Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 191 of 373
Found at i:64172300 original size:35 final size:35
Alignment explanation
Indices: 64172252--64172319 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
64172242 ATATCTGTAA
* * *
64172252 CTGTATTTGTATCTGAAATGGGCTCAGGCCCGAAT
1 CTGTATCTATATCTGAAATGGGCCCAGGCCCGAAT
*
64172287 CTGTATCTATATCTGATATGGGCCCAGGCCCGA
1 CTGTATCTATATCTGAAATGGGCCCAGGCCCGA
64172320 TTGTGAATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.29
Consensus pattern (35 bp):
CTGTATCTATATCTGAAATGGGCCCAGGCCCGAAT
Found at i:64174259 original size:26 final size:28
Alignment explanation
Indices: 64174230--64174283 Score: 94
Period size: 26 Copynumber: 2.0 Consensus size: 28
64174220 GTAAAAGGGG
64174230 AGGGAAAGT-AAAAAAAA-TGAAGAGAA
1 AGGGAAAGTAAAAAAAAATTGAAGAGAA
64174256 AGGGAAAGTAAAAAAAAATTGAAGAGAA
1 AGGGAAAGTAAAAAAAAATTGAAGAGAA
64174284 GAGTTGGGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 9 0.35
27 8 0.31
28 9 0.35
ACGTcount: A:0.65, C:0.00, G:0.26, T:0.09
Consensus pattern (28 bp):
AGGGAAAGTAAAAAAAAATTGAAGAGAA
Found at i:64177659 original size:17 final size:19
Alignment explanation
Indices: 64177633--64177670 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
64177623 ATCTTTAAAA
64177633 TTTAAAATTA-AAT-TATT
1 TTTAAAATTACAATATATT
*
64177650 TTTAATATTACAATATATT
1 TTTAAAATTACAATATATT
64177669 TT
1 TT
64177671 ACCATTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 9 0.50
18 3 0.17
19 6 0.33
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTAAAATTACAATATATT
Found at i:64183175 original size:13 final size:13
Alignment explanation
Indices: 64183166--64183192 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
64183156 TATTAATATG
64183166 ATAATATAATAAA
1 ATAATATAATAAA
64183179 ATAATATAATAAA
1 ATAATATAATAAA
64183192 A
1 A
64183193 CATAAACAAA
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:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
ATAATATAATAAA
Found at i:64183190 original size:8 final size:8
Alignment explanation
Indices: 64183142--64183184 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
64183132 GTACTTAAGT
64183142 ATAATATA
1 ATAATATA
*
64183150 AGAATATA
1 ATAATATA
* *
64183158 TTAATATG
1 ATAATATA
64183166 ATAATATA
1 ATAATATA
*
64183174 ATAAAATA
1 ATAATATA
64183182 ATA
1 ATA
64183185 TAATAAAACA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (8 bp):
ATAATATA
Found at i:64184499 original size:16 final size:15
Alignment explanation
Indices: 64184453--64184501 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
64184443 GGATGATGAG
64184453 TTTTATGAAATTGATTA
1 TTTTATG-AA-TGATTA
*
64184470 TTTTTTGAATGATTA
1 TTTTATGAATGATTA
*
64184485 TTATTATGTATGATTA
1 TT-TTATGAATGATTA
64184501 T
1 T
64184502 GTATATAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 8 0.29
16 14 0.50
17 6 0.21
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.57
Consensus pattern (15 bp):
TTTTATGAATGATTA
Found at i:64189267 original size:22 final size:22
Alignment explanation
Indices: 64189242--64189291 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
64189232 AACATTCCTG
*
64189242 AATGGAAAT-GAGACTGCATTAC
1 AATGGAAATAG-GAATGCATTAC
64189264 AATGGAAATAGGAATGCATTAC
1 AATGGAAATAGGAATGCATTAC
64189286 AATGGA
1 AATGGA
64189292 CATGGGCTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 25 0.96
23 1 0.04
ACGTcount: A:0.44, C:0.10, G:0.24, T:0.22
Consensus pattern (22 bp):
AATGGAAATAGGAATGCATTAC
Found at i:64190404 original size:14 final size:13
Alignment explanation
Indices: 64190346--64190404 Score: 55
Period size: 14 Copynumber: 4.2 Consensus size: 13
64190336 TATTAATAAA
64190346 AAATAAAAAAAAT
1 AAATAAAAAAAAT
*
64190359 AATATAATAAAACAT
1 AA-ATAA-AAAAAAT
* *
64190374 AAATAAACTAAAGT
1 AAATAAA-AAAAAT
64190388 AAATAAAAACAAAT
1 AAATAAAAA-AAAT
64190402 AAA
1 AAA
64190405 AAGAGAAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
13 4 0.11
14 24 0.67
15 8 0.22
ACGTcount: A:0.75, C:0.05, G:0.02, T:0.19
Consensus pattern (13 bp):
AAATAAAAAAAAT
Found at i:64209525 original size:40 final size:40
Alignment explanation
Indices: 64209443--64209665 Score: 292
Period size: 40 Copynumber: 5.6 Consensus size: 40
64209433 GAATGATGTT
* * * *
64209443 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATC
* * *
64209483 CGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTC
1 CGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATC
*
64209523 CGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
*
64209562 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
*
64209602 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-C
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATC
*
64209642 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
64209666 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 119 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
Found at i:64209687 original size:119 final size:119
Alignment explanation
Indices: 64209443--64209698 Score: 279
Period size: 119 Copynumber: 2.2 Consensus size: 119
64209433 GAATGATGTT
* *
64209443 CGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGT
1 CGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGT
* ** *
64209508 GCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATC
66 GCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAATC
* * * **
64209562 CGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTT
1 CGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATTT
* * * *
64209625 GTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATC
64 GTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-CTAAATC
* *
64209682 C-GGTTAAATTCCGAAGG
1 CGGGTTAAGTCCCGAAGG
64209699 TACGTGATTT
Statistics
Matches: 115, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 81 0.70
120 31 0.27
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (119 bp):
CGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGT
GCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAATC
Found at i:64217518 original size:40 final size:40
Alignment explanation
Indices: 64217428--64217652 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
64217418 TTGAATGATG
* * * *
64217428 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
64217468 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
64217508 TTCGGGCTAAG-CCCGAAGGAATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
64217547 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
64217587 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
64217628 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
64217653 AACGAGGAGC
Statistics
Matches: 160, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
39 32 0.20
40 118 0.74
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:64217670 original size:80 final size:80
Alignment explanation
Indices: 64217467--64217685 Score: 207
Period size: 79 Copynumber: 2.8 Consensus size: 80
64217457 AAGTGACCAT
* ** * * *
64217467 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGAT-ACTAATTTCGGGCTAAG-CCCGAAGGAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGAA
*
64217529 TTGGTGCGAGTTACTAA
64 TTGGTGCGAGCTACTAA
* ** * *
64217546 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGAATT
*
64217611 TGTGCGAGCTACTATA
66 GGTGCGAGCTACTA-A
* * * *
64217627 A-CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
64217686 TACGTGATTT
Statistics
Matches: 119, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.02
79 58 0.49
80 57 0.48
81 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGAATT
GGTGCGAGCTACTAA
Found at i:64217674 original size:119 final size:119
Alignment explanation
Indices: 64217428--64217685 Score: 265
Period size: 119 Copynumber: 2.2 Consensus size: 119
64217418 TTGAATGATG
* *
64217428 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
** ** *
64217493 GTGCGAGATACTAATTTCGGGCTAAGCCCGAAGGAATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGAATTGGAACGAGTGACTAAA
* * * **
64217547 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * *
64217610 TTGTGCGAGCTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGAATTGGAACGAGTGA-CTAAA
* *
64217667 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
64217686 TACGTGATTT
Statistics
Matches: 115, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
118 3 0.03
119 82 0.71
120 30 0.26
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGAATTGGAACGAGTGACTAAA
Found at i:64220497 original size:96 final size:96
Alignment explanation
Indices: 64220299--64220521 Score: 273
Period size: 96 Copynumber: 2.3 Consensus size: 96
64220289 AGGGTATAAT
*
64220299 GCCGATGCCATGTCCCAGACATGGTCTCACACTAGCTCATCCATCAAGTCAATGCCATGTCCCAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGTCAATGCCATGTCCCAG
64220364 ACATGGTCTTACACTGACTATCGAAATCGAC
66 ACATGGTCTTACACTGACTATCGAAATCGAC
* * *
64220395 GTCGATGCCATATCCCAGACATGGTCTTACACTAGCTC-TCACAT-ATCTGTGCCAATGCCATGT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATC-CATCA--AGT--CAATGCCATGT
* **
64220458 CCCAGGCATGGTCTTACACTGAC-A-C-ATCTCGTA-
61 CCCAGACATGGTCTTACACTGACTATCGAAATCG-AC
64220491 GCCGATG-CATGTCCCAGACAT-GTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
64220522 GGCTTACATC
Statistics
Matches: 112, Mismatches: 9, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
94 10 0.09
95 16 0.14
96 48 0.43
97 4 0.04
98 1 0.01
99 33 0.29
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (96 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGTCAATGCCATGTCCCAG
ACATGGTCTTACACTGACTATCGAAATCGAC
Found at i:64220541 original size:46 final size:46
Alignment explanation
Indices: 64220299--64220570 Score: 241
Period size: 46 Copynumber: 5.8 Consensus size: 46
64220289 AGGGTATAAT
* * *
64220299 GCCGATGCCATGTCCCAGACATGGTCTCACACTAGCT-CATCCATCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTACAT--ATCGA
* * * *
64220346 GTCAATGCCATGTCCCAGACATGGTCTTACACTGACTATCGAAATCGA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTA-C-ATATCGA
* * * *
64220394 CGTCGATGCCATATCCCAGACATGGTCTTACACTAGCTCTCACATATCTGT
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACT-G-GCT-ACATATC-GA
* * * *
64220445 GCCAATGCCATGTCCCAGGCATGGTCTTACACTGAC-ACATCTCGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTACATATCG-A
*
64220491 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCGA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TACATATCGA
*
64220536 GGCCGATG-CATGTCCTAGACAT-GTCTTACACTGGC
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC
64220571 ACACAAATAA
Statistics
Matches: 190, Mismatches: 23, Indels: 25
0.80 0.10 0.11
Matches are distributed among these distances:
44 12 0.06
45 15 0.08
46 53 0.28
47 32 0.17
48 5 0.03
49 33 0.17
50 35 0.18
51 4 0.02
52 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.25
Consensus pattern (46 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTACATATCGA
Found at i:64223934 original size:16 final size:16
Alignment explanation
Indices: 64223900--64223951 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
64223890 TCTTTCTTCT
* *
64223900 TTTCTTTCCTT-TTTC
1 TTTCTTTCCTTCTCTA
64223915 TTTCTTTCCTTCTCTA
1 TTTCTTTCCTTCTCTA
* **
64223931 TTTCGTTATTTCTCTA
1 TTTCTTTCCTTCTCTA
64223947 TTTCT
1 TTTCT
64223952 ATTTCTTTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
15 11 0.37
16 19 0.63
ACGTcount: A:0.06, C:0.25, G:0.02, T:0.67
Consensus pattern (16 bp):
TTTCTTTCCTTCTCTA
Found at i:64226587 original size:13 final size:13
Alignment explanation
Indices: 64226569--64226595 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
64226559 AACACTTGCA
64226569 AAACAATTCTGAC
1 AAACAATTCTGAC
64226582 AAACAATTCTGAC
1 AAACAATTCTGAC
64226595 A
1 A
64226596 TGTTGTTCAT
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:0.48, C:0.22, G:0.07, T:0.22
Consensus pattern (13 bp):
AAACAATTCTGAC
Found at i:64228524 original size:21 final size:22
Alignment explanation
Indices: 64228484--64228525 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
64228474 CATAACGTAA
*
64228484 TCAATTCTTATCAATTGCTATC
1 TCAATTCTCATCAATTGCTATC
*
64228506 TCAATTCTCAT-ACTTGCTAT
1 TCAATTCTCATCAATTGCTAT
64228526 ACAAATAGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.26, C:0.24, G:0.05, T:0.45
Consensus pattern (22 bp):
TCAATTCTCATCAATTGCTATC
Found at i:64236822 original size:49 final size:49
Alignment explanation
Indices: 64236763--64236994 Score: 288
Period size: 49 Copynumber: 4.7 Consensus size: 49
64236753 CTGGTACGCA
*
64236763 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTAGTACACG
* **
64236812 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCT-GATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCTAG-TACACG
* * * *
64236862 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATC-AGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCTA-GTACACG
* * * *
64236913 TAGTAACCTGCACTTAGTACTACACATGCAACCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTAGTACACG
*
64236962 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
64236995 TCACAATAGC
Statistics
Matches: 155, Mismatches: 21, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
49 71 0.46
50 48 0.31
51 35 0.23
52 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTAGTACACG
Found at i:64236980 original size:100 final size:99
Alignment explanation
Indices: 64236749--64236994 Score: 325
Period size: 100 Copynumber: 2.5 Consensus size: 99
64236739 GTAGCCGAAG
* * * * *
64236749 CTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTAGTACACGTA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTAGTACACATA
* **
64236814 GTAGCCTGCACTTAGTACTACACACGTGACCTAA
66 GTAACCTGCACTTAGTACTACACACGCAACCTAA
* * * *
64236848 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATC-AGGTACGC
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCTA-GTACAC
*
64236912 ATAGTAACCTGCACTTAGTACTACACATGCAACC-AA
63 ATAGTAACCTGCACTTAGTACTACACACGCAACCTAA
*
64236948 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
64236995 TCACAATAGC
Statistics
Matches: 127, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
99 40 0.31
100 48 0.38
101 39 0.31
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (99 bp):
CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTAGTACACATA
GTAACCTGCACTTAGTACTACACACGCAACCTAA
Found at i:64239757 original size:15 final size:15
Alignment explanation
Indices: 64239728--64239766 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
64239718 AACAGAGAAG
64239728 CCAAGAATAAAGAAAT
1 CCAAG-ATAAAGAAAT
64239744 CCAAGATAAAGAAAT
1 CCAAGATAAAGAAAT
*
64239759 CCATGATA
1 CCAAGATA
64239767 CGAGAATCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.56, C:0.15, G:0.13, T:0.15
Consensus pattern (15 bp):
CCAAGATAAAGAAAT
Found at i:64242297 original size:49 final size:49
Alignment explanation
Indices: 64242236--64242473 Score: 296
Period size: 49 Copynumber: 4.8 Consensus size: 49
64242226 CACAATTGCC
* * *
64242236 TACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGG
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTGG
* ** *
64242285 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGA
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCTGG
* * *
64242335 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGG
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCTGG
* * * * *
64242386 TACGCATAGTAGCCTGTACTTAGTACTACACATGCGCCCAATTATCTGG
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTGG
* *
64242435 TACACGTAGTAGCCTGCACTTTGTACTACACACGTGACC
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
64242474 TCACAATAGC
Statistics
Matches: 159, Mismatches: 27, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
49 75 0.47
50 48 0.30
51 36 0.23
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.26
Consensus pattern (49 bp):
TACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTGG
Found at i:64242465 original size:100 final size:99
Alignment explanation
Indices: 64242236--64242473 Score: 316
Period size: 100 Copynumber: 2.4 Consensus size: 99
64242226 CACAATTGCC
* * * * *
64242236 TACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTG
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGCCTG
* *
64242301 CACTTAGTACTACACACGTGACCTAACCATCTGA
66 CACTTAGTACTACACACGCGACCCAACCATCTGA
* *
64242335 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATAGTAGCC
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAGGTACACATAGTAGCC
* * ** *
64242400 TGTACTTAGTACTACACATGCG-CCCAATTATCTGG
64 TGCACTTAGTACTACACACGCGACCCAACCATCTGA
*
64242435 TACACGTAGTAGCCTGCACTTTGTACTACACACGTGACC
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
64242474 TCACAATAGC
Statistics
Matches: 121, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
99 35 0.29
100 48 0.40
101 38 0.31
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.26
Consensus pattern (99 bp):
TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGCCTG
CACTTAGTACTACACACGCGACCCAACCATCTGA
Found at i:64245023 original size:43 final size:43
Alignment explanation
Indices: 64244928--64245054 Score: 123
Period size: 43 Copynumber: 3.0 Consensus size: 43
64244918 ATCGAGATGT
* * * * * * *
64244928 GATTACGTGTAAGACCATGTCTAGGAAATTGGCATTGTATTTT
1 GATTATGTGTAAGACCATGTTTGGGACATTGGCATCGTATATC
64244971 GATTATGTGTAAGACCATGTTTGGGACATTGGCATCGT-TAATC
1 GATTATGTGTAAGACCATGTTTGGGACATTGGCATCGTAT-ATC
* * * * *
64245014 GATTTTGTGTAAAACCCTATTTGGGACAATGGCATCG-ATAT
1 GATTATGTGTAAGACCATGTTTGGGACATTGGCATCGTATAT
64245055 GTGATAACAT
Statistics
Matches: 70, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
42 3 0.04
43 67 0.96
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.35
Consensus pattern (43 bp):
GATTATGTGTAAGACCATGTTTGGGACATTGGCATCGTATATC
Found at i:64247167 original size:21 final size:21
Alignment explanation
Indices: 64247110--64247157 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
64247100 TGCTTCGGTC
* *
64247110 GTGAGGGAGGTCAAACGCCCGT
1 GTGA-GGAGGGCACACGCCCGT
64247132 GTGAGGAGGGGCACACGCCCGT
1 GTGAGGA-GGGCACACGCCCGT
64247154 GTGA
1 GTGA
64247158 CTGAGGCACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 3 0.13
22 20 0.87
ACGTcount: A:0.21, C:0.23, G:0.44, T:0.12
Consensus pattern (21 bp):
GTGAGGAGGGCACACGCCCGT
Found at i:64249012 original size:47 final size:47
Alignment explanation
Indices: 64248944--64249072 Score: 168
Period size: 47 Copynumber: 2.7 Consensus size: 47
64248934 GTGCGAATAA
* * * *
64248944 TACCTTGATTTGGCTACGGGCCATGATATAGGTATTTTGAGACGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTTCGAGACAAGT
* * * *
64248991 TACCCTGATTTGGCTATGGGCCATGGTATAGGTACTTCGGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTTCGAGACAAGT
* *
64249038 TACCTTGATTTGGCTACAGGCTATGGTATAGGTAC
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTAC
64249073 CTATCGATTG
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.33
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTTCGAGACAAGT
Found at i:64252142 original size:16 final size:16
Alignment explanation
Indices: 64252123--64252158 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
64252113 GAATAATTTG
64252123 AATATTGATTGGTGTA
1 AATATTGATTGGTGTA
*
64252139 AATA-TGATTGTTGTA
1 AATATTGATTGGTGTA
64252154 AATAT
1 AATAT
64252159 CAAATTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.36, C:0.00, G:0.19, T:0.44
Consensus pattern (16 bp):
AATATTGATTGGTGTA
Found at i:64253332 original size:16 final size:15
Alignment explanation
Indices: 64253310--64253352 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
64253300 CACTATTAAT
64253310 TTAAAATTTTATAAA
1 TTAAAATTTTATAAA
** *
64253325 TTATAAATAGTCTAAA
1 TTA-AAATTTTATAAA
64253341 TTAAAATTTTAT
1 TTAAAATTTTAT
64253353 TATTTTAGGG
Statistics
Matches: 21, Mismatches: 6, Indels: 2
0.72 0.21 0.07
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
TTAAAATTTTATAAA
Found at i:64260121 original size:24 final size:24
Alignment explanation
Indices: 64260088--64260141 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
64260078 TTCTTTGTCC
* *
64260088 TTTTTCATTTTTTTTCTTTTTAAG
1 TTTTTCATTTATTTACTTTTTAAG
64260112 TCTTTT-ATTTATTTACTTTTTAAG
1 T-TTTTCATTTATTTACTTTTTAAG
64260136 TTTTTC
1 TTTTTC
64260142 TTAATTTGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
23 4 0.15
24 18 0.69
25 4 0.15
ACGTcount: A:0.15, C:0.09, G:0.04, T:0.72
Consensus pattern (24 bp):
TTTTTCATTTATTTACTTTTTAAG
Found at i:64260148 original size:23 final size:24
Alignment explanation
Indices: 64260103--64260148 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
64260093 CATTTTTTTT
*
64260103 CTTTTTAAGTCTTTTATTTATTTA
1 CTTTTTAAGTCTTTTATTAATTTA
*
64260127 CTTTTTAAGT-TTTTCTTAATTT
1 CTTTTTAAGTCTTTTATTAATTT
64260149 GTCCTTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.20, C:0.09, G:0.04, T:0.67
Consensus pattern (24 bp):
CTTTTTAAGTCTTTTATTAATTTA
Found at i:64260171 original size:13 final size:13
Alignment explanation
Indices: 64260153--64260179 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
64260143 TAATTTGTCC
64260153 TTTATTTATTTAT
1 TTTATTTATTTAT
64260166 TTTATTTATTTAT
1 TTTATTTATTTAT
64260179 T
1 T
64260180 ATTGGTTTTT
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:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTATTTATTTAT
Found at i:64260264 original size:22 final size:24
Alignment explanation
Indices: 64260217--64260262 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
64260207 ATTAGAAATG
64260217 TTTTACAATATTACTTTTTTAAAA
1 TTTTACAATATTACTTTTTTAAAA
64260241 TTTTA-AATATATA-TTTTTTAAA
1 TTTTACAATAT-TACTTTTTTAAA
64260263 TTAGTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (24 bp):
TTTTACAATATTACTTTTTTAAAA
Found at i:64260291 original size:21 final size:21
Alignment explanation
Indices: 64260262--64260324 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
64260252 TATTTTTTAA
*
64260262 ATTAGTTTTTTAAA-TTTAAAT
1 ATTA-TTTTTAAAATTTTAAAT
64260283 ATTATTTTTAAAATTTTAAAT
1 ATTATTTTTAAAATTTTAAAT
64260304 A-TA--TTT-AAATATTTAAAT
1 ATTATTTTTAAAAT-TTTAAAT
64260322 ATT
1 ATT
64260325 TGATGGAGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
17 4 0.11
18 11 0.29
19 1 0.03
20 10 0.26
21 12 0.32
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
ATTATTTTTAAAATTTTAAAT
Found at i:64260301 original size:8 final size:9
Alignment explanation
Indices: 64260288--64260325 Score: 53
Period size: 8 Copynumber: 4.3 Consensus size: 9
64260278 TAAATATTAT
64260288 TTTTAAA-A
1 TTTTAAATA
64260296 TTTTAAATA
1 TTTTAAATA
64260305 TATTTAAATA
1 T-TTTAAATA
64260315 -TTTAAATA
1 TTTTAAATA
64260323 TTT
1 TTT
64260326 GATGGAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 15 0.56
9 4 0.15
10 8 0.30
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
TTTTAAATA
Found at i:64264337 original size:23 final size:23
Alignment explanation
Indices: 64264310--64264387 Score: 77
Period size: 25 Copynumber: 3.3 Consensus size: 23
64264300 TAATTCTTTG
* * *
64264310 TCCTTTTTCATTTTTTTTGTTTT
1 TCCTTTTTAAGTTTTTTTTTTTT
64264333 TCC-TTTTAAGTTTTTTTCTTTATT
1 TCCTTTTTAAGTTTTTTT-TTT-TT
*
64264357 TACTTTTTAAGTTTTTTTTAATTTT
1 TCCTTTTTAAGTTTTTTTT--TTTT
64264382 TCCTTT
1 TCCTTT
64264388 ATTTATTTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
22 12 0.27
23 5 0.11
24 5 0.11
25 21 0.47
26 2 0.04
ACGTcount: A:0.12, C:0.12, G:0.04, T:0.73
Consensus pattern (23 bp):
TCCTTTTTAAGTTTTTTTTTTTT
Found at i:64264402 original size:47 final size:47
Alignment explanation
Indices: 64264312--64264404 Score: 111
Period size: 47 Copynumber: 2.0 Consensus size: 47
64264302 ATTCTTTGTC
* * *
64264312 CTTTTTCATTTTTTTTGTTTTTCCTTTTAAGTTTTTTTCTTTATTTA
1 CTTTTTAATTTTTTTTATTTTTCCTTTTAAGTTTTTTTATTTATTTA
64264359 CTTTTTAAGTTTTTTTTAATTTTTCC-TTT-A-TTTATTTTATTTATTT
1 CTTTTTAA-TTTTTTTT-ATTTTTCCTTTTAAGTTT-TTTTATTTATTT
64264405 GTTTATTATT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
46 3 0.08
47 19 0.47
48 11 0.28
49 7 0.17
ACGTcount: A:0.14, C:0.09, G:0.03, T:0.74
Consensus pattern (47 bp):
CTTTTTAATTTTTTTTATTTTTCCTTTTAAGTTTTTTTATTTATTTA
Found at i:64264498 original size:36 final size:35
Alignment explanation
Indices: 64264449--64264527 Score: 106
Period size: 36 Copynumber: 2.2 Consensus size: 35
64264439 ATTAGAAATG
* *
64264449 TTTTATAATATTA-TTTTTTAAAATCTTAAACATATA
1 TTTTTTAAAATTATTTTTTTAAAAT-TTAAA-ATATA
*
64264485 TTTTTTAAAATTATTTTTTTAAAATTTTAAATATA
1 TTTTTTAAAATTATTTTTTTAAAATTTAAAATATA
64264520 TTTTTTAA
1 TTTTTTAA
64264528 TAATATAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
35 13 0.33
36 15 0.38
37 11 0.28
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (35 bp):
TTTTTTAAAATTATTTTTTTAAAATTTAAAATATA
Found at i:64264637 original size:21 final size:22
Alignment explanation
Indices: 64264599--64264657 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
64264589 TTTTATAGTA
*
64264599 TTTTAAATGTATATTT-TAAAAT
1 TTTTAAATATATATTTAT-AAAT
**
64264621 TTTTAAATATATATTTATTTAT
1 TTTTAAATATATATTTATAAAT
64264643 TTTTAAATATA-ATTT
1 TTTTAAATATATATTT
64264658 TTTAAATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 4 0.12
22 28 0.85
23 1 0.03
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
TTTTAAATATATATTTATAAAT
Found at i:64264672 original size:15 final size:14
Alignment explanation
Indices: 64264642--64264679 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
64264632 TATTTATTTA
64264642 TTTTTAAATATAAT
1 TTTTTAAATATAAT
*
64264656 TTTTTAAATAATGAT
1 TTTTTAAAT-ATAAT
64264671 TTTTTAAAT
1 TTTTTAAAT
64264680 TATTTTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (14 bp):
TTTTTAAATATAAT
Found at i:64264826 original size:15 final size:18
Alignment explanation
Indices: 64264787--64264822 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
64264777 ATAAAAACTA
64264787 ATTTATTTGTTAAAAAAAG
1 ATTTATTTGTT-AAAAAAG
64264806 ATTTATTTGTTAAAAAA
1 ATTTATTTGTTAAAAAA
64264823 TTATGGCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.44
Consensus pattern (18 bp):
ATTTATTTGTTAAAAAAG
Found at i:64264882 original size:21 final size:23
Alignment explanation
Indices: 64264834--64264887 Score: 67
Period size: 21 Copynumber: 2.4 Consensus size: 23
64264824 TATGGCTTTT
64264834 TTAAAAATATATATATTAAAAAA
1 TTAAAAATATATATATTAAAAAA
* * *
64264857 ATAAAAAT-T-TATATTAGAAAG
1 TTAAAAATATATATATTAAAAAA
64264878 TTAAAAATAT
1 TTAAAAATAT
64264888 CTATTATAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 17 0.65
22 2 0.08
23 7 0.27
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (23 bp):
TTAAAAATATATATATTAAAAAA
Found at i:64265111 original size:15 final size:14
Alignment explanation
Indices: 64265080--64265117 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
64265070 GAGTAAGTTA
64265080 TTTATAGTTTTTAT
1 TTTATAGTTTTTAT
*
64265094 TTTATATTTTTATAT
1 TTTATAGTTTT-TAT
64265109 TTTATAGTT
1 TTTATAGTT
64265118 ATTGTAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (14 bp):
TTTATAGTTTTTAT
Found at i:64270884 original size:23 final size:22
Alignment explanation
Indices: 64270852--64270894 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
64270842 AAATTTTAAA
64270852 AATTTAAATATAATTTAAAAAAG
1 AATTTAAATAT-ATTTAAAAAAG
* *
64270875 AATTTGAATATCTTTAAAAA
1 AATTTAAATATATTTAAAAA
64270895 TAATTTTAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (22 bp):
AATTTAAATATATTTAAAAAAG
Found at i:64271035 original size:21 final size:21
Alignment explanation
Indices: 64271009--64271077 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
64270999 TTATAATATT
*
64271009 AAAAAATTATATTTAAAATTG
1 AAAAAATTATATTTAAAATTA
* * *
64271030 AAAAAATAATATTTAAATTTT
1 AAAAAATTATATTTAAAATTA
64271051 AAAAAA-TATATTTAAAATTA
1 AAAAAATTATATTTAAAATTA
64271071 AAAAAAT
1 AAAAAAT
64271078 ACTCACATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.41
21 24 0.59
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.36
Consensus pattern (21 bp):
AAAAAATTATATTTAAAATTA
Found at i:64271061 original size:41 final size:43
Alignment explanation
Indices: 64270998--64271078 Score: 130
Period size: 41 Copynumber: 1.9 Consensus size: 43
64270988 TTTTAAATGT
*
64270998 TTTATAATATTAAAAAATTATATTTAAAATTGAAAAAATAATA
1 TTTATAATATTAAAAAATTATATTTAAAATTAAAAAAATAATA
*
64271041 TTTA-AATTTTAAAAAA-TATATTTAAAATTAAAAAAATA
1 TTTATAATATTAAAAAATTATATTTAAAATTAAAAAAATA
64271079 CTCACATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 21 0.58
42 11 0.31
43 4 0.11
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (43 bp):
TTTATAATATTAAAAAATTATATTTAAAATTAAAAAAATAATA
Found at i:64271075 original size:20 final size:20
Alignment explanation
Indices: 64271006--64271078 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
64270996 GTTTTATAAT
*
64271006 ATTAAAAAATTATATTTAAA
1 ATTAAAAAAATATATTTAAA
*
64271026 ATTGAAAAAATAATATTTAAA
1 ATTAAAAAAAT-ATATTTAAA
* *
64271047 TTTTAAAAAATATATTTAAA
1 ATTAAAAAAATATATTTAAA
64271067 ATTAAAAAAATA
1 ATTAAAAAAATA
64271079 CTCACATTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
20 28 0.61
21 18 0.39
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (20 bp):
ATTAAAAAAATATATTTAAA
Found at i:64273093 original size:3 final size:3
Alignment explanation
Indices: 64273085--64273114 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
64273075 TAACAAGTAA
64273085 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
64273115 AATATAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:64273751 original size:24 final size:25
Alignment explanation
Indices: 64273717--64273780 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
64273707 GATTTAGGTA
*
64273717 ATTTTGAATTTTATAAGATATAAAT-
1 ATTTT-AATTTTATAAGAAATAAATC
* *
64273742 ATTTTAATTTTGA-ATGAAATAATTC
1 ATTTTAATTTT-ATAAGAAATAAATC
64273767 ATTTTAATTTTATA
1 ATTTTAATTTTATA
64273781 CAATGATAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
24 15 0.45
25 18 0.55
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.52
Consensus pattern (25 bp):
ATTTTAATTTTATAAGAAATAAATC
Found at i:64274109 original size:27 final size:28
Alignment explanation
Indices: 64274061--64274114 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 28
64274051 AAACCCAAAT
* * * *
64274061 AATATACTCATTATTACCCAAA-CTCAA
1 AATAAACTAATTATAACACAAATCTCAA
64274088 AATAAACTAATTATAACACAAATCTCA
1 AATAAACTAATTATAACACAAATCTCA
64274115 TGTCCAAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
27 18 0.82
28 4 0.18
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (28 bp):
AATAAACTAATTATAACACAAATCTCAA
Found at i:64275079 original size:16 final size:17
Alignment explanation
Indices: 64275058--64275090 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
64275048 ATAATTATAG
64275058 TATTAAA-AATATTTTA
1 TATTAAATAATATTTTA
64275074 TATTAAATTAATATTTT
1 TATTAAA-TAATATTTT
64275091 TAAAAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTAAATAATATTTTA
Found at i:64275096 original size:30 final size:33
Alignment explanation
Indices: 64275043--64275120 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 33
64275033 ATTTTTAGTA
* *
64275043 TATATATAATT-ATAGTATTAAAAA-TATTTTA-
1 TATATA-AATTAATATTTTTAAAAATTATTTTAT
64275074 TAT-TAAATTAATATTTTTAAAAATTTATTTTAT
1 TATATAAATTAATATTTTTAAAAA-TTATTTTAT
*
64275107 TATATAATTTAATA
1 TATATAAATTAATA
64275121 GAAAAATTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
29 4 0.10
30 13 0.33
31 3 0.08
32 7 0.18
33 3 0.08
34 9 0.23
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (33 bp):
TATATAAATTAATATTTTTAAAAATTATTTTAT
Found at i:64277572 original size:51 final size:51
Alignment explanation
Indices: 64277494--64277627 Score: 157
Period size: 51 Copynumber: 2.6 Consensus size: 51
64277484 ACAGATACCC
* * * *
64277494 AGTGGCCTGCACATAGTACCACCCTTGT-AGTCAAAGCTACTTTCTTCACA-A-
1 AGTGGCCTGCACATAGTACCACACTTGTGA-TCAAAACCA-TCTCTT-ACATAT
*
64277545 AGTGGCCTTCACATAGTACCACACTTGTGATCAAAACCATCTCTTACATAT
1 AGTGGCCTGCACATAGTACCACACTTGTGATCAAAACCATCTCTTACATAT
* *
64277596 AGTGGCCTGCACTTAGTACCACACATGTGATC
1 AGTGGCCTGCACATAGTACCACACTTGTGATC
64277628 GAAGCTATCG
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
49 3 0.04
50 6 0.08
51 62 0.86
52 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (51 bp):
AGTGGCCTGCACATAGTACCACACTTGTGATCAAAACCATCTCTTACATAT
Found at i:64277716 original size:50 final size:51
Alignment explanation
Indices: 64277594--64277775 Score: 141
Period size: 50 Copynumber: 3.6 Consensus size: 51
64277584 TCTCTTACAT
* * * * * * * * ** *
64277594 ATAGTGGCCTGCACTTAGTACCACACATGTGATCGAAGCTATCGGGCACGC
1 ATAGTAGCCTGCACTTAGTACTACACATGCGACCTAAACCATCTGAAACAC
* * * ** *
64277645 ATAATAGCTTGCACTTGGTACTACACATGCGACCT-AACCATCTGGTACAT
1 ATAGTAGCCTGCACTTAGTACTACACATGCGACCTAAACCATCTGAAACAC
* * * * *
64277695 GTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAACCATTTTAAACAC
1 ATAGTAGCCTGCACTTAGTACTACACATGCGACCT-AAACCATCTGAAACAC
*
64277747 ATAGTAGCCTGCACATAGTACTACACATG
1 ATAGTAGCCTGCACTTAGTACTACACATG
64277776 TGTTCTCACA
Statistics
Matches: 101, Mismatches: 28, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
50 38 0.38
51 27 0.27
52 36 0.36
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (51 bp):
ATAGTAGCCTGCACTTAGTACTACACATGCGACCTAAACCATCTGAAACAC
Found at i:64284704 original size:17 final size:19
Alignment explanation
Indices: 64284677--64284712 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
64284667 CCAATTGGGC
64284677 CGTGTTGGG-CCACACGGG
1 CGTGTTGGGCCCACACGGG
64284695 CGTG-TGGGCCCACACGGG
1 CGTGTTGGGCCCACACGGG
64284713 TAGGCCACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.11, C:0.31, G:0.44, T:0.14
Consensus pattern (19 bp):
CGTGTTGGGCCCACACGGG
Found at i:64285129 original size:40 final size:38
Alignment explanation
Indices: 64285065--64285147 Score: 105
Period size: 40 Copynumber: 2.1 Consensus size: 38
64285055 GTACCTTATA
* * *
64285065 GTGTGTAGGGATGGATGGGTTGATTTTATCTCCATACATG
1 GTGTGCAGGGATGGATGGGCTGATTTTATC-CC-CACATG
64285105 GTGTGCAGGGATAGG-TGGGCTGATTTTATCCCCACATG
1 GTGTGCAGGGAT-GGATGGGCTGATTTTATCCCCACATG
64285143 GTGTG
1 GTGTG
64285148 TTCAGTTGGA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
38 10 0.26
39 2 0.05
40 25 0.64
41 2 0.05
ACGTcount: A:0.18, C:0.13, G:0.35, T:0.34
Consensus pattern (38 bp):
GTGTGCAGGGATGGATGGGCTGATTTTATCCCCACATG
Found at i:64291303 original size:13 final size:13
Alignment explanation
Indices: 64291285--64291323 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
64291275 GGACTTCTTT
64291285 ACACGGGCGTGTC
1 ACACGGGCGTGTC
64291298 ACACGGGCGTGTC
1 ACACGGGCGTGTC
*
64291311 ACACGGTCGTGTC
1 ACACGGGCGTGTC
64291324 CATTTCGCAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.15, C:0.31, G:0.36, T:0.18
Consensus pattern (13 bp):
ACACGGGCGTGTC
Found at i:64297596 original size:399 final size:399
Alignment explanation
Indices: 64296841--64298431 Score: 2783
Period size: 399 Copynumber: 4.0 Consensus size: 399
64296831 GAACAAATTG
*
64296841 CTTAGTTATGTTTTGTTCTTCTAAATATTCAACTTGTTCATAAAAAAAAAAACAATACTTACATA
1 CTTAGTTATGTTTTGTTCTTCTAAATATTCGACTTGTTCAT---AAAAAAAACAATACTTACATA
* *
64296906 TATATTAGTAGTAATTCGTCATTTTTGAGCTTGAGTGTTAATTCCATATTCTGAGAAGAAGCTCA
63 CATATTAGTAGTAATTCGTCATTTTTGAGCTTGAGTGTTAATTCCATATTCTGAGAAAAAGCTCA
* *
64296971 CTTGTATTCAACTAATGACTAGTTATTTTTCTAGCTAGGTAATTTTTCAATTCAATATCGATTCT
128 CTTGTATTCAACTGATGACTAGTTATTTTTCTAGCTAGGTAATTTTTCAATTCAATCTCGATTCT
* * *
64297036 AACATCTTCTTTTAGCTTGTTACCACACCTCCTAACCAAAGCCACGTTACAACCCTCTAAAAGAC
193 AACATCTTCTTTCAGCTTGTGACCACACCCCCTAACCAAAGCCACGTTACAACCCTCTAAAAGAC
64297101 CTTTTTGATTGATGTATCAGCTCAATATATAGTGGTGGAGATTTGATTTTCAAGCAAGCTTATGG
258 CTTTTTGATTGATGTATCAGCTCAATATATAGTGGTGGAGATTTGATTTTCAAGCAAGCTTATGG
*
64297166 TAATAACTTTTCAAATTGACTAATGAGTGCTTTAATTGATGTCCTTAAACACCTTGAGTGATTTG
323 TAATAACTTTTCATATTGACTAATGAGTGCTTTAATTGATGTCCTTAAACACCTTGAGTGATTTG
64297231 AGTGAAACAATA
388 AGTGAAACAATA
*
64297243 ATTAGTTATGTTTTGTTCTTCTAAATATTCGACTTGTTCATAAAAAAAAACAATACTTACATACA
1 CTTAGTTATGTTTTGTTCTTCTAAATATTCGACTTGTTCAT-AAAAAAAACAATACTTACATACA
* * *
64297308 TATTAGTAATAATTCGTCACTTTTGAGCTTGAGTGTCAATTCCATATTCTGAGAAAAAGCTCACT
65 TATTAGTAGTAATTCGTCATTTTTGAGCTTGAGTGTTAATTCCATATTCTGAGAAAAAGCTCACT
*
64297373 TGTATTCAACTGATGACTAGTTATTTTTCTAGCCAGGTAATTTTTCAATTCAATCTCGATTCTAA
130 TGTATTCAACTGATGACTAGTTATTTTTCTAGCTAGGTAATTTTTCAATTCAATCTCGATTCTAA
*
64297438 CATCTTCTTTCAGCTTGTGACTACACCCCCTAA-CAAAGCCACGTTACAACCCTCTAAAAGACCT
195 CATCTTCTTTCAGCTTGTGACCACACCCCCTAACCAAAGCCACGTTACAACCCTCTAAAAGACCT
*
64297502 TTTTGATTGATGTATTAGCTCAATATATAGTGGTGGAGATTTGATTTTCCAA-CAAGCTTATGGT
260 TTTTGATTGATGTATCAGCTCAATATATAGTGGTGGAGATTTGATTTT-CAAGCAAGCTTATGGT
*
64297566 AATAAATTTTCA-ATTTGACTAATGAGTGCTTTAATTGATGTCCTTAAACACCTTGAGTGATTTG
324 AATAACTTTTCATA-TTGACTAATGAGTGCTTTAATTGATGTCCTTAAACACCTTGAGTGATTTG
64297630 AGTGAAACAATA
388 AGTGAAACAATA
*
64297642 CTTAGTTATGTTTTGTTCTTCTAAATATTCGACTTGTTCATAAAAAAAACAATATTTACATACAT
1 CTTAGTTATGTTTTGTTCTTCTAAATATTCGACTTGTTCATAAAAAAAACAATACTTACATACAT
* * *
64297707 AGTAGTAGTAATTCGTCATTTTTGAGCTTGAGTGTTAATTTCATATTCTGAGAAGAAGCTCACTT
66 ATTAGTAGTAATTCGTCATTTTTGAGCTTGAGTGTTAATTCCATATTCTGAGAAAAAGCTCACTT
* * * *
64297772 ATATTCAACTGATGGCTAGTTATTTTTCTAGCTAGGTAATTTTTTAATTCAATCTTGATTCTAAC
131 GTATTCAACTGATGACTAGTTATTTTTCTAGCTAGGTAATTTTTCAATTCAATCTCGATTCTAAC
* * *
64297837 ATCTTCTTTCATCTTGTGACCATACCCCCTAACCAAAGCCACGTTACAACCATCTAAAAGACCTT
196 ATCTTCTTTCAGCTTGTGACCACACCCCCTAACCAAAGCCACGTTACAACCCTCTAAAAGACCTT
64297902 TTTGATTGATGTATCAGCTCAATATATAGTGGTGGAGATTTGATTTTCAAGCAAGCTTATGGTAA
261 TTTGATTGATGTATCAGCTCAATATATAGTGGTGGAGATTTGATTTTCAAGCAAGCTTATGGTAA
64297967 TAACTTTTCATATTGACTAATGAGTGCTTTAATTGATGTCCTTAAACACCTTGAGTGATTTGAGT
326 TAACTTTTCATATTGACTAATGAGTGCTTTAATTGATGTCCTTAAACACCTTGAGTGATTTGAGT
64298032 GAAACAATA
391 GAAACAATA
64298041 CTTAGTTATGTTTTGTTCTTCTAAATATTCGACTTGTTCATAAAAAAAACAATACTTACATACAT
1 CTTAGTTATGTTTTGTTCTTCTAAATATTCGACTTGTTCATAAAAAAAACAATACTTACATACAT
*
64298106 ATTAGTAGTAATTCGTCATTTTTGAGCTTGAGTGTTAATTCCATATTCTGAGAAAAAGATCACTT
66 ATTAGTAGTAATTCGTCATTTTTGAGCTTGAGTGTTAATTCCATATTCTGAGAAAAAGCTCACTT
*
64298171 GTATTCAATTGATGACTAGTTATTTTTCTAGCTAGGTAATTTTTCAATTCAATCTCGATTCTAAC
131 GTATTCAACTGATGACTAGTTATTTTTCTAGCTAGGTAATTTTTCAATTCAATCTCGATTCTAAC
* * *
64298236 ATCTTCTTTTAGCTTGTGACCACACCCCCTAACCAAATCCACGTTACAACCTTCTAAAAGACCTT
196 ATCTTCTTTCAGCTTGTGACCACACCCCCTAACCAAAGCCACGTTACAACCCTCTAAAAGACCTT
* *
64298301 TTTGATTGATGTATCAGCTCAATATATAGTGGTAGAAATTTGATTTTCAAGCAAGCTTATGGTAA
261 TTTGATTGATGTATCAGCTCAATATATAGTGGTGGAGATTTGATTTTCAAGCAAGCTTATGGTAA
*
64298366 TAACTTTTCATATTGACTAATGAGTGCTTTAATTGATGTCCTTAAACACCTTGAGTGATTTAAGT
326 TAACTTTTCATATTGACTAATGAGTGCTTTAATTGATGTCCTTAAACACCTTGAGTGATTTGAGT
64298431 G
391 G
64298432 TATCTCTAGT
Statistics
Matches: 1131, Mismatches: 53, Indels: 13
0.94 0.04 0.01
Matches are distributed among these distances:
398 175 0.15
399 738 0.65
400 179 0.16
402 39 0.03
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (399 bp):
CTTAGTTATGTTTTGTTCTTCTAAATATTCGACTTGTTCATAAAAAAAACAATACTTACATACAT
ATTAGTAGTAATTCGTCATTTTTGAGCTTGAGTGTTAATTCCATATTCTGAGAAAAAGCTCACTT
GTATTCAACTGATGACTAGTTATTTTTCTAGCTAGGTAATTTTTCAATTCAATCTCGATTCTAAC
ATCTTCTTTCAGCTTGTGACCACACCCCCTAACCAAAGCCACGTTACAACCCTCTAAAAGACCTT
TTTGATTGATGTATCAGCTCAATATATAGTGGTGGAGATTTGATTTTCAAGCAAGCTTATGGTAA
TAACTTTTCATATTGACTAATGAGTGCTTTAATTGATGTCCTTAAACACCTTGAGTGATTTGAGT
GAAACAATA
Found at i:64301379 original size:40 final size:40
Alignment explanation
Indices: 64301324--64301401 Score: 122
Period size: 40 Copynumber: 1.9 Consensus size: 40
64301314 TGCAGTACCT
* *
64301324 TATGGTGTGTAGGGAT-AGATGGGTCGATTTTATCCCCATA
1 TATGGTGTGCAGGGATGAG-TGGGTCAATTTTATCCCCATA
64301364 TATGGTGTGCAGGGATGAGTGGGTCAATTTTATCCCCA
1 TATGGTGTGCAGGGATGAGTGGGTCAATTTTATCCCCA
64301402 CATGGTGTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 33 0.94
41 2 0.06
ACGTcount: A:0.22, C:0.14, G:0.31, T:0.33
Consensus pattern (40 bp):
TATGGTGTGCAGGGATGAGTGGGTCAATTTTATCCCCATA
Found at i:64304934 original size:20 final size:20
Alignment explanation
Indices: 64304900--64304946 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
64304890 GCATCGATGA
64304900 TGCATAATAGAGGCATCAAAG
1 TGCA-AATAGAGGCATCAAAG
*
64304921 TGCAAATAGGGGCATCAAAG
1 TGCAAATAGAGGCATCAAAG
64304941 TGCAAA
1 TGCAAA
64304947 CCCGTACAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 21 0.84
21 4 0.16
ACGTcount: A:0.43, C:0.15, G:0.26, T:0.17
Consensus pattern (20 bp):
TGCAAATAGAGGCATCAAAG
Found at i:64305408 original size:14 final size:15
Alignment explanation
Indices: 64305389--64305423 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
64305379 CTATATAGTA
*
64305389 ATTAAATTCA-ATTT
1 ATTAAATTCACATGT
64305403 ATTAAATTCACATGT
1 ATTAAATTCACATGT
64305418 ATTAAA
1 ATTAAA
64305424 AATCAATTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.46, C:0.09, G:0.03, T:0.43
Consensus pattern (15 bp):
ATTAAATTCACATGT
Found at i:64307986 original size:20 final size:20
Alignment explanation
Indices: 64307934--64307987 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
64307924 ACAATAATTC
64307934 AAAA-AATTTTAAAATATTA
1 AAAATAATTTTAAAATATTA
* * *
64307953 AAAATAAATATAAATTATTA
1 AAAATAATTTTAAAATATTA
*
64307973 AAAATATTTTTAAAA
1 AAAATAATTTTAAAA
64307988 ATAAAATTTA
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
19 4 0.15
20 23 0.85
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAATAATTTTAAAATATTA
Found at i:64308961 original size:29 final size:29
Alignment explanation
Indices: 64308926--64308987 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
64308916 AAAACCAATT
64308926 CAATACCTTAATCTCATACCATACTATGC
1 CAATACCTTAATCTCATACCATACTATGC
64308955 CAATACCTTAATCTCATACCATACTATGC
1 CAATACCTTAATCTCATACCATACTATGC
64308984 CAAT
1 CAAT
64308988 TCATAATCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.35, C:0.31, G:0.03, T:0.31
Consensus pattern (29 bp):
CAATACCTTAATCTCATACCATACTATGC
Found at i:64309698 original size:47 final size:47
Alignment explanation
Indices: 64309628--64309758 Score: 176
Period size: 47 Copynumber: 2.8 Consensus size: 47
64309618 CTCAATCGAT
* *
64309628 AAGTACCTATACCATGGCCCGTAGCCAAATTAAGGTAACT-TATCCTG
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCT-TACTG
* *
64309675 GAGTACCTATACCATGGCCCGTAGCCAAATCAA-ATAACTCCTTACTG
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACT-CTTACTG
* *
64309722 AAATACCTATACCTTGGCCCGTAGCCAAATCAAGGTA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTA
64309759 TCACTCGCAC
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
46 5 0.07
47 65 0.89
48 3 0.04
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (47 bp):
AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCTTACTG
Found at i:64311568 original size:28 final size:26
Alignment explanation
Indices: 64311526--64311577 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 26
64311516 TTTCCCATGT
64311526 TTGATTGAAGCCAAAAATAAATAAAAAC
1 TTGATTGAAGCCAAAAA-AAA-AAAAAC
64311554 TTGATTGTAAG-CAAAAAAAAAAAA
1 TTGATTG-AAGCCAAAAAAAAAAAA
64311578 GATCGACTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 4 0.17
27 3 0.13
28 13 0.57
29 3 0.13
ACGTcount: A:0.60, C:0.08, G:0.12, T:0.21
Consensus pattern (26 bp):
TTGATTGAAGCCAAAAAAAAAAAAAC
Found at i:64313071 original size:20 final size:19
Alignment explanation
Indices: 64313034--64313110 Score: 57
Period size: 20 Copynumber: 3.9 Consensus size: 19
64313024 AACTTTTTGA
*
64313034 ATTTTTAACATAAATTTTAAT
1 ATTTTTAA-AT-ATTTTTAAT
64313055 ATTTTTTAAATATTTTTAAT
1 A-TTTTTAAATATTTTTAAT
* ** * *
64313075 AATTTATATTTACTTTTAAG
1 -ATTTTTAAATATTTTTAAT
64313095 ATTTTTAAAT-TTTTTA
1 ATTTTTAAATATTTTTA
64313111 GAATTATTAT
Statistics
Matches: 44, Mismatches: 10, Indels: 7
0.72 0.16 0.11
Matches are distributed among these distances:
18 5 0.11
19 7 0.16
20 21 0.48
21 4 0.09
22 7 0.16
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (19 bp):
ATTTTTAAATATTTTTAAT
Found at i:64316393 original size:17 final size:17
Alignment explanation
Indices: 64316371--64316410 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
64316361 TTTTAAAATT
64316371 TATTTTCAAT-TTTTTAA
1 TATTTT-AATATTTTTAA
*
64316388 TATTTTAATATTTTTAG
1 TATTTTAATATTTTTAA
64316405 TATTTT
1 TATTTT
64316411 GATGTATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.68
Consensus pattern (17 bp):
TATTTTAATATTTTTAA
Found at i:64316763 original size:22 final size:21
Alignment explanation
Indices: 64316737--64316779 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
64316727 TATCTTTTTT
64316737 ATATTAAAATT-TAATAATAATA
1 ATATT-AAATTATAAT-ATAATA
64316759 ATATTAAATTATAATATAATA
1 ATATTAAATTATAATATAATA
64316780 GTTTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
ATATTAAATTATAATATAATA
Found at i:64317168 original size:21 final size:20
Alignment explanation
Indices: 64317135--64317177 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
64317125 TTAATATGGT
64317135 ATTTGTACTTTGAAATATTCA
1 ATTTGTACTTTGAAATA-TCA
*
64317156 ATTTGATAC-TTGAACTATCA
1 ATTTG-TACTTTGAAATATCA
64317176 AT
1 AT
64317178 ATGTGCTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 5 0.25
21 12 0.60
22 3 0.15
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (20 bp):
ATTTGTACTTTGAAATATCA
Found at i:64317383 original size:20 final size:20
Alignment explanation
Indices: 64317358--64317408 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
64317348 TAATATTGCG
64317358 AGAAATCTAAA-TAAAATAAA
1 AGAAAT-TAAATTAAAATAAA
*
64317378 AGAAATTAAATTAAATTAAAA
1 AGAAATTAAATTAAAAT-AAA
*
64317399 AGTAATTAAA
1 AGAAATTAAA
64317409 CATATGGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 4 0.15
20 11 0.41
21 12 0.44
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (20 bp):
AGAAATTAAATTAAAATAAA
Found at i:64317854 original size:29 final size:29
Alignment explanation
Indices: 64317819--64317875 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
64317809 CCGCATTAAA
* *
64317819 CATTTTCAAGGTACAAGTATCACATTGGG
1 CATTTTCAAAGTACAAGTACCACATTGGG
* *
64317848 CATTTTCAAAGTATAAGTACCATATTGG
1 CATTTTCAAAGTACAAGTACCACATTGG
64317876 AAATATTATG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (29 bp):
CATTTTCAAAGTACAAGTACCACATTGGG
Found at i:64319028 original size:3 final size:3
Alignment explanation
Indices: 64319020--64319069 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
64319010 ATAAGAAGCA
64319020 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
64319068 AA
1 AA
64319070 TTCTAGAGTG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:64320788 original size:40 final size:42
Alignment explanation
Indices: 64320743--64320845 Score: 147
Period size: 40 Copynumber: 2.5 Consensus size: 42
64320733 ACTTGATATA
64320743 TGATTCGCATGTTAAGCATGCTCACTGTACTGA-T-TAAATC
1 TGATTCGCATGTTAAGCATGCTCACTGTACTGATTATAAATC
* * * * *
64320783 TGATTCGGATGTTAAGCATACTGACTGTATTGATTATAAATT
1 TGATTCGCATGTTAAGCATGCTCACTGTACTGATTATAAATC
64320825 TGATTCGCATGTTAAGCATGC
1 TGATTCGCATGTTAAGCATGC
64320846 CAACTGAAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
40 29 0.54
41 1 0.02
42 24 0.44
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (42 bp):
TGATTCGCATGTTAAGCATGCTCACTGTACTGATTATAAATC
Found at i:64321756 original size:14 final size:14
Alignment explanation
Indices: 64321737--64321777 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
64321727 CTACGACATT
64321737 TTCAAAGTAAAATG
1 TTCAAAGTAAAATG
64321751 TTCAAAGT--AA-G
1 TTCAAAGTAAAATG
64321762 TTCAAAGTAAAATG
1 TTCAAAGTAAAATG
64321776 TT
1 TT
64321778 TTCTTCAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
11 9 0.38
12 2 0.08
13 2 0.08
14 11 0.46
ACGTcount: A:0.46, C:0.07, G:0.15, T:0.32
Consensus pattern (14 bp):
TTCAAAGTAAAATG
Found at i:64322213 original size:15 final size:15
Alignment explanation
Indices: 64322193--64322246 Score: 72
Period size: 15 Copynumber: 3.6 Consensus size: 15
64322183 TCTTATATAC
*
64322193 TGAAACTTTAGATTG
1 TGAAACTATAGATTG
* *
64322208 TGAAACTATAGACTA
1 TGAAACTATAGATTG
*
64322223 TGAAACTATAGATAG
1 TGAAACTATAGATTG
64322238 TGAAACTAT
1 TGAAACTAT
64322247 GACTAAACTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.43, C:0.09, G:0.17, T:0.31
Consensus pattern (15 bp):
TGAAACTATAGATTG
Found at i:64322227 original size:30 final size:29
Alignment explanation
Indices: 64322193--64322251 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
64322183 TCTTATATAC
* *
64322193 TGAAACTTTAGATTGTGAAACTATAGACTA
1 TGAAACTATAGATAGTGAAACTAT-GACTA
64322223 TGAAACTATAGATAGTGAAACTATGACTA
1 TGAAACTATAGATAGTGAAACTATGACTA
64322252 AACTATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 5 0.19
30 22 0.81
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (29 bp):
TGAAACTATAGATAGTGAAACTATGACTA
Found at i:64329369 original size:52 final size:51
Alignment explanation
Indices: 64329311--64329445 Score: 146
Period size: 52 Copynumber: 2.6 Consensus size: 51
64329301 GACGGAAAAG
*
64329311 ATGTGATATGTGCTTCCATATAAGACCATAGCTGGGCTATGGCATAGATACA
1 ATGTGATATGTG-TTCCGTATAAGACCATAGCTGGGCTATGGCATAGATACA
* * * * **
64329363 ATGTGAT-TCGAGTTCCCGTATAAGACCATAGCTGGGCTATGGTATCGGTGTA
1 ATGTGATAT-GTGTT-CCGTATAAGACCATAGCTGGGCTATGGCATAGATACA
*
64329415 ATGCGATAATGTGATTCCGTATAAGACCATA
1 ATGTGAT-ATGTG-TTCCGTATAAGACCATA
64329446 TATGGGATAC
Statistics
Matches: 69, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
51 3 0.04
52 46 0.67
53 17 0.25
54 3 0.04
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (51 bp):
ATGTGATATGTGTTCCGTATAAGACCATAGCTGGGCTATGGCATAGATACA
Found at i:64333496 original size:47 final size:47
Alignment explanation
Indices: 64333442--64333856 Score: 596
Period size: 47 Copynumber: 8.6 Consensus size: 47
64333432 TATTTGAATA
64333442 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
64333489 AATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
64333540 AATGTGAGAGTGTATATATGTGATAAAGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
64333587 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
64333634 AATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCTGATGTGATG
1 AATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
64333685 AATGTGAGAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
64333736 AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
64333783 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
64333830 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
64333857 TCCCGAAGGG
Statistics
Matches: 340, Mismatches: 20, Indels: 16
0.90 0.05 0.04
Matches are distributed among these distances:
47 199 0.59
51 141 0.41
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:64333514 original size:51 final size:51
Alignment explanation
Indices: 64333454--64333801 Score: 558
Period size: 51 Copynumber: 7.1 Consensus size: 51
64333444 TGTGAAAGTG
64333454 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
64333505 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAGAGTG----
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
64333552 TATATATGTGATAAAGCCTAATGGCCGATGTGATGAATGTGAAAGCG----
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
64333599 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
64333650 TATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAGAGTGTATA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
64333701 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAGAGTG----
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
64333748 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
64333799 TAT
1 TAT
64333802 GTGACAGGGC
Statistics
Matches: 279, Mismatches: 10, Indels: 16
0.91 0.03 0.05
Matches are distributed among these distances:
47 135 0.48
51 144 0.52
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.31
Consensus pattern (51 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
Found at i:64333555 original size:98 final size:94
Alignment explanation
Indices: 64333442--64333856 Score: 596
Period size: 98 Copynumber: 4.3 Consensus size: 94
64333432 TATTTGAATA
64333442 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG----TA
64333507 TATATGTGATAAGGCCTAATGGCCGATGTGATG
62 TATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
64333540 AATGTGAGAGTGTATATATGTGATAAAGCCTAATGGCCGATGTGATGAATGTGAAAGCGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
64333605 TGTGATAAGGCCTAATGGCCGATGTGATG
66 TGTGATAAGGCCTAATGGCCGATGTGATG
* *
64333634 AATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAGAGTGTA
1 AATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--
64333699 TATATATATGTGATAAGGCCTAATGGCCGATGTGATG
60 --TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
64333736 AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * *
64333801 TGTGACAGGGCCGAGTGGCCAACGTGATG
66 TGTGATAAGGCCTAATGGCCGATGTGATG
* *
64333830 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
64333857 TCCCGAAGGG
Statistics
Matches: 289, Mismatches: 20, Indels: 20
0.88 0.06 0.06
Matches are distributed among these distances:
94 99 0.34
98 144 0.50
102 46 0.16
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (94 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:64333772 original size:196 final size:196
Alignment explanation
Indices: 64333454--64333845 Score: 685
Period size: 196 Copynumber: 2.0 Consensus size: 196
64333444 TGTGAAAGTG
64333454 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAA
64333519 GGCCTAATGGCCGATGTGATGAATGTGAGAGTGTATATATGTGATAAAGCCTAATGGCCGATGTG
66 GGCCTAATGGCCGATGTGATGAATGTGAGAGTGTATATATGTGATAAAGCCTAATGGCCGATGTG
* * * *
64333584 ATGAATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
131 ATGAATGTGAAAGCGTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTAT
64333649 A
196 A
* *
64333650 TATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAGAGTGTATATATATATGTGATAA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAA
*
64333715 GGCCTAATGGCCGATGTGATGAATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
66 GGCCTAATGGCCGATGTGATGAATGTGAGAGTGTATATATGTGATAAAGCCTAATGGCCGATGTG
* * * *
64333780 ATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTAT
131 ATGAATGTGAAAGCGTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTAT
64333845 A
196 A
64333846 AATGTGATAA
Statistics
Matches: 185, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
196 185 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.30
Consensus pattern (196 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAA
GGCCTAATGGCCGATGTGATGAATGTGAGAGTGTATATATGTGATAAAGCCTAATGGCCGATGTG
ATGAATGTGAAAGCGTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTAT
A
Found at i:64334031 original size:37 final size:37
Alignment explanation
Indices: 64333975--64334053 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
64333965 CCGAGCTCTA
* *
64333975 AAGACCCGATGACTACGTGTGG-GATTTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGA-TTATGTCCGGGT
*
64334012 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
64334049 AAGAC
1 AAGAC
64334054 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:64335569 original size:33 final size:33
Alignment explanation
Indices: 64335531--64335660 Score: 179
Period size: 33 Copynumber: 3.9 Consensus size: 33
64335521 GGATGAGTGG
*
64335531 GAGTGTTTGGTTGCTAGAGAGGAGCTGGAATGT
1 GAGTGTTTGGTTGCTAGACAGGAGCTGGAATGT
* * *
64335564 GAGTGTTTGGTTGTTGGACAGAAGCTGGAATGT
1 GAGTGTTTGGTTGCTAGACAGGAGCTGGAATGT
* *
64335597 GAGTGTTTGGTTGCTAGATAGGAGATGGAATGT
1 GAGTGTTTGGTTGCTAGACAGGAGCTGGAATGT
* * *
64335630 AAGTGTTTGGTTGCTGGACAGGAGCTAGAAT
1 GAGTGTTTGGTTGCTAGACAGGAGCTGGAAT
64335661 TTCAAGAAGA
Statistics
Matches: 83, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 83 1.00
ACGTcount: A:0.23, C:0.06, G:0.39, T:0.32
Consensus pattern (33 bp):
GAGTGTTTGGTTGCTAGACAGGAGCTGGAATGT
Found at i:64335607 original size:66 final size:66
Alignment explanation
Indices: 64335531--64335660 Score: 206
Period size: 66 Copynumber: 2.0 Consensus size: 66
64335521 GGATGAGTGG
* * * *
64335531 GAGTGTTTGGTTGCTAGAGAGGAGCTGGAATGTGAGTGTTTGGTTGTTGGACAGAAGCTGGAATG
1 GAGTGTTTGGTTGCTAGAGAGGAGATGGAATGTAAGTGTTTGGTTGCTGGACAGAAGCTAGAATG
64335596 T
66 T
* *
64335597 GAGTGTTTGGTTGCTAGATAGGAGATGGAATGTAAGTGTTTGGTTGCTGGACAGGAGCTAGAAT
1 GAGTGTTTGGTTGCTAGAGAGGAGATGGAATGTAAGTGTTTGGTTGCTGGACAGAAGCTAGAAT
64335661 TTCAAGAAGA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.23, C:0.06, G:0.39, T:0.32
Consensus pattern (66 bp):
GAGTGTTTGGTTGCTAGAGAGGAGATGGAATGTAAGTGTTTGGTTGCTGGACAGAAGCTAGAATG
T
Found at i:64348737 original size:3 final size:3
Alignment explanation
Indices: 64348729--64348766 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
64348719 TATTGTTTAC
64348729 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
64348767 CCGAGTCTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:64354363 original size:24 final size:25
Alignment explanation
Indices: 64354317--64354363 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
64354307 TACAGGGACC
64354317 AATTTTAACAGTAAAAATAAATTAA
1 AATTTTAACAGTAAAAATAAATTAA
* *
64354342 AATTTTAATAG-AAAAATTAATT
1 AATTTTAACAGTAAAAATAAATT
64354364 TATTCTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.36
Consensus pattern (25 bp):
AATTTTAACAGTAAAAATAAATTAA
Found at i:64356801 original size:27 final size:27
Alignment explanation
Indices: 64356762--64356939 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 27
64356752 ATGTTGAGCC
* *
64356762 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
64356789 CACACACTTAGTGCTACGTAATAAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
64356816 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
64356844 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
64356871 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
64356898 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
64356925 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
64356940 GTACAATTTA
Statistics
Matches: 124, Mismatches: 24, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:64356922 original size:54 final size:55
Alignment explanation
Indices: 64356762--64356939 Score: 182
Period size: 54 Copynumber: 3.3 Consensus size: 55
64356752 ATGTTGAGCC
* * * * * * * *
64356762 CGCACACTCAGTGCTATATAATC-AACTCACACACTTAGTGCTACGTAATAAAAT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
** * *
64356816 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
* **
64356871 CGCACACTTAGTGC-ATCATATTC-ATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
*
64356925 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
64356940 GTACAATTTA
Statistics
Matches: 102, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
54 59 0.58
55 43 0.42
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:64364808 original size:27 final size:27
Alignment explanation
Indices: 64364769--64364946 Score: 151
Period size: 27 Copynumber: 6.6 Consensus size: 27
64364759 ATGTTGAGCC
* *
64364769 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
64364796 CACACACTTAGTGCTACGTAATAAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
64364823 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
64364851 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
64364878 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
64364905 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
64364932 TGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
64364947 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 99 0.80
28 24 0.20
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:64374828 original size:40 final size:40
Alignment explanation
Indices: 64374773--64375168 Score: 575
Period size: 40 Copynumber: 9.9 Consensus size: 40
64374763 CTCGCCGATG
* *
64374773 ATCCGGGCTAAGTCCCAAAGAGCATTAGTGCTGGAGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTAGTGCTGGTGTTAT
64374813 ATCCGGGCTAAGTCCCGAAGAGCA-TACGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTA-GTGCTGGTGTTAT
*
64374853 ATTCGGGCTAAGTCCCGAAGAGCA-TACGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTA-GTGCTGGTGTTAT
*
64374893 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTAGTGCTGGTGTTAT
64374933 ATCCGGGCTAAGTCCCGAAGAGCA-TATGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTA-GTGCTGGTGTTAT
* *
64374973 ATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTAGTGCTGGTGTTAT
*
64375013 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTAGTGCTGGTGTTAT
* * * *
64375053 ATCCGGGCTAAGTCTCGAATAGCATTCGTGCTGGAGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTAGTGCTGGTGTTAT
** * *
64375093 ATCAAGGTTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTAGTGCTGGTGTTAT
* *
64375133 ATCTGGGCTAGGTCCCGAAGAGCATTCA-TGCTGGTG
1 ATCCGGGCTAAGTCCCGAAGAGCATT-AGTGCTGGTG
64375169 ATGTGTATTC
Statistics
Matches: 328, Mismatches: 23, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
39 3 0.01
40 323 0.98
41 2 0.01
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.28
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTAGTGCTGGTGTTAT
Found at i:64374986 original size:120 final size:120
Alignment explanation
Indices: 64374773--64375168 Score: 634
Period size: 120 Copynumber: 3.3 Consensus size: 120
64374763 CTCGCCGATG
* * *
64374773 ATCCGGGCTAAGTCCCAAAGAGCATTAGTGCTGGAGTTATATCCGGGCTAAGTCCCGAAGAGCAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGAGCAT
* *
64374838 ACGTGCTGGTGTTATAT-TCGGGCTAAGTCCCGAAGAGCATACGTGCTGGTGTTAT
66 ATGTGCTGGTGTTATATCT-GGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
64374893 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGAGCAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGAGCAT
64374958 ATGTGCTGGTGTTATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
66 ATGTGCTGGTGTTATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* *
64375013 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCTCGAATAGCAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGAGCAT
* ** *
64375078 -TCGTGCTGGAGTTATATCAAGGTTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
66 AT-GTGCTGGTGTTATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* * *
64375133 ATCTGGGCTAGGTCCCGAAGAGCATTCATGCTGGTG
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
64375169 ATGTGTATTC
Statistics
Matches: 260, Mismatches: 14, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
119 1 0.00
120 258 0.99
121 1 0.00
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.28
Consensus pattern (120 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGAGCAT
ATGTGCTGGTGTTATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
Found at i:64375382 original size:25 final size:25
Alignment explanation
Indices: 64375332--64375382 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
64375322 TGTGTAACAA
* *
64375332 CAAATGAATAGGGGCACTATGTGTG
1 CAAATGAATAGAGGCACTATGAGTG
*
64375357 CAAATGATTAGAGGCACTGA-GAGTG
1 CAAATGAATAGAGGCACT-ATGAGTG
64375382 C
1 C
64375383 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTATGAGTG
Found at i:64377560 original size:26 final size:26
Alignment explanation
Indices: 64377524--64377633 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
64377514 TGATACAAAT
*
64377524 TGATAAAAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
64377550 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
64377576 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
64377602 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
64377628 TGATAA
1 TGATAA
64377634 GAATTTCATG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:64383380 original size:26 final size:26
Alignment explanation
Indices: 64383344--64383453 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
64383334 TGATACAAAT
*
64383344 TGATAAAAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
64383370 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
64383396 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
64383422 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
64383448 TGATAA
1 TGATAA
64383454 GAATTTCATG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:64398386 original size:28 final size:28
Alignment explanation
Indices: 64398355--64398511 Score: 127
Period size: 28 Copynumber: 5.5 Consensus size: 28
64398345 CTGACTGATT
*
64398355 TCGCACACATAGCGCTCGATTAAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* * *
64398383 TCGCACACATAGTGCCTCAATTACCA-ATC
1 TCGCACACATAGTG-CTCGATTA-AAGAAC
* *
64398412 TCGGACACATAGTGCTCGATTGAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* * ** *
64398440 TCGCACACATAGTGCCTCAACTACTGATC
1 TCGCACACATAGTG-CTCGATTAAAGAAC
* * **
64398469 TGGCACACATAGTGCTCGGTTGGAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* *
64398497 TTGCACACACAGTGC
1 TCGCACACATAGTGC
64398512 CTCATAATTC
Statistics
Matches: 99, Mismatches: 26, Indels: 8
0.74 0.20 0.06
Matches are distributed among these distances:
27 1 0.01
28 54 0.55
29 43 0.43
30 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (28 bp):
TCGCACACATAGTGCTCGATTAAAGAAC
Found at i:64398419 original size:29 final size:29
Alignment explanation
Indices: 64398382--64398483 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 29
64398372 GATTAAAGAA
64398382 CTCGCACACATAGTGCCTCAATTACCAAT
1 CTCGCACACATAGTGCCTCAATTACCAAT
* * **
64398411 CTCGGACACATAGTG-CTCGATTGAAGAA-
1 CTCGCACACATAGTGCCTCAATT-ACCAAT
* **
64398439 CTCGCACACATAGTGCCTCAACTACTGAT
1 CTCGCACACATAGTGCCTCAATTACCAAT
*
64398468 CTGGCACACATAGTGC
1 CTCGCACACATAGTGC
64398484 TCGGTTGGAG
Statistics
Matches: 59, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
28 22 0.37
29 37 0.63
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (29 bp):
CTCGCACACATAGTGCCTCAATTACCAAT
Found at i:64398429 original size:57 final size:57
Alignment explanation
Indices: 64398357--64398515 Score: 221
Period size: 57 Copynumber: 2.8 Consensus size: 57
64398347 GACTGATTTC
* * *
64398357 GCACACATAGCGCTCGATTAAAGAACTCGCACACATAGTGCCTCAATTACCAATCTCG
1 GCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATCT-G
**
64398415 G-ACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACTGATCTG
1 GCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATCTG
* * * *
64398471 GCACACATAGTGCTCGGTTGGAGAACTTGCACACACAGTGCCTCA
1 GCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCA
64398516 TAATTCCAGC
Statistics
Matches: 91, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
56 2 0.02
57 88 0.97
58 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.21
Consensus pattern (57 bp):
GCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATCTG
Found at i:64398587 original size:40 final size:39
Alignment explanation
Indices: 64398543--64398676 Score: 214
Period size: 40 Copynumber: 3.4 Consensus size: 39
64398533 CCTTCGAGGT
64398543 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGG-AC
64398583 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAC
** *
64398622 TTAGCCTAGATACATCACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTC-GGAC
*
64398662 TTAGCTCGGATATAT
1 TTAGCCCGGATATAT
64398677 ATAACTCTCA
Statistics
Matches: 86, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
39 34 0.40
40 52 0.60
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (39 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAC
Found at i:64400211 original size:46 final size:46
Alignment explanation
Indices: 64400158--64400340 Score: 285
Period size: 46 Copynumber: 4.0 Consensus size: 46
64400148 TATATATACA
* * * *
64400158 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
64400204 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
64400250 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
*
64400296 CATCTCATACACATTTCGCATTAGCCATTCGACTTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
64400341 ATACACTTCC
Statistics
Matches: 128, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 128 1.00
ACGTcount: A:0.25, C:0.32, G:0.09, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:64400385 original size:47 final size:47
Alignment explanation
Indices: 64400314--64400544 Score: 284
Period size: 47 Copynumber: 5.1 Consensus size: 47
64400304 ACACATTTCG
* * * * * *
64400314 CATTAGCCATTCGACTTTACCACATATATACACT-TCCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCA-TGTTCACATTCATCA
*
64400361 CATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTCAT--
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
64400406 CA-----CATT-GG-CTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
64400446 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * *
64400493 CATTGGCCATTCGGCCTTCTCACACATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
64400540 CATTG
1 CATTG
64400545 AAATCCTAAA
Statistics
Matches: 163, Mismatches: 11, Indels: 20
0.84 0.06 0.10
Matches are distributed among these distances:
38 30 0.18
39 1 0.01
40 6 0.04
45 6 0.04
46 3 0.02
47 117 0.72
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.34
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:64400418 original size:38 final size:38
Alignment explanation
Indices: 64400376--64400499 Score: 158
Period size: 38 Copynumber: 3.0 Consensus size: 38
64400366 GCCATTCTGC
64400376 CTTATCACATATATGCATGTTCACATTCATCACATTGG
1 CTTATCACATATATGCATGTTCACATTCATCACATTGG
64400414 CTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGG
1 CTTATCACATATATGCATGTTCACATTCAT--CA-----CATT-GG
*
64400460 CCTTATCACACATATGCATGTTCACATTCATCACATTGG
1 -CTTATCACATATATGCATGTTCACATTCATCACATTGG
64400499 C
1 C
64400500 CATTCGGCCT
Statistics
Matches: 76, Mismatches: 1, Indels: 18
0.80 0.01 0.19
Matches are distributed among these distances:
38 31 0.41
39 2 0.03
40 6 0.08
45 6 0.08
46 2 0.03
47 29 0.38
ACGTcount: A:0.27, C:0.27, G:0.11, T:0.35
Consensus pattern (38 bp):
CTTATCACATATATGCATGTTCACATTCATCACATTGG
Found at i:64403174 original size:19 final size:19
Alignment explanation
Indices: 64403150--64403191 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
64403140 TGTCACAAAG
*
64403150 TTTATTTCCATTT-AAAATA
1 TTTATTTCC-TTTGAAAACA
64403169 TTTATTTCCTTTGAAAACA
1 TTTATTTCCTTTGAAAACA
64403188 TTTA
1 TTTA
64403192 CGTTGCGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.33, C:0.12, G:0.02, T:0.52
Consensus pattern (19 bp):
TTTATTTCCTTTGAAAACA
Found at i:64403661 original size:60 final size:60
Alignment explanation
Indices: 64403583--64403719 Score: 163
Period size: 60 Copynumber: 2.3 Consensus size: 60
64403573 CAAAGTTAAC
* *
64403583 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCC-CTTAC-AGTATC-AGAGTATAT
1 TGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAG--TCGAGA-TATAT
* * *
64403644 TGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTCGCCCTATTACAAGTCGAGATATAT
1 TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTCGAGATATAT
*
64403704 TGGGCCTTGCCCATAT
1 TGGGCCTAGCCCATAT
64403720 TGACACAGTT
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
60 52 0.78
61 13 0.19
62 2 0.03
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.28
Consensus pattern (60 bp):
TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTCGAGATATAT
Found at i:64408193 original size:47 final size:47
Alignment explanation
Indices: 64408170--64408430 Score: 414
Period size: 47 Copynumber: 5.6 Consensus size: 47
64408160 ATATATGAGC
* * *
64408170 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGC
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
* * *
64408217 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGC
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
* *
64408264 TAAGGCCGAATGGCCAATGTGATGAGTGTGAACATGCATTTGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
* * *
64408311 TAAGACCGAATGGCCAATGTGATGAATGTGAACATGTATATATGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
64408358 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
*
64408405 TAAGGCTGAATGGCCAATGTGATGAA
1 TAAGGCCGAATGGCCAATGTGATGAA
64408431 CGTGGAAGTG
Statistics
Matches: 202, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 202 1.00
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.27
Consensus pattern (47 bp):
TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
Found at i:64408240 original size:94 final size:94
Alignment explanation
Indices: 64408139--64408450 Score: 446
Period size: 94 Copynumber: 3.3 Consensus size: 94
64408129 TTAGGATTTT
* * ** * *
64408139 ATGTGATGGATGCGAATGTGTATATATGAGCTAAGGCCGAATGGCAAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGTATATATGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* *
64408204 TGCATTTGTGTGCTAAGGCCGAATGGCAA
66 TGCATTTGTGTGATAAGGCCGAATGGCCA
* * * *
64408233 ATGTGATGAATGTGAACATGCATTTGTGTGCTAAGGCCGAATGGCCAATGTGATGAGTGTGAACA
1 ATGTGATGAATGTGAACATGTATATATGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACA
*
64408298 TGCATTTGTGTGATAAGACCGAATGGCCA
66 TGCATTTGTGTGATAAGGCCGAATGGCCA
*
64408327 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGTATATATGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* *
64408392 TGCATATGTGTGATAAGGCTGAATGGCCA
66 TGCATTTGTGTGATAAGGCCGAATGGCCA
* *
64408421 ATGTGATGAACGTGGAA-GTGTATATATGTG
1 ATGTGATGAATGT-GAACATGTATATATGTG
64408451 GGGAAGCCGA
Statistics
Matches: 194, Mismatches: 23, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
94 191 0.98
95 3 0.02
ACGTcount: A:0.31, C:0.11, G:0.30, T:0.28
Consensus pattern (94 bp):
ATGTGATGAATGTGAACATGTATATATGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGCATTTGTGTGATAAGGCCGAATGGCCA
Found at i:64408260 original size:23 final size:23
Alignment explanation
Indices: 64408187--64408260 Score: 55
Period size: 23 Copynumber: 3.2 Consensus size: 23
64408177 GAATGGCAAA
64408187 TGTGATGAATGTGAACATGCATT
1 TGTGATGAATGTGAACATGCATT
* * **
64408210 TGTG-TGCTAAGGCCG-A-ATGGCAAA
1 TGTGATG--AATG-TGAACAT-GCATT
64408234 TGTGATGAATGTGAACATGCATT
1 TGTGATGAATGTGAACATGCATT
64408257 TGTG
1 TGTG
64408261 TGCTAAGGCC
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 3 0.08
23 17 0.47
24 13 0.36
25 3 0.08
ACGTcount: A:0.28, C:0.11, G:0.30, T:0.31
Consensus pattern (23 bp):
TGTGATGAATGTGAACATGCATT
Found at i:64412212 original size:19 final size:19
Alignment explanation
Indices: 64412177--64412214 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
64412167 TTGTATTGAA
*
64412177 TGTTGTCGAAATTAATGAT
1 TGTTGTCGAAATGAATGAT
64412196 TGTTGCTCG-AATGAATGAT
1 TGTTG-TCGAAATGAATGAT
64412215 GACCCATGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.29, C:0.08, G:0.24, T:0.39
Consensus pattern (19 bp):
TGTTGTCGAAATGAATGAT
Found at i:64413720 original size:20 final size:22
Alignment explanation
Indices: 64413695--64413737 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
64413685 TTAATTGAAT
64413695 TATTAA-ATAT-AATTAAAATA
1 TATTAACATATCAATTAAAATA
*
64413715 TATTAACTTATCAATTAAAATA
1 TATTAACATATCAATTAAAATA
64413737 T
1 T
64413738 TATAATATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
21 3 0.15
22 11 0.55
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (22 bp):
TATTAACATATCAATTAAAATA
Found at i:64419135 original size:29 final size:31
Alignment explanation
Indices: 64419101--64419171 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 31
64419091 AGCGTGTTTC
64419101 TATTTTGGTCACCCAAGTT-TAAAATTTT-A
1 TATTTTGGTCACCCAAGTTATAAAATTTTAA
* * * *
64419130 TATTTTAGTCA-CTACGTTATCAAATTTTAA
1 TATTTTGGTCACCCAAGTTATAAAATTTTAA
64419160 TATTTTGGTCAC
1 TATTTTGGTCAC
64419172 ACCATTAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
28 5 0.15
29 18 0.53
30 11 0.32
ACGTcount: A:0.30, C:0.14, G:0.10, T:0.46
Consensus pattern (31 bp):
TATTTTGGTCACCCAAGTTATAAAATTTTAA
Found at i:64421122 original size:16 final size:17
Alignment explanation
Indices: 64421101--64421137 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
64421091 ATATTTGGTC
64421101 ATATAATAAATTATT-A
1 ATATAATAAATTATTCA
64421117 ATATAATAAATTATTCA
1 ATATAATAAATTATTCA
64421134 ATAT
1 ATAT
64421138 TTCAATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (17 bp):
ATATAATAAATTATTCA
Found at i:64421165 original size:13 final size:14
Alignment explanation
Indices: 64421147--64421188 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
64421137 TTTCAATTTT
64421147 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
64421160 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
64421175 ATTTTAAATAATAT
1 ATTTT-AATAATAT
64421189 TATTCAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:64421173 original size:16 final size:16
Alignment explanation
Indices: 64421151--64421187 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
64421141 AATTTTATTT
64421151 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
64421168 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
64421183 TAATA
1 TAATA
64421188 TTATTCAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:64421197 original size:10 final size:10
Alignment explanation
Indices: 64421184--64421221 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
64421174 AATTTTAAAT
64421184 AATATTATTC
1 AATATTATTC
*
64421194 AATATTATTG
1 AATATTATTC
*
64421204 AA-AATATTC
1 AATATTATTC
64421213 AATATTATT
1 AATATTATT
64421222 ATTTTAATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
9 7 0.30
10 16 0.70
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (10 bp):
AATATTATTC
Found at i:64422352 original size:21 final size:20
Alignment explanation
Indices: 64422324--64422366 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
64422314 ATTTTTTTTT
*
64422324 AATTGAGTTAAGTGAAATTA
1 AATTGAGTCAAGTGAAATTA
*
64422344 AATTCGAGTCGAGTGAAATTA
1 AATT-GAGTCAAGTGAAATTA
64422365 AA
1 AA
64422367 AAATTAAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.44, C:0.05, G:0.21, T:0.30
Consensus pattern (20 bp):
AATTGAGTCAAGTGAAATTA
Found at i:64422539 original size:10 final size:11
Alignment explanation
Indices: 64422517--64422543 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
64422507 TTTAACTTTC
64422517 TTTTTGAATTT
1 TTTTTGAATTT
64422528 TTTTTGAATTT
1 TTTTTGAATTT
64422539 TTTTT
1 TTTTT
64422544 AAAAATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (11 bp):
TTTTTGAATTT
Found at i:64422778 original size:40 final size:40
Alignment explanation
Indices: 64422718--64422797 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
64422708 AAAATTCAAC
64422718 TTGACTGGAACTCGAAACTCGAATAACTCAATTTAACTAA
1 TTGACTGGAACTCGAAACTCGAATAACTCAATTTAACTAA
*
64422758 TTGATTGGAACTCGAAACTCGAATAACTCAATTTAACTAA
1 TTGACTGGAACTCGAAACTCGAATAACTCAATTTAACTAA
64422798 CTCAAGATTC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (40 bp):
TTGACTGGAACTCGAAACTCGAATAACTCAATTTAACTAA
Found at i:64426905 original size:28 final size:27
Alignment explanation
Indices: 64426862--64426967 Score: 81
Period size: 28 Copynumber: 3.7 Consensus size: 27
64426852 GAAATCAGAG
64426862 TTAA-CTGGGCCTTAGCCCATATCAATA
1 TTAATCTGGGCC-TAGCCCATATCAATA
*
64426889 TTAATCTGGGCCATAGCCCCT-TACAATA
1 TTAATCTGGGCC-TAGCCCATAT-CAATA
* *
64426917 TCAGAGTATACTGGGCCTAGCCCATATCAGTA
1 T--TA--AT-CTGGGCCTAGCCCATATCAATA
*
64426949 TCAATCTGGGCCGTAGCCC
1 TTAATCTGGGCC-TAGCCC
64426968 TATTACAAGT
Statistics
Matches: 64, Mismatches: 6, Indels: 17
0.74 0.07 0.20
Matches are distributed among these distances:
27 12 0.19
28 28 0.44
30 2 0.03
32 14 0.22
33 8 0.12
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.26
Consensus pattern (27 bp):
TTAATCTGGGCCTAGCCCATATCAATA
Found at i:64426974 original size:61 final size:61
Alignment explanation
Indices: 64426832--64426975 Score: 179
Period size: 60 Copynumber: 2.3 Consensus size: 61
64426822 TCAAGCTTTA
*
64426832 CTGGGCCTAAGCCCTATT-CAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCCT-AGCCCTATTACA-AAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATCAAT
* * *
64426894 CTGGGCCATAGCCC-CTTACAATATCAGAG-TATACTGGGCC-TAGCCCATATCAGTATCAAT
1 CTGGGCC-TAGCCCTATTACAAAATCAGAGTTA-ACTGGGCCTTAGCCCATATCAATATCAAT
64426954 CTGGGCCGTAGCCCTATTACAA
1 CTGGGCC-TAGCCCTATTACAA
64426976 GTCGAGATAT
Statistics
Matches: 72, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
60 33 0.46
61 24 0.33
62 14 0.19
63 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (61 bp):
CTGGGCCTAGCCCTATTACAAAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATCAAT
Found at i:64442156 original size:3 final size:3
Alignment explanation
Indices: 64442148--64442271 Score: 74
Period size: 3 Copynumber: 41.3 Consensus size: 3
64442138 ACTTATTACT
* * **
64442148 TTA TTA TTAA TTA AT- TTA GTA TTA TTA TTTA TTA TTA TTA TCC TTA
1 TTA TTA TT-A TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
** * ** * * *
64442194 TTA ACA TTC TTA TTA TTA ACA TTG TTT TTA TT- TCTT TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
* *
64442239 TTA TTA TTA TTA TTA TTA TT- TTA CTA CTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
64442272 CATTTTTAAA
Statistics
Matches: 91, Mismatches: 24, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
2 4 0.04
3 80 0.88
4 7 0.08
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:64442423 original size:3 final size:3
Alignment explanation
Indices: 64442415--64442453 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
64442405 CATCTACCAA
64442415 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
64442454 ATTTTAAAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:64442529 original size:3 final size:3
Alignment explanation
Indices: 64442521--64442571 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
64442511 CACTTTTTTG
** * *
64442521 TTA TTA TTA TTA CCA TTG TTA TTA TTA CTA TTA -TA TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
64442567 TTA TT
1 TTA TT
64442572 TTTTATTTCT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
2 4 0.11
3 34 0.89
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Done.