Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 154 of 211
Found at i:45589879 original size:9 final size:9
Alignment explanation
Indices: 45589844--45589891 Score: 57
Period size: 9 Copynumber: 5.6 Consensus size: 9
45589834 GTTGTGTATA
45589844 ATGTAAGTT
1 ATGTAAGTT
*
45589853 A-GGAAGGTT
1 ATGTAA-GTT
45589862 ATGT-A-TT
1 ATGTAAGTT
45589869 ATGTAAGTT
1 ATGTAAGTT
45589878 ATGTAAGTT
1 ATGTAAGTT
45589887 ATGTA
1 ATGTA
45589892 GGCTATGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
7 6 0.18
8 4 0.12
9 22 0.67
10 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.25, T:0.42
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:45589887 original size:34 final size:34
Alignment explanation
Indices: 45589844--45589913 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 34
45589834 GTTGTGTATA
*
45589844 ATGTAAGTTAGGAAGGTTATGTATTATGTAAGTT
1 ATGTAAGTTAGGAAGGCTATGTATTATGTAAGTT
* * * *
45589878 ATGTAAGTTATGTAGGCTATGTTTTATGTTAGTT
1 ATGTAAGTTAGGAAGGCTATGTATTATGTAAGTT
45589912 AT
1 AT
45589914 TATGTTATTA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.29, C:0.01, G:0.24, T:0.46
Consensus pattern (34 bp):
ATGTAAGTTAGGAAGGCTATGTATTATGTAAGTT
Found at i:45589931 original size:20 final size:19
Alignment explanation
Indices: 45589895--45589952 Score: 53
Period size: 21 Copynumber: 2.9 Consensus size: 19
45589885 TTATGTAGGC
* *
45589895 TATGTTTTATGTTAGTTAT
1 TATGTTTTATATAAGTTAT
45589914 TATGTTATTATATAAGTTAT
1 TATGTT-TTATATAAGTTAT
* *
45589934 GCAAGTTTATATATAAGTT
1 -TATGTTT-TATATAAGTT
45589953 TATATATTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 6 0.19
20 12 0.38
21 14 0.44
ACGTcount: A:0.31, C:0.02, G:0.14, T:0.53
Consensus pattern (19 bp):
TATGTTTTATATAAGTTAT
Found at i:45590069 original size:7 final size:7
Alignment explanation
Indices: 45590057--45590088 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
45590047 ATTGATAAAT
45590057 TTATGTA
1 TTATGTA
45590064 TTATGTA
1 TTATGTA
45590071 TTATGTA
1 TTATGTA
45590078 TTATGTA
1 TTATGTA
45590085 TTAT
1 TTAT
45590089 ATATCACTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.59
Consensus pattern (7 bp):
TTATGTA
Found at i:45590507 original size:31 final size:32
Alignment explanation
Indices: 45590457--45590520 Score: 94
Period size: 31 Copynumber: 2.0 Consensus size: 32
45590447 GTATATTGAT
*
45590457 TTAGCAGCAAAAAAACAATAAAAGGTATCATC
1 TTAGCAGCAAAAAAACAATAAAAGGTACCATC
* *
45590489 TTAGCAGC-AAAAACCAATAGAAGGTACCATC
1 TTAGCAGCAAAAAAACAATAAAAGGTACCATC
45590520 T
1 T
45590521 AATTAGCTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 21 0.72
32 8 0.28
ACGTcount: A:0.48, C:0.19, G:0.14, T:0.19
Consensus pattern (32 bp):
TTAGCAGCAAAAAAACAATAAAAGGTACCATC
Found at i:45590949 original size:13 final size:13
Alignment explanation
Indices: 45590931--45590955 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45590921 AAAGACCTTG
45590931 CAGCAACATTAAC
1 CAGCAACATTAAC
45590944 CAGCAACATTAA
1 CAGCAACATTAA
45590956 GCAGAACTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.28, G:0.08, T:0.16
Consensus pattern (13 bp):
CAGCAACATTAAC
Found at i:45591061 original size:32 final size:31
Alignment explanation
Indices: 45591001--45591061 Score: 79
Period size: 33 Copynumber: 1.9 Consensus size: 31
45590991 TTAAGCAAAA
* *
45591001 ACCAAATTAAAACAGTCCCAACTACAAATAT
1 ACCAAATTAAAACAGTCCAAAATACAAATAT
45591032 ACCAAATTTAAAAACAGTCCAAAAT-CAAAT
1 ACCAAA-TT-AAAACAGTCCAAAATACAAAT
45591062 GTAAATTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 6 0.23
32 7 0.27
33 13 0.50
ACGTcount: A:0.54, C:0.23, G:0.03, T:0.20
Consensus pattern (31 bp):
ACCAAATTAAAACAGTCCAAAATACAAATAT
Found at i:45591955 original size:29 final size:29
Alignment explanation
Indices: 45591913--45591987 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
45591903 CTAAATGCTG
*
45591913 TGAAGAATTGAATAACTAAATCAACGAGA
1 TGAAGAATTGAATAACTAAACCAACGAGA
* * *
45591942 TGAAGAAATGAATAACTAAACCGATGAGA
1 TGAAGAATTGAATAACTAAACCAACGAGA
*
45591971 TGAAGATTTGAATAACT
1 TGAAGAATTGAATAACT
45591988 GGATTTAAGG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.49, C:0.09, G:0.19, T:0.23
Consensus pattern (29 bp):
TGAAGAATTGAATAACTAAACCAACGAGA
Found at i:45593302 original size:22 final size:21
Alignment explanation
Indices: 45593272--45593323 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
45593262 TTGAATCATA
* *
45593272 AAACATTAACTATAAACCCCT
1 AAACCTTAACCATAAACCCCT
* *
45593293 AAACCCTTAACCCTAAACGCCT
1 AAA-CCTTAACCATAAACCCCT
45593315 AAACCTTAA
1 AAACCTTAA
45593324 ATCCTAACTC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 9 0.35
22 17 0.65
ACGTcount: A:0.44, C:0.33, G:0.02, T:0.21
Consensus pattern (21 bp):
AAACCTTAACCATAAACCCCT
Found at i:45593405 original size:7 final size:7
Alignment explanation
Indices: 45593395--45593436 Score: 66
Period size: 7 Copynumber: 6.0 Consensus size: 7
45593385 TAAAACATAT
45593395 ATAAACC
1 ATAAACC
45593402 ATAAACC
1 ATAAACC
*
45593409 CTAAACC
1 ATAAACC
*
45593416 CTAAACC
1 ATAAACC
45593423 ATAAACC
1 ATAAACC
45593430 ATAAACC
1 ATAAACC
45593437 CTGAATCATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.52, C:0.33, G:0.00, T:0.14
Consensus pattern (7 bp):
ATAAACC
Found at i:45593415 original size:14 final size:14
Alignment explanation
Indices: 45593396--45593448 Score: 70
Period size: 14 Copynumber: 3.8 Consensus size: 14
45593386 AAAACATATA
45593396 TAAACCATAAACCC
1 TAAACCATAAACCC
* *
45593410 TAAACCCTAAACCA
1 TAAACCATAAACCC
45593424 TAAACCATAAACCC
1 TAAACCATAAACCC
* *
45593438 TGAATCATAAA
1 TAAACCATAAA
45593449 ACATATATAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.51, C:0.30, G:0.02, T:0.17
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:45593422 original size:21 final size:21
Alignment explanation
Indices: 45593396--45593453 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
45593386 AAAACATATA
*
45593396 TAAACCATAAACCCTAAACCC
1 TAAACCATAAACCATAAACCC
45593417 TAAACCATAAACCATAAACCC
1 TAAACCATAAACCATAAACCC
* * *
45593438 TGAATCATAAAACATA
1 TAAACCATAAACCATA
45593454 TATAAACTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.52, C:0.29, G:0.02, T:0.17
Consensus pattern (21 bp):
TAAACCATAAACCATAAACCC
Found at i:45593488 original size:60 final size:60
Alignment explanation
Indices: 45593371--45593495 Score: 180
Period size: 60 Copynumber: 2.1 Consensus size: 60
45593361 TAATATTCCT
*
45593371 TAAACCCTGAATCATAAAACATATATAAACCATAAACCCTAAACCCTAAACCATAAACCA
1 TAAACCCTGAATCATAAAACATATATAAACCATAAACCCTAAACCCTAAACCATAAACAA
* * * * *
45593431 TAAACCCTGAATCATAAAACATATATAAACTATAAACCTTACA-CCTTAACACTTAAACAA
1 TAAACCCTGAATCATAAAACATATATAAACCATAAACCCTAAACCCTAAAC-CATAAACAA
45593491 TAAAC
1 TAAAC
45593496 AATAAATCAT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
59 6 0.10
60 52 0.90
ACGTcount: A:0.51, C:0.26, G:0.02, T:0.22
Consensus pattern (60 bp):
TAAACCCTGAATCATAAAACATATATAAACCATAAACCCTAAACCCTAAACCATAAACAA
Found at i:45593760 original size:115 final size:114
Alignment explanation
Indices: 45593606--45593905 Score: 289
Period size: 115 Copynumber: 2.6 Consensus size: 114
45593596 TCCAAAATGA
* * * * * * *
45593606 CGTCGTTTGCTTAAATCTTTTTACGGCGCTTCTGGGAAAGTGCCGCTACTACTTGACTTCTGTGG
1 CGTCATTTGCTTAAAAC-TTTTACGGCGCTTTTGAGAAAGCGCCGCTAATACTTGACTTCTGCGG
* * * *
45593671 CGTTTTTA-TAACTGCGCCGCTAATGTGC-CAAAACCTTAACAACAAAACGT
65 CGTTTTGAGGAA-TGCGCCACTAATGT-CTCAAAACCTTAAAAACAAAACGT
* * * * * *
45593721 TGTCATTTGCTTAAAAACTTTTACGGCGCTTTTGTGAAAGCACCGCTAATTCTTCACTTTTGCGG
1 CGTCATTTGCTT-AAAACTTTTACGGCGCTTTTGAGAAAGCGCCGCTAATACTTGACTTCTGCGG
* * * *
45593786 CGTTTTGAGGAATGCGCCATTAATGTCTCTAAATCTTAAAAAGAAAACGT
65 CGTTTTGAGGAATGCGCCACTAATGTCTCAAAACCTTAAAAACAAAACGT
* * ** * * * *
45593836 CGTCATTTGCCTAAAACTATTGTGGCGCTTTCGAGAAAGCGCCGCTAATGCTTGACTTTTGCAGC
1 CGTCATTTGCTTAAAACTTTTACGGCGCTTTTGAGAAAGCGCCGCTAATACTTGACTTCTGCGGC
45593901 GTTTT
66 GTTTT
45593906 TTGCAAAAGT
Statistics
Matches: 151, Mismatches: 31, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
114 50 0.33
115 95 0.63
116 6 0.04
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (114 bp):
CGTCATTTGCTTAAAACTTTTACGGCGCTTTTGAGAAAGCGCCGCTAATACTTGACTTCTGCGGC
GTTTTGAGGAATGCGCCACTAATGTCTCAAAACCTTAAAAACAAAACGT
Found at i:45602685 original size:68 final size:69
Alignment explanation
Indices: 45602598--45602757 Score: 196
Period size: 68 Copynumber: 2.3 Consensus size: 69
45602588 CTTATCTCAT
* * * * * * *
45602598 AAAGCCTTTGTGGCGTATTCTATAAAGCCTTTGTGGCGTCTTTTGTAAAGCCTTTGTGGCATATT
1 AAAGCCTTTGTGGCATATTCTATAAAGCCTTCGTGGCGTATTATGTAAAGCATGTCTGGCATATT
45602663 CTAC
66 CTAC
45602667 AAAG-CTTTGTGGCATATTCTATAAAGCCTTCGTGGCGTATTATGTAAAGCATGTCTGGCATATT
1 AAAGCCTTTGTGGCATATTCTATAAAGCCTTCGTGGCGTATTATGTAAAGCATGTCTGGCATATT
* **
45602731 TTGT
66 CTAC
* **
45602735 AAAGCCTTTATGGTGTATTCTAT
1 AAAGCCTTTGTGGCATATTCTAT
45602758 GATGCCTCTG
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
68 58 0.75
69 19 0.25
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.39
Consensus pattern (69 bp):
AAAGCCTTTGTGGCATATTCTATAAAGCCTTCGTGGCGTATTATGTAAAGCATGTCTGGCATATT
CTAC
Found at i:45602753 original size:23 final size:23
Alignment explanation
Indices: 45602572--45602757 Score: 169
Period size: 23 Copynumber: 8.1 Consensus size: 23
45602562 CGTAATGTTT
* * *
45602572 TATAAAGCTTTTGCGGCTTA-TC
1 TATAAAGCCTTTGTGGCGTATTC
45602594 TCATAAAGCCTTTGTGGCGTATTC
1 T-ATAAAGCCTTTGTGGCGTATTC
* *
45602618 TATAAAGCCTTTGTGGCGTCTTT
1 TATAAAGCCTTTGTGGCGTATTC
* *
45602641 TGTAAAGCCTTTGTGGCATATTC
1 TATAAAGCCTTTGTGGCGTATTC
* *
45602664 TACAAAG-CTTTGTGGCATATTC
1 TATAAAGCCTTTGTGGCGTATTC
* *
45602686 TATAAAGCCTTCGTGGCGTATTA
1 TATAAAGCCTTTGTGGCGTATTC
* * * * * *
45602709 TGTAAAGCATGTCTGGCATATTT
1 TATAAAGCCTTTGTGGCGTATTC
* * *
45602732 TGTAAAGCCTTTATGGTGTATTC
1 TATAAAGCCTTTGTGGCGTATTC
45602755 TAT
1 TAT
45602758 GATGCCTCTG
Statistics
Matches: 132, Mismatches: 29, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
22 22 0.17
23 107 0.81
24 3 0.02
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (23 bp):
TATAAAGCCTTTGTGGCGTATTC
Found at i:45609354 original size:80 final size:81
Alignment explanation
Indices: 45609238--45609396 Score: 257
Period size: 80 Copynumber: 2.0 Consensus size: 81
45609228 TTTTTAGAAG
* * *
45609238 ATAGGTTAAAAACAATTTTGTATTTGTCGAAAGGAAAAAGA-CTAGAGGAGATTGAAATAGCCGT
1 ATAGGTTAAAAACAACTTTGTATTTGTAGAAAGGAAAAAGATCTAGAGGAGATTGAAATAGCAGT
45609302 ATACAAAAGAAATAAT
66 ATACAAAAGAAATAAT
* * *
45609318 ATAGGTTTAAAACAACTTTGTATTTGTAGAAGGGAAAAAGATTTAGAGGAGATTGAAATAGCAGT
1 ATAGGTTAAAAACAACTTTGTATTTGTAGAAAGGAAAAAGATCTAGAGGAGATTGAAATAGCAGT
45609383 ATACAAAAGAAATA
66 ATACAAAAGAAATA
45609397 TATGTTCATC
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
80 37 0.51
81 35 0.49
ACGTcount: A:0.47, C:0.06, G:0.21, T:0.26
Consensus pattern (81 bp):
ATAGGTTAAAAACAACTTTGTATTTGTAGAAAGGAAAAAGATCTAGAGGAGATTGAAATAGCAGT
ATACAAAAGAAATAAT
Found at i:45609539 original size:20 final size:20
Alignment explanation
Indices: 45609501--45609538 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
45609491 CCTTTCATAC
* *
45609501 ATATATATATATAGCTTTTG
1 ATATATATAAAAAGCTTTTG
45609521 ATATATATAAAAAG-TTTT
1 ATATATATAAAAAGCTTTT
45609539 TTTTTATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (20 bp):
ATATATATAAAAAGCTTTTG
Found at i:45614559 original size:16 final size:16
Alignment explanation
Indices: 45614534--45614570 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
45614524 GGAATGAATT
*
45614534 AATTTAATTAGATTAA
1 AATTTAATTAAATTAA
*
45614550 AATTTGATTAAATTAA
1 AATTTAATTAAATTAA
45614566 AATTT
1 AATTT
45614571 TTTAATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (16 bp):
AATTTAATTAAATTAA
Found at i:45623405 original size:6 final size:6
Alignment explanation
Indices: 45623394--45623429 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
45623384 ACTATTTCTA
45623394 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
45623430 GAACTTATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:45623766 original size:27 final size:26
Alignment explanation
Indices: 45623710--45623767 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
45623700 CGCACGAATG
*
45623710 AAATTTAATTTAAATAAAAATATTTTT
1 AAATTTAATTTAAATAAAAATA-TTAT
*
45623737 AAATTTAAATTTAATTATAAAATA-TAT
1 AAATTT-AATTTAAATA-AAAATATTAT
45623764 AAAT
1 AAAT
45623768 AATAATATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 12 0.44
28 9 0.33
29 6 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
AAATTTAATTTAAATAAAAATATTAT
Found at i:45625667 original size:20 final size:20
Alignment explanation
Indices: 45625616--45625669 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
45625606 CTTCCTATGA
*
45625616 GGTATCGATACCTTGGAGAG
1 GGTATCGATACTTTGGAGAG
*
45625636 GGTATCGATACTTTGTTA-AG
1 GGTATCGATACTTTG-GAGAG
45625656 GGTATCGATACTTT
1 GGTATCGATACTTT
45625670 TGATTTTTGC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.24, C:0.13, G:0.28, T:0.35
Consensus pattern (20 bp):
GGTATCGATACTTTGGAGAG
Found at i:45637314 original size:20 final size:19
Alignment explanation
Indices: 45637282--45637320 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
45637272 TTGATTAAGG
45637282 TTAAGTTAAGTTAATTAAA
1 TTAAGTTAAGTTAATTAAA
*
45637301 TTAAGTTTATGTTAATTAAA
1 TTAAG-TTAAGTTAATTAAA
45637321 CCAACTTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (19 bp):
TTAAGTTAAGTTAATTAAA
Found at i:45641118 original size:20 final size:20
Alignment explanation
Indices: 45641092--45641188 Score: 81
Period size: 20 Copynumber: 4.8 Consensus size: 20
45641082 TGCACTTCAT
*
45641092 TGCCTCTATTTACACTTTTG
1 TGCCTCTATTTACACTTTAG
* * * *
45641112 TGTCTCTATTTGCACTTCAA
1 TGCCTCTATTTACACTTTAG
* *
45641132 TGCCT-TCGTTTACACTTTGG
1 TGCCTCT-ATTTACACTTTAG
*
45641152 TGTCTCTGA-TTACACTTTAG
1 TGCCTCT-ATTTACACTTTAG
*
45641172 TGCCTCTGTTTACACTT
1 TGCCTCTATTTACACTT
45641189 CGGTGTTTTT
Statistics
Matches: 57, Mismatches: 17, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
19 1 0.02
20 55 0.96
21 1 0.02
ACGTcount: A:0.15, C:0.25, G:0.13, T:0.46
Consensus pattern (20 bp):
TGCCTCTATTTACACTTTAG
Found at i:45641136 original size:40 final size:41
Alignment explanation
Indices: 45641080--45641194 Score: 137
Period size: 40 Copynumber: 2.9 Consensus size: 41
45641070 CTTGTACGAG
* * *
45641080 TTTGCACTTCATTGCCTCTATTTACACTTTTGTGTCTCT-A
1 TTTGCACTTCAATGCCTCTGTTTACACTTTGGTGTCTCTGA
45641120 TTTGCACTTCAATGCCT-TCGTTTACACTTTGGTGTCTCTGA
1 TTTGCACTTCAATGCCTCT-GTTTACACTTTGGTGTCTCTGA
* * * *
45641161 -TTACACTTTAGTGCCTCTGTTTACACTTCGGTGT
1 TTTGCACTTCAATGCCTCTGTTTACACTTTGGTGT
45641195 TTTTGTTCGT
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
39 1 0.02
40 62 0.95
41 2 0.03
ACGTcount: A:0.15, C:0.24, G:0.15, T:0.46
Consensus pattern (41 bp):
TTTGCACTTCAATGCCTCTGTTTACACTTTGGTGTCTCTGA
Found at i:45645078 original size:3 final size:3
Alignment explanation
Indices: 45645070--45645101 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
45645060 GACATTGGCT
45645070 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
45645102 TATTGAAGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:45653316 original size:15 final size:15
Alignment explanation
Indices: 45653296--45653326 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
45653286 GCAAACTAGG
45653296 GAGTTCGCCAAAAGA
1 GAGTTCGCCAAAAGA
45653311 GAGTTCGCCAAAAGA
1 GAGTTCGCCAAAAGA
45653326 G
1 G
45653327 TATCAGTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.19, G:0.29, T:0.13
Consensus pattern (15 bp):
GAGTTCGCCAAAAGA
Found at i:45655818 original size:31 final size:31
Alignment explanation
Indices: 45655780--45655839 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
45655770 ATTCAGTAAG
* *
45655780 TAAGTTGTGTTTTGTGAACTATGTTCGCATA
1 TAAGTTGTGTTTGGCGAACTATGTTCGCATA
45655811 TAAGTTGTGTTTGGCGAACTATGTTCGCA
1 TAAGTTGTGTTTGGCGAACTATGTTCGCA
45655840 AGTCTATTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.22, C:0.12, G:0.25, T:0.42
Consensus pattern (31 bp):
TAAGTTGTGTTTGGCGAACTATGTTCGCATA
Found at i:45658509 original size:53 final size:53
Alignment explanation
Indices: 45658442--45658647 Score: 259
Period size: 53 Copynumber: 3.9 Consensus size: 53
45658432 GGGGCTGAAG
*
45658442 GACCATATCGTGTAAGGCCGTAATTGGTGGGTTATGGCATCATATGGAAAGAA
1 GACCATATCGTGTAAGACCGTAATTGGTGGGTTATGGCATCATATGGAAAGAA
* * * * * * * *
45658495 GACCATATCTTGTAAGACTGTAAGTAGTAGGTTATGACATTATATGAAAAGAA
1 GACCATATCGTGTAAGACCGTAATTGGTGGGTTATGGCATCATATGGAAAGAA
* *
45658548 GACCATATCGTGTAAGACCGTAATTGGTGGGTTATGGCACCGTATGGAAAGAA
1 GACCATATCGTGTAAGACCGTAATTGGTGGGTTATGGCATCATATGGAAAGAA
* * * * * *
45658601 AATCATATTGTGTAAGACCGTAACTGGTGGATTATGGCATCTTATGG
1 GACCATATCGTGTAAGACCGTAATTGGTGGGTTATGGCATCATATGG
45658648 GAAGGACTAA
Statistics
Matches: 127, Mismatches: 26, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
53 127 1.00
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.29
Consensus pattern (53 bp):
GACCATATCGTGTAAGACCGTAATTGGTGGGTTATGGCATCATATGGAAAGAA
Found at i:45661180 original size:13 final size:13
Alignment explanation
Indices: 45661153--45661191 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
45661143 ACGGCCTAAC
45661153 ACATGGCC-T-TG
1 ACATGGCCATGTG
*
45661164 ACATGGGCATGTG
1 ACATGGCCATGTG
45661177 ACATGGCCATGTG
1 ACATGGCCATGTG
45661190 AC
1 AC
45661192 CCTACTCAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 7 0.29
12 1 0.04
13 16 0.67
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.23
Consensus pattern (13 bp):
ACATGGCCATGTG
Found at i:45661635 original size:28 final size:28
Alignment explanation
Indices: 45661560--45661628 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
45661550 GGTGTTACAC
*
45661560 AGCCTTTGTGGCAATCTCTGGATAAGGA
1 AGCCTTTGTGGCAATCTCTAGATAAGGA
* *
45661588 AGCCATTGTGGCTATCTCTAGA-AAGGA
1 AGCCTTTGTGGCAATCTCTAGATAAGGA
45661615 ATGCCTTTGTGGCA
1 A-GCCTTTGTGGCA
45661629 CCATCTAAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
27 6 0.17
28 29 0.83
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCCTTTGTGGCAATCTCTAGATAAGGA
Found at i:45662973 original size:14 final size:13
Alignment explanation
Indices: 45662952--45662988 Score: 56
Period size: 14 Copynumber: 2.7 Consensus size: 13
45662942 TAATCAAAGT
45662952 TTTAATTAATTAA
1 TTTAATTAATTAA
45662965 TTGTAATTATATTAA
1 TT-TAATTA-ATTAA
45662980 TTTAATTAA
1 TTTAATTAA
45662989 AGCATAAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 3 0.14
14 12 0.55
15 7 0.32
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (13 bp):
TTTAATTAATTAA
Found at i:45674049 original size:21 final size:20
Alignment explanation
Indices: 45674025--45674066 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
45674015 ATCTTCAGGA
* *
45674025 CTGTGTCGTGACATCCTAAGG
1 CTGTGTCGCGACA-CCGAAGG
45674046 CTGTGTCGCGACACCGAAGG
1 CTGTGTCGCGACACCGAAGG
45674066 C
1 C
45674067 AGTCTTGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.19, C:0.29, G:0.31, T:0.21
Consensus pattern (20 bp):
CTGTGTCGCGACACCGAAGG
Found at i:45674771 original size:17 final size:18
Alignment explanation
Indices: 45674749--45674783 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
45674739 TCAAGAACAG
*
45674749 TAAGCAT-AAAGTAGTTT
1 TAAGCATGAAAATAGTTT
45674766 TAAGCATGAAAATAGTTT
1 TAAGCATGAAAATAGTTT
45674784 GGCACATCGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.43, C:0.06, G:0.17, T:0.34
Consensus pattern (18 bp):
TAAGCATGAAAATAGTTT
Found at i:45689023 original size:37 final size:37
Alignment explanation
Indices: 45688973--45689088 Score: 187
Period size: 37 Copynumber: 3.1 Consensus size: 37
45688963 TTATTACGAA
* * * *
45688973 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
45689010 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
*
45689047 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCAG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
45689084 GTCTT
1 GTCTT
45689089 TAGAGCTCGG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 74 1.00
ACGTcount: A:0.27, C:0.33, G:0.18, T:0.22
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
Found at i:45689285 original size:47 final size:47
Alignment explanation
Indices: 45689207--45689417 Score: 332
Period size: 47 Copynumber: 4.4 Consensus size: 47
45689197 CCCTTCGGGA
* * * * * *
45689207 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
45689254 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45689301 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45689348 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45689397 CTTATCACATATATACACTTT
1 CTTATCACATATATACACTTT
45689418 TAGGCCTTAT
Statistics
Matches: 152, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
47 105 0.69
49 47 0.31
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:45689404 original size:96 final size:94
Alignment explanation
Indices: 45689207--45689417 Score: 332
Period size: 96 Copynumber: 2.2 Consensus size: 94
45689197 CCCTTCGGGA
* * * * *
45689207 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
45689272 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* * *
45689301 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCAC--ATATATAC
45689366 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
45689397 CTTATCACATATATACACTTT
1 CTTATCACATATATACACTTT
45689418 TAGGCCTTAT
Statistics
Matches: 107, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
94 47 0.44
96 60 0.56
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:45689423 original size:75 final size:75
Alignment explanation
Indices: 45689342--45689489 Score: 296
Period size: 75 Copynumber: 2.0 Consensus size: 75
45689332 ACATCGGCCA
45689342 TTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 TTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
45689407 ATATACACTT
66 ATATACACTT
45689417 TTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 TTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
45689482 ATATACAC
66 ATATACAC
45689490 ACTTTCACAT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.34
Consensus pattern (75 bp):
TTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
ATATACACTT
Found at i:45689453 original size:124 final size:122
Alignment explanation
Indices: 45689295--45689541 Score: 458
Period size: 124 Copynumber: 2.0 Consensus size: 122
45689285 ACATCGGCCA
45689295 TTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 TTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
*
45689360 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
66 ATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
45689417 TTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 TTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
*
45689482 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATGCACTT
64 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
45689541 T
1 T
45689542 CACATTCATC
Statistics
Matches: 121, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
122 14 0.12
124 107 0.88
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.34
Consensus pattern (122 bp):
TTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
ATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
Found at i:45689472 original size:49 final size:49
Alignment explanation
Indices: 45689417--45689631 Score: 398
Period size: 49 Copynumber: 4.4 Consensus size: 49
45689407 ATATACACTT
45689417 TTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCA
1 TTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCA
*
45689466 TTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGGCCA
1 TTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCA
*
45689515 TTAGGCCTTATCAC--ATATATGCACTTTCACATTCATCACATCGGCCA
1 TTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCA
45689562 TTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCA
1 TTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCA
45689611 TTAGGCCTTATCACATATATA
1 TTAGGCCTTATCACATATATA
45689632 CACGGCCATT
Statistics
Matches: 160, Mismatches: 4, Indels: 4
0.95 0.02 0.02
Matches are distributed among these distances:
47 45 0.28
49 115 0.72
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (49 bp):
TTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCA
Found at i:45689549 original size:96 final size:96
Alignment explanation
Indices: 45689417--45689634 Score: 400
Period size: 96 Copynumber: 2.2 Consensus size: 96
45689407 ATATACACTT
45689417 TTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 TTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
45689482 ATATACACACTTTCACATTCATCACATCGGCCA
64 ATATACACACTTTCACATTCATCACATCGGCCA
*
45689515 TTAGGCCTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 TTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
*
45689580 ATATACACTTTCACATTCATCACATCGGCCA
66 ATACACACTTTCACATTCATCACATCGGCCA
45689611 TTAGGCCTTATCACATATATACAC
1 TTAGGCCTTATCACATATATACAC
45689635 GGCCATTAGG
Statistics
Matches: 117, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
96 103 0.88
98 14 0.12
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (96 bp):
TTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
ATACACACTTTCACATTCATCACATCGGCCA
Found at i:45689639 original size:29 final size:29
Alignment explanation
Indices: 45689605--45689663 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
45689595 TTCATCACAT
45689605 CGGCCATTAGGCCTTATCACATATATACA
1 CGGCCATTAGGCCTTATCACATATATACA
45689634 CGGCCATTAGGCCTTATCACATATATACA
1 CGGCCATTAGGCCTTATCACATATATACA
45689663 C
1 C
45689664 TTTCACGTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (29 bp):
CGGCCATTAGGCCTTATCACATATATACA
Found at i:45689681 original size:76 final size:77
Alignment explanation
Indices: 45689556--45689710 Score: 285
Period size: 76 Copynumber: 2.0 Consensus size: 77
45689546 TTCATCACAT
45689556 CGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 CGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
45689621 TCACATATATACA
65 TCACATATATACA
*
45689634 CGGCCATTAGGCCTTATCAC-ATATATACACTTTCACGTTCATCACATCGGCCATTAGGCCTTAT
1 CGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
45689698 CACATATATACA
66 CACATATATACA
45689710 C
1 C
45689711 TTTCACGTTC
Statistics
Matches: 76, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
76 56 0.74
78 20 0.26
ACGTcount: A:0.30, C:0.29, G:0.11, T:0.30
Consensus pattern (77 bp):
CGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
CACATATATACA
Found at i:45689687 original size:47 final size:48
Alignment explanation
Indices: 45689634--45689825 Score: 334
Period size: 49 Copynumber: 4.0 Consensus size: 48
45689624 CATATATACA
*
45689634 CGGCCATTAGGCCTTATCAC-ATATATACACTTTCACGTTCATCACAT
1 CGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACAT
*
45689681 CGGCCATTAGGCCTTATCAC-ATATATACACTTTCACGTTCATCACAT
1 CGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACAT
45689728 CGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACAT
1 CGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCATCACAT
45689777 CGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACAT
1 CGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCATCACAT
45689826 AGAATCCTAA
Statistics
Matches: 142, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
47 67 0.47
49 75 0.53
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (48 bp):
CGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACAT
Found at i:45689759 original size:125 final size:124
Alignment explanation
Indices: 45689509--45689754 Score: 449
Period size: 125 Copynumber: 2.0 Consensus size: 124
45689499 TTCATCACAT
*
45689509 CGGCCATTAGGCCTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
1 CGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
45689574 ACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
66 ACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
*
45689634 CGGCCATTAGGCCTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGCCTTATC
1 CGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
*
45689699 AC-ATATATACACTTTCACGTTCATCACATCGGCCATTAGGCCTTATCACATATATA
66 ACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
45689755 TACACTTTCA
Statistics
Matches: 118, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
123 53 0.45
125 65 0.55
ACGTcount: A:0.29, C:0.29, G:0.11, T:0.31
Consensus pattern (124 bp):
CGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
ACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
Found at i:45689777 original size:96 final size:95
Alignment explanation
Indices: 45689634--45689825 Score: 332
Period size: 96 Copynumber: 2.0 Consensus size: 95
45689624 CATATATACA
*
45689634 CGGCCATTAGGCCTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGCCTTATC
1 CGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
*
45689699 AC-ATATATACACTTTCACGTTCATCACAT
66 ACAATATATACACTTTCACATTCATCACAT
45689728 CGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 CGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
45689793 TCACATATATATACACTTTCACATTCATCACAT
64 TCACA-ATATATACACTTTCACATTCATCACAT
45689826 AGAATCCTAA
Statistics
Matches: 92, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
94 20 0.22
96 46 0.50
98 26 0.28
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (95 bp):
CGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
ACAATATATACACTTTCACATTCATCACAT
Found at i:45693449 original size:40 final size:40
Alignment explanation
Indices: 45693351--45693665 Score: 436
Period size: 40 Copynumber: 7.9 Consensus size: 40
45693341 CGAATACACG
* * * *
45693351 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGAT--A
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
* * * *** * *
45693389 TAACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
* *
45693429 TCACTAGCACGAATGCTCTTCGAAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
45693469 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
45693509 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
* * *
45693549 TCACTAGCACGAATGCTCTTCGGGACTTAACCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
*
45693589 TCACTAGCATGAATGCTCTTTGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
* *
45693629 TCACTAGCATGAATGCTCTTCGGGACTTAACCCGGAT
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGAT
45693666 TTAGTAACTC
Statistics
Matches: 248, Mismatches: 27, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
38 30 0.12
40 218 0.88
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
Found at i:45693690 original size:40 final size:40
Alignment explanation
Indices: 45693368--45693783 Score: 156
Period size: 40 Copynumber: 10.5 Consensus size: 40
45693358 CATGATTGCT
* *
45693368 CTTCGGGACCTAGCCCGGA--TA-TAAC-CAGCACGAATGC
1 CTTCGGGACTTAGCCCGGATTTAGTAACTC-GCACCAATGC
** * * * * *
45693405 TCTTCGGGGTTTAGCACGGATATA-TCACTAGCACGAATGC
1 -CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAATGC
** ** * * **
45693445 TCTTCGAAACTTAGCCCGGATACA-TCACTAGCATGAATGC
1 -CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAATGC
* ** * * **
45693485 TCTTCGGAACTTAGCCCGGATACA-TCACTAGCATGAATGC
1 -CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAATGC
* ** * * *
45693525 TCTTCGGAACTTAGCCCGGATACA-TCACTAGCACGAATGC
1 -CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAATGC
* ** * * **
45693565 TCTTCGGGACTTAACCCGGATACA-TCACTAGCATGAATGC
1 -CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAATGC
* * ** * * **
45693605 TCTTTGGAACTTAGCCCGGATACA-TCACTAGCATGAATGC
1 -CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAATGC
*
45693645 TCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGC
1 -CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAATGC
* * *
45693686 CTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAATGC
* * * * * *
45693725 CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGC
1 CTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACCAATGC
45693765 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
45693784 CATCATTCGA
Statistics
Matches: 326, Mismatches: 44, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
38 17 0.05
39 32 0.10
40 258 0.79
41 19 0.06
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAATGC
Found at i:45693690 original size:120 final size:120
Alignment explanation
Indices: 45693351--45693703 Score: 480
Period size: 120 Copynumber: 3.0 Consensus size: 120
45693341 CGAATACACG
* * * * * * * *
45693351 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGAT--ATAACCAGCACGAATGCTCTTCGGGG
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGA
* * **
45693414 TTTAGCACGGATATATCACTAGCACGAATGCTCTTCGAAACTTAGCCCGGATACA
66 CTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
*
45693469 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGAA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGA
* *
45693534 CTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAACCCGGATACA
66 CTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
*
45693589 TCACTAGCATGAATGCTCTTTGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGA
* * * * *
45693654 CTTAACCCGGATTTAGTAACTCGCACCAATGC-CTTCGGG-CTTAGCCCGGA
66 CTTAGCCCGGATATA-TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGA
45693704 ATTAGTATCT
Statistics
Matches: 208, Mismatches: 24, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
118 33 0.16
119 10 0.05
120 152 0.73
121 13 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (120 bp):
TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGA
CTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:45693753 original size:120 final size:119
Alignment explanation
Indices: 45693364--45693783 Score: 397
Period size: 120 Copynumber: 3.5 Consensus size: 119
45693354 CCAGCATGAT
* * * * * ** *
45693364 TGCTCTTCGGGACCTAGCCCGGAT--ATAACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATA
* * * ** * **
45693427 TATCACTAGCACGAATGCTCTTCGAAACTTAGCCCGGATACATCACTAGCATGAA
66 CATAACTAGCACCAATGCTCTTCGGGACTTAACCCGGATACAT-ACTAGCACAAA
*
45693482 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATA
* * **
45693547 CATCACTAGCACGAATGCTCTTCGGGACTTAACCCGGATACATCACTAGCATGAA
66 CATAACTAGCACCAATGCTCTTCGGGACTTAACCCGGATACAT-ACTAGCACAAA
* * *
45693602 TGCTCTTTGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAACCCGGATT
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATA
* * * * *
45693667 TAGTAACTCGCACCAATGC-CTTCGGG-CTTAGCCCGGAATTA-GTATCTCGCACAAA
66 CA-TAACTAGCACCAATGCTCTTCGGGACTTAACCCGG-A-TACATA-CTAGCACAAA
* * ** * *
45693722 TGC-CTTCGGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGAACTTAGCCCGGATA-CATCAC-TAGCATGAATGCTCTTCGGGACTTAGCCCGGA
45693784 CATCATTCGA
Statistics
Matches: 260, Mismatches: 34, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
118 22 0.08
119 46 0.18
120 172 0.66
121 20 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (119 bp):
TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATA
CATAACTAGCACCAATGCTCTTCGGGACTTAACCCGGATACATACTAGCACAAA
Found at i:45695569 original size:78 final size:81
Alignment explanation
Indices: 45695435--45695617 Score: 223
Period size: 78 Copynumber: 2.3 Consensus size: 81
45695425 TGAATGATGT
* *
45695435 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
*
45695499 GTGCGAGATACTA-AT
66 GTGCGAGATACTATAA
* * * * **
45695514 TCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAAT
*
45695576 TGTGCGAGTTACTATAA
65 TGTGCGAGATACTATAA
*
45695593 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
45695618 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
77 1 0.01
78 48 0.55
79 25 0.28
80 14 0.16
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
GTGCGAGATACTATAA
Found at i:45695579 original size:40 final size:40
Alignment explanation
Indices: 45695434--45695617 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
45695424 TTGAATGATG
* * * *
45695434 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
45695474 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
45695513 TTCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
45695552 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
45695593 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
45695618 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 23 0.19
39 21 0.17
40 69 0.56
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:45695635 original size:80 final size:77
Alignment explanation
Indices: 45695487--45695650 Score: 195
Period size: 79 Copynumber: 2.1 Consensus size: 77
45695477 GGACTAAGAT
* ** **
45695487 CCGAAGGCATTTGTGCGAGATACTAATTCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 CCGAAGGCAATTGTGCGAGATACTAAACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAA
*
45695552 TCCGGGTTAAGTC
66 TCC-GGTTAAATC
* *
45695565 CCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCT
1 CCGAAGGCAATTGTGCGAGATACTA-AACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CT
* *
45695629 ATATCCGGTTAAATT
63 AAATCCGGTTAAATC
45695644 CCGAAGG
1 CCGAAGG
45695651 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
78 23 0.32
79 25 0.34
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (77 bp):
CCGAAGGCAATTGTGCGAGATACTAAACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAA
TCCGGTTAAATC
Found at i:45698220 original size:2 final size:2
Alignment explanation
Indices: 45698213--45698242 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
45698203 TTCTTATAAT
45698213 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
45698243 TATACAATTC
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:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:45700360 original size:17 final size:18
Alignment explanation
Indices: 45700338--45700371 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
45700328 TCAATCATAT
45700338 AATATTT-AAACAAAAAA
1 AATATTTCAAACAAAAAA
*
45700355 AATATTTCCAACAAAAA
1 AATATTTCAAACAAAAA
45700372 TTTCATATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.24
Consensus pattern (18 bp):
AATATTTCAAACAAAAAA
Found at i:45704185 original size:59 final size:60
Alignment explanation
Indices: 45704073--45704189 Score: 218
Period size: 59 Copynumber: 2.0 Consensus size: 60
45704063 ACTTGTAATG
*
45704073 GTAAGGAGAATGATGAGTAATATACTTTTTGGTTGACCCATAACATAAATATGTTAGAAT
1 GTAAGGAGAATAATGAGTAATATACTTTTTGGTTGACCCATAACATAAATATGTTAGAAT
45704133 GTAAGGAGAATAATGAGTAATATAC-TTTTGGTTGACCCATAACATAAATATGTTAGA
1 GTAAGGAGAATAATGAGTAATATACTTTTTGGTTGACCCATAACATAAATATGTTAGA
45704190 GTGTTATAAT
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
59 32 0.57
60 24 0.43
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.32
Consensus pattern (60 bp):
GTAAGGAGAATAATGAGTAATATACTTTTTGGTTGACCCATAACATAAATATGTTAGAAT
Found at i:45705433 original size:19 final size:20
Alignment explanation
Indices: 45705396--45705433 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
45705386 TATGAGAATA
45705396 TTTTCTATTTCTATGTTTTC
1 TTTTCTATTTCTATGTTTTC
45705416 TTTT-TATTT-TATGATTTT
1 TTTTCTATTTCTATG-TTTT
45705434 TAAATTGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 9 0.53
20 4 0.24
ACGTcount: A:0.13, C:0.08, G:0.05, T:0.74
Consensus pattern (20 bp):
TTTTCTATTTCTATGTTTTC
Found at i:45714598 original size:12 final size:12
Alignment explanation
Indices: 45714581--45714605 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45714571 TTGTTTCAAA
45714581 TTTTTTAGAGAT
1 TTTTTTAGAGAT
45714593 TTTTTTAGAGAT
1 TTTTTTAGAGAT
45714605 T
1 T
45714606 ACGTTTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.16, T:0.60
Consensus pattern (12 bp):
TTTTTTAGAGAT
Found at i:45717240 original size:27 final size:27
Alignment explanation
Indices: 45717202--45717258 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
45717192 GGTGGATGAT
45717202 ACTCCAACAAGGGGTACTAGATTGCCC
1 ACTCCAACAAGGGGTACTAGATTGCCC
45717229 ACTCCAACAAGGGGTACTAGATTGCCC
1 ACTCCAACAAGGGGTACTAGATTGCCC
45717256 ACT
1 ACT
45717259 GACATTTATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (27 bp):
ACTCCAACAAGGGGTACTAGATTGCCC
Found at i:45720147 original size:24 final size:24
Alignment explanation
Indices: 45720120--45720171 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
45720110 TTAGTAGGTA
*
45720120 AAATAAAATAT-TCTAATAAATGCT
1 AAATAAAATATAT-TAATAAATACT
* *
45720144 AAATATATTATATTAATAAATACT
1 AAATAAAATATATTAATAAATACT
45720168 AAAT
1 AAAT
45720172 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.37
Consensus pattern (24 bp):
AAATAAAATATATTAATAAATACT
Found at i:45722134 original size:24 final size:24
Alignment explanation
Indices: 45722084--45722135 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
45722074 TTAGTAGGTC
* **
45722084 AAATAAATTATGCTAATAAATGTT
1 AAATAAATTATACTAATAAATACT
*
45722108 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
45722132 AAAT
1 AAAT
45722136 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:45722821 original size:44 final size:44
Alignment explanation
Indices: 45722772--45722860 Score: 124
Period size: 44 Copynumber: 2.0 Consensus size: 44
45722762 TGAAGTAAAG
* * * *
45722772 TAGAAGTAGTGATAACTATATATTTAAAAGTAATTATAATTTAA
1 TAGAAGTAGTGATAACTACACATCTAAAAATAATTATAATTTAA
* *
45722816 TAGAAGTTGTGATAATTACACATCTAAAAATAATTATAATTTAA
1 TAGAAGTAGTGATAACTACACATCTAAAAATAATTATAATTTAA
45722860 T
1 T
45722861 TTAACGTTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.47, C:0.04, G:0.10, T:0.38
Consensus pattern (44 bp):
TAGAAGTAGTGATAACTACACATCTAAAAATAATTATAATTTAA
Found at i:45726775 original size:24 final size:25
Alignment explanation
Indices: 45726748--45726796 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
45726738 TTAATTCCTT
*
45726748 TAAATACATTATTG-AAA-AAATAAA
1 TAAAAACATT-TTGCAAACAAATAAA
45726772 TAAAAACATTTTGCAAACAAATAAA
1 TAAAAACATTTTGCAAACAAATAAA
45726797 GTACAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 3 0.14
24 12 0.55
25 7 0.32
ACGTcount: A:0.61, C:0.08, G:0.04, T:0.27
Consensus pattern (25 bp):
TAAAAACATTTTGCAAACAAATAAA
Found at i:45727541 original size:25 final size:24
Alignment explanation
Indices: 45727513--45727569 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
45727503 TTTCTTCCCT
*
45727513 CTTTCCCTCTC-TTCTTCTCTCTTTC
1 CTTTCCCTCCCTTTC-TCTC-CTTTC
*
45727538 CTTTCCTTCCCTTTCTCTCCTTTC
1 CTTTCCCTCCCTTTCTCTCCTTTC
*
45727562 TTTTCCCT
1 CTTTCCCT
45727570 TTTCTTTTCT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 11 0.41
25 13 0.48
26 3 0.11
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (24 bp):
CTTTCCCTCCCTTTCTCTCCTTTC
Found at i:45727576 original size:25 final size:24
Alignment explanation
Indices: 45727513--45727576 Score: 60
Period size: 25 Copynumber: 2.6 Consensus size: 24
45727503 TTTCTTCCCT
45727513 CTTTCCCTCTCTTC-TTCTCTCTTTC
1 CTTTCCCT-T-TTCTTTCTCTCTTTC
**
45727538 CTTT-CCTTCCCTTTCTCTCCTTTC
1 CTTTCCCTTTTCTTTCTCT-CTTTC
*
45727562 TTTTCCCTTTTCTTT
1 CTTTCCCTTTTCTTT
45727577 TCTTTCTACT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
22 1 0.03
23 7 0.23
24 11 0.35
25 12 0.39
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (24 bp):
CTTTCCCTTTTCTTTCTCTCTTTC
Found at i:45732429 original size:61 final size:61
Alignment explanation
Indices: 45732377--45732564 Score: 165
Period size: 61 Copynumber: 3.1 Consensus size: 61
45732367 TTATAGTATT
45732377 ATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATC
1 ATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATC
* * * * * * * *
45732438 ATATATT-TTA-ATTAAAATATATTTAATATTA-ATTATTTCAA-ATT-A-TATTTTA-TAGTAT
1 ATATATTATGATTTTAGAA-A-A-TTCATATAAGAATATTT-AATATTAAGAATTTTATTA-AAT
45732496 C
61 C
* * * * *
45732497 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATC
45732558 ATATATT
1 ATATATT
45732565 TTAATTAAAA
Statistics
Matches: 94, Mismatches: 21, Indels: 24
0.68 0.15 0.17
Matches are distributed among these distances:
58 10 0.11
59 30 0.32
60 8 0.09
61 35 0.37
62 11 0.12
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.48
Consensus pattern (61 bp):
ATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATC
Found at i:45732442 original size:120 final size:120
Alignment explanation
Indices: 45732313--45732599 Score: 477
Period size: 120 Copynumber: 2.4 Consensus size: 120
45732303 TAAGTAATTG
* * *
45732313 AAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTA
1 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCA
* *
45732378 TATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATT
66 TATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
* *
45732433 AAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATATTTTATAGTATC
1 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTTTATAGTATC
* *
45732497 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATT
65 ATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
45732553 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
45732600 ATGTGATTAA
Statistics
Matches: 154, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
119 2 0.01
120 150 0.97
121 2 0.01
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCA
TATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
Found at i:45732573 original size:18 final size:17
Alignment explanation
Indices: 45732545--45732579 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
45732535 ATTATTAAGA
*
45732545 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
45732562 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
45732580 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:45734394 original size:15 final size:15
Alignment explanation
Indices: 45734349--45734394 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
45734339 ATTTTAATAT
*
45734349 AATTCAACACTTATAA
1 AATTCAATACTTA-AA
45734365 AATAT-AATA-TTAAA
1 AAT-TCAATACTTAAA
45734379 AATTCAATACTTAAA
1 AATTCAATACTTAAA
45734394 A
1 A
45734395 TTTTAATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
13 1 0.04
14 9 0.35
15 9 0.35
16 6 0.23
17 1 0.04
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.33
Consensus pattern (15 bp):
AATTCAATACTTAAA
Found at i:45736783 original size:19 final size:19
Alignment explanation
Indices: 45736759--45736802 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
45736749 GGGACTAAAT
* *
45736759 TGAAAAGTTGTAAAATTTA
1 TGAAAAATTCTAAAATTTA
*
45736778 TGAAAAAATTCTAAATTTTA
1 TG-AAAAATTCTAAAATTTA
45736798 TGAAA
1 TGAAA
45736803 TACATGGGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.36
Consensus pattern (19 bp):
TGAAAAATTCTAAAATTTA
Found at i:45737503 original size:26 final size:26
Alignment explanation
Indices: 45737463--45737531 Score: 66
Period size: 26 Copynumber: 2.7 Consensus size: 26
45737453 CTTATGAGTG
* *
45737463 TCCCGATTTATGGCTCTTCGTCAGCT
1 TCCCGATTAAAGGCTCTTCGTCAGCT
* * * *
45737489 TCCCGGTTAAAGGCTTTTTGTGAGCT
1 TCCCGATTAAAGGCTCTTCGTCAGCT
* *
45737515 TCCTGATTAATGGCTCT
1 TCCCGATTAAAGGCTCT
45737532 CCGGAGCTTC
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.14, C:0.25, G:0.22, T:0.39
Consensus pattern (26 bp):
TCCCGATTAAAGGCTCTTCGTCAGCT
Found at i:45737589 original size:25 final size:25
Alignment explanation
Indices: 45737510--45737590 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 25
45737500 GGCTTTTTGT
*
45737510 GAGCTTCCTGAT-TAATGGCTCTCCG
1 GAGCTTCCCGATAT-ATGGCTCTCCG
* **
45737535 GAGCTTCCC-A-ATATGGCTCGCTT
1 GAGCTTCCCGATATATGGCTCTCCG
* *
45737558 GAACTTCCCGATATATGGCTATCCG
1 GAGCTTCCCGATATATGGCTCTCCG
45737583 GAGCTTCC
1 GAGCTTCC
45737591 TAATTAATGG
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
23 16 0.37
24 3 0.07
25 24 0.56
ACGTcount: A:0.19, C:0.30, G:0.22, T:0.30
Consensus pattern (25 bp):
GAGCTTCCCGATATATGGCTCTCCG
Found at i:45737600 original size:25 final size:24
Alignment explanation
Indices: 45737522--45737602 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 24
45737512 GCTTCCTGAT
45737522 TAATGGCTCTCCGGAGCTTCCCAA
1 TAATGGCTCTCCGGAGCTTCCCAA
* ** * *
45737546 T-ATGGCTCGCTTGAACTTCCCGA
1 TAATGGCTCTCCGGAGCTTCCCAA
* *
45737569 TATATGGCTATCCGGAGCTTCCTAA
1 TA-ATGGCTCTCCGGAGCTTCCCAA
45737594 TTAATGGCT
1 -TAATGGCT
45737603 TTTCAGAGCT
Statistics
Matches: 42, Mismatches: 12, Indels: 5
0.71 0.20 0.08
Matches are distributed among these distances:
23 18 0.43
24 1 0.02
25 21 0.50
26 2 0.05
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (24 bp):
TAATGGCTCTCCGGAGCTTCCCAA
Found at i:45774308 original size:320 final size:320
Alignment explanation
Indices: 45773726--45774344 Score: 1193
Period size: 320 Copynumber: 1.9 Consensus size: 320
45773716 TACATTAGTC
45773726 AATTAGATTAATTTGAGCCTCTCCCTGACTGGTCAACAGAAAGTGAAACCTTCACCAGATTTTCT
1 AATTAGATTAATTTGAGCCTCTCCCTGACTGGTCAACAGAAAGTGAAACCTTCACCAGATTTTCT
45773791 TTTACCTACCCTGGATTTGGTAGGGAAATCGGGGGGTCTGAGAGTATATTTATGGGAAGGTAACA
66 TTTACCTACCCTGGATTTGGTAGGGAAATCGGGGGGTCTGAGAGTATATTTATGGGAAGGTAACA
* *
45773856 TTTCAGATGGTTTTTCTTTCTACTTAATGTTTAGGTTTTTCTTTCTAACCTCAACACTTGCTTTT
131 TTTCAGATGGTTTTTCTTTCTACTTAATGTTTAGGTTCTTCTTTCTAACCTCAACACTTACTTTT
45773921 TATTCTTCATTAATATCAGACTAAGATCTCGTCTAATGCATAGATGATTCTGTCTTCTAGTAAGT
196 TATTCTTCATTAATATCAGACTAAGATCTCGTCTAATGCATAGATGATTCTGTCTTCTAGTAAGT
45773986 CTTCAAGCTTTGCACATTACAGTTACAGAAGGGAAGGGTCTCCCTTCTAGTAAGTCTTCA
261 CTTCAAGCTTTGCACATTACAGTTACAGAAGGGAAGGGTCTCCCTTCTAGTAAGTCTTCA
*
45774046 AATTAGATTAATTTGAGCCTCTCTCTGACTGGTCAACAGAAAGTGAAACCTTCACCAGATTTTCT
1 AATTAGATTAATTTGAGCCTCTCCCTGACTGGTCAACAGAAAGTGAAACCTTCACCAGATTTTCT
*
45774111 TTTACCTACCCTGGATTTGGTAGGGAAATCGGGGGGTCTGAGAGTATATTTATGGGAAGGTACCA
66 TTTACCTACCCTGGATTTGGTAGGGAAATCGGGGGGTCTGAGAGTATATTTATGGGAAGGTAACA
45774176 TTTCAGATGGTTTTTCTTTCTACTTAATGTTTAGGTTCTTCTTTCTAACCTCAACACTTACTTTT
131 TTTCAGATGGTTTTTCTTTCTACTTAATGTTTAGGTTCTTCTTTCTAACCTCAACACTTACTTTT
*
45774241 TATTCTTCATTAATATTAGACTAAGATCTCGTCTAATGCATAGATGATTCTGTCTTCTAGTAAGT
196 TATTCTTCATTAATATCAGACTAAGATCTCGTCTAATGCATAGATGATTCTGTCTTCTAGTAAGT
45774306 CTTCAAGCTTTGCACATTACAGTTACAGAAGGGAAGGGT
261 CTTCAAGCTTTGCACATTACAGTTACAGAAGGGAAGGGT
45774345 GTCACAAGAC
Statistics
Matches: 294, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
320 294 1.00
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (320 bp):
AATTAGATTAATTTGAGCCTCTCCCTGACTGGTCAACAGAAAGTGAAACCTTCACCAGATTTTCT
TTTACCTACCCTGGATTTGGTAGGGAAATCGGGGGGTCTGAGAGTATATTTATGGGAAGGTAACA
TTTCAGATGGTTTTTCTTTCTACTTAATGTTTAGGTTCTTCTTTCTAACCTCAACACTTACTTTT
TATTCTTCATTAATATCAGACTAAGATCTCGTCTAATGCATAGATGATTCTGTCTTCTAGTAAGT
CTTCAAGCTTTGCACATTACAGTTACAGAAGGGAAGGGTCTCCCTTCTAGTAAGTCTTCA
Found at i:45774912 original size:25 final size:25
Alignment explanation
Indices: 45774888--45775056 Score: 162
Period size: 25 Copynumber: 6.8 Consensus size: 25
45774878 ACACATAATT
*
45774888 CTCTAGAAAGCCTTTGTGGCGAATT
1 CTCTAGAAAGCCTTTGTGGCGAATC
* *
45774913 CTCTAGAAAGCCATTGTGGTGAATC
1 CTCTAGAAAGCCTTTGTGGCGAATC
* * *
45774938 CTCTCGAAAGCCTTTTTGGAGAATC
1 CTCTAGAAAGCCTTTGTGGCGAATC
* * *
45774963 CTCT-GAAAATCCTTTATGGAGAATC
1 CTCTAG-AAAGCCTTTGTGGCGAATC
* * * *
45774988 CTCTAAAAAGCATTTTTGGCAAATC
1 CTCTAGAAAGCCTTTGTGGCGAATC
* * *
45775013 CTCTGGAAAGCC-TTATGGTGAATC
1 CTCTAGAAAGCCTTTGTGGCGAATC
*
45775037 CTCTGGAAAGCCTTTGTGGC
1 CTCTAGAAAGCCTTTGTGGC
45775057 ATGTTATCTG
Statistics
Matches: 118, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
24 22 0.19
25 96 0.81
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (25 bp):
CTCTAGAAAGCCTTTGTGGCGAATC
Found at i:45774987 original size:50 final size:49
Alignment explanation
Indices: 45774888--45775051 Score: 179
Period size: 50 Copynumber: 3.3 Consensus size: 49
45774878 ACACATAATT
* * * *
45774888 CTCTAGAAAGCCTTTGTGGCGAATTCTCT-AGAAAGCCATTGTGGTGAATC
1 CTCTAGAAAGCCTTTTTGGAGAATCCTCTGA-AAAGCC-TTATGGTGAATC
* * *
45774938 CTCTCGAAAGCCTTTTTGGAGAATCCTCTGAAAATCCTTTATGGAGAATC
1 CTCTAGAAAGCCTTTTTGGAGAATCCTCTGAAAAGCC-TTATGGTGAATC
* * *
45774988 CTCTAAAAAGCATTTTTGGCA-AATCCTCTGGAAAGCCTTATGGTGAATC
1 CTCTAGAAAGCCTTTTTGG-AGAATCCTCTGAAAAGCCTTATGGTGAATC
*
45775037 CTCTGGAAAGCCTTT
1 CTCTAGAAAGCCTTT
45775052 GTGGCATGTT
Statistics
Matches: 95, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
49 23 0.24
50 70 0.74
51 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (49 bp):
CTCTAGAAAGCCTTTTTGGAGAATCCTCTGAAAAGCCTTATGGTGAATC
Found at i:45776101 original size:12 final size:12
Alignment explanation
Indices: 45776086--45776114 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
45776076 TGGAAAGGAA
45776086 ATTAATGATTTC
1 ATTAATGATTTC
45776098 ATTAATGATTTC
1 ATTAATGATTTC
45776110 ATTAA
1 ATTAA
45776115 AAAGTAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (12 bp):
ATTAATGATTTC
Found at i:45776130 original size:22 final size:22
Alignment explanation
Indices: 45776104--45776152 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
45776094 TTTCATTAAT
*
45776104 GATTTCATTAAAAAGTAAATGA
1 GATTTCATGAAAAAGTAAATGA
* *
45776126 GATTTCGTGAAAGAGTAAATGA
1 GATTTCATGAAAAAGTAAATGA
45776148 GATTT
1 GATTT
45776153 AAATACAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.43, C:0.04, G:0.20, T:0.33
Consensus pattern (22 bp):
GATTTCATGAAAAAGTAAATGA
Found at i:45778612 original size:51 final size:51
Alignment explanation
Indices: 45778532--45778681 Score: 236
Period size: 51 Copynumber: 3.0 Consensus size: 51
45778522 TTATGAGATT
45778532 GAAATCTTTAAATGTGGTCATCAACTAAGTGAGGAAAGTAGAAGGAAGTTA
1 GAAATCTTTAAATGTGGTCATCAACTAAGTGAGGAAAGTAGAAGGAAGTTA
* *
45778583 GAATTCTTTAAATGTGATCATCAACTAAGTGAGGAAAGT---A-GAAGTTA
1 GAAATCTTTAAATGTGGTCATCAACTAAGTGAGGAAAGTAGAAGGAAGTTA
* *
45778630 GAAATCTTTAAATGTGGTCATCAAGTAAGTGAGGAAAGTAGAAGGAATTTA
1 GAAATCTTTAAATGTGGTCATCAACTAAGTGAGGAAAGTAGAAGGAAGTTA
45778681 G
1 G
45778682 GAGAACATTG
Statistics
Matches: 89, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
47 43 0.48
48 1 0.01
50 1 0.01
51 44 0.49
ACGTcount: A:0.41, C:0.07, G:0.25, T:0.27
Consensus pattern (51 bp):
GAAATCTTTAAATGTGGTCATCAACTAAGTGAGGAAAGTAGAAGGAAGTTA
Found at i:45778645 original size:47 final size:47
Alignment explanation
Indices: 45778532--45778673 Score: 221
Period size: 47 Copynumber: 2.9 Consensus size: 47
45778522 TTATGAGATT
45778532 GAAATCTTTAAATGTGGTCATCAACTAAGTGAGGAAAGTAGAAGGAAGTTA
1 GAAATCTTTAAATGTGGTCATCAACTAAGTGAGGAAAGT---A-GAAGTTA
* *
45778583 GAATTCTTTAAATGTGATCATCAACTAAGTGAGGAAAGTAGAAGTTA
1 GAAATCTTTAAATGTGGTCATCAACTAAGTGAGGAAAGTAGAAGTTA
*
45778630 GAAATCTTTAAATGTGGTCATCAAGTAAGTGAGGAAAGTAGAAG
1 GAAATCTTTAAATGTGGTCATCAACTAAGTGAGGAAAGTAGAAG
45778674 GAATTTAGGA
Statistics
Matches: 86, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
47 48 0.56
48 1 0.01
51 37 0.43
ACGTcount: A:0.41, C:0.08, G:0.25, T:0.27
Consensus pattern (47 bp):
GAAATCTTTAAATGTGGTCATCAACTAAGTGAGGAAAGTAGAAGTTA
Found at i:45786448 original size:42 final size:42
Alignment explanation
Indices: 45786389--45786471 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
45786379 GAACACGCCA
**
45786389 ACAAAAACTCATGAGAGCTGAACAAAAGCTCGTGAGAGCTAG
1 ACAAAAACTCATGAGAGCTGAACAAAAGCTCGAAAGAGCTAG
* *
45786431 ACAAAAGCTCGTGAGAGCTGAACAAAAGCTCGAAAGAGCTA
1 ACAAAAACTCATGAGAGCTGAACAAAAGCTCGAAAGAGCTA
45786472 ATTTACCCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.43, C:0.19, G:0.24, T:0.13
Consensus pattern (42 bp):
ACAAAAACTCATGAGAGCTGAACAAAAGCTCGAAAGAGCTAG
Found at i:45786470 original size:21 final size:21
Alignment explanation
Indices: 45786388--45786462 Score: 116
Period size: 21 Copynumber: 3.6 Consensus size: 21
45786378 CGAACACGCC
* *
45786388 AACAAAAACTCATGAGAGCTG
1 AACAAAAGCTCGTGAGAGCTG
45786409 AACAAAAGCTCGTGAGAGCT-
1 AACAAAAGCTCGTGAGAGCTG
45786429 AGACAAAAGCTCGTGAGAGCTG
1 A-ACAAAAGCTCGTGAGAGCTG
45786451 AACAAAAGCTCG
1 AACAAAAGCTCG
45786463 AAAGAGCTAA
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
20 1 0.02
21 48 0.96
22 1 0.02
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.13
Consensus pattern (21 bp):
AACAAAAGCTCGTGAGAGCTG
Found at i:45787080 original size:18 final size:18
Alignment explanation
Indices: 45787057--45787095 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
45787047 GACATTTTCA
45787057 CAATTCAATCCTAAAAAT
1 CAATTCAATCCTAAAAAT
45787075 CAATTCAATCCTAAAAAT
1 CAATTCAATCCTAAAAAT
45787093 CAA
1 CAA
45787096 AATCTAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (18 bp):
CAATTCAATCCTAAAAAT
Found at i:45788392 original size:39 final size:39
Alignment explanation
Indices: 45788292--45788447 Score: 188
Period size: 39 Copynumber: 3.9 Consensus size: 39
45788282 TAGATCAAAC
* *
45788292 ACACCAGATAGAAGCTCATAAGAGCTGATCCAACCGAAAT
1 ACACCA-ATAGAAGCTCATAAGAGCTGATCCACCCGAAGT
** *
45788332 ATGCCAAATAGAAGCTCATAAGAGCTGGTCCACCCGAAGT
1 ACACC-AATAGAAGCTCATAAGAGCTGATCCACCCGAAGT
* *
45788372 ACACCAATAGAAGCTCATAAGAGCTGGTCCACCCGAAGC
1 ACACCAATAGAAGCTCATAAGAGCTGATCCACCCGAAGT
* * *
45788411 ACCCCAACAAAAGCTCATAAGAG-TCGATCCACCCGAA
1 ACACCAATAGAAGCTCATAAGAGCT-GATCCACCCGAA
45788448 TCATGCCAAA
Statistics
Matches: 102, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
38 1 0.01
39 64 0.63
40 36 0.35
41 1 0.01
ACGTcount: A:0.38, C:0.29, G:0.19, T:0.14
Consensus pattern (39 bp):
ACACCAATAGAAGCTCATAAGAGCTGATCCACCCGAAGT
Found at i:45788930 original size:21 final size:19
Alignment explanation
Indices: 45788906--45788953 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 19
45788896 CCATTATGTT
45788906 TTCTTATATTTTAACCTTTTA
1 TTCTTATATTTTAA--TTTTA
*
45788927 TTCTTTTATTTTAATTTTA
1 TTCTTATATTTTAATTTTA
45788946 TTACTTAT
1 TT-CTTAT
45788954 TTTAATTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 7 0.29
20 4 0.17
21 13 0.54
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.67
Consensus pattern (19 bp):
TTCTTATATTTTAATTTTA
Found at i:45794137 original size:60 final size:61
Alignment explanation
Indices: 45794073--45794191 Score: 222
Period size: 60 Copynumber: 2.0 Consensus size: 61
45794063 CTTTTACATT
*
45794073 AAAATATATTCTCTTATTGTTGAAATTATTTTTT-CATCCCGAAACTGATTTCTGTTTGTA
1 AAAATATATTCTCTTATTGTTGAAATTATTTTTTGCATCCCGAAACTGATTTCTATTTGTA
45794133 AAAATATATTCTCTTATTGTTGAAATTATTTTTTGCATCCCGAAACTGATTTCTATTTG
1 AAAATATATTCTCTTATTGTTGAAATTATTTTTTGCATCCCGAAACTGATTTCTATTTG
45794192 ACTCGTTTCT
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
60 34 0.60
61 23 0.40
ACGTcount: A:0.29, C:0.13, G:0.10, T:0.48
Consensus pattern (61 bp):
AAAATATATTCTCTTATTGTTGAAATTATTTTTTGCATCCCGAAACTGATTTCTATTTGTA
Found at i:45795778 original size:41 final size:41
Alignment explanation
Indices: 45795732--45795811 Score: 151
Period size: 41 Copynumber: 2.0 Consensus size: 41
45795722 TTTTGAACTG
45795732 TGGCATTAGACTTAGAATTTGAGTTTTGTTTTTATATTGCA
1 TGGCATTAGACTTAGAATTTGAGTTTTGTTTTTATATTGCA
*
45795773 TGGCATTAGACTTAGAATTTGGGTTTTGTTTTTATATTG
1 TGGCATTAGACTTAGAATTTGAGTTTTGTTTTTATATTG
45795812 AACCTCAGTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.23, C:0.06, G:0.21, T:0.50
Consensus pattern (41 bp):
TGGCATTAGACTTAGAATTTGAGTTTTGTTTTTATATTGCA
Found at i:45801537 original size:18 final size:18
Alignment explanation
Indices: 45801496--45801537 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
45801486 AAAGTACACC
* *
45801496 AAATAT-TTTTTTATAAT
1 AAATATATTTTTAAAAAT
45801513 AAA-ATATTTTTAAAAAT
1 AAATATATTTTTAAAAAT
45801530 AAATATAT
1 AAATATAT
45801538 AACAAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 2 0.10
17 15 0.71
18 4 0.19
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
AAATATATTTTTAAAAAT
Found at i:45801544 original size:17 final size:17
Alignment explanation
Indices: 45801524--45801559 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
45801514 AAATATTTTT
*
45801524 AAAAATAAATATATAAC
1 AAAAATAAACATATAAC
*
45801541 AAAAATAGACATATAAC
1 AAAAATAAACATATAAC
45801558 AA
1 AA
45801560 TTTTTAGCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.69, C:0.08, G:0.03, T:0.19
Consensus pattern (17 bp):
AAAAATAAACATATAAC
Found at i:45809505 original size:40 final size:40
Alignment explanation
Indices: 45809445--45809524 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
45809435 CCATTTGAGG
*
45809445 TAGTGCATGTTTATCCTCATGAAGTTATAGAAGTTAATGA
1 TAGTGCATGTTTATCCTCATGAAGCTATAGAAGTTAATGA
* * *
45809485 TAGTTCATGTTTATCCTCATGGAGCTGTAGAAGTTAATGA
1 TAGTGCATGTTTATCCTCATGAAGCTATAGAAGTTAATGA
45809525 CAACAAGACT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (40 bp):
TAGTGCATGTTTATCCTCATGAAGCTATAGAAGTTAATGA
Found at i:45819104 original size:24 final size:24
Alignment explanation
Indices: 45819070--45819115 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
45819060 TGTTCTTTTT
*
45819070 TAATTTCTATTTCTTATTTATTTG
1 TAATTTCTATTTATTATTTATTTG
* *
45819094 TAATTTTTATTTATTTTTTATT
1 TAATTTCTATTTATTATTTATT
45819116 CTCAAATTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (24 bp):
TAATTTCTATTTATTATTTATTTG
Found at i:45820334 original size:6 final size:6
Alignment explanation
Indices: 45820323--45820349 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
45820313 GCAAATAGAT
45820323 CATTTC CATTTC CATTTC CATTTC CAT
1 CATTTC CATTTC CATTTC CATTTC CAT
45820350 CTCAATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.33, G:0.00, T:0.48
Consensus pattern (6 bp):
CATTTC
Found at i:45820357 original size:18 final size:18
Alignment explanation
Indices: 45820323--45820357 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
45820313 GCAAATAGAT
* *
45820323 CATTTCCATTTCCATTTC
1 CATTTCCATCTCAATTTC
45820341 CATTTCCATCTCAATTT
1 CATTTCCATCTCAATTT
45820358 TTGGAAACAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.31, G:0.00, T:0.49
Consensus pattern (18 bp):
CATTTCCATCTCAATTTC
Found at i:45825014 original size:21 final size:21
Alignment explanation
Indices: 45824981--45825026 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
45824971 GAAGCATGTT
*
45824981 TTATAATTATTTTATATTTAA
1 TTATAATTATTTTAGATTTAA
* *
45825002 TTATCATTTTTTTAGATTTAA
1 TTATAATTATTTTAGATTTAA
45825023 TTAT
1 TTAT
45825027 TGCAAAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (21 bp):
TTATAATTATTTTAGATTTAA
Found at i:45831519 original size:27 final size:26
Alignment explanation
Indices: 45831463--45831520 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
45831453 GTTAACACTT
* *
45831463 AAAAACTAAAGAATTTAAAGTTCATC
1 AAAAACTAAAGAAATTAAAGTGCATC
* * *
45831489 AAAACACTAAATAAATTAATGTGCATG
1 AAAA-ACTAAAGAAATTAAAGTGCATC
45831516 AAAAA
1 AAAAA
45831521 TGTATGAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.57, C:0.10, G:0.09, T:0.24
Consensus pattern (26 bp):
AAAAACTAAAGAAATTAAAGTGCATC
Found at i:45833074 original size:24 final size:24
Alignment explanation
Indices: 45833047--45833098 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
45833037 TTAGTAAGTC
*
45833047 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
45833071 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
45833095 AAAT
1 AAAT
45833099 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:45835043 original size:24 final size:24
Alignment explanation
Indices: 45835016--45835067 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
45835006 TTAGTAAGTC
*
45835016 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
45835040 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
45835064 AAAT
1 AAAT
45835068 CTTTTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:45836276 original size:13 final size:13
Alignment explanation
Indices: 45836240--45836277 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
45836230 TTATATTTTT
45836240 TAAAAACATT-ATA
1 TAAAAA-ATTAATA
45836253 TAAAAAA-TAATA
1 TAAAAAATTAATA
45836265 TAAAAAATTAATA
1 TAAAAAATTAATA
45836278 CGGCCCGGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 1 0.04
12 11 0.48
13 11 0.48
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (13 bp):
TAAAAAATTAATA
Found at i:45839102 original size:26 final size:26
Alignment explanation
Indices: 45839073--45839227 Score: 125
Period size: 26 Copynumber: 6.0 Consensus size: 26
45839063 TATACACCGG
**
45839073 CTCAAAGCCTGCTAAATAACCACAAA
1 CTCAAAGCCTGCTAAATAACCACTGA
* * * * *
45839099 CTCAAGGTCTGCTAAACAAACACTGG
1 CTCAAAGCCTGCTAAATAACCACTGA
* *
45839125 CTCAAAGCCTGCTAAATAAACA-TCGT
1 CTCAAAGCCTGCTAAATAACCACT-GA
* ** *
45839151 CTCAATGTTTGCTAAATAACCA-TTA
1 CTCAAAGCCTGCTAAATAACCACTGA
* * *
45839176 GCTCGAGGCCTGCTAAATAATCACTGA
1 -CTCAAAGCCTGCTAAATAACCACTGA
*
45839203 CTTAAAGCCTGCTAAATAACCACTG
1 CTCAAAGCCTGCTAAATAACCACTG
45839228 GTTCAAGGTT
Statistics
Matches: 99, Mismatches: 27, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
25 1 0.01
26 96 0.97
27 2 0.02
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.23
Consensus pattern (26 bp):
CTCAAAGCCTGCTAAATAACCACTGA
Found at i:45840913 original size:12 final size:12
Alignment explanation
Indices: 45840896--45840920 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45840886 TTTTATTTTC
45840896 AAGCATGAACTA
1 AAGCATGAACTA
45840908 AAGCATGAACTA
1 AAGCATGAACTA
45840920 A
1 A
45840921 TTTTCTAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (12 bp):
AAGCATGAACTA
Found at i:45841711 original size:9 final size:10
Alignment explanation
Indices: 45841680--45841739 Score: 65
Period size: 9 Copynumber: 6.4 Consensus size: 10
45841670 TTAATTATTC
45841680 TTTTTAAAT-
1 TTTTTAAATA
**
45841689 TTTAAAAATA
1 TTTTTAAATA
45841699 TTTTTAAAT-
1 TTTTTAAATA
*
45841708 TTTTTATATA
1 TTTTTAAATA
45841718 TTTTT-AATA
1 TTTTTAAATA
45841727 TTTTTAAAT-
1 TTTTTAAATA
45841736 TTTT
1 TTTT
45841740 CAAAATAATT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
9 27 0.64
10 15 0.36
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
TTTTTAAATA
Found at i:45841732 original size:19 final size:19
Alignment explanation
Indices: 45841680--45841731 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
45841670 TTAATTATTC
** *
45841680 TTTTTAAATTTTAAAAATA
1 TTTTTAAATTTTTTATATA
45841699 TTTTTAAATTTTTTATATA
1 TTTTTAAATTTTTTATATA
45841718 TTTTTAATATTTTT
1 TTTTTAA-ATTTTT
45841732 AAATTTTTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 23 0.79
20 6 0.21
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTTTAAATTTTTTATATA
Found at i:45841786 original size:41 final size:43
Alignment explanation
Indices: 45841680--45841792 Score: 117
Period size: 41 Copynumber: 2.6 Consensus size: 43
45841670 TTAATTATTC
45841680 TTTTTAAATTTTAAAAATATTTTTAAATT-TTTTATATATTTTTAATA
1 TTTTTAAATTTTAAAAA-A---TT-AATTATTTTATATATTTTTAATA
** *
45841727 TTTTTAAATTTTTCAAAA-TAATTATTTTATA-ATTATTTGA-A
1 TTTTTAAATTTTAAAAAATTAATTATTTTATATATT-TTTAATA
45841768 TTTTTAAATTTTAAAAAATTAATTA
1 TTTTTAAATTTTAAAAAATTAATTA
45841793 AATGTTTATG
Statistics
Matches: 58, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
41 24 0.41
42 18 0.31
46 1 0.02
47 15 0.26
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.58
Consensus pattern (43 bp):
TTTTTAAATTTTAAAAAATTAATTATTTTATATATTTTTAATA
Found at i:45841921 original size:22 final size:23
Alignment explanation
Indices: 45841888--45841931 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
45841878 TGATTTGACA
45841888 AAAAAACAT-AAATTAAAATATT
1 AAAAAACATAAAATTAAAATATT
*
45841910 AAAAAAGATAAAAATTAAAATA
1 AAAAAACAT-AAAATTAAAATA
45841932 AATAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
24 11 0.58
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (23 bp):
AAAAAACATAAAATTAAAATATT
Found at i:45841936 original size:16 final size:17
Alignment explanation
Indices: 45841895--45841936 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
45841885 ACAAAAAAAC
45841895 ATAAATTAAAATATTAAA
1 ATAAA-TAAAATATTAAA
45841913 A-AAGATAAAA-ATTAAA
1 ATAA-ATAAAATATTAAA
45841929 ATAAATAA
1 ATAAATAA
45841937 TTAAAATAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 11 0.50
17 9 0.41
18 2 0.09
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (17 bp):
ATAAATAAAATATTAAA
Found at i:45841950 original size:12 final size:12
Alignment explanation
Indices: 45841917--45841950 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
45841907 ATTAAAAAAG
45841917 ATAAAAATTAAA
1 ATAAAAATTAAA
45841929 ATAAATAATTAAA
1 ATAAA-AATTAAA
*
45841942 ATAACAATT
1 ATAAAAATT
45841951 TTTTATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (12 bp):
ATAAAAATTAAA
Found at i:45842306 original size:20 final size:18
Alignment explanation
Indices: 45842273--45842313 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 18
45842263 AATTAAATAA
*
45842273 ATTTTAAATATAAAACAT
1 ATTTTAAATATAAAAAAT
45842291 ATTTATAAATTATAAAAAAT
1 ATTT-TAAA-TATAAAAAAT
45842311 ATT
1 ATT
45842314 CAAAAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
19 4 0.20
20 12 0.60
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (18 bp):
ATTTTAAATATAAAAAAT
Found at i:45842320 original size:20 final size:20
Alignment explanation
Indices: 45842281--45842320 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
45842271 AAATTTTAAA
* * *
45842281 TATAAAACATATTTATAAAT
1 TATAAAAAATATTCAAAAAT
45842301 TATAAAAAATATTCAAAAAT
1 TATAAAAAATATTCAAAAAT
45842321 AAACTTTATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (20 bp):
TATAAAAAATATTCAAAAAT
Found at i:45842878 original size:11 final size:11
Alignment explanation
Indices: 45842852--45842909 Score: 62
Period size: 11 Copynumber: 5.2 Consensus size: 11
45842842 AACTAATCCT
*
45842852 CTCTCAAATCTC
1 CTCTC-AATTTC
45842864 CTCTCAATTTC
1 CTCTCAATTTC
*
45842875 CTCTAAATTTC
1 CTCTCAATTTC
*
45842886 CTCTCAATTTG
1 CTCTCAATTTC
* *
45842897 CTTTCAAATTC
1 CTCTCAATTTC
45842908 CT
1 CT
45842910 TCCAAATTTC
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
11 34 0.87
12 5 0.13
ACGTcount: A:0.22, C:0.33, G:0.02, T:0.43
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:45842887 original size:22 final size:23
Alignment explanation
Indices: 45842852--45842928 Score: 81
Period size: 22 Copynumber: 3.4 Consensus size: 23
45842842 AACTAATCCT
45842852 CTCTCAAATCTCCTCTCAATTTC
1 CTCTCAAATCTCCTCTCAATTTC
* *
45842875 CTCT-AAATTTCCTCTCAATTTG
1 CTCTCAAATCTCCTCTCAATTTC
*
45842897 CTTTCAAAT-TCCT-TCCAAATTT-
1 CTCTCAAATCTCCTCT-C-AATTTC
45842919 CTCTCAAATC
1 CTCTCAAATC
45842929 CATATTTAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
21 1 0.02
22 32 0.70
23 13 0.28
ACGTcount: A:0.25, C:0.32, G:0.01, T:0.42
Consensus pattern (23 bp):
CTCTCAAATCTCCTCTCAATTTC
Found at i:45842926 original size:11 final size:11
Alignment explanation
Indices: 45842851--45842927 Score: 54
Period size: 11 Copynumber: 6.9 Consensus size: 11
45842841 AAACTAATCC
45842851 TCTCTCAAATCT
1 TCTCTCAAAT-T
*
45842863 CCTCTC-AATT
1 TCTCTCAAATT
45842873 TC-CTCTAAATT
1 TCTCTC-AAATT
45842884 TCCTCTC-AATT
1 T-CTCTCAAATT
*
45842895 TGCTTTCAAATT
1 T-CTCTCAAATT
*
45842907 CCT-TCCAAATT
1 TCTCT-CAAATT
45842918 TCTCTCAAAT
1 TCTCTCAAAT
45842928 CCATATTTAA
Statistics
Matches: 52, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
9 3 0.06
10 3 0.06
11 32 0.62
12 11 0.21
13 3 0.06
ACGTcount: A:0.25, C:0.31, G:0.01, T:0.43
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:45842944 original size:51 final size:51
Alignment explanation
Indices: 45842887--45842986 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
45842877 CTAAATTTCC
*
45842887 TCTCAATTTGCTTTCAAATTCCT-TCCAAATTTCTCTCAAATCCATATTTAA
1 TCTCAATTTGCTCTCAAATTCCTCT-CAAATTTCTCTCAAATCCATATTTAA
* * * *
45842938 TCTCAATTTGCTCTCAAGTTCCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAATTTGCTCTCAAATTCCTCTCAAATTTCTCTCAAATCCATATTT
45842987 TTAAATAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.03, T:0.45
Consensus pattern (51 bp):
TCTCAATTTGCTCTCAAATTCCTCTCAAATTTCTCTCAAATCCATATTTAA
Found at i:45844139 original size:7 final size:7
Alignment explanation
Indices: 45844127--45844152 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
45844117 TAGTCGATTG
45844127 GTATTTA
1 GTATTTA
45844134 GTATTTA
1 GTATTTA
45844141 GTATTTA
1 GTATTTA
45844148 GTATT
1 GTATT
45844153 ATGTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:45844830 original size:18 final size:18
Alignment explanation
Indices: 45844803--45844842 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
45844793 CAGGTGCGTT
* *
45844803 TCCTAGCCCTTTTATGTA
1 TCCTAACCCTTATATGTA
*
45844821 TCCTAACCCTTATATGTT
1 TCCTAACCCTTATATGTA
45844839 TCCT
1 TCCT
45844843 TTTCCGAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.30, G:0.07, T:0.45
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:45845109 original size:21 final size:21
Alignment explanation
Indices: 45845083--45845129 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
45845073 CAACTCCGAC
*
45845083 AACCAG-ATGCCCTACCGGAAG
1 AACCAGAAT-CCCCACCGGAAG
*
45845104 AACCAGAATCCCCGCCGGAAG
1 AACCAGAATCCCCACCGGAAG
45845125 AACCA
1 AACCA
45845130 CAACCTTCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.36, C:0.36, G:0.21, T:0.06
Consensus pattern (21 bp):
AACCAGAATCCCCACCGGAAG
Found at i:45845423 original size:27 final size:27
Alignment explanation
Indices: 45845391--45845444 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
45845381 ACAAACCTTA
*
45845391 AACCCTTAACCTAAAAATCCTAACCCT
1 AACCCTTAACCTAAAAACCCTAACCCT
*
45845418 AACCCTTAACTTAAAAACCCTAACCCT
1 AACCCTTAACCTAAAAACCCTAACCCT
45845445 TAAGTTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.41, C:0.37, G:0.00, T:0.22
Consensus pattern (27 bp):
AACCCTTAACCTAAAAACCCTAACCCT
Found at i:45845464 original size:22 final size:21
Alignment explanation
Indices: 45845412--45845945 Score: 692
Period size: 21 Copynumber: 25.0 Consensus size: 21
45845402 TAAAAATCCT
45845412 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
45845433 AACCCTAACCCTTAAGTTAAA
1 AACCCTAACCCTTAACTTAAA
*
45845454 AACCCTAAACCATTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
* *
45845476 AACCATAAACCCTTAACCTAAA
1 AACCCT-AACCCTTAACTTAAA
45845498 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
45845519 AACCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
*
45845541 ACCCCTAACCCATTAACTTAAA
1 AACCCTAACCC-TTAACTTAAA
*
45845563 AACCCTAACCTTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
* *
45845584 AACCCTAAACCCTTAAATTTAA
1 AACCCT-AACCCTTAACTTAAA
45845606 AACCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
45845628 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
45845649 AACCCTAAAACCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
*
45845671 AACCCTAACTCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
45845692 AACCCTAAACCTTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
* *
45845714 AACTCTAACCCTTAACTTTAA
1 AACCCTAACCCTTAACTTAAA
*
45845735 AACCCTAAACCCTTAACTTTAA
1 AACCCT-AACCCTTAACTTAAA
* *
45845757 AACCGTAACCCTTAACTTTAA
1 AACCCTAACCCTTAACTTAAA
* * *
45845778 AATCGTAACCCTTAA-ATAAA
1 AACCCTAACCCTTAACTTAAA
*
45845798 AACCCTAACACTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
* *
45845819 AACTCTAACCCTTAACTTTAA
1 AACCCTAACCCTTAACTTAAA
45845840 AACCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
** *
45845862 AACTGTAACCCTTAACTTTAA
1 AACCCTAACCCTTAACTTAAA
* * * *
45845883 AATCATAACCCTTAAATAAAA
1 AACCCTAACCCTTAACTTAAA
* *
45845904 AACTCTAACACTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
45845925 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
45845946 TATAATTTGA
Statistics
Matches: 449, Mismatches: 55, Indels: 18
0.86 0.11 0.03
Matches are distributed among these distances:
20 15 0.03
21 244 0.54
22 190 0.42
ACGTcount: A:0.45, C:0.29, G:0.01, T:0.26
Consensus pattern (21 bp):
AACCCTAACCCTTAACTTAAA
Found at i:45845513 original size:43 final size:42
Alignment explanation
Indices: 45845412--45845945 Score: 692
Period size: 43 Copynumber: 12.5 Consensus size: 42
45845402 TAAAAATCCT
*
45845412 AACCCTAACCCTTAACTTAAAAACCCTAACCCTTAAGTTAAA
1 AACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
* * *
45845454 AACCCTAAACCATTAACTTAAAAACCATAAACCCTTAACCTAAA
1 AACCCT-AACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAA
45845498 AACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAA
* *
45845541 ACCCCTAACCCATTAACTTAAAAACCCTAACCTTTAACTTAAA
1 AACCCTAACCC-TTAACTTAAAAACCCTAACCCTTAACTTAAA
* *
45845584 AACCCTAAACCCTTAAATTTAAAACCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAA
*
45845628 AACCCTAACCCTTAACTTAAAAACCCTAAAACCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAA
* *
45845671 AACCCTAACTCTTAACTTAAAAACCCTAAACCTTTAACTTAAA
1 AACCCTAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAA
* * *
45845714 AACTCTAACCCTTAACTTTAAAACCCTAAACCCTTAACTTTAA
1 AACCCTAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAA
* * * * *
45845757 AACCGTAACCCTTAACTTTAAAATCGTAACCCTTAA-ATAAA
1 AACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
* * *
45845798 AACCCTAACACTTAACTTAAAAACTCTAACCCTTAACTTTAA
1 AACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
** *
45845840 AACCCTAAACCCTTAACTTAAAAACTGTAACCCTTAACTTTAA
1 AACCCT-AACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
* * * * * *
45845883 AATCATAACCCTTAAATAAAAAACTCTAACACTTAACTTAAA
1 AACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
45845925 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
45845946 TATAATTTGA
Statistics
Matches: 434, Mismatches: 51, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
41 33 0.08
42 72 0.17
43 269 0.62
44 60 0.14
ACGTcount: A:0.45, C:0.29, G:0.01, T:0.26
Consensus pattern (42 bp):
AACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
Found at i:45848762 original size:10 final size:10
Alignment explanation
Indices: 45848747--45848780 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
45848737 AAATACAATA
45848747 ATAATACTAT
1 ATAATACTAT
45848757 ATAATACTAT
1 ATAATACTAT
45848767 ATAATA-TA-
1 ATAATACTAT
45848775 ATAATA
1 ATAATA
45848781 AACTAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 6 0.25
9 2 0.08
10 16 0.67
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (10 bp):
ATAATACTAT
Found at i:45850462 original size:50 final size:50
Alignment explanation
Indices: 45850405--45850777 Score: 280
Period size: 50 Copynumber: 7.5 Consensus size: 50
45850395 CGGGGAAACC
* *
45850405 AGATCCGCGGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTA
1 AGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTA
* * * ** * * * * * ***
45850455 AGATCCGCCGTTGTGGCTTCAATCT-TTTTAGTTGCGCTGTCGGGGAAACC
1 AGATCTGCCGTTGTGACTTCAATCTGCTCCA-CTGCACCGCCAGGGAAGTA
*
45850505 AGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCCGGGAAGTA
1 AGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTA
** * ** ** * * *** * ***
45850555 AGATCCACCGTTGTGGCTTCAATCTTTTTAATTGCGCTATCGGGGAAACC
1 AGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTA
* *
45850605 AGATCTACAGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTA
1 AGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTA
* * ** ** * * * * * ***
45850655 AGATCTGCCGTTATGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACC
1 AGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTA
*
45850705 AGATCTTCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTA
1 AGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTA
*
45850755 AGATCTGCCGTTGTGGCTTCAAT
1 AGATCTGCCGTTGTGACTTCAAT
45850778 ATTTTAAATT
Statistics
Matches: 230, Mismatches: 91, Indels: 4
0.71 0.28 0.01
Matches are distributed among these distances:
49 2 0.01
50 226 0.98
51 2 0.01
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.28
Consensus pattern (50 bp):
AGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTA
Done.