Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 366 of 438
Found at i:114250571 original size:251 final size:250
Alignment explanation
Indices: 114250128--114250802 Score: 1142
Period size: 251 Copynumber: 2.7 Consensus size: 250
114250118 GCCAAATAGG
* ** ** *
114250128 AACTACTGTAGTAAAAGAGCGTCCACGTAGGAGCTTTTTTCAGTACATTTGCTGACAGTGCATCC
1 AACTACTGTAG-AAAAAAAAGTCCACGCGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
* *
114250193 TACTTGAAGCAATTTTGAAACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTTAGAAACG
65 TACTTGAAGCAATTTTGAAACTATTTGTTCAAAAACATCTTCTCAAAAATATTTTTTTAGAAACG
*
114250258 ACTGTAGAAAAAGAGTGTCCACATGGGAGCTTTTTTTAGTACGTTTGCTGACAGTGCATCCTGCT
130 ACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTTAGTACGTTTGCTGACAGTGCATCCTGCT
*
114250323 TGAAA-CGTTTTTGACACTATTTGTTCAGAAACATGTTCTCAAAATTATTTTTCAGA
195 T-AAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTCAGA
114250379 AACTACTGTAGAAAAAAAAAGTCCACGCGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
1 AACTACTGTAG-AAAAAAAAGTCCACGCGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
*
114250444 TACTTGAAGCAATTTTGAAACTATTTGTTCAAAAACATCTTCTCAAAAATACTTTTTTAGAAACG
65 TACTTGAAGCAATTTTGAAACTATTTGTTCAAAAACATCTTCTCAAAAATATTTTTTTAGAAACG
*
114250509 ACTGTAGAAAAAGAGCG-CC-CATGTAGGAG-TTTTTTTCAGTACTTTTGCTGACAGTGCATCCT
130 ACTGTAGAAAAAGAGCGTCCACATG--GGAGCTTTTTTT-AGTACGTTTGCTGACAGTGCATCCT
114250571 GCTTAAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTCAGA
192 GCTTAAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTCAGA
114250630 AACTACTGTAGAAAAAAAAGTCCACGCGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCT
1 AACTACTGTAGAAAAAAAAGTCCACGCGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCT
114250695 ACTTGAAGCAATTTTGAAACTATTTGTTCAAAAACATCTTCTCAAAAATATTTTTTTAGAAACGA
66 ACTTGAAGCAATTTTGAAACTATTTGTTCAAAAACATCTTCTCAAAAATATTTTTTTAGAAACGA
* *
114250760 CTGTAGAAAAAGAGTGTCCACATGGGAGCTTTTTTAAGTACGT
131 CTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTTAGTACGT
114250803 AAGCGTTTTT
Statistics
Matches: 400, Mismatches: 17, Indels: 15
0.93 0.04 0.03
Matches are distributed among these distances:
249 4 0.01
250 155 0.39
251 237 0.59
252 4 0.01
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (250 bp):
AACTACTGTAGAAAAAAAAGTCCACGCGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCT
ACTTGAAGCAATTTTGAAACTATTTGTTCAAAAACATCTTCTCAAAAATATTTTTTTAGAAACGA
CTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTTAGTACGTTTGCTGACAGTGCATCCTGCTT
AAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTCAGA
Found at i:114250889 original size:102 final size:103
Alignment explanation
Indices: 114250706--114250902 Score: 306
Period size: 102 Copynumber: 1.9 Consensus size: 103
114250696 CTTGAAGCAA
114250706 TTTTGAAACTATTTGTTCAAAAACATCTTCTCAAAAATATTTTTTTAGAAACGACTGTAGAAAAA
1 TTTTGAAACTATTTGTTCAAAAACATCTTCTCAAAAATATTTTTTTAGAAACGACTGTAGAAAAA
**
114250771 GAGTGTCCACATGGGAGCTTTTTTAAGTACGTAAGCGT
66 GAGCATCCACATGGGAGCTTTTTTAAGTACGTAAGCGT
* * * **
114250809 TTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTA-TTTTTTAGAAATTACTGTAGAAAAA
1 TTTTGAAACTATTTGTTCAAAAACATCTTCTCAAAAATATTTTTTTAGAAACGACTGTAGAAAAA
* *
114250873 GAGCATCCACGTGGGAGCTTTTTTTAGTAC
66 GAGCATCCACATGGGAGCTTTTTTAAGTAC
114250903 TTTTGTTGAT
Statistics
Matches: 85, Mismatches: 9, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
102 49 0.58
103 36 0.42
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.37
Consensus pattern (103 bp):
TTTTGAAACTATTTGTTCAAAAACATCTTCTCAAAAATATTTTTTTAGAAACGACTGTAGAAAAA
GAGCATCCACATGGGAGCTTTTTTAAGTACGTAAGCGT
Found at i:114251072 original size:126 final size:126
Alignment explanation
Indices: 114250803--114251104 Score: 437
Period size: 126 Copynumber: 2.4 Consensus size: 126
114250793 TTAAGTACGT
* * *
114250803 AAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTA-TTTTTTAGAAATTACTGTA
1 AAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTTAAAAACTACTATA
* * * * *
114250867 GAAAAAGAGCATCCACGTGGGAGCTTTTTTTAGTACTTTTGTTGATAGTACATCCTGCTTA
66 GAAAAAAAGCATCCAAGTGGAAGCTTTTTTTAGTACTTTTGCTGACAGTACATCCTGCTTA
* * *
114250928 AAGCGTTTTTGACACTATTTATTTAGAAATATCTTCTCAAAATTATTTTTTTCAAAAACTACTAT
1 AAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTT-AAAAACTACTAT
* * * *
114250993 A-AAAAAAAGCGTCCAAGTGGAAGCTTTTTTTAGTACTTTTGCTGACAGTGCATCTTGCTTG
65 AGAAAAAAAGCATCCAAGTGGAAGCTTTTTTTAGTACTTTTGCTGACAGTACATCCTGCTTA
*
114251054 AAGCGTTTTTGACACTATTTGTTCAGAAACATCTTTTCAAAATTATTTTTT
1 AAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTT
114251105 CAGATACATC
Statistics
Matches: 156, Mismatches: 19, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
125 42 0.27
126 104 0.67
127 10 0.06
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (126 bp):
AAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTTAAAAACTACTATA
GAAAAAAAGCATCCAAGTGGAAGCTTTTTTTAGTACTTTTGCTGACAGTACATCCTGCTTA
Found at i:114251127 original size:28 final size:28
Alignment explanation
Indices: 114251069--114251139 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
114251059 TTTTTGACAC
* * *
114251069 TATTTGTTCAGAAACATCTTTTCAAAAT
1 TATTTTTTCAGATACATCTTCTCAAAAT
* *
114251097 TATTTTTTCAGATACATCTTCTCTAATT
1 TATTTTTTCAGATACATCTTCTCAAAAT
*
114251125 TATTTTTTTAGATAC
1 TATTTTTTCAGATAC
114251140 TGTAGAAATT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.30, C:0.14, G:0.06, T:0.51
Consensus pattern (28 bp):
TATTTTTTCAGATACATCTTCTCAAAAT
Found at i:114252381 original size:14 final size:13
Alignment explanation
Indices: 114252357--114252383 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
114252347 AATCATAAAA
114252357 GGTAATTTTTTTT
1 GGTAATTTTTTTT
114252370 GGTAATTTTTTTT
1 GGTAATTTTTTTT
114252383 G
1 G
114252384 TTATAAATAA
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:0.00, G:0.19, T:0.67
Consensus pattern (13 bp):
GGTAATTTTTTTT
Found at i:114252513 original size:17 final size:17
Alignment explanation
Indices: 114252491--114252527 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
114252481 GCTATTGAGG
114252491 TATGTTTGTATTTATTT
1 TATGTTTGTATTTATTT
114252508 TATGTTTGTATTTATTT
1 TATGTTTGTATTTATTT
114252525 TAT
1 TAT
114252528 ATTTTCATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.19, C:0.00, G:0.11, T:0.70
Consensus pattern (17 bp):
TATGTTTGTATTTATTT
Found at i:114254070 original size:46 final size:44
Alignment explanation
Indices: 114253966--114254073 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
114253956 TGTCTTTGAC
** * * *
114253966 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
114254010 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
114254056 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
114254074 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:114261456 original size:46 final size:44
Alignment explanation
Indices: 114261352--114261459 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
114261342 TGTCTTTGAC
** * * *
114261352 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
114261396 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
114261442 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
114261460 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:114262600 original size:2 final size:2
Alignment explanation
Indices: 114262593--114262622 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
114262583 CAAAATAATA
114262593 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
114262623 TTTTTACCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:114266707 original size:16 final size:17
Alignment explanation
Indices: 114266671--114266709 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
114266661 TTTTAAAAGG
114266671 AAAACAAATGAATCTTA
1 AAAACAAATGAATCTTA
*
114266688 AAAACAATTGAATCTTA
1 AAAACAAATGAATCTTA
114266705 AAAAC
1 AAAAC
114266710 TTAATGAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.59, C:0.13, G:0.05, T:0.23
Consensus pattern (17 bp):
AAAACAAATGAATCTTA
Found at i:114281420 original size:15 final size:15
Alignment explanation
Indices: 114281402--114281430 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
114281392 ATGTTATTAA
114281402 ATTAAATTATATTTT
1 ATTAAATTATATTTT
114281417 ATTAAATTATATTT
1 ATTAAATTATATTT
114281431 AATAATAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTAAATTATATTTT
Found at i:114281439 original size:58 final size:58
Alignment explanation
Indices: 114281372--114281508 Score: 161
Period size: 58 Copynumber: 2.4 Consensus size: 58
114281362 TTAATTCATA
* * * *
114281372 TAATAATAATTATATTAAGAATGTTATTAAATTAA--ATTATATTTTATTAAATTATATT
1 TAATAATAATTATATTAA-AATATCATTAAATTAATTATTAT-TTTTAATAAAATATATT
* * *
114281430 TAATAATAATTATGTTAAAATATCGTTAAATTATTTATTATTTTTAATAAAATATATT
1 TAATAATAATTATATTAAAATATCATTAAATTAATTATTATTTTTAATAAAATATATT
* *
114281488 TAACAATAATTTTATTAAAAT
1 TAATAATAATTATATTAAAAT
114281509 TTAATAACAA
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
57 12 0.18
58 50 0.75
59 5 0.07
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (58 bp):
TAATAATAATTATATTAAAATATCATTAAATTAATTATTATTTTTAATAAAATATATT
Found at i:114281506 original size:26 final size:25
Alignment explanation
Indices: 114281471--114281521 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
114281461 TATTTATTAT
*
114281471 TTTTAATAAAATATATTTAACAATAA
1 TTTTAATAAAATATA-ATAACAATAA
* *
114281497 TTTTATTAAAATTTAATAACAATAA
1 TTTTAATAAAATATAATAACAATAA
114281522 CAATAATCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (25 bp):
TTTTAATAAAATATAATAACAATAA
Found at i:114281654 original size:44 final size:46
Alignment explanation
Indices: 114281603--114281689 Score: 135
Period size: 44 Copynumber: 1.9 Consensus size: 46
114281593 TACAACATTT
114281603 ATTCCATTCAACCAAACACA-AGAATT-CT-ATTACAGCTCTATCCC
1 ATTCCATTCAACCAAACA-ATAGAATTACTAATTACAGCTCTATCCC
*
114281647 ATTCCATTCAACCAAACAATTGAATTACTAATTACAGCTCTAT
1 ATTCCATTCAACCAAACAATAGAATTACTAATTACAGCTCTAT
114281690 TCAATTACAG
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
43 1 0.03
44 23 0.59
45 2 0.05
46 13 0.33
ACGTcount: A:0.38, C:0.28, G:0.05, T:0.30
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAATAGAATTACTAATTACAGCTCTATCCC
Found at i:114281697 original size:16 final size:16
Alignment explanation
Indices: 114281676--114281715 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
114281666 TTGAATTACT
*
114281676 AATTACAGCTCTATTC
1 AATTACAGATCTATTC
*
114281692 AATTACAGATTTATTC
1 AATTACAGATCTATTC
114281708 AATTACAG
1 AATTACAG
114281716 TGAACCAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.38, C:0.17, G:0.07, T:0.38
Consensus pattern (16 bp):
AATTACAGATCTATTC
Found at i:114281802 original size:16 final size:15
Alignment explanation
Indices: 114281783--114281853 Score: 54
Period size: 15 Copynumber: 4.5 Consensus size: 15
114281773 TAAAGAATGT
114281783 TTTATTTTTAATGTAA
1 TTTATTTTT-ATGTAA
**
114281799 TTTATTTGTTATGTGTGT
1 TTTATTT-TTA--TGTAA
**
114281817 TTTAGGTTTAT-TAGA
1 TTTATTTTTATGTA-A
114281832 TTTATTTTTATGTAA
1 TTTATTTTTATGTAA
114281847 TTTATTT
1 TTTATTT
114281854 GGCATGTTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 11
0.69 0.13 0.18
Matches are distributed among these distances:
14 1 0.02
15 18 0.43
16 10 0.24
17 5 0.12
18 8 0.19
ACGTcount: A:0.23, C:0.00, G:0.13, T:0.65
Consensus pattern (15 bp):
TTTATTTTTATGTAA
Found at i:114286441 original size:13 final size:13
Alignment explanation
Indices: 114286423--114286459 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
114286413 AGATAATTAG
114286423 CAAATCATACATA
1 CAAATCATACATA
114286436 CAAATCATACATA
1 CAAATCATACATA
*
114286449 TAAATTCATAC
1 CAAA-TCATAC
114286460 CAAACTATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 16 0.73
14 6 0.27
ACGTcount: A:0.51, C:0.22, G:0.00, T:0.27
Consensus pattern (13 bp):
CAAATCATACATA
Found at i:114288341 original size:13 final size:13
Alignment explanation
Indices: 114288323--114288348 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
114288313 TATAACTAAC
114288323 TTAATAAATATTT
1 TTAATAAATATTT
114288336 TTAATAAATATTT
1 TTAATAAATATTT
114288349 ACGGACTCGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TTAATAAATATTT
Found at i:114295392 original size:29 final size:29
Alignment explanation
Indices: 114295320--114295384 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
114295310 GTGACGAGAT
114295320 CGGCACTAAGTGTGCATGCTGGAAATATA
1 CGGCACTAAGTGTGCATGCTGGAAATATA
*
114295349 TGGCACTAAGTGTGCATGCTGGAAATATA
1 CGGCACTAAGTGTGCATGCTGGAAATATA
114295378 CGGCACT
1 CGGCACT
114295385 GGGTGTGCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (29 bp):
CGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:114298629 original size:3 final size:3
Alignment explanation
Indices: 114298615--114298650 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
114298605 CTATCTCAAT
114298615 TAA TAGA TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
114298651 GTAAATATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 26 0.84
4 3 0.10
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:114298657 original size:14 final size:14
Alignment explanation
Indices: 114298624--114298650 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
114298614 TTAATAGATA
114298624 ATAATAATAATAAT
1 ATAATAATAATAAT
114298638 ATAATAATAATAA
1 ATAATAATAATAA
114298651 GTAAATATCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
ATAATAATAATAAT
Found at i:114298925 original size:13 final size:13
Alignment explanation
Indices: 114298907--114298932 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
114298897 CATAACTAAC
114298907 TTAATAAATATTT
1 TTAATAAATATTT
114298920 TTAATAAATATTT
1 TTAATAAATATTT
114298933 ACGGACTCGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TTAATAAATATTT
Found at i:114301034 original size:42 final size:42
Alignment explanation
Indices: 114300988--114301131 Score: 94
Period size: 42 Copynumber: 3.4 Consensus size: 42
114300978 ATGACACGCT
*
114300988 CGTGTCCTAGGCTGTGTGGGCATTCGATGTAAGGCACATGGC
1 CGTGTCCTAGGCTGTGTGGGCATTCGATGTAAGGCACATGAC
** * ** ** * ** * * *
114301030 CGTGTGGGTAGGCCGTGTGACTCACACGGTCAAATG-ACACGTC
1 CGTGT-CCTAGGCTGTGTG-GGCATTCGATGTAAGGCACATGAC
*
114301073 AGTGTCCTAGG-TCGTGTGGGCATTCGATGTAAGGCACATGAC
1 CGTGTCCTAGGCT-GTGTGGGCATTCGATGTAAGGCACATGAC
* *
114301115 CGTGTCCCAGCCTGTGT
1 CGTGTCCTAGGCTGTGT
114301132 TCCTACCCGT
Statistics
Matches: 67, Mismatches: 30, Indels: 10
0.63 0.28 0.09
Matches are distributed among these distances:
41 8 0.12
42 31 0.46
43 20 0.30
44 8 0.12
ACGTcount: A:0.18, C:0.24, G:0.33, T:0.25
Consensus pattern (42 bp):
CGTGTCCTAGGCTGTGTGGGCATTCGATGTAAGGCACATGAC
Found at i:114301055 original size:85 final size:85
Alignment explanation
Indices: 114300944--114301119 Score: 302
Period size: 85 Copynumber: 2.1 Consensus size: 85
114300934 GGTCACACGC
114300944 CCGTGTGGGTAAGCCGTGTGACTCACACGGTCAAATGACACGCTC-GTGTCCTAGG-CTGTGTGG
1 CCGTGTGGGTAAGCCGTGTGACTCACACGGTCAAATGACACG-TCAGTGTCCTAGGTC-GTGTGG
*
114301007 GCATTCGATGTAAGGCACATGG
64 GCATTCGATGTAAGGCACATGA
*
114301029 CCGTGTGGGTAGGCCGTGTGACTCACACGGTCAAATGACACGTCAGTGTCCTAGGTCGTGTGGGC
1 CCGTGTGGGTAAGCCGTGTGACTCACACGGTCAAATGACACGTCAGTGTCCTAGGTCGTGTGGGC
114301094 ATTCGATGTAAGGCACATGA
66 ATTCGATGTAAGGCACATGA
114301114 CCGTGT
1 CCGTGT
114301120 CCCAGCCTGT
Statistics
Matches: 87, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
84 2 0.02
85 84 0.97
86 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.33, T:0.24
Consensus pattern (85 bp):
CCGTGTGGGTAAGCCGTGTGACTCACACGGTCAAATGACACGTCAGTGTCCTAGGTCGTGTGGGC
ATTCGATGTAAGGCACATGA
Found at i:114302353 original size:23 final size:24
Alignment explanation
Indices: 114302298--114302353 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
114302288 AGCCTTACTA
*
114302298 TGGGAAGTTCACAAAGAGACATAT
1 TGGGAAGCTCACAAAGAGACATAT
* * *
114302322 GGGGAAGCTCATAAAGAG-CCTAT
1 TGGGAAGCTCACAAAGAGACATAT
114302345 TGGGAAGCT
1 TGGGAAGCT
114302354 TATCCAGGCT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 12 0.44
24 15 0.56
ACGTcount: A:0.36, C:0.14, G:0.30, T:0.20
Consensus pattern (24 bp):
TGGGAAGCTCACAAAGAGACATAT
Found at i:114305065 original size:79 final size:78
Alignment explanation
Indices: 114304967--114305189 Score: 322
Period size: 79 Copynumber: 2.8 Consensus size: 78
114304957 TACTCGTTCA
*
114304967 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTC-GGACTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
*
114305032 TTAGTGACTCGCACC
64 TTAGTAACTCGCACC
*
114305047 AATGCCTTCGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
1 AATGCCTTCGGACTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
114305112 TAGTAACTCGCACC
65 TAGTAACTCGCACC
* * * *
114305126 AATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGA-CTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGA
114305190 CATCATTCGA
Statistics
Matches: 131, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
78 1 0.01
79 77 0.59
80 44 0.34
81 9 0.07
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (78 bp):
AATGCCTTCGGACTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTT
AGTAACTCGCACC
Found at i:114305149 original size:119 final size:120
Alignment explanation
Indices: 114304965--114305189 Score: 314
Period size: 119 Copynumber: 1.9 Consensus size: 120
114304955 GCTACTCGTT
*
114304965 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* * * *
114305030 ATTTAGTGAC-TCGCACCAATGCCTTC-GGACTTAGCCCGGAATTAGTAACTCGCA
66 ATATAGTCACTTAGCA-CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * **
114305084 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACCAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAACCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
114305147 GGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 GGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
114305190 CATCATTCGA
Statistics
Matches: 93, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
118 3 0.03
119 70 0.75
120 20 0.22
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:114305189 original size:40 final size:40
Alignment explanation
Indices: 114304965--114305189 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
114304955 GCTACTCGTT
* *
114304965 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
114305005 CAAATGCCTTCGGGACTTAACCCGGATTTAGTGACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
114305045 CCAATGCCTTC-GGACTTAGCCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* *
114305084 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * * *
114305124 CCAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
114305165 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
114305190 CATCATTCGA
Statistics
Matches: 159, Mismatches: 20, Indels: 12
0.83 0.10 0.06
Matches are distributed among these distances:
39 37 0.23
40 112 0.70
41 10 0.06
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:114308382 original size:4 final size:4
Alignment explanation
Indices: 114308373--114308408 Score: 54
Period size: 4 Copynumber: 8.5 Consensus size: 4
114308363 AAAAATACCT
114308373 TTTC TTTC TTTC TTTC TTCTC TTTTC TTTC TTTC TT
1 TTTC TTTC TTTC TTTC TT-TC -TTTC TTTC TTTC TT
114308409 CTCCCTCTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 24 0.80
5 4 0.13
6 2 0.07
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTC
Found at i:114308400 original size:18 final size:18
Alignment explanation
Indices: 114308377--114308411 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
114308367 ATACCTTTTC
114308377 TTTCTTTCTTTCTTCTCT
1 TTTCTTTCTTTCTTCTCT
114308395 TTTCTTTCTTTCTTCTC
1 TTTCTTTCTTTCTTCTC
114308412 CCTCTCTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTCTTTCTTTCTTCTCT
Found at i:114308416 original size:22 final size:22
Alignment explanation
Indices: 114308371--114308423 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
114308361 ATAAAAATAC
*
114308371 CTTTTCTTTCTTTCTTTCTTCT
1 CTTTTCTTTCTTTCTTTCTCCT
114308393 CTTTTCTTTCTTTC-TTCTCCCT
1 CTTTTCTTTCTTTCTTTCT-CCT
*
114308415 CTCTTCTTT
1 CTTTTCTTT
114308424 GTTATGTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 4 0.14
22 24 0.86
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (22 bp):
CTTTTCTTTCTTTCTTTCTCCT
Found at i:114308421 original size:18 final size:18
Alignment explanation
Indices: 114308379--114308423 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
114308369 ACCTTTTCTT
* *
114308379 TCTTTCTTTCTTCTCTTT
1 TCTTTCTTTCTTCTCCTC
114308397 TCTTTCTTTCTTCTCC-C
1 TCTTTCTTTCTTCTCCTC
114308414 TCTCTTCTTT
1 TCT-TTCTTT
114308424 GTTATGTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 3 0.12
18 21 0.88
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (18 bp):
TCTTTCTTTCTTCTCCTC
Found at i:114318554 original size:17 final size:19
Alignment explanation
Indices: 114318534--114318573 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
114318524 ATAATAATAT
114318534 ATAG-ATAAAAAA-ACATA
1 ATAGTATAAAAAAGACATA
114318551 ATAGTATAAAAAAGGACATA
1 ATAGTATAAAAAA-GACATA
114318571 ATA
1 ATA
114318574 TAAAATAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 4 0.20
18 8 0.40
20 8 0.40
ACGTcount: A:0.65, C:0.05, G:0.10, T:0.20
Consensus pattern (19 bp):
ATAGTATAAAAAAGACATA
Found at i:114318594 original size:23 final size:23
Alignment explanation
Indices: 114318568--114318647 Score: 67
Period size: 23 Copynumber: 3.3 Consensus size: 23
114318558 AAAAAAGGAC
114318568 ATAATATAAAATAATTATAATAT
1 ATAATATAAAATAATTATAATAT
114318591 ATAATATGAAAGTATATATGTAT-ATA-
1 ATAATAT-AAA--ATA-AT-TATAATAT
114318617 AT-ATATATAAATAATTAATAAATAT
1 ATAATATA-AAATAATT-AT-AATAT
114318642 ATAATA
1 ATAATA
114318648 CAAGTAAAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 19
0.71 0.00 0.29
Matches are distributed among these distances:
21 1 0.02
22 4 0.09
23 10 0.22
24 7 0.15
25 8 0.17
26 8 0.17
27 5 0.11
28 3 0.07
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (23 bp):
ATAATATAAAATAATTATAATAT
Found at i:114318669 original size:11 final size:11
Alignment explanation
Indices: 114318568--114318670 Score: 52
Period size: 13 Copynumber: 8.6 Consensus size: 11
114318558 AAAAAAGGAC
114318568 ATAATATAA-A
1 ATAATATAATA
114318578 ATAATTATAATA
1 ATAA-TATAATA
114318590 TATAATATGAA-A
1 -ATAATAT-AATA
*
114318602 GTATATATGTATATA
1 --ATA-ATATA-ATA
114318617 ATATATATAAATA
1 ATA-ATAT-AATA
114318630 ATTAATA-AATA
1 A-TAATATAATA
*
114318641 TATAATACAAGTA
1 -ATAATATAA-TA
114318654 A-AATATAATA
1 ATAATATAATA
114318664 ATAATAT
1 ATAATAT
114318671 GTAAATAAGA
Statistics
Matches: 76, Mismatches: 3, Indels: 27
0.72 0.03 0.25
Matches are distributed among these distances:
10 7 0.09
11 25 0.33
12 9 0.12
13 27 0.36
14 7 0.09
15 1 0.01
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.37
Consensus pattern (11 bp):
ATAATATAATA
Found at i:114318742 original size:22 final size:22
Alignment explanation
Indices: 114318711--114318764 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
114318701 GTGAAAAGTA
*
114318711 ATATATAATAAATA-ACAATAAT
1 ATATAAAATAAATATA-AATAAT
* *
114318733 ATATAAAATAATTATATATAAT
1 ATATAAAATAAATATAAATAAT
114318755 ATA-AAAATAA
1 ATATAAAATAA
114318765 GATTAAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 7 0.25
22 20 0.71
23 1 0.04
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
ATATAAAATAAATATAAATAAT
Found at i:114318748 original size:13 final size:12
Alignment explanation
Indices: 114318715--114318831 Score: 66
Period size: 12 Copynumber: 9.8 Consensus size: 12
114318705 AAAGTAATAT
*
114318715 ATAATAAATAACA
1 ATAATATATAA-A
114318728 ATAATATATAAA
1 ATAATATATAAA
*
114318740 ATAAT-TAT-AT
1 ATAATATATAAA
114318750 ATAATATA-AAA
1 ATAATATATAAA
*
114318761 ATAAGAT-TAAAA
1 ATAATATAT-AAA
* *
114318773 ATAAAACA-AATA
1 ATAATATATAA-A
* *
114318785 ACAATATAAAAA
1 ATAATATATAAA
* *
114318797 ATTATATATATA
1 ATAATATATAAA
114318809 ATAATA-ATAGAA
1 ATAATATATA-AA
114318821 ATAAATATATA
1 AT-AATATATA
114318832 GGGTTAAATT
Statistics
Matches: 79, Mismatches: 15, Indels: 19
0.70 0.13 0.17
Matches are distributed among these distances:
10 6 0.08
11 17 0.22
12 37 0.47
13 16 0.20
14 3 0.04
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.30
Consensus pattern (12 bp):
ATAATATATAAA
Found at i:114318750 original size:33 final size:32
Alignment explanation
Indices: 114318704--114318772 Score: 79
Period size: 33 Copynumber: 2.1 Consensus size: 32
114318694 ATGTTTTGTG
* *
114318704 AAAAGTAATATATAATAA-ATAACAATAATATAT
1 AAAAGTAATATAT-ATAATATAAAAATAAGAT-T
114318737 AAAA-TAATTATATATAATATAAAAATAAGATT
1 AAAAGTAA-TATATATAATATAAAAATAAGATT
114318769 AAAA
1 AAAA
114318773 ATAAAACAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
32 12 0.38
33 20 0.62
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.30
Consensus pattern (32 bp):
AAAAGTAATATATATAATATAAAAATAAGATT
Found at i:114323136 original size:93 final size:93
Alignment explanation
Indices: 114323029--114323200 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
114323019 GCCCATAAGC
** * * ***
114323029 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAGCTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCAAACTCAACTCAA
* *
114323094 CGAGCTCGGATGCCTAGTTACATCTCAT
66 CAAACTCGGATGCCTAGTTACATCTCAT
114323122 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCAAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCAAACTCAACTCAA
114323187 CAAACTCGGATGCC
66 CAAACTCGGATGCC
114323201 CAAATATCCT
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCAAACTCAACTCAA
CAAACTCGGATGCCTAGTTACATCTCAT
Found at i:114326164 original size:31 final size:31
Alignment explanation
Indices: 114326129--114326192 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
114326119 AATTAGGTGA
**
114326129 TTGAACTT-AGCTTGTTGGTTTAAATTGGTAC
1 TTGAACTTGA-CTTGTTGGTCCAAATTGGTAC
*
114326160 TTGAACTTGACTTTTTGGTCCAAATTGGTAC
1 TTGAACTTGACTTGTTGGTCCAAATTGGTAC
114326191 TT
1 TT
114326193 ATGGTAAATG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 28 0.97
32 1 0.03
ACGTcount: A:0.22, C:0.12, G:0.20, T:0.45
Consensus pattern (31 bp):
TTGAACTTGACTTGTTGGTCCAAATTGGTAC
Found at i:114338673 original size:26 final size:25
Alignment explanation
Indices: 114338642--114338692 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
114338632 TTATTTTTAT
*
114338642 TTTTATTAAAATATATGTAACAATAA
1 TTTTATTAAAATATA-ATAACAATAA
*
114338668 TTTTATTAAAATTTAATAACAATAA
1 TTTTATTAAAATATAATAACAATAA
114338693 CAATAATCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (25 bp):
TTTTATTAAAATATAATAACAATAA
Found at i:114338861 original size:46 final size:44
Alignment explanation
Indices: 114338771--114338864 Score: 136
Period size: 44 Copynumber: 2.1 Consensus size: 44
114338761 ATTACAATAT
*
114338771 CATTCCATTCAACCAAATACAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
*
114338815 CATTCCATTCAACCAAACAGC-TGAATTACTTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACA-CAAGAA-TAC-TATTACAGTTCTATTC
114338861 CATT
1 CATT
114338865 ACAGCTCTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
44 21 0.47
45 4 0.09
46 20 0.44
ACGTcount: A:0.35, C:0.26, G:0.05, T:0.34
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
Found at i:114338867 original size:16 final size:16
Alignment explanation
Indices: 114338846--114338900 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
114338836 TGAATTACTT
*
114338846 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
*
114338862 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
114338878 ATTACAGCCCTATTCC
1 ATTACAGCTCTATTCC
114338894 ATTACAG
1 ATTACAG
114338901 TGAACCAAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.29, C:0.27, G:0.07, T:0.36
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:114351148 original size:23 final size:22
Alignment explanation
Indices: 114351113--114351174 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 22
114351103 AGGCGCGACC
114351113 TATTTTTTTAATAATATAATTT
1 TATTTTTTTAATAATATAATTT
* *
114351135 TATTTTTTTAAATATTATTATTT
1 TATTTTTTT-AATAATATAATTT
114351158 TATTATATTTTAATAAT
1 TATT-T-TTTTAATAAT
114351175 TTTTAAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
22 9 0.26
23 15 0.44
24 6 0.18
25 4 0.12
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
TATTTTTTTAATAATATAATTT
Found at i:114351414 original size:3 final size:3
Alignment explanation
Indices: 114351402--114351483 Score: 103
Period size: 3 Copynumber: 27.3 Consensus size: 3
114351392 CAGCAAACAG
*
114351402 AGA A-A AGA AGA AGA AGA AGA AGA GGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
* * * *
114351449 AGA AGA AAA AGA AGG AGA AGG AGG AGAA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AG-A AGA AGA A
114351484 AAAAATGTTA
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
2 2 0.03
3 65 0.94
4 2 0.03
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:114352588 original size:5 final size:5
Alignment explanation
Indices: 114352578--114352609 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
114352568 TTGTGTGTTC
114352578 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
114352610 TCACAAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:114352592 original size:9 final size:9
Alignment explanation
Indices: 114352578--114352608 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
114352568 TTGTGTGTTC
114352578 TTTATTTTA
1 TTTATTTTA
114352587 TTTATTTTA
1 TTTATTTTA
114352596 TTTTATTTTA
1 -TTTATTTTA
114352606 TTT
1 TTT
114352609 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:114357030 original size:5 final size:5
Alignment explanation
Indices: 114357020--114357051 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
114357010 TTGTGTGTTC
114357020 TTTAT TTTAT TTTA- TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
114357052 TCACAAATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:114357039 original size:14 final size:14
Alignment explanation
Indices: 114357020--114357050 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
114357010 TTGTGTGTTC
114357020 TTTATTTTATTTTA
1 TTTATTTTATTTTA
114357034 TTTATTTTATTTTA
1 TTTATTTTATTTTA
114357048 TTT
1 TTT
114357051 TTCACAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTATTTTATTTTA
Found at i:114358100 original size:23 final size:22
Alignment explanation
Indices: 114358059--114358118 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 22
114358049 ATTTAAAAAT
114358059 TATTAAAATATAATAAAATAATAA
1 TATTAAAA-A-AATAAAATAATAA
* *
114358083 TATTTAAAAAAATAAAATTATAT
1 TA-TTAAAAAAATAAAATAATAA
114358106 TATTAAAAAAATA
1 TATTAAAAAAATA
114358119 GGTCGCGCCT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 11 0.33
23 13 0.39
24 3 0.09
25 6 0.18
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
TATTAAAAAAATAAAATAATAA
Found at i:114359125 original size:17 final size:18
Alignment explanation
Indices: 114359100--114359134 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
114359090 ATATAATAAA
*
114359100 AAATTATAATT-TAAAAT
1 AAATAATAATTATAAAAT
114359117 AAATAATAATTATAAAAT
1 AAATAATAATTATAAAAT
114359135 TAGAAACAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AAATAATAATTATAAAAT
Found at i:114361983 original size:2 final size:2
Alignment explanation
Indices: 114361976--114362006 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
114361966 TTGTAATCTA
114361976 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
114362007 AGCCATTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:114364766 original size:126 final size:126
Alignment explanation
Indices: 114364607--114364850 Score: 434
Period size: 126 Copynumber: 1.9 Consensus size: 126
114364597 GTTTAAGCCT
114364607 TAAGAGAATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGAAT
1 TAAGAGAATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGAAT
* * *
114364672 CTTCGAATTCTTTAAATACTGAACATTGCCTTTATTTTGAAAATTTTTTAGAGTGAATTGG
66 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAAATTTTGAGAGTGAATTGG
* * *
114364733 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
1 TAAGAGAATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGAAT
114364798 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAAATTTTGAGAG
66 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAAATTTTGAGAG
114364851 AAAATCAATG
Statistics
Matches: 112, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
126 112 1.00
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (126 bp):
TAAGAGAATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGAAT
CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAAATTTTGAGAGTGAATTGG
Found at i:114365008 original size:18 final size:17
Alignment explanation
Indices: 114364985--114365031 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
114364975 AATTAATAGA
114364985 AATAATTAATAAAACAAC
1 AATAATTAATAAAA-AAC
*
114365003 AATAA-TAAT-AAATAC
1 AATAATTAATAAAAAAC
114365018 AATAATGTAATAAA
1 AATAAT-TAATAAA
114365032 CATTGTGCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
15 7 0.28
16 3 0.12
17 8 0.32
18 7 0.28
ACGTcount: A:0.66, C:0.06, G:0.02, T:0.26
Consensus pattern (17 bp):
AATAATTAATAAAAAAC
Found at i:114365325 original size:17 final size:14
Alignment explanation
Indices: 114365289--114365343 Score: 56
Period size: 14 Copynumber: 3.7 Consensus size: 14
114365279 TAACTTTTAT
*
114365289 ATATATATATATATAT
1 ATATATA-ATA-ATAA
*
114365305 ATATTTACATAATAA
1 ATATATA-ATAATAA
114365320 ATATATAATAATAA
1 ATATATAATAATAA
*
114365334 ATAAATAATA
1 ATATATAATA
114365344 TAATAATATG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
14 16 0.47
15 9 0.26
16 9 0.26
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (14 bp):
ATATATAATAATAA
Found at i:114365344 original size:19 final size:18
Alignment explanation
Indices: 114365315--114365351 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
114365305 ATATTTACAT
114365315 AATAAATATATAATAATA
1 AATAAATATATAATAATA
114365333 AATAAATAATATAATAATA
1 AATAAAT-ATATAATAATA
114365352 TGAAACATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAAATATATAATAATA
Found at i:114365759 original size:18 final size:18
Alignment explanation
Indices: 114365736--114365771 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
114365726 ATAACAAGTA
* *
114365736 GGGTGATGGAGTTAGTGG
1 GGGTGATGAAGGTAGTGG
114365754 GGGTGATGAAGGTAGTGG
1 GGGTGATGAAGGTAGTGG
114365772 ATGGTTTAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.56, T:0.25
Consensus pattern (18 bp):
GGGTGATGAAGGTAGTGG
Found at i:114365804 original size:37 final size:37
Alignment explanation
Indices: 114365750--114365824 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
114365740 GATGGAGTTA
114365750 GTGGGGGTGATGAAGGTAGTGGATGGTTTAGTAGGGT
1 GTGGGGGTGATGAAGGTAGTGGATGGTTTAGTAGGGT
*
114365787 GTGGGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGT
1 GTGGGGGTGATGAAGGTAGTGGATGGTTTAGTAGGGT
114365824 G
1 G
114365825 ATGGAGTTAG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.17, C:0.00, G:0.53, T:0.29
Consensus pattern (37 bp):
GTGGGGGTGATGAAGGTAGTGGATGGTTTAGTAGGGT
Found at i:114365824 original size:29 final size:29
Alignment explanation
Indices: 114365791--114365853 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
114365781 TAGGGTGTGG
*
114365791 GGGTGATGGAGGTAGTGGAT-GGTTTAGTA
1 GGGTGATGGAGGTAGAGG-TCGGTTTAGTA
* *
114365820 GGGTGATGGAGTTAGAGGTCGGTTTAGTG
1 GGGTGATGGAGGTAGAGGTCGGTTTAGTA
114365849 GGGTG
1 GGGTG
114365854 TTTAATTTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 1 0.03
29 29 0.97
ACGTcount: A:0.17, C:0.02, G:0.51, T:0.30
Consensus pattern (29 bp):
GGGTGATGGAGGTAGAGGTCGGTTTAGTA
Found at i:114366439 original size:87 final size:85
Alignment explanation
Indices: 114366091--114366650 Score: 540
Period size: 87 Copynumber: 6.5 Consensus size: 85
114366081 AACGAAAATA
* * * *
114366091 AGATCTGT-AATTTTAGCCTGTTACCCTACTACTTAGGGGGTTAAGACAAGTCTTTGACCTAC-C
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTTGACCTGCTC
*
114366154 CACCACTGCTCGGAGAG-CC
66 CACCACTGCTCGGCGAGCCC
* *
114366173 AGGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGCTAAGGCGAGTCTTTGACCTGTT
1 A-GATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTTGACCTGCT
114366238 CCACCACTGCTCGGCGAGCCC
65 CCACCACTGCTCGGCGAGCCC
* * * *
114366259 A-AGTCTGTAAACTTTAGCCTGTTACCCTACTGCTTACGGGGTTAAAGCGAGTCTTCGACCTGCT
1 AGA-TCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTTGACCTGCT
* * *
114366323 CCGCCACTGCTCGGTGAGTCC
65 CCACCACTGCTCGGCGAGCCC
* * *
114366344 AGATCTGTAAATTTTAGCCTGTTACCCTACTACTTAAGGGGTTAAGGCGTCTA-TCTTTGATCTG
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCG---AGTCTTTGACCTG
**
114366408 CTCTGCCACTGCTCGGCGAGCCC
63 CTCCACCACTGCTCGGCGAGCCC
* * *
114366431 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTGAAGGCGTGTATCTTTGATCTGC
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAG--TCTTTGACCTGC
* * * * ***
114366496 TCCACTATTACTTAGG-GAGATA
64 TCCACCACTGC-TCGGCGAGCCC
* * * * * * * * *
114366518 AGATCTAT-AATCTTCAGCTTGTTACTCTATTGCTTAGGGAGTTAAAGCGTGTATCTTTGATCTG
1 AGATCTGTAAAT-TTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAG--TCTTTGACCTG
* * **** * *
114366582 CTCCACTACCGCTTAATGAGACA
63 CTCCACCACTGCTCGGCGAGCCC
**
114366605 AGATCTGTAGTTTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAG
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAG
114366651 ACTGGTGGTT
Statistics
Matches: 400, Mismatches: 62, Indels: 27
0.82 0.13 0.06
Matches are distributed among these distances:
82 1 0.00
83 7 0.02
84 49 0.12
85 133 0.33
86 8 0.02
87 197 0.49
88 5 0.01
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.32
Consensus pattern (85 bp):
AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTTGACCTGCTC
CACCACTGCTCGGCGAGCCC
Found at i:114366456 original size:172 final size:169
Alignment explanation
Indices: 114366091--114366472 Score: 531
Period size: 172 Copynumber: 2.2 Consensus size: 169
114366081 AACGAAAATA
* *
114366091 AGATCTGT-AATTTTAGCCTGTTACCCTACTACTTAGGGGGTTAAGACAAGTCTTTGACCTACCC
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGACAAGTCTTCGACCTACCC
* *
114366155 ACCACTGCTCGGAGAGCCAGGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGCTAAG
66 ACCACTGCTCGGAGAGCCAGGATCTGTAAATTTTAGCCTGTTACCCTACTACTTAAGGGGCTAAG
*
114366220 GCGAGTCTTTGACCTGTTCCACCACTGCTCGGCGAGCCC
131 GCGAGTCTTTGACCTGCTCCACCACTGCTCGGCGAGCCC
* * * *
114366259 A-AGTCTGTAAACTTTAGCCTGTTACCCTACTGCTTACGGGGTTAA-AGCGAGTCTTCGACCTGC
1 AGA-TCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGA-CAAGTCTTCGACCTAC
* * *
114366322 TCCGCCACTGCTCGGTGAGTCCA-GATCTGTAAATTTTAGCCTGTTACCCTACTACTTAAGGGGT
64 -CCACCACTGCTCGGAGAG-CCAGGATCTGTAAATTTTAGCCTGTTACCCTACTACTTAAGGGGC
* **
114366386 TAAGGCGTCTA-TCTTTGATCTGCTCTGCCACTGCTCGGCGAGCCC
127 TAAGGCG---AGTCTTTGACCTGCTCCACCACTGCTCGGCGAGCCC
114366431 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGT
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGT
114366473 GAAGGCGTGT
Statistics
Matches: 188, Mismatches: 17, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
167 1 0.01
168 7 0.04
169 46 0.24
170 61 0.32
171 3 0.02
172 68 0.36
173 2 0.01
ACGTcount: A:0.20, C:0.27, G:0.23, T:0.30
Consensus pattern (169 bp):
AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGACAAGTCTTCGACCTACCC
ACCACTGCTCGGAGAGCCAGGATCTGTAAATTTTAGCCTGTTACCCTACTACTTAAGGGGCTAAG
GCGAGTCTTTGACCTGCTCCACCACTGCTCGGCGAGCCC
Found at i:114366972 original size:133 final size:132
Alignment explanation
Indices: 114366573--114367178 Score: 638
Period size: 132 Copynumber: 4.6 Consensus size: 132
114366563 AGCGTGTATC
* * ** * * * *
114366573 TTTGATCTGCTCCACTACC-GCTTAATGAGACAAGATCTGTAGTTTTTAGCCTGTTACC-CTACT
1 TTTGATCTGTTCCACT-CCTGCTCAGCGAGATAAGATCTGCA-TATTTAGCCTGTT-CCACTCCT
* * * * * *
114366636 GCTTAGGGGGTTAAGACTGGTGGTTTG-AATTTGCTCCATTGCCGATACATGGAGATAAGATCCG
63 GCTCAGTGGGATAAGGCTGGTGG-CTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATCCG
*
114366700 CTGAAA
127 CTAAAA
* * * *
114366706 TTTGATCTGTTCCACTCCTGCT-AGTGGGATGAGATCTGCTATATTTAGCCTGTTACACTCCTGC
1 TTTGATCTGTTCCACTCCTGCTCAGCGAGATAAGATCTGC-ATATTTAGCCTGTTCCACTCCTGC
* * * **
114366770 TCAGTGGGATAATGCTGGTGGTTTG-AATCTGCTCCATTGCCGATACATGGAGATAAGATTCATT
65 TCAGTGGGATAAGGCTGGTGG-CTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATCCGCT
114366834 AAAA
129 AAAA
* * *
114366838 TTTGATCTGATCCACTCCTGCTCAGCGAAGATAAGATCTAG-A-GTTTAGCCTGCTCCACTCCTG
1 TTTGATCTGTTCCACTCCTGCTCAGCG-AGATAAGATCT-GCATATTTAGCCTGTTCCACTCCTG
* *
114366901 CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGACAAGATCCGC
64 CTCAGTG-GGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATCCGC
*
114366966 TGAAA
128 TAAAA
* * *
114366971 TTTGATCTGTTCCACTCCTGC-CAGTGGGATGAGATCTGCTATATTTAGCCTGTTCCACTCCTGC
1 TTTGATCTGTTCCACTCCTGCTCAGCGAGATAAGATCTGC-ATATTTAGCCTGTTCCACTCCTGC
* * * *
114367035 TCAGTGGGATAAGGCTTGTGGCTGAAATCTGCTCCATTGCCTATACATGGAGATAAGATTCGCCA
65 TCAGTGGGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATCCGCTA
114367100 AAA
130 AAA
* * * *
114367103 TTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTGTCGAAATTT-GATCTGTTCCACTCC
1 TTTGATCTGTTCCACTCCTGCTCAGCG-AGATAAGATCTG-C-ATATTTAG-CCTGTTCCACTCC
*
114367167 AGC-CAGTGGGAT
62 TGCTCAGTGGGAT
114367179 GAGATCTACT
Statistics
Matches: 402, Mismatches: 56, Indels: 29
0.83 0.11 0.06
Matches are distributed among these distances:
130 1 0.00
131 10 0.02
132 217 0.54
133 124 0.31
134 29 0.07
135 21 0.05
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.31
Consensus pattern (132 bp):
TTTGATCTGTTCCACTCCTGCTCAGCGAGATAAGATCTGCATATTTAGCCTGTTCCACTCCTGCT
CAGTGGGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATCCGCTAA
AA
Found at i:114367165 original size:178 final size:178
Alignment explanation
Indices: 114366967--114367407 Score: 733
Period size: 177 Copynumber: 2.5 Consensus size: 178
114366957 AAGATCCGCT
114366967 GAAATTTGATCTGTTCCACTCCTGCCAGTGGGATGAGATCTGCTATATTTAGCCTGTTCCACTCC
1 GAAATTTGATCTGTTCCACTCCTGCCAGTGGGATGAGATCTGCTATATTTAGCCTGTTCCACTCC
* * *
114367032 TGCTCAGTGGGATAAGGCTTGTGGCTGAAATCTGCTCCATTGCCTATACATGGAGATAAGATTCG
66 TGCTCAGTGGAATAAGGCTTGTCGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCG
*
114367097 CCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTGTC
131 CCAAAATTTGATCTGCTCCGCTCCTGATCAGCGAAGATAAGATCTGTC
* *
114367145 GAAATTTGATCTGTTCCACTCCAGCCAGTGGGATGAGATCTACTATATTTAGCCTGCTT-CACTC
1 GAAATTTGATCTGTTCCACTCCTGCCAGTGGGATGAGATCTGCTATATTTAGCCTG-TTCCACTC
* * * *
114367209 CTGCTCAGT-GAAGAAGGCTGGTCGCTGAAATTTGCTCCATTGCCGATACATGGAGGTAAGATTC
65 CTGCTCAGTGGAATAAGGCTTGTCGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTC
*
114367273 GCCAAAATTTGATCTGCTTCGCTCCTGATCAGCGAAGATAAGATCTGTC
130 GCCAAAATTTGATCTGCTCCGCTCCTGATCAGCGAAGATAAGATCTGTC
* * *
114367322 GAAATTTGATCTATTCCACTCCTACCAGTAGGATGAGATCTGCTATATTTAGCCTGTTCCACTCC
1 GAAATTTGATCTGTTCCACTCCTGCCAGTGGGATGAGATCTGCTATATTTAGCCTGTTCCACTCC
114367387 TGCTCAGTGGAATAAGGCTTG
66 TGCTCAGTGGAATAAGGCTTG
114367408 CCAAAATCTG
Statistics
Matches: 242, Mismatches: 18, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
176 2 0.01
177 160 0.66
178 78 0.32
179 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (178 bp):
GAAATTTGATCTGTTCCACTCCTGCCAGTGGGATGAGATCTGCTATATTTAGCCTGTTCCACTCC
TGCTCAGTGGAATAAGGCTTGTCGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCG
CCAAAATTTGATCTGCTCCGCTCCTGATCAGCGAAGATAAGATCTGTC
Found at i:114367210 original size:89 final size:88
Alignment explanation
Indices: 114367117--114367393 Score: 216
Period size: 89 Copynumber: 3.1 Consensus size: 88
114367107 ATCTGCTCCG
114367117 CTCCTGCTCAGCGAAGATAAGATCTGTCGAAATTTGATCTGTTCCACTCC-AGCCAGTGGGATGA
1 CTCCTGCTCAGCGAAGATAAGATCTGTCGAAATTTGATCT-TTCCACTCCGA-CCAGTGGGATGA
114367181 GATCTACTATATTTAGCCTGCTTCA
64 GATCTACTATATTTAGCCTGCTTCA
* * * *
114367206 CTCCTGCTCAGTGAAG--AAG-GCTGGTCGCTGAAATTTG--C--TCCATTGCCGATACA-TGGA
1 CTCCTGCTCAGCGAAGATAAGATCT-GT--C-GAAATTTGATCTTTCCACT-CCGA-CCAGTGG-
* * ** * * * *
114367263 GGTAAGATTCGCCAAAATTT-GATCTGCTTCG
59 GATGAGA-TCTACTATATTTAG-CCTGCTTCA
* * *
114367294 CTCCTGATCAGCGAAGATAAGATCTGTCGAAATTTGATCTATTCCACTCCTACCAGTAGGATGAG
1 CTCCTGCTCAGCGAAGATAAGATCTGTCGAAATTTGATCT-TTCCACTCCGACCAGTGGGATGAG
*
114367359 ATCTGCTATATTTAGCCTG-TTCCA
65 ATCTACTATATTTAGCCTGCTT-CA
114367383 CTCCTGCTCAG
1 CTCCTGCTCAG
114367394 TGGAATAAGG
Statistics
Matches: 139, Mismatches: 29, Indels: 40
0.67 0.14 0.19
Matches are distributed among these distances:
85 5 0.04
86 7 0.05
87 22 0.16
88 33 0.24
89 39 0.28
90 21 0.15
91 7 0.05
92 5 0.04
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.30
Consensus pattern (88 bp):
CTCCTGCTCAGCGAAGATAAGATCTGTCGAAATTTGATCTTTCCACTCCGACCAGTGGGATGAGA
TCTACTATATTTAGCCTGCTTCA
Found at i:114368668 original size:5 final size:5
Alignment explanation
Indices: 114368655--114368743 Score: 56
Period size: 5 Copynumber: 17.0 Consensus size: 5
114368645 TCGCATTGGC
* * *
114368655 CTTTC CTTTG CTTTT CTTTT CTTTCT CTTTTT GTTTTT CTTTT CTTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTT-T C-TTTT -CTTTT CTTTT C-TTTT
* * *
114368704 CCTTTT TTTTT CTTTC CTTTT TTTCTT CTTTT -TTTT -TTTT
1 -CTTTT CTTTT CTTTT CTTTT CTT-TT CTTTT CTTTT CTTTT
114368744 GAAAGTAAAG
Statistics
Matches: 68, Mismatches: 10, Indels: 13
0.75 0.11 0.14
Matches are distributed among these distances:
4 8 0.12
5 37 0.54
6 19 0.28
7 4 0.06
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (5 bp):
CTTTT
Found at i:114368683 original size:11 final size:11
Alignment explanation
Indices: 114368666--114368740 Score: 75
Period size: 11 Copynumber: 6.8 Consensus size: 11
114368656 TTTCCTTTGC
114368666 TTTTCTTTTCT
1 TTTTCTTTTCT
* *
114368677 TTCTCTTTTTGT
1 TTTTC-TTTTCT
114368689 TTTTCTTTTCT
1 TTTTCTTTTCT
114368700 TTTTCCTTTT-T
1 TTTT-CTTTTCT
*
114368711 TTTTCTTTCCT
1 TTTTCTTTTCT
114368722 TTTT-TTCTTCT
1 TTTTCTT-TTCT
114368733 TTTT-TTTT
1 TTTTCTTTT
114368741 TTTGAAAGTA
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
10 8 0.15
11 32 0.59
12 14 0.26
ACGTcount: A:0.00, C:0.17, G:0.01, T:0.81
Consensus pattern (11 bp):
TTTTCTTTTCT
Found at i:114368691 original size:6 final size:6
Alignment explanation
Indices: 114368666--114368741 Score: 65
Period size: 6 Copynumber: 13.7 Consensus size: 6
114368656 TTTCCTTTGC
* * *
114368666 TTTTC- TTTTCT TTCTCT TTTTGT TTTTC- TTTTCT TTTTCC TTTT-T
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
* *
114368711 TTTTC- TTTCCT TTTT-T TCTTCT TTTT-T TTTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTT
114368742 TTGAAAGTAA
Statistics
Matches: 56, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
5 27 0.48
6 29 0.52
ACGTcount: A:0.00, C:0.17, G:0.01, T:0.82
Consensus pattern (6 bp):
TTTTCT
Found at i:114368719 original size:15 final size:15
Alignment explanation
Indices: 114368701--114368743 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
114368691 TTCTTTTCTT
114368701 TTTCCTTTTTTTTTC
1 TTTCCTTTTTTTTTC
114368716 TTTCCTTTTTTTCTTC
1 TTTCCTTTTTTT-TTC
114368732 TTT--TTTTTTTTT
1 TTTCCTTTTTTTTT
114368744 GAAAGTAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 2 0.07
14 7 0.26
15 12 0.44
16 6 0.22
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTCCTTTTTTTTTC
Found at i:114368725 original size:23 final size:22
Alignment explanation
Indices: 114368656--114368743 Score: 86
Period size: 23 Copynumber: 3.9 Consensus size: 22
114368646 CGCATTGGCC
**
114368656 TTTCCTTTGCTTTTCTTTTCTT
1 TTTCCTTTTTTTTTCTTTTCTT
* *
114368678 TCTCTTTTTGTTTTTCTTTTCTT
1 TTTCCTTTT-TTTTTCTTTTCTT
*
114368701 TTTCCTTTTTTTTTCTTTCCTTT
1 TTTCCTTTTTTTTTCTTTTC-TT
* *
114368724 TTTTCTTCTTTTTTTTTTTT
1 TTTCCTT-TTTTTTTCTTTT
114368744 GAAAGTAAAG
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
22 16 0.30
23 27 0.51
24 10 0.19
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (22 bp):
TTTCCTTTTTTTTTCTTTTCTT
Found at i:114368741 original size:17 final size:16
Alignment explanation
Indices: 114368665--114368743 Score: 68
Period size: 17 Copynumber: 4.8 Consensus size: 16
114368655 CTTTCCTTTG
* * *
114368665 CTTTTCTTTTCTTTCT
1 CTTTTTTTTTTTTTTT
*
114368681 CTTTTTGTTTTTCTTTT
1 CTTTTT-TTTTTTTTTT
*
114368698 CTTTTTCCTTTTTTTTT
1 CTTTTT-TTTTTTTTTT
** *
114368715 CTTTCCTTTTTTTCTT
1 CTTTTTTTTTTTTTTT
114368731 CTTTTTTTTTTTT
1 CTTTTTTTTTTTT
114368744 GAAAGTAAAG
Statistics
Matches: 49, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
16 24 0.49
17 25 0.51
ACGTcount: A:0.00, C:0.18, G:0.01, T:0.81
Consensus pattern (16 bp):
CTTTTTTTTTTTTTTT
Found at i:114368743 original size:40 final size:40
Alignment explanation
Indices: 114368665--114368741 Score: 113
Period size: 38 Copynumber: 2.0 Consensus size: 40
114368655 CTTTCCTTTG
114368665 CTTTTCTTTTCTTTCTCTTTTTGTTTTTCTTTTCTTTTTC
1 CTTTTCTTTTCTTTCTCTTTTTGTTTTTCTTTTCTTTTTC
* * *
114368705 CTTTTTTTTTCTTTC-CTTTTT-TTCTTCTTTTTTTTTT
1 CTTTTCTTTTCTTTCTCTTTTTGTTTTTCTTTTCTTTTT
114368742 TTGAAAGTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 14 0.41
39 6 0.18
40 14 0.41
ACGTcount: A:0.00, C:0.18, G:0.01, T:0.81
Consensus pattern (40 bp):
CTTTTCTTTTCTTTCTCTTTTTGTTTTTCTTTTCTTTTTC
Found at i:114371282 original size:21 final size:21
Alignment explanation
Indices: 114371256--114371300 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
114371246 GCTGGCTCAT
*
114371256 CATGTTGTTCTGTGACTCCAG
1 CATGTTGTTCTGGGACTCCAG
*
114371277 CATGTTTTTCTGGGACTCCAG
1 CATGTTGTTCTGGGACTCCAG
114371298 CAT
1 CAT
114371301 TTGATCCCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (21 bp):
CATGTTGTTCTGGGACTCCAG
Found at i:114375006 original size:125 final size:126
Alignment explanation
Indices: 114374784--114375026 Score: 425
Period size: 125 Copynumber: 1.9 Consensus size: 126
114374774 GTTTTAGCCT
114374784 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
1 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
* *
114374849 CTTCAAATTCTTTAAATACTGAACATTGCCTTTATTTT-AAAATTTTTGAGAGTGAACTGG
66 CTTCAAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAAATTTTGAGAGTGAACTGG
* * *
114374909 TAAGAGGATATTCGAATATTCAAGATAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCATGATT
1 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
*
114374974 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAAATTTTGAGAG
66 CTTCAAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAAATTTTGAGAG
114375027 AAGATCAATG
Statistics
Matches: 111, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
125 98 0.88
126 13 0.12
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (126 bp):
TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
CTTCAAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAAATTTTGAGAGTGAACTGG
Found at i:114375158 original size:13 final size:12
Alignment explanation
Indices: 114375125--114375175 Score: 50
Period size: 13 Copynumber: 4.1 Consensus size: 12
114375115 CTAACCATGT
*
114375125 ATAAATAATAAAA
1 ATAATTAAT-AAA
114375138 ATAA-TAATAATA
1 ATAATTAATAA-A
*
114375150 GTAATTAATAGAA
1 ATAATTAATA-AA
114375163 ATAATTAATAAA
1 ATAATTAATAAA
114375175 A
1 A
114375176 CAACAGTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
11 2 0.06
12 11 0.33
13 19 0.58
14 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (12 bp):
ATAATTAATAAA
Found at i:114375188 original size:21 final size:20
Alignment explanation
Indices: 114375162--114375207 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
114375152 AATTAATAGA
*
114375162 AATAATTAATAAAACAACAGT
1 AATAATAAATAAAACAAC-GT
* *
114375183 AATAATAAATACAATAACGT
1 AATAATAAATAAAACAACGT
114375203 AATAA
1 AATAA
114375208 ACATTGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.63, C:0.09, G:0.04, T:0.24
Consensus pattern (20 bp):
AATAATAAATAAAACAACGT
Found at i:114375508 original size:14 final size:14
Alignment explanation
Indices: 114375489--114375519 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
114375479 ATATATTTAC
*
114375489 ATAATAAATATATA
1 ATAATAAATAAATA
114375503 ATAATAAATAAATA
1 ATAATAAATAAATA
114375517 ATA
1 ATA
114375520 TAATAATATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAATAAATAAATA
Found at i:114375520 original size:19 final size:18
Alignment explanation
Indices: 114375491--114375527 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
114375481 ATATTTACAT
114375491 AATAAATATATAATAATA
1 AATAAATATATAATAATA
114375509 AATAAATAATATAATAATA
1 AATAAAT-ATATAATAATA
114375528 TGAAACATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAAATATATAATAATA
Found at i:114375566 original size:29 final size:29
Alignment explanation
Indices: 114375523--114375626 Score: 70
Period size: 29 Copynumber: 3.4 Consensus size: 29
114375513 AATAATATAA
114375523 TAATATGAAACATAAGTCAAATTAATTAAAT
1 TAATA-GAAA-ATAAGTCAAATTAATTAAAT
** *
114375554 TAATAGAAAATAA-T-AAAAAAATATAAAAA
1 TAATAGAAAATAAGTCAAATTAAT-T-AAAT
* *
114375583 TAAT-GAGAATAAAGCTCAAATTAATTAATT
1 TAATAGAAAAT-AAG-TCAAATTAATTAAAT
*
114375613 TAACAGTAAAATAA
1 TAATAG-AAAATAA
114375627 CATAAATAAA
Statistics
Matches: 55, Mismatches: 10, Indels: 16
0.68 0.12 0.20
Matches are distributed among these distances:
27 6 0.11
28 7 0.13
29 13 0.24
30 9 0.16
31 10 0.18
32 10 0.18
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.28
Consensus pattern (29 bp):
TAATAGAAAATAAGTCAAATTAATTAAAT
Found at i:114375576 original size:60 final size:60
Alignment explanation
Indices: 114375502--114375626 Score: 150
Period size: 59 Copynumber: 2.1 Consensus size: 60
114375492 ATAAATATAT
* *
114375502 AATAATAAATAAATAATATAATAAT-ATGAAACAT-AAG-TCAAATTAATTAAATTAATAG-AA
1 AATAAT-AA-AAA-AATATAAAAATAATGAAA-ATAAAGCTCAAATTAATTAAATTAACAGTAA
* *
114375562 AATAATAAAAAAATATAAAAATAATGAGAATAAAGCTCAAATTAATTAATTTAACAGTAA
1 AATAATAAAAAAATATAAAAATAATGAAAATAAAGCTCAAATTAATTAAATTAACAGTAA
114375622 AATAA
1 AATAA
114375627 CATAAATAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
57 12 0.21
58 11 0.19
59 21 0.37
60 13 0.23
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.28
Consensus pattern (60 bp):
AATAATAAAAAAATATAAAAATAATGAAAATAAAGCTCAAATTAATTAAATTAACAGTAA
Found at i:114375933 original size:18 final size:18
Alignment explanation
Indices: 114375910--114375945 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
114375900 ATAACAAGTA
*
114375910 GGGTGATGGAGTTAGTGG
1 GGGTGATGGAGGTAGTGG
114375928 GGGTGATGGAGGTAGTGG
1 GGGTGATGGAGGTAGTGG
114375946 ATGGTTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.58, T:0.25
Consensus pattern (18 bp):
GGGTGATGGAGGTAGTGG
Found at i:114375967 original size:29 final size:32
Alignment explanation
Indices: 114375935--114376027 Score: 95
Period size: 37 Copynumber: 2.9 Consensus size: 32
114375925 TGGGGGTGAT
114375935 GGAGGTAGTGGATGGTTTAGTAGGGTATGGGAGTGA
1 GGAGGTAGTGGATGGTTTAGTAGGG-AT--GAGT-A
114375971 TGGAGGTAGTGGATGGTTTAGTAGGG-TGA-T-
1 -GGAGGTAGTGGATGGTTTAGTAGGGATGAGTA
* *
114376001 GGAGTTAGTGGTTGGTTTAGT-GGGATG
1 GGAGGTAGTGGATGGTTTAGTAGGGATG
114376028 TTTAACTTGG
Statistics
Matches: 53, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
28 3 0.06
29 21 0.40
32 1 0.02
33 2 0.04
35 1 0.02
37 25 0.47
ACGTcount: A:0.19, C:0.00, G:0.48, T:0.32
Consensus pattern (32 bp):
GGAGGTAGTGGATGGTTTAGTAGGGATGAGTA
Found at i:114375980 original size:37 final size:38
Alignment explanation
Indices: 114375925--114376002 Score: 140
Period size: 37 Copynumber: 2.1 Consensus size: 38
114375915 ATGGAGTTAG
*
114375925 TGGGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGT-A
1 TGGGAGTGATGGAGGTAGTGGATGGTTTAGTAGGGTGA
114375962 TGGGAGTGATGGAGGTAGTGGATGGTTTAGTAGGGTGA
1 TGGGAGTGATGGAGGTAGTGGATGGTTTAGTAGGGTGA
114376000 TGG
1 TGG
114376003 AGTTAGTGGT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
37 35 0.90
38 4 0.10
ACGTcount: A:0.19, C:0.00, G:0.51, T:0.29
Consensus pattern (38 bp):
TGGGAGTGATGGAGGTAGTGGATGGTTTAGTAGGGTGA
Found at i:114376693 original size:33 final size:33
Alignment explanation
Indices: 114376623--114376695 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
114376613 GATAGTTTGT
* * * *
114376623 TAGGACAATAAACATAGAACATAGAAAATTCAT
1 TAGGACAATAAACACAGAACAGAGAAAATCCAC
* * *
114376656 TAGGACAATAAACACAGAATAGAGATAATCCGC
1 TAGGACAATAAACACAGAACAGAGAAAATCCAC
114376689 TAGGACA
1 TAGGACA
114376696 GTTAACATGG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.51, C:0.15, G:0.16, T:0.18
Consensus pattern (33 bp):
TAGGACAATAAACACAGAACAGAGAAAATCCAC
Found at i:114378898 original size:20 final size:20
Alignment explanation
Indices: 114378875--114378917 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
114378865 AATTAAAATG
114378875 TATTATTTTAAATATATTTT
1 TATTATTTTAAATATATTTT
* *
114378895 TATTATTTTATATATTTTTT
1 TATTATTTTAAATATATTTT
114378915 TAT
1 TAT
114378918 GGAAAATAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (20 bp):
TATTATTTTAAATATATTTT
Found at i:114380203 original size:42 final size:41
Alignment explanation
Indices: 114380129--114380217 Score: 106
Period size: 42 Copynumber: 2.1 Consensus size: 41
114380119 TTTATTATTC
* * *
114380129 TAAAAATTTTAGATTAAATAACGTTAATAACAATAAAACTA
1 TAAAAAGTTTAGATTAAATAACGTTAATAACAAAAAAAATA
* ** *
114380170 TTAAAAGTTTAGATTAAATAAATTTTATTAACAAAAAAAATA
1 TAAAAAGTTTAGATTAAAT-AACGTTAATAACAAAAAAAATA
114380212 TAAAAA
1 TAAAAA
114380218 TTGAAAATTA
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
41 17 0.44
42 22 0.56
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.33
Consensus pattern (41 bp):
TAAAAAGTTTAGATTAAATAACGTTAATAACAAAAAAAATA
Found at i:114380785 original size:5 final size:5
Alignment explanation
Indices: 114380771--114380802 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
114380761 CCTTACTTAT
114380771 TTTTA TTTTTA TTTTA TTTTA TTTTA TTTTA T
1 TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA T
114380803 GAACTGCTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:114392581 original size:21 final size:21
Alignment explanation
Indices: 114392557--114392710 Score: 87
Period size: 21 Copynumber: 7.3 Consensus size: 21
114392547 TCTTACAAGC
*
114392557 TTCTGTTTAACCCTTATGGGT
1 TTCTGTTTAACCCTTATGAGT
* * * * * *
114392578 TTCTATTCAGCTCTTTTGAGC
1 TTCTGTTTAACCCTTATGAGT
114392599 TTCTGTTTAACCCTTATGAGT
1 TTCTGTTTAACCCTTATGAGT
* *** * * *
114392620 TT-TCGTTCAGTTCTTTTAAGC
1 TTCT-GTTTAACCCTTATGAGT
*
114392641 TTCTGTTTAACCCTTATGGGAT
1 TTCTGTTTAACCCTTATGAG-T
* * * *
114392663 TT-TGTTTAGCTCTTACGAGC
1 TTCTGTTTAACCCTTATGAGT
* *
114392683 TTCTGTTCAACCCTTATGGGT
1 TTCTGTTTAACCCTTATGAGT
114392704 TTCTGTT
1 TTCTGTT
114392711 AAGCTCTCAT
Statistics
Matches: 90, Mismatches: 39, Indels: 8
0.66 0.28 0.06
Matches are distributed among these distances:
20 3 0.03
21 84 0.93
22 3 0.03
ACGTcount: A:0.15, C:0.20, G:0.17, T:0.48
Consensus pattern (21 bp):
TTCTGTTTAACCCTTATGAGT
Found at i:114392603 original size:42 final size:41
Alignment explanation
Indices: 114392544--114392733 Score: 218
Period size: 42 Copynumber: 4.5 Consensus size: 41
114392534 CTTTCCGTTT
** *
114392544 AGCTCTTACAAGCTTCTGTTTAACCCTTATGGGTTTCTATTC
1 AGCTCTTATGAGCTTCTGTTTAACCCTTATGGGTTT-TGTTC
* *
114392586 AGCTCTTTTGAGCTTCTGTTTAACCCTTATGAGTTTTCGTTC
1 AGCTCTTATGAGCTTCTGTTTAACCCTTATGGGTTTT-GTTC
* * * *
114392628 AGTTCTTTTAAGCTTCTGTTTAACCCTTATGGGATTTTGTTT
1 AGCTCTTATGAGCTTCTGTTTAACCCTTATGGG-TTTTGTTC
* * *
114392670 AGCTCTTACGAGCTTCTGTTCAACCCTTATGGGTTTCTGTTA
1 AGCTCTTATGAGCTTCTGTTTAACCCTTATGGGTTT-TGTTC
* *
114392712 AGCTCTCATGAGCTTTTGTTTA
1 AGCTCTTATGAGCTTCTGTTTA
114392734 GCTTTCGAGC
Statistics
Matches: 126, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
41 4 0.03
42 118 0.94
43 4 0.03
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.46
Consensus pattern (41 bp):
AGCTCTTATGAGCTTCTGTTTAACCCTTATGGGTTTTGTTC
Found at i:114392736 original size:21 final size:21
Alignment explanation
Indices: 114392540--114392736 Score: 85
Period size: 21 Copynumber: 9.4 Consensus size: 21
114392530 TTTACTTTCC
** *
114392540 GTTTAGCTCTTACAAGCTTCT
1 GTTTAGCTCTTATGAGCTTTT
* * *
114392561 GTTTAACCCTTATG-GGTTTCT
1 GTTTAGCTCTTATGAGCTTT-T
* * * *
114392582 ATTCAGCTCTTTTGAGCTTCT
1 GTTTAGCTCTTATGAGCTTTT
* *
114392603 GTTTAACCCTTATGAG-TTTT
1 GTTTAGCTCTTATGAGCTTTT
* * * * *
114392623 CGTTCAGTTCTTTTAAGCTTCT
1 -GTTTAGCTCTTATGAGCTTTT
* * * *
114392645 GTTTAACCCTTATGGGATTTT
1 GTTTAGCTCTTATGAGCTTTT
* *
114392666 GTTTAGCTCTTACGAGCTTCT
1 GTTTAGCTCTTATGAGCTTTT
* * * *
114392687 GTTCAACCCTTATG-GGTTTCT
1 GTTTAGCTCTTATGAGCTTT-T
* *
114392708 GTTAAGCTCTCATGAGCTTTT
1 GTTTAGCTCTTATGAGCTTTT
114392729 GTTTAGCT
1 GTTTAGCT
114392737 TTCGAGCTTC
Statistics
Matches: 117, Mismatches: 53, Indels: 12
0.64 0.29 0.07
Matches are distributed among these distances:
20 9 0.08
21 98 0.84
22 10 0.09
ACGTcount: A:0.16, C:0.20, G:0.17, T:0.46
Consensus pattern (21 bp):
GTTTAGCTCTTATGAGCTTTT
Found at i:114396185 original size:38 final size:40
Alignment explanation
Indices: 114396142--114396250 Score: 159
Period size: 40 Copynumber: 2.7 Consensus size: 40
114396132 CTTGATATAT
*
114396142 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
1 TATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAA
114396182 TATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGT-A
1 TATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAA
* *
114396221 -CTATATCCGGGCTTAAAGTTCCGCAGGCTT
1 TATATATCCGGG-TTAAA-TCCCGCAGGCTT
114396251 TGAGCTAGTG
Statistics
Matches: 64, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
38 10 0.16
39 6 0.09
40 48 0.75
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (40 bp):
TATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAA
Found at i:114402083 original size:60 final size:59
Alignment explanation
Indices: 114401963--114402099 Score: 143
Period size: 60 Copynumber: 2.3 Consensus size: 59
114401953 CAAAGTTAAC
*
114401963 TGGGCCTTAGCCCATATCAATATTAATCTGGACCATAGCCCTTTACAGCATCAGAGTATAT
1 TGGGCC-TAGCCCATATCAATATCAATCTGGACCATAGCCCTTTACAG-ATCAGAGTATAT
* * * * *
114402024 TGGGCCTAGCCCATATCAGTATCAATTTGGGCCGTAGTCCTATTACA-AGTC-GAGATATAT
1 TGGGCCTAGCCCATATCAATATCAATCTGGACCATAGCCCT-TTACAGA-TCAGAG-TATAT
* *
114402084 TAGGCCTTGCCCATAT
1 TGGGCCTAGCCCATAT
114402100 TGACACAGTT
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
59 4 0.06
60 50 0.77
61 11 0.17
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (59 bp):
TGGGCCTAGCCCATATCAATATCAATCTGGACCATAGCCCTTTACAGATCAGAGTATAT
Found at i:114402467 original size:26 final size:26
Alignment explanation
Indices: 114402438--114402500 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
114402428 AAAATTAACC
*
114402438 CTAGGGGTATAACGGTCATTTTGCAT-
1 CTAGGGGTATAACGGTAATTTT-CATA
* *
114402464 CTAGGGGTAAAATGGTAATTTTCATA
1 CTAGGGGTATAACGGTAATTTTCATA
114402490 CTTAGGGGTAT
1 C-TAGGGGTAT
114402501 TTCAGTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
25 3 0.10
26 20 0.65
27 8 0.26
ACGTcount: A:0.27, C:0.11, G:0.27, T:0.35
Consensus pattern (26 bp):
CTAGGGGTATAACGGTAATTTTCATA
Found at i:114402760 original size:8 final size:8
Alignment explanation
Indices: 114402747--114402773 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
114402737 ACAAATGCCA
114402747 GCTTTTCG
1 GCTTTTCG
114402755 GCTTTTCG
1 GCTTTTCG
114402763 GCTTTTCG
1 GCTTTTCG
114402771 GCT
1 GCT
114402774 GTTGCCGATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.00, C:0.26, G:0.26, T:0.48
Consensus pattern (8 bp):
GCTTTTCG
Found at i:114403457 original size:19 final size:19
Alignment explanation
Indices: 114403435--114403474 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
114403425 AGATTCGGCT
114403435 AGTTGGAAAAGAAAATCAA
1 AGTTGGAAAAGAAAATCAA
114403454 AGTTGGAAAAGAAAATCAA
1 AGTTGGAAAAGAAAATCAA
114403473 AG
1 AG
114403475 GAATAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.57, C:0.05, G:0.23, T:0.15
Consensus pattern (19 bp):
AGTTGGAAAAGAAAATCAA
Found at i:114404321 original size:3 final size:3
Alignment explanation
Indices: 114404313--114404369 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
114404303 AACACCACAT
114404313 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
114404361 TAA TAA TAA
1 TAA TAA TAA
114404370 CCATAGCAAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:114412519 original size:5 final size:5
Alignment explanation
Indices: 114412509--114412551 Score: 59
Period size: 5 Copynumber: 8.0 Consensus size: 5
114412499 TGAAAATGTA
114412509 AAAAT AAAAT AAAAT AAAAT AAAAATT AAAAT AAAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT -AAAA-T AAAAT -AAAAT AAAAT
114412552 GACTAAATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 21 0.60
6 13 0.37
7 1 0.03
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:114412533 original size:11 final size:11
Alignment explanation
Indices: 114412507--114412551 Score: 74
Period size: 11 Copynumber: 4.1 Consensus size: 11
114412497 AATGAAAATG
114412507 TAAAAATAAAA
1 TAAAAATAAAA
114412518 T-AAAATAAAA
1 TAAAAATAAAA
114412528 TAAAAATTAAAA
1 TAAAAA-TAAAA
114412540 TAAAAATAAAA
1 TAAAAATAAAA
114412551 T
1 T
114412552 GACTAAATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.31
11 11 0.34
12 11 0.34
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (11 bp):
TAAAAATAAAA
Found at i:114413667 original size:26 final size:26
Alignment explanation
Indices: 114413638--114413687 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
114413628 CACATGGCCT
*
114413638 TGTGTAAGCCCTTGTGGCTCACACAG
1 TGTGTAAGCCCGTGTGGCTCACACAG
*
114413664 TGTGTAAGCTCGTGTGGCTCACAC
1 TGTGTAAGCCCGTGTGGCTCACAC
114413688 GGCCATGTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.18, C:0.26, G:0.28, T:0.28
Consensus pattern (26 bp):
TGTGTAAGCCCGTGTGGCTCACACAG
Found at i:114416038 original size:24 final size:24
Alignment explanation
Indices: 114415984--114416038 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
114415974 AAGATTTAGT
*
114415984 ATTTATTAGTATAAAATATCTAAC
1 ATTTATTAGCATAAAATATCTAAC
* * * *
114416008 ATCTATTAGCATAATATATTTTAC
1 ATTTATTAGCATAAAATATCTAAC
114416032 ATTTATT
1 ATTTATT
114416039 TGAAATAAGG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (24 bp):
ATTTATTAGCATAAAATATCTAAC
Found at i:114425559 original size:50 final size:50
Alignment explanation
Indices: 114425496--114425731 Score: 192
Period size: 50 Copynumber: 4.7 Consensus size: 50
114425486 TTAGGTTATG
*
114425496 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGGTAGTTAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGGTAGTTAGGTCACA
* * * * * ** * * *
114425546 TGTGTAGTACTAAGTGCAGGATATTATGCGTACCCGACAACTTCA-ATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG-GTAGTT-AGGTCACA
* * * ** * * *
114425597 TGTGTAGTACTAAGCGCAGGCTACTGCATGTATAAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGGTAGTTAGGTCACA
* * *
114425647 TGTGTAGTACTAAGTGCAGGCTATTACATGTACC-GG-A-TTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGGTAGTTA--GGTCACA
* *
114425696 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG
114425732 ATAGCTTCGG
Statistics
Matches: 141, Mismatches: 39, Indels: 12
0.73 0.20 0.06
Matches are distributed among these distances:
47 3 0.02
49 37 0.26
50 68 0.48
51 32 0.23
52 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGGTAGTTAGGTCACA
Found at i:114425680 original size:101 final size:101
Alignment explanation
Indices: 114425495--114425680 Score: 255
Period size: 101 Copynumber: 1.8 Consensus size: 101
114425485 TTTAGGTTAT
* * * * *
114425495 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGGTAGTTAGGTCGCATGTGTAGTACTAAG
1 GTGTGTAGTACTAAGCGCAGGCTACTACATGTACAAGATAGTTAGGTCACATGTGTAGTACTAAG
**
114425560 TGCAGGATATTATGCGTACCCGACAACTTCAATCAC
66 TGCAGGATATTACACGTACCCGACAACTTCAATCAC
* * * *
114425596 GTGTGTAGTACTAAGCGCAGGCTACTGCATGTATAAGATGGTTAGGTCACGTGTGTAGTACTAAG
1 GTGTGTAGTACTAAGCGCAGGCTACTACATGTACAAGATAGTTAGGTCACATGTGTAGTACTAAG
* *
114425661 TGCAGGCTATTACATGTACC
66 TGCAGGATATTACACGTACC
114425681 GGATTATTGG
Statistics
Matches: 72, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
101 72 1.00
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.28
Consensus pattern (101 bp):
GTGTGTAGTACTAAGCGCAGGCTACTACATGTACAAGATAGTTAGGTCACATGTGTAGTACTAAG
TGCAGGATATTACACGTACCCGACAACTTCAATCAC
Found at i:114425767 original size:150 final size:151
Alignment explanation
Indices: 114425448--114425732 Score: 364
Period size: 150 Copynumber: 1.9 Consensus size: 151
114425438 AACACATCTA
* * * *
114425448 TAGTACTATGTGCAGGCTACCATGTGTTTAAGATGGTTTTAGGTTATGTGTGTAGTACTAAGTGC
1 TAGTAATATGTGCAGGCTACCA-GTGTATAAGATGG-TTTAGGTCACGTGTGTAGTACTAAGTGC
* *
114425513 AGGCTACTACGTGTACCAGGTAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGATATTATGCGTA
64 AGGCTACTACATGTACCAGGTAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGATACTATGCGTA
* *
114425578 CCCGACAACTTCAATCACGTGTG
129 CCAGACAACTTCAATCAAGTGTG
* * *
114425601 TAGTACTAAGCGCAGGCTACTGCA-TGTATAAGATGG-TTAGGTCACGTGTGTAGTACTAAGTGC
1 TAGTAATATGTGCAGGCTAC--CAGTGTATAAGATGGTTTAGGTCACGTGTGTAGTACTAAGTGC
* *
114425664 AGGCTATTACATGTACC-GG-A-TTATTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCG
64 AGGCTACTACATGTACCAGGTAGTTA--GGTCGCATGTGTAGTACTAAGTGCAGGATACTATGCG
114425726 TACCAGA
127 TACCAGA
114425733 TAGCTTCGGT
Statistics
Matches: 118, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
148 3 0.03
149 1 0.01
150 43 0.36
151 40 0.34
153 29 0.25
155 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.31
Consensus pattern (151 bp):
TAGTAATATGTGCAGGCTACCAGTGTATAAGATGGTTTAGGTCACGTGTGTAGTACTAAGTGCAG
GCTACTACATGTACCAGGTAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGATACTATGCGTACC
AGACAACTTCAATCAAGTGTG
Found at i:114432194 original size:26 final size:26
Alignment explanation
Indices: 114432165--114432246 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
114432155 TGGTACAAAT
114432165 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
114432191 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
114432217 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
114432243 TGAT
1 TGAT
114432247 GGGCATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:114433737 original size:26 final size:26
Alignment explanation
Indices: 114433699--114433748 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
114433689 CTATGTATGG
*
114433699 AAAATTACTGTTATACCCCTAGGTGT
1 AAAATTACCGTTATACCCCTAGGTGT
114433725 AAAATTACCGTTATACCCCTAGGT
1 AAAATTACCGTTATACCCCTAGGT
114433749 TAATTTTGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (26 bp):
AAAATTACCGTTATACCCCTAGGTGT
Found at i:114433899 original size:27 final size:26
Alignment explanation
Indices: 114433850--114433954 Score: 120
Period size: 27 Copynumber: 3.9 Consensus size: 26
114433840 AGGAAGCGTC
*
114433850 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAA-TATCTGAT
* *
114433877 CTGGTGGCTCTGCTACATATATCTGTT
1 CTGGTGGCTCTGCCACA-ATATCTGAT
*
114433904 CTGGTGGCTCTACCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTG-AT
* * *
114433931 CTGGTGACTTTGTCACAATATCTG
1 CTGGTGGCTCTGCCACAATATCTG
114433955 GCAGCCTCGC
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
26 7 0.11
27 58 0.88
28 1 0.02
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACAATATCTGAT
Found at i:114436077 original size:26 final size:26
Alignment explanation
Indices: 114436048--114436155 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
114436038 TGGTACAAAT
114436048 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
114436074 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
114436100 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
114436126 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
114436152 TGAT
1 TGAT
114436156 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:114437814 original size:27 final size:27
Alignment explanation
Indices: 114437773--114437858 Score: 122
Period size: 27 Copynumber: 3.2 Consensus size: 27
114437763 GAGGAAGCGT
*
114437773 TCTGGTGGCTATGCCACAATTATCTGA
1 TCTGGTGGCTCTGCCACAATTATCTGA
*
114437800 TCTGGTGGCTCTGCCAC-ATATATCTGT
1 TCTGGTGGCTCTGCCACAAT-TATCTGA
114437827 TCTGGTGGCTCTGCCACAA-TATCTGTA
1 TCTGGTGGCTCTGCCACAATTATCTG-A
114437854 TCTGG
1 TCTGG
114437859 CGACTTCGTC
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
26 8 0.15
27 44 0.83
28 1 0.02
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAATTATCTGA
Found at i:114439351 original size:52 final size:49
Alignment explanation
Indices: 114439276--114439402 Score: 148
Period size: 52 Copynumber: 2.5 Consensus size: 49
114439266 GTGAGAACAC
* **
114439276 ATGTGTAGTACTATGTGTAGGCTACCACGTGTTTAAGATAGTTTTAGGTCATG
1 ATGTGTAGTACTAAGTGTAGGCTACCACGTGTACAAGATAG--TTAGGT--TG
* * *
114439329 -TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTTG
1 ATGTGTAGTACTAAGTGTAGGCTACCACGTGTACAAGATAGTTAGGTTG
114439377 CATGTGTAGTACTAAGTGTAGGCTAC
1 -ATGTGTAGTACTAAGTGTAGGCTAC
114439403 TATGCGTACC
Statistics
Matches: 65, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
48 2 0.03
50 29 0.45
52 34 0.52
ACGTcount: A:0.25, C:0.13, G:0.28, T:0.34
Consensus pattern (49 bp):
ATGTGTAGTACTAAGTGTAGGCTACCACGTGTACAAGATAGTTAGGTTG
Found at i:114439394 original size:50 final size:49
Alignment explanation
Indices: 114439275--114439568 Score: 191
Period size: 50 Copynumber: 5.9 Consensus size: 49
114439265 TGTGAGAACA
* * ***
114439275 CATGTGTAGTACTATGTGTAGGCTACCACGTGTTTAAGATAGTTTTAGG-T
1 CATGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAG--TTAGGTT
*
114439325 CATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTT
1 CA--TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAGTTAGGTT
* * * * * * *
114439376 GCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGACAACTTCA-ATCA
1 -CATGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGA-TAGTT-AGGT-T
* * * *
114439428 CATGTGTAGTACTAAGTGCAGGCTATTACGTGTATCAGATGGTTA-GTT
1 CATGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAGTTAGGTT
* ** ** * *
114439476 CACGTGTGTAGTACTAAGTGTAGGGTACTACAAGTACTGGATTGTT-GGTCG
1 CA--TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAGTTAGGT-T
* * * * * *
114439527 CATATGTCGTACTAAGTGTAGGTTACTATGCGTACCAAATAG
1 CATGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAG
114439569 CTTCGGTTAC
Statistics
Matches: 188, Mismatches: 45, Indels: 23
0.73 0.18 0.09
Matches are distributed among these distances:
48 2 0.01
49 32 0.17
50 77 0.41
51 40 0.21
52 37 0.20
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (49 bp):
CATGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAGTTAGGTT
Found at i:114439597 original size:150 final size:151
Alignment explanation
Indices: 114439319--114439600 Score: 332
Period size: 150 Copynumber: 1.9 Consensus size: 151
114439309 TAAGATAGTT
* ** * *
114439319 TTAGGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTTGCATGTGT
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACAAGTACCAGATAGTTAGGTCGCATATGT
** * * *
114439384 AGTACTAAGTGTAGGCTACTATGCGTACCCGACAACTTCAATCACATGTGTAGTACTAAGTGCAG
66 AGTACTAAGTGTAGGCTACTATGCGTACCAAACAACTTCAATCACAAGGGTAGTAATAAGTGCAG
114439449 GCTATTACGTGTATCAGATGG
131 GCTATTACGTGTATCAGATGG
* * * ** *
114439470 TTAGTTCACGTGTGTAGTACTAAGTGTAGGGTACTACAAGTACTGGATTGTT-GGTCGCATATGT
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACAAGTACCAGATAGTTAGGTCGCATATGT
* * * * ** * * *
114439534 CGTACTAAGTGTAGGTTACTATGCGTACCAAATAGCTTCGGTTACAAGGGTGGTAATATGTGCAG
66 AGTACTAAGTGTAGGCTACTATGCGTACCAAACAACTTCAATCACAAGGGTAGTAATAAGTGCAG
114439599 GC
131 GC
114439601 AACTGTGTAT
Statistics
Matches: 106, Mismatches: 25, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
150 63 0.59
151 43 0.41
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (151 bp):
TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACAAGTACCAGATAGTTAGGTCGCATATGT
AGTACTAAGTGTAGGCTACTATGCGTACCAAACAACTTCAATCACAAGGGTAGTAATAAGTGCAG
GCTATTACGTGTATCAGATGG
Found at i:114439787 original size:16 final size:15
Alignment explanation
Indices: 114439766--114439795 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
114439756 GAATGGAGTA
114439766 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
114439782 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
114439796 TAAAACAGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:114441862 original size:24 final size:24
Alignment explanation
Indices: 114441834--114441909 Score: 98
Period size: 24 Copynumber: 3.2 Consensus size: 24
114441824 TTTCTAGAAG
* *
114441834 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
*
114441858 ATTTAGCATTTATTAACATAATAT
1 ATTTAGCATTTATTAGCATAATAT
* * *
114441882 TTTTAACATTTATTAGCATATTAT
1 ATTTAGCATTTATTAGCATAATAT
114441906 ATTT
1 ATTT
114441910 GACATTGATT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:114441914 original size:24 final size:23
Alignment explanation
Indices: 114441841--114441920 Score: 88
Period size: 24 Copynumber: 3.3 Consensus size: 23
114441831 AAGATTTAGT
*
114441841 ATTTATTAGTATAATATATTTAGC
1 ATTTATTAGCATAATATATTTA-C
* *
114441865 ATTTATTAACATAATATTTTTAAC
1 ATTTATTAGCATAATATATTT-AC
*
114441889 ATTTATTAGCATATTATATTTGAC
1 ATTTATTAGCATAATATATTT-AC
*
114441913 ATTGATTA
1 ATTTATTA
114441921 AAATAAAGTG
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
24 46 0.98
25 1 0.02
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (23 bp):
ATTTATTAGCATAATATATTTAC
Found at i:114448848 original size:31 final size:32
Alignment explanation
Indices: 114448810--114448888 Score: 97
Period size: 32 Copynumber: 2.5 Consensus size: 32
114448800 TAAATATAAA
*
114448810 ATTGGTACTTGAACTTATTTACTT-ATCATAG
1 ATTGGTACTTAAACTTATTTACTTAATCATAG
* * ** *
114448841 ATTGGTACTTAAAGTTTTTTTTTTAATCCTAG
1 ATTGGTACTTAAACTTATTTACTTAATCATAG
114448873 ATTGGTACTTAAACTT
1 ATTGGTACTTAAACTT
114448889 TTTCTCCGTC
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
31 19 0.47
32 21 0.52
ACGTcount: A:0.28, C:0.11, G:0.13, T:0.48
Consensus pattern (32 bp):
ATTGGTACTTAAACTTATTTACTTAATCATAG
Found at i:114450508 original size:19 final size:19
Alignment explanation
Indices: 114450484--114450540 Score: 77
Period size: 17 Copynumber: 3.2 Consensus size: 19
114450474 AGAAGAAAGG
114450484 AATATCAGAAAAAAATGGA
1 AATATCAGAAAAAAATGGA
114450503 AATATCAG--AAAAATGGA
1 AATATCAGAAAAAAATGGA
*
114450520 AATA--AGAAAAAAATAGA
1 AATATCAGAAAAAAATGGA
114450537 AATA
1 AATA
114450541 ATTTTTAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
15 2 0.06
17 25 0.71
19 8 0.23
ACGTcount: A:0.67, C:0.04, G:0.14, T:0.16
Consensus pattern (19 bp):
AATATCAGAAAAAAATGGA
Found at i:114450564 original size:22 final size:21
Alignment explanation
Indices: 114450539--114450580 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
114450529 AAAATAGAAA
114450539 TAATTTTTAAAAATATTTTTAT
1 TAATTTTT-AAAATATTTTTAT
*
114450561 TAATTTTTAATATATTTTTA
1 TAATTTTTAAAATATTTTTA
114450581 GATTATGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TAATTTTTAAAATATTTTTAT
Found at i:114458240 original size:27 final size:27
Alignment explanation
Indices: 114458210--114458266 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
114458200 AATTCACTTT
114458210 TCAATTTCCAA-TCAATACTA-ATTTCAA
1 TCAA-TTCCAATTCAATAC-ACATTTCAA
114458237 TCAATTCCAATTCAATACACATTTCAA
1 TCAATTCCAATTCAATACACATTTCAA
114458264 TCA
1 TCA
114458267 TTCATATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.40, C:0.25, G:0.00, T:0.35
Consensus pattern (27 bp):
TCAATTCCAATTCAATACACATTTCAA
Found at i:114458248 original size:16 final size:16
Alignment explanation
Indices: 114458211--114458252 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
114458201 ATTCACTTTT
114458211 CAATTTCCAATCAATAC
1 CAATTT-CAATCAATAC
* *
114458228 TAATTTCAATCAATTC
1 CAATTTCAATCAATAC
114458244 CAA-TTCAAT
1 CAATTTCAAT
114458253 ACACATTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 6 0.27
16 11 0.50
17 5 0.23
ACGTcount: A:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (16 bp):
CAATTTCAATCAATAC
Found at i:114458988 original size:17 final size:15
Alignment explanation
Indices: 114458956--114458991 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 15
114458946 AACCCTAATT
114458956 TTTCCCTTTTCTTTC
1 TTTCCCTTTTCTTTC
114458971 TTTCCCTTTTTCCTTTC
1 TTTCCC-TTTT-CTTTC
114458988 TTTC
1 TTTC
114458992 TTTCTCCCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.32
16 4 0.21
17 9 0.47
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTCCCTTTTCTTTC
Found at i:114459008 original size:21 final size:21
Alignment explanation
Indices: 114458962--114459019 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 21
114458952 AATTTTTCCC
*
114458962 TTTTCTTTC-TT-TCCCTTTT
1 TTTTCTTTCTTTCTCCCTTAT
114458981 TCCTTTCTTTCTTTCTCCCTTAT
1 T--TTTCTTTCTTTCTCCCTTAT
114459004 TTTTCGTTTCTATTCT
1 TTTTC-TTTCT-TTCT
114459020 GTTCTTCTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
19 1 0.03
21 12 0.38
22 7 0.22
23 12 0.38
ACGTcount: A:0.03, C:0.28, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTTCTTTCTTTCTCCCTTAT
Done.