Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 213 of 325
Found at i:65899799 original size:27 final size:26
Alignment explanation
Indices: 65899762--65899827 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
65899752 AGCATAGGTG
*
65899762 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
65899788 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
65899815 CCAGAATCAGATA
1 CCAGAA-CAGATA
65899828 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:65899832 original size:27 final size:27
Alignment explanation
Indices: 65899762--65899835 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
65899752 AGCATAGGTG
* *
65899762 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
65899788 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
65899815 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
65899836 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:65899842 original size:27 final size:27
Alignment explanation
Indices: 65899786--65899843 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
65899776 GTGACAGAGT
* * *
65899786 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
65899813 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
65899840 CACC
1 CACC
65899844 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:65900048 original size:22 final size:22
Alignment explanation
Indices: 65900000--65900058 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
65899990 GTAAATACGT
*
65900000 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
65900022 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
65900044 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
65900059 TAATAACGGT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:65900213 original size:27 final size:26
Alignment explanation
Indices: 65900145--65900214 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 26
65900135 TCGATCGGTC
* *
65900145 AACAGATATTATGACAGAGTCACCAA
1 AACAGATATTATGGCAGAGCCACCAA
* * *
65900171 ATACAGATATTGTGGCAGAGCCATCAG
1 A-ACAGATATTATGGCAGAGCCACCAA
65900198 AACAGATATTTATGGCA
1 AACAGATA-TTATGGCA
65900215 TAGCTATATA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
26 8 0.22
27 28 0.78
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (26 bp):
AACAGATATTATGGCAGAGCCACCAA
Found at i:65909835 original size:71 final size:69
Alignment explanation
Indices: 65909748--65909908 Score: 290
Period size: 71 Copynumber: 2.3 Consensus size: 69
65909738 CCGATTTGTC
65909748 TCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTA
1 TCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTA
65909813 TCTT
66 TCTT
65909817 TCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATT
1 T--CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATT
65909882 TATCTT
64 TATCTT
65909888 TC--AGCTCTCTTGTCTACATGG
1 TCGTAGCTCTCTTGTCTACATGG
65909909 GATACATCTC
Statistics
Matches: 90, Mismatches: 0, Indels: 6
0.94 0.00 0.06
Matches are distributed among these distances:
67 19 0.21
69 2 0.02
71 69 0.77
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.36
Consensus pattern (69 bp):
TCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTA
TCTT
Found at i:65914479 original size:27 final size:28
Alignment explanation
Indices: 65914449--65914505 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
65914439 TACTATATAT
*
65914449 TATGTATG-AAAATTACCATTATACCCC
1 TATGTATGCAAAATGACCATTATACCCC
* *
65914476 TATGTGTGCAAAATGACCTTTATACCCC
1 TATGTATGCAAAATGACCATTATACCCC
65914504 TA
1 TA
65914506 GGGTTAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 7 0.27
28 19 0.73
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.33
Consensus pattern (28 bp):
TATGTATGCAAAATGACCATTATACCCC
Found at i:65914681 original size:27 final size:27
Alignment explanation
Indices: 65914605--65914691 Score: 81
Period size: 27 Copynumber: 3.2 Consensus size: 27
65914595 AGGAAGCGTC
*
65914605 CTGGTGGCTA-TGCCATAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* **
65914633 CTGGTGGCCCTGCCACGTATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
*
65914660 CTGGTGGCACTG-CACAAA-ATATGTAT
1 CTGGTGGCACTGCCACAAATATCTGT-T
65914686 CTGGTG
1 CTGGTG
65914692 ACTCTGTCAC
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
25 5 0.10
26 11 0.22
27 19 0.39
28 14 0.29
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.33
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:65915770 original size:10 final size:10
Alignment explanation
Indices: 65915753--65915786 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
65915743 AGCCTGTAAA
65915753 TATTCTGAAT
1 TATTCTGAAT
*
65915763 TTTTCTGAAT
1 TATTCTGAAT
65915773 ATATTCTGAAT
1 -TATTCTGAAT
65915784 TAT
1 TAT
65915787 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:65921156 original size:12 final size:13
Alignment explanation
Indices: 65921128--65921160 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
65921118 TTATTTCTTT
65921128 TTCTCCATCTACC
1 TTCTCCATCTACC
*
65921141 TTCTCC-TCTTCC
1 TTCTCCATCTACC
65921153 TTCTCCAT
1 TTCTCCAT
65921161 AGCCGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:65922251 original size:28 final size:28
Alignment explanation
Indices: 65922219--65922283 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
65922209 ATTTACTAGA
*
65922219 ATACCCCTATGTATGAAAAATTACCATT
1 ATACCCCTATGTATGAAAAATGACCATT
* * *
65922247 ATACCCCTATGTGTGCAAAATGACCTTT
1 ATACCCCTATGTATGAAAAATGACCATT
65922275 ATACCCCTA
1 ATACCCCTA
65922284 GGATTAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.34, C:0.26, G:0.09, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGAAAAATGACCATT
Found at i:65922447 original size:27 final size:28
Alignment explanation
Indices: 65922390--65922478 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 28
65922380 GGAAGCATCT
* *
65922390 TGGTGGCTA-TGCCATAAATTATCTGTTC
1 TGGTGGC-ACTGCCACAAAATATCTGTTC
* **
65922418 TGGTGGCCCTGCCAC-GTATATCTGTTC
1 TGGTGGCACTGCCACAAAATATCTGTTC
65922445 TGGTGGCACTGCCACAAAATATCTGTATC
1 TGGTGGCACTGCCACAAAATATCTGT-TC
65922474 TGGTG
1 TGGTG
65922479 ACTCTGTCAC
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
27 23 0.46
28 20 0.40
29 7 0.14
ACGTcount: A:0.19, C:0.22, G:0.25, T:0.34
Consensus pattern (28 bp):
TGGTGGCACTGCCACAAAATATCTGTTC
Found at i:65922489 original size:29 final size:28
Alignment explanation
Indices: 65922399--65922489 Score: 85
Period size: 27 Copynumber: 3.2 Consensus size: 28
65922389 TTGGTGGCTA
* * * *
65922399 TGCCATAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
65922427 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
65922454 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
65922483 TGTCACA
1 TGCCACA
65922490 TTTTCTATAT
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
27 23 0.45
28 13 0.25
29 15 0.29
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:65929930 original size:28 final size:28
Alignment explanation
Indices: 65929890--65929946 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
65929880 TCTTATGTGT
*
65929890 AGAAATAAGGAAGGTGGGAGAATGAGAC
1 AGAAATAAGGAAGGTGAGAGAATGAGAC
65929918 AGAAATAAGGAAGGTGAGAGAATGAGAC
1 AGAAATAAGGAAGGTGAGAGAATGAGAC
65929946 A
1 A
65929947 TAAGGTAGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.49, C:0.04, G:0.37, T:0.11
Consensus pattern (28 bp):
AGAAATAAGGAAGGTGAGAGAATGAGAC
Found at i:65932174 original size:40 final size:39
Alignment explanation
Indices: 65932006--65932176 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
65931996 AGAAATTGAA
* *
65932006 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
65932046 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
65932086 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
65932126 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
65932166 TGATATCCGGG
1 TGATATCCGGG
65932177 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:65940207 original size:40 final size:39
Alignment explanation
Indices: 65940039--65940209 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
65940029 AGAAATTGAA
* *
65940039 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
65940079 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
65940119 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
65940159 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
65940199 TGATATCCGGG
1 TGATATCCGGG
65940210 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:65942347 original size:15 final size:15
Alignment explanation
Indices: 65942323--65942358 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
65942313 AGACACACCT
*
65942323 TTTTCCTTTGTATAA
1 TTTTCTTTTGTATAA
65942338 TTTTCTTTTGTATAA
1 TTTTCTTTTGTATAA
65942353 TTTTCT
1 TTTTCT
65942359 CTTTAGTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.17, C:0.11, G:0.06, T:0.67
Consensus pattern (15 bp):
TTTTCTTTTGTATAA
Found at i:65948570 original size:40 final size:40
Alignment explanation
Indices: 65948435--65948576 Score: 142
Period size: 40 Copynumber: 3.5 Consensus size: 40
65948425 AATTATTGTG
* * *
65948435 TGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
1 TGAATGCACATACATGCCCCTGTTTGTACTTCAGTACCCC
* ** ** * *
65948475 TGAATGTACATATGTAACCATGTTTGTACTTCCA-TACCAC
1 TGAATGCACATACATGCCCCTGTTTGTACTT-CAGTACCCC
* *
65948515 TAAATACACATACATGCCCCTGTTTGTACTTCAGTACCCC
1 TGAATGCACATACATGCCCCTGTTTGTACTTCAGTACCCC
* *
65948555 TGAATGCATATACATGCTCCTG
1 TGAATGCACATACATGCCCCTG
65948577 ATTTTATTAT
Statistics
Matches: 79, Mismatches: 21, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
39 2 0.03
40 76 0.96
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.14, T:0.32
Consensus pattern (40 bp):
TGAATGCACATACATGCCCCTGTTTGTACTTCAGTACCCC
Found at i:65952208 original size:21 final size:21
Alignment explanation
Indices: 65952184--65952224 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
65952174 CAAACACGCC
*
65952184 AACAAAAGCTCATAAGAGCTT
1 AACAAAAGCTCAAAAGAGCTT
* *
65952205 AACAGAAGCTTAAAAGAGCT
1 AACAAAAGCTCAAAAGAGCT
65952225 GATCCACCCG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.17
Consensus pattern (21 bp):
AACAAAAGCTCAAAAGAGCTT
Found at i:65958797 original size:12 final size:11
Alignment explanation
Indices: 65958765--65958798 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
65958755 GACCCGCCCG
65958765 TGTTAATTTTTA
1 TGTT-ATTTTTA
*
65958777 TATTATTTTTA
1 TGTTATTTTTA
65958788 TGTTATTTTTA
1 TGTTATTTTTA
65958799 AATATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 17 0.85
12 3 0.15
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (11 bp):
TGTTATTTTTA
Found at i:65958975 original size:30 final size:31
Alignment explanation
Indices: 65958920--65958983 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
65958910 ACTTAACAAG
*
65958920 CAAATGCCTCTAAAATAATTAAAAAAATTAA
1 CAAACGCCTCTAAAATAATTAAAAAAATTAA
*
65958951 CAAACGCCTTTAAAATAA-TAAAAAAATTAA
1 CAAACGCCTCTAAAATAATTAAAAAAATTAA
65958981 CAA
1 CAA
65958984 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 15 0.48
31 16 0.52
ACGTcount: A:0.59, C:0.14, G:0.03, T:0.23
Consensus pattern (31 bp):
CAAACGCCTCTAAAATAATTAAAAAAATTAA
Found at i:65965655 original size:40 final size:40
Alignment explanation
Indices: 65965463--65965648 Score: 261
Period size: 40 Copynumber: 4.7 Consensus size: 40
65965453 TCGAATGATG
* * *
65965463 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
65965503 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
65965543 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
65965583 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
65965624 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
65965649 AACGAGTAGC
Statistics
Matches: 134, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
39 1 0.01
40 123 0.92
41 10 0.07
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:65965655 original size:80 final size:80
Alignment explanation
Indices: 65965463--65965681 Score: 270
Period size: 80 Copynumber: 2.8 Consensus size: 80
65965453 TCGAATGATG
* * **
65965463 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAGATCCGAAGGCATT
65965527 TGTGCGAGTTACTAAA
65 TGTGCGAGTTACTAAA
* *
65965543 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGAT-CCGAAGGCATT
65965607 TGTGCGAGTTACTATAA
65 TGTGCGAGTTACTA-AA
* **
65965624 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAA-ACTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTTAAGA-TCCGAAGG
65965682 TACGTGATTC
Statistics
Matches: 122, Mismatches: 11, Indels: 13
0.84 0.08 0.09
Matches are distributed among these distances:
79 16 0.13
80 97 0.80
81 9 0.07
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGATCCGAAGGCATTT
GTGCGAGTTACTAAA
Found at i:65973707 original size:78 final size:82
Alignment explanation
Indices: 65973572--65973755 Score: 247
Period size: 78 Copynumber: 2.3 Consensus size: 82
65973562 TCGAATGATG
*
65973572 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
65973636 TGTGCGAGTTACTA-AA
66 TGTGCGAGTTACTATAA
* * * **
65973652 TCCGGGTTAAGT-CC-AAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
65973713 TTGTGCGAGTTACTATAA
65 TTGTGCGAGTTACTATAA
*
65973731 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
65973756 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
77 1 0.01
78 56 0.62
79 13 0.14
80 21 0.23
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATAA
Found at i:65973762 original size:40 final size:40
Alignment explanation
Indices: 65973572--65973755 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
65973562 TCGAATGATG
* * *
65973572 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
65973612 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
65973652 TCCGGGTTAAGT-CC-AAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
65973690 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
65973731 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
65973756 AACGAGTAGC
Statistics
Matches: 131, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
38 36 0.27
39 5 0.04
40 80 0.61
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:65986172 original size:33 final size:34
Alignment explanation
Indices: 65986121--65986196 Score: 93
Period size: 33 Copynumber: 2.3 Consensus size: 34
65986111 TAACAGTCAA
* * **
65986121 TATACAG-AATAGTAACAGTCTGGGTCTTGGCCC
1 TATACAGTAACAGTAACAGTCTGGGCCTAAGCCC
*
65986154 TATACAGTAACAGT-ACAGTTTGGGCCTAAGCCC
1 TATACAGTAACAGTAACAGTCTGGGCCTAAGCCC
65986187 TATACAGTAA
1 TATACAGTAA
65986197 TCCAACACAC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 32 0.86
34 5 0.14
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (34 bp):
TATACAGTAACAGTAACAGTCTGGGCCTAAGCCC
Found at i:65986722 original size:19 final size:17
Alignment explanation
Indices: 65986698--65986743 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 17
65986688 CAGTGTAAAT
65986698 GGCCCAAGGCCCATTAGTC
1 GGCCCAAGGCCCATTA--C
65986717 GGCCCAAGTGGCCCATTAC
1 GGCCCAA--GGCCCATTAC
65986736 GGCCCAAG
1 GGCCCAAG
65986744 CCCCCGAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 1 0.04
19 15 0.60
21 9 0.36
ACGTcount: A:0.22, C:0.37, G:0.28, T:0.13
Consensus pattern (17 bp):
GGCCCAAGGCCCATTAC
Found at i:65992240 original size:6 final size:6
Alignment explanation
Indices: 65992229--65992269 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
65992219 TATAGATACG
* *
65992229 GTTTTA GTTTTA TTTTTA GTTTTA GTTTTA GTTCTA GTTTT
1 GTTTTA GTTTTA GTTTTA GTTTTA GTTTTA GTTTTA GTTTT
65992270 TTTTTCTCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.15, C:0.02, G:0.15, T:0.68
Consensus pattern (6 bp):
GTTTTA
Found at i:65998933 original size:35 final size:35
Alignment explanation
Indices: 65998887--65998959 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
65998877 GCTTCTTGCA
*
65998887 AAATTTTCCAAATAATTTCATTTTTTTGGGTACAC
1 AAATTTTCCAAATAAGTTCATTTTTTTGGGTACAC
65998922 AAATTTTCCAAATAAGTTCATTTTTTTGGGTACAC
1 AAATTTTCCAAATAAGTTCATTTTTTTGGGTACAC
65998957 AAA
1 AAA
65998960 CCCTATATCT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (35 bp):
AAATTTTCCAAATAAGTTCATTTTTTTGGGTACAC
Found at i:66008000 original size:46 final size:45
Alignment explanation
Indices: 66007852--66007987 Score: 132
Period size: 46 Copynumber: 3.0 Consensus size: 45
66007842 TGTAACCCGC
* * * *
66007852 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGG-ATGCCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATGCCCA--T
* *** * *
66007898 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGA-ATGCCCAT
66007945 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG-ATGCCCA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATGCCCA
66007988 AATATCCTAG
Statistics
Matches: 71, Mismatches: 16, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
44 5 0.07
46 31 0.44
47 31 0.44
49 4 0.06
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATGCCCAT
Found at i:66019107 original size:30 final size:30
Alignment explanation
Indices: 66019052--66019211 Score: 213
Period size: 29 Copynumber: 5.5 Consensus size: 30
66019042 ATAGTGAATC
66019052 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
66019081 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
66019111 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
66019140 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * * *
66019168 CGTACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
66019198 CGCACACTTAGTGC
1 CGCACACTTAGTGC
66019212 CGAGACCAAT
Statistics
Matches: 118, Mismatches: 7, Indels: 11
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 21 0.18
29 48 0.41
30 46 0.39
31 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.34
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:66027160 original size:47 final size:47
Alignment explanation
Indices: 66027109--66027253 Score: 213
Period size: 47 Copynumber: 3.1 Consensus size: 47
66027099 TTAGGATTTT
66027109 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
66027156 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
66027203 ATGTGGTGAATATGAACATGC--ATATGTGGTAAAGCCGAATGGTCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
66027248 ATGTGA
1 ATGTGA
66027254 AATATATATA
Statistics
Matches: 88, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
45 25 0.28
47 63 0.72
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:66027211 original size:25 final size:25
Alignment explanation
Indices: 66027136--66027211 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
66027126 ATGCATATAT
66027136 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
66027161 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
66027183 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
66027208 GTGA
1 GTGA
66027212 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:66027285 original size:50 final size:50
Alignment explanation
Indices: 66027212--66027358 Score: 244
Period size: 50 Copynumber: 3.0 Consensus size: 50
66027202 AATGTGGTGA
*
66027212 ATATGA-ACATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
1 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
66027261 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
1 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
* *
66027311 ATATGAGATATGTATATGTGGTAAAGCCGAATGG-CTAGTGTGAAATAT
1 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTC-AATGTGAAATAT
66027359 GTAGGCGATG
Statistics
Matches: 93, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
49 7 0.08
50 86 0.92
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.30
Consensus pattern (50 bp):
ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
Found at i:66027616 original size:37 final size:37
Alignment explanation
Indices: 66027508--66027616 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
66027498 GGAAATATAT
*
66027508 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
66027545 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
66027582 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
66027617 CGTCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:66033247 original size:14 final size:14
Alignment explanation
Indices: 66033225--66033254 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
66033215 TAATTATTAA
66033225 TAATGAAATAAAGT
1 TAATGAAATAAAGT
*
66033239 TAATTAAATAAAGT
1 TAATGAAATAAAGT
66033253 TA
1 TA
66033255 CACAAGCACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (14 bp):
TAATGAAATAAAGT
Found at i:66036838 original size:3 final size:3
Alignment explanation
Indices: 66036799--66036900 Score: 136
Period size: 3 Copynumber: 34.3 Consensus size: 3
66036789 TAATACTATA
* * * *
66036799 TAT TA- TAT TCT TAC TAT TAT CAT TAC TA- TATT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
*
66036843 TTT TAT TAT 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 TAT TAT TAT
66036891 TAT TAT TAT T
1 TAT TAT TAT T
66036901 TTCTCATTAC
Statistics
Matches: 87, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
2 4 0.05
3 81 0.93
4 2 0.02
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:66039909 original size:42 final size:42
Alignment explanation
Indices: 66039862--66039968 Score: 187
Period size: 42 Copynumber: 2.5 Consensus size: 42
66039852 TATTGGTCTC
66039862 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
*
66039904 GGCACTAAGTGTGCGGGTATAAATGGATACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
* *
66039946 GGCACTACGTGTGCGGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
66039969 ATTGTACAGC
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.23
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
Found at i:66040033 original size:27 final size:28
Alignment explanation
Indices: 66039976--66040045 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
66039966 AAAATTGTAC
**
66039976 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
66040004 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
66040031 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
66040046 GATTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:66041746 original size:24 final size:23
Alignment explanation
Indices: 66041719--66041773 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
66041709 TTATAACTCA
* *
66041719 AATTATATTAAAATAATTTATACT
1 AATTAAATT-AAAGAATTTATACT
*
66041743 AATTAAAATTTAAGAATTTATACT
1 AATT-AAATTAAAGAATTTATACT
66041767 AATTAAA
1 AATTAAA
66041774 ATTTAAGTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 3 0.11
24 20 0.74
25 4 0.15
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (23 bp):
AATTAAATTAAAGAATTTATACT
Found at i:66041774 original size:24 final size:24
Alignment explanation
Indices: 66041733--66041780 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
66041723 ATATTAAAAT
66041733 AATTTATACTAATTAAAATTTAAG
1 AATTTATACTAATTAAAATTTAAG
66041757 AATTTATACTAATTAAAATTTAAG
1 AATTTATACTAATTAAAATTTAAG
66041781 TAGAAATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (24 bp):
AATTTATACTAATTAAAATTTAAG
Found at i:66044759 original size:12 final size:12
Alignment explanation
Indices: 66044742--66044774 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
66044732 GGAAAACAAT
66044742 GGCGGTGGTGGC
1 GGCGGTGGTGGC
66044754 GGCGGTGGTGGC
1 GGCGGTGGTGGC
66044766 GGCGGTGGT
1 GGCGGTGGT
66044775 AACAACAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.67, T:0.18
Consensus pattern (12 bp):
GGCGGTGGTGGC
Found at i:66045427 original size:21 final size:21
Alignment explanation
Indices: 66045380--66045439 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 21
66045370 ATAAAGAAGT
66045380 ATAAAAATTC--AAAAATAAA
1 ATAAAAATTCAAAAAAATAAA
66045399 ATGGAAAAATTCAAAAAAATAAA
1 AT--AAAAATTCAAAAAAATAAA
*
66045422 ATAAAACATTAAAAAAAA
1 ATAAAA-ATTCAAAAAAA
66045440 ATGCAACACG
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
19 2 0.06
21 12 0.34
22 10 0.29
23 11 0.31
ACGTcount: A:0.73, C:0.05, G:0.03, T:0.18
Consensus pattern (21 bp):
ATAAAAATTCAAAAAAATAAA
Found at i:66045441 original size:23 final size:22
Alignment explanation
Indices: 66045390--66045439 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 22
66045380 ATAAAAATTC
*
66045390 AAAAATAAAATGGAAAAATTCAA
1 AAAAATAAAAT-GAAAAATTAAA
66045413 AAAAATAAAAT-AAAACATTAAA
1 AAAAATAAAATGAAAA-ATTAAA
66045435 AAAAA
1 AAAAA
66045440 ATGCAACACG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 4 0.16
22 10 0.40
23 11 0.44
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.16
Consensus pattern (22 bp):
AAAAATAAAATGAAAAATTAAA
Found at i:66047338 original size:11 final size:12
Alignment explanation
Indices: 66047318--66047406 Score: 54
Period size: 12 Copynumber: 7.0 Consensus size: 12
66047308 TTCGTTTTGT
*
66047318 ATTATTTTTTAAA
1 ATTATTTTAT-AA
*
66047331 ATTATTTTATAT
1 ATTATTTTATAA
*
66047343 ATTATTTACTTTAA
1 ATTATTT--TATAA
*
66047357 ATTGTTTTATAA
1 ATTATTTTATAA
*
66047369 ATTATTTATTTCAA
1 ATTATTT-TAT-AA
*
66047383 ATTGA-TTTATAC
1 ATT-ATTTTATAA
*
66047395 TTTATTTTATAA
1 ATTATTTTATAA
66047407 TGTATATATT
Statistics
Matches: 58, Mismatches: 12, Indels: 13
0.70 0.14 0.16
Matches are distributed among these distances:
11 1 0.02
12 27 0.47
13 13 0.22
14 16 0.28
15 1 0.02
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (12 bp):
ATTATTTTATAA
Found at i:66047364 original size:26 final size:25
Alignment explanation
Indices: 66047233--66047401 Score: 116
Period size: 26 Copynumber: 6.6 Consensus size: 25
66047223 ATTTTGAACA
*
66047233 GTTTTAT-TATTATTTATTTTAAGTT
1 GTTTTATATATTATTTA-TTTAAATT
* ** *
66047258 -TTTTCCTATGGTATTTGTTCTAAATT
1 GTTTT-ATATATTATTTATT-TAAATT
* *
66047284 GTTTTACCATATTATTTATTTTAATT
1 GTTTTA-TATATTATTTATTTAAATT
*
66047310 CG-TTT-TGTATTATTT-TTTAAAATT
1 -GTTTTATATATTATTTATTT-AAATT
*
66047334 ATTTTATATATTATTTACTTTAAATT
1 GTTTTATATATTATTTA-TTTAAATT
*
66047360 GTTTTATAAATTATTTATTTCAAATT
1 GTTTTATATATTATTTATTT-AAATT
*
66047386 GATTTATACT-TTATTT
1 GTTTTATA-TATTATTT
66047402 TATAATGTAT
Statistics
Matches: 111, Mismatches: 20, Indels: 25
0.71 0.13 0.16
Matches are distributed among these distances:
23 3 0.03
24 19 0.17
25 15 0.14
26 57 0.51
27 17 0.15
ACGTcount: A:0.27, C:0.05, G:0.06, T:0.62
Consensus pattern (25 bp):
GTTTTATATATTATTTATTTAAATT
Found at i:66049652 original size:19 final size:19
Alignment explanation
Indices: 66049630--66049675 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
66049620 CTTCCTTTCT
66049630 TTTGCATT-CATTCCATACA
1 TTTGCATTGCATTCCAT-CA
* *
66049649 TTTGCATTGCATTGCGTCA
1 TTTGCATTGCATTCCATCA
66049668 TTTGCATT
1 TTTGCATT
66049676 AAACTTTCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.20, C:0.22, G:0.13, T:0.46
Consensus pattern (19 bp):
TTTGCATTGCATTCCATCA
Found at i:66055695 original size:20 final size:21
Alignment explanation
Indices: 66055637--66055698 Score: 63
Period size: 23 Copynumber: 2.9 Consensus size: 21
66055627 TAATGCAAAT
66055637 TTATTTTAGCAGTTACAAACCA
1 TTATTTTA-CAGTTACAAACCA
* * *
66055659 TTATTTCCAACAATTACAAACTA
1 TTATTT--TACAGTTACAAACCA
66055682 TT-TTTTACAGTTACAAA
1 TTATTTTACAGTTACAAA
66055699 AATGTTAAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
20 10 0.30
22 9 0.27
23 13 0.39
24 1 0.03
ACGTcount: A:0.39, C:0.18, G:0.05, T:0.39
Consensus pattern (21 bp):
TTATTTTACAGTTACAAACCA
Found at i:66062054 original size:21 final size:22
Alignment explanation
Indices: 66062019--66062059 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
66062009 GTTTATTTTG
66062019 ATGTTTGATGATAGA-AAATGT
1 ATGTTTGATGATAGATAAATGT
* *
66062040 ATGTTTGTTGTTAGATAAAT
1 ATGTTTGATGATAGATAAAT
66062060 AAAATTTGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.34, C:0.00, G:0.22, T:0.44
Consensus pattern (22 bp):
ATGTTTGATGATAGATAAATGT
Found at i:66065123 original size:29 final size:29
Alignment explanation
Indices: 66065090--66065191 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
66065080 TGACGAGATC
66065090 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
66065119 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
** * *
66065148 GGCACTAAGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
**
66065177 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
66065192 AGCTCGGAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAATATAT
Found at i:66072994 original size:29 final size:29
Alignment explanation
Indices: 66072961--66073027 Score: 125
Period size: 29 Copynumber: 2.3 Consensus size: 29
66072951 TCGGCACATA
66072961 AAGTGTGCGTGCTGGAAATATATGGCACT
1 AAGTGTGCGTGCTGGAAATATATGGCACT
66072990 AAGTGTGCGTGCTGGAAATATATGGCACT
1 AAGTGTGCGTGCTGGAAATATATGGCACT
66073019 AAGTTGTGC
1 AAG-TGTGC
66073028 AAGCGTGGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 32 0.86
30 5 0.14
ACGTcount: A:0.27, C:0.13, G:0.31, T:0.28
Consensus pattern (29 bp):
AAGTGTGCGTGCTGGAAATATATGGCACT
Found at i:66073048 original size:31 final size:29
Alignment explanation
Indices: 66072961--66073049 Score: 106
Period size: 29 Copynumber: 3.0 Consensus size: 29
66072951 TCGGCACATA
**
66072961 AAGTGTGCGTGCTGGAAATATATGGCACT
1 AAGTGTGCAAGCTGGAAATATATGGCACT
**
66072990 AAGTGTGCGTGCTGGAAATATATGGCACT
1 AAGTGTGCAAGCTGGAAATATATGGCACT
* *
66073019 AAGTTGTGCAAGCGTGGAAAAATACGGCACT
1 AAG-TGTGCAAGC-TGGAAATATATGGCACT
66073050 GGGTGTGCGA
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
29 32 0.59
30 7 0.13
31 15 0.28
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (29 bp):
AAGTGTGCAAGCTGGAAATATATGGCACT
Found at i:66075279 original size:30 final size:30
Alignment explanation
Indices: 66075245--66075303 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
66075235 ACTTATTTTC
66075245 TTGTTAATTTTGTTAGTATTTTAAAGGCAT
1 TTGTTAATTTTGTTAGTATTTTAAAGGCAT
* * *
66075275 TTGTTAATTTTTTTATTATTTTAGAGGCA
1 TTGTTAATTTTGTTAGTATTTTAAAGGCA
66075304 CTTACTTGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.25, C:0.03, G:0.15, T:0.56
Consensus pattern (30 bp):
TTGTTAATTTTGTTAGTATTTTAAAGGCAT
Found at i:66077676 original size:39 final size:39
Alignment explanation
Indices: 66077622--66077784 Score: 272
Period size: 39 Copynumber: 4.2 Consensus size: 39
66077612 TGTGTATGAA
*
66077622 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
66077661 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
66077700 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
66077739 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
66077779 TGTGCG
1 TGTGCG
66077785 GGTTACATAA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.25
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:66077810 original size:39 final size:39
Alignment explanation
Indices: 66077622--66077813 Score: 244
Period size: 39 Copynumber: 4.9 Consensus size: 39
66077612 TGTGTATGAA
* *
66077622 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGAGATATCCGGGCTAAGCCCGAAGGCAAT
*
66077661 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGAGATATCCGGGCTAAGCCCGAAGGCAAT
*
66077700 TGTGCGAGCT-ATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGA-GATATCCGGGCTAAGCCCGAAGGCAAT
* * *
66077739 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGAGATATCCGGGCTAAG-CCCGAAGGCAAT
* * * *
66077779 TGTGCGGGTT-ACATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTGAGATATCCGGGCTAAG-CCCGAAGG
66077814 TTTTTGAACG
Statistics
Matches: 137, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
39 117 0.85
40 20 0.15
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGAGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:66077835 original size:79 final size:78
Alignment explanation
Indices: 66077639--66077838 Score: 215
Period size: 78 Copynumber: 2.6 Consensus size: 78
66077629 ATTGTGATAT
** *
66077639 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTG
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGCTAAGCCCGAAGGCAATTGTG
* *
66077704 CGAGCTATGATAT
66 CGAGCTATCATAA
** * * *
66077717 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGCTAAG-CCCGAAGGCAATTGT
* *
66077782 GCGGGTTA-CATAA
65 GCGAGCTATCATAA
* ***
66077795 CCGGGCTATGTCCCGAAGGTTTTTGAACGAGTAGCT-ATATCCGG
1 CCGGGCTAAG-CCCGAAGGCAATTGAACGAGTAG-TGATATCCGG
66077839 ATAAACTCCG
Statistics
Matches: 106, Mismatches: 13, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
78 60 0.57
79 45 0.42
80 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (78 bp):
CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGCTAAGCCCGAAGGCAATTGTG
CGAGCTATCATAA
Found at i:66077850 original size:118 final size:117
Alignment explanation
Indices: 66077622--66077852 Score: 254
Period size: 118 Copynumber: 2.0 Consensus size: 117
66077612 TGTGTATGAA
** *
66077622 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAA
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGACATAACCGGGCTAA
** * *
66077687 GCCCGAAGGCAATTGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
66 GCCCGAAGGCAATTGAACGAGCTATGATATCCGGGATAAACCCGAAGGCAAT
* * * *
66077739 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTT-ACATAACCGGGCTA
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGACATAACCGGGCTA
* ***
66077803 TGTCCCGAAGGTTTTTGAACGAG-TA-GCTATATCC-GGATAAACTCCGAAGG
65 AG-CCCGAAGGCAATTGAACGAGCTATG--ATATCCGGGATAAAC-CCGAAGG
66077853 TATGTGATTG
Statistics
Matches: 94, Mismatches: 15, Indels: 9
0.80 0.13 0.08
Matches are distributed among these distances:
116 1 0.01
117 45 0.48
118 48 0.51
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (117 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGACATAACCGGGCTAA
GCCCGAAGGCAATTGAACGAGCTATGATATCCGGGATAAACCCGAAGGCAAT
Found at i:66083568 original size:71 final size:71
Alignment explanation
Indices: 66083482--66083645 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
66083472 CGATTTGTCT
66083482 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
66083547 CTTTCA
66 CTTTCA
66083553 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
66083618 CTTTCA
66 CTTTCA
*
66083624 CGTAGCTTTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
66083646 GATACATCTC
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.19, C:0.27, G:0.18, T:0.36
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:66083683 original size:71 final size:70
Alignment explanation
Indices: 66083482--66083679 Score: 249
Period size: 71 Copynumber: 2.8 Consensus size: 70
66083472 CGATTTGTCT
* * * *
66083482 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
66083547 CTTTCA
65 CTTTCA
* * * *
66083553 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
66083618 CTTTCA
65 CTTTCA
* * *
66083624 CGTAGCTTTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
66083680 TACAGGGTGT
Statistics
Matches: 119, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 95 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:66088646 original size:40 final size:39
Alignment explanation
Indices: 66088486--66088678 Score: 278
Period size: 39 Copynumber: 4.9 Consensus size: 39
66088476 TGTGTATGAA
*
66088486 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
66088525 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
66088564 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
66088603 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
* * * * *
66088643 TGTGCGGGTTATCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGG
66088679 TGTTTTGAAC
Statistics
Matches: 140, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 99 0.71
40 41 0.29
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:66090318 original size:23 final size:23
Alignment explanation
Indices: 66090288--66090368 Score: 65
Period size: 23 Copynumber: 3.3 Consensus size: 23
66090278 CTTTCTTAAA
66090288 AATTGTTAATGATAGGAAGATTG
1 AATTGTTAATGATAGGAAGATTG
* * * * *
66090311 AATTGTTAGAATTAATTCA-TAAAAATA
1 AATTGTT--AA-TGA-T-AGGAAGATTG
66090338 AATTGTTAATGATAGGAAGATTG
1 AATTGTTAATGATAGGAAGATTG
66090361 AATTGTTA
1 AATTGTTA
66090369 GAATTAATTC
Statistics
Matches: 42, Mismatches: 10, Indels: 12
0.66 0.16 0.19
Matches are distributed among these distances:
22 1 0.02
23 20 0.48
24 2 0.05
25 4 0.10
26 2 0.05
27 12 0.29
28 1 0.02
ACGTcount: A:0.43, C:0.01, G:0.19, T:0.37
Consensus pattern (23 bp):
AATTGTTAATGATAGGAAGATTG
Found at i:66090343 original size:50 final size:50
Alignment explanation
Indices: 66090287--66090382 Score: 192
Period size: 50 Copynumber: 1.9 Consensus size: 50
66090277 CCTTTCTTAA
66090287 AAATTGTTAATGATAGGAAGATTGAATTGTTAGAATTAATTCATAAAAAT
1 AAATTGTTAATGATAGGAAGATTGAATTGTTAGAATTAATTCATAAAAAT
66090337 AAATTGTTAATGATAGGAAGATTGAATTGTTAGAATTAATTCATAA
1 AAATTGTTAATGATAGGAAGATTGAATTGTTAGAATTAATTCATAA
66090383 TGATTTATAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.45, C:0.02, G:0.17, T:0.36
Consensus pattern (50 bp):
AAATTGTTAATGATAGGAAGATTGAATTGTTAGAATTAATTCATAAAAAT
Found at i:66092352 original size:68 final size:68
Alignment explanation
Indices: 66092243--66092536 Score: 345
Period size: 68 Copynumber: 4.3 Consensus size: 68
66092233 GAGAGAGGTT
* ** * * * *
66092243 TAATATGTAAGACCATTGCTAAACTATGGCAACATAAAGAGTTCGCCAAGATAGTAAACATGGGT
1 TAATATGTAAGACCATAGCTAGGCTATGGCAACATATAGAGTCCGCCAGGACAGTAAACATGGGT
66092308 TTA
66 TTA
* * * *
66092311 TAATATGTAAAACCATAGCTAGGCTATGGAAACATATAGAGTCTGCCAGGACAGTAAACATAGGT
1 TAATATGTAAGACCATAGCTAGGCTATGGCAACATATAGAGTCCGCCAGGACAGTAAACATGGGT
66092376 TTA
66 TTA
* * *** *
66092379 TAATGTGTGAGACCATAGCTAGGCTATGGCAACATATAGAGTCCATTAGGATAGTAAACATGGGT
1 TAATATGTAAGACCATAGCTAGGCTATGGCAACATATAGAGTCCGCCAGGACAGTAAACATGGGT
66092444 TTA
66 TTA
* * * * *
66092447 TAATGTGTAAGACCATAACTAGGCTATGGCAATATATAGAGTCCTCCAGGACATTAAACATGGGT
1 TAATATGTAAGACCATAGCTAGGCTATGGCAACATATAGAGTCCGCCAGGACAGTAAACATGGGT
*
66092512 TCA
66 TTA
* * * *
66092515 TACTGTGTAAGACTATGGCTAG
1 TAATATGTAAGACCATAGCTAG
66092537 ACTACGGCCA
Statistics
Matches: 192, Mismatches: 34, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
68 192 1.00
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (68 bp):
TAATATGTAAGACCATAGCTAGGCTATGGCAACATATAGAGTCCGCCAGGACAGTAAACATGGGT
TTA
Found at i:66095040 original size:45 final size:45
Alignment explanation
Indices: 66094991--66095158 Score: 255
Period size: 45 Copynumber: 3.7 Consensus size: 45
66094981 CGATGTCGAT
* * * *
66094991 GTCCCAGACATGCTCTTACACGTAACCACATATATCGATGCCAAC
1 GTCCCAGACGTGGTCTTACACGAAATCACATATATCGATGCCAAC
* * *
66095036 GTCCCAGACGTGGTCTTACACGAAATCACATATATTGATGCAAAT
1 GTCCCAGACGTGGTCTTACACGAAATCACATATATCGATGCCAAC
*
66095081 GTCCCAGACGTGGTCTTACATGAAATCACATATATCGATGCCAAC
1 GTCCCAGACGTGGTCTTACACGAAATCACATATATCGATGCCAAC
*
66095126 GTCCCAGACGTGGTCTTACACAAAATCACATAT
1 GTCCCAGACGTGGTCTTACACGAAATCACATAT
66095159 CAGAATCCTA
Statistics
Matches: 110, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 110 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (45 bp):
GTCCCAGACGTGGTCTTACACGAAATCACATATATCGATGCCAAC
Found at i:66095100 original size:90 final size:90
Alignment explanation
Indices: 66094989--66095158 Score: 286
Period size: 90 Copynumber: 1.9 Consensus size: 90
66094979 TACGATGTCG
*
66094989 ATGTCCCAGACATGCTCTTACACGTAACCACATATATCGATGCCAACGTCCCAGACGTGGTCTTA
1 ATGTCCCAGACATGCTCTTACACGAAACCACATATATCGATGCCAACGTCCCAGACGTGGTCTTA
*
66095054 CACGAAATCACATATATTGATGCAA
66 CACAAAATCACATATATTGATGCAA
* * * *
66095079 ATGTCCCAGACGTGGTCTTACATGAAATCACATATATCGATGCCAACGTCCCAGACGTGGTCTTA
1 ATGTCCCAGACATGCTCTTACACGAAACCACATATATCGATGCCAACGTCCCAGACGTGGTCTTA
66095144 CACAAAATCACATAT
66 CACAAAATCACATAT
66095159 CAGAATCCTA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
90 74 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (90 bp):
ATGTCCCAGACATGCTCTTACACGAAACCACATATATCGATGCCAACGTCCCAGACGTGGTCTTA
CACAAAATCACATATATTGATGCAA
Found at i:66097291 original size:21 final size:22
Alignment explanation
Indices: 66097243--66097291 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 22
66097233 TGCTTTTTTT
66097243 ATAGATGAGAATCCAAAAACTA
1 ATAGATGAGAATCCAAAAACTA
66097265 AT-GATGA-AA-CCATAAAA-TCA
1 ATAGATGAGAATCCA-AAAACT-A
66097285 ATAGATG
1 ATAGATG
66097292 TGAGTTTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 4 0.17
20 9 0.38
21 9 0.38
22 2 0.08
ACGTcount: A:0.53, C:0.12, G:0.14, T:0.20
Consensus pattern (22 bp):
ATAGATGAGAATCCAAAAACTA
Found at i:66100659 original size:17 final size:19
Alignment explanation
Indices: 66100617--66100660 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
66100607 ATGAAATTTT
*
66100617 AATTAGTATTATAAGATAA
1 AATTATTATTATAAGATAA
*
66100636 AATTATTATTATTAGA-AA
1 AATTATTATTATAAGATAA
66100654 AA-TATTA
1 AATTATTA
66100661 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (19 bp):
AATTATTATTATAAGATAA
Found at i:66101828 original size:19 final size:20
Alignment explanation
Indices: 66101806--66101848 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
66101796 TGTTTTGTTG
66101806 TGGG-CCAACTGTATTGAAA
1 TGGGCCCAACTGTATTGAAA
* *
66101825 TGGGCCCAACTGTGTTGATA
1 TGGGCCCAACTGTATTGAAA
66101845 TGGG
1 TGGG
66101849 TAAGGCCCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.23, C:0.16, G:0.33, T:0.28
Consensus pattern (20 bp):
TGGGCCCAACTGTATTGAAA
Found at i:66103667 original size:27 final size:28
Alignment explanation
Indices: 66103611--66103680 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
66103601 AAATTTGTAC
* *
66103611 AGCACTGAGTCTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
* *
66103639 AGCACTAAGTGTGTGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
66103666 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
66103681 GACTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:66103691 original size:27 final size:27
Alignment explanation
Indices: 66103635--66103692 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
66103625 GAGTTTGATC
* * * *
66103635 ATATAGCACTAAGTGTGTGAGTTGATT
1 ATATAGCACTAAGTGTGGGAGCTCACT
66103662 ATATAGCACTAAGTGTGCGGA-CTCACT
1 ATATAGCACTAAGTGTG-GGAGCTCACT
66103689 ATAT
1 ATAT
66103693 GCTTTTGAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 24 0.92
28 2 0.08
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (27 bp):
ATATAGCACTAAGTGTGGGAGCTCACT
Found at i:66106889 original size:27 final size:27
Alignment explanation
Indices: 66106859--66106914 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
66106849 TGGAGGCTTA
*
66106859 ATTTCTCTTCTAGTTCTATTTTTGGCG
1 ATTTCTCTTCTAGTTCTATTTTTAGCG
66106886 ATTTCTCTTCTAGTTCTATTTTTAGCG
1 ATTTCTCTTCTAGTTCTATTTTTAGCG
66106913 AT
1 AT
66106915 AGAGTATTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.14, C:0.18, G:0.12, T:0.55
Consensus pattern (27 bp):
ATTTCTCTTCTAGTTCTATTTTTAGCG
Found at i:66109841 original size:40 final size:40
Alignment explanation
Indices: 66109735--66109918 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 40
66109725 TGCTGGAAAT
* * * * * **
66109735 TATAACCGGGTTAAGACCCGAAGGCAATGGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* *
66109775 TATATCCAGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * *
66109815 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * * * * *
66109853 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * *
66109894 CATATCCGGGCTATGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGC
66109919 GTTTGAACGA
Statistics
Matches: 113, Mismatches: 28, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
38 1 0.01
39 29 0.26
40 83 0.73
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.23
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
Found at i:66117920 original size:40 final size:40
Alignment explanation
Indices: 66117814--66117997 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 40
66117804 TGCTGGAAAT
* * * * * **
66117814 TATAACCGGGTTAAGACCCGAAGGCAATGGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
*
66117854 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * *
66117894 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * * * * *
66117932 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * *
66117973 CATATCCGGGCTATGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGC
66117998 GTTTGAACGA
Statistics
Matches: 115, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
38 1 0.01
39 29 0.25
40 85 0.74
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.23
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
Found at i:66119944 original size:29 final size:29
Alignment explanation
Indices: 66119911--66120000 Score: 107
Period size: 29 Copynumber: 3.2 Consensus size: 29
66119901 GTGACGAGAT
*
66119911 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
66119940 TGGCACTAAGTGTGCATGCTGG-AA-ATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* * *
66119967 T-G-ACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
66119994 CGGCACT
1 TGGCACT
66120001 GGGTGTGCGA
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
25 16 0.30
26 3 0.06
27 7 0.13
28 3 0.06
29 24 0.45
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:66126633 original size:21 final size:18
Alignment explanation
Indices: 66126595--66126647 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
66126585 GGAAGAATAA
66126595 AGAAATGAAAAAAAAAAG
1 AGAAATGAAAAAAAAAAG
66126613 AGAATATGAAGAAAAACAAAG
1 AGAA-ATGAA-AAAAA-AAAG
66126634 A-AAA-GAAAAAAAAA
1 AGAAATGAAAAAAAAA
66126648 GTGTTCATTC
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
16 2 0.06
17 5 0.16
18 7 0.22
19 6 0.19
20 7 0.22
21 5 0.16
ACGTcount: A:0.77, C:0.02, G:0.15, T:0.06
Consensus pattern (18 bp):
AGAAATGAAAAAAAAAAG
Found at i:66127838 original size:29 final size:28
Alignment explanation
Indices: 66127805--66127896 Score: 112
Period size: 29 Copynumber: 3.2 Consensus size: 28
66127795 TGACGAGATT
*
66127805 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCATGCTGGAAA-ATAA
*
66127834 GGCACTAAGTGTGCATGCTGGAAAATAT
1 GGCACTAAGTGTGCATGCTGGAAAATAA
* * * *
66127862 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCATGCTGG-AAAATAA
66127891 GGCACT
1 GGCACT
66127897 GGGTGTGCGA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
28 21 0.38
29 34 0.62
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (28 bp):
GGCACTAAGTGTGCATGCTGGAAAATAA
Found at i:66127876 original size:28 final size:28
Alignment explanation
Indices: 66127807--66127886 Score: 106
Period size: 28 Copynumber: 2.8 Consensus size: 28
66127797 ACGAGATTGG
* *
66127807 CACTAAGTGTGCGTGCTGGAAATATAAGG
1 CACTAAGTGTGCATGCTGGAAA-ATAAGA
*
66127836 CACTAAGTGTGCATGCTGGAAAATATGA
1 CACTAAGTGTGCATGCTGGAAAATAAGA
* *
66127864 CACTATGTGTGCAAGCTGGAAAA
1 CACTAAGTGTGCATGCTGGAAAA
66127887 ATACGGCACT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 25 0.54
29 21 0.46
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.24
Consensus pattern (28 bp):
CACTAAGTGTGCATGCTGGAAAATAAGA
Found at i:66127909 original size:29 final size:29
Alignment explanation
Indices: 66127805--66127909 Score: 106
Period size: 29 Copynumber: 3.7 Consensus size: 29
66127795 TGACGAGATT
* *
66127805 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGAGCTGGAAAAATAA
*
66127834 GGCACTAAGTGTGC-ATGCTGG-AAAATAT
1 GGCACTAAGTGTGCGA-GCTGGAAAAATAA
* * * *
66127862 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGAGCTGGAAAAATAA
**
66127891 GGCACTGGGTGTGCGAGCT
1 GGCACTAAGTGTGCGAGCT
66127910 CGGAGGGTAT
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
28 22 0.35
29 41 0.65
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAGCTGGAAAAATAA
Found at i:66130170 original size:23 final size:23
Alignment explanation
Indices: 66130119--66130170 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
66130109 AAATTTCATT
*
66130119 GAATTGGTATAAACATGAGGATG
1 GAATTGGTATAAACATGAAGATG
*
66130142 GTATTGGTATAAA-ATGGATAGA-G
1 GAATTGGTATAAACAT-GA-AGATG
66130165 GAATTG
1 GAATTG
66130171 AGAATGTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
22 2 0.08
23 20 0.83
24 2 0.08
ACGTcount: A:0.38, C:0.02, G:0.31, T:0.29
Consensus pattern (23 bp):
GAATTGGTATAAACATGAAGATG
Found at i:66136658 original size:41 final size:41
Alignment explanation
Indices: 66136600--66136747 Score: 167
Period size: 41 Copynumber: 3.6 Consensus size: 41
66136590 GAGCTTGAAC
66136600 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
1 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
* * *
66136641 TCGAAGGGCTTTAGAGCCAGTG-TCATAACCGGACTTAGTT
1 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
* * * * * *
66136681 CCGAAGGGCCTTCGAGCCAGTGGTCTAAT--CCGAGCTTGGTC
1 TCGAAGGGCTTTTGAGCCAGT-G-CTAATAACCGAACTTAGTT
*
66136722 TCGAAGGGCTTTTGAGCCAGTACTAA
1 TCGAAGGGCTTTTGAGCCAGTGCTAA
66136748 GAATCGGGCT
Statistics
Matches: 89, Mismatches: 15, Indels: 8
0.79 0.13 0.07
Matches are distributed among these distances:
39 4 0.04
40 34 0.38
41 48 0.54
43 3 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (41 bp):
TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
Found at i:66141072 original size:23 final size:23
Alignment explanation
Indices: 66141021--66141072 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
66141011 AAATTTCATT
*
66141021 GAATTGGTATAAACATGAGGATG
1 GAATTGGTATAAACATGAAGATG
*
66141044 GTATTGGTATAAA-ATGGATAGA-G
1 GAATTGGTATAAACAT-GA-AGATG
66141067 GAATTG
1 GAATTG
66141073 AGATTGTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
22 2 0.08
23 20 0.83
24 2 0.08
ACGTcount: A:0.38, C:0.02, G:0.31, T:0.29
Consensus pattern (23 bp):
GAATTGGTATAAACATGAAGATG
Found at i:66149252 original size:12 final size:12
Alignment explanation
Indices: 66149235--66149267 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
66149225 TAGTGTGTGG
66149235 CACACGGGTTGA
1 CACACGGGTTGA
66149247 CACACGGGTTGA
1 CACACGGGTTGA
66149259 CACACGGGT
1 CACACGGGT
66149268 GTGTAGTCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.24, C:0.27, G:0.33, T:0.15
Consensus pattern (12 bp):
CACACGGGTTGA
Found at i:66154209 original size:17 final size:18
Alignment explanation
Indices: 66154189--66154222 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
66154179 AAGTTGATTG
66154189 AAATTGC-AAAATTAAAT
1 AAATTGCAAAAATTAAAT
66154206 AAATTGCAAAAATTAAA
1 AAATTGCAAAAATTAAA
66154223 ATAGAGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.26
Consensus pattern (18 bp):
AAATTGCAAAAATTAAAT
Found at i:66154999 original size:10 final size:10
Alignment explanation
Indices: 66154941--66154990 Score: 66
Period size: 10 Copynumber: 5.0 Consensus size: 10
66154931 TTAACTACTA
66154941 AAAGATAAA-
1 AAAGATAAAT
66154950 AATAGATAAAT
1 AA-AGATAAAT
**
66154961 AAAGATATTT
1 AAAGATAAAT
66154971 AAAGATAAAT
1 AAAGATAAAT
66154981 AAAGATAAAT
1 AAAGATAAAT
66154991 GGAGATAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.66, C:0.00, G:0.10, T:0.24
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:66155025 original size:14 final size:13
Alignment explanation
Indices: 66154995--66155035 Score: 57
Period size: 14 Copynumber: 3.2 Consensus size: 13
66154985 ATAAATGGAG
*
66154995 ATAAAAGCTAA-A
1 ATAAAATCTAATA
66155007 ATAAAATCTAAATA
1 ATAAAATCT-AATA
66155021 ATAAAATCTAATA
1 ATAAAATCTAATA
66155034 AT
1 AT
66155036 TATCCTAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 8 0.31
13 8 0.31
14 10 0.38
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.27
Consensus pattern (13 bp):
ATAAAATCTAATA
Found at i:66159116 original size:18 final size:20
Alignment explanation
Indices: 66159093--66159131 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
66159083 AAGGGAGAAT
66159093 AAAG-AAATG-GAAAAAAAA
1 AAAGAAAATGAGAAAAAAAA
66159111 AAAGAAAATGATGAAAAAAAA
1 AAAGAAAATGA-GAAAAAAAA
66159132 TGGGTGTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 5 0.28
21 9 0.50
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (20 bp):
AAAGAAAATGAGAAAAAAAA
Found at i:66160506 original size:29 final size:29
Alignment explanation
Indices: 66160464--66160536 Score: 128
Period size: 29 Copynumber: 2.5 Consensus size: 29
66160454 AAAATTGTAC
66160464 AGCACTAAGTGTGCGAACTGAAAACATAT
1 AGCACTAAGTGTGCGAACTGAAAACATAT
* *
66160493 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAACATAT
66160522 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
66160537 GATTCACTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAACTGAAAACATAT
Found at i:66167828 original size:18 final size:17
Alignment explanation
Indices: 66167783--66167828 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
66167773 GATTATGTAG
*
66167783 AAAGAATAAAGAAATGA
1 AAAGAAAAAAGAAATGA
*
66167800 AAATAATAAAAGAAATAGA
1 AAAGAA-AAAAGAAAT-GA
66167819 AAAGAAAAAA
1 AAAGAAAAAA
66167829 AAAAGTGTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 5 0.21
18 12 0.50
19 7 0.29
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (17 bp):
AAAGAAAAAAGAAATGA
Found at i:66169185 original size:29 final size:28
Alignment explanation
Indices: 66169152--66169223 Score: 117
Period size: 29 Copynumber: 2.5 Consensus size: 28
66169142 GTGACGAGAT
66169152 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAA-ATA
66169181 TGGCACTAAGTGTGCGTGCTGGAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAATA
* *
66169209 TGACACTATGTGTGC
1 TGGCACTAAGTGTGC
66169224 AAGCTGAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
28 16 0.39
29 25 0.61
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGTGCTGGAAAATA
Found at i:66169234 original size:28 final size:28
Alignment explanation
Indices: 66169155--66169234 Score: 97
Period size: 28 Copynumber: 2.8 Consensus size: 28
66169145 ACGAGATTGG
* *
66169155 CACTAAGTGTGCGTGCTGGAAATATATGG
1 CACTAAGTGTGCGTGCT-GAAAAATATGA
*
66169184 CACTAAGTGTGCGTGCTGGAAAATATGA
1 CACTAAGTGTGCGTGCTGAAAAATATGA
* **
66169212 CACTATGTGTGCAAGCTGAAAAA
1 CACTAAGTGTGCGTGCTGAAAAA
66169235 ATACGGCACT
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
28 27 0.61
29 17 0.39
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.25
Consensus pattern (28 bp):
CACTAAGTGTGCGTGCTGAAAAATATGA
Found at i:66175884 original size:18 final size:17
Alignment explanation
Indices: 66175839--66175884 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
66175829 GATTATGTAG
*
66175839 AAAGAATAAAGAAATGA
1 AAAGAAAAAAGAAATGA
*
66175856 AAATAATAAAAGAAATAGA
1 AAAGAA-AAAAGAAAT-GA
66175875 AAAGAAAAAA
1 AAAGAAAAAA
66175885 AAAGTGTGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 5 0.21
18 12 0.50
19 7 0.29
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (17 bp):
AAAGAAAAAAGAAATGA
Found at i:66177242 original size:29 final size:28
Alignment explanation
Indices: 66177209--66177280 Score: 117
Period size: 29 Copynumber: 2.5 Consensus size: 28
66177199 GTGACGAGAT
66177209 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAA-ATA
66177238 TGGCACTAAGTGTGCGTGCTGGAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAATA
* *
66177266 TGACACTATGTGTGC
1 TGGCACTAAGTGTGC
66177281 AAGCTGAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
28 16 0.39
29 25 0.61
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGTGCTGGAAAATA
Found at i:66177291 original size:28 final size:28
Alignment explanation
Indices: 66177212--66177291 Score: 97
Period size: 28 Copynumber: 2.8 Consensus size: 28
66177202 ACGAGATTGG
* *
66177212 CACTAAGTGTGCGTGCTGGAAATATATGG
1 CACTAAGTGTGCGTGCT-GAAAAATATGA
*
66177241 CACTAAGTGTGCGTGCTGGAAAATATGA
1 CACTAAGTGTGCGTGCTGAAAAATATGA
* **
66177269 CACTATGTGTGCAAGCTGAAAAA
1 CACTAAGTGTGCGTGCTGAAAAA
66177292 AGTACGGCAC
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
28 27 0.61
29 17 0.39
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.25
Consensus pattern (28 bp):
CACTAAGTGTGCGTGCTGAAAAATATGA
Found at i:66183915 original size:18 final size:17
Alignment explanation
Indices: 66183870--66183915 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
66183860 GATTATGTAG
*
66183870 AAAGAATAAAGAAATGA
1 AAAGAAAAAAGAAATGA
*
66183887 AAATAATAAAAGAAATAGA
1 AAAGAA-AAAAGAAAT-GA
66183906 AAAGAAAAAA
1 AAAGAAAAAA
66183916 AAAAGTGTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 5 0.21
18 12 0.50
19 7 0.29
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (17 bp):
AAAGAAAAAAGAAATGA
Found at i:66185274 original size:29 final size:29
Alignment explanation
Indices: 66185241--66185313 Score: 119
Period size: 29 Copynumber: 2.5 Consensus size: 29
66185231 GTGACGAGAT
*
66185241 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
66185270 TGGCACTAAGTGTGCGTGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
66185299 TGACACTATGTGTGC
1 TGGCACTAAGTGTGC
66185314 AAGCTGAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:66187861 original size:29 final size:29
Alignment explanation
Indices: 66187790--66187921 Score: 183
Period size: 30 Copynumber: 4.5 Consensus size: 29
66187780 GACAAGATTG
* * * * *
66187790 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATA
* *
66187820 GCACTAAGTGTGCGAACTGAAAACATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
66187849 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATA
66187879 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
66187908 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
66187922 GATTCACTAT
Statistics
Matches: 92, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
29 45 0.49
30 47 0.51
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGCTGAAAATATATA
Found at i:66187882 original size:59 final size:59
Alignment explanation
Indices: 66187790--66187921 Score: 201
Period size: 59 Copynumber: 2.2 Consensus size: 59
66187780 GACAAGATTG
* * * *
66187790 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAACTGAAAACATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAACTGAAAACATATA
* * *
66187849 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAACTGAAAACATATA
66187908 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
66187922 GATTCACTAT
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
59 66 1.00
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (59 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAACTGAAAACATATA
Found at i:66193997 original size:46 final size:46
Alignment explanation
Indices: 66193930--66194058 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
66193920 ATGTAACCCG
* * *
66193930 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
*
66193976 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
66194022 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
66194059 TGCCCAAAAT
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
Found at i:66196189 original size:24 final size:24
Alignment explanation
Indices: 66196157--66196205 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
66196147 CAATTTAACA
66196157 TAGATAAGTTCATTTCGTTATAAT
1 TAGATAAGTTCATTTCGTTATAAT
66196181 TAGATAAGTTCATTTCGTTATAAT
1 TAGATAAGTTCATTTCGTTATAAT
66196205 T
1 T
66196206 CTTTATCTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.47
Consensus pattern (24 bp):
TAGATAAGTTCATTTCGTTATAAT
Found at i:66202269 original size:42 final size:42
Alignment explanation
Indices: 66202158--66202311 Score: 202
Period size: 42 Copynumber: 3.6 Consensus size: 42
66202148 TACCATACCA
* * **
66202158 ATGCCATATCCTAGATATGGTCTTACATGTAA-TCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACG-AAGTCTTATATCG
* * *
66202200 AAGCCAATAGCCCAGCTATGGTCTTACACGAAGTCTTATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTTATATCG
*
66202243 ATGCCATATCCCAGATATGGTCTTACACGAAGCCTTATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTTATATCG
*
66202285 ATGCCATATCCCAGATATGGTCATACA
1 ATGCCATATCCCAGATATGGTCTTACA
66202312 TGTAATCTTA
Statistics
Matches: 98, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
42 66 0.67
43 32 0.33
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTTATATCG
Found at i:66208178 original size:50 final size:50
Alignment explanation
Indices: 66208103--66208279 Score: 255
Period size: 50 Copynumber: 3.5 Consensus size: 50
66208093 CCATGGCAAC
* *
66208103 AAGTGATAAGTTATAGCTTCAGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
66208153 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGAACAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
66208203 AAGTGACAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * * *
66208253 CAAATGAAAAGTGGTAGCTTCGACTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
66208280 CTGATCAGTG
Statistics
Matches: 114, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 92 0.81
51 22 0.19
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:66208295 original size:31 final size:31
Alignment explanation
Indices: 66208257--66208403 Score: 222
Period size: 31 Copynumber: 4.7 Consensus size: 31
66208247 AAATGACAAA
*
66208257 TGAAAAGTGGTAGCTTCGACTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
**
66208288 TGAAAAGTGGTAGCTTCTACTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
*
66208319 TGAAAAGTGGTAGCTCCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
* * *
66208350 TGAAAAATGGTAGCTCCGGCTACCTAATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
*
66208381 TGAATAGTGGTAGCTTCGGCTAC
1 TGAAAAGTGGTAGCTTCGGCTAC
66208404 AAGTGACAAG
Statistics
Matches: 107, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 107 1.00
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
Found at i:66208475 original size:46 final size:48
Alignment explanation
Indices: 66208425--66208589 Score: 175
Period size: 42 Copynumber: 3.6 Consensus size: 48
66208415 GATTTCCCTA
* * * *
66208425 TAAGACCATATCTGGGATATGGCATCA-GTGAGATATGTGATT-CGTG
1 TAAGACCATAGCTGGGCTATGGCATCATATGAGATATATGATTACGTG
* *
66208471 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATATGCTTACGTG
1 TAAGACCATAGCTGGGCTATGGCATC-ATATGAGATATATGATTACGTG
* *
66208520 TAAGACCATAGCTGGGCTATGGCATC-----A-ATATATGAATATGTG
1 TAAGACCATAGCTGGGCTATGGCATCATATGAGATATATGATTACGTG
* *
66208562 TAAGACCATAGCTGGCCTATGGGATCAT
1 TAAGACCATAGCTGGGCTATGGCATCAT
66208590 TATGTGAAGA
Statistics
Matches: 102, Mismatches: 12, Indels: 12
0.81 0.10 0.10
Matches are distributed among these distances:
42 36 0.35
46 24 0.24
47 1 0.01
48 11 0.11
49 30 0.29
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (48 bp):
TAAGACCATAGCTGGGCTATGGCATCATATGAGATATATGATTACGTG
Found at i:66208529 original size:49 final size:47
Alignment explanation
Indices: 66208425--66208596 Score: 178
Period size: 49 Copynumber: 3.7 Consensus size: 47
66208415 GATTTCCCTA
* * * * *
66208425 TAAGACCATATCTGGGATATGGCATCA-GTGAGATATGTGATTCGTG
1 TAAGACCATAGCTGGGCTATGGCATCATATGTGATATATGATTCGTG
*
66208471 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATATGCTTACGTG
1 TAAGACCATAGCTGGGCTATGGCATC-ATATGTGATATATGATT-CGTG
*
66208520 TAAGACCATAGCTGGGCTATGGCATCA-ATAT-ATGA-AT-A-T-GTG
1 TAAGACCATAGCTGGGCTATGGCATCATATGTGAT-ATATGATTCGTG
* *
66208562 TAAGACCATAGCTGGCCTATGGGATCATTATGTGA
1 TAAGACCATAGCTGGGCTATGGCATCA-TATGTGA
66208597 AGATGTGTAA
Statistics
Matches: 108, Mismatches: 11, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
42 28 0.26
44 4 0.04
45 1 0.01
46 28 0.26
47 5 0.05
48 12 0.11
49 30 0.28
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (47 bp):
TAAGACCATAGCTGGGCTATGGCATCATATGTGATATATGATTCGTG
Found at i:66208564 original size:42 final size:42
Alignment explanation
Indices: 66208517--66208613 Score: 149
Period size: 42 Copynumber: 2.3 Consensus size: 42
66208507 ATATGCTTAC
* *
66208517 GTGTAAGACCATAGCTGGGCTATGGCATCAATATATGAATAT
1 GTGTAAGACCATAGCTGGCCTATGGCATCAATATATGAAGAT
* * *
66208559 GTGTAAGACCATAGCTGGCCTATGGGATCATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGCCTATGGCATCAATATATGAAGAT
66208601 GTGTAAGACCATA
1 GTGTAAGACCATA
66208614 TTTGAGCTAA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGGCCTATGGCATCAATATATGAAGAT
Found at i:66213483 original size:50 final size:50
Alignment explanation
Indices: 66213408--66213584 Score: 264
Period size: 50 Copynumber: 3.5 Consensus size: 50
66213398 CCATGGCAAC
*
66213408 AAGTGATAAGTTATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * * *
66213458 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTAAACAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
66213508 AAGTGACAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
66213558 CAAGTGAAAAGTGGTAGCTTCGGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
66213585 CTGATCAGTG
Statistics
Matches: 113, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
50 90 0.80
51 23 0.20
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:66213598 original size:31 final size:31
Alignment explanation
Indices: 66213560--66213708 Score: 217
Period size: 31 Copynumber: 4.8 Consensus size: 31
66213550 ACAAATGACA
66213560 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
66213591 AGTGAAAAGTGGTAGCTTCTGCTACCTGATA
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
66213622 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
66213653 AGTGAAAAATGGTAGCTCCGGCTACCTAATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
66213684 AGTGAATAGTGATAGCTTCGACTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
66213709 AAGTGACAAG
Statistics
Matches: 106, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 106 1.00
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:66213916 original size:42 final size:43
Alignment explanation
Indices: 66213819--66213983 Score: 147
Period size: 42 Copynumber: 3.7 Consensus size: 43
66213809 ATTTGTGATT
* *
66213819 TGTGTAAGACCATAGCTGGGCTGTGGCATCGA-TATGTGATATGTTA
1 TGTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGA-A-G--A
* * *
66213865 TTACATGTAAGATCATAGCTGGGCTATGGCATCGA-TATATGAATA
1 -T--GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGA
** *
66213910 TGTGTAAGACCATAGCTGGGCTATTACATC-ATTATGTGAAGA
1 TGTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGA
* **
66213952 TGTGTAAGACCATAGTTGAACTATGGCATCGA
1 TGTGTAAGACCATAGCTGGGCTATGGCATCGA
66213984 GAAAACGAAG
Statistics
Matches: 98, Mismatches: 16, Indels: 12
0.78 0.13 0.10
Matches are distributed among these distances:
41 1 0.01
42 58 0.59
43 1 0.01
44 1 0.01
45 1 0.01
47 1 0.01
48 1 0.01
49 34 0.35
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (43 bp):
TGTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGA
Found at i:66224618 original size:18 final size:18
Alignment explanation
Indices: 66224595--66224630 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
66224585 TAGAGTAGAG
66224595 AGTAATTTTGCTATAGCT
1 AGTAATTTTGCTATAGCT
66224613 AGTAATTTTGCTATAGCT
1 AGTAATTTTGCTATAGCT
66224631 TTTTTATTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.44
Consensus pattern (18 bp):
AGTAATTTTGCTATAGCT
Found at i:66228079 original size:18 final size:18
Alignment explanation
Indices: 66228058--66228193 Score: 85
Period size: 18 Copynumber: 7.1 Consensus size: 18
66228048 TATCAGTCAG
*
66228058 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAA
* * *
66228076 TTATTCAATAATAATCAG
1 TTATTCAGTAACAATCAA
*
66228094 TTATTCAGTATCAATCAA
1 TTATTCAGTAACAATCAA
66228112 TTGATCGGTTATCCAGTAACAATCAA
1 TT-A-----T-T-CAGTAACAATCAA
*
66228138 TTATTCAGTAAAAATCAGA
1 TTATTCAGTAACAATCA-A
* * *
66228157 -TATACAGTGACAATTAAA
1 TTATTCAGTAACAA-TCAA
*
66228175 TTATTCAGTAACAGTCAA
1 TTATTCAGTAACAATCAA
66228193 T
1 T
66228194 CTTTCCAGTT
Statistics
Matches: 89, Mismatches: 18, Indels: 22
0.69 0.14 0.17
Matches are distributed among these distances:
18 56 0.63
19 15 0.17
20 1 0.01
24 1 0.01
25 2 0.02
26 14 0.16
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.34
Consensus pattern (18 bp):
TTATTCAGTAACAATCAA
Found at i:66228394 original size:53 final size:53
Alignment explanation
Indices: 66228309--66228433 Score: 160
Period size: 53 Copynumber: 2.4 Consensus size: 53
66228299 CTGGAACAAT
* * * * *
66228309 AACAGTAACAGTAGCAATATGGTACACGGAGTACCTTATCAGAATAAATCCGA
1 AACAGTAACAGTAACAATACGGTACACAGAGTACCTCATCAGAACAAATCCGA
* * * *
66228362 AACGGTAACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATTCGA
1 AACAGTAACAGTAACAATACGGTACACAGAGTACCTCATCAGAACAAATCCGA
*
66228415 AACAGTAATAGTAACAATA
1 AACAGTAACAGTAACAATA
66228434 TCTGACACAC
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
53 60 1.00
ACGTcount: A:0.43, C:0.19, G:0.18, T:0.19
Consensus pattern (53 bp):
AACAGTAACAGTAACAATACGGTACACAGAGTACCTCATCAGAACAAATCCGA
Found at i:66229158 original size:2 final size:2
Alignment explanation
Indices: 66229151--66229189 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
66229141 TACTTTGTTT
66229151 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
66229190 GTAACACCTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:66230551 original size:20 final size:20
Alignment explanation
Indices: 66230517--66230592 Score: 104
Period size: 20 Copynumber: 3.9 Consensus size: 20
66230507 GATACGTGGG
66230517 GTATGATAT--ACATGAT-T
1 GTATGATATGCACATGATAT
66230534 GATATGATATGCACATGATAT
1 G-TATGATATGCACATGATAT
66230555 GTATGATATGCACATGATAT
1 GTATGATATGCACATGATAT
* *
66230575 GTACGAAATGCACATGAT
1 GTATGATATGCACATGAT
66230593 GAATTCATAA
Statistics
Matches: 53, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
17 1 0.02
18 8 0.15
20 42 0.79
21 2 0.04
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.33
Consensus pattern (20 bp):
GTATGATATGCACATGATAT
Found at i:66230553 original size:11 final size:11
Alignment explanation
Indices: 66230537--66230592 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
66230527 CATGATTGAT
66230537 ATGATATGCAC
1 ATGATATGCAC
*
66230548 ATGATATG--T
1 ATGATATGCAC
66230557 ATGATATGCAC
1 ATGATATGCAC
*
66230568 ATGATATGTAC
1 ATGATATGCAC
*
66230579 --GAAATGCAC
1 ATGATATGCAC
66230588 ATGAT
1 ATGAT
66230593 GAATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:66230671 original size:26 final size:26
Alignment explanation
Indices: 66230642--66230790 Score: 203
Period size: 26 Copynumber: 5.8 Consensus size: 26
66230632 GAGGAAGTGC
* **
66230642 AAAAGGGCTTATGCCCCAATTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
66230668 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
66230694 AAAAGGGCTTATGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTACCG
* ***
66230720 AAAAAGGCTTATGCCCCAGTTTATTA
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
66230746 AAAAGGG-TTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
66230771 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
66230791 ATTAAAGAGG
Statistics
Matches: 110, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
25 31 0.28
26 79 0.72
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:66230993 original size:42 final size:42
Alignment explanation
Indices: 66230934--66231026 Score: 159
Period size: 42 Copynumber: 2.2 Consensus size: 42
66230924 GTAGTCTCCC
*
66230934 CAAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATT
1 CAAATGGGCTTGCATACATTCATTGATATTTCATGTGATATT
*
66230976 CAAATGGGCTTGCATACATTCATTGATATTTCATGTGTTATT
1 CAAATGGGCTTGCATACATTCATTGATATTTCATGTGATATT
*
66231018 GAAATGGGC
1 CAAATGGGC
66231027 CTATGGGCCA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (42 bp):
CAAATGGGCTTGCATACATTCATTGATATTTCATGTGATATT
Found at i:66231085 original size:31 final size:31
Alignment explanation
Indices: 66231050--66231128 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
66231040 CATTTACAAT
*
66231050 AAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
66231081 AAAGGCTTCGGCCCAGTGATTTGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
66231112 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
66231129 AACCGTTAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:66236703 original size:18 final size:18
Alignment explanation
Indices: 66236680--66236753 Score: 58
Period size: 18 Copynumber: 4.1 Consensus size: 18
66236670 GAACAATTAT
* * *
66236680 TTATTCGGTATCAGTCAG
1 TTATTCGGTAACAATCAA
66236698 TTATTCGGTAACAATCAA
1 TTATTCGGTAACAATCAA
** * *
66236716 TTATTCAATAATAATCAG
1 TTATTCGGTAACAATCAA
* **
66236734 TTATTCAGTATTAATCAA
1 TTATTCGGTAACAATCAA
66236752 TT
1 TT
66236754 GATCGGTTAT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 46 1.00
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.41
Consensus pattern (18 bp):
TTATTCGGTAACAATCAA
Found at i:66236786 original size:18 final size:18
Alignment explanation
Indices: 66236760--66236833 Score: 78
Period size: 18 Copynumber: 4.1 Consensus size: 18
66236750 AATTGATCGG
*
66236760 TTATCCAGTAACAATCAA
1 TTATTCAGTAACAATCAA
*
66236778 TTATTCAGTAAAAATCAGA
1 TTATTCAGTAACAATCA-A
* *
66236797 -TATACAGTAACAATTAAA
1 TTATTCAGTAACAA-TCAA
*
66236815 TTATTCAGTAACAGTCAA
1 TTATTCAGTAACAATCAA
66236833 T
1 T
66236834 CTTTCCAGTT
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
18 31 0.69
19 14 0.31
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (18 bp):
TTATTCAGTAACAATCAA
Found at i:66237027 original size:53 final size:53
Alignment explanation
Indices: 66236943--66237073 Score: 138
Period size: 53 Copynumber: 2.4 Consensus size: 53
66236933 CCGAAGCTGG
* * * *
66236943 AACAGTAACAGTAACAATAGCAGTACAGTACATAGAGTACCTCATTAGAATAAAT-CTGG
1 AACAGTAACAGTAACAATA-CGGTAC---ACA-A-AGTACCTCATCAGAACAAATAC-GA
* *
66237002 AACGGTAACAGTAACAATACGGTACACAAAGTACCTCATCGGAACAAATACGA
1 AACAGTAACAGTAACAATACGGTACACAAAGTACCTCATCAGAACAAATACGA
66237055 AACAGTAACAGTAACAATA
1 AACAGTAACAGTAACAATA
66237074 TCCGACACAC
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
53 36 0.56
54 2 0.03
55 3 0.05
58 5 0.08
59 18 0.28
ACGTcount: A:0.47, C:0.19, G:0.16, T:0.18
Consensus pattern (53 bp):
AACAGTAACAGTAACAATACGGTACACAAAGTACCTCATCAGAACAAATACGA
Done.