 TAAATTGAAGGTCAAAA
8512221 AGCGTGAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.53, C:0.06, G:0.18, T:0.24
Consensus pattern (18 bp):
TAAATTGAAGGTCAAAAG
Found at i:8514790 original size:20 final size:20
Alignment explanation
Indices: 8514745--8514792 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
8514735 TTTATAAATA
*
8514745 ACATTATTTTTAAAATTTTG
1 ACATTATTTTGAAAATTTTG
* *
8514765 AAATTATTTTGAAATTTTTG
1 ACATTATTTTGAAAATTTTG
*
8514785 TCATTATT
1 ACATTATT
8514793 GTGAGTCCAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.04, G:0.06, T:0.56
Consensus pattern (20 bp):
ACATTATTTTGAAAATTTTG
Found at i:8514945 original size:11 final size:11
Alignment explanation
Indices: 8514930--8514994 Score: 69
Period size: 11 Copynumber: 5.9 Consensus size: 11
8514920 GAGTGAACTA
8514930 AGAGAATTGAG
1 AGAGAATTGAG
* *
8514941 TGAGAATTAAG
1 AGAGAATTGAG
*
8514952 AGAGGATTGAG
1 AGAGAATTGAG
8514963 A-ATGAATTGAG
1 AGA-GAATTGAG
*
8514974 AGAGAGTTGAG
1 AGAGAATTGAG
*
8514985 AGTGAATTGA
1 AGAGAATTGA
8514995 AAAAGTGAAA
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
10 1 0.02
11 41 0.95
12 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.35, T:0.23
Consensus pattern (11 bp):
AGAGAATTGAG
Found at i:8514993 original size:22 final size:22
Alignment explanation
Indices: 8514917--8514994 Score: 72
Period size: 22 Copynumber: 3.6 Consensus size: 22
8514907 GAACAAAACA
* *
8514917 TGAGAGTGAACT-A-AGAGAAT
1 TGAGAGTGAATTGAGAGAGAGT
* * *
8514937 TGAGTGAGAATTAAGAGAG-GAT
1 TGAGAGTGAATTGAGAGAGAG-T
*
8514959 TGAGAATGAATTGAGAGAGAGT
1 TGAGAGTGAATTGAGAGAGAGT
8514981 TGAGAGTGAATTGA
1 TGAGAGTGAATTGA
8514995 AAAAGTGAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
20 9 0.20
21 1 0.02
22 34 0.76
23 1 0.02
ACGTcount: A:0.41, C:0.01, G:0.35, T:0.23
Consensus pattern (22 bp):
TGAGAGTGAATTGAGAGAGAGT
Found at i:8514994 original size:33 final size:31
Alignment explanation
Indices: 8514917--8514994 Score: 75
Period size: 33 Copynumber: 2.5 Consensus size: 31
8514907 GAACAAAACA
* * *
8514917 TGAGAGTGAACTAAGAGAATTGAGTGAGAAT
1 TGAGAGTGAATTGAGAGAATTGAGAGAGAAT
* * * *
8514948 TAAGAGAGGATTGAGAATGAATTGAGAGAGAGT
1 TGAGAGTGAATTGAG-A-GAATTGAGAGAGAAT
8514981 TGAGAGTGAATTGA
1 TGAGAGTGAATTGA
8514995 AAAAGTGAAA
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
31 10 0.29
32 1 0.03
33 24 0.69
ACGTcount: A:0.41, C:0.01, G:0.35, T:0.23
Consensus pattern (31 bp):
TGAGAGTGAATTGAGAGAATTGAGAGAGAAT
Found at i:8520417 original size:2 final size:2
Alignment explanation
Indices: 8520410--8520445 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
8520400 CATTAGTGAG
8520410 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8520446 GATAACCTCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8542456 original size:18 final size:18
Alignment explanation
Indices: 8542435--8542482 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
8542425 TTTTATGAAC
*
8542435 TTTTATATTTTT-ATTGAT
1 TTTTATATTTTTGAAT-AT
8542453 TTTT-TACTTTTTGAATAT
1 TTTTATA-TTTTTGAATAT
8542471 TTTTATATTTTT
1 TTTTATATTTTT
8542483 TAATTTATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 2 0.08
18 20 0.77
19 4 0.15
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.73
Consensus pattern (18 bp):
TTTTATATTTTTGAATAT
Found at i:8544920 original size:20 final size:20
Alignment explanation
Indices: 8544895--8544937 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
8544885 ATCATTACTC
8544895 TTATCCTGAATTTCAGGATT
1 TTATCCTGAATTTCAGGATT
*
8544915 TTATCCTGAATTTCAGTATT
1 TTATCCTGAATTTCAGGATT
8544935 TTA
1 TTA
8544938 ATTTGGATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.14, G:0.12, T:0.49
Consensus pattern (20 bp):
TTATCCTGAATTTCAGGATT
Found at i:8545562 original size:17 final size:17
Alignment explanation
Indices: 8545540--8545574 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
8545530 GTCGGCCAAT
8545540 GTCTTGAGACATAGAAA
1 GTCTTGAGACATAGAAA
8545557 GTCTTGAGACATAGAAA
1 GTCTTGAGACATAGAAA
8545574 G
1 G
8545575 AGTGTCTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.11, G:0.26, T:0.23
Consensus pattern (17 bp):
GTCTTGAGACATAGAAA
Found at i:8549387 original size:2 final size:2
Alignment explanation
Indices: 8549380--8549419 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
8549370 ATAAAAATAC
8549380 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8549420 AACGGGTCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8559489 original size:40 final size:40
Alignment explanation
Indices: 8559429--8559514 Score: 136
Period size: 40 Copynumber: 2.1 Consensus size: 40
8559419 ACTAATTAGC
*
8559429 ACAAATAAACCCAACTAAATCTCCGTTAATTTGATTCAAT
1 ACAAATAAACCCAACTAAATCTCCGTTAATTCGATTCAAT
* * *
8559469 ACAAGTAAACCTAACTAAATCTCTGTTAATTCGATTCAAT
1 ACAAATAAACCCAACTAAATCTCCGTTAATTCGATTCAAT
8559509 ACAAAT
1 ACAAAT
8559515 GAAAAACCAC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.43, C:0.21, G:0.06, T:0.30
Consensus pattern (40 bp):
ACAAATAAACCCAACTAAATCTCCGTTAATTCGATTCAAT
Found at i:8563485 original size:46 final size:46
Alignment explanation
Indices: 8563418--8563682 Score: 242
Period size: 46 Copynumber: 5.7 Consensus size: 46
8563408 AACCCGCCCC
* *
8563418 TAAGTGAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
* *
8563464 TAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * *
8563512 TCA-CGAACTCGAACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
* * *
8563557 TAAGTGAACTCGGACTCAACTCAACGAGTTAGGATGCCTAGTT-ACATTTCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCA-TCCA
* * * *
8563608 -CA---AACTTGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
8563650 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
8563683 ATGCTCAACC
Statistics
Matches: 175, Mismatches: 24, Indels: 40
0.73 0.10 0.17
Matches are distributed among these distances:
42 8 0.05
43 6 0.03
44 3 0.02
45 3 0.02
46 82 0.47
47 51 0.29
48 4 0.02
49 3 0.02
50 6 0.03
51 9 0.05
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:8563531 original size:47 final size:47
Alignment explanation
Indices: 8563469--8563633 Score: 178
Period size: 47 Copynumber: 3.5 Consensus size: 47
8563459 ATCCATAAGT
*
8563469 GAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTAGGATGCCTAGTTACATCTCAC
* * * * *
8563516 GAACTCGAACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTAGGATGCCTAGTT-ACAT-C-TCA-C
*
8563562 GAACTCGGACTCAACTCAACGAGTTAGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTAGGATGCCTAGTTACATCTCAC
* *
8563609 AAACTTGGACTCAACTCAACGAGTT
1 GAACTCGGACTCAACTCAACGAGTT
8563634 CGGACATTCG
Statistics
Matches: 96, Mismatches: 13, Indels: 18
0.76 0.10 0.14
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 2 0.02
45 3 0.03
46 26 0.27
47 49 0.51
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTAGGATGCCTAGTTACATCTCAC
Found at i:8563531 original size:93 final size:93
Alignment explanation
Indices: 8563423--8563686 Score: 447
Period size: 93 Copynumber: 2.8 Consensus size: 93
8563413 GCCCCTAAGT
*
8563423 GAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
8563488 CGAGTTTGGATGCCTAGTTACATCTCAC
66 CGAGTTAGGATGCCTAGTTACATCTCAC
8563516 GAACTCGAACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
8563581 CGAGTTAGGATGCCTAGTTACATTTCAC
66 CGAGTTAGGATGCCTAGTTACATCTCAC
* * * * *
8563609 AAACTTGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
8563674 CGAGTTCGGATGC
66 CGAGTTAGGATGC
8563687 TCAACCATCC
Statistics
Matches: 162, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 162 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTAGGATGCCTAGTTACATCTCAC
Found at i:8571152 original size:46 final size:46
Alignment explanation
Indices: 8571105--8571378 Score: 370
Period size: 46 Copynumber: 6.0 Consensus size: 46
8571095 GCTCTCTGAT
* * *
8571105 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
8571151 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
8571197 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
8571243 AGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
8571289 ATGAAATGTGTAAGACCATGGTTGAAAAATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
8571335 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
8571379 TCAAAGATAA
Statistics
Matches: 205, Mismatches: 22, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
45 1 0.00
46 204 1.00
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:8571359 original size:138 final size:138
Alignment explanation
Indices: 8571115--8571378 Score: 420
Period size: 138 Copynumber: 1.9 Consensus size: 138
8571105 ATGAAATGTG
* *
8571115 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGTGTAAGACCATGGTTGAAAAA
* * * *
8571180 TACCATGGCAACATGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAG
66 TACCATGGCAACATGACAGAAAATGAATAAGACCATAGTTGAAAGACACCATGGCAACATGACAG
8571245 GAAATGAA
131 GAAATGAA
* *
8571253 TAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGTGTAAGACCATGGTTGAAAAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGTGTAAGACCATGGTTGAAAAA
* * * *
8571318 TACCATGGCAACATGATAGAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
66 TACCATGGCAACATGACAGAAAATGAATAAGACCATAGTTGAAAGACACCATGGCAACATG
8571379 TCAAAGATAA
Statistics
Matches: 114, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
138 114 1.00
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.20
Consensus pattern (138 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGTGTAAGACCATGGTTGAAAAA
TACCATGGCAACATGACAGAAAATGAATAAGACCATAGTTGAAAGACACCATGGCAACATGACAG
GAAATGAA
Found at i:8572162 original size:21 final size:21
Alignment explanation
Indices: 8572137--8572200 Score: 80
Period size: 21 Copynumber: 3.2 Consensus size: 21
8572127 TAGCCTTCGG
8572137 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
* * *
8572158 GCTTCAG-TTAGC-CTT-CGG
1 GCTTCCGTTTAGCACTTATGT
8572176 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
8572197 GCTT
1 GCTT
8572201 TAGCTTGATT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 7 0.21
19 8 0.24
20 8 0.24
21 11 0.32
ACGTcount: A:0.12, C:0.25, G:0.22, T:0.41
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTATGT
Found at i:8572165 original size:39 final size:39
Alignment explanation
Indices: 8572119--8572200 Score: 164
Period size: 39 Copynumber: 2.1 Consensus size: 39
8572109 GCTCTGATGA
8572119 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
8572158 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
8572197 GCTT
1 GCTT
8572201 TAGCTTGATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.12, C:0.26, G:0.23, T:0.39
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:8572218 original size:39 final size:39
Alignment explanation
Indices: 8572119--8572219 Score: 132
Period size: 39 Copynumber: 2.6 Consensus size: 39
8572109 GCTCTGATGA
* *
8572119 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGACTTCAGGCTTCCGTTTAGCACTTATGT
* *
8572158 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGACTTCAGGCTTCCGTTTAGCACTTATGT
* *
8572197 GCTTTAGCTT-GATTTCAGGCTTC
1 GCTTCAG-TTAGACTTCAGGCTTC
8572220 AGATCACGAT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
39 55 0.96
40 2 0.04
ACGTcount: A:0.13, C:0.25, G:0.23, T:0.40
Consensus pattern (39 bp):
GCTTCAGTTAGACTTCAGGCTTCCGTTTAGCACTTATGT
Found at i:8575310 original size:2 final size:2
Alignment explanation
Indices: 8575303--8575333 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
8575293 GAGCACTTTA
*
8575303 AT AT AT AT AT AT AT AT AT AT AA AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8575334 ATGTTTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:8576502 original size:16 final size:16
Alignment explanation
Indices: 8576481--8576512 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
8576471 TGAAGAACAG
8576481 ACTTTGAAAACACTTA
1 ACTTTGAAAACACTTA
8576497 ACTTTGAAAACACTTA
1 ACTTTGAAAACACTTA
8576513 CATGCAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (16 bp):
ACTTTGAAAACACTTA
Found at i:8597618 original size:26 final size:26
Alignment explanation
Indices: 8597589--8597641 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
8597579 TCAAACATGC
8597589 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
8597615 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
8597641 A
1 A
8597642 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:8599165 original size:26 final size:26
Alignment explanation
Indices: 8599129--8599264 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
8599119 CATGAAATTC
*
8599129 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
* *
8599155 TTATCATGAAACATTTGCCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
8599181 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
8599207 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
8599233 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
8599259 TTATCA
1 TTATCA
8599265 ATTTGTATCA
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 105 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:8600401 original size:17 final size:17
Alignment explanation
Indices: 8600379--8600412 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
8600369 ACCAAATTTT
8600379 GACACACCACTATAATA
1 GACACACCACTATAATA
8600396 GACACACCACTATAATA
1 GACACACCACTATAATA
8600413 ACTTCGCATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.29, G:0.06, T:0.18
Consensus pattern (17 bp):
GACACACCACTATAATA
Found at i:8600768 original size:26 final size:26
Alignment explanation
Indices: 8600725--8600776 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
8600715 TATCATCCTT
*
8600725 ATTTTACTCTCAGCAAAAGTTTGACG
1 ATTTTACCCTCAGCAAAAGTTTGACG
* * *
8600751 ATTTTACCCTTAGTAAAATTTTGACG
1 ATTTTACCCTCAGCAAAAGTTTGACG
8600777 GTATTGCCCC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.38
Consensus pattern (26 bp):
ATTTTACCCTCAGCAAAAGTTTGACG
Found at i:8604044 original size:43 final size:42
Alignment explanation
Indices: 8603978--8604134 Score: 178
Period size: 43 Copynumber: 3.7 Consensus size: 42
8603968 AGCTCGTACA
**
8603978 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATAAAATCAAATA-CG
8604021 ATGCC-ACTGTCCCAGACAG-GGTCTTACATAAAATCAAATACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATAAAATCAAATACG
* * *
8604063 ATGCCAACGTCCCAGATGTAGTCTTACACGT-AAATCATAAGT-CA
1 ATGCCAACGTCCCAGACGTGGTCTTACA--TAAAATCA-AA-TACG
8604107 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
8604135 CGATAACACA
Statistics
Matches: 99, Mismatches: 7, Indels: 15
0.82 0.06 0.12
Matches are distributed among these distances:
41 1 0.01
42 25 0.25
43 41 0.41
44 31 0.31
45 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATAAAATCAAATACG
Found at i:8607164 original size:40 final size:40
Alignment explanation
Indices: 8607100--8607196 Score: 122
Period size: 40 Copynumber: 2.4 Consensus size: 40
8607090 ACTCGATATC
* *
8607100 TCACACACTAAGTGTCGTACATAGCCGAACCTATCTCAAA
1 TCACACACTAAGTGCCATACATAGCCGAACCTATCTCAAA
* * * **
8607140 TCACACACTAAGTGCCATATATAGCCGAAGCTATGTCGTA
1 TCACACACTAAGTGCCATACATAGCCGAACCTATCTCAAA
*
8607180 TCGCACACTAAGTGCCA
1 TCACACACTAAGTGCCA
8607197 CAAATAACCG
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.23
Consensus pattern (40 bp):
TCACACACTAAGTGCCATACATAGCCGAACCTATCTCAAA
Found at i:8620222 original size:13 final size:13
Alignment explanation
Indices: 8620204--8620230 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8620194 GAAGCACTCG
8620204 CACACGGGCGTGT
1 CACACGGGCGTGT
8620217 CACACGGGCGTGT
1 CACACGGGCGTGT
8620230 C
1 C
8620231 CCTGTCGAGC
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:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:8634154 original size:300 final size:299
Alignment explanation
Indices: 8633612--8634185 Score: 805
Period size: 300 Copynumber: 1.9 Consensus size: 299
8633602 ACCTTTAGGG
* *
8633612 TATTGACTATGTTGGAACCACCTTGTTGACCAATGCTATGACTTTCTCATGCAGTTTGAGTTCGT
1 TATTGACTATGTTGGAACCACCTGGTTGACCAATGCCATGACTTTCTCATGCAGTTTGAGTTCGT
* * * * * *
8633677 ACAGTTGAAACATAGAAATTACTGCCAAAAGATAGTATTTTCTTTTGCATTTAGAGCCTTCTTCG
66 ACAGTTGAAACATAGAAAGTACTACCAAAAGATAGTATTTTCTCTTCCATTTAAAGCCTTCTTCA
** * * *
8633742 TGCTCATGAATTTCTCTATACAAATAAGAATGTATAAACCAATCTTGTCATCGCACTGTATGACA
131 TGCTCACAAATTTCTATATACAAATAAGAATGTATAAACCAAGCTTGT-ATCGCACTGTAAGACA
* * *
8633807 ATTATTGTTTTTCTATTTGAAGTTGTGTTTCAATAGTCTTTAACTGTTTATTCCAT-AGGTGTTC
195 ATTATTGTTTTCCTATTTGAAATTGTGTCTCAATAGTCTTTAACTGTTTATTCC-TCAGGTGTTC
8633871 TACCACTGCCAACATCACAGCATTGTACCGCATTTATATTA
259 TACCACTGCCAACATCACAGCATTGTACCGCATTTATATTA
* *
8633912 TATTGACTATGTTGGAACCACCTGGTT-AGCCAATGCCATGACTTTTTCATGCAGTTTGTGTTCG
1 TATTGACTATGTTGGAACCACCTGGTTGA-CCAATGCCATGACTTTCTCATGCAGTTTGAGTTCG
* * *
8633976 TACAGTTGAAACTTAGAAAGTGCTACCCAAAGATAGTATTTTCTCTTCCATTTAAAGCCTTCTTC
65 TACAGTTGAAACATAGAAAGTACTACCAAAAGATAGTATTTTCTCTTCCATTTAAAGCCTTCTTC
* * *
8634041 ATGCTCACAAATTTCTATATACAAATTAGAATGTTTAACCCAAGCTTGT-TGCGGCACTGTACAG
130 ATGCTCACAAATTTCTATATACAAATAAGAATGTATAAACCAAGCTTGTAT-C-GCACTGTA-AG
* * *
8634105 -CAATTATTGTTTTCCTCTTTGAAATTGTGTCTCAGTAGTCTTTAACTGTTTATTCCTCTGGTGT
192 ACAATTATTGTTTTCCTATTTGAAATTGTGTCTCAATAGTCTTTAACTGTTTATTCCTCAGGTGT
**
8634169 TCTACTGCTGCCAACAT
257 TCTACCACTGCCAACAT
8634186 TGCAGCACTG
Statistics
Matches: 240, Mismatches: 29, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
298 1 0.00
299 3 0.01
300 235 0.98
301 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.38
Consensus pattern (299 bp):
TATTGACTATGTTGGAACCACCTGGTTGACCAATGCCATGACTTTCTCATGCAGTTTGAGTTCGT
ACAGTTGAAACATAGAAAGTACTACCAAAAGATAGTATTTTCTCTTCCATTTAAAGCCTTCTTCA
TGCTCACAAATTTCTATATACAAATAAGAATGTATAAACCAAGCTTGTATCGCACTGTAAGACAA
TTATTGTTTTCCTATTTGAAATTGTGTCTCAATAGTCTTTAACTGTTTATTCCTCAGGTGTTCTA
CCACTGCCAACATCACAGCATTGTACCGCATTTATATTA
Found at i:8648494 original size:19 final size:18
Alignment explanation
Indices: 8648445--8648498 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
8648435 ATTATAAAAA
8648445 AAAATTTAAAATATGTT-C
1 AAAATTTAAAATAT-TTAC
8648463 AAAATTTTAAAATATTTAC
1 AAAA-TTTAAAATATTTAC
*
8648482 ATAAATTTCAAAT-TTTA
1 A-AAATTTAAAATATTTA
8648499 TATGTTTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
18 10 0.31
19 19 0.59
20 3 0.09
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.43
Consensus pattern (18 bp):
AAAATTTAAAATATTTAC
Found at i:8656065 original size:25 final size:25
Alignment explanation
Indices: 8656037--8656086 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
8656027 TGTATGGAAA
8656037 GAAGGAATATTTCATCAATTATGAT
1 GAAGGAATATTTCATCAATTATGAT
*
8656062 GAAGGAATATTTTATCAATTATGAT
1 GAAGGAATATTTCATCAATTATGAT
8656087 AAAAATTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.40, C:0.06, G:0.16, T:0.38
Consensus pattern (25 bp):
GAAGGAATATTTCATCAATTATGAT
Found at i:8658979 original size:13 final size:13
Alignment explanation
Indices: 8658963--8658987 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8658953 AAATGGATGC
8658963 AAAAATAATACAG
1 AAAAATAATACAG
8658976 AAAAATAATACA
1 AAAAATAATACA
8658988 TGGGAATTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.08, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAAATAATACAG
Found at i:8661782 original size:14 final size:14
Alignment explanation
Indices: 8661758--8661791 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
8661748 TAAAGGTAAT
8661758 CTTCTGATGGAATAA
1 CTTC-GATGGAATAA
8661773 CTTCGATGGAATAA
1 CTTCGATGGAATAA
8661787 CTTCG
1 CTTCG
8661792 CATTACTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (14 bp):
CTTCGATGGAATAA
Found at i:8670026 original size:11 final size:11
Alignment explanation
Indices: 8670010--8670047 Score: 58
Period size: 11 Copynumber: 3.3 Consensus size: 11
8670000 ATGTCTTAAC
8670010 AAAAAAGAAAA
1 AAAAAAGAAAA
8670021 AAAAAAGAAAA
1 AAAAAAGAAAA
8670032 AGAAAAAGGAAAA
1 A-AAAAA-GAAAA
8670045 AAA
1 AAA
8670048 GACTATGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 12 0.48
12 7 0.28
13 6 0.24
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:8670039 original size:6 final size:6
Alignment explanation
Indices: 8670011--8670045 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
8670001 TGTCTTAACA
8670011 AAAAAG AAAAA- AAAAAG AAAAAG AAAAAGG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAA-G AAAAA
8670046 AAGACTATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 5 0.19
6 16 0.59
7 6 0.22
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:8674954 original size:10 final size:10
Alignment explanation
Indices: 8674939--8675000 Score: 74
Period size: 10 Copynumber: 6.1 Consensus size: 10
8674929 TAATTCTAGG
8674939 ATTTAT-TTT
1 ATTTATCTTT
8674948 CATTTATCTTT
1 -ATTTATCTTT
8674959 ATTTATCTTT
1 ATTTATCTTT
*
8674969 AATTATCTTT
1 ATTTATCTTT
8674979 ATTTAT-TTGT
1 ATTTATCTT-T
8674989 ATTTATCATTT
1 ATTTATC-TTT
8675000 A
1 A
8675001 GAATTTCATT
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
9 2 0.04
10 37 0.80
11 5 0.11
12 2 0.04
ACGTcount: A:0.24, C:0.08, G:0.02, T:0.66
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:8679535 original size:24 final size:23
Alignment explanation
Indices: 8679508--8679630 Score: 122
Period size: 24 Copynumber: 5.1 Consensus size: 23
8679498 TTACTAGATA
* *
8679508 TGCGGATTTAAGTGGCACTATATG
1 TGCGTATTTAA-TGGCACTATGTG
*
8679532 TGCGTATTTGTATGGCACTATGTG
1 TGCGTATTT-AATGGCACTATGTG
*
8679556 TGCGTATTTGTATGGCACTATGTG
1 TGCGTATTT-AATGGCACTATGTG
8679580 TGCGTATTTGTAA-GGCACTATGTG
1 TGCGTA-TT-TAATGGCACTATGTG
* * *
8679604 TGCGGAATTATTTGGCACTATGTG
1 TGCGTATTTA-ATGGCACTATGTG
8679628 TGC
1 TGC
8679631 AGAGTTGAAT
Statistics
Matches: 87, Mismatches: 7, Indels: 10
0.84 0.07 0.10
Matches are distributed among these distances:
22 2 0.02
23 1 0.01
24 79 0.91
25 4 0.05
26 1 0.01
ACGTcount: A:0.20, C:0.13, G:0.29, T:0.38
Consensus pattern (23 bp):
TGCGTATTTAATGGCACTATGTG
Found at i:8679591 original size:48 final size:48
Alignment explanation
Indices: 8679520--8679630 Score: 168
Period size: 48 Copynumber: 2.3 Consensus size: 48
8679510 CGGATTTAAG
* * * * *
8679520 TGGCACTATATGTGCGTATTTGTATGGCACTATGTGTGCGTATTTGTA
1 TGGCACTATGTGTGCGTATTTGTAAGGCACTATGTGTGCGGAATTATA
*
8679568 TGGCACTATGTGTGCGTATTTGTAAGGCACTATGTGTGCGGAATTATT
1 TGGCACTATGTGTGCGTATTTGTAAGGCACTATGTGTGCGGAATTATA
8679616 TGGCACTATGTGTGC
1 TGGCACTATGTGTGC
8679631 AGAGTTGAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 57 1.00
ACGTcount: A:0.19, C:0.14, G:0.29, T:0.39
Consensus pattern (48 bp):
TGGCACTATGTGTGCGTATTTGTAAGGCACTATGTGTGCGGAATTATA
Found at i:8686935 original size:2 final size:2
Alignment explanation
Indices: 8686928--8686966 Score: 60
Period size: 2 Copynumber: 19.0 Consensus size: 2
8686918 GAATGGAAGT
*
8686928 TA TA TA TA GTA TA TA CA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8686967 AGTGATTAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 32 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (2 bp):
TA
Found at i:8690059 original size:10 final size:10
Alignment explanation
Indices: 8690044--8690068 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
8690034 CCAATTTTTA
8690044 TTTTAGTTTG
1 TTTTAGTTTG
8690054 TTTTAGTTTG
1 TTTTAGTTTG
8690064 TTTTA
1 TTTTA
8690069 TTTTATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.12, C:0.00, G:0.16, T:0.72
Consensus pattern (10 bp):
TTTTAGTTTG
Found at i:8690329 original size:15 final size:15
Alignment explanation
Indices: 8690311--8690340 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8690301 GATGCTGATT
8690311 TGGTTGTTGCTGCCC
1 TGGTTGTTGCTGCCC
*
8690326 TGGTTGTTGTTGCCC
1 TGGTTGTTGCTGCCC
8690341 ATATAATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.23, G:0.33, T:0.43
Consensus pattern (15 bp):
TGGTTGTTGCTGCCC
Found at i:8691702 original size:10 final size:10
Alignment explanation
Indices: 8691679--8691740 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
8691669 TAATTTTAGG
*
8691679 ATTTATTTTC
1 ATTTATTTTT
8691689 ATTT-TTATTT
1 ATTTATT-TTT
*
8691699 ATTTATATTT
1 ATTTATTTTT
* *
8691709 AATTATCTTT
1 ATTTATTTTT
*
8691719 ATTTATTTGT
1 ATTTATTTTT
8691729 ATTTATCTTTT
1 ATTTAT-TTTT
8691740 A
1 A
8691741 GAATTTCATT
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
9 2 0.05
10 34 0.83
11 5 0.12
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.69
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:8691734 original size:20 final size:20
Alignment explanation
Indices: 8691696--8691738 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
8691686 TTCATTTTTA
8691696 TTTATTTATATTTAATTATC
1 TTTATTTATATTTAATTATC
*
8691716 TTTATTTAT-TTGTATTTATC
1 TTTATTTATATT-TAATTATC
8691736 TTT
1 TTT
8691739 TAGAATTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (20 bp):
TTTATTTATATTTAATTATC
Found at i:8693275 original size:44 final size:45
Alignment explanation
Indices: 8693185--8693313 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
8693175 ACAGAACATA
*
8693185 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
8693231 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
8693275 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
8693314 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:8697129 original size:24 final size:24
Alignment explanation
Indices: 8697100--8697147 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
8697090 TTTACTTAGT
8697100 GGGATTTAATTCCTTGGTTAATTA
1 GGGATTTAATTCCTTGGTTAATTA
8697124 GGGATTTAATTCCTTGGTTAATTA
1 GGGATTTAATTCCTTGGTTAATTA
8697148 CTACTTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.08, G:0.21, T:0.46
Consensus pattern (24 bp):
GGGATTTAATTCCTTGGTTAATTA
Found at i:8703054 original size:20 final size:20
Alignment explanation
Indices: 8703029--8703067 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8703019 TTAACGGGAC
*
8703029 TGCTGATGTGGCAAGTTAAT
1 TGCTGACGTGGCAAGTTAAT
*
8703049 TGCTGACGTGGCCAGTTAA
1 TGCTGACGTGGCAAGTTAA
8703068 CTTGTCAGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.15, G:0.31, T:0.31
Consensus pattern (20 bp):
TGCTGACGTGGCAAGTTAAT
Found at i:8704216 original size:20 final size:20
Alignment explanation
Indices: 8704191--8704228 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
8704181 CAATGTGGCA
8704191 AGTTAACTAGCCACATCAAC
1 AGTTAACTAGCCACATCAAC
*
8704211 AGTTAACTTGCCACATCA
1 AGTTAACTAGCCACATCA
8704229 GCGGTCCCGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.29, G:0.11, T:0.24
Consensus pattern (20 bp):
AGTTAACTAGCCACATCAAC
Found at i:8710965 original size:5 final size:5
Alignment explanation
Indices: 8710950--8710980 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
8710940 TACTCTTCTA
8710950 AATATT AATAT AATAT AATAT AATAT AATAT
1 AATA-T AATAT AATAT AATAT AATAT AATAT
8710981 GCATTATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 21 0.84
6 4 0.16
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
AATAT
Found at i:8712375 original size:20 final size:20
Alignment explanation
Indices: 8712350--8712387 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8712340 GCAACGTCGT
8712350 TTTAGGGTTTTAGTTAGTAG
1 TTTAGGGTTTTAGTTAGTAG
* *
8712370 TTTAGGTTTTTATTTAGT
1 TTTAGGGTTTTAGTTAGT
8712388 TTTAGTTTAT
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:0.18, C:0.00, G:0.24, T:0.58
Consensus pattern (20 bp):
TTTAGGGTTTTAGTTAGTAG
Found at i:8726164 original size:27 final size:27
Alignment explanation
Indices: 8726134--8726273 Score: 189
Period size: 27 Copynumber: 5.2 Consensus size: 27
8726124 TTGACGAAGT
8726134 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
8726161 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
* *
8726188 CACCAGAT-CAGATAATCGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
8726215 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
8726242 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
8726269 CACCA
1 CACCA
8726274 AGACGCTTCC
Statistics
Matches: 101, Mismatches: 5, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
26 10 0.10
27 87 0.86
28 4 0.04
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:8726209 original size:54 final size:54
Alignment explanation
Indices: 8726134--8726273 Score: 246
Period size: 54 Copynumber: 2.6 Consensus size: 54
8726124 TTGACGAAGT
*
8726134 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
8726188 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
8726242 CACCAGATCAGATAATTGTGGCATAGCCACCA
1 CACCAGATCAGATAATTGTGGCATAGCCACCA
8726274 AGACGCTTCC
Statistics
Matches: 82, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
53 5 0.06
54 77 0.94
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:8727917 original size:26 final size:26
Alignment explanation
Indices: 8727886--8727993 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
8727876 TGAAATGCCC
*
8727886 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
8727912 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
8727938 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
8727964 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
8727990 ATCA
1 ATCA
8727994 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:8734303 original size:53 final size:54
Alignment explanation
Indices: 8734215--8734351 Score: 212
Period size: 53 Copynumber: 2.6 Consensus size: 54
8734205 TTGACGAAGT
8734215 CACCAGATACA-AT-ATTGTGGCA-AGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
8734267 CACCAGATCAGATAATCGTGGCATAGCCACCA-AACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
8734320 CACCAG-TCAGATAATTGTAGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
8734352 GACGCTTCCT
Statistics
Matches: 78, Mismatches: 3, Indels: 7
0.89 0.03 0.08
Matches are distributed among these distances:
51 2 0.03
52 33 0.42
53 35 0.45
54 8 0.10
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:8734313 original size:26 final size:27
Alignment explanation
Indices: 8734215--8734351 Score: 153
Period size: 26 Copynumber: 5.2 Consensus size: 27
8734205 TTGACGAAGT
8734215 CACCAGATACA-ATAT-TGTGGCA-AGC
1 CACCAGA-ACAGATATATGTGGCAGAGC
8734240 CACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAACAGATATATGTGGCAGAGC
* *
8734267 CACCAGATCAGATA-ATCGTGGCATAGC
1 CACCAGAACAGATATAT-GTGGCAGAGC
8734294 CACCA-AACAGATATATGTGGCAGAGC
1 CACCAGAACAGATATATGTGGCAGAGC
* * *
8734320 CACCAG-TCAGATA-ATTGTAGCATAGC
1 CACCAGAACAGATATA-TGTGGCAGAGC
8734346 CACCAG
1 CACCAG
8734352 GACGCTTCCT
Statistics
Matches: 98, Mismatches: 7, Indels: 13
0.83 0.06 0.11
Matches are distributed among these distances:
24 3 0.03
25 12 0.12
26 51 0.52
27 32 0.33
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.18
Consensus pattern (27 bp):
CACCAGAACAGATATATGTGGCAGAGC
Found at i:8735993 original size:26 final size:26
Alignment explanation
Indices: 8735962--8736069 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
8735952 TGAAATGCCC
*
8735962 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
8735988 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
8736014 ATCATGGAACATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
8736040 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
8736066 ATCA
1 ATCA
8736070 ATTTGTACCT
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:8743208 original size:22 final size:22
Alignment explanation
Indices: 8743180--8743222 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
8743170 TGTGAAAAAG
*
8743180 AACAAAT-ATAATGAGATTGTTC
1 AACAAATAAAAAT-AGATTGTTC
8743202 AACAAATAAAAATAGATTGTT
1 AACAAATAAAAATAGATTGTT
8743223 TTGAAATCGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.30
Consensus pattern (22 bp):
AACAAATAAAAATAGATTGTTC
Found at i:8744382 original size:3 final size:3
Alignment explanation
Indices: 8744374--8744401 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
8744364 AGAAAACGAT
8744374 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
8744402 GACCAAGCTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:8757758 original size:30 final size:30
Alignment explanation
Indices: 8757718--8757784 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 30
8757708 GATAATTAGG
*
8757718 TGACAAAAAAAGACAATTT-TAAATAGTTGA
1 TGACCAAAAAAGA-AATTTATAAATAGTTGA
*
8757748 GTGACCAAAAAAGAAATTTATTAATAGTTGA
1 -TGACCAAAAAAGAAATTTATAAATAGTTGA
8757779 TGACCA
1 TGACCA
8757785 TTTTGTAACT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
30 11 0.33
31 22 0.67
ACGTcount: A:0.49, C:0.09, G:0.15, T:0.27
Consensus pattern (30 bp):
TGACCAAAAAAGAAATTTATAAATAGTTGA
Found at i:8759733 original size:9 final size:9
Alignment explanation
Indices: 8759693--8759902 Score: 63
Period size: 10 Copynumber: 22.2 Consensus size: 9
8759683 ATGAGATATA
8759693 ATAATTTTT
1 ATAATTTTT
* *
8759702 ACAAATTTT
1 ATAATTTTT
*
8759711 AT-ATTTCT
1 ATAATTTTT
8759719 -TAATTTTT
1 ATAATTTTT
8759727 ATAATTTTCT
1 ATAATTTT-T
8759737 -TACGA-TTTT
1 ATA--ATTTTT
*
8759746 ATAAAATTTT
1 AT-AATTTTT
*
8759756 ACAATTTTTT
1 ATAA-TTTTT
* *
8759766 GTTATATTTT
1 ATAAT-TTTT
*
8759776 ATAATTATT
1 ATAATTTTT
* *
8759785 ATAAAATGTT
1 AT-AATTTTT
*
8759795 ACAAATTTTT
1 A-TAATTTTT
*
8759805 TTAATTTTT
1 ATAATTTTT
8759814 ATAATTTTTT
1 ATAA-TTTTT
*
8759824 AATAACTTTT
1 -ATAATTTTT
*
8759834 AAATATTTTT
1 ATA-ATTTTT
* *
8759844 ATTAAAATTTA
1 A-T-AATTTTT
8759855 ATAATTTTTT
1 ATAA-TTTTT
*
8759865 ATAACTTTT
1 ATAATTTTT
*
8759874 ATTTATTTTT
1 A-TAATTTTT
*
8759884 AT-TTTTTT
1 ATAATTTTT
8759892 ACT-ATTTTT
1 A-TAATTTTT
8759901 AT
1 AT
8759903 CACATGTCAG
Statistics
Matches: 146, Mismatches: 35, Indels: 41
0.66 0.16 0.18
Matches are distributed among these distances:
7 1 0.01
8 16 0.11
9 54 0.37
10 63 0.43
11 11 0.08
12 1 0.01
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.61
Consensus pattern (9 bp):
ATAATTTTT
Found at i:8759787 original size:39 final size:38
Alignment explanation
Indices: 8759744--8759819 Score: 109
Period size: 39 Copynumber: 2.0 Consensus size: 38
8759734 TCTTACGATT
* *
8759744 TTATAAAATTTTAC-AATTTTTTGTTATATTTTATAATTA
1 TTATAAAATGTTACAAATTTTTT-TAAT-TTTTATAATTA
8759783 TTATAAAATGTTACAAATTTTTTTAATTTTTATAATT
1 TTATAAAATGTTACAAATTTTTTTAATTTTTATAATT
8759820 TTTTAATAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
38 10 0.29
39 16 0.47
40 8 0.24
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.58
Consensus pattern (38 bp):
TTATAAAATGTTACAAATTTTTTTAATTTTTATAATTA
Found at i:8759833 original size:20 final size:19
Alignment explanation
Indices: 8759798--8759875 Score: 79
Period size: 20 Copynumber: 4.0 Consensus size: 19
8759788 AAATGTTACA
*
8759798 AATTTTTT-TAATTTTTAT
1 AATTTTTTATAACTTTTAT
8759816 AATTTTTTAATAACTTTTA-
1 AATTTTTT-ATAACTTTTAT
* *
8759835 AATATTTTTATTAAAATTTAAT
1 AAT-TTTTTA-T-AACTTTTAT
8759857 AATTTTTTATAACTTTTAT
1 AATTTTTTATAACTTTTAT
8759876 TTATTTTTAT
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
18 8 0.16
19 11 0.22
20 15 0.31
21 12 0.24
22 3 0.06
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
AATTTTTTATAACTTTTAT
Found at i:8761155 original size:26 final size:26
Alignment explanation
Indices: 8761118--8761201 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
8761108 TGATACAAAT
* *
8761118 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
8761144 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
8761170 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
8761196 TGATAA
1 TGATAA
8761202 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:8764490 original size:39 final size:39
Alignment explanation
Indices: 8764436--8764579 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
8764426 GAATGTTCGA
*
8764436 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGTAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
8764475 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
8764514 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
8764553 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
8764580 CTTTGTGCGG
Statistics
Matches: 96, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 87 0.91
40 9 0.09
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:8764526 original size:78 final size:79
Alignment explanation
Indices: 8764437--8764619 Score: 269
Period size: 78 Copynumber: 2.3 Consensus size: 79
8764427 AATGTTCGAG
*
8764437 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGTAAATTGTGATATCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
8764501 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
*
8764515 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
** *
8764580 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
8764594 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
8764620 GTTTGAACGA
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
78 53 0.56
79 32 0.34
80 9 0.10
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.24
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:8771659 original size:33 final size:33
Alignment explanation
Indices: 8771617--8771682 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
8771607 CCACAAGTTA
8771617 GTTCACATATGCAATTCTTGCCAGAGAAATGCC
1 GTTCACATATGCAATTCTTGCCAGAGAAATGCC
8771650 GTTCACATATGCAATTCTTGCCAGAGAAATGCC
1 GTTCACATATGCAATTCTTGCCAGAGAAATGCC
8771683 AAAGTCTAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.27
Consensus pattern (33 bp):
GTTCACATATGCAATTCTTGCCAGAGAAATGCC
Found at i:8773760 original size:40 final size:40
Alignment explanation
Indices: 8773659--8773761 Score: 100
Period size: 40 Copynumber: 2.6 Consensus size: 40
8773649 ATCTCGGTAT
* * * *
8773659 CGCACACTTAGTGCCACATATAGCCGAAGTTATTCCAATT
1 CGCACACTAAGTGCCAAACATAGCCGAAGTTATTCCAATA
* * *** *
8773699 CGCGCACTAACTGCTTTACATAGCCGAAGTTATTTCGAA-A
1 CGCACACTAAGTGCCAAACATAGCCGAAGTTA-TTCCAATA
8773739 CGCACACTAAGTGCCAAACATAG
1 CGCACACTAAGTGCCAAACATAG
8773762 TCGATTTGTT
Statistics
Matches: 48, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
40 43 0.90
41 5 0.10
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (40 bp):
CGCACACTAAGTGCCAAACATAGCCGAAGTTATTCCAATA
Found at i:8775596 original size:69 final size:69
Alignment explanation
Indices: 8775485--8775927 Score: 401
Period size: 69 Copynumber: 6.4 Consensus size: 69
8775475 ACAACATTCG
* * *
8775485 TGTCATATTAAGGCTCGCAAGCGAAGAGCCTCAGCCTCCAACACAGTTAGTTAGAGCAAAGCTCC
1 TGTCATATTAAGGCTCGCAGGCGAAGAGCCACAGCCTCCAACACAGTTAGTAAGAGCAAAGCTCC
*
8775550 TAGT
66 TAGC
* * * * * *
8775554 TGTCATATTAAGGTTCAG-AGGCGAAGAGTCACAACCTCCAACACAGTTAGTGATACCAAAGCTC
1 TGTCATATTAAGGCTC-GCAGGCGAAGAGCCACAGCCTCCAACACAGTTAGTAAGAGCAAAGCTC
*
8775618 CCAGC
65 CTAGC
* * * * * * * * *
8775623 TGTTATATTAAAGCTCGCAGGCAAAGAGTCACAGCCCCCCAATATAGTTAGTAATAGCAAATCTC
1 TGTCATATTAAGGCTCGCAGGCGAAGAGCCACAG-CCTCCAACACAGTTAGTAAGAGCAAAGCTC
*
8775688 CCATG-
65 CTA-GC
* * * * ** *
8775693 TGTTATATTAAGGCTCACAAGCAAAGAGCCGTAGCCTCCAACACAGTTAGCGAA-AGCAAAGCTC
1 TGTCATATTAAGGCTCGCAGGCGAAGAGCCACAGCCTCCAACACAGTTAG-TAAGAGCAAAGCTC
8775757 CTAGC
65 CTAGC
* * * * * * * * * *
8775762 TATCATATTAATGCTTGTAGGCAAAAAGCCATAACC-CCAAGCATAGTTAGCAAGAGCAAAGCTC
1 TGTCATATTAAGGCTCGCAGGCGAAGAGCCACAGCCTCCAA-CACAGTTAGTAAGAGCAAAGCT-
*
8775826 CCAAG-
64 CCTAGC
* * *
8775831 TGCCATATTAAGGCTCGCAGGCGAGGAGCCGCAGCCTCCAACACAGTTAGTAAGAGCAAAGCTCC
1 TGTCATATTAAGGCTCGCAGGCGAAGAGCCACAGCCTCCAACACAGTTAGTAAGAGCAAAGCTCC
8775896 TAGC
66 TAGC
* *
8775900 TGTCATATTAAGGCTCACAGGTGAAGAG
1 TGTCATATTAAGGCTCGCAGGCGAAGAG
8775928 TCGTAGCCGC
Statistics
Matches: 299, Mismatches: 64, Indels: 22
0.78 0.17 0.06
Matches are distributed among these distances:
68 12 0.04
69 220 0.74
70 66 0.22
71 1 0.00
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.21
Consensus pattern (69 bp):
TGTCATATTAAGGCTCGCAGGCGAAGAGCCACAGCCTCCAACACAGTTAGTAAGAGCAAAGCTCC
TAGC
Found at i:8775849 original size:208 final size:205
Alignment explanation
Indices: 8775484--8775964 Score: 502
Period size: 208 Copynumber: 2.3 Consensus size: 205
8775474 AACAACATTC
* * *
8775484 GTGTCATATTAAGGCTCGCAAGCGAAGAGCC-TCAGCCTCCAACACAGTTAGTTAGAGCAAAGCT
1 GTGTCATATTAAGGCTCACAAGCGAAGAGCCGT-AGCCTCCAACACAGTTAGTGAAAGCAAAGCT
* * * * * * ** *
8775548 CCTAGTTGTCATATTAAGGTTCAGAGGCGAAGAGTCACAACCTCCAACACAGTTAGTGATACCAA
65 CCTAGCTATCATATTAAGCTT-AGAGGCAAAAAGCCACAACCTCCAACACAGTTAGCAAGACCAA
** * * * *
8775613 AGCTCCCAGCTGTTATATTAAAGCTCGCAGGCAAAGAGTCACAGCCCCCCAATATAGTTAGTAAT
129 AGCTCCCAGCTGCCATATTAAAGCTCGCAGGCAAAGAGCCACAG-CCCCCAACACAGTTAGTAAG
*
8775678 AGCAAATCTCCCA
193 AGCAAAGCTCCCA
* * *
8775691 TGTGTTATATTAAGGCTCACAAGCAAAGAGCCGTAGCCTCCAACACAGTTAGCGAAAGCAAAGCT
1 -GTGTCATATTAAGGCTCACAAGCGAAGAGCCGTAGCCTCCAACACAGTTAGTGAAAGCAAAGCT
* * *
8775756 CCTAGCTATCATATTAATGCTT-GTAGGCAAAAAGCCATAACC-CCAAGCATAGTTAGCAAGAGC
65 CCTAGCTATCATATTAA-GCTTAG-AGGCAAAAAGCCACAACCTCCAA-CACAGTTAGCAAGACC
* * * * *
8775819 AAAGCTCCCAAG-TGCCATATTAAGGCTCGCAGGCGAGGAGCCGCAGCCTCCAACACAGTTAGTA
127 AAAGCTCCC-AGCTGCCATATTAAAGCTCGCAGGCAAAGAGCCACAGCCCCCAACACAGTTAGTA
*
8775883 AGAGCAAAGCTCCTA
191 AGAGCAAAGCTCCCA
* * * * * * **
8775898 GCTGTCATATTAAGGCTCACAGGTGAAGAGTCGTAGCCGCCAGCACAATTAGTGAAAATAAAGCT
1 G-TGTCATATTAAGGCTCACAAGCGAAGAGCCGTAGCCTCCAACACAGTTAGTGAAAGCAAAGCT
8775963 CC
65 CC
8775965 CAATTGTTAT
Statistics
Matches: 225, Mismatches: 42, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
206 1 0.00
207 86 0.38
208 132 0.59
209 6 0.03
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.20
Consensus pattern (205 bp):
GTGTCATATTAAGGCTCACAAGCGAAGAGCCGTAGCCTCCAACACAGTTAGTGAAAGCAAAGCTC
CTAGCTATCATATTAAGCTTAGAGGCAAAAAGCCACAACCTCCAACACAGTTAGCAAGACCAAAG
CTCCCAGCTGCCATATTAAAGCTCGCAGGCAAAGAGCCACAGCCCCCAACACAGTTAGTAAGAGC
AAAGCTCCCA
Found at i:8775977 original size:69 final size:69
Alignment explanation
Indices: 8775485--8775984 Score: 250
Period size: 69 Copynumber: 7.2 Consensus size: 69
8775475 ACAACATTCG
* * * * * * *
8775485 TGTCATATTAAGGCTCGCAAGCGAAGAGCCTCAGCCTCCAACACAGTTAGTTAGAGCAAAGCTCC
1 TGTCATATTAAGGCTCACAGGCGAAGAGCCGCAGCCGCCAACACAATTAGTAAGAACAAAGCTCC
* **
8775550 TAGT
66 CAAC
* * * * * * * * * *
8775554 TGTCATATTAAGGTTCAGAGGCGAAGAGTCACAACCTCCAACACAGTTAGTGATACCAAAGCTCC
1 TGTCATATTAAGGCTCACAGGCGAAGAGCCGCAGCCGCCAACACAATTAGTAAGAACAAAGCTCC
*
8775619 CAGC
66 CAAC
* * * * * * * * * * * * *
8775623 TGTTATATTAAAGCTCGCAGGCAAAGAGTCACAGCCCCCCAATATAGTTAGTAATAGCAAATCTC
1 TGTCATATTAAGGCTCACAGGCGAAGAGCCGCAG-CCGCCAACACAATTAGTAAGAACAAAGCTC
**
8775688 CCATG
65 CCAAC
* * * * * * * *
8775693 TGTTATATTAAGGCTCACAAGCAAAGAGCCGTAGCCTCCAACACAGTTAGCGAA-AGCAAAGCTC
1 TGTCATATTAAGGCTCACAGGCGAAGAGCCGCAGCCGCCAACACAATTAG-TAAGAACAAAGCTC
* *
8775757 CTAGC
65 CCAAC
* * *** * * ** * * * * *
8775762 TATCATATTAATGCTTGTAGGCAAAAAGCCATAACC-CCAAGCATAGTTAGCAAGAGCAAAGCTC
1 TGTCATATTAAGGCTCACAGGCGAAGAGCCGCAGCCGCCAA-CACAATTAGTAAGAACAAAGCTC
*
8775826 CCAAG
65 CCAAC
* * * * * *
8775831 TGCCATATTAAGGCTCGCAGGCGAGGAGCCGCAGCCTCCAACACAGTTAGTAAGAGCAAAGCTCC
1 TGTCATATTAAGGCTCACAGGCGAAGAGCCGCAGCCGCCAACACAATTAGTAAGAACAAAGCTCC
* *
8775896 TAGC
66 CAAC
* * * * *
8775900 TGTCATATTAAGGCTCACAGGTGAAGAGTCGTAGCCGCCAGCACAATTAGTGAA-AATAAAGCTC
1 TGTCATATTAAGGCTCACAGGCGAAGAGCCGCAGCCGCCAACACAATTAGT-AAGAACAAAGCTC
*
8775964 CCAAT
65 CCAAC
* *
8775969 TGTTATATTAAAGCTC
1 TGTCATATTAAGGCTC
8775985 GTGAGCGAAG
Statistics
Matches: 337, Mismatches: 88, Indels: 12
0.77 0.20 0.03
Matches are distributed among these distances:
68 6 0.02
69 268 0.80
70 63 0.19
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.21
Consensus pattern (69 bp):
TGTCATATTAAGGCTCACAGGCGAAGAGCCGCAGCCGCCAACACAATTAGTAAGAACAAAGCTCC
CAAC
Found at i:8779738 original size:10 final size:10
Alignment explanation
Indices: 8779723--8779774 Score: 52
Period size: 10 Copynumber: 5.2 Consensus size: 10
8779713 TGGAGTGTTT
*
8779723 TTTTTAATGA
1 TTTTTAATAA
8779733 TTTTT-ATAA
1 TTTTTAATAA
*
8779742 TTTTAAATAA
1 TTTTTAATAA
*
8779752 TTTTTTTATAA
1 -TTTTTAATAA
*
8779763 TTTTTAAAAA
1 TTTTTAATAA
8779773 TT
1 TT
8779775 CCATTCAAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
9 7 0.21
10 19 0.56
11 8 0.24
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:8779757 original size:21 final size:21
Alignment explanation
Indices: 8779733--8779774 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
8779723 TTTTTAATGA
8779733 TTTTTATAA-TTTTAAATAATT
1 TTTTTATAATTTTTAAA-AATT
8779754 TTTTTATAATTTTTAAAAATT
1 TTTTTATAATTTTTAAAAATT
8779775 CCATTCAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTTTATAATTTTTAAAAATT
Found at i:8780670 original size:39 final size:40
Alignment explanation
Indices: 8780613--8780697 Score: 118
Period size: 39 Copynumber: 2.1 Consensus size: 40
8780603 TTAATTACTC
* * *
8780613 ATTTTTACTAATTTATTGCATAAAAATT-TTGAACTGTTG
1 ATTTTTACTAATTCATTGCATAAAAATTATTAAACTGATG
* *
8780652 ATTTTTACTAATTCATTGCATATAAATTATTAAATTGATG
1 ATTTTTACTAATTCATTGCATAAAAATTATTAAACTGATG
8780692 ATTTTT
1 ATTTTT
8780698 TTGGGGTTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 26 0.65
40 14 0.35
ACGTcount: A:0.34, C:0.07, G:0.08, T:0.51
Consensus pattern (40 bp):
ATTTTTACTAATTCATTGCATAAAAATTATTAAACTGATG
Found at i:8784448 original size:35 final size:35
Alignment explanation
Indices: 8784409--8784499 Score: 112
Period size: 35 Copynumber: 2.6 Consensus size: 35
8784399 ACTAATACTT
8784409 TGATTCACATGTTAAGCATGCTATT-TTTCTGATTA
1 TGATTCACATGTTAAGCATGCTATTATTT-TGATTA
* * * *
8784444 TGATTCATATGTTGAGCATACTATTATTTTGATTC
1 TGATTCACATGTTAAGCATGCTATTATTTTGATTA
* *
8784479 TGAATCCCATGTTAAGCATGC
1 TGATTCACATGTTAAGCATGC
8784500 CACTATGTTA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
35 43 0.93
36 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.43
Consensus pattern (35 bp):
TGATTCACATGTTAAGCATGCTATTATTTTGATTA
Found at i:8786025 original size:13 final size:13
Alignment explanation
Indices: 8786007--8786035 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
8785997 TATACAATGT
8786007 AAAAAAAAATAAA
1 AAAAAAAAATAAA
8786020 AAAAAAAAATAAA
1 AAAAAAAAATAAA
8786033 AAA
1 AAA
8786036 CACACAGATT
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:0.93, C:0.00, G:0.00, T:0.07
Consensus pattern (13 bp):
AAAAAAAAATAAA
Found at i:8790856 original size:64 final size:64
Alignment explanation
Indices: 8790783--8790993 Score: 146
Period size: 64 Copynumber: 3.2 Consensus size: 64
8790773 CTGGGCCAGA
*
8790783 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* ** * ** *
8790847 GCCCATTTCAAAATACATGCAACATCAATAAACATATG-C-AAG-CCC--ATTTGGGTAACAGTG
1 GCCCATTTC-AGAT---T-----A-CAATAAAC-TGGGCCTTAGCCCCTTATTCAGATAACA---
* *
8790907 GTACTGGGCCAGA-
52 GTA-TGGCCCATAG
*
8790920 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
8790984 GCCCATTTCA
1 GCCCATTTCA
8790994 AAATACATGC
Statistics
Matches: 105, Mismatches: 21, Indels: 42
0.62 0.12 0.25
Matches are distributed among these distances:
62 2 0.02
63 16 0.15
64 23 0.22
65 6 0.06
67 9 0.09
68 1 0.01
69 1 0.01
70 9 0.09
72 6 0.06
73 14 0.13
74 16 0.15
75 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:8790995 original size:137 final size:137
Alignment explanation
Indices: 8790749--8791035 Score: 547
Period size: 137 Copynumber: 2.1 Consensus size: 137
8790739 TATTGGGCCT
**
8790749 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
8790814 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
8790879 CATATGC
131 CATATGC
8790886 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
8790951 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
8791016 CATATGC
131 CATATGC
8791023 AAGCCCATTTGGG
1 AAGCCCATTTGGG
8791036 GAGACTACTC
Statistics
Matches: 147, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
137 147 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
CATATGC
Found at i:8791361 original size:154 final size:154
Alignment explanation
Indices: 8791081--8791388 Score: 607
Period size: 154 Copynumber: 2.0 Consensus size: 154
8791071 CGTACCAGCC
8791081 ATACACTCCATGTGGGGAATAGCTCAACCCACCTAGCCCAACACTCCACAGTTGCAGCCTTGCTG
1 ATACACTCCATGTGGGGAATAGCTCAACCCACCTAGCCCAACACTCCACAGTTGCAGCCTTGCTG
8791146 CTCAGTTAACAGTAAATTGAGGCAAAGCCTCCAGTAAGTGGACAAGCCACTTTCAGTACTTCTTC
66 CTCAGTTAACAGTAAATTGAGGCAAAGCCTCCAGTAAGTGGACAAGCCACTTTCAGTACTTCTTC
8791211 CGTCAATATCCCAGTCCCATGCAT
131 CGTCAATATCCCAGTCCCATGCAT
8791235 ATACACTCCATGTGGGGAATAGCTCAACCCACCTAGCCCAACACTCCACAGTTGCAGCCTTGCTG
1 ATACACTCCATGTGGGGAATAGCTCAACCCACCTAGCCCAACACTCCACAGTTGCAGCCTTGCTG
*
8791300 CTCAGTTAACAGTAAATTGAGGCAAAGGCTCCAGTAAGTGGACAAGCCACTTTCAGTACTTCTTC
66 CTCAGTTAACAGTAAATTGAGGCAAAGCCTCCAGTAAGTGGACAAGCCACTTTCAGTACTTCTTC
8791365 CGTCAATATCCCAGTCCCATGCAT
131 CGTCAATATCCCAGTCCCATGCAT
8791389 CAGATAATAA
Statistics
Matches: 153, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
154 153 1.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (154 bp):
ATACACTCCATGTGGGGAATAGCTCAACCCACCTAGCCCAACACTCCACAGTTGCAGCCTTGCTG
CTCAGTTAACAGTAAATTGAGGCAAAGCCTCCAGTAAGTGGACAAGCCACTTTCAGTACTTCTTC
CGTCAATATCCCAGTCCCATGCAT
Found at i:8791474 original size:25 final size:27
Alignment explanation
Indices: 8791437--8791489 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
8791427 TCAAACATGC
8791437 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
8791463 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
8791489 A
1 A
8791490 AAACTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:8793911 original size:64 final size:64
Alignment explanation
Indices: 8793838--8794048 Score: 151
Period size: 64 Copynumber: 3.2 Consensus size: 64
8793828 CTGGGCCAGA
*
8793838 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * ** *
8793902 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
8793964 ACTGGGCCAGA-
54 A-TGGCCCATAG
*
8793975 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
8794039 GCCCATTTCA
1 GCCCATTTCA
8794049 AAATACATGC
Statistics
Matches: 103, Mismatches: 27, Indels: 34
0.63 0.16 0.21
Matches are distributed among these distances:
63 9 0.09
64 25 0.24
65 5 0.05
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 5 0.05
73 16 0.16
74 9 0.09
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:8794050 original size:137 final size:137
Alignment explanation
Indices: 8793804--8794090 Score: 556
Period size: 137 Copynumber: 2.1 Consensus size: 137
8793794 TATTGGGCCT
**
8793804 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
8793869 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
8793934 CATATGC
131 CATATGC
8793941 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
8794006 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
8794071 CATATGC
131 CATATGC
8794078 AAGCCCATTTGGG
1 AAGCCCATTTGGG
8794091 GAGACTACTC
Statistics
Matches: 148, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 148 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:8794375 original size:25 final size:27
Alignment explanation
Indices: 8794338--8794390 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
8794328 TCAAACATGC
8794338 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
8794364 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
8794390 A
1 A
8794391 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:8795912 original size:26 final size:26
Alignment explanation
Indices: 8795876--8795985 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
8795866 CATGAAATTC
8795876 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
8795902 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
8795928 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
8795954 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
8795980 TTATCA
1 TTATCA
8795986 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:8797274 original size:26 final size:26
Alignment explanation
Indices: 8797245--8797354 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
8797235 TGATACAAAT
8797245 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
8797271 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
8797297 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
8797323 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
8797349 TGATAA
1 TGATAA
8797355 GAATTCCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:8798442 original size:25 final size:26
Alignment explanation
Indices: 8798348--8798456 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
8798338 ACATGAATTC
8798348 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
8798374 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
8798400 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
8798426 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
8798451 TTATCA
1 TTATCA
8798457 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
25 23 0.28
26 58 0.72
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:8803678 original size:17 final size:17
Alignment explanation
Indices: 8803658--8803690 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
8803648 TTAAATTGAC
8803658 ATTTAA-AAATAATTATA
1 ATTTAATAAA-AATTATA
8803675 ATTTAATAAAAATTAT
1 ATTTAATAAAAATTAT
8803691 GATAATTGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTTAATAAAAATTATA
Found at i:8803849 original size:18 final size:18
Alignment explanation
Indices: 8803826--8803860 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
8803816 GTTGTGATAA
8803826 TTATAATTATAAGTTAAT
1 TTATAATTATAAGTTAAT
*
8803844 TTATAATTATTAGTTAA
1 TTATAATTATAAGTTAA
8803861 AAAAGCAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (18 bp):
TTATAATTATAAGTTAAT
Found at i:8806795 original size:41 final size:40
Alignment explanation
Indices: 8806582--8806796 Score: 272
Period size: 40 Copynumber: 5.3 Consensus size: 40
8806572 CGATTGTCTT
* * *
8806582 GGACATAGCCCGG-TTATAGTAATTCGCACAATTGCCTTCG
1 GGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTCG
*
8806622 GGAATTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCG
1 GGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCG
* *
8806662 GGACTTAACCCGGATTTGGTAACTCGCACAAATGCCTTCG
1 GGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCG
* * *
8806702 GGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCG
1 GGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCG
* * * *
8806742 GGAATT-GACCCGGATTTAGTCACTTAGCACAAAAGCCTTCG
1 GGACTTAG-CCCGGATTTAGTAAC-TCGCACAAATGCCTTCG
8806783 GGACTTAGCCCGGA
1 GGACTTAGCCCGGA
8806797 CATCATTCGA
Statistics
Matches: 155, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
40 126 0.81
41 28 0.18
42 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
GGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCG
Found at i:8814804 original size:40 final size:40
Alignment explanation
Indices: 8814688--8814900 Score: 213
Period size: 39 Copynumber: 5.5 Consensus size: 40
8814678 GCTCGATTGT
* * * * *
8814688 CTTCGGGACAT-AGCCGGTTATAGTAATTCGCACAATTGC
1 CTTCGGGACTTAACCCGGTTTTAGTAACTCGCACAAATGC
* * *
8814727 CTTCGGGAATT-AGCC--ATTTAGTAACTC-CACAAATGC
1 CTTCGGGACTTAACCCGGTTTTAGTAACTCGCACAAATGC
*
8814763 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAACCCGGTTTTAGTAACTCGCACAAATGC
* *
8814803 CTTC-GGACTTAACCCGATTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAACCCGGTTTTAGTAACTCGCACAAATGC
* * * * * *
8814842 CTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACTTAACCCGGTTTTAGTAAC-TCGCACAAATGC
*
8814883 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAACCCGG
8814901 ACATCATTCG
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
36 18 0.12
37 12 0.08
39 61 0.42
40 30 0.21
41 25 0.17
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
CTTCGGGACTTAACCCGGTTTTAGTAACTCGCACAAATGC
Found at i:8814858 original size:79 final size:80
Alignment explanation
Indices: 8814747--8814899 Score: 211
Period size: 79 Copynumber: 1.9 Consensus size: 80
8814737 TAGCCATTTA
* * * * *
8814747 GTAACTCCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAAC-TCGCACAAATGCCTTC-GGA
1 GTAACTCCACAAATGCCTTCGGGAATTAACCCGGATTTAGTAACTTAGCACAAAAGCCTTCGGGA
8814810 CTTAACCCGATTTTG
66 CTTAACCCGATTTTG
* *
8814825 GTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGG
1 GTAACTC-CACAAATGCCTTCGGGAATTAACCCGGATTTAGTAACTTAGCACAAAAGCCTTCGGG
*
8814890 ACTTAGCCCG
65 ACTTAACCCG
8814900 GACATCATTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
78 7 0.11
79 32 0.50
80 14 0.22
81 11 0.17
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
GTAACTCCACAAATGCCTTCGGGAATTAACCCGGATTTAGTAACTTAGCACAAAAGCCTTCGGGA
CTTAACCCGATTTTG
Found at i:8817105 original size:16 final size:16
Alignment explanation
Indices: 8817084--8817118 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
8817074 GATTACAACT
8817084 TAGTGGCTTGACCACA
1 TAGTGGCTTGACCACA
8817100 TAGTGGCTTGACCACA
1 TAGTGGCTTGACCACA
8817116 TAG
1 TAG
8817119 GTTTGATCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (16 bp):
TAGTGGCTTGACCACA
Found at i:8820276 original size:9 final size:8
Alignment explanation
Indices: 8820257--8820319 Score: 51
Period size: 8 Copynumber: 8.0 Consensus size: 8
8820247 TTTATTTATA
8820257 TTTCTTATT
1 TTTCTT-TT
*
8820266 TTGCTTTT
1 TTTCTTTT
8820274 TTTC--TT
1 TTTCTTTT
8820280 TTTCTTATT
1 TTTCTT-TT
*
8820289 TTGCTTTT
1 TTTCTTTT
*
8820297 TTT-TCTT
1 TTTCTTTT
8820304 TTTCTTTT
1 TTTCTTTT
*
8820312 TATCTTTT
1 TTTCTTTT
8820320 CTAAACGTCC
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
6 6 0.14
7 6 0.14
8 19 0.44
9 12 0.28
ACGTcount: A:0.05, C:0.13, G:0.03, T:0.79
Consensus pattern (8 bp):
TTTCTTTT
Found at i:8820283 original size:23 final size:24
Alignment explanation
Indices: 8820257--8820309 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
8820247 TTTATTTATA
8820257 TTTCTTATTTTGC-TTTTTTTCTT
1 TTTCTTATTTTGCTTTTTTTTCTT
8820280 TTTCTTATTTTGCTTTTTTTTCTT
1 TTTCTTATTTTGCTTTTTTTTCTT
8820304 TTTCTT
1 TTTCTT
8820310 TTTATCTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 13 0.45
24 16 0.55
ACGTcount: A:0.04, C:0.13, G:0.04, T:0.79
Consensus pattern (24 bp):
TTTCTTATTTTGCTTTTTTTTCTT
Found at i:8820290 original size:15 final size:15
Alignment explanation
Indices: 8820272--8820312 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
8820262 TATTTTGCTT
8820272 TTTTTCTTTTTCTTA
1 TTTTTCTTTTTCTTA
* * *
8820287 TTTTGCTTTTTTTTC
1 TTTTTCTTTTTCTTA
8820302 TTTTTCTTTTT
1 TTTTTCTTTTT
8820313 ATCTTTTCTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.02, C:0.12, G:0.02, T:0.83
Consensus pattern (15 bp):
TTTTTCTTTTTCTTA
Found at i:8826824 original size:19 final size:19
Alignment explanation
Indices: 8826802--8826839 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
8826792 AAACTTTGTA
8826802 AAATAATTA-AAAATTAATT
1 AAATAATTATAAAA-TAATT
*
8826821 AAATCATTATAAAATAATT
1 AAATAATTATAAAATAATT
8826840 TAAAAATCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (19 bp):
AAATAATTATAAAATAATT
Found at i:8831055 original size:12 final size:12
Alignment explanation
Indices: 8831038--8831062 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8831028 GCTAAAAAAG
8831038 ATGAAAAATTAA
1 ATGAAAAATTAA
8831050 ATGAAAAATTAA
1 ATGAAAAATTAA
8831062 A
1 A
8831063 ATAATTTTTT
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:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (12 bp):
ATGAAAAATTAA
Found at i:8831733 original size:29 final size:28
Alignment explanation
Indices: 8831694--8831750 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
8831684 TCTTTATATA
* *
8831694 TTTAAAATTTAGT-TTCTTTATTTTTAAT
1 TTTAAAATTTAATCTT-TCTATTTTTAAT
8831722 TTTAAGAATTTAATCTTTCTATTTTTAAT
1 TTTAA-AATTTAATCTTTCTATTTTTAAT
8831751 ATAAACCAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 5 0.20
29 18 0.72
30 2 0.08
ACGTcount: A:0.30, C:0.05, G:0.04, T:0.61
Consensus pattern (28 bp):
TTTAAAATTTAATCTTTCTATTTTTAAT
Found at i:8835838 original size:12 final size:13
Alignment explanation
Indices: 8835814--8835843 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
8835804 TTAGCATGAT
8835814 ATTATTAATTAAA
1 ATTATTAATTAAA
8835827 ATTATT-ATTAAA
1 ATTATTAATTAAA
8835839 ATTAT
1 ATTAT
8835844 GTTAGTGCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATTATTAATTAAA
Found at i:8846097 original size:22 final size:22
Alignment explanation
Indices: 8846069--8846112 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
8846059 TGAAAGATTG
8846069 GAACACTGTTTCCATTTACTGA
1 GAACACTGTTTCCATTTACTGA
8846091 GAACACTGTTTCCATTTACTGA
1 GAACACTGTTTCCATTTACTGA
8846113 AAGTATGTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (22 bp):
GAACACTGTTTCCATTTACTGA
Found at i:8848202 original size:42 final size:42
Alignment explanation
Indices: 8848155--8848246 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
8848145 TGGCCCTTAG
* ** *
8848155 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
8848197 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
8848239 GCCCATTT
1 GCCCATTT
8848247 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:8848422 original size:25 final size:25
Alignment explanation
Indices: 8848394--8848463 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
8848384 CTCTTTTAAT
* *
8848394 AACTGGGGCAAATCCC-TTTCTGATA
1 AACTGGGGCAGAGCCCTTTTC-GATA
*
8848419 AACTGGGGCAGAGCCCTTTTCGGTA
1 AACTGGGGCAGAGCCCTTTTCGATA
8848444 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAGAGCCCTTTT
8848464 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
25 37 0.90
26 4 0.10
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAGAGCCCTTTTCGATA
Found at i:8849490 original size:27 final size:26
Alignment explanation
Indices: 8849441--8849546 Score: 88
Period size: 27 Copynumber: 3.9 Consensus size: 26
8849431 AATTTTAAAA
*
8849441 AAAAGTCAAGGGTATTTCT-GTAATTTT
1 AAAA-TCAGGGGTATTT-TGGTAATTTT
*
8849468 GTAAATCAGGGGTATTTTGGTAATTTT
1 -AAAATCAGGGGTATTTTGGTAATTTT
* * *
8849495 AAAAATTAAGGGTATTTCGGTAATTTCT
1 -AAAATCAGGGGTATTTTGGTAATTT-T
* * *
8849523 CAAACCAGTGGTATTTTGGTAATT
1 AAAATCAGGGGTATTTTGGTAATT
8849547 CTATCCTACA
Statistics
Matches: 63, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
26 1 0.02
27 58 0.92
28 4 0.06
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.41
Consensus pattern (26 bp):
AAAATCAGGGGTATTTTGGTAATTTT
Found at i:8849492 original size:58 final size:54
Alignment explanation
Indices: 8849370--8849546 Score: 160
Period size: 54 Copynumber: 3.2 Consensus size: 54
8849360 TACAAGGGTG
* * * * * *
8849370 TTTTGGTAAATCTACAAACCAAGGGTATTTCAATAATTTTGTAAATCAATGGTA
1 TTTTGGTAATTTTAAAAATCAAGGGTATTTCAGTAATTTTGTAAATCAGTGGTA
* * * *
8849424 TTCCT-ATAATTTTAAAAAAAAGTCAAGGGTATTTCTGTAATTTTGTAAATCAGGGGTA
1 TT-TTGGTAATTTT---AAAAA-TCAAGGGTATTTCAGTAATTTTGTAAATCAGTGGTA
* * * *
8849482 TTTTGGTAATTTTAAAAATTAAGGGTATTTCGGTAATTTCT-CAAACCAGTGGTA
1 TTTTGGTAATTTTAAAAATCAAGGGTATTTCAGTAATTT-TGTAAATCAGTGGTA
8849536 TTTTGGTAATT
1 TTTTGGTAATT
8849547 CTATCCTACA
Statistics
Matches: 99, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
54 47 0.47
55 7 0.07
57 5 0.05
58 40 0.40
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (54 bp):
TTTTGGTAATTTTAAAAATCAAGGGTATTTCAGTAATTTTGTAAATCAGTGGTA
Found at i:8849642 original size:27 final size:27
Alignment explanation
Indices: 8849583--8849696 Score: 104
Period size: 27 Copynumber: 4.2 Consensus size: 27
8849573 TTCACAATTT
* *
8849583 AGGGTAAAAAGGTAATTTTTTAAA-CTG
1 AGGGTAAAATGGTAATTTTATAAATC-G
* *
8849610 AAGGTAAAATGGTAATTTTGTAAATCG
1 AGGGTAAAATGGTAATTTTATAAATCG
* * *
8849637 AGGGTAAAACGATAATTCTATAAATCG
1 AGGGTAAAATGGTAATTTTATAAATCG
*** * *
8849664 AGGGTACTTTGGTAATTTTACAAGTCG
1 AGGGTAAAATGGTAATTTTATAAATCG
8849691 AGGGTA
1 AGGGTA
8849697 TTTCAGTAAT
Statistics
Matches: 70, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
27 69 0.99
28 1 0.01
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.32
Consensus pattern (27 bp):
AGGGTAAAATGGTAATTTTATAAATCG
Found at i:8850593 original size:51 final size:51
Alignment explanation
Indices: 8850517--8850619 Score: 188
Period size: 51 Copynumber: 2.0 Consensus size: 51
8850507 CAGATTTTTA
*
8850517 AATAGTTTGATAGTCTTTGAAGGACTTGACATACGTTTAATGGACATTGTG
1 AATAGTTTGATAGTCTTTGAAGGACTTGACATACGTTTAATGGACATCGTG
*
8850568 AATAGTTTGATAGTCTTTGAAGGACTTGACATATGTTTAATGGACATCGTG
1 AATAGTTTGATAGTCTTTGAAGGACTTGACATACGTTTAATGGACATCGTG
8850619 A
1 A
8850620 CAACTTTGTT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.30, C:0.10, G:0.23, T:0.37
Consensus pattern (51 bp):
AATAGTTTGATAGTCTTTGAAGGACTTGACATACGTTTAATGGACATCGTG
Found at i:8855337 original size:6 final size:6
Alignment explanation
Indices: 8855319--8855358 Score: 53
Period size: 6 Copynumber: 6.3 Consensus size: 6
8855309 TGTGGTTTTT
*
8855319 TGAAAA TGGAAA TGAAAA TGAGAAA TGAAAA TGAGAAA TG
1 TGAAAA TGAAAA TGAAAA TGA-AAA TGAAAA TGA-AAA TG
8855359 GATTCATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
6 19 0.63
7 11 0.37
ACGTcount: A:0.57, C:0.00, G:0.25, T:0.17
Consensus pattern (6 bp):
TGAAAA
Found at i:8855345 original size:13 final size:13
Alignment explanation
Indices: 8855319--8855358 Score: 73
Period size: 13 Copynumber: 3.2 Consensus size: 13
8855309 TGTGGTTTTT
8855319 TGAAAATG-GAAA
1 TGAAAATGAGAAA
8855331 TGAAAATGAGAAA
1 TGAAAATGAGAAA
8855344 TGAAAATGAGAAA
1 TGAAAATGAGAAA
8855357 TG
1 TG
8855359 GATTCATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 8 0.30
13 19 0.70
ACGTcount: A:0.57, C:0.00, G:0.25, T:0.17
Consensus pattern (13 bp):
TGAAAATGAGAAA
Found at i:8859366 original size:2 final size:2
Alignment explanation
Indices: 8859361--8859431 Score: 124
Period size: 2 Copynumber: 35.5 Consensus size: 2
8859351 TTATGATATA
* *
8859361 TG TG TG TG TG TG TG TG TG GG TG TA TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
8859403 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
8859432 TAAGTTGAGT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.01, C:0.00, G:0.49, T:0.49
Consensus pattern (2 bp):
TG
Found at i:8861236 original size:30 final size:30
Alignment explanation
Indices: 8861191--8861270 Score: 124
Period size: 30 Copynumber: 2.7 Consensus size: 30
8861181 CATGGGCTGG
* *
8861191 CACATGGGTGTGTGGCCAGCTCGTGCGAGC
1 CACACGGGTGTGTGGCCAGCTCGTGAGAGC
* *
8861221 CACACGGGCGTGTGGCCAGCTTGTGAGAGC
1 CACACGGGTGTGTGGCCAGCTCGTGAGAGC
8861251 CACACGGGTGTGTGGCCAGC
1 CACACGGGTGTGTGGCCAGC
8861271 CTGTATGGAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.15, C:0.28, G:0.40, T:0.17
Consensus pattern (30 bp):
CACACGGGTGTGTGGCCAGCTCGTGAGAGC
Found at i:8872838 original size:34 final size:33
Alignment explanation
Indices: 8872767--8872848 Score: 94
Period size: 34 Copynumber: 2.4 Consensus size: 33
8872757 GTTGATGCTG
**
8872767 TACTGAACTGGGCTAAGGCCCACACTGTTAATAC
1 TACTGAA-TGGGCTAAGGCCCACACTGAAAATAC
*
8872801 TACTGTAATGGGCTAAGGCCCACACT-AAAATTGC
1 TACTG-AATGGGCTAAGGCCCACACTGAAAA-TAC
8872835 TACTGATATGGGCT
1 TACTGA-ATGGGCT
8872849 TAAGCCAGAC
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
33 3 0.07
34 37 0.88
35 2 0.05
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (33 bp):
TACTGAATGGGCTAAGGCCCACACTGAAAATAC
Found at i:8874598 original size:46 final size:46
Alignment explanation
Indices: 8874542--8874717 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
8874532 TGGTTGAGCA
8874542 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCGAATG
* * * *
8874588 TCCGAACTCGTTCAGTTGAGTCCGAGTTCGA-GA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCGAA-T--G
* * *
8874633 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCGAATG
* * *
8874681 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGG
8874718 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 2 0.02
46 65 0.60
47 27 0.25
48 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCGAATG
Found at i:8874698 original size:93 final size:93
Alignment explanation
Indices: 8874539--8874709 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
8874529 GGATGGTTGA
* *
8874539 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCGAATGTCCGAACTCGTTCAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCGAACGCCCGAACTCGTTCAGT
8874604 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * * *
8874632 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCGAACGCCCGAACTCGTTCAGT
8874697 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
8874710 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCGAACGCCCGAACTCGTTCAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:8877821 original size:20 final size:20
Alignment explanation
Indices: 8877773--8877822 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
8877763 TTGGTGATCA
*
8877773 TGGGCCCAAGGCCCATATTG
1 TGGGCCCATGGCCCATATTG
8877793 TGGGCCCATGGCCCATATTG
1 TGGGCCCATGGCCCATATTG
8877813 TGGGCCCATG
1 TGGGCCCATG
8877823 CGGGCTCACA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.16, C:0.30, G:0.32, T:0.22
Consensus pattern (20 bp):
TGGGCCCATGGCCCATATTG
Found at i:8878044 original size:12 final size:12
Alignment explanation
Indices: 8878027--8878067 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
8878017 ATGTTTTACT
8878027 ACACGGACAACC
1 ACACGGACAACC
8878039 ACACGGACAACC
1 ACACGGACAACC
* * *
8878051 ACATGGGCAGCC
1 ACACGGACAACC
8878063 ACACG
1 ACACG
8878068 CCCATGTGGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.37, C:0.39, G:0.22, T:0.02
Consensus pattern (12 bp):
ACACGGACAACC
Done.