Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold58
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: 1582273
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.31
Warning! 125418 characters in sequence are not A, C, G, or T
File 3 of 10
Found at i:305099 original size:52 final size:52
Alignment explanation
Indices: 305029--305149 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
305019 GAAAATTTAT
*
305029 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
305081 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
305133 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
305150 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:305162 original size:52 final size:51
Alignment explanation
Indices: 305029--305169 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
305019 GAAAATTTAT
305029 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
305081 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
305133 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
305170 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:305176 original size:13 final size:13
Alignment explanation
Indices: 305158--305182 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
305148 CAAAGATCAG
305158 TGTATCGATACAA
1 TGTATCGATACAA
305171 TGTATCGATACA
1 TGTATCGATACA
305183 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:305265 original size:13 final size:13
Alignment explanation
Indices: 305247--305271 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
305237 CAAAAAAATA
305247 TGTATCGATACAT
1 TGTATCGATACAT
305260 TGTATCGATACA
1 TGTATCGATACA
305272 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:305267 original size:33 final size:33
Alignment explanation
Indices: 305225--305291 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
305215 AGTAGCTTAA
305225 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
305258 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
305291 A
1 A
305292 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:307928 original size:21 final size:21
Alignment explanation
Indices: 307902--307958 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
307892 GTAAACTTCC
307902 TAGATGTATCGATACAAAGAA
1 TAGATGTATCGATACAAAGAA
*
307923 TAGATGTATCGATACATAGAA
1 TAGATGTATCGATACAAAGAA
*
307944 -AAATGTATCGATACA
1 TAGATGTATCGATACA
307959 TTCCCTTGGC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
20 14 0.41
21 20 0.59
ACGTcount: A:0.46, C:0.11, G:0.18, T:0.26
Consensus pattern (21 bp):
TAGATGTATCGATACAAAGAA
Found at i:308831 original size:119 final size:116
Alignment explanation
Indices: 308623--308834 Score: 252
Period size: 119 Copynumber: 1.8 Consensus size: 116
308613 GGGTGTCCAC
* * * *
308623 TTTTCAAGGACAAAGGAAAAAAGAATGAAATAAGTCTTGCTCCTTGAGGACCAAGGAAAAGAAGA
1 TTTTCAAGGACAAAGGAAAAAAGAATAAAATAAGTCCTGCTCCTTGAGGACAAAAGAAAAGAAGA
308688 AAAGGAAAGTGTCCTGCTTCTTGAGGACAAAGTGAAAAAGAGTACATCCCA
66 AAAGGAAAGTGTCCTGCTTCTTGAGGACAAAGTGAAAAAGAGTACATCCCA
* * *
308739 TTTTCCAAGGACAAAGGAAAAAGGGAAATAAAATACGTCCTGCT-CTCTGAGGATAAAAG-AAAG
1 TTTT-CAAGGACAAAGGAAAAA-AG-AATAAAATAAGTCCTGCTCCT-TGAGGACAAAAGAAAAG
* *
308802 AGGAAAA-TAAAGTGTATCCTGC-TCTTTGAGGAC
62 AAGAAAAGGAAAGTG--TCCTGCTTC-TTGAGGAC
308835 TAAAAAGTGC
Statistics
Matches: 80, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
116 4 0.05
117 23 0.29
118 15 0.19
119 38 0.47
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (116 bp):
TTTTCAAGGACAAAGGAAAAAAGAATAAAATAAGTCCTGCTCCTTGAGGACAAAAGAAAAGAAGA
AAAGGAAAGTGTCCTGCTTCTTGAGGACAAAGTGAAAAAGAGTACATCCCA
Found at i:308953 original size:26 final size:26
Alignment explanation
Indices: 308864--308953 Score: 74
Period size: 26 Copynumber: 3.3 Consensus size: 26
308854 GTGTGGGCTT
*
308864 TGAAAGGCGTCCTGCTCTTTGAGGAC
1 TGAAAGGTGTCCTGCTCTTTGAGGAC
** * * *
308890 TGAAAGGTG-CCACCAACTTGTGTGGGC
1 TGAAAGGTGTCCTGC-TCTT-TGAGGAC
*
308917 TTTAAGAGGTGTCCTGCTCTTTGAGGAC
1 -TGAA-AGGTGTCCTGCTCTTTGAGGAC
308945 TGAAAGGTG
1 TGAAAGGTG
308954 CCACCAACTT
Statistics
Matches: 46, Mismatches: 13, Indels: 10
0.67 0.19 0.14
Matches are distributed among these distances:
25 3 0.07
26 16 0.35
27 8 0.17
28 8 0.17
29 8 0.17
30 3 0.07
ACGTcount: A:0.21, C:0.19, G:0.32, T:0.28
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGAGGAC
Found at i:309132 original size:61 final size:59
Alignment explanation
Indices: 308818--309531 Score: 841
Period size: 55 Copynumber: 12.3 Consensus size: 59
308808 ATAAAGTGTA
*** *
308818 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT----GAAAGGCG
1 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAGGCG
* *
308873 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT--AAG--AGGTG
1 TCCTGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAGGCG
* * *
308928 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGAAAAAGCG
1 TCCTGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAG-AAAGGCG
* * * *
308988 TCCCGCTCTTTAAGGATTGGGAAGTGCCACCAACTTGTGTGGGCTTT---A-AAAGGCA
1 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAGGCG
*
309043 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GA-AAGGCG
309104 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT---A-AAAGGCG
1 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAGGCG
* *
309159 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAA-AAGA-AAGGCG
*
309220 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
1 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAA-G-AAAGGCG
*
309281 TCCTGCTCTTTGAGGACT--GAAGGTGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAG-AAAGGCG
** *
309340 TGCC-GCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
1 T-CCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GA-AAGGCG
* *
309401 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGC-TT---CGAAAGGGG
1 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAGGCG
* * * * *
309456 TCCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTT-AAAAG-AAAGGCG
309517 TCCTGCTCTTTGAGG
1 TCCTGCTCTTTGAGG
309532 GCTAAAAAGC
Statistics
Matches: 581, Mismatches: 41, Indels: 68
0.84 0.06 0.10
Matches are distributed among these distances:
54 6 0.01
55 234 0.40
56 5 0.01
57 5 0.01
58 2 0.00
59 26 0.04
60 105 0.18
61 197 0.34
62 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.26
Consensus pattern (59 bp):
TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAGGCG
Found at i:309153 original size:116 final size:114
Alignment explanation
Indices: 308817--309508 Score: 845
Period size: 116 Copynumber: 6.0 Consensus size: 114
308807 AATAAAGTGT
** *
308817 ATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT----GAAAGGCGTCCTG
1 ATCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAGGCGTCCTG
* *
308878 CTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGT
66 CTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGC
* * * *
308927 GTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGAAAAAGCGTCC
1 ATCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAG-AAAGGCGTCC
* * * *
308991 CGCTCTTTAAGGATTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGC
64 TGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGC
309042 ATCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCC
1 ATCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GA-AAGGCGTCC
*
309107 TGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGC
64 TGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGC
* *
309158 GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGAGAAGGCGTCC
1 ATCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAA-AAGA-AAGGCGTCC
*
309223 TGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
64 TGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT------AAAAGGC
*
309280 ATCCTGCTCTTTGAGGACT--GAAGGTGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCGTGC
1 ATCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAG-AAAGGCGT-C
* *
309343 C-GCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGC
63 CTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT---A--A-AAGGC
* * * *
309400 GTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGC-TT---CGAAAGGGGTCCTG
1 ATCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAGGCGTCCTG
* *
309461 CTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
66 CTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGG
309509 AAAAAGCATC
Statistics
Matches: 519, Mismatches: 36, Indels: 54
0.85 0.06 0.09
Matches are distributed among these distances:
109 3 0.01
110 44 0.08
111 1 0.00
114 1 0.00
115 101 0.19
116 211 0.41
117 4 0.01
119 1 0.00
120 77 0.15
121 48 0.09
122 28 0.05
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.26
Consensus pattern (114 bp):
ATCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAGGCGTCCTG
CTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGC
Found at i:309508 original size:29 final size:29
Alignment explanation
Indices: 309424--309508 Score: 72
Period size: 29 Copynumber: 3.0 Consensus size: 29
309414 GGACTGGGAA
*
309424 GTGCCACCAACTTGTGTGGGCTTCGAAAG
1 GTGCCACCAACTTGTGTGGGCTTTGAAAG
* ** *
309453 GGGTCCTGC-TCTT-TG-GGGAC--TGAAAG
1 GTG-CCACCAACTTGTGTGGG-CTTTGAAAG
309479 GTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GTGCCACCAACTTGTGTGGGCTTTGAAAG
309508 G
1 G
309509 AAAAAGCATC
Statistics
Matches: 40, Mismatches: 9, Indels: 14
0.63 0.14 0.22
Matches are distributed among these distances:
25 3 0.08
26 10 0.25
27 6 0.15
28 6 0.15
29 12 0.30
30 3 0.08
ACGTcount: A:0.19, C:0.21, G:0.34, T:0.26
Consensus pattern (29 bp):
GTGCCACCAACTTGTGTGGGCTTTGAAAG
Found at i:310531 original size:12 final size:12
Alignment explanation
Indices: 310524--310550 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
310514 TCTTTTTTTC
310524 TTTGTTTTGTTT
1 TTTGTTTTGTTT
310536 TTTGTTTTGTTT
1 TTTGTTTTGTTT
310548 TTT
1 TTT
310551 TCATTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (12 bp):
TTTGTTTTGTTT
Found at i:323147 original size:28 final size:28
Alignment explanation
Indices: 323091--323167 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
323081 GGAATAAAGC
*** **
323091 CGGGGTTGGAGTATCCCCTCGGAGGTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
323119 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* *
323147 CGAGGTTGGAGTATCCTCGAT
1 CGGGGTTGGAGTATCCCCGAT
323168 TGTGAAAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.22, C:0.19, G:0.35, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:323268 original size:52 final size:52
Alignment explanation
Indices: 323151--323588 Score: 291
Period size: 52 Copynumber: 8.4 Consensus size: 52
323141 AAATAACGAG
* * * **
323151 GTTGGAGTATCCTCGATTG-TGAAAAAATTGGTGTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGAAG-AAAAATTAGTG-TTTTAAAAATAAAATCGGA
*
323204 GCTGGAGTATCCCCGATTGAAGAAAAATTAGTGTTTTAAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGAAGAAAAATTAGTGTTTTAAAAATAAAATCGGA
* * * * * *
323256 GTTGGAGTATCCCCGATTAAAGCAAAAGTGGTGTTTTAAAAATAAAACCGGG
1 GTTGGAGTATCCCCGATTGAAGAAAAATTAGTGTTTTAAAAATAAAATCGGA
* ** * *
323308 GTTGGAGTATCCCCGATTG-TGAAAAAATTAGTGTTTTAGCAATAAAACCGGG
1 GTTGGAGTATCCCCGATTGAAG-AAAAATTAGTGTTTTAAAAATAAAATCGGA
* * * * * * * * *
323360 GTTGGAGTATCCCCGATT-ATGAGAAATCAATATTTTAAGAATAAAGTAGGG
1 GTTGGAGTATCCCCGATTGAAGAAAAATTAGTGTTTTAAAAATAAAATCGGA
* * ** * * * **** * *
323411 GTTGGAGTATCCCC--TCGGAGATAACGGGGTTGGAGTATTCCCGATGATTAA-CGGG
1 GTTGGAGTATCCCCGATTGAAGA-AA---AATTAGTGTTTTAAAAAT-A-AAATCGGA
* * * **
323466 GTTGGAGTATCCCCGATTG-TGAAAATTTGGTGCTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGAAGAAAAATTAGTG--TTTTAAAAATAAAATCGGA
*
323519 GTTGGAGTATCCCCGATT-ATAG-AAAATTAGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGA-AGAAAAATTAGTGTTTTAAAAATAAAATCGGA
*
323570 GTTGGAATATCCCCGATTG
1 GTTGGAGTATCCCCGATTG
323589 TGGAGAATTG
Statistics
Matches: 302, Mismatches: 65, Indels: 37
0.75 0.16 0.09
Matches are distributed among these distances:
49 1 0.00
50 2 0.01
51 72 0.24
52 132 0.44
53 57 0.19
54 13 0.04
55 20 0.07
56 3 0.01
57 2 0.01
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTGAAGAAAAATTAGTGTTTTAAAAATAAAATCGGA
Found at i:323417 original size:51 final size:52
Alignment explanation
Indices: 323296--323424 Score: 154
Period size: 51 Copynumber: 2.5 Consensus size: 52
323286 GTGTTTTAAA
* * * * *
323296 AATAAAACCGGGGTTGGAGTATCCCCGATTGTGAAAAAATTAGTGTTTTAGC
1 AATAAAACAGGGGTTGGAGTATCCCCGATTATGAAAAAATCAATATTTTAGC
* *
323348 AATAAAACCGGGGTTGGAGTATCCCCGATTATG-AGAAATCAATATTTTAAG-
1 AATAAAACAGGGGTTGGAGTATCCCCGATTATGAAAAAATCAATATTTT-AGC
**
323399 AATAAAGTAGGGGTTGGAGTATCCCC
1 AATAAAACAGGGGTTGGAGTATCCCC
323425 TCGGAGATAA
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
51 34 0.50
52 34 0.50
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (52 bp):
AATAAAACAGGGGTTGGAGTATCCCCGATTATGAAAAAATCAATATTTTAGC
Found at i:323448 original size:28 final size:28
Alignment explanation
Indices: 323408--323479 Score: 96
Period size: 27 Copynumber: 2.6 Consensus size: 28
323398 GAATAAAGTA
323408 GGGGTTGGAGTATCCCCTCGGA-GA-TAAC
1 GGGGTTGGAGTATCCCC-C-GATGATTAAC
*
323436 GGGGTTGGAGTAT-TCCCGATGATTAAC
1 GGGGTTGGAGTATCCCCCGATGATTAAC
323463 GGGGTTGGAGTATCCCC
1 GGGGTTGGAGTATCCCC
323480 GATTGTGAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
25 2 0.05
26 3 0.08
27 19 0.49
28 15 0.38
ACGTcount: A:0.19, C:0.19, G:0.36, T:0.25
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCCGATGATTAAC
Found at i:323590 original size:104 final size:103
Alignment explanation
Indices: 323151--323590 Score: 329
Period size: 104 Copynumber: 4.2 Consensus size: 103
323141 AAATAACGAG
* * *
323151 GTTGGAGTATCCTCGATTGTGAAAAAATTGGTGTTTTTGGAAATAAAATCGGAGCTGGAGTATCC
1 GTTGGAGTATCCCCGATTGTG-AAAAATTGGTGTTTTTAGAAATAAAATCGGAGTTGGAGTATCC
*
323216 CCGATTGA-AGAAAAATTAGTGTTTTAAAAATAAAATCGGA
65 CCGATT-ATAG-AAAATTAGTGTTTTGAAAATAAAATCGGA
** * * * * *
323256 GTTGGAGTATCCCCGATTAAAGCAAAAGTGGTG-TTTTAAAAATAAAACCGGGGTTGGAGTATCC
1 GTTGGAGTATCCCCGATT-GTGAAAAATTGGTGTTTTTAGAAATAAAATCGGAGTTGGAGTATCC
* * * * *
323320 CCGATTGTGAAAAAATTAGTGTTTT-AGCAATAAAACCGGG
65 CCGATTAT-AGAAAATTAGTGTTTTGA-AAATAAAATCGGA
* * *** * * * * *
323360 GTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAAG-AATAAAGTAGGGGTTGGAGTATCCC
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTTAGAAATAAAATCGGAGTTGGAGTAT-CC
* *** * ** ** * *
323424 CTCGGA-GATA-ACGGGGTTGGAGTATTCCCGATGAT-TAA-CGGG
65 C-C-GATTATAGA--AAATT--AGTGTT-TTGAAAATAAAATCGGA
* *
323466 GTTGGAGTATCCCCGATTGTGAAAATTTGGTGCTTTTTGGAAATAAAATCGGAGTTGGAGTATCC
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTG-TTTTTAGAAATAAAATCGGAGTTGGAGTATCC
323531 CCGATTATAGAAAATTAGTGTTTTGAAAATAAAATCGGA
65 CCGATTATAGAAAATTAGTGTTTTGAAAATAAAATCGGA
*
323570 GTTGGAATATCCCCGATTGTG
1 GTTGGAGTATCCCCGATTGTG
323591 GAGAATTGAG
Statistics
Matches: 252, Mismatches: 63, Indels: 41
0.71 0.18 0.12
Matches are distributed among these distances:
102 4 0.02
103 34 0.13
104 105 0.42
105 35 0.14
106 36 0.14
107 16 0.06
108 21 0.08
109 1 0.00
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.30
Consensus pattern (103 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTTAGAAATAAAATCGGAGTTGGAGTATCCC
CGATTATAGAAAATTAGTGTTTTGAAAATAAAATCGGA
Found at i:326538 original size:107 final size:105
Alignment explanation
Indices: 326341--326538 Score: 243
Period size: 107 Copynumber: 1.9 Consensus size: 105
326331 TATAAATATT
* * ** * * **
326341 AAAAATTTTATTTTTTAAATAGTAAATTTTGTTTTTGAGTTTAATTACTCAAATCGAGCTTTGGA
1 AAAAATTATATTTTTAAAATAGTAAATTTTGTTTTTGAGTTTAACGAATCAAATCGAACTTTAAA
* *
326406 TTAGCAATTTTTTTTACTATTCGAATCTAGTTTAACCTTA
66 TAAGCAAATTTTTTTACTATTCGAATCTAGTTTAACCTTA
* * *
326446 AAAAATTATATTTTTAAAATAGTAAATTTTATTTTTTTTAGTTTAACGAATCAAATCGAATTTTA
1 AAAAATTATATTTTTAAAATAGTAAA-TTT-TGTTTTTGAGTTTAACGAATCAAATCGAACTTTA
* *
326511 AATAAGTAAATTTTTTTCCTATTCGAAT
64 AATAAGCAAATTTTTTTACTATTCGAAT
326539 TTAGCCTAAC
Statistics
Matches: 76, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
105 24 0.32
106 3 0.04
107 49 0.64
ACGTcount: A:0.35, C:0.08, G:0.09, T:0.48
Consensus pattern (105 bp):
AAAAATTATATTTTTAAAATAGTAAATTTTGTTTTTGAGTTTAACGAATCAAATCGAACTTTAAA
TAAGCAAATTTTTTTACTATTCGAATCTAGTTTAACCTTA
Found at i:327030 original size:2 final size:2
Alignment explanation
Indices: 327023--327053 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
327013 ATCATTGCCG
327023 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
327054 AACTCTTCAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:327497 original size:17 final size:17
Alignment explanation
Indices: 327477--327518 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
327467 TTATTTTTTG
* *
327477 AAATTATTTTTTAATTT
1 AAATTATTTTTCAACTT
327494 AAATTA-TTTTCAACTT
1 AAATTATTTTTCAACTT
327510 AAATTATTT
1 AAATTATTT
327519 CGATTTCAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (17 bp):
AAATTATTTTTCAACTT
Found at i:328503 original size:24 final size:26
Alignment explanation
Indices: 328477--328535 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 26
328467 GAAAACTTGT
* *
328477 TTTTTTTATTATTTA-GAT-CA-TAT
1 TTTTTTTTTTAATTATGATCCACTAT
*
328500 TTTTTTTTTTAATTATGATCCACTTT
1 TTTTTTTTTTAATTATGATCCACTAT
328526 TTTTTTTTTT
1 TTTTTTTTTT
328536 TTGGCATCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
23 13 0.43
24 3 0.10
25 2 0.07
26 12 0.40
ACGTcount: A:0.19, C:0.07, G:0.03, T:0.71
Consensus pattern (26 bp):
TTTTTTTTTTAATTATGATCCACTAT
Found at i:329290 original size:15 final size:15
Alignment explanation
Indices: 329270--329299 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
329260 AATTGAAAAT
329270 TTTTTAAATTTTAAA
1 TTTTTAAATTTTAAA
*
329285 TTTTTAATTTTTAAA
1 TTTTTAAATTTTAAA
329300 AATAATTATA
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:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTTTAAATTTTAAA
Found at i:330185 original size:210 final size:210
Alignment explanation
Indices: 329934--330415 Score: 525
Period size: 210 Copynumber: 2.3 Consensus size: 210
329924 AAAGTCAACA
* * * * * ** *
329934 TAAATATGTAGT-TTCATTAAATTATTTAAATTTAGATTAATAAATATTTAGAAATAAAGTTTAG
1 TAAATATGTAATATT-ATTAATTTATTTAAATTTAAATTAATAAATATTTAAAAATAAAATCCAC
* * * * *
329998 ATGATA-TTAATCTACTTTAAAATTAAT-AAGATTCTCCTATTTAAATAT-GAATTTTATTATTT
65 ATGACAGTAAAT-GACTTTAAAATCAATGAA-ATTCTCCTATTTAAATATAGAATTTTATTAATT
* * * *
330060 TAAGTTTTAAATTTAAAT-TAATTAATATTTAAAAATAGAGTTCACCTGATA-TAAATCTAAT-C
128 T-A--TTTAAATTTAAATAAAATAAATATTTAAAAATAAAGTTCACATGATATTAAA--TAATGC
330122 TAAAATTAATAAAT-TTTT-TATT
188 TAAAATTAAT-AATCTTTTCTATT
* * *
330144 TAAATATGTAATTTTGTTTATTTATTTAAATTTAAATTAATAAATATTTAAAAATAAAATCCACA
1 TAAATATGTAATATTATTAATTTATTTAAATTTAAATTAATAAATATTTAAAAATAAAATCCACA
* * * *
330209 TGACAGTAAATGATTTTAAAATCAATGAACTTTTCCTATTTAAATATATAATTTTATTAATTTAT
66 TGACAGTAAATGACTTTAAAATCAATGAAATTCTCCTATTTAAATATAGAATTTTATTAATTTAT
* * *
330274 TTAAATTTAAATAAAATAAATATTTAAAAATAAAGTTTACATGATATTAAATGATGTTAAAATTA
131 TTAAATTTAAATAAAATAAATATTTAAAAATAAAGTTCACATGATATTAAATAATGCTAAAATTA
330339 ATAATCTTTTCCTATT
196 ATAATCTTTT-CTATT
* * *
330355 TAAATATGTAATATTATTAATTT-TTTTAATTTAAATGAACTAAATATTTAAAAATAGAATC
1 TAAATATGTAATATTATTAATTTATTTAAATTTAAATTAA-TAAATATTTAAAAATAAAATC
330416 AACGTAAAAT
Statistics
Matches: 229, Mismatches: 32, Indels: 21
0.81 0.11 0.07
Matches are distributed among these distances:
208 19 0.08
209 42 0.18
210 103 0.45
211 65 0.28
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (210 bp):
TAAATATGTAATATTATTAATTTATTTAAATTTAAATTAATAAATATTTAAAAATAAAATCCACA
TGACAGTAAATGACTTTAAAATCAATGAAATTCTCCTATTTAAATATAGAATTTTATTAATTTAT
TTAAATTTAAATAAAATAAATATTTAAAAATAAAGTTCACATGATATTAAATAATGCTAAAATTA
ATAATCTTTTCTATT
Found at i:330334 original size:106 final size:104
Alignment explanation
Indices: 329934--330410 Score: 509
Period size: 106 Copynumber: 4.5 Consensus size: 104
329924 AAAGTCAACA
* * * * * * *
329934 TAAATATGTAGTTTCATTAAATTATTTAAATTTAGATTAATAAATATTTAGAAATAAAGTTTAGA
1 TAAATATGTAATTTTATTAATTTATTTAAATTTAAATTAATAAATATTTAAAAATAAAGTTCACA
* *
329999 TGATATT-AATCTACTTTAAAATTAATAAGATTCTCCTATT
66 TGATATTAAAT-GA-TTTAAAATTAATAAGATTTTCCTATT
* * *
330039 TAAATATG-AATTTTATTATTTTAAGTTTTAAATTTAAATTAATTAATATTTAAAAATAGAGTTC
1 TAAATATGTAATTTTATTAATTT-A--TTTAAATTTAAATTAATAAATATTTAAAAATAAAGTTC
* * * *
330103 ACCTGATA-TAAATCTAATCTAAAATTAATAA-ATTTT-TTATT
63 ACATGATATTAAA--TGATTTAAAATTAATAAGATTTTCCTATT
* * * *
330144 TAAATATGTAATTTTGTTTATTTATTTAAATTTAAATTAATAAATATTTAAAAATAAAATCCACA
1 TAAATATGTAATTTTATTAATTTATTTAAATTTAAATTAATAAATATTTAAAAATAAAGTTCACA
* * * *
330209 TGACAGTAAATGATTTTAAAATCAATGAA-CTTTTCCTATT
66 TGATATTAAATGA-TTTAAAATTAAT-AAGATTTTCCTATT
* * *
330249 TAAATATATAATTTTATTAATTTATTTAAATTTAAATAAAATAAATATTTAAAAATAAAGTTTAC
1 TAAATATGTAATTTTATTAATTTATTTAAATTTAAAT-TAATAAATATTTAAAAATAAAGTTCAC
**
330314 ATGATATTAAATGATGTTAAAATTAATAATCTTTTCCTATT
65 ATGATATTAAATGAT-TTAAAATTAATAAGATTTTCCTATT
* * *
330355 TAAATATGTAATATTATTAATTT-TTTTAATTTAAATGAACTAAATATTTAAAAATA
1 TAAATATGTAATTTTATTAATTTATTTAAATTTAAATTAA-TAAATATTTAAAAATA
330411 GAATCAACGT
Statistics
Matches: 314, Mismatches: 43, Indels: 30
0.81 0.11 0.08
Matches are distributed among these distances:
102 2 0.01
103 50 0.16
104 22 0.07
105 91 0.29
106 93 0.30
107 54 0.17
108 1 0.00
109 1 0.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (104 bp):
TAAATATGTAATTTTATTAATTTATTTAAATTTAAATTAATAAATATTTAAAAATAAAGTTCACA
TGATATTAAATGATTTAAAATTAATAAGATTTTCCTATT
Found at i:332232 original size:12 final size:14
Alignment explanation
Indices: 332201--332232 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
332191 ATAAAAAATT
332201 ATATATTTTTATAA
1 ATATATTTTTATAA
332215 ATATATTTTTATAA
1 ATATATTTTTATAA
332229 ATAT
1 ATAT
332233 CTTCAACTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
ATATATTTTTATAA
Found at i:332712 original size:3 final size:3
Alignment explanation
Indices: 332704--332746 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
332694 TTTGAATTAT
*
332704 ATA ATA ATA CTA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
332747 CATGGACGTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:333140 original size:12 final size:12
Alignment explanation
Indices: 333125--333165 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
333115 TTTACGTATA
*
333125 TTTTGAAGTTAC
1 TTTTGAAGTAAC
*
333137 TTTTGAAGAAAC
1 TTTTGAAGTAAC
*
333149 TTCTGAAGTAAC
1 TTTTGAAGTAAC
333161 TTTTG
1 TTTTG
333166 TTTTTCAAAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (12 bp):
TTTTGAAGTAAC
Found at i:334048 original size:18 final size:20
Alignment explanation
Indices: 334025--334061 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
334015 AAAAAGGTAA
334025 TTAATATT-TT-TTAAATAT
1 TTAATATTATTATTAAATAT
334043 TTAATATTATTATTAAATA
1 TTAATATTATTATTAAATA
334062 ATGTTTTCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 2 0.12
20 7 0.41
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TTAATATTATTATTAAATAT
Found at i:342718 original size:21 final size:21
Alignment explanation
Indices: 342692--342744 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
342682 ATGTATTTGG
*
342692 ATGAAATAATGCATTGGTTGA
1 ATGAAAAAATGCATTGGTTGA
* **
342713 ATGAAAGAATGCATTTTTTGA
1 ATGAAAAAATGCATTGGTTGA
342734 ATGAAAAAATG
1 ATGAAAAAATG
342745 TAACTTTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.43, C:0.04, G:0.21, T:0.32
Consensus pattern (21 bp):
ATGAAAAAATGCATTGGTTGA
Found at i:342752 original size:21 final size:21
Alignment explanation
Indices: 342709--342752 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
342699 AATGCATTGG
* **
342709 TTGAATGAAAGAATGCATTTT
1 TTGAATGAAAAAATGCAACTT
*
342730 TTGAATGAAAAAATGTAACTT
1 TTGAATGAAAAAATGCAACTT
342751 TT
1 TT
342753 ATAACCAACG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.05, G:0.16, T:0.39
Consensus pattern (21 bp):
TTGAATGAAAAAATGCAACTT
Found at i:350796 original size:22 final size:22
Alignment explanation
Indices: 350750--350798 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
350740 ATCAAATATT
* *
350750 AATATTTTATAATATTTAAAAA
1 AATATATTAAAATATTTAAAAA
350772 AATATATTAAAAT-TTTAAAATA
1 AATATATTAAAATATTTAAAA-A
350794 AATAT
1 AATAT
350799 TCAAGGGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
AATATATTAAAATATTTAAAAA
Found at i:351232 original size:17 final size:17
Alignment explanation
Indices: 351210--351256 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
351200 ATAATAAATA
*
351210 ATTAAAATTAT-ATTTAT
1 ATTAAAATAATAATTT-T
351227 ATT-AAATAATAATTTT
1 ATTAAAATAATAATTTT
351243 ATTAAAAATAATAA
1 ATT-AAAATAATAA
351257 AAACAAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 10 0.38
17 7 0.27
18 9 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTAAAATAATAATTTT
Found at i:351232 original size:25 final size:26
Alignment explanation
Indices: 351184--351236 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 26
351174 AGTATATATG
*
351184 ATTAAAATATGTATATATAATAAATA
1 ATTAAAATATATATATATAATAAATA
* *
351210 ATTAAAAT-TATATTTATATTAAATA
1 ATTAAAATATATATATATAATAAATA
351235 AT
1 AT
351237 AATTTTATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 16 0.67
26 8 0.33
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (26 bp):
ATTAAAATATATATATATAATAAATA
Found at i:351245 original size:16 final size:16
Alignment explanation
Indices: 351210--351254 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
351200 ATAATAAATA
*
351210 ATTAAAATTATATTTAT
1 ATTAAAAATA-ATTTAT
351227 ATTAAATAATAATTT-T
1 ATTAAA-AATAATTTAT
351243 ATTAAAAATAAT
1 ATTAAAAATAAT
351255 AAAAACAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 6 0.23
16 7 0.27
17 10 0.38
18 3 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATTAAAAATAATTTAT
Found at i:351888 original size:25 final size:26
Alignment explanation
Indices: 351859--351909 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
351849 GAGAATGGGG
* *
351859 AAAGAGAGAGAGAGAAAG-AGGAAAA
1 AAAGAAAGAAAGAGAAAGAAGGAAAA
*
351884 AAAGAAAGAAAGAGAAGGAAGGAAAA
1 AAAGAAAGAAAGAGAAAGAAGGAAAA
351910 TGAAAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (26 bp):
AAAGAAAGAAAGAGAAAGAAGGAAAA
Found at i:352553 original size:16 final size:16
Alignment explanation
Indices: 352522--352617 Score: 52
Period size: 16 Copynumber: 6.0 Consensus size: 16
352512 AAAAGTCAAA
* *
352522 AGCCCGAACCCAAAATT
1 AGCCCGAACTCGAAA-T
352539 A-CCCGAACTCGAAAT
1 AGCCCGAACTCGAAAT
* * *
352554 AGCCCAAACTCGAGAC
1 AGCCCGAACTCGAAAT
* * *
352570 AGCTCGAACCCCAGAA-
1 AGCCCGAACTCGA-AAT
* * *
352586 AGCCCGAACCCAAAAA
1 AGCCCGAACTCGAAAT
*
352602 AACCCGAACTCGAAAT
1 AGCCCGAACTCGAAAT
352618 TACTTGAACC
Statistics
Matches: 60, Mismatches: 16, Indels: 7
0.72 0.19 0.08
Matches are distributed among these distances:
15 4 0.07
16 54 0.90
17 2 0.03
ACGTcount: A:0.42, C:0.35, G:0.15, T:0.08
Consensus pattern (16 bp):
AGCCCGAACTCGAAAT
Found at i:353138 original size:16 final size:15
Alignment explanation
Indices: 353117--353146 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
353107 ATGTTACACT
353117 TAGAATAGTAATATAG
1 TAGAATAG-AATATAG
353133 TAGAATAGAATATA
1 TAGAATAGAATATA
353147 AAATTAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.30
Consensus pattern (15 bp):
TAGAATAGAATATAG
Found at i:363709 original size:27 final size:27
Alignment explanation
Indices: 363678--363755 Score: 120
Period size: 27 Copynumber: 2.9 Consensus size: 27
363668 AAAAGTCATC
363678 CTTTGTGTTTGTCAAAAATGGTGGTTA
1 CTTTGTGTTTGTCAAAAATGGTGGTTA
* *
363705 CTTTGTATTTGTCAAAAATGGTGGTTC
1 CTTTGTGTTTGTCAAAAATGGTGGTTA
* *
363732 CTTTTTGTTTGTCAAAAATTGTGG
1 CTTTGTGTTTGTCAAAAATGGTGG
363756 CTTATTGTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.22, C:0.09, G:0.23, T:0.46
Consensus pattern (27 bp):
CTTTGTGTTTGTCAAAAATGGTGGTTA
Found at i:363767 original size:28 final size:26
Alignment explanation
Indices: 363683--363767 Score: 98
Period size: 27 Copynumber: 3.1 Consensus size: 26
363673 TCATCCTTTG
*
363683 TGTTTGTCAAAAATGGTGGTTACTTTG
1 TGTTTGTCAAAAATGGTGGTTA-TTTT
* *
363710 TATTTGTCAAAAATGGTGGTTCCTTTT
1 TGTTTGTCAAAAATGGTGGTT-ATTTT
*
363737 TGTTTGTCAAAAATTGTGGCTTATTGTT
1 TGTTTGTCAAAAATGGTGG-TTATT-TT
363765 TGT
1 TGT
363768 CAAAATTGGT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
27 42 0.86
28 7 0.14
ACGTcount: A:0.21, C:0.08, G:0.22, T:0.48
Consensus pattern (26 bp):
TGTTTGTCAAAAATGGTGGTTATTTT
Found at i:363768 original size:24 final size:24
Alignment explanation
Indices: 363683--363777 Score: 93
Period size: 27 Copynumber: 3.7 Consensus size: 24
363673 TCATCCTTTG
363683 TGTTTGTCAAAAATGGTGG-TTACTT
1 TGTTTGTCAAAAATGGTGGCTTA--T
*
363708 TGTATTTGTCAAAAATGGTGGTTCCTTTT
1 TG--TTTGTCAAAAATGGTGG---CTTAT
*
363737 TGTTTGTCAAAAATTGTGGCTTAT
1 TGTTTGTCAAAAATGGTGGCTTAT
*
363761 TGTTTGTCAAAATTGGT
1 TGTTTGTCAAAAATGGT
363778 AGAAAATTTT
Statistics
Matches: 59, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
24 19 0.32
25 2 0.03
27 33 0.56
29 3 0.05
31 2 0.03
ACGTcount: A:0.23, C:0.08, G:0.22, T:0.46
Consensus pattern (24 bp):
TGTTTGTCAAAAATGGTGGCTTAT
Found at i:368268 original size:27 final size:27
Alignment explanation
Indices: 368238--368315 Score: 102
Period size: 27 Copynumber: 2.9 Consensus size: 27
368228 AAAAGCCACC
* *
368238 CTTTGTGTTTGTAAAAAATGGTGGTTA
1 CTTTATGTTTGTCAAAAATGGTGGTTA
* *
368265 CTTTATATTTGTCAAAAATGGTGGTTC
1 CTTTATGTTTGTCAAAAATGGTGGTTA
* *
368292 CTTTTTGTTTGTCAAAAATTGTGG
1 CTTTATGTTTGTCAAAAATGGTGG
368316 CTTGTTGTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.24, C:0.08, G:0.22, T:0.46
Consensus pattern (27 bp):
CTTTATGTTTGTCAAAAATGGTGGTTA
Found at i:368328 original size:24 final size:25
Alignment explanation
Indices: 368243--368337 Score: 86
Period size: 27 Copynumber: 3.7 Consensus size: 25
368233 CCACCCTTTG
*
368243 TGTTTGTAAAAAATGGTGGTTACTT-T
1 TGTTTGTCAAAAATGGTGG-T-CTTGT
* *
368269 ATATTTGTCAAAAATGGTGGTTCCTTTT
1 -TGTTTGTCAAAAATGGTGG-T-CTTGT
*
368297 TGTTTGTCAAAAATTGTGG-CTTGT
1 TGTTTGTCAAAAATGGTGGTCTTGT
*
368321 TGTTTGTCAAAATTGGT
1 TGTTTGTCAAAAATGGT
368338 AAATAATTTT
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
24 19 0.32
27 39 0.66
28 1 0.02
ACGTcount: A:0.24, C:0.07, G:0.22, T:0.46
Consensus pattern (25 bp):
TGTTTGTCAAAAATGGTGGTCTTGT
Found at i:369534 original size:27 final size:26
Alignment explanation
Indices: 369477--369536 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
369467 TAAATAAATT
* *
369477 AAAAATATTTATTTATTTATTTAATA
1 AAAAATATTTAATTATTAATTTAATA
*
369503 TAAAATATTTTAATTATTAAATTT-ATA
1 AAAAATA-TTTAATTATT-AATTTAATA
369530 AAAAATA
1 AAAAATA
369537 ATATTTTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
26 6 0.21
27 18 0.64
28 4 0.14
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (26 bp):
AAAAATATTTAATTATTAATTTAATA
Found at i:369589 original size:25 final size:25
Alignment explanation
Indices: 369561--369608 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
369551 ATAATAGAGA
*
369561 TATT-ATTTTGTTAATTTTATTTATT
1 TATTGATTTT-TTAATATTATTTATT
*
369586 TATTGATTTTTTTATATTATTTA
1 TATTGATTTTTTAATATTATTTA
369609 AAGGTTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 15 0.75
26 5 0.25
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (25 bp):
TATTGATTTTTTAATATTATTTATT
Found at i:369594 original size:17 final size:17
Alignment explanation
Indices: 369574--369606 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
369564 TATTTTGTTA
369574 ATTTTATTTAT-TTATTG
1 ATTTT-TTTATATTATTG
369591 ATTTTTTTATATTATT
1 ATTTTTTTATATTATT
369607 TAAAGGTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (17 bp):
ATTTTTTTATATTATTG
Found at i:369837 original size:14 final size:14
Alignment explanation
Indices: 369802--369894 Score: 57
Period size: 14 Copynumber: 6.6 Consensus size: 14
369792 GTTTAATATA
* *
369802 TATTTTAATATAAA
1 TATTTAAATATAAT
*
369816 TA-TAAAATATAAT
1 TATTTAAATATAAT
*
369829 TATTTAAATTTAAAT
1 TATTTAAATAT-AAT
*
369844 T-TTTAAAAATTATAAA
1 TATTT--AAA-TATAAT
*
369860 TA-TAAAATATAAT
1 TATTTAAATATAAT
*
369873 TTTTTAAATATAAT
1 TATTTAAATATAAT
*
369887 TTTTTAAA
1 TATTTAAA
369895 AATTAAATAT
Statistics
Matches: 61, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
13 16 0.26
14 32 0.52
15 4 0.07
16 7 0.11
17 2 0.03
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TATTTAAATATAAT
Found at i:369841 original size:44 final size:44
Alignment explanation
Indices: 369810--369905 Score: 135
Period size: 44 Copynumber: 2.2 Consensus size: 44
369800 TATATTTTAA
369810 TATAAATATAAAATATAATTATTTAAATTTAA-ATTTTTAAAAAT
1 TATAAATATAAAATATAATTATTTAAATTTAATATTTTT-AAAAT
* * *
369854 TATAAATATAAAATATAATTTTTTAAATATAAT-TTTTTAAAAA
1 TATAAATATAAAATATAATTATTTAAATTTAATATTTTTAAAAT
369897 T-TAAATATA
1 TATAAATATA
369906 TTTATATTAA
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
42 8 0.17
43 5 0.10
44 35 0.73
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (44 bp):
TATAAATATAAAATATAATTATTTAAATTTAATATTTTTAAAAT
Found at i:371015 original size:18 final size:18
Alignment explanation
Indices: 370967--371018 Score: 59
Period size: 20 Copynumber: 2.8 Consensus size: 18
370957 ACCTGTATTA
*
370967 AAATATAATATATAACAT
1 AAATATAATATTTAACAT
* *
370985 AAATAAAATATATTTAATAT
1 AAAT-ATA-ATATTTAACAT
371005 AAATATAATATTTA
1 AAATATAATATTTA
371019 TTTTTTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 11 0.39
19 4 0.14
20 13 0.46
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (18 bp):
AAATATAATATTTAACAT
Found at i:371438 original size:17 final size:17
Alignment explanation
Indices: 371403--371473 Score: 62
Period size: 16 Copynumber: 4.3 Consensus size: 17
371393 AGATCATATG
371403 ATTTA-ATTAAAT-TTGT
1 ATTTATATTAAATATT-T
*
371419 ATTTTTATTAAATATTT
1 ATTTATATTAAATATTT
*
371436 A-TTATATTTAATA-TT
1 ATTTATATTAAATATTT
371451 ATTTAATATTTAAATATTT
1 ATTT-ATA-TTAAATATTT
371470 -TTTA
1 ATTTA
371474 ATATAGTTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
15 3 0.07
16 16 0.36
17 13 0.29
18 11 0.24
19 2 0.04
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (17 bp):
ATTTATATTAAATATTT
Found at i:371468 original size:18 final size:17
Alignment explanation
Indices: 371426--371477 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 17
371416 TGTATTTTTA
371426 TTAAATATTTATT-ATAT
1 TTAAATATTT-TTAATAT
371443 TT-AATATTATTTAATAT
1 TTAAATATT-TTTAATAT
371460 TTAAATATTTTTTAATAT
1 TTAAATA-TTTTTAATAT
371478 AGTTAACTGC
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
16 8 0.26
17 9 0.29
18 12 0.39
19 2 0.06
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTAAATATTTTTAATAT
Found at i:380789 original size:36 final size:37
Alignment explanation
Indices: 380749--380822 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
380739 TACCAATTAG
380749 ATCTAGATTCAAATT-GGCTACGACCACTTTCACCTT
1 ATCTAGATTCAAATTGGGCTACGACCACTTTCACCTT
380785 ATCTAGATTCAAATTGGGCTACGACCACTTTCACCTT
1 ATCTAGATTCAAATTGGGCTACGACCACTTTCACCTT
380822 A
1 A
380823 GTAGCAAGGT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 15 0.41
37 22 0.59
ACGTcount: A:0.28, C:0.27, G:0.12, T:0.32
Consensus pattern (37 bp):
ATCTAGATTCAAATTGGGCTACGACCACTTTCACCTT
Found at i:382531 original size:3 final size:3
Alignment explanation
Indices: 382517--382557 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
382507 GGAATATGTT
*
382517 TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
382558 TGCACATAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:385175 original size:20 final size:20
Alignment explanation
Indices: 385150--385246 Score: 115
Period size: 20 Copynumber: 4.8 Consensus size: 20
385140 TTTTACCCAG
385150 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * * *
385170 ATGTATCAATAGATGTATGA
1 ATGTATCGATACATTTTTCA
*
385190 ATATATCGATACATTCTTT-A
1 ATGTATCGATACATT-TTTCA
*
385210 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
385230 ATGTATCGATACATTTT
1 ATGTATCGATACATTTT
385247 GTCTTTTTAC
Statistics
Matches: 62, Mismatches: 13, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
19 2 0.03
20 58 0.94
21 2 0.03
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:387561 original size:97 final size:97
Alignment explanation
Indices: 387453--387694 Score: 342
Period size: 97 Copynumber: 2.5 Consensus size: 97
387443 TTATTTATCA
* * *
387453 GGGATACTTCAACCCTATTCCTCCAAGGGGATATTCCAACCCCGCTTTTAAACACATCAAAATTT
1 GGGACACTTCAACCCTATTCCTCCGAGGGGATACTCCAACCCCGCTTTTAAACACATCAAAATTT
387518 AAATCTTATTCTCACTTAAATTGTCATCATCG
66 AAATCTTATTCTCACTTAAATTGTCATCATCG
* * ** *
387550 GGGACACTTCAACCCTATTCCTCCGAGGGAATACTCCAATCCCGCTTTTAAACGTATCAAAGTTT
1 GGGACACTTCAACCCTATTCCTCCGAGGGGATACTCCAACCCCGCTTTTAAACACATCAAAATTT
*
387615 AAATTTTATTCTCACTTAAATTGTCATCATCG
66 AAATCTTATTCTCACTTAAATTGTCATCATCG
* * * ** *
387647 GGGACACTCCATCCCCATTCCTTTGAGGGGATACTCC-ACCCCGTTTTT
1 GGGACACTTCAACCCTATTCCTCCGAGGGGATACTCCAACCCCGCTTTT
387695 CAATCAACTT
Statistics
Matches: 128, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
96 9 0.07
97 119 0.93
ACGTcount: A:0.27, C:0.28, G:0.13, T:0.32
Consensus pattern (97 bp):
GGGACACTTCAACCCTATTCCTCCGAGGGGATACTCCAACCCCGCTTTTAAACACATCAAAATTT
AAATCTTATTCTCACTTAAATTGTCATCATCG
Found at i:389954 original size:24 final size:25
Alignment explanation
Indices: 389889--389954 Score: 73
Period size: 24 Copynumber: 2.6 Consensus size: 25
389879 TTTAAAAACA
389889 GGGGTTGAAGTATCCCCTCAGAGGAAT
1 GGGGTTGAAGTAT--CCTCAGAGGAAT
* *
389916 GGGGTT-AGAGCATCCTC-GATGAAT
1 GGGGTTGA-AGTATCCTCAGAGGAAT
389940 GGGGTTGAAGTATCC
1 GGGGTTGAAGTATCC
389955 CTGATAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
24 18 0.53
25 5 0.15
26 1 0.03
27 10 0.29
ACGTcount: A:0.24, C:0.17, G:0.35, T:0.24
Consensus pattern (25 bp):
GGGGTTGAAGTATCCTCAGAGGAAT
Found at i:392711 original size:64 final size:62
Alignment explanation
Indices: 392521--393135 Score: 810
Period size: 64 Copynumber: 9.8 Consensus size: 62
392511 AGGTATAGGG
*
392521 TCAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGTAGGACGCC-TTTTTCTTT
1 TCAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTTCTTT
*
392582 TCAAAGCCCACACGAGTTGGTGGCACCCTTTAGACCTCAAAGAGCAGGACGCCTTTTTTCTTT
1 TCAAAGCCCACACGAGTTGGTGGCA-CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTTCTTT
*
392645 TCAAAGCCCACACGAGTTGGTGGCACCCTTTTAGTCCTCAAAGAGCAGGACGTCTTTTTTCTTT
1 TCAAAGCCCACACGAGTTGGTGGCA-CC-TTTAGTCCTCAAAGAGCAGGACGCCTTTTTTCTTT
* *
392709 TCAAAGCCCACACGAGTTGGTGGCACCCTTTTAATCCTCAAAGAGCAGAACGCCTTTTTTCTTT
1 TCAAAGCCCACACGAGTTGGTGGCA-CC-TTTAGTCCTCAAAGAGCAGGACGCCTTTTTTCTTT
* *
392773 TTAAAGCCCACACGAGTTGGTGGCACCTTTAATCCTCAAAGAGCAGGACGCCTTTTTTCTTT
1 TCAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTTCTTT
* * * *
392835 TCAAAGCCCACACGAGTTAGTGGCACCCTTTAGTCCTCAAAAAAGTAGGACGTCTTTTTTCTTT
1 TCAAAGCCCACACGAGTTGGTGGCA-CCTTTAGTCCTC-AAAGAGCAGGACGCCTTTTTTCTTT
* * * *
392899 TCAAAGCCCACATGAGTTGGTGGCACCCTTTTAGTCCTCAAAAAGCAGGATGCCTTTTTCCTTT
1 TCAAAGCCCACACGAGTTGGTGGCA-CC-TTTAGTCCTCAAAGAGCAGGACGCCTTTTTTCTTT
* * * ** * *
392963 TCAAAACCAACACGAGTTGGTGGCACCTTTAGTCTTCAAAGAGCAGGACG-CAGTTTCCTTG
1 TCAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTTCTTT
* * * * *
393024 T-AAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTAAAAGAGCAGGACAGCC--TTCTC-CT
1 TCAAAGCCCACACGAGTTGGTGGCACCTT-TAGTCCTCAAAGAGCAGGAC-GCCTTTTTTCTTT
* * *
393084 TCAAAGCCCACACAAGTTGGTGGCACCTCTTAGTCCTCAAAGGGCATGACGC
1 TCAAAGCCCACACGAGTTGGTGGCACCT-TTAGTCCTCAAAGAGCAGGACGC
393136 ACTTCATTTC
Statistics
Matches: 499, Mismatches: 44, Indels: 23
0.88 0.08 0.04
Matches are distributed among these distances:
60 27 0.05
61 96 0.19
62 104 0.21
63 53 0.11
64 209 0.42
65 10 0.02
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (62 bp):
TCAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTTCTTT
Found at i:392842 original size:190 final size:189
Alignment explanation
Indices: 392521--393135 Score: 836
Period size: 190 Copynumber: 3.3 Consensus size: 189
392511 AGGTATAGGG
*
392521 TCAAAGCCCACACGAGTTGGTGGCACC-TTTAGTCCTCAAAGAGTAGGACGCC-TTTTTCTTTTC
1 TCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTTCTTTTC
392584 AAAGCCCACACGAGTTGGTGGCACCCTTTAGA-CCTCAAAGAGCAGGACGCCTTTTTTCTTTTCA
66 AAAGCCCACACGAGTTGGTGGCA-CCTTTA-ATCCTCAAAGAGCAGGACGCCTTTTTTCTTTTCA
392648 AAGCCCACACGAGTTGGTGGCACCCTTTTAGTCCTCAAAGAGCAGGACGTCTTTTTTCTTT
129 AAGCCCACACGAGTTGGTGGCACCCTTTTAGTCCTCAAAGAGCAGGACGTCTTTTTTCTTT
* *
392709 TCAAAGCCCACACGAGTTGGTGGCACCCTTTTAATCCTCAAAGAGCAGAACGCCTTTTTTCTTTT
1 TCAAAGCCCACACGAGTTGGTGGCA-CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTTCTTTT
*
392774 TAAAGCCCACACGAGTTGGTGGCACCTTTAATCCTCAAAGAGCAGGACGCCTTTTTTCTTTTCAA
65 CAAAGCCCACACGAGTTGGTGGCACCTTTAATCCTCAAAGAGCAGGACGCCTTTTTTCTTTTCAA
* * *
392839 AGCCCACACGAGTTAGTGGCACCC-TTTAGTCCTCAAAAAAGTAGGACGTCTTTTTTCTTT
130 AGCCCACACGAGTTGGTGGCACCCTTTTAGTCCTC-AAAGAGCAGGACGTCTTTTTTCTTT
* * * *
392899 TCAAAGCCCACATGAGTTGGTGGCACCCTTTTAGTCCTCAAAAAGCAGGATGCCTTTTTCCTTTT
1 TCAAAGCCCACACGAGTTGGTGGCA-CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTTCTTTT
* * * * ** * *
392964 CAAAACCAACACGAGTTGGTGGCACCTTTAGTCTTCAAAGAGCAGGACG-CAGTTTCCTTGT-AA
65 CAAAGCCCACACGAGTTGGTGGCACCTTTAATCCTCAAAGAGCAGGACGCCTTTTTTCTTTTCAA
* ** * * * *
393027 AGCCCACACAAGTTGGTGGCA-CCTTCCAGTCCTAAAAGAGCAGGACAG-C-CTTCTC-CT
130 AGCCCACACGAGTTGGTGGCACCCTTTTAGTCCTCAAAGAGCAGGAC-GTCTTTTTTCTTT
* * * *
393084 TCAAAGCCCACACAAGTTGGTGGCACCTCTTAGTCCTCAAAGGGCATGACGC
1 TCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGC
393136 ACTTCATTTC
Statistics
Matches: 381, Mismatches: 39, Indels: 18
0.87 0.09 0.04
Matches are distributed among these distances:
184 22 0.06
185 24 0.06
186 4 0.01
187 13 0.03
188 54 0.14
189 21 0.06
190 210 0.55
191 33 0.09
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (189 bp):
TCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTTCTTTTC
AAAGCCCACACGAGTTGGTGGCACCTTTAATCCTCAAAGAGCAGGACGCCTTTTTTCTTTTCAAA
GCCCACACGAGTTGGTGGCACCCTTTTAGTCCTCAAAGAGCAGGACGTCTTTTTTCTTT
Found at i:392861 original size:126 final size:125
Alignment explanation
Indices: 392521--393135 Score: 823
Period size: 126 Copynumber: 4.9 Consensus size: 125
392511 AGGTATAGGG
*
392521 TCAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGTAGGACGCC-TTTTTCTTTTCA
1 TCAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTTCTTTTCA
*
392585 AAGCCCACACGAGTTGGTGGCACCCTTTAGACCTCAAAGAGCAGGACGCCTTTTTTCTTT
66 AAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTTCTTT
*
392645 TCAAAGCCCACACGAGTTGGTGGCACCCTTTTAGTCCTCAAAGAGCAGGACGTCTTTTTTCTTTT
1 TCAAAGCCCACACGAGTTGGTGGCA-CC-TTTAGTCCTCAAAGAGCAGGACGCCTTTTTTCTTTT
* *
392710 CAAAGCCCACACGAGTTGGTGGCACCCTTTTAATCCTCAAAGAGCAGAACGCCTTTTTTCTTT
64 CAAAGCCCACACGAGTTGGTGGCACCC-TTTAGTCCTCAAAGAGCAGGACGCCTTTTTTCTTT
* *
392773 TTAAAGCCCACACGAGTTGGTGGCACCTTTAATCCTCAAAGAGCAGGACGCCTTTTTTCTTTTCA
1 TCAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTTCTTTTCA
* * * *
392838 AAGCCCACACGAGTTAGTGGCACCCTTTAGTCCTCAAAAAAGTAGGACGTCTTTTTTCTTT
66 AAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTC-AAAGAGCAGGACGCCTTTTTTCTTT
* * * *
392899 TCAAAGCCCACATGAGTTGGTGGCACCCTTTTAGTCCTCAAAAAGCAGGATGCCTTTTTCCTTTT
1 TCAAAGCCCACACGAGTTGGTGGCA-CC-TTTAGTCCTCAAAGAGCAGGACGCCTTTTTTCTTTT
* * * ** * *
392964 CAAAACCAACACGAGTTGGTGGCA-CCTTTAGTCTTCAAAGAGCAGGACG-CAGTTTCCTTG
64 CAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTTCTTT
* * * * *
393024 T-AAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTAAAAGAGCAGGACAGCC--TTCTC-CTT
1 TCAAAGCCCACACGAGTTGGTGGCACCTT-TAGTCCTCAAAGAGCAGGAC-GCCTTTTTTCTTTT
* * *
393085 CAAAGCCCACACAAGTTGGTGGCA-CCTCTTAGTCCTCAAAGGGCATGACGC
64 CAAAGCCCACACGAGTTGGTGGCACCCT-TTAGTCCTCAAAGAGCAGGACGC
393136 ACTTCATTTC
Statistics
Matches: 435, Mismatches: 45, Indels: 23
0.86 0.09 0.05
Matches are distributed among these distances:
121 26 0.06
122 24 0.06
123 18 0.04
124 49 0.11
125 19 0.04
126 138 0.32
127 52 0.12
128 109 0.25
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (125 bp):
TCAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTTCTTTTCA
AAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTTCTTT
Found at i:393205 original size:43 final size:43
Alignment explanation
Indices: 393116--393440 Score: 289
Period size: 43 Copynumber: 7.4 Consensus size: 43
393106 GCACCTCTTA
* * * * * *
393116 GTCCTCAAAGGGCATGACGCACTTCATTTCCTTCTTTTCTCTTTT
1 GTCCTCAAAGAGCAGGACACACTTTATTT--TCCTTTTCTCCTTT
*
393161 GTTCTCAAAGAGCAGGACACACTTTATTTTCCTTTTCTCCTTT
1 GTCCTCAAAGAGCAGGACACACTTTATTTTCCTTTTCTCCTTT
*
393204 GTCTTCAAAGAGCAGGACACACTTTATTTTCCTTTTCTCCTTT
1 GTCCTCAAAGAGCAGGACACACTTTATTTTCCTTTTCTCCTTT
* * * *
393247 GTCCTCAAAGAGCATGACAC-TTTTCATTTCCTTCTTTTCTCATTTT
1 GTCCTCAAAGAGCAGGACACACTTT-ATTT--TCCTTTTCTC-CTTT
* * * * *
393293 GTCCTTAAAGAGTAGGACGCACTTCATTTCTTTCTTTTC-CCTTTT
1 GTCCTCAAAGAGCAGGACACACTTTA-TT-TTCCTTTTCTCC-TTT
* ** *
393338 GTCCTCAAAGAGCATGATGCATTTTATTTTCCTTTT-TCCTTT
1 GTCCTCAAAGAGCAGGACACACTTTATTTTCCTTTTCTCCTTT
* * * *
393380 GTCCTCAAAGAGCATGACGCA-TTTCGTTTTCCTTTTTTCCTTT
1 GTCCTCAAAGAGCAGGACACACTTT-ATTTTCCTTTTCTCCTTT
* *
393423 ATCCTCAAAAAGCAGGAC
1 GTCCTCAAAGAGCAGGAC
393441 GTACTCTTTT
Statistics
Matches: 236, Mismatches: 33, Indels: 24
0.81 0.11 0.08
Matches are distributed among these distances:
41 3 0.01
42 36 0.15
43 105 0.44
44 2 0.01
45 57 0.24
46 28 0.12
47 4 0.02
48 1 0.00
ACGTcount: A:0.20, C:0.26, G:0.12, T:0.42
Consensus pattern (43 bp):
GTCCTCAAAGAGCAGGACACACTTTATTTTCCTTTTCTCCTTT
Found at i:393373 original size:36 final size:36
Alignment explanation
Indices: 393323--393420 Score: 90
Period size: 42 Copynumber: 2.6 Consensus size: 36
393313 ACTTCATTTC
*
393323 TTTC-TTTTCCCTTTTGTCCTCAAAGAGCATGATGCA
1 TTTCATTTT-CCTTTTGTCCTCAAAGAGCATGACGCA
*
393359 TTTTATTTTCCTTTTTCCTTTGTCCTCAAAGAGCATGACGCA
1 TTTCATTTTCC----T--TTTGTCCTCAAAGAGCATGACGCA
* *
393401 TTTCGTTTTCCTTTTTTCCT
1 TTTCATTTTCCTTTTGTCCT
393421 TTATCCTCAA
Statistics
Matches: 50, Mismatches: 5, Indels: 14
0.72 0.07 0.20
Matches are distributed among these distances:
36 12 0.24
37 4 0.08
38 1 0.02
40 1 0.02
42 32 0.64
ACGTcount: A:0.15, C:0.24, G:0.11, T:0.49
Consensus pattern (36 bp):
TTTCATTTTCCTTTTGTCCTCAAAGAGCATGACGCA
Found at i:393498 original size:40 final size:41
Alignment explanation
Indices: 393444--393542 Score: 114
Period size: 40 Copynumber: 2.4 Consensus size: 41
393434 GCAGGACGTA
* *
393444 CTCTTTTTCACTTTGTCCTTAAGAAGC-AGACAC-TTTCCTT
1 CTCTTTTTC-CTTTGTCCTCAAGAAGCAAGACACATTTCATT
* * *
393484 TTCTTTCTTCCTTTGTCCTCAAGGAGCAAGACCCATTTCATT
1 CTCTTT-TTCCTTTGTCCTCAAGAAGCAAGACACATTTCATT
393526 CTC-TTTTCCTTTGTCCT
1 CTCTTTTTCCTTTGTCCT
393543 AAAAAATGGG
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
40 32 0.64
41 10 0.20
42 8 0.16
ACGTcount: A:0.16, C:0.29, G:0.10, T:0.44
Consensus pattern (41 bp):
CTCTTTTTCCTTTGTCCTCAAGAAGCAAGACACATTTCATT
Found at i:394150 original size:20 final size:20
Alignment explanation
Indices: 394125--394181 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
394115 TTTTCACAAT
394125 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
*
394145 TTGTATCGACACATTGTTCA
1 TTGTATCGATACATTGTTCA
*
394165 TTGTATCAATACATTGT
1 TTGTATCGATACATTGT
394182 ATCGATACAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.44
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:394179 original size:13 final size:13
Alignment explanation
Indices: 394163--394192 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
394153 ACACATTGTT
394163 CATTGTATCAATA
1 CATTGTATCAATA
*
394176 CATTGTATCGATA
1 CATTGTATCAATA
394189 CATT
1 CATT
394193 CTGGGTTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (13 bp):
CATTGTATCAATA
Found at i:394233 original size:20 final size:20
Alignment explanation
Indices: 394208--394261 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
394198 TTTACCCAGA
*
394208 TGTATCGATACATT-TTGCAT
1 TGTATCGATACATTGCT-CAT
*
394228 TGTATCAATACATTGCTCAT
1 TGTATCGATACATTGCTCAT
*
394248 TGTGTCGATACATT
1 TGTATCGATACATT
394262 ATATCGATAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 28 0.97
21 1 0.03
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATTGCTCAT
Found at i:396729 original size:79 final size:79
Alignment explanation
Indices: 396598--396765 Score: 248
Period size: 79 Copynumber: 2.1 Consensus size: 79
396588 TTTTCGTCTT
* * * * *
396598 GGGGATACTCCAACCCTAGTTTTATTTCCACAACATCAATTTTTCATAATTAGGGATACTCCAAT
1 GGGGATACTCAAACCCCAGTTTTATTTCCAAAACATCAATTTTTCACAATTAGGGATACTCCAAC
*
396663 CTCGTTATTTC-TGA
66 CCCGTTATTTCAT-A
*
396677 GGGGATACTCAAACCCCAGTTTTATTTCTAAAACATCAATTTTTCACAATTAGGGATACTCCAAC
1 GGGGATACTCAAACCCCAGTTTTATTTCCAAAACATCAATTTTTCACAATTAGGGATACTCCAAC
*
396742 CCCGTTATTTCATT
66 CCCGTTATTTCATA
396756 GGGGATACTC
1 GGGGATACTC
396766 CAACTTCGTT
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
79 79 0.99
80 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.35
Consensus pattern (79 bp):
GGGGATACTCAAACCCCAGTTTTATTTCCAAAACATCAATTTTTCACAATTAGGGATACTCCAAC
CCCGTTATTTCATA
Found at i:396761 original size:28 final size:28
Alignment explanation
Indices: 396729--396801 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
396719 TTCACAATTA
*
396729 GGGATACTCCAACCCCGTTATTTCAT-TG
1 GGGATACTCCAACCCCGTTATTTC-TGAG
**
396757 GGGATACTCCAACTTCGTTATTTCTGAG
1 GGGATACTCCAACCCCGTTATTTCTGAG
*
396785 GGGATACTCAAACCCCG
1 GGGATACTCCAACCCCG
396802 GCTTTATATC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 1 0.03
28 37 0.97
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (28 bp):
GGGATACTCCAACCCCGTTATTTCTGAG
Found at i:396873 original size:28 final size:26
Alignment explanation
Indices: 396833--396909 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 26
396823 TTTTTTCATA
*
396833 ATCGGGGGTACTCCAACCCCGTTATGT
1 ATCGGGGATACTCCAACCCCGTTAT-T
*
396860 CATCGGGGATACTCCAATCCCGTTATT
1 -ATCGGGGATACTCCAACCCCGTTATT
*
396887 TTCGAGGGGATACTCCAACCCCG
1 ATC--GGGGATACTCCAACCCCG
396910 ATTTTATTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
26 2 0.05
27 1 0.02
28 40 0.93
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.25
Consensus pattern (26 bp):
ATCGGGGATACTCCAACCCCGTTATT
Found at i:396894 original size:108 final size:107
Alignment explanation
Indices: 396650--396956 Score: 361
Period size: 107 Copynumber: 2.9 Consensus size: 107
396640 TTCATAATTA
* * *
396650 GGGATACTCCAATCTCGTTATTTCTGAGGGGATACTCAAACCCCAGTTTTATTTCTAAAACATCA
1 GGGATACTCCAATCTCGTTATTTCTGAGGGGATACTCAAACCCCGGCTTTATATCTAAAACATCA
* * *
396715 ATTTTTCACAATTAGGGATACTCCAACCCCGTTATTTCATTG
66 ATTTTTCACAATCAGGGATACTCCAACCCCGTTATGTCATCG
*
396757 GGGATACTCCAA-CTTCGTTATTTCTGAGGGGATACTCAAACCCCGGCTTTATATCTAAAATATT
1 GGGATACTCCAATC-TCGTTATTTCTGAGGGGATACTCAAACCCCGGCTTTATATCTAAAACA-T
* * * * *
396821 GATTTTTTCATAATCGGGGGTACTCCAACCCCGTTATGTCATCG
64 CAATTTTTCACAATCAGGGATACTCCAACCCCGTTATGTCATCG
* * ** * *
396865 GGGATACTCCAATCCCGTTATTT-TCGAGGGGATACTCCAACCCCGATTTTAT-TTTCAAA-ATG
1 GGGATACTCCAATCTCGTTATTTCT-GAGGGGATACTCAAACCCCGGCTTTATATCTAAAACAT-
* *
396927 CCAATTTTTTATAATCAGGGATACTCCAAC
64 -CAATTTTTCACAATCAGGGATACTCCAAC
396957 TTGGTTGTAG
Statistics
Matches: 171, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
105 1 0.01
106 2 0.01
107 86 0.50
108 81 0.47
109 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (107 bp):
GGGATACTCCAATCTCGTTATTTCTGAGGGGATACTCAAACCCCGGCTTTATATCTAAAACATCA
ATTTTTCACAATCAGGGATACTCCAACCCCGTTATGTCATCG
Found at i:397357 original size:13 final size:13
Alignment explanation
Indices: 397339--397363 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
397329 ATTACTCAAA
397339 TGTATCGATACAT
1 TGTATCGATACAT
397352 TGTATCGATACA
1 TGTATCGATACA
397364 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:397428 original size:52 final size:52
Alignment explanation
Indices: 397372--397500 Score: 215
Period size: 52 Copynumber: 2.5 Consensus size: 52
397362 CACTGATCTT
* *
397372 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATAAAA
*
397424 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATAAAA
397476 TGTATCGATACATGCA-GATAAATTT
1 TGTATCGATACATGCAGGA-AAATTT
397501 TCATATTTCG
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
51 2 0.03
52 71 0.97
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:401904 original size:21 final size:20
Alignment explanation
Indices: 401880--401936 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 20
401870 TTTTTAAACT
*
401880 TTTTTTGCTTTATTTTTTTGA
1 TTTTTTG-TTTATTTTTTTAA
*
401901 TTTTTTAATTTGA-TTTTTTAA
1 TTTTTT-GTTT-ATTTTTTTAA
*
401922 TTTTTTGATTATTTT
1 TTTTTTGTTTATTTT
401937 AATTTTTTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
19 1 0.03
20 5 0.17
21 22 0.76
22 1 0.03
ACGTcount: A:0.16, C:0.02, G:0.07, T:0.75
Consensus pattern (20 bp):
TTTTTTGTTTATTTTTTTAA
Found at i:401907 original size:16 final size:16
Alignment explanation
Indices: 401888--401989 Score: 88
Period size: 16 Copynumber: 6.5 Consensus size: 16
401878 CTTTTTTTGC
401888 TTTATTTTTTTGATTT
1 TTTATTTTTTTGATTT
*
401904 TTTA---ATTTGATTT
1 TTTATTTTTTTGATTT
*
401917 TTTAATTTTTTGATTAT
1 TTTATTTTTTTGATT-T
*
401934 TTTAATTTTTTTGGTTT
1 TTT-ATTTTTTTGATTT
*
401951 TTAATTTTTTTGA-TT
1 TTTATTTTTTTGATTT
**
401966 AAT-TTTTTTTGATTT
1 TTTATTTTTTTGATTT
401981 TTTGATTTT
1 TTT-ATTTT
401990 ATTATTATTT
Statistics
Matches: 67, Mismatches: 11, Indels: 15
0.72 0.12 0.16
Matches are distributed among these distances:
13 12 0.18
14 9 0.13
15 5 0.07
16 20 0.30
17 11 0.16
18 10 0.15
ACGTcount: A:0.18, C:0.00, G:0.08, T:0.75
Consensus pattern (16 bp):
TTTATTTTTTTGATTT
Found at i:401912 original size:13 final size:13
Alignment explanation
Indices: 401896--401924 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
401886 GCTTTATTTT
401896 TTTGATTTTTTAA
1 TTTGATTTTTTAA
401909 TTTGATTTTTTAA
1 TTTGATTTTTTAA
401922 TTT
1 TTT
401925 TTTGATTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (13 bp):
TTTGATTTTTTAA
Found at i:401927 original size:30 final size:31
Alignment explanation
Indices: 401891--402005 Score: 121
Period size: 31 Copynumber: 3.7 Consensus size: 31
401881 TTTTTGCTTT
401891 ATTTTTTTGATT-TTTTAATTTGATTTTTTA
1 ATTTTTTTGATTATTTTAATTTGATTTTTTA
**
401921 A-TTTTTTGATTATTTTAATTTTTTTGGTTTTTA
1 ATTTTTTTGATTATTTTAA-TTTGAT--TTTTTA
* *
401954 ATTTTTTTGATTAATTTT-TTTTGATTTTTTG
1 ATTTTTTTGATT-ATTTTAATTTGATTTTTTA
*
401985 ATTTTATT-ATTATTTTAATTT
1 ATTTTTTTGATTATTTTAATTT
402006 TATATCAAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
29 15 0.21
30 13 0.19
31 16 0.23
33 11 0.16
34 10 0.14
35 5 0.07
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (31 bp):
ATTTTTTTGATTATTTTAATTTGATTTTTTA
Found at i:401967 original size:13 final size:14
Alignment explanation
Indices: 401951--401979 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
401941 TTTTTGGTTT
401951 TTAA-TTTTTTTGA
1 TTAATTTTTTTTGA
401964 TTAATTTTTTTTGA
1 TTAATTTTTTTTGA
401978 TT
1 TT
401980 TTTTGATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (14 bp):
TTAATTTTTTTTGA
Found at i:401974 original size:23 final size:25
Alignment explanation
Indices: 401948--402006 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 25
401938 ATTTTTTTGG
401948 TTTTTAATTTTTTTGA-TTAATT-T
1 TTTTTAATTTTTTTGATTTAATTAT
* *
401971 TTTTTGA-TTTTTTGATTTTATTAT
1 TTTTTAATTTTTTTGATTTAATTAT
401995 TATTTTAATTTT
1 T-TTTTAATTTT
402007 ATATCAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 8 0.28
23 11 0.38
24 2 0.07
25 5 0.17
26 3 0.10
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (25 bp):
TTTTTAATTTTTTTGATTTAATTAT
Found at i:401989 original size:7 final size:8
Alignment explanation
Indices: 401893--401989 Score: 62
Period size: 8 Copynumber: 12.5 Consensus size: 8
401883 TTTGCTTTAT
401893 TTTTTTGA
1 TTTTTTGA
401901 TTTTTT-A
1 TTTTTTGA
*
401908 --ATTTGA
1 TTTTTTGA
*
401914 TTTTTTAA
1 TTTTTTGA
401922 TTTTTTGA
1 TTTTTTGA
*
401930 TTATTTTAA
1 TT-TTTTGA
401939 TTTTTTTG-
1 -TTTTTTGA
* *
401947 GTTTTTAA
1 TTTTTTGA
401955 TTTTTTTGA
1 -TTTTTTGA
**
401964 TTAATT--
1 TTTTTTGA
401970 TTTTTTGA
1 TTTTTTGA
401978 TTTTTTGA
1 TTTTTTGA
401986 TTTT
1 TTTT
401990 ATTATTATTT
Statistics
Matches: 66, Mismatches: 14, Indels: 18
0.67 0.14 0.18
Matches are distributed among these distances:
5 3 0.05
6 5 0.08
7 6 0.09
8 35 0.53
9 15 0.23
10 2 0.03
ACGTcount: A:0.18, C:0.00, G:0.08, T:0.74
Consensus pattern (8 bp):
TTTTTTGA
Found at i:402008 original size:17 final size:16
Alignment explanation
Indices: 401888--402006 Score: 67
Period size: 17 Copynumber: 7.6 Consensus size: 16
401878 CTTTTTTTGC
*
401888 TTTATTTTTTTGATT-T
1 TTTAATTTTTT-ATTAT
*
401904 TTTAA--TTTGATT-T
1 TTTAATTTTTTATTAT
401917 TTTAATTTTTTGATTAT
1 TTTAATTTTTT-ATTAT
401934 TTTAATTTTTT-TGGT-T
1 TTTAATTTTTTAT--TAT
*
401950 TTTAATTTTTTTGATTAA
1 TTTAA-TTTTTT-ATTAT
*
401968 TTT--TTTTTGATT-T
1 TTTAATTTTTTATTAT
*
401981 TTTGATTTTATTATTAT
1 TTTAATTTT-TTATTAT
401998 TTTAATTTT
1 TTTAATTTT
402007 ATATCAAAAA
Statistics
Matches: 81, Mismatches: 8, Indels: 27
0.70 0.07 0.23
Matches are distributed among these distances:
13 12 0.15
14 6 0.07
15 13 0.16
16 17 0.21
17 29 0.36
18 3 0.04
19 1 0.01
ACGTcount: A:0.19, C:0.00, G:0.07, T:0.74
Consensus pattern (16 bp):
TTTAATTTTTTATTAT
Found at i:403404 original size:35 final size:35
Alignment explanation
Indices: 403347--403417 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 35
403337 CGATAGAAAC
*** *
403347 CTCCCTATCTTTTCACGGGCTAAGAT-TAACCTCT
1 CTCCCTATCTTTTCAAAAGCTAAGATAGAACCTCT
403381 CTCCCTATCTTTTTCAAAAGCTAAGATAGAACCTCT
1 CTCCCTATC-TTTTCAAAAGCTAAGATAGAACCTCT
403417 C
1 C
403418 AATCACTTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 9 0.29
35 14 0.45
36 8 0.26
ACGTcount: A:0.25, C:0.31, G:0.10, T:0.34
Consensus pattern (35 bp):
CTCCCTATCTTTTCAAAAGCTAAGATAGAACCTCT
Found at i:403803 original size:19 final size:20
Alignment explanation
Indices: 403779--403816 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
403769 CACTTACACG
*
403779 TTCCT-ATGTATCGATACAA
1 TTCCTAATGTATCAATACAA
403798 TTCCTAATGTATCAATACA
1 TTCCTAATGTATCAATACA
403817 TGCATTTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.37
Consensus pattern (20 bp):
TTCCTAATGTATCAATACAA
Found at i:403943 original size:22 final size:22
Alignment explanation
Indices: 403887--403943 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
403877 ATGAACAGTG
* *
403887 ATGAACAATGATATATTGATAC
1 ATGAACAATGATGTATCGATAC
403909 ATGAACAATGATGTATCGATAC
1 ATGAACAATGATGTATCGATAC
*
403931 ATGAACATTGATG
1 ATGAACAATGATG
403944 AACAGTAATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.42, C:0.11, G:0.18, T:0.30
Consensus pattern (22 bp):
ATGAACAATGATGTATCGATAC
Found at i:410549 original size:52 final size:51
Alignment explanation
Indices: 410464--410587 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 51
410454 ATATGAAAAG
* *
410464 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAA
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
410515 TTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGCAAA
1 -TTGCCTGCATGTATCGATACA-TTTAATAATGTATCGATACATCTGGGCAAA
410567 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
410588 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
51 21 0.30
52 43 0.62
53 5 0.07
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
Found at i:410600 original size:51 final size:50
Alignment explanation
Indices: 410464--410607 Score: 177
Period size: 52 Copynumber: 2.8 Consensus size: 50
410454 ATATGAAAAG
* *
410464 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA--AAATAGTGTATCGATACATCTGGGCAAAT
410516 TTGCCTGCATGTATCGATACATTTTAAA-A-TGTATCGATACATCTGGGCAAA-
1 TTGCCTGCATGTATCGATACA----AAATAGTGTATCGATACATCTGGGCAAAT
410567 TTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACAAA-AT-AGTGTATCGATACA
410608 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 2, Indels: 13
0.85 0.02 0.13
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
50 1 0.01
51 33 0.39
52 42 0.50
53 1 0.01
54 4 0.05
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (50 bp):
TTGCCTGCATGTATCGATACAAAATAGTGTATCGATACATCTGGGCAAAT
Found at i:410614 original size:13 final size:13
Alignment explanation
Indices: 410596--410620 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
410586 CAAAGATCAG
410596 TGTATCGATACAA
1 TGTATCGATACAA
410609 TGTATCGATACA
1 TGTATCGATACA
410621 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:410703 original size:13 final size:13
Alignment explanation
Indices: 410685--410709 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
410675 CAAAAAAATA
410685 TGTATCGATACAT
1 TGTATCGATACAT
410698 TGTATCGATACA
1 TGTATCGATACA
410710 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:410705 original size:33 final size:33
Alignment explanation
Indices: 410663--410729 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
410653 AGTAGCTTAA
410663 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
410696 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
410729 A
1 A
410730 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:411556 original size:56 final size:52
Alignment explanation
Indices: 411472--411817 Score: 309
Period size: 48 Copynumber: 7.0 Consensus size: 52
411462 GAAAAGTGAT
* * * * * *
411472 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGATGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG--G-A
* * * *
411527 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
*
411580 AAAGGTGCCGATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
* * *
411623 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
* * *
411673 --AGGTGCTAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
* * *
411721 -AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
* * *
411770 --AGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG
411818 AAGATGAGAA
Statistics
Matches: 257, Mismatches: 24, Indels: 26
0.84 0.08 0.08
Matches are distributed among these distances:
43 38 0.15
44 1 0.00
46 1 0.00
48 91 0.35
49 47 0.18
51 1 0.00
52 31 0.12
53 6 0.02
54 1 0.00
55 4 0.02
56 36 0.14
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.25
Consensus pattern (52 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
Found at i:411696 original size:48 final size:48
Alignment explanation
Indices: 411536--411818 Score: 414
Period size: 48 Copynumber: 5.9 Consensus size: 48
411526 AAAAGGATGT
*
411536 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G---AGGTGC
* * *
411588 CGATATGCTGATTCAAGGCCAGCTATATTGGACTT--A-A--AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGC
*
411631 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGC
*
411679 TAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGC
*
411728 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGC
*
411776 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGA
411819 AGATGAGAAA
Statistics
Matches: 211, Mismatches: 14, Indels: 16
0.88 0.06 0.07
Matches are distributed among these distances:
43 38 0.18
45 1 0.00
48 93 0.44
49 47 0.22
50 1 0.00
52 31 0.15
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (48 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGC
Found at i:411760 original size:97 final size:97
Alignment explanation
Indices: 411536--411820 Score: 420
Period size: 97 Copynumber: 3.0 Consensus size: 97
411526 AAAAGGATGT
* * *
411536 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G---AGGTGCCAATGTGCTGATT
*
411601 CAAGGCCAGCTATATTGGACTT----A--AAGGTGC
62 CAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
411631 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAGGTGCTAATGTGCTGATTCAAG
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATGTGCTGATTCAAG
411696 GCCAGCTACATTGGACTTAAAGATGAAGGTGC
66 GCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
411728 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATGTGCTGATTCAAG
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATGTGCTGATTCAAG
*
411793 GCCAGCGACATTGGACTTAAAGATGAAG
66 GCCAGCTACATTGGACTTAAAGATGAAG
411821 ATGAGAAAAG
Statistics
Matches: 174, Mismatches: 10, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
91 37 0.21
94 1 0.01
95 40 0.23
97 96 0.55
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.25
Consensus pattern (97 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATGTGCTGATTCAAG
GCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:411978 original size:22 final size:22
Alignment explanation
Indices: 411953--412021 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
411943 AAAGGTGCCG
411953 ATATGCTGATTCAAGGCCAGCT
1 ATATGCTGATTCAAGGCCAGCT
*
411975 ATAT--TGGACTTAAAGGTGCC-G--
1 ATATGCT-GA-TTCAA-G-GCCAGCT
411996 ATATGCTGATTCAAGGCCAGCT
1 ATATGCTGATTCAAGGCCAGCT
412018 ATAT
1 ATAT
412022 TGGACTTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 18
0.64 0.04 0.32
Matches are distributed among these distances:
19 3 0.08
20 3 0.08
21 10 0.28
22 14 0.39
23 3 0.08
24 3 0.08
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (22 bp):
ATATGCTGATTCAAGGCCAGCT
Found at i:412011 original size:21 final size:21
Alignment explanation
Indices: 411944--412011 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
411934 AAAGATGGAA
411944 AAGGTGCCGATATGCTGATTC
1 AAGGTGCCGATATGCTGATTC
* ** *
411965 AA-G-GCCAGCTATATTGGACTTA
1 AAGGTGCC-GATATGCT-GA-TTC
411987 AAGGTGCCGATATGCTGATTC
1 AAGGTGCCGATATGCTGATTC
412008 AAGG
1 AAGG
412012 CCAGCTATAT
Statistics
Matches: 34, Mismatches: 8, Indels: 10
0.65 0.15 0.19
Matches are distributed among these distances:
19 3 0.09
20 6 0.18
21 10 0.29
22 6 0.18
23 6 0.18
24 3 0.09
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (21 bp):
AAGGTGCCGATATGCTGATTC
Found at i:412033 original size:22 final size:22
Alignment explanation
Indices: 411965--412033 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
411955 ATGCTGATTC
411965 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
* ** *
411987 AAGGTGCC-GATATGCT-GA-TTC
1 AA-G-GCCAGCTATATTGGACTTA
412008 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
412030 AAGG
1 AAGG
412034 TGCCAATGTG
Statistics
Matches: 34, Mismatches: 8, Indels: 10
0.65 0.15 0.19
Matches are distributed among these distances:
19 3 0.09
20 6 0.18
21 6 0.18
22 10 0.29
23 6 0.18
24 3 0.09
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (22 bp):
AAGGCCAGCTATATTGGACTTA
Found at i:412151 original size:49 final size:49
Alignment explanation
Indices: 411899--413489 Score: 2159
Period size: 49 Copynumber: 32.7 Consensus size: 49
411889 AAAAGGATGT
*
411899 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* * *
411951 CGATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
411994 CGATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
412037 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
412085 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
412134 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
412182 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
412231 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
412280 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCAA-GTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-AAGGTGC
* * *
412329 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
412378 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
412427 CTATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * * *
412476 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
412525 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
412574 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
412623 CAATGTGCTGAGTCAAGGCCAACTACATTGGACTTAAAGATG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
412671 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
412720 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
412769 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCAA-GTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-AAGGTGC
* * *
412818 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
412867 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
412916 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * * *
412965 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
413014 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
413063 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
413112 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
413161 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* * * *
413213 CAATATGCTGTTTCAAGGCCAGCTATATTGGACTTAAAGGTGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* *
413265 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
413308 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
413356 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
413405 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
413454 CAATATGCTGATTCAGGGCCAGCTATATTGGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
413490 GAAGGGTTGC
Statistics
Matches: 1377, Mismatches: 139, Indels: 49
0.88 0.09 0.03
Matches are distributed among these distances:
43 122 0.09
48 191 0.14
49 942 0.68
50 3 0.00
52 119 0.09
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:412675 original size:489 final size:489
Alignment explanation
Indices: 411899--413489 Score: 2565
Period size: 489 Copynumber: 3.3 Consensus size: 489
411889 AAAAGGATGT
* * * ** * *
411899 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGATATGCTGATT
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT--A-ATGGTGAAGGTGCCAATATGCTGAGT
* *
411964 CAAGGCCAGCTATATTGGAC-T-----TAAAGGTGCCGATATGCTGATTCAAGGCCAGCTATATT
63 CAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATT
* * * *
412023 GGACTT-A-----AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGT-GAG
128 GGGCTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAG
* * * *
412081 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAG
193 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAG
412146 TCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATT
258 TCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATT
412211 GGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATG
323 GGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATG
412276 ATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCAAGTGCCAATGTGCTGAG
388 ATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCAAGTGCCAATGTGCTGAG
412341 TCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGC
453 TCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGC
* *
412378 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCTATGTGCTGAGTCAA
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATATGCTGAGTCAA
412443 GGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGG
66 GGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGG
412508 CTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTG
131 CTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTG
412573 CCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCA
196 CCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCA
*
412638 AGGCCAACTACATTGGACTTAAAGATGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGA
261 AGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGA
412703 CTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATG
326 CTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATG
412768 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCAAGTGCCAATGTGCTGAGTCA
391 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCAAGTGCCAATGTGCTGAGTCA
412833 AGGCCAGCTACATTGGACTTAAAGATAAAAGTGC
456 AGGCCAGCTACATTGGACTTAAAGATAAAAGTGC
*
412867 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAA
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATATGCTGAGTCAA
412932 GGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGG
66 GGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGG
412997 CTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTG
131 CTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTG
413062 CCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCA
196 CCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCA
* * *
413127 AGGCCAGCTACATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGG
261 AGGCCAGCTACATTGGACTTAAAGATG-AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGG
* ** * *
413192 ACTTAAAGATGGAAAAGGTGCCAATATGCTGTTTCAAGGCCAGCTATATTGGACTTAAAGGTGGA
325 ACTTAAAGAT-G--AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
* * *
413257 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA---G---GTGCCAATGTGC
385 -ATGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCAAGTGCCAATGTGC
* * * *
413316 TGATTCAAGGCCAGCTACATTGGACTTAAAGGT-GAGGTGC
449 TGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGC
* * * *
413356 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATATGCTGAGTCAA
* * *
413421 GGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAGGGCCAGCTATATTGGG
66 GGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGG
413486 CTTA
131 CTTA
413490 GAAGGGTTGC
Statistics
Matches: 1048, Mismatches: 44, Indels: 30
0.93 0.04 0.03
Matches are distributed among these distances:
476 40 0.04
477 2 0.00
479 32 0.03
482 42 0.04
483 1 0.00
488 46 0.04
489 708 0.68
490 89 0.08
491 1 0.00
493 44 0.04
494 1 0.00
496 42 0.04
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (489 bp):
CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATATGCTGAGTCAA
GGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGG
CTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTG
CCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCA
AGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGA
CTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATG
CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCAAGTGCCAATGTGCTGAGTCA
AGGCCAGCTACATTGGACTTAAAGATAAAAGTGC
Found at i:413569 original size:34 final size:34
Alignment explanation
Indices: 413489--413628 Score: 252
Period size: 33 Copynumber: 4.2 Consensus size: 34
413479 TATTGGGCTT
413489 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
413522 AGAA-GGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
413555 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
413589 AGAA-GGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
413622 A-AAGGGT
1 AGAAGGGT
413629 GAAAGATGCC
Statistics
Matches: 104, Mismatches: 0, Indels: 6
0.95 0.00 0.05
Matches are distributed among these distances:
32 4 0.04
33 67 0.64
34 33 0.32
ACGTcount: A:0.19, C:0.17, G:0.35, T:0.29
Consensus pattern (34 bp):
AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:413571 original size:67 final size:67
Alignment explanation
Indices: 413489--413628 Score: 266
Period size: 67 Copynumber: 2.1 Consensus size: 67
413479 TATTGGGCTT
413489 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAGAGAAGGTTTGCCACCGACTTGTGTGGGCTTT
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGTTTGCCACCGACTTGTGTGGGCTTT
413553 AG
66 AG
413555 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGTTTGCCACCGACTTGTGTGGGCTTT
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGTTTGCCACCGACTTGTGTGGGCTTT
413620 AG
66 AG
413622 A-AAGGGT
1 AGAAGGGT
413629 GAAAGATGCC
Statistics
Matches: 73, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
66 13 0.18
67 60 0.82
ACGTcount: A:0.19, C:0.17, G:0.35, T:0.29
Consensus pattern (67 bp):
AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGTTTGCCACCGACTTGTGTGGGCTTT
AG
Found at i:413740 original size:34 final size:34
Alignment explanation
Indices: 413630--414371 Score: 731
Period size: 34 Copynumber: 22.8 Consensus size: 34
413620 AGAAAGGGTG
* * * *
413630 AAAGA-TGCCACGAAGTTGTGGACTTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
* * *
413663 CAAG-GTGCCACAGAGTTGTGGGCTTTAAAAGGGAAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TTAGAA-GG-AA
413699 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
413733 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
413767 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGG-A
1 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
*
413800 AAAGAGTGCCACGTAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
*
413834 AAAGAGTGGCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
413868 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGG-A
1 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
*
413901 AAAGAGTGCCACGTAGTTGTGGGCTTTA-AAGG-A
1 AAAGAGTGCCACGGAGTTGTGGGC-TTAGAAGGAA
* * *
413934 AAAGAGTGCCACGTAGTCGTGGACTT-------A
1 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
* *
413961 AAAGGGTGCCACGGAGTTGTGGGCTTAGACGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
*
413995 AAAGAGTGCCACAGAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
*
414029 AAAGAGTGCCACGGAGTTGTGGGCTT-----TAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
* *
414058 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAG-AAGGAA
* * * *
414093 GAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGAG
1 AAAGAGTGCCACGGAGTTGTGGGC-TTAGAAGGAA
* *
414127 GAAG-GTGCCACGGAGTTGTGGGCTT-------T
1 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
* * *
414153 AAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAG-AAGGAA
* * *
414188 GAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAG-AAGGAA
* *
414222 GAAG-GTGCCACGGAGTTGTGGCCTTTA-AAGG-A
1 AAAGAGTGCCACGGAGTTGTGGGC-TTAGAAGGAA
* *
414254 AAAG-GTGCCACGGAGTTGTAGGCTTTGAA-GAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
* *
414286 AAAG-GTGCCACGGAGTTGTAGGCTT----TG--
1 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
* * *
414313 -AAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAG-AAGGAA
*
414347 GAAG-GTGCCACGGAGTTGTGGGCTT
1 AAAGAGTGCCACGGAGTTGTGGGCTT
414372 TGAAAAGAAA
Statistics
Matches: 620, Mismatches: 46, Indels: 85
0.83 0.06 0.11
Matches are distributed among these distances:
26 6 0.01
27 62 0.10
29 29 0.05
31 3 0.00
32 52 0.08
33 106 0.17
34 316 0.51
35 18 0.03
36 10 0.02
37 18 0.03
ACGTcount: A:0.30, C:0.13, G:0.36, T:0.20
Consensus pattern (34 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
Found at i:413825 original size:101 final size:99
Alignment explanation
Indices: 413630--414371 Score: 736
Period size: 101 Copynumber: 7.6 Consensus size: 99
413620 AGAAAGGGTG
* * * * *
413630 AAAGA-TGCCACGAAGTTGTGGACTTAAAAAGAACAAG-GTGCCACAGAGTTGTGGGCTTTAAAA
1 AAAGAGTGCCACGGAGTTGTGGGCTT--AAAGAAAAAGAGTGCCACGGAGTTGTGGGC-TTAGAA
413693 GGGAAAAAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
63 -GG--AAAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
413733 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAGAAG
1 AAAGAGTGCCACGGAGTTGTGGGCTTA-AA-GAAAAAGAGTGCCACGGAGTTGTGGGCTTAGAAG
*
413798 GAAAAGAGTGCCACGTAGTTGTGGGCTTAGAAGGAA
64 GAAAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
*
413834 AAAGAGTGGCACGGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAGAAG
1 AAAGAGTGCCACGGAGTTGTGGGCTTA-AA-GAAAAAGAGTGCCACGGAGTTGTGGGCTTAGAAG
*
413899 GAAAAGAGTGCCACGTAGTTGTGGGCTTTA-AAGG-A
64 GAAAAGAGTGCCACGGAGTTGTGGGC-TTAGAAGGAA
* * * * *
413934 AAAGAGTGCCACGTAGTCGTGGACTT-----AAAAGGGTGCCACGGAGTTGTGGGCTTAGACGGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTAGAAGG-
*
413994 AAAAGAGTGCCACAGAGTTGTGGGCTTAGAAGGAA
65 AAAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
* * *
414029 AAAGAGTGCCACGGAGTTGTGGGCTT---TAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAG
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTAG-AAGG
* * *
414091 AAGAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGAG
65 AA-AAGAGTGCCACGGAGTTGTGGGC-TTAGAAGGAA
* * * * *
414127 GAAG-GTGCCACGGAGTTGTGGGCTT-----TAAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAG
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTAG-AAGG
* *
414186 AAGAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGAA
65 AA-AAGAGTGCCACGGAGTTGTGGGCTTAG-AAGGAA
* * * * * *
414222 GAAG-GTGCCACGGAGTTGTGGCCTTTAAAGGAAAAG-GTGCCACGGAGTTGTAGGCTTTGAAGA
1 AAAGAGTGCCACGGAGTTGTGGGC-TTAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTAGAAGG
* *
414285 AAAAG-GTGCCACGGAGTTGTAGGCTT----TG--
65 AAAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
* *
414313 -AAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGAAGAAG-GTGCCACGGAGTTGTGGGCTT
1 AAAGAGTGCCACGGAGTTGTGGGC-TT--AAAGAAAAAGAGTGCCACGGAGTTGTGGGCTT
414372 TGAAAAGAAA
Statistics
Matches: 571, Mismatches: 45, Indels: 56
0.85 0.07 0.08
Matches are distributed among these distances:
90 3 0.01
91 20 0.04
93 63 0.11
94 29 0.05
95 108 0.19
96 2 0.00
97 68 0.12
98 38 0.07
99 4 0.01
100 44 0.08
101 132 0.23
102 4 0.01
103 9 0.02
104 29 0.05
105 18 0.03
ACGTcount: A:0.30, C:0.13, G:0.36, T:0.20
Consensus pattern (99 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGA
AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
Found at i:413971 original size:27 final size:27
Alignment explanation
Indices: 413933--413987 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
413923 GCTTTAAAGG
*
413933 AAAAGAGTGCCACGTAGTCGTGGACTT
1 AAAAGAGTGCCACGGAGTCGTGGACTT
* * *
413960 AAAAGGGTGCCACGGAGTTGTGGGCTT
1 AAAAGAGTGCCACGGAGTCGTGGACTT
413987 A
1 A
413988 GACGGAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.27, C:0.16, G:0.35, T:0.22
Consensus pattern (27 bp):
AAAAGAGTGCCACGGAGTCGTGGACTT
Found at i:414192 original size:61 final size:61
Alignment explanation
Indices: 414029--414380 Score: 316
Period size: 61 Copynumber: 5.6 Consensus size: 61
414019 TTAGAAGGAA
414029 AAAGA-GTGCCACGGAGTTGTGGGCTTT-AAA-AAG-A-GTGCCACGGAGTTGTGGGCTTT
1 AAAGAGGTGCCACGGAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT
*
414085 GAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAGGAAGGTGCCACGGAGTTGTGGGC
1 ----A-AAG-AGGTGCCACGGAGTTGTGGGCTTT-AAAAGAAGAAGGTGCCACGGAGTTGTGGGC
414150 TTT
59 TTT
*
414153 AAAGA-GTGCCACGGAGTCGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT
1 AAAGAGGTGCCACGGAGTTGTGGGCTTT-AAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT
* * *
414214 GAAAAGAAGAAGGTGCCACGGAGTTGTGGCCTTTAAAGGAA-AAGGTGCCACGGAGTTGTAGGCT
1 ----A-AAG-AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCT
414278 TT
60 TT
* * *
414280 GAAGAAAAAGGTGCCACGGAGTTGTAGGCTTT----GAAG-A-GTGCCACGGAGTCGTGGGCTTT
1 ----AAAGAGGTGCCACGGAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT
414339 GAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAA
1 ----A-AAG-AGGTGCCACGGAGTTGTGGGCTTT-AAAAGAA
414381 AAAATGCCAC
Statistics
Matches: 252, Mismatches: 17, Indels: 40
0.82 0.06 0.13
Matches are distributed among these distances:
59 24 0.10
60 7 0.03
61 79 0.31
62 2 0.01
63 25 0.10
64 23 0.09
65 6 0.02
66 36 0.14
67 8 0.03
68 42 0.17
ACGTcount: A:0.29, C:0.13, G:0.37, T:0.21
Consensus pattern (61 bp):
AAAGAGGTGCCACGGAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT
Found at i:414372 original size:34 final size:34
Alignment explanation
Indices: 414312--414407 Score: 131
Period size: 34 Copynumber: 2.8 Consensus size: 34
414302 TGTAGGCTTT
414312 GAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGAA
1 GAAG-GTGCCACGGAGTCGTGGGCTTTGAAAAGAA
*
414347 GAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAA
1 GAAGGTGCCACGGAGTCGTGGGCTTTGAAAAGAA
** * *
414381 -AAAATGCCACTGAGTCGTGGACTTTGA
1 GAAGGTGCCACGGAGTCGTGGGCTTTGA
414408 GACAAAATGC
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
33 22 0.40
34 29 0.53
35 4 0.07
ACGTcount: A:0.30, C:0.15, G:0.34, T:0.21
Consensus pattern (34 bp):
GAAGGTGCCACGGAGTCGTGGGCTTTGAAAAGAA
Found at i:414417 original size:30 final size:31
Alignment explanation
Indices: 414383--414498 Score: 148
Period size: 31 Copynumber: 3.7 Consensus size: 31
414373 GAAAAGAAAA
414383 AATGCCACTGAGTCGTGGACTTTGAGACAA-
1 AATGCCACTGAGTCGTGGACTTTGAGACAAG
* *
414413 AATGCCACTGAGTCGTGGACTTTAAAGAGAATG
1 AATGCCACTGAGTCGTGGACTTT-GAGACAA-G
*
414446 -ATGCCACTGCGTCGTGGACTTTGAG-CAGAG
1 AATGCCACTGAGTCGTGGACTTTGAGACA-AG
*
414476 ATTGCCACTGAGTCGTGGACTTT
1 AATGCCACTGAGTCGTGGACTTT
414499 TTGTTTTTTT
Statistics
Matches: 74, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
30 25 0.34
31 28 0.38
32 21 0.28
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (31 bp):
AATGCCACTGAGTCGTGGACTTTGAGACAAG
Found at i:414485 original size:31 final size:31
Alignment explanation
Indices: 414385--414498 Score: 137
Period size: 30 Copynumber: 3.7 Consensus size: 31
414375 AAAGAAAAAA
*
414385 TGCCACTGAGTCGTGGACTTTGAGACA-A-AA
1 TGCCACTGAGTCGTGGACTTTGAG-CAGAGAT
*
414415 TGCCACTGAGTCGTGGACTTT-A-AAGAGAAT
1 TGCCACTGAGTCGTGGACTTTGAGCAGAG-AT
*
414445 GATGCCACTGCGTCGTGGACTTTGAGCAGAGAT
1 --TGCCACTGAGTCGTGGACTTTGAGCAGAGAT
414478 TGCCACTGAGTCGTGGACTTT
1 TGCCACTGAGTCGTGGACTTT
414499 TTGTTTTTTT
Statistics
Matches: 72, Mismatches: 5, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
27 1 0.01
28 1 0.01
29 1 0.01
30 22 0.31
31 20 0.28
32 20 0.28
33 3 0.04
34 4 0.06
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAGCAGAGAT
Found at i:415843 original size:13 final size:13
Alignment explanation
Indices: 415825--415897 Score: 96
Period size: 12 Copynumber: 5.6 Consensus size: 13
415815 CTTTGCACTC
415825 TTTTTTTTTGTGT
1 TTTTTTTTTGTGT
415838 TTTTTTTTTGT-T
1 TTTTTTTTTGTGT
415850 TTTTTTTTTGT-T
1 TTTTTTTTTGTGT
*
415862 TTTTTGTTGTGTGT
1 TTTTT-TTTTGTGT
*
415876 TTTTTTTTGTTTGT
1 TTTTTTTT-TGTGT
415890 TTTTTTTT
1 TTTTTTTT
415898 CATCACTTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
12 18 0.33
13 18 0.33
14 18 0.33
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (13 bp):
TTTTTTTTTGTGT
Found at i:415853 original size:25 final size:26
Alignment explanation
Indices: 415825--415897 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 26
415815 CTTTGCACTC
415825 TTTTTTTTTGTGTTTTTTTTT-TGTT
1 TTTTTTTTTGTGTTTTTTTTTGTGTT
415850 TTTTTTTTTGT-TTTTTTGTTGTGTGTT
1 TTTTTTTTTGTGTTTTTT-TT-TGTGTT
415877 TTTTTTTGTT-TGTTTTTTTTT
1 TTTTTTT-TTGTGTTTTTTTTT
415898 CATCACTTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
24 6 0.14
25 13 0.30
26 2 0.05
27 14 0.33
28 8 0.19
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (26 bp):
TTTTTTTTTGTGTTTTTTTTTGTGTT
Found at i:415911 original size:1 final size:1
Alignment explanation
Indices: 415825--415897 Score: 56
Period size: 1 Copynumber: 73.0 Consensus size: 1
415815 CTTTGCACTC
* * * * * * * * * *
415825 TTTTTTTTTGTGTTTTTTTTTTGTTTTTTTTTTTGTTTTTTTGTTGTGTGTTTTTTTTTGTTTGT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
415890 TTTTTTTT
1 TTTTTTTT
415898 CATCACTTTT
Statistics
Matches: 52, Mismatches: 20, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (1 bp):
T
Found at i:422872 original size:52 final size:51
Alignment explanation
Indices: 422787--422910 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 51
422777 ATATGAAAAG
* *
422787 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAA
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
422838 TTTGCCTGCATGTATCGATACACTTTAA-AATGTATCGATACATCTGGGCAAA
1 -TTGCCTGCATGTATCGATACA-TTTAATAATGTATCGATACATCTGGGCAAA
422890 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
422911 AAGATCAGTA
Statistics
Matches: 69, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
51 21 0.30
52 43 0.62
53 5 0.07
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
Found at i:423026 original size:13 final size:13
Alignment explanation
Indices: 423008--423032 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
422998 CAAAAAAATA
423008 TGTATCGATACAT
1 TGTATCGATACAT
423021 TGTATCGATACA
1 TGTATCGATACA
423033 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:423028 original size:33 final size:33
Alignment explanation
Indices: 422986--423052 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
422976 AGTAGCTTAA
422986 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
423019 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
423052 A
1 A
423053 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:423536 original size:67 final size:67
Alignment explanation
Indices: 423452--423585 Score: 241
Period size: 67 Copynumber: 2.0 Consensus size: 67
423442 GCTTATCAGC
*
423452 CTTGGAGTGTGATAATAGAGAAAATGTGTTAGGATCTTGGTTTTGATATAACAAAGTATGAATAA
1 CTTGGAGTGTGATAATAGAGAAAATGTGTTAGGATCTTGGTTTTGATATAACAAAGTACGAATAA
423517 AA
66 AA
* *
423519 CTTGGAGTGTGATAATAGAGAAAATGTGTTAGGATCTTTGTTTTTATATAACAAAGTACGAATAA
1 CTTGGAGTGTGATAATAGAGAAAATGTGTTAGGATCTTGGTTTTGATATAACAAAGTACGAATAA
423584 AA
66 AA
423586 TCGAAAAAAG
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 64 1.00
ACGTcount: A:0.39, C:0.05, G:0.22, T:0.34
Consensus pattern (67 bp):
CTTGGAGTGTGATAATAGAGAAAATGTGTTAGGATCTTGGTTTTGATATAACAAAGTACGAATAA
AA
Found at i:425031 original size:51 final size:51
Alignment explanation
Indices: 424935--425043 Score: 141
Period size: 51 Copynumber: 2.1 Consensus size: 51
424925 ATTTAACTGG
* *
424935 ATGTATCATACATTGAAGAATGTATCGATACATTTTGGTCAAAAACCTAGA
1 ATGTATCATACAATGAAGAATGCATCGATACATTTTGGTCAAAAACCTAGA
* * *
424986 ATTTATCAATACAATGAAGAATGCATTGATATA-TTTGGATC-AAAACCTAGA
1 ATGTATC-ATACAATGAAGAATGCATCGATACATTTTGG-TCAAAAACCTAGA
425037 ATGTATC
1 ATGTATC
425044 GATATATTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
51 27 0.54
52 23 0.46
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (51 bp):
ATGTATCATACAATGAAGAATGCATCGATACATTTTGGTCAAAAACCTAGA
Found at i:429612 original size:3 final size:3
Alignment explanation
Indices: 429606--429630 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
429596 ATAAGAAATA
429606 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
429631 TGCACATAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:435640 original size:81 final size:82
Alignment explanation
Indices: 435555--435883 Score: 291
Period size: 80 Copynumber: 4.1 Consensus size: 82
435545 ATTAGGGTTA
* * * * *
435555 GAGTATCCCCTTGAAGATGGT-GGAGTTGGGGTATCCTCGA-GATGAAAAATTTGATATATTTTT
1 GAGTATCCCCTTGAAAATGATAGGA-TTGGAGTATCCCCGATGATGAAAAATTTGATATATTTTA
*
435618 GAAGTAAAAATAAGATTG
65 GAAGTAAAAATAGGATTG
** * * *
435636 GAGTATCCCCTAAAAAATAATAGGATTGGAGTATCCCCGATGGTGAAAAA-TTGATAT-TTTGAG
1 GAGTATCCCCTTGAAAATGATAGGATTGGAGTATCCCCGATGATGAAAAATTTGATATATTTTAG
* *
435699 AA-TAAAAACTGGGGTTG
66 AAGTAAAAA-TAGGATTG
* * * * *
435716 GAGTATCTCCTCGAAAATGATAGGTTTGGAGTATCCCCGATGATGAAAAATTT-A-ATACTTTGG
1 GAGTATCCCCTTGAAAATGATAGGATTGGAGTATCCCCGATGATGAAAAATTTGATATATTTTAG
*
435779 AAGTAAAAACAGGATTG
66 AAGTAAAAATAGGATTG
* * * * * * * * * *
435796 GAGTATCTCCTTAAAAACGATGGGGTTGGAATATCCCCAATGAGGAAAATTTTGATAT-TTTGA-
1 GAGTATCCCCTTGAAAATGATAGGATTGGAGTATCCCCGATGATGAAAAATTTGATATATTTTAG
*
435859 AAGTAAAAACGAGG-TTG
66 AAGTAAAAA-TAGGATTG
435876 GAGTATCC
1 GAGTATCC
435884 TATCAAAAAT
Statistics
Matches: 200, Mismatches: 39, Indels: 19
0.78 0.15 0.07
Matches are distributed among these distances:
79 8 0.04
80 129 0.64
81 50 0.25
82 13 0.06
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (82 bp):
GAGTATCCCCTTGAAAATGATAGGATTGGAGTATCCCCGATGATGAAAAATTTGATATATTTTAG
AAGTAAAAATAGGATTG
Found at i:435907 original size:160 final size:161
Alignment explanation
Indices: 435579--435912 Score: 392
Period size: 160 Copynumber: 2.1 Consensus size: 161
435569 AGATGGTGGA
* * * * *
435579 GTTGGGGTATCCTCGAGATGAAAAATTTGATATATTTTTGAAGTAAAAATAAGATTGGAGTATCC
1 GTTGGAGTATCCCCGAGATGAAAAATTTGATATACTTTGGAAGTAAAAACAAGATTGGAGTATCC
* * *
435644 CCTAAAAAATAATAGGATTGGAGTATCCCCGATGGTGAAAAATTGATATTTTGAGAATAAAAACT
66 CCTAAAAAACAATAGGATTGGAATATCCCCAATGGTGAAAAATTGATATTTTGAGAATAAAAACT
* * * *
435709 GGGGTTGGAGTATCTCCTCGAAAATGATAGG
131 GAGGTTGGAGTATCTCATCAAAAATGACAGG
* *
435740 TTTGGAGTATCCCCGATGATGAAAAATTT-A-ATACTTTGGAAGTAAAAACAGGATTGGAGTATC
1 GTTGGAGTATCCCCGA-GATGAAAAATTTGATATACTTTGGAAGTAAAAACAAGATTGGAGTATC
* * * * * *
435803 TCCTTAAAAACGATGGGGTTGGAATATCCCCAATGAG-GAAAATTTTGATATTTTGA-AAGTAAA
65 CCCTAAAAAACAATAGGATTGGAATATCCCCAATG-GTGAAAA-ATTGATATTTTGAGAA-TAAA
*
435866 AAC-GAGGTTGGAGTATC-CTATCAAAAATGGCAGG
127 AACTGAGGTTGGAGTATCTC-ATCAAAAATGACAGG
435900 GTTGGAGTATCCC
1 GTTGGAGTATCCC
435913 TTAAGAAGAA
Statistics
Matches: 146, Mismatches: 22, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
159 1 0.01
160 99 0.68
161 34 0.23
162 12 0.08
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (161 bp):
GTTGGAGTATCCCCGAGATGAAAAATTTGATATACTTTGGAAGTAAAAACAAGATTGGAGTATCC
CCTAAAAAACAATAGGATTGGAATATCCCCAATGGTGAAAAATTGATATTTTGAGAATAAAAACT
GAGGTTGGAGTATCTCATCAAAAATGACAGG
Found at i:435929 original size:80 final size:79
Alignment explanation
Indices: 435579--435963 Score: 253
Period size: 80 Copynumber: 4.8 Consensus size: 79
435569 AGATGGTGGA
* * * * * ** ** *
435579 GTTGGGGTATCCTCGAGATGAAAAATTTGATATATTTTTGAAGTAAAAATAAGATTGGAGTATCC
1 GTTGGAGTATCCCCAAGAAGAAAATTTTGATAT-TTTGAGAAGTAAAAACGAGGTTGGAGTAT-C
* * *
435644 CCTAAAAAATAATAGG
64 CTTCAAAAATGATAGG
* * ** * *
435660 ATTGGAGTATCCCCGATGGTGAAAA-ATTGATATTTTGAGAA-TAAAAACTGGGGTTGGAGTATC
1 GTTGGAGTATCCCC-AAGAAGAAAATTTTGATATTTTGAGAAGTAAAAAC-GAGGTTGGAGTATC
* *
435723 TCCTCGAAAATGATAGG
64 -CTTCAAAAATGATAGG
* * * * * *
435740 TTTGGAGTATCCCCGATGATGAAAAATTTAATACTTTG-GAAGTAAAAAC-AGGATTGGAGTATC
1 GTTGGAGTATCCCC-AAGAAGAAAATTTTGATATTTTGAGAAGTAAAAACGAGG-TTGGAGTA--
* *
435803 TCCTT-AAAAACGATGGG
62 TCCTTCAAAAATGATAGG
* *
435820 GTTGGAATATCCCCAATGAGGAAAATTTTGATATTTTGA-AAGTAAAAACGAGGTTGGAGTATCC
1 GTTGGAGTATCCCCAA-GAAGAAAATTTTGATATTTTGAGAAGTAAAAACGAGGTTGGAGTATCC
**
435884 TATCAAAAATGGCAGG
65 T-TCAAAAATGATAGG
* * * * * * *
435900 GTTGGAGTATCCCTTAAGAAGAAATTTTTGATGTTTT-AGGAGTAAAGACGGGGTTAGAGTATCC
1 GTTGGAGTATCCC-CAAGAAGAAAATTTTGATATTTTGAGAAGTAAAAACGAGGTTGGAGTATCC
435964 CCGAAGATGA
Statistics
Matches: 243, Mismatches: 46, Indels: 31
0.76 0.14 0.10
Matches are distributed among these distances:
78 4 0.02
79 12 0.05
80 177 0.73
81 41 0.17
82 9 0.04
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.30
Consensus pattern (79 bp):
GTTGGAGTATCCCCAAGAAGAAAATTTTGATATTTTGAGAAGTAAAAACGAGGTTGGAGTATCCT
TCAAAAATGATAGG
Found at i:436189 original size:81 final size:81
Alignment explanation
Indices: 436050--436235 Score: 223
Period size: 81 Copynumber: 2.3 Consensus size: 81
436040 TATCTCCTCA
* * * * * * *
436050 AAAATGATGGGGTTGGAGCATCCCTTGAAATGAATATTTCGATGTTTTGGAAAATAAAAACTGGG
1 AAAATGATGGGGTTGGAGTATCCCTAGAAATGAAAAATTCAATGTTTTAGAAAATAAAAACGGGG
*
436115 TTTGAATATCCCCTTAG
66 TTAGAATATCCCC-TAG
* *
436132 -AAATGATGGGGTTGGAGTATCCCTAGAGATGAAGAAATTCAATGTTTTAG-AAGTAAAAACGGG
1 AAAATGATGGGGTTGGAGTATCCCTAGAAATGAA-AAATTCAATGTTTTAGAAAATAAAAACGGG
*
436195 GTTAGAGTATCCCCTAG
65 GTTAGAATATCCCCTAG
**
436212 AAAATGATAAGGTTGGAGTATCCC
1 AAAATGATGGGGTTGGAGTATCCC
436236 CGATAGTGAA
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
80 3 0.03
81 74 0.83
82 12 0.13
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.28
Consensus pattern (81 bp):
AAAATGATGGGGTTGGAGTATCCCTAGAAATGAAAAATTCAATGTTTTAGAAAATAAAAACGGGG
TTAGAATATCCCCTAG
Found at i:438412 original size:13 final size:12
Alignment explanation
Indices: 438394--438432 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
438384 GAAAAATTCC
438394 TTTTTCTTTTTT
1 TTTTTCTTTTTT
*
438406 GTTTTTCTATTTT
1 -TTTTTCTTTTTT
*
438419 CTTTTCTTTTTT
1 TTTTTCTTTTTT
438431 TT
1 TT
438433 AAAGGATTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.03, C:0.10, G:0.03, T:0.85
Consensus pattern (12 bp):
TTTTTCTTTTTT
Found at i:441191 original size:33 final size:33
Alignment explanation
Indices: 441149--441246 Score: 126
Period size: 33 Copynumber: 3.0 Consensus size: 33
441139 TTAAGAAAAA
*
441149 TTAAGGAAAGTA-TCTATGCGGTATTAATAATTC
1 TTAAGGAAAGTATTC-ATACGGTATTAATAATTC
*** *
441182 TTAAGGAAAGTATTCATACAACATTAATAGTTC
1 TTAAGGAAAGTATTCATACGGTATTAATAATTC
*
441215 TTAAGGAATGTATTCATACGGTATTAATAATT
1 TTAAGGAAAGTATTCATACGGTATTAATAATT
441247 TTTTAAAAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
33 52 0.96
34 2 0.04
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.37
Consensus pattern (33 bp):
TTAAGGAAAGTATTCATACGGTATTAATAATTC
Found at i:446255 original size:21 final size:20
Alignment explanation
Indices: 446208--446261 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
446198 CATTTCAAGC
* *
446208 ATGTATCGATATATTCACTT
1 ATGTATCGATACATTAACTT
446228 ATGTATCGATACATTAACTT
1 ATGTATCGATACATTAACTT
*
446248 ATTGTATCAATACA
1 A-TGTATCGATACA
446262 AATTGTAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 19 0.63
21 11 0.37
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTAACTT
Found at i:446619 original size:2 final size:2
Alignment explanation
Indices: 446607--446640 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
446597 CTCAGCGAAA
*
446607 AT AT A- AT AT AT AT AT AT AT AT TT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
446641 AATAAGAGCC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.