Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 121 of 250
Found at i:38938704 original size:29 final size:30
Alignment explanation
Indices: 38938672--38938733 Score: 101
Period size: 29 Copynumber: 2.1 Consensus size: 30
38938662 ACTTAACAAG
38938672 CAAATG-CTTCTAAAATAATAA-AAAATTAA
1 CAAATGCCTT-TAAAATAATAAGAAAATTAA
38938701 CAAATGCCTTTAAAATAATAAGAAAATTAA
1 CAAATGCCTTTAAAATAATAAGAAAATTAA
38938731 CAA
1 CAA
38938734 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
29 17 0.55
30 14 0.45
ACGTcount: A:0.58, C:0.11, G:0.05, T:0.26
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAAGAAAATTAA
Found at i:38939265 original size:16 final size:16
Alignment explanation
Indices: 38939244--38939286 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 16
38939234 AAAAAAATTT
38939244 CGAATTTCGAGTTAAA
1 CGAATTTCGAGTTAAA
**
38939260 CGAA-TT-GAGTTATT
1 CGAATTTCGAGTTAAA
38939274 CGAATTTCGAGTT
1 CGAATTTCGAGTT
38939287 CGAATCGAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 10 0.43
15 4 0.17
16 9 0.39
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (16 bp):
CGAATTTCGAGTTAAA
Found at i:38939321 original size:9 final size:9
Alignment explanation
Indices: 38939307--38939363 Score: 51
Period size: 9 Copynumber: 6.3 Consensus size: 9
38939297 TTAGTTTTTA
38939307 AACTCGAAT
1 AACTCGAAT
38939316 AACTCGAAT
1 AACTCGAAT
* **
38939325 AATTCTTAT
1 AACTCGAAT
38939334 AACTCGAAT
1 AACTCGAAT
* *
38939343 AATTTGAAT
1 AACTCGAAT
* *
38939352 AAATCAAAT
1 AACTCGAAT
38939361 AAC
1 AAC
38939364 AAACTCTAAT
Statistics
Matches: 36, Mismatches: 12, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.47, C:0.16, G:0.07, T:0.30
Consensus pattern (9 bp):
AACTCGAAT
Found at i:38939353 original size:18 final size:19
Alignment explanation
Indices: 38939312--38939353 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
38939302 TTTTAAACTC
38939312 GAATAACTCGAATAATTCT
1 GAATAACTCGAATAATTCT
*
38939331 -TATAACTCGAATAATT-T
1 GAATAACTCGAATAATTCT
38939348 GAATAA
1 GAATAA
38939354 ATCAAATAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 1 0.05
18 19 0.95
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (19 bp):
GAATAACTCGAATAATTCT
Found at i:38939362 original size:27 final size:27
Alignment explanation
Indices: 38939307--38939363 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
38939297 TTAGTTTTTA
* **
38939307 AACTCGAATAACTCGAATAATTCTTAT
1 AACTCGAATAACTCGAATAAATCAAAT
* *
38939334 AACTCGAATAATTTGAATAAATCAAAT
1 AACTCGAATAACTCGAATAAATCAAAT
38939361 AAC
1 AAC
38939364 AAACTCTAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.47, C:0.16, G:0.07, T:0.30
Consensus pattern (27 bp):
AACTCGAATAACTCGAATAAATCAAAT
Found at i:38940092 original size:19 final size:19
Alignment explanation
Indices: 38940065--38940102 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
38940055 AAAGTTAATA
* *
38940065 ACAACTTTGATTACGGTGG
1 ACAAATTTGATTACAGTGG
38940084 ACAAATTTGATTACAGTGG
1 ACAAATTTGATTACAGTGG
38940103 GTGACAGTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (19 bp):
ACAAATTTGATTACAGTGG
Found at i:38941054 original size:23 final size:22
Alignment explanation
Indices: 38941022--38941091 Score: 59
Period size: 26 Copynumber: 2.9 Consensus size: 22
38941012 TAAATTCCAT
*
38941022 TTTATATATCTATTTTCCATATC
1 TTTAT-TATCTATTTTCCATATA
*
38941045 TGTTATTATCTTTCCTTTCCCATATA
1 T-TTATTATCTAT--TTT-CCATATA
*
38941071 TTTGATTTTCTATTTTCCATA
1 TTT-ATTATCTATTTTCCATA
38941092 AAATATTCAA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
23 12 0.32
24 7 0.18
25 5 0.13
26 14 0.37
ACGTcount: A:0.21, C:0.19, G:0.03, T:0.57
Consensus pattern (22 bp):
TTTATTATCTATTTTCCATATA
Found at i:38941104 original size:86 final size:84
Alignment explanation
Indices: 38940952--38941123 Score: 238
Period size: 86 Copynumber: 2.0 Consensus size: 84
38940942 AATCTTTATC
* *
38940952 TTCCATATATGTTATTCTCTTTCCTTTACCATATTTGATTCTCTATTTTTCATAAAATATTAAAT
1 TTCCATATATGTTATTATCTTTCCTTTACCATATTTGATTCTCTATTTTCCATAAAATATTAAAT
*
38941017 TCCATTTTATAT-ATCTATT
66 TCCATTTCATATCA-CTATT
* * * *
38941036 TTCCATATCTGTTATTATCTTTCCTTTCCCATATATTTGATTTTCTATTTTCCATAAAATATTCA
1 TTCCATATATGTTATTATCTTTCCTTTACC--ATATTTGATTCTCTATTTTCCATAAAATATTAA
*
38941101 ATTCCCTTTCATATCACTATT
64 ATTCCATTTCATATCACTATT
38941122 TT
1 TT
38941124 ACACAGTTGT
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
84 27 0.35
86 49 0.64
87 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.02, T:0.53
Consensus pattern (84 bp):
TTCCATATATGTTATTATCTTTCCTTTACCATATTTGATTCTCTATTTTCCATAAAATATTAAAT
TCCATTTCATATCACTATT
Found at i:38941135 original size:86 final size:86
Alignment explanation
Indices: 38940961--38941155 Score: 236
Period size: 86 Copynumber: 2.3 Consensus size: 86
38940951 CTTCCATATA
* *
38940961 TGTTATTCTCTTTCCTTTACC--ATATTTGATTCTCTATTTTTCATAAAATATTAAATTCCATTT
1 TGTTATTCTCTTTCCTTTCCCATATATTTGATTCTCTATTTTCCATAAAATATTAAATTCCATTT
* * *
38941024 TATATATCTATTTTCCATATC
66 CATATATCTATTTTACACATC
* * * *
38941045 TGTTATTATCTTTCCTTTCCCATATATTTGATTTTCTATTTTCCATAAAATATTCAATTCCCTTT
1 TGTTATTCTCTTTCCTTTCCCATATATTTGATTCTCTATTTTCCATAAAATATTAAATTCCATTT
38941110 CATATCA-CTATTTTACACAGT-
66 CATAT-ATCTATTTTACACA-TC
* * *
38941131 TGTTATTCTTTTTCTTTTCCTATAT
1 TGTTATTCTCTTTCCTTTCCCATAT
38941156 TTCACTTTTC
Statistics
Matches: 94, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
84 19 0.20
86 73 0.78
87 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.03, T:0.54
Consensus pattern (86 bp):
TGTTATTCTCTTTCCTTTCCCATATATTTGATTCTCTATTTTCCATAAAATATTAAATTCCATTT
CATATATCTATTTTACACATC
Found at i:38942293 original size:16 final size:15
Alignment explanation
Indices: 38942274--38942326 Score: 67
Period size: 16 Copynumber: 3.6 Consensus size: 15
38942264 AAAATAAAAT
38942274 AATAATACAATATCTA
1 AATAATA-AATATCTA
38942290 AATAATGAAATATC-A
1 AATAAT-AAATATCTA
38942305 AATAAT--ATATCTA
1 AATAATAAATATCTA
38942318 AATAATAAA
1 AATAATAAA
38942327 CAAAAGTGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
12 5 0.15
13 7 0.21
15 8 0.24
16 12 0.36
17 1 0.03
ACGTcount: A:0.60, C:0.08, G:0.02, T:0.30
Consensus pattern (15 bp):
AATAATAAATATCTA
Found at i:38944161 original size:42 final size:42
Alignment explanation
Indices: 38944114--38944235 Score: 163
Period size: 42 Copynumber: 2.9 Consensus size: 42
38944104 TTTATGTAAA
* *
38944114 AAAACGCTGCTAAAGAACATGACTTTTAGCGGCACTTTCAAG
1 AAAACGCTGCTAAAAAACGTGACTTTTAGCGGCACTTTCAAG
* * **
38944156 AAAACGCCGCTAAATAACGTGACTTTTAGCGGCACTTTCTTG
1 AAAACGCTGCTAAAAAACGTGACTTTTAGCGGCACTTTCAAG
* * *
38944198 AAAATGCTGCTAAAAAACGTGACCTTTAGCGGCGCTTT
1 AAAACGCTGCTAAAAAACGTGACTTTTAGCGGCACTTT
38944236 TTCTACAAAT
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (42 bp):
AAAACGCTGCTAAAAAACGTGACTTTTAGCGGCACTTTCAAG
Found at i:38944256 original size:42 final size:42
Alignment explanation
Indices: 38944161--38944321 Score: 173
Period size: 42 Copynumber: 3.8 Consensus size: 42
38944151 TCAAGAAAAC
* * * *
38944161 GCCGCTAAATAACGTGACTTTTAGCGGCACTTTCTTGA-AAAT
1 GCCGCTAAAGAACGTGACCTTTAGCGGCGCTTT-TTTACAAAT
* *
38944203 GCTGCTAAAAAACGTGACCTTTAGCGGCGCTTTTTCTACAAAT
1 GCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTT-TACAAAT
* * *
38944246 GCCGCTAAA-AATGTGACCTTTAGCAGCGCTTTTTGTACAAAC
1 GCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTT-TACAAAT
* * *
38944288 GCCTCTAAAGAACCTGACCTTTAGAGGCGCTTTT
1 GCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTT
38944322 CTTCAAAATG
Statistics
Matches: 101, Mismatches: 15, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
41 2 0.02
42 67 0.66
43 32 0.32
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (42 bp):
GCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTTTACAAAT
Found at i:38944331 original size:85 final size:86
Alignment explanation
Indices: 38944114--38944340 Score: 207
Period size: 84 Copynumber: 2.7 Consensus size: 86
38944104 TTTATGTAAA
* * * * * * * *
38944114 AAAACGCTGCTAAAGAACATGACTTTTAGCGGCAC--TTTCAAGAAAACGCCGCTAAATAACGTG
1 AAAACGCTGCTAAAAAACCTGACCTTTAGAGGCGCTTTTTCTACAAAATGCCGCTAAATAACGTG
* *
38944177 ACTTTTAGCGGCACTTTCTTG
66 ACCTTTAGCAGCACTTTCTTG
* * * *
38944198 AAAATGCTGCTAAAAAACGTGACCTTTAGCGGCGCTTTTTCTAC-AAATGCCGCTAAA-AATGTG
1 AAAACGCTGCTAAAAAACCTGACCTTTAGAGGCGCTTTTTCTACAAAATGCCGCTAAATAACGTG
*
38944261 ACCTTTAGCAGCGCTTT-TTG
66 ACCTTTAGCAGCACTTTCTTG
* * **
38944281 TACAAACGCCT-CTAAAGAACCTGACCTTTAGAGGCGC-TTTTCTTCAAAATGTAGCTAAAT
1 -A-AAACG-CTGCTAAAAAACCTGACCTTTAGAGGCGCTTTTTCTACAAAATGCCGCTAAAT
38944341 GTCACGTTCT
Statistics
Matches: 117, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
83 3 0.03
84 57 0.49
85 50 0.43
86 7 0.06
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.28
Consensus pattern (86 bp):
AAAACGCTGCTAAAAAACCTGACCTTTAGAGGCGCTTTTTCTACAAAATGCCGCTAAATAACGTG
ACCTTTAGCAGCACTTTCTTG
Found at i:38945235 original size:13 final size:14
Alignment explanation
Indices: 38945209--38945237 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
38945199 ACTAACGACG
38945209 AATTAAACCATTAT
1 AATTAAACCATTAT
38945223 AATTAAA-CATTAT
1 AATTAAACCATTAT
38945236 AA
1 AA
38945238 ATATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:38950353 original size:9 final size:9
Alignment explanation
Indices: 38950339--38950449 Score: 120
Period size: 9 Copynumber: 12.6 Consensus size: 9
38950329 TATTTATGTA
38950339 TTATGTAAG
1 TTATGTAAG
38950348 TTATGTAAG
1 TTATGTAAG
*
38950357 TTATGTGAG
1 TTATGTAAG
* *
38950366 GTATGTGAG
1 TTATGTAAG
38950375 TTATGTAAG
1 TTATGTAAG
38950384 TTATGTAAG
1 TTATGTAAG
*
38950393 TTATGATATG
1 TTATG-TAAG
* * *
38950403 ATATAT-AT
1 TTATGTAAG
38950411 TTATGT-A-
1 TTATGTAAG
38950418 TTATGTAAG
1 TTATGTAAG
*
38950427 TTATGTAAA
1 TTATGTAAG
38950436 TTATGTAAG
1 TTATGTAAG
38950445 TTATG
1 TTATG
38950450 AAATTTAAAC
Statistics
Matches: 86, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.07
8 6 0.07
9 68 0.79
10 6 0.07
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:38951531 original size:24 final size:24
Alignment explanation
Indices: 38951504--38951556 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
38951494 AATGTTTTAT
38951504 AATATAATATAAATTTTAGATACA
1 AATATAATATAAATTTTAGATACA
* *
38951528 AATATAATATTAATTTTAGTTACA
1 AATATAATATAAATTTTAGATACA
38951552 AATAT
1 AATAT
38951557 TATAACATAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.42
Consensus pattern (24 bp):
AATATAATATAAATTTTAGATACA
Found at i:38952941 original size:47 final size:47
Alignment explanation
Indices: 38952872--38952967 Score: 165
Period size: 47 Copynumber: 2.0 Consensus size: 47
38952862 CGTTTTATCA
* *
38952872 AAAGTAGAAGTATTTAATCATTAATATTGCCTTGTTACAATATAACC
1 AAAGTAGAAGTATTTAATCATTAATACTGCCTTGTTACAACATAACC
*
38952919 AAAGTAGAAGTATTTAATCATTAATACTGCCTTGTTACAACATTACC
1 AAAGTAGAAGTATTTAATCATTAATACTGCCTTGTTACAACATAACC
38952966 AA
1 AA
38952968 TCACGTAGCA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.34
Consensus pattern (47 bp):
AAAGTAGAAGTATTTAATCATTAATACTGCCTTGTTACAACATAACC
Found at i:38953686 original size:16 final size:17
Alignment explanation
Indices: 38953667--38953701 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
38953657 ATTATTTATT
38953667 ATATAAATT-AAAAACA
1 ATATAAATTAAAAAACA
38953683 ATATAAATTAAAAAACA
1 ATATAAATTAAAAAACA
38953700 AT
1 AT
38953702 CCGTTATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.26
Consensus pattern (17 bp):
ATATAAATTAAAAAACA
Found at i:38954028 original size:8 final size:8
Alignment explanation
Indices: 38954013--38954058 Score: 51
Period size: 8 Copynumber: 6.0 Consensus size: 8
38954003 CCCCTTAATG
38954013 CCTT-AAC
1 CCTTAAAC
38954020 CCTTAAAC
1 CCTTAAAC
*
38954028 CCCTAAAC
1 CCTTAAAC
*
38954036 CCATAAAC
1 CCTTAAAC
*
38954044 CCTAAAAC
1 CCTTAAAC
38954052 CC-TAAAC
1 CCTTAAAC
38954059 TCCAACCTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
7 8 0.24
8 25 0.76
ACGTcount: A:0.41, C:0.41, G:0.00, T:0.17
Consensus pattern (8 bp):
CCTTAAAC
Found at i:38954048 original size:15 final size:15
Alignment explanation
Indices: 38954017--38954298 Score: 72
Period size: 15 Copynumber: 19.3 Consensus size: 15
38954007 TTAATGCCTT
*
38954017 AACCCTTAAACCCCTA
1 AACCCATAAA-CCCTA
38954033 AACCCATAAACCCTAA
1 AACCCATAAACCCT-A
38954049 AACCC-TAAACTCC--
1 AACCCATAAAC-CCTA
** *
38954062 AACCTTTAAACCATA
1 AACCCATAAACCCTA
*
38954077 AA-CCATAATCCCTA
1 AACCCATAAACCCTA
*
38954091 ATCCC-TAAACCC-A
1 AACCCATAAACCCTA
* * *
38954104 TAATCCATAATCCATA
1 -AACCCATAAACCCTA
* *** *
38954120 AA-CCTTAAAATATT
1 AACCCATAAACCCTA
* *
38954134 AACTCATAAACCATA
1 AACCCATAAACCCTA
* * *
38954149 AACCCCTGAACCTTA
1 AACCCATAAACCCTA
*
38954164 AACCC--CAACCCTTA
1 AACCCATAAACCC-TA
38954178 AACCC-TAAACCC-A
1 AACCCATAAACCCTA
* *
38954191 TAATCCATAAACCTTA
1 -AACCCATAAACCCTA
** * *
38954207 AA-ATATTAACTCATA
1 AACCCATAAAC-CCTA
*
38954222 AA-CTATAAACCCCTA
1 AACCCATAAA-CCCTA
* *
38954237 AA-CCTTAAACCC-C
1 AACCCATAAACCCTA
* *
38954250 AACCCTTAAACCTTA
1 AACCCATAAACCCTA
* *
38954265 AACCCATAATCTCTA
1 AACCCATAAACCCTA
* *
38954280 AACCCATAATCCATA
1 AACCCATAAACCCTA
38954295 AACC
1 AACC
38954299 TTAAAATATT
Statistics
Matches: 197, Mismatches: 50, Indels: 39
0.69 0.17 0.14
Matches are distributed among these distances:
13 13 0.07
14 60 0.30
15 104 0.53
16 20 0.10
ACGTcount: A:0.44, C:0.34, G:0.00, T:0.22
Consensus pattern (15 bp):
AACCCATAAACCCTA
Found at i:38954058 original size:7 final size:7
Alignment explanation
Indices: 38954017--38954361 Score: 77
Period size: 7 Copynumber: 47.4 Consensus size: 7
38954007 TTAATGCCTT
38954017 AACCCTTA
1 AACCC-TA
38954025 AACCCCTA
1 AA-CCCTA
38954033 AACCCATA
1 AACCC-TA
38954041 AACCCTAA
1 AACCCT-A
38954049 AACCCTA
1 AACCCTA
38954056 AACTCC--
1 AAC-CCTA
*
38954062 AACCTTTA
1 AACC-CTA
*
38954070 AACCATA
1 AACCCTA
*
38954077 AACCATA
1 AACCCTA
*
38954084 ATCCCTA
1 AACCCTA
*
38954091 ATCCCTA
1 AACCCTA
38954098 AACCCATA
1 AACCC-TA
* *
38954106 ATCCATA
1 AACCCTA
* *
38954113 ATCCATA
1 AACCCTA
*
38954120 AACCTTA
1 AACCCTA
*** *
38954127 AAATATT
1 AACCCTA
*
38954134 AACTCATA
1 AAC-CCTA
*
38954142 AACCATA
1 AACCCTA
*
38954149 AACCCCTG
1 AA-CCCTA
*
38954157 AACCTTA
1 AACCCTA
*
38954164 AACCC-C
1 AACCCTA
38954170 AACCCTTA
1 AACCC-TA
38954178 AACCCTA
1 AACCCTA
38954185 AACCCATA
1 AACCC-TA
* *
38954193 ATCCATA
1 AACCCTA
*
38954200 AACCTTA
1 AACCCTA
*** *
38954207 AAATATT
1 AACCCTA
*
38954214 AACTCATA
1 AAC-CCTA
**
38954222 AACTATA
1 AACCCTA
38954229 AACCCCTA
1 AA-CCCTA
*
38954237 AACCTTA
1 AACCCTA
*
38954244 AACCC-C
1 AACCCTA
38954250 AACCCTTA
1 AACCC-TA
*
38954258 AACCTTA
1 AACCCTA
38954265 AACCCATA
1 AACCC-TA
* *
38954273 ATCTCTA
1 AACCCTA
38954280 AACCCATA
1 AACCC-TA
* *
38954288 ATCCATA
1 AACCCTA
*
38954295 AACCTTA
1 AACCCTA
*** *
38954302 AAATATT
1 AACCCTA
*
38954309 AACTCATA
1 AAC-CCTA
* *
38954317 AATCATA
1 AACCCTA
38954324 AACCCTA
1 AACCCTA
* *
38954331 AATCATA
1 AACCCTA
*
38954338 TACCCTA
1 AACCCTA
*
38954345 AACCATA
1 AACCCTA
38954352 AACCCTA
1 AACCCTA
38954359 AAC
1 AAC
38954362 TATAATGATA
Statistics
Matches: 248, Mismatches: 69, Indels: 41
0.69 0.19 0.11
Matches are distributed among these distances:
5 1 0.00
6 13 0.05
7 152 0.61
8 79 0.32
9 3 0.01
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.22
Consensus pattern (7 bp):
AACCCTA
Found at i:38954128 original size:29 final size:28
Alignment explanation
Indices: 38954062--38954366 Score: 94
Period size: 29 Copynumber: 10.5 Consensus size: 28
38954052 CCTAAACTCC
*
38954062 AACCTTTAAACCATAAACCATAATCCCTA
1 AACC-TTAAACCATAAACCATAATCCATA
* * *
38954091 ATCCCTAAACCCATAATCCATAATCCATA
1 AACCTTAAA-CCATAAACCATAATCCATA
** * *
38954120 AACCTTAAAATATTAACTCATAAACCATA
1 AACCTTAAACCATAAAC-CATAATCCATA
* * * ** * *
38954149 AACCCCTGAACCTTAAACCCCAACCCTTA
1 AA-CCTTAAACCATAAACCATAATCCATA
* * * *
38954178 AACCCTAAACCCATAATCCATAAACCTTA
1 AACCTTAAA-CCATAAACCATAATCCATA
* * * * *
38954207 AA-ATATTAACTCATAAACTATAAACCCCTA
1 AACCT-TAAAC-CATAAACCAT-AATCCATA
** * * * *
38954237 AACCTTAAACCCCAACCCTTAAACCTTA
1 AACCTTAAACCATAAACCATAATCCATA
* *
38954265 AACCCATAATCTC-TAAACCCATAATCCATA
1 AA-CCTTAAAC-CATAAA-CCATAATCCATA
** *
38954295 AACCTTAAAATATTAACTCATAAAT-CATA
1 AACCTTAAACCATAAAC-CAT-AATCCATA
* * * * *
38954324 AACCCTAAATCATATACCCTAAACCATA
1 AACCTTAAACCATAAACCATAATCCATA
* *
38954352 AACCCTAAACTATAA
1 AACCTTAAACCATAA
38954367 TGATAATTAA
Statistics
Matches: 196, Mismatches: 65, Indels: 31
0.67 0.22 0.11
Matches are distributed among these distances:
27 2 0.01
28 42 0.21
29 115 0.59
30 36 0.18
31 1 0.01
ACGTcount: A:0.45, C:0.31, G:0.00, T:0.24
Consensus pattern (28 bp):
AACCTTAAACCATAAACCATAATCCATA
Found at i:38954200 original size:80 final size:80
Alignment explanation
Indices: 38954108--38954283 Score: 309
Period size: 80 Copynumber: 2.2 Consensus size: 80
38954098 AACCCATAAT
*
38954108 CCATAATCCATAAACCTTAAAATATTAACTCATAAACCATAAACCCCTGAACCTTAAACCCCAAC
1 CCATAATCCATAAACCTTAAAATATTAACTCATAAACCATAAACCCCTAAACCTTAAACCCCAAC
38954173 CCTTAAACCCTAAAC
66 CCTTAAACCCTAAAC
*
38954188 CCATAATCCATAAACCTTAAAATATTAACTCATAAACTATAAACCCCTAAACCTTAAACCCCAAC
1 CCATAATCCATAAACCTTAAAATATTAACTCATAAACCATAAACCCCTAAACCTTAAACCCCAAC
*
38954253 CCTTAAACCTTAAAC
66 CCTTAAACCCTAAAC
38954268 CCATAATCTC-TAAACC
1 CCATAATC-CATAAACC
38954284 CATAATCCAT
Statistics
Matches: 92, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
80 91 0.99
81 1 0.01
ACGTcount: A:0.44, C:0.33, G:0.01, T:0.23
Consensus pattern (80 bp):
CCATAATCCATAAACCTTAAAATATTAACTCATAAACCATAAACCCCTAAACCTTAAACCCCAAC
CCTTAAACCCTAAAC
Found at i:38954877 original size:155 final size:151
Alignment explanation
Indices: 38954690--38955184 Score: 525
Period size: 155 Copynumber: 3.3 Consensus size: 151
38954680 CAAAGCACAT
* *
38954690 CTAAAGCTCGATCTATAGCGACGTTTTTCAAAAAGCACCGCTAATGCCACTAAGGCTCAATAAAA
1 CTAAAGCTCGATCTATAGCGACGTTTTCCAAAAAGCACCGCTAATGCCACTAAGGCTCAACAAAA
* *
38954755 AACGATGGCGTGTTGATGAATTAATTTGCGGCGTTTTTTAAAAAATGCCACTAATGCTCTATCTA
66 AACGATGGCGTGTTGATGAATTATTTTGCGGCGTTTTTTAAAAAATGCCACTAATGCTCGATCTA
38954820 TAGTGGCATTTATCATAAAGAGCCG
131 TAG-GGCATTT-TCA-AAAG-GCCG
* * *
38954845 CTAAAGCTCGATCTATAGCGACGTTTTCCAAAAAACGCCGCTAATGCCACTATGGCTCAACAAAA
1 CTAAAGCTCGATCTATAGCGACGTTTTCCAAAAAGCACCGCTAATGCCACTAAGGCTCAACAAAA
* * * ** * * *
38954910 AACAACT-GCGTGTTGATGAATTATTTTGTGGCATTTTTTAAAAAGCGTCGCTCATGCTCGATCT
66 AACGA-TGGCGTGTTGATGAATTATTTTGCGGCGTTTTTTAAAAAATGCCACTAATGCTCGATCT
38954974 ATA--G------C----GGCCG
130 ATAGGGCATTTTCAAAAGGCCG
* * * *
38954984 CTAAAGCTCGATTTATAGCTG-TGTTTTCCGAAAAGCGCCGCTAATGCCACTAAGGCTCAACAAA
1 CTAAAGCTCGATCTATAGC-GACGTTTTCCAAAAAGCACCGCTAATGCCACTAAGGCTCAACAAA
* * * *
38955048 AAATGACGGCGTGTTGATGAATTATTTTGCGGCGTTTTTTAAAAAATGCTACTAATACTCGATCT
65 AAACGATGGCGTGTTGATGAATTATTTTGCGGCGTTTTTTAAAAAATGCCACTAATGCTCGATCT
38955113 ATAGCGGCATTTTTCAAAAAGCGCCG
130 ATAG-GGCA-TTTTC-AAAAG-GCCG
** * * * *
38955139 CTAATTCTCAATCTATAGTGGCGCTTTTCTAAAAA-CACCGCTAATG
1 CTAAAGCTCGATCTATAGCGACG-TTTTCCAAAAAGCACCGCTAATG
38955185 TTTGATCTAT
Statistics
Matches: 278, Mismatches: 41, Indels: 42
0.77 0.11 0.12
Matches are distributed among these distances:
139 116 0.42
140 2 0.01
142 1 0.00
145 1 0.00
149 1 0.00
152 1 0.00
154 2 0.01
155 144 0.52
156 10 0.04
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (151 bp):
CTAAAGCTCGATCTATAGCGACGTTTTCCAAAAAGCACCGCTAATGCCACTAAGGCTCAACAAAA
AACGATGGCGTGTTGATGAATTATTTTGCGGCGTTTTTTAAAAAATGCCACTAATGCTCGATCTA
TAGGGCATTTTCAAAAGGCCG
Found at i:38955091 original size:139 final size:139
Alignment explanation
Indices: 38954841--38955092 Score: 398
Period size: 139 Copynumber: 1.8 Consensus size: 139
38954831 ATCATAAAGA
*
38954841 GCCGCTAAAGCTCGATCTATAGCGACGTTTTCCAAAAAACGCCGCTAATGCCACTATGGCTCAAC
1 GCCGCTAAAGCTCGATCTATAGCGACGTTTTCCAAAAAACGCCGCTAATGCCACTAAGGCTCAAC
* *
38954906 AAAAAACAACTGCGTGTTGATGAATTATTTTGTGGCATTTTTTAAAAAGCGTCGCTCATGCTCGA
66 AAAAAACAACGGCGTGTTGATGAATTATTTTGCGGCATTTTTTAAAAAGCGTCGCTCATGCTCGA
38954971 TCTATAGCG
131 TCTATAGCG
* * * *
38954980 GCCGCTAAAGCTCGATTTATAGCTG-TGTTTTCCGAAAAGCGCCGCTAATGCCACTAAGGCTCAA
1 GCCGCTAAAGCTCGATCTATAGC-GACGTTTTCCAAAAAACGCCGCTAATGCCACTAAGGCTCAA
** *
38955044 CAAAAAATGACGGCGTGTTGATGAATTATTTTGCGGCGTTTTTTAAAAA
65 CAAAAAACAACGGCGTGTTGATGAATTATTTTGCGGCATTTTTTAAAAA
38955093 ATGCTACTAA
Statistics
Matches: 102, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
139 101 0.99
140 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (139 bp):
GCCGCTAAAGCTCGATCTATAGCGACGTTTTCCAAAAAACGCCGCTAATGCCACTAAGGCTCAAC
AAAAAACAACGGCGTGTTGATGAATTATTTTGCGGCATTTTTTAAAAAGCGTCGCTCATGCTCGA
TCTATAGCG
Found at i:38955143 original size:40 final size:39
Alignment explanation
Indices: 38955099--38955209 Score: 123
Period size: 40 Copynumber: 2.8 Consensus size: 39
38955089 AAAAATGCTA
* * *
38955099 CTAATACTCGATCTATAGCGGCATTTTTCAAAAAGCGCCG
1 CTAATACTCGATCTATAGTGGCGTTTTTCAAAAA-CACCG
* * *
38955139 CTAATTCTCAATCTATAGTGGCGCTTTTCTAAAAACACCG
1 CTAATACTCGATCTATAGTGGCGTTTTTC-AAAAACACCG
** *
38955179 CTAATGTTTGATCTATAGTGGCGTTTTTCAA
1 CTAATACTCGATCTATAGTGGCGTTTTTCAA
38955210 TGCTTGATCT
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
39 2 0.03
40 52 0.88
41 5 0.08
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (39 bp):
CTAATACTCGATCTATAGTGGCGTTTTTCAAAAACACCG
Found at i:38955211 original size:27 final size:27
Alignment explanation
Indices: 38955181--38955233 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
38955171 AAACACCGCT
* * *
38955181 AATGTTTGATCTATAGTGGCGTTTTTC
1 AATGCTTGATCTATAGCGGCATTTTTC
38955208 AATGCTTGATCTATAGCGGCATTTTT
1 AATGCTTGATCTATAGCGGCATTTTT
38955234 TGTACAAACG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.21, T:0.45
Consensus pattern (27 bp):
AATGCTTGATCTATAGCGGCATTTTTC
Found at i:38958138 original size:46 final size:44
Alignment explanation
Indices: 38958062--38958203 Score: 140
Period size: 46 Copynumber: 3.1 Consensus size: 44
38958052 GCTACAATAT
* * * * *
38958062 AGTGGTAGCTTTGGCTACATCTCAGGGGTAGCTTCGGCTATATCTC
1 AGTGGTAGCTTCGGCTACAT-ACAGTGGTAGCTTTGGCTATAT-AC
*
38958108 AGTGGTAGCTTCGGCTACAATACAGTGGTAGCTTTGGCTACAATAC
1 AGTGGTAGCTTCGGCTAC-ATACAGTGGTAGCTTTGGCTA-TATAC
* * * *
38958154 AGTGGTAGCTTCGACTACGTTACAGTGATAGCTTTAGCTATATTAC
1 AGTGGTAGCTTCGGCTAC-ATACAGTGGTAGCTTTGGCTATA-TAC
38958200 AGTG
1 AGTG
38958204 TGGCACTTTG
Statistics
Matches: 81, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
45 1 0.01
46 76 0.94
47 4 0.05
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (44 bp):
AGTGGTAGCTTCGGCTACATACAGTGGTAGCTTTGGCTATATAC
Found at i:38958177 original size:23 final size:23
Alignment explanation
Indices: 38958052--38958187 Score: 141
Period size: 23 Copynumber: 5.9 Consensus size: 23
38958042 GAATCTATTA
* *
38958052 GCTACAATATAGTGGTAGCTTTG
1 GCTACAATACAGTGGTAGCTTCG
* *
38958075 GCTAC-ATCTCAGGGGTAGCTTCG
1 GCTACAAT-ACAGTGGTAGCTTCG
* *
38958098 GCTA-TATCTCAGTGGTAGCTTCG
1 GCTACAAT-ACAGTGGTAGCTTCG
*
38958121 GCTACAATACAGTGGTAGCTTTG
1 GCTACAATACAGTGGTAGCTTCG
38958144 GCTACAATACAGTGGTAGCTTCG
1 GCTACAATACAGTGGTAGCTTCG
* ** *
38958167 ACTACGTTACAGTGATAGCTT
1 GCTACAATACAGTGGTAGCTT
38958188 TAGCTATATT
Statistics
Matches: 97, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
22 2 0.02
23 93 0.96
24 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.31
Consensus pattern (23 bp):
GCTACAATACAGTGGTAGCTTCG
Found at i:38958180 original size:69 final size:69
Alignment explanation
Indices: 38958052--38958187 Score: 177
Period size: 69 Copynumber: 2.0 Consensus size: 69
38958042 GAATCTATTA
* * * * *
38958052 GCTACAATATAGTGGTAGCTTTGGCTACATCTCAGGGGTAGCTTCGGCTATATCTCAGTGGTAGC
1 GCTACAATACAGTGGTAGCTTTGGCTACATCACAGGGGTAGCTTCGACTACATCTCAGTGATAGC
38958117 TTCG
66 TTCG
* *
38958121 GCTACAATACAGTGGTAGCTTTGGCTACAAT-ACAGTGGTAGCTTCGACTACGT-TACAGTGATA
1 GCTACAATACAGTGGTAGCTTTGGCTAC-ATCACAGGGGTAGCTTCGACTACATCT-CAGTGATA
38958184 GCTT
64 GCTT
38958188 TAGCTATATT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
68 1 0.02
69 55 0.95
70 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.31
Consensus pattern (69 bp):
GCTACAATACAGTGGTAGCTTTGGCTACATCACAGGGGTAGCTTCGACTACATCTCAGTGATAGC
TTCG
Found at i:38958199 original size:23 final size:23
Alignment explanation
Indices: 38958049--38958203 Score: 118
Period size: 23 Copynumber: 6.7 Consensus size: 23
38958039 TAAGAATCTA
* *
38958049 TTAGCTACAATATAGTGGTAGCT
1 TTAGCTACATTACAGTGGTAGCT
* *
38958072 TTGGCTACATCT-CAGGGGTAGCT
1 TTAGCTACAT-TACAGTGGTAGCT
** *
38958095 TCGGCTATATCT-CAGTGGTAGCT
1 TTAGCTACAT-TACAGTGGTAGCT
** *
38958118 TCGGCTACAATACAGTGGTAGCT
1 TTAGCTACATTACAGTGGTAGCT
* *
38958141 TTGGCTACAATACAGTGGTAGC-
1 TTAGCTACATTACAGTGGTAGCT
* * *
38958163 TTCGACTACGTTACAGTGATAGCT
1 TTAG-CTACATTACAGTGGTAGCT
*
38958187 TTAGCTATATTACAGTG
1 TTAGCTACATTACAGTG
38958204 TGGCACTTTG
Statistics
Matches: 111, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
22 4 0.04
23 103 0.93
24 4 0.04
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (23 bp):
TTAGCTACATTACAGTGGTAGCT
Found at i:38958201 original size:69 final size:69
Alignment explanation
Indices: 38958051--38958203 Score: 175
Period size: 69 Copynumber: 2.2 Consensus size: 69
38958041 AGAATCTATT
* * * * *
38958051 AGCTACAATATAGTGGTAGCTTTGGCTACATCTCAGGGGTAGCTTCGGCTATATCTCAGTGGTAG
1 AGCTACAATACAGTGGTAGCTTTGGCTACATCACAGGGGTAGCTTCGACTACATCTCAGTGATAG
38958116 CTTC
66 CTTC
* * *
38958120 GGCTACAATACAGTGGTAGCTTTGGCTACAAT-ACAGTGGTAGCTTCGACTACGT-TACAGTGAT
1 AGCTACAATACAGTGGTAGCTTTGGCTAC-ATCACAGGGGTAGCTTCGACTACATCT-CAGTGAT
*
38958183 AGCTTT
64 AGCTTC
* *
38958189 AGCTATATTACAGTG
1 AGCTACAATACAGTG
38958204 TGGCACTTTG
Statistics
Matches: 70, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
68 1 0.01
69 67 0.96
70 2 0.03
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (69 bp):
AGCTACAATACAGTGGTAGCTTTGGCTACATCACAGGGGTAGCTTCGACTACATCTCAGTGATAG
CTTC
Found at i:38958269 original size:25 final size:25
Alignment explanation
Indices: 38958194--38958269 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
38958184 GCTTTAGCTA
38958194 TATTACAGTGTGGCACTTTGTGCCT
1 TATTACAGTGTGGCACTTTGTGCCT
* * * *
38958219 TATT-CCGTGT--TAGC-TT-CGACT
1 TATTACAGTGTGGCA-CTTTGTGCCT
38958240 ATATTACAGTGTGGCACTTTGTGCCT
1 -TATTACAGTGTGGCACTTTGTGCCT
38958266 TATT
1 TATT
38958270 CCGTGTATCC
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
21 3 0.08
22 7 0.19
23 6 0.17
24 6 0.17
25 11 0.31
26 3 0.08
ACGTcount: A:0.17, C:0.20, G:0.21, T:0.42
Consensus pattern (25 bp):
TATTACAGTGTGGCACTTTGTGCCT
Found at i:38958690 original size:36 final size:36
Alignment explanation
Indices: 38958650--38958724 Score: 132
Period size: 36 Copynumber: 2.1 Consensus size: 36
38958640 ATGAGATATG
38958650 AAATTAAAGGTCATTGAGTCTATTTTCATAGAAAGA
1 AAATTAAAGGTCATTGAGTCTATTTTCATAGAAAGA
**
38958686 AAATTAAATTTCATTGAGTCTATTTTCATAGAAAGA
1 AAATTAAAGGTCATTGAGTCTATTTTCATAGAAAGA
38958722 AAA
1 AAA
38958725 CGGTGTGAGC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (36 bp):
AAATTAAAGGTCATTGAGTCTATTTTCATAGAAAGA
Found at i:38964207 original size:27 final size:27
Alignment explanation
Indices: 38964118--38964354 Score: 227
Period size: 27 Copynumber: 8.9 Consensus size: 27
38964108 GATACCCCAA
* * *
38964118 TTGTAAAATTAC-CAAATTACCCCCGGT
1 TTGTAAAATTACTGAAA-TACCCTCGAT
* * ** *
38964145 TTATAAAATTACCGAAATACTGTTGA-
1 TTGTAAAATTACTGAAATACCCTCGAT
* *
38964171 TTGTAAAATTATTGAAATACCCTCGAC
1 TTGTAAAATTACTGAAATACCCTCGAT
* *
38964198 TTGTAAAATTAC-CAAAGTACCC-CCAGT
1 TTGTAAAATTACTGAAA-TACCCTCGA-T
* * *
38964225 TTATAAAATTACCGAAATACCGTCGA-
1 TTGTAAAATTACTGAAATACCCTCGAT
38964251 TTGTAAAATTACTGAAATACCCTCGAT
1 TTGTAAAATTACTGAAATACCCTCGAT
38964278 TTGTAAAATTA-TCGAAATACCCTC-AGT
1 TTGTAAAATTACT-GAAATACCCTCGA-T
* *
38964305 TTGCAAAATTACTGAAATACCCTCAAT
1 TTGTAAAATTACTGAAATACCCTCGAT
38964332 TTGTAAAATTACTGAAATACCCT
1 TTGTAAAATTACTGAAATACCCT
38964355 TGTAGGGTAG
Statistics
Matches: 173, Mismatches: 26, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
26 50 0.29
27 113 0.65
28 10 0.06
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (27 bp):
TTGTAAAATTACTGAAATACCCTCGAT
Found at i:38964213 original size:80 final size:79
Alignment explanation
Indices: 38964109--38964354 Score: 325
Period size: 80 Copynumber: 3.1 Consensus size: 79
38964099 AATTATTGGG
* * *
38964109 ATACCC-C-AATTGTAAAATTACCAAATTACCCCCGGTTTATAAAATTACCGAAATACTGTTGAT
1 ATACCCTCGAATTGTAAAATTACCAAA-TACCCCCAGTTTATAAAATTACCGAAATACCGTCGAT
*
38964172 TGTAAAATTATTGAA
65 TGTAAAATTACTGAA
*
38964187 ATACCCTCGACTTGTAAAATTACCAAAGTACCCCCAGTTTATAAAATTACCGAAATACCGTCGAT
1 ATACCCTCGAATTGTAAAATTACCAAA-TACCCCCAGTTTATAAAATTACCGAAATACCGTCGAT
38964252 TGTAAAATTACTGAA
65 TGTAAAATTACTGAA
* * * ** * * *
38964267 ATACCCTCGATTTGTAAAATTATCGAAATACCCTCAGTTTGCAAAATTACTGAAATACCCTCAAT
1 ATACCCTCGAATTGTAAAATTA-CCAAATACCCCCAGTTTATAAAATTACCGAAATACCGTCGA-
38964332 TTGTAAAATTACTGAA
64 TTGTAAAATTACTGAA
38964348 ATACCCT
1 ATACCCT
38964355 TGTAGGGTAG
Statistics
Matches: 150, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
78 6 0.04
79 1 0.01
80 116 0.77
81 27 0.18
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (79 bp):
ATACCCTCGAATTGTAAAATTACCAAATACCCCCAGTTTATAAAATTACCGAAATACCGTCGATT
GTAAAATTACTGAA
Found at i:38964369 original size:54 final size:54
Alignment explanation
Indices: 38964311--38964693 Score: 466
Period size: 54 Copynumber: 7.1 Consensus size: 54
38964301 CAGTTTGCAA
* ** * *
38964311 AATTACTGAAATACCCTCAAT-TTGTAAAATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCC-CTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
* ** *
38964365 AATTACTAAAATACCATTATAGGGTAGAATTACCAAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
* * * *
38964419 AAATACCGAAATACCCCTGTA-GGTAGAATTACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
* * *
38964472 AATTACTAAAATACCCCTATAGGGTAGAATTATCGAAATACCCTTGTAGGGTAA
1 AATTACTGAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
* ** * * *
38964526 AAATA-TCGAAATACCTTTGTAGGGTAGAAATACCAAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
* * * *
38964580 AATTACTGAAATACCCCTATAAGGTAGAATTACAGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
* * *
38964634 AATTACTGAAATACCCCTATAGGGTAGAATTACCGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
38964688 AATTAC
1 AATTAC
38964694 CATTTTACCC
Statistics
Matches: 275, Mismatches: 50, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
53 50 0.18
54 224 0.81
55 1 0.00
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.26
Consensus pattern (54 bp):
AATTACTGAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
Found at i:38964694 original size:27 final size:27
Alignment explanation
Indices: 38964338--38964694 Score: 410
Period size: 27 Copynumber: 13.3 Consensus size: 27
38964328 CAATTTGTAA
*
38964338 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
** * *
38964365 AATTACTAAAATACCATTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
38964392 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
38964419 AAATACCGAAATACCCCTGTA-GGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
38964445 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
** * *
38964472 AATTACTAAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
38964499 AATTATCGAAATACCCTTGTAGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
38964526 AAATATCGAAATACCTTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
38964553 AAATACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * * *
38964580 AATTACTGAAATACCCCTATAAGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
38964607 AATTACAGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
38964634 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
38964661 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
38964688 AATTACC
1 AATTACC
38964695 ATTTTACCCC
Statistics
Matches: 289, Mismatches: 40, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
26 25 0.09
27 264 0.91
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:38965300 original size:6 final size:6
Alignment explanation
Indices: 38965289--38965363 Score: 73
Period size: 6 Copynumber: 12.3 Consensus size: 6
38965279 TTGCGTTCAC
* *
38965289 ATTCTG ATTCTG ATTCT- ATTACCTG ATACTA ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
38965338 ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
38965364 AATGTTTCTT
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
5 4 0.07
6 47 0.84
7 3 0.05
8 2 0.04
ACGTcount: A:0.21, C:0.17, G:0.12, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:38967929 original size:29 final size:29
Alignment explanation
Indices: 38967872--38967973 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 29
38967862 TACCTGTATC
* *
38967872 TGGCCCATTAAGCCC-AATCATATTTATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
* *
38967900 TGGCCCATTAGGCCCAAATCACCTATATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
*
38967929 TGGCCCATTAGGCCCAAATAACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
*
38967958 TGGCCCGTTAGGCCCA
1 TGGCCCATTAGGCCCA
38967974 GTCACACTCA
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
28 14 0.22
29 51 0.78
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.26
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTTATA
Found at i:38967933 original size:57 final size:58
Alignment explanation
Indices: 38967863--38967973 Score: 161
Period size: 58 Copynumber: 1.9 Consensus size: 58
38967853 AAATTCACAT
* * * *
38967863 ACCTGTATCTGGCCCATTAAGCCC-AATCATATTTATATGGCCCATTAGGCCCAAATC
1 ACCTATATATGGCCCATTAAGCCCAAATAACATTTATATGGCCCATTAGGCCCAAATC
* *
38967920 ACCTATATATGGCCCATTAGGCCCAAATAACATTTATATGGCCCGTTAGGCCCA
1 ACCTATATATGGCCCATTAAGCCCAAATAACATTTATATGGCCCATTAGGCCCA
38967974 GTCACACTCA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 21 0.45
58 26 0.55
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (58 bp):
ACCTATATATGGCCCATTAAGCCCAAATAACATTTATATGGCCCATTAGGCCCAAATC
Found at i:38968217 original size:16 final size:16
Alignment explanation
Indices: 38968196--38968239 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
38968186 GTAGTCAAAC
*
38968196 TTTCAGCTTTTCAGTA
1 TTTCAGCTTTTCAGCA
* *
38968212 TTTCAGCATTTCGGCA
1 TTTCAGCTTTTCAGCA
*
38968228 TTTCGGCTTTTC
1 TTTCAGCTTTTC
38968240 CCGATTCATA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.14, C:0.23, G:0.16, T:0.48
Consensus pattern (16 bp):
TTTCAGCTTTTCAGCA
Found at i:38974860 original size:29 final size:28
Alignment explanation
Indices: 38974797--38974911 Score: 106
Period size: 29 Copynumber: 4.0 Consensus size: 28
38974787 TTCACATACC
* * *
38974797 TGTATCTGGCCCATTAAGCCCAATCATA
1 TGTATATGGCCCATTAGGCCCAATCACA
* * *
38974825 TTTATATGGCCTATTAGGCCCAAATCACC
1 TGTATATGGCCCATTAGGCCC-AATCACA
*
38974854 TGTATATGGCCCATTAGGCTCGAATCACA
1 TGTATATGGCCCATTAGGC-CCAATCACA
* * *
38974883 TTTATATGGCCCGTGT-GGCCCAGTCACA
1 TGTATATGGCCCAT-TAGGCCCAATCACA
38974911 T
1 T
38974912 TCATATTCAT
Statistics
Matches: 70, Mismatches: 14, Indels: 6
0.78 0.16 0.07
Matches are distributed among these distances:
28 25 0.36
29 43 0.61
30 2 0.03
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (28 bp):
TGTATATGGCCCATTAGGCCCAATCACA
Found at i:38977703 original size:38 final size:38
Alignment explanation
Indices: 38977610--38977705 Score: 106
Period size: 38 Copynumber: 2.5 Consensus size: 38
38977600 GATGGGGGTA
* *
38977610 ATTTGCTCAACACTTCAAAGCTTCAAGATGGTGGCAAG
1 ATTTGCTCAACACTTCAAAGCATCAAGATGGTGGAAAG
* * *
38977648 A-TTCCTTTAACACTTCAAAGCATCAATATGGAT-GAAAG
1 ATTTGC-TCAACACTTCAAAGCATCAAGATGG-TGGAAAG
*
38977686 ATTTGCTCAACATTTCAAAG
1 ATTTGCTCAACACTTCAAAG
38977706 ATTCGAGGAG
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
37 3 0.06
38 40 0.85
39 4 0.09
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (38 bp):
ATTTGCTCAACACTTCAAAGCATCAAGATGGTGGAAAG
Found at i:38980800 original size:18 final size:19
Alignment explanation
Indices: 38980777--38980812 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
38980767 GGCTCAGAAT
*
38980777 CCCACACG-CCCATGTGGA
1 CCCACACGACCCAGGTGGA
38980795 CCCACACGACCCAGGTGG
1 CCCACACGACCCAGGTGG
38980813 TCGATCTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.22, C:0.44, G:0.25, T:0.08
Consensus pattern (19 bp):
CCCACACGACCCAGGTGGA
Found at i:38982188 original size:24 final size:24
Alignment explanation
Indices: 38982160--38982209 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
38982150 AATATTAATT
*
38982160 ATTTATAATATTTAATTAGATTAA
1 ATTTATAAAATTTAATTAGATTAA
*
38982184 ATTTATAAAATTTAATTATATTAA
1 ATTTATAAAATTTAATTAGATTAA
38982208 AT
1 AT
38982210 AAACTATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
ATTTATAAAATTTAATTAGATTAA
Found at i:38982220 original size:24 final size:24
Alignment explanation
Indices: 38982164--38982234 Score: 65
Period size: 24 Copynumber: 3.0 Consensus size: 24
38982154 TTAATTATTT
* **
38982164 ATAATATTTAATTAGATTAAATTT
1 ATAATATTTAATTATATTAAATAA
*
38982188 ATAAAATTTAATTATATTAAATAA
1 ATAATATTTAATTATATTAAATAA
*
38982212 ACT-ATATTTTAAATAT-TTAAATA
1 A-TAATA-TTTAATTATATTAAATA
38982235 TAACCATTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
24 30 0.77
25 9 0.23
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (24 bp):
ATAATATTTAATTATATTAAATAA
Found at i:38985980 original size:25 final size:26
Alignment explanation
Indices: 38985946--38985994 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
38985936 TTCCAAGCAA
* *
38985946 AATAATAAGA-AAATAGATAAAAATG
1 AATAAGAAGATAAAGAGATAAAAATG
38985971 AATAAGAAGATAAAGAGATAAAAA
1 AATAAGAAGATAAAGAGATAAAAA
38985995 AATAGAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.16
Consensus pattern (26 bp):
AATAAGAAGATAAAGAGATAAAAATG
Found at i:38986003 original size:25 final size:23
Alignment explanation
Indices: 38985944--38986003 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 23
38985934 GTTTCCAAGC
* *
38985944 AAAATAATAAGAAAATAGATAAA
1 AAAATAAGAAGAAAAGAGATAAA
38985967 AATGAATAAGAAGATAAAGAGATAAA
1 AA--AATAAGAAGA-AAAGAGATAAA
38985993 AAAATAGAGAA
1 AAAATA-AGAA
38986004 ACAACCGACA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
23 2 0.06
24 4 0.13
25 13 0.42
26 12 0.39
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (23 bp):
AAAATAAGAAGAAAAGAGATAAA
Found at i:38986046 original size:5 final size:5
Alignment explanation
Indices: 38986036--38986209 Score: 76
Period size: 5 Copynumber: 32.8 Consensus size: 5
38986026 TAGAGTGCAT
*
38986036 AATAA AATAA AATAA AATAA AATAA AACTAAA AACTAA AA-AA ACTAA
1 AATAA AATAA AATAA AATAA AATAA AA-T-AA AA-TAA AATAA AATAA
* * *
38986083 AA-AA CAA-AA AA-AA AACAA AA-AA ACAAAA AATAAA AGACAA AAGTAA
1 AATAA -AATAA AATAA AATAA AATAA A-ATAA AAT-AA A-ATAA AA-TAA
* *
38986129 AA-AA CA-AA AATAA AAGTAA AAGTAA AAGTAA AAGTGAA AGTAA AATTAAA
1 AATAA AATAA AATAA AA-TAA AA-TAA AA-TAA AA-T-AA AATAA AA-T-AA
38986179 AATTAA AA-ATA AATAA AATATA AATAA AATA
1 AA-TAA AATA-A AATAA AATA-A AATAA AATA
38986210 TAAAACTAAA
Statistics
Matches: 142, Mismatches: 9, Indels: 36
0.76 0.05 0.19
Matches are distributed among these distances:
4 21 0.15
5 56 0.39
6 49 0.35
7 16 0.11
ACGTcount: A:0.76, C:0.05, G:0.05, T:0.15
Consensus pattern (5 bp):
AATAA
Found at i:38986091 original size:7 final size:7
Alignment explanation
Indices: 38986059--38986138 Score: 58
Period size: 7 Copynumber: 11.4 Consensus size: 7
38986049 AAAATAAAAT
*
38986059 AAAACTA
1 AAAACAA
38986066 AAAACTAAA
1 AAAAC--AA
38986075 AAAACTAA
1 AAAAC-AA
38986083 AAAACAA
1 AAAACAA
38986090 AAAA-AA
1 AAAACAA
*
38986096 AACA-AA
1 AAAACAA
38986102 AAAACAA
1 AAAACAA
*
38986109 AAAATAA
1 AAAACAA
*
38986116 AAGAC-A
1 AAAACAA
**
38986122 AAAGTAA
1 AAAACAA
38986129 AAAACAA
1 AAAACAA
38986136 AAA
1 AAA
38986139 TAAAAGTAAA
Statistics
Matches: 57, Mismatches: 12, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
6 13 0.23
7 31 0.54
8 7 0.12
9 6 0.11
ACGTcount: A:0.81, C:0.10, G:0.03, T:0.06
Consensus pattern (7 bp):
AAAACAA
Found at i:38986124 original size:19 final size:19
Alignment explanation
Indices: 38986072--38986117 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
38986062 ACTAAAAACT
*
38986072 AAAAAAACTAAAAAACAAA
1 AAAAAAACAAAAAAACAAA
38986091 AAAAAAACAAAAAAACAAA
1 AAAAAAACAAAAAAACAAA
38986110 AAATAAAA
1 AAA-AAAA
38986118 GACAAAAGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 21 0.84
20 4 0.16
ACGTcount: A:0.87, C:0.09, G:0.00, T:0.04
Consensus pattern (19 bp):
AAAAAAACAAAAAAACAAA
Found at i:38986138 original size:8 final size:8
Alignment explanation
Indices: 38986065--38986112 Score: 51
Period size: 8 Copynumber: 5.5 Consensus size: 8
38986055 AAATAAAACT
38986065 AAAAACTAA
1 AAAAAC-AA
38986074 AAAAACTAAA
1 AAAAAC--AA
*
38986084 AAACAAAAA
1 AAA-AACAA
38986093 AAAAACAA
1 AAAAACAA
38986101 AAAAACAA
1 AAAAACAA
38986109 AAAA
1 AAAA
38986113 TAAAAGACAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
8 16 0.47
9 11 0.32
10 5 0.15
11 2 0.06
ACGTcount: A:0.85, C:0.10, G:0.00, T:0.04
Consensus pattern (8 bp):
AAAAACAA
Found at i:38986191 original size:6 final size:6
Alignment explanation
Indices: 38986039--38986219 Score: 72
Period size: 6 Copynumber: 30.3 Consensus size: 6
38986029 AGTGCATAAT
* **
38986039 AAAAT- AAAAT- AAAAT- AAAATA AAACTA AAAACTA AAAA-A ACTA-A
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAA-TA AAAATA AAAATA
* * * * * * *
38986083 AAAACA AAAAAA AAACAAA AAAACAA AAAATA AAAGACA AAAGTAA AAAACA
1 AAAATA AAAATA AAA-ATA AAAA-TA AAAATA AAA-ATA AAAAT-A AAAATA
* * * * * * *
38986135 AAAATA AAAGTA AAAGTA AAAGTA AAAGTG AAAGTA AAATTA AAAATTA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAA-TA
* *
38986184 AAAAT- -AAAT- AAAATA TAAATA AAATATA AAACTA AA
1 AAAATA AAAATA AAAATA AAAATA AAA-ATA AAAATA AA
38986220 TTAAATGACT
Statistics
Matches: 143, Mismatches: 22, Indels: 21
0.77 0.12 0.11
Matches are distributed among these distances:
4 4 0.03
5 25 0.17
6 75 0.52
7 39 0.27
ACGTcount: A:0.76, C:0.05, G:0.04, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:38986210 original size:11 final size:11
Alignment explanation
Indices: 38986182--38986213 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
38986172 AATTAAAAAT
38986182 TAAAA-ATAAA
1 TAAAATATAAA
38986192 TAAAATATAAA
1 TAAAATATAAA
38986203 TAAAATATAAA
1 TAAAATATAAA
38986214 ACTAAATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.24
11 16 0.76
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (11 bp):
TAAAATATAAA
Found at i:38988542 original size:29 final size:29
Alignment explanation
Indices: 38988510--38988829 Score: 288
Period size: 29 Copynumber: 11.0 Consensus size: 29
38988500 TTGATTGTCG
*
38988510 ACTATGAAAAGGGATGGTAACGACCATCA
1 ACTATGAAAAGGGATGGTGACGACCATCA
* * *
38988539 ACTATGAAAAGGGTTGGTGATGACCATTGA
1 ACTATGAAAAGGGATGGTGACGACCA-TCA
* ** * * *
38988569 A-TATGAAACA-GGATAGTTTCAACTATCG
1 ACTATGAAA-AGGGATGGTGACGACCATCA
38988597 ACTATGAAAAGGGATGGTGACGACCATCA
1 ACTATGAAAAGGGATGGTGACGACCATCA
*
38988626 ACTATGAAAAGGGATGGTGACAACCATCGA
1 ACTATGAAAAGGGATGGTGACGACCATC-A
* * ** * *
38988656 A-TATGAAAAGAGATAGTTTCGACTATCG
1 ACTATGAAAAGGGATGGTGACGACCATCA
* *
38988684 ACTGTGAAAAGGGATGGTGATGACCATCA
1 ACTATGAAAAGGGATGGTGACGACCATCA
* *
38988713 ACTATGAAAAGGGATGGTGACGAACATCG
1 ACTATGAAAAGGGATGGTGACGACCATCA
* * * ** *
38988742 ATTAATGAAAATGGATGATTTCAACCATCGA
1 ACT-ATGAAAAGGGATGGTGACGACCATC-A
*
38988773 A-TATAAAAAGGGATGGTGACGACCATCA
1 ACTATGAAAAGGGATGGTGACGACCATCA
* *
38988801 AATATGAAAAAGGGATGGTTACGACCATC
1 ACTATG-AAAAGGGATGGTGACGACCATC
38988830 GTTTAGCACA
Statistics
Matches: 226, Mismatches: 55, Indels: 19
0.75 0.18 0.06
Matches are distributed among these distances:
28 6 0.03
29 172 0.76
30 47 0.21
31 1 0.00
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.22
Consensus pattern (29 bp):
ACTATGAAAAGGGATGGTGACGACCATCA
Found at i:38988638 original size:87 final size:86
Alignment explanation
Indices: 38988507--38988830 Score: 452
Period size: 87 Copynumber: 3.7 Consensus size: 86
38988497 GCTTTGATTG
* * * *
38988507 TCGACTATGAAAAGGGATGGTAACGACCATCAACTATGAAAAGGGTTGGTGATGACCATTGAATA
1 TCGACTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACGACCATCGAATA
38988572 TGAAACAGGATAGTTTCAACTA
66 TGAAA-AGGATAGTTTCAACTA
*
38988594 TCGACTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACAACCATCGAATA
1 TCGACTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACGACCATCGAATA
*
38988659 TGAAAAGAGATAGTTTCGACTA
66 TGAAAAG-GATAGTTTCAACTA
* * * *
38988681 TCGACTGTGAAAAGGGATGGTGATGACCATCAACTATGAAAAGGGATGGTGACGAACATCGATTA
1 TCGACTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACGACCATCGAAT-
*
38988746 ATGAAAATGGAT-GATTTCAACCA
65 ATGAAAA-GGATAG-TTTCAACTA
* * * *
38988769 TCGAATATAAAAAGGGATGGTGACGACCATCAAATATGAAAAAGGGATGGTTACGACCATCG
1 TCGACTATGAAAAGGGATGGTGACGACCATCAACTATG-AAAAGGGATGGTGACGACCATCG
38988831 TTTAGCACAC
Statistics
Matches: 212, Mismatches: 20, Indels: 8
0.88 0.08 0.03
Matches are distributed among these distances:
86 2 0.01
87 138 0.65
88 50 0.24
89 22 0.10
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.22
Consensus pattern (86 bp):
TCGACTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACGACCATCGAATA
TGAAAAGGATAGTTTCAACTA
Found at i:38996856 original size:31 final size:31
Alignment explanation
Indices: 38996818--38996881 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
38996808 TACTTGGGTA
38996818 TAGCTAGTCTAATCATTTTGAGTATGACATG
1 TAGCTAGTCTAATCATTTTGAGTATGACATG
38996849 TAGCTAGTCTAATCATTTTGAGTATGACATG
1 TAGCTAGTCTAATCATTTTGAGTATGACATG
38996880 TA
1 TA
38996882 TAGGGACTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (31 bp):
TAGCTAGTCTAATCATTTTGAGTATGACATG
Found at i:39005293 original size:56 final size:56
Alignment explanation
Indices: 39005207--39005326 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
39005197 ACAAGGGATG
39005207 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
39005263 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
39005319 ATGGGCAA
1 ATGGGCAA
39005327 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:39006883 original size:47 final size:47
Alignment explanation
Indices: 39006776--39007320 Score: 809
Period size: 47 Copynumber: 11.6 Consensus size: 47
39006766 TATTTGAATA
*
39006776 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC-ATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
39006822 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
39006869 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
39006918 AATGTGAAAGTGTATATATGTGATAAGG-CGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
39006964 AATGTGAAAGTGTATATATATGTGATAAGGCC-AATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
39007012 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
39007059 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
39007106 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
39007153 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
39007200 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
39007247 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
39007294 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
39007321 TCCCGAAGGG
Statistics
Matches: 470, Mismatches: 20, Indels: 17
0.93 0.04 0.03
Matches are distributed among these distances:
46 84 0.18
47 295 0.63
48 42 0.09
49 49 0.10
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:39007198 original size:22 final size:22
Alignment explanation
Indices: 39007171--39007292 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
39007161 CATGTGTATG
39007171 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
39007193 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
39007218 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
39007240 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
39007265 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
39007287 TGTGAT
1 TGTGAT
39007293 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:39009661 original size:40 final size:39
Alignment explanation
Indices: 39009616--39009720 Score: 129
Period size: 39 Copynumber: 2.6 Consensus size: 39
39009606 AAGTGACCAT
* *
39009616 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGACTAAG-CCCGAAGGCATTGGTGCGAGTTACTAA
* *
39009656 TTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 ATCCGGACTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
**
39009695 ATCCGGGTTAAGTCCCGAAGAGCATT
1 ATCCGGACTAAG-CCCGAAG-GCATT
39009721 CATGCTAGTG
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
39 35 0.61
40 17 0.30
41 5 0.09
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.24
Consensus pattern (39 bp):
ATCCGGACTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
Found at i:39009678 original size:39 final size:40
Alignment explanation
Indices: 39009577--39009720 Score: 161
Period size: 40 Copynumber: 3.6 Consensus size: 40
39009567 TCGAATGATG
* * *
39009577 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
39009616 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
39009657 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
39009696 TCCGGGTTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAG-GCATT
39009721 CATGCTAGTG
Statistics
Matches: 90, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
39 35 0.39
40 40 0.44
41 15 0.17
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:39009747 original size:40 final size:40
Alignment explanation
Indices: 39009695--39010011 Score: 436
Period size: 40 Copynumber: 7.9 Consensus size: 40
39009685 GAGTTACTAA
*
39009695 ATCCGGGTTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* *
39009735 ATCTGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
*
39009775 ATCCGGGTTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * *
39009815 ATCTGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
*
39009855 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * * *
39009895 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGTTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* ** * * * *
39009935 ATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * *
39009975 ATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
39010012 CGTGTATTCG
Statistics
Matches: 248, Mismatches: 29, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 248 1.00
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
Found at i:39009833 original size:120 final size:120
Alignment explanation
Indices: 39009577--39010011 Score: 468
Period size: 120 Copynumber: 3.6 Consensus size: 120
39009567 TCGAATGATG
* ** * *
39009577 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAG-GCA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TGTATCCGGGCTAAGTTCCGAAGAGCA
** * * * ** * * *
39009639 TTTGTGCGAGTTACT-AATTCCGGGCTAAG-CCCGAAG-GCATTGGTGCGAGTTACTAAA
64 TTCATGCTAGTGA-TGTA-TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA-TATA
* * *
39009696 TCCGGGTTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCTGGGCTAAGTTCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
* *
39009761 CATGCTAGTGATGTATCCGGGTTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
66 CATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* *
39009816 TCTGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
* * *
39009881 CATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGTTAGTGATATA
66 CATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* ** * * * * * *
39009936 TCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAGGTCCCGAAGAGCAAT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
*
39010001 CATGCTGGTGA
66 CATGCTAGTGA
39010012 CGTGTATTCG
Statistics
Matches: 268, Mismatches: 42, Indels: 11
0.83 0.13 0.03
Matches are distributed among these distances:
119 47 0.18
120 203 0.76
121 18 0.07
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
CATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:39011364 original size:56 final size:56
Alignment explanation
Indices: 39011278--39011397 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
39011268 ACAAGGGATG
39011278 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
39011334 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
39011390 ATGGGCAA
1 ATGGGCAA
39011398 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:39015760 original size:21 final size:20
Alignment explanation
Indices: 39015727--39015766 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
39015717 ATAAATTTAA
39015727 AAAGAAAAAGAGAGTGAGAG
1 AAAGAAAAAGAGAGTGAGAG
*
39015747 AAAGAAAAATGAGATTGAGA
1 AAAGAAAAA-GAGAGTGAGA
39015767 TTGAAAAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.60, C:0.00, G:0.30, T:0.10
Consensus pattern (20 bp):
AAAGAAAAAGAGAGTGAGAG
Found at i:39017870 original size:3 final size:3
Alignment explanation
Indices: 39017862--39017909 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
39017852 ACTACCAGCC
*
39017862 ATT ATT ATT ATT ATT ATT ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
39017910 TTCTTTTAGC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:39018733 original size:21 final size:20
Alignment explanation
Indices: 39018681--39018739 Score: 68
Period size: 18 Copynumber: 3.0 Consensus size: 20
39018671 TGAAAAAAAT
* *
39018681 GAAAGAAAAAGAAATTGA-A
1 GAAAGAAAAAGAGAGTGAGA
39018700 -AAAGAAAAAGAGAGTGAGA
1 GAAAGAAAAAGAGAGTGAGA
*
39018719 GAAAGAAAAACGAGATTGAGA
1 GAAAGAAAAA-GAGAGTGAGA
39018740 TTGAAAAAGC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 15 0.44
19 1 0.03
20 9 0.26
21 9 0.26
ACGTcount: A:0.63, C:0.02, G:0.27, T:0.08
Consensus pattern (20 bp):
GAAAGAAAAAGAGAGTGAGA
Found at i:39020514 original size:31 final size:31
Alignment explanation
Indices: 39020449--39020517 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 31
39020439 AACTTAATTT
*
39020449 CAGCTCAACGAGCTCAATCTTGGATTTTGCC
1 CAGCTCAACGAGCTCAATCTTGGATTATGCC
* *
39020480 CAGCTCAATGGAGCTCAAT-TTGGCTTGATG-C
1 CAGCTCAA-CGAGCTCAATCTTGGATT-ATGCC
39020511 CAGCTCA
1 CAGCTCA
39020518 TTGAGTTTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 22 0.67
32 11 0.33
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.28
Consensus pattern (31 bp):
CAGCTCAACGAGCTCAATCTTGGATTATGCC
Found at i:39026510 original size:20 final size:20
Alignment explanation
Indices: 39026485--39026523 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
39026475 AAAATTTCAA
39026485 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
39026505 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
39026524 AATTGCCCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:39031058 original size:16 final size:16
Alignment explanation
Indices: 39031037--39031068 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
39031027 AATTGAGTTG
*
39031037 AGAAAATTATTTAATT
1 AGAAAATTAATTAATT
39031053 AGAAAATTAATTAATT
1 AGAAAATTAATTAATT
39031069 TAAATTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (16 bp):
AGAAAATTAATTAATT
Found at i:39034073 original size:27 final size:25
Alignment explanation
Indices: 39034038--39034087 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 25
39034028 AAAACACTAA
39034038 TTTTCGTAA-AAGTAAGCCTTTGTGAT
1 TTTTCGTAAGAAGT--GCCTTTGTGAT
39034064 TTTTCCGTAAGAAGTGCCTTTGTG
1 TTTT-CGTAAGAAGTGCCTTTGTG
39034088 GAAAATCTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 13 0.59
27 5 0.23
28 4 0.18
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.42
Consensus pattern (25 bp):
TTTTCGTAAGAAGTGCCTTTGTGAT
Found at i:39034168 original size:26 final size:27
Alignment explanation
Indices: 39034065--39034168 Score: 63
Period size: 29 Copynumber: 3.8 Consensus size: 27
39034055 CTTTGTGATT
*
39034065 TTTCCGTAA-GAAGTGCCTTTGTGGAAAA
1 TTTCTGTAAGGAAG-GCCTTTGTGG-AAA
* * * * *
39034093 TCTCTGATAACGAATGCATTTGTGGTAA
1 TTTCTG-TAAGGAAGGCCTTTGTGGAAA
* *
39034121 --TCTGTAAGGGAACTGCCTTTGTGGCAA
1 TTTCTGTAA-GGAA-GGCCTTTGTGGAAA
39034148 TTTCTGTAA-GAAGGCCTTTGT
1 TTTCTGTAAGGAAGGCCTTTGT
39034169 AACAAAATCT
Statistics
Matches: 61, Mismatches: 9, Indels: 14
0.73 0.11 0.17
Matches are distributed among these distances:
25 3 0.05
26 15 0.25
27 15 0.25
28 6 0.10
29 19 0.31
30 3 0.05
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (27 bp):
TTTCTGTAAGGAAGGCCTTTGTGGAAA
Found at i:39037680 original size:13 final size:12
Alignment explanation
Indices: 39037644--39037682 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
39037634 GGTTTTCTCC
*
39037644 AAAATGAAAATG
1 AAAATGAAAATA
39037656 AAAATGAGAAATA
1 AAAATGA-AAATA
39037669 AAACATGAAAATA
1 AAA-ATGAAAATA
39037682 A
1 A
39037683 CCTAAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 7 0.29
13 13 0.54
14 4 0.17
ACGTcount: A:0.69, C:0.03, G:0.13, T:0.15
Consensus pattern (12 bp):
AAAATGAAAATA
Found at i:39045803 original size:80 final size:78
Alignment explanation
Indices: 39045719--39045890 Score: 222
Period size: 79 Copynumber: 2.2 Consensus size: 78
39045709 GGACTAAGAT
*
39045719 CCGAAGGCATTTGTGCGAG-A-TACAAGTTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATAC
1 CCGAAGGCATTTGTGCGAGCATTA-AA--TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATAC
* *
39045782 TAAATCCGGGTTATGTC
62 TAAAACCGGGCTATGTC
* * * *
39045799 CCGAAGGCATTCGTGCGAGTCATTAAATCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAG-CATTAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
39045864 AACCGGGCTATGTC
65 AACCGGGCTATGTC
39045878 CCGAAGGCATTTG
1 CCGAAGGCATTTG
39045891 AACTAGGAGC
Statistics
Matches: 81, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
79 39 0.48
80 37 0.46
82 3 0.04
83 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGCATTAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
ACCGGGCTATGTC
Found at i:39045826 original size:40 final size:38
Alignment explanation
Indices: 39045666--39045888 Score: 189
Period size: 40 Copynumber: 5.6 Consensus size: 38
39045656 TTGAATGCTG
* * * * *
39045666 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGT-ACTAAA
** *
39045706 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAG-TACTAA-A
* *
39045746 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAG-TACTAAA
* *
39045786 TCCGGGTTATGTCCCGAAGGCATTCGTGCGAGTCATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGT-ACTAAA
*
39045826 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAG-TACTAAA
* * *
39045865 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
39045889 TGAACTAGGA
Statistics
Matches: 152, Mismatches: 21, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
39 37 0.24
40 104 0.68
41 11 0.07
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTACTAAA
Found at i:39045908 original size:79 final size:80
Alignment explanation
Indices: 39045746--39045923 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
39045736 AGATACAAGT
* * * *
39045746 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTATGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTATGTCCCGAAGGCATTC
** *
39045811 GTGCGAGTCATTAAA
66 GAACGAGTCACTAAA
* * *
39045826 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTATGTCCCGAAGGCATTC
* * *
39045890 GAACTAG-GAGCTATA
66 GAACGAGTCA-CTAAA
*
39045905 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
39045924 TATGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTATGTCCCGAAGGCATTC
GAACGAGTCACTAAA
Found at i:39053382 original size:80 final size:78
Alignment explanation
Indices: 39053298--39053469 Score: 213
Period size: 79 Copynumber: 2.2 Consensus size: 78
39053288 GGACTAAGAT
*
39053298 CCGAAGGCATTTGTGCGAG-A-TACAAGTTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATAC
1 CCGAAGGCATTTGTGCGAGCATTA-AA--TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATAC
* *
39053361 TAAATCCGGGTTAAGTC
62 TAAAACCGGGCTAAGTC
* * * *
39053378 CCGAAGGCATTCGTGCGAGTCATTAAATCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAG-CATTAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
39053443 AACCGGGCTATGTC
65 AACCGGGCTAAGTC
39053457 CCGAAGGCATTTG
1 CCGAAGGCATTTG
39053470 AACGAGGAGC
Statistics
Matches: 80, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
79 38 0.47
80 37 0.46
82 3 0.04
83 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGCATTAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
ACCGGGCTAAGTC
Found at i:39053460 original size:39 final size:39
Alignment explanation
Indices: 39053245--39053467 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
39053235 TTGAATGCTG
* * * * * *
39053245 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
39053285 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAA-A
* * *
39053325 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
* *
39053365 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
39053405 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
39053444 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
39053468 TGAACGAGGA
Statistics
Matches: 152, Mismatches: 24, Indels: 15
0.80 0.13 0.08
Matches are distributed among these distances:
39 37 0.24
40 105 0.69
41 10 0.07
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:39053487 original size:79 final size:80
Alignment explanation
Indices: 39053325--39053502 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
39053315 AGATACAAGT
* * * *
39053325 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** *
39053390 GTGCGAGTCATTAAA
66 GAACGAGTCACTAAA
* * * *
39053405 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
* *
39053469 GAACGAG-GAGCTATA
66 GAACGAGTCA-CTAAA
*
39053484 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
39053503 TACGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTCACTAAA
Found at i:39060950 original size:80 final size:78
Alignment explanation
Indices: 39060866--39061037 Score: 213
Period size: 79 Copynumber: 2.2 Consensus size: 78
39060856 GGACTAAGAT
*
39060866 CCGAAGGCATTTGTGCGAG-A-TACAAGTTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATAC
1 CCGAAGGCATTTGTGCGAGCATTA-AA--TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATAC
* *
39060929 TAAATCCGGGTTAAGTC
62 TAAAACCGGGCTAAGTC
* * * *
39060946 CCGAAGGCATTCGTGCGAGTCATTAAATCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAG-CATTAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
39061011 AACCGGGCTATGTC
65 AACCGGGCTAAGTC
39061025 CCGAAGGCATTTG
1 CCGAAGGCATTTG
39061038 AACGAGGAGC
Statistics
Matches: 80, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
79 38 0.47
80 37 0.46
82 3 0.04
83 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGCATTAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
ACCGGGCTAAGTC
Found at i:39061028 original size:39 final size:39
Alignment explanation
Indices: 39060813--39061035 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
39060803 TTGAATGCTG
* * * * * *
39060813 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
39060853 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAA-A
* * *
39060893 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
* *
39060933 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
39060973 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
39061012 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
39061036 TGAACGAGGA
Statistics
Matches: 152, Mismatches: 24, Indels: 15
0.80 0.13 0.08
Matches are distributed among these distances:
39 37 0.24
40 105 0.69
41 10 0.07
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:39061055 original size:79 final size:80
Alignment explanation
Indices: 39060893--39061070 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
39060883 AGATACAAGT
* * * *
39060893 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** *
39060958 GTGCGAGTCATTAAA
66 GAACGAGTCACTAAA
* * * *
39060973 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
* *
39061037 GAACGAG-GAGCTATA
66 GAACGAGTCA-CTAAA
*
39061052 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
39061071 TATGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTCACTAAA
Found at i:39065747 original size:48 final size:47
Alignment explanation
Indices: 39065684--39065962 Score: 299
Period size: 48 Copynumber: 5.8 Consensus size: 47
39065674 TGCACCCTAG
* * *
39065684 GTGCCAATATCATGGCCCGAAGCCAAATCAATAAAGCTCACCCCTGAA
1 GTGCTAATATCATGGCCCAAAGCCAAATCAATGAAGCTCACCCC-GAA
* * *
39065732 GTGATAATATTATGGCCCAAATCCAAATCAATGAAGCTTGCA-CCCGAA
1 GTGCTAATATCATGGCCCAAAGCCAAATCAATGAAGC-T-CACCCCGAA
* * *
39065780 GTGCTAATATCATGGCCCAAATCCAAATCAATGAATCTCGCACCCGAA
1 GTGCTAATATCATGGCCCAAAGCCAAATCAATGAAGCTCAC-CCCGAA
* * * *
39065828 GTGCTAATATCATGGCTCGAAGCCAAATCAATGAAGCTCATACCCAAA
1 GTGCTAATATCATGGCCCAAAGCCAAATCAATGAAGCTCA-CCCCGAA
* ** * * *
39065876 GTGCCAATATCATGGCCCAAATTCAAATCAAAGAAGCTCGCACCTGAA
1 GTGCTAATATCATGGCCCAAAGCCAAATCAATGAAGCTCAC-CCCGAA
* * *
39065924 GTGCTAATATCATAGCCCGAAGCCAAATAAATGAAGCTC
1 GTGCTAATATCATGGCCCAAAGCCAAATCAATGAAGCTC
39065963 CAATGACATG
Statistics
Matches: 191, Mismatches: 34, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
46 1 0.01
47 1 0.01
48 183 0.96
49 4 0.02
50 2 0.01
ACGTcount: A:0.37, C:0.27, G:0.16, T:0.20
Consensus pattern (47 bp):
GTGCTAATATCATGGCCCAAAGCCAAATCAATGAAGCTCACCCCGAA
Found at i:39065836 original size:96 final size:96
Alignment explanation
Indices: 39065667--39065961 Score: 367
Period size: 96 Copynumber: 3.1 Consensus size: 96
39065657 CAGATACTCG
* * * * * *
39065667 GAAGTCTTGCACCCTAGGTGCCAATATCATGGCCCGAAGCCAAATCAATAAAGCTCAC-CCCTGA
1 GAAG-CTTGCACCCAAAGTGCCAATATCATGGCCCAAATCCAAATCAATGAAGCTCGCACCC-GA
* * * *
39065731 AGTGATAATATTATGGCCCAAATCCAAATCAAT
64 AGTGCTAATATCATGGCCCGAAGCCAAATCAAT
* * *
39065764 GAAGCTTGCACCCGAAGTGCTAATATCATGGCCCAAATCCAAATCAATGAATCTCGCACCCGAAG
1 GAAGCTTGCACCCAAAGTGCCAATATCATGGCCCAAATCCAAATCAATGAAGCTCGCACCCGAAG
*
39065829 TGCTAATATCATGGCTCGAAGCCAAATCAAT
66 TGCTAATATCATGGCCCGAAGCCAAATCAAT
*** * * *
39065860 GAAGCTCATACCCAAAGTGCCAATATCATGGCCCAAATTCAAATCAAAGAAGCTCGCACCTGAAG
1 GAAGCTTGCACCCAAAGTGCCAATATCATGGCCCAAATCCAAATCAATGAAGCTCGCACCCGAAG
* *
39065925 TGCTAATATCATAGCCCGAAGCCAAATAAAT
66 TGCTAATATCATGGCCCGAAGCCAAATCAAT
39065956 GAAGCT
1 GAAGCT
39065962 CCAATGACAT
Statistics
Matches: 172, Mismatches: 25, Indels: 3
0.86 0.12 0.01
Matches are distributed among these distances:
96 165 0.96
97 7 0.04
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.20
Consensus pattern (96 bp):
GAAGCTTGCACCCAAAGTGCCAATATCATGGCCCAAATCCAAATCAATGAAGCTCGCACCCGAAG
TGCTAATATCATGGCCCGAAGCCAAATCAAT
Found at i:39065935 original size:144 final size:144
Alignment explanation
Indices: 39065675--39065958 Score: 390
Period size: 144 Copynumber: 2.0 Consensus size: 144
39065665 CGGAAGTCTT
* * * * *
39065675 GCACCCTAGGTGCCAATATCATGGCCCGAAGCCAAATCAATAAAGCTCACCCCTGAAGTGATAAT
1 GCACCCGAAGTGCCAATATCATGGCCCGAAGCCAAATCAATAAAGCTCAACCCTAAAGTGACAAT
* * * * *
39065740 ATTATGGCCCAAATCCAAATCAATGAAGCTTGCACCCGAAGTGCTAATATCATGGCCCAAATCCA
66 ATCATGGCCCAAATCCAAATCAAAGAAGCTCGCACCCGAAGTGCTAATATCATAGCCCAAAGCCA
*
39065805 AATCAATGAATCTC
131 AATAAATGAATCTC
* * * *
39065819 GCACCCGAAGTGCTAATATCATGGCTCGAAGCCAAATCAATGAAGCTCATACCC-AAAGTGCCAA
1 GCACCCGAAGTGCCAATATCATGGCCCGAAGCCAAATCAATAAAGCTCA-ACCCTAAAGTGACAA
* * *
39065883 TATCATGGCCCAAATTCAAATCAAAGAAGCTCGCACCTGAAGTGCTAATATCATAGCCCGAAGCC
65 TATCATGGCCCAAATCCAAATCAAAGAAGCTCGCACCCGAAGTGCTAATATCATAGCCCAAAGCC
39065948 AAATAAATGAA
130 AAATAAATGAA
39065959 GCTCCAATGA
Statistics
Matches: 121, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
144 118 0.98
145 3 0.02
ACGTcount: A:0.37, C:0.27, G:0.17, T:0.20
Consensus pattern (144 bp):
GCACCCGAAGTGCCAATATCATGGCCCGAAGCCAAATCAATAAAGCTCAACCCTAAAGTGACAAT
ATCATGGCCCAAATCCAAATCAAAGAAGCTCGCACCCGAAGTGCTAATATCATAGCCCAAAGCCA
AATAAATGAATCTC
Found at i:39071232 original size:28 final size:29
Alignment explanation
Indices: 39071190--39071304 Score: 128
Period size: 29 Copynumber: 4.0 Consensus size: 29
39071180 TACCTGTATC
* * *
39071190 TGGCACATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
39071218 TGGCCCATTAGGCCCAAACCACCTGT-ATA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
*
39071247 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
39071276 TGGCCCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
39071304 T
1 T
39071305 TCATGCTCGC
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
28 26 0.35
29 47 0.64
30 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.26
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:39071244 original size:57 final size:58
Alignment explanation
Indices: 39071181--39071291 Score: 161
Period size: 58 Copynumber: 1.9 Consensus size: 58
39071171 AAATTCACAT
* *
39071181 ACCTGTATCTGGCACATTAAGCCC-AATCATATTCATATGGCCCATTAGGCCCAAACC
1 ACCTGTATATGGCACATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCCAAACC
* * * *
39071238 ACCTGTATATGGCCCATTAGGCCCAAATCACATTTATATGGCCCGTTAGGCCCA
1 ACCTGTATATGGCACATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCCA
39071292 GTCACATTCA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 21 0.45
58 26 0.55
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.25
Consensus pattern (58 bp):
ACCTGTATATGGCACATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCCAAACC
Found at i:39071540 original size:8 final size:8
Alignment explanation
Indices: 39071515--39071582 Score: 77
Period size: 8 Copynumber: 8.6 Consensus size: 8
39071505 ATAGCTAGAC
39071515 TTTTGGC-
1 TTTTGGCA
39071522 TTTTCGGCA
1 TTTT-GGCA
39071531 TTTTGGCA
1 TTTTGGCA
*
39071539 TTTCGGCA
1 TTTTGGCA
*
39071547 TTTTGGCT
1 TTTTGGCA
*
39071555 TTTTAGCA
1 TTTTGGCA
*
39071563 TTTCGGCA
1 TTTTGGCA
39071571 TTTTGGC-
1 TTTTGGCA
39071578 TTTTG
1 TTTTG
39071583 CTGGTTCATA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
7 9 0.18
8 38 0.75
9 4 0.08
ACGTcount: A:0.09, C:0.16, G:0.24, T:0.51
Consensus pattern (8 bp):
TTTTGGCA
Found at i:39071558 original size:24 final size:24
Alignment explanation
Indices: 39071522--39071581 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
39071512 GACTTTTGGC
* *
39071522 TTTTCGGCATTTTGGCATTTCGGCA
1 TTTT-GGCTTTTTAGCATTTCGGCA
39071547 TTTTGGCTTTTTAGCATTTCGGCA
1 TTTTGGCTTTTTAGCATTTCGGCA
39071571 TTTTGGCTTTT
1 TTTTGGCTTTT
39071582 GCTGGTTCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
24 29 0.88
25 4 0.12
ACGTcount: A:0.10, C:0.17, G:0.22, T:0.52
Consensus pattern (24 bp):
TTTTGGCTTTTTAGCATTTCGGCA
Found at i:39073972 original size:40 final size:40
Alignment explanation
Indices: 39073917--39074101 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
39073907 GCTACTCGTT
* * *
39073917 CAAATGCCTTCGGGACATAGCCC-GATTATAATAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
39073957 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
39073997 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
39074036 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
39074077 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
39074102 CATCATTCGA
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.26
40 75 0.60
41 15 0.12
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:39074038 original size:79 final size:81
Alignment explanation
Indices: 39073919--39074101 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
39073909 TACTCGTTCA
* *
39073919 AATGCCTTCGGGACATAGCCC-GATTATAATAACTCACACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAATAACTCACACAAATGCCTTC-GGATCTTAACCCGG
* *
39073982 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* * **
39073999 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAATAACTCACACAAATGCCTTCGGATCTTAACCCGGA
* *
39074062 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
39074078 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
39074102 CATCATTCGA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.62
80 30 0.34
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAATAACTCACACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:39082207 original size:79 final size:81
Alignment explanation
Indices: 39082098--39082280 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
39082088 TACTCGTTCA
* *
39082098 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
39082161 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
39082178 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
39082241 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
39082257 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
39082281 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:39082280 original size:40 final size:40
Alignment explanation
Indices: 39082077--39082280 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
39082067 CGGAATTTAA
** *
39082077 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
39082117 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
39082157 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
39082196 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
39082236 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
39082276 CCGGA
1 CCGGA
39082281 CATCATTCGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:39087349 original size:34 final size:29
Alignment explanation
Indices: 39087246--39087335 Score: 110
Period size: 29 Copynumber: 3.1 Consensus size: 29
39087236 GCACATTAAA
*
39087246 CCAAATCATATTCATATGGCCCATTAGGC
1 CCAAATCATATTTATATGGCCCATTAGGC
*** *
39087275 CC-AATCCGCCTGTATATGGCCCATTAGGC
1 CCAAAT-CATATTTATATGGCCCATTAGGC
*
39087304 CCAAATCATATTTATATGGCCCGTTAGGC
1 CCAAATCATATTTATATGGCCCATTAGGC
39087333 CCA
1 CCA
39087336 GTGAAATTCA
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
28 3 0.06
29 43 0.88
30 3 0.06
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.27
Consensus pattern (29 bp):
CCAAATCATATTTATATGGCCCATTAGGC
Found at i:39087580 original size:16 final size:16
Alignment explanation
Indices: 39087559--39087617 Score: 66
Period size: 16 Copynumber: 3.7 Consensus size: 16
39087549 ATAGCCAGAC
*
39087559 TTTCGACTTTTCAGCA
1 TTTCGACTTTTCGGCA
*
39087575 TTTCGACATTTT-GGCT
1 TTTCGAC-TTTTCGGCA
*
39087591 TTTCGACATTTCGGCA
1 TTTCGACTTTTCGGCA
*
39087607 TTTCGGCTTTT
1 TTTCGACTTTT
39087618 GCCGATTCAT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
15 3 0.09
16 28 0.80
17 4 0.11
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.47
Consensus pattern (16 bp):
TTTCGACTTTTCGGCA
Found at i:39087600 original size:24 final size:24
Alignment explanation
Indices: 39087559--39087617 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
39087549 ATAGCCAGAC
*
39087559 TTTCGACTTTTCAGCATTTCGACA
1 TTTCGGCTTTTCAGCATTTCGACA
* *
39087583 TTTTGGCTTTTC-GACATTTCGGCA
1 TTTCGGCTTTTCAG-CATTTCGACA
39087607 TTTCGGCTTTT
1 TTTCGGCTTTT
39087618 GCCGATTCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 1 0.03
24 29 0.97
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.47
Consensus pattern (24 bp):
TTTCGGCTTTTCAGCATTTCGACA
Found at i:39088848 original size:16 final size:16
Alignment explanation
Indices: 39088827--39088858 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
39088817 AAAATTTAAT
39088827 ATTTCGAGATTTTTGG
1 ATTTCGAGATTTTTGG
39088843 ATTTCGAGATTTTTGG
1 ATTTCGAGATTTTTGG
39088859 GGCGTTACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (16 bp):
ATTTCGAGATTTTTGG
Found at i:39090123 original size:25 final size:25
Alignment explanation
Indices: 39090095--39090143 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
39090085 CCACAGGACC
*
39090095 AATCACATAACTCATGATAATGATT
1 AATCACATAACTCATCATAATGATT
* * *
39090120 AATCATATAATTCTTCATAATGAT
1 AATCACATAACTCATCATAATGAT
39090144 AATAATAAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.37
Consensus pattern (25 bp):
AATCACATAACTCATCATAATGATT
Found at i:39101064 original size:19 final size:18
Alignment explanation
Indices: 39101040--39101080 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
39101030 AACACTAAAC
39101040 AAATCCCAAATTAAAGTAA
1 AAAT-CCAAATTAAAGTAA
* *
39101059 AAATCCATATTACAGTAA
1 AAATCCAAATTAAAGTAA
39101077 AAAT
1 AAAT
39101081 ACCCCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.56, C:0.15, G:0.05, T:0.24
Consensus pattern (18 bp):
AAATCCAAATTAAAGTAA
Found at i:39104689 original size:46 final size:46
Alignment explanation
Indices: 39104639--39104814 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
39104629 TGGTTGAGCA
*
39104639 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
39104685 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
39104732 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
39104778 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
39104815 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 13, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 62 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:39104751 original size:93 final size:93
Alignment explanation
Indices: 39104636--39104807 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
39104626 GGATGGTTGA
* *
39104636 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG-TCCGAACTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCT-CGAACTCGTTGAG
39104700 TTGAGTCCGAGTTCGTGAGATGTAACTAG
65 TTGAGTCCGAGTTCGTGAGATGTAACTAG
* *
39104729 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCTCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCTCGAACTCGTTGAGT
39104794 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
39104808 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
93 73 0.99
94 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCTCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:39108018 original size:27 final size:26
Alignment explanation
Indices: 39107972--39108087 Score: 101
Period size: 27 Copynumber: 4.3 Consensus size: 26
39107962 AGCAAATCTA
* *
39107972 TCATTTTACCTTAACA-GGGTATTACAG
1 TCATTTTACCCT-ACAGGGGTATTTC-G
*
39107999 TTATTTTACCCTACAGGGGTATTTCGG
1 TCATTTTACCCTACAGGGGTATTTC-G
* *
39108026 TCATTCTACCCTATAGGGGTATTTCG
1 TCATTTTACCCTACAGGGGTATTTCG
* *
39108052 ATCATTTTACCCTA-TGAGCGTATTTCGG
1 -TCATTTTACCCTACAG-GGGTATTTC-G
39108080 TCATTTTA
1 TCATTTTA
39108088 TCACACAATG
Statistics
Matches: 75, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
26 5 0.07
27 69 0.92
28 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.41
Consensus pattern (26 bp):
TCATTTTACCCTACAGGGGTATTTCG
Found at i:39108109 original size:27 final size:27
Alignment explanation
Indices: 39108079--39108234 Score: 231
Period size: 27 Copynumber: 5.8 Consensus size: 27
39108069 GCGTATTTCG
** * *
39108079 GTCATTTTATCACACAATGGCAAAATC
1 GTCATTTTATCACATGAGGGTAAAATC
*
39108106 GTCATTTTATCACATGAGGGCAAAATC
1 GTCATTTTATCACATGAGGGTAAAATC
*
39108133 ATCATTTTATCACATGAGGGTAAAATC
1 GTCATTTTATCACATGAGGGTAAAATC
* *
39108160 GTCATTTTATCACATAAAGGTAAAATC
1 GTCATTTTATCACATGAGGGTAAAATC
*
39108187 GTCATTTTATCACATGAGGGTGAAATC
1 GTCATTTTATCACATGAGGGTAAAATC
39108214 GTCATTTTATCACATGAGGGT
1 GTCATTTTATCACATGAGGGT
39108235 TCAGGTACGC
Statistics
Matches: 118, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 118 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Consensus pattern (27 bp):
GTCATTTTATCACATGAGGGTAAAATC
Found at i:39108232 original size:81 final size:81
Alignment explanation
Indices: 39108079--39108234 Score: 258
Period size: 81 Copynumber: 1.9 Consensus size: 81
39108069 GCGTATTTCG
*
39108079 GTCATTTTATCACACAATGGCAAAATCGTCATTTTATCACATGAGGGCAAAATCATCATTTTATC
1 GTCATTTTATCACACAAAGGCAAAATCGTCATTTTATCACATGAGGGCAAAATCATCATTTTATC
39108144 ACATGAGGGTAAAATC
66 ACATGAGGGTAAAATC
* * ** *
39108160 GTCATTTTATCACATAAAGGTAAAATCGTCATTTTATCACATGAGGGTGAAATCGTCATTTTATC
1 GTCATTTTATCACACAAAGGCAAAATCGTCATTTTATCACATGAGGGCAAAATCATCATTTTATC
39108225 ACATGAGGGT
66 ACATGAGGGT
39108235 TCAGGTACGC
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 69 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Consensus pattern (81 bp):
GTCATTTTATCACACAAAGGCAAAATCGTCATTTTATCACATGAGGGCAAAATCATCATTTTATC
ACATGAGGGTAAAATC
Found at i:39118446 original size:55 final size:53
Alignment explanation
Indices: 39118316--39118451 Score: 146
Period size: 55 Copynumber: 2.5 Consensus size: 53
39118306 GTTTAAGGAT
* * * *
39118316 ACCAAGTAAGACCATGCCAAGGAATGGCATTGGAAAGTTCTATAAGGCAAGGAA
1 ACCATGTAAGACCATGCCAA-GAATGGCATTGGAAACTACTATAAGGCAAAGAA
* * * *
39118370 ATCATGTAAGACCATGTCAAGATATGGCATTGATAAACTACTATAAGGCAAAGAT
1 ACCATGTAAGACCATGCCAAGA-ATGGCATTG-GAAACTACTATAAGGCAAAGAA
* *
39118425 CCCATGTAAGACCAAGCCAAGACATGG
1 ACCATGTAAGACCATGCCAAGA-ATGG
39118452 TAATGGTGAG
Statistics
Matches: 67, Mismatches: 13, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
53 2 0.03
54 26 0.39
55 39 0.58
ACGTcount: A:0.40, C:0.18, G:0.22, T:0.19
Consensus pattern (53 bp):
ACCATGTAAGACCATGCCAAGAATGGCATTGGAAACTACTATAAGGCAAAGAA
Found at i:39118627 original size:29 final size:29
Alignment explanation
Indices: 39118585--39118640 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
39118575 AGAGTGTACC
39118585 AAAGGGAAGGTAAGATAAGTTCATGTTCT
1 AAAGGGAAGGTAAGATAAGTTCATGTTCT
39118614 AAAGGGAAGGTAAGATAAGTTCATGTT
1 AAAGGGAAGGTAAGATAAGTTCATGTT
39118641 GTTATTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.39, C:0.05, G:0.29, T:0.27
Consensus pattern (29 bp):
AAAGGGAAGGTAAGATAAGTTCATGTTCT
Found at i:39125094 original size:20 final size:20
Alignment explanation
Indices: 39125069--39125116 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
39125059 GATTTTCCAT
39125069 GATTGCTACTCCATTGACAA
1 GATTGCTACTCCATTGACAA
*
39125089 GATTGCTACTCCATTGACGA
1 GATTGCTACTCCATTGACAA
39125109 GATTGCTA
1 GATTGCTA
39125117 TAGAAAGATG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (20 bp):
GATTGCTACTCCATTGACAA
Found at i:39129907 original size:24 final size:24
Alignment explanation
Indices: 39129880--39129926 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
39129870 ATATGTTGAC
39129880 ATTCAAATCAGCACACATAGTGCT
1 ATTCAAATCAGCACACATAGTGCT
* *
39129904 ATTCAACTCCGCACACATAGTGC
1 ATTCAAATCAGCACACATAGTGC
39129927 CATACTACAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.30, G:0.13, T:0.23
Consensus pattern (24 bp):
ATTCAAATCAGCACACATAGTGCT
Found at i:39129960 original size:24 final size:24
Alignment explanation
Indices: 39129890--39129952 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
39129880 ATTCAAATCA
* * * *
39129890 GCACACATAGTGCTATTCAACTCC
1 GCACACATAGTGCCATACTACACC
39129914 GCACACATAGTGCCATACTACACC
1 GCACACATAGTGCCATACTACACC
39129938 GCACACATAGTGCCA
1 GCACACATAGTGCCA
39129953 ATGTACACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.32, C:0.35, G:0.14, T:0.19
Consensus pattern (24 bp):
GCACACATAGTGCCATACTACACC
Found at i:39134777 original size:26 final size:26
Alignment explanation
Indices: 39134748--39134799 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
39134738 ATTACCAGTT
39134748 CATTTAGCAAAATATGTCTTATACTA
1 CATTTAGCAAAATATGTCTTATACTA
39134774 CATTTAGCAAAATATGTCTTATACTA
1 CATTTAGCAAAATATGTCTTATACTA
39134800 AGTCGTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (26 bp):
CATTTAGCAAAATATGTCTTATACTA
Found at i:39140480 original size:39 final size:39
Alignment explanation
Indices: 39140437--39140565 Score: 123
Period size: 39 Copynumber: 3.2 Consensus size: 39
39140427 CCGGCAATTA
39140437 GCCTGCTAGGTATAAACCTGAACTTATCACCGGCACGAG
1 GCCTGCTAGGTATAAACCTGAACTTATCACCGGCACGAG
** ** * * ** *
39140476 GCCTGCTAGACATTAAGTCTGAAACTCATTCATCGGCATTAT
1 GCCTGCTAGGTA-TAAACCTG-AACTTA-TCACCGGCACGAG
* * *
39140518 GCCTGCTAAGTATAAACCTGAACTTATCACTGACACGAG
1 GCCTGCTAGGTATAAACCTGAACTTATCACCGGCACGAG
39140557 GCCTGCTAG
1 GCCTGCTAG
39140566 ACATTAAGTC
Statistics
Matches: 65, Mismatches: 22, Indels: 6
0.70 0.24 0.06
Matches are distributed among these distances:
39 25 0.38
40 11 0.17
41 11 0.17
42 18 0.28
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (39 bp):
GCCTGCTAGGTATAAACCTGAACTTATCACCGGCACGAG
Found at i:39140522 original size:42 final size:41
Alignment explanation
Indices: 39140476--39140607 Score: 119
Period size: 42 Copynumber: 3.2 Consensus size: 41
39140466 CCGGCACGAG
39140476 GCCTGCTAGACATTAAGTCTGAAACTCATTCATCGGCATTAT
1 GCCTGCTAGACATTAAGTCTGAAACTCATTCA-CGGCATTAT
* ** * * ** *
39140518 GCCTGCTA-A-GTATAAACCTG-AACTTA-TCACTGACACGAG
1 GCCTGCTAGACAT-TAAGTCTGAAACTCATTCAC-GGCATTAT
*
39140557 GCCTGCTAGACATTAAGTCCGAAACTCATTCACCGGCATTAT
1 GCCTGCTAGACATTAAGTCTGAAACTCATTCA-CGGCATTAT
39140599 GCCTGCTAG
1 GCCTGCTAG
39140608 GCTCATGGCC
Statistics
Matches: 66, Mismatches: 17, Indels: 14
0.68 0.18 0.14
Matches are distributed among these distances:
38 1 0.02
39 15 0.23
40 12 0.18
41 13 0.20
42 24 0.36
43 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (41 bp):
GCCTGCTAGACATTAAGTCTGAAACTCATTCACGGCATTAT
Found at i:39140563 original size:81 final size:81
Alignment explanation
Indices: 39140423--39140606 Score: 307
Period size: 81 Copynumber: 2.3 Consensus size: 81
39140413 CTTTTATTAT
* *
39140423 TTCACCGGCAATTA-GCCTGCTAGGTATAAACCTGAACTTATCACCGGCACGAGGCCTGCTAGAC
1 TTCACCGGC-ATTATGCCTGCTAAGTATAAACCTGAACTTATCACCGACACGAGGCCTGCTAGAC
*
39140487 ATTAAGTCTGAAACTCA
65 ATTAAGTCCGAAACTCA
* *
39140504 TTCATCGGCATTATGCCTGCTAAGTATAAACCTGAACTTATCACTGACACGAGGCCTGCTAGACA
1 TTCACCGGCATTATGCCTGCTAAGTATAAACCTGAACTTATCACCGACACGAGGCCTGCTAGACA
39140569 TTAAGTCCGAAACTCA
66 TTAAGTCCGAAACTCA
39140585 TTCACCGGCATTATGCCTGCTA
1 TTCACCGGCATTATGCCTGCTA
39140607 GGCTCATGGC
Statistics
Matches: 96, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
80 4 0.04
81 92 0.96
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (81 bp):
TTCACCGGCATTATGCCTGCTAAGTATAAACCTGAACTTATCACCGACACGAGGCCTGCTAGACA
TTAAGTCCGAAACTCA
Found at i:39148538 original size:29 final size:29
Alignment explanation
Indices: 39148505--39148578 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
39148495 GTTGTGAGAT
* *
39148505 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
39148534 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
39148563 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
39148579 TGGTTGATGA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:39156628 original size:29 final size:29
Alignment explanation
Indices: 39156595--39156668 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
39156585 GTTGTGAGAT
* *
39156595 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
39156624 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
39156653 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
39156669 TGGTTGATGA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:39159686 original size:39 final size:38
Alignment explanation
Indices: 39159643--39159767 Score: 124
Period size: 39 Copynumber: 3.1 Consensus size: 38
39159633 CAATTAGCCC
39159643 GCTAGGTATAAACATGAACTTATCACCGGCACGAGGCCT
1 GCTAGGTATAAAC-TGAACTTATCACCGGCACGAGGCCT
** * * ** *
39159682 GCTAGACATTAAGTCTGAAACTCATTCACCGGCATTATGCCT
1 GCTAGGTA-TAA-ACTG-AACTTA-TCACCGGCACGAGGCCT
*
39159724 GCTAGGTATAAACCTGAACTTATCATCGGCACGAGGCCT
1 GCTAGGTATAAA-CTGAACTTATCACCGGCACGAGGCCT
39159763 GCTAG
1 GCTAG
39159768 ACATTAAGTC
Statistics
Matches: 66, Mismatches: 15, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
39 24 0.36
40 10 0.15
41 12 0.18
42 20 0.30
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.24
Consensus pattern (38 bp):
GCTAGGTATAAACTGAACTTATCACCGGCACGAGGCCT
Found at i:39159712 original size:42 final size:42
Alignment explanation
Indices: 39159665--39159796 Score: 144
Period size: 42 Copynumber: 3.2 Consensus size: 42
39159655 CATGAACTTA
39159665 TCACCGGCACGAGGCCTGCTAGACATTAAGTCTGAAACTCAT
1 TCACCGGCACGAGGCCTGCTAGACATTAAGTCTGAAACTCAT
** * ** ** *
39159707 TCACCGGCATTATGCCTGCTAGGTA-TAAACCTG-AACTTA-
1 TCACCGGCACGAGGCCTGCTAGACATTAAGTCTGAAACTCAT
* **
39159746 TCATCGGCACGAGGCCTGCTAGACATTAAGTCCAAAACTCAT
1 TCACCGGCACGAGGCCTGCTAGACATTAAGTCTGAAACTCAT
39159788 TCACCGGCA
1 TCACCGGCA
39159797 TTATGCCTGC
Statistics
Matches: 67, Mismatches: 20, Indels: 6
0.72 0.22 0.06
Matches are distributed among these distances:
39 19 0.28
40 9 0.13
41 11 0.16
42 28 0.42
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.23
Consensus pattern (42 bp):
TCACCGGCACGAGGCCTGCTAGACATTAAGTCTGAAACTCAT
Found at i:39159760 original size:81 final size:81
Alignment explanation
Indices: 39159625--39159810 Score: 311
Period size: 81 Copynumber: 2.3 Consensus size: 81
39159615 CTTTTATTAT
*
39159625 TTCACCGGCAATTA-GCCCGCTAGGTATAAACATGAACTTATCACCGGCACGAGGCCTGCTAGAC
1 TTCACCGGC-ATTATGCCTGCTAGGTATAAACATGAACTTATCACCGGCACGAGGCCTGCTAGAC
**
39159689 ATTAAGTCTGAAACTCA
65 ATTAAGTCCAAAACTCA
* *
39159706 TTCACCGGCATTATGCCTGCTAGGTATAAACCTGAACTTATCATCGGCACGAGGCCTGCTAGACA
1 TTCACCGGCATTATGCCTGCTAGGTATAAACATGAACTTATCACCGGCACGAGGCCTGCTAGACA
39159771 TTAAGTCCAAAACTCA
66 TTAAGTCCAAAACTCA
39159787 TTCACCGGCATTATGCCTGCTAGG
1 TTCACCGGCATTATGCCTGCTAGG
39159811 CTCATGGCCC
Statistics
Matches: 99, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
80 4 0.04
81 95 0.96
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (81 bp):
TTCACCGGCATTATGCCTGCTAGGTATAAACATGAACTTATCACCGGCACGAGGCCTGCTAGACA
TTAAGTCCAAAACTCA
Done.