Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 121 of 185
Found at i:37383112 original size:132 final size:132
Alignment explanation
Indices: 37382941--37383292 Score: 499
Period size: 132 Copynumber: 2.7 Consensus size: 132
37382931 AGATCTGAAA
* * *
37382941 CACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAAATCCTATCTCCTTAAG
1 CACCAGACTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCTTAAG
* * *
37383006 CAGTAGTGGAACAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAA
66 CAGTAGTGGAGCAGATCAAAGACGGCGAATCTTATCTTCCCAAGATAGTAGGGAAGCAGATTTAA
37383071 GC
131 GC
* *
37383073 CACCA-ACATTATCTCCCTGAGCAGTAGTGGAGTAAGTTGAAGATTGTAGATCCTGTCTCCTTAA
1 CACCAGAC-TTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCTTAA
* * *
37383137 GCAGTAGTGGAGCAGATCAAATACGGCGAATCTTATCTTTCCAAGATAGTAGGGAAGTAGATTTA
65 GCAGTAGTGGAGCAGATCAAAGACGGCGAATCTTATCTTCCCAAGATAGTAGGGAAGCAGATTTA
37383202 AGC
130 AGC
* * ** * * * *
37383205 CACCAGTCCTATCTCATTGAGCAGCAGTGGAGTAGGTTGAAGATTATAGATCATGTCCCCCTAAG
1 CACCAGACTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCTTAAG
* *
37383270 TAGTAGTAGAGCAGATCAAAGAC
66 CAGTAGTGGAGCAGATCAAAGAC
37383293 AAGTCTTATC
Statistics
Matches: 194, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
131 1 0.01
132 192 0.99
133 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.26
Consensus pattern (132 bp):
CACCAGACTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCTTAAG
CAGTAGTGGAGCAGATCAAAGACGGCGAATCTTATCTTCCCAAGATAGTAGGGAAGCAGATTTAA
GC
Found at i:37383397 original size:44 final size:44
Alignment explanation
Indices: 37383296--37383499 Score: 264
Period size: 44 Copynumber: 4.6 Consensus size: 44
37383286 CAAAGACAAG
* * ** * *
37383296 TCTTATCTCCCTGAAGTTTCAGTAGAACAGACTGACGATAACCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGAT-ACCAA
* *
37383341 CCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGAAGATACCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATACCAA
*
37383385 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGAAGATACCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATACCAA
* **
37383429 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTATTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATACCAA
* * *
37383473 TCCTATCTCCTTAAAGTTGCAGTGGAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAG
37383500 CGGATTAAAA
Statistics
Matches: 143, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
44 112 0.78
45 31 0.22
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATACCAA
Found at i:37383519 original size:44 final size:44
Alignment explanation
Indices: 37383344--37383522 Score: 202
Period size: 44 Copynumber: 4.1 Consensus size: 44
37383334 TAACCAACCT
* *
37383344 TATCTCCCTGAAGTTGCAGTGGAGTAGG-TTGAAGATACCAATCT
1 TATCTCCCTGAAGTTGCAGTGGAG-AGGATTGAAGATATCAATCC
* *
37383388 TATCTCCCTGAAGTTGCAGTGGAGTAGG-TTGAAGATACCAATCT
1 TATCTCCCTGAAGTTGCAGTGGAG-AGGATTGAAGATATCAATCC
* *
37383432 TATCTCCCTGAAGTTGCAGTGGAGTA-GATTGAAGCTATTAATCC
1 TATCTCCCTGAAGTTGCAGTGGAG-AGGATTGAAGATATCAATCC
* * * * * *
37383476 TATCTCCTTAAAGTTGCAGTGGAGCGGATTAAAAATATGAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGAGGATTGAAGATATCAATCC
37383520 TAT
1 TAT
37383523 ACCTCTGAAG
Statistics
Matches: 122, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
43 1 0.01
44 121 0.99
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGAGGATTGAAGATATCAATCC
Found at i:37383534 original size:88 final size:88
Alignment explanation
Indices: 37383336--37383522 Score: 225
Period size: 88 Copynumber: 2.1 Consensus size: 88
37383326 ACTGACGATA
* * *
37383336 ACCAA-CCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGAAGATACCAATCTTATCTCCCTGAA
1 ACCAATCC-TATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATACCAATCCTATCTCCCTAAA
* *
37383400 GTTGCAGTGGAGTAGGTTGAAGAT
65 GTTGCAGTGGAGTAGGTTAAAAAT
* * ** *
37383424 ACCAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTATTAATCCTATCTCCTTAAAG
1 ACCAATCCTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATACCAATCCTATCTCCCTAAAG
*
37383489 TTGCAGTGGAG-CGGATTAAAAAT
66 TTGCAGTGGAGTAGG-TTAAAAAT
**
37383512 ATGAATCCTAT
1 ACCAATCCTAT
37383523 ACCTCTGAAG
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
87 2 0.02
88 80 0.96
89 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (88 bp):
ACCAATCCTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATACCAATCCTATCTCCCTAAAG
TTGCAGTGGAGTAGGTTAAAAAT
Found at i:37385026 original size:13 final size:12
Alignment explanation
Indices: 37385008--37385052 Score: 56
Period size: 13 Copynumber: 3.7 Consensus size: 12
37384998 ATTATGATGA
37385008 TTATTATTATCAT
1 TTATTATTAT-AT
37385021 TTATTATTAT-T
1 TTATTATTATAT
*
37385032 ATATTATTATAT
1 TTATTATTATAT
37385044 TTACTTATT
1 TTA-TTATT
37385053 TAAATTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 10 0.36
12 3 0.11
13 15 0.54
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.64
Consensus pattern (12 bp):
TTATTATTATAT
Found at i:37385028 original size:16 final size:14
Alignment explanation
Indices: 37384996--37385041 Score: 58
Period size: 13 Copynumber: 3.3 Consensus size: 14
37384986 AAATTTGATG
*
37384996 TTATTATGATGATTA
1 TTATTATTAT-ATTA
*
37385011 TTATTATCAT-TTA
1 TTATTATTATATTA
37385024 TTATTATTATATTA
1 TTATTATTATATTA
37385038 TTAT
1 TTAT
37385042 ATTTACTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 12 0.43
14 7 0.25
15 9 0.32
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (14 bp):
TTATTATTATATTA
Found at i:37385044 original size:16 final size:17
Alignment explanation
Indices: 37385007--37385094 Score: 50
Period size: 16 Copynumber: 5.5 Consensus size: 17
37384997 TATTATGATG
37385007 ATTATTATTATCA-T-TT
1 ATTATTATTAT-ATTATT
37385023 ATTATTATTATATTATT
1 ATTATTATTATATTATT
*
37385040 A-TATTTACTTAT-TTA-A
1 ATTA-TTA-TTATATTATT
*
37385056 ATT-TTAAATATATT-TT
1 ATTATT-ATTATATTATT
*
37385072 GTT-TTATTATA-TATT
1 ATTATTATTATATTATT
37385087 ATTATTAT
1 ATTATTAT
37385095 GTAATTACTT
Statistics
Matches: 56, Mismatches: 6, Indels: 20
0.68 0.07 0.24
Matches are distributed among these distances:
14 1 0.02
15 15 0.27
16 26 0.46
17 10 0.18
18 4 0.07
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.62
Consensus pattern (17 bp):
ATTATTATTATATTATT
Found at i:37388353 original size:18 final size:18
Alignment explanation
Indices: 37388330--37388376 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
37388320 AAAAGATACA
37388330 TTTGTACTACAAATTTAT
1 TTTGTACTACAAATTTAT
37388348 TTTGTACTACAAATTTAT
1 TTTGTACTACAAATTTAT
* *
37388366 GTCGTACTACA
1 TTTGTACTACA
37388377 TTACCTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.32, C:0.15, G:0.09, T:0.45
Consensus pattern (18 bp):
TTTGTACTACAAATTTAT
Found at i:37394428 original size:21 final size:21
Alignment explanation
Indices: 37394402--37394446 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
37394392 CGTACAAAAT
37394402 CCATATCCTCGATTGAGCCGA
1 CCATATCCTCGATTGAGCCGA
*
37394423 CCATATCCTTGATTGAGCCGA
1 CCATATCCTCGATTGAGCCGA
37394444 CCA
1 CCA
37394447 GTCGAGTGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.24
Consensus pattern (21 bp):
CCATATCCTCGATTGAGCCGA
Found at i:37395285 original size:31 final size:31
Alignment explanation
Indices: 37395248--37395312 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
37395238 TATAAAATGA
*
37395248 TCATTGAGCTATTCAAAAGTTTTCATTTAAG
1 TCATTGAACTATTCAAAAGTTTTCATTTAAG
** *
37395279 TCATTGAACTATTGGAAAGTTTTTATTTAAG
1 TCATTGAACTATTCAAAAGTTTTCATTTAAG
37395310 TCA
1 TCA
37395313 CTGGACTGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (31 bp):
TCATTGAACTATTCAAAAGTTTTCATTTAAG
Found at i:37396061 original size:16 final size:16
Alignment explanation
Indices: 37396030--37396059 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
37396020 CATGTGCCTC
37396030 TTTTTTCAAATATTTA
1 TTTTTTCAAATATTTA
37396046 TTTTTT-AAATATTT
1 TTTTTTCAAATATTT
37396060 TACTATACCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTTTCAAATATTTA
Found at i:37396161 original size:77 final size:77
Alignment explanation
Indices: 37396068--37396225 Score: 282
Period size: 77 Copynumber: 2.1 Consensus size: 77
37396058 TTTACTATAC
37396068 CCCTATAAGACACTTGT-AACCCCCTAACCCTACTTGTAGAGCTTTTTAGACTCCATTAGTAGTG
1 CCCTATAAGACACTTGTCAACCCCCTAACCCTACTTGTAGAG-TTTTTAGACTCCATTAGTAGTG
37396132 TACCAAATATTTT
65 TACCAAATATTTT
* *
37396145 CCCTATAAGATACTTGTCAACCCCCTAACCCTACTTGTGGAGTTTTTAGACTCCATTAGTAGTGT
1 CCCTATAAGACACTTGTCAACCCCCTAACCCTACTTGTAGAGTTTTTAGACTCCATTAGTAGTGT
37396210 ACCAAATATTTT
66 ACCAAATATTTT
37396222 CCCT
1 CCCT
37396226 TGTATTATTA
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
77 55 0.71
78 23 0.29
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.34
Consensus pattern (77 bp):
CCCTATAAGACACTTGTCAACCCCCTAACCCTACTTGTAGAGTTTTTAGACTCCATTAGTAGTGT
ACCAAATATTTT
Found at i:37397883 original size:6 final size:6
Alignment explanation
Indices: 37397872--37397996 Score: 101
Period size: 6 Copynumber: 20.8 Consensus size: 6
37397862 AATTGGAGGT
*
37397872 GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GGTGCTA
1 GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GGTG-GA
* * * * * * * *
37397921 GG-GGT GGTGGA GGAGTA GGAGCA GGTGGG GGTGGA AGTGGA GGTGCA
1 GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA
* * * *
37397968 AGTGGT GGTGCTA GG-GGT GGTGGA GGTGG
1 GGTGGA GGTG-GA GGTGGA GGTGGA GGTGG
37397997 TGTTGGTGGT
Statistics
Matches: 92, Mismatches: 23, Indels: 8
0.75 0.19 0.07
Matches are distributed among these distances:
5 4 0.04
6 83 0.90
7 5 0.05
ACGTcount: A:0.16, C:0.03, G:0.62, T:0.18
Consensus pattern (6 bp):
GGTGGA
Found at i:37397904 original size:24 final size:24
Alignment explanation
Indices: 37397872--37397977 Score: 115
Period size: 24 Copynumber: 4.4 Consensus size: 24
37397862 AATTGGAGGT
*
37397872 GGTGGAGGTGGAGGTGGAGGTGGA
1 GGTGGAGGTGGAGGTGGAGGTGCA
37397896 GGTGGAGGTGGAGGTGGAGGTGCTA
1 GGTGGAGGTGGAGGTGGAGGTGC-A
* * * *
37397921 GG-GGTGGTGGAGGAGTAGGAGCA
1 GGTGGAGGTGGAGGTGGAGGTGCA
* *
37397944 GGTGGGGGTGGAAGTGGAGGTGCA
1 GGTGGAGGTGGAGGTGGAGGTGCA
* *
37397968 AGTGGTGGTG
1 GGTGGAGGTG
37397978 CTAGGGGTGG
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
23 3 0.04
24 62 0.91
25 3 0.04
ACGTcount: A:0.17, C:0.03, G:0.62, T:0.18
Consensus pattern (24 bp):
GGTGGAGGTGGAGGTGGAGGTGCA
Found at i:37397998 original size:12 final size:12
Alignment explanation
Indices: 37397872--37398028 Score: 88
Period size: 12 Copynumber: 13.1 Consensus size: 12
37397862 AATTGGAGGT
*
37397872 GGTGGAGGTGGA
1 GGTGGTGGTGGA
*
37397884 GGTGGAGGTGGA
1 GGTGGTGGTGGA
*
37397896 GGTGGAGGTGGA
1 GGTGGTGGTGGA
* *
37397908 GGTGGAGGTGCTA
1 GGTGGTGGTG-GA
37397921 GG-GGTGGTGGA
1 GGTGGTGGTGGA
* * *
37397932 GG-AGTAGGAGCA
1 GGTGGT-GGTGGA
*
37397944 GGTGGGGGTGGA
1 GGTGGTGGTGGA
* * *
37397956 AGTGGAGGTGCA
1 GGTGGTGGTGGA
* *
37397968 AGTGGTGGTGCTA
1 GGTGGTGGTG-GA
37397981 GG-GGTGGTGGA
1 GGTGGTGGTGGA
* *
37397992 GGTGGTGTTGGT
1 GGTGGTGGTGGA
37398004 GGTGGT-GTAGGA
1 GGTGGTGGT-GGA
* *
37398016 GGAGGTGCTGGA
1 GGTGGTGGTGGA
37398028 G
1 G
37398029 TGGGAGTAGG
Statistics
Matches: 115, Mismatches: 23, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
11 9 0.08
12 99 0.86
13 7 0.06
ACGTcount: A:0.15, C:0.03, G:0.61, T:0.20
Consensus pattern (12 bp):
GGTGGTGGTGGA
Found at i:37399285 original size:6 final size:6
Alignment explanation
Indices: 37399274--37399333 Score: 75
Period size: 6 Copynumber: 10.0 Consensus size: 6
37399264 CTGCGGGAGG
* * * *
37399274 TGGTGC TGGTGC TGGTGC TGGTGC TGGTGC CGGAGG TGGTGT TGGTGC
1 TGGTGC TGGTGC TGGTGC TGGTGC TGGTGC TGGTGC TGGTGC TGGTGC
*
37399322 AGGTGC TGGTGC
1 TGGTGC TGGTGC
37399334 CGGAGGTGGT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.03, C:0.15, G:0.52, T:0.30
Consensus pattern (6 bp):
TGGTGC
Found at i:37399320 original size:30 final size:30
Alignment explanation
Indices: 37399280--37399345 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
37399270 GAGGTGGTGC
*
37399280 TGGTGCTGGTGCTGGTGCTGGTGCCGGAGG
1 TGGTGCTGGTGCAGGTGCTGGTGCCGGAGG
*
37399310 TGGTGTTGGTGCAGGTGCTGGTGCCGGAGG
1 TGGTGCTGGTGCAGGTGCTGGTGCCGGAGG
37399340 TGGTGC
1 TGGTGC
37399346 CAGTGTTAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.05, C:0.15, G:0.53, T:0.27
Consensus pattern (30 bp):
TGGTGCTGGTGCAGGTGCTGGTGCCGGAGG
Found at i:37399352 original size:36 final size:34
Alignment explanation
Indices: 37399272--37399380 Score: 71
Period size: 36 Copynumber: 3.1 Consensus size: 34
37399262 AGCTGCGGGA
* * * *
37399272 GGTG-GTGCTGGTGCTGGTGCTGGTGCTGGTGCCGGA
1 GGTGCGTGTTGGTGCTGGTGCTGGTGC-CG-G-AGGT
*
37399308 GGTG-GTGTTGGTGCAGGTGCTGGTGCCGGAGGT
1 GGTGCGTGTTGGTGCTGGTGCTGGTGCCGGAGGT
* **
37399341 GGTGCCAGTGTTAGTGCTGGTG-TAGGTGTTGGAGGT
1 GGTG-C-GTGTTGGTGCTGGTGCT-GGTGCCGGAGGT
37399377 GGTG
1 GGTG
37399381 GTAATGTAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
33 6 0.10
34 1 0.02
35 2 0.03
36 51 0.85
ACGTcount: A:0.06, C:0.12, G:0.52, T:0.29
Consensus pattern (34 bp):
GGTGCGTGTTGGTGCTGGTGCTGGTGCCGGAGGT
Found at i:37403069 original size:27 final size:27
Alignment explanation
Indices: 37403031--37403083 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
37403021 AAAATTATAT
*
37403031 AAAATCTAAAAGTATATTA-AAAAATTA
1 AAAATCTAAAAG-AAATTATAAAAATTA
37403058 AAAATC-ATAAAGAAATTATAAAAATT
1 AAAATCTA-AAAGAAATTATAAAAATT
37403084 TAGGTGATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (27 bp):
AAAATCTAAAAGAAATTATAAAAATTA
Found at i:37405042 original size:20 final size:20
Alignment explanation
Indices: 37405004--37405043 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
37404994 ATGACAGGAT
*
37405004 TTGTCCCATCATAGGCATTC
1 TTGTCCCATCATAGACATTC
37405024 TTGTCCCATCGA-AGACATTC
1 TTGTCCCATC-ATAGACATTC
37405044 ACCCTACGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.33
Consensus pattern (20 bp):
TTGTCCCATCATAGACATTC
Found at i:37409224 original size:37 final size:37
Alignment explanation
Indices: 37409183--37409306 Score: 131
Period size: 37 Copynumber: 3.3 Consensus size: 37
37409173 TTAGTGCCCT
* * *
37409183 GGTGTGTTTTGGATGGTATAGTTCATTCGAGCCATTA
1 GGTGTGTTTTGGATAGTATAGCTCATTCGAGCCATCA
* * *
37409220 GGTGTGTTTTGGTTAATATAGCTCGTTCGAGCCATCA
1 GGTGTGTTTTGGATAGTATAGCTCATTCGAGCCATCA
* * * **
37409257 GGTGTGTTCTGGATAGTATATAGCTCGTTTGAGCGTTCA
1 GGTGTGTTTTGGATAG--TATAGCTCATTCGAGCCATCA
37409296 GGTGTGTTTTG
1 GGTGTGTTTTG
37409307 AGTGGTTACC
Statistics
Matches: 72, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
37 44 0.61
39 28 0.39
ACGTcount: A:0.17, C:0.12, G:0.31, T:0.40
Consensus pattern (37 bp):
GGTGTGTTTTGGATAGTATAGCTCATTCGAGCCATCA
Found at i:37409991 original size:20 final size:20
Alignment explanation
Indices: 37409968--37410024 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
37409958 TTTTAAATTT
37409968 TAAAATTTATTATAAAATCA
1 TAAAATTTATTATAAAATCA
* * *
37409988 TAAAATTTATAAAAAAATTA
1 TAAAATTTATTATAAAATCA
*
37410008 T-AAATTTTTTATTAAAA
1 TAAAATTTATTA-TAAAA
37410025 AATAACAATA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
19 8 0.27
20 22 0.73
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (20 bp):
TAAAATTTATTATAAAATCA
Found at i:37410148 original size:11 final size:10
Alignment explanation
Indices: 37410128--37410179 Score: 54
Period size: 11 Copynumber: 5.2 Consensus size: 10
37410118 ATAAAAGAAA
37410128 TTTT-AAATT
1 TTTTAAAATT
37410137 TTTATAAAATT
1 TTT-TAAAATT
*
37410148 TTCTTATAATT
1 TT-TTAAAATT
*
37410159 TTTTAATA-T
1 TTTTAAAATT
37410168 TTTTAAAATT
1 TTTTAAAATT
37410178 TT
1 TT
37410180 AAAAGAGTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
9 11 0.31
10 8 0.23
11 15 0.43
12 1 0.03
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (10 bp):
TTTTAAAATT
Found at i:37411849 original size:21 final size:22
Alignment explanation
Indices: 37411820--37411875 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
37411810 CCAGTTTTTG
* *
37411820 GGCCTACATGGCCATCC-GTGT
1 GGCCCACATGGCCAGCCTGTGT
37411841 GGCCCACATGGCCAGCCTGTGT
1 GGCCCACATGGCCAGCCTGTGT
*
37411863 GGCCCACACGGCC
1 GGCCCACATGGCC
37411876 TAATTGGCCA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
21 15 0.48
22 16 0.52
ACGTcount: A:0.14, C:0.39, G:0.30, T:0.16
Consensus pattern (22 bp):
GGCCCACATGGCCAGCCTGTGT
Found at i:37414268 original size:35 final size:35
Alignment explanation
Indices: 37414196--37414319 Score: 169
Period size: 35 Copynumber: 3.5 Consensus size: 35
37414186 AGTACATCAA
* * *
37414196 TAATCCAACCAAAACACACCAGATGCTCATAAGAGC
1 TAATCCATCCGAAACACACTA-ATGCTCATAAGAGC
* *
37414232 TAATCCATCCGGAACACACTAATGTTCATAAGAGC
1 TAATCCATCCGAAACACACTAATGCTCATAAGAGC
*
37414267 TAATCCATCCAAAACACACTAATGCTCATAAGAGC
1 TAATCCATCCGAAACACACTAATGCTCATAAGAGC
*
37414302 T-ATCCATCTGAAACACAC
1 TAATCCATCCGAAACACAC
37414320 CAAAACAGAA
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
34 15 0.19
35 46 0.59
36 17 0.22
ACGTcount: A:0.41, C:0.29, G:0.10, T:0.19
Consensus pattern (35 bp):
TAATCCATCCGAAACACACTAATGCTCATAAGAGC
Found at i:37415246 original size:6 final size:6
Alignment explanation
Indices: 37415232--37415273 Score: 75
Period size: 6 Copynumber: 7.0 Consensus size: 6
37415222 AACAAAATAG
*
37415232 GTTTCT GTTTTT GTTTTT GTTTTT GTTTTT GTTTTT GTTTTT
1 GTTTTT GTTTTT GTTTTT GTTTTT GTTTTT GTTTTT GTTTTT
37415274 ATTAATTTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.00, C:0.02, G:0.17, T:0.81
Consensus pattern (6 bp):
GTTTTT
Found at i:37415946 original size:25 final size:23
Alignment explanation
Indices: 37415905--37416002 Score: 116
Period size: 23 Copynumber: 4.5 Consensus size: 23
37415895 GCCCATATTA
* *
37415905 AATATATATATTT-AAT-ATAAT
1 AATATATATATTTGATTAAAAAT
* *
37415926 -ATATATACATTTGATTAAATAT
1 AATATATATATTTGATTAAAAAT
37415948 -A-ATATATATTTGATTAAAAAT
1 AATATATATATTTGATTAAAAAT
37415969 AATATATATATTTGATTAAAAAT
1 AATATATATATTTGATTAAAAAT
*
37415992 AAAATATATAT
1 AATATATATAT
37416003 ATTTAATATA
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
20 11 0.17
21 20 0.30
22 5 0.08
23 30 0.45
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.44
Consensus pattern (23 bp):
AATATATATATTTGATTAAAAAT
Found at i:37415947 original size:18 final size:18
Alignment explanation
Indices: 37415901--37415948 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 18
37415891 CCTAGCCCAT
*
37415901 ATTAAATATATATATTTA
1 ATTAAATATATACATTTA
*
37415919 ATATAATATATATACATTTG
1 AT-TAA-ATATATACATTTA
37415939 ATTAAATATA
1 ATTAAATATA
37415949 ATATATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 7 0.27
19 6 0.23
20 13 0.50
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (18 bp):
ATTAAATATATACATTTA
Found at i:37415958 original size:21 final size:21
Alignment explanation
Indices: 37415923--37416000 Score: 102
Period size: 21 Copynumber: 3.6 Consensus size: 21
37415913 TATTTAATAT
*
37415923 AATATATATACATTTGATTAAA
1 AATA-ATATATATTTGATTAAA
*
37415945 TATAATATATATTTGATTAAA
1 AATAATATATATTTGATTAAA
37415966 AATAATATATATATTTGATTAAA
1 AAT-A-ATATATATTTGATTAAA
*
37415989 AATAAAATATAT
1 AATAATATATAT
37416001 ATATTTAATA
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
21 25 0.50
22 5 0.10
23 20 0.40
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.42
Consensus pattern (21 bp):
AATAATATATATTTGATTAAA
Found at i:37416547 original size:20 final size:21
Alignment explanation
Indices: 37416514--37416557 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
37416504 AATAATTTTT
37416514 TAAAGCCACCCATATCCCCAC
1 TAAAGCCACCCATATCCCCAC
*
37416535 TAAA-CCACTCATATCCCCAC
1 TAAAGCCACCCATATCCCCAC
37416555 TAA
1 TAA
37416558 CTCCCACTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.36, C:0.43, G:0.02, T:0.18
Consensus pattern (21 bp):
TAAAGCCACCCATATCCCCAC
Found at i:37417237 original size:21 final size:21
Alignment explanation
Indices: 37417208--37417253 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
37417198 CAACCCAAAC
37417208 TAAACTAAACCAAATAAATAAA
1 TAAACTAAACCAAA-AAATAAA
* *
37417230 TAAA-TAAACCAGAAAATTAA
1 TAAACTAAACCAAAAAATAAA
37417250 TAAA
1 TAAA
37417254 AGTCCAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 10 0.45
21 8 0.36
22 4 0.18
ACGTcount: A:0.67, C:0.11, G:0.02, T:0.20
Consensus pattern (21 bp):
TAAACTAAACCAAAAAATAAA
Found at i:37419665 original size:38 final size:38
Alignment explanation
Indices: 37419623--37419752 Score: 140
Period size: 38 Copynumber: 3.3 Consensus size: 38
37419613 ATTTTAAAAA
37419623 TTAAAATTAAAATTAAAAAAAAGTATTTTAAAAATATT
1 TTAAAATTAAAATTAAAAAAAAGTATTTTAAAAATATT
*
37419661 TTAAAATTAAAA--AATTAAAAAAGTATTTTTAAAAAAATT
1 TTAAAATTAAAATTAA--AAAAAAGTA-TTTTAAAAATATT
* *
37419700 TAAAAAAAAATTAAAATTAAAAAAAA-TATTTTAAAAGTATT
1 T----TAAAATTAAAATTAAAAAAAAGTATTTTAAAAATATT
*
37419741 TTAAAATAAAAA
1 TTAAAATTAAAA
37419753 AATATTTATT
Statistics
Matches: 77, Mismatches: 6, Indels: 19
0.75 0.06 0.19
Matches are distributed among these distances:
36 2 0.03
37 9 0.12
38 21 0.27
39 13 0.17
41 12 0.16
42 2 0.03
43 16 0.21
45 2 0.03
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (38 bp):
TTAAAATTAAAATTAAAAAAAAGTATTTTAAAAATATT
Found at i:37420738 original size:57 final size:56
Alignment explanation
Indices: 37420647--37420757 Score: 168
Period size: 57 Copynumber: 2.0 Consensus size: 56
37420637 GATTATCCAA
* * * * *
37420647 AGGCAAAGTTGAGGAATTAATCCACCGACGTATAGATTTTTGGAGGACCAATTTTAG
1 AGGCAAAATTCAGCAATTAATCCACCGACATATAGA-TTTCGGAGGACCAATTTTAG
37420704 AGGCAAAATTCAGCAATTAATCCACCGACATATAGATTTCGGAGGACCAATTTT
1 AGGCAAAATTCAGCAATTAATCCACCGACATATAGATTTCGGAGGACCAATTTT
37420758 GAATTTATAC
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
56 17 0.35
57 32 0.65
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (56 bp):
AGGCAAAATTCAGCAATTAATCCACCGACATATAGATTTCGGAGGACCAATTTTAG
Found at i:37422709 original size:24 final size:25
Alignment explanation
Indices: 37422654--37422718 Score: 60
Period size: 24 Copynumber: 2.6 Consensus size: 25
37422644 TAATTTTCAA
*
37422654 AAATAAAAAATAAAACAGAAATATT
1 AAATAAAAAATAAAACAGAAATAAT
*** *
37422679 TTTTAAAAAA-AAAATAGAAATAAT
1 AAATAAAAAATAAAACAGAAATAAT
*
37422703 AAATAAATAATCAAAA
1 AAATAAAAAAT-AAAA
37422719 AGTCTCTGTC
Statistics
Matches: 29, Mismatches: 9, Indels: 3
0.71 0.22 0.07
Matches are distributed among these distances:
24 18 0.62
25 7 0.24
26 4 0.14
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (25 bp):
AAATAAAAAATAAAACAGAAATAAT
Found at i:37424944 original size:7 final size:7
Alignment explanation
Indices: 37424932--37424959 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
37424922 TATTTTAAAC
37424932 CTTTCAA
1 CTTTCAA
37424939 CTTTCAA
1 CTTTCAA
37424946 CTTTCAA
1 CTTTCAA
37424953 CTTTCAA
1 CTTTCAA
37424960 GCAACCATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (7 bp):
CTTTCAA
Found at i:37426878 original size:5 final size:5
Alignment explanation
Indices: 37426868--37426898 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
37426858 CACCATACAT
37426868 TAACA TAACA TAACA TAACA TAACA TAACA T
1 TAACA TAACA TAACA TAACA TAACA TAACA T
37426899 CCATACATCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.58, C:0.19, G:0.00, T:0.23
Consensus pattern (5 bp):
TAACA
Found at i:37432692 original size:9 final size:8
Alignment explanation
Indices: 37432678--37432721 Score: 54
Period size: 9 Copynumber: 5.4 Consensus size: 8
37432668 ATATTTGGAT
37432678 TATAAAATA
1 TATAAAA-A
37432687 TATAAAAA
1 TATAAAAA
37432695 CTATAAAAA
1 -TATAAAAA
37432704 TAT-AAAA
1 TATAAAAA
*
37432711 TATAAATA
1 TATAAAAA
37432719 TAT
1 TAT
37432722 GTACGTGTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
7 7 0.22
8 10 0.31
9 15 0.47
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (8 bp):
TATAAAAA
Found at i:37432894 original size:13 final size:13
Alignment explanation
Indices: 37432869--37432927 Score: 52
Period size: 12 Copynumber: 4.6 Consensus size: 13
37432859 CCTATAGGTG
37432869 TAATAATAATATA
1 TAATAATAATATA
37432882 TAAT-ATAAT-TA
1 TAATAATAATATA
*
37432893 TAATTATAATA-A
1 TAATAATAATATA
*
37432905 CAATAATTAATAATA
1 TAATAA-TAAT-ATA
*
37432920 CAATAATA
1 TAATAATA
37432928 GTGAAAAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
11 6 0.15
12 15 0.38
13 8 0.21
14 3 0.08
15 7 0.18
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.37
Consensus pattern (13 bp):
TAATAATAATATA
Found at i:37432904 original size:15 final size:16
Alignment explanation
Indices: 37432892--37432926 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
37432882 TAATATAATT
37432892 ATAATT-ATAATAACA
1 ATAATTAATAATAACA
37432907 ATAATTAATAAT-ACA
1 ATAATTAATAATAACA
37432922 ATAAT
1 ATAAT
37432927 AGTGAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (16 bp):
ATAATTAATAATAACA
Found at i:37432927 original size:3 final size:3
Alignment explanation
Indices: 37432869--37432919 Score: 50
Period size: 3 Copynumber: 16.7 Consensus size: 3
37432859 CCTATAGGTG
* * *
37432869 TAA TAA TAA TATA TAA T-A TAA TTA TAA TTA TAA TAA CAA TAA TTAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
37432915 TAA TA
1 TAA TA
37432920 CAATAATAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
2 2 0.05
3 31 0.79
4 6 0.15
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:37434366 original size:44 final size:43
Alignment explanation
Indices: 37434311--37434763 Score: 243
Period size: 44 Copynumber: 10.7 Consensus size: 43
37434301 ATGTAAATCC
* *
37434311 GCTCCATTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGATTTCTTC-GTCT
* * *
37434355 GCTCCACTGCAACTTCAAGGAGATAAGACTGGA----TGCGATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGA-TTGATTTCTTCG-TCT
* * ** ***
37434396 GCT-CTCTGCAACCTCAGAAAGATAAGATCTGGATGTAAATC--C-
1 GCTCCACTGCAACTTCAGGGAGATAAGAT-T-GAT-TTCTTCGTCT
* *
37434438 GCTCCATTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGATTTCTTC-GTCT
* *
37434482 GCTCCACTGCAACTTCAGGGAGATAAGACTGGA----TGCGATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGA-TTGATTTCTTCG-TCT
* * * ** **
37434523 GCT-CTCTACAACCTCAGAAAGATAAGATCTGGATGTTAATC--C-
1 GCTCCACTGCAACTTCAGGGAGATAAGAT-T-GAT-TTCTTCGTCT
* *
37434565 GCTCCACTGCAACTTTAGGGAGATAGGATTGATTTCTTCTGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGATTTCTTC-GTCT
* *
37434609 GCTCCACTGCAACTTCAGGGAGATAAGACTGGA----TGCGATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGA-TTGATTTCTTCG-TCT
* * * ** **
37434650 GCT-CTCTACAACCTCAGAAAGATAAGATCTGGATGTTAATC--C-
1 GCTCCACTGCAACTTCAGGGAGATAAGAT-T-GAT-TTCTTCGTCT
*
37434692 GCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGATTTCTTC-GTCT
*
37434736 GCTTCACTGCAACTTCAGGGAGATAAGA
1 GCTCCACTGCAACTTCAGGGAGATAAGA
37434764 CTGAAGTTTC
Statistics
Matches: 302, Mismatches: 65, Indels: 84
0.67 0.14 0.19
Matches are distributed among these distances:
39 3 0.01
40 71 0.24
41 39 0.13
42 12 0.04
43 62 0.21
44 103 0.34
45 9 0.03
46 3 0.01
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (43 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATTGATTTCTTCGTCT
Found at i:37434450 original size:127 final size:127
Alignment explanation
Indices: 37434224--37434766 Score: 1005
Period size: 127 Copynumber: 4.3 Consensus size: 127
37434214 GCTATTTTTA
*
37434224 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTCTGCAACCTCAGAAA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTCTACAACCTCAGAAA
*
37434289 GATAAGATCTGGATGTAAATCCGCTCCATTGCAACTTCAGGGAGATAGGATTGATTTCTTCT
66 GATAAGATCTGGATGTAAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCT
* *
37434351 GTCTGCTCCACTGCAACTTCAAGGAGATAAGACTGGATGCGATCTGCTCTCTGCAACCTCAGAAA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTCTACAACCTCAGAAA
*
37434416 GATAAGATCTGGATGTAAATCCGCTCCATTGCAACTTCAGGGAGATAGGATTGATTTCTTCT
66 GATAAGATCTGGATGTAAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCT
37434478 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTCTACAACCTCAGAAA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTCTACAACCTCAGAAA
* *
37434543 GATAAGATCTGGATGTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTGATTTCTTCT
66 GATAAGATCTGGATGTAAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCT
37434605 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTCTACAACCTCAGAAA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTCTACAACCTCAGAAA
*
37434670 GATAAGATCTGGATGTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCT
66 GATAAGATCTGGATGTAAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCT
*
37434732 GTCTGCTTCACTGCAACTTCAGGGAGATAAGACTG
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTG
37434767 AAGTTTCACC
Statistics
Matches: 408, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
127 408 1.00
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (127 bp):
GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTCTACAACCTCAGAAA
GATAAGATCTGGATGTAAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCT
Found at i:37434453 original size:83 final size:84
Alignment explanation
Indices: 37434355--37434716 Score: 285
Period size: 83 Copynumber: 4.3 Consensus size: 84
37434345 TCTTCTGTCT
* *
37434355 GCTCCACTGCAACTTCAAGGAGATAAGACTGGATGCGATCTGCT-CTCTGCAACCTCAGAAAGAT
1 GCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCCACTGCAACCTCAGAAAGAT
*
37434419 AAGATCTGGATGTAAATCC
66 AAGATCTGGATGTTAATCC
* * * * * *
37434438 GCTCCATTGCAACTTCAGGGAGATAGGA-TTGATTTCTTCTG-TCTGCTCCACTGCAACTTCAGG
1 GCTCCACTGCAACTTCAGGGAGATAAGACTGGA----TGC-GATCTGCTCCACTGCAACCTCAGA
* ** *
37434501 GAGATAAGA-CTGGATG-CGATCT
61 AAGATAAGATCTGGATGTTAATCC
* * * ** ** * * * **
37434523 GCT-CTCTACAACCTCAGAAAGATAAGATCTGGATGTTAATCCGCTCCACTGCAACTTTAGGGAG
1 GCTCCACTGCAACTTCAGGGAGATAAGA-CTGGATG-CGATCTGCTCCACTGCAACCTCAGAAAG
* **
37434587 ATAGGAT-T-GAT-TTCTTCTGTC
64 ATAAGATCTGGATGTTAATC---C
* *
37434608 TGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCT-CTCTACAACCTCAGAAAGA
1 -GCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCCACTGCAACCTCAGAAAGA
37434672 TAAGATCTGGATGTTAATCC
65 TAAGATCTGGATGTTAATCC
37434692 GCTCCACTGCAACTTCAGGGAGATA
1 GCTCCACTGCAACTTCAGGGAGATA
37434717 GGATTGATTT
Statistics
Matches: 212, Mismatches: 47, Indels: 40
0.71 0.16 0.13
Matches are distributed among these distances:
82 9 0.04
83 79 0.37
84 36 0.17
85 13 0.06
86 31 0.15
87 44 0.21
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (84 bp):
GCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCCACTGCAACCTCAGAAAGAT
AAGATCTGGATGTTAATCC
Found at i:37446609 original size:13 final size:13
Alignment explanation
Indices: 37446584--37446642 Score: 52
Period size: 12 Copynumber: 4.6 Consensus size: 13
37446574 CCTATAGGTG
37446584 TAATAATAATATA
1 TAATAATAATATA
37446597 TAAT-ATAAT-TA
1 TAATAATAATATA
*
37446608 TAATTATAATA-A
1 TAATAATAATATA
*
37446620 CAATAATTAATAATA
1 TAATAA-TAAT-ATA
*
37446635 CAATAATA
1 TAATAATA
37446643 GTGAAAAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
11 6 0.15
12 15 0.38
13 8 0.21
14 3 0.08
15 7 0.18
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.37
Consensus pattern (13 bp):
TAATAATAATATA
Found at i:37446619 original size:15 final size:16
Alignment explanation
Indices: 37446607--37446641 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
37446597 TAATATAATT
37446607 ATAATT-ATAATAACA
1 ATAATTAATAATAACA
37446622 ATAATTAATAAT-ACA
1 ATAATTAATAATAACA
37446637 ATAAT
1 ATAAT
37446642 AGTGAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (16 bp):
ATAATTAATAATAACA
Found at i:37446642 original size:3 final size:3
Alignment explanation
Indices: 37446584--37446634 Score: 50
Period size: 3 Copynumber: 16.7 Consensus size: 3
37446574 CCTATAGGTG
* * *
37446584 TAA TAA TAA TATA TAA T-A TAA TTA TAA TTA TAA TAA CAA TAA TTAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
37446630 TAA TA
1 TAA TA
37446635 CAATAATAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
2 2 0.05
3 31 0.79
4 6 0.15
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:37456380 original size:19 final size:19
Alignment explanation
Indices: 37456356--37456393 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
37456346 ACAATGCCTA
37456356 GAACTGCACATAGTCTTTC
1 GAACTGCACATAGTCTTTC
37456375 GAACTGCACATAGTCTTTC
1 GAACTGCACATAGTCTTTC
37456394 TCCAACCCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (19 bp):
GAACTGCACATAGTCTTTC
Found at i:37463491 original size:19 final size:20
Alignment explanation
Indices: 37463450--37463493 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
37463440 TCACTTTCAG
*
37463450 ATTTTTTAAAAAATTTTATA
1 ATTTTTTAAAAAATTATATA
*
37463470 ATTTTTTTAAAAATTATA-A
1 ATTTTTTAAAAAATTATATA
37463489 ATTTT
1 ATTTT
37463494 AGAATTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTTTTTAAAAAATTATATA
Found at i:37464530 original size:14 final size:14
Alignment explanation
Indices: 37464510--37464543 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
37464500 CATTTGGACT
37464510 CCACTTATTAACTG
1 CCACTTATTAACTG
*
37464524 TCACTTATTAACTG
1 CCACTTATTAACTG
37464538 CCACTT
1 CCACTT
37464544 GCCCCAAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.26, C:0.29, G:0.06, T:0.38
Consensus pattern (14 bp):
CCACTTATTAACTG
Found at i:37466229 original size:24 final size:23
Alignment explanation
Indices: 37466181--37466229 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
37466171 TCTGAGTTCT
*
37466181 TTATTACATATACAAAAATCGAA
1 TTATTACATATACAAAAATCAAA
*
37466204 TTATTACA-ATCCATAAAATTCAAA
1 TTATTACATATACA-AAAA-TCAAA
37466228 TT
1 TT
37466230 TAGATGTTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 4 0.18
23 12 0.55
24 6 0.27
ACGTcount: A:0.49, C:0.14, G:0.02, T:0.35
Consensus pattern (23 bp):
TTATTACATATACAAAAATCAAA
Found at i:37472127 original size:106 final size:108
Alignment explanation
Indices: 37471992--37472191 Score: 289
Period size: 109 Copynumber: 1.9 Consensus size: 108
37471982 ATTAAAATTC
*
37471992 AAGAGGATATTTGGTAATTTGGTTAAACGAG-AAATCGAAACCCAGCACCTTAGGGCACG-TTCC
1 AAGAGGATATTTGCTAATTTGGTTAAACGAGAAAATCGAAACCCAGCACCTTAGGGCACGTTTCC
*
37472055 TCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAATTTTT
66 TCAAATTTCCAAACGCAAAACATTGCCTTATTTTAAAATTTTT
* * *
37472098 AAGAGGATATTTAGCT-ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTT
1 AAGAGGATATTT-GCTAATTTGGTTAAACGAG-AAAATCGAAACCCAGCACCTTAGGGCACGTTT
* * *
37472162 TCTCAAATTTCCAAACGCTAAATATTGCCT
64 CCTCAAATTTCCAAACGCAAAACATTGCCT
37472192 CAATTAGAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
106 26 0.32
107 2 0.02
108 26 0.32
109 28 0.34
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (108 bp):
AAGAGGATATTTGCTAATTTGGTTAAACGAGAAAATCGAAACCCAGCACCTTAGGGCACGTTTCC
TCAAATTTCCAAACGCAAAACATTGCCTTATTTTAAAATTTTT
Found at i:37472749 original size:21 final size:21
Alignment explanation
Indices: 37472706--37472751 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
37472696 ATGATAATAA
*
37472706 TAATAATAATAATATTATTAT
1 TAATAATAATAATATAATTAT
*
37472727 TAATAATATTAAT-TAATTAAT
1 TAATAATAATAATATAATT-AT
37472748 TAAT
1 TAAT
37472752 TAAATTGCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TAATAATAATAATATAATTAT
Found at i:37473340 original size:10 final size:9
Alignment explanation
Indices: 37473325--37473349 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
37473315 ATGCGAAATT
37473325 AAAAAAAAG
1 AAAAAAAAG
37473334 AAAAAAAAG
1 AAAAAAAAG
37473343 AAAAAAA
1 AAAAAAA
37473350 CCTTAGAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:37474200 original size:44 final size:44
Alignment explanation
Indices: 37474136--37474641 Score: 255
Period size: 44 Copynumber: 11.6 Consensus size: 44
37474126 CCCTTAATCC
* * *
37474136 GCTCCACTGTAATCTTAGGGAGATAGGATTACTATCTTTGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTACTATCTTCGATCT
* * * *
37474180 GCTCCGCTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCGGTCT
1 GCTCCACTGTAATCTCAGGGAGATAAGAT-TACTA-TCTTCGATCT
* * * *
37474226 GTTCCACTGTAATCTCAGGGAGGTAAGA--CCTGA--TACGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTACT-ATCTTCGATCT
* * * ** *
37474267 ACTCTACTGTAA-CTTCAGAGAGATAAGA-T-C---CTTTAATCC
1 GCTCCACTGTAATC-TCAGGGAGATAAGATTACTATCTTCGATCT
* * * *
37474306 GCTCCGCTGTAA-CTTCAGGGAGATAGGA-TAGTGTCTTCGATCT
1 GCTCCACTGTAATC-TCAGGGAGATAAGATTACTATCTTCGATCT
* ** *
37474349 GCTCCGCTGTAATCTCAGGGAGATAAGATCT-CTGGCTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGAT-TACTATCTTCGATCT
* * * *
37474393 GCTCTACTGTAACCTCAGGGAGATAAGATCTGA-AATTCTTCGGTCT
1 GCTCCACTGTAATCTCAGGGAGATAAGAT-T-ACTA-TCTTCGATCT
* * *
37474439 ACTCCACTGTAATCTCAGGGAGATAAGA--CCTGA--TGCGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTACT-ATCTTCGATCT
** * * ** *
37474480 GCTCTGCTGTAA-CTTCAGAGAGATAAGATCCT-TTAT-TTTAATCC
1 GCTCCACTGTAATC-TCAGGGAGATAAGAT--TACTATCTTCGATCT
** ** * * *
37474524 GCTCCACTGTAATCTCATAGAGATCGGATTACTAGCTTCAATTT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTACTATCTTCGATCT
* * * *
37474568 GCTCCGCTGTAATCCCAGGGAGATAAGATCTGA-AATTCTTCGGTCT
1 GCTCCACTGTAATCTCAGGGAGATAAGAT-T-ACTA-TCTTCGATCT
*
37474614 GCCCCACTGTAATCTCAGGGAGATAAGA
1 GCTCCACTGTAATCTCAGGGAGATAAGA
37474642 CCTGATGCGA
Statistics
Matches: 348, Mismatches: 84, Indels: 58
0.71 0.17 0.12
Matches are distributed among these distances:
39 28 0.08
40 2 0.01
41 56 0.16
42 1 0.00
43 35 0.10
44 122 0.35
45 7 0.02
46 97 0.28
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (44 bp):
GCTCCACTGTAATCTCAGGGAGATAAGATTACTATCTTCGATCT
Found at i:37474294 original size:41 final size:42
Alignment explanation
Indices: 37474070--37474723 Score: 238
Period size: 44 Copynumber: 15.3 Consensus size: 42
37474060 CACTACAACA
* * ** *
37474070 TCAGGGATATAAGA-CCTGATACGATCCACTCTACTGTAACT
1 TCAGGGAGATAAGATCCTGATTCGATCTGCTCCACTGTAACT
* * * * *
37474111 TCAGAGAGATAAGCTCC--CTT-AATCCGCTCCACTGTAATCT
1 TCAGGGAGATAAGATCCTGATTCGATCTGCTCCACTGTAA-CT
* * * *
37474151 T-AGGGAGATAGGATTACT-ATCTTTGATCTGCTCCGCTGTAA-T
1 TCAGGGAGATAAGA-TCCTGA--TTCGATCTGCTCCACTGTAACT
* *
37474193 CTCAGGGAGATAAGAT-CTGCAATTCTTCGGTCTGTTCCACTGTAA-T
1 -TCAGGGAGATAAGATCCTG--A---TTCGATCTGCTCCACTGTAACT
* * * *
37474239 CTCAGGGAGGTAAGA-CCTGATACGATCTACTCTACTGTAACT
1 -TCAGGGAGATAAGATCCTGATTCGATCTGCTCCACTGTAACT
* * * *
37474281 TCAGAGAGATAAGATCCT--TT-AATCCGCTCCGCTGTAACT
1 TCAGGGAGATAAGATCCTGATTCGATCTGCTCCACTGTAACT
* ** * *
37474320 TCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAA-T
1 TCAGGGAGATAAGATCCTG-ATTCGATCTGCTCCACTGTAACT
* * * *
37474362 CTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCTACTGTAACC
1 -TCAGGGAGATAAGATC-CT-GATTCGATCTGCTCCACTGTAACT
* *
37474407 TCAGGGAGATAAGAT-CTGAAATTCTTCGGTCTACTCCACTGTAA-T
1 TCAGGGAGATAAGATCCTG--A---TTCGATCTGCTCCACTGTAACT
* **
37474452 CTCAGGGAGATAAGA-CCTGATGCGATCTGCTCTGCTGTAACT
1 -TCAGGGAGATAAGATCCTGATTCGATCTGCTCCACTGTAACT
* * ** *
37474494 TCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAA-T
1 TCAGGGAGATAAGATCC-TGA-TTCGATCTGCTCCACTGTAACT
** ** * * * * *
37474537 CTCATAGAGATCGGATTACTAGCTTCAATTTGCTCCGCTGTAA-T
1 -TCAGGGAGATAAGA-TCCT-GATTCGATCTGCTCCACTGTAACT
* * *
37474581 CCCAGGGAGATAAGAT-CTGAAATTCTTCGGTCTGCCCCACTGTAA-T
1 -TCAGGGAGATAAGATCCTG--A---TTCGATCTGCTCCACTGTAACT
* **
37474627 CTCAGGGAGATAAGA-CCTGATGCGATCTGCTCTGCTGTAACT
1 -TCAGGGAGATAAGATCCTGATTCGATCTGCTCCACTGTAACT
* * * * ** *
37474669 TCAGAGAGACAAAATCCTTTATCTTAATCCGCTCCACTGTAA-T
1 TCAGGGAGATAAGATCC-TGAT-TCGATCTGCTCCACTGTAACT
37474712 CTCAGGGAGATA
1 -TCAGGGAGATA
37474724 GGATAGTGTG
Statistics
Matches: 458, Mismatches: 106, Indels: 95
0.69 0.16 0.14
Matches are distributed among these distances:
39 51 0.11
40 7 0.02
41 94 0.21
42 22 0.05
43 41 0.09
44 137 0.30
45 4 0.01
46 102 0.22
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (42 bp):
TCAGGGAGATAAGATCCTGATTCGATCTGCTCCACTGTAACT
Found at i:37474334 original size:170 final size:169
Alignment explanation
Indices: 37474052--37474379 Score: 516
Period size: 170 Copynumber: 1.9 Consensus size: 169
37474042 TACGTTTTCA
*
37474052 GTCTGTTCCACTACAACATCAGGGATATAAGACCTGATACGATCCACTCTACTGTAACTTCAGAG
1 GTCTGTTCCACTACAACATCAGGGAGATAAGACCTGATACGATCCACTCTACTGTAACTTCAGAG
* *
37474117 AGATAAGCTCCCTTAATCCGCTCCACTGTAATCTTAGGGAGATAGGATTACTATCTTTGATCTGC
66 AGATAAGATCCCTTAATCCGCTCCACTGTAATCTTAGGGAGATAGGA-TACTATCTTCGATCTGC
37474182 TCCGCTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCG
130 TCCGCTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCG
** * *
37474222 GTCTGTTCCACTGTAATC-TCAGGGAGGTAAGACCTGATACGATCTACTCTACTGTAACTTCAGA
1 GTCTGTTCCACTACAA-CATCAGGGAGATAAGACCTGATACGATCCACTCTACTGTAACTTCAGA
* * * *
37474286 GAGATAAGATCCTTTAATCCGCTCCGCTGTAA-CTTCAGGGAGATAGGATAGTGTCTTCGATCTG
65 GAGATAAGATCCCTTAATCCGCTCCACTGTAATCTT-AGGGAGATAGGATACTATCTTCGATCTG
37474350 CTCCGCTGTAATCTCAGGGAGATAAGATCT
129 CTCCGCTGTAATCTCAGGGAGATAAGATCT
37474380 CTGGCTTCAA
Statistics
Matches: 145, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
169 46 0.32
170 98 0.68
171 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (169 bp):
GTCTGTTCCACTACAACATCAGGGAGATAAGACCTGATACGATCCACTCTACTGTAACTTCAGAG
AGATAAGATCCCTTAATCCGCTCCACTGTAATCTTAGGGAGATAGGATACTATCTTCGATCTGCT
CCGCTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCG
Found at i:37474509 original size:213 final size:216
Alignment explanation
Indices: 37474131--37474646 Score: 614
Period size: 213 Copynumber: 2.4 Consensus size: 216
37474121 AAGCTCCCTT
* * * * * ** * *
37474131 AATCCGCTCCACTGTAATCTTAGGGAGATAGGAT-TACTATCTTTGATCTGCTCCGCTGTAATCT
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTACTAGCTTCAATCTGCTCCACTGTAACCT
* ** *
37474195 CAGGGAGATAAGATCTGCAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAGGTAAGACCTGAT
66 CAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAATCTCAGGGAGATAAGACCTGAT
*
37474260 ACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCC-TTTAATCCGCTCCGCTGTAA-CTTCA
131 ACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTTAATCCGCTCCACTGTAATC-TCA
* *
37474323 GGGAGATAGGA-TAGT-GTCTTC
195 GAGAGATAGGATTACTAG-CTTC
* * *
37474344 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT-CTGGCTTCAATCTGCTCTACTGTAACCT
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTACTAGCTTCAATCTGCTCCACTGTAACCT
37474408 CAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAATCTCAGGGAGATAAGACCTGAT
66 CAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAATCTCAGGGAGATAAGACCTGAT
* * *
37474473 GCGATCTGCTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATC
131 ACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCC----TTTTAATCCGCTCCACTGTAATC
* *
37474538 TCATAGAGATCGGATTACTAGCTTC
192 TCAGAGAGATAGGATTACTAGCTTC
* * * * ** * *
37474563 AATTTGCTCCGCTGTAATCCCAGGGAGATAAGATCTGA-AATTCTTCGGTCTGCCCCACTGTAAT
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT-ACTA-GCTTCAATCTGCTCCACTGTAAC
*
37474627 CTCAGGGAGATAAGACCTGA
64 CTCAGGGAGATAAGATCTGA
37474647 TGCGATCTGC
Statistics
Matches: 255, Mismatches: 36, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
213 146 0.57
214 1 0.00
218 30 0.12
219 41 0.16
220 1 0.00
221 36 0.14
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (216 bp):
AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTACTAGCTTCAATCTGCTCCACTGTAACCT
CAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAATCTCAGGGAGATAAGACCTGAT
ACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTTAATCCGCTCCACTGTAATCTCAG
AGAGATAGGATTACTAGCTTC
Found at i:37474589 original size:175 final size:175
Alignment explanation
Indices: 37474383--37474715 Score: 578
Period size: 175 Copynumber: 1.9 Consensus size: 175
37474373 AAGATCTCTG
* *
37474383 GCTTCAATCTGCTCTACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTG
1 GCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACCCCACTG
* *
37474448 TAATCTCAGGGAGATAAGACCTGATGCGATCTGCTCTGCTGTAACTTCAGAGAGATAAGATCCTT
66 TAATCTCAGGGAGATAAGACCTGATGCGATCTGCTCTGCTGTAACTTCAGAGAGACAAAATCCTT
*
37474513 TATTTTAATCCGCTCCACTGTAATCTCATAGAGATCGGATTACTA
131 TATCTTAATCCGCTCCACTGTAATCTCATAGAGATCGGATTACTA
* * *
37474558 GCTTCAATTTGCTCCGCTGTAATCC-CAGGGAGATAAGATCTGAAATTCTTCGGTCTGCCCCACT
1 GCTTCAATCTGCTCCACTGTAA-CCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACCCCACT
37474622 GTAATCTCAGGGAGATAAGACCTGATGCGATCTGCTCTGCTGTAACTTCAGAGAGACAAAATCCT
65 GTAATCTCAGGGAGATAAGACCTGATGCGATCTGCTCTGCTGTAACTTCAGAGAGACAAAATCCT
37474687 TTATCTTAATCCGCTCCACTGTAATCTCA
130 TTATCTTAATCCGCTCCACTGTAATCTCA
37474716 GGGAGATAGG
Statistics
Matches: 149, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
175 147 0.99
176 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (175 bp):
GCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACCCCACTG
TAATCTCAGGGAGATAAGACCTGATGCGATCTGCTCTGCTGTAACTTCAGAGAGACAAAATCCTT
TATCTTAATCCGCTCCACTGTAATCTCATAGAGATCGGATTACTA
Found at i:37474720 original size:85 final size:85
Alignment explanation
Indices: 37474349--37474723 Score: 306
Period size: 87 Copynumber: 4.3 Consensus size: 85
37474339 TCTTCGATCT
* * * * * * *
37474349 GCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCTACTGTAACCTCAGGGA
1 GCTCCACTGTAATCTCAGGGAGATAAGA-C-CT-GATGCGATCTGCTCTGCTGTAACTTCAGAGA
** ** *
37474414 GATAAGAT-CTGAAATTCTTCGGTCT
63 GATAAGATCCT-TTA-TCTT-AATCC
*
37474439 ACTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTGCTCTGCTGTAACTTCAGAGAGAT
1 GCTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTGCTCTGCTGTAACTTCAGAGAGAT
*
37474504 AAGATCCTTTATTTTAATCC
66 AAGATCCTTTATCTTAATCC
** ** * * * * * * * *
37474524 GCTCCACTGTAATCTCATAGAGATCGGATTACTAGCTTCAATTTGCTCCGCTGTAA-TCCCAGGG
1 GCTCCACTGTAATCTCAGGGAGATAAGA--CCT-GATGCGATCTGCTCTGCTGTAACT-TCAGAG
** ** *
37474588 AGATAAGAT-CTGAAATTCTTCGGTCT
62 AGATAAGATCCT-TTA-TCTT-AATCC
* *
37474614 GCCCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTGCTCTGCTGTAACTTCAGAGAGAC
1 GCTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTGCTCTGCTGTAACTTCAGAGAGAT
*
37474679 AAAATCCTTTATCTTAATCC
66 AAGATCCTTTATCTTAATCC
37474699 GCTCCACTGTAATCTCAGGGAGATA
1 GCTCCACTGTAATCTCAGGGAGATA
37474724 GGATAGTGTG
Statistics
Matches: 221, Mismatches: 54, Indels: 25
0.74 0.18 0.08
Matches are distributed among these distances:
85 51 0.23
86 7 0.03
87 68 0.31
88 40 0.18
89 4 0.02
90 51 0.23
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (85 bp):
GCTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTGCTCTGCTGTAACTTCAGAGAGAT
AAGATCCTTTATCTTAATCC
Found at i:37476023 original size:7 final size:7
Alignment explanation
Indices: 37476011--37476057 Score: 71
Period size: 7 Copynumber: 7.0 Consensus size: 7
37476001 TTAGCCTCTC
37476011 CATTTTT
1 CATTTTT
37476018 CATTTTT
1 CATTTTT
37476025 C-TTTTT
1 CATTTTT
37476031 CATTTTT
1 CATTTTT
*
37476038 CA-TTCT
1 CATTTTT
37476044 CATTTTT
1 CATTTTT
37476051 CATTTTT
1 CATTTTT
37476058 TTTCATTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
6 11 0.31
7 25 0.69
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (7 bp):
CATTTTT
Found at i:37476034 original size:20 final size:20
Alignment explanation
Indices: 37476011--37476073 Score: 74
Period size: 23 Copynumber: 3.0 Consensus size: 20
37476001 TTAGCCTCTC
*
37476011 CATTTTTCATTTTTC-TTTTT
1 CATTTTTCA-TTCTCATTTTT
37476031 CATTTTTCATTCTCATTTTT
1 CATTTTTCATTCTCATTTTT
37476051 CATTTTTTTTCATTCTCATTTTT
1 CA---TTTTTCATTCTCATTTTT
37476074 TTGACTTAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
19 4 0.11
20 16 0.42
23 18 0.47
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (20 bp):
CATTTTTCATTCTCATTTTT
Found at i:37476072 original size:13 final size:13
Alignment explanation
Indices: 37476017--37476073 Score: 75
Period size: 13 Copynumber: 4.6 Consensus size: 13
37476007 TCTCCATTTT
* *
37476017 TCATTTTTCTTTT
1 TCATTTTTCATTC
37476030 TCATTTTTCATTC
1 TCATTTTTCATTC
37476043 TCATTTTTCATT-
1 TCATTTTTCATTC
37476055 T--TTTTTCATTC
1 TCATTTTTCATTC
37476066 TCATTTTT
1 TCATTTTT
37476074 TTGACTTAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
10 9 0.23
11 1 0.03
12 1 0.03
13 28 0.72
ACGTcount: A:0.12, C:0.18, G:0.00, T:0.70
Consensus pattern (13 bp):
TCATTTTTCATTC
Found at i:37476969 original size:13 final size:13
Alignment explanation
Indices: 37476952--37477009 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
37476942 TTTTATCTAG
*
37476952 ATTTTTTTTTCTT
1 ATTTTTTTTTTTT
*
37476965 -TTTTTTCTTTTT
1 ATTTTTTTTTTTT
* *
37476977 GTTTTGTTTTTTT
1 ATTTTTTTTTTTT
**
37476990 ATTTTAATTTTTT
1 ATTTTTTTTTTTT
37477003 ATTTTTT
1 ATTTTTT
37477010 CATTTTCATT
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
12 10 0.29
13 25 0.71
ACGTcount: A:0.09, C:0.03, G:0.03, T:0.84
Consensus pattern (13 bp):
ATTTTTTTTTTTT
Found at i:37477002 original size:21 final size:21
Alignment explanation
Indices: 37476978--37477021 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
37476968 TTTCTTTTTG
* *
37476978 TTTTGTTTTTTTATTTTAATT
1 TTTTATTTTTTCATTTTAATT
*
37476999 TTTTATTTTTTCATTTTCATT
1 TTTTATTTTTTCATTTTAATT
37477020 TT
1 TT
37477022 CATTTTGACT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.80
Consensus pattern (21 bp):
TTTTATTTTTTCATTTTAATT
Found at i:37481259 original size:109 final size:109
Alignment explanation
Indices: 37481059--37481367 Score: 491
Period size: 109 Copynumber: 2.9 Consensus size: 109
37481049 ATTAAAATTC
* * *
37481059 AAGAGGATATTT-GGTAATTTGGTTAAACGAG--AAATCGAAACCCAGCACCTTAGGGCACG-TT
1 AAGAGGATATTTAGCT-ATTTGGTTAAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTT
*
37481120 CCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAATTTTT
65 TCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAATTTTT
*
37481165 AAGAGGATATTTAGCTATTTGGTTAAACGAGAAAAATCGACACCCAGCACCTTAGGACATGTTTT
1 AAGAGGATATTTAGCTATTTGGTTAAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTT
37481230 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAATTTTT
66 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAATTTTT
* *
37481274 AAAAGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTT
1 AAGAGGATATTTAGCTATTTGGTTAAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTT
* * *
37481339 CTCAAATTTCCAAACGCTAAATATTGCCT
66 CTCGAATTTCCAAACGCAAAACATTGCCT
37481368 CAATTAGAAA
Statistics
Matches: 188, Mismatches: 11, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
106 27 0.14
107 2 0.01
108 25 0.13
109 134 0.71
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.30
Consensus pattern (109 bp):
AAGAGGATATTTAGCTATTTGGTTAAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTT
CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAATTTTT
Found at i:37481886 original size:3 final size:3
Alignment explanation
Indices: 37481880--37481908 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
37481870 AATGATGATG
37481880 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
37481909 TAAATAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:37485896 original size:35 final size:35
Alignment explanation
Indices: 37485804--37485956 Score: 238
Period size: 35 Copynumber: 4.3 Consensus size: 35
37485794 CAATCCCATT
*
37485804 AAACACACCAGATGCTCATAAGATCTAGTCCATCTG
1 AAACACACCA-ATGCTCATAAGAGCTAGTCCATCTG
37485840 AAACACACCAAATGCTCATAAGAGCTAGTCCAT-TCG
1 AAACACACC-AATGCTCATAAGAGCTAGTCCATCT-G
*
37485876 AAACACACCAATGCTCATAAGAGCTAATCCATCTG
1 AAACACACCAATGCTCATAAGAGCTAGTCCATCTG
37485911 AAACACACCAATGCTCATAAGAGCTAGTCCAATC-G
1 AAACACACCAATGCTCATAAGAGCTAGTCC-ATCTG
37485946 AAACACACCAA
1 AAACACACCAA
37485957 AACAGAGAGT
Statistics
Matches: 110, Mismatches: 3, Indels: 9
0.90 0.02 0.07
Matches are distributed among these distances:
35 65 0.59
36 44 0.40
37 1 0.01
ACGTcount: A:0.41, C:0.29, G:0.12, T:0.18
Consensus pattern (35 bp):
AAACACACCAATGCTCATAAGAGCTAGTCCATCTG
Found at i:37485938 original size:70 final size:71
Alignment explanation
Indices: 37485804--37485956 Score: 263
Period size: 70 Copynumber: 2.2 Consensus size: 71
37485794 CAATCCCATT
* *
37485804 AAACACACCAGATGCTCATAAGATCTAGTCCATCTGAAACACACCAAATGCTCATAAGAGCTAGT
1 AAACACACCA-ATGCTCATAAGAGCTAATCCATCTGAAACACACCAAATGCTCATAAGAGCTAGT
*
37485869 CCATTCG
65 CCAATCG
37485876 AAACACACCAATGCTCATAAGAGCTAATCCATCTGAAACACACC-AATGCTCATAAGAGCTAGTC
1 AAACACACCAATGCTCATAAGAGCTAATCCATCTGAAACACACCAAATGCTCATAAGAGCTAGTC
37485940 CAATCG
66 CAATCG
37485946 AAACACACCAA
1 AAACACACCAA
37485957 AACAGAGAGT
Statistics
Matches: 78, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
70 36 0.46
71 32 0.41
72 10 0.13
ACGTcount: A:0.41, C:0.29, G:0.12, T:0.18
Consensus pattern (71 bp):
AAACACACCAATGCTCATAAGAGCTAATCCATCTGAAACACACCAAATGCTCATAAGAGCTAGTC
CAATCG
Found at i:37490159 original size:9 final size:10
Alignment explanation
Indices: 37490139--37490163 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
37490129 ATGCAGAGCC
37490139 AAAATTCAAA
1 AAAATTCAAA
37490149 AAAATTCAAA
1 AAAATTCAAA
37490159 AAAAT
1 AAAAT
37490164 AAAAAAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.20
Consensus pattern (10 bp):
AAAATTCAAA
Found at i:37491029 original size:13 final size:13
Alignment explanation
Indices: 37491011--37491046 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
37491001 GGTTTAGCAA
37491011 TTGGGCTAGGTAT
1 TTGGGCTAGGTAT
*
37491024 TTGGGCTAAGTAT
1 TTGGGCTAGGTAT
37491037 TTGGGCTAGG
1 TTGGGCTAGG
37491047 ATAACTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.17, C:0.08, G:0.39, T:0.36
Consensus pattern (13 bp):
TTGGGCTAGGTAT
Found at i:37503543 original size:50 final size:50
Alignment explanation
Indices: 37503421--37503619 Score: 245
Period size: 50 Copynumber: 3.8 Consensus size: 50
37503411 GATAATAACA
* ** * *
37503421 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTCTCGG
*
37503472 TGCCCATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
* *
37503522 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCGTGACCTCAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT---CTC--GG
* *
37503577 ATGCCAATGTCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
37503620 TTACCCAGAT
Statistics
Matches: 129, Mismatches: 13, Indels: 7
0.87 0.09 0.05
Matches are distributed among these distances:
50 51 0.40
51 35 0.27
53 3 0.02
55 2 0.02
56 38 0.29
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
Found at i:37503737 original size:13 final size:13
Alignment explanation
Indices: 37503719--37503743 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37503709 AATCAACATC
37503719 GAATAAATTCATG
1 GAATAAATTCATG
37503732 GAATAAATTCAT
1 GAATAAATTCAT
37503744 AGTTGCTGGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.32
Consensus pattern (13 bp):
GAATAAATTCATG
Found at i:37504951 original size:27 final size:27
Alignment explanation
Indices: 37504920--37504973 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
37504910 GCTAAAGTAT
*
37504920 GTTTTCCTACTCGTTGATGGGTATTGA
1 GTTTTCCTACTCGTCGATGGGTATTGA
37504947 GTTTTCCTACTCGTCGATGGGTATTGA
1 GTTTTCCTACTCGTCGATGGGTATTGA
37504974 TCCACCATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.15, C:0.17, G:0.26, T:0.43
Consensus pattern (27 bp):
GTTTTCCTACTCGTCGATGGGTATTGA
Found at i:37508452 original size:34 final size:35
Alignment explanation
Indices: 37508408--37508474 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
37508398 CAGTAAAATA
*
37508408 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
37508442 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
37508475 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:37518550 original size:3 final size:3
Alignment explanation
Indices: 37518542--37518566 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
37518532 TTACAAGCTG
37518542 TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA T
37518567 GGACATATTC
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:0.32, G:0.00, T:0.36
Consensus pattern (3 bp):
TCA
Found at i:37528056 original size:22 final size:21
Alignment explanation
Indices: 37528027--37528069 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
37528017 CAAAGACATA
37528027 AATTA-TTTATAAATTTAAAAT
1 AATTATTTTAT-AATTTAAAAT
*
37528048 AATTAATTTTATTATTTAAAAT
1 AATT-ATTTTATAATTTAAAAT
37528070 TAAGTACGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 4 0.21
22 10 0.53
23 5 0.26
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
AATTATTTTATAATTTAAAAT
Found at i:37533571 original size:24 final size:24
Alignment explanation
Indices: 37533509--37533579 Score: 88
Period size: 24 Copynumber: 3.0 Consensus size: 24
37533499 GTGGATATTC
* * *
37533509 AACCTTTCACCTTTCATCTCCCTT
1 AACCTTTCACATTTCATCTTCTTT
*
37533533 AACCTTCCACATTTCATCTTCTTT
1 AACCTTTCACATTTCATCTTCTTT
* *
37533557 AACCTTTAACTTTTCATCTTCTT
1 AACCTTTCACATTTCATCTTCTT
37533580 GTAAACCCTT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.20, C:0.34, G:0.00, T:0.46
Consensus pattern (24 bp):
AACCTTTCACATTTCATCTTCTTT
Found at i:37536402 original size:16 final size:17
Alignment explanation
Indices: 37536383--37536425 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
37536373 GAGTTTAAAT
37536383 TTTTTATTAATAA-TAA
1 TTTTTATTAATAATTAA
37536399 TTTTTATT--TAATTAA
1 TTTTTATTAATAATTAA
37536414 TTTTT-TTAATAA
1 TTTTTATTAATAA
37536426 AGATGATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 5 0.21
15 8 0.33
16 11 0.46
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTTTATTAATAATTAA
Found at i:37537632 original size:30 final size:28
Alignment explanation
Indices: 37537596--37537669 Score: 76
Period size: 31 Copynumber: 2.5 Consensus size: 28
37537586 TAGTACATGG
37537596 TAAAATTACATTTTAGCTATCCAAAATTGA
1 TAAAATTACATTTTAGCTAT-CAAAA-TGA
** * * *
37537626 TAAAATTTTGATTTAAGTTATTAAAATGA
1 TAAAA-TTACATTTTAGCTATCAAAATGA
37537655 TAAAATTACATTTTA
1 TAAAATTACATTTTA
37537670 ATTCTAATAA
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
28 7 0.20
29 8 0.23
30 9 0.26
31 11 0.31
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.42
Consensus pattern (28 bp):
TAAAATTACATTTTAGCTATCAAAATGA
Found at i:37537669 original size:29 final size:31
Alignment explanation
Indices: 37537596--37537670 Score: 77
Period size: 29 Copynumber: 2.5 Consensus size: 31
37537586 TAGTACATGG
37537596 TAAAATTACATTTT-AGCTATCCAAAATTGA
1 TAAAATTACATTTTAAGCTATCCAAAATTGA
** * *
37537626 TAAAATTTTGA-TTTAAGTTAT-TAAAA-TGA
1 TAAAA-TTACATTTTAAGCTATCCAAAATTGA
37537655 TAAAATTACATTTTAA
1 TAAAATTACATTTTAA
37537671 TTCTAATAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
28 3 0.08
29 13 0.36
30 12 0.33
31 8 0.22
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (31 bp):
TAAAATTACATTTTAAGCTATCCAAAATTGA
Found at i:37538827 original size:30 final size:30
Alignment explanation
Indices: 37538791--37538853 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
37538781 ACTTAACAAG
* *
37538791 CAAATGTCTCTCAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAACTAA
* *
37538821 CAAATGTCTTTAAAATAATAATAAAACTAA
1 CAAATGTCTCTAAAATAATAACAAAACTAA
37538851 CAA
1 CAA
37538854 TAAAATAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.56, C:0.14, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAACTAA
Found at i:37545897 original size:17 final size:16
Alignment explanation
Indices: 37545870--37545902 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
37545860 GTTTATATCT
37545870 ATTTAAAATTTTTATA
1 ATTTAAAATTTTTATA
37545886 ATTTATAAATTTTTATA
1 ATTTA-AAATTTTTATA
37545903 GTATTCATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
ATTTAAAATTTTTATA
Found at i:37546872 original size:16 final size:16
Alignment explanation
Indices: 37546850--37546918 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
37546840 TTTGGTTCGC
37546850 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
37546866 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
37546882 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
37546899 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
37546915 TGTA
1 TGTA
37546919 ATAGCTAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:37546896 original size:33 final size:32
Alignment explanation
Indices: 37546850--37546918 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
37546840 TTTGGTTCGC
37546850 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
*
37546882 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGCGTATTGGATTAGAGG
37546915 TGTA
1 TGTA
37546919 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (32 bp):
TGTATTGGATTAGAGGCGTATTGGATTAGAGG
Found at i:37546983 original size:44 final size:45
Alignment explanation
Indices: 37546899--37546989 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
37546889 GGATTAGAGG
* * *
37546899 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
37546944 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
37546988 TG
1 TG
37546990 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:37547175 original size:18 final size:17
Alignment explanation
Indices: 37547154--37547188 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
37547144 TTATTATTGA
*
37547154 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
37547172 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
37547189 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:37547295 original size:18 final size:17
Alignment explanation
Indices: 37547274--37547308 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
37547264 TTATTATTAA
*
37547274 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
37547292 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
37547309 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:37547415 original size:18 final size:17
Alignment explanation
Indices: 37547394--37547428 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
37547384 TTATTATTAA
*
37547394 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
37547412 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
37547429 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:37547680 original size:120 final size:120
Alignment explanation
Indices: 37547137--37547662 Score: 932
Period size: 120 Copynumber: 4.4 Consensus size: 120
37547127 ATCATATTTA
*
37547137 AACATAATTATTATTGAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
37547202 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
37547257 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
37547322 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
37547377 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
37547442 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
* *
37547497 AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
37547562 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTAT-AAATGA-AAATTT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAAT-ATAAA-TT
* * *
37547617 GAA-ATAATTAATATTAAATATATTTTAATTATAATATATGATTTAA
1 -AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAA
37547663 AATAATTTAA
Statistics
Matches: 393, Mismatches: 10, Indels: 6
0.96 0.02 0.01
Matches are distributed among these distances:
119 7 0.02
120 384 0.98
121 2 0.01
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:37560877 original size:33 final size:33
Alignment explanation
Indices: 37560838--37560979 Score: 275
Period size: 33 Copynumber: 4.3 Consensus size: 33
37560828 ATTATAAAGC
37560838 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
37560871 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
37560904 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
*
37560937 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
37560970 ATGTATAATT
1 ATGTATAATT
37560980 CAAGTTTTAA
Statistics
Matches: 108, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
33 108 1.00
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.43
Consensus pattern (33 bp):
ATGTATAATTGACCTAAAATTAATTGTTGGTGT
Found at i:37561099 original size:37 final size:37
Alignment explanation
Indices: 37561022--37561103 Score: 119
Period size: 37 Copynumber: 2.2 Consensus size: 37
37561012 GTATAAATAT
* ***
37561022 ATTGATTAGTTCATTAAAGCATGTTCAAAGTTTTCGC
1 ATTGATTAGTTCAATAAAGCATGTTCAAAGTTTGAAC
*
37561059 ATTGATTAGTTTAATAAAGCATGTTCAAAGTTTGAAC
1 ATTGATTAGTTCAATAAAGCATGTTCAAAGTTTGAAC
37561096 ATTGATTA
1 ATTGATTA
37561104 ATAAATATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (37 bp):
ATTGATTAGTTCAATAAAGCATGTTCAAAGTTTGAAC
Found at i:37573955 original size:142 final size:142
Alignment explanation
Indices: 37573792--37574061 Score: 382
Period size: 142 Copynumber: 1.9 Consensus size: 142
37573782 CATGTGTTGG
*
37573792 ATCTCAAGCCACCGATAAAGAATGATTCGATGCTGCTCACACAAACTTCAGAGAATCCGCAACAT
1 ATCTCAAGCCACCGATAAAGAATGATTCGATGCTGCTCACACAAACTTCAAAGAATCCGCAACAT
* *
37573857 ATGT-TGAATCTCAAGCCA-CAGATAAAGAATGATTCCATGATGCTCACACAAACTTCAGAGAAT
66 ATGTCCG-ATCTCAAGCCATCAG-TAAAGAAAGATTCCATGATGCTCACACAAACTTCAGAGAAT
37573920 GCAACATATGCCAA
129 GCAACATATGCCAA
* * * * * *
37573934 ATCTCAAGCCATCGATAAAGAATGGTTCGATGCTTCTCACACAAGCTTTAAAGAATCTGCAACAT
1 ATCTCAAGCCACCGATAAAGAATGATTCGATGCTGCTCACACAAACTTCAAAGAATCCGCAACAT
* * ** *
37573999 ATGTCCGATCTCAATCCATCAGTAAAGAAAGATTCTATTCTGCTCACACAAACTTGAGAGAAT
66 ATGTCCGATCTCAAGCCATCAGTAAAGAAAGATTCCATGATGCTCACACAAACTTCAGAGAAT
37574062 TCACAACATA
Statistics
Matches: 112, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
142 108 0.96
143 4 0.04
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (142 bp):
ATCTCAAGCCACCGATAAAGAATGATTCGATGCTGCTCACACAAACTTCAAAGAATCCGCAACAT
ATGTCCGATCTCAAGCCATCAGTAAAGAAAGATTCCATGATGCTCACACAAACTTCAGAGAATGC
AACATATGCCAA
Found at i:37574090 original size:72 final size:73
Alignment explanation
Indices: 37573753--37574090 Score: 357
Period size: 72 Copynumber: 4.7 Consensus size: 73
37573743 TATTGGGTGT
* * * ** * * *
37573753 TGCTCACACAAGCTTTAGAGAATCCATAACATGTGTTGGATCTCAAGCCA-CCGATAAAGAATGA
1 TGCTCACACAAACTTCAGAGAATTCGCAACATATGTCGGATCTCAAGCCATCAGATAAAGAATGA
37573817 TTCGATGC
66 TTCGATGC
* * *
37573825 TGCTCACACAAACTTCAGAGAATCCGCAACATATGTTGAATCTCAAGCCA-CAGATAAAGAATGA
1 TGCTCACACAAACTTCAGAGAATTCGCAACATATGTCGGATCTCAAGCCATCAGATAAAGAATGA
* *
37573889 TTCCATGA
66 TTCGATGC
* ** *
37573897 TGCTCACACAAACTTCAGAGAA-T-GCAACATATGCCAAATCTCAAGCCATC-GATAAAGAATGG
1 TGCTCACACAAACTTCAGAGAATTCGCAACATATGTCGGATCTCAAGCCATCAGATAAAGAATGA
37573959 TTCGATGC
66 TTCGATGC
* * * * * * *
37573967 TTCTCACACAAGCTTTAAAGAA-TCTGCAACATATGTCCGATCTCAATCCATCAG-TAAAGAAAG
1 TGCTCACACAAACTTCAGAGAATTC-GCAACATATGTCGGATCTCAAGCCATCAGATAAAGAATG
* *
37574030 ATTCTATTC
65 ATTCGATGC
* * *
37574039 TGCTCACACAAACTTGAGAGAATTCACAACATATGTCGGATCTCATGCCATC
1 TGCTCACACAAACTTCAGAGAATTCGCAACATATGTCGGATCTCAAGCCATC
37574091 GGTCATTAAA
Statistics
Matches: 225, Mismatches: 36, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
70 58 0.26
71 1 0.00
72 163 0.72
73 3 0.01
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.25
Consensus pattern (73 bp):
TGCTCACACAAACTTCAGAGAATTCGCAACATATGTCGGATCTCAAGCCATCAGATAAAGAATGA
TTCGATGC
Found at i:37579138 original size:41 final size:41
Alignment explanation
Indices: 37579093--37579184 Score: 148
Period size: 41 Copynumber: 2.2 Consensus size: 41
37579083 ATCGACACTT
* *
37579093 AGCCTGCTAGACATATAGTCTGAAATGTTTCACCGGCATTA
1 AGCCTGCTAGACATAAAGTCTGAAATGTTTCACCGGCAATA
* *
37579134 AGCCTGCTAGACATAAAGTCTGAATTGTTTCACTGGCAATA
1 AGCCTGCTAGACATAAAGTCTGAAATGTTTCACCGGCAATA
37579175 AGCCTGCTAG
1 AGCCTGCTAG
37579185 GTGCTAAGCC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (41 bp):
AGCCTGCTAGACATAAAGTCTGAAATGTTTCACCGGCAATA
Found at i:37582597 original size:39 final size:39
Alignment explanation
Indices: 37582543--37582638 Score: 192
Period size: 39 Copynumber: 2.5 Consensus size: 39
37582533 AAATAATGAT
37582543 AGGAAATTGGAGAACTTTAGAAGTGGGTAGCAACTTGAG
1 AGGAAATTGGAGAACTTTAGAAGTGGGTAGCAACTTGAG
37582582 AGGAAATTGGAGAACTTTAGAAGTGGGTAGCAACTTGAG
1 AGGAAATTGGAGAACTTTAGAAGTGGGTAGCAACTTGAG
37582621 AGGAAATTGGAGAACTTT
1 AGGAAATTGGAGAACTTT
37582639 TGGGGAAAAC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 57 1.00
ACGTcount: A:0.36, C:0.07, G:0.32, T:0.24
Consensus pattern (39 bp):
AGGAAATTGGAGAACTTTAGAAGTGGGTAGCAACTTGAG
Found at i:37584278 original size:3 final size:3
Alignment explanation
Indices: 37584270--37584295 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
37584260 AATAAACAAA
37584270 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
37584296 CCAAGTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:37584501 original size:23 final size:23
Alignment explanation
Indices: 37584471--37584514 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
37584461 AGCACCGCAC
*
37584471 GCCTCCGTACGTGCCACGTCCGT
1 GCCTCCGTACGCGCCACGTCCGT
37584494 GCCTCCGTACGCGCCACGTCC
1 GCCTCCGTACGCGCCACGTCC
37584515 CCGATCTCGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.09, C:0.48, G:0.25, T:0.18
Consensus pattern (23 bp):
GCCTCCGTACGCGCCACGTCCGT
Found at i:37591079 original size:18 final size:18
Alignment explanation
Indices: 37591056--37591098 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
37591046 TGTGAGGTGC
*
37591056 GTATCCTAGCCATTTTAT
1 GTATCCTAGCCATTATAT
*
37591074 GTATCCTAGCCCTTATAT
1 GTATCCTAGCCATTATAT
*
37591092 GTTTCCT
1 GTATCCT
37591099 TTTTCGAATC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.26, G:0.12, T:0.44
Consensus pattern (18 bp):
GTATCCTAGCCATTATAT
Found at i:37594879 original size:126 final size:126
Alignment explanation
Indices: 37594654--37595077 Score: 663
Period size: 126 Copynumber: 3.4 Consensus size: 126
37594644 ACGTGAGAGC
* * *
37594654 TTTTTTTAGGAGTTACTGTAGCAAAAAG-GCGTCCACATGGGAG-TTTCTTTTAGTACTTCTGCT
1 TTTTTTCAGGAGCTACTGTAGC-AAAAGCGCGTCCACATGGGAGCTTT-TTTCAGTACTTCTGCT
*
37594717 GATAAAGCATCCTGCTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTA
64 GACAAAGCATCCTGCTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTA
* * *
37594780 TTTTTTCAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGAAGCTTTTTTCAGTACCTCTGCTGA
1 TTTTTTCAGGAGCTACTGTAGCAAAAGCGCGTCCACATGGGAGCTTTTTTCAGTACTTCTGCTGA
* *
37594845 CAAAGCATCCTGCTTAAAGCTTTTTTGACACTGTTTGCTCAGAAATGTCTACTCGAAATTA
66 CAAAGCATCCTGCTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTA
* * * *
37594906 TTTTTTCAGTAGCTACTGTAGCAAAAACGCATCCACGTGGGAGCTTTTTTCAGTACTTCTGCTGA
1 TTTTTTCAGGAGCTACTGTAGCAAAAGCGCGTCCACATGGGAGCTTTTTTCAGTACTTCTGCTGA
*
37594971 CAAAGCATCCTGCTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTTGAAATTA
66 CAAAGCATCCTGCTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTA
* * *
37595032 TTTTCTGAGGAGCCACTGTAGCAAAAGCGCGTCCACATGGGAGCTT
1 TTTTTTCAGGAGCTACTGTAGCAAAAGCGCGTCCACATGGGAGCTT
37595078 CTTTAAATTA
Statistics
Matches: 272, Mismatches: 24, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
125 5 0.02
126 264 0.97
127 3 0.01
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (126 bp):
TTTTTTCAGGAGCTACTGTAGCAAAAGCGCGTCCACATGGGAGCTTTTTTCAGTACTTCTGCTGA
CAAAGCATCCTGCTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTA
Found at i:37595262 original size:43 final size:43
Alignment explanation
Indices: 37595215--37595357 Score: 110
Period size: 43 Copynumber: 3.1 Consensus size: 43
37595205 ACCCTGAACT
37595215 CTAATTTATTTAATTTTTTTAAAAAAACCCTTAACTCTAAATC
1 CTAATTTATTTAATTTTTTTAAAAAAACCCTTAACTCTAAATC
* * ** * *
37595258 CTAATATGATTTTCAATTTTTTTTAATTAAATTACTCAAGTAACCCTAAACC
1 CTAAT-TTA-TTT-AA-TTTTTTTAA--AAA-AAC-C-CTTAACTCTAAATC
*
37595310 CTAATTTATTTGATTTTTCCTT--AAAAACCCTTAACTCTAAATC
1 CTAATTTATTTAATTTTT--TTAAAAAAACCCTTAACTCTAAATC
37595353 CTAAT
1 CTAAT
37595358 CTGATTTTTA
Statistics
Matches: 76, Mismatches: 13, Indels: 22
0.68 0.12 0.20
Matches are distributed among these distances:
43 20 0.26
44 3 0.04
45 5 0.07
46 5 0.07
47 9 0.12
48 5 0.07
49 4 0.05
50 7 0.09
51 3 0.04
52 15 0.20
ACGTcount: A:0.36, C:0.18, G:0.02, T:0.43
Consensus pattern (43 bp):
CTAATTTATTTAATTTTTTTAAAAAAACCCTTAACTCTAAATC
Found at i:37595401 original size:94 final size:93
Alignment explanation
Indices: 37595114--37595430 Score: 362
Period size: 95 Copynumber: 3.4 Consensus size: 93
37595104 AGTAACCGTA
* * * * *
37595114 AACCCCAAACCCTAATTTATTTGAGTTTTTACTTAAAAACCATAAACCCTAAA--CTAATTTA-T
1 AACCCTAAACCCTAATTTATTTGAGTTTTT-CTTAAAAACCCTTAACTCTAAATCCTAATTGATT
* * *
37595176 TAT-AAATTTATAATTAATTTACTCAAGT
65 TTTAAAATTTTTAATTAAATTACTCAAGT
* * *
37595204 AACCCTGAACTCTAATTTATTT-AATTTTT-TTAAAAAAACCCTTAACTCTAAATCCTAATATGA
1 AACCCTAAACCCTAATTTATTTGAGTTTTTCTT--AAAAACCCTTAACTCTAAATCCTAAT-TGA
* **
37595267 TTTTCAATTTTTTTTAATTAAATTACTCAAGT
63 TTTTTAA-AATTTTTAATTAAATTACTCAAGT
37595299 AACCCTAAACCCTAATTTATTTGA-TTTTTCCTTAAAAACCCTTAACTCTAAATCCTAATCTGAT
1 AACCCTAAACCCTAATTTATTTGAGTTTTT-CTTAAAAACCCTTAACTCTAAATCCTAAT-TGAT
37595363 TTTTAAAATTTTTAATTAAATTACTCAAGT
64 TTTTAAAATTTTTAATTAAATTACTCAAGT
* *
37595393 AACCCTAAACCCTAATTTAATT-ATTTTTTTCTTAAAAA
1 AACCCTAAACCCTAATTTATTTGA-GTTTTTCTTAAAAA
37595431 ATAATAAACA
Statistics
Matches: 193, Mismatches: 21, Indels: 22
0.82 0.09 0.09
Matches are distributed among these distances:
87 2 0.01
89 22 0.11
90 19 0.10
91 5 0.03
92 2 0.01
93 3 0.02
94 52 0.27
95 85 0.44
96 1 0.01
97 2 0.01
ACGTcount: A:0.38, C:0.18, G:0.03, T:0.41
Consensus pattern (93 bp):
AACCCTAAACCCTAATTTATTTGAGTTTTTCTTAAAAACCCTTAACTCTAAATCCTAATTGATTT
TTAAAATTTTTAATTAAATTACTCAAGT
Found at i:37595459 original size:94 final size:94
Alignment explanation
Indices: 37595114--37595475 Score: 240
Period size: 95 Copynumber: 3.9 Consensus size: 94
37595104 AGTAACCGTA
* * * * ** **
37595114 AACCCCAAACCCTAATTTATTTGAGTTTTTACTTAAAAACCATAAAC-CCTAA-ACTAAT-TTAT
1 AACCCTAAACCCTAATTTAATTGA-TTTTTCCTTAAAAACAATAAACACGAAATACTAATCCAAT
* * *
37595176 TAT--AAATTTATAATTAATTTACTCAAGT
65 TTTGAAAATTTTTAATTAAATTACTCAAGT
* * * * * * * * ***
37595204 AACCCTGAACTCTAATTTATTTAATTTTT--TTAAAAA-AACCCTTAACTCTAAATCCTAATATG
1 AACCCTAAACCCTAATTTAATTGATTTTTCCTTAAAAACAA---TAAACACGAAATACTAATCCA
* **
37595266 ATTTTCAATTTTTTTTAATTAAATTACTCAAGT
63 ATTTTGAA-AATTTTTAATTAAATTACTCAAGT
* ** * * * * **
37595299 AACCCTAAACCCTAATTTATTTGATTTTTCCTTAAAAACCCTTAACTCTAAATCCTAATCTGATT
1 AACCCTAAACCCTAATTTAATTGATTTTTCCTTAAAAACAATAAACACGAAATACTAATCCAATT
*
37595364 TTTAAAATTTTTAATTAAATTACTCAAGT
66 TTGAAAATTTTTAATTAAATTACTCAAGT
* *
37595393 AACCCTAAACCCTAATTTAATT-ATTTTTTTCTTAAAAAATAATAAACACGAAA-ACTAATCCAA
1 AACCCTAAACCCTAATTTAATTGA-TTTTTCCTT-AAAAACAATAAACACGAAATACTAATCCAA
**
37595456 TTTTGAATTTTTTTAATTAA
64 TTTTGAAAATTTTTAATTAA
37595476 TTTAATTAAC
Statistics
Matches: 220, Mismatches: 38, Indels: 24
0.78 0.13 0.09
Matches are distributed among these distances:
86 1 0.00
87 7 0.03
89 9 0.04
90 23 0.10
91 5 0.02
92 5 0.02
93 1 0.00
94 76 0.35
95 86 0.39
97 7 0.03
ACGTcount: A:0.39, C:0.17, G:0.03, T:0.41
Consensus pattern (94 bp):
AACCCTAAACCCTAATTTAATTGATTTTTCCTTAAAAACAATAAACACGAAATACTAATCCAATT
TTGAAAATTTTTAATTAAATTACTCAAGT
Found at i:37595467 original size:189 final size:184
Alignment explanation
Indices: 37595114--37595475 Score: 422
Period size: 189 Copynumber: 1.9 Consensus size: 184
37595104 AGTAACCGTA
*
37595114 AACCCCAAACCCTAATTTATTTGAGTTTTTACTTAAAAACCATAAACCCTAAACTAATTTATTAT
1 AACCCCAAACCCTAATTTATTTGAGTTTTTACTTAAAAACCATAAACCCTAAACTAATTGATTAT
* * * * *
37595179 AAATTTATAATTAATTTACTCAAGTAACCCTGAACTCTAATTTATTTAATTTTTTTAAAAAAACC
66 AAATTTATAATTAAATTACTCAAGTAACCCTAAACCCTAATTTAATTAATTTTTTTAAAAAAACA
* * * * * **
37595244 CTTAACTCTAAATCCTAATATGATTTTCAATTTTTTTTAATTAAATTACTCAAGT
131 ATAAACACGAAATACTAATACAATTTTCAA-TTTTTTTAATTAAATTACTCAAGT
* * * * *
37595299 AACCCTAAACCCTAATTTATTTGA-TTTTTCCTTAAAAACCCTTAACTCTAAATCCTAATCTGAT
1 AACCCCAAACCCTAATTTATTTGAGTTTTTACTTAAAAACCATAAACCCTAAA--CTAAT-TGA-
* * * *
37595363 TTTTAAAATTTTTAATTAAATTACTCAAGTAACCCTAAACCCTAATTTAATTATTTTTTTCTTAA
62 TTAT-AAATTTATAATTAAATTACTCAAGTAACCCTAAACCCTAATTTAATTAATTTTTT-TAAA
* * *
37595428 AAAATAATAAACACGAAA-ACTAATCCAATTTTGAATTTTTTTAATTAA
125 AAAACAATAAACACGAAATACTAATACAATTTTCAATTTTTTTAATTAA
37595476 TTTAATTAAC
Statistics
Matches: 146, Mismatches: 25, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
184 24 0.16
185 23 0.16
186 5 0.03
187 2 0.01
188 16 0.11
189 61 0.42
190 15 0.10
ACGTcount: A:0.39, C:0.17, G:0.03, T:0.41
Consensus pattern (184 bp):
AACCCCAAACCCTAATTTATTTGAGTTTTTACTTAAAAACCATAAACCCTAAACTAATTGATTAT
AAATTTATAATTAAATTACTCAAGTAACCCTAAACCCTAATTTAATTAATTTTTTTAAAAAAACA
ATAAACACGAAATACTAATACAATTTTCAATTTTTTTAATTAAATTACTCAAGT
Found at i:37595563 original size:6 final size:6
Alignment explanation
Indices: 37595554--37595579 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
37595544 AAAACACCAA
37595554 AACCCT AACCCT AACCCT AACCCT AA
1 AACCCT AACCCT AACCCT AACCCT AA
37595580 ACCAATAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.38, C:0.46, G:0.00, T:0.15
Consensus pattern (6 bp):
AACCCT
Found at i:37609522 original size:15 final size:15
Alignment explanation
Indices: 37609499--37609528 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
37609489 TTTTATCTTC
*
37609499 GACAGCCCCTAGTAT
1 GACACCCCCTAGTAT
37609514 GACACCCCCTAGTAT
1 GACACCCCCTAGTAT
37609529 CGAACCAAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.37, G:0.17, T:0.20
Consensus pattern (15 bp):
GACACCCCCTAGTAT
Found at i:37612621 original size:24 final size:25
Alignment explanation
Indices: 37612588--37612636 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
37612578 AAACATTTGT
*
37612588 AAAAACAAAATA-AATTATATGAAAG
1 AAAAACAAAA-AGAAGTATATGAAAG
37612613 AAAAA-AAAAAGAAGTATATGAAAG
1 AAAAACAAAAAGAAGTATATGAAAG
37612637 TCCTCCATCG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 1 0.05
24 16 0.73
25 5 0.23
ACGTcount: A:0.69, C:0.02, G:0.12, T:0.16
Consensus pattern (25 bp):
AAAAACAAAAAGAAGTATATGAAAG
Found at i:37616713 original size:15 final size:16
Alignment explanation
Indices: 37616677--37616713 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
37616667 GAAAAATATA
*
37616677 TATAATTATTAAATAG
1 TATAATTATCAAATAG
37616693 TA-AATTA-CAAATAG
1 TATAATTATCAAATAG
37616707 TATAATT
1 TATAATT
37616714 TATTTTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 8 0.42
15 9 0.47
16 2 0.11
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (16 bp):
TATAATTATCAAATAG
Found at i:37623944 original size:26 final size:26
Alignment explanation
Indices: 37623898--37623947 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
37623888 AGATAATTCG
*
37623898 AACAAAACAAAGAAGATGAAGAAAAA
1 AACAAAACAAAGAAGACGAAGAAAAA
*
37623924 AACAAAACAAAAGTA-ACGAAGAAA
1 AACAAAAC-AAAGAAGACGAAGAAA
37623948 TCATATAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 16 0.76
27 5 0.24
ACGTcount: A:0.72, C:0.10, G:0.14, T:0.04
Consensus pattern (26 bp):
AACAAAACAAAGAAGACGAAGAAAAA
Found at i:37625434 original size:21 final size:21
Alignment explanation
Indices: 37625410--37625452 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
37625400 ATAAACAATA
37625410 TAATGGTTTT-ACCTTTTAACT
1 TAATGGTTTTGA-CTTTTAACT
37625431 TAATGGTTTTGACTTTTAACT
1 TAATGGTTTTGACTTTTAACT
37625452 T
1 T
37625453 CAAAAAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.23, C:0.12, G:0.12, T:0.53
Consensus pattern (21 bp):
TAATGGTTTTGACTTTTAACT
Found at i:37630525 original size:14 final size:15
Alignment explanation
Indices: 37630495--37630528 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
37630485 TATAAGCTAC
*
37630495 ATATTTATTATTAAA
1 ATATTTATTAATAAA
37630510 ATATTT-TTAATAAA
1 ATATTTATTAATAAA
37630524 ATATT
1 ATATT
37630529 AAAATATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATATTTATTAATAAA
Found at i:37630545 original size:20 final size:21
Alignment explanation
Indices: 37630503--37630570 Score: 74
Period size: 22 Copynumber: 3.4 Consensus size: 21
37630493 ACATATTTAT
*
37630503 TATTAAAATATTTTTAATAAAA
1 TATTAAAATATTATT-ATAAAA
37630525 TATTAAAATATTATT-TAAAA
1 TATTAAAATATTATTATAAAA
37630545 T-TT-AAA-ATTATTATAAAA
1 TATTAAAATATTATTATAAAA
*
37630563 -AATAAAAT
1 TATTAAAAT
37630571 TATAATATTA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
17 6 0.15
18 9 0.22
19 5 0.12
20 6 0.15
22 14 0.35
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TATTAAAATATTATTATAAAA
Found at i:37630568 original size:18 final size:17
Alignment explanation
Indices: 37630534--37630573 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
37630524 ATATTAAAAT
**
37630534 ATTATTTAAAATTTAAA
1 ATTATTTAAAAAATAAA
37630551 ATTATTATAAAAAATAAA
1 ATTATT-TAAAAAATAAA
37630569 ATTAT
1 ATTAT
37630574 AATATTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTATTTAAAAAATAAA
Found at i:37633145 original size:167 final size:167
Alignment explanation
Indices: 37632842--37633660 Score: 844
Period size: 167 Copynumber: 5.0 Consensus size: 167
37632832 CAGAATTGAC
* * * * *
37632842 CAGATCAACAC--AAAAA-AACCCAAGTCCAATCTGTAACAAACATAAATTCATTTCGAGATATA
1 CAGATCAACACATAAAAAGAATCTAAATCCAATCTGTAACAAACATAAATTCAATTCGAGAAATA
* * *
37632904 CAAATCTGAGCAAACCAAC-AAGCTCA-AGTCGCTTCTGAG-ATTCTGATCAGATGACACTACGT
66 CAAATCTGAGCAAACCAACGAA-CTCACA--CGCTTCCGAGAATT-AGATCAGATGACACTACGC
* *
37632966 GAATAGTTCAAAATTCAAAATATTTG-ACACAATTTCTGAG
127 GAATAATTCAAAATTCAAAAGATTTGAACACAATTTCTGAG
* * * *
37633006 CAGATCAACACATAAAAAGAAGCTAAATCCAATCCGTAACAAACATAAATTCAAATAGAGAAATA
1 CAGATCAACACATAAAAAGAATCTAAATCCAATCTGTAACAAACATAAATTCAATTCGAGAAATA
* * *
37633071 CAAATCCGAGCAAACCAAGGAACTCACTACGCTTCTGAGAATTAGATCAGATGACACTACGCGAA
66 CAAATCTGAGCAAACCAACGAACTCAC-ACGCTTCCGAGAATTAGATCAGATGACACTACGCGAA
37633136 TAATTCAAAATTCAAAAGATTTGACACGACAATTTCTGAG
130 TAATTCAAAATTCAAAAGATTTGA-AC-ACAATTTCTGAG
*
37633176 CAGATCAAC-CA-AAAGAAGATAATCTAAATCCAATCTGTAACAAACATAAATTCAATTCGAAAA
1 CAGATCAACACATAAA-AAG--AATCTAAATCCAATCTGTAACAAACATAAATTCAATTCGAGAA
* * * *
37633239 ATACAAATCTGAGCAAACCAACGAGCT--CA--CTTCCGAGATTTAGATCAGATGACTCTACTCG
63 ATACAAATCTGAGCAAACCAACGAACTCACACGCTTCCGAGAATTAGATCAGATGACACTACGCG
37633300 AATAATTCAAAA-T-----GATTTGACACAACAATTTCTGAG
128 AATAATTCAAAATTCAAAAGATTTGA-AC-ACAATTTCTGAG
** *
37633336 CAGAGT-AACATGTAAAAAATAATCTAAATCCAATCTGTAACAAACATAAATTCAATTCGAG---
1 CAGA-TCAACACAT-AAAAAGAATCTAAATCCAATCTGTAACAAACATAAATTCAATTCGAGAAA
* * *
37633397 ----AAT-T-A-CAAACCAACGAACTCA-A-G-ATCAGAG-ATTCAGATAAGAT-ACCACTACGC
64 TACAAATCTGAGCAAACCAACGAACTCACACGCTTCCGAGAATT-AGATCAGATGA-CACTACGC
*
37633450 GAATAATTCAGAATTCAAAAGATTTGACACATCAATTTCTGAG
127 GAATAATTCAAAATTCAAAAGATTTGA-ACA-CAATTTCTGAG
* * * *
37633493 CAGATCAACACTTAAAGGAGAAATCTAAATCCAATCTATAACAAACATAAATTCAATTTGAGAAA
1 CAGATCAACACATAAA-AAG-AATCTAAATCCAATCTGTAACAAACATAAATTCAATTCGAGAAA
* * * *
37633558 TACAAATCTGAGCAAACGAACGAACTCACGACGCTTCCGAGATTTAGATCAGATTAAACTACGCG
64 TACAAATCTGAGCAAACCAACGAACTCAC-ACGCTTCCGAGAATTAGATCAGATGACACTACGCG
*
37633623 AAGAATTCAAAATTCAAAAGATTTGACACAACAATTTC
128 AATAATTCAAAATTCAAAAGATTTGA-AC-ACAATTTC
37633661 GAAACAAAAT
Statistics
Matches: 553, Mismatches: 53, Indels: 90
0.79 0.08 0.13
Matches are distributed among these distances:
150 16 0.03
151 33 0.06
152 2 0.00
153 3 0.01
156 5 0.01
157 31 0.06
158 39 0.07
160 69 0.12
161 1 0.00
162 2 0.00
163 3 0.01
164 11 0.02
165 4 0.01
166 46 0.08
167 111 0.20
168 24 0.04
169 9 0.02
170 22 0.04
171 63 0.11
172 55 0.10
173 4 0.01
ACGTcount: A:0.44, C:0.20, G:0.13, T:0.23
Consensus pattern (167 bp):
CAGATCAACACATAAAAAGAATCTAAATCCAATCTGTAACAAACATAAATTCAATTCGAGAAATA
CAAATCTGAGCAAACCAACGAACTCACACGCTTCCGAGAATTAGATCAGATGACACTACGCGAAT
AATTCAAAATTCAAAAGATTTGAACACAATTTCTGAG
Found at i:37633547 original size:158 final size:155
Alignment explanation
Indices: 37633114--37633563 Score: 483
Period size: 160 Copynumber: 2.8 Consensus size: 155
37633104 TCTGAGAATT
*
37633114 AGATCAGATGACACTACGCGAATAATTCAAAATTCAAAAGATTTGACACGACAATTTCTGAGCAG
1 AGATAAGATGACACTACGCGAATAATTC-AAATTCAAAAGATTTGACAC-ACAATTTCTGAGCAG
*
37633179 ATCAAC-C-AAAAGAAGATAATCTAAATCCAATCTGTAACAAACATAAATTCAATTCGAAAAATA
64 ATCAACACTTAAAG-AGATAATCTAAATCCAATCTGTAACAAACATAAATTCAATTCG------A
* * * * *
37633242 CAAATCTGAGCAAACCAACGAGCTCACTTCCGAGATTT
122 -GAAT-T-A-CAAACCAACGAACTCACATCAGAGATTC
* * * *
37633280 AGATCAGATGACTCTACTCGAATAATTC--A---AAATGATTTGACACAACAATTTCTGAGCAGA
1 AGATAAGATGACACTACGCGAATAATTCAAATTCAAAAGATTTGACAC-ACAATTTCTGAGCAGA
*
37633340 GT-AACA-TGTAAA-AAATAATCTAAATCCAATCTGTAACAAACATAAATTCAATTCGAGAATTA
65 -TCAACACT-TAAAGAGATAATCTAAATCCAATCTGTAACAAACATAAATTCAATTCGAGAATTA
*
37633402 CAAACCAACGAACTCAAGATCAGAGATTC
128 CAAACCAACGAACTC-ACATCAGAGATTC
37633431 AGATAAGAT-ACCACTACGCGAATAATTCAGAATTCAAAAGATTTGACACATCAATTTCTGAGCA
1 AGATAAGATGA-CACTACGCGAATAATTCA-AATTCAAAAGATTTGACACA-CAATTTCTGAGCA
* * *
37633495 GATCAACACTTAAAGGAGA-AATCTAAATCCAATCTATAACAAACATAAATTCAATTTGAGAAAT
63 GATCAACACTTAAA-GAGATAATCTAAATCCAATCTGTAACAAACATAAATTCAATTCGAGAATT
37633559 ACAAA
127 ACAAA
37633564 TCTGAGCAAA
Statistics
Matches: 247, Mismatches: 20, Indels: 42
0.80 0.06 0.14
Matches are distributed among these distances:
150 15 0.06
151 33 0.13
152 1 0.00
153 3 0.01
154 2 0.01
156 2 0.01
157 36 0.15
158 48 0.19
159 2 0.01
160 74 0.30
161 1 0.00
162 3 0.01
163 1 0.00
166 26 0.11
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.24
Consensus pattern (155 bp):
AGATAAGATGACACTACGCGAATAATTCAAATTCAAAAGATTTGACACACAATTTCTGAGCAGAT
CAACACTTAAAGAGATAATCTAAATCCAATCTGTAACAAACATAAATTCAATTCGAGAATTACAA
ACCAACGAACTCACATCAGAGATTC
Found at i:37634570 original size:5 final size:5
Alignment explanation
Indices: 37634560--37634588 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
37634550 ACTTTATTTA
37634560 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
37634589 TTCATTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTC
Found at i:37634916 original size:20 final size:20
Alignment explanation
Indices: 37634891--37634930 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
37634881 TAATTAAATT
*
37634891 TCCTTTTGTTACA-TTTATAA
1 TCCTTTT-TTAAATTTTATAA
37634911 TCCTTTTTTAAATTTTATAA
1 TCCTTTTTTAAATTTTATAA
37634931 ACTAATTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.28, C:0.12, G:0.03, T:0.57
Consensus pattern (20 bp):
TCCTTTTTTAAATTTTATAA
Found at i:37637808 original size:14 final size:14
Alignment explanation
Indices: 37637789--37637845 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
37637779 TCTGTCAAAA
37637789 ATTAAAATATAAAG
1 ATTAAAATATAAAG
* *
37637803 ATTAAATTTTAAAG
1 ATTAAAATATAAAG
37637817 -TTGAAAATATAAAAGG
1 ATT-AAAATAT-AAA-G
37637833 ATTAAAACTATAA
1 ATTAAAA-TATAA
37637846 TTTGACCATT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
13 2 0.06
14 17 0.50
15 3 0.09
16 7 0.21
17 5 0.15
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.32
Consensus pattern (14 bp):
ATTAAAATATAAAG
Found at i:37640783 original size:3 final size:3
Alignment explanation
Indices: 37640775--37640806 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
37640765 CTATCACTAT
37640775 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
37640807 TCTATACGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:37641001 original size:26 final size:27
Alignment explanation
Indices: 37640949--37641002 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
37640939 ATGCATATAC
* *
37640949 ATTTTATAATATATATACATTTTCTAT
1 ATTTTATAATATACATACATTTCCTAT
**
37640976 ATTTTAT-ATATACATATGTTTCCTAT
1 ATTTTATAATATACATACATTTCCTAT
37641002 A
1 A
37641003 ATATATGTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 16 0.70
27 7 0.30
ACGTcount: A:0.35, C:0.09, G:0.02, T:0.54
Consensus pattern (27 bp):
ATTTTATAATATACATACATTTCCTAT
Found at i:37641096 original size:20 final size:20
Alignment explanation
Indices: 37641052--37641097 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
37641042 AAATATATAC
37641052 ATTTATATATAATTTAAACAT
1 ATTTATATATAATTT-AACAT
*
37641073 -TTTATATATATATTT-GCAT
1 ATTTATATATA-ATTTAACAT
37641092 ATTTAT
1 ATTTAT
37641098 CTTTCAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
19 3 0.14
20 15 0.68
21 4 0.18
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.54
Consensus pattern (20 bp):
ATTTATATATAATTTAACAT
Done.