Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 22 of 325
Found at i:6840878 original size:20 final size:21
Alignment explanation
Indices: 6840848--6840889 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
6840838 AAGTTAAATT
*
6840848 AATTAATTTAATAATAATAAA
1 AATTAATTTAAAAATAATAAA
*
6840869 AATT-ATTTAAAAATATTAAA
1 AATTAATTTAAAAATAATAAA
6840889 A
1 A
6840890 TACATTAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
AATTAATTTAAAAATAATAAA
Found at i:6843646 original size:60 final size:60
Alignment explanation
Indices: 6843582--6843700 Score: 143
Period size: 60 Copynumber: 2.0 Consensus size: 60
6843572 TGGCTCTAAC
* * * *
6843582 TCTGGATCCGACTTCGGTTCTGT-CC-GTAACTCTGGCTCTGTCTCCGGTTTTGGTTCCGGT
1 TCTGGATCCGACTTCGGTT-T-TCCCTCTAACTCTGGCTCTGCCTCCGGTTCTGGATCCGGT
* * *
6843642 TCTGGATCTGGCTTCGGTTTTCCCTCTAACTTTGGCTCTGCCTCCGGTTCTGGATCCGG
1 TCTGGATCCGACTTCGGTTTTCCCTCTAACTCTGGCTCTGCCTCCGGTTCTGGATCCGG
6843701 CTCCAATTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
58 1 0.02
59 3 0.06
60 46 0.92
ACGTcount: A:0.07, C:0.29, G:0.26, T:0.38
Consensus pattern (60 bp):
TCTGGATCCGACTTCGGTTTTCCCTCTAACTCTGGCTCTGCCTCCGGTTCTGGATCCGGT
Found at i:6849242 original size:43 final size:43
Alignment explanation
Indices: 6849194--6849348 Score: 283
Period size: 43 Copynumber: 3.6 Consensus size: 43
6849184 CCGGCATTAC
*
6849194 GCCTGCTAGGCACGAAGGCCCAAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
6849237 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
6849280 GCCTACTAGGCACGAAGGCTCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
6849323 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
6849349 TAATACCAGC
Statistics
Matches: 107, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 107 1.00
ACGTcount: A:0.31, C:0.34, G:0.25, T:0.10
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:6849389 original size:38 final size:38
Alignment explanation
Indices: 6849341--6849464 Score: 167
Period size: 38 Copynumber: 3.2 Consensus size: 38
6849331 GGCACGAAGG
* * * *
6849341 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
6849379 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
** *
6849417 CCCGGATATTTTACCAGCACGAAGCCTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA
6849456 GCCCGGATA
1 -CCCGGATA
6849465 CACATCAAAT
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
38 64 0.83
39 5 0.06
40 8 0.10
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.22
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:6854969 original size:10 final size:11
Alignment explanation
Indices: 6854934--6854978 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
6854924 TAGGAAGATA
*
6854934 TTATTTTACTT
1 TTATTTTATTT
*
6854945 TTATTTTTGTTT
1 TTA-TTTTATTT
6854957 TTA-TTTATTT
1 TTATTTTATTT
6854967 TTATTTTATTT
1 TTATTTTATTT
6854978 T
1 T
6854979 ATTAAAATAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
10 9 0.31
11 11 0.38
12 9 0.31
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (11 bp):
TTATTTTATTT
Found at i:6854979 original size:16 final size:16
Alignment explanation
Indices: 6854934--6854981 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
6854924 TAGGAAGATA
6854934 TTATTTTACTTTTATTT
1 TTATTTTA-TTTTATTT
*
6854951 TTGTTTT-TATTTATTT
1 TTATTTTAT-TTTATTT
6854967 TTATTTTATTTTATT
1 TTATTTTATTTTATT
6854982 AAAATAGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 1 0.04
16 19 0.70
17 7 0.26
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (16 bp):
TTATTTTATTTTATTT
Found at i:6861202 original size:16 final size:16
Alignment explanation
Indices: 6861181--6861215 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
6861171 TTAGTTGTAA
6861181 TTAAAATAATTTAAAT
1 TTAAAATAATTTAAAT
6861197 TTAAAATAATTTAAAT
1 TTAAAATAATTTAAAT
6861213 TTA
1 TTA
6861216 TTTAAATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TTAAAATAATTTAAAT
Found at i:6861256 original size:16 final size:17
Alignment explanation
Indices: 6861235--6861271 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
6861225 TTCTATTCAT
*
6861235 AATAATTTAAA-CTCGA
1 AATAATTTAAATCTCAA
6861251 AATAATTTAAATCTCAA
1 AATAATTTAAATCTCAA
6861268 AATA
1 AATA
6861272 TTATTCGCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.54, C:0.11, G:0.03, T:0.32
Consensus pattern (17 bp):
AATAATTTAAATCTCAA
Found at i:6863110 original size:24 final size:24
Alignment explanation
Indices: 6863051--6863111 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
6863041 CAGTGGGAAT
*
6863051 GGCAACAACAATGGTAACGGATAT
1 GGCAACAACAATGGTAACGGATAG
* *
6863075 GGCAACAGCAATGGTAAGGGCA-AG
1 GGCAACAACAATGGTAACGG-ATAG
*
6863099 GGCGACAACAATG
1 GGCAACAACAATG
6863112 AGGACAAACG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 30 0.97
25 1 0.03
ACGTcount: A:0.39, C:0.18, G:0.31, T:0.11
Consensus pattern (24 bp):
GGCAACAACAATGGTAACGGATAG
Found at i:6867037 original size:21 final size:19
Alignment explanation
Indices: 6866998--6867054 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 19
6866988 ATTTTTGTAT
6866998 TTTTATTTTTAAGAA-TTTA
1 TTTTATTTTTAA-AATTTTA
6867017 GTTTTATTTTTTAAAATTTTA
1 -TTTTA-TTTTTAAAATTTTA
* *
6867038 ATTTAGTTGTTAAAATT
1 TTTTA-TTTTTAAAATT
6867055 GTTAAATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 21 0.66
21 11 0.34
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (19 bp):
TTTTATTTTTAAAATTTTA
Found at i:6876585 original size:27 final size:27
Alignment explanation
Indices: 6876553--6876606 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
6876543 CCCGTGATCG
6876553 CATAACCACTGTCAACCAAAAGCCTTA
1 CATAACCACTGTCAACCAAAAGCCTTA
*
6876580 CATAACCACTGTCAACTAAAAGCCTTA
1 CATAACCACTGTCAACCAAAAGCCTTA
6876607 GTTATACTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.41, C:0.31, G:0.07, T:0.20
Consensus pattern (27 bp):
CATAACCACTGTCAACCAAAAGCCTTA
Found at i:6888227 original size:46 final size:47
Alignment explanation
Indices: 6888164--6888622 Score: 659
Period size: 46 Copynumber: 10.0 Consensus size: 47
6888154 TTCGACATGA
* * * * * *
6888164 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTTCATATCAGGT
* ** *** *
6888210 TGCCATGGTATCATTCAACCATGGTCTTATTCA-TTTCCCCGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTT-CATATCAGGT
* *
6888257 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTTCATATCAGGT
*
6888303 TGCCATGGTATCTTTCAACCATGGCCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTTCATATCAGGT
6888349 TGCCATGGTATCTTTCAACCATGGTCTTACAC-GTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTTCATATCAGGT
6888395 TGCCATGGTATCTTTCAACCATGGTCTTACAC-GTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTTCATATCAGGT
* *
6888441 TGCCATGGTATCTTTCAACCATGGTTTTACACA-TTTCATATTAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTTCATATCAGGT
6888487 TGCCATGGTATCTTTCAACCATGGTCTTACAC-GTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTTCATATCAGGT
*
6888533 TGTCATGGTATCTTTCAACCATGGTCTTACAC-GTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTTCATATCAGGT
*
6888579 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTTCATATCAG
6888623 AGAGCACACT
Statistics
Matches: 383, Mismatches: 24, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
45 3 0.01
46 338 0.88
47 42 0.11
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTTCATATCAGGT
Found at i:6897675 original size:16 final size:16
Alignment explanation
Indices: 6897631--6897678 Score: 64
Period size: 15 Copynumber: 3.1 Consensus size: 16
6897621 GTAATATAAA
*
6897631 TTCAATAGTTAA-TTT
1 TTCAATACTTAATTTT
*
6897646 TTCAACACTT-ATTTT
1 TTCAATACTTAATTTT
6897661 TTCAATACTTAATTTT
1 TTCAATACTTAATTTT
6897677 TT
1 TT
6897679 GGTTTATCAG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 1 0.04
15 20 0.71
16 7 0.25
ACGTcount: A:0.29, C:0.12, G:0.02, T:0.56
Consensus pattern (16 bp):
TTCAATACTTAATTTT
Found at i:6898148 original size:20 final size:22
Alignment explanation
Indices: 6898111--6898153 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
6898101 ACTGGTTTAA
*
6898111 ATTTAAAAACCTATATAAAAAT
1 ATTTAAAAACATATATAAAAAT
6898133 ATTT-AAAACATA-ATAAAAAT
1 ATTTAAAAACATATATAAAAAT
6898153 A
1 A
6898154 ATTATAGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
21 7 0.35
22 4 0.20
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (22 bp):
ATTTAAAAACATATATAAAAAT
Found at i:6898398 original size:25 final size:25
Alignment explanation
Indices: 6898364--6898419 Score: 112
Period size: 25 Copynumber: 2.2 Consensus size: 25
6898354 TTAATCTGTG
6898364 CGCCACGATATCTCCAATAACATTC
1 CGCCACGATATCTCCAATAACATTC
6898389 CGCCACGATATCTCCAATAACATTC
1 CGCCACGATATCTCCAATAACATTC
6898414 CGCCAC
1 CGCCAC
6898420 TTTTCCATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.30, C:0.39, G:0.09, T:0.21
Consensus pattern (25 bp):
CGCCACGATATCTCCAATAACATTC
Found at i:6898724 original size:15 final size:15
Alignment explanation
Indices: 6898684--6898724 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
6898674 GGCGCCCAAA
*
6898684 GCCGAGAAGAAGCCT
1 GCCGAGAAGAAGCCG
*
6898699 GCTGAGAAGAAGCCG
1 GCCGAGAAGAAGCCG
*
6898714 GCCGAGGAGAA
1 GCCGAGAAGAA
6898725 AAAGACTACC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.34, C:0.22, G:0.39, T:0.05
Consensus pattern (15 bp):
GCCGAGAAGAAGCCG
Found at i:6899815 original size:178 final size:180
Alignment explanation
Indices: 6899516--6899875 Score: 670
Period size: 178 Copynumber: 2.0 Consensus size: 180
6899506 TTCTTGATTG
*
6899516 TTGTGCTGTACAAGCAAAGAATGATTGGGAGGAGGTACATTACTTAAAAGCTTATTATCTTGAAA
1 TTGTGCTGTACAAGCAAAGAATGATTGGGAGGAGGCACATTACTTAAAAGCTTATTATCTTGAAA
*
6899581 ACCTTATAAAGATTCAAAATGTTCATGTGAGGTTTATTTACAGAATCATTGTATGAGCAGATATG
66 ACCTTATAAAGATTCAAAATGTTCATGTGAGGTTTATTTACAGAATCATTGTATGAGCAGATATA
6899646 TACACCTATACGGAC-AT-TATATATATTATCTTTATAAGTTGTCATCTT
131 TACACCTATACGGACTATATATATATATTATCTTTATAAGTTGTCATCTT
6899694 TTGTGCTGTACAAGCAAAGAATGATTGGGAGGAGGCACATTACTTAAAAGCTTATTATCTTGAAA
1 TTGTGCTGTACAAGCAAAGAATGATTGGGAGGAGGCACATTACTTAAAAGCTTATTATCTTGAAA
6899759 ACCTTATAAAGATTCAAAATGTTCATGTGAGGTTTATTTACAGAATCATTGTATGAGCAGATATA
66 ACCTTATAAAGATTCAAAATGTTCATGTGAGGTTTATTTACAGAATCATTGTATGAGCAGATATA
6899824 TACACCTATACGGACATTATATATATATATTATCTTTATAAGTTGTCATCTT
131 TACACCTATACGGAC--TATATATATATATTATCTTTATAAGTTGTCATCTT
6899876 ACTTTGAAAC
Statistics
Matches: 176, Mismatches: 2, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
178 143 0.81
181 2 0.01
182 31 0.18
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (180 bp):
TTGTGCTGTACAAGCAAAGAATGATTGGGAGGAGGCACATTACTTAAAAGCTTATTATCTTGAAA
ACCTTATAAAGATTCAAAATGTTCATGTGAGGTTTATTTACAGAATCATTGTATGAGCAGATATA
TACACCTATACGGACTATATATATATATTATCTTTATAAGTTGTCATCTT
Found at i:6903094 original size:7 final size:7
Alignment explanation
Indices: 6903082--6903111 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
6903072 CTTAAATTCT
6903082 TTCAATC
1 TTCAATC
6903089 TTCAATC
1 TTCAATC
6903096 TTCAATC
1 TTCAATC
*
6903103 TTCCATC
1 TTCAATC
6903110 TT
1 TT
6903112 TTAATATTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (7 bp):
TTCAATC
Found at i:6903132 original size:11 final size:11
Alignment explanation
Indices: 6903118--6903169 Score: 63
Period size: 11 Copynumber: 4.9 Consensus size: 11
6903108 TCTTTTAATA
*
6903118 TTCTTTCAAAT
1 TTCTCTCAAAT
*
6903129 TTCTCTCTAA-
1 TTCTCTCAAAT
6903139 -TCTCTCAAAT
1 TTCTCTCAAAT
*
6903149 TTCTCTTAAAT
1 TTCTCTCAAAT
6903160 TTCTCTCAAA
1 TTCTCTCAAA
6903170 ACTCTCATTA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
9 8 0.24
11 26 0.76
ACGTcount: A:0.27, C:0.25, G:0.00, T:0.48
Consensus pattern (11 bp):
TTCTCTCAAAT
Found at i:6904910 original size:30 final size:30
Alignment explanation
Indices: 6904845--6904910 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 30
6904835 CGACGACGCA
*
6904845 GGCCCATCAACAGCGCCCACACAATCACCC
1 GGCCCAGCAACAGCGCCCACACAATCACCC
* * * *
6904875 AGCCCAGCAACAG-GACCTACACAGTCACCG
1 GGCCCAGCAACAGCG-CCCACACAATCACCC
6904905 GGCCCA
1 GGCCCA
6904911 ACAGTTCAAC
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
29 1 0.03
30 28 0.97
ACGTcount: A:0.30, C:0.45, G:0.18, T:0.06
Consensus pattern (30 bp):
GGCCCAGCAACAGCGCCCACACAATCACCC
Found at i:6904987 original size:18 final size:18
Alignment explanation
Indices: 6904964--6905001 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
6904954 TGCCAAGTAC
*
6904964 GTATCCTAGCCCTTTTAT
1 GTATCCTAGCCCTTATAT
6904982 GTATCCTAGCCCTTATAT
1 GTATCCTAGCCCTTATAT
6905000 GT
1 GT
6905002 TTCTTTTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.18, C:0.26, G:0.13, T:0.42
Consensus pattern (18 bp):
GTATCCTAGCCCTTATAT
Found at i:6905594 original size:116 final size:116
Alignment explanation
Indices: 6905390--6906004 Score: 1104
Period size: 116 Copynumber: 5.3 Consensus size: 116
6905380 TATTTGTACA
* *
6905390 AACATTTTGAATATTTTTATATTATTTCATGTAATTAAATAAAAGATTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
*
6905455 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
6905506 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
6905571 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
6905622 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
*
6905687 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
* * *
6905738 AACATTTTGAATATTTTTATATTATTTCATGTGATAATATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
6905803 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
* * * *
6905854 AATATTTTGAATATTTTTATATTATTTCATGTGATAATATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
* *
6905919 TATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGC
66 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
*
6905970 AATATTTTGAATATTTTTATATTATTTCATGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAAT
6906005 AAAATATAAA
Statistics
Matches: 487, Mismatches: 12, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
116 487 1.00
ACGTcount: A:0.40, C:0.03, G:0.09, T:0.47
Consensus pattern (116 bp):
AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
Found at i:6909251 original size:126 final size:125
Alignment explanation
Indices: 6909022--6909431 Score: 631
Period size: 126 Copynumber: 3.3 Consensus size: 125
6909012 GCCCAACTTA
* * *
6909022 TTTCAGAAACCACTGTAGCAAAAGAGTGTCCATGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
1 TTTCAGAGACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
*
6909087 TGCATCCTGCTTGAAGCGTTTTTAACACTATTTATGCAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTT-ACACTATTTGTGCAGACACGTCTTCTCAAAATTATTT
* * * *
6909148 TTTCAGAGACCACTGTAGTAAAAGAACGTCCACGTGGGAGCTTCTTCCAGTAATTTTGCTGAAAA
1 TTTCAGAGACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
*
6909213 TACATCCTGCTTGAAGCGTTTTTACCACTATTTGTGCAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTA-CACTATTTGTGCAGACACGTCTTCTCAAAATTATTT
* * * *
6909274 TTTCAGATACTACTGTAGTAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAA
1 TTTCAGAGACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* * *
6909339 TGCATCTTGCTTGAAGCGTTTTTTACACTATTTGCGCAGACACGTCTTCTCAAATTTATTT
66 TGCATCCTGCTTGAAGCG-TTTTTACACTATTTGTGCAGACACGTCTTCTCAAAATTATTT
* *
6909400 TTTCAAAGACTACTGTAGCAAAAGAGCGTCCA
1 TTTCAGAGACCACTGTAGCAAAAGAGCGTCCA
6909432 TGTAAAAACT
Statistics
Matches: 260, Mismatches: 22, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
125 1 0.00
126 253 0.97
127 6 0.02
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (125 bp):
TTTCAGAGACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
TGCATCCTGCTTGAAGCGTTTTTACACTATTTGTGCAGACACGTCTTCTCAAAATTATTT
Found at i:6909538 original size:15 final size:15
Alignment explanation
Indices: 6909518--6909547 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6909508 TTTCTTAAAT
6909518 ACCCTAAAACCCTAA
1 ACCCTAAAACCCTAA
*
6909533 ACCCTAAAATCCTAA
1 ACCCTAAAACCCTAA
6909548 TCTAATTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (15 bp):
ACCCTAAAACCCTAA
Found at i:6909671 original size:96 final size:98
Alignment explanation
Indices: 6909545--6909721 Score: 261
Period size: 96 Copynumber: 1.8 Consensus size: 98
6909535 CCTAAAATCC
* ** * *
6909545 TAATCTAATTTTTTTTAAAATTTATAATTAATTTACTCAAGTAACCCTAAACCCTAATTTATTTG
1 TAATCTAA-TTTTTTTAAAATTTATAATTAATTTAATCAACAAACACTAAACCCTAATTTATTTA
6909610 A-TTTTTTCCTTAAAAATCATAAACACTAAACCA
65 ATTTTTTTCCTTAAAAATCATAAACACTAAACCA
*
6909643 TAATCTAA-TTTTTTAAAA-TTAGTAATTAATTTAATTAACAAACACTAAACCCTAATTTATTTA
1 TAATCTAATTTTTTTAAAATTTA-TAATTAATTTAATCAACAAACACTAAACCCTAATTTATTTA
6909706 ATTTTTTTCCTTAAAA
65 ATTTTTTTCCTTAAAA
6909722 CCCTAAAACT
Statistics
Matches: 71, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
95 3 0.04
96 46 0.65
97 14 0.20
98 8 0.11
ACGTcount: A:0.41, C:0.14, G:0.02, T:0.44
Consensus pattern (98 bp):
TAATCTAATTTTTTTAAAATTTATAATTAATTTAATCAACAAACACTAAACCCTAATTTATTTAA
TTTTTTTCCTTAAAAATCATAAACACTAAACCA
Found at i:6909739 original size:16 final size:17
Alignment explanation
Indices: 6909718--6909759 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
6909708 TTTTTTCCTT
6909718 AAAACCCTAAAACT-TA
1 AAAACCCTAAAACTCTA
* *
6909734 AAAACCC-AAAATTCTC
1 AAAACCCTAAAACTCTA
6909750 AAAACCCTAA
1 AAAACCCTAA
6909760 CCCTAATTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 5 0.23
16 15 0.68
17 2 0.09
ACGTcount: A:0.55, C:0.29, G:0.00, T:0.17
Consensus pattern (17 bp):
AAAACCCTAAAACTCTA
Found at i:6911914 original size:26 final size:26
Alignment explanation
Indices: 6911871--6911947 Score: 75
Period size: 26 Copynumber: 2.9 Consensus size: 26
6911861 ACCTTTTTGT
* *
6911871 TTTCTTTTTTTTTATTTTCATATTTCT-
1 TTTC-TTTTTTTTCTTTT-ATATTTATA
* *
6911898 TTTGTTTTTTTTCTTTTATTTTTATA
1 TTTCTTTTTTTTCTTTTATATTTATA
*
6911924 TTTCTTTTTTTTACTTTTTTATTT
1 TTTCTTTTTTTT-CTTTTATATTT
6911948 TGCTCCTTAA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
25 6 0.15
26 23 0.56
27 12 0.29
ACGTcount: A:0.10, C:0.08, G:0.01, T:0.81
Consensus pattern (26 bp):
TTTCTTTTTTTTCTTTTATATTTATA
Found at i:6911918 original size:31 final size:30
Alignment explanation
Indices: 6911865--6911948 Score: 107
Period size: 31 Copynumber: 2.7 Consensus size: 30
6911855 AAATTTACCT
6911865 TTTTGTTTTCTTTTTTTTTATTTTCATATTTC
1 TTTTG-TTT-TTTTTTTTTATTTTCATATTTC
*
6911897 TTTTGTTTTTTTTCTTTTATTTTTATATTTC
1 TTTTGTTTTTTTT-TTTTATTTTCATATTTC
**
6911928 TTTT-TTTTACTTTTTTATTTT
1 TTTTGTTTTTTTTTTTTATTTT
6911949 GCTCCTTAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
29 9 0.19
30 11 0.23
31 23 0.48
32 5 0.10
ACGTcount: A:0.10, C:0.07, G:0.02, T:0.81
Consensus pattern (30 bp):
TTTTGTTTTTTTTTTTTATTTTCATATTTC
Found at i:6911941 original size:21 final size:22
Alignment explanation
Indices: 6911906--6911947 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
6911896 CTTTTGTTTT
*
6911906 TTTTCTTTTATTTTTATATTTC
1 TTTTCTTTTACTTTTATATTTC
*
6911928 TTTT-TTTTACTTTTTTATTT
1 TTTTCTTTTACTTTTATATTT
6911948 TGCTCCTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.12, C:0.07, G:0.00, T:0.81
Consensus pattern (22 bp):
TTTTCTTTTACTTTTATATTTC
Found at i:6911983 original size:9 final size:9
Alignment explanation
Indices: 6911969--6912039 Score: 56
Period size: 9 Copynumber: 7.9 Consensus size: 9
6911959 AAATTTTATC
6911969 TTTTTATTT
1 TTTTTATTT
*
6911978 TTTTTACTT
1 TTTTTATTT
*
6911987 TTTTGA-TT
1 TTTTTATTT
*
6911995 TTTTT-CTT
1 TTTTTATTT
* *
6912003 ATTTCATTT
1 TTTTTATTT
*
6912012 TGTTTATTT
1 TTTTTATTT
6912021 TGTTTTATTT
1 T-TTTTATTT
6912031 TTTATTATT
1 TTT-TTATT
6912040 AACTTTAAAA
Statistics
Matches: 48, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
8 11 0.23
9 24 0.50
10 13 0.27
ACGTcount: A:0.13, C:0.04, G:0.04, T:0.79
Consensus pattern (9 bp):
TTTTTATTT
Found at i:6912011 original size:16 final size:17
Alignment explanation
Indices: 6911976--6912017 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
6911966 ATCTTTTTAT
* *
6911976 TTTTTTTACTTTTTTGA
1 TTTTTTTACTTATTTCA
6911993 TTTTTTT-CTTATTTCA
1 TTTTTTTACTTATTTCA
6912009 TTTTGTTTA
1 TTTT-TTTA
6912018 TTTTGTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.76
Consensus pattern (17 bp):
TTTTTTTACTTATTTCA
Found at i:6912012 original size:24 final size:24
Alignment explanation
Indices: 6911985--6912030 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
6911975 TTTTTTTTAC
*
6911985 TTTT-TTGATTTTTTTCTTATTTCA
1 TTTTGTTGATTTTGTT-TTATTTCA
*
6912009 TTTTGTTTATTTTGTTTTATTT
1 TTTTGTTGATTTTGTTTTATTT
6912031 TTTATTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 10 0.53
25 9 0.47
ACGTcount: A:0.11, C:0.04, G:0.07, T:0.78
Consensus pattern (24 bp):
TTTTGTTGATTTTGTTTTATTTCA
Found at i:6912032 original size:34 final size:32
Alignment explanation
Indices: 6911961--6912039 Score: 79
Period size: 34 Copynumber: 2.4 Consensus size: 32
6911951 TCCTTAATAA
* *
6911961 ATTTTATCTT-TTTATTTTTTTTACTTTTTTG
1 ATTTTTTCTTATTTATTTTGTTTACTTTTTTG
* *
6911992 ATTTTTTTCTTATTTCATTTTGTTTATTTTGTTTT
1 A-TTTTTTCTTATTT-ATTTTGTTTACTTT-TTTG
*
6912027 ATTTTTTATTATT
1 ATTTTTTCTTATT
6912040 AACTTTAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
31 1 0.03
32 8 0.21
33 3 0.08
34 23 0.59
35 4 0.10
ACGTcount: A:0.14, C:0.05, G:0.04, T:0.77
Consensus pattern (32 bp):
ATTTTTTCTTATTTATTTTGTTTACTTTTTTG
Found at i:6912290 original size:21 final size:21
Alignment explanation
Indices: 6912265--6912313 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
6912255 TTGTAAATAC
6912265 AATTTCTTTAA-TTTCTTTTTA
1 AATTT-TTTAACTTTCTTTTTA
* *
6912286 AATTTTTTAACTTTTTTTTTT
1 AATTTTTTAACTTTCTTTTTA
6912307 AATTTTT
1 AATTTTT
6912314 GAAAAGCTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 5 0.20
21 20 0.80
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.71
Consensus pattern (21 bp):
AATTTTTTAACTTTCTTTTTA
Found at i:6912468 original size:18 final size:18
Alignment explanation
Indices: 6912447--6912499 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
6912437 TTTTTTTAAG
6912447 TTTTATATTATTT-TCTTA
1 TTTTATATTATTTAT-TTA
* *
6912465 TTTTATTTTGTTTATTTA
1 TTTTATATTATTTATTTA
* *
6912483 ATTTATATTATTAATTT
1 TTTTATATTATTTATTT
6912500 TAAAAAATTT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
18 27 0.96
19 1 0.04
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.72
Consensus pattern (18 bp):
TTTTATATTATTTATTTA
Found at i:6912641 original size:37 final size:37
Alignment explanation
Indices: 6912536--6912647 Score: 126
Period size: 37 Copynumber: 3.2 Consensus size: 37
6912526 ATGTTTTACA
*
6912536 ATTTTTTTA-AAATTTTAATTAT-TATTTTTAAAATT
1 ATTTTTTTATAAATTTTAAATATATATTTTTAAAATT
* * * *
6912571 A-TTTTTT-T-AACTTTAGATATATATTTGTGAAATT
1 ATTTTTTTATAAATTTTAAATATATATTTTTAAAATT
*
6912605 ATTTTTTTATAAATTTTAAATATATATTTTTCAAATT
1 ATTTTTTTATAAATTTTAAATATATATTTTTAAAATT
*
6912642 AGTTTT
1 ATTTTT
6912648 GAAATTATTA
Statistics
Matches: 62, Mismatches: 10, Indels: 8
0.77 0.12 0.10
Matches are distributed among these distances:
33 9 0.15
34 18 0.29
35 7 0.11
36 1 0.02
37 27 0.44
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (37 bp):
ATTTTTTTATAAATTTTAAATATATATTTTTAAAATT
Found at i:6912891 original size:26 final size:27
Alignment explanation
Indices: 6912831--6912891 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 27
6912821 GTGATGTGAC
*
6912831 TATTAATAAATTTAAATATTAATATAAA
1 TATTAA-AAAATTAAATATTAATATAAA
* *
6912859 TATTAAAAAATTAAATATT-TTTTAAA
1 TATTAAAAAATTAAATATTAATATAAA
6912885 TATTAAA
1 TATTAAA
6912892 TATTTTTTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 12 0.40
27 12 0.40
28 6 0.20
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (27 bp):
TATTAAAAAATTAAATATTAATATAAA
Found at i:6913056 original size:26 final size:26
Alignment explanation
Indices: 6913018--6913082 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
6913008 TTTAAATTTT
*
6913018 AAAT-ATAATTTTTAAATACATTTAAA
1 AAATCATAATTTTTAAATA-ATATAAA
* *
6913044 AAATCATAATTTTTTAATAATATAAG
1 AAATCATAATTTTTAAATAATATAAA
6913070 AAATCATAATTTT
1 AAATCATAATTTT
6913083 ATTTTGTTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
26 22 0.63
27 13 0.37
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.43
Consensus pattern (26 bp):
AAATCATAATTTTTAAATAATATAAA
Found at i:6913157 original size:22 final size:22
Alignment explanation
Indices: 6913108--6913164 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
6913098 TTTATTATTA
* * *
6913108 ATTTTAAAA-ATTTTGTAATGT
1 ATTTTAAAATTTTTTATAATAT
6913129 ATATTTAAAATTTTTTATAATAT
1 AT-TTTAAAATTTTTTATAATAT
*
6913152 ATTTTACAATTTT
1 ATTTTAAAATTTT
6913165 AAATATTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 2 0.07
22 17 0.57
23 11 0.37
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.56
Consensus pattern (22 bp):
ATTTTAAAATTTTTTATAATAT
Found at i:6914398 original size:8 final size:8
Alignment explanation
Indices: 6914364--6914423 Score: 59
Period size: 8 Copynumber: 7.5 Consensus size: 8
6914354 TAGTGATGTG
*
6914364 AATAATAA
1 AATATTAA
*
6914372 AGTATATAA
1 AATAT-TAA
6914381 AATA-TAA
1 AATATTAA
6914388 AATATTAA
1 AATATTAA
*
6914396 AATATCAA
1 AATATTAA
*
6914404 AATATCAA
1 AATATTAA
*
6914412 AATATTAG
1 AATATTAA
6914420 AATA
1 AATA
6914424 ATAATTAATA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
7 7 0.16
8 31 0.70
9 6 0.14
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.30
Consensus pattern (8 bp):
AATATTAA
Found at i:6914423 original size:24 final size:22
Alignment explanation
Indices: 6914375--6914423 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 22
6914365 ATAATAAAGT
6914375 ATATAAAATATAAAATATTAAA
1 ATATAAAATATAAAATATTAAA
*
6914397 ATATCAAAATATCAAAATATTAGA
1 ATAT-AAAATAT-AAAATATTAAA
6914421 ATA
1 ATA
6914424 ATAATTAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 4 0.17
23 7 0.29
24 13 0.54
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (22 bp):
ATATAAAATATAAAATATTAAA
Found at i:6914630 original size:22 final size:24
Alignment explanation
Indices: 6914571--6914639 Score: 79
Period size: 25 Copynumber: 2.9 Consensus size: 24
6914561 GTGATAATAT
* *
6914571 TAAAAATATGTACATAATATAGTG
1 TAAAAATATATACATAATATAATG
*
6914595 TAAAAAATACATACATAATATAAT-
1 T-AAAAATATATACATAATATAATG
*
6914619 T-AAAATATATACATAAGATAA
1 TAAAAATATATACATAATATAA
6914640 CATGTAGGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
22 18 0.46
24 2 0.05
25 19 0.49
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (24 bp):
TAAAAATATATACATAATATAATG
Found at i:6914685 original size:25 final size:25
Alignment explanation
Indices: 6914655--6914786 Score: 100
Period size: 25 Copynumber: 5.6 Consensus size: 25
6914645 AGGAAAAAAA
*
6914655 ATATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAGTATTAAAG
* *
6914680 ATATATACATAAAATAGTA-TAATAT
1 ATATATACATAATATAGTATTAA-AG
* * *
6914705 ATATATACGTAATATAGAATT-TAG
1 ATATATACATAATATAGTATTAAAG
* *
6914729 A-ATATACCTAATATA-T-TAAAAG
1 ATATATACATAATATAGTATTAAAG
* *
6914751 A-ATATATATAATATAATATT-AAG
1 ATATATACATAATATAGTATTAAAG
*
6914774 AAATATA-ATAATA
1 ATATATACATAATA
6914787 ACAAAAAAAA
Statistics
Matches: 86, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
21 1 0.01
22 15 0.17
23 24 0.28
24 11 0.13
25 34 0.40
26 1 0.01
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (25 bp):
ATATATACATAATATAGTATTAAAG
Found at i:6915107 original size:16 final size:16
Alignment explanation
Indices: 6915069--6915107 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
6915059 ATCTCCAAAA
*
6915069 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
6915085 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
6915101 AATAACT
1 AAAAACT
6915108 CTTCTCCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:6915306 original size:30 final size:30
Alignment explanation
Indices: 6915265--6915363 Score: 180
Period size: 30 Copynumber: 3.3 Consensus size: 30
6915255 TAGGTACAAG
6915265 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* *
6915295 AGGTAGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
6915325 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
6915355 TGGTGGTGG
1 TGGTGGTGG
6915364 CAAAGGTTAG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 65 1.00
ACGTcount: A:0.17, C:0.06, G:0.51, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:6916375 original size:92 final size:92
Alignment explanation
Indices: 6916038--6916585 Score: 454
Period size: 92 Copynumber: 6.0 Consensus size: 92
6916028 ACTAGACATT
* * * * *
6916038 AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCC-AAGGCTCAACTCACTTCTCGCAATATGA
1 AAAAAAAGAAATTGAAAATACCTCAG--CGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGA
6916102 GTTGA--TTTTT-AAAACA-AAATTTG---
64 GTTGATTTTTTTGAAAACAGAAA-TTGAAA
* ** ** * ** * *
6916125 TAAAACGGATTTTGAAAATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAG
1 AAAAAAAGAAATTGAAAATACCTCAGCGTGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAG
* *
6916190 TTGA--TTTTTGCAAAGCATAAATTGAAA
65 TTGATTTTTTTG-AAAACAGAAATTGAAA
* * * *
6916217 AAAAAAACATCAATTGAAAATACCTCGGCGTGTGACCTGAGGCTTAACTCACCTTTCGCAATATG
1 AAAAAAAGA--AATTGAAAATACCTCAGCGTGTG-CCTGAGGCTCAACTCACCTCTCGCAATATG
*
6916282 AGTTGATTTTTTTGACAAACATAAATTGAAA
63 AGTTGATTTTTTTGA-AAACAGAAATTGAAA
** *
6916313 AAAAAAAGAAATTGAAAATATTTCAGCGTGT-CCTGAGGCTGAACTCACCTCTCGCAATATGAGT
1 AAAAAAAGAAATTGAAAATACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
6916377 TGATTTTTTTGGAAAAACA-AAATTTG---
66 TGATTTTTTT-G-AAAACAGAAA-TTGAAA
* * ** * *
6916403 AAAAACAGAATTTGAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCACCACTCGCAATATGAG
1 AAAAAAAGAAATTGAAAATACCTCAGCGTGTGCCT-GAGGCTCAACTCACCTCTCGCAATATGAG
*
6916468 CTGATTTTTTTTGAAACACAGAAATTG---
65 TTGA-TTTTTTTGAAA-ACAGAAATTGAAA
* * * * * * *
6916495 AAGAACAGAAATGGAAAACACCTCA--GTGT-CTTGAGGTTCAACTCACCTCTCGCAATATGAGC
1 AAAAAAAGAAATTGAAAATACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
6916557 TGATTTTTTTGAAAGACAGAAATTGAAA
66 TGATTTTTTTGAAA-ACAGAAATTGAAA
6916585 A
1 A
6916586 TACCTCAACG
Statistics
Matches: 385, Mismatches: 52, Indels: 45
0.80 0.11 0.09
Matches are distributed among these distances:
85 3 0.01
86 2 0.01
87 76 0.20
88 30 0.08
89 9 0.02
90 35 0.09
91 4 0.01
92 106 0.28
93 19 0.05
94 72 0.19
95 1 0.00
96 28 0.07
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (92 bp):
AAAAAAAGAAATTGAAAATACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTTGAAAACAGAAATTGAAA
Found at i:6916420 original size:13 final size:14
Alignment explanation
Indices: 6916388--6916420 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
6916378 GATTTTTTTG
6916388 GAAAAACAAAATTT
1 GAAAAACAAAATTT
*
6916402 GAAAAACAGAATTT
1 GAAAAACAAAATTT
6916416 GAAAA
1 GAAAA
6916421 TACCTCAGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.64, C:0.06, G:0.12, T:0.18
Consensus pattern (14 bp):
GAAAAACAAAATTT
Found at i:6916639 original size:73 final size:73
Alignment explanation
Indices: 6916498--6916931 Score: 581
Period size: 73 Copynumber: 5.9 Consensus size: 73
6916488 GAAATTGAAG
* * * * *
6916498 AACAGAAATGGAAAACACCTC-A-GTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGAT
1 AACAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
6916561 TTTTTTGA-A
65 -TTTTTGACA
*
6916570 AGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 A-ACAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
6916635 TTTTTGACA
65 TTTTTGACA
* * *
6916644 AACAAAAATTGAAATTACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
6916707 TTTTGACA
66 TTTTGACA
* * * *
6916715 AACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATATGAGTTGAT
1 AACAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
*
6916780 TTTTTTGAAA
65 -TTTTTGACA
* * * *
6916790 AACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCACCTCTTGCAATATGAGTTGAG
1 AACAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
6916855 TTTTGACA
66 TTTTGACA
* * * * *
6916863 AACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATAAGTTGAT
1 AACAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
6916928 TTTT
66 TTTT
6916932 TTTAGAAACA
Statistics
Matches: 322, Mismatches: 32, Indels: 15
0.87 0.09 0.04
Matches are distributed among these distances:
71 68 0.21
72 2 0.01
73 146 0.45
74 3 0.01
75 103 0.32
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (73 bp):
AACAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTGACA
Found at i:6916874 original size:148 final size:147
Alignment explanation
Indices: 6916492--6916952 Score: 644
Period size: 148 Copynumber: 3.1 Consensus size: 147
6916482 AACACAGAAA
* * * *
6916492 TTGAAGAACAGAAATGGAAAACACCTC-AGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAG
1 TTGAAAAACAGAAATTGAAAATACCTCAACTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAG
* * * * *
6916556 CTGATTTTTTTGA-AAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
66 TTGA--TTTTTGACAA-ACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
6916620 CGCAATATGAGTTGA--TTT
128 CGCAATATGAGTTGATTTTT
* * * *
6916638 TTGACAAACAAAAATTGAAATTACCTCAGC-GTCTTGAGGTTCAACTCACCTCTCGCAATATGAG
1 TTGAAAAACAGAAATTGAAAATACCTCAACTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAG
*
6916702 TTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGC
66 TTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
6916767 AATATGAGTTGATTTTT
131 AATATGAGTTGATTTTT
* *
6916784 TTGAAAAACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCACCTCTTGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAAC-TGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
* *
6916849 GTTGAGTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCG
65 GTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
*
6916914 CAATATAAGTTGATTTTT
130 CAATATGAGTTGATTTTT
* * * *
6916932 TTTAGAAACATAAATTAAAAA
1 TTGAAAAACAGAAATTGAAAA
6916953 AACGAAAATT
Statistics
Matches: 281, Mismatches: 28, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
144 65 0.23
145 2 0.01
146 87 0.31
148 127 0.45
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (147 bp):
TTGAAAAACAGAAATTGAAAATACCTCAACTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAG
TTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
AATATGAGTTGATTTTT
Found at i:6917158 original size:14 final size:13
Alignment explanation
Indices: 6917122--6917166 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
6917112 TTGATTTTTG
6917122 AAAAACAGAAATT
1 AAAAACAGAAATT
**
6917135 AAAAGTAGAAATT
1 AAAAACAGAAATT
6917148 GAAAAACAGAAATT
1 -AAAAACAGAAATT
6917162 AAAAA
1 AAAAA
6917167 TACCTCGGCG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 16 0.59
14 11 0.41
ACGTcount: A:0.69, C:0.04, G:0.11, T:0.16
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:6917187 original size:100 final size:101
Alignment explanation
Indices: 6916950--6917310 Score: 416
Period size: 100 Copynumber: 3.7 Consensus size: 101
6916940 CATAAATTAA
* *
6916950 AAAAAC-GAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTTGCAATATGAGT
1 AAAAACAG-AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * *
6917014 TGA--TTTGAAAAGA-AGAATTTGTAAGGCAAAAATTG
65 TGATTTTTGAAAA-ACAGAAATTGAAAAGCAAAAATTG
6917049 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
6917114 GATTTTTGAAAAACAGAAATT-AAAAGTAGAAATTG
66 GATTTTTGAAAAACAGAAATTGAAAAGCAAAAATTG
* * * *
6917149 AAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
6917214 GATTTTTGAAAAGCATAAATT-----G-----A---
66 GATTTTTGAAAAACAGAAATTGAAAAGCAAAAATTG
* * *
6917237 AAAAACGGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGC--GTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAG
6917302 TTGATTTTT
64 TTGATTTTT
6917311 TTGAAAGATA
Statistics
Matches: 236, Mismatches: 20, Indels: 21
0.85 0.07 0.08
Matches are distributed among these distances:
88 24 0.10
90 41 0.17
91 1 0.00
96 1 0.00
99 63 0.27
100 92 0.39
101 14 0.06
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (101 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGAAAAACAGAAATTGAAAAGCAAAAATTG
Found at i:6917303 original size:90 final size:87
Alignment explanation
Indices: 6917143--6917310 Score: 246
Period size: 90 Copynumber: 1.9 Consensus size: 87
6917133 TTAAAAGTAG
* * *
6917143 AAATTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATA
1 AAATTGAAAAACAGAAATTAAAAATACCTCGGCGTGACCCGAGGCCCAACTCACCTCTCGCAATA
6917208 TGAGTTGATTTTTGAAAAGCAT
66 TGAGTTGATTTTTGAAAAGCAT
* * * *
6917230 AAATTGAAAAAACGGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCACCTCTCGCA
1 AAATTG-AAAAACAGAAATTAAAAATACCTC-G-GCGTGACCCGAGGCCCAACTCACCTCTCGCA
6917295 ATATGAGTTGATTTTT
63 ATATGAGTTGATTTTT
6917311 TTGAAAGATA
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
87 6 0.08
88 22 0.31
89 1 0.01
90 42 0.59
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.25
Consensus pattern (87 bp):
AAATTGAAAAACAGAAATTAAAAATACCTCGGCGTGACCCGAGGCCCAACTCACCTCTCGCAATA
TGAGTTGATTTTTGAAAAGCAT
Found at i:6917330 original size:90 final size:87
Alignment explanation
Indices: 6917135--6917330 Score: 227
Period size: 90 Copynumber: 2.2 Consensus size: 87
6917125 AACAGAAATT
* * * *
6917135 AAAAG-TAGAAATTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCT
1 AAAAGATAGAAA-TAAAAAACAGAAATTAAAAATACCTCGGCGTGACCCGAGGCCCAACTCACCT
6917199 CTCGCAATATGAGTTGATTTTTG
65 CTCGCAATATGAGTTGATTTTTG
* * * * *
6917222 AAAAGCATA-AATTGAAAAAACGGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCA
1 AAAAG-ATAGAAAT-AAAAAACAGAAATTAAAAATACCTC-G-GCGTGACCCGAGGCCCAACTCA
6917286 CCTCTCGCAATATGAGTTGATTTTTTTG
62 CCTCTCGCAATATGAGTTGA--TTTTTG
6917314 -AAAGATAGAAATAAAAA
1 AAAAGATAGAAATAAAAA
6917331 CATCAAAATA
Statistics
Matches: 91, Mismatches: 10, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
87 6 0.07
88 24 0.26
89 3 0.03
90 45 0.49
91 7 0.08
92 6 0.07
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.24
Consensus pattern (87 bp):
AAAAGATAGAAATAAAAAACAGAAATTAAAAATACCTCGGCGTGACCCGAGGCCCAACTCACCTC
TCGCAATATGAGTTGATTTTTG
Found at i:6923797 original size:24 final size:24
Alignment explanation
Indices: 6923756--6923821 Score: 71
Period size: 24 Copynumber: 2.7 Consensus size: 24
6923746 CTAAAAACAC
* *
6923756 TATAATATGAATACATACAT-ATAA
1 TATAATATTAAAACATACATAAT-A
*
6923780 TATAATATTAAAATATACATAATA
1 TATAATATTAAAACATACATAATA
6923804 TATACATATATAAAACAT
1 TATA-ATAT-TAAAACAT
6923822 GTATTAAGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
24 22 0.63
25 6 0.17
26 7 0.20
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.35
Consensus pattern (24 bp):
TATAATATTAAAACATACATAATA
Found at i:6924268 original size:3 final size:3
Alignment explanation
Indices: 6924260--6924289 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
6924250 ACATTAGAAG
6924260 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6924290 AAAATTAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:6924950 original size:11 final size:11
Alignment explanation
Indices: 6924916--6924954 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
6924906 ATGTATATAT
6924916 AAAGAAAGAAA
1 AAAGAAAGAAA
* *
6924927 AAACAATAAAAA
1 AAAGAA-AGAAA
6924939 AAAGAAAGAAA
1 AAAGAAAGAAA
6924950 AAAGA
1 AAAGA
6924955 TTCGAAAGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
11 14 0.61
12 9 0.39
ACGTcount: A:0.82, C:0.03, G:0.13, T:0.03
Consensus pattern (11 bp):
AAAGAAAGAAA
Found at i:6928944 original size:8 final size:8
Alignment explanation
Indices: 6928896--6928937 Score: 61
Period size: 8 Copynumber: 5.5 Consensus size: 8
6928886 ATAATAAAGT
6928896 ATAT-AAA
1 ATATCAAA
*
6928903 ATAT-TAA
1 ATATCAAA
6928910 ATATCAAA
1 ATATCAAA
6928918 ATATCAAA
1 ATATCAAA
6928926 ATATCAAA
1 ATATCAAA
6928934 ATAT
1 ATAT
6928938 TAGAATAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
7 10 0.31
8 22 0.69
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (8 bp):
ATATCAAA
Found at i:6928944 original size:16 final size:15
Alignment explanation
Indices: 6928896--6928944 Score: 64
Period size: 16 Copynumber: 3.2 Consensus size: 15
6928886 ATAATAAAGT
6928896 ATAT-AAAATATTAA
1 ATATCAAAATATTAA
*
6928910 ATATCAAAATATCAAA
1 ATATCAAAATAT-TAA
6928926 ATATCAAAATATTAGA
1 ATATCAAAATATTA-A
6928942 ATA
1 ATA
6928945 ATAATTAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 4 0.13
15 8 0.27
16 18 0.60
ACGTcount: A:0.61, C:0.06, G:0.02, T:0.31
Consensus pattern (15 bp):
ATATCAAAATATTAA
Found at i:6929151 original size:22 final size:23
Alignment explanation
Indices: 6929094--6929160 Score: 73
Period size: 22 Copynumber: 2.9 Consensus size: 23
6929084 GATAATATTA
* *
6929094 AAAATATGTACATAATATAGTGT
1 AAAATATATACATAATATAATGT
*
6929117 AAAAAATTCATACATAATATAAT-T
1 AAAATA-T-ATACATAATATAATGT
*
6929141 AAAATATATACATAAGATAA
1 AAAATATATACATAATATAA
6929161 CATGTAGGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
22 12 0.32
23 6 0.16
24 7 0.19
25 12 0.32
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (23 bp):
AAAATATATACATAATATAATGT
Found at i:6929206 original size:25 final size:24
Alignment explanation
Indices: 6929177--6929306 Score: 88
Period size: 23 Copynumber: 5.5 Consensus size: 24
6929167 GGAAAAAAAA
*
6929177 ATATAAATAATATAGTATTAAAGAT
1 ATATACATAATATAGTATT-AAGAT
* * *
6929202 ATATACATAAAACAGTA-TAATAT
1 ATATACATAATATAGTATTAAGAT
* * *
6929225 ATATACGTAATATAGAATTTAGA-
1 ATATACATAATATAGTATTAAGAT
* * * *
6929248 ATATACCTAATTTATTA-AAAGAAT
1 ATATACATAATATAGTATTAAG-AT
* * *
6929272 ATATATATAATATAATATTAAGAA
1 ATATACATAATATAGTATTAAGAT
6929296 ATATA-ATAATA
1 ATATACATAATA
6929307 ACAAAAAAAA
Statistics
Matches: 79, Mismatches: 22, Indels: 10
0.71 0.20 0.09
Matches are distributed among these distances:
22 2 0.03
23 37 0.47
24 23 0.29
25 17 0.22
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (24 bp):
ATATACATAATATAGTATTAAGAT
Found at i:6935034 original size:20 final size:21
Alignment explanation
Indices: 6934992--6935038 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
6934982 TAGAGTATGG
*
6934992 TTAATATTTAAAAAATAATAT
1 TTAAAATTTAAAAAATAATAT
*
6935013 TTAAAATTTAAAAAATTA-AT
1 TTAAAATTTAAAAAATAATAT
6935033 TTAAAA
1 TTAAAA
6935039 AATATACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TTAAAATTTAAAAAATAATAT
Found at i:6935055 original size:22 final size:22
Alignment explanation
Indices: 6935030--6935075 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
6935020 TTAAAAAATT
6935030 AATTTA-AAAAATATACATTT-AA
1 AATTTATAAAAA-ATA-ATTTCAA
6935052 AATTTATAAAAAATAATTTCAA
1 AATTTATAAAAAATAATTTCAA
6935074 AA
1 AA
6935076 ATATATATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.18
22 13 0.59
23 5 0.23
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (22 bp):
AATTTATAAAAAATAATTTCAA
Found at i:6935059 original size:15 final size:15
Alignment explanation
Indices: 6935018--6935053 Score: 58
Period size: 13 Copynumber: 2.5 Consensus size: 15
6935008 AATATTTAAA
6935018 ATTTAAAAAAT-TA-
1 ATTTAAAAAATATAC
6935031 ATTTAAAAAATATAC
1 ATTTAAAAAATATAC
6935046 ATTTAAAA
1 ATTTAAAA
6935054 TTTATAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 11 0.52
14 2 0.10
15 8 0.38
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (15 bp):
ATTTAAAAAATATAC
Found at i:6935063 original size:36 final size:36
Alignment explanation
Indices: 6934997--6935134 Score: 162
Period size: 36 Copynumber: 4.0 Consensus size: 36
6934987 TATGGTTAAT
*
6934997 ATTTAAAAAATA-ATATTTAAAATTTA-AAAAATTA
1 ATTTAAAAAATATATATTTAAAATTTATAAAAAATA
*
6935031 ATTTAAAAAATATACATTTAAAATTTATAAAAAATA
1 ATTTAAAAAATATATATTTAAAATTTATAAAAAATA
* *
6935067 ATTTCAAAAATATATATCTAAAATTT-TAAAAAATA
1 ATTTAAAAAATATATATTTAAAATTTATAAAAAATA
* * * *
6935102 ATCT-AATAATA-GTATTT-AAATTTTTAAAAAATA
1 ATTTAAAAAATATATATTTAAAATTTATAAAAAATA
6935135 TATATTATAG
Statistics
Matches: 92, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
32 6 0.07
33 13 0.14
34 18 0.20
35 25 0.27
36 30 0.33
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (36 bp):
ATTTAAAAAATATATATTTAAAATTTATAAAAAATA
Found at i:6935091 original size:22 final size:20
Alignment explanation
Indices: 6935066--6935107 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
6935056 TATAAAAAAT
6935066 AATTTCAAAAATATATATCTAA
1 AATTTCAAAAA-ATA-ATCTAA
*
6935088 AATTTTAAAAAATAATCTAA
1 AATTTCAAAAAATAATCTAA
6935108 TAATAGTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 3 0.16
22 10 0.53
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (20 bp):
AATTTCAAAAAATAATCTAA
Found at i:6935132 original size:33 final size:33
Alignment explanation
Indices: 6935002--6935134 Score: 117
Period size: 35 Copynumber: 3.8 Consensus size: 33
6934992 TTAATATTTA
* * *
6935002 AAAAATAATATTTAAA-ATTTAAAAAATTAATTTA
1 AAAAAT-ATATTTAAATTTTTAAAAAA-TAATCTC
* *
6935036 AAAAATATACATTTAAAATTTATAAAAAATAATTTC
1 AAAAATAT--ATTT-AAATTTTTAAAAAATAATCTC
*
6935072 AAAAATATATATCTAAAATTTTAAAAAATAATCT-
1 AAAAATATAT-T-TAAATTTTTAAAAAATAATCTC
*
6935106 AATAATAGTATTTAAATTTTTAAAAAATA
1 AAAAATA-TATTTAAATTTTTAAAAAATA
6935135 TATATTATAG
Statistics
Matches: 84, Mismatches: 8, Indels: 15
0.79 0.07 0.14
Matches are distributed among these distances:
33 18 0.21
34 15 0.18
35 25 0.30
36 18 0.21
37 8 0.10
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.38
Consensus pattern (33 bp):
AAAAATATATTTAAATTTTTAAAAAATAATCTC
Found at i:6935215 original size:29 final size:30
Alignment explanation
Indices: 6935183--6935248 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
6935173 TTCAAAATTA
6935183 ATAAAAAATT-AAATAAAA-AAGAAAAAA-
1 ATAAAAAATTCAAATAAAATAAGAAAAAAT
* *
6935210 ATATAAAACTTCAAATAAAATAAGTAAAAAT
1 ATA-AAAAATTCAAATAAAATAAGAAAAAAT
6935241 A-AAAAAAT
1 ATAAAAAAT
6935249 CTTAATTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
27 3 0.09
28 6 0.19
29 13 0.41
30 9 0.28
31 1 0.03
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.20
Consensus pattern (30 bp):
ATAAAAAATTCAAATAAAATAAGAAAAAAT
Found at i:6935371 original size:36 final size:35
Alignment explanation
Indices: 6935325--6935433 Score: 100
Period size: 34 Copynumber: 3.1 Consensus size: 35
6935315 TAATAATTTC
* *
6935325 AAAACTAATTTGAAAAATATACATTTAAAATTTATA
1 AAAAATAATTTCAAAAATATA-ATTTAAAATTTATA
* * *
6935361 AAAAATAATTTCACAAATATATATCT-AAAGTTA-A
1 AAAAATAATTTCAAAAATATA-ATTTAAAATTTATA
* *
6935395 AAAAACAATTTTAAAAATAATAA-TTAAAATTT-TA
1 AAAAATAATTTCAAAAAT-ATAATTTAAAATTTATA
6935429 AAAAA
1 AAAAA
6935434 ATATTGTAAA
Statistics
Matches: 59, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
33 1 0.02
34 28 0.47
35 9 0.15
36 21 0.36
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.33
Consensus pattern (35 bp):
AAAAATAATTTCAAAAATATAATTTAAAATTTATA
Found at i:6935449 original size:23 final size:23
Alignment explanation
Indices: 6935396--6935453 Score: 68
Period size: 21 Copynumber: 2.6 Consensus size: 23
6935386 TAAAGTTAAA
6935396 AAAACAATTTTAAAAATAATAATT
1 AAAAC-ATTTTAAAAATAATAATT
*
6935420 -AAA-ATTTTAAAAA-AATATTGT
1 AAAACATTTTAAAAATAATAAT-T
6935441 AAAACATTTTAAA
1 AAAACATTTTAAA
6935454 TATACATTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
20 5 0.17
21 11 0.37
22 3 0.10
23 11 0.37
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.34
Consensus pattern (23 bp):
AAAACATTTTAAAAATAATAATT
Found at i:6935705 original size:20 final size:19
Alignment explanation
Indices: 6935676--6935721 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
6935666 CAAACTTTTC
6935676 AAAAATTAAAAA-AAAGTTA
1 AAAAATTAAAAAGAAA-TTA
6935695 AAAAATGTAAAAAGAAATTA
1 AAAAAT-TAAAAAGAAATTA
*
6935715 AAGAATT
1 AAAAATT
6935722 TGTATTTACA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 7 0.29
20 14 0.58
21 3 0.12
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.22
Consensus pattern (19 bp):
AAAAATTAAAAAGAAATTA
Found at i:6935793 original size:14 final size:14
Alignment explanation
Indices: 6935774--6935800 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6935764 AAAAATATGG
6935774 TTAATATTTAAAAA
1 TTAATATTTAAAAA
6935788 TTAATATTTAAAA
1 TTAATATTTAAAA
6935801 TTTTAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TTAATATTTAAAAA
Found at i:6935824 original size:36 final size:34
Alignment explanation
Indices: 6935779--6935915 Score: 109
Period size: 36 Copynumber: 3.9 Consensus size: 34
6935769 TATGGTTAAT
6935779 ATTTAAAAATTA-ATATTTAAAATTTTAAAAAATTA
1 ATTTAAAAA-TACATATTTAAAA-TTTAAAAAATTA
* *
6935814 ATTTGAAAAATACATTTTTAAAATATATAAAAATTA
1 ATTT-AAAAATACATATTTAAAATTTA-AAAAATTA
* * * * *
6935850 ATTTCACAAATATATATCT-AAAGTTAAAAAAATA
1 ATTT-AAAAATACATATTTAAAATTTAAAAAATTA
* *
6935884 TTTTTAAAAATA-ATAATTAAAATTTTAAAAAA
1 -ATTTAAAAATACATATTTAAAA-TTTAAAAAA
6935916 GTATTATAAA
Statistics
Matches: 81, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
33 4 0.05
34 16 0.20
35 25 0.31
36 36 0.44
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (34 bp):
ATTTAAAAATACATATTTAAAATTTAAAAAATTA
Found at i:6936081 original size:12 final size:10
Alignment explanation
Indices: 6936055--6936133 Score: 52
Period size: 11 Copynumber: 7.4 Consensus size: 10
6936045 AACAAAATAA
*
6936055 AAAAGTAAAAT
1 AAAAG-AAAAG
6936066 AAAAGAAATATG
1 AAAAGAAA-A-G
*
6936078 AAAATAAAAG
1 AAAAGAAAAG
*
6936088 AAAA-AAAAC
1 AAAAGAAAAG
6936097 AAAAGAAATATG
1 AAAAGAAA-A-G
*
6936109 AAAATAAAAG
1 AAAAGAAAAG
*
6936119 AAAAAGAAAAC
1 -AAAAGAAAAG
6936130 AAAA
1 AAAA
6936134 ATGTGTCAGA
Statistics
Matches: 55, Mismatches: 7, Indels: 13
0.73 0.09 0.17
Matches are distributed among these distances:
9 8 0.15
10 16 0.29
11 17 0.31
12 14 0.25
ACGTcount: A:0.77, C:0.03, G:0.10, T:0.10
Consensus pattern (10 bp):
AAAAGAAAAG
Found at i:6936083 original size:17 final size:17
Alignment explanation
Indices: 6936061--6936121 Score: 92
Period size: 17 Copynumber: 3.8 Consensus size: 17
6936051 ATAAAAAAGT
6936061 AAAATAAAAGAAATATG
1 AAAATAAAAGAAATATG
6936078 AAAATAAAAGAAA-A--
1 AAAATAAAAGAAATATG
*
6936092 AAAACAAAAGAAATATG
1 AAAATAAAAGAAATATG
6936109 AAAATAAAAGAAA
1 AAAATAAAAGAAA
6936122 AAGAAAACAA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
14 12 0.31
15 1 0.03
16 1 0.03
17 25 0.64
ACGTcount: A:0.77, C:0.02, G:0.10, T:0.11
Consensus pattern (17 bp):
AAAATAAAAGAAATATG
Found at i:6936128 original size:5 final size:5
Alignment explanation
Indices: 6936055--6936133 Score: 52
Period size: 5 Copynumber: 14.8 Consensus size: 5
6936045 AACAAAATAA
* * *
6936055 AAAAG TAAAAT AAAAG AAATATG AAAAT AAAAG AAAA- AAAAC AAAAG
1 AAAAG -AAAAG AAAAG AAA-A-G AAAAG AAAAG AAAAG AAAAG AAAAG
* *
6936102 AAATATG AAAAT AAAAG AAAAAG AAAAC AAAA
1 AAA-A-G AAAAG AAAAG -AAAAG AAAAG AAAA
6936134 ATGTGTCAGA
Statistics
Matches: 59, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
4 4 0.07
5 34 0.58
6 13 0.22
7 8 0.14
ACGTcount: A:0.77, C:0.03, G:0.10, T:0.10
Consensus pattern (5 bp):
AAAAG
Found at i:6936134 original size:17 final size:16
Alignment explanation
Indices: 6936054--6936133 Score: 83
Period size: 17 Copynumber: 4.9 Consensus size: 16
6936044 GAACAAAATA
6936054 AAAAAGTAAAATAAAAG
1 AAAAAG-AAAATAAAAG
*
6936071 AAATATGAAAATAAAAG
1 AAA-AAGAAAATAAAAG
*
6936088 -AAAA-AAAACAAAAG
1 AAAAAGAAAATAAAAG
*
6936102 AAATATGAAAATAAAAG
1 AAA-AAGAAAATAAAAG
*
6936119 AAAAAGAAAACAAAA
1 AAAAAGAAAATAAAA
6936134 ATGTGTCAGA
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
14 9 0.17
15 3 0.06
16 13 0.25
17 25 0.48
18 2 0.04
ACGTcount: A:0.78, C:0.03, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAAAGAAAATAAAAG
Found at i:6952346 original size:27 final size:27
Alignment explanation
Indices: 6952272--6952350 Score: 122
Period size: 27 Copynumber: 2.9 Consensus size: 27
6952262 TTTAATGCCT
*
6952272 TTCTGGTGTGTTTGGAAAGATTATTTA
1 TTCTGGTGTGTTTGGAAGGATTATTTA
*
6952299 TTCTGATGTGTTTGGAAGGATTATTTA
1 TTCTGGTGTGTTTGGAAGGATTATTTA
**
6952326 TTCTGGTGTGTTTGGTTGGATTATT
1 TTCTGGTGTGTTTGGAAGGATTATT
6952351 CTGGTGTGTT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.18, C:0.04, G:0.28, T:0.51
Consensus pattern (27 bp):
TTCTGGTGTGTTTGGAAGGATTATTTA
Found at i:6958398 original size:21 final size:22
Alignment explanation
Indices: 6958346--6958399 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 22
6958336 TAATAATTAT
*
6958346 TATTAATTATTATTATGGTTTTA
1 TATTAATTATTATTAT-GTGTTA
6958369 TATTAAATTATTATTAT-TGTTA
1 TATT-AATTATTATTATGTGTTA
6958391 -AGTTAATTA
1 TA-TTAATTA
6958400 AAATAGTGAC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
21 6 0.21
22 6 0.21
23 4 0.14
24 12 0.43
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (22 bp):
TATTAATTATTATTATGTGTTA
Found at i:6959566 original size:16 final size:16
Alignment explanation
Indices: 6959544--6959583 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 16
6959534 AAAGGTGTGT
6959544 TTTGAATT-GAAATGA
1 TTTGAATTAGAAATGA
6959559 TATTGAATTGAGAAATGA
1 T-TTGAATT-AGAAATGA
6959577 TTTGAAT
1 TTTGAAT
6959584 ACCCTATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 1 0.05
16 7 0.32
17 6 0.27
18 8 0.36
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (16 bp):
TTTGAATTAGAAATGA
Found at i:6959764 original size:27 final size:27
Alignment explanation
Indices: 6959726--6959777 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
6959716 TTTAATGCCT
6959726 TTCTGGTGTGTTTGGGAGGATTATTTA
1 TTCTGGTGTGTTTGGGAGGATTATTTA
**
6959753 TTCTGGTGTGTTTGGTTGGATTATT
1 TTCTGGTGTGTTTGGGAGGATTATT
6959778 CTGGTGTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.12, C:0.04, G:0.33, T:0.52
Consensus pattern (27 bp):
TTCTGGTGTGTTTGGGAGGATTATTTA
Found at i:6959776 original size:23 final size:23
Alignment explanation
Indices: 6959750--6959795 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
6959740 GGAGGATTAT
6959750 TTATTCTGGTGTGTTTGGTTGGA
1 TTATTCTGGTGTGTTTGGTTGGA
6959773 TTATTCTGGTGTGTTTGGTTGGA
1 TTATTCTGGTGTGTTTGGTTGGA
6959796 ATCTGTGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.09, C:0.04, G:0.35, T:0.52
Consensus pattern (23 bp):
TTATTCTGGTGTGTTTGGTTGGA
Found at i:6966132 original size:45 final size:44
Alignment explanation
Indices: 6966056--6966143 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 44
6966046 ATTGTAAATG
*
6966056 AAATTATAATTATTTTTAGATGCATAATTATCACAATTTCTATT
1 AAATTATAATTATTTTTAAATGCATAATTATCACAATTTCTATT
*
6966100 AAATTATAATTATTTTTTAAATGTATAATTATCACAATTTCTAT
1 AAATTATAATTA-TTTTTAAATGCATAATTATCACAATTTCTAT
6966144 AATTATTTAC
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 12 0.29
45 29 0.71
ACGTcount: A:0.40, C:0.08, G:0.03, T:0.49
Consensus pattern (44 bp):
AAATTATAATTATTTTTAAATGCATAATTATCACAATTTCTATT
Found at i:6967254 original size:15 final size:15
Alignment explanation
Indices: 6967236--6967278 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
6967226 AATTTGTAAT
6967236 ACTTAATTTTTCAAC
1 ACTTAATTTTTCAAC
* *
6967251 ACTT-ATTTTTTACC
1 ACTTAATTTTTCAAC
*
6967265 ACTTAATTCTTCAA
1 ACTTAATTTTTCAA
6967279 TTTATCAAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.30, C:0.21, G:0.00, T:0.49
Consensus pattern (15 bp):
ACTTAATTTTTCAAC
Found at i:6967632 original size:26 final size:26
Alignment explanation
Indices: 6967603--6967710 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
6967593 TGGTACAAAT
*
6967603 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
6967629 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
6967655 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
6967681 TGATAATGGTTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
6967707 TGAT
1 TGAT
6967711 GGGCATTTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:6967665 original size:52 final size:52
Alignment explanation
Indices: 6967603--6967710 Score: 198
Period size: 52 Copynumber: 2.1 Consensus size: 52
6967593 TGGTACAAAT
6967603 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* *
6967655 TGATAATGGGTTAGGTAAATGTTTCATGATAATGGTTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
6967707 TGAT
1 TGAT
6967711 GGGCATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.37
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:6974356 original size:26 final size:26
Alignment explanation
Indices: 6974327--6974434 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
6974317 TAGTACAAAT
6974327 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
** *
6974353 TGATAATGAATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
6974379 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
6974405 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
6974431 TGAT
1 TGAT
6974435 GGGTATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:6982766 original size:26 final size:27
Alignment explanation
Indices: 6982737--6982796 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 27
6982727 TATGGCGTTG
* *
6982737 AAAAATACATACATAACATAGTA-TTA
1 AAAAATACATACATAACATAATAGGTA
* * *
6982763 AAAAACATATACATAAGATAATAGGTA
1 AAAAATACATACATAACATAATAGGTA
6982790 AAAAATA
1 AAAAATA
6982797 TAATATAGTA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 19 0.70
27 8 0.30
ACGTcount: A:0.62, C:0.08, G:0.07, T:0.23
Consensus pattern (27 bp):
AAAAATACATACATAACATAATAGGTA
Found at i:6982997 original size:17 final size:16
Alignment explanation
Indices: 6982955--6983003 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 16
6982945 AAACAACTAT
*
6982955 TAATAATATTACATAAA
1 TAATAATATTA-AAAAA
6982972 T-ATATATATTAAAAACA
1 TAATA-ATATTAAAAA-A
6982989 TAATAATATTAAAAA
1 TAATAATATTAAAAA
6983004 TACGTACACA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
16 6 0.21
17 19 0.68
18 3 0.11
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (16 bp):
TAATAATATTAAAAAA
Found at i:6983089 original size:27 final size:25
Alignment explanation
Indices: 6983020--6983097 Score: 84
Period size: 27 Copynumber: 2.9 Consensus size: 25
6983010 CACAGTATAT
6983020 ATATACACATAATATAGTTATTAAGA
1 ATATACACATAATATAG-TATTAAGA
* *
6983046 AAATACATATAATATATAGTATTAAGA
1 ATATACACAT-A-ATATAGTATTAAGA
*
6983073 ATATACACAATACATATGGTATTAA
1 ATATACAC-ATA-ATATAGTATTAA
6983098 AAAATATAGT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
26 8 0.19
27 27 0.63
28 8 0.19
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.33
Consensus pattern (25 bp):
ATATACACATAATATAGTATTAAGA
Found at i:6983109 original size:15 final size:15
Alignment explanation
Indices: 6983086--6983116 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6983076 TACACAATAC
*
6983086 ATATGGTATTAAAAA
1 ATATAGTATTAAAAA
6983101 ATATAGTATTAAAAA
1 ATATAGTATTAAAAA
6983116 A
1 A
6983117 ACATAATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.32
Consensus pattern (15 bp):
ATATAGTATTAAAAA
Found at i:6983639 original size:14 final size:11
Alignment explanation
Indices: 6983617--6983677 Score: 52
Period size: 11 Copynumber: 5.2 Consensus size: 11
6983607 CTAATGATGC
6983617 TAAAATATATGCA
1 TAAAATATAT--A
6983630 TAATAATATATA
1 TAA-AATATATA
6983642 TAAAATATATA
1 TAAAATATATA
* *
6983653 CACAATATAGT-
1 TAAAATATA-TA
6983664 TACAAATATATA
1 TA-AAATATATA
6983676 TA
1 TA
6983678 TATAATCGTA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
11 17 0.43
12 13 0.32
13 3 0.08
14 7 0.17
ACGTcount: A:0.56, C:0.07, G:0.03, T:0.34
Consensus pattern (11 bp):
TAAAATATATA
Found at i:6985073 original size:27 final size:26
Alignment explanation
Indices: 6985043--6985098 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
6985033 TATAGGTTTA
* *
6985043 TTTTGGGCTGTTTGTTTGGAAATTGGG
1 TTTTGGGCTGTTAG-TTGGAAATAGGG
* *
6985070 TTTTGGGTTGTTAGTTGTAAATAGGG
1 TTTTGGGCTGTTAGTTGGAAATAGGG
6985096 TTT
1 TTT
6985099 GGGTAATTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 13 0.52
27 12 0.48
ACGTcount: A:0.14, C:0.02, G:0.34, T:0.50
Consensus pattern (26 bp):
TTTTGGGCTGTTAGTTGGAAATAGGG
Found at i:6985098 original size:26 final size:27
Alignment explanation
Indices: 6985043--6985102 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
6985033 TATAGGTTTA
* * *
6985043 TTTTGGGCTGTTTGTTTGGAAATTGGG
1 TTTTGGGTTGTTAGTTTGGAAATAGGG
*
6985070 TTTTGGGTTGTTAG-TTGTAAATAGGG
1 TTTTGGGTTGTTAGTTTGGAAATAGGG
6985096 -TTTGGGT
1 TTTTGGGT
6985103 AATTTGGGCT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 7 0.24
26 10 0.34
27 12 0.41
ACGTcount: A:0.13, C:0.02, G:0.37, T:0.48
Consensus pattern (27 bp):
TTTTGGGTTGTTAGTTTGGAAATAGGG
Found at i:6985629 original size:71 final size:71
Alignment explanation
Indices: 6985513--6985654 Score: 275
Period size: 71 Copynumber: 2.0 Consensus size: 71
6985503 CAGGGAGACA
6985513 AAATCTGGTGTCTTCAATCAGCTCCAATCTTTATTCTTTATTCGGCATGTGATCCTAAGCTCAAC
1 AAATCTGGTGTCTTCAATCAGCTCCAATCTTTATTCTTTATTCGGCATGTGATCCTAAGCTCAAC
6985578 TCATTT
66 TCATTT
*
6985584 AAATCTGGTGTCTTCAATCAGCTCCAATCTTTATTCTTTATTCGGCATGTGATCCTGAGCTCAAC
1 AAATCTGGTGTCTTCAATCAGCTCCAATCTTTATTCTTTATTCGGCATGTGATCCTAAGCTCAAC
6985649 TCATTT
66 TCATTT
6985655 CTCGCAATAT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.23, C:0.24, G:0.13, T:0.39
Consensus pattern (71 bp):
AAATCTGGTGTCTTCAATCAGCTCCAATCTTTATTCTTTATTCGGCATGTGATCCTAAGCTCAAC
TCATTT
Found at i:6985706 original size:14 final size:14
Alignment explanation
Indices: 6985675--6985708 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
6985665 GAATTGACTC
*
6985675 TTTAAAAACAGACA
1 TTTAAAAACAGAAA
6985689 -TTAAAAACAGAAA
1 TTTAAAAACAGAAA
6985702 TTTAAAA
1 TTTAAAA
6985709 TAGCTCAGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.62, C:0.09, G:0.06, T:0.24
Consensus pattern (14 bp):
TTTAAAAACAGAAA
Found at i:6985948 original size:14 final size:14
Alignment explanation
Indices: 6985929--6985963 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
6985919 GTTGATTTTT
*
6985929 TTGAAAAACATAAA
1 TTGAAAAACAGAAA
*
6985943 TTGAAAAACAGAAT
1 TTGAAAAACAGAAA
6985957 TTGAAAA
1 TTGAAAA
6985964 TACCTCAGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.06, G:0.11, T:0.23
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:6985989 original size:164 final size:164
Alignment explanation
Indices: 6985691--6986017 Score: 451
Period size: 164 Copynumber: 2.0 Consensus size: 164
6985681 AACAGACATT
* * * * *
6985691 AAAAACAGAAATTTAAAATAGCTCAGCACGTGAGCCAAGGCTTAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAACTAAAAATACCTCAGCACGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAG
* * * * *
6985756 TTGGTTTTTTTGAAACTTAATTTGAAAAGCAGATTTTGAAAATACCTCGACACGCGACCCGAGGC
66 TTGATTTTTTTGAAACATAAATTGAAAAACAGAATTTGAAAATACCTCGACACGCGACCCGAGGC
6985821 TCAACTCACCTCTCGCAATATGAGTTGATTTTTG
131 TCAACTCACCTCTCGCAATATGAGTTGATTTTTG
**
6985855 AAAAACAGAAACTAAAAATACCTCAGCGTGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAACTAAAAATACCTCAGCACGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAG
** * * * *
6985920 TTGATTTTTTTGAAAAACATAAATTGAAAAACAGAATTTGAAAATACCTC-A-GTGTGTCCTGAT
66 TTGATTTTTTTG--AAACATAAATTGAAAAACAGAATTTGAAAATACCTCGACACGCGACCCGAG
*
6985983 GCTCAACTCACCTCTCGCAATATGATTTGATTTTT
129 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
6986018 TTTTAAAAGC
Statistics
Matches: 142, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
164 109 0.77
165 1 0.01
166 32 0.23
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (164 bp):
AAAAACAGAAACTAAAAATACCTCAGCACGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTTGAAACATAAATTGAAAAACAGAATTTGAAAATACCTCGACACGCGACCCGAGGC
TCAACTCACCTCTCGCAATATGAGTTGATTTTTG
Found at i:6986005 original size:89 final size:88
Alignment explanation
Indices: 6985852--6986125 Score: 345
Period size: 90 Copynumber: 3.1 Consensus size: 88
6985842 GAGTTGATTT
* * **
6985852 TTGAAAAACAGAAACTAAAAATACCTCAGCGTGTGACCCAAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAG-AATTGAAAATACCTCA--GTGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
*
6985917 GAGTTGATTTTTTTGAAAAACATAAA
63 GAGTTGATTTTTTTGAAAAACAGAAA
* *
6985943 TTGAAAAACAGAATTTGAAAATACCTCAGTGTGTCCTGATGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAA-TTGAAAATACCTCAGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGA
* * *
6986008 TTTGATTTTTTTTTAAAAGCAGAAA
65 GTTGA-TTTTTTTGAAAAACAGAAA
* * * *
6986033 TTGAAAAGCCGACATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGA-ATTGAAAATACCTCAGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGA
*
6986098 GTTGA--TTTTTGACAAACAGAAA
65 GTTGATTTTTTTGAAAAACAGAAA
6986120 TTGAAA
1 TTGAAA
6986126 TTACCTCAGC
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
87 20 0.12
89 37 0.23
90 80 0.50
91 24 0.15
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (88 bp):
TTGAAAAACAGAATTGAAAATACCTCAGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTTGAAAAACAGAAA
Found at i:6986168 original size:73 final size:72
Alignment explanation
Indices: 6986046--6986192 Score: 240
Period size: 73 Copynumber: 2.0 Consensus size: 72
6986036 AAAAGCCGAC
*
6986046 ATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAC
1 ATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-
6986111 AAACAGAA
65 AAACAGAA
* * *
6986119 ATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAA
1 ATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
*
6986184 AATAGAA
66 AACAGAA
6986191 AT
1 AT
6986193 AAAAACATCA
Statistics
Matches: 69, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
72 9 0.13
73 60 0.87
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (72 bp):
ATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
AACAGAA
Found at i:6998408 original size:26 final size:27
Alignment explanation
Indices: 6998379--6998437 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 27
6998369 TATGGCGTTG
*
6998379 AAAAATACATACATAACATAGTAT-TA
1 AAAAATACATACATAACATAATATGTA
* * *
6998405 AAAAACATATACATAAGATAATATGTA
1 AAAAATACATACATAACATAATATGTA
6998432 AAAAAT
1 AAAAAT
6998438 GTAATATAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 20 0.74
27 7 0.26
ACGTcount: A:0.61, C:0.08, G:0.05, T:0.25
Consensus pattern (27 bp):
AAAAATACATACATAACATAATATGTA
Found at i:6998739 original size:27 final size:25
Alignment explanation
Indices: 6998670--6998747 Score: 84
Period size: 27 Copynumber: 2.9 Consensus size: 25
6998660 CACAATATAT
6998670 ATATACACATAATATAGTTATTAAGA
1 ATATACACATAATATAG-TATTAAGA
* *
6998696 AAATACATATAATATATAGTATTAAGA
1 ATATACACAT-A-ATATAGTATTAAGA
*
6998723 ATATACACAATACATATGGTATTAA
1 ATATACAC-ATA-ATATAGTATTAA
6998748 AAAATATAGT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
26 8 0.19
27 27 0.63
28 8 0.19
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.33
Consensus pattern (25 bp):
ATATACACATAATATAGTATTAAGA
Found at i:6998759 original size:15 final size:15
Alignment explanation
Indices: 6998736--6998766 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6998726 TACACAATAC
*
6998736 ATATGGTATTAAAAA
1 ATATAGTATTAAAAA
6998751 ATATAGTATTAAAAA
1 ATATAGTATTAAAAA
6998766 A
1 A
6998767 ACATAATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.32
Consensus pattern (15 bp):
ATATAGTATTAAAAA
Found at i:6999446 original size:11 final size:11
Alignment explanation
Indices: 6999415--6999475 Score: 52
Period size: 11 Copynumber: 5.3 Consensus size: 11
6999405 CTAATGATGC
6999415 TAAAATATATGCA
1 TAAAATATAT--A
6999428 TAATAATATATA
1 TAA-AATATATA
6999440 TAAAATATATA
1 TAAAATATATA
* *
6999451 CACAATATAGT-
1 TAAAATATA-TA
*
6999462 TACAATATATA
1 TAAAATATATA
6999473 TAA
1 TAA
6999476 TCGTAATATA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
10 1 0.02
11 25 0.61
12 5 0.12
13 3 0.07
14 7 0.17
ACGTcount: A:0.56, C:0.07, G:0.03, T:0.34
Consensus pattern (11 bp):
TAAAATATATA
Found at i:7000260 original size:11 final size:9
Alignment explanation
Indices: 7000240--7000273 Score: 50
Period size: 9 Copynumber: 3.6 Consensus size: 9
7000230 GAGGTAACCT
7000240 TTTTTTTTA
1 TTTTTTTTA
7000249 TTTTTTCATTA
1 TTTTTT--TTA
7000260 TTTTTTTTA
1 TTTTTTTTA
7000269 TTTTT
1 TTTTT
7000274 AATAATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 14 0.61
11 9 0.39
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:7000349 original size:27 final size:27
Alignment explanation
Indices: 7000300--7000375 Score: 86
Period size: 27 Copynumber: 2.8 Consensus size: 27
7000290 ATGTACATAA
7000300 AAAGAGAGAAA-AAAATAAA-AAATAAACG
1 AAAGA-AGAAAGAAAA-AAAGAAAT-AACG
**
7000328 AAA-AAGAAAGAAAAAAAGAAATTTCG
1 AAAGAAGAAAGAAAAAAAGAAATAACG
7000354 AAAGAAGAAAGAAAAAAAGAAA
1 AAAGAAGAAAGAAAAAAAGAAA
7000376 ATGATGTCAA
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
26 13 0.30
27 27 0.63
28 3 0.07
ACGTcount: A:0.75, C:0.03, G:0.16, T:0.07
Consensus pattern (27 bp):
AAAGAAGAAAGAAAAAAAGAAATAACG
Found at i:7000874 original size:27 final size:25
Alignment explanation
Indices: 7000843--7000902 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 25
7000833 TGTGGGTTTA
*
7000843 TTTTGGGTTGTTTGTTTGGAAATTGGG
1 TTTTGGGTTG-TTGGTTGGAAA-TGGG
*
7000870 TTTTGGGTTGTTGGTTGTAAATGGG
1 TTTTGGGTTGTTGGTTGGAAATGGG
*
7000895 GTTTGGGT
1 TTTTGGGT
7000903 AATTTGGGCT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
25 11 0.37
26 9 0.30
27 10 0.33
ACGTcount: A:0.10, C:0.00, G:0.40, T:0.50
Consensus pattern (25 bp):
TTTTGGGTTGTTGGTTGGAAATGGG
Found at i:7000898 original size:26 final size:27
Alignment explanation
Indices: 7000843--7000902 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 27
7000833 TGTGGGTTTA
* *
7000843 TTTTGGGTTGTTTGTTTGGAAATTGGG
1 TTTTGGGTTGTTTGGTTGGAAATGGGG
*
7000870 TTTTGGGTTG-TTGGTTGTAAATGGGG
1 TTTTGGGTTGTTTGGTTGGAAATGGGG
7000896 -TTTGGGT
1 TTTTGGGT
7000903 AATTTGGGCT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
25 7 0.23
26 13 0.43
27 10 0.33
ACGTcount: A:0.10, C:0.00, G:0.40, T:0.50
Consensus pattern (27 bp):
TTTTGGGTTGTTTGGTTGGAAATGGGG
Found at i:7002628 original size:24 final size:24
Alignment explanation
Indices: 7002575--7002628 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
7002565 AATGATATTT
****
7002575 AAAATATTTTACATATTTTTTTTA
1 AAAATATTTTACATATTTGAAATA
7002599 AAAATATTTTACATATTTGAAATA
1 AAAATATTTTACATATTTGAAATA
*
7002623 ATAATA
1 AAAATA
7002629 ATATTTCAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (24 bp):
AAAATATTTTACATATTTGAAATA
Found at i:7008145 original size:73 final size:73
Alignment explanation
Indices: 7008046--7008192 Score: 276
Period size: 73 Copynumber: 2.0 Consensus size: 73
7008036 AAAAATTATT
*
7008046 TAAATTTATTTCTTTAAGAAGTCCACTCTCATTTCGATTGTCTCCAGTTATCCAAAAAATACTGT
1 TAAATTTATTTCTTTAAGAAGTCCACTCTCATTTCGATTGTCTCCAGTAATCCAAAAAATACTGT
7008111 TCTATCAC
66 TCTATCAC
*
7008119 TAAATTTATTTCTTTAAGAAGTCCACTCTCATTTCGATTGTCTCCAGTAATCCAGAAAATACTGT
1 TAAATTTATTTCTTTAAGAAGTCCACTCTCATTTCGATTGTCTCCAGTAATCCAAAAAATACTGT
7008184 TCTATCAC
66 TCTATCAC
7008192 T
1 T
7008193 CCCATTTTCA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (73 bp):
TAAATTTATTTCTTTAAGAAGTCCACTCTCATTTCGATTGTCTCCAGTAATCCAAAAAATACTGT
TCTATCAC
Found at i:7009304 original size:13 final size:13
Alignment explanation
Indices: 7009288--7009314 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7009278 GGGAAAGTTG
7009288 GGAAGGAATTAAA
1 GGAAGGAATTAAA
7009301 GGAAGGAATTAAA
1 GGAAGGAATTAAA
7009314 G
1 G
7009315 TGAGTGTGCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.33, T:0.15
Consensus pattern (13 bp):
GGAAGGAATTAAA
Found at i:7013092 original size:293 final size:288
Alignment explanation
Indices: 7012518--7013102 Score: 642
Period size: 293 Copynumber: 2.0 Consensus size: 288
7012508 TGCGTCTCTG
* *
7012518 AGATGGAGACGCTAATGCCTGCAATAAATTTGAACATACATCGATCAAGAAATTCCTAAACGCAG
1 AGATGAAGACGCTAATGCCTGCAATAAATTTGAACATACATCGATCAAGAAACTCCTAAACGCAG
* * * ** *
7012583 AATAAGTGCTTTTATTACTTTTGAGTTTGGATCAAATGATTAGCAGAAACGATGTAATTAATATG
66 AAGAAGTGCTTTTATTAC-TTT--GTTTAGATCAAATGATTAGCAGAAACAATAAAATAAATATG
* * *
7012648 AGACTTCCCAGGGTCCAGACGCTAGTAAATACTCAAACCATTACCTAAAATGTTAAACCTTAAAC
128 AGACTTCACAGAGTCCAGACGCTAGTAAATACTCAAACCATTACCTAAAACGTTAAACCTTAAAC
* * * * *
7012713 CTATTATATCCCTTTTACGAGAAAAAAAAAGAAAAGAAATCAGAAGATTGTTTTTTTAAAAAAAT
193 CTAATATATCCCTTTTACGAGAAAAAAAAAAAAAACAAATCAAAAGATTG--TATTTAAAAAAAT
*** * *
7012778 CTTAAACAAATTCGGTTTTCCTCTCATCATATA
256 AAAAAAAAAATTCGCTTTTCCTCTCATCATATA
* * ** *
7012811 AGATGAAGACGCTAATGCCTGCAATCAATTTGAACATACATCGATCAATAGGCTCTTAAACGCAG
1 AGATGAAGACGCTAATGCCTGCAATAAATTTGAACATACATCGATCAAGAAACTCCTAAACGCAG
* *
7012876 AAAAAGAAGTGCTTTTATTAC-TT-TTTAGATCAAGTGCTTAGCAGAAACAATAAAATAAA-ATT
66 ---AAGAAGTGCTTTTATTACTTTGTTTAGATCAAATGATTAGCAGAAACAATAAAATAAATA-T
* * *
7012938 AGAAGACTTTACAGAGTCCAGACGCTAGTAAATACTC-AATCATTACCTAAAACGTTAAATCTTA
127 -G-AGACTTCACAGAGTCCAGACGCTAGTAAATACTCAAACCATTACCTAAAACGTTAAACCTTA
* * *
7013002 AACCTAATATA-CTCCTTTTTCGAGAAAAAACAACAAAAAACAAATTAAAAGATTG-ATTTGAAA
190 AACCTAATATATC-CCTTTTACGAGAAAAAA-AA-AAAAAACAAATCAAAAGATTGTATTTAAAA
** * *
7013065 ACGTAAAAAAAAATATTCCGCTTTTCCTTTTATCATAT
252 AAATAAAAAAAAA-ATT-CGCTTTTCCTCTCATCATAT
7013103 CGAGAAACAA
Statistics
Matches: 243, Mismatches: 38, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
290 1 0.00
291 44 0.18
292 54 0.22
293 108 0.44
294 19 0.08
296 17 0.07
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (288 bp):
AGATGAAGACGCTAATGCCTGCAATAAATTTGAACATACATCGATCAAGAAACTCCTAAACGCAG
AAGAAGTGCTTTTATTACTTTGTTTAGATCAAATGATTAGCAGAAACAATAAAATAAATATGAGA
CTTCACAGAGTCCAGACGCTAGTAAATACTCAAACCATTACCTAAAACGTTAAACCTTAAACCTA
ATATATCCCTTTTACGAGAAAAAAAAAAAAAACAAATCAAAAGATTGTATTTAAAAAAATAAAAA
AAAAATTCGCTTTTCCTCTCATCATATA
Found at i:7014025 original size:15 final size:16
Alignment explanation
Indices: 7014005--7014037 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
7013995 TTTATATTAG
7014005 TATTG-TATTTATAAT
1 TATTGATATTTATAAT
7014020 TATTGTATATTTATAAT
1 TATTG-ATATTTATAAT
7014037 T
1 T
7014038 GTAATCTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
17 11 0.69
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (16 bp):
TATTGATATTTATAAT
Found at i:7014496 original size:7 final size:7
Alignment explanation
Indices: 7014484--7014514 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
7014474 CATTCCATTG
7014484 TTTTTTC
1 TTTTTTC
7014491 TTTTTTC
1 TTTTTTC
7014498 TTTTTTC
1 TTTTTTC
7014505 TTTTTT-
1 TTTTTTC
7014511 TTTT
1 TTTT
7014515 ACAAATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 20 0.83
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (7 bp):
TTTTTTC
Found at i:7020170 original size:16 final size:16
Alignment explanation
Indices: 7020149--7020200 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
7020139 TTTGGTTCGC
7020149 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
7020165 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
7020181 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
7020197 TGTA
1 TGTA
7020201 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:7020247 original size:45 final size:44
Alignment explanation
Indices: 7020181--7020275 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 44
7020171 GGATTAGAGG
*
7020181 TGTAATGGAATAGAGGTGTAATAGC-AAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAT--ACTGTTTGGTTGAA
* **
7020226 TGTAATGGAATAGAGGCGTAATAGTAAAATTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAATACTGTTTGGTTGAA
7020270 TGTAAT
1 TGTAAT
7020276 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
44 18 0.40
45 23 0.51
46 4 0.09
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAATACTGTTTGGTTGAA
Found at i:7020445 original size:25 final size:25
Alignment explanation
Indices: 7020413--7020467 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
7020403 TAATTTAATC
*
7020413 ATAT-TTAAACATAATTATTATT-AA
1 ATATATTAAACAT-ATTATAATTAAA
*
7020437 ATATATTAAATATATTATAATTAAA
1 ATATATTAAACATATTATAATTAAA
7020462 ATATAT
1 ATATAT
7020468 AATTTAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
ATATATTAAACATATTATAATTAAA
Found at i:7020649 original size:47 final size:46
Alignment explanation
Indices: 7020598--7020758 Score: 140
Period size: 47 Copynumber: 3.6 Consensus size: 46
7020588 GATTTAATAA
7020598 AATTTAAAATAATTATAACTAATAAATTATCTTATATGAATTTGTAT
1 AATTTAAAATAATTATAA-TAATAAATTATCTTATATGAATTTGTAT
* * * * *
7020645 AATTTAAAATAATTATTATTACATATAAT-TTA-AT-AA---GATAT
1 AATTTAAAATAATTATAATAATAAATTATCTTATATGAATTTG-TAT
* * * *
7020686 AATTTCATAA-AATTATTGATAATAAATTTTCTTATATGAATTTATAT
1 AATTT-AAAATAATTA-TAATAATAAATTATCTTATATGAATTTGTAT
7020733 AATTTAAAATAATT-TATATAATAAAT
1 AATTTAAAATAATTATA-ATAATAAAT
7020759 CTATTGTATA
Statistics
Matches: 88, Mismatches: 15, Indels: 23
0.70 0.12 0.18
Matches are distributed among these distances:
40 1 0.01
41 13 0.15
42 11 0.12
43 5 0.06
44 4 0.05
45 6 0.07
46 19 0.22
47 29 0.33
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (46 bp):
AATTTAAAATAATTATAATAATAAATTATCTTATATGAATTTGTAT
Found at i:7029905 original size:10 final size:10
Alignment explanation
Indices: 7029892--7029929 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
7029882 TGGAATATGG
*
7029892 ATAAATAAAA
1 ATAAATAAAT
7029902 ATAAATAAAT
1 ATAAATAAAT
7029912 A-AAATAGAAT
1 ATAAATA-AAT
7029922 ATAAATAA
1 ATAAATAA
7029930 GATAAAGATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 5 0.20
10 15 0.60
11 5 0.20
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (10 bp):
ATAAATAAAT
Found at i:7029911 original size:14 final size:16
Alignment explanation
Indices: 7029892--7029929 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
7029882 TGGAATATGG
*
7029892 ATAAATAAAA-ATAA-
1 ATAAATAAAATAGAAT
7029906 ATAAATAAAATAGAAT
1 ATAAATAAAATAGAAT
7029922 ATAAATAA
1 ATAAATAA
7029930 GATAAAGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.48
15 3 0.14
16 8 0.38
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (16 bp):
ATAAATAAAATAGAAT
Found at i:7037879 original size:12 final size:12
Alignment explanation
Indices: 7037857--7037892 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
7037847 AACAAAAAAT
7037857 TGAAGTAAATAAG
1 TGAA-TAAATAAG
7037870 TGAATAAATAAG
1 TGAATAAATAAG
*
7037882 TGAGTAAATAA
1 TGAATAAATAA
7037893 CTAAAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 18 0.82
13 4 0.18
ACGTcount: A:0.56, C:0.00, G:0.19, T:0.25
Consensus pattern (12 bp):
TGAATAAATAAG
Done.