Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008033.1 Hibiscus syriacus cultivar Beakdansim tig00110515_pilon, whole genome shotgun sequence
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: 3048429
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 14
Found at i:698899 original size:80 final size:82
Alignment explanation
Indices: 698750--698905 Score: 208
Period size: 80 Copynumber: 1.9 Consensus size: 82
698740 TAGAAAAACA
* * *
698750 TACTTTAGTGGTGTTTATGTAGAAAACACCGCTATAGCCAGATATATAGTGGCGATTTTATAAAA
1 TACTATAGTGGCGTTTATGTAGAAAACACCGCTATAGCCAGATATATAGTGACGATTTTATAAAA
*
698815 ACGCCGCTAAAACCTCG
66 ACGCCACTAAAACCTCG
* * * * **
698832 TACTATAGTGGCGTTTATGTA-AAAA-GCCTCTATAGCCAGATATATAGTGACGTTTTTGTGTAA
1 TACTATAGTGGCGTTTATGTAGAAAACACCGCTATAGCCAGATATATAGTGACGATTTTATAAAA
698895 ACGCCACTAAA
66 ACGCCACTAAA
698906 GTAAGAGTAC
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
80 41 0.64
81 4 0.06
82 19 0.30
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (82 bp):
TACTATAGTGGCGTTTATGTAGAAAACACCGCTATAGCCAGATATATAGTGACGATTTTATAAAA
ACGCCACTAAAACCTCG
Found at i:702049 original size:21 final size:20
Alignment explanation
Indices: 702020--702076 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 20
702010 TGATTTATTA
702020 TTATGGATTTCAAGTTTCTTG
1 TTATGGATTTCAAGTTT-TTG
* *
702041 TTATCGATTTTAAG-TTTTG
1 TTATGGATTTCAAGTTTTTG
*
702060 TTATGGATGTCAAGTTT
1 TTATGGATTTCAAGTTT
702077 ATTGGATAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 14 0.47
20 4 0.13
21 12 0.40
ACGTcount: A:0.21, C:0.07, G:0.19, T:0.53
Consensus pattern (20 bp):
TTATGGATTTCAAGTTTTTG
Found at i:702549 original size:14 final size:14
Alignment explanation
Indices: 702530--702564 Score: 63
Period size: 13 Copynumber: 2.6 Consensus size: 14
702520 ACAGTACTTA
702530 AAGAAAAAAAAACT
1 AAGAAAAAAAAACT
702544 AAG-AAAAAAAACT
1 AAGAAAAAAAAACT
702557 AAGAAAAA
1 AAGAAAAA
702565 TACCTTAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 13 0.65
14 7 0.35
ACGTcount: A:0.80, C:0.06, G:0.09, T:0.06
Consensus pattern (14 bp):
AAGAAAAAAAAACT
Found at i:704992 original size:7 final size:7
Alignment explanation
Indices: 704976--705018 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
704966 TTAATCAAAA
*
704976 AATATTT
1 AATATAT
704983 AATATAT
1 AATATAT
704990 AATATAT
1 AATATAT
704997 AATATAT
1 AATATAT
* *
705004 TATACAT
1 AATATAT
*
705011 ATTATAT
1 AATATAT
705018 A
1 A
705019 TTTATTTTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (7 bp):
AATATAT
Found at i:710281 original size:50 final size:50
Alignment explanation
Indices: 710157--710453 Score: 515
Period size: 50 Copynumber: 6.0 Consensus size: 50
710147 GGTCAATATC
*
710157 TTTTAAGATGAATAACAAAATCACAAAAATATCAAACATAACTAACAAA-
1 TTTTAAAATGAATAACAAAATCACAAAAATATCAAACATAACTAACAAAT
710206 TTTTAAAATGAATAACAAAATCACAAAAATATCAAACATAACTAACAAAT
1 TTTTAAAATGAATAACAAAATCACAAAAATATCAAACATAACTAACAAAT
* *
710256 TTTTAAAATGAATAACAAAATCACAAAAATGTCAAACATAACTAACAATT
1 TTTTAAAATGAATAACAAAATCACAAAAATATCAAACATAACTAACAAAT
710306 TTTTAAAATGAATAACAAAATCACAAAAATATCAAACATAACTAACAAAT
1 TTTTAAAATGAATAACAAAATCACAAAAATATCAAACATAACTAACAAAT
* * *
710356 TCTTAAAATGAATAACAAAATCACAAAAATGTCAAACATAACTAACAATT
1 TTTTAAAATGAATAACAAAATCACAAAAATATCAAACATAACTAACAAAT
* *
710406 TTTTAAGATGAATAAAAAAATCACAAAAATATCAAACATAACTAACAA
1 TTTTAAAATGAATAACAAAATCACAAAAATATCAAACATAACTAACAA
710454 TCCAAAACTG
Statistics
Matches: 235, Mismatches: 12, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
49 48 0.20
50 187 0.80
ACGTcount: A:0.59, C:0.14, G:0.03, T:0.24
Consensus pattern (50 bp):
TTTTAAAATGAATAACAAAATCACAAAAATATCAAACATAACTAACAAAT
Found at i:711112 original size:16 final size:16
Alignment explanation
Indices: 711090--711133 Score: 63
Period size: 15 Copynumber: 2.8 Consensus size: 16
711080 GTGTGCAAAT
*
711090 CCGGGTACCCGGATTT
1 CCGGGTACCCGGATTC
*
711106 TCGGGTACCC-GATTC
1 CCGGGTACCCGGATTC
711121 CCGGGTACCCGGA
1 CCGGGTACCCGGA
711134 ACTTCCGGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 13 0.54
16 11 0.46
ACGTcount: A:0.14, C:0.34, G:0.32, T:0.20
Consensus pattern (16 bp):
CCGGGTACCCGGATTC
Found at i:714344 original size:27 final size:27
Alignment explanation
Indices: 714227--714351 Score: 200
Period size: 27 Copynumber: 4.7 Consensus size: 27
714217 ATGTAGGAAT
714227 TATAGAG--ATGATTTGTTATCATTCC
1 TATAGAGATATGATTTGTTATCATTCC
*
714252 TATAGAGATATTATTTGTTATCATTCC
1 TATAGAGATATGATTTGTTATCATTCC
*
714279 TATAGAGATATTATTTGTTATCATTCC
1 TATAGAGATATGATTTGTTATCATTCC
*
714306 TATAGAGATATGATTTGTTACCATTCC
1 TATAGAGATATGATTTGTTATCATTCC
714333 TATAGAGATATGATATTGT
1 TATAGAGATATGAT-TTGT
714352 AAATAGATTT
Statistics
Matches: 94, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
25 7 0.07
27 83 0.88
28 4 0.04
ACGTcount: A:0.30, C:0.10, G:0.14, T:0.45
Consensus pattern (27 bp):
TATAGAGATATGATTTGTTATCATTCC
Found at i:717946 original size:27 final size:27
Alignment explanation
Indices: 717897--717991 Score: 158
Period size: 27 Copynumber: 3.6 Consensus size: 27
717887 GTGTAGGAAT
717897 TATAGAG--ATGATTTGTTACCATTCC
1 TATAGAGATATGATTTGTTACCATTCC
* *
717922 TATAGAGATATTATTTGTTATCATTCC
1 TATAGAGATATGATTTGTTACCATTCC
717949 TATAGAGATATGATTTGTTACCATTCC
1 TATAGAGATATGATTTGTTACCATTCC
717976 TATAGAGATATGATTT
1 TATAGAGATATGATTT
717992 TGAAAATAGA
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
25 7 0.11
27 57 0.89
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.43
Consensus pattern (27 bp):
TATAGAGATATGATTTGTTACCATTCC
Found at i:724538 original size:46 final size:46
Alignment explanation
Indices: 724471--724560 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 46
724461 ACCATTATGT
* ** *
724471 ATTTTCATTTGTGGTATCCTTTCATGCCAGTTATGCACTGTTATAC
1 ATTTTCATTTATGACATCCTTTCATGCCAATTATGCACTGTTATAC
*
724517 ATTTTCATTTATGACATCCTTTCATGCCAATTATGCATTGTTAT
1 ATTTTCATTTATGACATCCTTTCATGCCAATTATGCACTGTTAT
724561 TCATCTAACT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.22, C:0.19, G:0.12, T:0.47
Consensus pattern (46 bp):
ATTTTCATTTATGACATCCTTTCATGCCAATTATGCACTGTTATAC
Found at i:725154 original size:54 final size:54
Alignment explanation
Indices: 724855--725152 Score: 429
Period size: 54 Copynumber: 5.5 Consensus size: 54
724845 CAAACATATT
* * * *
724855 ATGAATTCCGTGGAATGCACACTTAGTGCCCAAACGGTTATTTATCCACATAGG
1 ATGAATTCCGTGAAATGCACACTTAGTGCCGAAAAGGTTATTCATCCACATAGG
* * *
724909 ATGAATTCCGTGAAATGCACACTTAGAG-CTAAAATGGTTATTCATCCACATAGA
1 ATGAATTCCGTGAAATGCACACTTAGTGCCGAAAA-GGTTATTCATCCACATAGG
* *
724963 ATGAATTCCGTGAAATGCACACTTCGTGCCGAAATGGTTATTCATCCACATAGG
1 ATGAATTCCGTGAAATGCACACTTAGTGCCGAAAAGGTTATTCATCCACATAGG
* *
725017 ATGAATTCCGTGAAATGCACACATAGTGCCGAAACA-GTTATTCATCCACACAGG
1 ATGAATTCCGTGAAATGCACACTTAGTGCCGAAA-AGGTTATTCATCCACATAGG
* * *
725071 ATGAATTCCGTGAAATGCACACTTAGTGTCGAAAAAGTTATTCATCCATATAGG
1 ATGAATTCCGTGAAATGCACACTTAGTGCCGAAAAGGTTATTCATCCACATAGG
*
725125 ATGAATTCCATGAAATGCACACTTAGTG
1 ATGAATTCCGTGAAATGCACACTTAGTG
725153 TCTATTTTGT
Statistics
Matches: 220, Mismatches: 20, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
53 5 0.02
54 211 0.96
55 4 0.02
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (54 bp):
ATGAATTCCGTGAAATGCACACTTAGTGCCGAAAAGGTTATTCATCCACATAGG
Found at i:725530 original size:19 final size:19
Alignment explanation
Indices: 725506--725549 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
725496 GTATCGGTAC
725506 TACCATACTATGGTACCAA
1 TACCATACTATGGTACCAA
* * *
725525 TACCATGCTATGGTATCGA
1 TACCATACTATGGTACCAA
725544 TACCAT
1 TACCAT
725550 TTTTGCATTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.30
Consensus pattern (19 bp):
TACCATACTATGGTACCAA
Found at i:729432 original size:79 final size:80
Alignment explanation
Indices: 729301--729459 Score: 311
Period size: 79 Copynumber: 2.0 Consensus size: 80
729291 TATTAGGTGT
729301 GGTATGGTAAAATGGGAGGGGATTTGGTAAAAACATATTCAAATAATAATAAAAGCGATTTGAAG
1 GGTATGGTAAAATGGGAGGGGATTTGGTAAAAACATATTCAAATAATAATAAAAGCGATTTGAAG
729366 TAAAAAT-AAGAAAA
66 TAAAAATAAAGAAAA
729380 GGTATGGTAAAATGGGAGGGGATTTGGTAAAAACATATTCAAATAATAATAAAAGCGATTTGAAG
1 GGTATGGTAAAATGGGAGGGGATTTGGTAAAAACATATTCAAATAATAATAAAAGCGATTTGAAG
729445 TAAAAATAAAGAAAA
66 TAAAAATAAAGAAAA
729460 TATTTTAAAG
Statistics
Matches: 79, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
79 72 0.91
80 7 0.09
ACGTcount: A:0.50, C:0.04, G:0.23, T:0.24
Consensus pattern (80 bp):
GGTATGGTAAAATGGGAGGGGATTTGGTAAAAACATATTCAAATAATAATAAAAGCGATTTGAAG
TAAAAATAAAGAAAA
Found at i:729487 original size:79 final size:78
Alignment explanation
Indices: 729302--729493 Score: 251
Period size: 79 Copynumber: 2.4 Consensus size: 78
729292 ATTAGGTGTG
** *
729302 GTATGGTAAAATGGGAGGGGATTTGGTAAAAACATATTCAAATAATAATAAAAGCGATTTGAAGT
1 GTATGGTAAAATGCAAAGGGATTTGGTAAAAACATATTCAAATAATAATAAAAGCGATTTGAAGT
729367 AAAAATAAGAAAA
66 AAAAATAAGAAAA
** *
729380 GGTATGGTAAAATGGGAGGGGATTTGGTAAAAACATATTCAAATAATAATAAAAGCGATTTGAAG
1 -GTATGGTAAAATGCAAAGGGATTTGGTAAAAACATATTCAAATAATAATAAAAGCGATTTGAAG
729445 TAAAAATAAAGAAAA
65 TAAAAAT-AAGAAAA
** * * *
729460 -TATTTTAAAGTTGCAAATGGATATGGTAAAAACA
1 GTATGGTAAA-ATGCAAAGGGATTTGGTAAAAACA
729494 GCCTTAAGCT
Statistics
Matches: 103, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
78 7 0.07
79 89 0.86
80 7 0.07
ACGTcount: A:0.49, C:0.04, G:0.21, T:0.26
Consensus pattern (78 bp):
GTATGGTAAAATGCAAAGGGATTTGGTAAAAACATATTCAAATAATAATAAAAGCGATTTGAAGT
AAAAATAAGAAAA
Found at i:731021 original size:21 final size:21
Alignment explanation
Indices: 730974--731022 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
730964 GTTTTTTTTC
**
730974 TTTTTCACATTTTTGTTGTTT
1 TTTTTCACATTTTTCATGTTT
730995 TGTTTTC-CATTTTTCATGTATT
1 T-TTTTCACATTTTTCATGT-TT
731017 TTTTTC
1 TTTTTC
731023 TCTTTTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.10, C:0.12, G:0.08, T:0.69
Consensus pattern (21 bp):
TTTTTCACATTTTTCATGTTT
Found at i:731643 original size:207 final size:208
Alignment explanation
Indices: 731178--731594 Score: 732
Period size: 208 Copynumber: 2.0 Consensus size: 208
731168 TGGTGAAAAC
* * *
731178 AAAGAAGCGGGAATAGACTCAAAAGTGGTCAACTAGGGGGGAAATGCATGGGTAGGCAATTTAGT
1 AAAGAAGCCGGAATAGACTCAAAAGTGCTCAACAAGGGGGGAAATGCATGGGTAGGCAATTTAGT
731243 GGGGGAAACATAATGGTTAATCCTAAGGTGCCCAAATCATTTTTTAAAAACTCATGTTCATGTGT
66 GGGGGAAACATAATGGTTAATCCTAAGGTGCCCAAATCATTTTTTAAAAACTCATGTTCATGTGT
731308 AATCTCAATATATTTAAAGTGCGGGTTCTAGAATACAATGTCAAATTTGACACACTCAATCAACA
131 AATCTCAATATATTTAAAGTGCGGGTTCTAGAATACAATGTCAAATTTGACACACTCAATCAACA
731373 AAATGAGAGCAAA
196 AAATGAGAGCAAA
* * *
731386 AAAGAAGCGGGAATAGACTCAAAAGTGGTCAACTAGGGGGGAAATGCATGGGTAGGCAATTTAGT
1 AAAGAAGCCGGAATAGACTCAAAAGTGCTCAACAAGGGGGGAAATGCATGGGTAGGCAATTTAGT
*
731451 GGGGGAAACATAATGGTTAATCCTAAGGTGCCCAAATCA-TTTTTAAACA-TCATGTTCATGTGT
66 GGGGGAAACATAATGGTTAATCCTAAGGTGCCCAAATCATTTTTTAAAAACTCATGTTCATGTGT
731514 AATCTCAATAATATTTAAA-TGCGGGTTCTAGAATACCAATGTCAAATTTGACACACTCAATCAA
131 AATCTCAAT-ATATTTAAAGTGCGGGTTCTAGAATA-CAATGTCAAATTTGACACACTCAATCAA
731578 CAAAATGAGAGCAAA
194 CAAAATGAGAGCAAA
731593 AA
1 AA
731595 TGATATGCTC
Statistics
Matches: 206, Mismatches: 1, Indels: 5
0.97 0.00 0.02
Matches are distributed among these distances:
206 39 0.19
207 63 0.31
208 104 0.50
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (208 bp):
AAAGAAGCCGGAATAGACTCAAAAGTGCTCAACAAGGGGGGAAATGCATGGGTAGGCAATTTAGT
GGGGGAAACATAATGGTTAATCCTAAGGTGCCCAAATCATTTTTTAAAAACTCATGTTCATGTGT
AATCTCAATATATTTAAAGTGCGGGTTCTAGAATACAATGTCAAATTTGACACACTCAATCAACA
AAATGAGAGCAAA
Found at i:738535 original size:19 final size:19
Alignment explanation
Indices: 738498--738534 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
738488 AGACCAAAGT
738498 CTATCTTTGATTTTGAAAA
1 CTATCTTTGATTTTGAAAA
738517 CTAT-TTTGATTTTGAAAA
1 CTATCTTTGATTTTGAAAA
738535 ATAAGAGCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.32, C:0.08, G:0.11, T:0.49
Consensus pattern (19 bp):
CTATCTTTGATTTTGAAAA
Found at i:739085 original size:13 final size:13
Alignment explanation
Indices: 739067--739091 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
739057 TTGAAAACCC
739067 TTTCAAAATTTTG
1 TTTCAAAATTTTG
739080 TTTCAAAATTTT
1 TTTCAAAATTTT
739092 AAATTAAAAC
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:0.08, G:0.04, T:0.56
Consensus pattern (13 bp):
TTTCAAAATTTTG
Found at i:739995 original size:54 final size:54
Alignment explanation
Indices: 739933--740227 Score: 339
Period size: 54 Copynumber: 5.5 Consensus size: 54
739923 TAAAAATATT
*
739933 ATGAATTCCGTTAAATGCACACTTAGTGCTGAAACGGTTATTCATCCACATAGA
1 ATGAATTCCGTGAAATGCACACTTAGTGCTGAAACGGTTATTCATCCACATAGA
* * * *
739987 ATGTATTCCGTGAAATACACACTTAGTG-TCGAAATGGTTATTCATCCATATA-A
1 ATGAATTCCGTGAAATGCACACTTAGTGCT-GAAACGGTTATTCATCCACATAGA
* ** *
740040 GATGAATTCTGTGAAATGCACACTTAGTGCCAAAACGGTTATTCATCCGTC-TATGA
1 -ATGAATTCCGTGAAATGCACACTTAGTGCTGAAACGGTTATTCATCC-ACATA-GA
* * * * * *
740096 A-GAATTCCGTGAAATGCGCACTTAATGCCGAAACAGTTATTTATCCACATAGG
1 ATGAATTCCGTGAAATGCACACTTAGTGCTGAAACGGTTATTCATCCACATAGA
* * * *
740149 ATGAATTCCGTGACATGAACACTTAGTG-TCGAAACGATTATTCATCCACATAGG
1 ATGAATTCCGTGAAATGCACACTTAGTGCT-GAAACGGTTATTCATCCACATAGA
740203 ATGAATTCCGTGAAATGCACACTTA
1 ATGAATTCCGTGAAATGCACACTTA
740228 ATGCCTATTT
Statistics
Matches: 201, Mismatches: 31, Indels: 18
0.80 0.12 0.07
Matches are distributed among these distances:
53 5 0.02
54 194 0.97
55 1 0.00
56 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (54 bp):
ATGAATTCCGTGAAATGCACACTTAGTGCTGAAACGGTTATTCATCCACATAGA
Found at i:740179 original size:162 final size:162
Alignment explanation
Indices: 739935--740232 Score: 445
Period size: 162 Copynumber: 1.8 Consensus size: 162
739925 AAAATATTAT
* * * * *
739935 GAATTCCGTTAAATGCACACTTAGTGCTGAAACGGTTATTCATCCACATAGAATGTATTCCGTGA
1 GAATTCCGTGAAATGCACACTTAATGCCGAAACAGTTATTCATCCACATAGAATGAATTCCGTGA
* * * *
740000 AATACACACTTAGTGTCGAAATGGTTATTCATCCATATAAGATGAATTCTGTGAAATGCACACTT
66 AATACACACTTAGTGTCGAAACGATTATTCATCCACATAAGATGAATTCCGTGAAATGCACACTT
*
740065 AGTGCCAAAACGGTTATTCATCCGTCTATGAA
131 AATGCCAAAACGGTTATTCATCCGTCTATGAA
* * *
740097 GAATTCCGTGAAATGCGCACTTAATGCCGAAACAGTTATTTATCCACATAGGATGAATTCCGTGA
1 GAATTCCGTGAAATGCACACTTAATGCCGAAACAGTTATTCATCCACATAGAATGAATTCCGTGA
* *
740162 CATGA-ACACTTAGTGTCGAAACGATTATTCATCCACATAGGATGAATTCCGTGAAATGCACACT
66 AAT-ACACACTTAGTGTCGAAACGATTATTCATCCACATAAGATGAATTCCGTGAAATGCACACT
740226 TAATGCC
130 TAATGCC
740233 TATTTGGTAA
Statistics
Matches: 120, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
162 119 0.99
163 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (162 bp):
GAATTCCGTGAAATGCACACTTAATGCCGAAACAGTTATTCATCCACATAGAATGAATTCCGTGA
AATACACACTTAGTGTCGAAACGATTATTCATCCACATAAGATGAATTCCGTGAAATGCACACTT
AATGCCAAAACGGTTATTCATCCGTCTATGAA
Found at i:746942 original size:20 final size:20
Alignment explanation
Indices: 746917--746970 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
746907 GACCAACAAA
*
746917 TTCGCAACGCGAATTCTAAT
1 TTCGCAACGCGAATTCCAAT
* *
746937 TTCGCAAC-CCAGTTTCCAAT
1 TTCGCAACGCGA-ATTCCAAT
746957 TTCGCAACGCGAAT
1 TTCGCAACGCGAAT
746971 ATGTAAATCG
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
19 2 0.07
20 23 0.85
21 2 0.07
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.28
Consensus pattern (20 bp):
TTCGCAACGCGAATTCCAAT
Found at i:747007 original size:21 final size:21
Alignment explanation
Indices: 746978--747024 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
746968 AATATGTAAA
*
746978 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATATTCCAAAT
*
746999 TCGCGTTGCGATATTCCAAAT
1 TCGCATTGCGATATTCCAAAT
747020 TCGCA
1 TCGCA
747025 ACGTGATAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATATTCCAAAT
Found at i:747078 original size:19 final size:20
Alignment explanation
Indices: 747015--747085 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
747005 TGCGATATTC
747015 CAAATTCGCAACGTG-ATAGT
1 CAAATTCGCAACGTGAAT-GT
* *
747035 CAAATTCGCAACGCGAAAGT
1 CAAATTCGCAACGTGAATGT
*
747055 CAAATTCGCAAC-TGAATTT
1 CAAATTCGCAACGTGAATGT
747074 CAAATTCGCAAC
1 CAAATTCGCAAC
747086 ACAAATTTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
19 16 0.36
20 28 0.62
21 1 0.02
ACGTcount: A:0.38, C:0.24, G:0.15, T:0.23
Consensus pattern (20 bp):
CAAATTCGCAACGTGAATGT
Found at i:747841 original size:12 final size:12
Alignment explanation
Indices: 747820--747853 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
747810 ACCACATTTC
*
747820 CAATACCAAACA
1 CAATATCAAACA
747832 CAATATCAAACA
1 CAATATCAAACA
747844 CAATATCAAA
1 CAATATCAAA
747854 ACCTACAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.59, C:0.26, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:748030 original size:24 final size:24
Alignment explanation
Indices: 747979--748032 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
747969 GTATTCAAAA
* *
747979 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGATCAATACCCAGAC
* *
748003 TTTGATCTTGATCAATACTCAGAT
1 TTTGATCTTGATCAATACCCAGAC
748027 TTTGAT
1 TTTGAT
748033 GATGTGATGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGATCAATACCCAGAC
Found at i:751472 original size:48 final size:45
Alignment explanation
Indices: 751410--751530 Score: 134
Period size: 48 Copynumber: 2.6 Consensus size: 45
751400 TTATTACCTT
*
751410 TTATCCCATAAGCTCATAAGCTTATTTTTACCAAAATACTTACCA
1 TTATTCCATAAGCTCATAAGCTTATTTTTACCAAAATACTTACCA
* ** * *
751455 TTTAAATTCCATAAGCTCGTAAGCTTATTTTTTTTCAATATACTTGCCA
1 -TT--ATTCCATAAGCTCATAAGCTTA-TTTTTACCAAAATACTTACCA
* *
751504 TTATTCCGTAATCTCATAAGCTTATTT
1 TTATTCCATAAGCTCATAAGCTTATTT
751531 GCATGGTTAC
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
45 3 0.05
46 21 0.33
48 22 0.35
49 17 0.27
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.42
Consensus pattern (45 bp):
TTATTCCATAAGCTCATAAGCTTATTTTTACCAAAATACTTACCA
Found at i:751527 original size:46 final size:48
Alignment explanation
Indices: 751415--751530 Score: 139
Period size: 46 Copynumber: 2.5 Consensus size: 48
751405 ACCTTTTATC
751415 CCATAAGCTCATAAGCTTA-TTTTTACCAAAATACTTACCATTTAAATT
1 CCATAAGCTCATAAGCTTATTTTTTACCAAAATACTTACCATTT-AATT
* ** * *
751463 CCATAAGCTCGTAAGCTTATTTTTTTTCAATATACTTGCCA-TT-ATT
1 CCATAAGCTCATAAGCTTATTTTTTACCAAAATACTTACCATTTAATT
* *
751509 CCGTAATCTCATAAGCTTATTT
1 CCATAAGCTCATAAGCTTATTT
751531 GCATGGTTAC
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 22 0.37
48 20 0.34
49 17 0.29
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (48 bp):
CCATAAGCTCATAAGCTTATTTTTTACCAAAATACTTACCATTTAATT
Found at i:751689 original size:40 final size:40
Alignment explanation
Indices: 751634--751754 Score: 224
Period size: 40 Copynumber: 3.0 Consensus size: 40
751624 ACCGTAGTGC
751634 TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
*
751674 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
*
751714 TACACATAAGGTCGTGCCCACCAAATACACCAAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
751754 T
1 T
751755 TTAAACCTGC
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
Found at i:753766 original size:25 final size:25
Alignment explanation
Indices: 753728--753777 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
753718 AAATCAATTA
*
753728 AACATTGTTGTGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
753753 AACATTGTTATGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
753778 GAAAAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (25 bp):
AACATTGTTATGGGTACATTATTTG
Found at i:754172 original size:24 final size:25
Alignment explanation
Indices: 754145--754199 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 25
754135 ATTCAAATTC
*
754145 ATTTCATATGT-AATTGGAGTTTGA
1 ATTTCAAATGTCAATTGGAGTTTGA
* *
754169 ATTT-AAATTTCAATTTGAGTTTGA
1 ATTTCAAATGTCAATTGGAGTTTGA
754193 ATTTCAA
1 ATTTCAA
754200 TATAAATTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 4 0.15
24 20 0.77
25 2 0.08
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.47
Consensus pattern (25 bp):
ATTTCAAATGTCAATTGGAGTTTGA
Found at i:754185 original size:18 final size:18
Alignment explanation
Indices: 754164--754200 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
754154 GTAATTGGAG
754164 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
754182 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
754200 T
1 T
754201 ATAAATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:754207 original size:24 final size:24
Alignment explanation
Indices: 754156--754208 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
754146 TTTCATATGT
* * *
754156 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
*
754180 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
754204 AATTT
1 AATTT
754209 CGGCTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:754515 original size:39 final size:39
Alignment explanation
Indices: 754472--754555 Score: 150
Period size: 39 Copynumber: 2.2 Consensus size: 39
754462 GATGCTCATT
754472 AAAATCCAAAGCTCATATGGTGCCAAGCAAAAGAAAATC
1 AAAATCCAAAGCTCATATGGTGCCAAGCAAAAGAAAATC
* *
754511 AAAATCCAAATCTCATATGGTGCCAAGCAAAAGGAAATC
1 AAAATCCAAAGCTCATATGGTGCCAAGCAAAAGAAAATC
754550 AAAATC
1 AAAATC
754556 TACAACTTGA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.49, C:0.20, G:0.14, T:0.17
Consensus pattern (39 bp):
AAAATCCAAAGCTCATATGGTGCCAAGCAAAAGAAAATC
Found at i:754835 original size:20 final size:20
Alignment explanation
Indices: 754807--754844 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
754797 GTAAAGCTTA
754807 TTTCACGTTGCGAATTTGAT
1 TTTCACGTTGCGAATTTGAT
*
754827 TTTCGCGTTGCGAATTTG
1 TTTCACGTTGCGAATTTG
754845 TACCTTCAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.16, C:0.16, G:0.24, T:0.45
Consensus pattern (20 bp):
TTTCACGTTGCGAATTTGAT
Found at i:755035 original size:61 final size:63
Alignment explanation
Indices: 754907--755044 Score: 165
Period size: 61 Copynumber: 2.2 Consensus size: 63
754897 TAGAAACAAT
*
754907 AAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACAAATCAAATTAAA
1 AAATCAACTTTTACAAATCAATT--A-AAGCAAAAAAATAAATCTTATTTACAAATCAAATTAAA
754972 C
63 C
* * ** *
754973 AAATCAACTTTTACAAATCAATT-AATC-AAAAAATAAATCTTATTTCCTCATC-AATTGTAAC
1 AAATCAACTTTTACAAATCAATTAAAGCAAAAAAATAAATCTTATTTACAAATCAAATT-AAAC
755034 AAATCAACTTT
1 AAATCAACTTT
755045 CAATGTAAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
60 4 0.06
61 35 0.54
62 3 0.05
66 23 0.35
ACGTcount: A:0.50, C:0.17, G:0.01, T:0.32
Consensus pattern (63 bp):
AAATCAACTTTTACAAATCAATTAAAGCAAAAAAATAAATCTTATTTACAAATCAAATTAAAC
Found at i:758515 original size:13 final size:13
Alignment explanation
Indices: 758497--758569 Score: 51
Period size: 13 Copynumber: 5.5 Consensus size: 13
758487 GTCACAACCC
758497 GACCCGAACCGTT
1 GACCCGAACCGTT
* *
758510 GACCCGTTGACC--C
1 GACCCG--AACCGTT
*
758523 GACCCGACCCGTT
1 GACCCGAACCGTT
*
758536 GACCCGACCCGTT
1 GACCCGAACCGTT
*
758549 GACCCGTTGACCGTT
1 GACCCG--AACCGTT
758564 GACCCG
1 GACCCG
758570 TTGACCGTTG
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
11 2 0.04
13 31 0.66
15 14 0.30
ACGTcount: A:0.16, C:0.42, G:0.25, T:0.16
Consensus pattern (13 bp):
GACCCGAACCGTT
Found at i:758518 original size:8 final size:8
Alignment explanation
Indices: 758505--758582 Score: 85
Period size: 8 Copynumber: 10.1 Consensus size: 8
758495 CCGACCCGAA
758505 CCGTTGAC
1 CCGTTGAC
758513 CCGTTGAC
1 CCGTTGAC
**
758521 CCGACCCGAC
1 CCG--TTGAC
758531 CCGTTGAC
1 CCGTTGAC
758539 CC---GAC
1 CCGTTGAC
758544 CCGTTGAC
1 CCGTTGAC
758552 CCGTTGA-
1 CCGTTGAC
758559 CCGTTGAC
1 CCGTTGAC
758567 CCGTTGA-
1 CCGTTGAC
758574 CCGTTGAC
1 CCGTTGAC
758582 C
1 C
758583 GGAGTTGACC
Statistics
Matches: 59, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
5 5 0.08
7 14 0.24
8 34 0.58
10 6 0.10
ACGTcount: A:0.14, C:0.41, G:0.24, T:0.21
Consensus pattern (8 bp):
CCGTTGAC
Found at i:758531 original size:18 final size:19
Alignment explanation
Indices: 758509--758560 Score: 79
Period size: 18 Copynumber: 2.7 Consensus size: 19
758499 CCCGAACCGT
758509 TGACCCGTTGACCCGACCC
1 TGACCCGTTGACCCGACCC
758528 -GACCCGTTGACCCGACCC
1 TGACCCGTTGACCCGACCC
758546 GTTGACCCGTTGACC
1 --TGACCCGTTGACC
758561 GTTGACCCGT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 18 0.60
21 12 0.40
ACGTcount: A:0.15, C:0.44, G:0.23, T:0.17
Consensus pattern (19 bp):
TGACCCGTTGACCCGACCC
Found at i:758564 original size:7 final size:7
Alignment explanation
Indices: 758544--758583 Score: 62
Period size: 7 Copynumber: 5.4 Consensus size: 7
758534 TTGACCCGAC
758544 CCGTTGA
1 CCGTTGA
758551 CCCGTTGA
1 -CCGTTGA
758559 CCGTTGA
1 CCGTTGA
758566 CCCGTTGA
1 -CCGTTGA
758574 CCGTTGA
1 CCGTTGA
758581 CCG
1 CCG
758584 GAGTTGACCA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 17 0.55
8 14 0.45
ACGTcount: A:0.12, C:0.35, G:0.28, T:0.25
Consensus pattern (7 bp):
CCGTTGA
Found at i:758564 original size:15 final size:15
Alignment explanation
Indices: 758544--758582 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
758534 TTGACCCGAC
758544 CCGTTGACCCGTTGA
1 CCGTTGACCCGTTGA
758559 CCGTTGACCCGTTGA
1 CCGTTGACCCGTTGA
758574 CCGTTGACC
1 CCGTTGACC
758583 GGAGTTGACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.13, C:0.36, G:0.26, T:0.26
Consensus pattern (15 bp):
CCGTTGACCCGTTGA
Found at i:761943 original size:13 final size:13
Alignment explanation
Indices: 761943--761987 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
761933 CCGTTGACCC
761943 GACCCGACCCGTT
1 GACCCGACCCGTT
*
761956 TACCCGACCCGTT
1 GACCCGACCCGTT
*
761969 GACCGTTGACCCGTT
1 GACC--CGACCCGTT
761984 GACC
1 GACC
761988 GTTGACCGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 15 0.56
15 12 0.44
ACGTcount: A:0.16, C:0.42, G:0.22, T:0.20
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:761944 original size:18 final size:18
Alignment explanation
Indices: 761921--761966 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
761911 ACCGGTCACA
761921 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
*
761939 ACCCGACCCGACCCGTTT
1 ACCCGACCCGACCCGTTG
761957 ACCCGACCCG
1 ACCCGACCCG
761967 TTGACCGTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.17, C:0.52, G:0.20, T:0.11
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:761976 original size:7 final size:7
Alignment explanation
Indices: 761964--761995 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
761954 TTTACCCGAC
761964 CCGTTGA
1 CCGTTGA
761971 CCGTTGA
1 CCGTTGA
761978 CCCGTTGA
1 -CCGTTGA
761986 CCGTTGA
1 CCGTTGA
761993 CCG
1 CCG
761996 GAGTTGACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.12, C:0.34, G:0.28, T:0.25
Consensus pattern (7 bp):
CCGTTGA
Found at i:761981 original size:15 final size:15
Alignment explanation
Indices: 761961--761994 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
761951 CCGTTTACCC
761961 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
761976 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
761991 GACC
1 GACC
761995 GGAGTTGACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.15, C:0.35, G:0.26, T:0.24
Consensus pattern (15 bp):
GACCCGTTGACCGTT
Found at i:763311 original size:18 final size:18
Alignment explanation
Indices: 763285--763320 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
763275 TCGAAAGGAC
*
763285 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
763303 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
763321 CGGATGGCAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:764295 original size:23 final size:24
Alignment explanation
Indices: 764248--764338 Score: 121
Period size: 24 Copynumber: 3.8 Consensus size: 24
764238 TCCGACTTGA
* * *
764248 ATTCTGTTATGATACCTGACCTGG
1 ATTCTGATCTGATACTTGACCTGG
*
764272 ATTCTGATCTGATA-TTGACATGG
1 ATTCTGATCTGATACTTGACCTGG
*
764295 ATTCTGATCTGATACATGACCTGG
1 ATTCTGATCTGATACTTGACCTGG
*
764319 ATTCTGATATGATACTTGAC
1 ATTCTGATCTGATACTTGAC
764339 TTGAATTATG
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
23 21 0.36
24 37 0.64
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACCTGG
Found at i:764308 original size:47 final size:48
Alignment explanation
Indices: 764248--764338 Score: 139
Period size: 47 Copynumber: 1.9 Consensus size: 48
764238 TCCGACTTGA
* * *
764248 ATTCTGTTATGATACCTGACCTGGATTCTGATCTGATA-TTGACATGG
1 ATTCTGATATGATACATGACCTGGATTCTGATATGATACTTGACATGG
*
764295 ATTCTGATCTGATACATGACCTGGATTCTGATATGATACTTGAC
1 ATTCTGATATGATACATGACCTGGATTCTGATATGATACTTGAC
764339 TTGAATTATG
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 34 0.87
48 5 0.13
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (48 bp):
ATTCTGATATGATACATGACCTGGATTCTGATATGATACTTGACATGG
Found at i:767993 original size:18 final size:18
Alignment explanation
Indices: 767970--768051 Score: 65
Period size: 18 Copynumber: 4.9 Consensus size: 18
767960 AATATATATT
767970 ATAAGAAGAAGAAAAAAC
1 ATAAGAAGAAGAAAAAAC
767988 ATAAG-A-AA-AAAAAAC
1 ATAAGAAGAAGAAAAAAC
*
768003 ---AGAAGAAGAAAAAAA
1 ATAAGAAGAAGAAAAAAC
*
768018 AT-AGAAAAAGAAAAAGA-
1 ATAAGAAGAAGAAAAA-AC
768035 A-AACGAAGAAGAAAAAA
1 ATAA-GAAGAAGAAAAAA
768052 ATGAAAACGA
Statistics
Matches: 53, Mismatches: 3, Indels: 17
0.73 0.04 0.23
Matches are distributed among these distances:
12 2 0.04
13 1 0.02
14 2 0.04
15 13 0.25
16 2 0.04
17 16 0.30
18 17 0.32
ACGTcount: A:0.77, C:0.04, G:0.16, T:0.04
Consensus pattern (18 bp):
ATAAGAAGAAGAAAAAAC
Found at i:768009 original size:30 final size:29
Alignment explanation
Indices: 767972--768076 Score: 99
Period size: 30 Copynumber: 3.5 Consensus size: 29
767962 TATATATTAT
*
767972 AAGAAGAAGAAAAAACATAAGAAAAA-AAA
1 AAGAAGAAGAAAAAAAAT-AGAAAAAGAAA
768001 ACAGAAGAAGAAAAAAAATAGAAAAAGAAA
1 A-AGAAGAAGAAAAAAAATAGAAAAAGAAA
* *
768031 AAGAAAACGAAGAAGAAAAAA-ATGAAAACGAGA
1 AAG--AA-GAAGAA-AAAAAATA-GAAAAAGAAA
768064 AAGAA-AAGAAAAA
1 AAGAAGAAGAAAAA
768077 GATAAAAAAA
Statistics
Matches: 66, Mismatches: 3, Indels: 15
0.79 0.04 0.18
Matches are distributed among these distances:
28 3 0.05
29 15 0.23
30 20 0.30
31 4 0.06
32 7 0.11
33 17 0.26
ACGTcount: A:0.76, C:0.04, G:0.17, T:0.03
Consensus pattern (29 bp):
AAGAAGAAGAAAAAAAATAGAAAAAGAAA
Found at i:768043 original size:35 final size:34
Alignment explanation
Indices: 767990--768086 Score: 119
Period size: 33 Copynumber: 2.9 Consensus size: 34
767980 GAAAAAACAT
767990 AAGAAAAA-AAAACAGAAGAAGAAAAAAAATAGAAA
1 AAGAAAAAGAAAAC-GAAGAAGAAAAAAAAT-GAAA
768025 AAGAAAAAGAAAACGAAGAAG-AAAAAAATGAAA
1 AAGAAAAAGAAAACGAAGAAGAAAAAAAATGAAA
* * *
768058 ACGAGAAAGAAAA-GAAAAAGATAAAAAAA
1 AAGAAAAAGAAAACGAAGAAGA-AAAAAAA
768087 ATGAGAGATG
Statistics
Matches: 56, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
32 6 0.11
33 15 0.27
34 15 0.27
35 15 0.27
36 5 0.09
ACGTcount: A:0.77, C:0.03, G:0.16, T:0.03
Consensus pattern (34 bp):
AAGAAAAAGAAAACGAAGAAGAAAAAAAATGAAA
Found at i:768044 original size:21 final size:22
Alignment explanation
Indices: 768020--768078 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 22
768010 GAAAAAAAAT
768020 AGAAAAAGAAAAAGAAAACGA-
1 AGAAAAAGAAAAAGAAAACGAG
*
768041 AGAAGAAA-AAAATGAAAACGAG
1 AGAA-AAAGAAAAAGAAAACGAG
*
768063 AAAGAAAAGAAAAAGA
1 AGA-AAAAGAAAAAGA
768079 TAAAAAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
21 16 0.52
22 8 0.26
23 7 0.23
ACGTcount: A:0.75, C:0.03, G:0.20, T:0.02
Consensus pattern (22 bp):
AGAAAAAGAAAAAGAAAACGAG
Found at i:768052 original size:15 final size:16
Alignment explanation
Indices: 767973--768052 Score: 83
Period size: 15 Copynumber: 4.9 Consensus size: 16
767963 ATATATTATA
767973 AGAAGAAG-AAAAAAC
1 AGAAGAAGAAAAAAAC
*
767988 ATAAGAA-AAAAAAAC
1 AGAAGAAGAAAAAAAC
*
768003 AGAAGAAGAAAAAAAAT
1 AGAAGAAG-AAAAAAAC
* *
768020 AGAAAAAGAAAAAGAAA
1 AGAAGAAGAAAAA-AAC
768037 ACGAAGAAGAAAAAAA
1 A-GAAGAAGAAAAAAA
768053 TGAAAACGAG
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
15 19 0.35
16 5 0.09
17 19 0.35
18 11 0.20
ACGTcount: A:0.78, C:0.04, G:0.16, T:0.03
Consensus pattern (16 bp):
AGAAGAAGAAAAAAAC
Found at i:768086 original size:11 final size:11
Alignment explanation
Indices: 767972--768087 Score: 71
Period size: 12 Copynumber: 10.2 Consensus size: 11
767962 TATATATTAT
767972 AAGAAGAAGAAA
1 AAGAA-AAGAAA
767984 AA-ACATAAGAAA
1 AAGA-A-AAGAAA
* *
767996 AAAAAACAGAAG
1 AAGAAA-AGAAA
768008 AAGAAAA-AAA
1 AAGAAAAGAAA
768018 ATAGAAAAAGAAA
1 A-AG-AAAAGAAA
*
768031 AAGAAAACGAAG
1 AAGAAAA-GAAA
768043 AAG-AAA-AAA
1 AAGAAAAGAAA
* *
768052 ATGAAAACGAGA
1 AAGAAAA-GAAA
768064 AAGAAAAGAAA
1 AAGAAAAGAAA
768075 AAGATAAA-AAA
1 AAGA-AAAGAAA
768086 AA
1 AA
768088 TGAGAGATGA
Statistics
Matches: 83, Mismatches: 10, Indels: 23
0.72 0.09 0.20
Matches are distributed among these distances:
9 4 0.05
10 6 0.07
11 24 0.29
12 44 0.53
13 5 0.06
ACGTcount: A:0.77, C:0.03, G:0.16, T:0.03
Consensus pattern (11 bp):
AAGAAAAGAAA
Found at i:768087 original size:17 final size:16
Alignment explanation
Indices: 767994--768087 Score: 82
Period size: 17 Copynumber: 5.6 Consensus size: 16
767984 AAACATAAGA
*
767994 AAAAAAAACAGAAGAAG
1 AAAAAAAA-AGAAAAAG
768011 AAAAAAAATAGAAAAAG
1 AAAAAAAA-AGAAAAAG
*
768028 AAAAAGAAAACGAAGAAG
1 AAAAA-AAAA-GAAAAAG
* *
768046 -AAAAAAATGAAAACG
1 AAAAAAAAAGAAAAAG
*
768061 AGAAAGAAAAGAAAAAG
1 A-AAAAAAAAGAAAAAG
768078 ATAAAAAAAA
1 A-AAAAAAAA
768088 TGAGAGATGA
Statistics
Matches: 62, Mismatches: 11, Indels: 8
0.77 0.14 0.10
Matches are distributed among these distances:
15 5 0.08
16 3 0.05
17 45 0.73
18 9 0.15
ACGTcount: A:0.78, C:0.03, G:0.16, T:0.03
Consensus pattern (16 bp):
AAAAAAAAAGAAAAAG
Found at i:775912 original size:20 final size:19
Alignment explanation
Indices: 775877--775926 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 19
775867 AAATCGCAAC
*
775877 GCGATTTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCATT
*
775896 GCGATTTTCATTTTCGCATT
1 GCGATTTT-AGTTTCGCATT
*
775916 GCGAATTTAGT
1 GCGATTTTAGT
775927 GTTGTGATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.16, C:0.16, G:0.22, T:0.46
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCATT
Found at i:775966 original size:13 final size:13
Alignment explanation
Indices: 775948--775979 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
775938 GGGTTTCTTC
775948 AACAAAAAGACAA
1 AACAAAAAGACAA
*
775961 AACAAAAAGGCAA
1 AACAAAAAGACAA
775974 AACAAA
1 AACAAA
775980 GACAAATACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.75, C:0.16, G:0.09, T:0.00
Consensus pattern (13 bp):
AACAAAAAGACAA
Found at i:776385 original size:21 final size:20
Alignment explanation
Indices: 776359--776407 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
776349 TAATATTGTG
776359 TTTCGCGTAAAAACATTTGAC
1 TTTCGCGTAAAAA-ATTTGAC
***
776380 TTTCGCGTTGCAAATTTGAC
1 TTTCGCGTAAAAAATTTGAC
776400 TTTCGCGT
1 TTTCGCGT
776408 TGCGAATTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.39
Consensus pattern (20 bp):
TTTCGCGTAAAAAATTTGAC
Found at i:776433 original size:20 final size:20
Alignment explanation
Indices: 776373--776437 Score: 94
Period size: 20 Copynumber: 3.2 Consensus size: 20
776363 GCGTAAAAAC
*
776373 ATTTGACTTTCGCGTTGCAA
1 ATTTGACTTTCGCGTTGCGA
776393 ATTTGACTTTCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
* * *
776413 ATTTGACTATCGTGTTCCGA
1 ATTTGACTTTCGCGTTGCGA
776433 ATTTG
1 ATTTG
776438 TAAAATCGCA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.42
Consensus pattern (20 bp):
ATTTGACTTTCGCGTTGCGA
Found at i:776510 original size:20 final size:20
Alignment explanation
Indices: 776461--776519 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
776451 CGATTTACAT
776461 ATTCGCGTTGCGAAATTG-A
1 ATTCGCGTTGCGAAATTGTA
** *
776480 AAACTGGGTTGCGAAATTGTA
1 ATTC-GCGTTGCGAAATTGTA
*
776501 ATTCGCGTTGCGAATTTGT
1 ATTCGCGTTGCGAAATTGT
776520 TGGTCATTTT
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
19 2 0.06
20 26 0.84
21 3 0.10
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (20 bp):
ATTCGCGTTGCGAAATTGTA
Found at i:776643 original size:11 final size:12
Alignment explanation
Indices: 776616--776644 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
776606 TAACTCTAAA
776616 ATAATAAAATCC
1 ATAATAAAATCC
776628 ATAATAAAAT-C
1 ATAATAAAATCC
776639 ATAATA
1 ATAATA
776645 TTAAAGTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (12 bp):
ATAATAAAATCC
Found at i:778037 original size:23 final size:23
Alignment explanation
Indices: 778011--778059 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
778001 TTTTGAAAAC
778011 CGGACCAGATAGGCCGGTTCAAT
1 CGGACCAGATAGGCCGGTTCAAT
* *
778034 CGGACCAGATCGGCCGGTTTAAT
1 CGGACCAGATAGGCCGGTTCAAT
778057 CGG
1 CGG
778060 TTCAACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.22, C:0.27, G:0.33, T:0.18
Consensus pattern (23 bp):
CGGACCAGATAGGCCGGTTCAAT
Found at i:790483 original size:16 final size:16
Alignment explanation
Indices: 790462--790493 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
790452 CGAGGGTAGG
790462 AAATGATATTTTTCTC
1 AAATGATATTTTTCTC
790478 AAATGATATTTTTCTC
1 AAATGATATTTTTCTC
790494 TGAAGTATTT
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:0.31, C:0.12, G:0.06, T:0.50
Consensus pattern (16 bp):
AAATGATATTTTTCTC
Found at i:796190 original size:25 final size:25
Alignment explanation
Indices: 796162--796305 Score: 146
Period size: 25 Copynumber: 5.8 Consensus size: 25
796152 TTTTTTAGCA
*
796162 TTGGATTTGGTATTCATTTTCGATG
1 TTGGATTTGGTATTCATTTTCGGTG
* * * *
796187 TTGGATTTTGTATTCAGTATCGGCG
1 TTGGATTTGGTATTCATTTTCGGTG
* * * * *
796212 TTGGATTTTGTATCCAGTATCGGCG
1 TTGGATTTGGTATTCATTTTCGGTG
* *
796237 TCGGATTTGGTATCCATTTAT-GGTG
1 TTGGATTTGGTATTCATTT-TCGGTG
*
796262 TTCGATTTGGTATTCATTTTCGGTG
1 TTGGATTTGGTATTCATTTTCGGTG
*
796287 TTGGACTTGGTATTCATTT
1 TTGGATTTGGTATTCATTT
796306 CTGACGTTGG
Statistics
Matches: 101, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
24 1 0.01
25 99 0.98
26 1 0.01
ACGTcount: A:0.15, C:0.12, G:0.26, T:0.47
Consensus pattern (25 bp):
TTGGATTTGGTATTCATTTTCGGTG
Found at i:801812 original size:20 final size:20
Alignment explanation
Indices: 801775--801813 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
801765 ACAACAGTGC
*
801775 TATCGATACCATAAGAATAG
1 TATCGATACCACAAGAATAG
*
801795 TATCGATACCACATGAATA
1 TATCGATACCACAAGAATA
801814 TGGTATCGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.26
Consensus pattern (20 bp):
TATCGATACCACAAGAATAG
Found at i:802576 original size:19 final size:19
Alignment explanation
Indices: 802540--802578 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
802530 ATCGATACTG
***
802540 ATCCTTTAGTATTGATACC
1 ATCCTTTAGTACCAATACC
802559 ATCCTTTAGTACCAATACC
1 ATCCTTTAGTACCAATACC
802578 A
1 A
802579 AAATTTGTCA
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:0.31, C:0.26, G:0.08, T:0.36
Consensus pattern (19 bp):
ATCCTTTAGTACCAATACC
Found at i:805989 original size:21 final size:22
Alignment explanation
Indices: 805965--806007 Score: 79
Period size: 21 Copynumber: 2.0 Consensus size: 22
805955 TTATATTGAC
805965 AGAAAATTATTAATT-ATTAAA
1 AGAAAATTATTAATTAATTAAA
805986 AGAAAATTATTAATTAATTAAA
1 AGAAAATTATTAATTAATTAAA
806008 GATTAATACA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (22 bp):
AGAAAATTATTAATTAATTAAA
Found at i:809882 original size:32 final size:30
Alignment explanation
Indices: 809846--809907 Score: 79
Period size: 32 Copynumber: 2.0 Consensus size: 30
809836 GTTGACCGGC
**
809846 TTGACCGGTCCAAACCGGTCTGACCCGACCCG
1 TTGACCGACCCAAACC-GT-TGACCCGACCCG
*
809878 TTGACCGACCCGAACCGTTGACCCGACCCG
1 TTGACCGACCCAAACCGTTGACCCGACCCG
809908 ACCGGTGATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 12 0.44
31 2 0.07
32 13 0.48
ACGTcount: A:0.19, C:0.42, G:0.24, T:0.15
Consensus pattern (30 bp):
TTGACCGACCCAAACCGTTGACCCGACCCG
Found at i:809889 original size:17 final size:18
Alignment explanation
Indices: 809867--809910 Score: 72
Period size: 17 Copynumber: 2.5 Consensus size: 18
809857 AAACCGGTCT
809867 GACCCGACCCGTTGA-CC
1 GACCCGACCCGTTGACCC
*
809884 GACCCGAACCGTTGACCC
1 GACCCGACCCGTTGACCC
809902 GACCCGACC
1 GACCCGACC
809911 GGTGATATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.20, C:0.48, G:0.23, T:0.09
Consensus pattern (18 bp):
GACCCGACCCGTTGACCC
Found at i:809966 original size:29 final size:28
Alignment explanation
Indices: 809923--810014 Score: 130
Period size: 29 Copynumber: 3.2 Consensus size: 28
809913 TGATATTCTG
* *
809923 GGAAATATTTTAAAAAAGGTGACATTTT
1 GGAATTATTTTGAAAAAGGTGACATTTT
* *
809951 GGAATTATTTTGAAAAATGTGACATTCTG
1 GGAATTATTTTGAAAAAGGTGACATT-TT
809980 GGAATTATTTTGAAAAAGGTGACATTTT
1 GGAATTATTTTGAAAAAGGTGACATTTT
810008 GGGAATT
1 -GGAATT
810015 TTTGAATGTG
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
28 24 0.43
29 32 0.57
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.37
Consensus pattern (28 bp):
GGAATTATTTTGAAAAAGGTGACATTTT
Found at i:810957 original size:31 final size:31
Alignment explanation
Indices: 810908--810988 Score: 83
Period size: 32 Copynumber: 2.6 Consensus size: 31
810898 TGTGACTCTT
* *
810908 AGGTAGGCTCTATAGCCCT-GAGATCATTCTC
1 AGGTAGGCCCTACAGCCCTAGAGAT-ATTCTC
* * *
810939 AGGTAGGCCCTACGGCCCTAAGAGGTATTCTT
1 AGGTAGGCCCTACAGCCCT-AGAGATATTCTC
*
810971 AGGTAGGCCCCACAGCCC
1 AGGTAGGCCCTACAGCCC
810989 CAAAATCTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
31 16 0.39
32 21 0.51
33 4 0.10
ACGTcount: A:0.22, C:0.30, G:0.26, T:0.22
Consensus pattern (31 bp):
AGGTAGGCCCTACAGCCCTAGAGATATTCTC
Found at i:811096 original size:25 final size:25
Alignment explanation
Indices: 811044--811096 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
811034 AGGGTAACTC
*
811044 TTTTATGAGATTTACTGCAGTATAA
1 TTTTATGAGATTTACTGCACTATAA
* *
811069 TTTTATGAGATTTACTGGACTATGA
1 TTTTATGAGATTTACTGCACTATAA
811094 TTT
1 TTT
811097 GTTTAGTGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.08, G:0.17, T:0.47
Consensus pattern (25 bp):
TTTTATGAGATTTACTGCACTATAA
Found at i:817254 original size:19 final size:19
Alignment explanation
Indices: 817227--817264 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
817217 GGTCCAAACT
*
817227 GGTCTGAACCGGTTTGACC
1 GGTCCGAACCGGTTTGACC
817246 GGTCCGAACCGGTTTGACC
1 GGTCCGAACCGGTTTGACC
817265 CGACCCGACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.16, C:0.29, G:0.32, T:0.24
Consensus pattern (19 bp):
GGTCCGAACCGGTTTGACC
Found at i:817286 original size:17 final size:17
Alignment explanation
Indices: 817259--817299 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
817249 CCGAACCGGT
817259 TTGACCCGACCCGACCAG
1 TTGA-CCGACCCGACCAG
*
817277 TTGACCGACCCGACCCG
1 TTGACCGACCCGACCAG
817294 TTGACC
1 TTGACC
817300 CAACCTGACC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.20, C:0.44, G:0.22, T:0.15
Consensus pattern (17 bp):
TTGACCGACCCGACCAG
Found at i:817311 original size:18 final size:18
Alignment explanation
Indices: 817259--817316 Score: 73
Period size: 18 Copynumber: 3.3 Consensus size: 18
817249 CCGAACCGGT
*
817259 TTGACCCGACCCGACCAG
1 TTGACCCGACCCGACCCG
817277 TTGA-CCGACCCGACCCG
1 TTGACCCGACCCGACCCG
* *
817294 TTGACCCAACCTGACCCG
1 TTGACCCGACCCGACCCG
*
817312 GTGAC
1 TTGAC
817317 ATTCTGAGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
17 16 0.46
18 19 0.54
ACGTcount: A:0.21, C:0.43, G:0.22, T:0.14
Consensus pattern (18 bp):
TTGACCCGACCCGACCCG
Found at i:817383 original size:29 final size:29
Alignment explanation
Indices: 817311--817509 Score: 219
Period size: 29 Copynumber: 6.9 Consensus size: 29
817301 AACCTGACCC
* *
817311 GGTGACATTCTGAGAAATATTTTAAAAAAA
1 GGTGACATTCTGGGAAATATTTT-GAAAAA
* *
817341 GGTGATATTTTGGGAAATATTTTGAAAAA
1 GGTGACATTCTGGGAAATATTTTGAAAAA
*
817370 GGTGACATTCTGGGAAATATTTTCAAAAAA
1 GGTGACATTCTGGGAAATATTTT-GAAAAA
817400 GGTGACA-T-TGGGAAATATTTTGAAAAAA
1 GGTGACATTCTGGGAAATATTTTG-AAAAA
* * *
817428 AGTAACATTCTGGGAATTATTTT-AAAAA
1 GGTGACATTCTGGGAAATATTTTGAAAAA
* * *
817456 TGGTGACATTCTGAGAATTATTTTGAGAAA
1 -GGTGACATTCTGGGAAATATTTTGAAAAA
*
817486 GGTGACATTTTGGG-AAT-TTTTGAA
1 GGTGACATTCTGGGAAATATTTTGAA
817510 TGTGGACTAT
Statistics
Matches: 144, Mismatches: 19, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
27 6 0.04
28 30 0.21
29 60 0.42
30 48 0.33
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.34
Consensus pattern (29 bp):
GGTGACATTCTGGGAAATATTTTGAAAAA
Found at i:817403 original size:59 final size:58
Alignment explanation
Indices: 817311--817501 Score: 242
Period size: 59 Copynumber: 3.3 Consensus size: 58
817301 AACCTGACCC
* *
817311 GGTGACATTCTGAGAAATATTTTAAAAAAAGGTGATATTTTGGGAAATATTTTGAAAAA
1 GGTGACATTCTGGGAAATATTTT-AAAAAAGGTGACATTTTGGGAAATATTTTGAAAAA
817370 GGTGACATTCTGGGAAATATTTTCAAAAAAGGTGACA--TTGGGAAATATTTTGAAAAAA
1 GGTGACATTCTGGGAAATATTTT-AAAAAAGGTGACATTTTGGGAAATATTTTG-AAAAA
* * * * * * * *
817428 AGTAACATTCTGGGAATTATTTTAAAAATGGTGACATTCTGAGAATTATTTTGAGAAA
1 GGTGACATTCTGGGAAATATTTTAAAAAAGGTGACATTTTGGGAAATATTTTGAAAAA
*
817486 GGTGACATTTTGGGAA
1 GGTGACATTCTGGGAA
817502 TTTTTGAATG
Statistics
Matches: 115, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
57 27 0.23
58 42 0.37
59 46 0.40
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.33
Consensus pattern (58 bp):
GGTGACATTCTGGGAAATATTTTAAAAAAGGTGACATTTTGGGAAATATTTTGAAAAA
Found at i:818743 original size:6 final size:6
Alignment explanation
Indices: 818719--818757 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
818709 ATTGACACCT
* *
818719 TTTGCA TTTACA TTTTGCA TATGCA TTTGCA TTTGCA TT
1 TTTGCA TTTGCA -TTTGCA TTTGCA TTTGCA TTTGCA TT
818758 GTATTAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
6 23 0.82
7 5 0.18
ACGTcount: A:0.21, C:0.15, G:0.13, T:0.51
Consensus pattern (6 bp):
TTTGCA
Found at i:818745 original size:19 final size:18
Alignment explanation
Indices: 818721--818756 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
818711 TGACACCTTT
818721 TGCATTTACATTTTGCATA
1 TGCATTTACA-TTTGCATA
*
818740 TGCATTTGCATTTGCAT
1 TGCATTTACATTTGCAT
818757 TGTATTAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.22, C:0.17, G:0.14, T:0.47
Consensus pattern (18 bp):
TGCATTTACATTTGCATA
Found at i:823025 original size:135 final size:136
Alignment explanation
Indices: 822744--823228 Score: 607
Period size: 135 Copynumber: 3.6 Consensus size: 136
822734 ATCTTTTTTT
** * * *
822744 CTAGATTTGATCTTCCCTGATGAACAGTAGAATGAATCAACATTCCCAGATCTGATTTTCCCTCA
1 CTAGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACATTTCCAGATCTGATTTTCCCTCA
*
822809 AGAAGCAGCT-GAACATATCCCTCTTTTTTTTCCAGATTTGATATTCCCTGAGGAACAGTGGAAC
66 AGAAGCAG-TGGAACAAATCCCTC-TTTTTTTCCAGATTTGATATTCCCTGAGGAACAGTGGAAC
822873 AAGTCTAC
129 AAGTCTAC
* * ** * * * * *
822881 CTTGATTCAATATTCCCCAAAAAACAGTGGAATAAATCAACATTTCTAGATATGATTTTCCCTTA
1 CTAGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACATTTCCAGATCTGATTTTCCCTCA
** *
822946 AGAAATAGTGGAACAAATCCCTC-TTTTTTCCAGATTTGATCTTCCCTGAGGAACAGTGGAACAA
66 AGAAGCAGTGGAACAAATCCCTCTTTTTTTCCAGATTTGATATTCCCTGAGGAACAGTGGAACAA
823010 GTCTAC
131 GTCTAC
* * * *
823016 CTCGATTCAATCTTCCCTGAAGAACAGTGGATTGAATCAACATTTCTAGATCTGATTTTCCCTTA
1 CTAGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACATTTCCAGATCTGATTTTCCCTCA
* * ** * * * * * *
823081 AGAAGCAATGAAACAGTTCCTTCTTTTTTTCCAGATTTGATTTTCCCTTAGGAACAATAGAGCAA
66 AGAAGCAGTGGAACAAATCCCTCTTTTTTTCCAGATTTGATATTCCCTGAGGAACAGTGGAACAA
823146 GTCTAC
131 GTCTAC
* * *
823152 CTAAATTCAATCTTCCCTGAAGAATAGTGGAATGAATCAA-ATTTCCAGATCTAATTTTCCCTCA
1 CTAGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACATTTCCAGATCTGATTTTCCCTCA
*
823216 AGAAGTAGTGGAA
66 AGAAGCAGTGGAA
823229 TAGTCCTTTT
Statistics
Matches: 298, Mismatches: 48, Indels: 6
0.85 0.14 0.02
Matches are distributed among these distances:
135 150 0.50
136 79 0.27
137 69 0.23
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (136 bp):
CTAGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACATTTCCAGATCTGATTTTCCCTCA
AGAAGCAGTGGAACAAATCCCTCTTTTTTTCCAGATTTGATATTCCCTGAGGAACAGTGGAACAA
GTCTAC
Found at i:823484 original size:3 final size:3
Alignment explanation
Indices: 823476--823505 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
823466 TTTTTGTCCC
823476 ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
823506 ATACAGGCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:824828 original size:13 final size:13
Alignment explanation
Indices: 824810--824835 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
824800 AAATTTTTGA
824810 TTTTTGATTTCAT
1 TTTTTGATTTCAT
824823 TTTTTGATTTCAT
1 TTTTTGATTTCAT
824836 AATGTTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.08, T:0.69
Consensus pattern (13 bp):
TTTTTGATTTCAT
Found at i:824967 original size:21 final size:19
Alignment explanation
Indices: 824922--824967 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
824912 TCTGGTCCCA
*
824922 AATATTATGGTTTATTTCT
1 AATATTATGCTTTATTTCT
*
824941 ATTATTAATGCTTTATTGTCT
1 AATATT-ATGCTTTATT-TCT
824962 AATATT
1 AATATT
824968 TACATTTCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 5 0.23
20 9 0.41
21 8 0.36
ACGTcount: A:0.28, C:0.07, G:0.09, T:0.57
Consensus pattern (19 bp):
AATATTATGCTTTATTTCT
Found at i:837420 original size:34 final size:34
Alignment explanation
Indices: 837377--837445 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
837367 ACGTCCATTG
837377 AATCTAATGTGACTTCCACCAACAAATGCTTATC
1 AATCTAATGTGACTTCCACCAACAAATGCTTATC
*
837411 AATCTAATGTGACTTCCACCAATAAATGCTTATC
1 AATCTAATGTGACTTCCACCAACAAATGCTTATC
837445 A
1 A
837446 GTCTGAATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.36, C:0.25, G:0.09, T:0.30
Consensus pattern (34 bp):
AATCTAATGTGACTTCCACCAACAAATGCTTATC
Found at i:851003 original size:40 final size:40
Alignment explanation
Indices: 850948--851033 Score: 154
Period size: 40 Copynumber: 2.1 Consensus size: 40
850938 TGAAAAATGG
*
850948 CTTTTAGGCAAACAATAACCTGAAAGACCCATAACACTGT
1 CTTTTAGGCAAACAATAACCTGAAAGACCCATAACACTAT
*
850988 CTTTTAGGCAAACAATAACCTGAAAGACCTATAACACTAT
1 CTTTTAGGCAAACAATAACCTGAAAGACCCATAACACTAT
851028 CTTTTA
1 CTTTTA
851034 CGAAGTTATC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.40, C:0.23, G:0.10, T:0.27
Consensus pattern (40 bp):
CTTTTAGGCAAACAATAACCTGAAAGACCCATAACACTAT
Found at i:853490 original size:24 final size:24
Alignment explanation
Indices: 853458--853506 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
853448 AGTCTTCCTG
853458 ATGATGTATAAAACATCTATGTAC
1 ATGATGTATAAAACATCTATGTAC
*
853482 ATGATGTATAAAACATTTATGTAC
1 ATGATGTATAAAACATCTATGTAC
853506 A
1 A
853507 ATGTCATGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (24 bp):
ATGATGTATAAAACATCTATGTAC
Found at i:854605 original size:31 final size:31
Alignment explanation
Indices: 854570--854632 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
854560 AATTACCATT
854570 AAACCAAGACACCTAAACCTTATCATCTTCC
1 AAACCAAGACACCTAAACCTTATCATCTTCC
* *
854601 AAACCAAGACACCTCAACTTTATCATCTTCC
1 AAACCAAGACACCTAAACCTTATCATCTTCC
854632 A
1 A
854633 TAAGTCAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.35, G:0.03, T:0.24
Consensus pattern (31 bp):
AAACCAAGACACCTAAACCTTATCATCTTCC
Found at i:861968 original size:31 final size:31
Alignment explanation
Indices: 861933--861995 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
861923 AATTTCCATT
* *
861933 AAACCAAGACACCAAAATCTTATTATCTTCC
1 AAACCAAGACACCAAAACCTTATCATCTTCC
**
861964 AAACCAAGACACCTCAACCTTATCATCTTCC
1 AAACCAAGACACCAAAACCTTATCATCTTCC
861995 A
1 A
861996 TAAGTCAAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.40, C:0.33, G:0.03, T:0.24
Consensus pattern (31 bp):
AAACCAAGACACCAAAACCTTATCATCTTCC
Found at i:872964 original size:19 final size:20
Alignment explanation
Indices: 872940--872980 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
872930 CACATAACCC
872940 TAGCCACC-ACCACCTTCCT
1 TAGCCACCTACCACCTTCCT
* *
872959 TAGCCACCTATCATCTTCCT
1 TAGCCACCTACCACCTTCCT
872979 TA
1 TA
872981 TTAGAGGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.22, C:0.44, G:0.05, T:0.29
Consensus pattern (20 bp):
TAGCCACCTACCACCTTCCT
Found at i:874184 original size:22 final size:23
Alignment explanation
Indices: 874144--874186 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
874134 CAAGATCATT
874144 TTTTCAAGTTATGTTTCAATTTG
1 TTTTCAAGTTATGTTTCAATTTG
*
874167 TTTTCAATTTA-GTTTCAATT
1 TTTTCAAGTTATGTTTCAATT
874187 ACTTCTTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.23, C:0.09, G:0.09, T:0.58
Consensus pattern (23 bp):
TTTTCAAGTTATGTTTCAATTTG
Found at i:881495 original size:2 final size:2
Alignment explanation
Indices: 881490--881532 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
881480 TATACACCAA
881490 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
881532 A
1 A
881533 CACTATATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:885458 original size:9 final size:9
Alignment explanation
Indices: 885444--885493 Score: 52
Period size: 8 Copynumber: 5.8 Consensus size: 9
885434 ATTCAATGTG
885444 TTATTTTAT
1 TTATTTTAT
885453 TTATTTTA-
1 TTATTTTAT
* *
885461 ATATTTT-G
1 TTATTTTAT
885469 TTATTTTAGT
1 TTATTTTA-T
885479 TTA-TTTAT
1 TTATTTTAT
885487 TTATTTT
1 TTATTTT
885494 TCATATTATG
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
8 16 0.47
9 15 0.44
10 3 0.09
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.74
Consensus pattern (9 bp):
TTATTTTAT
Found at i:885521 original size:20 final size:20
Alignment explanation
Indices: 885498--885536 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
885488 TATTTTTCAT
*
885498 ATTATGTAGATATGTCATTC
1 ATTATATAGATATGTCATTC
*
885518 ATTATATATATATGTCATT
1 ATTATATAGATATGTCATT
885537 TACTATTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.49
Consensus pattern (20 bp):
ATTATATAGATATGTCATTC
Found at i:885936 original size:25 final size:26
Alignment explanation
Indices: 885888--885936 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
885878 ATACCAATTT
*
885888 TTGTCTTTAAAATGATTTTCTTAAAA
1 TTGTCTTTAAAAAGATTTTCTTAAAA
885914 TTGT-TTTAAAAAGATATTT-TTAA
1 TTGTCTTTAAAAAGAT-TTTCTTAA
885937 GTATTCGATC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.37, C:0.04, G:0.08, T:0.51
Consensus pattern (26 bp):
TTGTCTTTAAAAAGATTTTCTTAAAA
Found at i:886410 original size:50 final size:50
Alignment explanation
Indices: 886294--886413 Score: 152
Period size: 51 Copynumber: 2.4 Consensus size: 50
886284 TAAAGCGCGC
* **
886294 CCCCTGTACCGCGCTATACGATGATTTGGCGCCACGTGGGGTATAGAGCG
1 CCCCTGCACCGCGCTATACGATGAGCTGGCGCCACGTGGGGTATAGAGCG
* * *
886344 CCCCTTGCACCGCGCTATACGGTGAGCTGGTGCCACGT-GGGTATAGCGCAG
1 CCCC-TGCACCGCGCTATACGATGAGCTGGCGCCACGTGGGGTATAGAGC-G
*
886395 CCCCTGCAGCGCGCTATAC
1 CCCCTGCACCGCGCTATAC
886414 CTGTATATCT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
50 28 0.46
51 33 0.54
ACGTcount: A:0.17, C:0.33, G:0.31, T:0.20
Consensus pattern (50 bp):
CCCCTGCACCGCGCTATACGATGAGCTGGCGCCACGTGGGGTATAGAGCG
Found at i:886566 original size:12 final size:10
Alignment explanation
Indices: 886524--886565 Score: 59
Period size: 10 Copynumber: 4.2 Consensus size: 10
886514 TTTTATCACA
886524 TCAAATTCTC
1 TCAAATTCTC
886534 TCAAATTCTC
1 TCAAATTCTC
886544 T-AAATTTCTC
1 TCAAA-TTCTC
*
886554 TCAAATACTC
1 TCAAATTCTC
886564 TC
1 TC
886566 TTTTTAAGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 3 0.10
10 23 0.79
11 3 0.10
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.40
Consensus pattern (10 bp):
TCAAATTCTC
Found at i:886614 original size:13 final size:14
Alignment explanation
Indices: 886586--886614 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
886576 ATATTTTATA
886586 ATGTTTTTACTATT
1 ATGTTTTTACTATT
886600 ATGTTTTTACT-TT
1 ATGTTTTTACTATT
886613 AT
1 AT
886615 TTAATAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (14 bp):
ATGTTTTTACTATT
Found at i:886821 original size:110 final size:111
Alignment explanation
Indices: 886689--886909 Score: 354
Period size: 110 Copynumber: 2.0 Consensus size: 111
886679 TAGAAATCAT
* *
886689 ATATCTCTATACTTTACTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTACTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
* * * *
886754 TATTTAGTT-ATTTATTTAATACATGATTATTATATTAATAATTAA
66 TAATTAGTTGATTCATTTAATACATGATTATTAGATTAAGAATTAA
* *
886799 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTATTAA
1 ATATCTCGACACTTTACTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
*
886864 TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTCATTTAATACATGATTATTAGATTAAGAATTAA
886910 TTTTTGTAAT
Statistics
Matches: 101, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
110 69 0.68
111 32 0.32
ACGTcount: A:0.37, C:0.08, G:0.09, T:0.47
Consensus pattern (111 bp):
ATATCTCGACACTTTACTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTCATTTAATACATGATTATTAGATTAAGAATTAA
Found at i:888438 original size:18 final size:18
Alignment explanation
Indices: 888415--888450 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
888405 CCAGCAGCCA
888415 CCGCAGCCATATATGATG
1 CCGCAGCCATATATGATG
888433 CCGCAGCCATATATGATG
1 CCGCAGCCATATATGATG
888451 TCGCCATCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (18 bp):
CCGCAGCCATATATGATG
Found at i:889023 original size:26 final size:24
Alignment explanation
Indices: 888951--889023 Score: 62
Period size: 25 Copynumber: 3.0 Consensus size: 24
888941 TTATATTTGT
888951 ATTTACTTTATTTTGTTAAATTGTA
1 ATTTACTTTATTTTGTTAAATT-TA
* *
888976 ATTT-TTTTATTATT-TCT-CATTTA
1 ATTTACTTTATT-TTGT-TAAATTTA
888999 ATACTTACTTTATTTTGTTAAATTT
1 AT--TTACTTTATTTTGTTAAATTT
889024 GTTGGACTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 13
0.69 0.07 0.24
Matches are distributed among these distances:
23 4 0.11
24 10 0.27
25 12 0.32
26 11 0.30
ACGTcount: A:0.26, C:0.07, G:0.04, T:0.63
Consensus pattern (24 bp):
ATTTACTTTATTTTGTTAAATTTA
Found at i:892693 original size:47 final size:49
Alignment explanation
Indices: 892586--892694 Score: 152
Period size: 51 Copynumber: 2.2 Consensus size: 49
892576 TTATACAAAA
* *
892586 CGCGATACCTGCCCCGCGCTATATAAAATTATGTCAGGAGTAAAGGTATGT
1 CGCGGTACCTGCCCCACGCTATATAAAATTATGTC--GAGTAAAGGTATGT
892637 CGCGGTACCTGCCCCACGCTATATAAAATTATG-C-AGTAAAGGTATAG-
1 CGCGGTACCTGCCCCACGCTATATAAAATTATGTCGAGTAAAGGTAT-GT
892684 CGCGGTACCTG
1 CGCGGTACCTG
892695 ATCCGCGCTA
Statistics
Matches: 55, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
47 22 0.40
48 1 0.02
50 1 0.02
51 31 0.56
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (49 bp):
CGCGGTACCTGCCCCACGCTATATAAAATTATGTCGAGTAAAGGTATGT
Found at i:892704 original size:47 final size:49
Alignment explanation
Indices: 892586--892706 Score: 149
Period size: 47 Copynumber: 2.5 Consensus size: 49
892576 TTATACAAAA
* *
892586 CGCGATACCTGCCCCGCGCTATATAAAATTATGTCAGGAGTAAAGGTATGT
1 CGCGGTACCTGACCCGCGCTATATAAAATTATGTC--GAGTAAAGGTATGT
* *
892637 CGCGGTACCTGCCCCACGCTATATAAAATTATG-C-AGTAAAGGTATAG-
1 CGCGGTACCTGACCCGCGCTATATAAAATTATGTCGAGTAAAGGTAT-GT
*
892684 CGCGGTACCTGATCCGCGCTATA
1 CGCGGTACCTGACCCGCGCTATA
892707 CCCCTACGTG
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
47 31 0.48
48 1 0.02
50 1 0.02
51 31 0.48
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.24
Consensus pattern (49 bp):
CGCGGTACCTGACCCGCGCTATATAAAATTATGTCGAGTAAAGGTATGT
Found at i:892797 original size:50 final size:51
Alignment explanation
Indices: 892730--892842 Score: 140
Period size: 51 Copynumber: 2.2 Consensus size: 51
892720 TATAGCACGC
* * **
892730 TGCAGGGGCCGCGCTATA-CCCACATGGCG-CTAGCTCACCGTATAACGCGG
1 TGCAGGGGGCGCACTATACCCCACATGGCGTC-AAATCACCGTATAACGCGG
* * *
892780 TGCAGGGGGCGCACTATACCCCACGTGGCGTCAAATCATCGTATAGCGCGG
1 TGCAGGGGGCGCACTATACCCCACATGGCGTCAAATCACCGTATAACGCGG
892831 TGCAGGGGGCGC
1 TGCAGGGGGCGC
892843 GCTTTACTGC
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
50 16 0.30
51 37 0.69
52 1 0.02
ACGTcount: A:0.19, C:0.31, G:0.34, T:0.16
Consensus pattern (51 bp):
TGCAGGGGGCGCACTATACCCCACATGGCGTCAAATCACCGTATAACGCGG
Found at i:901301 original size:42 final size:42
Alignment explanation
Indices: 901255--901336 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
901245 TTCTTTTTTC
* * *
901255 TTTTTTCAATTTAGGGCGCCCTTTCGGGTTTTCACCCTAAAT
1 TTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAAAT
** *
901297 TTTTTTTTACTTAGGACGCCCTCTCGGGTTTTCATCCTAA
1 TTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAA
901337 GCGAAATATT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.16, C:0.24, G:0.16, T:0.44
Consensus pattern (42 bp):
TTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAAAT
Found at i:904173 original size:21 final size:21
Alignment explanation
Indices: 904149--904208 Score: 102
Period size: 21 Copynumber: 2.9 Consensus size: 21
904139 ATTTTACACT
904149 GAGTGTACCGATACACCTTGA
1 GAGTGTACCGATACACCTTGA
*
904170 GAGTGTACCGCTACACCTTGA
1 GAGTGTACCGATACACCTTGA
*
904191 GAGTGTACCGATATACCT
1 GAGTGTACCGATACACCT
904209 ACGCTCCCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (21 bp):
GAGTGTACCGATACACCTTGA
Found at i:909893 original size:21 final size:20
Alignment explanation
Indices: 909869--909926 Score: 64
Period size: 23 Copynumber: 2.7 Consensus size: 20
909859 ATCCTCTCTA
909869 TGTATCGATACACTATGAATG
1 TGTATCGATACACT-TGAATG
909890 TGTA-CTGATACATTCCTTGAATG
1 TGTATC-GATACA---CTTGAATG
909913 TGTATCGATACACT
1 TGTATCGATACACT
909927 CACAGTGTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
20 3 0.09
21 10 0.31
23 16 0.50
24 3 0.09
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.36
Consensus pattern (20 bp):
TGTATCGATACACTTGAATG
Found at i:918224 original size:20 final size:20
Alignment explanation
Indices: 918195--918237 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
918185 AAGGTAATTA
918195 TTCAAATTAAATTTTTAAAT
1 TTCAAATTAAATTTTTAAAT
* *
918215 TTCAATTTAAATTTTTAATT
1 TTCAAATTAAATTTTTAAAT
918235 TTC
1 TTC
918238 GCTATTAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (20 bp):
TTCAAATTAAATTTTTAAAT
Found at i:918483 original size:3 final size:3
Alignment explanation
Indices: 918477--918529 Score: 56
Period size: 3 Copynumber: 17.7 Consensus size: 3
918467 TTTTTTTTAA
* *
918477 TAT TAT TAT TAA TA- TAT TAT TAT AAT T-T TATT TAT TAT TAT ATAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT -TAT
918522 TAT TAT TA
1 TAT TAT TA
918530 AATAATTACA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
2 4 0.09
3 33 0.77
4 6 0.14
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:918508 original size:25 final size:27
Alignment explanation
Indices: 918474--918527 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
918464 CCATTTTTTT
918474 TAATATTA-TTATTA-ATATATTATTA
1 TAATATTATTTATTATATATATTATTA
*
918499 TAATTTTATTTATTATTATATATTATTA
1 TAATATTATTTATTA-TATATATTATTA
918527 T
1 T
918528 TAAATAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 7 0.28
26 6 0.24
28 12 0.48
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (27 bp):
TAATATTATTTATTATATATATTATTA
Found at i:918522 original size:10 final size:10
Alignment explanation
Indices: 918480--918527 Score: 64
Period size: 10 Copynumber: 4.9 Consensus size: 10
918470 TTTTTAATAT
918480 TATTATTAATA
1 TATTATT-ATA
918491 TATTATTATA
1 TATTATTATA
*
918501 -ATT-TTATT
1 TATTATTATA
918509 TATTATTATA
1 TATTATTATA
918519 TATTATTAT
1 TATTATTAT
918528 TAAATAATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
8 4 0.12
9 6 0.18
10 16 0.48
11 7 0.21
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TATTATTATA
Found at i:920662 original size:28 final size:28
Alignment explanation
Indices: 920627--920693 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 28
920617 TTTAATTTTT
*
920627 TATT-TTTTATTTTTTTAAAAAAA-TTA
1 TATTATTTTATTATTTTAAAAAAATTTA
* * *
920653 TATATATTTT-TTATTTTCATAATATTTA
1 TAT-TATTTTATTATTTTAAAAAAATTTA
920681 TATTATTTTATTA
1 TATTATTTTATTA
920694 ATATTTTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
26 3 0.09
27 17 0.52
28 13 0.39
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (28 bp):
TATTATTTTATTATTTTAAAAAAATTTA
Found at i:920677 original size:20 final size:20
Alignment explanation
Indices: 920661--920710 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
920651 TATATATATT
920661 TTTTATTTTCA-TAATATTTA
1 TTTTATTTT-ATTAATATTTA
*
920681 TATTATTTTATTAATATTTTA
1 TTTTATTTTATTAATA-TTTA
920702 TTTTATTTT
1 TTTTATTTT
920711 TCAAGCATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 1 0.04
20 13 0.50
21 12 0.46
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTTATTTTATTAATATTTA
Found at i:924023 original size:15 final size:15
Alignment explanation
Indices: 924003--924034 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
923993 GATCAATACC
924003 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
924018 TTTTGCATACATTCA
1 TTTTGCATACATGCA
924033 TT
1 TT
924035 ATTCATTGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:931190 original size:489 final size:489
Alignment explanation
Indices: 930323--931790 Score: 2729
Period size: 489 Copynumber: 3.0 Consensus size: 489
930313 TATTACAGAT
*
930323 AATGCTTTGAACCTGAACAACAAAATGATGACCGAACTTTGTGCACAATTTAAGATCAAACATGA
1 AATGCTTTGAACCTGAACAACAAAATGATGACCGAACTTTGTGCACAATTTAAGATCAAACATGC
930388 AAACTCAGTGGCATATCGTCCAAAGATGAATGGGGCAGTTGAAGCGGCAAATAAGAACATCAAGA
66 AAACTCAGTGGCATATCGTCCAAAGATGAATGGGGCAGTTGAAGCGGCAAATAAGAACATCAAGA
*
930453 GAATCATTACAAAGACTACTGAAACTTACAAAGATTGGCACGAGAAGTTACATTTTGCTTTATAT
131 GAATCATTACAAAGACTACTGAAACTTACAAAGATTGGCACGAGAAGTTACCTTTTGCTTTATAT
*
930518 GCATACTGAACTACTGTACGAACATCTACTGGTACAACGCCTTTTTCTTTAGTCTATGGGATGGA
196 GCATACTGAACTACTGTGCGAACATCTACTGGTACAACGCCTTTTTCTTTAGTCTATGGGATGGA
* * *
930583 AGCAATCTTACCAATTGAATTTAAGATTCCATCATTACGAATCTTGAGAGAGGTAAAATTGTATG
261 AGCAGTCTTACCAATTGAAGTTGAGATTCCATCATTACGAATCTTGAGAGAGGTAAAATTGTATG
* *
930648 AGTCTGAATGGATCCAAGCTTGATTTGATCAATTGAACCTTATTGAGGAGAAAAGATTGGAAGCT
326 AGTCTGAATGGATCCAAGCTCGATTTGATCAATTGAACCTTATTGAGGAGAAAAGATTGAAAGCT
930713 ATTTGCCATGGACAGATGTATCAGAAACGGATGATGAAGTCTCATGACAAGAAAGTACATCCAAG
391 ATTTGCCATGGACAGATGTATCAGAAACGGATGATGAAGTCTCATGACAAGAAAGTACATCCAAG
930778 AGAATTCCAAGAGGGTGATCTAGTGCTGAAAAAG
456 AGAATTCCAAGAGGGTGATCTAGTGCTGAAAAAG
930812 AATGCTTTGAACCTGAACAACAAAATGATGACCGAACTTTGTGCACAATTTAAGATCAAACATGC
1 AATGCTTTGAACCTGAACAACAAAATGATGACCGAACTTTGTGCACAATTTAAGATCAAACATGC
930877 AAACTCAGTGGCATATCGTCCAAAGATGAATGGGGCAGTTGAAGCGGCAAATAAGAACATCAAGA
66 AAACTCAGTGGCATATCGTCCAAAGATGAATGGGGCAGTTGAAGCGGCAAATAAGAACATCAAGA
*
930942 GAATAATTACAAAGACTACTGAAACTTACAAAGATTGGCACGAGAAGTTACCTTTTGCTTTATAT
131 GAATCATTACAAAGACTACTGAAACTTACAAAGATTGGCACGAGAAGTTACCTTTTGCTTTATAT
931007 GCATACTGAACTACTGTGCGAACATCTACTGGTACAACGCCTTTTTCTTTAGTCTATGGGATGGA
196 GCATACTGAACTACTGTGCGAACATCTACTGGTACAACGCCTTTTTCTTTAGTCTATGGGATGGA
*
931072 AGTAGTCTTACCAATTGAAGTTGAGATTCCATCATTACGAATCTTGAGAGAGGTAAAATTGTATG
261 AGCAGTCTTACCAATTGAAGTTGAGATTCCATCATTACGAATCTTGAGAGAGGTAAAATTGTATG
931137 AGTCTGAATGGATCCAAGCTCGATTTGATCAATTGAACCTTATTGAGGAGAAAAGATTGAAAGCT
326 AGTCTGAATGGATCCAAGCTCGATTTGATCAATTGAACCTTATTGAGGAGAAAAGATTGAAAGCT
931202 ATTTGCCATGGACAGATGTATCAGAAACGGATGATGAAGTCTCATGACAAGAAAGTACATCCAAG
391 ATTTGCCATGGACAGATGTATCAGAAACGGATGATGAAGTCTCATGACAAGAAAGTACATCCAAG
931267 AGAATTCCAAGAGGGTGATCTAGTGCTGAAAAAG
456 AGAATTCCAAGAGGGTGATCTAGTGCTGAAAAAG
* * *
931301 AATGCTTTGAACCTGAACAACAAAATGATGACTGAACTTTGTGCACAATTTAATATCAAACATAC
1 AATGCTTTGAACCTGAACAACAAAATGATGACCGAACTTTGTGCACAATTTAAGATCAAACATGC
931366 AAACTCAGTGGCATATCGTCCAAAGATGAATGGGGCAGTTGAAGCGGCAAATAAGAACATCAAGA
66 AAACTCAGTGGCATATCGTCCAAAGATGAATGGGGCAGTTGAAGCGGCAAATAAGAACATCAAGA
931431 GAATCATTACAAAGACTACTGAAACTTACAAAGATTGGCACGAGAAGTTACCTTTTGCTTTATAT
131 GAATCATTACAAAGACTACTGAAACTTACAAAGATTGGCACGAGAAGTTACCTTTTGCTTTATAT
* * *
931496 GCACACTGAACTACTGTGCGAACATCTACTGGTACAACGCCTTTTTCTTTAGTTTATGGGATGCA
196 GCATACTGAACTACTGTGCGAACATCTACTGGTACAACGCCTTTTTCTTTAGTCTATGGGATGGA
* *
931561 AGCAGTCTTACCAATTGAAGTTGAGATTCGATCATTACGAATCTTGAGAGAGGTAAAATTGGATG
261 AGCAGTCTTACCAATTGAAGTTGAGATTCCATCATTACGAATCTTGAGAGAGGTAAAATTGTATG
* * *
931626 AGTCTGAATTGATCTAAGCTCGATTTGATCAATTGAACCTTATTGAGGAGAAAATATTGAAAGCT
326 AGTCTGAATGGATCCAAGCTCGATTTGATCAATTGAACCTTATTGAGGAGAAAAGATTGAAAGCT
*
931691 ATTTGCCATGGATAGATGTATCAGAAACGGATGATGAAGTCTCATGACAAGAAAGTACATCCAAG
391 ATTTGCCATGGACAGATGTATCAGAAACGGATGATGAAGTCTCATGACAAGAAAGTACATCCAAG
*
931756 AGAATTCCAAGAGGGTAATCTAGTGCTGAAAAAG
456 AGAATTCCAAGAGGGTGATCTAGTGCTGAAAAAG
931790 A
1 A
931791 CCTTGCATAT
Statistics
Matches: 954, Mismatches: 25, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
489 954 1.00
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.26
Consensus pattern (489 bp):
AATGCTTTGAACCTGAACAACAAAATGATGACCGAACTTTGTGCACAATTTAAGATCAAACATGC
AAACTCAGTGGCATATCGTCCAAAGATGAATGGGGCAGTTGAAGCGGCAAATAAGAACATCAAGA
GAATCATTACAAAGACTACTGAAACTTACAAAGATTGGCACGAGAAGTTACCTTTTGCTTTATAT
GCATACTGAACTACTGTGCGAACATCTACTGGTACAACGCCTTTTTCTTTAGTCTATGGGATGGA
AGCAGTCTTACCAATTGAAGTTGAGATTCCATCATTACGAATCTTGAGAGAGGTAAAATTGTATG
AGTCTGAATGGATCCAAGCTCGATTTGATCAATTGAACCTTATTGAGGAGAAAAGATTGAAAGCT
ATTTGCCATGGACAGATGTATCAGAAACGGATGATGAAGTCTCATGACAAGAAAGTACATCCAAG
AGAATTCCAAGAGGGTGATCTAGTGCTGAAAAAG
Found at i:931988 original size:17 final size:18
Alignment explanation
Indices: 931968--932007 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
931958 AGGAAAAAAT
*
931968 GAAATAGAAAAAAAAG-A
1 GAAAAAGAAAAAAAAGAA
931985 GAAAAAGAAAAAAAAGAA
1 GAAAAAGAAAAAAAAGAA
932003 GAAAA
1 GAAAA
932008 TAAAAAAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (18 bp):
GAAAAAGAAAAAAAAGAA
Found at i:932013 original size:18 final size:18
Alignment explanation
Indices: 931969--932014 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
931959 GGAAAAAATG
931969 AAATAGAAAAAAAAGAGA
1 AAATAGAAAAAAAAGAGA
931987 AAA-AGAAAAAAAAGAAGA
1 AAATAGAAAAAAAAG-AGA
932005 AAATA-AAAAA
1 AAATAGAAAAA
932015 GGAGGGTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 11 0.42
18 14 0.54
19 1 0.04
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.04
Consensus pattern (18 bp):
AAATAGAAAAAAAAGAGA
Found at i:932414 original size:18 final size:18
Alignment explanation
Indices: 932368--932418 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
932358 CATTTTCTCT
*
932368 AAATTCAATTTATTTTTTG
1 AAATTCAATTTA-TTTTCG
* *
932387 AGATTTAATTTATTTTCG
1 AAATTCAATTTATTTTCG
932405 AAATTCAATTTATT
1 AAATTCAATTTATT
932419 GTTTTATTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 17 0.63
19 10 0.37
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.55
Consensus pattern (18 bp):
AAATTCAATTTATTTTCG
Found at i:933628 original size:17 final size:17
Alignment explanation
Indices: 933606--933646 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
933596 TGAAGAAGTA
933606 AGAAGAAGTTCATAATG
1 AGAAGAAGTTCATAATG
*
933623 AGAAGAAGTTTATAATG
1 AGAAGAAGTTCATAATG
933640 AGAAGAA
1 AGAAGAA
933647 CTTGTTCAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.51, C:0.02, G:0.24, T:0.22
Consensus pattern (17 bp):
AGAAGAAGTTCATAATG
Found at i:933854 original size:113 final size:113
Alignment explanation
Indices: 933627--934678 Score: 1553
Period size: 113 Copynumber: 9.3 Consensus size: 113
933617 ATAATGAGAA
* * *
933627 GAAGTTTATAATGAGAAGAACTTGTTCAACCTTTTGCTTTAATTCATCACTTGATGGA-GAACTT
1 GAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGCTTTAATTCATCACTTGATGGATCAACTT
*
933691 TTCCAGAGAAAGTTCATAATGATAAGAACTCATCTGAAGAAGGAAGAG
66 TTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAG
*
933739 GAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTTCTTTAATTCATCACTTGATGGATCAACTT
1 GAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGCTTTAATTCATCACTTGATGGATCAACTT
933804 TTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAG
66 TTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAG
* ** * * *
933852 GAATTTCATAATAAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCATCAT
1 GAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGCTTTAATTCATCACTTGATGGATCAACTT
*
933917 TGCCAG-GTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAG
66 TTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAG
* * *
933965 GAATTTCATAATAAGAAGAACTTGTTCAACCTTTTACTTTAATTTATCACTTGATGGATCAACTT
1 GAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGCTTTAATTCATCACTTGATGGATCAACTT
934030 TTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAG
66 TTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAG
934078 GAAG-TCAATAATAAGAAGAACTTGTTCAACCTTTTGCTTTAATTCATCACTTGATGGATCAACT
1 GAAGTTC-ATAATAAGAAGAACTTGTTCAACCTTTTGCTTTAATTCATCACTTGATGGATCAACT
*
934142 TTTCCAGAGAAAGTTCATAATGAAAAGAACTCATCTGAAGAAGGAAGAG
65 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAG
* * ** * *
934191 GAAGTTCATAATAAGAAGAACTTGTTCAACATTTTTCTCAAATCCATCACTTGATGGATCAACAT
1 GAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGCTTTAATTCATCACTTGATGGATCAACTT
* * * *
934256 TGCCAG-GTAATGTTCATAATCAGAAGAACTCATCTGAAGAAGGAAGAA
66 TTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAG
* * ** * * *
934304 GATGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTTAATTCATCACCCGATGGATTAGCAT
1 GAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGCTTTAATTCATCACTTGATGGATCAACTT
*
934369 TGCCAGAGAAAGTTCATAATGAGAAGAACTCATC-GAAGAAGGAAGAG
66 TTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAG
* *
934416 GAATTTCATAATAAGAAGAACTTGTTCAACCTTTTGC--TCATGTCCATCACTTGATGGATCAAC
1 GAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGCTTTAAT-T-CATCACTTGATGGATCAAC
* * *
934479 ATTGCCA-AGTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
64 TTTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAG
* ** * * **
934529 GAAGTTCATAATGAGAAGAGTTTGTTCAACCTTTTGCTTGAATTCATTACTCAATGGATCAACTT
1 GAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGCTTTAATTCATCACTTGATGGATCAACTT
* *
934594 TTCCAGAGAAAGTTCGTAATGATAAGAACTCATCTGAAGAAGGAAGAG
66 TTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAG
*
934642 GAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
1 GAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGC
934679 ATGACTCTAT
Statistics
Matches: 851, Mismatches: 75, Indels: 27
0.89 0.08 0.03
Matches are distributed among these distances:
110 3 0.00
111 3 0.00
112 153 0.18
113 683 0.80
114 7 0.01
115 2 0.00
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (113 bp):
GAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGCTTTAATTCATCACTTGATGGATCAACTT
TTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAG
Found at i:935017 original size:3 final size:3
Alignment explanation
Indices: 935009--935061 Score: 56
Period size: 3 Copynumber: 17.7 Consensus size: 3
934999 TTGTTTTTAA
* *
935009 TAT TAT TAT TAA TA- TAT TAT TAT AAT T-T TATT TAT TAT TAT ATAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT -TAT
935054 TAT TAT TA
1 TAT TAT TA
935062 AATAATTACA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
2 4 0.09
3 33 0.77
4 6 0.14
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:935040 original size:25 final size:27
Alignment explanation
Indices: 935006--935059 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
934996 CATTTGTTTT
935006 TAATATTA-TTATTA-ATATATTATTA
1 TAATATTATTTATTATATATATTATTA
*
935031 TAATTTTATTTATTATTATATATTATTA
1 TAATATTATTTATTA-TATATATTATTA
935059 T
1 T
935060 TAAATAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 7 0.28
26 6 0.24
28 12 0.48
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (27 bp):
TAATATTATTTATTATATATATTATTA
Found at i:935054 original size:10 final size:10
Alignment explanation
Indices: 935012--935059 Score: 64
Period size: 10 Copynumber: 4.9 Consensus size: 10
935002 TTTTTAATAT
935012 TATTATTAATA
1 TATTATT-ATA
935023 TATTATTATA
1 TATTATTATA
*
935033 -ATT-TTATT
1 TATTATTATA
935041 TATTATTATA
1 TATTATTATA
935051 TATTATTAT
1 TATTATTAT
935060 TAAATAATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
8 4 0.12
9 6 0.18
10 16 0.48
11 7 0.21
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TATTATTATA
Done.