Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 121 of 318
Found at i:37117686 original size:54 final size:54
Alignment explanation
Indices: 37117430--37117723 Score: 293
Period size: 54 Copynumber: 5.4 Consensus size: 54
37117420 ATTACCAAAG
* ** *
37117430 TACCCTCGATTTACAGAATTACTGTTTTACCCTTAATTTACAAAGTTACCATTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTTAATTTACAAAATTACCATTT
** * **
37117484 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTATTATTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTTAATTTACAAAATTACCATTT
* * * *
37117538 TACCCTCGATTTATAGAATTACCGTTTTACCCTTGATTTATAAAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTTAATTTACAAAATTACCATTT
* * * * * *
37117592 TACCCTCAATTTATAGAATTACCGTTTTATCCTCAATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTTAATTTACAAAATTACCATTT
* * * *** ** ***
37117646 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAGAATTACCATTTTACCCTTAATTTACAAAATTACCATTT
*
37117700 TACCCTCGA-TTAGTAAAATTACCA
1 TACCCTCGATTTA-TAGAATTACCA
37117724 AAATACCCTT
Statistics
Matches: 198, Mismatches: 41, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
53 3 0.02
54 195 0.98
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.38
Consensus pattern (54 bp):
TACCCTCGATTTATAGAATTACCATTTTACCCTTAATTTACAAAATTACCATTT
Found at i:37117765 original size:27 final size:27
Alignment explanation
Indices: 37117660--37117868 Score: 190
Period size: 27 Copynumber: 7.8 Consensus size: 27
37117650 CTCGATTTAC
* * **
37117660 AAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
37117687 AAAATTACCAAAATA-CCCTCGATTAGT
1 AAAATTACCAAAATACCCCT-GGTTTGT
* *
37117714 AAAATTACCAAAATACCCTTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
37117741 AAAATTACTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * *
37117768 AAAATTACAAAAAAACCCCTGGCTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
**
37117795 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * * * *
37117822 GAAATTATCGAAATA-CTCTCGATTTGT
1 AAAATTACCAAAATACCCCT-GGTTTGT
* *
37117849 AAAA-TATCGAAATACCCCTG
1 AAAATTACCAAAATACCCCTG
37117869 TAGGGTAGAA
Statistics
Matches: 150, Mismatches: 28, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
26 17 0.11
27 130 0.87
28 3 0.02
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:37117837 original size:81 final size:81
Alignment explanation
Indices: 37117660--37117828 Score: 232
Period size: 81 Copynumber: 2.1 Consensus size: 81
37117650 CTCGATTTAC
* * *
37117660 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATTAGTAAAATTACCAA
1 AAAATTACTAAAATACCCCTGGTTTACAAAATTACAAAAAAACCCTCGATTAGTAAAATTACCAA
* *
37117725 AATACCCTTAGTTTGT
66 AATACCCCTAATTTGT
** * *
37117741 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACAAAAAAACCCCTGGCTT-GTAAAATTACCA
1 AAAATTACTAAAATACCCCTGGTTTACAAAATTACAAAAAAA-CCCTCGATTAGTAAAATTACCA
37117805 AAATACCCCTAATTTGT
65 AAATACCCCTAATTTGT
*
37117822 GAAATTA
1 AAAATTA
37117829 TCGAAATACT
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
81 70 0.91
82 7 0.09
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.30
Consensus pattern (81 bp):
AAAATTACTAAAATACCCCTGGTTTACAAAATTACAAAAAAACCCTCGATTAGTAAAATTACCAA
AATACCCCTAATTTGT
Found at i:37118145 original size:25 final size:25
Alignment explanation
Indices: 37118111--37118204 Score: 145
Period size: 25 Copynumber: 3.8 Consensus size: 25
37118101 GGAGGAAGTG
*
37118111 CTAAAAGGGCTATGCCCCAGTTTAC
1 CTAAAAGGGCTTTGCCCCAGTTTAC
37118136 CTAAAAGGGCTTTGCCCCAGTTTAC
1 CTAAAAGGGCTTTGCCCCAGTTTAC
*
37118161 C-AAAACGGGCTTTGCCCCAGTTTAT
1 CTAAAA-GGGCTTTGCCCCAGTTTAC
*
37118186 CAAAAAGGGCTTTGCCCCA
1 CTAAAAGGGCTTTGCCCCA
37118205 ATTATTAAAA
Statistics
Matches: 65, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
24 4 0.06
25 57 0.88
26 4 0.06
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (25 bp):
CTAAAAGGGCTTTGCCCCAGTTTAC
Found at i:37118231 original size:50 final size:49
Alignment explanation
Indices: 37118111--37118232 Score: 147
Period size: 50 Copynumber: 2.4 Consensus size: 49
37118101 GGAGGAAGTG
* *
37118111 CTAAAAGGGCTATGCCCCAGTTTACCTAAAAGGGCTTTGCCCCAGTTTA
1 CTAAAAGGGCTATGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGATTA
* * *
37118160 CCAAAACGGGCTTTGCCCCAGTTTATCAAAAAGGGCTTTGCCCCA-ATTA
1 CTAAAA-GGGCTATGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGATTA
* *
37118209 TTAAAAGAGGCTAGGCCTCCAGTT
1 CTAAAAG-GGCTATGCC-CCAGTT
37118233 ATATGATAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
48 1 0.02
49 19 0.31
50 41 0.67
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.25
Consensus pattern (49 bp):
CTAAAAGGGCTATGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGATTA
Found at i:37127504 original size:40 final size:40
Alignment explanation
Indices: 37127445--37127586 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
37127435 AAATTGAATG
* * *
37127445 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
37127485 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
37127525 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
37127565 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
37127587 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:37127587 original size:40 final size:39
Alignment explanation
Indices: 37127484--37127673 Score: 148
Period size: 40 Copynumber: 4.7 Consensus size: 39
37127474 TGCTGGAAAT
* * **
37127484 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTCAC
*
37127524 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTCAC
* * * *
37127564 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-G
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGAGTCAC
* * * * * *
37127603 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTCAC
* * * *
37127644 CATAACCGGGCTATGTCCCGAAGGCGATTG
1 TATATCCGGGCTAAGACCCGAAGGC-ATTG
37127674 ATCGAGTAGC
Statistics
Matches: 119, Mismatches: 25, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
39 6 0.05
40 109 0.92
41 4 0.03
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTCAC
Found at i:37127609 original size:80 final size:79
Alignment explanation
Indices: 37127443--37127638 Score: 198
Period size: 80 Copynumber: 2.4 Consensus size: 79
37127433 AGAAATTGAA
* * * *
37127443 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGG
1 TGATATCCGGGCTAAGACCCGAAGGC-ATTGTGC-GGAAATTATATCCGGGCTAAGACCCGAAGG
* * *
37127508 CAATTGTGCTAGTGGC
64 CAATTGTGCAAATCGC
** *
37127524 T-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCTATCCGGGCTAAGACCCGAAGG
1 TGATATCCGGGCTAAGACCCGAAGGCATT-GTGCG-GAAATTATATCCGGGCTAAGACCCGAAGG
*
37127588 CATTTGTGCAAATCG-
64 CAATTGTGCAAATCGC
* * * *
37127603 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGG
1 TGATATCCGGGCTAAGACCCGAAGGCATT-GTGCGG
37127639 GTTACCATAA
Statistics
Matches: 96, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
79 6 0.06
80 89 0.93
81 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (79 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTGTGCGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCAAATCGC
Found at i:37127653 original size:80 final size:80
Alignment explanation
Indices: 37127489--37127673 Score: 185
Period size: 80 Copynumber: 2.3 Consensus size: 80
37127479 GAAATTATAT
* * * *
37127489 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTATATCCGGGCTAAGACCCGAAGGCATTCG
* *
37127554 TGCGAGTCATTCTAT
66 TGCGAGTCATCCTAA
* * * * * *
37127569 CCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGCCTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ATATCCGGGCTAAGACCCGAAGGCATTC
* *
37127633 GTGCGGGTTA-CCATAA
65 GTGCGAGTCATCC-TAA
* * *
37127649 CCGGGCTATGTCCCGAAGGCGATTG
1 CCGGGCTAAGACCCGAAGGCAATTG
37127674 ATCGAGTAGC
Statistics
Matches: 85, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
79 2 0.02
80 83 0.98
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTATATCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTCATCCTAA
Found at i:37134280 original size:30 final size:30
Alignment explanation
Indices: 37134244--37134344 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
37134234 GACAAGATTG
* * *
37134244 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
37134274 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
37134302 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
37134331 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
37134345 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:37134356 original size:29 final size:28
Alignment explanation
Indices: 37134273--37134348 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
37134263 AAAATTGTAC
* *
37134273 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
37134301 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
37134330 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
37134349 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:37142168 original size:30 final size:30
Alignment explanation
Indices: 37142132--37142232 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
37142122 GACAAGATTG
* * *
37142132 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
37142162 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
37142190 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
37142219 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
37142233 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:37142244 original size:29 final size:28
Alignment explanation
Indices: 37142161--37142236 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
37142151 AAAATTGTAC
* *
37142161 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
37142189 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
37142218 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
37142237 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:37153708 original size:24 final size:24
Alignment explanation
Indices: 37153661--37153778 Score: 172
Period size: 23 Copynumber: 5.0 Consensus size: 24
37153651 GCTTTATCAT
*
37153661 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
37153686 ATAACTGGGGCA-AAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
37153710 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
37153733 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
37153756 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
37153779 GCACTTCCTC
Statistics
Matches: 88, Mismatches: 1, Indels: 9
0.90 0.01 0.09
Matches are distributed among these distances:
23 47 0.53
24 27 0.31
25 14 0.16
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:37153850 original size:9 final size:9
Alignment explanation
Indices: 37153836--37153912 Score: 55
Period size: 9 Copynumber: 7.9 Consensus size: 9
37153826 ATCTCGTGTG
37153836 CATATCATA
1 CATATCATA
*
37153845 CATATCATGTG
1 CATATCA--TA
37153856 CATATCATA
1 CATATCATA
* * *
37153865 CGTGTCATGTG
1 CATATCA--TA
37153876 CATATCATA
1 CATATCATA
*
37153885 CATATCATGTG
1 CATATCA--TA
37153896 CATATCATA
1 CATATCATA
37153905 CATATCAT
1 CATATCAT
37153913 GTTTATCAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
9 30 0.58
11 22 0.42
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:37153855 original size:20 final size:20
Alignment explanation
Indices: 37153832--37153914 Score: 148
Period size: 20 Copynumber: 4.2 Consensus size: 20
37153822 GAACATCTCG
37153832 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
* *
37153852 TGTGCATATCATACGTGTCA
1 TGTGCATATCATACATATCA
37153872 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
37153892 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
37153912 TGT
1 TGT
37153915 TTATCAAAAT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.36
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:37153861 original size:11 final size:11
Alignment explanation
Indices: 37153832--37153903 Score: 57
Period size: 11 Copynumber: 7.1 Consensus size: 11
37153822 GAACATCTCG
37153832 TGTGCATATCA
1 TGTGCATATCA
*
37153843 --TACATATCA
1 TGTGCATATCA
37153852 TGTGCATATCA
1 TGTGCATATCA
* * *
37153863 --TACGTGTCA
1 TGTGCATATCA
37153872 TGTGCATATCA
1 TGTGCATATCA
*
37153883 --TACATATCA
1 TGTGCATATCA
37153892 TGTGCATATCA
1 TGTGCATATCA
37153903 T
1 T
37153904 ACATATCATG
Statistics
Matches: 45, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
9 22 0.49
11 23 0.51
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (11 bp):
TGTGCATATCA
Found at i:37153979 original size:25 final size:25
Alignment explanation
Indices: 37153951--37153998 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
37153941 ATGTATAAAC
* * *
37153951 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
37153976 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
37153999 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:37155221 original size:27 final size:27
Alignment explanation
Indices: 37155159--37155246 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 27
37155149 GGGCATATTC
37155159 GTCATTTTACCATACAGGGGTATTACA
1 GTCATTTTACCATACAGGGGTATTACA
* * *
37155186 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACA
* * **
37155213 GTCTTTTTACC-TAATAGGGGTATTTTA
1 GTCATTTTACCAT-ACAGGGGTATTACA
37155240 GTCATTT
1 GTCATTT
37155247 CATCCTACAA
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
26 2 0.04
27 45 0.94
28 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACA
Found at i:37155425 original size:54 final size:54
Alignment explanation
Indices: 37155367--37155506 Score: 192
Period size: 54 Copynumber: 2.6 Consensus size: 54
37155357 TGTAAATCAG
37155367 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
* * * * *
37155421 GGGTATTTTGATAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAACTAA
1 GGGTATTTTGGTAATTTTACAAATTGA-GGGTATTTCGGTAATTTCACAAACCAA
* * *
37155475 GGGTATTTTAGTAATTTTATAAATCGAGGGTA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTA
37155507 AAATAGTAAT
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
53 1 0.01
54 72 0.97
55 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
Found at i:37155505 original size:27 final size:27
Alignment explanation
Indices: 37155254--37155560 Score: 165
Period size: 27 Copynumber: 11.3 Consensus size: 27
37155244 TTTCATCCTA
* * * * * *
37155254 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAT
* * * *
37155281 CAAGGGTATTTCAGTAATTTTGTTAAC
1 CAAGGGTATTTTAGTAATTTTATAAAT
* *
37155308 CAATGGTATTTCTA-TAATTTTTAGAAAGT
1 CAAGGGTATTT-TAGTAA-TTTTATAAA-T
* *
37155337 CAAGGGTATTTCTA-TAACTTTGTAAAT
1 CAAGGGTATTT-TAGTAATTTTATAAAT
* * *
37155364 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
** ** * * *
37155391 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAT
*
37155418 CAAGGGTATTTT-GATAATTTTACAAA-
1 CAAGGGTATTTTAG-TAATTTTATAAAT
* * *
37155444 CTAGGGGTATTTTGGTAATTTTACAAA-
1 C-AAGGGTATTTTAGTAATTTTATAAAT
37155471 CTAAGGGTATTTTAGTAATTTTATAAAT
1 C-AAGGGTATTTTAGTAATTTTATAAAT
* *** * *
37155499 CGAGGGTAAAATAGTAATTCTGTAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
*** *
37155526 CAAGGGTAAAATAGTAATTCTATAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
*
37155553 CGAGGGTA
1 CAAGGGTA
37155561 AAACTGTAAT
Statistics
Matches: 226, Mismatches: 46, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
26 3 0.01
27 192 0.85
28 15 0.07
29 16 0.07
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.37
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTATAAAT
Found at i:37155533 original size:81 final size:80
Alignment explanation
Indices: 37155350--37155533 Score: 192
Period size: 81 Copynumber: 2.3 Consensus size: 80
37155340 GGGTATTTCT
* * *
37155350 ATAACTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACA
1 ATAA-TTTGTAAATCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTCACA
** *
37155415 AACCAAGGGTATTTTG
65 AACCAAGGGTAAATAG
* * * *
37155431 ATAATTT-TACAAACTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAATTTTAT
1 ATAATTTGTA-AATC-AGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTCAC
* *
37155495 AAATCGAGGGTAAAATAG
64 AAACCAAGGGT-AAATAG
*
37155513 -TAATTCTGTAAATCAAGGGTA
1 ATAATT-TGTAAATCAGGGGTA
37155534 AAATAGTAAT
Statistics
Matches: 84, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
79 2 0.02
80 6 0.07
81 67 0.80
82 7 0.08
83 2 0.02
ACGTcount: A:0.35, C:0.08, G:0.20, T:0.38
Consensus pattern (80 bp):
ATAATTTGTAAATCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTCACAA
ACCAAGGGTAAATAG
Found at i:37155559 original size:81 final size:81
Alignment explanation
Indices: 37155482--37155749 Score: 231
Period size: 81 Copynumber: 3.3 Consensus size: 81
37155472 TAAGGGTATT
* * *
37155482 TTAGTAATTTTATAAATCGAGGGTAAAA-TAGTAATTCTGTAAATCAAGGGTAAAATAGTAATTC
1 TTAGTAATTTTATAAATCGAGGGTAAAACGA-TAATTCTGTAAATCGAGGGTAAAATAGTAATTA
37155546 TATAAATCGAGGGTAAAA
65 TATAAATCGAGGGT-AAA
* * * * *
37155564 CT-GTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAGTCGAGGGTAAAA-CGATAATTA
1 TTAGTAATTTTATAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATAG-TAATTA
*
37155627 TGTAAATC-AGGGGTAAA
65 TATAAATCGA-GGGTAAA
* * * * * * *** * *
37155644 ATGGTAATTATGTAAATCGGGGGTAAAACGATAATTCTGTAAATCGGGGGTACTTTGGTAATTTT
1 TTAGTAATTTTATAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATAGTAATTAT
* * * *
37155709 ACAAGTCGAAGGT-AT
66 ATAAATCGAGGGTAAA
*
37155724 TTCAGTAATTTTACAAATCGAGGGTA
1 TT-AGTAATTTTATAAATCGAGGGTA
37155750 TTTCAATATT
Statistics
Matches: 149, Mismatches: 30, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
80 8 0.05
81 137 0.92
82 4 0.03
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (81 bp):
TTAGTAATTTTATAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATAGTAATTAT
ATAAATCGAGGGTAAA
Found at i:37155561 original size:27 final size:27
Alignment explanation
Indices: 37155483--37155695 Score: 229
Period size: 27 Copynumber: 7.9 Consensus size: 27
37155473 AAGGGTATTT
* *
37155483 TAGTAATTTTATAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
*
37155510 TAGTAATTCTGTAAATCAAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
*
37155537 TAGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
37155564 CT-GTAATTCTGTAAATCGAGGGTAAAA
1 -TAGTAATTCTGTAAATCGAGGGTAAAA
* *
37155591 -CGATAATTCTGTAAGTCGAGGGTAAAA
1 TAG-TAATTCTGTAAATCGAGGGTAAAA
* *
37155618 -CGATAATTATGTAAATC-AGGGGTAAAA
1 TAG-TAATTCTGTAAATCGA-GGGTAAAA
* * *
37155645 TGGTAATTATGTAAATCGGGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
37155672 -CGATAATTCTGTAAATCGGGGGTA
1 TAG-TAATTCTGTAAATCGAGGGTA
37155696 CTTTGGTAAT
Statistics
Matches: 166, Mismatches: 13, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
26 3 0.02
27 161 0.97
28 2 0.01
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
TAGTAATTCTGTAAATCGAGGGTAAAA
Found at i:37155706 original size:54 final size:54
Alignment explanation
Indices: 37155485--37155688 Score: 259
Period size: 54 Copynumber: 3.8 Consensus size: 54
37155475 GGGTATTTTA
* * *
37155485 GTAATTTTATAAATCGAGGGTAAAA-TAGTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAACGA-TAATTCTGTAAATCAAGGGTAAAATG
* *
37155539 GTAATTCTATAAATCGAGGGTAAAACTG-TAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAAC-GATAATTCTGTAAATCAAGGGTAAAATG
* * * * *
37155593 ATAATTCTGTAAGTCGAGGGTAAAACGATAATTATGTAAATCAGGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATCAAGGGTAAAATG
* * *
37155647 GTAATTATGTAAATCGGGGGTAAAACGATAATTCTGTAAATC
1 GTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATC
37155689 GGGGGTACTT
Statistics
Matches: 130, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
53 1 0.01
54 129 0.99
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (54 bp):
GTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATCAAGGGTAAAATG
Found at i:37155722 original size:27 final size:27
Alignment explanation
Indices: 37155701--37155790 Score: 110
Period size: 27 Copynumber: 3.3 Consensus size: 27
37155691 GGGTACTTTG
*
37155701 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
37155728 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * * *
37155755 ATATTTTTACAAA-CTAAGGGTATTTCG
1 GTAATTTTACAAATCGAA-GGTATTTCA
37155782 GTAATTTTA
1 GTAATTTTA
37155791 GTAAACTAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 2 0.04
27 51 0.96
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:37157806 original size:506 final size:506
Alignment explanation
Indices: 37156854--37157863 Score: 1662
Period size: 506 Copynumber: 2.0 Consensus size: 506
37156844 ATTCAGCCCA
* * * *
37156854 ATTAGACTGGAGCCTCTCAATAATAGATCCATGGTTCCTAGATCAAGTTTGGGCTCTAACAACCC
1 ATTAGACCGGAGCCTCTCAATAACAGATCCATGGTTCCCAGATCAAGTTTGGGCTCCAACAACCC
* * * *
37156919 TTTGAAGAACCCTTAGCATCACTTGCGATACTGTATCATCACCATTATCATACCATTAGTCACTA
66 TTTGAAGAACCCTTAGCATCACTTACGATACTGCATCATCACCATTATCATACCATTAGCCACCA
*
37156984 ATGGCAAATAAATCCTCTATGTAATCCACCTCAGGAGTTAGGCTTTCATCCTAAGTGATAAGCAG
131 ATGGCAAATAAATCCTCTATGTAATCCACCTCAGGAATTAGGCTTTCATCCTAAGTGATAAGCAG
* * * *
37157049 CTTAACAGGAGCAACCTTATGCGGCCTACCTCTACCACGTCTACCTTGGGTACTCATAATGAATT
196 CTCAACAGGAGCAACCCTATACGGCCTACCTCTACCACGTCTACCTCGGGTACTCATAATGAATT
*
37157114 CCCAAAAATTTAAAGTCTAAAGTATATCTATAATTTTCAAATAAAAGTTCAAGAATTAGTTATTT
261 CCCAAAAATTTAAAGTCTAAAGTATATCTATAATTTTCAAATAAAAGTTCAAGAATTAATTATTT
* * * * *
37157179 TCTTAAGTGTTTATATTCTAAAGTTTACAGTTTCTAGTCTAATGTTTGACTACAGTTTTAAGAAA
326 TCTTAAGTGTTTATAATCTAAAGGTTACAATTTCTAGTCCAAAGTTTGACTACAGTTTTAAGAAA
*
37157244 TAACAATAAATAAGTTAGGATTGGCATCGGAGTCTCGAATTTAATTTCTTTGAAGAAAATCCTTT
391 TAACAATAAATAAGTCAGGATTGGCATCGGAGTCTCGAATTTAATTTCTTTGAAGAAAATCCTTT
37157309 TTCAAAAGTTTGTGGCTTGGTTTTTCCAAAAATACCCCATTTTTAAGACCC
456 TTCAAAAGTTTGTGGCTTGGTTTTTCCAAAAATACCCCATTTTTAAGACCC
*
37157360 ATTAGACCGGAGCCTCTCAATAACAGATCCATGGTTCCCAGATCAAGTTTGGGCTCCAACAACCT
1 ATTAGACCGGAGCCTCTCAATAACAGATCCATGGTTCCCAGATCAAGTTTGGGCTCCAACAACCC
* *
37157425 TTTGAAGAACCCTTAGCATCGCTTACGATACTGCATCATCACCATTATCATACTATCTA-CCACC
66 TTTGAAGAACCCTTAGCATCACTTACGATACTGCATCATCACCATTATCATACCAT-TAGCCACC
* * * * *
37157489 AATGGTAGATAAATCCTCTATGTAATCCACCTCAGGAATTGGGCTTTCATCCTAAGTGATAATCG
130 AATGGCAAATAAATCCTCTATGTAATCCACCTCAGGAATTAGGCTTTCATCCTAAGTGATAAGCA
*
37157554 GCTCAACAGGAGCAACCCTATACGGCCTACCTCTACCACGTCTGCCTCGGGTACTCATAATGAAT
195 GCTCAACAGGAGCAACCCTATACGGCCTACCTCTACCACGTCTACCTCGGGTACTCATAATGAAT
** * *
37157619 TCCCAAAAATTTAGTGTCTAGAGTATATCTATAGTTTTCAAATAAAAGTTCAAGAATTAATTATT
260 TCCCAAAAATTTAAAGTCTAAAGTATATCTATAATTTTCAAATAAAAGTTCAAGAATTAATTATT
* * *
37157684 TTCTTGAGTGTTTATAATCTAAAGGTTACAATTTCTAGTCCAAAGTTTGACTATAGTTTTCAGAA
325 TTCTTAAGTGTTTATAATCTAAAGGTTACAATTTCTAGTCCAAAGTTTGACTACAGTTTTAAGAA
* *
37157749 ATAATAGTAAATAAGTCAGGATTGGCATCGGAGTCTCGAATTTAATTTCTTTGAAGAAAATCCTT
390 ATAACAATAAATAAGTCAGGATTGGCATCGGAGTCTCGAATTTAATTTCTTTGAAGAAAATCCTT
37157814 TTTCAAAAGTTTGTGGCTTGGTTTTTCCAAAAATACCCCATTTTTAAGAC
455 TTTCAAAAGTTTGTGGCTTGGTTTTTCCAAAAATACCCCATTTTTAAGAC
37157864 ATTCACGTAG
Statistics
Matches: 465, Mismatches: 38, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
506 463 1.00
507 2 0.00
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (506 bp):
ATTAGACCGGAGCCTCTCAATAACAGATCCATGGTTCCCAGATCAAGTTTGGGCTCCAACAACCC
TTTGAAGAACCCTTAGCATCACTTACGATACTGCATCATCACCATTATCATACCATTAGCCACCA
ATGGCAAATAAATCCTCTATGTAATCCACCTCAGGAATTAGGCTTTCATCCTAAGTGATAAGCAG
CTCAACAGGAGCAACCCTATACGGCCTACCTCTACCACGTCTACCTCGGGTACTCATAATGAATT
CCCAAAAATTTAAAGTCTAAAGTATATCTATAATTTTCAAATAAAAGTTCAAGAATTAATTATTT
TCTTAAGTGTTTATAATCTAAAGGTTACAATTTCTAGTCCAAAGTTTGACTACAGTTTTAAGAAA
TAACAATAAATAAGTCAGGATTGGCATCGGAGTCTCGAATTTAATTTCTTTGAAGAAAATCCTTT
TTCAAAAGTTTGTGGCTTGGTTTTTCCAAAAATACCCCATTTTTAAGACCC
Found at i:37162391 original size:40 final size:39
Alignment explanation
Indices: 37162226--37162409 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
37162216 AAATTGAATG
* * *
37162226 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
37162266 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
37162306 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
37162346 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
37162385 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
37162410 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:37162434 original size:80 final size:81
Alignment explanation
Indices: 37162266--37162454 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
37162256 GCTGGAAATT
* * * *
37162266 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
37162331 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
37162347 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
37162410 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
37162426 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
37162455 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:37170478 original size:40 final size:39
Alignment explanation
Indices: 37170314--37170496 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
37170304 AAATTGAATG
* * *
37170314 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * *
37170354 ATA-CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
37170393 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
37170433 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
37170472 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
37170497 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 24, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
36 4 0.04
37 2 0.02
38 2 0.02
39 21 0.19
40 84 0.74
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:37170479 original size:80 final size:80
Alignment explanation
Indices: 37170357--37170505 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
37170347 GGAAATTATA
* * * *
37170357 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
37170422 TGCGAGTCATTCTAT
66 TGCGAGTCATTCTAT
* * * * * * *
37170437 CCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGCCTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGCATTC
37170501 GTGCG
65 GTGCG
37170506 GGTTACCATA
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.22, C:0.25, G:0.30, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTCATTCTAT
Found at i:37175257 original size:39 final size:40
Alignment explanation
Indices: 37175210--37175353 Score: 175
Period size: 39 Copynumber: 3.6 Consensus size: 40
37175200 AATGTTCGAG
37175210 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA
* * *
37175249 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA
* ** *
37175288 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA
** * *
37175328 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAGTCCCGAAGGC
37175354 GTTTGAACGA
Statistics
Matches: 89, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 51 0.57
40 38 0.43
ACGTcount: A:0.24, C:0.23, G:0.30, T:0.24
Consensus pattern (40 bp):
TGATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA
Found at i:37183227 original size:39 final size:40
Alignment explanation
Indices: 37183180--37183323 Score: 175
Period size: 39 Copynumber: 3.6 Consensus size: 40
37183170 AATGTTCGAG
37183180 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA
* * *
37183219 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA
* ** *
37183258 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA
** * *
37183298 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAGTCCCGAAGGC
37183324 GTTTGAACGA
Statistics
Matches: 89, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 51 0.57
40 38 0.43
ACGTcount: A:0.24, C:0.23, G:0.30, T:0.24
Consensus pattern (40 bp):
TGATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA
Found at i:37197887 original size:10 final size:10
Alignment explanation
Indices: 37197874--37197908 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
37197864 TTTATTCTCA
37197874 TTTTTTCCTT
1 TTTTTTCCTT
*
37197884 TTTTTTTCTT
1 TTTTTTCCTT
37197894 TGTTTTTCCTT
1 T-TTTTTCCTT
37197905 TTTT
1 TTTT
37197909 AAATGAAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.00, C:0.14, G:0.03, T:0.83
Consensus pattern (10 bp):
TTTTTTCCTT
Found at i:37197890 original size:11 final size:11
Alignment explanation
Indices: 37197874--37197908 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
37197864 TTTATTCTCA
37197874 TTTTTTCCTTT
1 TTTTTTCCTTT
37197885 TTTTTT-CTTT
1 TTTTTTCCTTT
*
37197895 GTTTTTCCTTT
1 TTTTTTCCTTT
37197906 TTT
1 TTT
37197909 AAATGAAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.00, C:0.14, G:0.03, T:0.83
Consensus pattern (11 bp):
TTTTTTCCTTT
Found at i:37208941 original size:28 final size:28
Alignment explanation
Indices: 37208872--37208972 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
37208862 GACAAGATTG
* * * *
37208872 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
37208902 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
37208930 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
37208959 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
37208973 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:37208966 original size:29 final size:28
Alignment explanation
Indices: 37208901--37208972 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
37208891 AAAATTGTAC
*
37208901 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
37208929 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
37208958 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
37208973 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:37216996 original size:28 final size:28
Alignment explanation
Indices: 37216927--37217027 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
37216917 GACAAGATTG
* * * *
37216927 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
37216957 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
37216985 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
37217014 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
37217028 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:37217021 original size:29 final size:28
Alignment explanation
Indices: 37216956--37217027 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
37216946 AAAATTGTAC
*
37216956 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
37216984 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
37217013 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
37217028 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:37220897 original size:20 final size:23
Alignment explanation
Indices: 37220858--37220898 Score: 61
Period size: 20 Copynumber: 1.9 Consensus size: 23
37220848 AATGCAATAA
37220858 TAAAACTGCTAACTAAAATGTCC
1 TAAAACTGCTAACTAAAATGTCC
37220881 TAAAA-TGC-AAC-AAAATGT
1 TAAAACTGCTAACTAAAATGT
37220899 ACTTATGTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 3 0.17
22 3 0.17
23 5 0.28
ACGTcount: A:0.49, C:0.17, G:0.10, T:0.24
Consensus pattern (23 bp):
TAAAACTGCTAACTAAAATGTCC
Found at i:37226695 original size:93 final size:93
Alignment explanation
Indices: 37226583--37226753 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
37226573 GCCCATAAGT
* *
37226583 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
37226648 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
37226676 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
37226741 CGAGTTCGGATGC
66 CGAGTTCGGATGC
37226754 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:37226750 original size:46 final size:46
Alignment explanation
Indices: 37226575--37226750 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
37226565 TGTAACCCGC
* * *
37226575 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
37226621 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
37226671 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
37226714 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
37226751 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:37229146 original size:30 final size:30
Alignment explanation
Indices: 37229102--37229190 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
37229092 CAAAGATAAC
37229102 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
37229131 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
37229161 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
37229191 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:37229150 original size:15 final size:15
Alignment explanation
Indices: 37229102--37229181 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
37229092 CAAAGATAAC
*
37229102 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
37229116 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
37229131 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
37229146 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
37229161 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
37229176 AAGAAA
1 AAGAAA
37229182 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:37229190 original size:15 final size:15
Alignment explanation
Indices: 37229113--37229190 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
37229103 AGAAAACCGA
37229113 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
37229128 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
37229142 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
37229157 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
37229173 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
37229188 ATA
1 ATA
37229191 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:37232194 original size:46 final size:46
Alignment explanation
Indices: 37232127--37232299 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
37232117 TGTAACCCGC
*
37232127 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
37232173 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * *
37232223 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGAC--TCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
37232264 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
37232300 ATGCCCATCC
Statistics
Matches: 110, Mismatches: 8, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
40 1 0.01
41 3 0.03
42 1 0.01
43 2 0.02
44 29 0.26
46 35 0.32
47 28 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:37232292 original size:91 final size:92
Alignment explanation
Indices: 37232135--37232304 Score: 306
Period size: 91 Copynumber: 1.8 Consensus size: 92
37232125 GCCCATAAGT
*
37232135 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACG-TCGCATCCATAAGTGAACTCGGACTCAACTCAA
37232200 CGAGTTCGGATGCCTAGTTACATCTCAC
65 CGAGTTCGGATGCCTAGTTACATCTCAC
*
37232228 GAACTCGGACTCAACTCAACGAGTTCGGAC-TCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACGTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
37232292 GAGTTCGGATGCC
66 GAGTTCGGATGCC
37232305 CATCCTAGTG
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
91 47 0.63
93 28 0.37
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:37233814 original size:2 final size:2
Alignment explanation
Indices: 37233807--37233838 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
37233797 ACAATTTAAC
37233807 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
37233839 GCATACCATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:37238533 original size:18 final size:18
Alignment explanation
Indices: 37238510--37238657 Score: 89
Period size: 18 Copynumber: 7.7 Consensus size: 18
37238500 GAGCAATTAT
*
37238510 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAATCAG
* *
37238528 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAG
* *
37238546 TTATTCAATAATAATCAG
1 TTATTCAGTAACAATCAG
* * *
37238564 TTATTCAGTATCAATAAA
1 TTATTCAGTAACAATCAG
*
37238582 TTGATCGGTTATCTAGTAACAATCAA
1 TT-A-----T-TC-AGTAACAATCAG
*
37238608 TTATTCAGTAAAAATCAG
1 TTATTCAGTAACAATCAG
* * * *
37238626 ATATACAGTAACAATTAAA
1 TTATTCAGTAACAA-TCAG
37238645 TTATTCAGTAACA
1 TTATTCAGTAACA
37238658 GTTGATCTTT
Statistics
Matches: 98, Mismatches: 23, Indels: 17
0.71 0.17 0.12
Matches are distributed among these distances:
18 65 0.66
19 16 0.16
20 1 0.01
24 1 0.01
25 3 0.03
26 12 0.12
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.34
Consensus pattern (18 bp):
TTATTCAGTAACAATCAG
Found at i:37238902 original size:12 final size:12
Alignment explanation
Indices: 37238885--37238909 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37238875 AGTGCCGAAT
37238885 CGGTAACAGTAA
1 CGGTAACAGTAA
37238897 CGGTAACAGTAA
1 CGGTAACAGTAA
37238909 C
1 C
37238910 AGTAGTCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:37239058 original size:16 final size:16
Alignment explanation
Indices: 37239029--37239062 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
37239019 TAATTCACTT
37239029 TTCAATTTTCAATTAA
1 TTCAATTTTCAATTAA
37239045 TTCATATTTT-AATTAA
1 TTCA-ATTTTCAATTAA
37239061 TT
1 TT
37239063 AACTATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (16 bp):
TTCAATTTTCAATTAA
Found at i:37239318 original size:2 final size:2
Alignment explanation
Indices: 37239311--37239343 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
37239301 AAACACCTAC
37239311 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
37239344 TAAATAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:37239655 original size:51 final size:52
Alignment explanation
Indices: 37239579--37239700 Score: 158
Period size: 51 Copynumber: 2.4 Consensus size: 52
37239569 CCCAAATTTT
* * * *
37239579 CTTCATACTTCATCCGGA-ATTATTACTTTGTTATTCTGGCTTCAACAAGAA
1 CTTCATATTTCATCCGGATATTATTACTTTATTACTCTAGCTTCAACAAGAA
* * *
37239630 CTTCATATTTCATCCGGATA-TATTACTTTATTGCTCTAGTTTCAACAAGAG
1 CTTCATATTTCATCCGGATATTATTACTTTATTACTCTAGCTTCAACAAGAA
*
37239681 CTTCATATTTCATCCAGATA
1 CTTCATATTTCATCCGGATA
37239701 ACTTAGTTCT
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
51 61 0.98
52 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.40
Consensus pattern (52 bp):
CTTCATATTTCATCCGGATATTATTACTTTATTACTCTAGCTTCAACAAGAA
Found at i:37240333 original size:31 final size:32
Alignment explanation
Indices: 37240275--37240338 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
37240265 CATACATTTG
*
37240275 TCATAATTTAATATATTTATTACATAAAAATC
1 TCATAATATAATATATTTATTACATAAAAATC
*
37240307 TCATAATATAAT-TATTTAATTA-ATAAATATC
1 TCATAATATAATATATTT-ATTACATAAAAATC
37240338 T
1 T
37240339 TTTATAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 14 0.48
32 15 0.52
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (32 bp):
TCATAATATAATATATTTATTACATAAAAATC
Found at i:37240365 original size:17 final size:18
Alignment explanation
Indices: 37240321--37240373 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 18
37240311 AATATAATTA
37240321 TTTAATTAATAAATATCTT
1 TTTAA-TAATAAATATCTT
*
37240340 TTATAAATAATAAATTTC-T
1 TT-T-AATAATAAATATCTT
37240359 TTTAATAATTAAATA
1 TTTAATAA-TAAATA
37240374 CATGTATTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
17 5 0.17
18 6 0.21
19 5 0.17
20 11 0.38
21 2 0.07
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTAATAATAAATATCTT
Found at i:37240482 original size:3 final size:3
Alignment explanation
Indices: 37240474--37240524 Score: 54
Period size: 3 Copynumber: 18.0 Consensus size: 3
37240464 ATCTTTAACT
* **
37240474 TAA TAA TAA TAA TAA TAA TAA TAA T-T TAA T-A TAA -AA CCA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
37240519 TAA TAA
1 TAA TAA
37240525 CAATTATAAC
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
2 5 0.12
3 35 0.88
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:37249050 original size:214 final size:215
Alignment explanation
Indices: 37248680--37249108 Score: 851
Period size: 214 Copynumber: 2.0 Consensus size: 215
37248670 AAATATAACA
37248680 CAAGAAATAGATATTTTAATTTATAAGAAAAATTATTTTCTGAATTTTTTTAATTCTAAAAATAA
1 CAAGAAATAGATATTTTAATTTATAAGAAAAATTATTTTCTGAATTTTTTTAATTCTAAAAATAA
37248745 ATTTTACTTTTTTAATTTAAAAACGACTTTTTGAAGAAAAATTATAAATGATATGACAGGTAGCA
66 ATTTTACTTTTTTAATTTAAAAACGACTTTTTGAAGAAAAATTATAAATGATATGACAGGTAGCA
37248810 CTTTCTTGTTCCCTAATTTTACCATGTCAACCTTTTGATTAATATGTTAGTCGATGGGACAATGT
131 CTTTCTTGTTCCCTAATTTTACCATGTCAACCTTTTGATTAATATGTTAGTCGATGGGACAATGT
37248875 ACTAGAGACAACTAAAGTTT
196 ACTAGAGACAACTAAAGTTT
37248895 CAAGAAATAGATATTTTAATTTATAAGAAAAATTATTTTCTGAA-TTTTTTAATTCTAAAAATAA
1 CAAGAAATAGATATTTTAATTTATAAGAAAAATTATTTTCTGAATTTTTTTAATTCTAAAAATAA
37248959 ATTTTACTTTTTTAATTTAAAAACGACTTTTTGAAGAAAAATTATAAATGATATGACAGGTAGCA
66 ATTTTACTTTTTTAATTTAAAAACGACTTTTTGAAGAAAAATTATAAATGATATGACAGGTAGCA
37249024 CTTTCTTGTTCCCTAATTTTACCATGTCAACCTTTTGATTAATATGTTAGTCGATGGGACAATGT
131 CTTTCTTGTTCCCTAATTTTACCATGTCAACCTTTTGATTAATATGTTAGTCGATGGGACAATGT
37249089 ACTAGAGACAACTAAAGTTT
196 ACTAGAGACAACTAAAGTTT
37249109 GAATACATGA
Statistics
Matches: 214, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
214 170 0.79
215 44 0.21
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.40
Consensus pattern (215 bp):
CAAGAAATAGATATTTTAATTTATAAGAAAAATTATTTTCTGAATTTTTTTAATTCTAAAAATAA
ATTTTACTTTTTTAATTTAAAAACGACTTTTTGAAGAAAAATTATAAATGATATGACAGGTAGCA
CTTTCTTGTTCCCTAATTTTACCATGTCAACCTTTTGATTAATATGTTAGTCGATGGGACAATGT
ACTAGAGACAACTAAAGTTT
Found at i:37256457 original size:29 final size:29
Alignment explanation
Indices: 37256395--37256497 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
37256385 GTGACGAGAT
* * *
37256395 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
37256424 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
37256453 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
37256482 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
37256498 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:37264472 original size:29 final size:29
Alignment explanation
Indices: 37264410--37264512 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
37264400 GTGACGAGAT
* * *
37264410 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
37264439 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
37264468 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
37264497 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
37264513 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:37266996 original size:28 final size:26
Alignment explanation
Indices: 37266952--37267002 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
37266942 TATCTATTTA
37266952 AAAAAAGAGAGTCATATATCAT-TATT
1 AAAAAAGAGAGTCATATAT-ATATATT
*
37266978 AAAAAAGAGATTCATATATATATAT
1 AAAAAAGAGAGTCATATATATATAT
37267003 ATTTAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 2 0.09
26 21 0.91
ACGTcount: A:0.53, C:0.06, G:0.10, T:0.31
Consensus pattern (26 bp):
AAAAAAGAGAGTCATATATATATATT
Found at i:37268434 original size:40 final size:40
Alignment explanation
Indices: 37268377--37268470 Score: 136
Period size: 40 Copynumber: 2.4 Consensus size: 40
37268367 ACTATGTTTG
*
37268377 GCACTTAGTGTGCGAATTGGAATAGCTTCGGCTATATAAA
1 GCACTTAGTGTGCGAATTGGAATAGCTTCAGCTATATAAA
* *
37268417 GCACTTAGTGTGTGAATTGGAATAGCTTCAGCTATATGTAA
1 GCACTTAGTGTGCGAATTGGAATAGCTTCAGCTATAT-AAA
*
37268458 -CACTAAGTGTGCG
1 GCACTTAGTGTGCG
37268471 CTACCGCGAT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 46 0.96
41 2 0.04
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.31
Consensus pattern (40 bp):
GCACTTAGTGTGCGAATTGGAATAGCTTCAGCTATATAAA
Found at i:37271817 original size:101 final size:101
Alignment explanation
Indices: 37271712--37271893 Score: 256
Period size: 101 Copynumber: 1.8 Consensus size: 101
37271702 GATGGTTAAG
* * * * * *
37271712 TCACGTGTACAGTATTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTAG
1 TCACGTGTACAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATAAGTCACATGTATAGTAC
37271777 TAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGA
66 TAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGA
** * * * *
37271813 TCACGTGTGTAGTACTAAGTGCAGGCTCCTACGTGTATCAGATGGTTAATTCACATGTATAGTAC
1 TCACGTGTACAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATAAGTCACATGTATAGTAC
37271878 TAAGTGCAGGCTACTA
66 TAAGTGCAGGCTACTA
37271894 CGTGTACCAG
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
101 69 1.00
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (101 bp):
TCACGTGTACAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATAAGTCACATGTATAGTAC
TAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGA
Found at i:37271943 original size:50 final size:50
Alignment explanation
Indices: 37271560--37271935 Score: 297
Period size: 50 Copynumber: 7.5 Consensus size: 50
37271550 TCCGTTGTGA
* * * * *
37271560 GTCACGTGTGTAGTACTAAGTGCAGACTACAACGAGTACTAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
** * * * * * *
37271610 GTTGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCG-TTAACTTTG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAG
* ** * ** * * * * *
37271661 ATCATGTGTGTAGTACTATGTATAGGCTACTACGTGCATCAGATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* ** *
37271711 GTCACGTGTACAGTATTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * * * * * *
37271761 GTCGCATGTGTAGTAGTAAGTGCAGGCTACTATGCGTACCCG-TTAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAG
* * * * * * *
37271812 ATCACGTGTGTAGTACTAAGTGCAGGCTCCTACGTGTATCAGATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* *
37271862 TTCACATGTATAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
*
37271912 GTCGCATGTGTAGTACTAAGTGCA
1 GTCACATGTGTAGTACTAAGTGCA
37271936 AACTACTATG
Statistics
Matches: 243, Mismatches: 77, Indels: 12
0.73 0.23 0.04
Matches are distributed among these distances:
49 6 0.02
50 168 0.69
51 67 0.28
52 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
Found at i:37271962 original size:151 final size:151
Alignment explanation
Indices: 37271559--37271951 Score: 588
Period size: 151 Copynumber: 2.6 Consensus size: 151
37271549 ATCCGTTGTG
* * * * * *
37271559 AGTCACGTGTGTAGTACTAAGTGCAGACTACAACGAGTACTAGATTGATAGGTTGCATGTGTAGT
1 AGTCACGTGTATAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
* * * * *
37271624 ACTAAGTGTAGGCTACTATGCGTACCCGTTAACTTTGATCATGTGTGTAGTACTATGTATAGGCT
66 ACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACGTGTGTAGTACTAAGTACAGGCT
37271689 ACTACGTGCATCAGATGGTTA
131 ACTACGTGCATCAGATGGTTA
* *
37271710 AGTCACGTGTACAGTATTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
1 AGTCACGTGTATAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
* *
37271775 AGTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACGTGTGTAGTACTAAGTGCAGGCT
66 ACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACGTGTGTAGTACTAAGTACAGGCT
* *
37271840 CCTACGTGTATCAGATGGTTA
131 ACTACGTGCATCAGATGGTTA
* *
37271861 ATTCACATGTATAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
1 AGTCACGTGTATAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
** *
37271926 ACTAAGTGCAAACTACTATGCATACC
66 ACTAAGTGCAGGCTACTATGCGTACC
37271952 AGAGAGCTTC
Statistics
Matches: 217, Mismatches: 25, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
151 217 1.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (151 bp):
AGTCACGTGTATAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
ACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACGTGTGTAGTACTAAGTACAGGCT
ACTACGTGCATCAGATGGTTA
Found at i:37274620 original size:82 final size:82
Alignment explanation
Indices: 37274462--37274621 Score: 221
Period size: 82 Copynumber: 2.0 Consensus size: 82
37274452 TAAGTCAGCA
* *
37274462 ATTTCTCGATCAGAAACATTAAGAGTTTCTGGAGTTGAAACAAGGTCGGATGACAGTAACAGAAT
1 ATTTCTCGATCAGAAACATAAAGAGTTTCTAGAGTTGAAACAAGGTCGGATGACAGTAACAGAAT
**
37274527 ATTAAAAAGAATTAGAG
66 ACGAAAAAGAATTAGAG
* * * ** *
37274544 ATTTCTCGATCAGAAATATAAAGAGTTTCTAGTGTTGAAATAAGGTCGGATGATGGTGACAGAAT
1 ATTTCTCGATCAGAAACATAAAGAGTTTCTAGAGTTGAAACAAGGTCGGATGACAGTAACAGAAT
*
37274609 ACGAAAGAGAATT
66 ACGAAAAAGAATT
37274622 TGTACATTTA
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
82 67 1.00
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.27
Consensus pattern (82 bp):
ATTTCTCGATCAGAAACATAAAGAGTTTCTAGAGTTGAAACAAGGTCGGATGACAGTAACAGAAT
ACGAAAAAGAATTAGAG
Found at i:37279352 original size:28 final size:29
Alignment explanation
Indices: 37279321--37279380 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 29
37279311 AAAGTGATTT
*
37279321 TTGACAAAAATGTCAATT-AGGGATTAAA
1 TTGACAAAAATGTAAATTGAGGGATTAAA
* * *
37279349 TTGAGAAAAGTGTAAATTGAGGGGTTAAA
1 TTGACAAAAATGTAAATTGAGGGATTAAA
37279378 TTG
1 TTG
37279381 TGAAATAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 15 0.56
29 12 0.44
ACGTcount: A:0.42, C:0.03, G:0.25, T:0.30
Consensus pattern (29 bp):
TTGACAAAAATGTAAATTGAGGGATTAAA
Found at i:37279380 original size:29 final size:28
Alignment explanation
Indices: 37279321--37279385 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 28
37279311 AAAGTGATTT
* *
37279321 TTGACAAAAATGTCAATTAGGGATTAAA
1 TTGAGAAAAATGTAAATTAGGGATTAAA
* *
37279349 TTGAGAAAAGTGTAAATTGAGGGGTTAAA
1 TTGAGAAAAATGTAAATT-AGGGATTAAA
*
37279378 TTGTGAAA
1 TTGAGAAA
37279386 TAAATAAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
28 15 0.48
29 16 0.52
ACGTcount: A:0.43, C:0.03, G:0.25, T:0.29
Consensus pattern (28 bp):
TTGAGAAAAATGTAAATTAGGGATTAAA
Found at i:37281200 original size:16 final size:17
Alignment explanation
Indices: 37281169--37281201 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
37281159 ATGCGATATT
*
37281169 AAATGTAATGATTTATG
1 AAATGTAATGAATTATG
37281186 AAATGT-ATGAATTATG
1 AAATGTAATGAATTATG
37281202 TTATGGATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.39
Consensus pattern (17 bp):
AAATGTAATGAATTATG
Found at i:37284125 original size:42 final size:43
Alignment explanation
Indices: 37284066--37284180 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 43
37284056 TGTGTTATCA
* ** * *
37284066 TGTAAGACCATATCTGGGATATGGCGTTGATATGAGA-TTTCG
1 TGTAAGACCATATCTGGGATATGGCATCAAAATAAGATTTTCG
** *
37284108 TGTAAGACCACGTCTGGGACATGGCATCAAAATAAGATTTTCG
1 TGTAAGACCATATCTGGGATATGGCATCAAAATAAGATTTTCG
* *
37284151 TATAAGACCATATCTGGGATATGACATCAA
1 TGTAAGACCATATCTGGGATATGGCATCAA
37284181 TGTGAGATCC
Statistics
Matches: 59, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
42 29 0.49
43 30 0.51
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (43 bp):
TGTAAGACCATATCTGGGATATGGCATCAAAATAAGATTTTCG
Found at i:37288897 original size:40 final size:40
Alignment explanation
Indices: 37288853--37289000 Score: 203
Period size: 40 Copynumber: 3.7 Consensus size: 40
37288843 GAAATTATAA
*
37288853 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGCTACAT
37288893 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGCTACAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGCTACAT
* *
37288933 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGT--CATTCTAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTGGC-TAC-AT
* *
37288973 CCGGGCTAAGACCCAAAGGCATTTGTGC
1 CCGGGCTAAGACCCGAAGGCAATTGTGC
37289001 AAATCGTGAT
Statistics
Matches: 99, Mismatches: 5, Indels: 8
0.88 0.04 0.07
Matches are distributed among these distances:
38 1 0.01
39 5 0.05
40 91 0.92
41 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.29, T:0.21
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGCTACAT
Found at i:37289014 original size:40 final size:39
Alignment explanation
Indices: 37288809--37289032 Score: 164
Period size: 40 Copynumber: 5.6 Consensus size: 39
37288799 AAATTGAATG
* * * *
37288809 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAGTCGT
* * * * *
37288849 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCG-T
* * * *
37288889 ACATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCG-T
* * * *
37288929 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTC-GT
* * *
37288969 CTATCCGGGCTAAGACCCAAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGT
* * *
37289008 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
37289033 CTTGGTGCGG
Statistics
Matches: 151, Mismatches: 28, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
37 4 0.03
38 2 0.01
39 3 0.02
40 142 0.94
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGT
Found at i:37289015 original size:80 final size:78
Alignment explanation
Indices: 37288853--37289041 Score: 193
Period size: 80 Copynumber: 2.4 Consensus size: 78
37288843 GAAATTATAA
* *
37288853 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCAATTG
1 CCGGGTTAAGACCCGAAGGC-ATTGTGCGAGT-GCTACATCCGGGCTAAGACCCAAAGGCAATTG
* * *
37288918 TGCTAGTGGCTACAT
64 TGCAAATCGCTACAT
* * *
37288933 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGT-CATTCTATCCGGGCTAAGACCCAAAGGCATTT
1 CCGGGTTAAGACCCGAAGGCATT-GTGCGAGTGC-TAC-ATCCGGGCTAAGACCCAAAGGCAATT
*
37288997 GTGCAAATCG-TGATAT
63 GTGCAAATCGCT-ACAT
* * *
37289013 CCGGGTTAAGTCCCGTAGGCCTTGGTGCG
1 CCGGGTTAAGACCCGAAGGCATT-GTGCG
37289042 GGTTACCATA
Statistics
Matches: 91, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 6 0.07
80 84 0.92
ACGTcount: A:0.23, C:0.25, G:0.30, T:0.22
Consensus pattern (78 bp):
CCGGGTTAAGACCCGAAGGCATTGTGCGAGTGCTACATCCGGGCTAAGACCCAAAGGCAATTGTG
CAAATCGCTACAT
Found at i:37297132 original size:40 final size:39
Alignment explanation
Indices: 37296967--37297150 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
37296957 AAATTGAATG
* * *
37296967 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
37297007 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
37297047 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
37297087 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
37297126 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
37297151 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:37297175 original size:80 final size:81
Alignment explanation
Indices: 37297007--37297195 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
37296997 GCTGGAAATT
* * * *
37297007 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
37297072 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
37297088 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
37297151 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
37297167 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
37297196 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:37298850 original size:20 final size:19
Alignment explanation
Indices: 37298820--37298858 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
37298810 ATACATAATT
37298820 AATGAATAATAAATAATAA
1 AATGAATAATAAATAATAA
*
37298839 AATGATATAATATATAATAA
1 AATGA-ATAATAAATAATAA
37298859 TCTTTACATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (19 bp):
AATGAATAATAAATAATAA
Found at i:37298875 original size:18 final size:18
Alignment explanation
Indices: 37298848--37298882 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
37298838 AAATGATATA
*
37298848 ATATATAATAATCTTTAC
1 ATATAAAATAATCTTTAC
*
37298866 ATATAAAATAATGTTTA
1 ATATAAAATAATCTTTA
37298883 TAGTAAAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.43
Consensus pattern (18 bp):
ATATAAAATAATCTTTAC
Found at i:37298916 original size:16 final size:16
Alignment explanation
Indices: 37298831--37298923 Score: 55
Period size: 16 Copynumber: 5.6 Consensus size: 16
37298821 ATGAATAATA
*
37298831 AATA-ATAAAATGATAT
1 AATATATAAAAT-ATTT
*
37298847 AATATATAATAATCTTT
1 AATATATAA-AATATTT
*
37298864 -ACATATAAAATAATGTT
1 AATATATAAAAT-AT-TT
* * **
37298881 TATAGTAAAAAATAAAT
1 AATA-TATAAAATATTT
37298898 AATATATAAAATATTT
1 AATATATAAAATATTT
*
37298914 AATAAATAAA
1 AATATATAAA
37298924 TTATATAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
15 3 0.05
16 30 0.52
17 12 0.21
18 6 0.10
19 7 0.12
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.35
Consensus pattern (16 bp):
AATATATAAAATATTT
Found at i:37298920 original size:27 final size:26
Alignment explanation
Indices: 37298890--37298941 Score: 86
Period size: 27 Copynumber: 2.0 Consensus size: 26
37298880 TTATAGTAAA
37298890 AAATAAATAATATATAAAATATTTAAT
1 AAATAAATAATATA-AAAATATTTAAT
*
37298917 AAATAAATTATATAAAAATATTTAA
1 AAATAAATAATATAAAAATATTTAA
37298942 AAGGATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 11 0.46
27 13 0.54
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (26 bp):
AAATAAATAATATAAAAATATTTAAT
Found at i:37300471 original size:44 final size:44
Alignment explanation
Indices: 37300399--37300927 Score: 307
Period size: 44 Copynumber: 11.9 Consensus size: 44
37300389 GTTCTCTGTC
* * *
37300399 TAATACAGAGATGTCAAATCT-ATCATCTTCAATCTGCTCCCCGT
1 TAATACAGAGATGCCAAATCTGCT-ATCTTCGATCTGCTCCCCGT
* * * *
37300443 TGATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGT
1 TAATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCCCCGT
* ***
37300487 CAATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTTCGATGT
1 TAATACAGAGATGCCAAATCTGCTATCTTCGATCTGC-TCCCCGT
* * * * * * * *
37300532 AAACAAACAAATGTCAAATCTGCTATTTTTGATCTGCTCCCCGT
1 TAATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCCCCGT
* * *
37300576 CTAATACAGAGACGCCAAATCTTTCATAT-TT-GATCTGCTCCCTGT
1 -TAATACAGAGATGCCAAATC-TGC-TATCTTCGATCTGCTCCCCGT
* * ** * ***
37300621 CATTACAGAGACACCAAATCGGCTATCTTCGATCTGCTTCGATGT
1 TAATACAGAGATGCCAAATCTGCTATCTTCGATCTGC-TCCCCGT
* * * * * * * *
37300666 AAACACACGA-ATGTCAGATCTTCTTATCTTTGATCTGCTCTCTGT
1 TAATACA-GAGATGCCAAATCTGC-TATCTTCGATCTGCTCCCCGT
* * * **
37300711 CTAATACAAAGACGCCAAATCTG-TCATCTTCGATTTGCTCCTTGT
1 -TAATACAGAGATGCCAAATCTGCT-ATCTTCGATCTGCTCCCCGT
** * * ** * * *
37300756 CGATATAGAGATGCCAAATCGGCTCGCTTTGATCTGCTCTCTGT
1 TAATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCCCCGT
* * * * * * ** *
37300800 CAATACAGAAATGCTAGATGTGCTTTCTTCGATCTGCTCTTCAT
1 TAATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCCCCGT
* *
37300844 CAATACAGAGATGCCAAATCTGCT-TCTTCGATCTACTCCCCGT
1 TAATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCCCCGT
* * *
37300887 CTAATACAGAGACGCCAAATCTG-TCATCTTCAATCTCCTCC
1 -TAATACAGAGATGCCAAATCTGCT-ATCTTCGATCTGCTCC
37300928 GATGTAAACA
Statistics
Matches: 369, Mismatches: 99, Indels: 33
0.74 0.20 0.07
Matches are distributed among these distances:
42 3 0.01
43 19 0.05
44 199 0.54
45 113 0.31
46 32 0.09
47 3 0.01
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (44 bp):
TAATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCCCCGT
Found at i:37300648 original size:134 final size:136
Alignment explanation
Indices: 37300430--37300999 Score: 565
Period size: 134 Copynumber: 4.3 Consensus size: 136
37300420 ATCATCTTCA
* * * *
37300430 ATCTGCTCCCCGT-TGATACAGAGACGCCAAATC-TGCTATCTTCGATCTGCTCTCTGTC-AATA
1 ATCTGCTCTCCGTCTAATACAGAGACGCCAAATCTTGC-ATATTCGATCTGCTCCCTGTCGAATA
* * * *
37300492 CAGAGATGCCAAATCTGCTATCTTCGATCTGCTTCGATGTAAACAAACAAATGTCAAATCTGC-T
65 CAGAGACGCCAAATCGGCTATCTTCGATCTGCTTCGATGTAAACACACAAATGTCAGATCTGCTT
*
37300556 ATTTTTG
130 ATCTTTG
* * * *
37300563 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTTTCATATTTGATCTGCTCCCTGTC-ATTAC
1 ATCTGCTCTCCGTCTAATACAGAGACGCCAAATCTTGCATATTCGATCTGCTCCCTGTCGAATAC
* * *
37300627 AGAGACACCAAATCGGCTATCTTCGATCTGCTTCGATGTAAACACACGAATGTCAGATCTTCTTA
66 AGAGACGCCAAATCGGCTATCTTCGATCTGCTTCGATGTAAACACACAAATGTCAGATCTGCTTA
37300692 TCTTTG
131 TCTTTG
* * * * *
37300698 ATCTGCTCTCTGTCTAATACAAAGACGCCAAATC-TGTCATCTTCGATTTGCTCCTTGTCG-ATA
1 ATCTGCTCTCCGTCTAATACAGAGACGCCAAATCTTG-CATATTCGATCTGCTCCCTGTCGAATA
* * ** * * * * *
37300761 TAGAGATGCCAAATCGGCTCGCTTTGATCTGCTCTC--TGTCAATACAGAAATG-CTAGATGTGC
65 CAGAGACGCCAAATCGGCTATCTTCGATCTGCT-TCGATGTAAACACACAAATGTC-AGATCTGC
*
37300823 TT-TCTTCG
128 TTATCTTTG
* * * * * * * *
37300831 ATCTGCTCTTCATC-AATACAGAGATGCCAAATC-TGCTTCTTCGATCTACTCCCCGTCTAATAC
1 ATCTGCTCTCCGTCTAATACAGAGACGCCAAATCTTGCATATTCGATCTGCTCCCTGTCGAATAC
* * * * * * *
37300894 AGAGACGCCAAATCTG-TCATCTTCAATCTCCTCCGATGTAAACACACGAATGTTAGATCTTCTT
66 AGAGACGCCAAATCGGCT-ATCTTCGATCTGCTTCGATGTAAACACACAAATGTCAGATCTGCTT
37300958 ATCTTTG
130 ATCTTTG
* *
37300965 ATCTGCTCTCTGTCTACTACAGAGACGCCAAATCT
1 ATCTGCTCTCCGTCTAATACAGAGACGCCAAATCT
37301000 GTCACCGGCG
Statistics
Matches: 353, Mismatches: 69, Indels: 27
0.79 0.15 0.06
Matches are distributed among these distances:
131 19 0.05
132 45 0.13
133 50 0.14
134 133 0.38
135 104 0.29
136 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (136 bp):
ATCTGCTCTCCGTCTAATACAGAGACGCCAAATCTTGCATATTCGATCTGCTCCCTGTCGAATAC
AGAGACGCCAAATCGGCTATCTTCGATCTGCTTCGATGTAAACACACAAATGTCAGATCTGCTTA
TCTTTG
Found at i:37300936 original size:267 final size:268
Alignment explanation
Indices: 37300445--37301003 Score: 693
Period size: 267 Copynumber: 2.1 Consensus size: 268
37300435 CTCCCCGTTG
*
37300445 ATACAGAGACGCCAAATCTG-CTATCTTCGATCTGCTCTCTGTCAATACAGAGATGCCAAATCTG
1 ATACAGAGACGCCAAATCTGTC-ATCTTCGATCTGCTCTCTGTCAATACAGAGATGCCAAATCGG
* *
37300509 CTATCTTCGATCTGCTTCGATGTAAACAAACAAATGTCAAATCTGCTATTTTTGATCTGCTCCCC
65 CTAGCTTCGATCTGCTTC-ATGTAAACAAACAAATGTCAAATCTGCTATTTTCGATCTGCTCCCC
* * * * * *
37300574 GTCTAATACAGAGACGCCAAATCTTTCATATTTGATCTGCTCCCTGTCATTACAGAGACACCAAA
129 ATCTAATACAGAGACGCCAAATCTTGCATATTCGATCTACTCCCCGTCAATACAGAGACACCAAA
* * *
37300639 TCGGCTATCTTCGATCTGCTTCGATGTAAACACACGAATGTCAGATCTTCTTATCTTTGATCTGC
194 TCGGCTATCTTCAATCTCCTCCGATGTAAACACACGAATGTCAGATCTTCTTATCTTTGATCTGC
37300704 TCTCTGTCTA
259 TCTCTGTCTA
* * * *
37300714 ATACAAAGACGCCAAATCTGTCATCTTCGATTTGCTC-CTTGTCGATATAGAGATGCCAAATCGG
1 ATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTCTC-TGTCAATACAGAGATGCCAAATCGG
* * * * * * * * *
37300778 CTCGCTTTGATCTGCTCTC-TGTCAATACAGAAATG-CTAGATGTGCT-TTCTTCGATCTGCTCT
65 CTAGCTTCGATCTGCT-TCATGTAAACAAACAAATGTC-AAATCTGCTATT-TTCGATCTGCTCC
* * * * *
37300840 TCATC-AATACAGAGATGCCAAATC-TGCTTCTTCGATCTACTCCCCGTCTAATACAGAGACGCC
127 CCATCTAATACAGAGACGCCAAATCTTGCATATTCGATCTACTCCCCGTC-AATACAGAGACACC
* *
37300903 AAATCTG-TCATCTTCAATCTCCTCCGATGTAAACACACGAATGTTAGATCTTCTTATCTTTGAT
191 AAATCGGCT-ATCTTCAATCTCCTCCGATGTAAACACACGAATGTCAGATCTTCTTATCTTTGAT
37300967 CTGCTCTCTGTCTA
255 CTGCTCTCTGTCTA
*
37300981 CTACAGAGACGCCAAATCTGTCA
1 ATACAGAGACGCCAAATCTGTCA
37301004 CCGGCGATTT
Statistics
Matches: 249, Mismatches: 34, Indels: 16
0.83 0.11 0.05
Matches are distributed among these distances:
266 19 0.08
267 125 0.50
268 34 0.14
269 68 0.27
270 3 0.01
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.32
Consensus pattern (268 bp):
ATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTCTCTGTCAATACAGAGATGCCAAATCGGC
TAGCTTCGATCTGCTTCATGTAAACAAACAAATGTCAAATCTGCTATTTTCGATCTGCTCCCCAT
CTAATACAGAGACGCCAAATCTTGCATATTCGATCTACTCCCCGTCAATACAGAGACACCAAATC
GGCTATCTTCAATCTCCTCCGATGTAAACACACGAATGTCAGATCTTCTTATCTTTGATCTGCTC
TCTGTCTA
Found at i:37303522 original size:14 final size:14
Alignment explanation
Indices: 37303503--37303542 Score: 62
Period size: 15 Copynumber: 2.8 Consensus size: 14
37303493 TGATGCATCA
37303503 AACTTCTTGTACTT
1 AACTTCTTGTACTT
*
37303517 AACTTCTGAGTACTT
1 AACTTCT-TGTACTT
37303532 AACTTCTTGTA
1 AACTTCTTGTA
37303543 GGAATCCAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.25, C:0.20, G:0.10, T:0.45
Consensus pattern (14 bp):
AACTTCTTGTACTT
Found at i:37308380 original size:40 final size:40
Alignment explanation
Indices: 37308272--37308381 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
37308262 ATTGAATGAT
* * * * *
37308272 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
* * *
37308312 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
37308352 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
37308382 AAATTGTGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
Found at i:37308396 original size:40 final size:39
Alignment explanation
Indices: 37308272--37308418 Score: 127
Period size: 40 Copynumber: 3.7 Consensus size: 39
37308262 ATTGAATGAT
* * * * * * *
37308272 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGA-CAC
*
37308312 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC-AC
* *
37308352 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGA-A-
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC---TAGTGACAC
* *
37308392 ATCCGGGTTAAGTCCCGAAGGCGTTTG
1 ATCCGGGTTAAGACCCGAAGGCATTTG
37308419 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
40 83 0.93
41 1 0.01
43 5 0.06
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (39 bp):
ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGACAC
Found at i:37320760 original size:40 final size:39
Alignment explanation
Indices: 37320595--37320778 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
37320585 AAATTGAATG
* * *
37320595 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
37320635 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
37320675 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
37320715 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
37320754 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
37320779 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:37320803 original size:80 final size:81
Alignment explanation
Indices: 37320635--37320823 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
37320625 GCTGGAAATT
* * * *
37320635 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
37320700 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
37320716 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
37320779 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
37320795 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
37320824 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:37327377 original size:20 final size:20
Alignment explanation
Indices: 37327354--37327400 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
37327344 AGGGACCAAA
* *
37327354 ATGAAAATTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
37327374 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
37327394 ATGAAAA
1 ATGAAAA
37327401 CATGAGTTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.51, C:0.02, G:0.11, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:37331969 original size:47 final size:47
Alignment explanation
Indices: 37331897--37332131 Score: 335
Period size: 47 Copynumber: 4.9 Consensus size: 47
37331887 CCCTTCGGGA
* * * * * * *
37331897 CTTATCACATTTATACACTTCCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
37331944 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
37331991 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37332038 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37332087 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATT
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATT
37332132 CATCACATCG
Statistics
Matches: 173, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
47 98 0.57
49 75 0.43
ACGTcount: A:0.29, C:0.32, G:0.08, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:37331975 original size:25 final size:25
Alignment explanation
Indices: 37331947--37332025 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 25
37331937 ACTCGGCCCT
*
37331947 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACATTCACATTC
** * *
37331972 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACATTC-ACATTC
*
37331994 ATCACATATATACACCTTCACATTC
1 ATCACATATATACACATTCACATTC
37332019 ATCACAT
1 ATCACAT
37332026 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACATTCACATTC
Found at i:37332065 original size:40 final size:44
Alignment explanation
Indices: 37331941--37332131 Score: 184
Period size: 49 Copynumber: 4.0 Consensus size: 44
37331931 TTGGCCACTC
* * * *
37331941 GGCCCTATCACATATATACACTTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCACATATATACA--ATCACATT-ATCACATCGGCCATTA
*
37331988 GGCCTTATCACATATATACACCTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCACATATATACA--ATCACATT-ATCACATCGGCCATTA
*
37332035 GGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCAC--ATATATACA--ATCACATT-ATCACATCGGCCATTA
37332084 GGCCTTATCACATATATACACACTTTCACATTCATCACATCGGCCATT
1 GGCCTTATCACATATATACA-A---TCACATT-ATCACATCGGCCATT
37332132 CATCACATCG
Statistics
Matches: 132, Mismatches: 7, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
47 63 0.48
49 69 0.52
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.31
Consensus pattern (44 bp):
GGCCTTATCACATATATACAATCACATTATCACATCGGCCATTA
Found at i:37332094 original size:96 final size:94
Alignment explanation
Indices: 37331897--37332131 Score: 337
Period size: 96 Copynumber: 2.5 Consensus size: 94
37331887 CCCTTCGGGA
* * * * * *
37331897 CTTATCACATTTATACA-CTTCCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATACA
1 CTTATCACATATATACACCTT-CACATTCATCACATCGGCCATTAGGCCCTATCACATATATACA
* *
37331961 CTTTCACATTCATCACATTGGCCATTCGGC
65 CTTTCACATTCATCACATCGGCCATTAGGC
*
37331991 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGCCCTATCAC--ATATATAC
37332056 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
37332087 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATT
1 CTTATCACATATATACAC-C-TTCACATTCATCACATCGGCCATT
37332132 CATCACATCG
Statistics
Matches: 127, Mismatches: 9, Indels: 6
0.89 0.06 0.04
Matches are distributed among these distances:
94 44 0.35
95 3 0.02
96 55 0.43
97 1 0.01
98 24 0.19
ACGTcount: A:0.29, C:0.32, G:0.08, T:0.31
Consensus pattern (94 bp):
CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:37332133 original size:16 final size:16
Alignment explanation
Indices: 37332112--37332147 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
37332102 CACACTTTCA
37332112 CATTCATCACATCGGC
1 CATTCATCACATCGGC
37332128 CATTCATCACATCGGC
1 CATTCATCACATCGGC
37332144 CATT
1 CATT
37332148 AGGCCTTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.36, G:0.11, T:0.28
Consensus pattern (16 bp):
CATTCATCACATCGGC
Found at i:37332167 original size:65 final size:65
Alignment explanation
Indices: 37332063--37332196 Score: 259
Period size: 65 Copynumber: 2.1 Consensus size: 65
37332053 TACACTTTCA
37332063 CATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGGC
1 CATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGGC
*
37332128 CATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATTACATCGGC
1 CATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGGC
37332193 CATT
1 CATT
37332197 AGGCCTTATC
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 68 1.00
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (65 bp):
CATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGGC
Found at i:37337988 original size:93 final size:93
Alignment explanation
Indices: 37337876--37338046 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
37337866 GCCCATAAGT
* *
37337876 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
37337941 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
37337969 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
37338034 CGAGTTCGGATGC
66 CGAGTTCGGATGC
37338047 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:37338062 original size:46 final size:46
Alignment explanation
Indices: 37337868--37338048 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
37337858 TGTAACCCGC
* * *
37337868 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
37337914 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
37337964 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
37338007 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
37338049 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:37340459 original size:30 final size:30
Alignment explanation
Indices: 37340415--37340503 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
37340405 CAAAGATAAC
37340415 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
37340444 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
37340474 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
37340504 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:37340463 original size:15 final size:15
Alignment explanation
Indices: 37340415--37340494 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
37340405 CAAAGATAAC
*
37340415 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
37340429 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
37340444 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
37340459 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
37340474 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
37340489 AAGAAA
1 AAGAAA
37340495 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:37340503 original size:15 final size:15
Alignment explanation
Indices: 37340426--37340503 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
37340416 AGAAAACCGA
37340426 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
37340441 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
37340455 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
37340470 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
37340486 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
37340501 ATA
1 ATA
37340504 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:37343553 original size:93 final size:93
Alignment explanation
Indices: 37343441--37343612 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
37343431 GCCCATAAGT
* *
37343441 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
37343506 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
37343534 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
37343599 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
37343613 AATATCCAGT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:37343608 original size:46 final size:46
Alignment explanation
Indices: 37343433--37343608 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
37343423 TGTAACCCGC
* * *
37343433 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
37343479 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
37343529 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
37343572 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
37343609 TGCCAATATC
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:37346020 original size:30 final size:30
Alignment explanation
Indices: 37345976--37346064 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
37345966 CAAAGATAAC
37345976 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
37346005 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
37346035 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
37346065 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:37346024 original size:15 final size:15
Alignment explanation
Indices: 37345976--37346055 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
37345966 CAAAGATAAC
*
37345976 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
37345990 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
37346005 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
37346020 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
37346035 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
37346050 AAGAAA
1 AAGAAA
37346056 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:37346064 original size:15 final size:15
Alignment explanation
Indices: 37345987--37346064 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
37345977 AGAAAACCGA
37345987 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
37346002 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
37346016 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
37346031 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
37346047 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
37346062 ATA
1 ATA
37346065 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:37349121 original size:93 final size:93
Alignment explanation
Indices: 37349009--37349179 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
37348999 GCCCATAAGT
* *
37349009 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
37349074 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
37349102 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
37349167 CGAGTTCGGATGC
66 CGAGTTCGGATGC
37349180 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:37349195 original size:46 final size:46
Alignment explanation
Indices: 37349001--37349181 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
37348991 TGTAACCCGC
* * *
37349001 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
37349047 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
37349097 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
37349140 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
37349182 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:37353331 original size:30 final size:30
Alignment explanation
Indices: 37353246--37353342 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
37353236 TAAACTAAAA
* *
37353246 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
* * * * *
37353276 TGAGCTGAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
*
37353306 TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
37353335 ATGAGCTA
1 -TGAGCTA
37353343 GGAGTGAGCT
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 1 0.02
30 52 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
Found at i:37364392 original size:25 final size:25
Alignment explanation
Indices: 37364364--37364417 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
37364354 AGATTAAATG
37364364 GTATGTTATTGAACATGGTATAAGA
1 GTATGTTATTGAACATGGTATAAGA
37364389 GTATGTTATTGAACATGGTATAAGA
1 GTATGTTATTGAACATGGTATAAGA
37364414 GTAT
1 GTAT
37364418 AAGAGTGACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.37
Consensus pattern (25 bp):
GTATGTTATTGAACATGGTATAAGA
Found at i:37375559 original size:13 final size:13
Alignment explanation
Indices: 37375541--37375570 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
37375531 ATGAGAACAA
37375541 AACTGATGAAAGT
1 AACTGATGAAAGT
37375554 AACTGATGAAAGT
1 AACTGATGAAAGT
37375567 AACT
1 AACT
37375571 AGTGTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.47, C:0.10, G:0.20, T:0.23
Consensus pattern (13 bp):
AACTGATGAAAGT
Found at i:37382584 original size:29 final size:31
Alignment explanation
Indices: 37382536--37382599 Score: 80
Period size: 29 Copynumber: 2.1 Consensus size: 31
37382526 TTTATAGTTA
*
37382536 TTTAATTAGATAATTATTATT-TATTTAATAT
1 TTTAATAAGATAATTATTATTAT-TTTAATAT
*
37382567 TTTAATAAGAT-ATT-TTATTATTTTATTAT
1 TTTAATAAGATAATTATTATTATTTTAATAT
37382596 TTTA
1 TTTA
37382600 TTTAGTCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 16 0.53
30 4 0.13
31 10 0.33
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (31 bp):
TTTAATAAGATAATTATTATTATTTTAATAT
Found at i:37382588 original size:8 final size:8
Alignment explanation
Indices: 37382577--37382601 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
37382567 TTTAATAAGA
37382577 TATTTTAT
1 TATTTTAT
37382585 TATTTTAT
1 TATTTTAT
37382593 TATTTTAT
1 TATTTTAT
37382601 T
1 T
37382602 TAGTCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:37385525 original size:20 final size:21
Alignment explanation
Indices: 37385495--37385534 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
37385485 TTCATTCAAG
*
37385495 ATGTATTTTTATTATTTTTAT
1 ATGTATTTTTAATATTTTTAT
37385516 ATGT-TTTTTAATATTTTTA
1 ATGTATTTTTAATATTTTTA
37385535 CTTAGATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (21 bp):
ATGTATTTTTAATATTTTTAT
Found at i:37385776 original size:18 final size:17
Alignment explanation
Indices: 37385734--37385776 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
37385724 TTTGAAAAAC
* *
37385734 ATATAAAAATAATATAT
1 ATATAAAAAAAATATAA
*
37385751 ATACAAAAAAAATTATAA
1 ATATAAAAAAAA-TATAA
37385769 ATATAAAA
1 ATATAAAA
37385777 TTATTAAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (17 bp):
ATATAAAAAAAATATAA
Found at i:37385892 original size:15 final size:16
Alignment explanation
Indices: 37385872--37385904 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
37385862 TTAATCTATA
37385872 TTTATAT-TTTTAAAT
1 TTTATATATTTTAAAT
*
37385887 TTTATATATTTTCAAT
1 TTTATATATTTTAAAT
37385903 TT
1 TT
37385905 CAAAATAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTATATATTTTAAAT
Found at i:37395710 original size:2 final size:2
Alignment explanation
Indices: 37395705--37395729 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
37395695 AAAAAAAAAA
37395705 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
37395730 CAAACAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:37403954 original size:67 final size:67
Alignment explanation
Indices: 37403844--37403980 Score: 238
Period size: 67 Copynumber: 2.0 Consensus size: 67
37403834 TATCTCTACT
*
37403844 GAAAGATACAACATATCATTGGTGAAATACCATAACTTTAGTGGTACCGAGAGAGAATGTTACAT
1 GAAAGATACAACATATCATTGGTGAAATACCATAACTTCAGTGGTACCGAGAGAGAATGTTACAT
37403909 GG
66 GG
* * *
37403911 GAAAGATACAGCATATCATTGGTGGAATACCATAACTTCAGTGGTATCGAGAGAGAATGTTACAT
1 GAAAGATACAACATATCATTGGTGAAATACCATAACTTCAGTGGTACCGAGAGAGAATGTTACAT
37403976 GG
66 GG
37403978 GAA
1 GAA
37403981 TTCTTCCAAG
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.25
Consensus pattern (67 bp):
GAAAGATACAACATATCATTGGTGAAATACCATAACTTCAGTGGTACCGAGAGAGAATGTTACAT
GG
Found at i:37410327 original size:40 final size:39
Alignment explanation
Indices: 37410162--37410345 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
37410152 AAATTGAATG
* * *
37410162 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
37410202 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
37410242 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
37410282 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
37410321 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
37410346 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:37410370 original size:80 final size:81
Alignment explanation
Indices: 37410202--37410390 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
37410192 GCTGGAAATT
* * * *
37410202 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
37410267 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
37410283 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
37410346 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
37410362 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
37410391 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:37423508 original size:40 final size:40
Alignment explanation
Indices: 37423463--37423629 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
37423453 CGGAATATAA
37423463 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
37423503 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
37423543 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
37423583 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
37423622 CCGGATAT
1 CCGGATAT
37423630 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:37431557 original size:38 final size:39
Alignment explanation
Indices: 37431401--37431567 Score: 150
Period size: 38 Copynumber: 4.3 Consensus size: 39
37431391 CGGAATATAA
* *
37431401 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATATTCAC-TAGCACAATTGCCTTC-GGTCTTAGC
* *
37431441 CCGGATA-A--AACTCGCACGAA-TGCCTTCGGTCTTAGC
1 CCGGATATATTCACTAGCAC-AATTGCCTTCGGTCTTAGC
** *
37431477 CCGGATATAGCCACTAGCACAATTGCCTTCGGTCTTAAC
1 CCGGATATATTCACTAGCACAATTGCCTTCGGTCTTAGC
* * *
37431516 CCGGATATAATTC-C-AGCATAATTGTCTTCGGGCTTAGC
1 CCGGATAT-ATTCACTAGCACAATTGCCTTCGGTCTTAGC
37431554 CCGGATATCATTCA
1 CCGGATAT-ATTCA
37431568 ATTTCTCATA
Statistics
Matches: 108, Mismatches: 11, Indels: 17
0.79 0.08 0.12
Matches are distributed among these distances:
36 17 0.16
37 14 0.13
38 36 0.33
39 32 0.30
40 9 0.08
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.26
Consensus pattern (39 bp):
CCGGATATATTCACTAGCACAATTGCCTTCGGTCTTAGC
Found at i:37431561 original size:77 final size:76
Alignment explanation
Indices: 37431417--37431561 Score: 186
Period size: 77 Copynumber: 1.9 Consensus size: 76
37431407 ATAATCACGT
* *
37431417 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAACTCGCACGAATGCCTTCGGTCTTAGCCCGGA
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAAAACTCGCACGAATGCCTTCGGGCTTAGCCCGGA
37431482 TATAGCCACTA
66 TATAGCCACTA
* * * * *
37431493 GCACAATTGCCTTC-GGTCTTAACCCGGATATAATTC-CAGCATAATTGTCTTCGGGCTTAGCCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAAAACTCGCA-C-GAA-TGCCTTCGGGCTTAGCCC
37431556 GGATAT
63 GGATAT
37431562 CATTCAATTT
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
74 2 0.03
75 20 0.34
76 15 0.25
77 22 0.37
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.26
Consensus pattern (76 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAAAACTCGCACGAATGCCTTCGGGCTTAGCCCGGA
TATAGCCACTA
Done.