Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 242 of 290
Found at i:83549361 original size:48 final size:44
Alignment explanation
Indices: 83549222--83549414 Score: 161
Period size: 40 Copynumber: 4.4 Consensus size: 44
83549212 CTTGATACTT
* * * *
83549222 TGCACACTAAGTTCCATTTATATATATAGCCGAAGCTATCTCAAAT
1 TGCACACTAAGTGCCATTTA-AT-TTTAGCCGAAGCTATTTCAAAC
* * *
83549268 TGCACACCAAGTGCC----ACTTTTAGCCGAAGCTATTTCGAA-
1 TGCACACTAAGTGCCATTTAATTTTAGCCGAAGCTATTTCAAAC
*
83549307 TCGCACACTAAGTGCCATTTATATATATATAGCCGAAGCTATCTCAAAC
1 T-GCACACTAAGTGCCATTTA-AT-T-T-TAGCCGAAGCTATTTCAAAC
* *
83549356 TGCACACCAAGTGCC----ACTTTTAGCCGAAGCTATTTCAAAC
1 TGCACACTAAGTGCCATTTAATTTTAGCCGAAGCTATTTCAAAC
*
83549396 CGCACACTAAGTGCCATTT
1 TGCACACTAAGTGCCATTT
83549415 TAGCCGATAA
Statistics
Matches: 118, Mismatches: 15, Indels: 30
0.72 0.09 0.18
Matches are distributed among these distances:
39 1 0.01
40 63 0.53
41 2 0.02
42 2 0.02
43 1 0.01
44 2 0.02
45 1 0.01
46 14 0.12
47 1 0.01
48 30 0.25
49 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (44 bp):
TGCACACTAAGTGCCATTTAATTTTAGCCGAAGCTATTTCAAAC
Found at i:83549370 original size:88 final size:87
Alignment explanation
Indices: 83549223--83549416 Score: 336
Period size: 88 Copynumber: 2.2 Consensus size: 87
83549213 TTGATACTTT
* *
83549223 GCACACTAAGTTCCA-TTTATATATATAGCCGAAGCTATCTCAAATTGCACACCAAGTGCCACTT
1 GCACACTAAGTGCCATTTTATATATATAGCCGAAGCTATCTCAAACTGCACACCAAGTGCCACTT
* *
83549287 TTAGCCGAAGCTATTTCGAATC
66 TTAGCCGAAGCTATTTCAAACC
83549309 GCACACTAAGTGCCATTTATATATATATAGCCGAAGCTATCTCAAACTGCACACCAAGTGCCACT
1 GCACACTAAGTGCCATTT-TATATATATAGCCGAAGCTATCTCAAACTGCACACCAAGTGCCACT
83549374 TTTAGCCGAAGCTATTTCAAACC
65 TTTAGCCGAAGCTATTTCAAACC
83549397 GCACACTAAGTGCCATTTTA
1 GCACACTAAGTGCCATTTTA
83549417 GCCGATAATG
Statistics
Matches: 102, Mismatches: 4, Indels: 3
0.94 0.04 0.03
Matches are distributed among these distances:
86 14 0.14
87 4 0.04
88 84 0.82
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (87 bp):
GCACACTAAGTGCCATTTTATATATATAGCCGAAGCTATCTCAAACTGCACACCAAGTGCCACTT
TTAGCCGAAGCTATTTCAAACC
Found at i:83550563 original size:40 final size:40
Alignment explanation
Indices: 83550474--83550737 Score: 369
Period size: 40 Copynumber: 6.7 Consensus size: 40
83550464 TTGAATGATG
* *
83550474 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
83550513 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
83550553 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
83550592 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
83550632 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
83550672 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
83550713 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
83550738 AACGAGGAGT
Statistics
Matches: 207, Mismatches: 11, Indels: 13
0.90 0.05 0.06
Matches are distributed among these distances:
39 53 0.26
40 144 0.70
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:83550755 original size:120 final size:118
Alignment explanation
Indices: 83550474--83550770 Score: 338
Period size: 119 Copynumber: 2.5 Consensus size: 118
83550464 TTGAATGATG
* *
83550474 TCCGGGCTAAGTCCCGAAGGC-TTGTG--CTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGCATT-TGAAC-GAGTGACTAA-ATCCGG-TTAA-ATCCCGAAGGC
*
83550534 ATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
61 ATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
* ** * *
83550592 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTT
* *
83550657 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
65 GTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
* * * *
83550713 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGTTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
83550771 TACGTGATTT
Statistics
Matches: 153, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
118 23 0.15
119 64 0.42
120 64 0.42
121 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:83557963 original size:33 final size:33
Alignment explanation
Indices: 83557916--83557984 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
83557906 TGCATTTTGC
*
83557916 ACTGTACTGGTACTGAATAGGGCTAAGGCCCAG
1 ACTGTACTGATACTGAATAGGGCTAAGGCCCAG
83557949 ACTGTACTGATACTGAATAGGGCTAAGGCCCAG
1 ACTGTACTGATACTGAATAGGGCTAAGGCCCAG
83557982 ACT
1 ACT
83557985 ATTTCTGCAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.22
Consensus pattern (33 bp):
ACTGTACTGATACTGAATAGGGCTAAGGCCCAG
Found at i:83559822 original size:21 final size:20
Alignment explanation
Indices: 83559797--83559845 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
83559787 GAAAAAGAAA
83559797 TGAGCTGAAACGAGCTAAAG
1 TGAGCTGAAACGAGCTAAAG
* *
83559817 TCGAGCTTAAACGAGCTCAAG
1 T-GAGCTGAAACGAGCTAAAG
83559838 TGAGCTGA
1 TGAGCTGA
83559846 TTGGAGCTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.35, C:0.18, G:0.29, T:0.18
Consensus pattern (20 bp):
TGAGCTGAAACGAGCTAAAG
Found at i:83570925 original size:21 final size:22
Alignment explanation
Indices: 83570889--83570940 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
83570879 TCACAATTCT
83570889 TTTTCTTTTCTCTTTCATTTTC-
1 TTTTC-TTTCTCTTTCATTTTCA
*
83570911 TTTTCTTTCTTTTTCATTTTCA
1 TTTTCTTTCTCTTTCATTTTCA
*
83570933 CTTTCTTT
1 TTTTCTTT
83570941 TTCCACTCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 15 0.56
22 12 0.44
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.73
Consensus pattern (22 bp):
TTTTCTTTCTCTTTCATTTTCA
Found at i:83573047 original size:19 final size:20
Alignment explanation
Indices: 83573025--83573066 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
83573015 TTTTTTTTAA
83573025 TTTCGTATTTC-TCTTTTTT
1 TTTCGTATTTCTTCTTTTTT
* *
83573044 TTTCTTTTTTCTTCTTTTTT
1 TTTCGTATTTCTTCTTTTTT
83573064 TTT
1 TTT
83573067 TACTTCACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.81
Consensus pattern (20 bp):
TTTCGTATTTCTTCTTTTTT
Found at i:83573051 original size:10 final size:10
Alignment explanation
Indices: 83573036--83573066 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
83573026 TTCGTATTTC
83573036 TCTTTTTTTT
1 TCTTTTTTTT
*
83573046 TCTTTTTTCT
1 TCTTTTTTTT
83573056 TCTTTTTTTT
1 TCTTTTTTTT
83573066 T
1 T
83573067 TACTTCACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (10 bp):
TCTTTTTTTT
Found at i:83574538 original size:10 final size:10
Alignment explanation
Indices: 83574520--83574570 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
83574510 AATTAAAAAA
*
83574520 GAAATGAGCT
1 GAAACGAGCT
83574530 GAAACGAGCT
1 GAAACGAGCT
* *
83574540 AAAATCAAGCT
1 GAAA-CGAGCT
*
83574551 CAAACGAGCT
1 GAAACGAGCT
83574561 GAAACGAGCT
1 GAAACGAGCT
83574571 CAAGTGAGCT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
10 26 0.76
11 8 0.24
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.14
Consensus pattern (10 bp):
GAAACGAGCT
Found at i:83574555 original size:21 final size:20
Alignment explanation
Indices: 83574526--83574573 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
83574516 AAAAGAAATG
*
83574526 AGCTGAAACGAGCTAAAATCA
1 AGCTCAAACGAGCTAAAA-CA
* *
83574547 AGCTCAAACGAGCTGAAACG
1 AGCTCAAACGAGCTAAAACA
83574567 AGCTCAA
1 AGCTCAA
83574574 GTGAGCTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.44, C:0.23, G:0.21, T:0.12
Consensus pattern (20 bp):
AGCTCAAACGAGCTAAAACA
Found at i:83575179 original size:50 final size:50
Alignment explanation
Indices: 83575103--83575379 Score: 260
Period size: 50 Copynumber: 5.6 Consensus size: 50
83575093 TCACAATACA
* * *
83575103 ATGCCAATGTCCCAGACATGGTCTTACACTGACTCTCTTATATCGAGGCCG
1 ATGCC-ATATCCCAGACATGGTCTTACACTGGCTCTCATATATCGAGGCCG
* * * * *
83575154 ATGCCATATCCCAGACATGGTCTTACATTGGCTCTCATCTTTCCG-TGCTG
1 ATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATATAT-CGAGGCCG
* * * * * *
83575204 ATGCGATGTCCCAGACATGGTCTTACA-T-G-TAATCACATATTGA-GTCG
1 ATGCCATATCCCAGACATGGTCTTACACTGGCT-CTCATATATCGAGGCCG
* * *
83575251 ATGCCATATCCCAGACATGCTCTTACACTGGCTTTCTTATATCGAGGCCG
1 ATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATATATCGAGGCCG
* * * * * *
83575301 CTGCCATATCCCAGACATGGTCTTACATTGGCTCTCATGTTTCCG-TGCCA
1 ATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATATAT-CGAGGCCG
*
83575351 ATGCCATGTCCCAGACATGGTCTTACACT
1 ATGCCATATCCCAGACATGGTCTTACACT
83575380 AGCTGACATG
Statistics
Matches: 181, Mismatches: 37, Indels: 17
0.77 0.16 0.07
Matches are distributed among these distances:
47 28 0.15
48 7 0.04
49 10 0.06
50 127 0.70
51 9 0.05
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.30
Consensus pattern (50 bp):
ATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATATATCGAGGCCG
Found at i:83575313 original size:97 final size:98
Alignment explanation
Indices: 83575103--83575328 Score: 242
Period size: 97 Copynumber: 2.3 Consensus size: 98
83575093 TCACAATACA
* * *
83575103 ATGCCAATGTCCCAGACATGGTCTTACACTGACTCTCTTATATCGAGGCCGATGCCATATCCCAG
1 ATGCC-ATATCCCAGACATGGTCTTACA-TGAATCAC-TATATCGAGGCCGATGCCATATCCCAG
* * * * * *
83575168 ACATGGTCTTACATTGGCTCTCATCTTTCCGTGCTG
63 ACATGCTCTTACACTGGCTCTCATATATCCGGGCCG
* * * *
83575204 ATGCGATGTCCCAGACATGGTCTTACATGTAATCAC-ATATTGA-GTCGATGCCATATCCCAGAC
1 ATGCCATATCCCAGACATGGTCTTACATG-AATCACTATATCGAGGCCGATGCCATATCCCAGAC
* *
83575267 ATGCTCTTACACTGGCTTTCTTATAT-CGAGGCCG
65 ATGCTCTTACACTGGCTCTCATATATCCG-GGCCG
*
83575301 CTGCCATATCCCAGACATGGTCTTACAT
1 ATGCCATATCCCAGACATGGTCTTACAT
83575329 TGGCTCTCAT
Statistics
Matches: 107, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
96 2 0.02
97 67 0.63
98 6 0.06
99 2 0.02
100 26 0.24
101 4 0.04
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (98 bp):
ATGCCATATCCCAGACATGGTCTTACATGAATCACTATATCGAGGCCGATGCCATATCCCAGACA
TGCTCTTACACTGGCTCTCATATATCCGGGCCG
Found at i:83578165 original size:40 final size:40
Alignment explanation
Indices: 83578099--83578180 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 40
83578089 TATATATATA
**
83578099 TAGCCGAAGCTATCTCAAATTGCACACCAAGTGCCACTTT
1 TAGCCGAAGCTATCTCAAATCACACACCAAGTGCCACTTT
* * * *
83578139 TAGCCGAAGCTATTTCGAATCACACACTAAGTGCCATTTT
1 TAGCCGAAGCTATCTCAAATCACACACCAAGTGCCACTTT
83578179 TA
1 TA
83578181 TATATATATA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (40 bp):
TAGCCGAAGCTATCTCAAATCACACACCAAGTGCCACTTT
Found at i:83578222 original size:90 final size:88
Alignment explanation
Indices: 83578073--83578236 Score: 292
Period size: 90 Copynumber: 1.8 Consensus size: 88
83578063 CAATACTTTG
*
83578073 CACACTAAGTGCCATTTATATATATATAGCCGAAGCTATCTCAAATTGCACACCAAGTGCCACTT
1 CACACTAAGTGCCATTTATATATATATAGCCGAAGCTATCTCAAATTGCACACAAAGTGCCACTT
83578138 TTAGCCGAAGCTATTTCGAATCA
66 TTAGCCGAAGCTATTTCGAATCA
*
83578161 CACACTAAGTGCCATTTTTATATATATATAGCCGAAGCTATCTTAAATTGCACACAAAGTGCCAC
1 CACACTAAGTGCCA--TTTATATATATATAGCCGAAGCTATCTCAAATTGCACACAAAGTGCCAC
83578226 TTTTAGCCGAA
64 TTTTAGCCGAA
83578237 ACTCAAACTG
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
88 14 0.19
90 58 0.81
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.29
Consensus pattern (88 bp):
CACACTAAGTGCCATTTATATATATATAGCCGAAGCTATCTCAAATTGCACACAAAGTGCCACTT
TTAGCCGAAGCTATTTCGAATCA
Found at i:83583162 original size:54 final size:54
Alignment explanation
Indices: 83582983--83583162 Score: 182
Period size: 55 Copynumber: 3.3 Consensus size: 54
83582973 CCATTGCCAT
* * *
83582983 GTCTTACGTGGTATCCTTGCCTTAT-AAACTCACCATTGCCATGCCTTGGCATG
1 GTCTTACATGGTATCCTTGCCTTATAAAACTTACCAATGCCATGCCTTGGCATG
* * * * ** * * * *
83583036 GTCTTACATGGGATCTTTGCCATATAGTAGTTTATCAATGTCATGTCTTGACATG
1 GTCTTACATGGTATCCTTGCCTTATA-AAACTTACCAATGCCATGCCTTGGCATG
* * * *
83583091 GTCTTACATGATTTCCTTGACTTGTAAAACTTACCAATGCCATGCCTTGGCATG
1 GTCTTACATGGTATCCTTGCCTTATAAAACTTACCAATGCCATGCCTTGGCATG
*
83583145 GTCTTACTTGGTATCCTT
1 GTCTTACATGGTATCCTT
83583163 AAACCCTAAT
Statistics
Matches: 95, Mismatches: 30, Indels: 3
0.74 0.23 0.02
Matches are distributed among these distances:
53 21 0.22
54 36 0.38
55 38 0.40
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (54 bp):
GTCTTACATGGTATCCTTGCCTTATAAAACTTACCAATGCCATGCCTTGGCATG
Found at i:83583738 original size:792 final size:792
Alignment explanation
Indices: 83582620--83584204 Score: 3170
Period size: 792 Copynumber: 2.0 Consensus size: 792
83582610 ATCATATCAT
83582620 AAGGACATACACACAAAATAGCCAAGTCCCTATACATGCCATAACTTAAAGTATTTATAGTAACA
1 AAGGACATACACACAAAATAGCCAAGTCCCTATACATGCCATAACTTAAAGTATTTATAGTAACA
83582685 AAATACCGAGAAACTCGTTGATAGTGTGAGGCGATCTCCGCGTCCTTATGATTTTCTGAGTTGAC
66 AAATACCGAGAAACTCGTTGATAGTGTGAGGCGATCTCCGCGTCCTTATGATTTTCTGAGTTGAC
83582750 TTTGCGATACTATAAAAAAAAGAGAGAAAAAAGAAAGGGAGTAAGCATAAAGCTTAGTAAGTTTG
131 TTTGCGATACTATAAAAAAAAGAGAGAAAAAAGAAAGGGAGTAAGCATAAAGCTTAGTAAGTTTG
83582815 CATGTAAATAAATAACAACAATCTAAATGAATTATCAAGTTAACCTGAACCTTTCGAACATGGAC
196 CATGTAAATAAATAACAACAATCTAAATGAATTATCAAGTTAACCTGAACCTTTCGAACATGGAC
83582880 TTATCTTACCTTCCCTTTGGTACACTCTTTAAATTTTCCGTTAAACCATTTGGAATACTAAAAAT
261 TTATCTTACCTTCCCTTTGGTACACTCTTTAAATTTTCCGTTAAACCATTTGGAATACTAAAAAT
83582945 ACACGGGTACCTTTCCTTTTTAAACTTACCATTGCCATGTCTTACGTGGTATCCTTGCCTTATAA
326 ACACGGGTACCTTTCCTTTTTAAACTTACCATTGCCATGTCTTACGTGGTATCCTTGCCTTATAA
83583010 ACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCATATAGTAGTTTATCAAT
391 ACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCATATAGTAGTTTATCAAT
83583075 GTCATGTCTTGACATGGTCTTACATGATTTCCTTGACTTGTAAAACTTACCAATGCCATGCCTTG
456 GTCATGTCTTGACATGGTCTTACATGATTTCCTTGACTTGTAAAACTTACCAATGCCATGCCTTG
83583140 GCATGGTCTTACTTGGTATCCTTAAACCCTAATGTCATAACTTTTGTATCCTACACATTCCTAAG
521 GCATGGTCTTACTTGGTATCCTTAAACCCTAATGTCATAACTTTTGTATCCTACACATTCCTAAG
83583205 GTTCAACCGGAACTTTTAAGTATCATTACTCCGTCAATTCTTACTTGAATCATCAAGGAATAAAT
586 GTTCAACCGGAACTTTTAAGTATCATTACTCCGTCAATTCTTACTTGAATCATCAAGGAATAAAT
83583270 TTACAAAATAAATATATAGATCCTAAAAAATAACATAATTAATTATAAATAATAAAATATTACAT
651 TTACAAAATAAATATATAGATCCTAAAAAATAACATAATTAATTATAAATAATAAAATATTACAT
83583335 TTATTTACCGCAAACTTACCTCGATACAAAATACGATCAAATATTTTGATTTAGTCCTTAACCTT
716 TTATTTACCGCAAACTTACCTCGATACAAAATACGATCAAATATTTTGATTTAGTCCTTAACCTT
83583400 TTTCATTCTTCG
781 TTTCATTCTTCG
83583412 AAGGACATACACACAAAATAGCCAAGTCCCTATACATGCCATAACTTAAAGTATTTATAGTAACA
1 AAGGACATACACACAAAATAGCCAAGTCCCTATACATGCCATAACTTAAAGTATTTATAGTAACA
83583477 AAATACCGAGAAACTCGTTGATAGTGTGAGGCGATCTCCGCGTCCTTATGATTTTCTGAGTTGAC
66 AAATACCGAGAAACTCGTTGATAGTGTGAGGCGATCTCCGCGTCCTTATGATTTTCTGAGTTGAC
83583542 TTTGCGATACTATAAAAAAAAGAGAGAAAAAAGAAAGGGAGTAAGCATAAAGCTTAGTAAGTTTG
131 TTTGCGATACTATAAAAAAAAGAGAGAAAAAAGAAAGGGAGTAAGCATAAAGCTTAGTAAGTTTG
83583607 CATGTAAATAAATAACAACAATCTAAATGAATTATCAAGTTAACCTGAACCTTTCGAACATGGAC
196 CATGTAAATAAATAACAACAATCTAAATGAATTATCAAGTTAACCTGAACCTTTCGAACATGGAC
83583672 TTATCTTACCTTCCCTTTGGTACACTCTTTAAATTTTCCGTTAAACCATTTGGAATACTAAAAAT
261 TTATCTTACCTTCCCTTTGGTACACTCTTTAAATTTTCCGTTAAACCATTTGGAATACTAAAAAT
83583737 ACACGGGTACCTTTCCTTTTTAAACTTACCATTGCCATGTCTTACGTGGTATCCTTGCCTTATAA
326 ACACGGGTACCTTTCCTTTTTAAACTTACCATTGCCATGTCTTACGTGGTATCCTTGCCTTATAA
83583802 ACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCATATAGTAGTTTATCAAT
391 ACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCATATAGTAGTTTATCAAT
83583867 GTCATGTCTTGACATGGTCTTACATGATTTCCTTGACTTGTAAAACTTACCAATGCCATGCCTTG
456 GTCATGTCTTGACATGGTCTTACATGATTTCCTTGACTTGTAAAACTTACCAATGCCATGCCTTG
83583932 GCATGGTCTTACTTGGTATCCTTAAACCCTAATGTCATAACTTTTGTATCCTACACATTCCTAAG
521 GCATGGTCTTACTTGGTATCCTTAAACCCTAATGTCATAACTTTTGTATCCTACACATTCCTAAG
83583997 GTTCAACCGGAACTTTTAAGTATCATTACTCCGTCAATTCTTACTTGAATCATCAAGGAATAAAT
586 GTTCAACCGGAACTTTTAAGTATCATTACTCCGTCAATTCTTACTTGAATCATCAAGGAATAAAT
83584062 TTACAAAATAAATATATAGATCCTAAAAAATAACATAATTAATTATAAATAATAAAATATTACAT
651 TTACAAAATAAATATATAGATCCTAAAAAATAACATAATTAATTATAAATAATAAAATATTACAT
83584127 TTATTTACCGCAAACTTACCTCGATACAAAATACGATCAAATATTTTGATTTAGTCCTTAACCTT
716 TTATTTACCGCAAACTTACCTCGATACAAAATACGATCAAATATTTTGATTTAGTCCTTAACCTT
83584192 TTTCATTCTTCG
781 TTTCATTCTTCG
83584204 A
1 A
83584205 TCTAACCCCG
Statistics
Matches: 793, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
792 793 1.00
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.33
Consensus pattern (792 bp):
AAGGACATACACACAAAATAGCCAAGTCCCTATACATGCCATAACTTAAAGTATTTATAGTAACA
AAATACCGAGAAACTCGTTGATAGTGTGAGGCGATCTCCGCGTCCTTATGATTTTCTGAGTTGAC
TTTGCGATACTATAAAAAAAAGAGAGAAAAAAGAAAGGGAGTAAGCATAAAGCTTAGTAAGTTTG
CATGTAAATAAATAACAACAATCTAAATGAATTATCAAGTTAACCTGAACCTTTCGAACATGGAC
TTATCTTACCTTCCCTTTGGTACACTCTTTAAATTTTCCGTTAAACCATTTGGAATACTAAAAAT
ACACGGGTACCTTTCCTTTTTAAACTTACCATTGCCATGTCTTACGTGGTATCCTTGCCTTATAA
ACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCATATAGTAGTTTATCAAT
GTCATGTCTTGACATGGTCTTACATGATTTCCTTGACTTGTAAAACTTACCAATGCCATGCCTTG
GCATGGTCTTACTTGGTATCCTTAAACCCTAATGTCATAACTTTTGTATCCTACACATTCCTAAG
GTTCAACCGGAACTTTTAAGTATCATTACTCCGTCAATTCTTACTTGAATCATCAAGGAATAAAT
TTACAAAATAAATATATAGATCCTAAAAAATAACATAATTAATTATAAATAATAAAATATTACAT
TTATTTACCGCAAACTTACCTCGATACAAAATACGATCAAATATTTTGATTTAGTCCTTAACCTT
TTTCATTCTTCG
Found at i:83583954 original size:54 final size:54
Alignment explanation
Indices: 83583775--83583954 Score: 182
Period size: 55 Copynumber: 3.3 Consensus size: 54
83583765 CCATTGCCAT
* * *
83583775 GTCTTACGTGGTATCCTTGCCTTAT-AAACTCACCATTGCCATGCCTTGGCATG
1 GTCTTACATGGTATCCTTGCCTTATAAAACTTACCAATGCCATGCCTTGGCATG
* * * * ** * * * *
83583828 GTCTTACATGGGATCTTTGCCATATAGTAGTTTATCAATGTCATGTCTTGACATG
1 GTCTTACATGGTATCCTTGCCTTATA-AAACTTACCAATGCCATGCCTTGGCATG
* * * *
83583883 GTCTTACATGATTTCCTTGACTTGTAAAACTTACCAATGCCATGCCTTGGCATG
1 GTCTTACATGGTATCCTTGCCTTATAAAACTTACCAATGCCATGCCTTGGCATG
*
83583937 GTCTTACTTGGTATCCTT
1 GTCTTACATGGTATCCTT
83583955 AAACCCTAAT
Statistics
Matches: 95, Mismatches: 30, Indels: 3
0.74 0.23 0.02
Matches are distributed among these distances:
53 21 0.22
54 36 0.38
55 38 0.40
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (54 bp):
GTCTTACATGGTATCCTTGCCTTATAAAACTTACCAATGCCATGCCTTGGCATG
Found at i:83584799 original size:54 final size:55
Alignment explanation
Indices: 83584645--83584799 Score: 150
Period size: 55 Copynumber: 2.8 Consensus size: 55
83584635 CTTGCCTTAT
* * * * *
83584645 AAACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCATATAG
1 AAACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGACATATAG
* ** * * * * * * * *
83584700 TAGTTTATCAATGTCATGTCTTGACATGGTCTTACATGATTTCCTTGACTTGTA-
1 AAACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGACATATAG
*
83584754 AAACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AAACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
83584800 AAACCCTAAT
Statistics
Matches: 74, Mismatches: 26, Indels: 1
0.73 0.26 0.01
Matches are distributed among these distances:
54 36 0.49
55 38 0.51
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.37
Consensus pattern (55 bp):
AAACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGACATATAG
Found at i:83591993 original size:45 final size:45
Alignment explanation
Indices: 83591929--83592058 Score: 183
Period size: 45 Copynumber: 2.9 Consensus size: 45
83591919 GTTGTACAGT
* *
83591929 ATTATTCGGGCCTTGGAGCCTAGCAGGCTATAATGCTGGTGAGAC
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGAC
* * *
83591974 ATTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGAT
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGAC
* *
83592019 ATTTTTCGGGCC-TCGAGCCTAGCAGGC-AAAATGCCGGTGA
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
83592059 ATAAATTTGG
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
43 11 0.14
44 14 0.18
45 52 0.68
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (45 bp):
ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGAC
Found at i:83599634 original size:53 final size:53
Alignment explanation
Indices: 83599570--83599761 Score: 186
Period size: 53 Copynumber: 3.6 Consensus size: 53
83599560 TTTTTAAAAC
* * **
83599570 TACCATTGCCATGTCTTGACATGGTCTTATGTGGTATCCTTGCCTTATGAACT
1 TACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACT
* * * * * * **
83599623 CACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTACAGTAGTT
1 TACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-TG-AACT
** * * * *
83599678 TATTAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAAAACT
1 TACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACT
*
83599732 TACCAATGCCATGCCTTGGCATGGTCTTAC
1 TACCAATGCCATGCCTTGACATGGTCTTAC
83599762 TTGTTATCTT
Statistics
Matches: 108, Mismatches: 28, Indels: 5
0.77 0.20 0.04
Matches are distributed among these distances:
53 40 0.37
54 29 0.27
55 39 0.36
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (53 bp):
TACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACT
Found at i:83603795 original size:68 final size:65
Alignment explanation
Indices: 83603581--83603802 Score: 218
Period size: 64 Copynumber: 3.4 Consensus size: 65
83603571 CATAATTTTG
** * *
83603581 GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGTGACCTAGCCA-CTTTA-TCTCGTA
1 GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGCAACCTAGCTACCTCTATTCTCGTA
** * * * * * * *
83603644 GCTCTCTTGTTTACATGGTGTCCTTCACCTGGAACCACACATGCAACCTAGCTACATCTA-TCTC
1 GCTCTCTTGTACACATGGTG---TACACATAGTATCACCCATGCAACCTAGCTACCTCTATTCTC
83603708 GTA
63 GTA
83603711 GCTCTCTTGT-CTACATGGTGTACACATAGTATCACCCATGCAACCTAGCTACCTCATAATGTCT
1 GCTCTCTTGTAC-ACATGGTGTACACATAGTATCACCCATGCAACCTAGCTACCTC-T-AT-TCT
83603775 CGTA
62 CGTA
* *
83603779 GCTCTCTTCTACACATGGTATACA
1 GCTCTCTTGTACACATGGTGTACA
83603803 TCCCTTATTA
Statistics
Matches: 126, Mismatches: 23, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
63 18 0.14
64 28 0.22
65 1 0.01
66 23 0.18
67 28 0.22
68 27 0.21
69 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.32
Consensus pattern (65 bp):
GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGCAACCTAGCTACCTCTATTCTCGTA
Found at i:83608362 original size:68 final size:65
Alignment explanation
Indices: 83608156--83608405 Score: 211
Period size: 68 Copynumber: 3.8 Consensus size: 65
83608146 CATAATTTTG
* * * * *
83608156 GCTCTCTTGTAC-ACATGGTGTACACATAGTATCACCCAAGTGACCTAGCCA-CTTTA-TCTCGT
1 GCTCTCTTGT-CTACATGGTGTACATATAGTATCACACATGTGACCTAGCTACCTCTATTCTCGT
83608218 A
65 A
* * * * * * ** *
83608219 GCTCTCTTGTTTACATGGTGTCCTTCACCTGGAACCACACATGCAACCTAGCTACATCTA-TCTC
1 GCTCTCTTGTCTACATGGTGTACAT-A--TAGTATCACACATGTGACCTAGCTACCTCTATTCTC
83608283 GTA
63 GTA
*
83608286 GCTCTCTTGTCTACATGGTGTACATATAGTATCACCCATGTGACCTAGCTACCTCATAATGTCTC
1 GCTCTCTTGTCTACATGGTGTACATATAGTATCACACATGTGACCTAGCTACCTC-T-AT-TCTC
83608351 GTA
63 GTA
* * *** * *
83608354 GCTCTCTTGTATACATGGTATACATCCCGTATTACACATGTGACCTAACTAC
1 GCTCTCTTGTCTACATGGTGTACATATAGTATCACACATGTGACCTAGCTAC
83608406 ATATCATCTG
Statistics
Matches: 146, Mismatches: 32, Indels: 13
0.76 0.17 0.07
Matches are distributed among these distances:
63 20 0.14
64 23 0.16
65 1 0.01
66 19 0.13
67 32 0.22
68 51 0.35
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.32
Consensus pattern (65 bp):
GCTCTCTTGTCTACATGGTGTACATATAGTATCACACATGTGACCTAGCTACCTCTATTCTCGTA
Found at i:83622168 original size:40 final size:40
Alignment explanation
Indices: 83622070--83622332 Score: 309
Period size: 40 Copynumber: 6.6 Consensus size: 40
83622060 TCCTCGTTCA
* * * ** *
83622070 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
83622109 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
83622149 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
83622189 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
83622229 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
83622269 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
83622309 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
83622333 CAGCATTCAA
Statistics
Matches: 199, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
39 37 0.19
40 154 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:83631553 original size:40 final size:40
Alignment explanation
Indices: 83631505--83631852 Score: 561
Period size: 40 Copynumber: 8.7 Consensus size: 40
83631495 GCAAACACAT
* * * *
83631505 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
* *
83631545 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
* **
83631585 TTGCCTTCGGGTCTTAGCCCGGATATATCGTCTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
* *
83631625 TTGCCTTCGGGTCATAGCCCGGATATATTATCTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
* *
83631665 TTGCCTTCGGGTCATAGCCCGGATATATTATCTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
83631705 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
*
83631745 TTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
*
83631785 TTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
83631825 TTGCCTTCGGGTCATAGCCCGGATATAT
1 TTGCCTTCGGGTCATAGCCCGGATATAT
83631853 TCCAATGCTC
Statistics
Matches: 294, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 294 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
Found at i:83643216 original size:30 final size:28
Alignment explanation
Indices: 83643146--83643201 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
83643136 GCCCATGGGG
83643146 CTGACCGTGTGTCACATATGGCCTAGAC
1 CTGACCGTGTGTCACATATGGCCTAGAC
83643174 CTGACCGTGTGTCACATATGGCCTAGAC
1 CTGACCGTGTGTCACATATGGCCTAGAC
83643202 ACATGCCTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.21, C:0.29, G:0.25, T:0.25
Consensus pattern (28 bp):
CTGACCGTGTGTCACATATGGCCTAGAC
Found at i:83644701 original size:41 final size:41
Alignment explanation
Indices: 83644656--83644737 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
83644646 CCATGATTGG
83644656 CCATTCCAATGGCTAATCATTACCAAACATTTCCACACCAC
1 CCATTCCAATGGCTAATCATTACCAAACATTTCCACACCAC
*
83644697 CCATTCCAATGGCTAATTATTACCAAACATTTCCACACCAC
1 CCATTCCAATGGCTAATCATTACCAAACATTTCCACACCAC
83644738 TTAATAACCA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.34, C:0.35, G:0.05, T:0.26
Consensus pattern (41 bp):
CCATTCCAATGGCTAATCATTACCAAACATTTCCACACCAC
Found at i:83657548 original size:116 final size:116
Alignment explanation
Indices: 83657340--83657614 Score: 410
Period size: 116 Copynumber: 2.4 Consensus size: 116
83657330 ATTTGATGTG
* *
83657340 TATCCGGGCTTAAAGACCCGCAGGCTTTGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTT
1 TATCCGGGCTTAAAAACCCGCAGGCTTTGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTT
* *
83657405 CGTGCTGGTAATATATCCAGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
66 CATGCTGGTAATATATCCAGGTTAAATCCCACAGGCTTCGTGCTGGTAATA
* *
83657456 TATTCGGGCTTAAAAACCCGCAGGCTTTGTGCTGGTATTATATCCGGGTTAAATCCCGTAGGCTT
1 TATCCGGGCTTAAAAACCCGCAGGCTTTGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTT
* *
83657521 CATGCTGGTAATATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTATTA
66 CATGCTGGTAATATATCCAGGTTAAATCCCACAGGCTTCGTGCTGGTAATA
* * * * * *
83657572 TATCCAGG-TT-GAATCCCGCAGGCCTAGTACTGGTATTATATCC
1 TATCCGGGCTTAAAAACCCGCAGGCTTTGTGCTGGTATTATATCC
83657615 AGGCCTTTGA
Statistics
Matches: 144, Mismatches: 15, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
114 28 0.19
115 2 0.01
116 114 0.79
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (116 bp):
TATCCGGGCTTAAAAACCCGCAGGCTTTGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTT
CATGCTGGTAATATATCCAGGTTAAATCCCACAGGCTTCGTGCTGGTAATA
Found at i:83657617 original size:38 final size:38
Alignment explanation
Indices: 83657340--83657614 Score: 361
Period size: 38 Copynumber: 7.1 Consensus size: 38
83657330 ATTTGATGTG
* *
83657340 TATCCGGGCTTAAAGACCCGCAGGCTTTGTGCTGGTAATA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAATA
83657380 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
*
83657418 TATCCAGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* * * *
83657456 TATTCGGGCTTAAAAACCCGCAGGCTTTGTGCTGGTATTA
1 TATCCGGG-TT-AAATCCCGCAGGCTTCGTGCTGGTAATA
* *
83657496 TATCCGGGTTAAATCCCGTAGGCTTCATGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* *
83657534 TATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* * * * * *
83657572 TATCCAGGTTGAATCCCGCAGGCCTAGTACTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
83657610 TATCC
1 TATCC
83657615 AGGCCTTTGA
Statistics
Matches: 209, Mismatches: 24, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
38 160 0.77
39 9 0.04
40 40 0.19
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
Found at i:83657666 original size:45 final size:44
Alignment explanation
Indices: 83657616--83657740 Score: 141
Period size: 45 Copynumber: 2.9 Consensus size: 44
83657606 ATTATATCCA
* *
83657616 GGCCTTTGAGCCTAGCAGGCTATTATACCGGTGAGAT-ACTATTCG
1 GGCCTTTGAGCCTAGCAGGCTATAATACCGGTGACATGA-TA-TCG
* *
83657661 GGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGACATGATATCG
1 GGCCTTTGAGCCTAGCAGGCTATAATACCGGTGACATGATATCG
* * *
83657705 AGCC-TTGAGCCTAGCAGGCGA-AATGCCGGTGA-ATGA
1 GGCCTTTGAGCCTAGCAGGCTATAATACCGGTGACATGA
83657741 ATAAAAGTCT
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
41 4 0.06
42 11 0.15
43 15 0.21
44 6 0.08
45 35 0.49
46 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.25
Consensus pattern (44 bp):
GGCCTTTGAGCCTAGCAGGCTATAATACCGGTGACATGATATCG
Found at i:83660206 original size:23 final size:23
Alignment explanation
Indices: 83660179--83660222 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
83660169 GCAATAATCA
83660179 AAGCATAATTCGTAATAAAATTT
1 AAGCATAATTCGTAATAAAATTT
83660202 AAGCATAATTCGTAATAAAAT
1 AAGCATAATTCGTAATAAAAT
83660223 ATGGTACATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.32
Consensus pattern (23 bp):
AAGCATAATTCGTAATAAAATTT
Found at i:83661515 original size:18 final size:18
Alignment explanation
Indices: 83661492--83661527 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
83661482 GTAATCAGGT
83661492 TAAACACTCAATTTGAGG
1 TAAACACTCAATTTGAGG
83661510 TAAACACTCAATTTGAGG
1 TAAACACTCAATTTGAGG
83661528 GTTTTGATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.28
Consensus pattern (18 bp):
TAAACACTCAATTTGAGG
Found at i:83668112 original size:49 final size:50
Alignment explanation
Indices: 83668057--83668158 Score: 136
Period size: 50 Copynumber: 2.1 Consensus size: 50
83668047 AAACATGGTA
* *
83668057 GTTATAATTC-TTTTTGGAAAGACTATAACATTTTTAATACTTTT-CATAT
1 GTTATAATTCTTTTTTGGAAACACTATAACATGTTTAAT-CTTTTCCATAT
* * *
83668106 GTTATAATTCTTTTTTGGAAACAGTATAACGTGTTTAATGTTTTCCATAT
1 GTTATAATTCTTTTTTGGAAACACTATAACATGTTTAATCTTTTCCATAT
83668156 GTT
1 GTT
83668159 TTCTATAAGA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
49 14 0.30
50 32 0.70
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.49
Consensus pattern (50 bp):
GTTATAATTCTTTTTTGGAAACACTATAACATGTTTAATCTTTTCCATAT
Found at i:83671381 original size:19 final size:17
Alignment explanation
Indices: 83671357--83671399 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
83671347 TCAAATAAAA
83671357 AAAAATAAAAAAATTTTGG
1 AAAAATAAAAAAA-TTT-G
**
83671376 AAAAATATGAAAATTTG
1 AAAAATAAAAAAATTTG
83671393 AAAAATA
1 AAAAATA
83671400 GAGGTCAGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 8 0.36
18 3 0.14
19 11 0.50
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (17 bp):
AAAAATAAAAAAATTTG
Found at i:83673674 original size:31 final size:31
Alignment explanation
Indices: 83673627--83673708 Score: 85
Period size: 31 Copynumber: 2.7 Consensus size: 31
83673617 TAAATCTCAA
*
83673627 CATAT-ACTGGGCCGAAGCCTCTGCATTATT
1 CATATCACTAGGCCGAAGCCTCTGCATTATT
* * * *
83673657 CATGTCACTAGGCCGAAGCATTTTCATTATT
1 CATATCACTAGGCCGAAGCCTCTGCATTATT
* * *
83673688 CCTATCATTGGGCCGAAGCCT
1 CATATCACTAGGCCGAAGCCT
83673709 TTTACTGTAA
Statistics
Matches: 41, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
30 4 0.10
31 37 0.90
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (31 bp):
CATATCACTAGGCCGAAGCCTCTGCATTATT
Found at i:83673961 original size:25 final size:25
Alignment explanation
Indices: 83673933--83674027 Score: 118
Period size: 25 Copynumber: 3.8 Consensus size: 25
83673923 CTCTTTTAAT
* *
83673933 AACTGAGGAAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
* *
83673958 AACTGGGGCAAAGCCATTTTTGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
* *
83673983 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
* *
83674008 AATTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
83674028 GCACTTCCTC
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 62 1.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.28
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:83674091 original size:11 final size:11
Alignment explanation
Indices: 83674075--83674123 Score: 59
Period size: 11 Copynumber: 4.7 Consensus size: 11
83674065 TATATGAATT
83674075 TATCATGTGCA
1 TATCATGTGCA
*
83674086 TATCA--TACA
1 TATCATGTGCA
83674095 TATCATGTGCA
1 TATCATGTGCA
83674106 TATCATGT-CA
1 TATCATGTGCA
*
83674116 AATCATGT
1 TATCATGT
83674124 ATATCAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
9 8 0.24
10 9 0.27
11 16 0.48
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (11 bp):
TATCATGTGCA
Found at i:83685580 original size:27 final size:26
Alignment explanation
Indices: 83685544--83685653 Score: 148
Period size: 27 Copynumber: 4.1 Consensus size: 26
83685534 TAGCATGGCT
* *
83685544 ACCAGAACAGATAATGTGACAGAGTC
1 ACCAGAACAGATAATGTGGCAGAGCC
83685570 ACCAGATACAGATAATCGTGGCAGAGCC
1 ACCAGA-ACAGATAAT-GTGGCAGAGCC
83685598 ACCAGAACAGATATATGTGGCAGAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
* *
83685625 ACCAGATCAGATAATTGTGGCATAGCC
1 ACCAGAACAGATAA-TGTGGCAGAGCC
83685652 AC
1 AC
83685654 TAGGACGCTT
Statistics
Matches: 76, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
26 7 0.09
27 52 0.68
28 17 0.22
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (26 bp):
ACCAGAACAGATAATGTGGCAGAGCC
Found at i:83685608 original size:54 final size:54
Alignment explanation
Indices: 83685544--83685653 Score: 168
Period size: 54 Copynumber: 2.0 Consensus size: 54
83685534 TAGCATGGCT
*
83685544 ACCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCC
1 ACCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCC
* * *
83685598 ACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCC
1 ACCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCC
83685652 AC
1 AC
83685654 TAGGACGCTT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (54 bp):
ACCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCC
Found at i:83692909 original size:30 final size:30
Alignment explanation
Indices: 83692873--83692939 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 30
83692863 AATCGGAAGT
83692873 TTTGGCACTAAGTGTACGATTTAAACTAGC
1 TTTGGCACTAAGTGTACGATTTAAACTAGC
**
83692903 TTTGGCACTAAGTGTGTGATTTAAACTAGC
1 TTTGGCACTAAGTGTACGATTTAAACTAGC
*
83692933 TTCGGCA
1 TTTGGCA
83692940 ACTTGAGGCA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.34
Consensus pattern (30 bp):
TTTGGCACTAAGTGTACGATTTAAACTAGC
Found at i:83696350 original size:27 final size:27
Alignment explanation
Indices: 83696320--83696447 Score: 148
Period size: 27 Copynumber: 4.7 Consensus size: 27
83696310 TACTGAAATG
* *
83696320 CCCTCGATTTGTAGAATTACTATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
83696347 CCCTCGATTTATAAAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* ** *
83696374 CCCTTGATTTATAGAATTACTGTGTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
83696401 CCCTCGATTTACAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
83696428 CCCTTGATTTACAAAATTAC
1 CCCTCGATTTATAGAATTAC
83696448 TTCGATTTAC
Statistics
Matches: 86, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 86 1.00
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.41
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:83696389 original size:54 final size:54
Alignment explanation
Indices: 83696320--83696610 Score: 357
Period size: 54 Copynumber: 5.6 Consensus size: 54
83696310 TACTGAAATG
* * *
83696320 CCCTCGATTTGTAGAATTACTATTTTACCCTCGATTTATAAAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTA
* * * *
83696374 CCCTTGATTTATAGAATTACTGTGTTACCCTCGATTTACAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTA
* * * *
83696428 CCCTTGA-TT-TACAA--A--A--TTA-CTTCGATTTACAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTA
* * *
83696473 CCCTCGATTTATATAATTACTATTTTATCCTCAATTTACAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTA
* *
83696527 CCCTCGATTTACAGAATTACTATTTTACCCTCGATTTATAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTA
* *
83696581 CCCTCGATTTATAAAATTACCATTTTACCC
1 CCCTCGATTTATAGAATTACTATTTTACCC
83696611 CTAAGGTGTT
Statistics
Matches: 205, Mismatches: 23, Indels: 18
0.83 0.09 0.07
Matches are distributed among these distances:
45 31 0.15
46 5 0.02
47 4 0.02
49 1 0.00
50 1 0.00
51 1 0.00
52 4 0.02
53 5 0.02
54 153 0.75
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (54 bp):
CCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTA
Found at i:83696444 original size:81 final size:80
Alignment explanation
Indices: 83696320--83696610 Score: 355
Period size: 81 Copynumber: 3.7 Consensus size: 80
83696310 TACTGAAATG
* * *
83696320 CCCTCGATTTGTAGAATTACTATTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTTACCC-TGATTTA
* * *
83696385 TAGAATTACTGTGTTA
65 CAGAATTACTATTTTA
* *
83696401 CCCTCGATTTACAGAATTACCATTTTACCCTTGATTTACAAAATTA-C---TT---C-GATTTAC
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTGATTTAC
*
83696458 AGAATTACCATTTTA
66 AGAATTACTATTTTA
* * * * *
83696473 CCCTCGATTTATATAATTACTATTTTATCCTCAATTTACAGAATTACCGTTTTACCCTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTTACCCT-GATTTA
83696538 CAGAATTACTATTTTA
65 CAGAATTACTATTTTA
* * *
83696554 CCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAAAATTACCATTTTACCC
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTTACCC
83696611 CTAAGGTGTT
Statistics
Matches: 176, Mismatches: 25, Indels: 18
0.80 0.11 0.08
Matches are distributed among these distances:
72 57 0.32
73 1 0.01
74 1 0.01
76 2 0.01
77 2 0.01
79 1 0.01
80 1 0.01
81 111 0.63
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (80 bp):
CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTGATTTAC
AGAATTACTATTTTA
Found at i:83696455 original size:45 final size:45
Alignment explanation
Indices: 83696404--83696547 Score: 153
Period size: 45 Copynumber: 3.0 Consensus size: 45
83696394 TGTGTTACCC
*
83696404 TCGATTTACAGAATTACCATTTTACCCTTGATTTACAAAATTACT
1 TCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACT
* *
83696449 TCGATTTACAGAATTACCATTTTACCCTCGATTTATATAATTACTATTTTATCC
1 TCGATTTACAGAATTACCATTTTACCCTCGA-TT-TACAA--A--A--TTA-CT
* * *
83696503 TCAATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACT
1 TCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACT
83696548 ATTTTACCCT
Statistics
Matches: 82, Mismatches: 8, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
45 31 0.38
46 5 0.06
47 4 0.05
48 1 0.01
49 1 0.01
50 1 0.01
51 1 0.01
52 3 0.04
53 5 0.06
54 30 0.37
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (45 bp):
TCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACT
Found at i:83696483 original size:27 final size:27
Alignment explanation
Indices: 83696449--83696610 Score: 225
Period size: 27 Copynumber: 6.0 Consensus size: 27
83696439 CAAAATTACT
83696449 TCGATTTACAGAATTACCATTTTACCC
1 TCGATTTACAGAATTACCATTTTACCC
* * * *
83696476 TCGATTTATATAATTACTATTTTATCC
1 TCGATTTACAGAATTACCATTTTACCC
* *
83696503 TCAATTTACAGAATTACCGTTTTACCC
1 TCGATTTACAGAATTACCATTTTACCC
*
83696530 TCGATTTACAGAATTACTATTTTACCC
1 TCGATTTACAGAATTACCATTTTACCC
* *
83696557 TCGATTTATAGAATTACCGTTTTACCC
1 TCGATTTACAGAATTACCATTTTACCC
* *
83696584 TCGATTTATAAAATTACCATTTTACCC
1 TCGATTTACAGAATTACCATTTTACCC
83696611 CTAAGGTGTT
Statistics
Matches: 117, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 117 1.00
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.41
Consensus pattern (27 bp):
TCGATTTACAGAATTACCATTTTACCC
Found at i:83696526 original size:99 final size:104
Alignment explanation
Indices: 83696343--83696610 Score: 339
Period size: 99 Copynumber: 2.6 Consensus size: 104
83696333 GAATTACTAT
* * * * * *
83696343 TTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGATTTATAGAATTACTGTGTTACCCTCGA
1 TTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAAAATTACTATTTTACCCTCAA
*
83696408 TTTACAGAATTACCATTTTACCCTTGATTTAC-AA-A-A
66 TTTACAGAATTACCATTTTACCCTCGATTTACAAATACA
* * * * *
83696444 -TTA-CTTCGATTTACAGAATTACCATTTTACCCTCGATTTATATAATTACTATTTTATCCTCAA
1 TTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAAAATTACTATTTTACCCTCAA
*
83696507 TTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACTA
66 TTTACAGAATTACCATTTTACCCTCGATTTACA-AA-TAC-A
*
83696549 TTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAAAATTACCATTTTACCC
1 -TTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAAAATTACTATTTTACCC
83696611 CTAAGGTGTT
Statistics
Matches: 140, Mismatches: 18, Indels: 11
0.83 0.11 0.07
Matches are distributed among these distances:
99 80 0.57
100 3 0.02
101 2 0.01
103 1 0.01
105 1 0.01
107 3 0.02
108 50 0.36
ACGTcount: A:0.29, C:0.22, G:0.07, T:0.41
Consensus pattern (104 bp):
TTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAAAATTACTATTTTACCCTCAA
TTTACAGAATTACCATTTTACCCTCGATTTACAAATACA
Found at i:83696552 original size:126 final size:126
Alignment explanation
Indices: 83696323--83696573 Score: 358
Period size: 126 Copynumber: 2.0 Consensus size: 126
83696313 TGAAATGCCC
** * * ** *
83696323 TCGATTTGTAGAATTACTATTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGATTTATAG
1 TCGATTTACAGAATTACCATTTTACCCTCGATTTATAAAATTACCATTTTACCCTCAATTTACAG
* *
83696388 AATTACTGTGTTACCCTCGATTTACAGAATTACCATTTTACCCTTGATTTACAAAATTACT
66 AATTACCGTGTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACT
* * *
83696449 TCGATTTACAGAATTACCATTTTACCCTCGATTTATATAATTACTATTTTATCCTCAATTTACAG
1 TCGATTTACAGAATTACCATTTTACCCTCGATTTATAAAATTACCATTTTACCCTCAATTTACAG
* * * *
83696514 AATTACCGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTATAGAATTAC
66 AATTACCGTGTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTAC
83696574 CGTTTTACCC
Statistics
Matches: 109, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
126 109 1.00
ACGTcount: A:0.30, C:0.20, G:0.08, T:0.42
Consensus pattern (126 bp):
TCGATTTACAGAATTACCATTTTACCCTCGATTTATAAAATTACCATTTTACCCTCAATTTACAG
AATTACCGTGTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACT
Found at i:83696570 original size:153 final size:153
Alignment explanation
Indices: 83696320--83696600 Score: 436
Period size: 153 Copynumber: 1.8 Consensus size: 153
83696310 TACTGAAATG
* * * *
83696320 CCCTCGATTTGTAGAATTACTATTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGATTTA
1 CCCTCGATTTATAGAATTACTATTTTACCCTCAATTTACAAAATTACCGTTTTACCCTCGATTTA
* * *
83696385 TAGAATTACTGTGTTACCCTCGATTTACAGAATTACCATTTTACCCTTGATTTACAAAATTACTT
66 CAGAATTACTATGTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTT
83696450 CGATTTACAGAATTACCATTTTA
131 CGATTTACAGAATTACCATTTTA
* * *
83696473 CCCTCGATTTATATAATTACTATTTTATCCTCAATTTACAGAATTACCGTTTTACCCTCGATTTA
1 CCCTCGATTTATAGAATTACTATTTTACCCTCAATTTACAAAATTACCGTTTTACCCTCGATTTA
* * * *
83696538 CAGAATTACTATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAAAATTAC
66 CAGAATTACTATGTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTAC
83696601 CATTTTACCC
Statistics
Matches: 114, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
153 114 1.00
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.41
Consensus pattern (153 bp):
CCCTCGATTTATAGAATTACTATTTTACCCTCAATTTACAAAATTACCGTTTTACCCTCGATTTA
CAGAATTACTATGTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTT
CGATTTACAGAATTACCATTTTA
Found at i:83696961 original size:26 final size:27
Alignment explanation
Indices: 83696932--83696991 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
83696922 CCACATATAT
*
83696932 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
83696958 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
83696985 ATATCTG
1 ATATCTG
83696992 GCAGCCTCAC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:83697172 original size:37 final size:37
Alignment explanation
Indices: 83697131--83697231 Score: 157
Period size: 37 Copynumber: 2.7 Consensus size: 37
83697121 ATTCTGTTAC
* * *
83697131 CTGATACTGATTCTAATTCTAATTTTGTCACCTAATT
1 CTGATTCTGATTCTGATTCTGATTTTGTCACCTAATT
* *
83697168 CTGATTCTGATTCTGATTCTGATTCTGTCACCTGATT
1 CTGATTCTGATTCTGATTCTGATTTTGTCACCTAATT
83697205 CTGATTCTGATTCTGATTCTGATTTTG
1 CTGATTCTGATTCTGATTCTGATTTTG
83697232 ATTCTAGTTC
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.48
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTGATTTTGTCACCTAATT
Found at i:83697176 original size:6 final size:6
Alignment explanation
Indices: 83697165--83697245 Score: 103
Period size: 6 Copynumber: 13.3 Consensus size: 6
83697155 TTGTCACCTA
*
83697165 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
*
83697214 ATTCTG ATTCTG ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
83697246 AATGTTTCTT
Statistics
Matches: 66, Mismatches: 4, Indels: 10
0.82 0.05 0.12
Matches are distributed among these distances:
5 2 0.03
6 59 0.89
7 4 0.06
8 1 0.02
ACGTcount: A:0.17, C:0.17, G:0.16, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:83697220 original size:31 final size:31
Alignment explanation
Indices: 83697109--83697225 Score: 126
Period size: 31 Copynumber: 3.6 Consensus size: 31
83697099 TTGCATTCAC
* * *
83697109 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGATTCTG
* * *
83697140 ATTCTAATTCTAATTTTGTCACCTAATTCTGATTCTG
1 ATTCTGATTCTGATTCTGTCA-C-----CTGATTCTG
83697177 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATTCTG
83697208 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
83697226 ATTTTGATTC
Statistics
Matches: 71, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
31 43 0.61
32 1 0.01
36 1 0.01
37 26 0.37
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATTCTG
Found at i:83701029 original size:26 final size:26
Alignment explanation
Indices: 83700999--83701060 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
83700989 ATCCTATCTC
*
83700999 AAGCCATATAA-CAGGAAACTCACAAA
1 AAGCCAT-TAATCAAGAAACTCACAAA
* *
83701025 GAGCCATTAATCAAGAAGCTCACAAA
1 AAGCCATTAATCAAGAAACTCACAAA
83701051 AAGCCTATTA
1 AAGCC-ATTA
83701061 GAAAGCTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 3 0.10
26 23 0.77
27 4 0.13
ACGTcount: A:0.48, C:0.23, G:0.13, T:0.16
Consensus pattern (26 bp):
AAGCCATTAATCAAGAAACTCACAAA
Found at i:83701143 original size:26 final size:25
Alignment explanation
Indices: 83701084--83701164 Score: 85
Period size: 26 Copynumber: 3.2 Consensus size: 25
83701074 AGCTAAATAG
83701084 CAGGAAGCTCA-TAAGAGCCATAAT
1 CAGGAAGCTCACTAAGAGCCATAAT
*
83701108 CAGGAAGCTCACTAAGAGCCTTTAAAT
1 CAGGAAGCTCACTAAGAGCC-AT-AAT
* * *
83701135 -GGGAAGCTCACGAAGGGCCATTAAT
1 CAGGAAGCTCACTAAGAGCCA-TAAT
83701160 CAGGA
1 CAGGA
83701165 GTTCTGAATA
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
24 11 0.24
25 11 0.24
26 21 0.46
27 3 0.07
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.17
Consensus pattern (25 bp):
CAGGAAGCTCACTAAGAGCCATAAT
Found at i:83713925 original size:24 final size:24
Alignment explanation
Indices: 83713893--83713954 Score: 97
Period size: 24 Copynumber: 2.6 Consensus size: 24
83713883 ACTTATTCGT
**
83713893 ACACATAGTGCCACGTTTTCTCGC
1 ACACATAGTGCCACGTAATCTCGC
*
83713917 ACACATAGTGCCATGTAATCTCGC
1 ACACATAGTGCCACGTAATCTCGC
83713941 ACACATAGTGCCAC
1 ACACATAGTGCCAC
83713955 TTAGTTTTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.27, C:0.32, G:0.16, T:0.24
Consensus pattern (24 bp):
ACACATAGTGCCACGTAATCTCGC
Found at i:83715079 original size:20 final size:21
Alignment explanation
Indices: 83715054--83715092 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
83715044 TAATTTCTTC
*
83715054 TTTTATTCCTATT-TTTATTT
1 TTTTATTCATATTATTTATTT
83715074 TTTTATTCATATTATTTAT
1 TTTTATTCATATTATTTAT
83715093 GATATTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTTATTCATATTATTTATTT
Found at i:83718368 original size:40 final size:40
Alignment explanation
Indices: 83717568--83718366 Score: 1496
Period size: 40 Copynumber: 20.0 Consensus size: 40
83717558 GATGACATCC
83717568 GGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCT
83717608 GGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCT
83717648 GGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCT
83717688 GGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCT
83717728 GGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCT
83717768 GGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCT
83717808 GGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCT
83717848 GGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCT
83717888 GGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCT
83717928 GGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCT
83717968 GGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCT
83718008 GGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCT
83718048 GGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCT
83718088 GGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCT
83718128 GGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCT
* *
83718168 GGGCTAAGTCCCGAAGGCATTTGTGCTATTGA-TGACATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT-ATATCT
*
83718208 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATAT-T
1 GGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCT
83718247 CGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCT
1 -GGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCT
*
83718288 GGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCT
* *
83718328 GGGCTAAGTCTCGAAGGCATTTGTGCGAGTTG-CTATATC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACTATATC
83718367 CGACTAAATC
Statistics
Matches: 745, Mismatches: 9, Indels: 10
0.98 0.01 0.01
Matches are distributed among these distances:
39 1 0.00
40 739 0.99
41 5 0.01
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCT
Found at i:83726681 original size:40 final size:41
Alignment explanation
Indices: 83726626--83726731 Score: 146
Period size: 40 Copynumber: 2.7 Consensus size: 41
83726616 TGATTATTCG
* *
83726626 GACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TT
1 GACTATATTCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTT
83726666 GACTATATTCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTT
1 GACTATATTCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTT
* * *
83726707 G-CTATA-TCTGGCTAAATCCTGAAGG
1 GACTATATTCGGGCTAAGTCCCGAAGG
83726732 TACTTGGGTT
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
39 16 0.27
40 41 0.68
41 3 0.05
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (41 bp):
GACTATATTCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTT
Found at i:83737194 original size:2 final size:2
Alignment explanation
Indices: 83737143--83737186 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
83737133 TATATATATA
*
83737143 TG TG TG TG TG TG TG TC TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
83737185 TG
1 TG
83737187 AATGTGTGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.02, G:0.48, T:0.50
Consensus pattern (2 bp):
TG
Found at i:83746746 original size:39 final size:40
Alignment explanation
Indices: 83746632--83746816 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
83746622 GCTACTCGTT
*
83746632 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
83746672 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
83746712 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * * *
83746751 CAAATGCCTTC-GAATCTTAGTCTGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
83746792 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
83746817 CATCATTCGA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 1 0.01
39 33 0.27
40 77 0.63
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:83746800 original size:79 final size:81
Alignment explanation
Indices: 83746632--83746816 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
83746622 GCTACTCGTT
* * *
83746632 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGAACTTAACCCG
* *
83746696 GATTTAGTAACTCGCAC
65 GATATAGTAACTAGCAC
* ** *
83746713 CAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GAATCTTAGTCTG
1 CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGAA-CTTAACCCG
* *
83746775 GATATGGTCACTTAGCA-
65 GATATAGTAAC-TAGCAC
83746792 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
83746817 CATCATTCGA
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 2 0.02
79 58 0.66
80 25 0.28
81 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGAACTTAACCCGG
ATATAGTAACTAGCAC
Found at i:83754158 original size:36 final size:36
Alignment explanation
Indices: 83754111--83754181 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
83754101 TAATTTTGGA
83754111 TATACATTGTTCAATAGCATTTTAAATACATATAAT
1 TATACATTGTTCAATAGCATTTTAAATACATATAAT
83754147 TATACATTGTTCAATAGCATTTTAAATACATATAA
1 TATACATTGTTCAATAGCATTTTAAATACATATAA
83754182 ACATATAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.42, C:0.11, G:0.06, T:0.41
Consensus pattern (36 bp):
TATACATTGTTCAATAGCATTTTAAATACATATAAT
Found at i:83759785 original size:18 final size:18
Alignment explanation
Indices: 83759762--83759798 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
83759752 TTTGGCAAAA
83759762 TAAATTTAATTAATTAGG
1 TAAATTTAATTAATTAGG
83759780 TAAATTTAATTAATTAGG
1 TAAATTTAATTAATTAGG
83759798 T
1 T
83759799 CTTTTGGCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (18 bp):
TAAATTTAATTAATTAGG
Found at i:83762174 original size:13 final size:13
Alignment explanation
Indices: 83762156--83762188 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
83762146 CTTGGGACAC
83762156 GCCCGTGCCCTTA
1 GCCCGTGCCCTTA
83762169 GCCCGTGCCCTTA
1 GCCCGTGCCCTTA
83762182 GCCCGTG
1 GCCCGTG
83762189 TGCAACACTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.06, C:0.45, G:0.27, T:0.21
Consensus pattern (13 bp):
GCCCGTGCCCTTA
Found at i:83764638 original size:45 final size:45
Alignment explanation
Indices: 83764587--83764675 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
83764577 GGCTAAATGG
* *
83764587 GCCTAGATGACTAAATTGGCTACGTAGGGCCCATTAAGGGTTTTT
1 GCCTAGATGACTAAATCGGCTACATAGGGCCCATTAAGGGTTTTT
*
83764632 GCCTAGATGACTAAATCGGCTACATAGGGCCCATTAGGGGTTTT
1 GCCTAGATGACTAAATCGGCTACATAGGGCCCATTAAGGGTTTT
83764676 GGCCCAATAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (45 bp):
GCCTAGATGACTAAATCGGCTACATAGGGCCCATTAAGGGTTTTT
Found at i:83764913 original size:20 final size:20
Alignment explanation
Indices: 83764888--83764956 Score: 120
Period size: 20 Copynumber: 3.5 Consensus size: 20
83764878 ATTCTGATAT
*
83764888 ACATGATATGTATGATATGA
1 ACATGATATGTATGATATGC
83764908 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
83764928 ATATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
83764948 ACATGATAT
1 ACATGATAT
83764957 ATTCATAATG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.38, C:0.07, G:0.19, T:0.36
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:83764915 original size:11 final size:10
Alignment explanation
Indices: 83764890--83764956 Score: 68
Period size: 9 Copynumber: 6.7 Consensus size: 10
83764880 TCTGATATAC
83764890 ATGATATG-T
1 ATGATATGAT
*
83764899 ATGATATGAAC
1 ATGATATG-AT
83764910 ATGATATG-T
1 ATGATATGAT
83764919 ATGATATGCAT
1 ATGATATG-AT
83764930 ATGATATG-T
1 ATGATATGAT
*
83764939 ATGATATGCAC
1 ATGATATG-AT
83764950 ATGATAT
1 ATGATAT
83764957 ATTCATAATG
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
9 25 0.51
11 24 0.49
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.37
Consensus pattern (10 bp):
ATGATATGAT
Found at i:83764946 original size:9 final size:9
Alignment explanation
Indices: 83764890--83764946 Score: 69
Period size: 9 Copynumber: 5.9 Consensus size: 9
83764880 TCTGATATAC
83764890 ATGATATGT
1 ATGATATGT
*
83764899 ATGATATGAAC
1 ATGATATG--T
83764910 ATGATATGT
1 ATGATATGT
83764919 ATGATATGCAT
1 ATGATATG--T
83764930 ATGATATGT
1 ATGATATGT
83764939 ATGATATG
1 ATGATATG
83764947 CACATGATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
9 25 0.60
11 17 0.40
ACGTcount: A:0.37, C:0.04, G:0.21, T:0.39
Consensus pattern (9 bp):
ATGATATGT
Found at i:83764968 original size:40 final size:40
Alignment explanation
Indices: 83764890--83764969 Score: 117
Period size: 40 Copynumber: 2.0 Consensus size: 40
83764880 TCTGATATAC
* *
83764890 ATGATATGTATGATATGAACATGATATGTATGATATGCAT
1 ATGATATGTATGATATGAACATGATATATATCATATGCAT
*
83764930 ATGATATGTATGATATGCACATGATATAT-TCATAATGCAT
1 ATGATATGTATGATATGAACATGATATATATCAT-ATGCAT
83764970 TGGGATGGGT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
39 3 0.08
40 33 0.92
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.38
Consensus pattern (40 bp):
ATGATATGTATGATATGAACATGATATATATCATATGCAT
Found at i:83765028 original size:24 final size:24
Alignment explanation
Indices: 83765001--83765096 Score: 95
Period size: 24 Copynumber: 3.9 Consensus size: 24
83764991 GAGGAAGTGC
83765001 AAAAGGGCTATGCCCCAGTTACTG
1 AAAAGGGCTATGCCCCAGTTACTG
* *
83765025 AAAAGGGCTTTACCCCAGTTTACTG
1 AAAAGGGCTATGCCCCAG-TTACTG
* * *
83765050 AAAAGGGATTTTGCCCCAGTTA-TT
1 AAAAGGG-CTATGCCCCAGTTACTG
*
83765074 AAAAGAGGCTAGGCCTCCAGTTA
1 AAAAG-GGCTATGCC-CCAGTTA
83765097 TATGGTAAAG
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
24 26 0.43
25 25 0.42
26 9 0.15
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTATGCCCCAGTTACTG
Found at i:83765053 original size:25 final size:25
Alignment explanation
Indices: 83765001--83765070 Score: 97
Period size: 24 Copynumber: 2.8 Consensus size: 25
83764991 GAGGAAGTGC
*
83765001 AAAAGGGCTATGCCCCAG-TTACTG
1 AAAAGGGCTTTGCCCCAGTTTACTG
*
83765025 AAAAGGGCTTTACCCCAGTTTACTG
1 AAAAGGGCTTTGCCCCAGTTTACTG
*
83765050 AAAAGGGATTTTGCCCCAGTT
1 AAAAGGG-CTTTGCCCCAGTT
83765071 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 16 0.40
25 13 0.32
26 11 0.28
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACTG
Found at i:83773212 original size:46 final size:46
Alignment explanation
Indices: 83773162--83773334 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
83773152 TGGTTGAGCA
83773162 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * * *
83773208 TCCGAATTCGTTGAGTTGAGTCTGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
**
83773253 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
83773301 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
83773335 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 59 0.58
47 27 0.26
48 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:83773318 original size:93 final size:93
Alignment explanation
Indices: 83773159--83773329 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
83773149 GGATGGTTGA
*** *
83773159 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAATTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
*
83773224 TGAGTCTGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
83773252 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
83773317 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
83773330 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:83783087 original size:20 final size:20
Alignment explanation
Indices: 83783062--83783130 Score: 113
Period size: 20 Copynumber: 3.5 Consensus size: 20
83783052 ATTCTGATAT
83783062 ACATGATATGTATGATATGA
1 ACATGATATGTATGATATGA
83783082 ACATGATATGTATGATAT-A
1 ACATGATATGTATGATATGA
*
83783101 CACATGATATGTATGATATGC
1 -ACATGATATGTATGATATGA
83783122 ACATGATAT
1 ACATGATAT
83783131 ATTCATAATG
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
19 1 0.02
20 45 0.98
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.35
Consensus pattern (20 bp):
ACATGATATGTATGATATGA
Found at i:83783089 original size:11 final size:10
Alignment explanation
Indices: 83783056--83783130 Score: 59
Period size: 9 Copynumber: 7.6 Consensus size: 10
83783046 CATGGGATTC
83783056 TGATAT-ACA
1 TGATATGACA
*
83783065 TGATATG-TA
1 TGATATGACA
83783074 TGATATGAACA
1 TGATATG-ACA
*
83783085 TGATATG-TA
1 TGATATGACA
*
83783094 TGATATACACA
1 TGATAT-GACA
*
83783105 TGATATG-TA
1 TGATATGACA
83783114 TGATATGCACA
1 TGATATG-ACA
83783125 TGATAT
1 TGATAT
83783131 ATTCATAATG
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
9 29 0.57
11 22 0.43
ACGTcount: A:0.39, C:0.08, G:0.17, T:0.36
Consensus pattern (10 bp):
TGATATGACA
Found at i:83783227 original size:25 final size:25
Alignment explanation
Indices: 83783175--83783244 Score: 106
Period size: 24 Copynumber: 2.8 Consensus size: 25
83783165 GAGGAAGTGC
* *
83783175 AAAAGGGCTATGCCCTAG-TTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
83783199 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
83783224 AAAAGGGCTTTTGCCCCAGTT
1 AAAAGGGC-TTTGCCCCAGTT
83783245 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
24 16 0.38
25 14 0.33
26 12 0.29
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:83787207 original size:27 final size:26
Alignment explanation
Indices: 83787161--83787220 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
83787151 GCGAGGCTAC
83787161 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGACAAAGTCACCAGA-A
* * *
83787188 CAGATATTGTGGCTAGGTCACCAGAA
1 CAGATATTGTGACAAAGTCACCAGAA
*
83787214 CAAATAT
1 CAGATAT
83787221 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 7 0.24
27 22 0.76
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACAAAGTCACCAGAA
Found at i:83787580 original size:27 final size:26
Alignment explanation
Indices: 83787535--83787593 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
83787525 CCATTAAGTG
83787535 AGATATTGTGACAAAGTCACCAGATAC
1 AGATATTGTGACAAAGTCACCAGA-AC
* * *
83787562 AGATATTGTGGCTAGGTCACCAGAAC
1 AGATATTGTGACAAAGTCACCAGAAC
*
83787588 AAATAT
1 AGATAT
83787594 ATATATGTGG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (26 bp):
AGATATTGTGACAAAGTCACCAGAAC
Found at i:83789102 original size:33 final size:32
Alignment explanation
Indices: 83789051--83789114 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
83789041 ACGAAGTCAC
* *
83789051 CAGATACAGATATTGTGGCTAGGCCACCAGAA
1 CAGATACAGATATTGTGGCGAAGCCACCAGAA
* *
83789083 CAGATATATATATATGTGGCGAAGCCACCAGA
1 CAGATACAGATAT-TGTGGCGAAGCCACCAGA
83789115 TTGCAGCGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (32 bp):
CAGATACAGATATTGTGGCGAAGCCACCAGAA
Found at i:83789178 original size:27 final size:26
Alignment explanation
Indices: 83789130--83789181 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
83789120 GCGAGGCTGC
*
83789130 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
83789156 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
83789182 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:83789869 original size:27 final size:27
Alignment explanation
Indices: 83789839--83789894 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
83789829 TCAGTAGTCC
*
83789839 TACCCTACAAGGGTATTTCGGTAATTT
1 TACCCTACAAGGGTATTTCGATAATTT
* *
83789866 TACCTTACAAGGGTATTTCTATAATTT
1 TACCCTACAAGGGTATTTCGATAATTT
83789893 TA
1 TA
83789895 TAAATCGAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (27 bp):
TACCCTACAAGGGTATTTCGATAATTT
Found at i:83789905 original size:27 final size:27
Alignment explanation
Indices: 83789875--83789975 Score: 89
Period size: 27 Copynumber: 3.7 Consensus size: 27
83789865 TTACCTTACA
83789875 AGGGTATTTCTATAATTTTATAAATCG
1 AGGGTATTTCTATAATTTTATAAATCG
*** * * *
83789902 AGGGTAAAACGATAATTATGTAAATCG
1 AGGGTATTTCTATAATTTTATAAATCG
* * *
83789929 AGGGTATTT-TGGTAATTTTACAAGTCG
1 AGGGTATTTCT-ATAATTTTATAAATCG
83789956 AGGGTATTTC-AGTAATTTTA
1 AGGGTATTTCTA-TAATTTTA
83789976 CAGGTCGAGG
Statistics
Matches: 55, Mismatches: 16, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.34, C:0.07, G:0.21, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCTATAATTTTATAAATCG
Found at i:83789976 original size:27 final size:27
Alignment explanation
Indices: 83789923--83790059 Score: 141
Period size: 27 Copynumber: 5.1 Consensus size: 27
83789913 ATAATTATGT
83789923 AAATCGAGGGTATTTTGGTAATTTTAC
1 AAATCGAGGGTATTTTGGTAATTTTAC
* **
83789950 AAGTCGAGGGTATTTCAGTAATTTTAC
1 AAATCGAGGGTATTTTGGTAATTTTAC
** * ** * *
83789977 AGGTCGAGGTTATTTCAGTAGTTTCAC
1 AAATCGAGGGTATTTTGGTAATTTTAC
83790004 AAATC-AGGGATATTTTGGTAATTTTAC
1 AAATCGAGGG-TATTTTGGTAATTTTAC
* * *
83790031 AAACCAAGGGTATTTTGGTAATTCTAC
1 AAATCGAGGGTATTTTGGTAATTTTAC
83790058 AA
1 AA
83790060 CTTATCCACT
Statistics
Matches: 92, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
26 3 0.03
27 85 0.92
28 4 0.04
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.37
Consensus pattern (27 bp):
AAATCGAGGGTATTTTGGTAATTTTAC
Found at i:83792168 original size:29 final size:29
Alignment explanation
Indices: 83792104--83792179 Score: 93
Period size: 29 Copynumber: 2.7 Consensus size: 29
83792094 CTTACATGCT
* *
83792104 TATGACCCACTAGGCCC-AATCTCATTCA
1 TATGGCCCACTAGGCCCAAATCACATTCA
*
83792132 TATGGCCCATTAGGCCCAAATCACA-TCTA
1 TATGGCCCACTAGGCCCAAATCACATTC-A
*
83792161 TATTGCCCACTAGGCCCAA
1 TATGGCCCACTAGGCCCAA
83792180 TTACTTTTAC
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
28 17 0.41
29 24 0.59
ACGTcount: A:0.29, C:0.34, G:0.13, T:0.24
Consensus pattern (29 bp):
TATGGCCCACTAGGCCCAAATCACATTCA
Found at i:83798850 original size:15 final size:15
Alignment explanation
Indices: 83798830--83798859 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
83798820 ATTATGAAAG
83798830 ATATGTTTTGGATTA
1 ATATGTTTTGGATTA
*
83798845 ATATGTTTTGTATTA
1 ATATGTTTTGGATTA
83798860 GAATTTTTGA
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:0.27, C:0.00, G:0.17, T:0.57
Consensus pattern (15 bp):
ATATGTTTTGGATTA
Found at i:83807804 original size:32 final size:32
Alignment explanation
Indices: 83807768--83807832 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
83807758 CCTTTTCATA
83807768 TTTCATATTGCATAACACTGGGCCGAAGCCTT
1 TTTCATATTGCATAACACTGGGCCGAAGCCTT
* **
83807800 TTTCATATTTCATATTACTGGGCCGAAGCCTT
1 TTTCATATTGCATAACACTGGGCCGAAGCCTT
83807832 T
1 T
83807833 ACTGTAAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (32 bp):
TTTCATATTGCATAACACTGGGCCGAAGCCTT
Found at i:83808069 original size:25 final size:25
Alignment explanation
Indices: 83808018--83808100 Score: 80
Period size: 26 Copynumber: 3.2 Consensus size: 25
83808008 AGCATAGCTA
*
83808018 CTTTATCATATAACTGGAGGCCT-AGCC
1 CTTT-TCA-ATAACTGG-GGCATAAGCC
83808045 TCTTTT-AATAACTGGGGCATAAGCC
1 -CTTTTCAATAACTGGGGCATAAGCC
**
83808070 CTTTTCGGTAAACTGGGGCATAAGCC
1 CTTTTCAAT-AACTGGGGCATAAGCC
83808096 CTTTT
1 CTTTT
83808101 GCACTTCCTC
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
24 9 0.18
25 13 0.27
26 22 0.45
27 1 0.02
28 4 0.08
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (25 bp):
CTTTTCAATAACTGGGGCATAAGCC
Found at i:83808172 original size:9 final size:9
Alignment explanation
Indices: 83808158--83808214 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
83808148 ACATCATGTG
83808158 CATATCATA
1 CATATCATA
*
83808167 CATATCATGTG
1 CATATCA--TA
*
83808178 CATATCGTA
1 CATATCATA
*
83808187 CATATCATGTG
1 CATATCA--TA
83808198 CATATCATA
1 CATATCATA
83808207 CATATCAT
1 CATATCAT
83808215 GTGCATATCA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:83808175 original size:20 final size:20
Alignment explanation
Indices: 83808150--83808226 Score: 145
Period size: 20 Copynumber: 3.9 Consensus size: 20
83808140 TTATGAATAC
83808150 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
83808170 ATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACAT
83808190 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
83808210 ATCATGTGCATATCATA
1 ATCATGTGCATATCATA
83808227 TCAATATTGT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:83808181 original size:11 final size:11
Alignment explanation
Indices: 83808150--83808225 Score: 83
Period size: 11 Copynumber: 7.5 Consensus size: 11
83808140 TTATGAATAC
83808150 ATCATGTGCAT
1 ATCATGTGCAT
*
83808161 ATCA--TACAT
1 ATCATGTGCAT
83808170 ATCATGTGCAT
1 ATCATGTGCAT
*
83808181 ATC--GTACAT
1 ATCATGTGCAT
83808190 ATCATGTGCAT
1 ATCATGTGCAT
*
83808201 ATCA--TACAT
1 ATCATGTGCAT
83808210 ATCATGTGCAT
1 ATCATGTGCAT
83808221 ATCAT
1 ATCAT
83808226 ATCAATATTG
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
9 24 0.45
11 29 0.55
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:83812597 original size:40 final size:40
Alignment explanation
Indices: 83812527--83812624 Score: 146
Period size: 40 Copynumber: 2.5 Consensus size: 40
83812517 AAACCAAGTA
* * *
83812527 CCTTCGGGATTTAG-CCGGATATAGCTACTCGCTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATG
83812566 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCT-ACTCGCACAAATG
83812606 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
83812625 TTATCATCCG
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
39 14 0.26
40 40 0.74
ACGTcount: A:0.21, C:0.30, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATG
Found at i:83814369 original size:50 final size:50
Alignment explanation
Indices: 83814305--83814435 Score: 156
Period size: 52 Copynumber: 2.6 Consensus size: 50
83814295 ATCGGGTACG
**
83814305 CATAGTAGCCTGCACTTAGTACTACACATTCGACCT-AACCATCTGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATT-GACCTAAACCATCTGAAACA
** * * *
83814355 TGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAACCATTTTAAACA
1 CATAGTAGCCTGCACTTAGTACTACACA-TTGACCT-AAACCATCTGAAACA
*
83814407 CATAGTAGCCTGCACATAGTACTACACAT
1 CATAGTAGCCTGCACTTAGTACTACACAT
83814436 GTGTTCTCAC
Statistics
Matches: 67, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
50 31 0.46
51 1 0.01
52 35 0.52
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.26
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACATTGACCTAAACCATCTGAAACA
Found at i:83814803 original size:34 final size:34
Alignment explanation
Indices: 83814753--83814821 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
83814743 CATAGAGTTC
* * *
83814753 TCGGTTTCCCATGTAGCTTCTTCGATCCCGTGTT
1 TCGGGTTCCCAAGTAGCTTCTTCCATCCCGTGTT
83814787 TCGGGTTCCCAAGTAGCTTCTTCCATCCCGTGTT
1 TCGGGTTCCCAAGTAGCTTCTTCCATCCCGTGTT
83814821 T
1 T
83814822 GAGCCATAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.10, C:0.30, G:0.20, T:0.39
Consensus pattern (34 bp):
TCGGGTTCCCAAGTAGCTTCTTCCATCCCGTGTT
Found at i:83822306 original size:50 final size:50
Alignment explanation
Indices: 83822242--83822372 Score: 156
Period size: 52 Copynumber: 2.6 Consensus size: 50
83822232 ATCGGGTACG
**
83822242 CATAGTAGCCTGCACTTAGTACTACACATTCGACCT-AACCATCTGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATT-GACCTAAACCATCTGAAACA
** * * *
83822292 TGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAACCATTTTAAACA
1 CATAGTAGCCTGCACTTAGTACTACACA-TTGACCT-AAACCATCTGAAACA
*
83822344 CATAGTAGCCTGCACATAGTACTACACAT
1 CATAGTAGCCTGCACTTAGTACTACACAT
83822373 GTGTTCTCAC
Statistics
Matches: 67, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
50 31 0.46
51 1 0.01
52 35 0.52
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.26
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACATTGACCTAAACCATCTGAAACA
Found at i:83827356 original size:27 final size:27
Alignment explanation
Indices: 83827305--83827361 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
83827295 ACAAGCCACC
** *
83827305 ACATATATGTTAATAAATGGCCACATA
1 ACATATATGTTAATAAACAGACACATA
83827332 ACATATATGTTAATAAACAGACACATA
1 ACATATATGTTAATAAACAGACACATA
83827359 ACA
1 ACA
83827362 CATTGTGGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.49, C:0.16, G:0.09, T:0.26
Consensus pattern (27 bp):
ACATATATGTTAATAAACAGACACATA
Found at i:83830199 original size:47 final size:47
Alignment explanation
Indices: 83830114--83830232 Score: 157
Period size: 47 Copynumber: 2.5 Consensus size: 47
83830104 CTTCGGGACT
* * * * *
83830114 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
* * * *
83830161 TGTTACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
83830208 TATCACATATATACACTTTCACATT
1 TATCACATATATACACTTTCACATT
83830233 ACCAACCCTT
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 61 1.00
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
Found at i:83830534 original size:39 final size:39
Alignment explanation
Indices: 83830457--83830598 Score: 137
Period size: 40 Copynumber: 3.6 Consensus size: 39
83830447 GCTACTCGTT
* * * * *
83830457 CAAATGCCTTCGGGACATGGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATGGTCACTCGCA
83830497 CAAATGCCTTCGGGCTTAGCCCGGA-ATTGGT-ATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATA-TGGTCA-CTCGCA
* * *
83830536 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGATATGGTCAC-TCGCA
83830577 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGG-CTTAGCCC
83830599 AGACATCATT
Statistics
Matches: 86, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
38 2 0.02
39 30 0.35
40 44 0.51
41 10 0.12
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATGGTCACTCGCA
Found at i:83834657 original size:40 final size:40
Alignment explanation
Indices: 83834607--83834705 Score: 144
Period size: 40 Copynumber: 2.5 Consensus size: 40
83834597 GCTTCGAGGT
* * *
83834607 TTAGCACGGATATATTACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGAAC
* **
83834647 TTAGCCCGGATACATCACTAGCACGAATGCTCCTCGGGGC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGAAC
83834687 TTAGCCCGGATATATCACT
1 TTAGCCCGGATATATCACT
83834706 CTCAATTCTC
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGAAC
Found at i:83835645 original size:29 final size:30
Alignment explanation
Indices: 83835593--83835650 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
83835583 TGGGGTGCGA
*
83835593 TGGGAGGGAAGTAAAAGTCTTGGGGGGAAG
1 TGGGAGGGAAGTAAAAGTATTGGGGGGAAG
*
83835623 TGGGAGGG-TGTAAAAGTATTGGGGGGAA
1 TGGGAGGGAAGTAAAAGTATTGGGGGGAA
83835651 ATTAAAAAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 18 0.69
30 8 0.31
ACGTcount: A:0.29, C:0.02, G:0.50, T:0.19
Consensus pattern (30 bp):
TGGGAGGGAAGTAAAAGTATTGGGGGGAAG
Found at i:83840577 original size:40 final size:40
Alignment explanation
Indices: 83840533--83840671 Score: 224
Period size: 40 Copynumber: 3.5 Consensus size: 40
83840523 TCTTCGAGGT
* * * *
83840533 TTAGCACGGATATATTACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
*
83840573 TTAGCCCGGATACATCACTAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
*
83840613 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGTC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
83840653 TTAGCCCGGATATATCACT
1 TTAGCCCGGATATATCACT
83840672 CTCAATTCTC
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 92 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
Found at i:83842393 original size:40 final size:40
Alignment explanation
Indices: 83841990--83842381 Score: 631
Period size: 40 Copynumber: 9.8 Consensus size: 40
83841980 GAGAATTGAG
83841990 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
83842030 AGTGATATATCCGGGCTAAGTCCCAAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
83842070 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGTT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
83842110 AGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
83842150 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTTGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
83842190 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
83842230 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
83842270 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
83842310 AGTGATATATCCGTGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
83842350 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
83842382 ATCATGCTGG
Statistics
Matches: 323, Mismatches: 29, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 323 1.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:83843984 original size:27 final size:26
Alignment explanation
Indices: 83843954--83844036 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 26
83843944 GATTCAAAAG
*
83843954 TATATATTAAGTCCGCACACTCAGTGC
1 TATATATCAAGT-CGCACACTCAGTGC
*
83843981 TATATAATCAAGTCGCACACTTAGTGC
1 TATAT-ATCAAGTCGCACACTCAGTGC
* *
83844008 TATATAATCAAACTCGCACACTTAGTGC
1 TATAT-ATC-AAGTCGCACACTCAGTGC
83844036 T
1 T
83844037 GTACAATTTA
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
27 27 0.53
28 24 0.47
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (26 bp):
TATATATCAAGTCGCACACTCAGTGC
Found at i:83844033 original size:28 final size:28
Alignment explanation
Indices: 83843967--83844064 Score: 126
Period size: 27 Copynumber: 3.5 Consensus size: 28
83843957 ATATTAAGTC
* *
83843967 CGCACACTCAGTGCTATATAATC-AAGT
1 CGCACACTTAGTGCTATATAATCAAACT
83843994 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
83844022 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
83844051 CGCACACTTAGTGC
1 CGCACACTTAGTGC
83844065 CAATCTCATG
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 22 0.35
28 22 0.35
29 19 0.30
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:83844530 original size:14 final size:14
Alignment explanation
Indices: 83844511--83844538 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
83844501 TGGGCATACT
83844511 TATGTATATATATA
1 TATGTATATATATA
83844525 TATGTATATATATA
1 TATGTATATATATA
83844539 CTTCGGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
TATGTATATATATA
Found at i:83849897 original size:47 final size:47
Alignment explanation
Indices: 83849838--83850178 Score: 457
Period size: 47 Copynumber: 7.0 Consensus size: 47
83849828 AGGATTTTAC
* *
83849838 TGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAA
1 TGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAA
**
83849885 TGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAA
1 TGTGATGAATGTGAA--C--ATGCATATGTGTGATAAGGCCGAATGGCCAA
*
83849936 TGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAA
1 TGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAA
* * *
83849983 TTTGATGAATGTGAACATGTATATATATATGCGTGATAAGGCCGAATGGCCAA
1 TGTGATGAATGTGAACATG------CATATGTGTGATAAGGCCGAATGGCCAA
*
83850036 TGTGATGAATGTGAACATGCATATGTGTGATAAGGCTGAATGGCCAA
1 TGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAA
* *
83850083 TGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAA
1 TGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAA
* * * *
83850130 TGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTAA
1 TGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAA
83850177 TG
1 TG
83850179 CGAAACGTGT
Statistics
Matches: 262, Mismatches: 22, Indels: 20
0.86 0.07 0.07
Matches are distributed among these distances:
47 174 0.66
49 2 0.01
51 43 0.16
53 43 0.16
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (47 bp):
TGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAA
Found at i:83850069 original size:100 final size:97
Alignment explanation
Indices: 83849838--83850178 Score: 508
Period size: 100 Copynumber: 3.5 Consensus size: 97
83849828 AGGATTTTAC
* * **
83849838 TGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCC
1 TGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACAT
83849903 GTATATATATGTGTGATAAGGCCGAATGGCCAA
66 GTATATATATG-GTGATAAGGCCGAATGGCCAA
* *
83849936 TGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATTTGATGAATGTGAACAT
1 TGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACAT
83850001 GTATATATATATGCGTGATAAGGCCGAATGGCCAA
66 G--TATATATATG-GTGATAAGGCCGAATGGCCAA
*
83850036 TGTGATGAATGTGAACATGCATATGTGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAACAT
1 TGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACAT
* *
83850101 G--CATATAT-GAGATAAGGCCGAATGGCCAA
66 GTATATATATGGTGATAAGGCCGAATGGCCAA
* * * *
83850130 TGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTAATG
1 TGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATG
83850179 CGAAACGTGT
Statistics
Matches: 226, Mismatches: 15, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
94 64 0.28
96 6 0.03
98 62 0.27
100 94 0.42
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (97 bp):
TGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACAT
GTATATATATGGTGATAAGGCCGAATGGCCAA
Found at i:83850136 original size:147 final size:149
Alignment explanation
Indices: 83849859--83850155 Score: 481
Period size: 147 Copynumber: 2.0 Consensus size: 149
83849849 TGAACATGCG
* *
83849859 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGG
1 TATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-CCG-ATACATATGTGTGATAAGG
* * * *
83849924 CCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATTTGAT
64 CCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGAT
*
83849989 GAATGTGAACATGTATATATA
129 GAATGTGAACATGAATATATA
* *
83850010 TATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-C-ATGCATATGTGTGATAAGGCT
1 TATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCGATACATATGTGTGATAAGGCC
83850073 GAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGA
66 GAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGA
83850138 ATGTGAACATGAATATAT
131 ATGTGAACATGAATATAT
83850156 GTGGTAAGGC
Statistics
Matches: 137, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
147 96 0.70
149 1 0.01
151 40 0.29
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.27
Consensus pattern (149 bp):
TATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCGATACATATGTGTGATAAGGCC
GAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGA
ATGTGAACATGAATATATA
Found at i:83850241 original size:46 final size:46
Alignment explanation
Indices: 83850152--83850242 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
83850142 GAACATGAAT
* * * *
83850152 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * *
83850198 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
83850243 TGTATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:83850443 original size:37 final size:37
Alignment explanation
Indices: 83850392--83850496 Score: 174
Period size: 37 Copynumber: 2.8 Consensus size: 37
83850382 AATATATTCT
*
83850392 GGGTAAGACTCGATGACTACGTGTGGAGATTATGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
83850429 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
* * *
83850466 GGGTAAGACCCGATAACTTCATGTGGAGATT
1 GGGTAAGACCCGATGACTACGTGTGGAGATT
83850497 TCGTCTGAGC
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (37 bp):
GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
Found at i:83854946 original size:19 final size:21
Alignment explanation
Indices: 83854921--83854970 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 21
83854911 ATTGTGCAGA
*
83854921 AAAAAGAAAAAA-ATTGAAA-
1 AAAAAGAAAAAATATCGAAAT
*
83854940 GAAAAGAAAAAATATCGAAAT
1 AAAAAGAAAAAATATCGAAAT
83854961 AAAAAGAAAA
1 AAAAAGAAAA
83854971 TGTCAGCAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 11 0.42
20 6 0.23
21 9 0.35
ACGTcount: A:0.76, C:0.02, G:0.12, T:0.10
Consensus pattern (21 bp):
AAAAAGAAAAAATATCGAAAT
Found at i:83854950 original size:20 final size:21
Alignment explanation
Indices: 83854921--83854970 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
83854911 ATTGTGCAGA
*
83854921 AAAAAG-AAAAAAATTGAAA-
1 AAAAAGAAAAAAAATCGAAAT
* *
83854940 GAAAAGAAAAAATATCGAAAT
1 AAAAAGAAAAAAAATCGAAAT
83854961 AAAAAGAAAA
1 AAAAAGAAAA
83854971 TGTCAGCAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 5 0.20
20 11 0.44
21 9 0.36
ACGTcount: A:0.76, C:0.02, G:0.12, T:0.10
Consensus pattern (21 bp):
AAAAAGAAAAAAAATCGAAAT
Found at i:83855049 original size:18 final size:18
Alignment explanation
Indices: 83855013--83855055 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
83855003 AGTGTGAGAG
* *
83855013 AAAAGAGATTGATATTGA
1 AAAAGAGATTGAGAGTGA
*
83855031 AAAATAGATTGAGAGTGA
1 AAAAGAGATTGAGAGTGA
83855049 AGAAAGA
1 A-AAAGA
83855056 AACGAAAGTG
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.53, C:0.00, G:0.26, T:0.21
Consensus pattern (18 bp):
AAAAGAGATTGAGAGTGA
Found at i:83864631 original size:47 final size:47
Alignment explanation
Indices: 83864556--83864763 Score: 310
Period size: 47 Copynumber: 4.4 Consensus size: 47
83864546 TTCGGGACTT
* * * * *
83864556 ATCACATTTATACACTTTCACATCCATCACATTGGCCACTCGGCC-C
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
*
83864602 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
1 -ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
83864650 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
* * *
83864697 ATCACATATATACACTTTCACATTCATCACATCGGCTATTCGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
*
83864744 ATCACATATATATACTTTCA
1 ATCACATATATACACTTTCA
83864764 NNNNNNNNNN
Statistics
Matches: 149, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
47 148 0.99
48 1 0.01
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
Found at i:83870029 original size:27 final size:27
Alignment explanation
Indices: 83869999--83870176 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
83869989 ATATTGAGTC
* * * *
83869999 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
83870026 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
83870053 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
83870081 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
83870108 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
83870135 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
83870162 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
83870177 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:83870138 original size:82 final size:81
Alignment explanation
Indices: 83870020--83870175 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
83870010 TGCTATATAA
* *
83870020 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
83870085 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
83870102 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
83870166 CACTTAGTGC
65 CACTTAGTGC
83870176 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:83874687 original size:41 final size:42
Alignment explanation
Indices: 83874548--83874697 Score: 169
Period size: 43 Copynumber: 3.6 Consensus size: 42
83874538 CATACCAACC
* * * *
83874548 CCATATCTCAGTTATGGTCTTACATGTAATCTCATATTGATG
1 CCATATCCCAGATATGGTCTTACACGAAATCTCATATTGATG
** * *
83874590 CCA-ATTCCCTAGCCATAGTCTTACACGAAATCTCATATTGACG
1 CCATA-TCCC-AGATATGGTCTTACACGAAATCTCATATTGATG
* *
83874633 CCATATCCCAGATATGGTCTTACACGAAATCACATA-CGATG
1 CCATATCCCAGATATGGTCTTACACGAAATCTCATATTGATG
*
83874674 CCATATCCCAGATATGGCCTTACA
1 CCATATCCCAGATATGGTCTTACA
83874698 TGTAGTCTTA
Statistics
Matches: 91, Mismatches: 14, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
41 27 0.30
42 29 0.32
43 34 0.37
44 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (42 bp):
CCATATCCCAGATATGGTCTTACACGAAATCTCATATTGATG
Found at i:83877313 original size:31 final size:31
Alignment explanation
Indices: 83877276--83877339 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
83877266 CGTTTCAGTC
*
83877276 AATAATGCTTTTAATTTCTTGAAACTTTGCT
1 AATAATGCTTTTAATATCTTGAAACTTTGCT
83877307 AATAATGCTTTTAATATCTTGAAACTTTGCT
1 AATAATGCTTTTAATATCTTGAAACTTTGCT
83877338 AA
1 AA
83877340 CATTTTTCGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.33, C:0.12, G:0.09, T:0.45
Consensus pattern (31 bp):
AATAATGCTTTTAATATCTTGAAACTTTGCT
Found at i:83884045 original size:15 final size:16
Alignment explanation
Indices: 83884025--83884055 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
83884015 TAAGATCTTA
83884025 CAATCATAA-CTTACT
1 CAATCATAACCTTACT
83884040 CAATCATAACCTTACT
1 CAATCATAACCTTACT
83884056 GAAGGTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.39, C:0.29, G:0.00, T:0.32
Consensus pattern (16 bp):
CAATCATAACCTTACT
Found at i:83886658 original size:37 final size:37
Alignment explanation
Indices: 83886608--83886686 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
83886598 TTATTACGAA
* * *
83886608 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
83886645 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
83886682 GTCTT
1 GTCTT
83886687 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:83886879 original size:49 final size:49
Alignment explanation
Indices: 83886805--83887291 Score: 751
Period size: 49 Copynumber: 10.1 Consensus size: 49
83886795 CCCTTCGGGA
* * * * * *
83886805 CTTATCACAT-T-TATACACTTCCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
83886852 CCTGTCACATATATATACACTTCCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
83886901 CTTATCAC--ATATATACACTTGCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
83886948 CTTATCAC--ATATATACACTTGCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
83886995 CTTATCAC--ATATATACACTTGCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
83887042 CTTATCACATATATACT-CAC-ATCGGCCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATA-TACACTTTC--ACATTCATCACATCGGCCATTAGGC
83887092 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
83887141 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
83887190 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
83887239 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
83887288 CTTA
1 CTTA
83887292 CTATCATTTC
Statistics
Matches: 416, Mismatches: 15, Indels: 16
0.93 0.03 0.04
Matches are distributed among these distances:
47 148 0.36
48 2 0.00
49 221 0.53
50 43 0.10
51 2 0.00
ACGTcount: A:0.29, C:0.30, G:0.10, T:0.31
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Done.