Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 282 of 344
Found at i:94711617 original size:20 final size:18
Alignment explanation
Indices: 94711585--94711623 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
94711575 TTTGACAATA
94711585 ATTATTTGATTTATCAAAT
1 ATTATTTGATTTAT-AAAT
94711604 ATTATTTGATTTTATAAAT
1 ATTATTTGA-TTTATAAAT
94711623 A
1 A
94711624 AAAGAGTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (18 bp):
ATTATTTGATTTATAAAT
Found at i:94712984 original size:18 final size:18
Alignment explanation
Indices: 94712963--94713008 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
94712953 GTCGTGTGGG
* *
94712963 CCACATGGGCTTGTAGAT
1 CCACACGGGCTTGTAGAC
94712981 CCACACGGGCTTGTAGAC
1 CCACACGGGCTTGTAGAC
94712999 CCACACGGGC
1 CCACACGGGC
94713009 AGACCATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.22, C:0.33, G:0.28, T:0.17
Consensus pattern (18 bp):
CCACACGGGCTTGTAGAC
Found at i:94723723 original size:78 final size:79
Alignment explanation
Indices: 94723593--94723749 Score: 253
Period size: 78 Copynumber: 2.0 Consensus size: 79
94723583 GCTGATACAT
* * * *
94723593 CTCTATGTTACTCTGTTGATGAATAATATGCAATATCTAAATATGTTGGATTGATGGTTACTGAT
1 CTCTACGTTACTCTGTTGATGAAGAATATACAATATCTAAATATGTTAGATTGATGGTTACTGAT
94723658 T-TGATTTATAACC
66 TCTGATTTATAACC
* *
94723671 CTCTACGTTACTCTGTTGATGAAGAATATACGATATCTAAATATGTTAGATTGATTGTTACTGAT
1 CTCTACGTTACTCTGTTGATGAAGAATATACAATATCTAAATATGTTAGATTGATGGTTACTGAT
94723736 TCTGATTTATAACC
66 TCTGATTTATAACC
94723750 GTGCATGTGA
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
78 60 0.83
79 12 0.17
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.41
Consensus pattern (79 bp):
CTCTACGTTACTCTGTTGATGAAGAATATACAATATCTAAATATGTTAGATTGATGGTTACTGAT
TCTGATTTATAACC
Found at i:94724271 original size:15 final size:15
Alignment explanation
Indices: 94724253--94724301 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
94724243 TCTACTCTGC
94724253 TCTGTTCTCTTATGT
1 TCTGTTCTCTTATGT
*
94724268 TCTGCTCTGCTT-TGT
1 TCTGTTCT-CTTATGT
* *
94724283 TCTATTCTCTTATTT
1 TCTGTTCTCTTATGT
94724298 TCTG
1 TCTG
94724302 CTCTGTCCTA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
14 3 0.11
15 21 0.78
16 3 0.11
ACGTcount: A:0.06, C:0.22, G:0.12, T:0.59
Consensus pattern (15 bp):
TCTGTTCTCTTATGT
Found at i:94725646 original size:39 final size:41
Alignment explanation
Indices: 94725599--94725689 Score: 105
Period size: 41 Copynumber: 2.3 Consensus size: 41
94725589 TTGTTCTGTG
94725599 TATTAGTAATA-CTA-ATACATTATAATATATTATATTATA
1 TATTAGTAATAGCTATATACATTATAATATATTATATTATA
* * * ** * *
94725638 TATTAGTAATAGTTATTTATATTATTTTATTTTATTTTATA
1 TATTAGTAATAGCTATATACATTATAATATATTATATTATA
94725679 TATTAGTAATA
1 TATTAGTAATA
94725690 TATTAATTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
39 11 0.26
40 2 0.05
41 30 0.70
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (41 bp):
TATTAGTAATAGCTATATACATTATAATATATTATATTATA
Found at i:94726449 original size:32 final size:31
Alignment explanation
Indices: 94726413--94726536 Score: 126
Period size: 32 Copynumber: 3.9 Consensus size: 31
94726403 GGTCAAAAGA
94726413 ATTTTTTACCAACTTTTAAGGGACCCAAAAAT
1 ATTTTTT-CCAACTTTTAAGGGACCCAAAAAT
* * *
94726445 ATTTTTT-TAGCTTTTAAGGGCCCCAAAAAT
1 ATTTTTTCCAACTTTTAAGGGACCCAAAAAT
* * *
94726475 TTTTTTTACCAACTTTTAAGGTACCTAAAAAT
1 ATTTTTT-CCAACTTTTAAGGGACCCAAAAAT
* *
94726507 -TTTTTTCTCTAACTTTTAAGGAACCTAAAA
1 ATTTTTTC-C-AACTTTTAAGGGACCCAAAA
94726537 CCTCGTGTTA
Statistics
Matches: 78, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
30 27 0.35
31 7 0.09
32 44 0.56
ACGTcount: A:0.34, C:0.17, G:0.09, T:0.40
Consensus pattern (31 bp):
ATTTTTTCCAACTTTTAAGGGACCCAAAAAT
Found at i:94729239 original size:24 final size:26
Alignment explanation
Indices: 94729212--94729261 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
94729202 GCAAGATTTC
94729212 TTTCTT-GTGATTTT-TAAAAGTAGT
1 TTTCTTCGTGATTTTCTAAAAGTAGT
* *
94729236 TTTCTTCTTGATTTTCTACAAGTAGT
1 TTTCTTCGTGATTTTCTAAAAGTAGT
94729262 CGTGGGAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 6 0.27
25 7 0.32
26 9 0.41
ACGTcount: A:0.22, C:0.10, G:0.14, T:0.54
Consensus pattern (26 bp):
TTTCTTCGTGATTTTCTAAAAGTAGT
Found at i:94732021 original size:21 final size:21
Alignment explanation
Indices: 94732005--94732094 Score: 135
Period size: 21 Copynumber: 4.3 Consensus size: 21
94731995 GACACATAAA
* *
94732005 GTGCCTAAAACGACACACGAG
1 GTGCCTGATACGACACACGAG
*
94732026 GTGCCTGATACGACACACGAT
1 GTGCCTGATACGACACACGAG
* *
94732047 GTGCCTGATATGACACATGAG
1 GTGCCTGATACGACACACGAG
94732068 GTGCCTGATACGACACACGAG
1 GTGCCTGATACGACACACGAG
94732089 GTGCCT
1 GTGCCT
94732095 AAAATATGAC
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 61 1.00
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.18
Consensus pattern (21 bp):
GTGCCTGATACGACACACGAG
Found at i:94732117 original size:44 final size:42
Alignment explanation
Indices: 94732026--94732120 Score: 136
Period size: 42 Copynumber: 2.2 Consensus size: 42
94732016 GACACACGAG
* * * *
94732026 GTGCCTGATACGACACACGATGTGCCTGATATGACACATGAG
1 GTGCCTGATACGACACACGAGGTGCCTAATATGACACATAAA
94732068 GTGCCTGATACGACACACGAGGTGCCTAAAATATGACACATAAA
1 GTGCCTGATACGACACACGAGGTGCCT--AATATGACACATAAA
94732112 GTGCCTGAT
1 GTGCCTGAT
94732121 CGATAAAGCC
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
42 26 0.55
44 21 0.45
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.21
Consensus pattern (42 bp):
GTGCCTGATACGACACACGAGGTGCCTAATATGACACATAAA
Found at i:94732517 original size:15 final size:14
Alignment explanation
Indices: 94732493--94732532 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
94732483 TGTATATTAT
94732493 ATAATTCAATCAAA
1 ATAATTCAATCAAA
94732507 ATAATTTCAATCAATA
1 ATAA-TTCAATCAA-A
*
94732523 AAAATTCAAT
1 ATAATTCAAT
94732533 AAATTCATCG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 4 0.17
15 15 0.65
16 4 0.17
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (14 bp):
ATAATTCAATCAAA
Found at i:94738448 original size:15 final size:14
Alignment explanation
Indices: 94738424--94738463 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
94738414 TGTATATTAT
94738424 ATAATTCAATCAAA
1 ATAATTCAATCAAA
94738438 ATAATTTCAATCAATA
1 ATAA-TTCAATCAA-A
*
94738454 AAAATTCAAT
1 ATAATTCAAT
94738464 AAATTCATCG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 4 0.17
15 15 0.65
16 4 0.17
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (14 bp):
ATAATTCAATCAAA
Found at i:94744734 original size:41 final size:41
Alignment explanation
Indices: 94744677--94744826 Score: 212
Period size: 41 Copynumber: 3.7 Consensus size: 41
94744667 TCGGGGTTTA
94744677 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
*
94744718 AATCCGAGCTTGGTCTCGAAGGGCTTTTAAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* * * * * * * *
94744759 AA-CCGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
94744799 AATCCGAGCTTGGTCTCGAAGGGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
94744827 TGAGTCAGCG
Statistics
Matches: 92, Mismatches: 16, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
40 31 0.34
41 61 0.66
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.28
Consensus pattern (41 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
Found at i:94747005 original size:20 final size:20
Alignment explanation
Indices: 94746982--94747020 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
94746972 GATATACTAT
94746982 GATTTGA-AATGATATGATTC
1 GATTTGATAA-GATATGATTC
94747002 GATTTGATAAGATATGATT
1 GATTTGATAAGATATGATT
94747021 TGGTATGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.36, C:0.03, G:0.21, T:0.41
Consensus pattern (20 bp):
GATTTGATAAGATATGATTC
Found at i:94748762 original size:13 final size:13
Alignment explanation
Indices: 94748744--94748770 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
94748734 GCTCGGCAGG
94748744 GACACGCCCGTGT
1 GACACGCCCGTGT
94748757 GACACGCCCGTGT
1 GACACGCCCGTGT
94748770 G
1 G
94748771 CGATTACTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:94749545 original size:14 final size:14
Alignment explanation
Indices: 94749522--94749551 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
94749512 TTTTTTTTTG
*
94749522 AAACATAAATTGAA
1 AAACAAAAATTGAA
94749536 AAACAAAAATTGAA
1 AAACAAAAATTGAA
94749550 AA
1 AA
94749552 TACCTCAGCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.70, C:0.07, G:0.07, T:0.17
Consensus pattern (14 bp):
AAACAAAAATTGAA
Found at i:94749652 original size:89 final size:90
Alignment explanation
Indices: 94749379--94749716 Score: 468
Period size: 89 Copynumber: 3.8 Consensus size: 90
94749369 TATCCTCCGT
* * * *
94749379 GTGTGACCTGATACTCAACTCACCTCACGCAATATAAGTTGATTTTTTTTGGAAA-ATAAATTAA
1 GTGTGACCTGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTT-GAAACATAAATTGA
* *
94749443 AAAACAGAAATTGAAAATACTTCAGC
65 AAAACAAAAATTGAAAATACCTCAGC
* * * *
94749469 GTCTTACCTGGGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAACATAAATTG
1 GTGTGACCTGAGACTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTTGAAACATAAATTG
94749534 AAAAACAAAAATTGAAAATACCTCAGC
64 AAAAACAAAAATTGAAAATACCTCAGC
* * *
94749561 GTGTTACCTGAGACTCAACTCACGTCTCGCAATATGAGTTGA-TTTTTTTGAGACATAAATTGAA
1 GTGTGACCTGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAACATAAATTGAA
94749625 AAACAAAAATTGAAAATACCTCAGC
66 AAACAAAAATTGAAAATACCTCAGC
* * *
94749650 GTGTGACCT-AAAGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTAGAAACATACATTGA
1 GTGTGACCTGAGA-CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAACATAAATTGA
94749713 AAAA
65 AAAA
94749717 TTGAAATAAA
Statistics
Matches: 223, Mismatches: 21, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
88 2 0.01
89 104 0.47
90 35 0.16
91 4 0.02
92 78 0.35
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.30
Consensus pattern (90 bp):
GTGTGACCTGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAACATAAATTGAA
AAACAAAAATTGAAAATACCTCAGC
Found at i:94750605 original size:42 final size:42
Alignment explanation
Indices: 94750501--94750612 Score: 161
Period size: 42 Copynumber: 2.7 Consensus size: 42
94750491 CATTAAGACG
* * * *
94750501 CCTTTTCGGGTTTTTATCCTAATCTTTTGTTTATCAAGACAC
1 CCTTTCCGGGTTTTCATCTTGATCTTTTGTTTATCAAGACAC
*
94750543 CCTTTCCGGGTTTTCATCTTGATCTTTTGTTTATCAAGACTC
1 CCTTTCCGGGTTTTCATCTTGATCTTTTGTTTATCAAGACAC
* *
94750585 CCTTTCTGGGTTTTCGTCTTGATCTTTT
1 CCTTTCCGGGTTTTCATCTTGATCTTTT
94750613 TTTCTTTTTT
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.13, C:0.22, G:0.14, T:0.50
Consensus pattern (42 bp):
CCTTTCCGGGTTTTCATCTTGATCTTTTGTTTATCAAGACAC
Found at i:94761258 original size:46 final size:46
Alignment explanation
Indices: 94761218--94761309 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
94761208 AAAAATACTG
94761218 ATAATGCTACTTATAAATATACATGATAATAGTATTAAAAACTATA
1 ATAATGCTACTTATAAATATACATGATAATAGTATTAAAAACTATA
94761264 ATAATGCTACTTATAAATATACATGATAATAGTATTAAAAACTATA
1 ATAATGCTACTTATAAATATACATGATAATAGTATTAAAAACTATA
94761310 TACATAATAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.50, C:0.09, G:0.07, T:0.35
Consensus pattern (46 bp):
ATAATGCTACTTATAAATATACATGATAATAGTATTAAAAACTATA
Found at i:94761263 original size:25 final size:24
Alignment explanation
Indices: 94761235--94761326 Score: 79
Period size: 25 Copynumber: 3.9 Consensus size: 24
94761225 TACTTATAAA
94761235 TATACATGATAATAGTATTAAAAAC
1 TATACA-GATAATAGTATTAAAAAC
*
94761260 TAT--A-ATAAT-GCTACTTATAAA-
1 TATACAGATAATAG-TA-TTAAAAAC
94761281 TATACATGATAATAGTATTAAAAAC
1 TATACA-GATAATAGTATTAAAAAC
* *
94761306 TATATACATAATA-TATTAAAA
1 TATACAGATAATAGTATTAAAA
94761327 TATAATATTA
Statistics
Matches: 55, Mismatches: 4, Indels: 18
0.71 0.05 0.23
Matches are distributed among these distances:
20 1 0.02
21 10 0.18
22 6 0.11
23 10 0.18
24 12 0.22
25 15 0.27
26 1 0.02
ACGTcount: A:0.52, C:0.08, G:0.05, T:0.35
Consensus pattern (24 bp):
TATACAGATAATAGTATTAAAAAC
Found at i:94761334 original size:24 final size:24
Alignment explanation
Indices: 94761243--94761326 Score: 72
Period size: 24 Copynumber: 3.6 Consensus size: 24
94761233 AATATACATG
94761243 ATAATAGTATTAAAAAC--TATA-
1 ATAATAGTATTAAAAACTATATAC
* * *
94761264 ATAAT-GCTACTTATAAA-TATACATG
1 ATAATAG-TA-TTAAAAACTATATA-C
94761289 ATAATAGTATTAAAAACTATATAC
1 ATAATAGTATTAAAAACTATATAC
94761313 ATAATA-TATTAAAA
1 ATAATAGTATTAAAA
94761327 TATAATATTA
Statistics
Matches: 50, Mismatches: 5, Indels: 14
0.72 0.07 0.20
Matches are distributed among these distances:
20 1 0.02
21 7 0.14
22 6 0.12
23 11 0.22
24 12 0.24
25 12 0.24
26 1 0.02
ACGTcount: A:0.54, C:0.07, G:0.05, T:0.35
Consensus pattern (24 bp):
ATAATAGTATTAAAAACTATATAC
Found at i:94761362 original size:36 final size:37
Alignment explanation
Indices: 94761289--94761372 Score: 91
Period size: 36 Copynumber: 2.3 Consensus size: 37
94761279 AATATACATG
* * * *
94761289 ATAATAGTATTAAAAACTATATACATAATATATTAAA
1 ATAATAATATTAAAAACTATATACATAAAAGAGTAAA
*
94761326 AT-ATAATATTAAAATAC-ATATACATAAAAGGGTAAA
1 ATAATAATATTAAAA-ACTATATACATAAAAGAGTAAA
94761362 ATGAATAATAT
1 AT-AATAATAT
94761373 GGAAAATAAC
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
36 28 0.72
37 4 0.10
38 7 0.18
ACGTcount: A:0.57, C:0.05, G:0.06, T:0.32
Consensus pattern (37 bp):
ATAATAATATTAAAAACTATATACATAAAAGAGTAAA
Found at i:94761468 original size:18 final size:19
Alignment explanation
Indices: 94761445--94761485 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
94761435 AATAAGGTAT
*
94761445 ATAAAATAATTTAAAATA-
1 ATAAAACAATTTAAAATAG
*
94761463 ATAAAACAATTTTAAATAG
1 ATAAAACAATTTAAAATAG
94761482 ATAA
1 ATAA
94761486 TACATGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (19 bp):
ATAAAACAATTTAAAATAG
Found at i:94763243 original size:21 final size:21
Alignment explanation
Indices: 94763199--94763243 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
94763189 TTGATATGGG
* * **
94763199 TTGTAGTTTGGGTTTTAATTT
1 TTGTAATTTGGATTTTAAAAT
94763220 TTGTAATTTGGATTTTAAAAT
1 TTGTAATTTGGATTTTAAAAT
94763241 TTG
1 TTG
94763244 GACATTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.22, C:0.00, G:0.20, T:0.58
Consensus pattern (21 bp):
TTGTAATTTGGATTTTAAAAT
Found at i:94763452 original size:19 final size:19
Alignment explanation
Indices: 94763430--94763476 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
94763420 ATGTTATGTG
*
94763430 ATGAATTATTATTTATTTT
1 ATGAATTATTATTTACTTT
94763449 ATGATATT-TTATTTACTTT
1 ATGA-ATTATTATTTACTTT
*
94763468 ATAAATTAT
1 ATGAATTAT
94763477 AATGTCAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 3 0.12
19 18 0.75
20 3 0.12
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (19 bp):
ATGAATTATTATTTACTTT
Found at i:94767107 original size:14 final size:14
Alignment explanation
Indices: 94767086--94767156 Score: 106
Period size: 14 Copynumber: 5.1 Consensus size: 14
94767076 ATAGAAATAT
94767086 AGATACAAATATAC
1 AGATACAAATATAC
* *
94767100 GGAAACAAATATAC
1 AGATACAAATATAC
*
94767114 AGATACAGATATAC
1 AGATACAAATATAC
94767128 AGATACAAATATAC
1 AGATACAAATATAC
*
94767142 AGATACAAAAATAC
1 AGATACAAATATAC
94767156 A
1 A
94767157 AATATTGATA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 50 1.00
ACGTcount: A:0.58, C:0.14, G:0.10, T:0.18
Consensus pattern (14 bp):
AGATACAAATATAC
Found at i:94767132 original size:42 final size:42
Alignment explanation
Indices: 94767066--94767156 Score: 119
Period size: 42 Copynumber: 2.2 Consensus size: 42
94767056 ATACCACCCC
* * * *
94767066 ATATATAGATATAGAAATATAGATACAAATATACGGAAACAA
1 ATATACAGATACAGAAATACAGATACAAATATACAGAAACAA
* *
94767108 ATATACAGATACAGATATACAGATACAAATATACAGATACAA
1 ATATACAGATACAGAAATACAGATACAAATATACAGAAACAA
*
94767150 AAATACA
1 ATATACA
94767157 AATATTGATA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.57, C:0.11, G:0.10, T:0.22
Consensus pattern (42 bp):
ATATACAGATACAGAAATACAGATACAAATATACAGAAACAA
Found at i:94767155 original size:22 final size:22
Alignment explanation
Indices: 94767116--94767161 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
94767106 AAATATACAG
* * *
94767116 ATACAGATATACAGATACAAAT
1 ATACAGATACAAAAATACAAAT
94767138 ATACAGATACAAAAATACAAAT
1 ATACAGATACAAAAATACAAAT
94767160 AT
1 AT
94767162 TGATACATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.59, C:0.13, G:0.07, T:0.22
Consensus pattern (22 bp):
ATACAGATACAAAAATACAAAT
Found at i:94769551 original size:17 final size:18
Alignment explanation
Indices: 94769529--94769563 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
94769519 ATTTGGGCTA
94769529 TGTGGGC-CACACGGGCG
1 TGTGGGCTCACACGGGCG
*
94769546 TGTGGGCTCACATGGGCG
1 TGTGGGCTCACACGGGCG
94769564 AACATTATGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.11, C:0.26, G:0.46, T:0.17
Consensus pattern (18 bp):
TGTGGGCTCACACGGGCG
Found at i:94778820 original size:25 final size:25
Alignment explanation
Indices: 94778782--94778850 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
94778772 ATGTTCATAC
* *
94778782 GAGCTGTA-AACGGGAAGCTCCTCT
1 GAGCTGAATAACGGGAAGCTCATCT
*
94778806 GAGCTGAATAACGGGAAGCTCATGT
1 GAGCTGAATAACGGGAAGCTCATCT
*
94778831 GAGCTAAATAACGGGAAGCT
1 GAGCTGAATAACGGGAAGCT
94778851 TATGTGCGCT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
24 7 0.17
25 33 0.82
ACGTcount: A:0.32, C:0.19, G:0.30, T:0.19
Consensus pattern (25 bp):
GAGCTGAATAACGGGAAGCTCATCT
Found at i:94778855 original size:25 final size:25
Alignment explanation
Indices: 94778790--94778862 Score: 101
Period size: 25 Copynumber: 2.9 Consensus size: 25
94778780 ACGAGCTGTA
* * *
94778790 AACGGGAAGCTCCTCTGAGCTGAAT
1 AACGGGAAGCTCATGTGAGCTAAAT
94778815 AACGGGAAGCTCATGTGAGCTAAAT
1 AACGGGAAGCTCATGTGAGCTAAAT
* *
94778840 AACGGGAAGCTTATGTGCGCTAA
1 AACGGGAAGCTCATGTGAGCTAA
94778863 GTGTCAGAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.32, C:0.19, G:0.29, T:0.21
Consensus pattern (25 bp):
AACGGGAAGCTCATGTGAGCTAAAT
Found at i:94780406 original size:41 final size:41
Alignment explanation
Indices: 94780361--94780442 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
94780351 AGTATTACCA
94780361 AAATTTAAAATTTTACCCATGATATATATTTGTGTATAATG
1 AAATTTAAAATTTTACCCATGATATATATTTGTGTATAATG
94780402 AAATTTAAAATTTTACCCATGATATATATTTGTGTATAATG
1 AAATTTAAAATTTTACCCATGATATATATTTGTGTATAATG
94780443 GTAGAAAATG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (41 bp):
AAATTTAAAATTTTACCCATGATATATATTTGTGTATAATG
Found at i:94780451 original size:39 final size:40
Alignment explanation
Indices: 94780367--94780451 Score: 127
Period size: 41 Copynumber: 2.1 Consensus size: 40
94780357 ACCAAAATTT
**
94780367 AAAATTTTACCCATGATATATATTTGTGTATAATGAAATTT
1 AAAATTTTACCCATGATATATATTTGTGTATAATG-AATAG
*
94780408 AAAATTTTACCCATGATATATATTTGTGTATAATG-GTAG
1 AAAATTTTACCCATGATATATATTTGTGTATAATGAATAG
94780447 AAAAT
1 AAAAT
94780452 GCATGTTTGG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
39 6 0.15
41 35 0.85
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.41
Consensus pattern (40 bp):
AAAATTTTACCCATGATATATATTTGTGTATAATGAATAG
Found at i:94784111 original size:17 final size:17
Alignment explanation
Indices: 94784091--94784131 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
94784081 TTTTAATAAA
*
94784091 ATTTTTCATAAAATATT
1 ATTTTACATAAAATATT
*
94784108 A-TTTACTTAAAATATT
1 ATTTTACATAAAATATT
94784124 A-TTTACAT
1 ATTTTACAT
94784132 TAAGTATGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
16 20 0.95
17 1 0.05
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTTACATAAAATATT
Found at i:94784120 original size:16 final size:17
Alignment explanation
Indices: 94784099--94784134 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
94784089 AAATTTTTCA
94784099 TAAAATATTATTTAC-T
1 TAAAATATTATTTACAT
94784115 TAAAATATTATTTACAT
1 TAAAATATTATTTACAT
94784132 TAA
1 TAA
94784135 GTATGTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (17 bp):
TAAAATATTATTTACAT
Found at i:94787081 original size:24 final size:24
Alignment explanation
Indices: 94787054--94787105 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
94787044 TTAGTAAGTC
*
94787054 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
94787078 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
94787102 AAAT
1 AAAT
94787106 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:94789050 original size:24 final size:24
Alignment explanation
Indices: 94789023--94789074 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
94789013 TTAGTAAGTC
*
94789023 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
94789047 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
94789071 AAAT
1 AAAT
94789075 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:94789575 original size:27 final size:28
Alignment explanation
Indices: 94789532--94789591 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 28
94789522 TAGTTTCCCC
* * *
94789532 TTATTTTAAATATTTTAATAATTAAATT
1 TTATTTAAAATATTTTAAAAACTAAATT
94789560 TTATTTAAAATA-TTTAAAAACTAAATT
1 TTATTTAAAATATTTTAAAAACTAAATT
94789587 TTATT
1 TTATT
94789592 AATTAATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 18 0.62
28 11 0.38
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (28 bp):
TTATTTAAAATATTTTAAAAACTAAATT
Found at i:94793157 original size:11 final size:11
Alignment explanation
Indices: 94793141--94793165 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
94793131 TTACTCCAAT
94793141 GGGTTTCTTAG
1 GGGTTTCTTAG
94793152 GGGTTTCTTAG
1 GGGTTTCTTAG
94793163 GGG
1 GGG
94793166 CCAATGGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.08, G:0.44, T:0.40
Consensus pattern (11 bp):
GGGTTTCTTAG
Found at i:94795540 original size:12 final size:12
Alignment explanation
Indices: 94795525--94795589 Score: 67
Period size: 12 Copynumber: 5.4 Consensus size: 12
94795515 AATTGGAGGT
94795525 GGTGGTGGAATA
1 GGTGGTGGAATA
* * *
94795537 GGTGGAGGTATT
1 GGTGGTGGAATA
94795549 GGTGGTGGAATA
1 GGTGGTGGAATA
* *
94795561 GGTGGAGGTATA
1 GGTGGTGGAATA
* *
94795573 GGAGGTGGAATT
1 GGTGGTGGAATA
94795585 GGTGG
1 GGTGG
94795590 AGGCATAGGA
Statistics
Matches: 40, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
12 40 1.00
ACGTcount: A:0.22, C:0.00, G:0.52, T:0.26
Consensus pattern (12 bp):
GGTGGTGGAATA
Found at i:94795565 original size:36 final size:36
Alignment explanation
Indices: 94795525--94795598 Score: 85
Period size: 36 Copynumber: 2.1 Consensus size: 36
94795515 AATTGGAGGT
* * * *
94795525 GGTGGTGGAATAGGTGGAGGTATTGGTGGTGGAATA
1 GGTGGAGGAATAGGAGGAGGAATTGGTGGAGGAATA
* * *
94795561 GGTGGAGGTATAGGAGGTGGAATTGGTGGAGGCATA
1 GGTGGAGGAATAGGAGGAGGAATTGGTGGAGGAATA
94795597 GG
1 GG
94795599 AGTTGGAGGT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.23, C:0.01, G:0.51, T:0.24
Consensus pattern (36 bp):
GGTGGAGGAATAGGAGGAGGAATTGGTGGAGGAATA
Found at i:94795597 original size:24 final size:24
Alignment explanation
Indices: 94795528--94795605 Score: 111
Period size: 24 Copynumber: 3.2 Consensus size: 24
94795518 TGGAGGTGGT
* *
94795528 GGTGGAATAGGTGGAGGTATTGGT
1 GGTGGAATAGGTGGAGGTATAGGA
94795552 GGTGGAATAGGTGGAGGTATAGGA
1 GGTGGAATAGGTGGAGGTATAGGA
* *
94795576 GGTGGAATTGGTGGAGGCATAGGA
1 GGTGGAATAGGTGGAGGTATAGGA
*
94795600 GTTGGA
1 GGTGGA
94795606 GGTGGAGCTG
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.24, C:0.01, G:0.50, T:0.24
Consensus pattern (24 bp):
GGTGGAATAGGTGGAGGTATAGGA
Found at i:94798378 original size:19 final size:18
Alignment explanation
Indices: 94798354--94798389 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
94798344 TCTCAAGTGA
94798354 TATCCAAATTATACTTAAT
1 TATCCAAATTAT-CTTAAT
94798373 TATCCAAATTATCTTAA
1 TATCCAAATTATCTTAA
94798390 CCATTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.42
Consensus pattern (18 bp):
TATCCAAATTATCTTAAT
Found at i:94802409 original size:45 final size:45
Alignment explanation
Indices: 94802360--94802449 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
94802350 AAAAACTTCC
*
94802360 AATAAATCACAACCATTGAACATATGGAATTGATTAAAGGATAGT
1 AATAAATCACAACCATTGAACATATGAAATTGATTAAAGGATAGT
94802405 AATAAATCACAACCATTGAACATATGAAATTGATTAAAGGATAGT
1 AATAAATCACAACCATTGAACATATGAAATTGATTAAAGGATAGT
94802450 GTTTATTAGG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.48, C:0.11, G:0.14, T:0.27
Consensus pattern (45 bp):
AATAAATCACAACCATTGAACATATGAAATTGATTAAAGGATAGT
Found at i:94802730 original size:96 final size:96
Alignment explanation
Indices: 94802566--94802756 Score: 301
Period size: 96 Copynumber: 2.0 Consensus size: 96
94802556 TTATGTTGGG
* * *
94802566 AACAACTTTGGAAAGATGGCAGGATTCCTAGGCTGTTCCACTTTTGGGATATGTTATAGAGCATG
1 AACAACGTTGGAAAGATGGCAAGATTCCTAGGCTGTTCCACTTTTGGGATATCTTATAGAGCATG
*
94802631 GCTTGGAAGTTCAGATACGAATATTATTGAA
66 GCTTGGAAGTTCAGATACAAATATTATTGAA
* * *
94802662 AACAACGTTGGAAAGATGGTAAGATTCCTAGGTTGTTCCACTTTTGGGATGTCTTATAGAGCATG
1 AACAACGTTGGAAAGATGGCAAGATTCCTAGGCTGTTCCACTTTTGGGATATCTTATAGAGCATG
* *
94802727 GCTTGGAAGTTCATATACAAATATTTTTGA
66 GCTTGGAAGTTCAGATACAAATATTATTGA
94802757 GAAGTTTACT
Statistics
Matches: 86, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 86 1.00
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.33
Consensus pattern (96 bp):
AACAACGTTGGAAAGATGGCAAGATTCCTAGGCTGTTCCACTTTTGGGATATCTTATAGAGCATG
GCTTGGAAGTTCAGATACAAATATTATTGAA
Found at i:94806380 original size:31 final size:34
Alignment explanation
Indices: 94806317--94806381 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 34
94806307 ATTTATAAAA
*
94806317 TTTTAAATTAATAATAGTAAAATTATACTTTAATCC
1 TTTTAAA-TAATAATAG-AAAATTATAATTTAATCC
94806353 TTTTAAA-AATAATA-AAAATT-TAATTTAAT
1 TTTTAAATAATAATAGAAAATTATAATTTAAT
94806382 AGTTTAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
31 8 0.29
32 6 0.21
34 7 0.25
36 7 0.25
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.45
Consensus pattern (34 bp):
TTTTAAATAATAATAGAAAATTATAATTTAATCC
Found at i:94808730 original size:3 final size:3
Alignment explanation
Indices: 94808724--94808761 Score: 67
Period size: 3 Copynumber: 12.3 Consensus size: 3
94808714 AAAAAAAAAG
94808724 AGA AGA AGA AGA AGAA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AG-A AGA AGA AGA AGA AGA AGA AGA A
94808762 AGTTAGTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:94808746 original size:19 final size:18
Alignment explanation
Indices: 94808720--94808758 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 18
94808710 GAGAAAAAAA
94808720 AAAGAGAAGAAGAAGAAG
1 AAAGAGAAGAAGAAGAAG
94808738 AAAGAAGAAGAAGAAGAAG
1 AAAG-AGAAGAAGAAGAAG
94808757 AA
1 AA
94808759 GAAAGTTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (18 bp):
AAAGAGAAGAAGAAGAAG
Found at i:94808817 original size:17 final size:17
Alignment explanation
Indices: 94808774--94808828 Score: 60
Period size: 16 Copynumber: 3.2 Consensus size: 17
94808764 TTAGTAAATT
94808774 TTTATAATTATTT-TAAA
1 TTTA-AATTATTTGTAAA
*
94808791 ATTAAATTATTTGT-AA
1 TTTAAATTATTTGTAAA
94808807 TTTAGAATTATTTGATAAA
1 TTTA-AATTATTTG-TAAA
94808826 TTT
1 TTT
94808829 TTGTGTTAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
16 13 0.41
17 13 0.41
18 1 0.03
19 5 0.16
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (17 bp):
TTTAAATTATTTGTAAA
Found at i:94811157 original size:22 final size:21
Alignment explanation
Indices: 94811132--94811197 Score: 84
Period size: 22 Copynumber: 3.2 Consensus size: 21
94811122 TTTTAAAGGG
94811132 TTTTGTATTGTAAATTACTTTA
1 TTTT-TATTGTAAATTACTTTA
*
94811154 TTTTTTTATGTAAATTACTTTA
1 TTTTTAT-TGTAAATTACTTTA
94811176 TTTTTA-TGTAAATTA-TTT-
1 TTTTTATTGTAAATTACTTTA
94811194 TTTT
1 TTTT
94811198 GCATTATATT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
18 4 0.10
19 3 0.07
20 9 0.22
21 2 0.05
22 23 0.56
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (21 bp):
TTTTTATTGTAAATTACTTTA
Found at i:94811181 original size:20 final size:21
Alignment explanation
Indices: 94811140--94811197 Score: 86
Period size: 20 Copynumber: 2.9 Consensus size: 21
94811130 GGTTTTGTAT
94811140 TGTAAATTACTTTATTTTTTTA
1 TGTAAATTACTTTA-TTTTTTA
94811162 TGTAAATTACTTTA-TTTTTA
1 TGTAAATTACTTTATTTTTTA
94811182 TGTAAATTA-TTT-TTTT
1 TGTAAATTACTTTATTTT
94811198 GCATTATATT
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.17
20 15 0.43
22 14 0.40
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.64
Consensus pattern (21 bp):
TGTAAATTACTTTATTTTTTA
Found at i:94818185 original size:39 final size:38
Alignment explanation
Indices: 94818139--94818253 Score: 106
Period size: 39 Copynumber: 2.9 Consensus size: 38
94818129 CCGATTTTCT
* * *
94818139 CCCTCTCCTCCATCGTCTTTCCCCCTACTTTGATCCTCT
1 CCCTCTCC-CCATCGTCTTTCCCCCTACTTCGACCCTCA
** * *
94818178 CTGTCTCCCTCATCATCCTTCCCCCTACTTCGACCCTCA
1 CCCTCTCCC-CATCGTCTTTCCCCCTACTTCGACCCTCA
* *
94818217 CCCTCTCCCCCATCGTCCTTT-CCTCTACTTCAACCCT
1 CCCTCT-CCCCATCGT-CTTTCCCCCTACTTCGACCCT
94818254 GTCCTTCTCT
Statistics
Matches: 60, Mismatches: 13, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
38 1 0.02
39 53 0.88
40 6 0.10
ACGTcount: A:0.10, C:0.51, G:0.04, T:0.34
Consensus pattern (38 bp):
CCCTCTCCCCATCGTCTTTCCCCCTACTTCGACCCTCA
Found at i:94826488 original size:14 final size:14
Alignment explanation
Indices: 94826469--94826497 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
94826459 AGATCAAGGA
94826469 AAGGAAAAAGTTCG
1 AAGGAAAAAGTTCG
94826483 AAGGAAAAAGTTCG
1 AAGGAAAAAGTTCG
94826497 A
1 A
94826498 GATTAGTAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.28, T:0.14
Consensus pattern (14 bp):
AAGGAAAAAGTTCG
Found at i:94838523 original size:14 final size:14
Alignment explanation
Indices: 94838506--94838535 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
94838496 GCCTCATACA
*
94838506 AACAGTTCGCATAT
1 AACAATTCGCATAT
94838520 AACAATTCGCATAT
1 AACAATTCGCATAT
94838534 AA
1 AA
94838536 ATGGGTTTGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (14 bp):
AACAATTCGCATAT
Found at i:94839081 original size:54 final size:54
Alignment explanation
Indices: 94839017--94839138 Score: 210
Period size: 54 Copynumber: 2.3 Consensus size: 54
94839007 AAAACATCAA
*
94839017 GCATAAAATAATAGGGTTCGTATATGACACATGTTTGCATGCAATATGGGTTTT
1 GCATAAAATAATAGGGTTCGTATATGACACATGTCTGCATGCAATATGGGTTTT
94839071 GCATAAAATAATAGGGTTCGTATATGACACATGTCTGCATGCAATATGGGTTTT
1 GCATAAAATAATAGGGTTCGTATATGACACATGTCTGCATGCAATATGGGTTTT
* *
94839125 -CATAATATTATAGG
1 GCATAAAATAATAGG
94839139 TTCACAAACG
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
53 12 0.18
54 53 0.82
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.34
Consensus pattern (54 bp):
GCATAAAATAATAGGGTTCGTATATGACACATGTCTGCATGCAATATGGGTTTT
Found at i:94841301 original size:41 final size:41
Alignment explanation
Indices: 94841161--94841307 Score: 140
Period size: 41 Copynumber: 3.6 Consensus size: 41
94841151 TTCTCCATAC
*
94841161 GGCACAAAGCCTGCTAGGCTCAAGGT-CT-AATTTCA-TACA-T
1 GGCACAAAGCCTGCTAGGCTCAA-ATCCTGAA--TCATTACACT
* * *
94841201 CGGCACGAAGCCTGCTAGGCTCAAAGCCTGAATCATTACACC
1 -GGCACAAAGCCTGCTAGGCTCAAATCCTGAATCATTACACT
** * * *
94841243 AACACAAAACCTACTAGGCTTAAATCCTGAATCATTACACT
1 GGCACAAAGCCTGCTAGGCTCAAATCCTGAATCATTACACT
*
94841284 GGCACAAAGCCTGCTAGGTTCAAA
1 GGCACAAAGCCTGCTAGGCTCAAA
94841308 ACCCGATACA
Statistics
Matches: 84, Mismatches: 18, Indels: 8
0.76 0.16 0.07
Matches are distributed among these distances:
40 3 0.04
41 79 0.94
42 2 0.02
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (41 bp):
GGCACAAAGCCTGCTAGGCTCAAATCCTGAATCATTACACT
Found at i:94844067 original size:21 final size:21
Alignment explanation
Indices: 94844043--94844089 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
94844033 TTAAAAAAAT
94844043 TCTAAAAATAAATACTTTTTG
1 TCTAAAAATAAATACTTTTTG
** **
94844064 TCTAAGTATCGATACTTTTTG
1 TCTAAAAATAAATACTTTTTG
94844085 TCTAA
1 TCTAA
94844090 GTATCGATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.45
Consensus pattern (21 bp):
TCTAAAAATAAATACTTTTTG
Found at i:94844090 original size:21 final size:21
Alignment explanation
Indices: 94844054--94844102 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
94844044 CTAAAAATAA
94844054 ATACTTTTTGTCTAAGTATCG
1 ATACTTTTTGTCTAAGTATCG
94844075 ATACTTTTTGTCTAAGTATCG
1 ATACTTTTTGTCTAAGTATCG
94844096 ATA-TTTT
1 ATACTTTT
94844103 ACAATATATC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 4 0.14
21 24 0.86
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.51
Consensus pattern (21 bp):
ATACTTTTTGTCTAAGTATCG
Found at i:94844181 original size:20 final size:20
Alignment explanation
Indices: 94844153--94844202 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
94844143 TATCGATCCA
*
94844153 GTATCGATACT-TTTCTTAAG
1 GTATCGATA-TATTTCCTAAG
*
94844173 GTATTGATATATTTCCTAAG
1 GTATCGATATATTTCCTAAG
94844193 GTATCGATAT
1 GTATCGATAT
94844203 TCCTACTCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 1 0.04
20 25 0.96
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (20 bp):
GTATCGATATATTTCCTAAG
Found at i:94846668 original size:26 final size:26
Alignment explanation
Indices: 94846632--94846741 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
94846622 TGATACAAAT
94846632 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
94846658 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
94846684 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
94846710 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
94846736 TGATAA
1 TGATAA
94846742 GAATTTCATG
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:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:94848690 original size:15 final size:15
Alignment explanation
Indices: 94848667--94848705 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
94848657 ATGTTACCTG
94848667 AATAGGCTTAGGCCC
1 AATAGGCTTAGGCCC
*
94848682 AATAAGCTTAGGCCC
1 AATAGGCTTAGGCCC
94848697 AATAGGCTT
1 AATAGGCTT
94848706 GAGCTGACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (15 bp):
AATAGGCTTAGGCCC
Found at i:94850946 original size:17 final size:17
Alignment explanation
Indices: 94850921--94850955 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
94850911 TCAAATTTAC
94850921 AACTAAACTAATAGAAT
1 AACTAAACTAATAGAAT
* *
94850938 AACTTAACTAATATAAT
1 AACTAAACTAATAGAAT
94850955 A
1 A
94850956 GTAATATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.57, C:0.11, G:0.03, T:0.29
Consensus pattern (17 bp):
AACTAAACTAATAGAAT
Found at i:94854951 original size:19 final size:20
Alignment explanation
Indices: 94854927--94854965 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
94854917 GGGTTAGTAA
*
94854927 TGGTATCGGTACCTA-ACCT
1 TGGTATCGATACCTATACCT
94854946 TGGTATCGATACCTATACCT
1 TGGTATCGATACCTATACCT
94854966 AGATTTTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (20 bp):
TGGTATCGATACCTATACCT
Found at i:94856680 original size:40 final size:40
Alignment explanation
Indices: 94856636--94856715 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
94856626 TGAATTTTTT
94856636 TTAATTTAAAAAGTAGAGCAACTAAATCCCTATAAATAAA
1 TTAATTTAAAAAGTAGAGCAACTAAATCCCTATAAATAAA
* *
94856676 TTAATTTAAAAAGTAGAGCGACTAAATTCCTATAAATAAA
1 TTAATTTAAAAAGTAGAGCAACTAAATCCCTATAAATAAA
94856716 AGTAGTGAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.51, C:0.11, G:0.09, T:0.29
Consensus pattern (40 bp):
TTAATTTAAAAAGTAGAGCAACTAAATCCCTATAAATAAA
Found at i:94858155 original size:33 final size:35
Alignment explanation
Indices: 94858091--94858155 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 35
94858081 CAGGTTAATT
* *
94858091 ATAATATTTTTTTCAATTACATAATTATCAAGTGA
1 ATAATATTTTTTTAAATTACATAAATATCAAGTGA
* *
94858126 ATAA-ATTTTTTTAAATTTCA-AAATGTCAAG
1 ATAATATTTTTTTAAATTACATAAATATCAAG
94858156 ACAATTTGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
33 8 0.31
34 14 0.54
35 4 0.15
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.45
Consensus pattern (35 bp):
ATAATATTTTTTTAAATTACATAAATATCAAGTGA
Found at i:94863401 original size:38 final size:38
Alignment explanation
Indices: 94863343--94863420 Score: 102
Period size: 38 Copynumber: 2.1 Consensus size: 38
94863333 AATTGTAGTA
* *
94863343 TATATATTGGATAAACTATCAAAGTAGTTACTTTTGTT
1 TATATATTGGATAAACTATCAAAATAGTCACTTTTGTT
* * * *
94863381 TATATCTTGGGTAAATTATCAAAATTGTCACTTTTGTT
1 TATATATTGGATAAACTATCAAAATAGTCACTTTTGTT
94863419 TA
1 TA
94863421 CCTCAGATTA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.32, C:0.09, G:0.13, T:0.46
Consensus pattern (38 bp):
TATATATTGGATAAACTATCAAAATAGTCACTTTTGTT
Found at i:94863669 original size:9 final size:9
Alignment explanation
Indices: 94863631--94863675 Score: 54
Period size: 10 Copynumber: 4.8 Consensus size: 9
94863621 AGCAATTTAA
94863631 TTTTTTTCT
1 TTTTTTTCT
*
94863640 TTTATGTTCT
1 TTT-TTTTCT
*
94863650 TTTAATTTCT
1 TTT-TTTTCT
94863660 TTTTTTTCT
1 TTTTTTTCT
94863669 TTTTTTT
1 TTTTTTT
94863676 TCATTCTCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
9 15 0.48
10 16 0.52
ACGTcount: A:0.07, C:0.09, G:0.02, T:0.82
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:94863672 original size:20 final size:20
Alignment explanation
Indices: 94863635--94863671 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
94863625 ATTTAATTTT
94863635 TTTCTTTTATGTTCTTTTAA
1 TTTCTTTTATGTTCTTTTAA
*
94863655 TTTCTTTT-TTTTCTTTT
1 TTTCTTTTATGTTCTTTT
94863672 TTTTTCATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.08, C:0.11, G:0.03, T:0.78
Consensus pattern (20 bp):
TTTCTTTTATGTTCTTTTAA
Found at i:94867869 original size:26 final size:23
Alignment explanation
Indices: 94867820--94867870 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
94867810 ATTTTAAAAT
**
94867820 AAATAATAAATAAGTCAATTTAA
1 AAATAATAAATAAGTCAAAGTAA
94867843 AAATAATAAATAAGAATCTAAAGTAA
1 AAATAATAAATAAG--TC-AAAGTAA
94867869 AA
1 AA
94867871 GAGAGATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 14 0.61
25 2 0.09
26 7 0.30
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.25
Consensus pattern (23 bp):
AAATAATAAATAAGTCAAAGTAA
Found at i:94868122 original size:2 final size:2
Alignment explanation
Indices: 94868115--94868140 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
94868105 TATGTGGATT
94868115 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
94868141 AAAGGTGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:94868195 original size:26 final size:25
Alignment explanation
Indices: 94868159--94868216 Score: 89
Period size: 26 Copynumber: 2.3 Consensus size: 25
94868149 TTTAAGATAC
* *
94868159 ATAATAAAACAATTTTGAATAAATA
1 ATAATAAAACAAGTTAGAATAAATA
94868184 ATACATAAAACAAGTTAGAATAAATA
1 ATA-ATAAAACAAGTTAGAATAAATA
94868210 ATAATAA
1 ATAATAA
94868217 TTTGAATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 7 0.23
26 23 0.77
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (25 bp):
ATAATAAAACAAGTTAGAATAAATA
Found at i:94868887 original size:11 final size:10
Alignment explanation
Indices: 94868863--94868896 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
94868853 ATTTAAAAAT
*
94868863 AAAAGATAAA
1 AAAATATAAA
94868873 AAAATATATAA
1 AAAATATA-AA
94868884 AAAATATAAA
1 AAAATATAAA
94868894 AAA
1 AAA
94868897 GAAAAGAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (10 bp):
AAAATATAAA
Found at i:94878390 original size:33 final size:36
Alignment explanation
Indices: 94878313--94878388 Score: 125
Period size: 36 Copynumber: 2.1 Consensus size: 36
94878303 CCTGTAAGAA
* *
94878313 ATTATTAATAATATTTTTAAATTATAATATATTAAT
1 ATTATTAATAATAGTTTTAAACTATAATATATTAAT
*
94878349 ATTATTAATAATAGTTTTAAACTATAATGTATTAAT
1 ATTATTAATAATAGTTTTAAACTATAATATATTAAT
94878385 ATTA
1 ATTA
94878389 ATATTTATAC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (36 bp):
ATTATTAATAATAGTTTTAAACTATAATATATTAAT
Found at i:94878521 original size:17 final size:18
Alignment explanation
Indices: 94878480--94878522 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
94878470 AAATTAGTTA
94878480 AATATTTTTATTTACATT
1 AATATTTTTATTTACATT
94878498 AAT-TTTTTAATTTA-A-T
1 AATATTTTT-ATTTACATT
94878514 AATATTTTT
1 AATATTTTT
94878523 TGAAGAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 4 0.17
17 11 0.48
18 8 0.35
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (18 bp):
AATATTTTTATTTACATT
Found at i:94881321 original size:100 final size:100
Alignment explanation
Indices: 94881148--94881347 Score: 382
Period size: 100 Copynumber: 2.0 Consensus size: 100
94881138 CTGCTGGTTC
*
94881148 CGCAAGAGAGGTCTACTATATTGCTTCATATTTACTATTACTCTTGATAGTGGCAAGAATATTAA
1 CGCAAGAGAGGTCTACTATATTGCTTCATATTTACTATTACTCTTGATAGTGGAAAGAATATTAA
*
94881213 CCATATGAATTCTTTTGTATATCAATTTCTTTTTT
66 CCATATGAATTCTTTTATATATCAATTTCTTTTTT
94881248 CGCAAGAGAGGTCTACTATATTGCTTCATATTTACTATTACTCTTGATAGTGGAAAGAATATTAA
1 CGCAAGAGAGGTCTACTATATTGCTTCATATTTACTATTACTCTTGATAGTGGAAAGAATATTAA
94881313 CCATATGAATTCTTTTATATATCAATTTCTTTTTT
66 CCATATGAATTCTTTTATATATCAATTTCTTTTTT
94881348 TCTTTTTTTT
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 98 1.00
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.43
Consensus pattern (100 bp):
CGCAAGAGAGGTCTACTATATTGCTTCATATTTACTATTACTCTTGATAGTGGAAAGAATATTAA
CCATATGAATTCTTTTATATATCAATTTCTTTTTT
Found at i:94881596 original size:35 final size:35
Alignment explanation
Indices: 94881550--94881619 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
94881540 AGGTATAAGC
94881550 TAAGTATAATTTCAAACATTAGTTCTGTGTTTTGT
1 TAAGTATAATTTCAAACATTAGTTCTGTGTTTTGT
94881585 TAAGTATAATTTCAAACATTAGTTCTGTGTTTTGT
1 TAAGTATAATTTCAAACATTAGTTCTGTGTTTTGT
94881620 CTGTATGAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.49
Consensus pattern (35 bp):
TAAGTATAATTTCAAACATTAGTTCTGTGTTTTGT
Found at i:94887361 original size:15 final size:14
Alignment explanation
Indices: 94887339--94887377 Score: 60
Period size: 15 Copynumber: 2.7 Consensus size: 14
94887329 TTTTATTTGA
94887339 TTTTTATATAATTT
1 TTTTTATATAATTT
*
94887353 TTATTTATATAGTTT
1 TT-TTTATATAATTT
94887368 TTTTTATATA
1 TTTTTATATA
94887378 TAATCGTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (14 bp):
TTTTTATATAATTT
Found at i:94891917 original size:104 final size:105
Alignment explanation
Indices: 94891667--94892217 Score: 549
Period size: 105 Copynumber: 5.3 Consensus size: 105
94891657 ATTCTTTATC
* * * **
94891667 TTAAATCAGCTAACTTAAAGAAATTTAGGTTGTGATATTAAATCAGTTAACCTTTATAATTCCAG
1 TTAAATCAGCTAACTCAAAGAAATTTAGGTTGCGATCTTAAATCAACTAACCTTTATAATTCCAG
* * * * *
94891732 GTGTGAACGTAGGTTAGCA-AACTGTTTAGGAGTTGTGATC
66 CTGTGAATGTAGGTCAG-AGAGCTGTTTAGGAGTTGTGATA
* * ** * * *
94891772 TTGAATTAATTAACTCAAAGAAATTTATGTTGCGATCTTAAATCAACTAACCTTTATAATTCTAA
1 TTAAATCAGCTAACTCAAAGAAATTTAGGTTGCGATCTTAAATCAACTAACCTTTATAATTCCAG
* ** *
94891837 CTGTGAACGTAGGTCAGAGAGCT-TTTAGGAGTTGCAATG
66 CTGTGAATGTAGGTCAGAGAGCTGTTTAGGAGTTGTGATA
* * * *
94891876 TTAAATCATCTAACTCAAAGAAGTTTAGGTTGCAATCTTAAATCAACTAACCTTTATAATTCTAG
1 TTAAATCAGCTAACTCAAAGAAATTTAGGTTGCGATCTTAAATCAACTAACCTTTATAATTCCAG
* *
94891941 CCGTGAATGTAGGTCA-ACAAGCTGTTTAGGAGTTGTGATA
66 CTGTGAATGTAGGTCAGA-GAGCTGTTTAGGAGTTGTGATA
* * *
94891981 TTAAATCGGCTAACTCAACA-AAATTTAGGCTGCAATCTTAAATCAGA-TAACCTTTATAATTCC
1 TTAAATCAGCTAACTCAA-AGAAATTTAGGTTGCGATCTTAAATCA-ACTAACCTTTATAATTCC
** * ** * *
94892044 ATTTGTGAATGTAAGTTTGCGAGTTGTTTAGGAGTTGTGATA
64 AGCTGTGAATGTAGGTCAGAGAGCTGTTTAGGAGTTGTGATA
** * ** * *
94892086 TTAAATCAATTAACTCAAAGAAAATTA-GTTGCGATCTTAAATCAGTTAACTTTTATAGTTCCAG
1 TTAAATCAGCTAACTCAAAGAAATTTAGGTTGCGATCTTAAATCAACTAACCTTTATAATTCCAG
* * * * *
94892150 TTGTGAATGTAGG-CTTGCGAGCTATTTAGGAGTTGCGATA
66 CTGTGAATGTAGGTC-AGAGAGCTGTTTAGGAGTTGTGATA
* *
94892190 TTAAGTTAGCTAACTCAAAGAAATTTAG
1 TTAAATCAGCTAACTCAAAGAAATTTAG
94892218 ACATGAACAT
Statistics
Matches: 370, Mismatches: 66, Indels: 20
0.81 0.14 0.04
Matches are distributed among these distances:
103 1 0.00
104 176 0.48
105 191 0.52
106 2 0.01
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (105 bp):
TTAAATCAGCTAACTCAAAGAAATTTAGGTTGCGATCTTAAATCAACTAACCTTTATAATTCCAG
CTGTGAATGTAGGTCAGAGAGCTGTTTAGGAGTTGTGATA
Found at i:94892034 original size:209 final size:210
Alignment explanation
Indices: 94891667--94892217 Score: 619
Period size: 209 Copynumber: 2.6 Consensus size: 210
94891657 ATTCTTTATC
* * * *
94891667 TTAAATCAGCTAACTTAAAGAAATTTAGGTTGTGATATTAAATCAGTTAACCTTTATAATTCCAG
1 TTAAATCATCTAACTCAAAGAAATTTAGGTTGCGATCTTAAATCAGTTAACCTTTATAATTCCAG
* * * * * * **
94891732 GTGTGAACGTAGGTTAGCAAACTGTTTAGGAGTTGTGATCTTGAATTAATTAACTCAAAGAAATT
66 CTGTGAATGTAGGTCAGCAAGCTGTTTAGGAGTTGTGATATTAAATTAGCTAACTCAAAGAAATT
* * * * *
94891797 TATGTTGCGATCTTAAATCAACTAACCTTTATAATTCTAACTGTGAACGTAGGTCAGAGAGCT-T
131 TAGGCTGCAATCTTAAATCAACTAACCTTTATAATTCCAACTGTGAACGTAAGTCAGAGAGCTGT
*
94891861 TTAGGAGTTGCAATG
196 TTAGGAGTTGCAATA
* * ** *
94891876 TTAAATCATCTAACTCAAAGAAGTTTAGGTTGCAATCTTAAATCAACTAACCTTTATAATTCTAG
1 TTAAATCATCTAACTCAAAGAAATTTAGGTTGCGATCTTAAATCAGTTAACCTTTATAATTCCAG
* * **
94891941 CCGTGAATGTAGGTCAACAAGCTGTTTAGGAGTTGTGATATTAAATCGGCTAACTCAACA-AAAT
66 CTGTGAATGTAGGTCAGCAAGCTGTTTAGGAGTTGTGATATTAAATTAGCTAACTCAA-AGAAAT
** * ** * *
94892005 TTAGGCTGCAATCTTAAATCAGA-TAACCTTTATAATTCCATTTGTGAATGTAAGTTTGCGAGTT
130 TTAGGCTGCAATCTTAAATCA-ACTAACCTTTATAATTCCAACTGTGAACGTAAGTCAGAGAGCT
**
94892069 GTTTAGGAGTTGTGATA
194 GTTTAGGAGTTGCAATA
* * *
94892086 TTAAATCAAT-TAACTCAAAGAAAATTA-GTTGCGATCTTAAATCAGTTAACTTTTATAGTTCCA
1 TTAAATC-ATCTAACTCAAAGAAATTTAGGTTGCGATCTTAAATCAGTTAACCTTTATAATTCCA
* * * * * *
94892149 GTTGTGAATGTAGG-CTTGCGAGCTATTTAGGAGTTGCGATATTAAGTTAGCTAACTCAAAGAAA
65 GCTGTGAATGTAGGTC-AGCAAGCTGTTTAGGAGTTGTGATATTAAATTAGCTAACTCAAAGAAA
94892213 TTTAG
129 TTTAG
94892218 ACATGAACAT
Statistics
Matches: 282, Mismatches: 54, Indels: 12
0.81 0.16 0.03
Matches are distributed among these distances:
208 2 0.01
209 241 0.85
210 37 0.13
211 2 0.01
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (210 bp):
TTAAATCATCTAACTCAAAGAAATTTAGGTTGCGATCTTAAATCAGTTAACCTTTATAATTCCAG
CTGTGAATGTAGGTCAGCAAGCTGTTTAGGAGTTGTGATATTAAATTAGCTAACTCAAAGAAATT
TAGGCTGCAATCTTAAATCAACTAACCTTTATAATTCCAACTGTGAACGTAAGTCAGAGAGCTGT
TTAGGAGTTGCAATA
Found at i:94899640 original size:32 final size:32
Alignment explanation
Indices: 94899599--94899666 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
94899589 CCCCTTAACC
*
94899599 CCGCACCACCCTCTCAGCCCGACCAGCCACCA
1 CCGCACCACCCTCTCAACCCGACCAGCCACCA
*
94899631 CCGCACCACCCTCTCAACCCGACTAGCCACCA
1 CCGCACCACCCTCTCAACCCGACCAGCCACCA
94899663 CCGC
1 CCGC
94899667 TCGCTCCAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.22, C:0.59, G:0.12, T:0.07
Consensus pattern (32 bp):
CCGCACCACCCTCTCAACCCGACCAGCCACCA
Found at i:94901175 original size:12 final size:12
Alignment explanation
Indices: 94901160--94901199 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
94901150 TGTCTTTAGA
*
94901160 TTTATTTTTCTT
1 TTTATTTTTCAT
94901172 TTTATTTTTCAT
1 TTTATTTTTCAT
*
94901184 TTTATGTTT-AT
1 TTTATTTTTCAT
94901195 TTTAT
1 TTTAT
94901200 CCTTAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
11 7 0.27
12 19 0.73
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.78
Consensus pattern (12 bp):
TTTATTTTTCAT
Found at i:94911912 original size:25 final size:26
Alignment explanation
Indices: 94911884--94911952 Score: 83
Period size: 25 Copynumber: 2.7 Consensus size: 26
94911874 GTCCCGACCC
94911884 ATAGCTCGTATGAGCATACCGAT-TT
1 ATAGCTCGTATGAGCATACCGATCTT
94911909 ATAGCTCGTGA-GAGCATACCGATCTT
1 ATAGCTCGT-ATGAGCATACCGATCTT
*
94911935 -TAGCTTG-AGTGAGCATAC
1 ATAGCTCGTA-TGAGCATAC
94911953 TGGTTCACAG
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
23 1 0.03
25 35 0.90
26 3 0.08
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (26 bp):
ATAGCTCGTATGAGCATACCGATCTT
Found at i:94916315 original size:43 final size:43
Alignment explanation
Indices: 94916249--94916415 Score: 160
Period size: 43 Copynumber: 3.9 Consensus size: 43
94916239 AGCTCATACA
* * *
94916249 ATGCC-ATGTCCCAGATATAGTCTTACATGTTATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
* * * * *
94916291 ATGCCACTGTCCTAGACATGGTCTTACATGAAATCGA-TTAACG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATC-ACATATCG
* * * * *
94916334 ATGCCAATGTCCCAGATATGGTTTTACACGTAATCTCA-ATACA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATAT-CG
* *
94916377 ATTCCAATGTCCTAGACATGGTCTTACATGTAATCACAT
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAT
94916416 CTTGATAACT
Statistics
Matches: 96, Mismatches: 24, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
42 6 0.06
43 89 0.93
44 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
Found at i:94916399 original size:86 final size:85
Alignment explanation
Indices: 94916249--94916411 Score: 220
Period size: 86 Copynumber: 1.9 Consensus size: 85
94916239 AGCTCATACA
* * * *
94916249 ATGCCATGTCCCAGATATAGTCTTACATGTTATCACATATCGATGCCACTGTCCTAGACATGGTC
1 ATGCCATGTCCCAGATATAGTCTTACACGTAATCACATATCAATGCCAATGTCCTAGACATGGTC
94916314 TTACATGAAATCGATTAACG
66 TTACATGAAATCGATTAACG
* * * *
94916334 ATGCCAATGTCCCAGATATGGTTTTACACGTAATCTCA-ATACAATTCCAATGTCCTAGACATGG
1 ATGCC-ATGTCCCAGATATAGTCTTACACGTAATCACATAT-CAATGCCAATGTCCTAGACATGG
*
94916398 TCTTACATGTAATC
64 TCTTACATGAAATC
94916412 ACATCTTGAT
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
85 7 0.10
86 60 0.90
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.31
Consensus pattern (85 bp):
ATGCCATGTCCCAGATATAGTCTTACACGTAATCACATATCAATGCCAATGTCCTAGACATGGTC
TTACATGAAATCGATTAACG
Found at i:94921669 original size:61 final size:61
Alignment explanation
Indices: 94921599--94921722 Score: 239
Period size: 61 Copynumber: 2.0 Consensus size: 61
94921589 AAGTGAAGTC
*
94921599 TAGGTGGATTCTTTCTTGGGTATTATCTCTCTCATTGGTTTATTAGATTATTTTCTTACTT
1 TAGGTGGATTCTTTCTTAGGTATTATCTCTCTCATTGGTTTATTAGATTATTTTCTTACTT
94921660 TAGGTGGATTCTTTCTTAGGTATTATCTCTCTCATTGGTTTATTAGATTATTTTCTTACTT
1 TAGGTGGATTCTTTCTTAGGTATTATCTCTCTCATTGGTTTATTAGATTATTTTCTTACTT
94921721 TA
1 TA
94921723 TTCTCTGTCG
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.18, C:0.13, G:0.15, T:0.54
Consensus pattern (61 bp):
TAGGTGGATTCTTTCTTAGGTATTATCTCTCTCATTGGTTTATTAGATTATTTTCTTACTT
Found at i:94942082 original size:113 final size:113
Alignment explanation
Indices: 94941884--94942109 Score: 434
Period size: 113 Copynumber: 2.0 Consensus size: 113
94941874 ATATCGAGTC
94941884 CCGTTTGAACCTTAGAAATCTGTAGGATACAAGTGACATGTCATTAGGGTTACATGATTTGAGTA
1 CCGTTTGAACCTTAGAAATCTGTAGGATACAAGTGACATGTCATTAGGGTTACATGATTTGAGTA
*
94941949 CTGGTCTTGAACGTCCTACTGATAGCTGAGGTCCTAGATGTGTTTGGA
66 CTGGTCTTGAACGTCCTACTGATAGCTGAGGTCCTACATGTGTTTGGA
*
94941997 CCGTTTGAACCTTAGGAATCTGTAGGATACAAGTGACATGTCATTAGGGTTACATGATTTGAGTA
1 CCGTTTGAACCTTAGAAATCTGTAGGATACAAGTGACATGTCATTAGGGTTACATGATTTGAGTA
94942062 CTGGTCTTGAACGTCCTACTGATAGCTGAGGTCCTACATGTGTTTGGA
66 CTGGTCTTGAACGTCCTACTGATAGCTGAGGTCCTACATGTGTTTGGA
94942110 ATACTCCACA
Statistics
Matches: 111, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
113 111 1.00
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (113 bp):
CCGTTTGAACCTTAGAAATCTGTAGGATACAAGTGACATGTCATTAGGGTTACATGATTTGAGTA
CTGGTCTTGAACGTCCTACTGATAGCTGAGGTCCTACATGTGTTTGGA
Found at i:94944016 original size:20 final size:20
Alignment explanation
Indices: 94943934--94944019 Score: 91
Period size: 20 Copynumber: 4.3 Consensus size: 20
94943924 GGGTGTTACA
* *
94943934 CTGTTTGTATTTCGGTACCT
1 CTGTTTGTACTTCGGTACCC
* *
94943954 CTATTTGTACTTTGGTACCC
1 CTGTTTGTACTTCGGTACCC
* * * *
94943974 TTATTTGTACTTTGGTACTC
1 CTGTTTGTACTTCGGTACCC
*
94943994 CTGTTTGTACTTCGATACCC
1 CTGTTTGTACTTCGGTACCC
94944014 CTGTTT
1 CTGTTT
94944020 ACACACTCGT
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.13, C:0.22, G:0.16, T:0.49
Consensus pattern (20 bp):
CTGTTTGTACTTCGGTACCC
Found at i:94945140 original size:38 final size:38
Alignment explanation
Indices: 94945064--94945239 Score: 183
Period size: 38 Copynumber: 4.5 Consensus size: 38
94945054 TTCGTGTAAC
* * * *
94945064 ACCAGCACGAAGCCTACGAGACTTTAAACTCAGTTATAAT
1 ACCAGCACTAAGCCTGCGGGA-TTT-AACTCAGATATAAT
*
94945104 ACCAGCACTAGGCCTGCGGGATTTAACTCAGATATAAT
1 ACCAGCACTAAGCCTGCGGGATTTAACTCAGATATAAT
* * * *
94945142 ACCAGCA-TGAAGCCTGCGAGATTTAACCCGGATATATT
1 ACCAGCACT-AAGCCTGCGGGATTTAACTCAGATATAAT
* *
94945180 ATCAGCACGAAGCCTGCGGGACTTTAAACTCAGATATAAT
1 ACCAGCACTAAGCCTGCGGGA-TTT-AACTCAGATATAAT
* *
94945220 ACTAGCACTAGGCCTGCGGG
1 ACCAGCACTAAGCCTGCGGG
94945240 TCTTTAAGCC
Statistics
Matches: 112, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
37 1 0.01
38 61 0.54
39 6 0.05
40 44 0.39
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.22
Consensus pattern (38 bp):
ACCAGCACTAAGCCTGCGGGATTTAACTCAGATATAAT
Found at i:94945210 original size:78 final size:78
Alignment explanation
Indices: 94945064--94945227 Score: 206
Period size: 78 Copynumber: 2.1 Consensus size: 78
94945054 TTCGTGTAAC
* * * *
94945064 ACCAGCACGAAGCCTACGAGACTTTAAACTCAGTTATAATACCAGCACTAGGCCTGCGGGATTTA
1 ACCAGCACGAAGCCTACGAGACTTTAAACCCAGATATAATACCAGCACGAAGCCTGCGGGATTTA
94945129 ACTCAGATATAAT
66 ACTCAGATATAAT
* * * * *
94945142 ACCAGCATGAAGCCTGCGAGA-TTT-AACCCGGATATATTATCAGCACGAAGCCTGCGGGACTTT
1 ACCAGCACGAAGCCTACGAGACTTTAAACCCAGATATAATACCAGCACGAAGCCTGCGGGA-TTT
94945205 AAACTCAGATATAAT
65 -AACTCAGATATAAT
*
94945220 ACTAGCAC
1 ACCAGCAC
94945228 TAGGCCTGCG
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
76 28 0.38
77 6 0.08
78 39 0.53
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (78 bp):
ACCAGCACGAAGCCTACGAGACTTTAAACCCAGATATAATACCAGCACGAAGCCTGCGGGATTTA
ACTCAGATATAAT
Found at i:94945235 original size:78 final size:78
Alignment explanation
Indices: 94945106--94945255 Score: 198
Period size: 78 Copynumber: 1.9 Consensus size: 78
94945096 GTTATAATAC
* *
94945106 CAGCACTAGGCCTGCGGGATTTAACTCAGATATAATACCAGCATGAAGCCTGCGAG-ATTTAA-C
1 CAGCACGAAGCCTGCGGGATTTAACTCAGATATAATACCAGCATGAAGCCTGCGAGTATTTAAGC
94945169 CCGGATATATTAT
66 CCGGATATATTAT
* * * *
94945182 CAGCACGAAGCCTGCGGGACTTTAAACTCAGATATAATACTAGCACT-AGGCCTGCGGGTCTTTA
1 CAGCACGAAGCCTGCGGGA-TTT-AACTCAGATATAATACCAGCA-TGAAGCCTGCGAGTATTTA
94945246 AGCCCGGATA
63 AGCCCGGATA
94945256 CACATCAAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
76 17 0.27
77 3 0.05
78 29 0.46
79 6 0.10
80 8 0.13
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (78 bp):
CAGCACGAAGCCTGCGGGATTTAACTCAGATATAATACCAGCATGAAGCCTGCGAGTATTTAAGC
CCGGATATATTAT
Found at i:94949886 original size:23 final size:26
Alignment explanation
Indices: 94949860--94949908 Score: 77
Period size: 24 Copynumber: 2.0 Consensus size: 26
94949850 GCATTTCAAT
94949860 TAAAA-TTTTATTT-TA-ATTTTATA
1 TAAAATTTTTATTTATATATTTTATA
94949883 TAAAATTTTTATTTATATATTTTATA
1 TAAAATTTTTATTTATATATTTTATA
94949909 AAATTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 5 0.22
24 8 0.35
25 2 0.09
26 8 0.35
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (26 bp):
TAAAATTTTTATTTATATATTTTATA
Found at i:94949926 original size:24 final size:23
Alignment explanation
Indices: 94949860--94949918 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 23
94949850 GCATTTCAAT
94949860 TAAAATTTTATTTTAAT-TTTATA
1 TAAAA-TTTATTTTAATATTTATA
*
94949883 TAAAATTTTTATTTATATATTT-TA
1 TAAAATTTAT-TTTA-ATATTTATA
94949907 TAAAATTTATTT
1 TAAAATTTATTT
94949919 CTACATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
22 4 0.13
23 11 0.35
24 13 0.42
25 3 0.10
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
TAAAATTTATTTTAATATTTATA
Found at i:94951758 original size:87 final size:87
Alignment explanation
Indices: 94951656--94951830 Score: 332
Period size: 87 Copynumber: 2.0 Consensus size: 87
94951646 TATAGGCTAA
*
94951656 TGTTGTAGTGGAGCCGAACTTGAATAATGGGTAAGCTAGAGCTCAATCAAGCTTAATTCACGATT
1 TGTTGGAGTGGAGCCGAACTTGAATAATGGGTAAGCTAGAGCTCAATCAAGCTTAATTCACGATT
*
94951721 TTAGCTTCACTCGGATATTAAT
66 TTAACTTCACTCGGATATTAAT
94951743 TGTTGGAGTGGAGCCGAACTTGAATAATGGGTAAGCTAGAGCTCAATCAAGCTTAATTCACGATT
1 TGTTGGAGTGGAGCCGAACTTGAATAATGGGTAAGCTAGAGCTCAATCAAGCTTAATTCACGATT
94951808 TTAACTTCACTCGGATATTAAT
66 TTAACTTCACTCGGATATTAAT
94951830 T
1 T
94951831 TTTAAGCTAC
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (87 bp):
TGTTGGAGTGGAGCCGAACTTGAATAATGGGTAAGCTAGAGCTCAATCAAGCTTAATTCACGATT
TTAACTTCACTCGGATATTAAT
Found at i:94958622 original size:43 final size:44
Alignment explanation
Indices: 94958493--94958622 Score: 149
Period size: 43 Copynumber: 3.0 Consensus size: 44
94958483 CATCGAATTC
* * *
94958493 CGATATGTGATTT-CTTGTAAGACCACATCTGGGATGTTGGCAT
1 CGATGTGTGATTTACATGTAAGACCACATCTGGGACGTTGGCAT
* * * *
94958536 CGATTTGTGATTTACGTGTAAGACCATATCTGGGACATTGGCAT
1 CGATGTGTGATTTACATGTAAGACCACATCTGGGACGTTGGCAT
* *
94958580 CGATAGT-TGA-TTACATGTAAGACCACGTCTGGGACGTAGGCAT
1 CGAT-GTGTGATTTACATGTAAGACCACATCTGGGACGTTGGCAT
94958623 TGTACGAGCT
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
43 40 0.54
44 33 0.45
45 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (44 bp):
CGATGTGTGATTTACATGTAAGACCACATCTGGGACGTTGGCAT
Found at i:94982330 original size:7 final size:8
Alignment explanation
Indices: 94982311--94982340 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
94982301 TTTCATAATT
94982311 TTTTTTAA
1 TTTTTTAA
94982319 TTTTTTAA
1 TTTTTTAA
94982327 TTTTTATAA
1 TTTTT-TAA
94982336 TTTTT
1 TTTTT
94982341 CTTCTATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTTAA
Found at i:94983952 original size:21 final size:22
Alignment explanation
Indices: 94983926--94983976 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
94983916 ATGAGCGAAT
94983926 TAAAATAAACATAT-AACA-ATC
1 TAAAATAAACATATGAA-AGATC
*
94983947 TAAAAT-AACATATGAAAGGTC
1 TAAAATAAACATATGAAAGATC
94983968 TAAAATAAA
1 TAAAATAAA
94983977 TAACAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 8 0.31
21 16 0.62
22 2 0.08
ACGTcount: A:0.61, C:0.10, G:0.06, T:0.24
Consensus pattern (22 bp):
TAAAATAAACATATGAAAGATC
Found at i:94988853 original size:195 final size:195
Alignment explanation
Indices: 94988521--94988913 Score: 786
Period size: 195 Copynumber: 2.0 Consensus size: 195
94988511 ATATTATCGG
94988521 GCCTTCAACGTAGTGAACCGGGTTTAAAAATAATTGTTAAAAATATTTATGAGTTTAGTGATGTG
1 GCCTTCAACGTAGTGAACCGGGTTTAAAAATAATTGTTAAAAATATTTATGAGTTTAGTGATGTG
94988586 TCTAATTAGGTTTTAATTAGGTGAATTTAGCTTAATTTAGAGTAATTAGAAAAAAATGACTAAAT
66 TCTAATTAGGTTTTAATTAGGTGAATTTAGCTTAATTTAGAGTAATTAGAAAAAAATGACTAAAT
94988651 TGAATAAGAGGTGAAACTTTAAATTTAAAGCAATAGAAAGTAAAAAGGGCCAAAATGGCAAATAT
131 TGAATAAGAGGTGAAACTTTAAATTTAAAGCAATAGAAAGTAAAAAGGGCCAAAATGGCAAATAT
94988716 GCCTTCAACGTAGTGAACCGGGTTTAAAAATAATTGTTAAAAATATTTATGAGTTTAGTGATGTG
1 GCCTTCAACGTAGTGAACCGGGTTTAAAAATAATTGTTAAAAATATTTATGAGTTTAGTGATGTG
94988781 TCTAATTAGGTTTTAATTAGGTGAATTTAGCTTAATTTAGAGTAATTAGAAAAAAATGACTAAAT
66 TCTAATTAGGTTTTAATTAGGTGAATTTAGCTTAATTTAGAGTAATTAGAAAAAAATGACTAAAT
94988846 TGAATAAGAGGTGAAACTTTAAATTTAAAGCAATAGAAAGTAAAAAGGGCCAAAATGGCAAATAT
131 TGAATAAGAGGTGAAACTTTAAATTTAAAGCAATAGAAAGTAAAAAGGGCCAAAATGGCAAATAT
94988911 GCC
1 GCC
94988914 ATTAAATAAT
Statistics
Matches: 198, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
195 198 1.00
ACGTcount: A:0.42, C:0.08, G:0.19, T:0.32
Consensus pattern (195 bp):
GCCTTCAACGTAGTGAACCGGGTTTAAAAATAATTGTTAAAAATATTTATGAGTTTAGTGATGTG
TCTAATTAGGTTTTAATTAGGTGAATTTAGCTTAATTTAGAGTAATTAGAAAAAAATGACTAAAT
TGAATAAGAGGTGAAACTTTAAATTTAAAGCAATAGAAAGTAAAAAGGGCCAAAATGGCAAATAT
Found at i:94990128 original size:13 final size:13
Alignment explanation
Indices: 94990110--94990134 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94990100 AAGATCGTCG
94990110 AGGATTAAATCCA
1 AGGATTAAATCCA
94990123 AGGATTAAATCC
1 AGGATTAAATCC
94990135 GAAGAAAATT
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:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (13 bp):
AGGATTAAATCCA
Found at i:94990197 original size:16 final size:17
Alignment explanation
Indices: 94990171--94990202 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
94990161 TAACTCAAGC
94990171 TTTATATTTAATATGTG
1 TTTATATTTAATATGTG
94990188 TTTA-ATTTAATATGT
1 TTTATATTTAATATGT
94990203 ATGTGTGGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.59
Consensus pattern (17 bp):
TTTATATTTAATATGTG
Found at i:94990641 original size:45 final size:45
Alignment explanation
Indices: 94990591--94990706 Score: 169
Period size: 45 Copynumber: 2.6 Consensus size: 45
94990581 TGACTACTGT
* *
94990591 TACTATTACCGTTACTGTTACCGATTCAACACTTTGTGTGTCAAA
1 TACTATTACCGTTACTGTTACAGATTCAACACTTTGTATGTCAAA
* **
94990636 TACTATTACCGTTACTGTTACAGATTCAGCACTTTGTATGTTGAA
1 TACTATTACCGTTACTGTTACAGATTCAACACTTTGTATGTCAAA
* *
94990681 TACTATTACTGTTACTGTTACTGATT
1 TACTATTACCGTTACTGTTACAGATT
94990707 ACTATTTAGG
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 64 1.00
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (45 bp):
TACTATTACCGTTACTGTTACAGATTCAACACTTTGTATGTCAAA
Found at i:94996734 original size:12 final size:13
Alignment explanation
Indices: 94996717--94996793 Score: 51
Period size: 12 Copynumber: 6.2 Consensus size: 13
94996707 TATTTAGATT
94996717 TTATATATTA-TA
1 TTATATATTATTA
94996729 TTATATAATTGATTA
1 TTATAT-ATT-ATTA
94996744 TTATA-ATTATTA
1 TTATATATTATTA
*
94996756 --AT-TGTTA-TA
1 TTATATATTATTA
*
94996765 GTTTTATATTATTA
1 -TTATATATTATTA
*
94996779 TTA-GTATTATTA
1 TTATATATTATTA
94996791 TTA
1 TTA
94996794 AATAAATTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 18
0.69 0.07 0.24
Matches are distributed among these distances:
9 2 0.04
10 5 0.10
12 22 0.43
13 12 0.24
14 3 0.06
15 7 0.14
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.58
Consensus pattern (13 bp):
TTATATATTATTA
Found at i:94996745 original size:20 final size:19
Alignment explanation
Indices: 94996722--94996763 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
94996712 AGATTTTATA
94996722 TATTAT-ATTATATAATTGAT
1 TATTATAATTAT-TAATTG-T
94996742 TATTATAATTATTAATTGT
1 TATTATAATTATTAATTGT
94996761 TAT
1 TAT
94996764 AGTTTTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 12 0.57
21 5 0.24
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (19 bp):
TATTATAATTATTAATTGT
Found at i:94996791 original size:20 final size:19
Alignment explanation
Indices: 94996717--94996791 Score: 52
Period size: 20 Copynumber: 3.9 Consensus size: 19
94996707 TATTTAGATT
94996717 TTATATATTATATTA-TATAA
1 TTAT-TATTATATTATTAT-A
94996737 TTGATTATTATAATTATTA-A
1 TT-ATTATTAT-ATTATTATA
* *
94996757 TTGTTA-TA-GTT-TTATA
1 TTATTATTATATTATTATA
94996773 TTATTATTAGTATTATTAT
1 TTATTATTA-TATTATTAT
94996792 TAAATAAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 16
0.68 0.06 0.25
Matches are distributed among these distances:
15 3 0.07
16 8 0.19
17 2 0.05
18 2 0.05
19 5 0.12
20 15 0.35
21 6 0.14
22 2 0.05
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (19 bp):
TTATTATTATATTATTATA
Found at i:94997328 original size:17 final size:18
Alignment explanation
Indices: 94997296--94997329 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
94997286 CAGAGGAGAA
*
94997296 AAAGAGAAAGATAAAGGG
1 AAAGAGAAAGAAAAAGGG
94997314 AAAGA-AAAGAAAAAGG
1 AAAGAGAAAGAAAAAGG
94997330 AAAAACTAGA
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:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (18 bp):
AAAGAGAAAGAAAAAGGG
Found at i:94998382 original size:45 final size:45
Alignment explanation
Indices: 94998316--94998410 Score: 147
Period size: 45 Copynumber: 2.1 Consensus size: 45
94998306 ATGTGCTGAC
*
94998316 TACTGTTACTGATTCGACACTTTGTGTGTCGAATACTATTACTGT
1 TACTGTTACAGATTCGACACTTTGTGTGTCGAATACTATTACTGT
* *
94998361 TACTGTTACAGATTC-AGCACTTTGTGTGTTGAATACTGTTACTGT
1 TACTGTTACAGATTCGA-CACTTTGTGTGTCGAATACTATTACTGT
94998406 TACTG
1 TACTG
94998411 CTACTGTTAC
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 1 0.02
45 45 0.98
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.42
Consensus pattern (45 bp):
TACTGTTACAGATTCGACACTTTGTGTGTCGAATACTATTACTGT
Found at i:94998405 original size:6 final size:6
Alignment explanation
Indices: 94998394--94998428 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
94998384 GTGTGTTGAA
*
94998394 TACTGT TACTGT TACTGC TACTGT TACTGAT TACT
1 TACTGT TACTGT TACTGT TACTGT TACTG-T TACT
94998429 ATTTAGGTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.46
Consensus pattern (6 bp):
TACTGT
Found at i:95003030 original size:15 final size:16
Alignment explanation
Indices: 95002996--95003031 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
95002986 AGAGAATCTT
*
95002996 AAAATAGACAAATTAC
1 AAAATAGACAAATTAA
95003012 AAAATAGAC-AATTAA
1 AAAATAGACAAATTAA
95003027 AAAAT
1 AAAAT
95003032 GTATTCACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.67, C:0.08, G:0.06, T:0.19
Consensus pattern (16 bp):
AAAATAGACAAATTAA
Found at i:95005003 original size:47 final size:46
Alignment explanation
Indices: 95004861--95005015 Score: 140
Period size: 44 Copynumber: 3.4 Consensus size: 46
95004851 TCCGCTCCGT
95004861 TGCAACTTCAGGGAGAT-AGGATTG-GTAATCTTCAGTATGCTCCAC
1 TGCAACTTCAGGGAGATAAGGATTGTGT-ATCTTCAGTATGCTCCAC
* * *** *
95004906 TGCAACTTCAGGGAGATAA-GACCTGT-CA-CTTCAACCTGTTCCAC
1 TGCAACTTCAGGGAGATAAGGA-TTGTGTATCTTCAGTATGCTCCAC
* * *
95004950 TGCAACTTCAGCGAGATAAGGTTTGTGTATTCTTCAGTTTGCTCCAC
1 TGCAACTTCAGGGAGATAAGGATTGTGTA-TCTTCAGTATGCTCCAC
* * *
95004997 TACAACTTCAAGAAGATAA
1 TGCAACTTCAGGGAGATAA
95005016 AACTTACTAC
Statistics
Matches: 85, Mismatches: 18, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
44 33 0.39
45 22 0.26
46 3 0.04
47 27 0.32
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (46 bp):
TGCAACTTCAGGGAGATAAGGATTGTGTATCTTCAGTATGCTCCAC
Found at i:95005014 original size:91 final size:90
Alignment explanation
Indices: 95004861--95005065 Score: 236
Period size: 91 Copynumber: 2.3 Consensus size: 90
95004851 TCCGCTCCGT
* * * * *
95004861 TGCAACTTCAGGGAGAT-AGGATTGGTAATCTTCAGTATGCTCCACTGCAACTTCAGGGAGATAA
1 TGCAACTTCAGAGAGATAAGGTTTGGTAATCTTCAGTATGCTCCACTACAACTTCAAGAAGATAA
* *
95004925 GACCTGT-C-ACTTCAACCTGTTCCAC
66 -AACT-TACTACTTCAACCTGCTCCAC
* * *
95004950 TGCAACTTCAGCGAGATAAGGTTTGTGTATTCTTCAGTTTGCTCCACTACAACTTCAAGAAGATA
1 TGCAACTTCAGAGAGATAAGGTTTG-GTAATCTTCAGTATGCTCCACTACAACTTCAAGAAGATA
* *
95005015 AAACTTACTACTTCAACCTGCTCTAT
65 AAACTTACTACTTCAACCTGCTCCAC
* *
95005041 TGCAATTTCAGAGAGGTAAGGTTTG
1 TGCAACTTCAGAGAGATAAGGTTTG
95005066 CTTTCTTCGA
Statistics
Matches: 98, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
89 17 0.17
90 10 0.10
91 71 0.72
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (90 bp):
TGCAACTTCAGAGAGATAAGGTTTGGTAATCTTCAGTATGCTCCACTACAACTTCAAGAAGATAA
AACTTACTACTTCAACCTGCTCCAC
Found at i:95005486 original size:223 final size:222
Alignment explanation
Indices: 95005138--95005551 Score: 652
Period size: 223 Copynumber: 1.9 Consensus size: 222
95005128 CGCTGCAACT
* * ** *
95005138 TCAGGGAGATAAGACTGGTGGCTAAAATCTGCTCCCCGCCTACCTCAGGAAGATACGATTCACTG
1 TCAGGGAGATAAGACTAGCGGCTAAAATCTGCTCCCCGCCTACCTCAGGAAGATAAAATTCACCG
* * * *
95005203 TCTTCGATCTACTCCACTGCTATCTCAGGGAGATAATATCTTCAATCTTTAGTTTGCTTCCTTGC
66 TCTTCGATCTACTCCACTGCTAACTCAGGGAGATAAAATCTTCAATCTTCAGTCTGCTTCCTTGC
* *
95005268 TACCTCCGGAAGATAAGACTACAATCTCCAGCCTGCCCCCTTGCTACCTCAAGGAGATAAGACTA
131 TACCTCAGGAAGATAAGACTACAATCTCCAGCCTGCCCCATTGCTACCTCAAGGAGATAAGACTA
95005333 CAATATCCAACCTGGCCCCTTACTACC
196 CAATATCCAACCTGGCCCCTTACTACC
*
95005360 TCAGGGAGATAAGGCTAGCGGCTAAAATCTGCTCCCCTG-CTACCTC-GGAAAGATAAAATTCAC
1 TCAGGGAGATAAGACTAGCGGCTAAAATCTGCTCCCC-GCCTACCTCAGG-AAGATAAAATTCAC
* *
95005423 CGTTTTTCGATCTGCTCCACTGCTAACTCAGGGAGATAAAATCTTCAATCTTCAGTCTGCTTCCT
64 CG-TCTTCGATCTACTCCACTGCTAACTCAGGGAGATAAAATCTTCAATCTTCAGTCTGCTTCCT
*
95005488 TGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCCCCATTGCTACCTCAAGGAGATAAG
128 TGCTACCTCAGGAAGATAAGACTACAATCTCCAGCCTGCCCCATTGCTACCTCAAGGAGATAAG
95005552 GCTAATGGCT
Statistics
Matches: 174, Mismatches: 15, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
221 2 0.01
222 54 0.31
223 118 0.68
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (222 bp):
TCAGGGAGATAAGACTAGCGGCTAAAATCTGCTCCCCGCCTACCTCAGGAAGATAAAATTCACCG
TCTTCGATCTACTCCACTGCTAACTCAGGGAGATAAAATCTTCAATCTTCAGTCTGCTTCCTTGC
TACCTCAGGAAGATAAGACTACAATCTCCAGCCTGCCCCATTGCTACCTCAAGGAGATAAGACTA
CAATATCCAACCTGGCCCCTTACTACC
Found at i:95005535 original size:44 final size:43
Alignment explanation
Indices: 95005262--95005551 Score: 160
Period size: 44 Copynumber: 6.5 Consensus size: 43
95005252 TAGTTTGCTT
* *
95005262 CCTTGCTACCTCCGGAAGATAAGACTACAATCTCCAGCCTGCCC
1 CCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTG-CC
* * *
95005306 CCTTGCTACCTCAAGG-AGATAAGACTACAATATCCAACCTGGCC
1 CCTTGCTACCTC-AGGAAGATAAGACTACAATCTTCAGCCT-GCC
* * * ** ** **
95005350 CCTTACTACCTCAGGGAGATAAGGCTAGC-GGCTAAAATCTGCTC
1 CCTTGCTACCTCAGGAAGATAAGACTA-CAATCTTCAGCCTGC-C
* * * ** * *
95005394 CCCTGCTACCTC-GGAAAGATAAAATTCACCGTTTTTC-GATCTGCTC
1 CCTTGCTACCTCAGG-AAGATAAGACT-A-CAATCTTCAG-CCTGC-C
* * * * * *
95005440 CAC-TGCTAACTCAGGGAGATAAAATCTTCAATCTTCAGTCTGCTT
1 C-CTTGCTACCTCAGGAAGATAAGA-CTACAATCTTCAGCCTGC-C
95005485 CCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCC
1 CCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCC
95005528 CCATTGCTACCTCAAGG-AGATAAG
1 CC-TTGCTACCTC-AGGAAGATAAG
95005552 GCTAATGGCT
Statistics
Matches: 192, Mismatches: 38, Indels: 32
0.73 0.15 0.12
Matches are distributed among these distances:
43 9 0.05
44 114 0.59
45 39 0.20
46 26 0.14
47 4 0.02
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.24
Consensus pattern (43 bp):
CCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCC
Found at i:95005584 original size:223 final size:217
Alignment explanation
Indices: 95005121--95005584 Score: 599
Period size: 223 Copynumber: 2.1 Consensus size: 217
95005111 TAATCTTCAG
* * * * *
95005121 TCTACTCCGCTGCAACTTCAGGGAGATAAGACTGGTGGCTAAAATCTGCTCCCCGCCTACCTCAG
1 TCTACTCCCCTGCTACCTCAGGGAGATAAGACTAGCGGCTAAAATCTGCTCCCCGCCTACCTCAG
** * * *
95005186 GAAGATACGATTCACTGTCTTCGATCTACTCCACTGCTATCTCAGGGAGATAATATCTTCAATCT
66 GAAGATAAAATTCACCGTCTTCGATCTACTCCACTGCTAACTCAGGGAGATAAAATCTTCAATCT
* * * *
95005251 TTAGTTTGCTTCCTTGCTACCTCCGGAAGATAAGACTACAATCTCCAGCCTGCCCCCTTGCTACC
131 TCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTCCAGCCTGCCCCATTGCTACC
*
95005316 TCAAGGAGATAAGACTACAATA
196 TCAAGGAGATAAGACTACAAAA
* * *
95005338 TCCAACCTGGCCCCTTACTACCTCAGGGAGATAAGGCTAGCGGCTAAAATCTGCTCCCCTG-CTA
1 T-CTA-CT--CCCC-TGCTACCTCAGGGAGATAAGACTAGCGGCTAAAATCTGCTCCCC-GCCTA
* *
95005402 CCTC-GGAAAGATAAAATTCACCGTTTTTCGATCTGCTCCACTGCTAACTCAGGGAGATAAAATC
60 CCTCAGG-AAGATAAAATTCACCG-TCTTCGATCTACTCCACTGCTAACTCAGGGAGATAAAATC
*
95005466 TTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCCCCA
123 TTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTCCAGCCTGCCCCA
*
95005531 TTGCTACCTCAAGGAGATAAGGCTAATGGCTAAAA
188 TTGCTACCTCAAGGAGATAAGACT-A---C-AAAA
95005566 TCTACTCCCCTGCTACCTC
1 TCTACTCCCCTGCTACCTC
95005585 GGAAAGATAA
Statistics
Matches: 210, Mismatches: 24, Indels: 20
0.83 0.09 0.08
Matches are distributed among these distances:
217 1 0.00
218 2 0.01
219 2 0.01
221 5 0.02
222 58 0.28
223 128 0.61
224 5 0.02
226 2 0.01
227 3 0.01
228 4 0.02
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.27
Consensus pattern (217 bp):
TCTACTCCCCTGCTACCTCAGGGAGATAAGACTAGCGGCTAAAATCTGCTCCCCGCCTACCTCAG
GAAGATAAAATTCACCGTCTTCGATCTACTCCACTGCTAACTCAGGGAGATAAAATCTTCAATCT
TCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTCCAGCCTGCCCCATTGCTACC
TCAAGGAGATAAGACTACAAAA
Found at i:95005694 original size:178 final size:177
Alignment explanation
Indices: 95005306--95005867 Score: 795
Period size: 178 Copynumber: 3.2 Consensus size: 177
95005296 CAGCCTGCCC
* * * *
95005306 CCTTGCTACCTCAAGG-AGATAAGACTACAATATCCAACCTGGCCCCTTACTACCTCAGGGAGAT
1 CCTTGCTACCTC-AGGAAGATAAGACTACAATCTTCAGCCT-GCCCCTTGCTACCTCAGGGAGAT
* * *
95005370 AAGGCTAGCGGCTAAAATCTGCTCCCCTGCTACCTCGGAAAGATAAAATTCACCGTTTTTCGATC
64 AAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCGGAAAGATAAGATTCACCGTCTTT-GATC
* *
95005435 TGCTCCACTGCTAACTCAGGGAGATAAAATCTTCAATCTTCAGTCTGCTT
128 TGCTCCACTGCTATCTCAGGGAGATAAAATCTTTAATCTTCAGTCTGCTT
*
95005485 CCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCCCCATTGCTACCTCAAGGAGATA
1 CCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCCCC-TTGCTACCTCAGGGAGATA
* *
95005550 AGGCTAATGGCTAAAATCTACTCCCCTGCTACCTCGGAAAGATAAGATTCACCGTCTTTGATCTG
65 AGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCGGAAAGATAAGATTCACCGTCTTTGATCTG
* *
95005615 TTCTACTGCTATCTCAGGGAGATAAAATCTTTAATCTTCAGTCTGCTT
130 CTCCACTGCTATCTCAGGGAGATAAAATCTTTAATCTTCAGTCTGCTT
* ** *
95005663 CCTTGCTAACTCAGGAAGATAAGACTACAATCTTTGGCCTGCTCTCTTGCTACCTCAGGGAGATA
1 CCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGC-CCCTTGCTACCTCAGGGAGATA
* ** * *
95005728 AGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTC-GAGAAGATAAGATTTGCCATCTTCGATCT
65 AGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCGGA-AAGATAAGATTCACCGTCTTTGATCT
* * *
95005792 GCTCCACTGCTATCTCAGGGAGATGAGATCTTTAATCTTCAGTCTACTT
129 GCTCCACTGCTATCTCAGGGAGATAAAATCTTTAATCTTCAGTCTGCTT
* * *
95005841 TCTTGGTACCTCAAGAAGATAAGACTA
1 CCTTGCTACCTCAGGAAGATAAGACTA
95005868 ATGGCTAAAA
Statistics
Matches: 344, Mismatches: 35, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
177 2 0.01
178 236 0.69
179 106 0.31
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (177 bp):
CCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCCCCTTGCTACCTCAGGGAGATAA
GGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCGGAAAGATAAGATTCACCGTCTTTGATCTGC
TCCACTGCTATCTCAGGGAGATAAAATCTTTAATCTTCAGTCTGCTT
Found at i:95005880 original size:134 final size:134
Alignment explanation
Indices: 95005707--95006001 Score: 455
Period size: 134 Copynumber: 2.2 Consensus size: 134
95005697 TGGCCTGCTC
* * **
95005707 TCTTGCTACCTCAGGGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGAGAAGATA
1 TCTTGCTACCTCAGGAAGATAAGACTAATGGCTAAAATCTGCTCCCCTGCTACCTCGAGAAGATA
* * * *
95005772 AGATTTGCCATCTTCGATCTGCTCCACTGCTATCTCAGGGAGATGAGATCTTTAATCTTCAGTCT
66 AGATTCGCCATCTTCGATCTACTCCACTACTATCTCAGGGAGATGAGATCTTCAATCTTCAGTCT
95005837 ACTT
131 ACTT
* * *
95005841 TCTTGGTACCTCAAGAAGATAAGACTAATGGCTAAAATCTGCTCCCCTGCTACCTCGAGAATATA
1 TCTTGCTACCTCAGGAAGATAAGACTAATGGCTAAAATCTGCTCCCCTGCTACCTCGAGAAGATA
* *
95005906 AGATTCGCCATCTTCGATCTACTCTACTACTATCTCAGGGAGATGAGATCTTCAATCTTCAGTTT
66 AGATTCGCCATCTTCGATCTACTCCACTACTATCTCAGGGAGATGAGATCTTCAATCTTCAGTCT
*
95005971 GCTT
131 ACTT
*
95005975 CCTTGCTACCTCAGGAAGATAAGACTA
1 TCTTGCTACCTCAGGAAGATAAGACTA
95006002 CAATCTTCAG
Statistics
Matches: 144, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
134 144 1.00
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (134 bp):
TCTTGCTACCTCAGGAAGATAAGACTAATGGCTAAAATCTGCTCCCCTGCTACCTCGAGAAGATA
AGATTCGCCATCTTCGATCTACTCCACTACTATCTCAGGGAGATGAGATCTTCAATCTTCAGTCT
ACTT
Found at i:95005890 original size:312 final size:312
Alignment explanation
Indices: 95005535--95006109 Score: 882
Period size: 312 Copynumber: 1.8 Consensus size: 312
95005525 GCCCCATTGC
* *
95005535 TACCTCAAGGAGATAAGGCTAATGGCTAAAATCTACTCCCCTGCTACCTCG-GAAAGATAAGATT
1 TACCTCAAGAAGATAAGACTAATGGCTAAAATCTACTCCCCTGCTACCTCGAG-AAGATAAGATT
* * ** * *
95005599 CACCGTCTTTGATCTGTTCTACTGCTATCTCAGGGAGATAAAATCTTTAATCTTCAGTCTGCTTC
65 CACCATCTTCGATCTACTCTACTACTATCTCAGGGAGATAAAATCTTCAATCTTCAGTCTGCTTC
** * * * *
95005664 CTTGCTAACTCAGGAAGATAAGACTACAATCTTTGGCCTGCTCTCTTGCTACCTCAGGGAGATAA
130 CTTGCTAACTCAGGAAGATAAGACTACAATCTTCAGCCTACTCCCTTGCTACCCCAAGGAGATAA
* * *
95005729 GGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGAGAAGATAAGATTTGCCATCTTCGATCTGC
195 GGCTAGTGGCTAAAATCTGCTCCCCTACTACCTCGAGAAGATAAGATTCGCCATCTTCGATCTGC
95005794 TCCACTGCTATCTCAGGGAGATGAGATCTTTAATCTTCAGTCTACTTTCTTGG
260 TCCACTGCTATCTCAGGGAGATGAGATCTTTAATCTTCAGTCTACTTTCTTGG
* *
95005847 TACCTCAAGAAGATAAGACTAATGGCTAAAATCTGCTCCCCTGCTACCTCGAGAATATAAGATTC
1 TACCTCAAGAAGATAAGACTAATGGCTAAAATCTACTCCCCTGCTACCTCGAGAAGATAAGATTC
* * * *
95005912 GCCATCTTCGATCTACTCTACTACTATCTCAGGGAGATGAGATCTTCAATCTTCAGTTTGCTTCC
66 ACCATCTTCGATCTACTCTACTACTATCTCAGGGAGATAAAATCTTCAATCTTCAGTCTGCTTCC
*
95005977 TTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTACTCCCTTGCTACCCCAAGGAGATAAG
131 TTGCTAACTCAGGAAGATAAGACTACAATCTTCAGCCTACTCCCTTGCTACCCCAAGGAGATAAG
* * * *
95006042 TCTAGTGGCTAAAATTTGCTCCCCTACTACCTCGGGAAGCTAAGATTCGCCATCTTCGATCTGCT
196 GCTAGTGGCTAAAATCTGCTCCCCTACTACCTCGAGAAGATAAGATTCGCCATCTTCGATCTGCT
95006107 CCA
261 CCA
95006110 TTACTACCTC
Statistics
Matches: 234, Mismatches: 28, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
312 233 1.00
313 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (312 bp):
TACCTCAAGAAGATAAGACTAATGGCTAAAATCTACTCCCCTGCTACCTCGAGAAGATAAGATTC
ACCATCTTCGATCTACTCTACTACTATCTCAGGGAGATAAAATCTTCAATCTTCAGTCTGCTTCC
TTGCTAACTCAGGAAGATAAGACTACAATCTTCAGCCTACTCCCTTGCTACCCCAAGGAGATAAG
GCTAGTGGCTAAAATCTGCTCCCCTACTACCTCGAGAAGATAAGATTCGCCATCTTCGATCTGCT
CCACTGCTATCTCAGGGAGATGAGATCTTTAATCTTCAGTCTACTTTCTTGG
Found at i:95005989 original size:45 final size:44
Alignment explanation
Indices: 95005939--95006041 Score: 116
Period size: 44 Copynumber: 2.3 Consensus size: 44
95005929 CTACTACTAT
* * ** * *
95005939 CTCAGGGAGATGAGATCTTCAATCTTCAGTTTGCTTCCTTGCTAC
1 CTCAGGGAGATAAGA-CTACAATCTTCAGCCTACTCCCTTGCTAC
*
95005984 CTCAGGAAGATAAGACTACAATCTTCAGCCTACTCCCTTGCTAC
1 CTCAGGGAGATAAGACTACAATCTTCAGCCTACTCCCTTGCTAC
* *
95006028 CCCAAGGAGATAAG
1 CTCAGGGAGATAAG
95006042 TCTAGTGGCT
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
44 35 0.73
45 13 0.27
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (44 bp):
CTCAGGGAGATAAGACTACAATCTTCAGCCTACTCCCTTGCTAC
Found at i:95007402 original size:16 final size:16
Alignment explanation
Indices: 95007383--95007437 Score: 74
Period size: 16 Copynumber: 3.3 Consensus size: 16
95007373 TTTTCTCTTT
95007383 TTTTTATTGATTTTTA
1 TTTTTATTGATTTTTA
95007399 TTTTTATTGATTTTTA
1 TTTTTATTGATTTTTA
* *
95007415 TTATTATTTTGATTTTGA
1 TT-TT-TATTGATTTTTA
95007433 TTTTT
1 TTTTT
95007438 GATTTTTGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
16 19 0.54
17 4 0.11
18 12 0.34
ACGTcount: A:0.18, C:0.00, G:0.07, T:0.75
Consensus pattern (16 bp):
TTTTTATTGATTTTTA
Found at i:95007403 original size:6 final size:6
Alignment explanation
Indices: 95007392--95007450 Score: 50
Period size: 6 Copynumber: 10.0 Consensus size: 6
95007382 TTTTTTATTG
* * * *
95007392 ATTTTT ATTTTT A--TTG ATTTTT ATTATT ATTTTG ATTTTG ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
*
95007438 GATTTTT GTTTTT
1 -ATTTTT ATTTTT
95007451 GGGTCTGAAG
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
4 3 0.07
6 34 0.79
7 6 0.14
ACGTcount: A:0.17, C:0.00, G:0.08, T:0.75
Consensus pattern (6 bp):
ATTTTT
Found at i:95007451 original size:13 final size:13
Alignment explanation
Indices: 95007389--95007443 Score: 50
Period size: 13 Copynumber: 4.6 Consensus size: 13
95007379 CTTTTTTTTA
*
95007389 TTGATTTTTATTT
1 TTGATTTTGATTT
95007402 TT-A--TTGATTT
1 TTGATTTTGATTT
95007412 TT-ATTATT-A-TT
1 TTGATT-TTGATTT
95007423 TTGATTTTGATTT
1 TTGATTTTGATTT
95007436 TTGATTTT
1 TTGATTTT
95007444 TGTTTTTGGG
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
10 9 0.26
11 6 0.17
12 6 0.17
13 14 0.40
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.73
Consensus pattern (13 bp):
TTGATTTTGATTT
Found at i:95008055 original size:18 final size:17
Alignment explanation
Indices: 95008000--95008055 Score: 58
Period size: 19 Copynumber: 3.1 Consensus size: 17
95007990 CTTTGTTTTA
95008000 TTATTTTTATTCTTCTTT
1 TTATTTTTATT-TTCTTT
*
95008018 TTATTTTTATTTTTATTTT
1 TTATTTTTA-TTTT-CTTT
*
95008037 TTATTTTTACTTTTGTTT
1 TTATTTTTA-TTTTCTTT
95008055 T
1 T
95008056 CTTTTTGGCT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 15 0.45
19 18 0.55
ACGTcount: A:0.12, C:0.05, G:0.02, T:0.80
Consensus pattern (17 bp):
TTATTTTTATTTTCTTT
Found at i:95008061 original size:6 final size:6
Alignment explanation
Indices: 95008000--95008055 Score: 67
Period size: 6 Copynumber: 9.2 Consensus size: 6
95007990 CTTTGTTTTA
* * *
95008000 TTATTT TTATTC TTCTTT TTATTT TTATTT TTATTTT TTATTT TTACTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTA-TTT TTATTT TTATTT
*
95008049 TTGTTT T
1 TTATTT T
95008056 CTTTTTGGCT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
6 36 0.86
7 6 0.14
ACGTcount: A:0.12, C:0.05, G:0.02, T:0.80
Consensus pattern (6 bp):
TTATTT
Done.