Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 303 of 425
Found at i:94156341 original size:3 final size:3
Alignment explanation
Indices: 94156333--94156376 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
94156323 TGAATAAATC
94156333 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
94156377 GCCAAAGCTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:94157665 original size:17 final size:17
Alignment explanation
Indices: 94157614--94157677 Score: 51
Period size: 17 Copynumber: 3.8 Consensus size: 17
94157604 ATAATATATA
* *
94157614 TTATA-ATTTAATAATA
1 TTATATATTTTATAATT
* *
94157630 TTATAT-TTTTCGTACTT
1 TTATATATTTT-ATAATT
94157647 TTATATATTTTATAATT
1 TTATATATTTTATAATT
*
94157664 TTTTATAATTTTAT
1 TTATAT-ATTTTAT
94157678 GTTTTTTTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
16 8 0.22
17 18 0.49
18 11 0.30
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (17 bp):
TTATATATTTTATAATT
Found at i:94157667 original size:19 final size:19
Alignment explanation
Indices: 94157645--94157695 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
94157635 TTTTTCGTAC
94157645 TTTTATATATTTTATAATT
1 TTTTATATATTTTATAATT
**
94157664 TTTTATA-ATTTTATGTTT
1 TTTTATATATTTTATAATT
94157682 TTTTA-ATAATTTTA
1 TTTTATAT-ATTTTA
94157696 ATTATAAACT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 1 0.04
18 14 0.50
19 13 0.46
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (19 bp):
TTTTATATATTTTATAATT
Found at i:94157683 original size:18 final size:18
Alignment explanation
Indices: 94157645--94157695 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 18
94157635 TTTTTCGTAC
94157645 TTTTATATATTTTATAATT
1 TTTTATA-ATTTTATAATT
**
94157664 TTTTATAATTTTATGTTT
1 TTTTATAATTTTATAATT
94157682 TTTTAATAATTTTA
1 TTTT-ATAATTTTA
94157696 ATTATAAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 13 0.45
19 16 0.55
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (18 bp):
TTTTATAATTTTATAATT
Found at i:94157861 original size:31 final size:32
Alignment explanation
Indices: 94157797--94157861 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 32
94157787 ATTGACTATT
* *
94157797 AATTTTAACAATTAAAAGATTTAATTAATTAA
1 AATTTTAACAATTAAAAGATTAAATTAAGTAA
*
94157829 AATTTTAA-AGTTCAAAA-ATTAAATTAAGTAA
1 AATTTTAACAATT-AAAAGATTAAATTAAGTAA
94157860 AA
1 AA
94157862 AAATAGAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
31 17 0.59
32 12 0.41
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (32 bp):
AATTTTAACAATTAAAAGATTAAATTAAGTAA
Found at i:94159122 original size:33 final size:33
Alignment explanation
Indices: 94159080--94159146 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
94159070 TAAGGACATA
*
94159080 GTTTTTCAACCTACCTTTGTTGTCTTTAACGGT
1 GTTTTTCAACCTACCGTTGTTGTCTTTAACGGT
94159113 GTTTTTCAACCTACCGTTGTTGTCTTTAACGGT
1 GTTTTTCAACCTACCGTTGTTGTCTTTAACGGT
94159146 G
1 G
94159147 AAATTTTGAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.46
Consensus pattern (33 bp):
GTTTTTCAACCTACCGTTGTTGTCTTTAACGGT
Found at i:94159228 original size:21 final size:21
Alignment explanation
Indices: 94159203--94159244 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
94159193 AGAATATTAT
94159203 AAGAATTTGACATTTTCTATA
1 AAGAATTTGACATTTTCTATA
94159224 AAGAATTTGACATTTTCTATA
1 AAGAATTTGACATTTTCTATA
94159245 TTTGGAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.43
Consensus pattern (21 bp):
AAGAATTTGACATTTTCTATA
Found at i:94161131 original size:5 final size:5
Alignment explanation
Indices: 94161121--94161147 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
94161111 AAGATATGAT
94161121 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
94161148 ATTAAATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:94162954 original size:14 final size:15
Alignment explanation
Indices: 94162918--94162951 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
94162908 ATTTAATCCT
94162918 TTTTTATTTTCGCTA
1 TTTTTATTTTCGCTA
94162933 TTTTTATTTTCGCTA
1 TTTTTATTTTCGCTA
94162948 TTTT
1 TTTT
94162952 ATTATCAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.12, C:0.12, G:0.06, T:0.71
Consensus pattern (15 bp):
TTTTTATTTTCGCTA
Found at i:94163095 original size:15 final size:15
Alignment explanation
Indices: 94163063--94163108 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
94163053 ATTTATCTAT
94163063 TTATATTTCTACTATTA
1 TTATATTTCTA-T-TTA
94163080 TTATATTTCTATTTA
1 TTATATTTCTATTTA
*
94163095 TTATATTTTTATTT
1 TTATATTTCTATTT
94163109 CTATTTATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:94163101 original size:23 final size:23
Alignment explanation
Indices: 94163075--94163141 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 23
94163065 ATATTTCTAC
94163075 TATTATTATATTTCTATTTATTA
1 TATTATTATATTTCTATTTATTA
94163098 TATT-TT-TATTTCTATTTATATA
1 TATTATTATATTTCTATTTAT-TA
*
94163120 CTAATATTAT-TTTC-A-TTATTA
1 -TATTATTATATTTCTATTTATTA
94163141 T
1 T
94163142 TTTTCTTATA
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
20 1 0.03
21 15 0.38
22 8 0.21
23 8 0.21
24 6 0.15
25 1 0.03
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (23 bp):
TATTATTATATTTCTATTTATTA
Found at i:94163306 original size:25 final size:24
Alignment explanation
Indices: 94163245--94163306 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
94163235 TATAACGCTC
* *
94163245 ATTTCAAATTTTTATACATTATTT
1 ATTTCAAATTTTCATACATTATGT
*
94163269 ACTTT-AATATTTTCATATATTATGT
1 A-TTTCAA-ATTTTCATACATTATGT
94163294 ATTTCAAACTTTT
1 ATTTCAAA-TTTT
94163307 TTTTTACACA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
24 7 0.23
25 24 0.77
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (24 bp):
ATTTCAAATTTTCATACATTATGT
Found at i:94177867 original size:45 final size:45
Alignment explanation
Indices: 94177803--94177976 Score: 190
Period size: 45 Copynumber: 3.8 Consensus size: 45
94177793 TGTAACCCGC
94177803 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCAT
* * *
94177848 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCGTTCGC-A--T
* *** * * *
94177894 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCAGACGCTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTC-GGCGTTCGCAT
*
94177941 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
94177977 ATGCCCAAAT
Statistics
Matches: 104, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 36 0.35
46 31 0.30
47 29 0.28
48 1 0.01
49 2 0.02
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCAT
Found at i:94177977 original size:93 final size:92
Alignment explanation
Indices: 94177811--94177981 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 92
94177801 GCCCATAAGT
* * *
94177811 GAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAT
1 GAACTCGGACTCAACTCAACGAGCTCGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
94177876 GAGCTCGGATGCCTAGTTACATCTCTC
66 GAGCTCGGATGCCTAGTTACATCTCTC
*
94177903 GAACTCGGACTCAACTCAACGAGTTCAGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTC-GACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
94177968 CGAGTTCGGATGCC
65 CGAGCTCGGATGCC
94177982 CAAATATCCC
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 25 0.34
93 48 0.66
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCTC
Found at i:94180400 original size:30 final size:30
Alignment explanation
Indices: 94180356--94180444 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
94180346 CAAAGATAAC
*
94180356 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
94180385 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
94180415 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
94180445 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:94180404 original size:15 final size:14
Alignment explanation
Indices: 94180356--94180438 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
94180346 CAAAGATAAC
*
94180356 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
94180370 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
94180385 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
94180400 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
94180415 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
94180430 AAGAAACCC
1 AAGAAACCC
94180439 AAGATACGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:94180444 original size:15 final size:15
Alignment explanation
Indices: 94180367--94180444 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
94180357 AGAAAACCGA
94180367 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
94180382 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
94180396 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
94180411 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
94180427 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
94180442 ATA
1 ATA
94180445 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:94183449 original size:93 final size:93
Alignment explanation
Indices: 94183337--94183508 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
94183327 GCCCATAAGT
* *
94183337 GAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
94183402 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
94183430 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
94183495 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
94183509 CAAATATCCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:94183504 original size:46 final size:46
Alignment explanation
Indices: 94183329--94183504 Score: 219
Period size: 46 Copynumber: 3.8 Consensus size: 46
94183319 TGTAACCCGC
* * *
94183329 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * *
94183375 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCGCAT
* *** *
94183421 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
*
94183468 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
94183505 TGCCCAAATA
Statistics
Matches: 109, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
46 73 0.67
47 36 0.33
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:94183523 original size:46 final size:45
Alignment explanation
Indices: 94183380--94183523 Score: 132
Period size: 46 Copynumber: 3.1 Consensus size: 45
94183370 CGCATCCATA
* * *
94183380 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * *
94183428 --TCGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGT-GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
94183473 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
94183519 AGTGA
1 AGTGA
94183524 CATGTCACTT
Statistics
Matches: 77, Mismatches: 12, Indels: 16
0.73 0.11 0.15
Matches are distributed among these distances:
43 4 0.05
46 38 0.49
47 31 0.40
48 4 0.05
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:94187082 original size:27 final size:27
Alignment explanation
Indices: 94187043--94187244 Score: 135
Period size: 27 Copynumber: 7.4 Consensus size: 27
94187033 TTAGAATACT
* *
94187043 TTAGTTTACTAAAATTACCGAAATACCC
1 TTAGTTT-GTAAAATTACTGAAATACCC
* *
94187071 TTAGTTTGTAAAAATACTAAAATACCC
1 TTAGTTTGTAAAATTACTGAAATACCC
*
94187098 -TCGATTTGTAAAATTACTGAAATA-CC
1 TTAG-TTTGTAAAATTACTGAAATACCC
* * **
94187124 TTCGACTTGTAAAATTACCAAAATACCC
1 TTAG-TTTGTAAAATTACTGAAATACCC
* * *
94187152 CT-GATT-TACAAAGTTACAGAAATACCC
1 TTAGTTTGTA-AAA-TTACTGAAATACCC
* * *
94187179 TTGACTTTCTAAAAATTA-TAGAAATACCA
1 TT-AGTTTGT-AAAATTACT-GAAATACCC
**
94187208 TTAGTTTACAAAATTACTGAAATACCC
1 TTAGTTTGTAAAATTACTGAAATACCC
*
94187235 TTGGTTTGTA
1 TTAGTTTGTA
94187245 GATTTACCAA
Statistics
Matches: 137, Mismatches: 26, Indels: 23
0.74 0.14 0.12
Matches are distributed among these distances:
25 2 0.01
26 9 0.07
27 91 0.66
28 15 0.11
29 15 0.11
30 4 0.03
31 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (27 bp):
TTAGTTTGTAAAATTACTGAAATACCC
Found at i:94187111 original size:54 final size:54
Alignment explanation
Indices: 94187047--94187244 Score: 179
Period size: 54 Copynumber: 3.6 Consensus size: 54
94187037 AATACTTTAG
*
94187047 TTTACTAAAATTACCGAAATACCCTTAGTTTGTAAAAATACTAAAATACCCTCGA
1 TTTAC-AAAATTACTGAAATACCCTTAGTTTGTAAAAATACTAAAATACCCTCGA
** * * * *
94187102 TTTGTAAAATTACTGAAATA-CCTTCGACTTGTAAAATTACCAAAATACCC-CTGA
1 TTTACAAAATTACTGAAATACCCTTAG-TTTGTAAAAATACTAAAATACCCTC-GA
* * * * * *
94187156 TTTACAAAGTTACAGAAATACCCTTGACTTTCTAAAAATTA-TAGAAATACCAT-TA
1 TTTACAAAATTACTGAAATACCCTT-AGTTTGTAAAAA-TACTA-AAATACCCTCGA
*
94187211 GTTTACAAAATTACTGAAATACCCTTGGTTTGTA
1 -TTTACAAAATTACTGAAATACCCTTAGTTTGTA
94187245 GATTTACCAA
Statistics
Matches: 111, Mismatches: 24, Indels: 16
0.74 0.16 0.11
Matches are distributed among these distances:
53 6 0.05
54 52 0.47
55 21 0.19
56 32 0.29
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (54 bp):
TTTACAAAATTACTGAAATACCCTTAGTTTGTAAAAATACTAAAATACCCTCGA
Found at i:94187359 original size:27 final size:27
Alignment explanation
Indices: 94187282--94187359 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
94187272 AAATGACTAA
*
94187282 AATACCCCTAT-TAGGTAAAAAGACCGT
1 AATACCCCTATAT-GGTAAAATGACCGT
* *
94187309 AA-AGCCCCTATAGGGTAAAGTGACCGT
1 AATA-CCCCTATATGGTAAAATGACCGT
*
94187336 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTATATGGTAAAATGAC
94187360 GAATATGCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 40 0.95
28 1 0.02
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (27 bp):
AATACCCCTATATGGTAAAATGACCGT
Found at i:94188540 original size:25 final size:25
Alignment explanation
Indices: 94188511--94188558 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
94188501 CCTTATAATG
* * *
94188511 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
94188536 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
94188559 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:94188661 original size:20 final size:20
Alignment explanation
Indices: 94188601--94188661 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
94188591 ATAAATATGG
*
94188601 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
94188621 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
94188641 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
94188661 T
1 T
94188662 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:94188738 original size:24 final size:24
Alignment explanation
Indices: 94188711--94188853 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
94188701 GAGGAAGTGA
94188711 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
94188735 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
94188759 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
94188782 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
94188806 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
94188830 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
94188854 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:94188804 original size:47 final size:47
Alignment explanation
Indices: 94188711--94188853 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
94188701 GAGGAAGTGA
94188711 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
94188759 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
94188806 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
94188854 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:94188827 original size:71 final size:72
Alignment explanation
Indices: 94188711--94188854 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
94188701 GAGGAAGTGA
*
94188711 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
94188774 CCAGTTAT
65 CCAGTTAT
** * *
94188782 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
94188847 CAGTTAT
66 CAGTTAT
94188854 A
1 A
94188855 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:94189082 original size:31 final size:31
Alignment explanation
Indices: 94189044--94189138 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
94189034 CGTTTACAGT
94189044 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
94189075 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
* *
94189106 AAAGGCTTCGGCCCAATATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
94189137 AA
1 AA
94189139 TATGAAAAGG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:94191715 original size:27 final size:26
Alignment explanation
Indices: 94191684--94191772 Score: 70
Period size: 27 Copynumber: 3.3 Consensus size: 26
94191674 CCATGTTTAG
* *
94191684 AATACTTTAGTTTACTAAAATTACCGA
1 AATACCTTAGTTT-CTAAAAATACCGA
* *
94191711 AATACCCTTAGTTTGTAAAAATACTGA
1 AATA-CCTTAGTTTCTAAAAATACCGA
* * * * *
94191738 AATACCCTCGATTTGTAAAATTACTGA
1 AATACCTTAG-TTTCTAAAAATACCGA
94191765 AATACCTT
1 AATACCTT
94191773 CGACTTGTAA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
26 4 0.08
27 40 0.77
28 8 0.15
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.35
Consensus pattern (26 bp):
AATACCTTAGTTTCTAAAAATACCGA
Found at i:94191758 original size:54 final size:53
Alignment explanation
Indices: 94191694--94191890 Score: 182
Period size: 54 Copynumber: 3.6 Consensus size: 53
94191684 AATACTTTAG
*
94191694 TTTACTAAAATTACCGAAATACCCTTAGTTTGTAAAAATACTGAAATACCCTCGA
1 TTTAC-AAAATTACTGAAATACCCTTAGTTTGTAAAAATACTGAAATACCCT-GA
** * * * **
94191749 TTTGTAAAATTACTGAAATA-CCTTCGACTTGTAAAATTACCAAAATACCCTGA
1 TTTACAAAATTACTGAAATACCCTTAG-TTTGTAAAAATACTGAAATACCCTGA
* * * * * *
94191802 TTTACAAAGTTACAGAAATACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGG
1 TTTACAAAATTACTGAAATACCCTT-AGTTTGTAAAAA-TACT-GAAATACC-CTGA
*
94191858 TTTACAAAATTACTGAAATACCCTTGGTTTGTA
1 TTTACAAAATTACTGAAATACCCTTAGTTTGTA
94191891 GATTTACCAA
Statistics
Matches: 110, Mismatches: 26, Indels: 12
0.74 0.18 0.08
Matches are distributed among these distances:
53 23 0.21
54 45 0.41
55 17 0.15
56 25 0.23
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (53 bp):
TTTACAAAATTACTGAAATACCCTTAGTTTGTAAAAATACTGAAATACCCTGA
Found at i:94191775 original size:27 final size:26
Alignment explanation
Indices: 94191699--94191890 Score: 136
Period size: 27 Copynumber: 7.1 Consensus size: 26
94191689 TTTAGTTTAC
*
94191699 TAAAATTACCGAAATACCCTT-AGTTTG
1 TAAAATTACTGAAATA-CCTTGA-TTTG
* *
94191726 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACTGAAATA-CCTTGATTTG
*
94191753 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACTGAAATACCTT-GATTTG
** * *
94191780 TAAAATTACCAAAATACCCTGATTTA
1 TAAAATTACTGAAATACCTTGATTTG
* * * *
94191806 CAAAGTTACAGAAATACCCTTGACTTTC
1 TAAAATTACTGAAATA-CCTTGA-TTTG
* *
94191834 TAAAAATTA-TAGAAATACCATTGGTTTA
1 T-AAAATTACT-GAAATACC-TTGATTTG
* *
94191862 CAAAATTACTGAAATACCCTTGGTTTG
1 TAAAATTACTGAAATA-CCTTGATTTG
94191889 TA
1 TA
94191891 GATTTACCAA
Statistics
Matches: 131, Mismatches: 25, Indels: 18
0.75 0.14 0.10
Matches are distributed among these distances:
26 19 0.15
27 85 0.65
28 12 0.09
29 15 0.11
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (26 bp):
TAAAATTACTGAAATACCTTGATTTG
Found at i:94191995 original size:27 final size:26
Alignment explanation
Indices: 94191930--94192002 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 26
94191920 TGACTAAAAT
94191930 ACCCCTATTA-GGTAAAA-GACCGTAA
1 ACCCCTA-TAGGGTAAAATGACCGTAA
* *
94191955 AGCCCTATAGGGTAAAGTGACCGTAA
1 ACCCCTATAGGGTAAAATGACCGTAA
* *
94191981 TACCCCTGTATGGTAAAATGAC
1 -ACCCCTATAGGGTAAAATGAC
94192003 GAATATGCCC
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
24 2 0.05
25 12 0.31
26 8 0.21
27 17 0.44
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (26 bp):
ACCCCTATAGGGTAAAATGACCGTAA
Found at i:94193301 original size:20 final size:20
Alignment explanation
Indices: 94193241--94193301 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
94193231 ATAAATATGG
*
94193241 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
94193261 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
94193281 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
94193301 T
1 T
94193302 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:94193378 original size:24 final size:24
Alignment explanation
Indices: 94193351--94193492 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
94193341 GAGGAAGTGA
94193351 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
94193375 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
94193399 AAAAGGGCTTATG-CCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
94193421 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
94193445 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
94193469 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
94193493 ATGATAAAGC
Statistics
Matches: 109, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
22 13 0.12
23 18 0.17
24 67 0.61
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:94193436 original size:46 final size:47
Alignment explanation
Indices: 94193351--94193492 Score: 198
Period size: 46 Copynumber: 3.0 Consensus size: 47
94193341 GAGGAAGTGA
94193351 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
94193399 AAAAGGGCTTATG-CCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
94193445 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
94193493 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
46 34 0.40
47 17 0.20
48 24 0.28
49 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:94193721 original size:31 final size:31
Alignment explanation
Indices: 94193683--94193777 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
94193673 CGTTTACAGT
94193683 AAAGGCTTCGACCCAGTAATATGAAATATGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
*
94193714 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
*
94193745 AAAGGCTTCGACCCAGTATTATGAAATATGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
94193776 AA
1 AA
94193778 TATGAAAAGG
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 61 1.00
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGACCCAGTAATATGAAATATGA
Found at i:94202852 original size:2 final size:2
Alignment explanation
Indices: 94202845--94202872 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
94202835 TATTCGTAAC
94202845 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
94202873 AGTAGCTGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:94203675 original size:5 final size:5
Alignment explanation
Indices: 94203665--94203689 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
94203655 CTTGAACAAA
94203665 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
94203690 CACATAATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:94213490 original size:40 final size:40
Alignment explanation
Indices: 94213399--94213492 Score: 102
Period size: 40 Copynumber: 2.4 Consensus size: 40
94213389 CCAACTCCGT
* * *
94213399 CCAACCCAACACACC--ATGTGGGGATAAAATCGACCCAC
1 CCAACCCTACACACCAAATATGGGGATAAAATCAACCCAC
* * * *
94213437 CCATCCCTGCACACCAAATATGGGGATAGAATCAACCCAT
1 CCAACCCTACACACCAAATATGGGGATAAAATCAACCCAC
*
94213477 CCAACCTTACACACCA
1 CCAACCCTACACACCA
94213493 TAGAGTACTG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
38 12 0.27
40 32 0.73
ACGTcount: A:0.36, C:0.37, G:0.13, T:0.14
Consensus pattern (40 bp):
CCAACCCTACACACCAAATATGGGGATAAAATCAACCCAC
Found at i:94213933 original size:18 final size:17
Alignment explanation
Indices: 94213910--94213949 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
94213900 CCAAATTCCT
*
94213910 ACACGCTCGTATGGGCCC
1 ACACGCCCGTAT-GGCCC
*
94213928 ACACGCCCGTGTGGCCC
1 ACACGCCCGTATGGCCC
94213945 ACACG
1 ACACG
94213950 ACCCAATTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.17, C:0.42, G:0.28, T:0.12
Consensus pattern (17 bp):
ACACGCCCGTATGGCCC
Found at i:94222786 original size:22 final size:22
Alignment explanation
Indices: 94222759--94222802 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
94222749 GAGGAAGTAA
94222759 GGCTTTATATGAGGGATTATCT
1 GGCTTTATATGAGGGATTATCT
94222781 GGCTTTATATGAGGGATTATCT
1 GGCTTTATATGAGGGATTATCT
94222803 CGATCTGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.09, G:0.27, T:0.41
Consensus pattern (22 bp):
GGCTTTATATGAGGGATTATCT
Found at i:94223612 original size:27 final size:27
Alignment explanation
Indices: 94223544--94223615 Score: 101
Period size: 27 Copynumber: 2.7 Consensus size: 27
94223534 AACGCTGCTG
* *
94223544 TGGCGAACTCTGAAAGAATGGTACTCA
1 TGGCGAACTATGAAGGAATGGTACTCA
*
94223571 TGGCAAACTATGAAGGAATGGTA-TGCA
1 TGGCGAACTATGAAGGAATGGTACT-CA
94223598 TGGCGAACTATGAAGGAA
1 TGGCGAACTATGAAGGAA
94223616 ATGCCCTTGT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 1 0.03
27 39 0.98
ACGTcount: A:0.36, C:0.14, G:0.29, T:0.21
Consensus pattern (27 bp):
TGGCGAACTATGAAGGAATGGTACTCA
Found at i:94226608 original size:27 final size:28
Alignment explanation
Indices: 94226552--94226621 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
94226542 AAACTTGTAC
94226552 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
94226580 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
94226607 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
94226622 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:94226632 original size:27 final size:27
Alignment explanation
Indices: 94226552--94226633 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
94226542 AAACTTGTAC
* *
94226552 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
94226580 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
94226607 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
94226634 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:94234637 original size:27 final size:28
Alignment explanation
Indices: 94234581--94234650 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
94234571 AAACTTGTAC
94234581 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
94234609 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
94234636 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
94234651 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:94234661 original size:27 final size:27
Alignment explanation
Indices: 94234581--94234662 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
94234571 AAACTTGTAC
* *
94234581 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
94234609 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
94234636 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
94234663 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:94239393 original size:152 final size:151
Alignment explanation
Indices: 94239160--94239572 Score: 502
Period size: 152 Copynumber: 2.7 Consensus size: 151
94239150 TAATTTTTTT
* * * * *
94239160 AAAAAAGAGAAAGTTTAGATATT-AACAGAT--AAAT-GTTTTTTT-AGTTATTTTAAAGGAAAG
1 AAAAAAGAGAAAGTTTAGATTTTGAA-AAATAAAAATATTTTTTTTAAGTCAATTTAAAGGAAAG
* * * *
94239220 TTTAAATTTTTAATACAAAGTTTTGATTTTTTTTCAACTATTTCAAAACAAAAGGTTTAATCTTT
65 TTTAAAATTTTAAAACAAAGTTTTAATTTTTTTTCAACTATTTCAAAACAAAAGCTTTAATCTTT
94239285 AAGAAAAATAG-TGTTTTTAAA
130 AAGAAAAATAGTTGTTTTTAAA
*
94239306 AAAAAATAGAAAGTTTAGATTTTGAAAAATAAAAATATCTTTTTTTTAAGTCAATTTAAAGGAAA
1 AAAAAAGAGAAAGTTTAGATTTTGAAAAATAAAAATA--TTTTTTTTAAGTCAATTTAAAGGAAA
* * * *
94239371 ATTTAAAATTTTAAGACAAAGTTTTAATTTTTTTTCAATTATTTCAAAATAAAAGCTTTAATCTT
64 GTTTAAAATTTTAAAACAAAGTTTTAATTTTTTTTCAACTATTTCAAAACAAAAGCTTTAATCTT
*
94239436 TAAGAAAAATAGTTTTTTTTTTAAA
129 TAAGAAAAATAG--TTGTTTTTAAA
** *
94239461 AAAAGGGAGAAAGTTTAGATTTTGAAAAATAAAAATATATTTTTTAAGTC-ATTTGAAA-GAAAG
1 AAAAAAGAGAAAGTTTAGATTTTGAAAAATAAAAATATTTTTTTTAAGTCAATTT-AAAGGAAAG
* **
94239524 TCT-AAATTTTAAAACAAAGTTTTAATTTTTTCCTTTTACTATTTCAAAA
65 TTTAAAATTTTAAAACAAAGTTTTAATTTTTT--TTCAACTATTTCAAAA
94239573 TAAGGTTTTG
Statistics
Matches: 230, Mismatches: 24, Indels: 19
0.84 0.09 0.07
Matches are distributed among these distances:
146 24 0.10
147 2 0.01
148 4 0.02
151 34 0.15
152 95 0.41
153 28 0.12
155 43 0.19
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (151 bp):
AAAAAAGAGAAAGTTTAGATTTTGAAAAATAAAAATATTTTTTTTAAGTCAATTTAAAGGAAAGT
TTAAAATTTTAAAACAAAGTTTTAATTTTTTTTCAACTATTTCAAAACAAAAGCTTTAATCTTTA
AGAAAAATAGTTGTTTTTAAA
Found at i:94240128 original size:25 final size:24
Alignment explanation
Indices: 94240100--94240146 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
94240090 TCACTTGCAT
94240100 TTATACA-TTATATATTTAATGTTAA
1 TTATACACTT-TAT-TTTAATGTTAA
*
94240125 TTATGCACTTTATTTTAATGTT
1 TTATACACTTTATTTTAATGTT
94240147 TTATATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 9 0.45
25 9 0.45
26 2 0.10
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.55
Consensus pattern (24 bp):
TTATACACTTTATTTTAATGTTAA
Found at i:94243030 original size:41 final size:41
Alignment explanation
Indices: 94242951--94243030 Score: 97
Period size: 41 Copynumber: 2.0 Consensus size: 41
94242941 GAGAGGTCAA
* * * * **
94242951 ATGCTCGTGTAAAGATAGGCACACGGTCGTGTGGCTAAGAC
1 ATGCCCGTGTAAAGAGAAGCACACGGCCGTGTAACTAAGAC
*
94242992 ATGCCCGTGTGAAGAGAAGCACACGGCCGTGTAACTAAG
1 ATGCCCGTGTAAAGAGAAGCACACGGCCGTGTAACTAAG
94243031 GCACACATCC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.29, C:0.21, G:0.31, T:0.19
Consensus pattern (41 bp):
ATGCCCGTGTAAAGAGAAGCACACGGCCGTGTAACTAAGAC
Found at i:94245333 original size:13 final size:13
Alignment explanation
Indices: 94245317--94245347 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
94245307 ACCGAATAAC
*
94245317 AAAATAGAAACTA
1 AAAATAAAAACTA
94245330 AAAATAAAAACTA
1 AAAATAAAAACTA
94245343 AAAAT
1 AAAAT
94245348 TTATTTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.74, C:0.06, G:0.03, T:0.16
Consensus pattern (13 bp):
AAAATAAAAACTA
Found at i:94251036 original size:15 final size:15
Alignment explanation
Indices: 94251016--94251046 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
94251006 ATAGAAGAGA
94251016 AAGTACTGAGGCACT
1 AAGTACTGAGGCACT
94251031 AAGTACTGAGGCACT
1 AAGTACTGAGGCACT
94251046 A
1 A
94251047 CACATTTCAA
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:0.35, C:0.19, G:0.26, T:0.19
Consensus pattern (15 bp):
AAGTACTGAGGCACT
Found at i:94256050 original size:13 final size:13
Alignment explanation
Indices: 94256032--94256056 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94256022 AATCACAAAT
94256032 AAATACACATATC
1 AAATACACATATC
94256045 AAATACACATAT
1 AAATACACATAT
94256057 TTTTTTTTTC
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:0.56, C:0.20, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATACACATATC
Found at i:94257938 original size:24 final size:24
Alignment explanation
Indices: 94257911--94257959 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
94257901 AAGAGCTGTA
*
94257911 ATCGGGAAGTTCACAAAGAACCAT
1 ATCGGAAAGTTCACAAAGAACCAT
94257935 ATCGGAAAGTTCACAAAGAACCAT
1 ATCGGAAAGTTCACAAAGAACCAT
94257959 A
1 A
94257960 ACAGGAAGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.45, C:0.20, G:0.18, T:0.16
Consensus pattern (24 bp):
ATCGGAAAGTTCACAAAGAACCAT
Found at i:94264941 original size:24 final size:24
Alignment explanation
Indices: 94264885--94264941 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
94264875 AAGAGCTGTA
*
94264885 ATTGGGAAGTTCACAAAGGACCAT
1 ATTGGGAAGTTCACAAAGAACCAT
*
94264909 ATCGGGAAGTTCACAAAGAACCAT
1 ATTGGGAAGTTCACAAAGAACCAT
*
94264933 ATTGAGAAG
1 ATTGGGAAG
94264942 CACCGAATAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.40, C:0.16, G:0.25, T:0.19
Consensus pattern (24 bp):
ATTGGGAAGTTCACAAAGAACCAT
Found at i:94273229 original size:42 final size:42
Alignment explanation
Indices: 94273126--94273285 Score: 176
Period size: 42 Copynumber: 3.8 Consensus size: 42
94273116 GTACTAATGT
* * * *
94273126 CATATCCCAGATATGGTCCTACATGTAATCTCGTATCGATTC
1 CATATCCCAGATATGGTCTTACATGAAATCTCATATCGATGC
* * * *
94273168 CAATAGCCTAGCTATGGTCTTACACGAAATCTCATATCGATGC
1 C-ATATCCCAGATATGGTCTTACATGAAATCTCATATCGATGC
* ** *
94273211 CATATCCTAGATATGGTCTTACATGAAATCTCATATAAATGT
1 CATATCCCAGATATGGTCTTACATGAAATCTCATATCGATGC
* * *
94273253 CATATCCCAGATATGGTTTTACGTGTAATCTCA
1 CATATCCCAGATATGGTCTTACATGAAATCTCA
94273286 GTAACCCTAA
Statistics
Matches: 99, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 65 0.66
43 34 0.34
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (42 bp):
CATATCCCAGATATGGTCTTACATGAAATCTCATATCGATGC
Found at i:94274437 original size:26 final size:24
Alignment explanation
Indices: 94274387--94274439 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 24
94274377 TTCTCTAACG
* *
94274387 AAATTTTAATAAAAAAATTCCATA
1 AAATTTTAATAAAAAAATACAATA
*
94274411 AAATTTTAGATTATAAAAATACAATA
1 AAATTTTA-A-TAAAAAAATACAATA
94274437 AAA
1 AAA
94274440 ATAAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 8 0.33
25 1 0.04
26 15 0.62
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (24 bp):
AAATTTTAATAAAAAAATACAATA
Found at i:94279311 original size:21 final size:20
Alignment explanation
Indices: 94279287--94279326 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
94279277 CACGTATTTT
94279287 AATGATTGATGATAGATTATG
1 AATGATTGATGATAG-TTATG
*
94279308 AATGTTTGATGATAGTTAT
1 AATGATTGATGATAGTTAT
94279327 ACAAGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (20 bp):
AATGATTGATGATAGTTATG
Found at i:94279334 original size:20 final size:21
Alignment explanation
Indices: 94279292--94279334 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
94279282 ATTTTAATGA
*
94279292 TTGATGATAGATTATGAATGT
1 TTGATGATAGATTATGAAAGT
94279313 TTGATGATAG-TTAT-ACAAGT
1 TTGATGATAGATTATGA-AAGT
94279333 TT
1 TT
94279335 TGTTAAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 9 0.45
21 10 0.50
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (21 bp):
TTGATGATAGATTATGAAAGT
Found at i:94283057 original size:1 final size:1
Alignment explanation
Indices: 94283053--94283119 Score: 53
Period size: 1 Copynumber: 67.0 Consensus size: 1
94283043 TTATATCGAG
* * * * * * * * *
94283053 AAAAAAAAAAAAAAAAGACAAAAACAATAAAACAATAAAAACAATAAAAAAAAAAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
94283118 AA
1 AA
94283120 GAGAGAGCAC
Statistics
Matches: 48, Mismatches: 18, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.87, C:0.06, G:0.03, T:0.04
Consensus pattern (1 bp):
A
Found at i:94283084 original size:17 final size:16
Alignment explanation
Indices: 94283053--94283117 Score: 59
Period size: 17 Copynumber: 4.3 Consensus size: 16
94283043 TTATATCGAG
94283053 AAAAA-AAAAA-AA-A
1 AAAAACAAAAACAATA
*
94283066 AAAGACAAAAACAATA
1 AAAAACAAAAACAATA
*
94283082 AAACAATAAAAACAATA
1 AAA-AACAAAAACAATA
*
94283099 AAAAA-AAAAAGAA-A
1 AAAAACAAAAACAATA
94283113 AAAAA
1 AAAAA
94283118 AAGAGAGAGC
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
13 4 0.09
14 11 0.25
15 9 0.20
16 6 0.14
17 14 0.32
ACGTcount: A:0.86, C:0.06, G:0.03, T:0.05
Consensus pattern (16 bp):
AAAAACAAAAACAATA
Found at i:94283582 original size:42 final size:42
Alignment explanation
Indices: 94283519--94283895 Score: 454
Period size: 42 Copynumber: 9.0 Consensus size: 42
94283509 AAGGAAAACA
* * * *
94283519 TTCATTTCATTTAGAGGCCCAAGTGTGGAGGTCCATCTACTT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTTACTT
* * * *
94283561 TTCATTACATTTAGACACCCAAGTGTGGAGG-CTCGTTTACTT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTC-CATTTACTT
* *
94283603 TTCATTGCATTTAGAGACCTAGGTGTGGAGGTCCATTTAATT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTTACTT
* * * *
94283645 TTCATTGCATTCAGAGGCCCAGGTATGGACGTCCATTTACTT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTTACTT
* * *
94283687 TTCATTGCA-TT-CAGACTCAGGTGTGGAGGTCCATTTACAT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTTACTT
94283727 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTTACTT
* * * * *
94283769 TTTATTACATTTAGAGGCCCAGGTGTGGAGGTCAATTCACTT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTTACTT
* * *
94283811 TTCATTGCATTTAAAGACCTAGGTGTGGAGGTCCATTAACTT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTTACTT
* * * * *
94283853 TTCATTTCATTTAGTGACCCAAGTATGGAGGTCCGTTTACTT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTTACTT
94283895 T
1 T
94283896 ACTAGTTTAC
Statistics
Matches: 284, Mismatches: 47, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
40 32 0.11
41 4 0.01
42 247 0.87
43 1 0.00
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (42 bp):
TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTTACTT
Found at i:94283740 original size:166 final size:166
Alignment explanation
Indices: 94283541--94283863 Score: 441
Period size: 166 Copynumber: 1.9 Consensus size: 166
94283531 AGAGGCCCAA
* *
94283541 GTGTGGAGGTCCATCTACTTTTCATTACATTTAGACACCCAAGTGTGGAGG-CTCGTTTACTTTT
1 GTGTGGAGGTCCATCTACATTTCATTACATTTAGACACCCAAGTGTGGAGGTC-CATTTACTTTT
* * * * * *
94283605 CATTGCATTTAGAGACCTAGGTGTGGAGGTCCATTTAATTTTCATTGCATTCAGAGGCCCAGGTA
65 CATTACATTTAGAGACCCAGGTGTGGAGGTCAATTCAATTTTCATTGCATTCAAAGACCCAGGTA
*
94283670 TGGACGTCCATTTACTTTTCATTGCATTCAGACTCAG
130 TGGACGTCCATTAACTTTTCATTGCATTCAGACTCAG
* * * * *
94283707 GTGTGGAGGTCCATTTACATTTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTTACTTTTT
1 GTGTGGAGGTCCATCTACATTTCATTACATTTAGACACCCAAGTGTGGAGGTCCATTTACTTTTC
* * * * *
94283772 ATTACATTTAGAGGCCCAGGTGTGGAGGTCAATTCACTTTTCATTGCATTTAAAGACCTAGGTGT
66 ATTACATTTAGAGACCCAGGTGTGGAGGTCAATTCAATTTTCATTGCATTCAAAGACCCAGGTAT
* *
94283837 GGAGGTCCATTAACTTTTCATTTCATT
131 GGACGTCCATTAACTTTTCATTGCATT
94283864 TAGTGACCCA
Statistics
Matches: 135, Mismatches: 21, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
166 134 0.99
167 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.37
Consensus pattern (166 bp):
GTGTGGAGGTCCATCTACATTTCATTACATTTAGACACCCAAGTGTGGAGGTCCATTTACTTTTC
ATTACATTTAGAGACCCAGGTGTGGAGGTCAATTCAATTTTCATTGCATTCAAAGACCCAGGTAT
GGACGTCCATTAACTTTTCATTGCATTCAGACTCAG
Found at i:94283894 original size:208 final size:208
Alignment explanation
Indices: 94283519--94283895 Score: 560
Period size: 208 Copynumber: 1.8 Consensus size: 208
94283509 AAGGAAAACA
* *
94283519 TTCATTTCATTTAGAGGCCCAAGTGTGGAGGTCCATCTACTTTTCATTACATTTAGACACCCAAG
1 TTCATTGCATTTAGAGACCCAAGTGTGGAGGTCCATCTACTTTTCATTACATTTAGACACCCAAG
* * *
94283584 TGTGGAGGCTCGTTTACTTTTCATTGCATTTAGAGACCTAGGTGTGGAGGTCCATTTAATTTTCA
66 TGTGGAGGCTCATTCACTTTTCATTGCATTTAAAGACCTAGGTGTGGAGGTCCATTTAATTTTCA
* *
94283649 TTGCATTCAGAGGCCCAGGTATGGACGTCCATTTACTTTTCATTGCATTCAGACTCAGGTGTGGA
131 TTGCATTCAGAGACCCAAGTATGGACGTCCATTTACTTTTCATTGCATTCAGACTCAGGTGTGGA
94283714 GGTCCATTTACAT
196 GGTCCATTTACAT
* * * ** *
94283727 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTTACTTTTTATTACATTTAGAGGCCCAGG
1 TTCATTGCATTTAGAGACCCAAGTGTGGAGGTCCATCTACTTTTCATTACATTTAGACACCCAAG
94283792 TGTGGAGG-TCAATTCACTTTTCATTGCATTTAAAGACCTAGGTGTGGAGGTCCA-TTAACTTTT
66 TGTGGAGGCTC-ATTCACTTTTCATTGCATTTAAAGACCTAGGTGTGGAGGTCCATTTAA-TTTT
* * * * *
94283855 CATTTCATTTAGTGACCCAAGTATGGAGGTCCGTTTACTTT
129 CATTGCATTCAGAGACCCAAGTATGGACGTCCATTTACTTT
94283896 ACTAGTTTAC
Statistics
Matches: 149, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
207 6 0.04
208 143 0.96
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (208 bp):
TTCATTGCATTTAGAGACCCAAGTGTGGAGGTCCATCTACTTTTCATTACATTTAGACACCCAAG
TGTGGAGGCTCATTCACTTTTCATTGCATTTAAAGACCTAGGTGTGGAGGTCCATTTAATTTTCA
TTGCATTCAGAGACCCAAGTATGGACGTCCATTTACTTTTCATTGCATTCAGACTCAGGTGTGGA
GGTCCATTTACAT
Found at i:94284952 original size:154 final size:152
Alignment explanation
Indices: 94284675--94285435 Score: 828
Period size: 154 Copynumber: 5.0 Consensus size: 152
94284665 TATTTTTTTT
* * *
94284675 AAAAAAGAGAAAGTTTAGATTTT-AACAAATAAGAATTTTTTTTTTAGTTATTTTAAAAGAAAGT
1 AAAAAAGAGAAAGTTTAGATTTTGAA-AAATAAAAATGTTTTTTTTAGTCATTTTAAAAGAAAGT
* * * * *
94284739 TTAAATTTTTAAAACAAAGTTTTTATTATTTTTTCAACTATTTCAAAGTAAAAGTTTTAATCGTT
65 TTAAATTTTTAAAATAAAGTTTTGATTTTTTTTTCAACTATTTCAAAATAAAAGTTTTAATCTTT
94284804 AAG-AAAAATGATTTTTTTAAAA
130 AAGAAAAAATGATTTTTTTAAAA
* * *
94284826 AAAAAAGAAAAAGTTTAGATTTTGAAAAATTAAAATCCGTTTTTTTTAGTCATTTTAAAGGAAAG
1 AAAAAAGAGAAAGTTTAGATTTTGAAAAATAAAAAT--GTTTTTTTTAGTCATTTTAAAAGAAAG
* *
94284891 TTTAAAATTTTAAAATGAAGTTTTGATTTTTTTTTTCAACTATTTCAAAATAAAAGTTTTAATCT
64 TTTAAATTTTTAAAATAAAGTTTTGA-TTTTTTTTTCAACTATTTCAAAATAAAAGTTTTAATCT
*
94284956 TTAAGAAAAATAATGTTTTTTTTTTTAAAA
128 TTAAG-AAAA-AATG---ATTTTTTTAAAA
** * * * *
94284986 AAAAGGGAGAAAG-TTAGATTTTAAAAAATAAAAAATCTGTTTTTTAAGTCATTTTAAATGAAAG
1 AAAAAAGAGAAAGTTTAGATTTTGAAAAAT-AAAAATGT-TTTTTTTAGTCATTTTAAAAGAAAG
* * **
94285050 TTTAAATTTTTAAAATAAA-ATTTGA-TTTTTTTTCAACTATTTCAAAGTAAAAAACTTTAATCT
64 TTTAAATTTTTAAAATAAAGTTTTGATTTTTTTTTCAACTATTTCAAAAT-AAAAGTTTTAATCT
* **
94285113 TTAAGAAAAATATTAGTTTTTTTTTGAA
128 TTAAGAAAAA-A-T-GATTTTTTTAAAA
* * *
94285141 AAAAATGAGAAAGTTTAGATTTTGAAAAATAAAAATATATTTTTTAGTCATTTTAAAAGAAAGTT
1 AAAAAAGAGAAAGTTTAGATTTTGAAAAATAAAAATGTTTTTTTTAGTCATTTTAAAAGAAAGTT
* *
94285206 TAACTTTTTAAAATAAAGTTTTGATTTTTTTTTCAACTATTTTAAAATAAAAGTTTTAATCTTTA
66 TAAATTTTTAAAATAAAGTTTTGATTTTTTTTTCAACTATTTCAAAATAAAAGTTTTAATCTTTA
*
94285271 AGAAAAATAGTG-TTTTTTT---T
131 AGAAAAA-A-TGATTTTTTTAAAA
* ** * * * * * *
94285291 AGAAGGGAGAAAGTTTCGATTTTGAAAAATAAAAATCTATTTTTTAATTCATTTTATAGGAAAGT
1 AAAAAAGAGAAAGTTTAGATTTTGAAAAATAAAAATGT-TTTTTTTAGTCATTTTAAAAGAAAGT
* * * * *
94285356 CTAAATTTTTAAAATAAAGTTTTGA-TTTTTTTT-AACTATTT-ATAAT-AAGGTTTTGATTTTT
65 TTAAATTTTTAAAATAAAGTTTTGATTTTTTTTTCAACTATTTCAAAATAAAAGTTTTAATCTTT
94285417 AAGAAAAGTAATGATTTTT
130 AAGAAAA--AATGATTTTT
94285436 CTAAGGAAAA
Statistics
Matches: 526, Mismatches: 61, Indels: 49
0.83 0.10 0.08
Matches are distributed among these distances:
147 21 0.04
148 10 0.02
149 9 0.02
150 41 0.08
151 74 0.14
152 2 0.00
153 53 0.10
154 81 0.15
155 59 0.11
156 66 0.13
157 22 0.04
158 7 0.01
159 55 0.10
160 26 0.05
ACGTcount: A:0.42, C:0.04, G:0.10, T:0.44
Consensus pattern (152 bp):
AAAAAAGAGAAAGTTTAGATTTTGAAAAATAAAAATGTTTTTTTTAGTCATTTTAAAAGAAAGTT
TAAATTTTTAAAATAAAGTTTTGATTTTTTTTTCAACTATTTCAAAATAAAAGTTTTAATCTTTA
AGAAAAAATGATTTTTTTAAAA
Found at i:94285959 original size:25 final size:24
Alignment explanation
Indices: 94285931--94285977 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
94285921 TCACTTGCAT
94285931 TTATACA-TTATATATTTAATGTTAA
1 TTATACACTT-TAT-TTTAATGTTAA
*
94285956 TTATGCACTTTATTTTAATGTT
1 TTATACACTTTATTTTAATGTT
94285978 TTATATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 9 0.45
25 9 0.45
26 2 0.10
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.55
Consensus pattern (24 bp):
TTATACACTTTATTTTAATGTTAA
Found at i:94286035 original size:10 final size:10
Alignment explanation
Indices: 94286001--94286035 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
94285991 CACTTGTATA
94286001 ATTTTTATTT
1 ATTTTTATTT
*
94286011 ATTCTTATTT
1 ATTTTTATTT
94286021 CATTTTTATTT
1 -ATTTTTATTT
94286032 ATTT
1 ATTT
94286036 ACTGTCTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (10 bp):
ATTTTTATTT
Found at i:94289688 original size:37 final size:37
Alignment explanation
Indices: 94289635--94289773 Score: 244
Period size: 37 Copynumber: 3.8 Consensus size: 37
94289625 TGAATAGTCC
* * *
94289635 CCACACGTAGTTATCGGGTCTTACCTGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
94289672 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
94289709 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
94289746 CCACACGTAGTCATC-GGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
94289774 ATATATTTCC
Statistics
Matches: 99, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
36 13 0.13
37 86 0.87
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
Found at i:94289972 original size:48 final size:48
Alignment explanation
Indices: 94289914--94290194 Score: 508
Period size: 48 Copynumber: 5.9 Consensus size: 48
94289904 ATATACACAC
* *
94289914 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
94289962 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
94290010 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
94290058 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAC
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
94290106 ATCTCATACATATTTCACATTAGCCATTCGACTTTACCACATATACAC
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
94290154 ATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
94290195 CACATATATA
Statistics
Matches: 227, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 227 1.00
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:94296347 original size:24 final size:24
Alignment explanation
Indices: 94296268--94296396 Score: 133
Period size: 25 Copynumber: 5.4 Consensus size: 24
94296258 GAGACATGGC
*
94296268 CAGTAAGCTCTTCATGAGCTGATAA
1 CAGTAAGCTCTTC-TGAGCTGAAAA
*
94296293 CAGTAAGCTCTTCATGAGCTGATAA
1 CAGTAAGCTCTTC-TGAGCTGAAAA
94296318 CAGTAAGCTCTAT-TGAGCTGAAAA
1 CAGTAAGCTCT-TCTGAGCTGAAAA
* * *
94296342 CGGTAAGCTCTAT-TTAGTTG-AAA
1 CAGTAAGCTCT-TCTGAGCTGAAAA
*
94296365 -AGTAAGCTCTTCTGACCT-AAAA
1 CAGTAAGCTCTTCTGAGCTGAAAA
94296387 CAGTAAGCTC
1 CAGTAAGCTC
94296397 ATACGAGCTA
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
21 1 0.01
22 15 0.16
23 12 0.13
24 27 0.29
25 36 0.39
26 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.28
Consensus pattern (24 bp):
CAGTAAGCTCTTCTGAGCTGAAAA
Found at i:94304257 original size:237 final size:235
Alignment explanation
Indices: 94303837--94304353 Score: 840
Period size: 237 Copynumber: 2.2 Consensus size: 235
94303827 GCTGGGTCAT
*
94303837 ATTTCATAATAATT-TAACGAATAATTAATTAATTTCCGATTAATTATATAAATAATCATATTTC
1 ATTTCATAATAATTCT-ACGAATAATTAATTAATTT-CGATTAATTAAATAAATAATCATATTTC
94303901 ATAATAATTTAACGAATAATTAATTAATTTTCAATTAATTAAATAAATAATCATATTTCATAATA
64 ATAATAATTTAACGAATAATTAATTAATTTTCAATTAATTAAATAAATAATCATATTTCATAATA
*
94303966 ATTTTACAAATAATTAATTAATTTTCGATTAATTAAATAAATAATCATATTTCATAATAATTTTA
129 ATTTTACAAATAATTAATTAATTTTCGATTAATTAAATAAATAATCATATTTCATAATAATTCTA
94304031 TGAACAATTAATTAATTTTTGATTAATTAAATAAATAATCAC
194 TGAACAATTAATTAATTTTTGATTAATTAAATAAATAATCAC
*
94304073 ATTTTTATAATAATTCTACGAATAATTAATTAATTGTCGATTAATTAAATAAATAATCATATTTC
1 A-TTTCATAATAATTCTACGAATAATTAATTAATT-TCGATTAATTAAATAAATAATCATATTTC
* * **
94304138 ATAATAATTTTATGAATAATTAATTAATTTTTGATTAATTAAATAAATAATCATATTTCATAATA
64 ATAATAATTTAACGAATAATTAATTAATTTTCAATTAATTAAATAAATAATCATATTTCATAATA
* *
94304203 GTTTTA-AGAATAATTAATTAATTTTTGATTAATTAAATAAATAATCATATTTCATAATAATTCT
129 ATTTTACA-AATAATTAATTAATTTTCGATTAATTAAATAAATAATCATATTTCATAATAATTCT
* * * *
94304267 ATGAATAATTAATTAATTTTTGATTAATTAATTAATTAATCAT
193 ATGAACAATTAATTAATTTTTGATTAATTAAATAAATAATCAC
*
94304310 ATTTCATAATAATTCTATGAATAATTAATTAATTTCAGATTAAT
1 ATTTCATAATAATTCTACGAATAATTAATTAATTTC-GATTAAT
94304354 CATTCATTTA
Statistics
Matches: 261, Mismatches: 15, Indels: 10
0.91 0.05 0.03
Matches are distributed among these distances:
235 2 0.01
236 40 0.15
237 217 0.83
238 2 0.01
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (235 bp):
ATTTCATAATAATTCTACGAATAATTAATTAATTTCGATTAATTAAATAAATAATCATATTTCAT
AATAATTTAACGAATAATTAATTAATTTTCAATTAATTAAATAAATAATCATATTTCATAATAAT
TTTACAAATAATTAATTAATTTTCGATTAATTAAATAAATAATCATATTTCATAATAATTCTATG
AACAATTAATTAATTTTTGATTAATTAAATAAATAATCAC
Found at i:94304365 original size:59 final size:59
Alignment explanation
Indices: 94303833--94304353 Score: 760
Period size: 59 Copynumber: 8.8 Consensus size: 59
94303823 AAAAGCTGGG
* * *
94303833 TCATATTTCATAATAATTTAACGAATAATTAATTAATTTCCGATTAATTATATAAATAA
1 TCATATTTCATAATAATTTTACGAATAATTAATTAATTTCTGATTAATTAAATAAATAA
* *
94303892 TCATATTTCATAATAATTTAACGAATAATTAATTAATTT-TCAATTAATTAAATAAATAA
1 TCATATTTCATAATAATTTTACGAATAATTAATTAATTTCT-GATTAATTAAATAAATAA
*
94303951 TCATATTTCATAATAATTTTACAAATAATTAATTAATTT-TCGATTAATTAAATAAATAA
1 TCATATTTCATAATAATTTTACGAATAATTAATTAATTTCT-GATTAATTAAATAAATAA
* * *
94304010 TCATATTTCATAATAATTTTATGAACAATTAATTAATTTTTGATTAATTAAATAAATAA
1 TCATATTTCATAATAATTTTACGAATAATTAATTAATTTCTGATTAATTAAATAAATAA
* * *
94304069 TCACATTTTTATAATAATTCTACGAATAATTAATTAATTGTC-GATTAATTAAATAAATAA
1 TCATA-TTTCATAATAATTTTACGAATAATTAATTAATT-TCTGATTAATTAAATAAATAA
* *
94304129 TCATATTTCATAATAATTTTATGAATAATTAATTAATTTTTGATTAATTAAATAAATAA
1 TCATATTTCATAATAATTTTACGAATAATTAATTAATTTCTGATTAATTAAATAAATAA
* * *
94304188 TCATATTTCATAATAGTTTTAAGAATAATTAATTAATTTTTGATTAATTAAATAAATAA
1 TCATATTTCATAATAATTTTACGAATAATTAATTAATTTCTGATTAATTAAATAAATAA
* * * * *
94304247 TCATATTTCATAATAATTCTATGAATAATTAATTAATTTTTGATTAATTAATTAATTAA
1 TCATATTTCATAATAATTTTACGAATAATTAATTAATTTCTGATTAATTAAATAAATAA
* * *
94304306 TCATATTTCATAATAATTCTATGAATAATTAATTAATTTCAGATTAAT
1 TCATATTTCATAATAATTTTACGAATAATTAATTAATTTCTGATTAAT
94304354 CATTCATTTA
Statistics
Matches: 428, Mismatches: 29, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
58 1 0.00
59 374 0.87
60 52 0.12
61 1 0.00
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (59 bp):
TCATATTTCATAATAATTTTACGAATAATTAATTAATTTCTGATTAATTAAATAAATAA
Found at i:94311570 original size:54 final size:53
Alignment explanation
Indices: 94311461--94311584 Score: 144
Period size: 54 Copynumber: 2.3 Consensus size: 53
94311451 CCCCAATTTA
** * *
94311461 TAAAATTACCAAAATACCCTTGATTGTGAAATTACTGAAATACCCTCTATTTG
1 TAAAATTACCAAAATACCCCCGATTGTGAAATTACTAAAATACCCTCTATGTG
* *
94311514 TAAAATTACCAAAATACCCCCGATTTGTGAAATTA-TCAAAATGCCCT-TGTAGTG
1 TAAAATTACCAAAATACCCCCGA-TTGTGAAATTACT-AAAATACCCTCTAT-GTG
*
94311568 TAAAATTACCGAAATAC
1 TAAAATTACCAAAATAC
94311585 TCTTGTAGTA
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
53 24 0.39
54 37 0.61
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (53 bp):
TAAAATTACCAAAATACCCCCGATTGTGAAATTACTAAAATACCCTCTATGTG
Found at i:94311573 original size:27 final size:27
Alignment explanation
Indices: 94311461--94311627 Score: 124
Period size: 27 Copynumber: 6.2 Consensus size: 27
94311451 CCCCAATTTA
* *
94311461 TAAAATTACCAAAATACCCTTG-ATTG
1 TAAAATTACCGAAATACCCTTGTAGTG
* * * *
94311487 TGAAATTACTGAAATACCC-TCTATTTG
1 TAAAATTACCGAAATACCCTTGTA-GTG
* ** *
94311514 TAAAATTACCAAAATACCCCCG-ATTTG
1 TAAAATTACCGAAATACCCTTGTA-GTG
* * * *
94311541 TGAAATTATCAAAATGCCCTTGTAGTG
1 TAAAATTACCGAAATACCCTTGTAGTG
* *
94311568 TAAAATTACCGAAATACTCTTGTAGTA
1 TAAAATTACCGAAATACCCTTGTAGTG
* * *
94311595 TAAAATGACCGACATACCCTTGTAGGG
1 TAAAATTACCGAAATACCCTTGTAGTG
94311622 TAAAAT
1 TAAAAT
94311628 GACTGATTTG
Statistics
Matches: 111, Mismatches: 26, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
25 1 0.01
26 17 0.15
27 92 0.83
28 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.31
Consensus pattern (27 bp):
TAAAATTACCGAAATACCCTTGTAGTG
Found at i:94311612 original size:81 final size:80
Alignment explanation
Indices: 94311448--94311613 Score: 172
Period size: 81 Copynumber: 2.1 Consensus size: 80
94311438 AAAGAGAAAT
* * * *
94311448 TACCCCCAATTTATAAAATTACCAAAATACCCTTGATTGTGAAATTACTGAAATACCCTCTATTT
1 TACCCCCAATTTATAAAATTACCAAAATACCCTTGAGTGTAAAATTACCGAAATACCCTCTATGT
* *
94311513 GTAAAATTACCAAAA
66 ATAAAATGACCAAAA
* * * * * * *
94311528 TACCCCCGATTTGTGAAATTATCAAAATGCCCTTGTAGTGTAAAATTACCGAAATACTCT-TGTA
1 TACCCCCAATTTATAAAATTACCAAAATACCCTTG-AGTGTAAAATTACCGAAATACCCTCTAT-
* *
94311592 GTATAAAATGACCGACA
64 GTATAAAATGACCAAAA
94311609 TACCC
1 TACCC
94311614 TTGTAGGGTA
Statistics
Matches: 69, Mismatches: 15, Indels: 3
0.79 0.17 0.03
Matches are distributed among these distances:
80 32 0.46
81 37 0.54
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (80 bp):
TACCCCCAATTTATAAAATTACCAAAATACCCTTGAGTGTAAAATTACCGAAATACCCTCTATGT
ATAAAATGACCAAAA
Found at i:94331286 original size:46 final size:46
Alignment explanation
Indices: 94331233--94331450 Score: 266
Period size: 46 Copynumber: 4.7 Consensus size: 46
94331223 TGGGCATCCG
*
94331233 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCA
*
94331279 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT-CA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCA
* * * *
94331324 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCG
1 -AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G--TCCA
* *
94331372 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCA
*
94331418 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
94331451 GCGGGTTACA
Statistics
Matches: 149, Mismatches: 12, Indels: 22
0.81 0.07 0.12
Matches are distributed among these distances:
42 2 0.01
43 4 0.03
45 5 0.03
46 101 0.68
47 26 0.17
48 4 0.03
50 4 0.03
51 3 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCA
Found at i:94334209 original size:27 final size:27
Alignment explanation
Indices: 94333865--94334285 Score: 420
Period size: 27 Copynumber: 15.7 Consensus size: 27
94333855 TACCCTACAG
* * * *
94333865 GGGTATGTCGGTCATTTTAC-ACTACAA
1 GGGTATTTCGGTAATTTTACAAAT-CGA
* * *
94333892 GGGTATTTTGGTAATTTTAC-ACTACAA
1 GGGTATTTCGGTAATTTTACAAAT-CGA
* *
94333919 GGGTATTTCGATAATTTTACAAAT-TA
1 GGGTATTTCGGTAATTTTACAAATCGA
* * *
94333945 GGGGTGTTTCGGTAATATTATAAATCGA
1 -GGGTATTTCGGTAATTTTACAAATCGA
*
94333973 GGGTATTTCGGTAATTTTACAAATAGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* *
94334000 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTCGGTAATTTTACAAATCGA
*
94334027 GGGTGTTTCGGTAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* ** *
94334054 GGGTGTTTCAATAATTTTACAAATCAA
1 GGGTATTTCGGTAATTTTACAAATCGA
* * * * * *
94334081 GGGTGTTTCAGTCATTTCACAAAGCGG
1 GGGTATTTCGGTAATTTTACAAATCGA
* *
94334108 GGGTATTTCTGTAATTTCACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* *
94334135 GGGTATTTCAGTAATTTCAC-AATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* *
94334161 GGGTATTTCGATAATTTTACAAATCGG
1 GGGTATTTCGGTAATTTTACAAATCGA
*
94334188 GGGTATTTCGTTAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* * ** * *
94334215 TGGTGTTTCAATAATTTCACAAATCGG
1 GGGTATTTCGGTAATTTTACAAATCGA
94334242 GGGTATTTCGGTAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
*
94334269 -GGTATTTCAGTAATTTT
1 GGGTATTTCGGTAATTTT
94334286 CTCTTTATTA
Statistics
Matches: 335, Mismatches: 55, Indels: 9
0.84 0.14 0.02
Matches are distributed among these distances:
26 40 0.12
27 292 0.87
28 3 0.01
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.38
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACAAATCGA
Found at i:94334634 original size:28 final size:28
Alignment explanation
Indices: 94334598--94334704 Score: 178
Period size: 28 Copynumber: 3.8 Consensus size: 28
94334588 CTCAATCTCG
* *
94334598 TTCACATGGCCCATCAAGCCCAATCACA
1 TTCATATGGCCCATCAGGCCCAATCACA
94334626 TTCATATGGCCCATCAGGCCCAATCACA
1 TTCATATGGCCCATCAGGCCCAATCACA
94334654 TTCATATGGCCCATCAGGCCCAATCACA
1 TTCATATGGCCCATCAGGCCCAATCACA
* *
94334682 TTCATATGGCCTATTAGGCCCAA
1 TTCATATGGCCCATCAGGCCCAA
94334705 CTACTTCCCA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 75 1.00
ACGTcount: A:0.29, C:0.35, G:0.14, T:0.22
Consensus pattern (28 bp):
TTCATATGGCCCATCAGGCCCAATCACA
Found at i:94339215 original size:7 final size:7
Alignment explanation
Indices: 94339200--94339248 Score: 62
Period size: 7 Copynumber: 6.9 Consensus size: 7
94339190 CCAAAAGCCA
*
94339200 TAAATCC
1 TAAACCC
94339207 TAAACCC
1 TAAACCC
*
94339214 TAAATCC
1 TAAACCC
94339221 TAAAACCC
1 T-AAACCC
*
94339229 AAAACCC
1 TAAACCC
94339236 TAAACCC
1 TAAACCC
94339243 TAAACC
1 TAAACC
94339249 TTAAGAATAG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
7 31 0.86
8 5 0.14
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAACCC
Found at i:94340595 original size:20 final size:20
Alignment explanation
Indices: 94340504--94340595 Score: 54
Period size: 20 Copynumber: 4.8 Consensus size: 20
94340494 ATTAAGAATG
94340504 TTATTAAATTATATATTATT-
1 TTATTAAATTATAT-TTATTA
*
94340524 TTATTAAATTGTATTTA--A
1 TTATTAAATTATATTTATTA
* * * * *
94340542 -TAAT-ACTTATGTTAAAATA
1 TTATTAAATTATATT-TATTA
*
94340561 TGATTAAA-T-TATTTATTA
1 TTATTAAATTATATTTATTA
94340579 TTATTAAATTATATTTA
1 TTATTAAATTATATTTA
94340596 ATAATAATTT
Statistics
Matches: 51, Mismatches: 13, Indels: 16
0.64 0.16 0.20
Matches are distributed among these distances:
16 6 0.12
17 4 0.08
18 10 0.20
19 8 0.16
20 22 0.43
21 1 0.02
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (20 bp):
TTATTAAATTATATTTATTA
Found at i:94340612 original size:55 final size:55
Alignment explanation
Indices: 94340473--94340614 Score: 155
Period size: 55 Copynumber: 2.5 Consensus size: 55
94340463 TGATTTTTTT
* *
94340473 AATTCATATTTTAATAATAA--TATTAAGAATGTTATTAAATTATATATTATTTTATTA
1 AATT-ATA-TTTAATAATAATTTATTAA-AATATGATTAAATTATATATTA-TTTATTA
* * * *
94340530 AATTGTATTTAATAATACTTATGTTAAAATATGATTAAATTATTTATTA-TTATTA
1 AATTATATTTAATAATAATT-TATTAAAATATGATTAAATTATATATTATTTATTA
94340585 AATTATATTTAATAATAATTTTATTAAAAT
1 AATTATATTTAATAATAA-TTTATTAAAAT
94340615 TTAAAAATAA
Statistics
Matches: 72, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
55 40 0.56
56 4 0.06
57 23 0.32
58 5 0.07
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (55 bp):
AATTATATTTAATAATAATTTATTAAAATATGATTAAATTATATATTATTTATTA
Found at i:94340812 original size:16 final size:16
Alignment explanation
Indices: 94340793--94340842 Score: 73
Period size: 16 Copynumber: 3.1 Consensus size: 16
94340783 GTTTATTCTT
*
94340793 TTACAGCTCTACTCCA
1 TTACAGCTCTATTCCA
* *
94340809 TTACAACTCTATTACA
1 TTACAGCTCTATTCCA
94340825 TTACAGCTCTATTCCA
1 TTACAGCTCTATTCCA
94340841 TT
1 TT
94340843 CCTCCCAACC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.28, C:0.30, G:0.04, T:0.38
Consensus pattern (16 bp):
TTACAGCTCTATTCCA
Found at i:94341299 original size:32 final size:32
Alignment explanation
Indices: 94341263--94341324 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
94341253 CATAAACTTA
*
94341263 TAAATTAATTACTTAAATTTAATAACTCATGC
1 TAAATTAATTAATTAAATTTAATAACTCATGC
* *
94341295 TAAATTAATTAATTTAATTTTATAACTCAT
1 TAAATTAATTAATTAAATTTAATAACTCAT
94341325 ATTGATTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.45
Consensus pattern (32 bp):
TAAATTAATTAATTAAATTTAATAACTCATGC
Found at i:94343956 original size:25 final size:25
Alignment explanation
Indices: 94343928--94343977 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
94343918 TTCCAGCCGT
94343928 TATTCTCATACAAATTGATAACAAC
1 TATTCTCATACAAATTGATAACAAC
94343953 TATTCTCATACAAATTGATAACAAC
1 TATTCTCATACAAATTGATAACAAC
94343978 CCATGAATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.20, G:0.04, T:0.32
Consensus pattern (25 bp):
TATTCTCATACAAATTGATAACAAC
Found at i:94346038 original size:21 final size:23
Alignment explanation
Indices: 94346012--94346055 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
94346002 TCTGGACTGC
94346012 TTGGTTT-TT-AACTATTGGTTT
1 TTGGTTTGTTCAACTATTGGTTT
*
94346033 TTGGTTTGTTCATCTATTGGTTT
1 TTGGTTTGTTCAACTATTGGTTT
94346056 GCTATGGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 7 0.35
22 2 0.10
23 11 0.55
ACGTcount: A:0.11, C:0.07, G:0.20, T:0.61
Consensus pattern (23 bp):
TTGGTTTGTTCAACTATTGGTTT
Found at i:94346608 original size:15 final size:16
Alignment explanation
Indices: 94346579--94346608 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
94346569 ATGTTCTCCA
94346579 TCAATTGTATATAATT
1 TCAATTGTATATAATT
94346595 TCAATTGT-TATAAT
1 TCAATTGTATATAAT
94346609 AACAAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.50
Consensus pattern (16 bp):
TCAATTGTATATAATT
Found at i:94350085 original size:60 final size:59
Alignment explanation
Indices: 94349958--94350096 Score: 156
Period size: 60 Copynumber: 2.3 Consensus size: 59
94349948 TTTAGTGTTA
* * *
94349958 ACTGAGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTAACAGAGTAT
1 ACTGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGT-ACAGAGTAT
* *
94350019 ACTGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAGT-C-GAGATAT
1 ACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTAC-AGTACAGAG-TAT
* *
94350079 ATTGGGCCTTGCCCATAT
1 ACTGGGCCTAGCCCATAT
94350097 TGACACAGTT
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
59 3 0.04
60 51 0.75
61 11 0.16
62 3 0.04
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (59 bp):
ACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGTACAGAGTAT
Found at i:94350114 original size:20 final size:19
Alignment explanation
Indices: 94350089--94350144 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
94350079 ATTGGGCCTT
*
94350089 GCCCATATTGACACAGTTGG
1 GCCCATATTAACACAGTT-G
* *
94350109 GCCCATTTTAATACAGTTG
1 GCCCATATTAACACAGTTG
* *
94350128 GCCCATAATAAAACAGT
1 GCCCATATTAACACAGT
94350145 CTCATATGAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (19 bp):
GCCCATATTAACACAGTTG
Found at i:94350195 original size:22 final size:22
Alignment explanation
Indices: 94350170--94350211 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
94350160 CATGATAACC
*
94350170 CCATCCAACCCTGCACTTCCCT
1 CCATCCAACCCTACACTTCCCT
*
94350192 CCATCCATCCCTACACTTCC
1 CCATCCAACCCTACACTTCC
94350212 TGTAGGGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.55, G:0.02, T:0.24
Consensus pattern (22 bp):
CCATCCAACCCTACACTTCCCT
Found at i:94350757 original size:8 final size:8
Alignment explanation
Indices: 94350744--94350783 Score: 71
Period size: 8 Copynumber: 5.0 Consensus size: 8
94350734 TCACAAATGC
94350744 CGGCTTTT
1 CGGCTTTT
94350752 CGGCTTTT
1 CGGCTTTT
*
94350760 CAGCTTTT
1 CGGCTTTT
94350768 CGGCTTTT
1 CGGCTTTT
94350776 CGGCTTTT
1 CGGCTTTT
94350784 GCCGATCTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.03, C:0.25, G:0.23, T:0.50
Consensus pattern (8 bp):
CGGCTTTT
Found at i:94354841 original size:29 final size:29
Alignment explanation
Indices: 94354809--94354915 Score: 196
Period size: 29 Copynumber: 3.7 Consensus size: 29
94354799 ACATACATGT
94354809 ATATGGCCCACTAGGCCCAATTCACATTC
1 ATATGGCCCACTAGGCCCAATTCACATTC
*
94354838 ATATGGCCCACTAGGCCTAATTCACATTC
1 ATATGGCCCACTAGGCCCAATTCACATTC
94354867 ATATGGCCCACTAGGCCCAATTCACATTC
1 ATATGGCCCACTAGGCCCAATTCACATTC
*
94354896 ATATGGCCCATTAGGCCCAA
1 ATATGGCCCACTAGGCCCAA
94354916 ATCATATTAT
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 75 1.00
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
ATATGGCCCACTAGGCCCAATTCACATTC
Found at i:94355160 original size:16 final size:16
Alignment explanation
Indices: 94355139--94355182 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
94355129 GTAGCCTAAC
94355139 TTTCAGCTTTTCGACA
1 TTTCAGCTTTTCGACA
*
94355155 TTTCAGCTTTTCGACT
1 TTTCAGCTTTTCGACA
*
94355171 TTTCAGCATTTC
1 TTTCAGCTTTTC
94355183 AGATTTTGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.16, C:0.25, G:0.11, T:0.48
Consensus pattern (16 bp):
TTTCAGCTTTTCGACA
Found at i:94355172 original size:24 final size:23
Alignment explanation
Indices: 94355145--94355198 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
94355135 TAACTTTCAG
*
94355145 CTTTTC-GACATTTCAGCTTTTCGA
1 CTTTTCAG-CATTTCAGATTTT-GA
*
94355169 CTTTTCAGCATTTCAGATTTTGC
1 CTTTTCAGCATTTCAGATTTTGA
94355192 CTTTTCA
1 CTTTTCA
94355199 TTGTGTGTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 8 0.30
24 18 0.67
25 1 0.04
ACGTcount: A:0.17, C:0.24, G:0.11, T:0.48
Consensus pattern (23 bp):
CTTTTCAGCATTTCAGATTTTGA
Found at i:94361290 original size:39 final size:39
Alignment explanation
Indices: 94361236--94361315 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
94361226 TCCAATCACA
94361236 TATCGAGCATATTTCTCATAAGTTACACACGTATATACT
1 TATCGAGCATATTTCTCATAAGTTACACACGTATATACT
94361275 TATCGAGCATATTTCTCATAAGTTACACACGTATATACT
1 TATCGAGCATATTTCTCATAAGTTACACACGTATATACT
94361314 TA
1 TA
94361316 CACTTATGAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (39 bp):
TATCGAGCATATTTCTCATAAGTTACACACGTATATACT
Found at i:94365586 original size:29 final size:30
Alignment explanation
Indices: 94365522--94365640 Score: 135
Period size: 29 Copynumber: 4.2 Consensus size: 30
94365512 TACATACATG
*
94365522 CATATGACCCA-CTAGGCCCAA-TC-TCATT
1 CATATGGCCCATCTAGGCCCAATTCAT-ATT
*
94365550 CATATGGCCCATCT-GGCCCAGTTCATATT
1 CATATGGCCCATCTAGGCCCAATTCATATT
* *
94365579 CTTATGGCCCA-CTAGGCCCAATTCACATT
1 CATATGGCCCATCTAGGCCCAATTCATATT
*
94365608 CATATGGCCCAT-TAGGCCCAAATCATATT
1 CATATGGCCCATCTAGGCCCAATTCATATT
94365637 -ATAT
1 CATAT
94365641 TCATGCTCAA
Statistics
Matches: 78, Mismatches: 8, Indels: 10
0.81 0.08 0.10
Matches are distributed among these distances:
28 22 0.28
29 55 0.71
30 1 0.01
ACGTcount: A:0.27, C:0.31, G:0.13, T:0.29
Consensus pattern (30 bp):
CATATGGCCCATCTAGGCCCAATTCATATT
Found at i:94365618 original size:58 final size:57
Alignment explanation
Indices: 94365524--94365636 Score: 165
Period size: 58 Copynumber: 2.0 Consensus size: 57
94365514 CATACATGCA
* **
94365524 TATGACCCACTAGGCCCAATCTCATTCATATGGCCCATCT-GGCCCAGTTCATATTCT
1 TATGACCCACTAGGCCCAATCACATTCATATGGCCCAT-TAGGCCCAAATCATATTCT
*
94365581 TATGGCCCACTAGGCCCAATTCACATTCATATGGCCCATTAGGCCCAAATCATATT
1 TATGACCCACTAGGCCCAA-TCACATTCATATGGCCCATTAGGCCCAAATCATATT
94365637 ATATTCATGC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
57 19 0.38
58 31 0.62
ACGTcount: A:0.26, C:0.32, G:0.14, T:0.28
Consensus pattern (57 bp):
TATGACCCACTAGGCCCAATCACATTCATATGGCCCATTAGGCCCAAATCATATTCT
Found at i:94365731 original size:18 final size:19
Alignment explanation
Indices: 94365708--94365744 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
94365698 TGGGCCCAAC
94365708 AGCCCA-TCAGGCCCATTT
1 AGCCCACTCAGGCCCATTT
*
94365726 AGCCCACTCCGGCCCATTT
1 AGCCCACTCAGGCCCATTT
94365745 GGCCAATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.19, C:0.43, G:0.16, T:0.22
Consensus pattern (19 bp):
AGCCCACTCAGGCCCATTT
Found at i:94374482 original size:109 final size:110
Alignment explanation
Indices: 94374341--94374560 Score: 397
Period size: 109 Copynumber: 2.0 Consensus size: 110
94374331 TAACTACTTA
*
94374341 TTTATAACAACAATAATACCAATTAAGAGTAAGATAAATTAGGTGGACTTCCAAGTTGATTCGTG
1 TTTATAACAACAATAATACCAATTAAGAGTAAGATAAATTAGGTGGACTTCCAAGTTAATTCGTG
*
94374406 GTTTGTCCTTATTCTCAAGGGCTAAGAGAAAAAATCCGATCAAAG
66 GTTTGTCCTTACTCTCAAGGGCTAAGAGAAAAAATCCGATCAAAG
94374451 TTTAT-ACAACAATAATACCAATTAAGAGTAAGATAAATTAGGTGGACTTCCAAGTTAATTCGTG
1 TTTATAACAACAATAATACCAATTAAGAGTAAGATAAATTAGGTGGACTTCCAAGTTAATTCGTG
* *
94374515 GTTTGTCGTTACTCTCAAGGGCTGAGAGAAAAAATCCGATCAAAG
66 GTTTGTCCTTACTCTCAAGGGCTAAGAGAAAAAATCCGATCAAAG
94374560 T
1 T
94374561 GAAAGTTGAT
Statistics
Matches: 106, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
109 101 0.95
110 5 0.05
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.29
Consensus pattern (110 bp):
TTTATAACAACAATAATACCAATTAAGAGTAAGATAAATTAGGTGGACTTCCAAGTTAATTCGTG
GTTTGTCCTTACTCTCAAGGGCTAAGAGAAAAAATCCGATCAAAG
Found at i:94379196 original size:2 final size:2
Alignment explanation
Indices: 94379189--94379224 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
94379179 TGATCATCTC
94379189 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
94379225 CACAATTATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:94380226 original size:32 final size:32
Alignment explanation
Indices: 94380189--94380304 Score: 93
Period size: 32 Copynumber: 3.7 Consensus size: 32
94380179 TAACCACTTT
94380189 AATATTAAATTAATATAATATTTATCTTGATA
1 AATATTAAATTAATATAATATTTATCTTGATA
* * *
94380221 AATATTATATTAATTTAATATTAAATCTT-AT-
1 AATATTAAATTAATATAATATT-TATCTTGATA
*
94380252 --TA--AAA-TAATAGAATATTTATCTATAAGATA
1 AATATTAAATTAATATAATATTTATCT-T--GATA
*
94380282 AATATTAAATTAAATTTAATATT
1 AATATTAAATT-AATATAATATT
94380305 AAGATAATCA
Statistics
Matches: 63, Mismatches: 9, Indels: 20
0.68 0.10 0.22
Matches are distributed among these distances:
25 4 0.06
26 11 0.17
27 2 0.03
29 4 0.06
32 24 0.38
33 5 0.08
34 3 0.05
35 1 0.02
36 9 0.14
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (32 bp):
AATATTAAATTAATATAATATTTATCTTGATA
Found at i:94380238 original size:5 final size:6
Alignment explanation
Indices: 94380187--94380390 Score: 50
Period size: 5 Copynumber: 35.2 Consensus size: 6
94380177 CTTAACCACT
* * *
94380187 TTAATA TTAA-A TTAATA -TAATA TTTATC TTGATA --AATA TT-ATA
1 TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA
* * * *
94380230 TTAAT- TTAATA TTAA-A TCT--TA TTAA-A ATAATA -GAATA TTTATC
1 TTAATA TTAATA TTAATA T-TAATA TTAATA TTAATA TTAATA TTAATA
* * *
94380273 TATAAGA TAAATA TTAA-A TTAA-A TTTAATA TTAAGA -TAATCA CTTTAATA
1 T-TAATA TTAATA TTAATA TTAATA -TTAATA TTAATA TTAAT-A --TTAATA
* * *
94380323 TTAA-A TTAATAAA ATACTA TTAAGA -TAAGTA TTAA-A TTAA-A TTTAATA
1 TTAATA TTAAT--A TTAATA TTAATA TTAA-TA TTAATA TTAATA -TTAATA
94380371 TTAAATTA TTAA-A TTAATA T
1 TT-AA-TA TTAATA TTAATA T
94380391 CATTTTTGGA
Statistics
Matches: 145, Mismatches: 24, Indels: 58
0.64 0.11 0.26
Matches are distributed among these distances:
4 4 0.03
5 60 0.41
6 56 0.39
7 12 0.08
8 9 0.06
9 4 0.03
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (6 bp):
TTAATA
Found at i:94380261 original size:58 final size:61
Alignment explanation
Indices: 94380191--94380306 Score: 175
Period size: 58 Copynumber: 1.9 Consensus size: 61
94380181 ACCACTTTAA
* * *
94380191 TATTAAATTAATATAATATTTATCT-T-GATAAATATTATATT-AATTTAATATTAAATCT
1 TATTAAAATAATAGAATATTTATCTATAGATAAATATTAAATTAAATTTAATATTAAATCT
94380249 TATTAAAATAATAGAATATTTATCTATAAGATAAATATTAAATTAAATTTAATATTAA
1 TATTAAAATAATAGAATATTTATCTAT-AGATAAATATTAAATTAAATTTAATATTAA
94380307 GATAATCACT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
58 23 0.45
59 1 0.02
61 14 0.27
62 13 0.25
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (61 bp):
TATTAAAATAATAGAATATTTATCTATAGATAAATATTAAATTAAATTTAATATTAAATCT
Found at i:94380305 original size:12 final size:12
Alignment explanation
Indices: 94380280--94380387 Score: 61
Period size: 12 Copynumber: 9.2 Consensus size: 12
94380270 ATCTATAAGA
94380280 TAAATATTAAAT
1 TAAATATTAAAT
94380292 TAAAT-TTAATAT
1 TAAATATTAA-AT
* * *
94380304 TAAGATAATCACT
1 TAA-ATATTAAAT
*
94380317 TTAATATTAAAT
1 TAAATATTAAAT
94380329 T-AATA--AAA-
1 TAAATATTAAAT
*
94380337 T-ACTATTAAGA-
1 TAAATATTAA-AT
*
94380348 TAAGTATTAAAT
1 TAAATATTAAAT
94380360 TAAAT-TTAATAT
1 TAAATATTAA-AT
94380372 TAAATTATTAAAT
1 TAAA-TATTAAAT
94380385 TAA
1 TAA
94380388 TATCATTTTT
Statistics
Matches: 75, Mismatches: 10, Indels: 21
0.71 0.09 0.20
Matches are distributed among these distances:
8 4 0.05
9 3 0.04
10 2 0.03
11 15 0.20
12 34 0.45
13 11 0.15
14 6 0.08
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (12 bp):
TAAATATTAAAT
Found at i:94380332 original size:20 final size:18
Alignment explanation
Indices: 94380282--94380390 Score: 75
Period size: 20 Copynumber: 5.9 Consensus size: 18
94380272 CTATAAGATA
94380282 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
94380299 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-A-TTT
**
94380319 AATATTAAATTAATAAAAT
1 AATATTAAATTAAT-ATTT
*
94380338 ACTATTAAGA-TAAGTA-TT
1 AATATTAA-ATTAA-TATTT
*
94380356 AA-ATTAAATTTAATATTA
1 AATATTAAA-TTAATATTT
94380374 AATTATTAAATTAATAT
1 AA-TATTAAATTAATAT
94380391 CATTTTTGGA
Statistics
Matches: 73, Mismatches: 7, Indels: 22
0.72 0.07 0.22
Matches are distributed among these distances:
16 1 0.01
17 18 0.25
18 9 0.12
19 21 0.29
20 24 0.33
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:94381178 original size:22 final size:21
Alignment explanation
Indices: 94381136--94381183 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
94381126 TCTAAGCTAG
94381136 ATAAAACAATTAAAATAAATA
1 ATAAAACAATTAAAATAAATA
*
94381157 ACTAAAATAATTAAAA-AGAATA
1 A-TAAAACAATTAAAATA-AATA
94381179 ATAAA
1 ATAAA
94381184 TCTATGATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.23
Consensus pattern (21 bp):
ATAAAACAATTAAAATAAATA
Found at i:94383595 original size:22 final size:21
Alignment explanation
Indices: 94383548--94383600 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
94383538 CTTTATTAAG
*
94383548 ACAAACAGA-CCCTTAAAAAA
1 ACAAACAGACCCCTAAAAAAA
94383568 ACAAACAGACCCCTAAAAGAAA
1 ACAAACAGACCCCTAAAA-AAA
*
94383590 ATAAACAGACC
1 ACAAACAGACC
94383601 AAACAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 9 0.31
21 7 0.24
22 13 0.45
ACGTcount: A:0.58, C:0.26, G:0.08, T:0.08
Consensus pattern (21 bp):
ACAAACAGACCCCTAAAAAAA
Found at i:94386057 original size:40 final size:40
Alignment explanation
Indices: 94385990--94386161 Score: 224
Period size: 40 Copynumber: 4.3 Consensus size: 40
94385980 ACCCAAGTAT
*
94385990 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
94386029 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
94386069 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * * *
94386109 CTTCGGGACATAGCCCAGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
*
94386149 CTTCGGATCTTAG
1 CTTCGGGTCTTAG
94386162 TCCGATTATC
Statistics
Matches: 115, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 99 0.86
41 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:94390273 original size:16 final size:17
Alignment explanation
Indices: 94390242--94390274 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
94390232 TTCATAAACA
*
94390242 TATATCACTCATTTCAT
1 TATATCAATCATTTCAT
94390259 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
94390275 GTACCATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.33, C:0.18, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:94390683 original size:101 final size:101
Alignment explanation
Indices: 94390576--94390765 Score: 290
Period size: 101 Copynumber: 1.9 Consensus size: 101
94390566 TTCGTAGTGT
* * * * *
94390576 CATAACCTAGTTATGGTCTTATCATCACAATGCCATAGCCTACCTATGGTCTTCCATATAAATAT
1 CATAACCCAGTTATGGTCTTATCATCAAAATGCCATAGCCTACCTATGGTCTTACATATAAACAC
94390641 TGCCATGGTCCAACCACGGTCTTACGTTCAAGGTGC
66 TGCCATGGTCCAACCACGGTCTTACGTTCAAGGTGC
* * *
94390677 CATAACCCAGTTATGGTCTTTTCATTAAAATGCCATAGCCTAGCTATGGTCTTACATATAAACAC
1 CATAACCCAGTTATGGTCTTATCATCAAAATGCCATAGCCTACCTATGGTCTTACATATAAACAC
* *
94390742 TGTCATGGTCCAACCATGGTCTTA
66 TGCCATGGTCCAACCACGGTCTTA
94390766 TCCGTCAATT
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
101 79 1.00
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (101 bp):
CATAACCCAGTTATGGTCTTATCATCAAAATGCCATAGCCTACCTATGGTCTTACATATAAACAC
TGCCATGGTCCAACCACGGTCTTACGTTCAAGGTGC
Found at i:94392482 original size:13 final size:13
Alignment explanation
Indices: 94392466--94392490 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94392456 TTTTTCATGA
94392466 AAATTCTTTAATC
1 AAATTCTTTAATC
94392479 AAATTCTTTAAT
1 AAATTCTTTAAT
94392491 TGAACAGTTC
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:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (13 bp):
AAATTCTTTAATC
Found at i:94393901 original size:27 final size:27
Alignment explanation
Indices: 94393871--94394253 Score: 504
Period size: 27 Copynumber: 14.2 Consensus size: 27
94393861 AAAGTACTCC
*
94393871 CGATTTACAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
94393898 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
94393925 CGATTTTTAAAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
94393952 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
94393979 C-AGTTTACAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
**
94394006 CGATTTACAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
94394033 C-AGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
94394060 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
94394087 C-AGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
94394114 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
94394141 CGATTTGTAAAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
94394168 TGATTTACAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
94394195 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
94394222 CGATTTACAGAATTACCCTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
94394249 TGATT
1 CGATT
94394254 GTGAAATTAC
Statistics
Matches: 309, Mismatches: 39, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
26 4 0.01
27 301 0.97
28 4 0.01
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:94394288 original size:27 final size:27
Alignment explanation
Indices: 94394258--94394453 Score: 257
Period size: 27 Copynumber: 7.3 Consensus size: 27
94394248 TTGATTGTGA
* *
94394258 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
94394285 AATTTCCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
94394312 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
94394339 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
94394366 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
94394393 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
94394420 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
94394447 AATTACC
1 AATTACC
94394454 ATTTTGCCCT
Statistics
Matches: 148, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 148 1.00
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:94394463 original size:27 final size:27
Alignment explanation
Indices: 94394433--94394496 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
94394423 TACCGAGATA
*
94394433 CCCTTGTGGGGTAAAATTACCATTTTG
1 CCCTTGTGGGGTAAAATGACCATTTTG
* * **
94394460 CCCTTAG-GGTGTTAAATGACTGTTTTG
1 CCCTT-GTGGGGTAAAATGACCATTTTG
94394487 CCCTTGTGGG
1 CCCTTGTGGG
94394497 CAAGTGACTG
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
26 1 0.03
27 27 0.93
28 1 0.03
ACGTcount: A:0.17, C:0.19, G:0.27, T:0.38
Consensus pattern (27 bp):
CCCTTGTGGGGTAAAATGACCATTTTG
Found at i:94394690 original size:27 final size:26
Alignment explanation
Indices: 94394652--94394734 Score: 85
Period size: 27 Copynumber: 3.1 Consensus size: 26
94394642 CGGAGGAAGC
*
94394652 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTAGTGGCTATGCCAC-AATATCT
*
94394679 GTTCTAGTGGCTCTGCCACAATATCT
1 GTTCTAGTGGCTATGCCACAATATCT
* * * * *
94394705 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTAGTGGCTATGCCACAATATCT
94394732 GTT
1 GTT
94394735 GACCGATCGA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
26 10 0.20
27 39 0.80
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.37
Consensus pattern (26 bp):
GTTCTAGTGGCTATGCCACAATATCT
Found at i:94394854 original size:22 final size:22
Alignment explanation
Indices: 94394822--94394880 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
94394812 CCCGTTATTA
*
94394822 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
94394844 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
94394866 ATGGCTTAGTGCCAA
1 ATGGCTTTGTGCCAA
94394881 ACGTATTTAC
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:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:94395067 original size:27 final size:27
Alignment explanation
Indices: 94395045--94395118 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
94395035 TAGGTGGGTT
*
94395045 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
94395072 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
94395099 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
94395119 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 36 0.86
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:94395245 original size:6 final size:6
Alignment explanation
Indices: 94395236--94395440 Score: 233
Period size: 6 Copynumber: 33.8 Consensus size: 6
94395226 TTGCATTCAC
* * *
94395236 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTG ATTCTG GTTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
* *
94395285 -TTACTA ATACTG ATTCTG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG
* *
94395333 ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
94395382 ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG
1 ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG
94395430 ATTCTG ATTCT
1 ATTCTG ATTCT
94395441 CATTTTGGTT
Statistics
Matches: 172, Mismatches: 13, Indels: 28
0.81 0.06 0.13
Matches are distributed among these distances:
5 10 0.06
6 149 0.87
7 11 0.06
8 2 0.01
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:94400538 original size:3 final size:3
Alignment explanation
Indices: 94400530--94400571 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
94400520 TACTTAAAGA
94400530 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
94400572 GATGATGATG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:94400576 original size:3 final size:3
Alignment explanation
Indices: 94400570--94400598 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
94400560 AATAATAATA
94400570 ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
94400599 AGTAATAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:94405372 original size:40 final size:40
Alignment explanation
Indices: 94405317--94405480 Score: 170
Period size: 40 Copynumber: 4.1 Consensus size: 40
94405307 TGAATGATAC
* * *
94405317 CCGGGCTAAGTCCCGAAGGCACTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
94405357 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * * * ** *
94405397 CCAGGCTAAGACCCGAAGGTAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
94405437 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
94405477 CCGG
1 CCGG
94405481 TTAAATCCCG
Statistics
Matches: 99, Mismatches: 21, Indels: 8
0.77 0.16 0.06
Matches are distributed among these distances:
39 3 0.03
40 91 0.92
41 5 0.05
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Done.