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 94 of 345
Found at i:30917886 original size:21 final size:21
Alignment explanation
Indices: 30917833--30917915 Score: 80
Period size: 22 Copynumber: 3.8 Consensus size: 21
30917823 TTTTATATAT
*
30917833 TATTATGTACATATTTTGATA
1 TATTATGTATATATTTTGATA
30917854 TCATTA-GTTATATATTTTGATA
1 T-ATTATG-TATATATTTTGATA
* *
30917876 TATTATGTATATTTCTTTTACTA
1 TATTATGTATATAT-TTTGA-TA
30917899 T-TTCATGTATATATTTT
1 TATT-ATGTATATATTTT
30917916 TATTTCATCT
Statistics
Matches: 52, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
21 12 0.23
22 28 0.54
23 12 0.23
ACGTcount: A:0.29, C:0.06, G:0.07, T:0.58
Consensus pattern (21 bp):
TATTATGTATATATTTTGATA
Found at i:30917971 original size:25 final size:26
Alignment explanation
Indices: 30917921--30917988 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 26
30917911 ATTTTTATTT
* * *
30917921 CATCTCATGTATAAATTTTTGAATAC
1 CATCTTATATATATATTTTTGAATAC
* *
30917947 TATGTTATATATATATTTTT-AATAC
1 CATCTTATATATATATTTTTGAATAC
*
30917972 CATCTTATGTATATATT
1 CATCTTATATATATATT
30917989 ATTATATCTA
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
25 19 0.56
26 15 0.44
ACGTcount: A:0.34, C:0.10, G:0.06, T:0.50
Consensus pattern (26 bp):
CATCTTATATATATATTTTTGAATAC
Found at i:30918238 original size:3 final size:3
Alignment explanation
Indices: 30918184--30918226 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
30918174 CGTATGCATC
30918184 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
30918227 ATATGTTATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:30918249 original size:20 final size:18
Alignment explanation
Indices: 30918184--30918250 Score: 74
Period size: 15 Copynumber: 3.9 Consensus size: 18
30918174 CGTATGCATC
30918184 TTATTATTATTAT-TA--
1 TTATTATTATTATATATG
30918199 TTATTATTATTAT-TA--
1 TTATTATTATTATATATG
30918214 TTATTATTATTATATATG
1 TTATTATTATTATATATG
30918232 TTATTATATATGTATATAT
1 TTATTAT-TAT-TATATAT
30918251 ACGTATATAT
Statistics
Matches: 47, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
15 28 0.60
16 2 0.04
18 7 0.15
19 3 0.06
20 7 0.15
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (18 bp):
TTATTATTATTATATATG
Found at i:30918251 original size:12 final size:12
Alignment explanation
Indices: 30918220--30918244 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30918210 ATTATTATTA
30918220 TTATTATATATG
1 TTATTATATATG
30918232 TTATTATATATG
1 TTATTATATATG
30918244 T
1 T
30918245 ATATATACGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (12 bp):
TTATTATATATG
Found at i:30918281 original size:25 final size:26
Alignment explanation
Indices: 30918244--30918318 Score: 64
Period size: 25 Copynumber: 2.9 Consensus size: 26
30918234 ATTATATATG
*
30918244 TATATATACGTATATA-TTTTAATAAC
1 TATAT-TATGTATATACTTTTAATAAC
* * *
30918270 TATATTATGTATGTATTTTTAA-CAC
1 TATATTATGTATATACTTTTAATAAC
* * *
30918295 TATTTTATGTATACACTTTCAATA
1 TATATTATGTATATACTTTTAATA
30918319 TTATTGTGTA
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
25 27 0.71
26 11 0.29
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.49
Consensus pattern (26 bp):
TATATTATGTATATACTTTTAATAAC
Found at i:30927097 original size:92 final size:91
Alignment explanation
Indices: 30926928--30927103 Score: 237
Period size: 92 Copynumber: 1.9 Consensus size: 91
30926918 ACGCTGAGGT
*
30926928 TTTTTCAATTTCTGTTTTCGAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGCC
1 TTTTTCAATTTCTGTTTTC-AAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGCC
*
30926993 ACATGCCAAGGTATTTTCAAAATTTTA
65 ACAAGCCAAGGTATTTTCAAAATTTTA
* * * *
30927020 TTTTTCAATTTCTGTTTCTTC-CAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT
1 TTTTTCAATTTCTG-TT-TTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGC
* **
30927084 CATAAGCGGAGGTATTTTCA
64 CACAAGCCAAGGTATTTTCA
30927104 TTTTTTCAGA
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
92 68 0.93
93 2 0.03
94 3 0.04
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (91 bp):
TTTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGCCA
CAAGCCAAGGTATTTTCAAAATTTTA
Found at i:30927423 original size:163 final size:161
Alignment explanation
Indices: 30926875--30927423 Score: 557
Period size: 163 Copynumber: 3.4 Consensus size: 161
30926865 TTTTTGTTCT
* * * * *
30926875 AAAAATCAACTCATGTTGTGAGAGGTGAATTGAGCCTCGGG--ACACGCTGAGGTTTTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTATTTTCAATT
* **
30926938 TCTGTTT-TCGAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGCCACATGCCAA
66 TTTGTTTGTC---AAAAATCAACTCATATTGCGAGAG-TGAGTTGAGCCTCGGG--ACATGCTGA
* * *
30927002 GGTATTTTCAAAATTT-TATTTTTCAATTTCTGTTTCTTCC
125 GGTATTTTC--AATTTCTGTTTTTCAATTTATATTT-TT-C
* * * * *
30927042 AAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCATAAGCGGAGGTATTTTC-ATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTATTTTCAATT
** *
30927106 TTT-TCAG--AAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCGAGG-CATG-TCGAGGT
66 TTTGTTTGTCAAAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCTCG-GGACATGCT-GAGGT
* ** * * * *
30927166 ATTTTTAAAATCTGCTTTTCAAATTA-A-ATTCC
128 ATTTTCAATTTCTGTTTTTCAATTTATATTTTTC
* * * * *
30927198 AAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTATTTTCAATT
* * *
30927263 TTTGTTTGTCAAAAATCAACTCATATTGCAAGATGTGAGTTGAGCATCGGGACACGCTGAGGTAT
66 TTTGTTTGTCAAAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCTCGGGACATGCTGAGGTAT
30927328 TTTCAATTTCTGTTTTTTCAATTTATATTTTTC
130 TTTCAATTTCTG-TTTTTCAATTTATATTTTTC
30927361 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATG-TCGAGGTATTTTCAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCT-GAGGTATTTTCAA
30927424 AATCTGCTTT
Statistics
Matches: 311, Mismatches: 54, Indels: 38
0.77 0.13 0.09
Matches are distributed among these distances:
156 52 0.17
157 7 0.02
158 3 0.01
159 5 0.02
160 64 0.21
161 24 0.08
162 2 0.01
163 95 0.31
164 3 0.01
167 37 0.12
168 5 0.02
169 14 0.05
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (161 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTATTTTCAATT
TTTGTTTGTCAAAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTCGGGACATGCTGAGGTATT
TTCAATTTCTGTTTTTCAATTTATATTTTTC
Found at i:30927467 original size:87 final size:88
Alignment explanation
Indices: 30927272--30927470 Score: 244
Period size: 88 Copynumber: 2.3 Consensus size: 88
30927262 TTTTGTTTGT
* * **
30927272 CAAAAATCAACTCATATTGCAAGATGTGAGTTGAGCATCGGGACACGCTGAGGTATTTTCAATTT
1 CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCGGGACACGCTGAGGTATTTTCAAAAT
* * * *
30927337 CTGTTTTTTCAATTTATATTTTT
66 CTGTCTTTTCAAATTATATGTTC
* *
30927360 CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATG-TCGAGGTATTTTCAA
1 CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCGGG--ACACGCT-GAGGTATTTTCAA
30927424 AATCTG-CTTTTCAAATTA-A-GTTC
63 AATCTGTCTTTTCAAATTATATGTTC
*
30927447 CAAAAACCAACTCATATTGCGAGA
1 CAAAAATCAACTCATATTGCGAGA
30927471 CACGTGCTGA
Statistics
Matches: 97, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
87 25 0.26
88 40 0.41
89 11 0.11
90 21 0.22
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (88 bp):
CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCGGGACACGCTGAGGTATTTTCAAAAT
CTGTCTTTTCAAATTATATGTTC
Found at i:30927515 original size:13 final size:13
Alignment explanation
Indices: 30927482--30927517 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
30927472 ACGTGCTGAG
* *
30927482 CTATTTTCAATTT
1 CTATTTTTAATGT
30927495 CTATTTTTAATGT
1 CTATTTTTAATGT
30927508 CTATTTTTAA
1 CTATTTTTAA
30927518 AGAGTCAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.25, C:0.11, G:0.03, T:0.61
Consensus pattern (13 bp):
CTATTTTTAATGT
Found at i:30927995 original size:25 final size:25
Alignment explanation
Indices: 30927961--30928008 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
30927951 AAAAGTCTTT
30927961 ACTCTATTCTCGTTACACGACAACA
1 ACTCTATTCTCGTTACACGACAACA
*
30927986 ACTCTATTCTCGTTATACGACAA
1 ACTCTATTCTCGTTACACGACAA
30928009 TGAGTAAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.31
Consensus pattern (25 bp):
ACTCTATTCTCGTTACACGACAACA
Found at i:30928092 original size:25 final size:25
Alignment explanation
Indices: 30928064--30928123 Score: 111
Period size: 25 Copynumber: 2.4 Consensus size: 25
30928054 CCATTTACAT
30928064 CAAAACCCAACAGTAGCCCAAACAC
1 CAAAACCCAACAGTAGCCCAAACAC
30928089 CAAAACCCAACAGTAGCCCAAACAC
1 CAAAACCCAACAGTAGCCCAAACAC
*
30928114 TAAAACCCAA
1 CAAAACCCAA
30928124 AATAAGAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.50, C:0.38, G:0.07, T:0.05
Consensus pattern (25 bp):
CAAAACCCAACAGTAGCCCAAACAC
Found at i:30928500 original size:10 final size:10
Alignment explanation
Indices: 30928487--30928526 Score: 62
Period size: 10 Copynumber: 4.0 Consensus size: 10
30928477 TTTCGAATCA
30928487 TTTGTTTTCT
1 TTTGTTTTCT
*
30928497 TTTGTTTTGT
1 TTTGTTTTCT
30928507 TTTGTTTTCT
1 TTTGTTTTCT
*
30928517 TTTCTTTTCT
1 TTTGTTTTCT
30928527 ACATACACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.00, C:0.10, G:0.10, T:0.80
Consensus pattern (10 bp):
TTTGTTTTCT
Found at i:30929357 original size:16 final size:16
Alignment explanation
Indices: 30929318--30929375 Score: 73
Period size: 16 Copynumber: 3.6 Consensus size: 16
30929308 TTATTCTCTC
*
30929318 TATTATGTATTACTAAT
1 TATTAT-TATTACTAGT
30929335 ATATTATTATTACTAGT
1 -TATTATTATTACTAGT
*
30929352 TATTATTATTTCTAG-
1 TATTATTATTACTAGT
30929367 TATTATTAT
1 TATTATTAT
30929376 ATATATAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
15 9 0.24
16 14 0.37
17 9 0.24
18 6 0.16
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (16 bp):
TATTATTATTACTAGT
Found at i:30929359 original size:30 final size:29
Alignment explanation
Indices: 30929282--30929359 Score: 79
Period size: 30 Copynumber: 2.6 Consensus size: 29
30929272 ATTGTTTATG
* *
30929282 TTATTACTATTATTGTTACTATATTTTTA
1 TTATTACTATTATTATTACTATATTATTA
*
30929311 TTCTCT-CTATTATGTATTACTA-ATATATTA
1 TTAT-TACTATTAT-TATTACTATAT-TATTA
30929341 TTATTACTAGTTATTATTA
1 TTATTACTA-TTATTATTA
30929360 TTTCTAGTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
29 13 0.32
30 23 0.57
31 4 0.10
ACGTcount: A:0.29, C:0.09, G:0.04, T:0.58
Consensus pattern (29 bp):
TTATTACTATTATTATTACTATATTATTA
Found at i:30929423 original size:18 final size:20
Alignment explanation
Indices: 30929375--30929423 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 20
30929365 AGTATTATTA
30929375 TATATATAATATTAGTGTATG
1 TATATAT-ATATTAGTGTATG
*
30929396 T-TTTAT-TATATA-TGTATG
1 TATATATATAT-TAGTGTATG
30929414 TATATATATA
1 TATATATATA
30929424 GTTTTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 7
0.72 0.06 0.22
Matches are distributed among these distances:
18 10 0.43
19 6 0.26
20 6 0.26
21 1 0.04
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (20 bp):
TATATATATATTAGTGTATG
Found at i:30929616 original size:22 final size:21
Alignment explanation
Indices: 30929591--30929654 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
30929581 TTTTCTTTTA
30929591 ATATTTATATATTATTATGTAC
1 ATATTT-TATATTATTATGTAC
* *
30929613 ATATTTTGATATCATTA-GTTAT
1 ATATTTT-ATATTATTATG-TAC
30929635 ATATTTT-TATATATTATGTA
1 ATATTTTATAT-TATTATGTA
30929655 TATTTCTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
20 3 0.09
21 8 0.23
22 24 0.69
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.56
Consensus pattern (21 bp):
ATATTTTATATTATTATGTAC
Found at i:30929699 original size:24 final size:24
Alignment explanation
Indices: 30929632--30929710 Score: 78
Period size: 24 Copynumber: 3.5 Consensus size: 24
30929622 TATCATTAGT
*
30929632 TATATATTTTTATAT-A-TT-ATG
1 TATATATTTTTATTTCATTTCATG
* *
30929653 TATAT-TTCTT-TTACTATTTCATG
1 TATATATTTTTATTTC-ATTTCATG
30929676 TATATATTTTTATTTCATTTCATG
1 TATATATTTTTATTTCATTTCATG
*
30929700 TATAAATTTTT
1 TATATATTTTT
30929711 GAATACTATG
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
19 1 0.02
20 4 0.09
21 6 0.13
22 2 0.04
23 8 0.17
24 22 0.48
25 3 0.07
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.62
Consensus pattern (24 bp):
TATATATTTTTATTTCATTTCATG
Found at i:30929738 original size:23 final size:24
Alignment explanation
Indices: 30929700--30929753 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
30929690 TCATTTCATG
* * *
30929700 TATAAATTTTTGAATACTATGTTA
1 TATATATTTTTGAATACCATCTTA
30929724 TATATATTTTT-AATACCATCTTA
1 TATATATTTTTGAATACCATCTTA
*
30929747 TGTATAT
1 TATATAT
30929754 ATTATTATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 16 0.62
24 10 0.38
ACGTcount: A:0.35, C:0.07, G:0.06, T:0.52
Consensus pattern (24 bp):
TATATATTTTTGAATACCATCTTA
Found at i:30930000 original size:3 final size:3
Alignment explanation
Indices: 30929953--30929985 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
30929943 CGTATGTATC
30929953 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
30929986 GTATATGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:30930204 original size:13 final size:13
Alignment explanation
Indices: 30930186--30930246 Score: 95
Period size: 13 Copynumber: 4.5 Consensus size: 13
30930176 TGTTCATTTT
30930186 TATATATTATGTA
1 TATATATTATGTA
*
30930199 TATATATTATGTTTT
1 TATATATTATG--TA
30930214 TATATATTATGTA
1 TATATATTATGTA
30930227 TATATATTATGTA
1 TATATATTATGTA
30930240 TATATAT
1 TATATAT
30930247 ATTTAACATT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
13 32 0.73
15 12 0.27
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (13 bp):
TATATATTATGTA
Found at i:30930219 original size:28 final size:28
Alignment explanation
Indices: 30930182--30930249 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
30930172 TATATGTTCA
30930182 TTTTTATATATTATGTATATATATTATG
1 TTTTTATATATTATGTATATATATTATG
30930210 TTTTTATATATTATGTATATATATTATG
1 TTTTTATATATTATGTATATATATTATG
* *
30930238 TATATATATATT
1 TTTTTATATATT
30930250 TAACATTATT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (28 bp):
TTTTTATATATTATGTATATATATTATG
Found at i:30932242 original size:12 final size:12
Alignment explanation
Indices: 30932225--30932249 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30932215 CCATCGAATT
30932225 CCCTTTTTCAAC
1 CCCTTTTTCAAC
30932237 CCCTTTTTCAAC
1 CCCTTTTTCAAC
30932249 C
1 C
30932250 TCAACCGAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.44, G:0.00, T:0.40
Consensus pattern (12 bp):
CCCTTTTTCAAC
Found at i:30941976 original size:46 final size:47
Alignment explanation
Indices: 30941836--30942047 Score: 217
Period size: 46 Copynumber: 4.6 Consensus size: 47
30941826 TCAATAAGCC
* ** *
30941836 TGTCCCAGACATGGTCTTACACTGGCTCATGTCTCAAGTCGATGCCA
1 TGTCCCAGACATGGTCTTACACTGGCTTACATCTCAAGGCGATGCCA
** *
30941883 TGTCCCAGACATGGTCTTACACTAAC--ACATCTCGTAA-CCGATG-CA
1 TGTCCCAGACATGGTCTTACACTGGCTTACATCTC--AAGGCGATGCCA
30941928 TGTCCCAGACAT-GTCTTACACTGGCTTACATCT-AGAGGCTGATG-CA
1 TGTCCCAGACATGGTCTTACACTGGCTTACATCTCA-AGGC-GATGCCA
* * *
30941974 TGTCCCAAACAT-GTCTTACACTAGCTCT-CATCTCAATGCAGATGCCA
1 TGTCCCAGACATGGTCTTACACTGGCT-TACATCTCAAGGC-GATGCCA
30942021 TGTCCCAGACATGGTCTTACACTGGCT
1 TGTCCCAGACATGGTCTTACACTGGCT
30942048 CATAATAACC
Statistics
Matches: 140, Mismatches: 14, Indels: 21
0.80 0.08 0.12
Matches are distributed among these distances:
43 1 0.01
44 12 0.09
45 20 0.14
46 53 0.38
47 41 0.29
48 13 0.09
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (47 bp):
TGTCCCAGACATGGTCTTACACTGGCTTACATCTCAAGGCGATGCCA
Found at i:30951745 original size:21 final size:24
Alignment explanation
Indices: 30951704--30951746 Score: 65
Period size: 21 Copynumber: 1.9 Consensus size: 24
30951694 AAACATGAGC
30951704 TTAAACATATTTTTAATATTTACA
1 TTAAACATATTTTTAATATTTACA
30951728 TTAAA-ATA-TTTT-ATATTTA
1 TTAAACATATTTTTAATATTTA
30951747 ATTCTCATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.37
22 4 0.21
23 3 0.16
24 5 0.26
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (24 bp):
TTAAACATATTTTTAATATTTACA
Found at i:30952327 original size:24 final size:23
Alignment explanation
Indices: 30952299--30952344 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
30952289 CGCTTCGATT
*
30952299 TTTATTTTTAATTCATATATTTTC
1 TTTATTTTTAATCCATAT-TTTTC
30952323 TTTATTTTTAATCCATATTTTT
1 TTTATTTTTAATCCATATTTTT
30952345 AATAATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (23 bp):
TTTATTTTTAATCCATATTTTTC
Found at i:30952517 original size:16 final size:16
Alignment explanation
Indices: 30952498--30952531 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
30952488 ATATTATAAA
30952498 ATTAAA-ATATTATTTT
1 ATTAAATATATT-TTTT
30952514 ATTAAATATATTTTTT
1 ATTAAATATATTTTTT
30952530 AT
1 AT
30952532 ATTTATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTAAATATATTTTTT
Found at i:30952685 original size:13 final size:13
Alignment explanation
Indices: 30952667--30952707 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
30952657 CAACTAATTA
*
30952667 TTTTTATATATAT
1 TTTTTATAAATAT
*
30952680 TTTTTATAAATAG
1 TTTTTATAAATAT
30952693 TTTTTATAAATAT
1 TTTTTATAAATAT
30952706 TT
1 TT
30952708 ATTTTTTACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (13 bp):
TTTTTATAAATAT
Found at i:30954399 original size:31 final size:31
Alignment explanation
Indices: 30954364--30954427 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
30954354 CCATCAATAG
30954364 AAGAAAACTATTTTAGTCTACTAAAAACTAA
1 AAGAAAACTATTTTAGTCTACTAAAAACTAA
30954395 AAGAAAACTATTTTAGTCTACTAAAAACTAA
1 AAGAAAACTATTTTAGTCTACTAAAAACTAA
30954426 AA
1 AA
30954428 TGTAAGAAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.28
Consensus pattern (31 bp):
AAGAAAACTATTTTAGTCTACTAAAAACTAA
Found at i:30957056 original size:57 final size:57
Alignment explanation
Indices: 30956964--30957109 Score: 145
Period size: 57 Copynumber: 2.5 Consensus size: 57
30956954 TATACGACAA
* * * * * *
30956964 GATTA-CCAGTCCAGGCTAAATCCTTTTTATGACATATGCTCTAAAGAGCTTGAT-T-TG
1 GATTACCCA-TCCGGGCTAAATCC-TTTCATAACATATGCTCGAAAG-GATTGATATCAG
* * * *
30957021 GATTACCCTTCCGGGCTAAATCCAATTCATAACATATGCTCGAGAGGATTTATATCAG
1 GATTACCCATCCGGGCTAAATCC-TTTCATAACATATGCTCGAAAGGATTGATATCAG
30957079 GATTACCCATCCGGGCTAAATCCTTTCATAA
1 GATTACCCATCCGGGCTAAATCCTTTCATAA
30957110 ATGAGGTCAA
Statistics
Matches: 73, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
56 5 0.07
57 43 0.59
58 25 0.34
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (57 bp):
GATTACCCATCCGGGCTAAATCCTTTCATAACATATGCTCGAAAGGATTGATATCAG
Found at i:30964585 original size:18 final size:19
Alignment explanation
Indices: 30964543--30964591 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
30964533 ACAATACCTA
*
30964543 AACAGTAATCAATAACGGC
1 AACAGTAATCAATAACAGC
* *
30964562 AGCAGTAA-CAATAACAGT
1 AACAGTAATCAATAACAGC
*
30964580 AACAGTATTCAA
1 AACAGTAATCAA
30964592 CACACAAAGT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.49, C:0.18, G:0.14, T:0.18
Consensus pattern (19 bp):
AACAGTAATCAATAACAGC
Found at i:30964630 original size:45 final size:45
Alignment explanation
Indices: 30964566--30964676 Score: 168
Period size: 45 Copynumber: 2.5 Consensus size: 45
30964556 AACGGCAGCA
* * * *
30964566 GTAACAATAACAGTAACAGTATTCAACACACAAAGTGTTGAATCT
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTATTAAATCG
*
30964611 GTAACAGTAACGGTAACAGTATTCAACACACAAAGTATTAAATCG
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTATTAAATCG
*
30964656 GTAATAGTAACAGTAACAGTA
1 GTAACAGTAACAGTAACAGTA
30964677 ATAGTAACAG
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 59 1.00
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.23
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAGTATTCAACACACAAAGTATTAAATCG
Found at i:30964933 original size:40 final size:40
Alignment explanation
Indices: 30964888--30964974 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 40
30964878 AATTTATTAC
* * * *
30964888 TTCAGTAATTTCACAGTTTAATGCAGTACACATAACAATA
1 TTCAGTAACTTCACAATTCAATGCAGTACACAAAACAATA
* * *
30964928 TTCAGTAACTTCACAATTCGATTCAGTACTCAAAACAATA
1 TTCAGTAACTTCACAATTCAATGCAGTACACAAAACAATA
30964968 TTCAGTA
1 TTCAGTA
30964975 TTCCATAATT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (40 bp):
TTCAGTAACTTCACAATTCAATGCAGTACACAAAACAATA
Found at i:30965662 original size:11 final size:11
Alignment explanation
Indices: 30965634--30965668 Score: 52
Period size: 11 Copynumber: 3.0 Consensus size: 11
30965624 AAAACATCAA
30965634 TTTTCTCTTTCT
1 TTTTCT-TTTCT
30965646 TCTTTCTTTTCT
1 T-TTTCTTTTCT
30965658 TTTTCTTTTCT
1 TTTTCTTTTCT
30965669 GCTCTATTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 10 0.45
12 7 0.32
13 5 0.23
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTCTTTTCT
Found at i:30965729 original size:17 final size:18
Alignment explanation
Indices: 30965707--30965742 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
30965697 TTTAGCTTTG
30965707 TTTTCTTTT-GTTTTATT
1 TTTTCTTTTCGTTTTATT
*
30965724 TTTTCTTTTCTTTTTATT
1 TTTTCTTTTCGTTTTATT
30965742 T
1 T
30965743 CATTTACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.06, C:0.08, G:0.03, T:0.83
Consensus pattern (18 bp):
TTTTCTTTTCGTTTTATT
Found at i:30966062 original size:25 final size:23
Alignment explanation
Indices: 30966018--30966076 Score: 57
Period size: 24 Copynumber: 2.4 Consensus size: 23
30966008 ATTTTGATTT
*
30966018 ATTTAATAATATAATATCATTATA
1 ATTTAATTATATAATATCA-TATA
30966042 ATTTAATTATCATAA-ATTCATATA
1 ATTTAATTAT-ATAATA-TCATATA
*
30966066 ATATAAATTAT
1 AT-TTAATTAT
30966077 GTTTAAATCT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
24 16 0.53
25 14 0.47
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTTAATTATATAATATCATATA
Found at i:30966082 original size:35 final size:35
Alignment explanation
Indices: 30966026--30966105 Score: 85
Period size: 35 Copynumber: 2.3 Consensus size: 35
30966016 TTATTTAATA
* *
30966026 ATATAATAT-CATTATAATTTAATTATCATAAATT
1 ATATAATATAAATTATAATTTAAATATCATAAATT
* * *
30966060 CATATAATATAAATTAT-GTTTAAATCTCATTAATT
1 -ATATAATATAAATTATAATTTAAATATCATAAATT
30966095 ATATAAT-TAAA
1 ATATAATATAAA
30966106 ACAAATAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
33 4 0.10
34 7 0.18
35 23 0.59
36 5 0.13
ACGTcount: A:0.47, C:0.06, G:0.01, T:0.45
Consensus pattern (35 bp):
ATATAATATAAATTATAATTTAAATATCATAAATT
Found at i:30967605 original size:43 final size:43
Alignment explanation
Indices: 30967544--30967641 Score: 115
Period size: 43 Copynumber: 2.3 Consensus size: 43
30967534 TGAAGGGCTC
* * *
30967544 ACACGCCCGTGTGGTCCAAGGGACACACTCGTGAGACCGTAAG
1 ACACGCTCGTGTAGTCCAAGGGACACACTCGTGAGACCATAAG
* * ** * *
30967587 ACACGCTCGTGTATTCCAATGGACACGTTCGTGCGACCATAGG
1 ACACGCTCGTGTAGTCCAAGGGACACACTCGTGAGACCATAAG
30967630 ACACGCTCGTGT
1 ACACGCTCGTGT
30967642 TACAGGCCAT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.23, C:0.30, G:0.28, T:0.19
Consensus pattern (43 bp):
ACACGCTCGTGTAGTCCAAGGGACACACTCGTGAGACCATAAG
Found at i:30973336 original size:8 final size:9
Alignment explanation
Indices: 30973314--30973346 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
30973304 TTTATCATTG
30973314 AAATGTTAT
1 AAATGTTAT
30973323 AAATGTTA-
1 AAATGTTAT
30973331 AAATGTTAT
1 AAATGTTAT
30973340 AAATGTT
1 AAATGTT
30973347 GAATAGTCGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (9 bp):
AAATGTTAT
Found at i:30973336 original size:17 final size:17
Alignment explanation
Indices: 30973314--30973346 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
30973304 TTTATCATTG
30973314 AAATGTTATAAATGTTA
1 AAATGTTATAAATGTTA
30973331 AAATGTTATAAATGTT
1 AAATGTTATAAATGTT
30973347 GAATAGTCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (17 bp):
AAATGTTATAAATGTTA
Found at i:30973371 original size:128 final size:128
Alignment explanation
Indices: 30973217--30973457 Score: 455
Period size: 128 Copynumber: 1.9 Consensus size: 128
30973207 TCGAAAGTTA
30973217 TTGAATAGTCAATCCGGCCCCTCTATTCCGACTACAAGGTAAGTTCATATACAAATGAATGCCTT
1 TTGAATAGTCAATCCGGCCCCTCTATTCCGACTACAAGGTAAGTTCATATACAAATGAATGCCTT
* *
30973282 TAAATTTAATTATATGTGTATATTTATCATTGAAATGTTATAAATGTTAAAATGTTATAAATG
66 TAAATTGAATTATATGTGTATATTTATCATTAAAATGTTATAAATGTTAAAATGTTATAAATG
*
30973345 TTGAATAGTCGATCCGGCCCCTCTATTCCGACTACAAGGTAAGTTCATATACAAATGAATGCCTT
1 TTGAATAGTCAATCCGGCCCCTCTATTCCGACTACAAGGTAAGTTCATATACAAATGAATGCCTT
30973410 TAAATTGAATTATATGTGTATATTTATCATTAAAATGTTATAAATGTT
66 TAAATTGAATTATATGTGTATATTTATCATTAAAATGTTATAAATGTT
30973458 GAACAAATAA
Statistics
Matches: 110, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
128 110 1.00
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (128 bp):
TTGAATAGTCAATCCGGCCCCTCTATTCCGACTACAAGGTAAGTTCATATACAAATGAATGCCTT
TAAATTGAATTATATGTGTATATTTATCATTAAAATGTTATAAATGTTAAAATGTTATAAATG
Found at i:30982714 original size:13 final size:13
Alignment explanation
Indices: 30982696--30982720 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30982686 GGGAAGTACA
30982696 TTGGGGCAAGCTC
1 TTGGGGCAAGCTC
30982709 TTGGGGCAAGCT
1 TTGGGGCAAGCT
30982721 ATGTAGATGC
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:0.20, G:0.40, T:0.24
Consensus pattern (13 bp):
TTGGGGCAAGCTC
Found at i:30984499 original size:36 final size:36
Alignment explanation
Indices: 30984459--30984532 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
30984449 GTTTTCAAAA
30984459 TTAATAACCTTTTTAAATGGTTTTAAACGAATTGGT
1 TTAATAACCTTTTTAAATGGTTTTAAACGAATTGGT
30984495 TTAATAACCTTTTTAAATGGTTTTAAACGAATTGGT
1 TTAATAACCTTTTTAAATGGTTTTAAACGAATTGGT
30984531 TT
1 TT
30984533 TCCCTGAACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.46
Consensus pattern (36 bp):
TTAATAACCTTTTTAAATGGTTTTAAACGAATTGGT
Found at i:30987180 original size:19 final size:19
Alignment explanation
Indices: 30987156--30987194 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
30987146 AACTTTATAT
*
30987156 TTTTTAGATTTTTTTGAAA
1 TTTTTAGATTTTTTTAAAA
*
30987175 TTTTTATATTTTTTTAAAA
1 TTTTTAGATTTTTTTAAAA
30987194 T
1 T
30987195 ATAAATTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (19 bp):
TTTTTAGATTTTTTTAAAA
Found at i:30987255 original size:20 final size:19
Alignment explanation
Indices: 30987206--30987270 Score: 78
Period size: 20 Copynumber: 3.4 Consensus size: 19
30987196 TAAATTTTGG
* *
30987206 AATTTTTATAAATAATTTT
1 AATTTTTAAAAATTATTTT
*
30987225 AA-TTTTGAAAATTATTTT
1 AATTTTTAAAAATTATTTT
30987243 AAATTTTTAAAAATTATTTT
1 -AATTTTTAAAAATTATTTT
30987263 GAATTTTT
1 -AATTTTT
30987271 TTTGTAATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
18 13 0.33
19 4 0.10
20 22 0.56
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (19 bp):
AATTTTTAAAAATTATTTT
Found at i:30992340 original size:19 final size:19
Alignment explanation
Indices: 30992316--30992352 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
30992306 TTAGTCCTTC
*
30992316 TAAAAAAATTTAAAAAATT
1 TAAAAAAAATTAAAAAATT
*
30992335 TAAAAAAAATTATAAAAT
1 TAAAAAAAATTAAAAAAT
30992353 ATATGTTTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
TAAAAAAAATTAAAAAATT
Found at i:30996812 original size:61 final size:61
Alignment explanation
Indices: 30996745--30996883 Score: 151
Period size: 60 Copynumber: 2.3 Consensus size: 61
30996735 AATAGAGTTA
* *
30996745 ACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCC-CTTACAATATC-AGAGTAT
1 ACTGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAA-ATCGAGA-TAT
* * * * * *
30996806 ACTGGGCC-TAGCCCATGTTAGTATCAATCTGGGCCGTATCCCTATTACAAGTCGAGATAT
1 ACTGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAATCGAGATAT
*
30996866 ATTGGGCCTT-GCCCATAT
1 ACTGGGCCTTAGCCCATAT
30996884 TAACACAGTT
Statistics
Matches: 65, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
60 47 0.72
61 18 0.28
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (61 bp):
ACTGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAATCGAGATAT
Found at i:31001780 original size:20 final size:21
Alignment explanation
Indices: 31001732--31001781 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
31001722 TCAATAAGCC
*
31001732 TCAAAATTTTAATTAAACTTT
1 TCAAAATTTTAATTAAACTTG
31001753 TCAAAATTTTAATTAAA-TTCG
1 TCAAAATTTTAATTAAACTT-G
31001774 T-AAAATTT
1 TCAAAATTT
31001782 AATGCACCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 9 0.33
21 18 0.67
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (21 bp):
TCAAAATTTTAATTAAACTTG
Found at i:31002396 original size:18 final size:21
Alignment explanation
Indices: 31002365--31002403 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
31002355 TTATTTTTAA
31002365 TTTTAATAACA-TTTTATTTT
1 TTTTAATAACATTTTTATTTT
31002385 TTTTAA-AA-ATTTTTATTTT
1 TTTTAATAACATTTTTATTTT
31002404 AAATTATGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 1 0.06
19 11 0.61
20 6 0.33
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTAATAACATTTTTATTTT
Found at i:31004386 original size:45 final size:44
Alignment explanation
Indices: 31004335--31004443 Score: 121
Period size: 45 Copynumber: 2.4 Consensus size: 44
31004325 CTTTATTCAA
*
31004335 TATTGAAAATTTAAAT-TTCAAAGTATCAAAATCAATTAAATAATT
1 TATTGAAAATTT-AATCTT-AAAGTATCAAAATCAATTAAATAAGT
* ***
31004380 TATTGAAAAATTTTATCTTTTGGTATCAAAATCAATTAAATAAGT
1 TATTG-AAAATTTAATCTTAAAGTATCAAAATCAATTAAATAAGT
*
31004425 TATTGAAAAATTTTATCTT
1 TATTG-AAAATTTAATCTT
31004444 TTGGTAATGT
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
45 48 0.84
46 9 0.16
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (44 bp):
TATTGAAAATTTAATCTTAAAGTATCAAAATCAATTAAATAAGT
Found at i:31004444 original size:45 final size:45
Alignment explanation
Indices: 31004357--31004449 Score: 177
Period size: 45 Copynumber: 2.1 Consensus size: 45
31004347 AAATTTCAAA
*
31004357 GTATCAAAATCAATTAAATAATTTATTGAAAAATTTTATCTTTTG
1 GTATCAAAATCAATTAAATAAGTTATTGAAAAATTTTATCTTTTG
31004402 GTATCAAAATCAATTAAATAAGTTATTGAAAAATTTTATCTTTTG
1 GTATCAAAATCAATTAAATAAGTTATTGAAAAATTTTATCTTTTG
31004447 GTA
1 GTA
31004450 ATGTTAGCTC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.43
Consensus pattern (45 bp):
GTATCAAAATCAATTAAATAAGTTATTGAAAAATTTTATCTTTTG
Found at i:31011339 original size:31 final size:31
Alignment explanation
Indices: 31011301--31011360 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
31011291 CCTTTTCATA
31011301 TTTCATATTTCATAACACTGGGCCGAAGCGT
1 TTTCATATTTCATAACACTGGGCCGAAGCGT
** *
31011332 TTTCATATTTCATATTACTGGGCTGAAGC
1 TTTCATATTTCATAACACTGGGCCGAAGC
31011361 CTTTACTGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCGT
Found at i:31011633 original size:23 final size:23
Alignment explanation
Indices: 31011581--31011651 Score: 115
Period size: 23 Copynumber: 3.0 Consensus size: 23
31011571 TAGCCTCTGC
* *
31011581 TAATAACTGGGGCAAAAGTCCTTT
1 TAATAACTGGGGCATAAG-CCCTT
31011605 TAATAACTGGGGCATAAGCCCTT
1 TAATAACTGGGGCATAAGCCCTT
31011628 TAATAACTGGGGCATAAGCCCTT
1 TAATAACTGGGGCATAAGCCCTT
31011651 T
1 T
31011652 TTCACTTCCT
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
23 28 0.62
24 17 0.38
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (23 bp):
TAATAACTGGGGCATAAGCCCTT
Found at i:31011731 original size:20 final size:20
Alignment explanation
Indices: 31011703--31011741 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
31011693 TATGATTACA
31011703 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATG
*
31011723 TCATTTGCATATCATACAT
1 TCATGTGCATATCATACAT
31011742 ACCATGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (20 bp):
TCATGTGCATATCATACATG
Found at i:31011813 original size:25 final size:25
Alignment explanation
Indices: 31011785--31011832 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
31011775 ATACATAAAC
* * *
31011785 CCTAAGGGTATAATGGTCATTTTTA
1 CCTAAGGGCAAAACGGTCATTTTTA
*
31011810 CCTAGGGGCAAAACGGTCATTTT
1 CCTAAGGGCAAAACGGTCATTTT
31011833 CATGTTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (25 bp):
CCTAAGGGCAAAACGGTCATTTTTA
Found at i:31015585 original size:42 final size:42
Alignment explanation
Indices: 31015494--31015640 Score: 125
Period size: 43 Copynumber: 3.5 Consensus size: 42
31015484 TATCCTAGAT
* ** * * *
31015494 ATGGTCTTACATGTTATCAAATATCGACGCCACTGTCCCAGAT
1 ATGGTCTTACACGAAATCAAATAT-GATGCCAATGTCCCAGAC
* *
31015537 AGGGTCTTACACGAAATCATATATGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGAAATCAAATATGATGCCAATGTCCCAGAC
* * * * *
31015579 ATGGTCTTACAAGTAACCTCAGAT-CGATGCCAATGTCCCAAAC
1 ATGGTCTTACACG-AA-ATCAAATATGATGCCAATGTCCCAGAC
* *
31015622 GTGGTCTTACACGATATCA
1 ATGGTCTTACACGAAATCA
31015641 CATCTCGGAA
Statistics
Matches: 84, Mismatches: 18, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
41 3 0.04
42 27 0.32
43 49 0.58
44 5 0.06
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.27
Consensus pattern (42 bp):
ATGGTCTTACACGAAATCAAATATGATGCCAATGTCCCAGAC
Found at i:31033272 original size:40 final size:40
Alignment explanation
Indices: 31033242--31033451 Score: 314
Period size: 40 Copynumber: 5.3 Consensus size: 40
31033232 GGACTAAGAT
* * * *
31033242 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
31033282 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
*
31033322 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
*
31033362 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
31033402 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
31033441 CCGAAGGCATT
1 CCGAAGGCATT
31033452 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 33 0.21
40 126 0.79
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:31033326 original size:80 final size:80
Alignment explanation
Indices: 31033189--31033451 Score: 316
Period size: 80 Copynumber: 3.3 Consensus size: 80
31033179 TTGAATGCTG
* * * * * **
31033189 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCCT
*
31033252 TTGTGCGAGATACTAAA
64 TTGTGCGAGTTACTAAA
* * *
31033269 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
**
31033334 GTGCGAGTTGTTAAA
66 GTGCGAGTTACTAAA
* * *
31033349 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
31033413 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
31033428 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
31033452 TGAACGAGGA
Statistics
Matches: 158, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
79 35 0.22
80 117 0.74
81 6 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:31033471 original size:79 final size:80
Alignment explanation
Indices: 31033242--31033486 Score: 253
Period size: 80 Copynumber: 3.1 Consensus size: 80
31033232 GGACTAAGAT
* * * * * ** * *
31033242 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TT
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAG-GAGCT
31033306 AAATCCGGGTTAAGTC
65 AAATCCGGGTTAAGTC
** * * ** ** *
31033322 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
31033387 AATCCGGGTTAAGTC
66 AATCCGGGTTAAGTC
* * *
31033402 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
31033466 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
31033480 CCGAAGG
1 CCGAAGG
31033487 TACGTGATTT
Statistics
Matches: 144, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
78 15 0.10
79 46 0.32
80 83 0.58
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:31041180 original size:40 final size:40
Alignment explanation
Indices: 31041150--31041359 Score: 314
Period size: 40 Copynumber: 5.3 Consensus size: 40
31041140 GGACTAAGAT
* * * *
31041150 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
31041190 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
*
31041230 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
*
31041270 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
31041310 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
31041349 CCGAAGGCATT
1 CCGAAGGCATT
31041360 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 33 0.21
40 126 0.79
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:31041196 original size:80 final size:80
Alignment explanation
Indices: 31041097--31041359 Score: 273
Period size: 80 Copynumber: 3.3 Consensus size: 80
31041087 TTGAATGCTG
* * * *
31041097 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-AAGTGAATAAATCCGGACTAAG-TCCCGAAGGCAT
*
31041160 TTGTGCGAGATACTAAA
64 TCGTGCGAGATACTAAA
* * * **
31041177 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTGAATAAATCCGGACTAAGTCCCGAAGGCATTC
* **
31041242 GTGCGAGTTGTTAAA
66 GTGCGAGATACTAAA
* * **
31041257 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTG-TTAAATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCAAG-TGAATAAATCCGGACTAAGTCCCGAAGGCATT
* *
31041321 -GTGTGAGTTACTAAA
65 CGTGCGAGATACTAAA
* * *
31041336 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
31041360 TGAACGAGGA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
79 34 0.21
80 119 0.74
81 7 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTGAATAAATCCGGACTAAGTCCCGAAGGCATTC
GTGCGAGATACTAAA
Found at i:31041379 original size:79 final size:80
Alignment explanation
Indices: 31041150--31041394 Score: 253
Period size: 80 Copynumber: 3.1 Consensus size: 80
31041140 GGACTAAGAT
* * * * * ** * *
31041150 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TT
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAG-GAGCT
31041214 AAATCCGGGTTAAGTC
65 AAATCCGGGTTAAGTC
** * * ** ** *
31041230 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
31041295 AATCCGGGTTAAGTC
66 AATCCGGGTTAAGTC
* * *
31041310 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
31041374 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
31041388 CCGAAGG
1 CCGAAGG
31041395 TACGTGATTT
Statistics
Matches: 144, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
78 15 0.10
79 46 0.32
80 83 0.58
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:31043678 original size:49 final size:49
Alignment explanation
Indices: 31043562--31043734 Score: 170
Period size: 49 Copynumber: 3.6 Consensus size: 49
31043552 ATAAAATGCT
* *
31043562 GATGCCATGTCCCAGACATGGTTTTACACTGGCTAGCATAT-T-GAAGTC
1 GATGCCATGTCCCAGACA-GGTTTTACACTGGCTATCATATATCGAAGCC
* * * *
31043610 GATGCTATGTCCCAGACAGGTTTTACACTGACTTTCATATATCGAGGCC
1 GATGCCATGTCCCAGACAGGTTTTACACTGGCTATCATATATCGAAGCC
* * * * ** *
31043659 GATGCCATGTCCCAAACAGGTCTTACACTGGCTCTCATCTATCGGTGTC
1 GATGCCATGTCCCAGACAGGTTTTACACTGGCTATCATATATCGAAGCC
* * * *
31043708 AATGCTATGTCCAAGACAGGTCTTACA
1 GATGCCATGTCCCAGACAGGTTTTACA
31043735 TTGACACAAA
Statistics
Matches: 104, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
47 19 0.18
48 18 0.17
49 67 0.64
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (49 bp):
GATGCCATGTCCCAGACAGGTTTTACACTGGCTATCATATATCGAAGCC
Found at i:31043734 original size:98 final size:97
Alignment explanation
Indices: 31043562--31043739 Score: 232
Period size: 98 Copynumber: 1.8 Consensus size: 97
31043552 ATAAAATGCT
* * * * *
31043562 GATGCCATGTCCCAGACATGGTTTTACACTGGCTAGCATATTGAAGTCGATGCTATGTCCCAGAC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTAGCATATCGAAGTCAATGCTATGTCCAAGAC
*
31043627 AGGTTTTACACTGACTTTCATATATCGAGGCC
66 AGGTCTTACACTGACTTTCATATATCGAGGCC
** **
31043659 GATGCCATGTCCCAAACA-GGTCTTACACTGGCTCTCATCTATCGGTGTCAATGCTATGTCCAAG
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTAGCA--TATCGAAGTCAATGCTATGTCCAAG
*
31043723 ACAGGTCTTACATTGAC
64 ACAGGTCTTACACTGAC
31043740 ACAAAACAAG
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
96 16 0.24
97 17 0.25
98 35 0.51
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (97 bp):
GATGCCATGTCCCAAACATGGTCTTACACTGGCTAGCATATCGAAGTCAATGCTATGTCCAAGAC
AGGTCTTACACTGACTTTCATATATCGAGGCC
Found at i:31045800 original size:40 final size:40
Alignment explanation
Indices: 31045770--31045938 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
31045760 GGACTAAGAT
* *
31045770 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* *
31045810 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* ** *
31045850 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* * * * *
31045890 CCGAAGGCA-T-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
31045928 CCGAAGGCATT
1 CCGAAGGCATT
31045939 TGAACGAGGA
Statistics
Matches: 116, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
38 31 0.27
39 2 0.02
40 83 0.72
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:31045854 original size:80 final size:79
Alignment explanation
Indices: 31045717--31045940 Score: 245
Period size: 80 Copynumber: 2.8 Consensus size: 79
31045707 TTGAATGCTG
* * * * * * *
31045717 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTAATAAATCCGGGCTAAG-TCCCGAAGGCATT
31045781 TGTGCGAGATACTAAA
64 TGTGCGAGATACTAAA
* * *
31045797 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTT
* **
31045862 GTGCGAGTTGTTAAA
65 GTGCGAGATACTAAA
* * * * *
31045877 TCCGGGTTACGTCCCGAAGGCA-TGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTTG
31045941 AACGAGGAGC
Statistics
Matches: 122, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
78 35 0.29
79 2 0.02
80 81 0.66
81 4 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATACTAAA
Found at i:31045958 original size:78 final size:80
Alignment explanation
Indices: 31045792--31045973 Score: 217
Period size: 78 Copynumber: 2.3 Consensus size: 80
31045782 GTGCGAGATA
* * *
31045792 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
31045857 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
31045872 TTAAATCCGGGTTACGTCCCGAAGGCA-T-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
31045935 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
31045950 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
31045974 TACGTGATTT
Statistics
Matches: 86, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
77 14 0.16
78 46 0.53
79 1 0.01
80 25 0.29
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:31054521 original size:49 final size:49
Alignment explanation
Indices: 31054461--31054572 Score: 118
Period size: 49 Copynumber: 2.3 Consensus size: 49
31054451 TATTGAAGTT
* * * *
31054461 GATGCCGTGTCCTAAACAAGTCGTACACTGACTTTCATATATCGAG-GTC
1 GATGCCATGTCCCAAACAAGTCGTACACTGACTCTCATATATCG-GTGGC
* * * * *
31054510 GATGCCATGTCCCAAATAGGTCTTACACTGGCTCTCATCTATCGGTGGC
1 GATGCCATGTCCCAAACAAGTCGTACACTGACTCTCATATATCGGTGGC
*
31054559 AATGCCATGTCCCA
1 GATGCCATGTCCCA
31054573 GACAGGTCTT
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
48 1 0.02
49 51 0.98
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (49 bp):
GATGCCATGTCCCAAACAAGTCGTACACTGACTCTCATATATCGGTGGC
Found at i:31054621 original size:48 final size:46
Alignment explanation
Indices: 31054564--31054683 Score: 150
Period size: 46 Copynumber: 2.6 Consensus size: 46
31054554 GTGGCAATGC
* * * * *
31054564 CATGTCCCAGACAGGTCTTATACTAGCTTGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGC-TCT-CATCTCAAGGCCGATG
* * *
31054612 CATGTCCCAGACATGTCATACACTAGCTCTCGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAGGCCGATG
31054658 CATGTCCCAGACATGTCTTACACTAG
1 CATGTCCCAGACATGTCTTACACTAG
31054684 TTCACATACC
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 37 0.59
47 2 0.03
48 24 0.38
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAGGCCGATG
Found at i:31076715 original size:42 final size:42
Alignment explanation
Indices: 31076662--31076746 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 42
31076652 CTATAAATAG
* *
31076662 ATTGTAGCACCCATAACCCGTATCCATTG-CTGGAATAGGATT
1 ATTGTAACACCCATAACCCGTATCCAATGAC-GGAATAGGATT
* * *
31076704 ATTGTAACACCCTTTACCCGTATTCAATGACGGAATAGGATT
1 ATTGTAACACCCATAACCCGTATCCAATGACGGAATAGGATT
31076746 A
1 A
31076747 CAGAGCATTA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
42 36 0.97
43 1 0.03
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (42 bp):
ATTGTAACACCCATAACCCGTATCCAATGACGGAATAGGATT
Found at i:31108472 original size:13 final size:13
Alignment explanation
Indices: 31108454--31108482 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
31108444 CCAAACTATA
31108454 AAATTAACTAATC
1 AAATTAACTAATC
31108467 AAATTAACTAATC
1 AAATTAACTAATC
31108480 AAA
1 AAA
31108483 CGATAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.28
Consensus pattern (13 bp):
AAATTAACTAATC
Found at i:31120163 original size:29 final size:29
Alignment explanation
Indices: 31120131--31120237 Score: 110
Period size: 29 Copynumber: 3.7 Consensus size: 29
31120121 ATAATATGAT
31120131 TTGGGCCTAATGGGCCATATGAATAAGAA
1 TTGGGCCTAATGGGCCATATGAATAAGAA
* * * *
31120160 TTGGACCTAGTGGGCCATAAGAATATGAA
1 TTGGGCCTAATGGGCCATATGAATAAGAA
* * *
31120189 CTGGGCC-AGATGGACCATTTGAATAAG-A
1 TTGGGCCTA-ATGGGCCATATGAATAAGAA
* *
31120217 TTGGGCCTAGTGGGTCATATG
1 TTGGGCCTAATGGGCCATATG
31120238 CATGTATGTA
Statistics
Matches: 60, Mismatches: 16, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
28 16 0.27
29 44 0.73
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (29 bp):
TTGGGCCTAATGGGCCATATGAATAAGAA
Found at i:31120186 original size:58 final size:57
Alignment explanation
Indices: 31120123--31120235 Score: 147
Period size: 58 Copynumber: 2.0 Consensus size: 57
31120113 GCATGAATAT
** *
31120123 AATATGATTTGGGCCTA-ATGGGCCATATGAATAAGAATTGGACCTAGTGGGCCATAAG
1 AATATGAACTGGGCC-AGATGGACCATATGAATAAG-ATTGGACCTAGTGGGCCATAAG
* * *
31120181 AATATGAACTGGGCCAGATGGACCATTTGAATAAGATTGGGCCTAGTGGGTCATA
1 AATATGAACTGGGCCAGATGGACCATATGAATAAGATTGGACCTAGTGGGCCATA
31120236 TGCATGTATG
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
57 19 0.40
58 29 0.60
ACGTcount: A:0.32, C:0.14, G:0.28, T:0.26
Consensus pattern (57 bp):
AATATGAACTGGGCCAGATGGACCATATGAATAAGATTGGACCTAGTGGGCCATAAG
Found at i:31126370 original size:16 final size:16
Alignment explanation
Indices: 31126349--31126380 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
31126339 TTGTAACGCC
31126349 CCAAAAATCTCGAAAT
1 CCAAAAATCTCGAAAT
31126365 CCAAAAATCTCGAAAT
1 CCAAAAATCTCGAAAT
31126381 TATGAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (16 bp):
CCAAAAATCTCGAAAT
Found at i:31127914 original size:29 final size:28
Alignment explanation
Indices: 31127881--31127986 Score: 106
Period size: 29 Copynumber: 3.7 Consensus size: 28
31127871 ATAATATTAT
31127881 TTGGGCCTAATGGGCCATATGAATGAGAA
1 TTGGGCCTAATGGGCCATATGAAT-AGAA
* *
31127910 TTGGGCCTAGTGGGCCATAAGAATATGAA
1 TTGGGCCTAATGGGCCATATGAATA-GAA
* * * *
31127939 CTGGGCCAAATGGACCATTTGAATA-ATA
1 TTGGGCCTAATGGGCCATATGAATAGA-A
* *
31127967 TTGGTCCTAGTGGGCCATAT
1 TTGGGCCTAATGGGCCATAT
31127987 ACATGTATGT
Statistics
Matches: 61, Mismatches: 14, Indels: 5
0.76 0.17 0.06
Matches are distributed among these distances:
27 1 0.02
28 16 0.26
29 44 0.72
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.26
Consensus pattern (28 bp):
TTGGGCCTAATGGGCCATATGAATAGAA
Found at i:31131251 original size:16 final size:16
Alignment explanation
Indices: 31131226--31131276 Score: 56
Period size: 15 Copynumber: 3.4 Consensus size: 16
31131216 TTATTTTTAT
31131226 ATTATA-TATA-ATTA
1 ATTATATTATATATTA
31131240 ATT-TATTATATATTA
1 ATTATATTATATATTA
* *
31131255 CTTATATTAT-TATTT
1 ATTATATTATATATTA
31131270 ATTATAT
1 ATTATAT
31131277 ATTACTTTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
13 2 0.06
14 7 0.23
15 16 0.52
16 6 0.19
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTATATTATATATTA
Found at i:31131266 original size:19 final size:19
Alignment explanation
Indices: 31131225--31131273 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
31131215 CTTATTTTTA
31131225 TATTATATA-TAATTAATT
1 TATTATATATTAATTAATT
*
31131243 TATTATATATTACTT-ATAT
1 TATTATATATTAATTAAT-T
*
31131262 TATTATTTATTA
1 TATTATATATTA
31131274 TATATTACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 11 0.41
19 16 0.59
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (19 bp):
TATTATATATTAATTAATT
Found at i:31131279 original size:17 final size:17
Alignment explanation
Indices: 31131225--31131388 Score: 59
Period size: 17 Copynumber: 9.1 Consensus size: 17
31131215 CTTATTTTTA
*
31131225 TATTATATATAATTAATT
1 TATTATATATTATT-ATT
31131243 TATTATATATTACTTATAT
1 TATTATATATTA-TTAT-T
*
31131262 TATTATTTATTATATATT
1 TATTATATATTAT-TATT
* * * *
31131280 ACTTTTCACAAAATATTA-T
1 --TATT-ATATATTATTATT
* *
31131299 TATTTTACATTATTATT
1 TATTATATATTATTATT
31131316 TA-TATATCATTATTATAT
1 TATTATAT-ATTATTAT-T
* *
31131334 TTTTACTTGTATTATATATT
1 TATTA--TATATTAT-TATT
* *
31131354 TATGA-ATTATT-TATATA
1 TATTATA-TATTAT-TATT
31131371 TATTATATATTATT-TT
1 TATTATATATTATTATT
31131387 TA
1 TA
31131389 CATATACACT
Statistics
Matches: 108, Mismatches: 22, Indels: 34
0.66 0.13 0.21
Matches are distributed among these distances:
16 13 0.12
17 28 0.26
18 23 0.21
19 20 0.19
20 14 0.13
21 10 0.09
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (17 bp):
TATTATATATTATTATT
Found at i:31131455 original size:16 final size:16
Alignment explanation
Indices: 31131419--31131474 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
31131409 ATATTATAAT
* *
31131419 TATTTTATATTATGT-
1 TATTTTATAATATATA
*
31131434 TATTTTATACTATATA
1 TATTTTATAATATATA
* *
31131450 TATTTTTTAATCTATA
1 TATTTTATAATATATA
31131466 TATTATTAT
1 TATT-TTAT
31131475 CATTAAAGGT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
15 13 0.39
16 17 0.52
17 3 0.09
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (16 bp):
TATTTTATAATATATA
Found at i:31131662 original size:23 final size:22
Alignment explanation
Indices: 31131613--31131685 Score: 73
Period size: 22 Copynumber: 3.4 Consensus size: 22
31131603 ATCATTAATT
*
31131613 ACTTATTTTATAT-TATTCTAA
1 ACTTATTTTATATATATTATAA
31131634 ACTTATATTTATATATATTATATA
1 ACTTAT-TTTATATATATTATA-A
*
31131658 A-TTATTTTAT-TATAAATATAA
1 ACTTATTTTATATAT-ATTATAA
31131679 AC-TATTT
1 ACTTATTT
31131686 GACATATTTG
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
21 16 0.36
22 17 0.38
23 10 0.22
24 2 0.04
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (22 bp):
ACTTATTTTATATATATTATAA
Found at i:31138708 original size:29 final size:28
Alignment explanation
Indices: 31138675--31138758 Score: 80
Period size: 29 Copynumber: 2.9 Consensus size: 28
31138665 GCATGAATAT
31138675 AATATGATTTGGGCCTAATGGGCCATAAG
1 AATATGA-TTGGGCCTAATGGGCCATAAG
* * **
31138704 AATATGAACTGGGCC-AGATGGACCATTTG
1 AATATG-ATTGGGCCTA-ATGGGCCATAAG
* *
31138733 AATAAGATTGGGCCTAGTGGGCCATA
1 AATATGATTGGGCCTAATGGGCCATA
31138759 TGCATGTATG
Statistics
Matches: 43, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
28 15 0.35
29 27 0.63
30 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (28 bp):
AATATGATTGGGCCTAATGGGCCATAAG
Found at i:31140351 original size:33 final size:33
Alignment explanation
Indices: 31140286--31140351 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
31140276 TGTCAAACCT
* *
31140286 GAGCTATGAGATGCTACAAATAAATCCGGAATA
1 GAGCTATAAGATGCTACAAATAAATCCAGAATA
*
31140319 GAGCTATAAGATGCTACAAATAAATCTAGAATA
1 GAGCTATAAGATGCTACAAATAAATCCAGAATA
31140352 ATCACAAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.45, C:0.14, G:0.18, T:0.23
Consensus pattern (33 bp):
GAGCTATAAGATGCTACAAATAAATCCAGAATA
Found at i:31140604 original size:21 final size:21
Alignment explanation
Indices: 31140578--31140627 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
31140568 TTGGTCAAGA
31140578 ATCGATACCTCAGTAGCTAGT
1 ATCGATACCTCAGTAGCTAGT
*
31140599 ATCGATACCTTAGTAGCTAGT
1 ATCGATACCTCAGTAGCTAGT
*
31140620 ATCAATAC
1 ATCGATAC
31140628 ATTTATCCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (21 bp):
ATCGATACCTCAGTAGCTAGT
Found at i:31147614 original size:18 final size:18
Alignment explanation
Indices: 31147591--31147627 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
31147581 ACAACCGGCA
31147591 CTGATTCAACTTTCTTTT
1 CTGATTCAACTTTCTTTT
31147609 CTGATTCAACTTTCTTTT
1 CTGATTCAACTTTCTTTT
31147627 C
1 C
31147628 AACTTCTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.24, G:0.05, T:0.54
Consensus pattern (18 bp):
CTGATTCAACTTTCTTTT
Found at i:31165718 original size:30 final size:30
Alignment explanation
Indices: 31165684--31165741 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
31165674 ATTTTCAGGC
*
31165684 CTAGGGGTAAAATGGTCATTTTACCAAAAT
1 CTAGGGGGAAAATGGTCATTTTACCAAAAT
*
31165714 CTAGGGGGAAAATGGTTATTTTACCAAA
1 CTAGGGGGAAAATGGTCATTTTACCAAA
31165742 GATGTGAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.29
Consensus pattern (30 bp):
CTAGGGGGAAAATGGTCATTTTACCAAAAT
Found at i:31166150 original size:47 final size:45
Alignment explanation
Indices: 31166083--31166345 Score: 171
Period size: 46 Copynumber: 5.6 Consensus size: 45
31166073 ATTGAGGGCT
* *
31166083 AGTGTAAGACATGTCCGGGACAT-GCATCAGCCATATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATC-GCCATATGA-GAGAGCC
* * *
31166129 AGTGTAAGACCATGTCTGGGACATGGCATTGGCAT-TGAGACGAAAGCT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGCCATATGAGA-G--AGCC
*
31166177 AGTGTAAGACATGTCTGGGACAT-GCATCGACC-T-CGAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCG-CCATATGAGA-G--AGCC
* * * *
31166223 AGTGTAAGACATGTTTGGGACAT-GCATCGGC-TACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGGCATCGCCATATGAGA-G--AGCC
* * * * * *
31166269 AGTGTAAGACCATGTTTGGGACATGGCATCGACACAAGACGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGCCATATGA-GAGAGCC
* *
31166316 AGTGTAAGATCGTGTCTGGGACATCGCATC
1 AGTGTAAGA-CATGTCTGGGACATGGCATC
31166346 AGCACCTTAC
Statistics
Matches: 180, Mismatches: 26, Indels: 21
0.79 0.11 0.09
Matches are distributed among these distances:
45 4 0.02
46 74 0.41
47 73 0.41
48 23 0.13
49 4 0.02
50 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGCCATATGAGAGAGCC
Found at i:31166231 original size:46 final size:48
Alignment explanation
Indices: 31166122--31166345 Score: 210
Period size: 46 Copynumber: 4.8 Consensus size: 48
31166112 GCCATATTAT
* * * *
31166122 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGAGAC
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGAGAC
* *
31166170 GAAAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGACCTCGAGAC
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGAGAC
* * *
31166216 GTA-AGCCAGTGTAAGA-CATGTTTGGGACAT-GCATCG-GCTACGAGAT
1 G-AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCT-CGAGAC
* * * * *
31166262 GATAGTCAGTGTAAGACCATGTTTGGGACATGGCATCGA-CACAAGAC
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGAGAC
* * * * *
31166309 GAGTGCTAGTGTAAGATCGTGTCTGGGACATCGCATC
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
31166346 AGCACCTTAC
Statistics
Matches: 148, Mismatches: 22, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
45 3 0.02
46 62 0.42
47 62 0.42
48 21 0.14
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.22
Consensus pattern (48 bp):
GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGAGAC
Found at i:31166335 original size:140 final size:141
Alignment explanation
Indices: 31166083--31166345 Score: 343
Period size: 140 Copynumber: 1.9 Consensus size: 141
31166073 ATTGAGGGCT
* *
31166083 AGTGTAAGACATGTCCGGGACATGCATCAGCCATATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCCGGGACATGCATCAGCCAGATGATGAGAGCCAGTGTAAGACCATGTCTGG
* * **
31166148 GACATGGCATTGGCATTGAGACGAAAGCTAGTGTAAGACATGTCTGGGACAT-GCATCGACCTCG
66 GACATGGCATCGACATCAAGACGAAAGCTAGTGTAAGACATGTCTGGGACATCGCATCGACCTCG
31166212 AGACGTAAGCC
131 AGACGTAAGCC
** * * * * *
31166223 AGTGTAAGACATGTTTGGGACATGCATCGGCTACGA-GATGATAGTCAGTGTAAGACCATGTTTG
1 AGTGTAAGACATGTCCGGGACATGCATCAGCCA-GATGATGAGAGCCAGTGTAAGACCATGTCTG
** *
31166287 GGACATGGCATCGACA-CAAGACGAGTGCTAGTGTAAGATCGTGTCTGGGACATCGCATC
65 GGACATGGCATCGACATCAAGACGAAAGCTAGTGTAAGA-CATGTCTGGGACATCGCATC
31166346 AGCACCTTAC
Statistics
Matches: 104, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
139 18 0.17
140 80 0.77
141 6 0.06
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (141 bp):
AGTGTAAGACATGTCCGGGACATGCATCAGCCAGATGATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGACATCAAGACGAAAGCTAGTGTAAGACATGTCTGGGACATCGCATCGACCTCG
AGACGTAAGCC
Found at i:31172641 original size:37 final size:32
Alignment explanation
Indices: 31172573--31172638 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
31172563 CTTCATAACA
31172573 AAATCACAAATACATATTCAATTCATTAACTT
1 AAATCACAAATACATATTCAATTCATTAACTT
*
31172605 AAATCACAAATTCATATTCAATTCATTAACTT
1 AAATCACAAATACATATTCAATTCATTAACTT
31172637 AA
1 AA
31172639 CTTTTCAACT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (32 bp):
AAATCACAAATACATATTCAATTCATTAACTT
Found at i:31179593 original size:32 final size:32
Alignment explanation
Indices: 31179555--31179649 Score: 136
Period size: 32 Copynumber: 3.0 Consensus size: 32
31179545 CAATTGAATC
*
31179555 TCCGTACATACATGTACCATATTGTACCAATT
1 TCCGTACATACCTGTACCATATTGTACCAATT
*
31179587 TTCGTACATACCTGTACCATATTGTACCAATT
1 TCCGTACATACCTGTACCATATTGTACCAATT
* * * *
31179619 TCCGTAAATACCTGTATCATCTCGTACCAAT
1 TCCGTACATACCTGTACCATATTGTACCAAT
31179650 CTCATACTCA
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 56 1.00
ACGTcount: A:0.29, C:0.26, G:0.09, T:0.35
Consensus pattern (32 bp):
TCCGTACATACCTGTACCATATTGTACCAATT
Found at i:31181005 original size:18 final size:18
Alignment explanation
Indices: 31180961--31181008 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 18
31180951 AAACCGTTTA
31180961 TAAAA-CAAAAAAAATTT
1 TAAAATCAAAAAAAATTT
* *
31180978 TACAATATCAAAAACATTTT
1 TA-AA-ATCAAAAAAAATTT
31180998 TAAAATCAAAA
1 TAAAATCAAAA
31181009 TTAACTCGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 2 0.08
18 9 0.35
19 3 0.12
20 12 0.46
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.27
Consensus pattern (18 bp):
TAAAATCAAAAAAAATTT
Found at i:31188887 original size:42 final size:43
Alignment explanation
Indices: 31188782--31188945 Score: 127
Period size: 43 Copynumber: 3.8 Consensus size: 43
31188772 TCATACAACA
* * * * * *
31188782 CCAACGTCCCAGACGTGGCCTTACATGTAA-TTACATATCGGTG
1 CCAACGTCCCAGACATGGTCTTACACG-AACTCACAAATCGATG
* * * * *
31188825 CC-ACTGTCCTAGATAGGGTCTTACACGAACTCATATA-CGATG
1 CCAAC-GTCCCAGACATGGTCTTACACGAACTCACAAATCGATG
* * *
31188867 CCGATGTCCCAGACATGGTCTTACACGTAAGTCACAAATCGATG
1 CCAACGTCCCAGACATGGTCTTACACG-AACTCACAAATCGATG
* * *
31188911 CCAACGTCCCAGACGTGGCCTTACACGAAATCACA
1 CCAACGTCCCAGACATGGTCTTACACGAACTCACA
31188946 TATTGGAATC
Statistics
Matches: 95, Mismatches: 21, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
42 29 0.31
43 38 0.40
44 28 0.29
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.23
Consensus pattern (43 bp):
CCAACGTCCCAGACATGGTCTTACACGAACTCACAAATCGATG
Found at i:31188920 original size:44 final size:42
Alignment explanation
Indices: 31188782--31188948 Score: 140
Period size: 44 Copynumber: 3.9 Consensus size: 42
31188772 TCATACAACA
* * * *
31188782 CCAACGTCCCAGACGTGGCCTTACATGTAATTACATATCGGTG
1 CCAACGTCCCAGACATGGCCTTACACG-AATCACATATCGATG
* * * * *
31188825 CC-ACTGTCCTAGATAGGGTCTTACACGAA-CTCATATACGATG
1 CCAAC-GTCCCAGACATGGCCTTACACGAATCACATAT-CGATG
* * * *
31188867 CCGATGTCCCAGACATGGTCTTACACGTAAGTCACAAATCGATG
1 CCAACGTCCCAGACATGGCCTTACACG-AA-TCACATATCGATG
*
31188911 CCAACGTCCCAGACGTGGCCTTACACGAAATCACATAT
1 CCAACGTCCCAGACATGGCCTTACACG-AATCACATAT
31188949 TGGAATCCTA
Statistics
Matches: 97, Mismatches: 21, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
41 5 0.05
42 29 0.30
43 28 0.29
44 30 0.31
45 5 0.05
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (42 bp):
CCAACGTCCCAGACATGGCCTTACACGAATCACATATCGATG
Found at i:31196281 original size:21 final size:22
Alignment explanation
Indices: 31196255--31196295 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
31196245 GTGTATTTTG
31196255 ATGTTTAATGG-TAGA-AAATGC
1 ATGTTT-ATGGTTAGAGAAATGC
31196276 ATGTTTATGGTTAGAGAAAT
1 ATGTTTATGGTTAGAGAAAT
31196296 AACTTTTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 10 0.56
22 4 0.22
ACGTcount: A:0.37, C:0.02, G:0.24, T:0.37
Consensus pattern (22 bp):
ATGTTTATGGTTAGAGAAATGC
Found at i:31196709 original size:9 final size:9
Alignment explanation
Indices: 31196695--31196722 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
31196685 ATTATGTTTG
31196695 TATTTTAAA
1 TATTTTAAA
31196704 TATTTTAAA
1 TATTTTAAA
31196713 TATTTTAAA
1 TATTTTAAA
31196722 T
1 T
31196723 GCTTCGTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
TATTTTAAA
Found at i:31206081 original size:40 final size:40
Alignment explanation
Indices: 31206026--31206108 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
31206016 AGTGACCCAC
31206026 TTAATCCAATCCCATCGAAATTGGATTTGTATTAAAAAAA
1 TTAATCCAATCCCATCGAAATTGGATTTGTATTAAAAAAA
31206066 TTAATCCAATCCCATCGAAATTGGATTTGTATTAAAAAAA
1 TTAATCCAATCCCATCGAAATTGGATTTGTATTAAAAAAA
31206106 TTA
1 TTA
31206109 TCTTTTGATC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.34
Consensus pattern (40 bp):
TTAATCCAATCCCATCGAAATTGGATTTGTATTAAAAAAA
Found at i:31213821 original size:13 final size:13
Alignment explanation
Indices: 31213803--31213827 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31213793 TACGTGATAT
31213803 GTGTGAAAATTTC
1 GTGTGAAAATTTC
31213816 GTGTGAAAATTT
1 GTGTGAAAATTT
31213828 TATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:31215047 original size:43 final size:43
Alignment explanation
Indices: 31214910--31215070 Score: 161
Period size: 43 Copynumber: 3.7 Consensus size: 43
31214900 CATAGGACTC
* * * *
31214910 CGATATCTGATTTCGTGTAAGACCATGTCTGAGA-TGTTGACAT
1 CGATATTTGATTTCGTGTAAGACCATGTCTGGGACAG-TGGCAT
*
31214953 C-A-ATTTGAGATTTACGTGTAAGACCATGTCTAGGACA-TCGGCAT
1 CGATATTT--GATTT-CGTGTAAGACCATGTCTGGGACAGT-GGCAT
*
31214997 CG-TATTTGATTTCGTGTAAGACCTTGTCTGGGACAGTGGCAT
1 CGATATTTGATTTCGTGTAAGACCATGTCTGGGACAGTGGCAT
* * *
31215039 CGATATTTGATTACATATAAGACCATGTCTGG
1 CGATATTTGATTTCGTGTAAGACCATGTCTGG
31215071 AACGTTGGCA
Statistics
Matches: 98, Mismatches: 11, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
41 3 0.03
42 29 0.30
43 38 0.39
44 24 0.24
45 4 0.04
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.34
Consensus pattern (43 bp):
CGATATTTGATTTCGTGTAAGACCATGTCTGGGACAGTGGCAT
Found at i:31221611 original size:48 final size:47
Alignment explanation
Indices: 31221504--31221684 Score: 166
Period size: 48 Copynumber: 3.7 Consensus size: 47
31221494 TGCTGATACG
* * * * *
31221504 ATGTCCCAGACATGGTCTTACACTAGTTCTTATATATCAGTGCCGATGCC
1 ATGTCCCAAACATGGTCTTACACT-G-GCTCACATATCAG-GCCGATGCT
* *
31221554 ATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCTGATGCT
1 ATGTCCCAAACATGGTCTTACACTGGCTCACATATC-AGGCCGATGCT
* * * * * *
31221602 ATGTCCCAAACATGGTCTTACATTAGCTCTCATAATAATGCCGA-GGT
1 ATGTCCCAAACATGGTCTTACACTGGCTCACAT-ATCAGGCCGATGCT
* *
31221649 CATGTTCCAAACATGGTCTTACACTGGCTCATATAT
1 -ATGTCCCAAACATGGTCTTACACTGGCTCACATAT
31221685 AACCCTAGTA
Statistics
Matches: 108, Mismatches: 20, Indels: 9
0.79 0.15 0.07
Matches are distributed among these distances:
47 4 0.04
48 77 0.71
49 5 0.05
50 22 0.20
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.31
Consensus pattern (47 bp):
ATGTCCCAAACATGGTCTTACACTGGCTCACATATCAGGCCGATGCT
Found at i:31221669 original size:96 final size:98
Alignment explanation
Indices: 31221495--31221684 Score: 276
Period size: 96 Copynumber: 2.0 Consensus size: 98
31221485 AGGATAAGAT
* * * * *
31221495 GCTGATACGATGTCCCAGACATGGTCTTACACTAGTTCTTATATATCAGTGCCGATGCCATGTTC
1 GCTGATACGATGTCCCAAACATGGTCTTACACTAGCTCTCATATATCAATGCCGAGGCCATGTTC
31221560 CAAACATGGTCTTACACTGGCTCACATATCGAG
66 CAAACATGGTCTTACACTGGCTCACATATCGAG
* * * *
31221593 GCTGATGCTATGTCCCAAACATGGTCTTACATTAGCTCTCATA-AT-AATGCCGAGGTCATGTTC
1 GCTGATACGATGTCCCAAACATGGTCTTACACTAGCTCTCATATATCAATGCCGAGGCCATGTTC
*
31221656 CAAACATGGTCTTACACTGGCTCATATAT
66 CAAACATGGTCTTACACTGGCTCACATAT
31221685 AACCCTAGTA
Statistics
Matches: 82, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
96 43 0.52
97 2 0.02
98 37 0.45
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (98 bp):
GCTGATACGATGTCCCAAACATGGTCTTACACTAGCTCTCATATATCAATGCCGAGGCCATGTTC
CAAACATGGTCTTACACTGGCTCACATATCGAG
Found at i:31223207 original size:29 final size:29
Alignment explanation
Indices: 31223173--31223234 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
31223163 GGACTTAATT
31223173 TTCCTTTCCTACCGAATATAAGGACTTTC
1 TTCCTTTCCTACCGAATATAAGGACTTTC
* * *
31223202 TTCCTTTCTTACCGAATCTGAGGACTTTC
1 TTCCTTTCCTACCGAATATAAGGACTTTC
31223231 TTCC
1 TTCC
31223235 AGGGAGATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.19, C:0.29, G:0.11, T:0.40
Consensus pattern (29 bp):
TTCCTTTCCTACCGAATATAAGGACTTTC
Found at i:31226717 original size:41 final size:41
Alignment explanation
Indices: 31226601--31226739 Score: 120
Period size: 43 Copynumber: 3.3 Consensus size: 41
31226591 AAATGTGTTC
* *
31226601 TCGTGTAAGACCAC-GTCTGGGAAATTGGCATTGATATATGAT
1 TCGTGTAAGACC-CTGTCTGGGACA-TGGCATCGATATATGAT
* * * * *
31226643 TATGTGTAAGACCATGTCTGGTACATCGACATCG-TATTTGAT
1 T-CGTGTAAGACCCTGTCTGGGACAT-GGCATCGATATATGAT
**
31226685 TCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATGGGATT
1 TCGTGTAAGACCCTGTCTGGGACA-TGGCATCGATATATGA-T
*
31226728 TCATGTAAGACC
1 TCGTGTAAGACC
31226740 ACATCTAGGA
Statistics
Matches: 77, Mismatches: 14, Indels: 11
0.75 0.14 0.11
Matches are distributed among these distances:
41 26 0.34
42 16 0.21
43 35 0.45
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (41 bp):
TCGTGTAAGACCCTGTCTGGGACATGGCATCGATATATGAT
Found at i:31234280 original size:20 final size:21
Alignment explanation
Indices: 31234241--31234280 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
31234231 GTTATAATGA
31234241 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCGTGTTGCCCTT
*
31234262 CCACACGTGCGTG-TGCCCT
1 CCACACGGGCGTGTTGCCCT
31234281 ATTTAAAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.10, C:0.40, G:0.28, T:0.23
Consensus pattern (21 bp):
CCACACGGGCGTGTTGCCCTT
Found at i:31242017 original size:46 final size:45
Alignment explanation
Indices: 31241881--31242087 Score: 147
Period size: 46 Copynumber: 4.5 Consensus size: 45
31241871 CTAACATAAT
* *
31241881 ACATGTCTGGGACATGCATCAGCC-AC-ATTATGAGAGCCAGTGTAAG
1 ACATGTCTGGGACATGCATCAGCCTACGA-GAT--GTGCCAGTGTAAG
* * * * * * *
31241927 ACTATGTCTGGGACATGGAAT-TG-GTATTGAGATGAGAGCTAGTGTGAG
1 AC-ATGTCTGGGACAT-GCATCAGCCTA-CGAGAT--GTGCCAGTGTAAG
*
31241975 ACATGCCTGGGACATGCATCAGCCT-CGAGATGTAAGCCAGTGTAAG
1 ACATGTCTGGGACATGCATCAGCCTACGAGATGT--GCCAGTGTAAG
* * *
31242021 ACATGTCTGGGACATGCATC-GGCTACGAGATGTGTCAGTGTAAA
1 ACATGTCTGGGACATGCATCAGCCTACGAGATGTGCCAGTGTAAG
31242065 ACCATGTCTGGGACATGGCATCA
1 A-CATGTCTGGGACAT-GCATCA
31242088 ACACGTATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 25
0.75 0.11 0.14
Matches are distributed among these distances:
44 11 0.09
45 17 0.13
46 51 0.40
47 28 0.22
48 21 0.16
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (45 bp):
ACATGTCTGGGACATGCATCAGCCTACGAGATGTGCCAGTGTAAG
Found at i:31242180 original size:50 final size:49
Alignment explanation
Indices: 31242054--31242285 Score: 222
Period size: 48 Copynumber: 4.8 Consensus size: 49
31242044 TACGAGATGT
* ** * * * *
31242054 GTCAGTGTAAAACCATGTCTGGGACATGGCATCAACACGTATATAG-GT
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATATTGAGA
*
31242102 GTCAGTTTAAGACCATGTCTGGGACATGGCATCGGCATGGATATCTGAGA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATAT-TGAGA
* * * * *
31242152 GAT-AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATTTTGATA
1 G-TCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATATTGAGA
* * * *
31242201 GTCAGTGTAAGACCATGTCTGGGACATGGCATTGAC-TTG--ATGGATGA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATATTGA-GA
* * *
31242248 GCCAGTGTAAGACCATGTCTAGAACATGGCATCGGCAT
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
31242286 TATACCCCAT
Statistics
Matches: 152, Mismatches: 26, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
46 3 0.02
47 32 0.21
48 42 0.28
49 36 0.24
50 38 0.25
51 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.26
Consensus pattern (49 bp):
GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATATTGAGA
Found at i:31244698 original size:48 final size:47
Alignment explanation
Indices: 31244640--31244822 Score: 168
Period size: 48 Copynumber: 3.8 Consensus size: 47
31244630 ATATATTGGT
* * *
31244640 GCCGATGCCATGTCCCAAACATGTTCTTATACTGGCTCATACAACAAT
1 GCCGATGCCATGTCCCAAACATG-TCTTACACTGGCTCACACAACAAG
* * * * *
31244688 GTCGATGCCATGTTCCAAACATAGTCTTACACTGGCTCACATATCGAG
1 GCCGATGCCATGTCCCAAACAT-GTCTTACACTGGCTCACACAACAAG
* * * *
31244736 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAACAAT
1 GCCGATGCCATGTCCCAAACAT-GTCTTACACTGGCTCACACAACAAG
* * * * * *
31244784 GCTGAGGTCATGTTCTAAACATGGTCTTACACTAGCTCA
1 GCCGATGCCATGTCCCAAACAT-GTCTTACACTGGCTCA
31244823 TATATAAACC
Statistics
Matches: 112, Mismatches: 22, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
48 111 0.99
49 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAAACATGTCTTACACTGGCTCACACAACAAG
Found at i:31244764 original size:96 final size:96
Alignment explanation
Indices: 31244598--31244827 Score: 259
Period size: 96 Copynumber: 2.4 Consensus size: 96
31244588 ATTCTAATGT
* * * * *
31244598 CATGTCCCAGACATGGTCTTACACTAGTTCTCATATATTG-GTGCCGATGCCATGTCCCAAACAT
1 CATGTTCCAAACATAGTCTTACACTAG--CTCACATATCGAG-GCCGATGCCATGTCCCAAACAT
* * * *
31244662 GTTCTTATACTGGCTCAT-ACAACAATG-TCGATGC
63 GGTCTTACACTAGCTC-TCACAACAATGCT-GAGGC
*
31244696 CATGTTCCAAACATAGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCCCAAACATGGT
1 CATGTTCCAAACATAGTCTTACACTAGCTCACATATCGAGGCCGATGCCATGTCCCAAACATGGT
* *
31244761 CTTACACTAGCTCTCATAACAATGCTGAGGT
66 CTTACACTAGCTCTCACAACAATGCTGAGGC
* * *
31244792 CATGTTCTAAACATGGTCTTACACTAGCTCATATAT
1 CATGTTCCAAACATAGTCTTACACTAGCTCACATAT
31244828 AAACCTAGTA
Statistics
Matches: 113, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
95 1 0.01
96 87 0.77
97 2 0.02
98 23 0.20
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.30
Consensus pattern (96 bp):
CATGTTCCAAACATAGTCTTACACTAGCTCACATATCGAGGCCGATGCCATGTCCCAAACATGGT
CTTACACTAGCTCTCACAACAATGCTGAGGC
Found at i:31246396 original size:22 final size:22
Alignment explanation
Indices: 31246371--31246413 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
31246361 CCCCTAGGAA
31246371 TTGAAAAGTGCAATTAGGGTGT
1 TTGAAAAGTGCAATTAGGGTGT
31246393 TTGAAAAGTGCAATTAGGGTG
1 TTGAAAAGTGCAATTAGGGTG
31246414 CTCCAATTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.05, G:0.33, T:0.30
Consensus pattern (22 bp):
TTGAAAAGTGCAATTAGGGTGT
Found at i:31246603 original size:16 final size:17
Alignment explanation
Indices: 31246572--31246606 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
31246562 AAATAAAGCA
31246572 TTTCATACTTAATTTTT
1 TTTCATACTTAATTTTT
31246589 TTTCAT-CTT-ATTTTT
1 TTTCATACTTAATTTTT
31246604 TTT
1 TTT
31246607 AGTGATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.50
16 3 0.17
17 6 0.33
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTCATACTTAATTTTT
Found at i:31251038 original size:19 final size:19
Alignment explanation
Indices: 31251016--31251054 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
31251006 AAGACTTAGT
*
31251016 TATTTTATTTTTTCTTATA
1 TATTTTATGTTTTCTTATA
31251035 TATTTTATGTTTTCTTATA
1 TATTTTATGTTTTCTTATA
31251054 T
1 T
31251055 CTTCCCTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.72
Consensus pattern (19 bp):
TATTTTATGTTTTCTTATA
Found at i:31252487 original size:7 final size:7
Alignment explanation
Indices: 31252475--31252505 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
31252465 ACTTTTTCAA
31252475 TCATCCC
1 TCATCCC
31252482 TCATCCC
1 TCATCCC
31252489 TCATCCC
1 TCATCCC
31252496 TCATCCC
1 TCATCCC
31252503 TCA
1 TCA
31252506 ATCATCTCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.55, G:0.00, T:0.29
Consensus pattern (7 bp):
TCATCCC
Found at i:31263412 original size:7 final size:7
Alignment explanation
Indices: 31263398--31263435 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
31263388 ACTTTTTCAA
31263398 TCATCCC
1 TCATCCC
*
31263405 TTATCCC
1 TCATCCC
31263412 TCATCCC
1 TCATCCC
31263419 TCATCCC
1 TCATCCC
31263426 TCATCCC
1 TCATCCC
31263433 TCA
1 TCA
31263436 ATCATCTCTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.16, C:0.53, G:0.00, T:0.32
Consensus pattern (7 bp):
TCATCCC
Found at i:31266133 original size:18 final size:18
Alignment explanation
Indices: 31266110--31266260 Score: 79
Period size: 18 Copynumber: 7.9 Consensus size: 18
31266100 GAATAATTAT
31266110 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAG
* * *
31266128 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAG
* * **
31266146 TTATTCAATAATAACCAG
1 TTATTCAGTAACAGTCAG
*
31266164 TTATTCAGTATCGATCAATTGATCGG
1 TTATTCAGTA---A-C-A--G-TCAG
* *
31266190 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
*
31266208 TTATTCAGTAA-AATCAG
1 TTATTCAGTAACAGTCAG
* * * *
31266225 ATATTCAGTAACTATTAAA
1 TTATTCAGTAAC-AGTCAG
31266244 TTATTCAGTAACAGTCA
1 TTATTCAGTAACAGTCA
31266261 ATCTTTCCAG
Statistics
Matches: 97, Mismatches: 26, Indels: 20
0.68 0.18 0.14
Matches are distributed among these distances:
17 14 0.14
18 52 0.54
19 15 0.15
21 2 0.02
22 1 0.01
23 2 0.02
26 11 0.11
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAG
Found at i:31266492 original size:45 final size:45
Alignment explanation
Indices: 31266435--31266629 Score: 273
Period size: 45 Copynumber: 4.3 Consensus size: 45
31266425 ATTCAAAATA
* * * **
31266435 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTAAATCG
1 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* *
31266480 GTAATGGTAACAGTAATAATATTCGACACACAAAGTGCCGAATCG
1 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* *
31266525 GTAACGGTAATAGTAACAATATTCGACACATAAAGTGCCGAATCG
1 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* *
31266570 GTAACAGTAGCAGTAACAATATTCGACACACAAAGTGCCGAATCG
1 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* *
31266615 GTAACAGTAGCAGTA
1 GTAACGGTAACAGTA
31266630 GCGGTAACGG
Statistics
Matches: 135, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 135 1.00
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (45 bp):
GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
Found at i:31267052 original size:5 final size:5
Alignment explanation
Indices: 31267038--31267079 Score: 57
Period size: 5 Copynumber: 8.2 Consensus size: 5
31267028 AATTAATCAT
* *
31267038 AATTC CATTC AATTC CATTC AATTC AATTC AATTC AAATTC A
1 AATTC AATTC AATTC AATTC AATTC AATTC AATTC -AATTC A
31267080 CTTTTCCACT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
5 27 0.84
6 5 0.16
ACGTcount: A:0.38, C:0.24, G:0.00, T:0.38
Consensus pattern (5 bp):
AATTC
Found at i:31268465 original size:9 final size:9
Alignment explanation
Indices: 31268447--31268481 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
31268437 TTTATTTTTC
*
31268447 ATTTCTTTT
1 ATTTCATTT
31268456 ATTTCATTT
1 ATTTCATTT
31268465 ATTTC-TTT
1 ATTTCATTT
31268473 ATTTCATTT
1 ATTTCATTT
31268482 CTTTATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.71
Consensus pattern (9 bp):
ATTTCATTT
Found at i:31268473 original size:17 final size:18
Alignment explanation
Indices: 31268447--31268493 Score: 69
Period size: 17 Copynumber: 2.7 Consensus size: 18
31268437 TTTATTTTTC
31268447 ATTTCTTTTATTTCATTT
1 ATTTCTTTTATTTCATTT
31268465 ATTTC-TTTATTTCATTT
1 ATTTCTTTTATTTCATTT
* *
31268482 CTTTATTTTATT
1 ATTTCTTTTATT
31268494 ATTAAACTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.72
Consensus pattern (18 bp):
ATTTCTTTTATTTCATTT
Found at i:31268483 original size:13 final size:13
Alignment explanation
Indices: 31268447--31268489 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
31268437 TTTATTTTTC
* *
31268447 ATTTCTTTTATTT
1 ATTTCATTTCTTT
31268460 CATTT-ATTTCTTT
1 -ATTTCATTTCTTT
31268473 ATTTCATTTCTTT
1 ATTTCATTTCTTT
31268486 ATTT
1 ATTT
31268490 TATTATTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 4 0.15
13 18 0.69
14 4 0.15
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTCATTTCTTT
Found at i:31271321 original size:46 final size:45
Alignment explanation
Indices: 31271265--31271434 Score: 182
Period size: 46 Copynumber: 3.7 Consensus size: 45
31271255 ACCTCTCGTA
* *
31271265 GCCGAGGCATGTCCCAGATATGTCTTACACTGGCTTACATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTT-CATCTCGAG
* * * * *
31271311 GCCGATGCATGTCCCAGACATATCTTACACTAGCCTT-GTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACT-GGCTTCATCTCGAG
* * *
31271356 GCCAATGCCATGTCCCAGACATGCTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATG-CATGTCCCAGACATG-TCTTACACTGGCT-TCAT-CTCGAG
31271404 GCCGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
31271435 AACAAACAAA
Statistics
Matches: 102, Mismatches: 16, Indels: 12
0.78 0.12 0.09
Matches are distributed among these distances:
45 11 0.11
46 54 0.53
47 29 0.28
48 7 0.07
49 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTCATCTCGAG
Found at i:31279145 original size:48 final size:48
Alignment explanation
Indices: 31278827--31279191 Score: 220
Period size: 46 Copynumber: 7.7 Consensus size: 48
31278817 GGTATAATAT
* * * * ** *
31278827 CGATGCCATGTCTCGGACATGGTTTTACACTAACTATCGAAATCAAGGC
1 CGATGCCATGTCTCAGACATGGTCTTACACTAGCTCTC-ATCTCAATGC
* * **
31278876 CGACGCCATGTC-CTAGACATGGTCTTACACTAGCTCTCACATATCCGTGC
1 CGATGCCATGTCTC-AGACATGGTCTTACACTAGCTCT--CATCTCAATGC
** * * * *
31278926 CGATGCTGTGTCCCAGACATGGTCTTACACTAACAC-C-TCTAAACGTGC
1 CGATGCCATGTCTCAGACATGGTCTTACACTAGCTCTCATCTCAA--TGC
* * * *
31278974 CAATGCCATGTCTCGGACATGGTCTTACACT-GACAC-C-TCT-AGTAGC
1 CGATGCCATGTCTCAGACATGGTCTTACACTAG-CTCTCATCTCAAT-GC
* * ** *
31279020 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACATCTTGAGGC
1 CGATGCCATGTCTCAGACATGGTCTTACACTAGCTCT-CATCTCAATGC
* * * *
31279066 CAATG-CATGTCCCAGACAT-GTCTTACTCTAGCTCTCGTCTCAATGC
1 CGATGCCATGTCTCAGACATGGTCTTACACTAGCTCTCATCTCAATGC
* ** *
31279112 CGATGCCATGTCTCAAACATGGTCTTACACTAGCTCTCATAAC-GTGGC
1 CGATGCCATGTCTCAGACATGGTCTTACACTAGCTCTCATCTCAAT-GC
*
31279160 AGATG-CATGTCTCAGACAT-GTCTTACACTAGC
1 CGATGCCATGTCTCAGACATGGTCTTACACTAGC
31279192 ACACAAATAA
Statistics
Matches: 250, Mismatches: 49, Indels: 37
0.74 0.15 0.11
Matches are distributed among these distances:
44 11 0.04
45 15 0.06
46 67 0.27
47 29 0.12
48 61 0.24
49 30 0.12
50 35 0.14
51 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (48 bp):
CGATGCCATGTCTCAGACATGGTCTTACACTAGCTCTCATCTCAATGC
Done.