Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 307 of 322
Found at i:101968615 original size:46 final size:46
Alignment explanation
Indices: 101968565--101968736 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
101968555 TGAGCATCCA
101968565 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* * *
101968611 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCG
* * * *
101968658 AGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* *
101968704 AGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
101968737 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 59 0.56
47 27 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
Found at i:101968717 original size:93 final size:93
Alignment explanation
Indices: 101968558--101968729 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
101968548 GGATGGTTGA
* * *
101968558 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
101968623 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
101968651 GCATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
101968716 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
101968730 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:101983393 original size:47 final size:45
Alignment explanation
Indices: 101983295--101983458 Score: 170
Period size: 46 Copynumber: 3.5 Consensus size: 45
101983285 GTTCTGATGC
* * *
101983295 CATGTCCCAGACATGGTCTTACATTGGCTCAT-ATCTCAAGTCGAAG
1 CATGTCCCAGACAT-GTCTTACACTGGCT-ATCGTCTCAAGCCGAAG
* * *
101983341 CCATGTCCCAGACATGGTCTTACACTGACTATCGTTTCATAGCCGACG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTATCGTCTCA-AGCCGAAG
* * *
101983389 CATGTTCCAGACATGTCTTACACTGGCT-TACGTCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTAT-CGTCTC-AAGCCGAAG
101983435 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
101983459 AGCACTCATC
Statistics
Matches: 101, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
45 1 0.01
46 49 0.49
47 45 0.45
48 6 0.06
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGGCTATCGTCTCAAGCCGAAG
Found at i:101983481 original size:46 final size:46
Alignment explanation
Indices: 101983290--101983505 Score: 160
Period size: 47 Copynumber: 4.6 Consensus size: 46
101983280 GTAAGGTTCT
* *
101983290 GATGCCATGTCCCAGACATGGTCTTACATTGGCTCATATCTCAAGT--C
1 GATG-CATGTCCCAGACATGGTCTTACACTGGCAC-TATCTCAA-TACC
*
101983337 GAAGCCATGTCCCAGACATGGTCTTACACT-G-ACTATCGTTTC-ATAGCC
1 GATG-CATGTCCCAGACATGGTCTTACACTGGCACTATC---TCAATA-CC
* * * * **
101983385 GACGCATGTTCCAGACAT-GTCTTACACTGGCTTAC-GTCTCGAGGCC
1 GATGCATGTCCCAGACATGGTCTTACACTGGC--ACTATCTCAATACC
* *
101983431 GATGCATGTCCCAGACAT-GTCTTACACTAGCACTCATCTCAATACT
1 GATGCATGTCCCAGACATGGTCTTACACTGGCACT-ATCTCAATACC
*
101983477 GATGCTATGTCCCAGACATGGTCTCACAC
1 GATGC-ATGTCCCAGACATGGTCTTACAC
101983506 CGGCTTACAC
Statistics
Matches: 137, Mismatches: 17, Indels: 29
0.75 0.09 0.16
Matches are distributed among these distances:
44 6 0.04
45 2 0.01
46 55 0.40
47 58 0.42
48 12 0.09
49 2 0.01
50 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGGTCTTACACTGGCACTATCTCAATACC
Found at i:101983492 original size:93 final size:92
Alignment explanation
Indices: 101983288--101983514 Score: 230
Period size: 93 Copynumber: 2.4 Consensus size: 92
101983278 GGGTAAGGTT
* * * *
101983288 CTGATGCCATGTCCCAGACATGGTCTTACATTGGCTCATATCTCAAGTCGAAGCCATGTCCCAGA
1 CTGATG-CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCAAGCCGAAGCCATGTCCCAGA
101983353 CATGGTCTTACACTGACTATCGTTTCATAG
65 CATGGTCTTACACTGACTATC--TTCATAG
* * * * * *
101983383 CCGACGCATGTTCCAGACAT-GTCTTACACTGGCTTACGTCTCGAGGCCGATG-CATGTCCCAGA
1 CTGATGCATGTCCCAGACATGGTCTTACACTGGCTTACATCTC-AAGCCGAAGCCATGTCCCAGA
101983446 CAT-GTCTTACACTAGCACTCATC-TCAATA-
65 CATGGTCTTACACT-G-ACT-ATCTTC-ATAG
* *
101983475 CTGATGCTATGTCCCAGACATGGTCTCACACCGGCTTACA
1 CTGATGC-ATGTCCCAGACATGGTCTTACACTGGCTTACA
101983515 CAAGTGACCA
Statistics
Matches: 109, Mismatches: 16, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
92 17 0.16
93 48 0.44
94 37 0.34
95 7 0.06
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (92 bp):
CTGATGCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCAAGCCGAAGCCATGTCCCAGAC
ATGGTCTTACACTGACTATCTTCATAG
Found at i:101983911 original size:30 final size:30
Alignment explanation
Indices: 101983876--101984039 Score: 328
Period size: 30 Copynumber: 5.5 Consensus size: 30
101983866 CATATTTGGT
101983876 AAAATGACCATTTTGCCGCTCGACCTTGAC
1 AAAATGACCATTTTGCCGCTCGACCTTGAC
101983906 AAAATGACCATTTTGCCGCTCGACCTTGAC
1 AAAATGACCATTTTGCCGCTCGACCTTGAC
101983936 AAAATGACCATTTTGCCGCTCGACCTTGAC
1 AAAATGACCATTTTGCCGCTCGACCTTGAC
101983966 AAAATGACCATTTTGCCGCTCGACCTTGAC
1 AAAATGACCATTTTGCCGCTCGACCTTGAC
101983996 AAAATGACCATTTTGCCGCTCGACCTTGAC
1 AAAATGACCATTTTGCCGCTCGACCTTGAC
101984026 AAAATGACCATTTT
1 AAAATGACCATTTT
101984040 ACCCCTAGAC
Statistics
Matches: 134, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 134 1.00
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (30 bp):
AAAATGACCATTTTGCCGCTCGACCTTGAC
Found at i:101997798 original size:49 final size:49
Alignment explanation
Indices: 101997723--101997818 Score: 165
Period size: 49 Copynumber: 2.0 Consensus size: 49
101997713 AGGTTGCCTT
* * *
101997723 TTCCTGTCAACAAATCTTGGAGAGCTCAAGAGAGGCTCCAACTGGTCCA
1 TTCCTGTCAACAAAGCTTGGAAAGCTCAAAAGAGGCTCCAACTGGTCCA
101997772 TTCCTGTCAACAAAGCTTGGAAAGCTCAAAAGAGGCTCCAACTGGTC
1 TTCCTGTCAACAAAGCTTGGAAAGCTCAAAAGAGGCTCCAACTGGTC
101997819 TATACAGACA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (49 bp):
TTCCTGTCAACAAAGCTTGGAAAGCTCAAAAGAGGCTCCAACTGGTCCA
Found at i:102000553 original size:43 final size:43
Alignment explanation
Indices: 102000502--102000671 Score: 277
Period size: 43 Copynumber: 4.0 Consensus size: 43
102000492 GCATTACGCT
* *
102000502 TGCTAGGCACAAAGGCCCGAATACACATCACCGGCATGAAGCC
1 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCC
***
102000545 TAAAAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCC
1 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCC
*
102000588 TGCTAGGCACGAAGGCCCGAATACACATCGCCGGCACGAAGCC
1 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCC
*
102000631 TGCTAGGCACGAAGGCCCGAATACACATCGCCGGCACGAAG
1 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
102000672 TCCCTGATAT
Statistics
Matches: 118, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 118 1.00
ACGTcount: A:0.32, C:0.33, G:0.26, T:0.09
Consensus pattern (43 bp):
TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCC
Found at i:102000794 original size:38 final size:40
Alignment explanation
Indices: 102000752--102000826 Score: 109
Period size: 38 Copynumber: 1.9 Consensus size: 40
102000742 CCGAATATAA
* *
102000752 TACCAGCACTAGGCCTGCGGG-ATTTAA-CCCGGATATTT
1 TACCAGCACGAAGCCTGCGGGTATTTAAGCCCGGATATTT
*
102000790 TACCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATA
1 TACCAGCACGAAGCCTGCGGGTATTTAAGCCCGGATA
102000827 CACATCAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
38 19 0.59
39 5 0.16
40 8 0.25
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
TACCAGCACGAAGCCTGCGGGTATTTAAGCCCGGATATTT
Found at i:102007968 original size:87 final size:87
Alignment explanation
Indices: 102007829--102008002 Score: 348
Period size: 87 Copynumber: 2.0 Consensus size: 87
102007819 CAAACAAAGC
102007829 CAAGTCAAATAGGCATTTTTAACATCTAGCACCCAGCTTTTACATTTTACGCGATTTGGTCCTTT
1 CAAGTCAAATAGGCATTTTTAACATCTAGCACCCAGCTTTTACATTTTACGCGATTTGGTCCTTT
102007894 TTGCAAATTAAGCACACAAACA
66 TTGCAAATTAAGCACACAAACA
102007916 CAAGTCAAATAGGCATTTTTAACATCTAGCACCCAGCTTTTACATTTTACGCGATTTGGTCCTTT
1 CAAGTCAAATAGGCATTTTTAACATCTAGCACCCAGCTTTTACATTTTACGCGATTTGGTCCTTT
102007981 TTGCAAATTAAGCACACAAACA
66 TTGCAAATTAAGCACACAAACA
102008003 GTTAAATTTC
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 87 1.00
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (87 bp):
CAAGTCAAATAGGCATTTTTAACATCTAGCACCCAGCTTTTACATTTTACGCGATTTGGTCCTTT
TTGCAAATTAAGCACACAAACA
Found at i:102010954 original size:41 final size:41
Alignment explanation
Indices: 102010894--102011018 Score: 225
Period size: 41 Copynumber: 3.0 Consensus size: 41
102010884 TGATTTTTGT
*
102010894 TACTTAGTTACACTGGAACTAAGATAGTAATGTATTTGATG
1 TACTTAGTTACACTAGAACTAAGATAGTAATGTATTTGATG
102010935 TACTTAGTTACACTAGAACTAAGATAGTAATGTATTTGATG
1 TACTTAGTTACACTAGAACTAAGATAGTAATGTATTTGATG
102010976 TACTTAGTTACACTAGAACTAAG-TCAGTAATGTATTTGATG
1 TACTTAGTTACACTAGAACTAAGAT-AGTAATGTATTTGATG
102011017 TA
1 TA
102011019 ATTTGGTGCT
Statistics
Matches: 82, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
40 1 0.01
41 81 0.99
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (41 bp):
TACTTAGTTACACTAGAACTAAGATAGTAATGTATTTGATG
Found at i:102011866 original size:41 final size:41
Alignment explanation
Indices: 102011815--102011897 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
102011805 ACAAAACCAA
*
102011815 ATGATCCAAAAGGAAACCAGATATGATGTCTACAATGATGC
1 ATGATACAAAAGGAAACCAGATATGATGTCTACAATGATGC
*
102011856 ATGATACAAAAGGAAACCAGATATGATGTCTACAGTGATGC
1 ATGATACAAAAGGAAACCAGATATGATGTCTACAATGATGC
102011897 A
1 A
102011898 ATATAAAACC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.22
Consensus pattern (41 bp):
ATGATACAAAAGGAAACCAGATATGATGTCTACAATGATGC
Found at i:102018256 original size:79 final size:81
Alignment explanation
Indices: 102018147--102018329 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
102018137 TACTCGTTCA
* *
102018147 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
102018210 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
102018227 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
102018290 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
102018306 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
102018330 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:102018329 original size:40 final size:40
Alignment explanation
Indices: 102018126--102018329 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
102018116 CGGAATTTAA
** *
102018126 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
102018166 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
102018206 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
102018245 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
102018285 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
102018325 CCGGA
1 CCGGA
102018330 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:102031890 original size:42 final size:42
Alignment explanation
Indices: 102031831--102031917 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
102031821 TTGTAGCATC
102031831 AGCAATACATAAGAGGCATAGTTGAAATGATATTCTGACAAT
1 AGCAATACATAAGAGGCATAGTTGAAATGATATTCTGACAAT
102031873 AGCAATACATAAGAGGCATAGTTGAAATGATATTCTGACAAT
1 AGCAATACATAAGAGGCATAGTTGAAATGATATTCTGACAAT
102031915 AGC
1 AGC
102031918 CTAACCTTGC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.43, C:0.13, G:0.20, T:0.25
Consensus pattern (42 bp):
AGCAATACATAAGAGGCATAGTTGAAATGATATTCTGACAAT
Found at i:102034649 original size:22 final size:22
Alignment explanation
Indices: 102034623--102034668 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
102034613 AATAATTATG
102034623 TTAATTTAATCATTTTCTTTTT
1 TTAATTTAATCATTTTCTTTTT
102034645 TTAATTTAATCATTTTCTTTTT
1 TTAATTTAATCATTTTCTTTTT
102034667 TT
1 TT
102034669 CTAAGCATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.22, C:0.09, G:0.00, T:0.70
Consensus pattern (22 bp):
TTAATTTAATCATTTTCTTTTT
Found at i:102046906 original size:19 final size:20
Alignment explanation
Indices: 102046865--102046924 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 20
102046855 AAAAATTAAA
102046865 AAAATAATTTTCAAAATTTC
1 AAAATAATTTTCAAAATTTC
102046885 AAAATAATTATT-AAAA-TTC
1 AAAATAATT-TTCAAAATTTC
*
102046904 AAAAT-ATTTCTAAAAATTTC
1 AAAATAATTT-TCAAAATTTC
102046924 A
1 A
102046925 GAATTTATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
17 1 0.03
18 4 0.11
19 12 0.33
20 17 0.47
21 2 0.06
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAATAATTTTCAAAATTTC
Found at i:102047870 original size:19 final size:21
Alignment explanation
Indices: 102047833--102047875 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
102047823 TATATTTAAA
102047833 ATTTTATTTTTGATAAAAAAT
1 ATTTTATTTTTGATAAAAAAT
*
102047854 ATTTTA-TTTT-ATTAAAAAT
1 ATTTTATTTTTGATAAAAAAT
102047873 ATT
1 ATT
102047876 CATTAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.52
20 4 0.19
21 6 0.29
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
ATTTTATTTTTGATAAAAAAT
Found at i:102052500 original size:48 final size:48
Alignment explanation
Indices: 102052435--102052531 Score: 176
Period size: 48 Copynumber: 2.0 Consensus size: 48
102052425 TTTAAGGGGA
*
102052435 AACTATGCATTTTTGGGATTTGTGTGCTCCTTGGTTAGAACCTTTAAG
1 AACTATGCATTTTTGGGATTTGCGTGCTCCTTGGTTAGAACCTTTAAG
*
102052483 AACTATGCGTTTTTGGGATTTGCGTGCTCCTTGGTTAGAACCTTTAAG
1 AACTATGCATTTTTGGGATTTGCGTGCTCCTTGGTTAGAACCTTTAAG
102052531 A
1 A
102052532 GGTCCCAATA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.21, C:0.15, G:0.24, T:0.40
Consensus pattern (48 bp):
AACTATGCATTTTTGGGATTTGCGTGCTCCTTGGTTAGAACCTTTAAG
Found at i:102053783 original size:13 final size:13
Alignment explanation
Indices: 102053765--102053825 Score: 95
Period size: 13 Copynumber: 4.7 Consensus size: 13
102053755 ACACTTAAAT
102053765 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
*
102053778 TTTTCAAAAGCAT
1 TTTTCAAAAGCAC
* *
102053791 TTTTCCACAGCAC
1 TTTTCAAAAGCAC
102053804 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
102053817 TTTTCAAAA
1 TTTTCAAAA
102053826 ACAATGAAGA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.34
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:102054813 original size:4 final size:4
Alignment explanation
Indices: 102054804--102054828 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
102054794 AAAATGAAGG
102054804 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
102054829 AATCAATTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:102057340 original size:46 final size:46
Alignment explanation
Indices: 102057273--102057368 Score: 192
Period size: 46 Copynumber: 2.1 Consensus size: 46
102057263 GATATTAATG
102057273 TTGTGTTTGGTATCTTGATATGGGATTAACCATTATTTTGAATTTA
1 TTGTGTTTGGTATCTTGATATGGGATTAACCATTATTTTGAATTTA
102057319 TTGTGTTTGGTATCTTGATATGGGATTAACCATTATTTTGAATTTA
1 TTGTGTTTGGTATCTTGATATGGGATTAACCATTATTTTGAATTTA
102057365 TTGT
1 TTGT
102057369 TTACTTATAG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 50 1.00
ACGTcount: A:0.23, C:0.06, G:0.20, T:0.51
Consensus pattern (46 bp):
TTGTGTTTGGTATCTTGATATGGGATTAACCATTATTTTGAATTTA
Found at i:102064176 original size:43 final size:43
Alignment explanation
Indices: 102064086--102064250 Score: 167
Period size: 43 Copynumber: 3.9 Consensus size: 43
102064076 TTTTGATATG
* * * *
102064086 TGATTTA-GTGTAAGACCACGTCTGGGACGTTGGCATCAATTTG
1 TGATTTACGTGTAAGACCACGTCTGGGACATTGGCATC-GTATA
* *
102064129 TGATTTACGTGTAAAACCATGTCTGGGACATTGGCATCGTATA
1 TGATTTACGTGTAAGACCACGTCTGGGACATTGGCATCGTATA
* * * *
102064172 TGATTT-CGTGTAAGACC-CTGTCTGAGACAGTGGCTTCGATATT
1 TGATTTACGTGTAAGACCAC-GTCTGGGACATTGGCATCG-TATA
* *
102064215 TGA-TTACATGTAAGACCACGTCAGGGACATTGGCAT
1 TGATTTACGTGTAAGACCACGTCTGGGACATTGGCAT
102064251 TGTACGAGTT
Statistics
Matches: 100, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
42 28 0.28
43 44 0.44
44 28 0.28
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
TGATTTACGTGTAAGACCACGTCTGGGACATTGGCATCGTATA
Found at i:102064219 original size:86 final size:85
Alignment explanation
Indices: 102064086--102064250 Score: 201
Period size: 86 Copynumber: 1.9 Consensus size: 85
102064076 TTTTGATATG
* * *
102064086 TGATTTAGTGTAAGACCACGTCTGGGACGTTGGCATCAATTTGTGATTTACGTGTAAAACCATGT
1 TGATTTAGTGTAAGACCACGTCTGAGACGTTGGCATCAATTTGTGA-TTACATGTAAAACCACGT
*
102064151 CTGGGACATTGGCATCGTATA
65 CAGGGACATTGGCATCGTATA
* * * *
102064172 TGATTTCGTGTAAGACC-CTGTCTGAGACAG-TGGCTTCGATATT-TGATTACATGTAAGACCAC
1 TGATTTAGTGTAAGACCAC-GTCTGAGAC-GTTGGCATCAAT-TTGTGATTACATGTAAAACCAC
102064234 GTCAGGGACATTGGCAT
63 GTCAGGGACATTGGCAT
102064251 TGTACGAGTT
Statistics
Matches: 68, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
85 30 0.44
86 35 0.51
87 3 0.04
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (85 bp):
TGATTTAGTGTAAGACCACGTCTGAGACGTTGGCATCAATTTGTGATTACATGTAAAACCACGTC
AGGGACATTGGCATCGTATA
Found at i:102067226 original size:12 final size:12
Alignment explanation
Indices: 102067211--102067239 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
102067201 ATATATTTAA
102067211 AAATATTAAAAC
1 AAATATTAAAAC
102067223 AAATATTAAAAC
1 AAATATTAAAAC
102067235 AAATA
1 AAATA
102067240 AAATAATACT
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:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (12 bp):
AAATATTAAAAC
Found at i:102067226 original size:24 final size:25
Alignment explanation
Indices: 102067179--102067228 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
102067169 AAATAAAAAA
**
102067179 ATTTAAAAATATAATAAATTAAATAT
1 ATTTAAAAATAT-ATAAAACAAATAT
102067205 ATTTAAAAATAT-TAAAACAAATAT
1 ATTTAAAAATATATAAAACAAATAT
102067229 TAAAACAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 10 0.45
26 12 0.55
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (25 bp):
ATTTAAAAATATATAAAACAAATAT
Found at i:102067285 original size:32 final size:32
Alignment explanation
Indices: 102067212--102067308 Score: 89
Period size: 32 Copynumber: 3.2 Consensus size: 32
102067202 TATATTTAAA
*
102067212 AATATTAAAACAAATATTAAAACAAATAAAAT
1 AATATTAAAACAATTATTAAAACAAATAAAAT
* *
102067244 AATACTAAAACAATTCTTAAAAC-AATACACAA-
1 AATATTAAAACAATTATTAAAACAAATA-A-AAT
* *
102067276 ATTATTAAAATAA-T-TTAAAA-AAATAAAA-
1 AATATTAAAACAATTATTAAAACAAATAAAAT
102067304 AATAT
1 AATAT
102067309 ATATTAATAT
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
28 6 0.11
29 1 0.02
30 10 0.18
31 5 0.09
32 31 0.56
33 2 0.04
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (32 bp):
AATATTAAAACAATTATTAAAACAAATAAAAT
Found at i:102073145 original size:5 final size:5
Alignment explanation
Indices: 102073137--102073167 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
102073127 GATATTATGT
102073137 TATTA TATTA TATTA TATTA TATTA TATTA T
1 TATTA TATTA TATTA TATTA TATTA TATTA T
102073168 GATATTATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATTA
Found at i:102073146 original size:13 final size:13
Alignment explanation
Indices: 102073128--102073176 Score: 62
Period size: 13 Copynumber: 3.6 Consensus size: 13
102073118 TAAGTAAAAG
*
102073128 ATATTATGTTATT
1 ATATTATATTATT
102073141 ATATTATATTATATT
1 ATATTATA-T-TATT
*
102073156 ATATTATATTATG
1 ATATTATATTATT
102073169 ATATTATA
1 ATATTATA
102073177 AACATAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 18 0.56
14 2 0.06
15 12 0.38
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (13 bp):
ATATTATATTATT
Found at i:102073279 original size:13 final size:13
Alignment explanation
Indices: 102073261--102073293 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
102073251 AAAACACGAG
102073261 AAAGAAAG-AAGAA
1 AAAGAAAGAAAG-A
102073274 AAAGAAAGAAAGA
1 AAAGAAAGAAAGA
102073287 AAAGAAA
1 AAAGAAA
102073294 AAGGGAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 16 0.84
14 3 0.16
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (13 bp):
AAAGAAAGAAAGA
Found at i:102074062 original size:19 final size:19
Alignment explanation
Indices: 102074040--102074099 Score: 51
Period size: 19 Copynumber: 3.3 Consensus size: 19
102074030 TATATATATA
102074040 TTGAATATATATTGATTAT
1 TTGAATATATATTGATTAT
102074059 TTGAAT-TGA-ATTGA--AT
1 TTGAATAT-ATATTGATTAT
102074075 TAT-AAGTATAT-TTGATTAT
1 T-TGAA-TATATATTGATTAT
102074094 TTGAAT
1 TTGAAT
102074100 TGAAATATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 17
0.66 0.00 0.34
Matches are distributed among these distances:
16 5 0.15
17 7 0.21
18 9 0.27
19 12 0.36
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (19 bp):
TTGAATATATATTGATTAT
Found at i:102076973 original size:92 final size:92
Alignment explanation
Indices: 102076809--102077025 Score: 317
Period size: 92 Copynumber: 2.4 Consensus size: 92
102076799 GACATGATGT
* *
102076809 CATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTATCATATTGCCATGGTATCTTTCAACCAT
1 CATAGTATCTTTCAACTATGGTCTTACTCATTTCCTATCATATTGCCATGGTATCTTTCAACCAT
**
102076874 AATCTTATTCATTTCTTGTCATGTTGC
66 AATCTTATTCATTTCTCATCATGTTGC
* * * * *
102076901 CATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCAT
1 CATAGTATCTTTCAACTATGGTCTTACTCATTTCCTATCATATTGCCATGGTATCTTTCAACCAT
** *
102076966 GGTCTTATTCATTTCTCATCATTTTGC
66 AATCTTATTCATTTCTCATCATGTTGC
*
102076993 CATAGTATCTTTCAACTATGGTCTTACACATTT
1 CATAGTATCTTTCAACTATGGTCTTACTCATTT
102077026 GAATCGCGAT
Statistics
Matches: 109, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
92 109 1.00
ACGTcount: A:0.21, C:0.23, G:0.12, T:0.45
Consensus pattern (92 bp):
CATAGTATCTTTCAACTATGGTCTTACTCATTTCCTATCATATTGCCATGGTATCTTTCAACCAT
AATCTTATTCATTTCTCATCATGTTGC
Found at i:102077025 original size:46 final size:47
Alignment explanation
Indices: 102076816--102077018 Score: 288
Period size: 46 Copynumber: 4.4 Consensus size: 47
102076806 TGTCATAGTG
* * *
102076816 TCTTTCAACTATGGTCTTACTCATTT-TCTATCATATTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCTCTATCATGTTGCCATGGTA
** *
102076862 TCTTTCAACCATAATCTTATTCATTTCT-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCTCTATCATGTTGCCATGGTA
*
102076908 TCTTTCAACCATGGTCTTATTCATTTC-CTGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCTCTATCATGTTGCCATGGTA
* *
102076954 TCTTTCAACCATGGTCTTATTCATTTCTC-ATCATTTTGCCATAGTA
1 TCTTTCAACCATGGTCTTATTCATTTCTCTATCATGTTGCCATGGTA
*
102077000 TCTTTCAACTATGGTCTTA
1 TCTTTCAACCATGGTCTTA
102077019 CACATTTGAA
Statistics
Matches: 142, Mismatches: 12, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
46 140 0.99
47 2 0.01
ACGTcount: A:0.21, C:0.23, G:0.11, T:0.45
Consensus pattern (47 bp):
TCTTTCAACCATGGTCTTATTCATTTCTCTATCATGTTGCCATGGTA
Found at i:102077057 original size:45 final size:45
Alignment explanation
Indices: 102076990--102077115 Score: 171
Period size: 45 Copynumber: 2.8 Consensus size: 45
102076980 CTCATCATTT
** * *
102076990 TGCCATAGTATCTTTCAACTATGGTCTTACACATTTGAATCGCGA
1 TGCCATAGCGTCTTTCAGCTATGGTCTTACTCATTTGAATCGCGA
* * * *
102077035 TGCCATAGCGTCTTTCAGCTATGGTCTTACTCGTCTGAGTCGTGA
1 TGCCATAGCGTCTTTCAGCTATGGTCTTACTCATTTGAATCGCGA
*
102077080 TGCCATAGCGTCTTTCAGCTATGGTGTTACTCATTT
1 TGCCATAGCGTCTTTCAGCTATGGTCTTACTCATTT
102077116 TTGGTATGAT
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 70 1.00
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (45 bp):
TGCCATAGCGTCTTTCAGCTATGGTCTTACTCATTTGAATCGCGA
Found at i:102083950 original size:16 final size:18
Alignment explanation
Indices: 102083921--102083953 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
102083911 ATCCTTTAAG
102083921 TATTATAAAGATGTAAAC
1 TATTATAAAGATGTAAAC
102083939 TATTA-AAA-ATGTAAA
1 TATTATAAAGATGTAAA
102083954 ATTGCATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.55, C:0.03, G:0.09, T:0.33
Consensus pattern (18 bp):
TATTATAAAGATGTAAAC
Found at i:102085555 original size:18 final size:18
Alignment explanation
Indices: 102085508--102085587 Score: 72
Period size: 20 Copynumber: 4.2 Consensus size: 18
102085498 TTATTTAAAT
*
102085508 TTAAAATT-TTAAAAAATA
1 TTAAAATTATTTAAAAA-A
*
102085526 TATAACAATTATTTTAAAAA
1 T-TAA-AATTATTTAAAAAA
102085546 TTAAAATTATTTAAAAAA
1 TTAAAATTATTTAAAAAA
* *
102085564 TTATTTAATTATTAAAAAAA
1 TTA--AAATTATTTAAAAAA
102085584 TTAA
1 TTAA
102085588 GTTGGAGAAC
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
18 17 0.33
19 6 0.12
20 22 0.43
21 6 0.12
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (18 bp):
TTAAAATTATTTAAAAAA
Found at i:102085574 original size:38 final size:38
Alignment explanation
Indices: 102085488--102085587 Score: 96
Period size: 38 Copynumber: 2.6 Consensus size: 38
102085478 CACATCAGTA
*
102085488 ATTAATTATTTTATTTAAATTTAAAATTTTAAAAAATATAT
1 ATTAATTATTTTA---AAAATTAAAATTTTAAAAAATATAT
**
102085529 AACAATTATTTTAAAAATTAAAATTATTTAAAAAAT-TAT
1 ATTAATTATTTTAAAAATTAAAA-T-TTTAAAAAATATAT
**
102085568 -TTAATTATTAAAAAAATTAA
1 ATTAATTATTTTAAAAATTAA
102085588 GTTGGAGAAC
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
38 25 0.50
39 4 0.08
40 10 0.20
41 11 0.22
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (38 bp):
ATTAATTATTTTAAAAATTAAAATTTTAAAAAATATAT
Found at i:102086534 original size:20 final size:20
Alignment explanation
Indices: 102086509--102086547 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
102086499 TTCCGAATTT
*
102086509 CAAACTCTAAACCCTAAACA
1 CAAACTCCAAACCCTAAACA
*
102086529 CAAACTCCAAACCTTAAAC
1 CAAACTCCAAACCCTAAAC
102086548 TTGAACCTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.36, G:0.00, T:0.15
Consensus pattern (20 bp):
CAAACTCCAAACCCTAAACA
Found at i:102086796 original size:14 final size:14
Alignment explanation
Indices: 102086777--102086807 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
102086767 TTAATTGATT
102086777 TTTAATTAATTAAA
1 TTTAATTAATTAAA
*
102086791 TTTAATTAATTGAA
1 TTTAATTAATTAAA
102086805 TTT
1 TTT
102086808 TCTAAATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (14 bp):
TTTAATTAATTAAA
Found at i:102091263 original size:95 final size:98
Alignment explanation
Indices: 102091111--102091317 Score: 237
Period size: 95 Copynumber: 2.1 Consensus size: 98
102091101 ATTTTTAAAT
* * *** *
102091111 TTTAGGG-TTTTAAGGAAAAAAATTAAATAAATTAGGGTTTAGTGTTTGTTAATTAAATTAATTA
1 TTTAGGGTTTTTAAGG-AAAAAATCAAATAAATTAGGGTTTAGGGTTACCTAAGTAAATTAATTA
*
102091175 CT-AA-TTTT-AAAAAATTAGATTATGG-TTTAGTG
65 -TAAATTTTTAAAAAAATTAGATTA-GGATTTAGGG
* *
102091207 TTTATGGTTTTTAAGG-AAAAATCAAATAAATTAGGGTTTAGGGTTACCTGAGTAAATTAATTAT
1 TTTAGGGTTTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACCTAAGTAAATTAATTAT
102091271 AAATTTTTTAAAAAAAATTAGATTAGGATTTTAGGG
66 AAA-TTTTT-AAAAAAATTAGATTAGGA-TTTAGGG
102091307 TTTAGGGTTTT
1 TTTAGGGTTTT
102091318 AGGGTATTTA
Statistics
Matches: 93, Mismatches: 10, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
94 1 0.01
95 42 0.45
96 6 0.06
97 12 0.13
98 2 0.02
99 14 0.15
100 16 0.17
ACGTcount: A:0.38, C:0.02, G:0.18, T:0.42
Consensus pattern (98 bp):
TTTAGGGTTTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACCTAAGTAAATTAATTAT
AAATTTTTAAAAAAATTAGATTAGGATTTAGGG
Found at i:102091317 original size:15 final size:15
Alignment explanation
Indices: 102091293--102091322 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
102091283 AAAAATTAGA
102091293 TTAGGATTTTAGGGT
1 TTAGGATTTTAGGGT
*
102091308 TTAGGGTTTTAGGGT
1 TTAGGATTTTAGGGT
102091323 ATTTAAGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (15 bp):
TTAGGATTTTAGGGT
Found at i:102091621 original size:126 final size:126
Alignment explanation
Indices: 102091391--102091690 Score: 455
Period size: 126 Copynumber: 2.4 Consensus size: 126
102091381 ATTTGTTAAT
* * *
102091391 CTAAAA-AAGCTTCTACGTGAACGCTCTTTTGCTACAGTAGTCTCTG-AAAAATAATTTTGAGAA
1 CTAAAAGAAGCTCCTACGTGGACGCTCTTTTGCTACAGTGGTCTCTGAAAAAATAATTTTGAGAA
* * * *
102091454 GACGTGTTTGCGTAAATAGTGGTAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAATTA
66 GACATGTCTGCATAAATAGTGGTAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAATA
** *
102091515 CTGGAAGAAGCTCCTACGTGGATGCTCTTTTGCTACAGTGGTCTCTGAAAAAATAATTTTGAGAA
1 CTAAAAGAAGCTCCTACGTGGACGCTCTTTTGCTACAGTGGTCTCTGAAAAAATAATTTTGAGAA
102091580 GACATGTCTGCATAAATAGT-GTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAATA
66 GACATGTCTGCATAAATAGTGGT-AAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAATA
* *
102091641 CTAAAAGAAGCTCCCACGTGGACGCTCTTTTGCTACAGTGGTTTCT-AAAA
1 CTAAAAGAAGCTCCTACGTGGACGCTCTTTTGCTACAGTGGTCTCTGAAAA
102091691 TAACTTGGGC
Statistics
Matches: 158, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
124 4 0.03
125 42 0.27
126 112 0.71
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (126 bp):
CTAAAAGAAGCTCCTACGTGGACGCTCTTTTGCTACAGTGGTCTCTGAAAAAATAATTTTGAGAA
GACATGTCTGCATAAATAGTGGTAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAATA
Found at i:102093410 original size:43 final size:43
Alignment explanation
Indices: 102093349--102093434 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
102093339 AGCTTTAAGC
102093349 AATGCCGAGACGCATTTGCATATTGTAAGCCATTGGTACAAAT
1 AATGCCGAGACGCATTTGCATATTGTAAGCCATTGGTACAAAT
102093392 AATGCCGAGACGCATTTGCATATTGTAAGCCATTGGTACAAAT
1 AATGCCGAGACGCATTTGCATATTGTAAGCCATTGGTACAAAT
102093435 TGATGGTACC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (43 bp):
AATGCCGAGACGCATTTGCATATTGTAAGCCATTGGTACAAAT
Found at i:102094932 original size:116 final size:116
Alignment explanation
Indices: 102094723--102094953 Score: 444
Period size: 116 Copynumber: 2.0 Consensus size: 116
102094713 TATTTATATT
*
102094723 TTATTACATGAAATAATATAAAAATATTCAAAATATTGCTTTATTTAAAATAATTTTCATTTTAT
1 TTATCACATGAAATAATATAAAAATATTCAAAATATTGCTTTATTTAAAATAATTTTCATTTTAT
102094788 TAAAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATA
66 TAAAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATA
102094839 TTATCACATGAAATAATATAAAAATATTCAAAATATTGCTTTATTTAAAATAATTTTCATTTTAT
1 TTATCACATGAAATAATATAAAAATATTCAAAATATTGCTTTATTTAAAATAATTTTCATTTTAT
*
102094904 TAAAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTAT
66 TAAAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTAT
102094954 NNNNNNNNNN
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
116 113 1.00
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (116 bp):
TTATCACATGAAATAATATAAAAATATTCAAAATATTGCTTTATTTAAAATAATTTTCATTTTAT
TAAAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATA
Found at i:102096906 original size:15 final size:15
Alignment explanation
Indices: 102096886--102096916 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
102096876 TTTTTATTTT
*
102096886 AAAAAATAAATTTAG
1 AAAAAATAAAATTAG
102096901 AAAAAATAAAATTAG
1 AAAAAATAAAATTAG
102096916 A
1 A
102096917 GCTTTTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (15 bp):
AAAAAATAAAATTAG
Found at i:102099272 original size:6 final size:6
Alignment explanation
Indices: 102099261--102099287 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
102099251 TGGTTTAATC
102099261 TTTCTT TTTCTT TTTCTT TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTT
102099288 TTTAGTTTTT
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:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:102100603 original size:20 final size:20
Alignment explanation
Indices: 102100578--102100620 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
102100568 ATCAGTATTC
*
102100578 TTATCCTGAATTTTAGGATT
1 TTATCCTGAATTTCAGGATT
*
102100598 TTATCCTGAATTTCAGTATT
1 TTATCCTGAATTTCAGGATT
102100618 TTA
1 TTA
102100621 ATTTGAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.26, C:0.12, G:0.12, T:0.51
Consensus pattern (20 bp):
TTATCCTGAATTTCAGGATT
Found at i:102111492 original size:22 final size:22
Alignment explanation
Indices: 102111467--102111513 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
102111457 GAAAAAAAAT
102111467 GTTTAAACACATTTAAAATAGA
1 GTTTAAACACATTTAAAATAGA
102111489 GTTTAAACACATTTAAAATAGA
1 GTTTAAACACATTTAAAATAGA
102111511 GTT
1 GTT
102111514 CATGAACCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.47, C:0.09, G:0.11, T:0.34
Consensus pattern (22 bp):
GTTTAAACACATTTAAAATAGA
Found at i:102125924 original size:16 final size:16
Alignment explanation
Indices: 102125900--102125930 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
102125890 TAAGTAAATA
*
102125900 AAATGAAATAAAGAAT
1 AAATAAAATAAAGAAT
102125916 AAATAAAATAAAGAA
1 AAATAAAATAAAGAA
102125931 ACAAAAGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.16
Consensus pattern (16 bp):
AAATAAAATAAAGAAT
Found at i:102126012 original size:14 final size:13
Alignment explanation
Indices: 102125968--102126005 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
102125958 AGAATCAAAC
*
102125968 GAAATAGAAAGAAA
1 GAAAGAGAAA-AAA
102125982 GAAAGAGAAAAAA
1 GAAAGAGAAAAAA
102125995 GAAA-AGAAAAA
1 GAAAGAGAAAAA
102126006 TGAGAAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 7 0.30
13 7 0.30
14 9 0.39
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (13 bp):
GAAAGAGAAAAAA
Found at i:102127353 original size:13 final size:13
Alignment explanation
Indices: 102127332--102127363 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
102127322 TTTGGTTTGA
*
102127332 ATTTATATGTATG
1 ATTTGTATGTATG
102127345 ATTTGTATGTATG
1 ATTTGTATGTATG
102127358 ATTTGT
1 ATTTGT
102127364 TAATTATGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.25, C:0.00, G:0.19, T:0.56
Consensus pattern (13 bp):
ATTTGTATGTATG
Found at i:102127402 original size:26 final size:22
Alignment explanation
Indices: 102127348--102127401 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
102127338 ATGTATGATT
102127348 TGTATGTATGATTTGTTAATTA
1 TGTATGTATGATTTGTTAATTA
102127370 TGTATGTATGATTTGTTAATTA
1 TGTATGTATGATTTGTTAATTA
*
102127392 TCTATGTATG
1 TGTATGTATG
102127402 TTATGATATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.26, C:0.02, G:0.19, T:0.54
Consensus pattern (22 bp):
TGTATGTATGATTTGTTAATTA
Found at i:102127904 original size:20 final size:20
Alignment explanation
Indices: 102127875--102127921 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
102127865 AGGTTAGTCC
* *
102127875 CACGGCCATGTCTCAGGCCA
1 CACGGGCATGTCCCAGGCCA
*
102127895 CACGGGCATGTCCCAGGTCA
1 CACGGGCATGTCCCAGGCCA
102127915 CACGGGC
1 CACGGGC
102127922 GTGTGCCCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.19, C:0.38, G:0.30, T:0.13
Consensus pattern (20 bp):
CACGGGCATGTCCCAGGCCA
Found at i:102132457 original size:9 final size:9
Alignment explanation
Indices: 102132445--102132486 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
102132435 TTCAAATCTC
102132445 TCAAAACCT
1 TCAAAACCT
102132454 TCAAAA-CT
1 TCAAAACCT
*
102132462 TCAAAATCT
1 TCAAAACCT
*
102132471 CCCAAAACCT
1 -TCAAAACCT
102132481 TCAAAA
1 TCAAAA
102132487 GTATCATAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
8 8 0.29
9 13 0.46
10 7 0.25
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (9 bp):
TCAAAACCT
Found at i:102134123 original size:19 final size:19
Alignment explanation
Indices: 102134078--102134122 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
102134068 CAGTATAAAA
102134078 ATATGTTTAATGTTATTAAT
1 ATAT-TTTAATGTTATTAAT
102134098 ATATTTTAAT-TTATT-AT
1 ATATTTTAATGTTATTAAT
102134115 ATAATTTT
1 AT-ATTTT
102134123 TTTTCTTGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.17
18 10 0.42
19 6 0.25
20 4 0.17
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (19 bp):
ATATTTTAATGTTATTAAT
Found at i:102137400 original size:25 final size:23
Alignment explanation
Indices: 102137348--102137402 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
102137338 TATAAATAGT
102137348 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
102137371 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
102137396 AATAGTG
1 AATAGTG
102137403 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:102137522 original size:22 final size:24
Alignment explanation
Indices: 102137464--102137531 Score: 77
Period size: 25 Copynumber: 2.9 Consensus size: 24
102137454 ATAGATATAA
* *
102137464 AAAAATATGTACATAATATAGTGT
1 AAAAATATATACATAATATAATGT
*
102137488 AAAAAATACATACATAATATAAT-T
1 -AAAAATATATACATAATATAATGT
*
102137512 -AAAATATATACATAAGATAA
1 AAAAATATATACATAATATAA
102137532 CATGTAGAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
22 18 0.47
24 1 0.03
25 19 0.50
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (24 bp):
AAAAATATATACATAATATAATGT
Found at i:102137578 original size:77 final size:80
Alignment explanation
Indices: 102137434--102137581 Score: 185
Period size: 77 Copynumber: 1.9 Consensus size: 80
102137424 AGATATATAT
* * * * * *
102137434 AATATATACATATGTATAAAATAGATATAAAAAAATATGTACATAATATAGTGTAAAAAATACAT
1 AATATATACATAAGTATAAAATAGATAGAAAAAAAAATATAAATAATATAGTATAAAAAATACAT
102137499 ACATAATATAATTAA
66 ACATAATATAATTAA
* * * *
102137514 AATATATACATAAG-ATAACAT-G-TAGAAAAAAAAATATAAATAATATAGTATTAAAGATATAT
1 AATATATACATAAGTATAAAATAGATAGAAAAAAAAATATAAATAATATAGTATAAAAAATACAT
102137576 ACATAA
66 ACATAA
102137582 AATAGTATAG
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
77 38 0.66
78 1 0.02
79 6 0.10
80 13 0.22
ACGTcount: A:0.59, C:0.05, G:0.07, T:0.30
Consensus pattern (80 bp):
AATATATACATAAGTATAAAATAGATAGAAAAAAAAATATAAATAATATAGTATAAAAAATACAT
ACATAATATAATTAA
Found at i:102137971 original size:16 final size:16
Alignment explanation
Indices: 102137933--102137971 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
102137923 CTCCAAAAAA
*
102137933 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
102137949 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
102137965 AATAACT
1 AAAAACT
102137972 CTTCTCCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:102138157 original size:18 final size:18
Alignment explanation
Indices: 102138134--102138187 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
102138124 ACAAGTGGTG
102138134 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
*
102138152 GTGGAG-TAG-GT-G---
1 GTGGAGCAAGTGTGGCTA
102138164 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
102138182 GTGGAG
1 GTGGAG
102138188 TTGGTGGTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 6 0.21
13 2 0.07
14 2 0.07
15 2 0.07
16 2 0.07
17 2 0.07
18 12 0.43
ACGTcount: A:0.20, C:0.07, G:0.50, T:0.22
Consensus pattern (18 bp):
GTGGAGCAAGTGTGGCTA
Found at i:102138166 original size:30 final size:30
Alignment explanation
Indices: 102138130--102138197 Score: 127
Period size: 30 Copynumber: 2.3 Consensus size: 30
102138120 AGGTACAAGT
102138130 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
*
102138160 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTT
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
102138190 GGTGGTGG
1 GGTGGTGG
102138198 CAAAGGCTAG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.16, C:0.06, G:0.53, T:0.25
Consensus pattern (30 bp):
GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
Found at i:102138465 original size:17 final size:17
Alignment explanation
Indices: 102138445--102138505 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
102138435 ATTTCAAGGC
102138445 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
* * ***
102138462 TTATTTAGTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
102138481 CTTATGTAATGTTTTTAA
1 -TTATGTAATGTTTTTAA
102138499 TTATGTA
1 TTATGTA
102138506 GTAATTCAAA
Statistics
Matches: 31, Mismatches: 10, Indels: 6
0.66 0.21 0.13
Matches are distributed among these distances:
17 15 0.48
18 4 0.13
19 4 0.13
20 8 0.26
ACGTcount: A:0.31, C:0.03, G:0.13, T:0.52
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:102138485 original size:37 final size:37
Alignment explanation
Indices: 102138419--102138545 Score: 177
Period size: 37 Copynumber: 3.4 Consensus size: 37
102138409 AAGACTTACA
* *
102138419 TTTTAATTATGT-GTTAATTTC-AAGGCTTATGTAATGT
1 TTTTAATTATGTAG-TGA-TTCAAAGACTTATGTAATGT
*
102138456 TTTTAATTATTTAGTGATTCAAAGACTTATGTAATGT
1 TTTTAATTATGTAGTGATTCAAAGACTTATGTAATGT
* *
102138493 TTTTAATTATGTAGTAATTCAAAGACTTATGTAATAT
1 TTTTAATTATGTAGTGATTCAAAGACTTATGTAATGT
102138530 TTTTAATTATGTAGTG
1 TTTTAATTATGTAGTG
102138546 TAGTGATTCA
Statistics
Matches: 81, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
36 3 0.04
37 77 0.95
38 1 0.01
ACGTcount: A:0.31, C:0.05, G:0.14, T:0.50
Consensus pattern (37 bp):
TTTTAATTATGTAGTGATTCAAAGACTTATGTAATGT
Found at i:102138539 original size:17 final size:17
Alignment explanation
Indices: 102138482--102138542 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
102138472 ATTCAAAGAC
*
102138482 TTATGTAATGTTTTTAA
1 TTATGTAATATTTTTAA
* ***
102138499 TTATGTAGTAATTCAAAGA
1 TTATGTAAT-ATTTTTA-A
102138518 CTTATGTAATATTTTTAA
1 -TTATGTAATATTTTTAA
102138536 TTATGTA
1 TTATGTA
102138543 GTGTAGTGAT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 15 0.47
18 4 0.12
19 5 0.16
20 8 0.25
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.51
Consensus pattern (17 bp):
TTATGTAATATTTTTAA
Found at i:102138567 original size:9 final size:9
Alignment explanation
Indices: 102138555--102138621 Score: 89
Period size: 9 Copynumber: 7.4 Consensus size: 9
102138545 GTAGTGATTC
*
102138555 AATTCGGTC
1 AATTCGGTT
*
102138564 AATTCGGTC
1 AATTCGGTT
102138573 AATTCGGTT
1 AATTCGGTT
*
102138582 AATTCTGTT
1 AATTCGGTT
102138591 AATTCGGTT
1 AATTCGGTT
* *
102138600 AATCCGGGT
1 AATTCGGTT
102138609 AATTCGGTT
1 AATTCGGTT
102138618 AATT
1 AATT
102138622 TTTAACCAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 51 1.00
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.40
Consensus pattern (9 bp):
AATTCGGTT
Found at i:102149572 original size:37 final size:36
Alignment explanation
Indices: 102149510--102149585 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
102149500 GGTAATCACT
*
102149510 TTAATATTAAATTAATAAAATACTATTAAGATAAGTA
1 TTAATATTAAATTAATAAAATACTATTAAAATAA-TA
*
102149547 TTAA-ATTAAATTTAATATTAA-ACTATTAAAATAATA
1 TTAATATTAAA-TTAATA-AAATACTATTAAAATAATA
102149583 TTA
1 TTA
102149586 TTTTTGGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 11 0.31
37 22 0.63
38 2 0.06
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (36 bp):
TTAATATTAAATTAATAAAATACTATTAAAATAATA
Found at i:102150013 original size:19 final size:19
Alignment explanation
Indices: 102149989--102150040 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 19
102149979 AAAATATCAT
*
102149989 ATTAATTTTACTTAACTTG
1 ATTAATTTAACTTAACTTG
* *
102150008 ATTAATTTAATTTAATTTG
1 ATTAATTTAACTTAACTTG
102150027 ATTAATTTAA-TTAA
1 ATTAATTTAACTTAA
102150041 TTTTTCAAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 4 0.13
19 26 0.87
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (19 bp):
ATTAATTTAACTTAACTTG
Found at i:102150031 original size:9 final size:9
Alignment explanation
Indices: 102149989--102150043 Score: 56
Period size: 9 Copynumber: 5.9 Consensus size: 9
102149979 AAAATATCAT
102149989 ATTAATTTTA
1 ATTAA-TTTA
* * *
102149999 CTTAACTTG
1 ATTAATTTA
102150008 ATTAATTTA
1 ATTAATTTA
*
102150017 ATTTAATTTG
1 A-TTAATTTA
102150027 ATTAATTTA
1 ATTAATTTA
102150036 ATTAATTT
1 ATTAATTT
102150044 TTCAAGAAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
9 24 0.67
10 12 0.33
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (9 bp):
ATTAATTTA
Found at i:102159096 original size:43 final size:43
Alignment explanation
Indices: 102159035--102159140 Score: 131
Period size: 43 Copynumber: 2.5 Consensus size: 43
102159025 CACCATTTTT
* * * *
102159035 TGGACAAACTACCAGTAATTGGAGTCAAGTTGCCAAAAATATG
1 TGGACAAACCACCAGTAATTGCAGTCAAGCTACCAAAAATATG
* * * *
102159078 TGGACAAGCCACCAGTAATTGCATTCAAGCTACTAGAAATATG
1 TGGACAAACCACCAGTAATTGCAGTCAAGCTACCAAAAATATG
*
102159121 TGGACAAACCACTAGTAATT
1 TGGACAAACCACCAGTAATT
102159141 ACAAATAAAT
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 53 1.00
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.24
Consensus pattern (43 bp):
TGGACAAACCACCAGTAATTGCAGTCAAGCTACCAAAAATATG
Found at i:102159189 original size:40 final size:39
Alignment explanation
Indices: 102159071--102159229 Score: 135
Period size: 40 Copynumber: 3.9 Consensus size: 39
102159061 AAGTTGCCAA
*
102159071 AAATATGTGGACAAGCCACCAGTAATTGCAT-TCAAGCTACTAG
1 AAATATGTGGACAAGCCACCAGTAATTGCATAT-AA---A-TTG
* * * *
102159114 AAATATGTGGACAAACCACTAGTAATTACAAATAAATTG
1 AAATATGTGGACAAGCCACCAGTAATTGCATATAAATTG
*
102159153 ATAATATTGTGGACAAGCCACCAGT-ATTGCATATAAACTG
1 A-AATA-TGTGGACAAGCCACCAGTAATTGCATATAAATTG
* * *
102159193 CCAATATTGTGGATAAGCCACCAGT-ATTGCAGATAAA
1 -AAATA-TGTGGACAAGCCACCAGTAATTGCATATAAA
102159230 CTATCAGTAC
Statistics
Matches: 99, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
39 3 0.03
40 50 0.51
41 16 0.16
43 29 0.29
44 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.25
Consensus pattern (39 bp):
AAATATGTGGACAAGCCACCAGTAATTGCATATAAATTG
Found at i:102159220 original size:20 final size:20
Alignment explanation
Indices: 102159157--102159221 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
102159147 AAATTGATAA
*
102159157 TATTGTGGACAAGCCACCAG
1 TATTGTGGATAAGCCACCAG
*** * ** *
102159177 TATTGCATATAAACTGCCAA
1 TATTGTGGATAAGCCACCAG
102159197 TATTGTGGATAAGCCACCAG
1 TATTGTGGATAAGCCACCAG
102159217 TATTG
1 TATTG
102159222 CAGATAAACT
Statistics
Matches: 30, Mismatches: 15, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (20 bp):
TATTGTGGATAAGCCACCAG
Found at i:102159227 original size:20 final size:20
Alignment explanation
Indices: 102159167--102159228 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 20
102159157 TATTGTGGAC
*
102159167 AAGCCACCAGTATTGCATAT
1 AAGCCACCAGTATTGCAGAT
* ** * **
102159187 AAACTGCCAATATTGTGGAT
1 AAGCCACCAGTATTGCAGAT
102159207 AAGCCACCAGTATTGCAGAT
1 AAGCCACCAGTATTGCAGAT
102159227 AA
1 AA
102159229 ACTATCAGTA
Statistics
Matches: 29, Mismatches: 13, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (20 bp):
AAGCCACCAGTATTGCAGAT
Found at i:102159230 original size:40 final size:40
Alignment explanation
Indices: 102159115--102159231 Score: 137
Period size: 40 Copynumber: 2.9 Consensus size: 40
102159105 AGCTACTAGA
* * * * * **
102159115 AATA-TGTGGACAAACCACTAGTAATTACAAATAAATTGAT
1 AATATTGTGGACAAGCCACCAGT-ATTGCAGATAAACTGCC
*
102159155 AATATTGTGGACAAGCCACCAGTATTGCATATAAACTGCC
1 AATATTGTGGACAAGCCACCAGTATTGCAGATAAACTGCC
*
102159195 AATATTGTGGATAAGCCACCAGTATTGCAGATAAACT
1 AATATTGTGGACAAGCCACCAGTATTGCAGATAAACT
102159232 ATCAGTACTT
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
40 51 0.76
41 16 0.24
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.26
Consensus pattern (40 bp):
AATATTGTGGACAAGCCACCAGTATTGCAGATAAACTGCC
Found at i:102161964 original size:33 final size:33
Alignment explanation
Indices: 102161927--102162049 Score: 101
Period size: 33 Copynumber: 3.8 Consensus size: 33
102161917 TACCCAAATG
* * *
102161927 GTACAACTTGAAAAGGTTATGTACACTTTGTGT
1 GTACCACTTGAAAAGGTAAGGTACACTTTGTGT
* * *
102161960 GTA-CACTT-AGAAATGTTAGGTATACTTTGTGT
1 GTACCACTTGA-AAAGGTAAGGTACACTTTGTGT
* * *
102161992 ATACCA-TATGAAAAGGAAAGGTATACTTTGTGT
1 GTACCACT-TGAAAAGGTAAGGTACACTTTGTGT
* *
102162025 GTACCACTTGGAAAGG-AATGTACAC
1 GTACCACTTGAAAAGGTAAGGTACAC
102162050 CTCAAGTGTA
Statistics
Matches: 73, Mismatches: 12, Indels: 11
0.76 0.12 0.11
Matches are distributed among these distances:
31 1 0.01
32 33 0.45
33 37 0.51
34 2 0.03
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (33 bp):
GTACCACTTGAAAAGGTAAGGTACACTTTGTGT
Found at i:102163731 original size:23 final size:23
Alignment explanation
Indices: 102163677--102163737 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 23
102163667 GACACATAAA
*
102163677 GTGCCT-AAA-ACGACACAGGAG
1 GTGCCTGAAATACGACACACGAG
102163698 GTGCCTG--ATACGACACACGAG
1 GTGCCTGAAATACGACACACGAG
102163719 GTGCCTGAAATACGACACA
1 GTGCCTGAAATACGACACA
102163738 TAAAGTGCCT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
20 1 0.03
21 24 0.69
23 10 0.29
ACGTcount: A:0.34, C:0.26, G:0.26, T:0.13
Consensus pattern (23 bp):
GTGCCTGAAATACGACACACGAG
Found at i:102163745 original size:23 final size:23
Alignment explanation
Indices: 102163667--102163749 Score: 84
Period size: 21 Copynumber: 3.8 Consensus size: 23
102163657 ATCAGTATAT
102163667 GACACATAAAGTGCCT-AAA-AC
1 GACACATAAAGTGCCTGAAATAC
** *
102163688 GACACAGGAGGTGCCTG--ATAC
1 GACACATAAAGTGCCTGAAATAC
** *
102163709 GACACACGAGGTGCCTGAAATAC
1 GACACATAAAGTGCCTGAAATAC
102163732 GACACATAAAGTGCCTGA
1 GACACATAAAGTGCCTGA
102163750 TCAGTAAAGC
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
20 1 0.02
21 31 0.61
23 19 0.37
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.14
Consensus pattern (23 bp):
GACACATAAAGTGCCTGAAATAC
Found at i:102164145 original size:15 final size:15
Alignment explanation
Indices: 102164120--102164177 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
102164110 TCATATATAT
102164120 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
102164136 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
102164151 AATAATTTCAATCAA
1 TATAAATTCAATCAA
102164166 TATAAATTCAAT
1 TATAAATTCAAT
102164178 AAATTCATCA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:102165285 original size:5 final size:5
Alignment explanation
Indices: 102165275--102165322 Score: 60
Period size: 5 Copynumber: 9.0 Consensus size: 5
102165265 TTACTTATTT
*
102165275 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATATA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
102165323 TCTTTATTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
5 27 0.71
6 7 0.18
7 4 0.11
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:102165317 original size:8 final size:8
Alignment explanation
Indices: 102165282--102165359 Score: 67
Period size: 8 Copynumber: 10.0 Consensus size: 8
102165272 TTTATATAAT
102165282 ATAATAT-
1 ATAATATA
102165289 ATAATATA
1 ATAATATA
102165297 AT-ATACT-
1 ATAATA-TA
102165304 ATAATATA
1 ATAATATA
102165312 AT-A-ATA
1 ATAATATA
* *
102165318 ATATATCTTT
1 ATA-AT-ATA
*
102165328 ATTATATA
1 ATAATATA
102165336 ATAATATA
1 ATAATATA
102165344 ATAATATA
1 ATAATATA
102165352 ATAATATA
1 ATAATATA
102165360 TTAAACATAA
Statistics
Matches: 57, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
6 5 0.09
7 14 0.25
8 33 0.58
9 2 0.04
10 3 0.05
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (8 bp):
ATAATATA
Found at i:102165528 original size:21 final size:22
Alignment explanation
Indices: 102165489--102165539 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
102165479 CATACAATTG
*
102165489 TTAAAATAATATTATAATATCA
1 TTAAAATAATATTACAATATCA
*
102165511 TTAATATAA-ATTACAATAT-A
1 TTAAAATAATATTACAATATCA
*
102165531 ATAAAATAA
1 TTAAAATAA
102165540 ATATATAGTC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 8 0.32
21 9 0.36
22 8 0.32
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (22 bp):
TTAAAATAATATTACAATATCA
Found at i:102165729 original size:19 final size:22
Alignment explanation
Indices: 102165705--102165751 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 22
102165695 ATCATTTTCA
102165705 CTAATTACT-CTTAATT-AAG-
1 CTAATTACTACTTAATTAAAGT
*
102165724 CTAATT-TTACTTAATTAAAGT
1 CTAATTACTACTTAATTAAAGT
102165745 CTAATTA
1 CTAATTA
102165752 ACCACTCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 1 0.04
19 13 0.57
20 3 0.13
21 6 0.26
ACGTcount: A:0.38, C:0.13, G:0.04, T:0.45
Consensus pattern (22 bp):
CTAATTACTACTTAATTAAAGT
Found at i:102171717 original size:42 final size:42
Alignment explanation
Indices: 102171664--102171814 Score: 162
Period size: 42 Copynumber: 3.6 Consensus size: 42
102171654 ACTAAGACTA
* *
102171664 CGTGTAAGACCATATTTGGGATATGGTATCAATAG-GAGACTTT
1 CGTGTAAGACCATATCTGGGATATGGCATCAAT-GTGAGA-TTT
*
102171707 -GTGTAAGACCATATCTGGGATATGGCATCTATGTGAGATTT
1 CGTGTAAGACCATATCTGGGATATGGCATCAATGTGAGATTT
* * * ** **
102171748 CGTGTAAGACCATAGCTGGGCTATTGGCATCGATACGAGATCC
1 CGTGTAAGACCATATCTGGGATA-TGGCATCAATGTGAGATTT
*
102171791 CATGTAAGACCATATCTGGGATAT
1 CGTGTAAGACCATATCTGGGATAT
102171815 AACATTGGTA
Statistics
Matches: 92, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
41 4 0.04
42 54 0.59
43 34 0.37
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (42 bp):
CGTGTAAGACCATATCTGGGATATGGCATCAATGTGAGATTT
Found at i:102173345 original size:15 final size:15
Alignment explanation
Indices: 102173321--102173354 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
102173311 AACAATTACG
*
102173321 ATAATGCGAGCAAAA
1 ATAATACGAGCAAAA
102173336 ATAATACGAGCAAAA
1 ATAATACGAGCAAAA
102173351 ATAA
1 ATAA
102173355 CAAAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.59, C:0.12, G:0.15, T:0.15
Consensus pattern (15 bp):
ATAATACGAGCAAAA
Found at i:102174373 original size:1 final size:1
Alignment explanation
Indices: 102174367--102174410 Score: 52
Period size: 1 Copynumber: 44.0 Consensus size: 1
102174357 TATAAACAAC
* * * *
102174367 AAAAAAAAACAAAAAAAAACAAAAAAAAACAAAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
102174411 GTCCTCTCCT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:102174410 original size:10 final size:10
Alignment explanation
Indices: 102174364--102174403 Score: 80
Period size: 10 Copynumber: 4.0 Consensus size: 10
102174354 TTCTATAAAC
102174364 AACAAAAAAA
1 AACAAAAAAA
102174374 AACAAAAAAA
1 AACAAAAAAA
102174384 AACAAAAAAA
1 AACAAAAAAA
102174394 AACAAAAAAA
1 AACAAAAAAA
102174404 CAAAAAAGTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 30 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (10 bp):
AACAAAAAAA
Found at i:102174410 original size:20 final size:21
Alignment explanation
Indices: 102174360--102174410 Score: 88
Period size: 20 Copynumber: 2.5 Consensus size: 21
102174350 TAGCTTCTAT
102174360 AAACAACAAAAAAAAACAAAA
1 AAACAACAAAAAAAAACAAAA
102174381 AAA-AACAAAAAAAAACAAAA
1 AAACAACAAAAAAAAACAAAA
102174401 AAACAA-AAAA
1 AAACAACAAAA
102174411 GTCCTCTCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 24 0.83
21 5 0.17
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (21 bp):
AAACAACAAAAAAAAACAAAA
Found at i:102174750 original size:13 final size:12
Alignment explanation
Indices: 102174725--102174758 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
102174715 TTCGTTTATC
102174725 AAAAATAAAAAA
1 AAAAATAAAAAA
*
102174737 AAACAATAATAAA
1 AAA-AATAAAAAA
102174750 AAAAATAAA
1 AAAAATAAA
102174759 GGTAAAAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.12
Consensus pattern (12 bp):
AAAAATAAAAAA
Found at i:102178586 original size:34 final size:34
Alignment explanation
Indices: 102178548--102178616 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
102178538 TCAATAATTG
* *
102178548 TAAATTAAGCCTTCCTAATTATCTCATTGAAACA
1 TAAATTAAGCCTTCCTAATTACCTAATTGAAACA
102178582 TAAATTAAGCCTTCCTAATTACCTAATTGAAACA
1 TAAATTAAGCCTTCCTAATTACCTAATTGAAACA
102178616 T
1 T
102178617 CTCATGATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.39, C:0.20, G:0.06, T:0.35
Consensus pattern (34 bp):
TAAATTAAGCCTTCCTAATTACCTAATTGAAACA
Found at i:102181678 original size:6 final size:6
Alignment explanation
Indices: 102181669--102181697 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
102181659 TATTTGAATT
102181669 TGTATG TGTATG TGTATG TGTATG TGTAT
1 TGTATG TGTATG TGTATG TGTATG TGTAT
102181698 ATATATTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.31, T:0.52
Consensus pattern (6 bp):
TGTATG
Found at i:102187542 original size:26 final size:26
Alignment explanation
Indices: 102187511--102187618 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
102187501 TGAAATGCCC
*
102187511 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
102187537 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
102187563 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
102187589 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
102187615 ATCA
1 ATCA
102187619 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:102188426 original size:20 final size:20
Alignment explanation
Indices: 102188401--102188451 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
102188391 TGGTAAATAT
102188401 TTTTGGGAAAATGCTACTTC
1 TTTTGGGAAAATGCTACTTC
102188421 TTTTGGGAAAATGCTACTTC
1 TTTTGGGAAAATGCTACTTC
102188441 TTTTGGGAAAA
1 TTTTGGGAAAA
102188452 CATCTTGGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (20 bp):
TTTTGGGAAAATGCTACTTC
Found at i:102188916 original size:23 final size:23
Alignment explanation
Indices: 102188885--102188992 Score: 103
Period size: 23 Copynumber: 4.7 Consensus size: 23
102188875 AAATAAACTG
*
102188885 TGAAAATTCTCTGCAATGAACAA
1 TGAAGATTCTCTGCAATGAACAA
* *
102188908 TGAAGATTC-CTTGCAATGAATAG
1 TGAAGATTCTC-TGCAATGAACAA
*
102188931 TGAATATTCTCTGCAATGAACAA
1 TGAAGATTCTCTGCAATGAACAA
* * *
102188954 T-AAGGATTCTCCGTAATGAACAT
1 TGAA-GATTCTCTGCAATGAACAA
* *
102188977 TAAAGATTCTTTGCAA
1 TGAAGATTCTCTGCAA
102188993 AAAAAAAAAT
Statistics
Matches: 68, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
22 3 0.04
23 62 0.91
24 3 0.04
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.31
Consensus pattern (23 bp):
TGAAGATTCTCTGCAATGAACAA
Found at i:102214083 original size:17 final size:19
Alignment explanation
Indices: 102214061--102214095 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
102214051 GGCAAATTTG
102214061 AACAAGAA-GAG-AGAAGC
1 AACAAGAATGAGTAGAAGC
102214078 AACAAGAATGAGTAGAAG
1 AACAAGAATGAGTAGAAG
102214096 AAAGAACATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 3 0.19
19 5 0.31
ACGTcount: A:0.57, C:0.09, G:0.29, T:0.06
Consensus pattern (19 bp):
AACAAGAATGAGTAGAAGC
Found at i:102216778 original size:22 final size:23
Alignment explanation
Indices: 102216753--102216808 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
102216743 TCGCACTTTA
*
102216753 GTGCCTACTGGTTT-GCACTACG
1 GTGCCTACTGGTTTAACACTACG
* *
102216775 GTGCCCACT-GTTTAACACTTCG
1 GTGCCTACTGGTTTAACACTACG
102216797 GTGCCTACTGGT
1 GTGCCTACTGGT
102216809 GTGGTGTAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 4 0.14
22 22 0.79
23 2 0.07
ACGTcount: A:0.14, C:0.29, G:0.25, T:0.32
Consensus pattern (23 bp):
GTGCCTACTGGTTTAACACTACG
Found at i:102224821 original size:39 final size:41
Alignment explanation
Indices: 102224767--102224847 Score: 112
Period size: 39 Copynumber: 2.0 Consensus size: 41
102224757 CATTATAGAT
* * *
102224767 TCAGATACAATTTAGG-CCTTAGCCCAT-TCAGTTACAGTA
1 TCAGATACAAATTAGGACCATAGCCCATCTCAGATACAGTA
*
102224806 TCAGATATAAATTAGGACCATAGCCCATCTCAGATACAGTA
1 TCAGATACAAATTAGGACCATAGCCCATCTCAGATACAGTA
102224847 T
1 T
102224848 GCATACAGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
39 14 0.39
40 10 0.28
41 12 0.33
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (41 bp):
TCAGATACAAATTAGGACCATAGCCCATCTCAGATACAGTA
Found at i:102228551 original size:15 final size:15
Alignment explanation
Indices: 102228531--102228564 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
102228521 TTTGGTTTTG
102228531 ATTGTTTA-ATATCTA
1 ATTGTTTATATAT-TA
102228546 ATTGTTTATATATTA
1 ATTGTTTATATATTA
102228561 ATTG
1 ATTG
102228565 AGTTTACTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.32, C:0.03, G:0.09, T:0.56
Consensus pattern (15 bp):
ATTGTTTATATATTA
Found at i:102228777 original size:45 final size:45
Alignment explanation
Indices: 102228636--102228795 Score: 207
Period size: 45 Copynumber: 3.6 Consensus size: 45
102228626 TAGTAACGAA
* *
102228636 TAAGACCGTGACTGAAAGACGTTAT-AGCATCACGATTCTATCAAG
1 TAAGACCATAACTGAAAGACGTTATGA-CATCACGATTCTATCAAG
* * * *
102228681 TAAGA-GATGACTGAAAGACGTTATGACATCACAATTCTATCGAG
1 TAAGACCATAACTGAAAGACGTTATGACATCACGATTCTATCAAG
*
102228725 TATGACCATAACTGAAAGACGTTATGACATCACGATTCTATCAAG
1 TAAGACCATAACTGAAAGACGTTATGACATCACGATTCTATCAAG
* * *
102228770 TAAGACCACAATTAAAAGACGTTATG
1 TAAGACCATAACTGAAAGACGTTATG
102228796 GAATAACGAA
Statistics
Matches: 100, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
44 37 0.37
45 63 0.63
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (45 bp):
TAAGACCATAACTGAAAGACGTTATGACATCACGATTCTATCAAG
Found at i:102228840 original size:45 final size:44
Alignment explanation
Indices: 102228791--102228922 Score: 115
Period size: 46 Copynumber: 2.9 Consensus size: 44
102228781 TTAAAAGACG
102228791 TTATGGAATA-ACGAATCAAACGAATAAGACCATGGTTGAAAAACA
1 TTATGGAATACACGAA--AAACGAATAAGACCATGGTTGAAAAACA
* * ** *
102228836 TTATGGTAACACGACGGAAAATTAATAAGACCATGGTTGAAAGACA
1 TTATGG-AATAC-ACGAAAAACGAATAAGACCATGGTTGAAAAACA
* * **
102228882 CTATGGAAT-CAAGACAAGAATAAATAAGACCATGGTTGAAA
1 TTATGGAATACACGA-AA-AACGAATAAGACCATGGTTGAAA
102228923 GAAAACATAG
Statistics
Matches: 72, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
43 2 0.03
44 3 0.04
45 30 0.42
46 33 0.46
48 4 0.06
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (44 bp):
TTATGGAATACACGAAAAACGAATAAGACCATGGTTGAAAAACA
Found at i:102228923 original size:45 final size:45
Alignment explanation
Indices: 102228813--102228924 Score: 147
Period size: 46 Copynumber: 2.5 Consensus size: 45
102228803 GAATCAAACG
* * * *
102228813 AATAAGACCATGGTTGAAAAACATTATGGTAACACGACGGAAAATT
1 AATAAGACCATGGTTGAAAGACACTATGGTAACAAGAC-GAAAATA
102228859 AATAAGACCATGGTTGAAAGACACTATGG-AATCAAGAC-AAGAATA
1 AATAAGACCATGGTTGAAAGACACTATGGTAA-CAAGACGAA-AATA
102228904 AATAAGACCATGGTTGAAAGA
1 AATAAGACCATGGTTGAAAGA
102228925 AAACATAGTA
Statistics
Matches: 60, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
44 2 0.03
45 26 0.43
46 32 0.53
ACGTcount: A:0.47, C:0.12, G:0.21, T:0.20
Consensus pattern (45 bp):
AATAAGACCATGGTTGAAAGACACTATGGTAACAAGACGAAAATA
Found at i:102231448 original size:15 final size:16
Alignment explanation
Indices: 102231425--102231462 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
102231415 AAAAATAACG
102231425 ATGAAAATTT-ATTAA
1 ATGAAAATTTAATTAA
*
102231440 ATGACAATTTAATTAA
1 ATGAAAATTTAATTAA
*
102231456 ACGAAAA
1 ATGAAAA
102231463 AGAAAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.55, C:0.05, G:0.08, T:0.32
Consensus pattern (16 bp):
ATGAAAATTTAATTAA
Found at i:102234404 original size:13 final size:13
Alignment explanation
Indices: 102234386--102234411 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
102234376 CTCAGCTGAA
102234386 TAACATTCTTAAC
1 TAACATTCTTAAC
102234399 TAACATTCTTAAC
1 TAACATTCTTAAC
102234412 AACTTTGTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.38
Consensus pattern (13 bp):
TAACATTCTTAAC
Found at i:102234907 original size:6 final size:6
Alignment explanation
Indices: 102234889--102234984 Score: 72
Period size: 6 Copynumber: 15.7 Consensus size: 6
102234879 AAGAAACATT
* * *
102234889 ATCAGA A-CTAGA ATCAGA ATCAAA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * *
102234938 ATCAGA ATCAGT ATCAGGTA AT-AGA ATCAAA ATCAGA ATCAGT ATCA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA
102234985 AGTAACAGAA
Statistics
Matches: 71, Mismatches: 11, Indels: 16
0.72 0.11 0.16
Matches are distributed among these distances:
5 5 0.07
6 58 0.82
7 5 0.07
8 3 0.04
ACGTcount: A:0.48, C:0.15, G:0.17, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:102234934 original size:31 final size:31
Alignment explanation
Indices: 102234898--102234995 Score: 124
Period size: 31 Copynumber: 3.2 Consensus size: 31
102234888 TATCAGAACT
* * *
102234898 AGAATCAGAATCAAAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* *
102234929 AGAATCAGAATCAGAATCAGTATCAGGTAAT
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* * *
102234960 AGAATCAAAATCAGAATCAGTATCAAGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
102234991 AGAAT
1 AGAAT
102234996 AAAAAATCAG
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 59 1.00
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:102235187 original size:27 final size:26
Alignment explanation
Indices: 102235145--102235246 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
102235135 GCTCAGTTAT
* *
102235145 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
102235172 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
102235198 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* * *
102235226 CAAATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
102235247 TTAACAGAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 7 0.10
27 53 0.79
28 7 0.10
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:102235433 original size:22 final size:22
Alignment explanation
Indices: 102235405--102235469 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
102235395 GCAAATACGT
* *
102235405 TTGGCACACAGTCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
102235427 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
102235449 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
102235470 AAGGCTTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:102235953 original size:27 final size:27
Alignment explanation
Indices: 102235896--102236197 Score: 324
Period size: 27 Copynumber: 11.3 Consensus size: 27
102235886 GGGGTAAAAT
* * * *
102235896 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
102235922 GGTAATTCCACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
102235949 AGTAATTCTACCCTATAGGAGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
102235976 GATAATTCTACCCTACAGGGGTATTAC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
102236003 AATAATTCTACCCTACA-GGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
102236029 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
102236056 GGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
102236083 GGTAATTCTACCCTACAAGGGTGTTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* ** *
102236110 GGTAATTTTA-CAAACTAGGGGTATTTT
1 GGTAATTCTACCCTAC-AGGGGTATTTC
* ** *
102236137 GGTAATTTTA-CAAACTAGGGGTATTTT
1 GGTAATTCTACCCTAC-AGGGGTATTTC
*
102236164 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
102236191 AGTAATT
1 GGTAATT
102236198 TCACAATCGA
Statistics
Matches: 237, Mismatches: 35, Indels: 7
0.85 0.13 0.03
Matches are distributed among these distances:
26 40 0.17
27 194 0.82
28 3 0.01
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:102236034 original size:80 final size:80
Alignment explanation
Indices: 102235924--102236116 Score: 278
Period size: 80 Copynumber: 2.4 Consensus size: 80
102235914 GGTATCTCGG
* ** *
102235924 TAATTCCACCCTACAGGGGTATTTTAGTAATTCTACCCTATAGGAGTATTTCGATAATTCTACCC
1 TAATTCTACCCTACA-GGGTATTTCGGTAATTCTACCCTACAGGAGTATTTCGATAATTCTACCC
102235989 TACAGGGGTATTACAA
65 TACAGGGGTATTACAA
* *
102236005 TAATTCTACCCTACAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCT
1 TAATTCTACCCTACAGGGTATTTCGGTAATTCTACCCTACAGGAGTATTTCGATAATTCTACCCT
* **
102236070 ACAGGGGTATTCCGG
66 ACAGGGGTATTACAA
*
102236085 TAATTCTACCCTACAAGGGTGTTTCGGTAATT
1 TAATTCTACCCTAC-AGGGTATTTCGGTAATT
102236117 TTACAAACTA
Statistics
Matches: 101, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
80 71 0.70
81 30 0.30
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.34
Consensus pattern (80 bp):
TAATTCTACCCTACAGGGTATTTCGGTAATTCTACCCTACAGGAGTATTTCGATAATTCTACCCT
ACAGGGGTATTACAA
Found at i:102236080 original size:107 final size:107
Alignment explanation
Indices: 102235898--102236190 Score: 338
Period size: 107 Copynumber: 2.7 Consensus size: 107
102235888 GGTAAAATGG
* * * * *
102235898 TAATTTTACCCCACAAGGTATCTCGGTAATTCCACCCTACAGGGGTATTTTAGTAATTCTACCCT
1 TAATTTTACCCTACAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCT
* * *
102235963 ATAGGAGTATTTCGATAATTCTACCCTACAGGGGTATTACAA
66 ACAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTACAA
* *
102236005 TAATTCTACCCTACAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCT
1 TAATTTTACCCTACAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCT
* * * * **
102236070 ACAGGGGTATTCCGGTAATTCTACCCTACAAGGGTGTTTCGG
66 ACAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTACAA
* * * * ** *
102236112 TAATTTTACAAACTA-GGGGTATTTTGGTAATTTTA-CAAACTAGGGGTATTTTGGTAATTCTAT
1 TAATTTTAC--CCTACAGGGTATTTCGGTAATTCTACCCTAC-AGGGGTATTTTGGTAATTCTAC
102236175 CCTACAGGGGTATTTC
63 CCTACAGGGGTATTTC
102236191 AGTAATTTCA
Statistics
Matches: 157, Mismatches: 26, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
107 102 0.65
108 52 0.33
109 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (107 bp):
TAATTTTACCCTACAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCT
ACAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTACAA
Found at i:102236241 original size:27 final size:27
Alignment explanation
Indices: 102236202--102236398 Score: 218
Period size: 27 Copynumber: 7.3 Consensus size: 27
102236192 GTAATTTCAC
102236202 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *
102236229 AA-CTGGGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
*
102236256 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * *
102236283 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
102236310 AATCGAGGGTAAAACGATAATTTT-TA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * * * *
102236336 AATCAAGGGTGAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * * **
102236363 AATCAAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTTTGTA
102236390 AATCGAGGG
1 AATCGAGGG
102236399 CATTTCAGTA
Statistics
Matches: 147, Mismatches: 20, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
26 24 0.16
27 122 0.83
28 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:102236277 original size:80 final size:78
Alignment explanation
Indices: 102236193--102236398 Score: 234
Period size: 80 Copynumber: 2.6 Consensus size: 78
102236183 GGTATTTCAG
* * * * * *
102236193 TAATTTCACAATCGAGGGTAAAACGGTAATTTTGTAAA-CTGGGGGTAAAATGGTAATTTTGTAA
1 TAATTTCA-AATCGAGGGTAAAATGGTAATTCTATAAATC-GAGGGTAAAACGATAATTTT-TAA
*
102236257 ATCGAGGGTAAAACGA
63 ATCAAGGGTAAAACGA
*
102236273 TAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTTAAA
1 TAA-TTT-CAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTTAAA
*
102236338 TCAAGGGTGAAACGA
64 TCAAGGGTAAAACGA
* * *
102236353 TAATTCTATAAATCAAGGGTAAAATGGTAATTCTACAAATCGAGGG
1 TAATT-T-CAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGG
102236399 CATTTCAGTA
Statistics
Matches: 110, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
79 2 0.02
80 60 0.55
81 46 0.42
82 2 0.02
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (78 bp):
TAATTTCAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTTAAATC
AAGGGTAAAACGA
Found at i:102236361 original size:53 final size:54
Alignment explanation
Indices: 102236202--102236376 Score: 246
Period size: 54 Copynumber: 3.3 Consensus size: 54
102236192 GTAATTTCAC
* * * *
102236202 AATCGAGGGTAAAACGGTAATTTTGTAAA-CTGGGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGATAATTTTGTAAATC-GAGGGTAAAATGGTAATTCTATA
102236256 AATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
* * * *
102236310 AATCGAGGGTAAAACGATAATTTT-TAAATCAAGGGTGAAACGATAATTCTATA
1 AATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
*
102236363 AATCAAGGGTAAAA
1 AATCGAGGGTAAAA
102236377 TGGTAATTCT
Statistics
Matches: 111, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
53 38 0.34
54 72 0.65
55 1 0.01
ACGTcount: A:0.41, C:0.07, G:0.23, T:0.29
Consensus pattern (54 bp):
AATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
Found at i:102236411 original size:80 final size:80
Alignment explanation
Indices: 102236245--102236418 Score: 233
Period size: 80 Copynumber: 2.2 Consensus size: 80
102236235 GGGTAAAATG
* * * * *
102236245 GTAATTTTGTAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
1 GTAATTTTGTAAATCAAGGGTAAAACGATAATTCTATAAATCAAGGGTAAAATGGTAATTCTACA
*
102236310 AATCGAGGGTAAAAC
66 AATCGAGGGCAAAAC
*
102236325 GATAATTTT-TAAATCAAGGGTGAAACGATAATTCTATAAATCAAGGGTAAAATGGTAATTCTAC
1 G-TAATTTTGTAAATCAAGGGTAAAACGATAATTCTATAAATCAAGGGTAAAATGGTAATTCTAC
***
102236389 AAATCGAGGGCATTTC
65 AAATCGAGGGCAAAAC
102236405 AGTAATTTTGTAAA
1 -GTAATTTTGTAAA
102236419 CCAGTGGTAT
Statistics
Matches: 81, Mismatches: 10, Indels: 5
0.84 0.10 0.05
Matches are distributed among these distances:
80 69 0.85
81 12 0.15
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (80 bp):
GTAATTTTGTAAATCAAGGGTAAAACGATAATTCTATAAATCAAGGGTAAAATGGTAATTCTACA
AATCGAGGGCAAAAC
Found at i:102236437 original size:27 final size:25
Alignment explanation
Indices: 102236379--102236711 Score: 252
Period size: 27 Copynumber: 12.3 Consensus size: 25
102236369 GGGTAAAATG
* * * *
102236379 GTAATTCTACAAATCGAGGGCATTTCA
1 GTAATTTTACAAA-CCAGGGTATTT-T
**
102236406 GTAATTTTGTAAACCAGTGGTATTTCT
1 GTAATTTTACAAACCAG-GGTATTT-T
* * *
102236433 ATAATTTTTAGAAAGTCAAGGGTATTTTT
1 GTAA-TTTTACAAA-CCA-GGGTA-TTTT
** *
102236462 GTAATTTTGTAAATCAGGGGTATTTT
1 GTAATTTTACAAACCA-GGGTATTTT
** *
102236488 GGTAATTTTACAAATTGAGGGTATTTCG
1 -GTAATTTTACAAA-CCAGGGTATTT-T
*
102236516 GTAATTTCACAAACCAGTGGTATTTT
1 GTAATTTTACAAACCAG-GGTATTTT
102236542 GATAATTTTACAAACCAAGGGTATTTTT
1 G-TAATTTTACAAACC-AGGGTA-TTTT
102236570 GTAATTTTACAAACCAGGGGTATTTT
1 GTAATTTTACAAACCA-GGGTATTTT
* *
102236596 GGTAATTTTATAAACAAAGGGTATTTT
1 -GTAATTTTACAAAC-CAGGGTATTTT
102236623 AGTAATTTTACAAACCAGGGGTATTTT
1 -GTAATTTTACAAACCA-GGGTATTTT
* *
102236650 GGTAATTTTATAAACAAAGGGTATTTT
1 -GTAATTTTACAAAC-CAGGGTATTTT
102236677 AGTAATTTTACAAACCAGGGGTATTTT
1 -GTAATTTTACAAACCA-GGGTATTTT
102236704 GGTAATTT
1 -GTAATTT
102236712 GGTAAACTAA
Statistics
Matches: 253, Mismatches: 35, Indels: 36
0.78 0.11 0.11
Matches are distributed among these distances:
26 17 0.07
27 197 0.78
28 25 0.10
29 10 0.04
30 4 0.02
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (25 bp):
GTAATTTTACAAACCAGGGTATTTT
Found at i:102236538 original size:54 final size:54
Alignment explanation
Indices: 102236377--102236711 Score: 384
Period size: 54 Copynumber: 6.2 Consensus size: 54
102236367 AAGGGTAAAA
* * * * * ** *
102236377 TGGTAATTCTACAAATCGAGGGCATTTCAGTAATTTTGTAAACCAGTGGTATTT
1 TGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTT
* * * * ** *
102236431 CT-ATAATTTTTAGAAAGTCAAGGGTATTTTTGTAATTTTGTAAATCAGGGGTATTT
1 -TGGTAA-TTTTACAAA-CCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTT
*** ** * *
102236487 TGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTT
1 TGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTT
* *
102236541 TGATAATTTTACAAACCAAGGGTATTTTTGTAATTTTACAAACCAGGGGTATTT
1 TGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTT
* *
102236595 TGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTT
1 TGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTT
* *
102236649 TGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTT
1 TGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTT
102236703 TGGTAATTT
1 TGGTAATTT
102236712 GGTAAACTAA
Statistics
Matches: 245, Mismatches: 32, Indels: 7
0.86 0.11 0.02
Matches are distributed among these distances:
54 192 0.78
55 17 0.07
56 36 0.15
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (54 bp):
TGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTT
Found at i:102236718 original size:27 final size:27
Alignment explanation
Indices: 102236452--102236711 Score: 324
Period size: 27 Copynumber: 9.6 Consensus size: 27
102236442 AGAAAGTCAA
* ** *
102236452 GGGTATTTTTGTAATTTTGTAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
**
102236479 GGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
102236505 AGGGTATTTCGGTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAACCAG
* * *
102236533 TGGTATTTTGATAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
102236560 GGGTATTTTTGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
102236587 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
102236614 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
102236641 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
102236668 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
102236695 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
102236712 GGTAAACTAA
Statistics
Matches: 196, Mismatches: 35, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
26 1 0.01
27 194 0.99
28 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:102238212 original size:50 final size:48
Alignment explanation
Indices: 102238142--102238353 Score: 165
Period size: 50 Copynumber: 4.2 Consensus size: 48
102238132 ATCACTCATT
* * * *
102238142 TGGTCGATTATAGAAAATCAAATATAATATCACATATGTGCATATGTATA
1 TGGTCGAATATA-CAAATCAAATATAACATCACATATGTACATAT-TATA
* * * * *
102238192 TGGTCGAATATGCAAGATCAAATTTAACATTAAATATGTACTTACTTATA
1 TGGTCGAATATACAA-ATCAAATATAACATCACATATGTACATA-TTATA
* * * * *
102238242 TGGCCGAATATACAAATTCAAATATAATATCACATTTGTGCATACCTT-CA
1 TGGTCGAATATACAAA-TCAAATATAACATCACATATGTACATA--TTATA
* * * *
102238292 TGGTCGAATATTCAAAATCCAATATAACATCACATATGTACATACCTATG
1 TGGTCGAATATAC-AAATCAAATATAACATCACATATGTACATA-TTATA
*
102238342 TGGCCGAATATA
1 TGGTCGAATATA
102238354 TGCAAGGTCA
Statistics
Matches: 126, Mismatches: 30, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
49 5 0.04
50 114 0.90
51 7 0.06
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.33
Consensus pattern (48 bp):
TGGTCGAATATACAAATCAAATATAACATCACATATGTACATATTATA
Found at i:102238271 original size:100 final size:100
Alignment explanation
Indices: 102238150--102238353 Score: 266
Period size: 100 Copynumber: 2.0 Consensus size: 100
102238140 TTTGGTCGAT
* ** *
102238150 TATAGAAAATCAAATATAATATCACATATGTGCATATGTAT-ATGGTCGAATATGCAAGATCAAA
1 TATACAAAATCAAATATAATATCACATATGTGCATACCT-TCATGGTCGAATATGCAAAATCAAA
* * * *
102238214 TTTAACATTAAATATGTACTTACTTATATGGCCGAA
65 TATAACATCAAATATGTACATACCTATATGGCCGAA
* * * *
102238250 TATACAAATTCAAATATAATATCACATTTGTGCATACCTTCATGGTCGAATATTCAAAATCCAAT
1 TATACAAAATCAAATATAATATCACATATGTGCATACCTTCATGGTCGAATATGCAAAATCAAAT
* *
102238315 ATAACATCACATATGTACATACCTATGTGGCCGAA
66 ATAACATCAAATATGTACATACCTATATGGCCGAA
102238350 TATA
1 TATA
102238354 TGCAAGGTCA
Statistics
Matches: 89, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
99 1 0.01
100 88 0.99
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (100 bp):
TATACAAAATCAAATATAATATCACATATGTGCATACCTTCATGGTCGAATATGCAAAATCAAAT
ATAACATCAAATATGTACATACCTATATGGCCGAA
Found at i:102251427 original size:39 final size:38
Alignment explanation
Indices: 102251351--102251427 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 38
102251341 CCTGAGGAAG
*
102251351 TGGTCAAGAGAACCACATCTGAAACATGCACCGCTCTTA
1 TGGTCAAGAGAACCACATCTGAAACAT-CACCACTCTTA
*
102251390 TGGTCAAGAGACCCACATCTGAAGCACAT-ACCACTCTT
1 TGGTCAAGAGAACCACATCTGAA--ACATCACCACTCTT
102251428 CATTCAGTAC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
39 30 0.88
41 4 0.12
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (38 bp):
TGGTCAAGAGAACCACATCTGAAACATCACCACTCTTA
Found at i:102260341 original size:19 final size:19
Alignment explanation
Indices: 102260303--102260338 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
102260293 TTAATCATAT
102260303 ATTTTATTTTTCATTTTTA
1 ATTTTATTTTTCATTTTTA
102260322 ATTTT-TTTTTCATTTTT
1 ATTTTATTTTTCATTTTT
102260339 TAAAATTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.78
Consensus pattern (19 bp):
ATTTTATTTTTCATTTTTA
Found at i:102261263 original size:27 final size:28
Alignment explanation
Indices: 102261226--102261295 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 28
102261216 AACAACCATC
102261226 TAAATAATAAAAAAAGCAT-AG-TTCA-AAA
1 TAAA-AATAAAAAAA--ATAAGTTTCACAAA
*
102261254 TAAAAATAAAATAAATAAGTTTCACAAA
1 TAAAAATAAAAAAAATAAGTTTCACAAA
*
102261282 TTAAAATAAAAAAA
1 TAAAAATAAAAAAA
102261296 CTAAAAAGGG
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
25 2 0.06
26 2 0.06
27 13 0.36
28 19 0.53
ACGTcount: A:0.67, C:0.06, G:0.04, T:0.23
Consensus pattern (28 bp):
TAAAAATAAAAAAAATAAGTTTCACAAA
Done.