Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 116 of 345
Found at i:38391315 original size:17 final size:17
Alignment explanation
Indices: 38391280--38391320 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
38391270 TTAAATTTTT
38391280 TATATG-AATATAAATA
1 TATATGTAATATAAATA
38391296 TATATGTAAT-TAAGATA
1 TATATGTAATATAA-ATA
*
38391313 TATCTGTA
1 TATATGTA
38391321 TAAATGAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.46, C:0.02, G:0.10, T:0.41
Consensus pattern (17 bp):
TATATGTAATATAAATA
Found at i:38393731 original size:28 final size:28
Alignment explanation
Indices: 38393699--38393756 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
38393689 GTGCCATTGA
*
38393699 TGGCAAGCAAGTGGCTACATGACAACAG
1 TGGCAAGCAAGTGGCTACATAACAACAG
*
38393727 TGGCAAGCAAGTGGCTACATAACAATAG
1 TGGCAAGCAAGTGGCTACATAACAACAG
38393755 TG
1 TG
38393757 AGGATGACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.19, G:0.28, T:0.17
Consensus pattern (28 bp):
TGGCAAGCAAGTGGCTACATAACAACAG
Found at i:38397552 original size:43 final size:43
Alignment explanation
Indices: 38397460--38397561 Score: 107
Period size: 43 Copynumber: 2.4 Consensus size: 43
38397450 TGTGGCTATG
* * ** *
38397460 TGTAAGACCATGTTTGGGACATTGGCATCATTATATGATTTCG
1 TGTAAGACCATGTCTGGGACAGTGGCATCATTATATGATAACA
* * *
38397503 TATAAGACCCTGTCTGGGACAGTGGCATCGA-TATGTGATAACA
1 TGTAAGACCATGTCTGGGACAGTGGCATC-ATTATATGATAACA
*
38397546 TGTAAGACCATATCTG
1 TGTAAGACCATGTCTG
38397562 AGATATGGCA
Statistics
Matches: 47, Mismatches: 11, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACAGTGGCATCATTATATGATAACA
Found at i:38400872 original size:18 final size:18
Alignment explanation
Indices: 38400851--38400914 Score: 83
Period size: 18 Copynumber: 3.6 Consensus size: 18
38400841 TAACATTCAA
38400851 TTATTCAGTAGCAATTAG
1 TTATTCAGTAGCAATTAG
* * *
38400869 TTATTCAGTAACAATCAT
1 TTATTCAGTAGCAATTAG
*
38400887 TTGTTCAGTAGCAATTAG
1 TTATTCAGTAGCAATTAG
*
38400905 TTATTTAGTA
1 TTATTCAGTA
38400915 ACGATCAATT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.42
Consensus pattern (18 bp):
TTATTCAGTAGCAATTAG
Found at i:38400894 original size:36 final size:36
Alignment explanation
Indices: 38400839--38400926 Score: 131
Period size: 36 Copynumber: 2.4 Consensus size: 36
38400829 AGTTTCATTT
*
38400839 AGTAACATTCAATTATTCAGTAGCAATTAGTTATTC
1 AGTAACAATCAATTATTCAGTAGCAATTAGTTATTC
* * *
38400875 AGTAACAATCATTTGTTCAGTAGCAATTAGTTATTT
1 AGTAACAATCAATTATTCAGTAGCAATTAGTTATTC
*
38400911 AGTAACGATCAATTAT
1 AGTAACAATCAATTAT
38400927 ATAGTATCAG
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.39
Consensus pattern (36 bp):
AGTAACAATCAATTATTCAGTAGCAATTAGTTATTC
Found at i:38411248 original size:46 final size:46
Alignment explanation
Indices: 38411175--38411286 Score: 127
Period size: 46 Copynumber: 2.4 Consensus size: 46
38411165 TGTCTTCGAC
** * ** * *
38411175 ATGGACTTACATGAATTATTCCCGTCTCCAATGCTATATATA-TAAT
1 ATGGACTTACATGGCTCATTCTTGTCTCCAAAGCCATATA-ACTAAT
* *
38411221 ATGGGCTTACATGGCTCATTCTTGTCTCCAAAGCCATATAACTGAT
1 ATGGACTTACATGGCTCATTCTTGTCTCCAAAGCCATATAACTAAT
38411267 ATGGACTTACATGGCTCATT
1 ATGGACTTACATGGCTCATT
38411287 TCTGTCATGT
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
45 1 0.02
46 54 0.98
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (46 bp):
ATGGACTTACATGGCTCATTCTTGTCTCCAAAGCCATATAACTAAT
Found at i:38416350 original size:10 final size:10
Alignment explanation
Indices: 38416335--38416360 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
38416325 TACAAATTGT
38416335 ATTTTTTTAA
1 ATTTTTTTAA
38416345 ATTTTTTTAA
1 ATTTTTTTAA
38416355 ATTTTT
1 ATTTTT
38416361 ATGTAAGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
ATTTTTTTAA
Found at i:38417475 original size:29 final size:29
Alignment explanation
Indices: 38417433--38417488 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
38417423 ACTATTATTA
*
38417433 TTAAATCAATTCAGTTAAATCAATTAAAAC
1 TTAAATCAAATCAGTT-AATCAATTAAAAC
*
38417463 TTAAAT-AAATCAGTTAGTCAATTAAA
1 TTAAATCAAATCAGTTAATCAATTAAA
38417489 GTATGAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 10 0.42
29 8 0.33
30 6 0.25
ACGTcount: A:0.50, C:0.11, G:0.05, T:0.34
Consensus pattern (29 bp):
TTAAATCAAATCAGTTAATCAATTAAAAC
Found at i:38418239 original size:31 final size:31
Alignment explanation
Indices: 38418204--38418290 Score: 97
Period size: 31 Copynumber: 2.8 Consensus size: 31
38418194 ATTTAGGGAG
*
38418204 GGCTTAATTCAAATTTTTAAAAACTT-TCAGA
1 GGCTTAATTAAAATTTTTAAAAA-TTATCAGA
* *
38418235 GGCTTAA-TAAGAATTTTTTAAAATTATGAGA
1 GGCTTAATTAA-AATTTTTAAAAATTATCAGA
* *
38418266 GGCTTAATTTAAATTTTCAAAAATT
1 GGCTTAATTAAAATTTTTAAAAATT
38418291 TTAGAACCAT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
30 4 0.09
31 41 0.87
32 2 0.04
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.40
Consensus pattern (31 bp):
GGCTTAATTAAAATTTTTAAAAATTATCAGA
Found at i:38429070 original size:33 final size:33
Alignment explanation
Indices: 38429033--38429098 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
38429023 TGTCTGGTTC
38429033 AAGATAGTCCATTAATGCCACTTGTGAAGCATT
1 AAGATAGTCCATTAATGCCACTTGTGAAGCATT
38429066 AAGATAGTCCATTAATGCCACTTGTGAAGCATT
1 AAGATAGTCCATTAATGCCACTTGTGAAGCATT
38429099 GAGAAGAGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.30
Consensus pattern (33 bp):
AAGATAGTCCATTAATGCCACTTGTGAAGCATT
Found at i:38430426 original size:103 final size:104
Alignment explanation
Indices: 38430198--38430464 Score: 414
Period size: 103 Copynumber: 2.6 Consensus size: 104
38430188 TTGTATATAA
* * *
38430198 AGGGGTTTCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTATGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
38430262 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAA-GTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* **
38430303 AGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACTGTATCT
1 AGGGGTTGCTATGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
38430367 TTGAAA-TGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAAGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
38430406 AGGGGTTGCTATGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTATGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
38430465 ATAATGGTTA
Statistics
Matches: 148, Mismatches: 11, Indels: 8
0.89 0.07 0.05
Matches are distributed among these distances:
103 85 0.57
104 2 0.01
105 60 0.41
106 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTATGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAAGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:38442436 original size:38 final size:38
Alignment explanation
Indices: 38442385--38442464 Score: 151
Period size: 38 Copynumber: 2.1 Consensus size: 38
38442375 TTTTTATTTC
38442385 CAAGAGTTTAGTCTCTTTACTTTCTAGATTTCAAAATT
1 CAAGAGTTTAGTCTCTTTACTTTCTAGATTTCAAAATT
*
38442423 CAAGAGTTTAGTCTCTTTATTTTCTAGATTTCAAAATT
1 CAAGAGTTTAGTCTCTTTACTTTCTAGATTTCAAAATT
38442461 CAAG
1 CAAG
38442465 TTCAATTGTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.44
Consensus pattern (38 bp):
CAAGAGTTTAGTCTCTTTACTTTCTAGATTTCAAAATT
Found at i:38442657 original size:22 final size:22
Alignment explanation
Indices: 38442632--38442685 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 22
38442622 TTAAAATTTA
38442632 AAATTTAAAAAGTAAAAAAAAT
1 AAATTTAAAAAGTAAAAAAAAT
*** * * *
38442654 AAATTGGTAAAGTACAACAACT
1 AAATTTAAAAAGTAAAAAAAAT
38442676 AAATTTAAAA
1 AAATTTAAAA
38442686 TTTACTAATA
Statistics
Matches: 23, Mismatches: 9, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.63, C:0.06, G:0.07, T:0.24
Consensus pattern (22 bp):
AAATTTAAAAAGTAAAAAAAAT
Found at i:38448648 original size:10 final size:9
Alignment explanation
Indices: 38448625--38448658 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
38448615 TCAATTATTT
38448625 TAAAAAATA
1 TAAAAAATA
*
38448634 TAAAAATTA
1 TAAAAAATA
38448643 TAAAAAAATA
1 T-AAAAAATA
38448653 TAAAAA
1 TAAAAA
38448659 TTTTTAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
TAAAAAATA
Found at i:38450819 original size:30 final size:30
Alignment explanation
Indices: 38450783--38450845 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
38450773 ATTTATTTTA
38450783 TTGTTAATTTTGTTATTATTTTAAAAACAT
1 TTGTTAATTTTGTTATTATTTTAAAAACAT
* *
38450813 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAAACAT
38450843 TTG
1 TTG
38450846 ATTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.29, C:0.03, G:0.11, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAAACAT
Found at i:38459568 original size:40 final size:40
Alignment explanation
Indices: 38459513--38459598 Score: 145
Period size: 40 Copynumber: 2.1 Consensus size: 40
38459503 ATGTATGCAG
* *
38459513 TCAGATGTACACAATCAGAATACCAGCCTCAGATAATTGT
1 TCAGAAGTACACAATCAGAATACCAGCCTCAGATAATTAT
*
38459553 TCAGAAGTAGACAATCAGAATACCAGCCTCAGATAATTAT
1 TCAGAAGTACACAATCAGAATACCAGCCTCAGATAATTAT
38459593 TCAGAA
1 TCAGAA
38459599 TACCAGCCAC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.41, C:0.21, G:0.15, T:0.23
Consensus pattern (40 bp):
TCAGAAGTACACAATCAGAATACCAGCCTCAGATAATTAT
Found at i:38466915 original size:17 final size:17
Alignment explanation
Indices: 38466886--38466922 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
38466876 GTTTAAGTAT
38466886 ATATATATTATATTATA
1 ATATATATTATATTATA
38466903 ATATATATTATATTATA
1 ATATATATTATATTATA
38466920 ATA
1 ATA
38466923 AAAAAAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATATATTATATTATA
Found at i:38466936 original size:6 final size:6
Alignment explanation
Indices: 38466925--38467008 Score: 50
Period size: 6 Copynumber: 13.7 Consensus size: 6
38466915 TTATAATAAA
* * *
38466925 AAAAAG AAAAAG AAAAAG AAATAG -AAAAG AAAGAAAG AACAAGCG AAACAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG -AA-AAAG AA-AA-AG AAAAAG
*
38466976 AAGGAAA- AAAAAG -GAAAG AAAAAG -AAAAG AAAA
1 AA--AAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA
38467009 GGAGAAAGAC
Statistics
Matches: 60, Mismatches: 9, Indels: 18
0.69 0.10 0.21
Matches are distributed among these distances:
5 16 0.27
6 27 0.45
7 8 0.13
8 9 0.15
ACGTcount: A:0.75, C:0.04, G:0.20, T:0.01
Consensus pattern (6 bp):
AAAAAG
Found at i:38466952 original size:11 final size:12
Alignment explanation
Indices: 38466925--38467008 Score: 50
Period size: 11 Copynumber: 6.8 Consensus size: 12
38466915 TTATAATAAA
38466925 AAAAAGAAAAAG
1 AAAAAGAAAAAG
*
38466937 AAAAAGAAATAG
1 AAAAAGAAAAAG
38466949 -AAAAGAAAGAAAG
1 AAAAAG-AA-AAAG
* *
38466962 AACAAGCGAAACAG
1 AA-AA-AGAAAAAG
38466976 AAGGAAA-AAAAAG
1 AA--AAAGAAAAAG
*
38466989 -GAAAGAAAAAG
1 AAAAAGAAAAAG
38467000 -AAAAGAAAA
1 AAAAAGAAAA
38467009 GGAGAAAGAC
Statistics
Matches: 56, Mismatches: 9, Indels: 15
0.70 0.11 0.19
Matches are distributed among these distances:
10 3 0.05
11 19 0.34
12 13 0.23
13 8 0.14
14 6 0.11
15 6 0.11
16 1 0.02
ACGTcount: A:0.75, C:0.04, G:0.20, T:0.01
Consensus pattern (12 bp):
AAAAAGAAAAAG
Found at i:38467696 original size:24 final size:24
Alignment explanation
Indices: 38467652--38467698 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
38467642 ATTAAAATGG
38467652 ATTGATTTAGTATGTGATGAATTT
1 ATTGATTTAGTATGTGATGAATTT
38467676 ATTGAATTTA-TAT-TGATTGAATT
1 ATTG-ATTTAGTATGTGA-TGAATT
38467699 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGATTTAGTATGTGATGAATTT
Found at i:38469822 original size:25 final size:25
Alignment explanation
Indices: 38469770--38469825 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
38469760 TAGACATTTC
* *
38469770 GCCACATAGCTTTTACAGGTAACCT
1 GCCACATAGCTTTTACAGATAAACT
*
38469795 GCCACATAGAC-TTTACAGATAAATT
1 GCCACATAG-CTTTTACAGATAAACT
38469820 GCCACA
1 GCCACA
38469826 AAGGCTTCCC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 26 0.96
26 1 0.04
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (25 bp):
GCCACATAGCTTTTACAGATAAACT
Found at i:38469841 original size:25 final size:25
Alignment explanation
Indices: 38469813--38469933 Score: 89
Period size: 25 Copynumber: 4.8 Consensus size: 25
38469803 GACTTTACAG
*
38469813 ATAAATTGCCACAAAGGCTTCCCAA
1 ATAAATCGCCACAAAGGCTTCCCAA
* * **
38469838 ATAAATCGCGAAAAAGGCTTTACAA
1 ATAAATCGCCACAAAGGCTTCCCAA
* * * *
38469863 GTGACTCACCACAAAGGCTTCCCCAA
1 ATAAATCGCCACAAAGGCTT-CCCAA
** *
38469889 ATAAATCGCCTTAAAGGCTTTCCAA
1 ATAAATCGCCACAAAGGCTTCCCAA
* * * *
38469914 ACAATTCGCCATAAAAGCTT
1 ATAAATCGCCACAAAGGCTT
38469934 GGTTTGGTTT
Statistics
Matches: 71, Mismatches: 24, Indels: 2
0.73 0.25 0.02
Matches are distributed among these distances:
25 54 0.76
26 17 0.24
ACGTcount: A:0.39, C:0.26, G:0.13, T:0.21
Consensus pattern (25 bp):
ATAAATCGCCACAAAGGCTTCCCAA
Found at i:38469930 original size:26 final size:26
Alignment explanation
Indices: 38469875--38469930 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
38469865 GACTCACCAC
* *
38469875 AAAGGCTTCCCCAAATAAATCGCCTT
1 AAAGGCTTCCCCAAACAAATCGCCTA
* *
38469901 AAAGGCTT-TCCAAACAATTCGCCATA
1 AAAGGCTTCCCCAAACAAATCGCC-TA
38469927 AAAG
1 AAAG
38469931 CTTGGTTTGG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 12 0.48
26 13 0.52
ACGTcount: A:0.39, C:0.27, G:0.12, T:0.21
Consensus pattern (26 bp):
AAAGGCTTCCCCAAACAAATCGCCTA
Found at i:38473308 original size:22 final size:21
Alignment explanation
Indices: 38473247--38473308 Score: 56
Period size: 22 Copynumber: 3.0 Consensus size: 21
38473237 ACAGAGAGCA
*
38473247 AAAAAATGCTAATCACAGAGT
1 AAAAAATGCTAATCAAAGAGT
* * *
38473268 ACCAAAATGCTGA--AGAGAGT
1 A-AAAAATGCTAATCAAAGAGT
38473288 AAAAAAGTGCTAATCAAAGAG
1 AAAAAA-TGCTAATCAAAGAG
38473309 CACGTAAGTG
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
19 4 0.13
20 12 0.39
21 1 0.03
22 14 0.45
ACGTcount: A:0.52, C:0.13, G:0.19, T:0.16
Consensus pattern (21 bp):
AAAAAATGCTAATCAAAGAGT
Found at i:38473342 original size:22 final size:22
Alignment explanation
Indices: 38473292--38473333 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
38473282 GAGAGTAAAA
38473292 AAGTGCTAATCAAAGAGCACGT
1 AAGTGCTAATCAAAGAGCACGT
* *
38473314 AAGTGCTAATTAGAGAGCAC
1 AAGTGCTAATCAAAGAGCAC
38473334 CGATGTGCTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.17, G:0.24, T:0.19
Consensus pattern (22 bp):
AAGTGCTAATCAAAGAGCACGT
Found at i:38474753 original size:19 final size:19
Alignment explanation
Indices: 38474715--38474753 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
38474705 AAAGCCGAAT
**
38474715 TCTTTCTTCTTCTTTTCTC
1 TCTTTCTTCTTCTTGCCTC
*
38474734 TCTTTCTTTTTCTTGCCTC
1 TCTTTCTTCTTCTTGCCTC
38474753 T
1 T
38474754 TCCTTCCTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.00, C:0.31, G:0.03, T:0.67
Consensus pattern (19 bp):
TCTTTCTTCTTCTTGCCTC
Found at i:38478367 original size:19 final size:19
Alignment explanation
Indices: 38478330--38478368 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
38478320 AAAGCCAAAT
**
38478330 TCTTTCTTCTTCTTTTCTC
1 TCTTTCTTCTTCTCATCTC
*
38478349 TCTTTCTTTTTCTCATCTC
1 TCTTTCTTCTTCTCATCTC
38478368 T
1 T
38478369 TCCTTCCTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.03, C:0.31, G:0.00, T:0.67
Consensus pattern (19 bp):
TCTTTCTTCTTCTCATCTC
Found at i:38481967 original size:17 final size:17
Alignment explanation
Indices: 38481917--38481967 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 17
38481907 AAATAATTGA
*
38481917 GATAAAAATAAATAAAT
1 GATAAAAATAAATAAAC
* * *
38481934 AAGAAAAATAAACAAAC
1 GATAAAAATAAATAAAC
*
38481951 GATAAAAATCAATAAAC
1 GATAAAAATAAATAAAC
38481968 CAATCAGGAA
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.71, C:0.08, G:0.06, T:0.16
Consensus pattern (17 bp):
GATAAAAATAAATAAAC
Found at i:38484212 original size:38 final size:38
Alignment explanation
Indices: 38484157--38484234 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
38484147 CTATTTAACC
*
38484157 ACATGTATAATCTATTCATCTAACATTTATATATCAAT
1 ACATGTATAATCCATTCATCTAACATTTATATATCAAT
38484195 ACATGTATAATCCATTCATCTAACATTTATATATCAAT
1 ACATGTATAATCCATTCATCTAACATTTATATATCAAT
38484233 AC
1 AC
38484235 TTCATTTGCA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.40, C:0.18, G:0.03, T:0.40
Consensus pattern (38 bp):
ACATGTATAATCCATTCATCTAACATTTATATATCAAT
Found at i:38485981 original size:40 final size:40
Alignment explanation
Indices: 38485926--38486006 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
38485916 ATGCAAGTTC
38485926 TTAAAATTTCTTTCTATAACCATTTGGTGCATTTAACTAA
1 TTAAAATTTCTTTCTATAACCATTTGGTGCATTTAACTAA
38485966 TTAAAATTTCTTTCTATAACCATTTGGTGCATTTAACTAA
1 TTAAAATTTCTTTCTATAACCATTTGGTGCATTTAACTAA
38486006 T
1 T
38486007 AGATCTCATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.32, C:0.15, G:0.07, T:0.46
Consensus pattern (40 bp):
TTAAAATTTCTTTCTATAACCATTTGGTGCATTTAACTAA
Found at i:38496893 original size:19 final size:20
Alignment explanation
Indices: 38496864--38496903 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
38496854 CAACTGACAT
*
38496864 AGAACTCTTGACATGATATG
1 AGAACTCTTGACATGAAATG
*
38496884 AGAA-TCTTGAGATGAAATG
1 AGAACTCTTGACATGAAATG
38496903 A
1 A
38496904 AAATGACTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.28
Consensus pattern (20 bp):
AGAACTCTTGACATGAAATG
Found at i:38497725 original size:32 final size:32
Alignment explanation
Indices: 38497689--38497753 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
38497679 TGAAATGTGA
*
38497689 ACTATCTGAGTGTGATAGTTATGACTGGACAG
1 ACTATCTGAGTGTGACAGTTATGACTGGACAG
38497721 ACTATCTGAGTGTGACAGTTATGACTGGACAG
1 ACTATCTGAGTGTGACAGTTATGACTGGACAG
38497753 A
1 A
38497754 TTTAGCAGTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (32 bp):
ACTATCTGAGTGTGACAGTTATGACTGGACAG
Found at i:38498192 original size:30 final size:30
Alignment explanation
Indices: 38498149--38498224 Score: 84
Period size: 30 Copynumber: 2.5 Consensus size: 30
38498139 TAGTATCGTG
*
38498149 TCTTGGGTTTCTTTATCCTG-GATCTTTT-TA
1 TCTTGGATTTCTTTATCCTGAG-T-TTTTCTA
* *
38498179 TTTTGGATTTCTTTATTCTGAGTTTTTCTA
1 TCTTGGATTTCTTTATCCTGAGTTTTTCTA
*
38498209 TCTTGAATTTCTTTAT
1 TCTTGGATTTCTTTAT
38498225 TCAGTTTTCT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
29 4 0.10
30 34 0.87
31 1 0.03
ACGTcount: A:0.13, C:0.13, G:0.13, T:0.61
Consensus pattern (30 bp):
TCTTGGATTTCTTTATCCTGAGTTTTTCTA
Found at i:38500685 original size:46 final size:46
Alignment explanation
Indices: 38500631--38500803 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
38500621 TTTGGGCATT
38500631 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
* * *
38500677 TGAACTCGTTGAGTTGAGTCCGAG-T---TTGTGAGATG-TAACTAGGTATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G--TC
* * * *
38500724 CGAGCT-GTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
* *
38500769 CGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38500804 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 12, Indels: 24
0.74 0.09 0.17
Matches are distributed among these distances:
42 6 0.06
43 5 0.05
45 9 0.09
46 65 0.63
47 8 0.08
49 4 0.04
50 6 0.06
ACGTcount: A:0.20, C:0.18, G:0.31, T:0.31
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
Found at i:38504619 original size:44 final size:44
Alignment explanation
Indices: 38504556--38505239 Score: 990
Period size: 44 Copynumber: 15.5 Consensus size: 44
38504546 GAGATAATGT
*
38504556 AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAAAGAGC
1 AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGC
* *
38504600 AGATCGAAGATAGCAGATTTGACGTCTCTGTATTGTTAGAGAGC
1 AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGC
*
38504644 AGATCGAAGATAGCAGATTTGGAGTCTCTGTATTGTCAGAGAGC
1 AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGC
* **
38504688 AGATCGAAGAGAATAGATTTGGCGTCTCTGTATTGTCAGAGAGC
1 AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGC
* * * *
38504732 AGATTGAAGAGAACAGATTTGGCGTCTCTGTATTGTCAGAGAGT
1 AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGC
* *
38504776 AGATCGAAGATAGTAGATTTGACGTCTCTGTATTGTCAGAGAGC
1 AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGC
* * *
38504820 AGATCAAAGATAGCAGATTTAGCGTCTCTGTATTATCAGAGAGC
1 AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGC
* *
38504864 AGATCGAAGATAGCAGATTTGACGTCTCTGTATTGTCAGAGAGT
1 AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGC
*
38504908 AGATCAAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGC
1 AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGC
* * * * *
38504952 ATATCGAAAAGAACAGATTTGGTGTCTCTGTATTGTCAGAGAGC
1 AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGC
* * *
38504996 AGATCGAAGAATAGTAGATTTGGCGTTTCTGTATTGTTAGAGAGC
1 AGATCGAAG-ATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGC
*
38505041 AGATCGAAGATAGCAGATTTGGTGTCTCTGTATTGTCAGAGAGC
1 AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGC
* *
38505085 AGATCAAAGATAGCGGATTTGGCGTCTCTGTATTGTCAGAGAGC
1 AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGC
** * ** *
38505129 AGATCGAAGATAATAAATTTGGTATCTCTGTATTGTCAGAGAGT
1 AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGC
* *
38505173 AGATCAAAGATAGCAGATTCGGCGTCTCTGTATTGTCAGAGAGC
1 AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGC
* * *
38505217 AGGTCGGAGATAACAGATTTGGC
1 AGATCGAAGATAGCAGATTTGGC
38505240 ATTCTTGAGT
Statistics
Matches: 565, Mismatches: 74, Indels: 2
0.88 0.12 0.00
Matches are distributed among these distances:
44 527 0.93
45 38 0.07
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.29
Consensus pattern (44 bp):
AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGC
Found at i:38506909 original size:12 final size:12
Alignment explanation
Indices: 38506894--38506930 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
38506884 ATTATTTTTA
38506894 TTATTATACATT
1 TTATTATACATT
*
38506906 TTATTTATAAATT
1 TTA-TTATACATT
38506919 TTATTATACATT
1 TTATTATACATT
38506931 ATATATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.59
Consensus pattern (12 bp):
TTATTATACATT
Found at i:38507148 original size:10 final size:10
Alignment explanation
Indices: 38507086--38507154 Score: 51
Period size: 10 Copynumber: 7.2 Consensus size: 10
38507076 TATATGATAG
38507086 TTATCATATTA
1 TTAT-ATATTA
38507097 TTATAT-TTCA
1 TTATATATT-A
38507107 TTATAT-TTCA
1 TTATATATT-A
38507117 TT-TATATT-
1 TTATATATTA
*
38507125 TT-TTTA-TA
1 TTATATATTA
*
38507133 TCATATATTA
1 TTATATATTA
38507143 TTATATATTA
1 TTATATATTA
38507153 TT
1 TT
38507155 CCCTATATTA
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
7 1 0.02
8 6 0.12
9 8 0.16
10 30 0.61
11 4 0.08
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATATATTA
Found at i:38507198 original size:19 final size:21
Alignment explanation
Indices: 38507158--38507202 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
38507148 TATTATTCCC
*
38507158 TATATTATCTTCCTTTTATTA
1 TATATTATCTTCATTTTATTA
38507179 TATATTAT-TTCATTTT-TTA
1 TATATTATCTTCATTTTATTA
38507198 T-TATT
1 TATATT
38507203 TATTAGTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 4 0.17
19 4 0.17
20 7 0.30
21 8 0.35
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (21 bp):
TATATTATCTTCATTTTATTA
Found at i:38510270 original size:14 final size:14
Alignment explanation
Indices: 38510251--38510277 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
38510241 AGAAAATGTA
38510251 TTTAGAGTTATGAC
1 TTTAGAGTTATGAC
38510265 TTTAGAGTTATGA
1 TTTAGAGTTATGA
38510278 TTACTATATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.04, G:0.22, T:0.44
Consensus pattern (14 bp):
TTTAGAGTTATGAC
Found at i:38514678 original size:13 final size:13
Alignment explanation
Indices: 38514660--38514725 Score: 63
Period size: 13 Copynumber: 5.5 Consensus size: 13
38514650 AAGATTTTTC
38514660 CTAAATATTATCA
1 CTAAATATTATCA
38514673 CTAAATA--ATC-
1 CTAAATATTATCA
38514683 CTAAATATTATCA
1 CTAAATATTATCA
* *
38514696 CTACATA--AT-T
1 CTAAATATTATCA
*
38514706 CTACATATTATCA
1 CTAAATATTATCA
38514719 CTAAATA
1 CTAAATA
38514726 ATTCAAAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
10 14 0.33
11 5 0.12
12 5 0.12
13 19 0.44
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.36
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:38514728 original size:23 final size:23
Alignment explanation
Indices: 38514660--38514734 Score: 114
Period size: 23 Copynumber: 3.3 Consensus size: 23
38514650 AAGATTTTTC
*
38514660 CTAAATATTATCACTAAATAATC
1 CTAAATATTATCACTAAATAATT
*
38514683 CTAAATATTATCACTACATAATT
1 CTAAATATTATCACTAAATAATT
*
38514706 CTACATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
*
38514729 CAAAAT
1 CTAAAT
38514735 TTAAAAATCA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.36
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATT
Found at i:38518782 original size:31 final size:31
Alignment explanation
Indices: 38518744--38518822 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
38518734 TTTAACGGTT
38518744 ACTGGGCCGAAGCCTTTTCATAAATCAAATC
1 ACTGGGCCGAAGCCTTTTCATAAATCAAATC
*
38518775 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCAAATC
*
38518806 ACTGGGTCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
38518823 ATTGTAAACA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCAAATC
Found at i:38518906 original size:42 final size:42
Alignment explanation
Indices: 38518846--38518937 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
38518836 TGGCCCATAG
*
38518846 GCCCATTTCAATAACACATGAAATATCAATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
*
38518888 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
*
38518930 GCCTATTT
1 GCCCATTT
38518938 GGGGAGACTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.39, C:0.21, G:0.12, T:0.28
Consensus pattern (42 bp):
GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
Found at i:38519116 original size:26 final size:26
Alignment explanation
Indices: 38519045--38519167 Score: 187
Period size: 26 Copynumber: 4.8 Consensus size: 26
38519035 CCTCTTTAAT
**
38519045 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
38519070 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
38519095 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
38519121 AACTGGGGCATAAGCCTTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
38519147 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
38519168 GCACTTCCTC
Statistics
Matches: 89, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
25 33 0.37
26 56 0.63
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:38519158 original size:52 final size:51
Alignment explanation
Indices: 38519033--38519167 Score: 222
Period size: 52 Copynumber: 2.7 Consensus size: 51
38519023 CTGGAGGCCT
*
38519033 AGCCTCTTT-AAT-AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCAA
1 AGCCTTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAA
*
38519081 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCTTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCA-A
38519133 AGCCTTTTTCAATAAACTGGGGCATAAGCCCTTTT
1 AGCCTTTTTCAATAAACTGGGGCATAAGCCCTTTT
38519168 GCACTTCCTC
Statistics
Matches: 80, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
48 7 0.09
49 3 0.04
50 10 0.12
51 25 0.31
52 35 0.44
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (51 bp):
AGCCTTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAA
Found at i:38519242 original size:20 final size:20
Alignment explanation
Indices: 38519217--38519292 Score: 104
Period size: 20 Copynumber: 3.9 Consensus size: 20
38519207 TTATGAATTC
*
38519217 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
*
38519237 ATCATGTGCATATCATGCAT
1 ATCATGTGCATATCATACAT
38519257 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
38519277 ATCATGT--ATATCATAC
1 ATCATGTGCATATCATAC
38519293 CCCACGTATC
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
17 1 0.02
18 8 0.15
20 41 0.79
21 2 0.04
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:38519248 original size:11 final size:11
Alignment explanation
Indices: 38519217--38519272 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
38519207 TTATGAATTC
38519217 ATCATGTGCAT
1 ATCATGTGCAT
* *
38519228 TTCA--TACAT
1 ATCATGTGCAT
38519237 ATCATGTGCAT
1 ATCATGTGCAT
38519248 ATCA--TGCAT
1 ATCATGTGCAT
38519257 ATCATGTGCAT
1 ATCATGTGCAT
38519268 ATCAT
1 ATCAT
38519273 ATCAATCATG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:38520138 original size:27 final size:27
Alignment explanation
Indices: 38520085--38520417 Score: 199
Period size: 27 Copynumber: 12.3 Consensus size: 27
38520075 TTTCATCCTA
* * * *
38520085 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
** *
38520112 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * * * *
38520139 TAATGGTATTTCT-ATAATTTTTAGAAAGT
1 CAAGGGTATTT-TGGTAA-TTTTATAAA-C
* * *
38520168 CAAGGGTATTTCT-ATAATTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTATAAAC
* * * *
38520195 TAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
38520222 TAAGGGTATTTTGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
38520249 C-AGTTGTATTTTGGTAACTTTACAAAC
1 CAAG-GGTATTTTGGTAATTTTATAAAC
* * *
38520276 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * * * *
38520303 CAGGGGTATTTTAGCAATTTTACAGAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
*
38520330 C-AGGGTATTTTGGTAATTTTACT-AAT
1 CAAGGGTATTTTGGTAATTTTA-TAAAC
* * *
38520356 CGAGGGTATTTTGGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * * *
38520383 TAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
*
38520410 CGAGGGTA
1 CAAGGGTA
38520418 AAACAGTAAT
Statistics
Matches: 247, Mismatches: 50, Indels: 18
0.78 0.16 0.06
Matches are distributed among these distances:
26 23 0.09
27 194 0.79
28 15 0.06
29 15 0.06
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAC
Found at i:38520213 original size:56 final size:54
Alignment explanation
Indices: 38520105--38520241 Score: 143
Period size: 56 Copynumber: 2.5 Consensus size: 54
38520095 TTGGTAAATC
* *
38520105 TACAAACCAAGGGTATTTCAGTAATTTTGTAAACTAATGGTATTTCTATAATTTT
1 TACAAATCAAGGGTATTTCAGTAATTTTGTAAACTAAGGGTATTTCTATAA-TTT
* * * *
38520160 TAGAAAGTCAAGGGTATTTCTA-TAATTTTGTAAATTAGGGGTATTT-TGGTAATTT
1 TACAAA-TCAAGGGTATTTC-AGTAATTTTGTAAACTAAGGGTATTTCT-ATAATTT
* **
38520215 TACAAATTAAGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
38520242 CACAAACCAG
Statistics
Matches: 68, Mismatches: 10, Indels: 9
0.78 0.11 0.10
Matches are distributed among these distances:
54 17 0.25
55 14 0.21
56 36 0.53
57 1 0.01
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.43
Consensus pattern (54 bp):
TACAAATCAAGGGTATTTCAGTAATTTTGTAAACTAAGGGTATTTCTATAATTT
Found at i:38520258 original size:54 final size:53
Alignment explanation
Indices: 38520198--38520403 Score: 243
Period size: 54 Copynumber: 3.8 Consensus size: 53
38520188 TGTAAATTAG
*
38520198 GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTTGGTAATTTCACAAACCA
1 GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTTGGTAATTTTACAAACCA
* * * *
38520251 GTTGTATTTTGGTAACTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCA
1 G-GGTATTTTGGTAATTTTACAAATTAAGGGTATTTTGGTAATTTTACAAACCA
* * * ** * *
38520305 GGGGTATTTTAGCAATTTTACAGA-CCAGGGTATTTTGGTAATTTTACTAATCGA
1 -GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTTGGTAATTTTAC-AAACCA
** *
38520359 GGGTATTTTGGTAATTTTGTAAATTAAGGGTATTTTAGTAATTTT
1 GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTTGGTAATTTT
38520404 GTAAATCGAG
Statistics
Matches: 126, Mismatches: 23, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
53 39 0.31
54 86 0.68
55 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.42
Consensus pattern (53 bp):
GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTTGGTAATTTTACAAACCA
Found at i:38520390 original size:80 final size:81
Alignment explanation
Indices: 38520196--38520403 Score: 276
Period size: 80 Copynumber: 2.6 Consensus size: 81
38520186 TTTGTAAATT
* * *
38520196 AGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTTGGTAATTTCACAAACCAGTTGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTTAGTAATTTTACAAACCAGTGGTATTTT
*
38520261 GGTAACTTTACAAACT
66 GGTAACTTTACAAACG
** * * *
38520277 AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGCAATTTTACAGACCAG-GGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTTAGTAATTTTACAAACCAGTGGTATTTT
* *
38520341 GGTAATTTTACTAATCG
66 GGTAACTTTAC-AAACG
**
38520358 A-GGGTATTTTGGTAATTTTGTAAATTAAGGGTATTTTAGTAATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTTAGTAATTTT
38520404 GTAAATCGAG
Statistics
Matches: 109, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
80 56 0.51
81 53 0.49
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTTAGTAATTTTACAAACCAGTGGTATTTT
GGTAACTTTACAAACG
Found at i:38520411 original size:54 final size:53
Alignment explanation
Indices: 38520087--38520417 Score: 227
Period size: 54 Copynumber: 6.1 Consensus size: 53
38520077 TCATCCTACA
* * * ** * *
38520087 AGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACTA
1 AGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTTAGTAATTTTGTAAAC-C
* * * * **
38520141 ATGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTA-TAATTTTGTAAATT
1 AGGGTATTT-TGGTAA-TTTTACAAA-TTAAGGGTATTT-TAGTAATTTTGTAAACC
* ***
38520196 AGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTTGGTAATTTCACAAACC
1 A-GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTTAGTAATTTTGTAAACC
* * * * * **
38520250 AGTTGTATTTTGGTAACTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACC
1 AG-GGTATTTTGGTAATTTTACAAATTAAGGGTATTTTAGTAATTTTGTAAACC
* * * ** * * * *
38520304 AGGGGTATTTTAGCAATTTTACAGA-CCAGGGTATTTTGGTAATTTTACTAATCG
1 A-GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTTAGTAATTTT-GTAAACC
** *
38520358 AGGGTATTTTGGTAATTTTGTAAATTAAGGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTTAGTAATTTTGTAAA-CC
38520412 AGGGTA
1 AGGGTA
38520418 AAACAGTAAT
Statistics
Matches: 218, Mismatches: 47, Indels: 24
0.75 0.16 0.08
Matches are distributed among these distances:
53 41 0.19
54 125 0.57
55 18 0.08
56 33 0.15
57 1 0.00
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (53 bp):
AGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTTAGTAATTTTGTAAACC
Found at i:38520706 original size:27 final size:27
Alignment explanation
Indices: 38520396--38520712 Score: 391
Period size: 27 Copynumber: 11.7 Consensus size: 27
38520386 GGGTATTTTA
* * **
38520396 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAATG
** **
38520423 GTAATTCTGCAAATTAAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
38520450 ATAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
38520477 GTAATTCTATAAATCGAGGATAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * *
38520504 GTAATTCTGTAAATCGAGGATAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
38520531 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
38520558 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
38520585 GTAATTCTATAAATCAAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * * *
38520612 GAAATTCTGTAAATCGATGATAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
38520639 GTAATTTTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
38520666 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * *
38520693 GTAATTTTACAAATTGAGGG
1 GTAATTCTATAAATCGAGGG
38520713 CATTTCATTA
Statistics
Matches: 255, Mismatches: 35, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 255 1.00
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAATG
Found at i:38520859 original size:78 final size:78
Alignment explanation
Indices: 38520730--38520883 Score: 290
Period size: 78 Copynumber: 2.0 Consensus size: 78
38520720 TTAATTTGGT
38520730 AAACTAAAGTATTCTAAACAAGAATAACAATACGAATGGGCCTAAAGCCTATTCTCGGCCCAAAT
1 AAACTAAAGTATTCTAAACAAGAATAACAATACGAATGGGCCTAAAGCCTATTCTCGGCCCAAAT
*
38520795 GGGGCCACACGAG
66 GGGCCCACACGAG
*
38520808 AAACTAAAGTATTCTAAACAAGGATAACAATACGAATGGGCCTAAAGCCTATTCTCGGCCCAAAT
1 AAACTAAAGTATTCTAAACAAGAATAACAATACGAATGGGCCTAAAGCCTATTCTCGGCCCAAAT
38520873 GGGCCCACACG
66 GGGCCCACACG
38520884 CTCGTGTGGC
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 74 1.00
ACGTcount: A:0.39, C:0.24, G:0.19, T:0.18
Consensus pattern (78 bp):
AAACTAAAGTATTCTAAACAAGAATAACAATACGAATGGGCCTAAAGCCTATTCTCGGCCCAAAT
GGGCCCACACGAG
Found at i:38522607 original size:12 final size:12
Alignment explanation
Indices: 38522579--38522607 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
38522569 TATACCTATA
38522579 TGGTAGAATTTT
1 TGGTAGAATTTT
38522591 T-GTAGAATTTT
1 TGGTAGAATTTT
38522602 TGGTAG
1 TGGTAG
38522608 GGCCAATTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (12 bp):
TGGTAGAATTTT
Found at i:38524021 original size:29 final size:29
Alignment explanation
Indices: 38523961--38524034 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
38523951 TCATCAACCA
*
38523961 CGCACACTTAGTGCCACGTACTTTAAACT
1 CGCACACTTAGTGCCACGCACTTTAAACT
* **
38523990 CGCACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCACGCACTTT-AAACT
*
38524019 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
38524035 ATCTCACAAC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 3 0.08
29 36 0.92
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCACGCACTTTAAACT
Found at i:38528048 original size:47 final size:47
Alignment explanation
Indices: 38527974--38528264 Score: 456
Period size: 47 Copynumber: 6.1 Consensus size: 47
38527964 CTCAGCATGT
* * *
38527974 ACATTTATACACTTTCACATCCATCACATTGGTCATTCGGCCTTATC
1 ACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATC
38528021 ACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC
1 ACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTAT--C
* *
38528070 ACATATATACACTTTCACATTCATCACGTTGGCCACTCGGCCTTATC
1 ACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATC
** *
38528117 ACATATATGTACTTTCACATTCATCACATTGGCCACTCGGCCTTATC
1 ACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATC
*
38528164 ACATATATACACTTTCACATTCATCACATTGGCCATTCGGTCTTATC
1 ACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATC
* * *
38528211 TCACATATACACTTTCACATTCATCACATTGGTCATTCGGCCTTATC
1 ACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATC
38528258 ACATATA
1 ACATATA
38528265 CATATCTTGT
Statistics
Matches: 224, Mismatches: 18, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
47 179 0.80
49 45 0.20
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.34
Consensus pattern (47 bp):
ACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATC
Found at i:38528143 original size:96 final size:96
Alignment explanation
Indices: 38527974--38528260 Score: 452
Period size: 96 Copynumber: 3.0 Consensus size: 96
38527964 CTCAGCATGT
* * *
38527974 ACATTTATACACTTTCACATCCATCACATTGGTCATTCGGCCTTATCACATATATACACTTTCAC
1 ACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCAC
38528039 ATTCATCACATTGGCCATTCGGCCTTATCAC
66 ATTCATCACATTGGCCATTCGGCCTTATCAC
* * **
38528070 ACATATATACACTTTCACATTCATCACGTTGGCCACTCGGCCTTATCACATATATGTACTTTCAC
1 ACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCAC
*
38528135 ATTCATCACATTGGCCACTCGGCCTTAT--C
66 ATTCATCACATTGGCCATTCGGCCTTATCAC
* * *
38528164 ACATATATACACTTTCACATTCATCACATTGGCCATTCGGTCTTATCTCACATATACACTTTCAC
1 ACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCAC
*
38528229 ATTCATCACATTGGTCATTCGGCCTTATCAC
66 ATTCATCACATTGGCCATTCGGCCTTATCAC
38528260 A
1 A
38528261 TATACATATC
Statistics
Matches: 172, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
94 85 0.49
96 87 0.51
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.34
Consensus pattern (96 bp):
ACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCAC
ATTCATCACATTGGCCATTCGGCCTTATCAC
Found at i:38532767 original size:13 final size:13
Alignment explanation
Indices: 38532749--38532773 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38532739 AGACTTCCTC
38532749 ACACGGCCGTGTG
1 ACACGGCCGTGTG
38532762 ACACGGCCGTGT
1 ACACGGCCGTGT
38532774 CAATTTGGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.32, G:0.36, T:0.16
Consensus pattern (13 bp):
ACACGGCCGTGTG
Found at i:38539028 original size:8 final size:8
Alignment explanation
Indices: 38538980--38539043 Score: 71
Period size: 8 Copynumber: 8.1 Consensus size: 8
38538970 AAAAATTATA
38538980 AATTTAAT
1 AATTTAAT
*
38538988 AATGTTAAC
1 AAT-TTAAT
*
38538997 AATATAAT
1 AATTTAAT
38539005 AA-TTAACT
1 AATTTAA-T
38539013 AA-TT-AT
1 AATTTAAT
38539019 AATTTAAT
1 AATTTAAT
38539027 AATTTAAT
1 AATTTAAT
38539035 AATTTAAT
1 AATTTAAT
38539043 A
1 A
38539044 CTATTTTCTT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
6 3 0.06
7 6 0.12
8 32 0.67
9 7 0.15
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.44
Consensus pattern (8 bp):
AATTTAAT
Found at i:38539029 original size:22 final size:21
Alignment explanation
Indices: 38539001--38539042 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
38538991 GTTAACAATA
38539001 TAATAA-TTAACTAATTATAATT
1 TAATAATTTAA-TAATT-TAATT
38539023 TAATAATTTAATAATTTAAT
1 TAATAATTTAATAATTTAAT
38539043 ACTATTTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.21
22 11 0.58
23 4 0.21
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
TAATAATTTAATAATTTAATT
Found at i:38540591 original size:19 final size:19
Alignment explanation
Indices: 38540567--38540608 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
38540557 TATTGAGTTT
*
38540567 GTTTCTTCCTAAAATTTTA
1 GTTTCTGCCTAAAATTTTA
38540586 GTTTCTGCCTAAAATTTTA
1 GTTTCTGCCTAAAATTTTA
38540605 GTTT
1 GTTT
38540609 TTTCTTTGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.24, C:0.14, G:0.10, T:0.52
Consensus pattern (19 bp):
GTTTCTGCCTAAAATTTTA
Found at i:38546587 original size:16 final size:16
Alignment explanation
Indices: 38546540--38546591 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
38546530 AAAAATTATG
* *
38546540 TTTTCCAT-CTTCTAG
1 TTTTCCATCCTTCCAA
*
38546555 TTTTCTATTCCTT-CAA
1 TTTTCCA-TCCTTCCAA
38546571 TTTTCCATCCTTCCAA
1 TTTTCCATCCTTCCAA
38546587 TTTTC
1 TTTTC
38546592 TTTTCACTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
15 11 0.37
16 16 0.53
17 3 0.10
ACGTcount: A:0.15, C:0.29, G:0.02, T:0.54
Consensus pattern (16 bp):
TTTTCCATCCTTCCAA
Found at i:38552541 original size:42 final size:41
Alignment explanation
Indices: 38552470--38552614 Score: 164
Period size: 42 Copynumber: 3.3 Consensus size: 41
38552460 CCATAGTTCA
* *
38552470 ATGGTCTTATACATCTTCACATAATGATGCCATAGCCCAGCT
1 ATGGTCTTACACATATTCACAT-ATGATGCCATAGCCCAGCT
* *
38552512 ATGGTCTTACACATATTCATATATCGATGCCATAGCCCAACT
1 ATGGTCTTACACATATTCACATAT-GATGCCATAGCCCAGCT
38552554 ATGGTCTTACACGTAATCACATATCACATATTGATGCCATAGCCCAGCT
1 ATGGTCTTACAC---AT---AT-TCACATA-TGATGCCATAGCCCAGCT
38552603 ATGGTCTTACAC
1 ATGGTCTTACAC
38552615 GAATCACATA
Statistics
Matches: 88, Mismatches: 6, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
41 2 0.02
42 47 0.53
45 2 0.02
48 2 0.02
49 34 0.39
50 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (41 bp):
ATGGTCTTACACATATTCACATATGATGCCATAGCCCAGCT
Found at i:38552594 original size:49 final size:48
Alignment explanation
Indices: 38552521--38552657 Score: 179
Period size: 49 Copynumber: 2.9 Consensus size: 48
38552511 TATGGTCTTA
* *
38552521 CACATATTCATATATCGATGCCATAGCCCAACTATGGTCTTACACGTAAT
1 CACATA-TCACATATTGATGCCATAGCCCAACTATGGTCTTACACG-AAT
*
38552571 CACATATCACATATTGATGCCATAGCCCAGCTATGGTCTTACACGAAT
1 CACATATCACATATTGATGCCATAGCCCAACTATGGTCTTACACGAAT
* * * *
38552619 CACATATCTC--ACTGATGCCATATCCCAAATATGGTCTTA
1 CACATATCACATATTGATGCCATAGCCCAACTATGGTCTTA
38552658 TACAGTAGCA
Statistics
Matches: 79, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
46 25 0.32
48 12 0.15
49 36 0.46
50 6 0.08
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.29
Consensus pattern (48 bp):
CACATATCACATATTGATGCCATAGCCCAACTATGGTCTTACACGAAT
Found at i:38552686 original size:47 final size:46
Alignment explanation
Indices: 38552536--38552704 Score: 176
Period size: 47 Copynumber: 3.6 Consensus size: 46
38552526 ATTCATATAT
* *
38552536 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACATATCACATAT
1 CGATGCCATAGCCCAAATATGGTCTTACACGT-ATCACATATCAC--AC
* ** * *
38552585 TGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCAC
1 CGATGCCATAGCCCAAATATGGTCTTACACGTATCACATATCACAC
* * * * *
38552631 TGATGCCATATCCCAAATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATAGCCCAAATATGGTCTTACAC-GTATCACATATCACAC
* *
38552678 CGATGCCATATCCCAGATATGGTCTTA
1 CGATGCCATAGCCCAAATATGGTCTTA
38552705 TACGGAAATC
Statistics
Matches: 104, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
46 27 0.26
47 37 0.36
48 11 0.11
49 29 0.28
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (46 bp):
CGATGCCATAGCCCAAATATGGTCTTACACGTATCACATATCACAC
Found at i:38552716 original size:95 final size:94
Alignment explanation
Indices: 38552495--38552704 Score: 236
Period size: 95 Copynumber: 2.3 Consensus size: 94
38552485 TTCACATAAT
* * * *
38552495 GATGCCATAGCCCAGCTATGGTCTTACAC-ATAT-TCATATAT--C-GATGCCATAGCCCAACTA
1 GATGCCATAGCCCAGATATGGTCTTACACGA-ATCACATATCTCACTGATGCCATAGCCCAAATA
* **
38552555 TGGTCTTACACGTAATCACATATCACATATT
65 TGGTCTTACACGTAAGCACATATCACA-ACC
* *
38552586 GATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCACTGATGCCATATCCCAAATAT
1 GATGCCATAGCCCAGATATGGTCTTACACGAATCACATATCTCACTGATGCCATAGCCCAAATAT
* *
38552651 GGTCTTATACAGT-AGCATATATCAC-ACC
66 GGTCTTACAC-GTAAGCACATATCACAACC
*
38552679 GATGCCATATCCCAGATATGGTCTTA
1 GATGCCATAGCCCAGATATGGTCTTA
38552705 TACGGAAATC
Statistics
Matches: 102, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
91 31 0.30
92 7 0.07
93 25 0.25
94 1 0.01
95 36 0.35
96 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (94 bp):
GATGCCATAGCCCAGATATGGTCTTACACGAATCACATATCTCACTGATGCCATAGCCCAAATAT
GGTCTTACACGTAAGCACATATCACAACC
Found at i:38552761 original size:31 final size:31
Alignment explanation
Indices: 38552726--38552843 Score: 191
Period size: 31 Copynumber: 3.8 Consensus size: 31
38552716 CTTGTCACTT
* *
38552726 GTAGCCGTAGCTACCACTATTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
*
38552757 GTAGCCGGAGCTACCACTTTTCACTGATTAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
38552788 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
* *
38552819 GTAGCAGAAGCTACCACTTTTCACT
1 GTAGCCGGAGCTACCACTTTTCACT
38552844 TGTCATTTGT
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 81 1.00
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (31 bp):
GTAGCCGGAGCTACCACTTTTCACTGATCAG
Found at i:38558333 original size:51 final size:49
Alignment explanation
Indices: 38558255--38558395 Score: 183
Period size: 49 Copynumber: 2.8 Consensus size: 49
38558245 TGTGAGGTCG
*
38558255 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA-TT-GATCA
* * ** ** * *
38558306 CGTGTGTAGTACTAAGTGCAGGCTACTACGTATACTGGATAATTGGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGATCA
38558355 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
38558396 GCTTTGGCTA
Statistics
Matches: 76, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
49 38 0.50
50 2 0.03
51 36 0.47
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (49 bp):
CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGATCA
Found at i:38558380 original size:49 final size:51
Alignment explanation
Indices: 38558250--38558382 Score: 180
Period size: 51 Copynumber: 2.6 Consensus size: 51
38558240 TCTATTGTGA
* *
38558250 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTC
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCATACCCGATAACTTC
* * * * **
38558301 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTATACTGGATAA-TT-
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCATACCCGATAACTTC
38558350 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
38558383 TGCGTACCAG
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
49 30 0.42
50 2 0.03
51 39 0.55
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCATACCCGATAACTTC
Found at i:38563938 original size:50 final size:49
Alignment explanation
Indices: 38563863--38564050 Score: 214
Period size: 50 Copynumber: 3.8 Consensus size: 49
38563853 TGAGGTCGCA
* * *
38563863 TGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGATAACTTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-TTGATCACG
* * ** *
38563913 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGA-TCACG
* ** * ** *
38563963 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGATCACG
*
38564012 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
38564051 GCTTTAGCTA
Statistics
Matches: 115, Mismatches: 22, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
49 40 0.35
50 75 0.65
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGATCACG
Found at i:38563942 original size:28 final size:28
Alignment explanation
Indices: 38563910--38563993 Score: 74
Period size: 28 Copynumber: 3.2 Consensus size: 28
38563900 TAACTTGATC
38563910 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * * *
38563938 ACGTGTATCAG-A-T-GGT-TAAG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
38563960 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
38563988 ACGTGT
1 ACGTGT
38563994 ACTGGATAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 16
0.62 0.12 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.20
23 2 0.05
24 3 0.08
25 4 0.10
26 3 0.08
27 2 0.05
28 14 0.35
29 2 0.05
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:38564049 original size:99 final size:100
Alignment explanation
Indices: 38563863--38564049 Score: 259
Period size: 99 Copynumber: 1.9 Consensus size: 100
38563853 TGAGGTCGCA
* * *
38563863 TGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGATAACTTGATCACGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGATAACTTGATCACATGTGTAGTACTAAGT
* *
38563928 GCAGGCTACTACGTGTATCAGATGGTTAAGTCACG
66 GCAGGCTACTACGCGTACCAGATGGTTAAGTCACG
* ** * **
38563963 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAA-TTGGTTGCATGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGATAACTTGATCACATGTGTAGTACTAAGT
*
38564027 GCAGGCTACTATGCGTACCAGAT
66 GCAGGCTACTACGCGTACCAGAT
38564050 AGCTTTAGCT
Statistics
Matches: 75, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
99 40 0.53
100 35 0.47
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (100 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGATAACTTGATCACATGTGTAGTACTAAGT
GCAGGCTACTACGCGTACCAGATGGTTAAGTCACG
Found at i:38566849 original size:17 final size:18
Alignment explanation
Indices: 38566822--38566855 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
38566812 CATCAGCGCG
38566822 TTAATAGATATACGGCTC
1 TTAATAGATATACGGCTC
38566840 TTAA-AGATATACGGCT
1 TTAATAGATATACGGCT
38566856 TCTATTAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (18 bp):
TTAATAGATATACGGCTC
Found at i:38568790 original size:5 final size:4
Alignment explanation
Indices: 38568760--38568856 Score: 92
Period size: 4 Copynumber: 23.8 Consensus size: 4
38568750 TAAAGAAACA
*** *
38568760 AAAG AAAG AAA- AAAG AATAG AAAG AACAG -AAG GTGG AACG AAA- AACAG
1 AAAG AAAG AAAG AAAG AA-AG AAAG AA-AG AAAG AAAG AAAG AAAG AA-AG
38568808 AGAAGG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 A-AA-G AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
38568857 AGGGAAAATT
Statistics
Matches: 79, Mismatches: 6, Indels: 16
0.78 0.06 0.16
Matches are distributed among these distances:
3 7 0.09
4 59 0.75
5 10 0.13
6 3 0.04
ACGTcount: A:0.69, C:0.03, G:0.26, T:0.02
Consensus pattern (4 bp):
AAAG
Found at i:38569947 original size:6 final size:6
Alignment explanation
Indices: 38569915--38569974 Score: 57
Period size: 6 Copynumber: 9.8 Consensus size: 6
38569905 ATGAGGTACC
* * * * * *
38569915 CTGTGTA CTGCTA CTGTTA CCGCTA CTGTTA CTGCTA TTGTTA CTATTA
1 CTGT-TA CTGTTA CTGTTA CTGTTA CTGTTA CTGTTA CTGTTA CTGTTA
38569964 CTGTTA CTGTT
1 CTGTTA CTGTT
38569975 GCCGTTACGG
Statistics
Matches: 41, Mismatches: 12, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
6 38 0.93
7 3 0.07
ACGTcount: A:0.17, C:0.22, G:0.17, T:0.45
Consensus pattern (6 bp):
CTGTTA
Found at i:38569959 original size:12 final size:12
Alignment explanation
Indices: 38569915--38569972 Score: 71
Period size: 12 Copynumber: 4.8 Consensus size: 12
38569905 ATGAGGTACC
38569915 CTGTGTACTGCTA
1 CTGT-TACTGCTA
*
38569928 CTGTTACCGCTA
1 CTGTTACTGCTA
38569940 CTGTTACTGCTA
1 CTGTTACTGCTA
* **
38569952 TTGTTACTATTA
1 CTGTTACTGCTA
38569964 CTGTTACTG
1 CTGTTACTG
38569973 TTGCCGTTAC
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
12 34 0.89
13 4 0.11
ACGTcount: A:0.17, C:0.22, G:0.17, T:0.43
Consensus pattern (12 bp):
CTGTTACTGCTA
Found at i:38570132 original size:18 final size:18
Alignment explanation
Indices: 38570111--38570145 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
38570101 TGAATGATAC
*
38570111 TGACAGTTACTAAATAAT
1 TGACAGATACTAAATAAT
*
38570129 TGACTGATACTAAATAA
1 TGACAGATACTAAATAA
38570146 CTAATTGTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.31
Consensus pattern (18 bp):
TGACAGATACTAAATAAT
Found at i:38583016 original size:33 final size:33
Alignment explanation
Indices: 38582979--38583046 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
38582969 GCCGGTGGAT
*
38582979 GTCGTAGGGAGTACATCATCTCTTCTTGTAGAC
1 GTCGTAAGGAGTACATCATCTCTTCTTGTAGAC
*
38583012 GTCGTAAGGAGTACATCATCTCTTCTTGTGGAC
1 GTCGTAAGGAGTACATCATCTCTTCTTGTAGAC
38583045 GT
1 GT
38583047 TTCGTAACGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.34
Consensus pattern (33 bp):
GTCGTAAGGAGTACATCATCTCTTCTTGTAGAC
Found at i:38584065 original size:126 final size:126
Alignment explanation
Indices: 38583735--38584128 Score: 510
Period size: 126 Copynumber: 3.2 Consensus size: 126
38583725 GGCCAAACAT
* * * * *
38583735 GAACTACTGTAGAAAAAGAGCGTCGATGTGGGAGCTTTTTT-AATCAATTTTACTGACAGTGCAT
1 GAACTACTGTAGAAAAAAAGCGTCCACGTGAGAGCTTTTTTCAAT-AATTTTACTAACAGTGCAT
* * *
38583799 CCTGCTTAAAGCTTTTTTGACACTATTTGTTCA-TAACTGTCTTCTCAAAATTA-TTTTTCAG
65 CCTACTTAAAGCATTTTTGACACTATTTGTTCAGAAACT-TCTTCTCAAAATTATTTTTTCAG
* * * *
38583860 GAACTACTGTAGAAAAATAGCGTCCACGTGAGAG--TTTTTCAGTAATTTTGCTCACAGTGCATC
1 GAACTACTGTAGAAAAAAAGCGTCCACGTGAGAGCTTTTTTCAATAATTTTACTAACAGTGCATC
* * * *
38583923 CTAGTTGAAGCGTTTTTGGCACTATTTGTTCAGAAACTTCTTCTCAAAATTATTTTTTCAG
66 CTACTTAAAGCATTTTTGACACTATTTGTTCAGAAACTTCTTCTCAAAATTATTTTTTCAG
* *
38583984 GAATTACTATAGAAAAAAAGCGTCCACGTGAGAGCTTTTTTCAATAATTTTACTAACAGTGCATC
1 GAACTACTGTAGAAAAAAAGCGTCCACGTGAGAGCTTTTTTCAATAATTTTACTAACAGTGCATC
* * ** * *
38584049 CTACCTAAAGCATTTTTCACACTATTTGTTCAGAGTCGTATTCTCAAAATTATTTTTTCAG
66 CTACTTAAAGCATTTTTGACACTATTTGTTCAGAAACTTCTTCTCAAAATTATTTTTTCAG
*
38584110 GAACTACTGTGGAAAAAAA
1 GAACTACTGTAGAAAAAAA
38584129 AATCCTTATT
Statistics
Matches: 232, Mismatches: 32, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
123 64 0.28
124 45 0.19
125 30 0.13
126 93 0.40
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.36
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAAAGCGTCCACGTGAGAGCTTTTTTCAATAATTTTACTAACAGTGCATC
CTACTTAAAGCATTTTTGACACTATTTGTTCAGAAACTTCTTCTCAAAATTATTTTTTCAG
Found at i:38584273 original size:34 final size:34
Alignment explanation
Indices: 38584187--38584284 Score: 119
Period size: 35 Copynumber: 2.9 Consensus size: 34
38584177 ATATTATTTT
38584187 AAAAA-ATAAACCCTAATTTAATTAATTTTCTTA
1 AAAAACATAAACCCTAATTTAATTAATTTTCTTA
* * *
38584220 AAAAATACTAAACCTTAATTTAATTAATTTAT-TTT
1 AAAAACA-TAAACCCTAATTTAATTAATTT-TCTTA
**
38584255 AAACCCATAAACCCTAATTTAATTAATTTT
1 AAAAACATAAACCCTAATTTAATTAATTTT
38584285 AAAAAATAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
33 6 0.11
34 22 0.39
35 27 0.48
36 1 0.02
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (34 bp):
AAAAACATAAACCCTAATTTAATTAATTTTCTTA
Found at i:38584379 original size:42 final size:42
Alignment explanation
Indices: 38584333--38584415 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
38584323 ACCCAAAACT
*
38584333 CTAAATTATTTTAACAAAACCCTAAACCCTACAAA-CCTAAGC
1 CTAAATTATTTTAACAAAACCCT-AACCCTAAAAACCCTAAGC
*
38584375 CTAAATTATTTTATCAAAACCCTAACCCTAAAAACCCTAAG
1 CTAAATTATTTTAACAAAACCCTAACCCTAAAAACCCTAAG
38584416 GACTAAACAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 10 0.26
42 28 0.74
ACGTcount: A:0.45, C:0.28, G:0.02, T:0.25
Consensus pattern (42 bp):
CTAAATTATTTTAACAAAACCCTAACCCTAAAAACCCTAAGC
Found at i:38588014 original size:16 final size:16
Alignment explanation
Indices: 38587993--38588025 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
38587983 ATCACTTTGG
38587993 ATTGGATTTTGAATTA
1 ATTGGATTTTGAATTA
38588009 ATTGGATTTTGAATTA
1 ATTGGATTTTGAATTA
38588025 A
1 A
38588026 GTTTAGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.48
Consensus pattern (16 bp):
ATTGGATTTTGAATTA
Found at i:38588479 original size:52 final size:52
Alignment explanation
Indices: 38588422--38588531 Score: 211
Period size: 52 Copynumber: 2.1 Consensus size: 52
38588412 TTGGATCATT
38588422 TTGGGTTCAAATCATTTTATGGTTTGAGATTTTGAGTACTTTTGGGTTAGAG
1 TTGGGTTCAAATCATTTTATGGTTTGAGATTTTGAGTACTTTTGGGTTAGAG
*
38588474 TTGGGTTTAAATCATTTTATGGTTTGAGATTTTGAGTACTTTTGGGTTAGAG
1 TTGGGTTCAAATCATTTTATGGTTTGAGATTTTGAGTACTTTTGGGTTAGAG
38588526 TTGGGT
1 TTGGGT
38588532 AGTTTTGAGT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 57 1.00
ACGTcount: A:0.20, C:0.05, G:0.28, T:0.47
Consensus pattern (52 bp):
TTGGGTTCAAATCATTTTATGGTTTGAGATTTTGAGTACTTTTGGGTTAGAG
Found at i:38592070 original size:47 final size:47
Alignment explanation
Indices: 38592019--38592123 Score: 138
Period size: 47 Copynumber: 2.2 Consensus size: 47
38592009 AAGGTGGAAG
*
38592019 TTATTGGTAGTTTATCTACAATTTTGGTGGCTTGTCCACGATTTTGA
1 TTATTGGTAGTTTATCTACAATTTTGGTGGCTTGTCCACAATTTTGA
* * *** *
38592066 TTATTGGCAATTTATCTGTGATTTTGGTGGCTTGTCTACAATTTTGA
1 TTATTGGTAGTTTATCTACAATTTTGGTGGCTTGTCCACAATTTTGA
*
38592113 TTATTGATAGT
1 TTATTGGTAGT
38592124 GTAACGCCCC
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.20, C:0.10, G:0.21, T:0.49
Consensus pattern (47 bp):
TTATTGGTAGTTTATCTACAATTTTGGTGGCTTGTCCACAATTTTGA
Found at i:38593474 original size:47 final size:47
Alignment explanation
Indices: 38593358--38593535 Score: 200
Period size: 47 Copynumber: 3.8 Consensus size: 47
38593348 ATAATTTCAC
* * *
38593358 CCATAATGAACTCGGAACGCAACTCAACGAGCTCGGGTG-TTCACAT
1 CCATAATGAACTCGGAACACAACTCAACGAGTTCGGATGCTTCACAT
* * *
38593404 CCATAATGAACTCGAAACACAACTCAATGAGTTCGGATGCTT-GCAT
1 CCATAATGAACTCGGAACACAACTCAACGAGTTCGGATGCTTCACAT
* *
38593450 CCATAAGTGAACTCGGAACACAACTCAACGAGTTCGGATGCCTCATAAT
1 CCATAA-TGAACTCGGAACACAACTCAACGAGTTCGGATGCTTCA-CAT
* * * * *
38593499 TC-TCACGAACTCGGAACGCAACTCAACTAGTTCGGAT
1 CCATAATGAACTCGGAACACAACTCAACGAGTTCGGAT
38593536 CTCAATTTCC
Statistics
Matches: 112, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
46 43 0.38
47 64 0.57
48 2 0.02
49 3 0.03
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (47 bp):
CCATAATGAACTCGGAACACAACTCAACGAGTTCGGATGCTTCACAT
Found at i:38600727 original size:29 final size:29
Alignment explanation
Indices: 38600688--38600766 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
38600678 CTTAAGAATC
*
38600688 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
38600718 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
38600747 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
38600767 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:38604160 original size:27 final size:27
Alignment explanation
Indices: 38604125--38604247 Score: 133
Period size: 27 Copynumber: 4.6 Consensus size: 27
38604115 ACATAGGGGT
* * *
38604125 AAAATAGTCATCTTACTATAAAAGGGC
1 AAAACAGTCATTTTACCATAAAAGGGC
*
38604152 AAAACAGTCATTTTACCATATAAGGGC
1 AAAACAGTCATTTTACCATAAAAGGGC
*
38604179 AAAACAGTCATTTTACC-TCATAAGGGC
1 AAAACAGTCATTTTACCAT-AAAAGGGC
* * *
38604206 AAAATAGTTATTTTACC-TCATAAGGGC
1 AAAACAGTCATTTTACCAT-AAAAGGGC
*
38604233 AAAATAGTCATTTTA
1 AAAACAGTCATTTTA
38604248 TTAACTTGGG
Statistics
Matches: 88, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
26 1 0.01
27 87 0.99
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (27 bp):
AAAACAGTCATTTTACCATAAAAGGGC
Found at i:38608019 original size:40 final size:40
Alignment explanation
Indices: 38607960--38608142 Score: 251
Period size: 40 Copynumber: 4.6 Consensus size: 40
38607950 ATTCGAATGC
* * *
38607960 TATCCAGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACTA
* * * *
38608000 TATCCGGACTAAGATCCGAAGGCATTTGTGCAAGTTG-CTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGACTA
* *
38608040 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACTA
* *
38608080 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACTA
38608120 TATCCGGGCTAAGACCCGAAGGC
1 TATCCGGGCTAAGACCCGAAGGC
38608143 CTTGTGCGAG
Statistics
Matches: 125, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 122 0.98
41 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACTA
Found at i:38608447 original size:22 final size:22
Alignment explanation
Indices: 38608405--38608448 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
38608395 AAAATGTGCA
* *
38608405 TATATGAAGTTATTCATTTAGC
1 TATATGAAGTTATACACTTAGC
38608427 TATATGAATGTTATAC-CTTAGC
1 TATATGAA-GTTATACACTTAGC
38608449 CGAAACTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATATGAAGTTATACACTTAGC
Found at i:38611336 original size:27 final size:27
Alignment explanation
Indices: 38611305--38611482 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
38611295 TAAATTGTAC
*
38611305 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
38611332 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
38611358 ATGCACTAAGTGTGCAAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
38611386 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
38611413 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
38611441 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
38611468 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
38611483 GACTTAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 103 0.80
28 25 0.20
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:38611366 original size:54 final size:55
Alignment explanation
Indices: 38611305--38611482 Score: 218
Period size: 54 Copynumber: 3.3 Consensus size: 55
38611295 TAAATTGTAC
* **
38611305 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
* * * ** *
38611360 -GCACTAAGTGTGCAAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
* *
38611413 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
*
38611468 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
38611483 GACTTAATAT
Statistics
Matches: 104, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
53 1 0.01
54 58 0.56
55 45 0.43
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
Found at i:38613414 original size:43 final size:43
Alignment explanation
Indices: 38613366--38613511 Score: 267
Period size: 43 Copynumber: 3.4 Consensus size: 43
38613356 TTGGTTTTCA
38613366 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
38613409 GCACTAAGTGTGCGGCGC-ATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGG-GCAATAAGTGTTCACGGTTGTGAGATTG
*
38613452 GCACTAAGTGTGCAGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
38613495 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
38613512 TTGAAATGCA
Statistics
Matches: 99, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
42 2 0.02
43 95 0.96
44 2 0.02
ACGTcount: A:0.23, C:0.16, G:0.35, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:38613552 original size:29 final size:29
Alignment explanation
Indices: 38613493--38613566 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
38613483 GTTGTGAGAT
* *
38613493 TGGCACTAAGTGTGCGGGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATACA
*
38613522 TGGCACTAAGTGTGCGAG-TTTAAAGTACA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TACA
38613551 TGGC-CATAAGTGTGCG
1 TGGCAC-TAAGTGTGCG
38613567 TGGTTGATTA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATACA
Found at i:38621976 original size:47 final size:47
Alignment explanation
Indices: 38621818--38622152 Score: 537
Period size: 47 Copynumber: 7.1 Consensus size: 47
38621808 GAAATGATAG
38621818 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT-A
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
38621864 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
38621913 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
38621960 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
38622007 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
38622054 TAAGGCCTAATGGCCGATGTGATGAAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATG-AATGTGAAAGTGTATATATGTGA
*** * * * * * * *
38622102 CGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
38622149 TAAG
1 TAAG
38622153 TCCCGAAGGG
Statistics
Matches: 270, Mismatches: 15, Indels: 7
0.92 0.05 0.02
Matches are distributed among these distances:
46 36 0.13
47 148 0.55
48 49 0.18
49 37 0.14
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:38622083 original size:142 final size:142
Alignment explanation
Indices: 38621818--38622152 Score: 539
Period size: 142 Copynumber: 2.4 Consensus size: 142
38621808 GAAATGATAG
38621818 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT-ATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
38621882 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 GTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
38621947 TGTATATATGTGA
130 TGTATATATGTGA
*
38621960 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
38622025 GTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAATGTGAAAG
66 GTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATG-AATGTGAAAG
38622089 TGTATATATGTGA
130 TGTATATATGTGA
*** * * * * * * *
38622102 CGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAAG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
38622153 TCCCGAAGGG
Statistics
Matches: 179, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
141 35 0.20
142 107 0.60
143 37 0.21
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (142 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
GTATATATGTGA
Found at i:38624194 original size:43 final size:43
Alignment explanation
Indices: 38624146--38624291 Score: 283
Period size: 43 Copynumber: 3.4 Consensus size: 43
38624136 TTGGTTTTCA
38624146 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
38624189 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
*
38624232 GCACTAAGTGTGCAGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
38624275 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
38624292 TTGAAATGCA
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 101 1.00
ACGTcount: A:0.23, C:0.15, G:0.35, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:38624308 original size:29 final size:29
Alignment explanation
Indices: 38624273--38624346 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
38624263 GTTGTGAGAT
* *
38624273 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
38624302 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
38624331 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
38624347 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:38624753 original size:40 final size:39
Alignment explanation
Indices: 38624656--38624835 Score: 168
Period size: 40 Copynumber: 4.5 Consensus size: 39
38624646 TCGAATGATG
* *
38624656 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCT--AGTGA-TATA
* * * * *
38624697 TCCGGACT-AGAT-CCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCTAGTGA-TATA
* *
38624736 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAG-GCATTCGTGCTAGTGATATA
*
38624776 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAG-GCATTCGTGCTAGTGATATA
* *
38624816 TCCGTGCTAAATCCCGAAGG
1 TCCGGGCTAAGTCCCGAAGG
38624836 GCAATCATGC
Statistics
Matches: 115, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
39 16 0.14
40 73 0.63
41 26 0.23
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAGTGATATA
Found at i:38624792 original size:80 final size:79
Alignment explanation
Indices: 38624656--38624852 Score: 193
Period size: 80 Copynumber: 2.5 Consensus size: 79
38624646 TCGAATGATG
**
38624656 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAAGTGACCATATCCGGACTAGATCCGAAG-GCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCATGCT--AGTGACCATATCCGGACTAGATCCGAAGAGCAT
* *
38624719 TGGTGCGAGTTACTAAA
64 TCGTGCGAGTGA-TAAA
** * *
38624736 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA-TGTATCCGGGCTAAGTTCCGAAGAGCAT
1 TCCGGGCTAAGTCCCGAAG-GCATTCATGCTAGTGACCATATCCGGACT-AGATCCGAAGAGCAT
* *
38624800 TCGTGCTAGTGATATA
64 TCGTGCGAGTGATAAA
* * * *
38624816 TCCGTGCTAAATCCCGAAGGGCAATCATGCTGGTGAC
1 TCCGGGCTAAGTCCCGAA-GGCATTCATGCTAGTGAC
38624853 GTGTATTCGG
Statistics
Matches: 97, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
79 9 0.09
80 66 0.68
81 16 0.16
82 6 0.06
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACCATATCCGGACTAGATCCGAAGAGCATTC
GTGCGAGTGATAAA
Found at i:38628600 original size:47 final size:47
Alignment explanation
Indices: 38628534--38628962 Score: 669
Period size: 47 Copynumber: 9.1 Consensus size: 47
38628524 GAAATGATAG
*
38628534 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
38628581 TAAGGCCTAATGGCCGATGTGATGGATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
38628630 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
38628677 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
38628724 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
38628771 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
38628818 TAAGGCCTAATGGCCTATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
38628865 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
38628912 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
38628959 TAAG
1 TAAG
38628963 TCCCGAAGGG
Statistics
Matches: 356, Mismatches: 24, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
47 311 0.87
49 45 0.13
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:38640998 original size:46 final size:46
Alignment explanation
Indices: 38640945--38641120 Score: 162
Period size: 46 Copynumber: 3.8 Consensus size: 46
38640935 TGGTTGAGCA
38640945 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAG
** * * * *
38640991 TTTGAACTCGTTGACTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA--A-G
** *
38641036 CATCCGAACTCGTTGAGTTGAGTCTAAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAG
* * * *
38641084 CCCGAGCTCGTTGAGTTGAGTCCGATTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38641121 GCGGGTTACA
Statistics
Matches: 100, Mismatches: 21, Indels: 18
0.72 0.15 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 3 0.03
46 57 0.57
47 24 0.24
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAG
Found at i:38641103 original size:93 final size:93
Alignment explanation
Indices: 38640942--38641113 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
38640932 GGATGGTTGA
* ***
38640942 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAGTTTGAACTCGTTGACT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAAAGCCCGAACTCGTTGACT
38641007 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
38641035 GCATCCGAACTCGTTGAGTTGAGTCTAAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAAAGCCCGAACTCGTTGACT
*
38641100 TGAGTCCGATTTCG
66 TGAGTCCGAGTTCG
38641114 CTTATGGGCG
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAAAGCCCGAACTCGTTGACT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:38644840 original size:28 final size:28
Alignment explanation
Indices: 38644806--38644897 Score: 148
Period size: 28 Copynumber: 3.3 Consensus size: 28
38644796 GGCCCACACT
38644806 CATTCATATGGCCCATCGGGCCCAATCA
1 CATTCATATGGCCCATCGGGCCCAATCA
* *
38644834 CACTCATATGGCCCATCAGGCCCAATCA
1 CATTCATATGGCCCATCGGGCCCAATCA
* *
38644862 CTTTCATATGGCCCGTCGGGCCCAATCA
1 CATTCATATGGCCCATCGGGCCCAATCA
38644890 CATTCATA
1 CATTCATA
38644898 GTCATGTAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 57 1.00
ACGTcount: A:0.25, C:0.36, G:0.16, T:0.23
Consensus pattern (28 bp):
CATTCATATGGCCCATCGGGCCCAATCA
Found at i:38658002 original size:27 final size:27
Alignment explanation
Indices: 38657979--38658183 Score: 223
Period size: 27 Copynumber: 7.6 Consensus size: 27
38657969 TTAGTTTACC
*
38657979 AAATTACCAAAATACCTTTGGTTTGTA
1 AAATTACCAAAATACCTTTGGTTTATA
* * *
38658006 AAATCACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCTTTGGTTTATA
* ** * *
38658033 AAATCACCAAAATACCCCTGATTTGTA
1 AAATTACCAAAATACCTTTGGTTTATA
* *
38658060 AAATTACCAAAATACCATTGGTTTACA
1 AAATTACCAAAATACCTTTGGTTTATA
** *
38658087 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCTTTGGTTTATA
* *
38658114 AAATTACTAAAATACCCTTT-TTTTATA
1 AAATTACCAAAATA-CCTTTGGTTTATA
* *
38658141 AAATTACCAAAATACCTCTGGTTTGTA
1 AAATTACCAAAATACCTTTGGTTTATA
*
38658168 AAATTATCAAAATACC
1 AAATTACCAAAATACC
38658184 CAATACCTCT
Statistics
Matches: 148, Mismatches: 28, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
26 4 0.03
27 141 0.95
28 3 0.02
ACGTcount: A:0.41, C:0.19, G:0.07, T:0.33
Consensus pattern (27 bp):
AAATTACCAAAATACCTTTGGTTTATA
Found at i:38658044 original size:54 final size:54
Alignment explanation
Indices: 38657979--38658184 Score: 297
Period size: 54 Copynumber: 3.8 Consensus size: 54
38657969 TTAGTTTACC
** *
38657979 AAATTACCAAAATACCTTTGGTTTGTAAAATCACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * * * *
38658033 AAATCACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCATTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
**
38658087 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTTTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
*
38658141 AAATTACCAAAATACCTCTGGTTTGTAAAATTA-TCAAAATACCC
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACT-AAAATACCC
38658185 AATACCTCTG
Statistics
Matches: 135, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
53 1 0.01
54 134 0.99
ACGTcount: A:0.41, C:0.19, G:0.07, T:0.33
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
Found at i:38658116 original size:81 final size:80
Alignment explanation
Indices: 38657979--38658184 Score: 268
Period size: 81 Copynumber: 2.5 Consensus size: 80
38657969 TTAGTTTACC
* * *
38657979 AAATTACCAAAATACCTTTGGTTTGTAAAATCACTAAAATACCCTTGGTTTATAAAATCACCAAA
1 AAATTACCAAAATACC-TTGGTTTGTAAAATTACCAAAATACCCCTGGTTTATAAAATCACCAAA
*
38658044 ATACCCCTGATTTGTA
65 ATACCCCTGATTTATA
** * * *
38658060 AAATTACCAAAATACCATTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAA
1 AAATTACCAAAATACC-TTGGTTTGTAAAATTACCAAAATACCCCTGGTTTATAAAATCACCAAA
* **
38658125 ATACCCTTTTTTTATA
65 ATACCCCTGATTTATA
*
38658141 AAATTACCAAAATACCTCTGGTTTGTAAAATTATCAAAATACCC
1 AAATTACCAAAATACCT-TGGTTTGTAAAATTACCAAAATACCC
38658185 AATACCTCTG
Statistics
Matches: 108, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
80 1 0.01
81 107 0.99
ACGTcount: A:0.41, C:0.19, G:0.07, T:0.33
Consensus pattern (80 bp):
AAATTACCAAAATACCTTGGTTTGTAAAATTACCAAAATACCCCTGGTTTATAAAATCACCAAAA
TACCCCTGATTTATA
Found at i:38658189 original size:34 final size:34
Alignment explanation
Indices: 38658151--38658218 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
38658141 AAATTACCAA
* *
38658151 AATACCTCTGGTTTGTAAAATTATCAAAATACCC
1 AATACCTCTGATTTGTAAAATTACCAAAATACCC
*
38658185 AATACCTCTGATTTGTGAAATTACCAAAATACCC
1 AATACCTCTGATTTGTAAAATTACCAAAATACCC
38658219 TTAATTTGTG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (34 bp):
AATACCTCTGATTTGTAAAATTACCAAAATACCC
Found at i:38658207 original size:88 final size:88
Alignment explanation
Indices: 38658097--38658272 Score: 219
Period size: 88 Copynumber: 2.0 Consensus size: 88
38658087 AAATTACCAA
* * **
38658097 AATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTTTTTATAAAATTACCAAAATA-CCTCTG
1 AATACCCCTGATTTGTAAAATTACCAAAATACCCTTAATTTATAAAATTACCAAAATACCCTC-G
***
38658161 GTTTGTAAAATTATCAAAATACCC
65 ACCTGTAAAATTATCAAAATACCC
* * * * *
38658185 AATACCTCTGATTTGTGAAATTACCAAAATACCCTTAATTTGTGAAATTACTAAAATACCCTCGA
1 AATACCCCTGATTTGTAAAATTACCAAAATACCCTTAATTTATAAAATTACCAAAATACCCTCGA
*
38658250 CCTGTAAAATTATTAAAATACCC
66 CCTGTAAAATTATCAAAATACCC
38658273 TCGACTTGTA
Statistics
Matches: 74, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
88 70 0.95
89 4 0.05
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.34
Consensus pattern (88 bp):
AATACCCCTGATTTGTAAAATTACCAAAATACCCTTAATTTATAAAATTACCAAAATACCCTCGA
CCTGTAAAATTATCAAAATACCC
Found at i:38658225 original size:27 final size:27
Alignment explanation
Indices: 38658185--38658306 Score: 120
Period size: 27 Copynumber: 4.5 Consensus size: 27
38658175 CAAAATACCC
*
38658185 AATA-CCTCTGATTTGTGAAATTACCAA
1 AATACCCTC-GATTTGTAAAATTACCAA
** * *
38658212 AATACCCTTAATTTGTGAAATTACTAA
1 AATACCCTCGATTTGTAAAATTACCAA
** **
38658239 AATACCCTCGACCTGTAAAATTATTAA
1 AATACCCTCGATTTGTAAAATTACCAA
*
38658266 AATACCCTCGACTTGTAAAATTACCAA
1 AATACCCTCGATTTGTAAAATTACCAA
* *
38658293 AGTACCCTTGATTT
1 AATACCCTCGATTT
38658307 ACAGAATAAC
Statistics
Matches: 79, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
27 76 0.96
28 3 0.04
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (27 bp):
AATACCCTCGATTTGTAAAATTACCAA
Found at i:38658258 original size:115 final size:115
Alignment explanation
Indices: 38658087--38658299 Score: 266
Period size: 115 Copynumber: 1.9 Consensus size: 115
38658077 TTGGTTTACA
** *****
38658087 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTTTTTATAAAATTACCAAA
1 AAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAATACCCTCGACCTATAAAATTACCAAA
** *
38658152 ATA-CCTCTGGTTTGTAAAATTATCAAAATACCCAATACCTCTGATTTGTG
66 ATACCCTC-GACTTGTAAAATTACCAAAATACCCAATACCTCTGATTTGTG
* * * **
38658202 AAATTACCAAAATACCCTTAATTTGTGAAATTACTAAAATACCCTCGACCTGTAAAATTATTAAA
1 AAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAATACCCTCGACCTATAAAATTACCAAA
*
38658267 ATACCCTCGACTTGTAAAATTACCAAAGTACCC
66 ATACCCTCGACTTGTAAAATTACCAAAATACCC
38658300 TTGATTTACA
Statistics
Matches: 81, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
115 77 0.95
116 4 0.05
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.32
Consensus pattern (115 bp):
AAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAATACCCTCGACCTATAAAATTACCAAA
ATACCCTCGACTTGTAAAATTACCAAAATACCCAATACCTCTGATTTGTG
Found at i:38658285 original size:142 final size:142
Alignment explanation
Indices: 38658043--38658298 Score: 325
Period size: 142 Copynumber: 1.8 Consensus size: 142
38658033 AAATCACCAA
** *
38658043 AATACCCCTGATTTGTAAAATTACCAAAATACCATTGGTTTACAAAATTACCAAAATACCCCTGG
1 AATACCCCTGATTTGTAAAATTACCAAAATACCATTAATTTACAAAATTACCAAAATACCCCTGA
** ****
38658108 TTTGTAAAATTACTAAAATACCCTTTTTTTATAAAATTACCAAAATACCTCTGGTTTGTAAAATT
66 CCTGTAAAATTACTAAAATACCCTCGACTTATAAAATTACCAAAATACCTCTGGTTTGTAAAATT
38658173 ATCAAAATACCC
131 ATCAAAATACCC
* * * *** *
38658185 AATACCTCTGATTTGTGAAATTACCAAAATACCCTTAATTTGTGAAATTACTAAAATA-CCCTCG
1 AATACCCCTGATTTGTAAAATTACCAAAATACCATTAATTTACAAAATTACCAAAATACCCCT-G
* * *
38658249 ACCTGTAAAATTATTAAAATACCCTCGACTTGTAAAATTACCAAAGTACC
65 ACCTGTAAAATTACTAAAATACCCTCGACTTATAAAATTACCAAAATACC
38658299 CTTGATTTAC
Statistics
Matches: 94, Mismatches: 19, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
141 4 0.04
142 90 0.96
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (142 bp):
AATACCCCTGATTTGTAAAATTACCAAAATACCATTAATTTACAAAATTACCAAAATACCCCTGA
CCTGTAAAATTACTAAAATACCCTCGACTTATAAAATTACCAAAATACCTCTGGTTTGTAAAATT
ATCAAAATACCC
Found at i:38658366 original size:27 final size:27
Alignment explanation
Indices: 38658338--38658667 Score: 383
Period size: 27 Copynumber: 12.3 Consensus size: 27
38658328 CGATTTAAAA
* *
38658338 AATTACCGAAATACCCTTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
38658365 AAATACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
38658392 AAATACCGAAATACCCCTTTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
38658419 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
38658446 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
38658473 AATGACCGAAATACCCCTATAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * * *
38658500 AATTACTAAAATACCCTTATATGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
38658527 AATTACCGAAATACCCCTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
38658554 AATCATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
38658581 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
38658608 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * * *
38658635 AATTACGGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
38658661 AATTACC
1 AATTACC
38658668 ATTTTGCCCT
Statistics
Matches: 257, Mismatches: 46, Indels: 1
0.85 0.15 0.00
Matches are distributed among these distances:
26 15 0.06
27 242 0.94
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:38659127 original size:22 final size:22
Alignment explanation
Indices: 38659097--38659158 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
38659087 AAGCCTTCTG
* *
38659097 ATTATGGCTTTGTGTCAACCTA
1 ATTATGGCTCTGTGCCAACCTA
38659119 CA-TATGGCTCTGTGCCAACCTA
1 -ATTATGGCTCTGTGCCAACCTA
*
38659141 ATTATGGCTGTGTGCCAA
1 ATTATGGCTCTGTGCCAA
38659159 ACGTATTTGC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.34
Consensus pattern (22 bp):
ATTATGGCTCTGTGCCAACCTA
Found at i:38659347 original size:27 final size:27
Alignment explanation
Indices: 38659317--38659418 Score: 125
Period size: 27 Copynumber: 3.8 Consensus size: 27
38659307 ATTCTGTTAA
* *
38659317 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
38659344 GTGGCTATGCCACAAATATCT-ATTCTG
1 GTGGCTCTGCCAC-AATATCTGTTTCTG
*
38659371 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
38659398 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
38659419 ATAACTGAGT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
26 7 0.11
27 52 0.80
28 6 0.09
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTTTCTG
Found at i:38661624 original size:27 final size:26
Alignment explanation
Indices: 38661601--38661916 Score: 299
Period size: 27 Copynumber: 11.7 Consensus size: 26
38661591 TTAGTTTACC
38661601 AAATTACCAAAATACCACTGGTTTGTA
1 AAATTACCAAAATACC-CTGGTTTGTA
* * *
38661628 AAATCACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCC-TGGTTTGTA
*
38661655 AAATCACCAAAATACCTCTGGTTTGTA
1 AAATTACCAAAATACC-CTGGTTTGTA
* **
38661682 AAATTACCAAAATACCCTTAGTTTACA
1 AAATTACCAAAATACCC-TGGTTTGTA
38661709 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATA-CCCTGGTTTGTA
* * *
38661736 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCC-TGGTTTGTA
38661763 AAATTACCAAAATATCCCTGGTTTGTA
1 AAATTACCAAAATA-CCCTGGTTTGTA
* *
38661790 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATA-CCCTGGTTTGTA
* *
38661817 AAATTACCAAAAATACCCCTGATTTGTG
1 AAATTACC-AAAATA-CCCTGGTTTGTA
** ***
38661845 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCT-GGTTTGTA
*** **
38661872 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCT-GGTTTGTA
*
38661899 AAATTACCAAAGTACCCT
1 AAATTACCAAAATACCCT
38661917 TGATTTACAA
Statistics
Matches: 245, Mismatches: 36, Indels: 16
0.82 0.12 0.05
Matches are distributed among these distances:
26 9 0.04
27 206 0.84
28 30 0.12
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (26 bp):
AAATTACCAAAATACCCTGGTTTGTA
Found at i:38661676 original size:54 final size:54
Alignment explanation
Indices: 38661591--38661862 Score: 375
Period size: 54 Copynumber: 5.0 Consensus size: 54
38661581 TTAGAATATT
** * *
38661591 TTAGTTTACCAAATTACCAAAATACCACTGGTTTGTAAAATCACTAAAATACCC
1 TTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCC
* * * *
38661645 TTGGTTTATAAAATCACCAAAATACCTCTGGTTTGTAAAATTACCAAAATACCC
1 TTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCC
*
38661699 TTAGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCC
1 TTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCC
* *
38661753 TTTGTTTATAAAATTACCAAAATATCCCTGGTTTGTAAAATTA-TCAAAATACCC
1 TTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACT-AAAATACCC
* * * * *
38661807 CTAGTTTGTAAAATTACCAAAAATACCCCTGATTTGTGAAATTACTGAAATACCC
1 TTAGTTTATAAAATTACC-AAAATACCCCTGGTTTGTAAAATTACTAAAATACCC
38661862 T
1 T
38661863 CGACCTGTAA
Statistics
Matches: 192, Mismatches: 23, Indels: 5
0.87 0.10 0.02
Matches are distributed among these distances:
53 1 0.01
54 160 0.83
55 30 0.16
56 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.32
Consensus pattern (54 bp):
TTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCC
Found at i:38661968 original size:27 final size:27
Alignment explanation
Indices: 38661845--38661970 Score: 103
Period size: 27 Copynumber: 4.7 Consensus size: 27
38661835 CTGATTTGTG
* **
38661845 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACTGAAATACCCTCGACTTACA
* **
38661872 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGACTTACA
* * *
38661899 AAATTAC-CAAAGTACCCTTGATTTACA
1 AAATTACTGAAA-TACCCTCGACTTACA
* ** *
38661926 AAATTA-TCATTTTACCCTCGATTTACA
1 AAATTACTGA-AATACCCTCGACTTACA
38661953 AAATTACTGAAATACCCT
1 AAATTACTGAAATACCCT
38661971 TATAGGGTAG
Statistics
Matches: 81, Mismatches: 14, Indels: 8
0.79 0.14 0.08
Matches are distributed among these distances:
26 3 0.04
27 76 0.94
28 2 0.02
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACTTACA
Found at i:38661991 original size:27 final size:27
Alignment explanation
Indices: 38661961--38662210 Score: 353
Period size: 27 Copynumber: 9.3 Consensus size: 27
38661951 CAAAATTACT
* * * *
38661961 GAAATACCCTTATAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTATC
38661988 GAAATACCCCTGTAGGGTAGAA-TATC
1 GAAATACCCCTGTAGGGTAGAATTATC
*
38662014 GAAATACCCCTTTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTATC
*
38662041 GCAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTATC
*
38662068 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTATC
* *
38662095 GAAATACCCCTGTAAGATAGAATTA-C
1 GAAATACCCCTGTAGGGTAGAATTATC
*
38662121 TGAAATACCCCTATAGGGTAGAATTATC
1 -GAAATACCCCTGTAGGGTAGAATTATC
38662149 GAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTATC
*
38662176 -ACAATACCCCTGTAGGGTAGAATTACC
1 GA-AATACCCCTGTAGGGTAGAATTATC
*
38662203 GAGATACC
1 GAAATACC
38662211 TTGTGGGGGA
Statistics
Matches: 202, Mismatches: 16, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
26 26 0.13
27 174 0.86
28 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.24
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTATC
Found at i:38662707 original size:22 final size:22
Alignment explanation
Indices: 38662655--38662719 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
38662645 TTAAAGCCTT
* *
38662655 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
38662677 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
* *
38662699 CTGATTATGGTTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
38662720 ACGCATTTCC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Done.