Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 147 of 438
Found at i:43928492 original size:22 final size:22
Alignment explanation
Indices: 43928464--43928539 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
43928454 TTTCACATTC
43928464 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
43928486 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
43928510 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
43928533 ATCACAT
1 ATCACAT
43928540 ATACATATCT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 18 0.46
23 5 0.13
24 5 0.13
25 11 0.28
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:43934438 original size:28 final size:28
Alignment explanation
Indices: 43934339--43934425 Score: 138
Period size: 28 Copynumber: 3.1 Consensus size: 28
43934329 GCAATCAAAT
* *
43934339 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
43934367 ATGGCACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* *
43934395 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
43934423 ATG
1 ATG
43934426 ACCTTTCGTG
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 55 1.00
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Found at i:43934444 original size:56 final size:56
Alignment explanation
Indices: 43934339--43934445 Score: 126
Period size: 56 Copynumber: 1.9 Consensus size: 56
43934329 GCAATCAAAT
* * *
43934339 ATGGTACTCAGTGTACGAAATATTGAGAATGGCACTTAGTGTACGAAATATTGAGA
1 ATGGCACTCAGTGTACGAAATATTGAGAATGACACTTAGTGTACAAAATATTGAGA
* * * * *
43934395 ATGGCACTTAGTGTGCGAGATATTGAGAATGAC-CTTTCGTGTGCAAAATAT
1 ATGGCACTCAGTGTACGAAATATTGAGAATGACAC-TTAGTGTACAAAATAT
43934446 CGAATGATTC
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
55 1 0.02
56 41 0.98
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (56 bp):
ATGGCACTCAGTGTACGAAATATTGAGAATGACACTTAGTGTACAAAATATTGAGA
Found at i:43934665 original size:43 final size:43
Alignment explanation
Indices: 43934557--43934685 Score: 138
Period size: 44 Copynumber: 3.0 Consensus size: 43
43934547 TTTATAATGG
* * *
43934557 TGATATTCGGGCTTTGAGCCTAGCAAGCTTTAA-GCTGGTGAATAA
1 TGATA-TCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTG-A-AA
*
43934602 T-ATTATCGGGCTTTGGGCCTAGCAGGCTATAATGCCGGTGAAA
1 TGA-TATCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
** *
43934645 TGATATCGGGCTTCAAGCCTAGCAGGCTA-AATGTCGGTGAA
1 TGATATCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAA
43934686 TGAGTTCAGA
Statistics
Matches: 73, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
42 11 0.15
43 26 0.36
44 27 0.37
45 9 0.12
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.28
Consensus pattern (43 bp):
TGATATCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:43934708 original size:41 final size:43
Alignment explanation
Indices: 43934618--43934765 Score: 123
Period size: 41 Copynumber: 3.6 Consensus size: 43
43934608 CGGGCTTTGG
* * *
43934618 GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTTCAA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGATATCAGACTTAAA
*
43934661 GCCTAGCAGGCTA-AATGTCGGTG-AATGAGT-TCAGACTTAAA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGA-TATCAGACTTAAA
* ** **
43934702 GTCTAGCAGGCT-TCGTGCCGGTG--ATGA-ATTCAGGTTTAAA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGATA-TCAGACTTAAA
* *
43934742 ACCTAGCAGGATA-AATGCCGGTGA
1 GCCTAGCAGGCTATAATGCCGGTGA
43934766 TTTGATAAAA
Statistics
Matches: 84, Mismatches: 15, Indels: 14
0.74 0.13 0.12
Matches are distributed among these distances:
40 30 0.36
41 31 0.37
42 10 0.12
43 13 0.15
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (43 bp):
GCCTAGCAGGCTATAATGCCGGTGAAATGATATCAGACTTAAA
Found at i:43934761 original size:40 final size:40
Alignment explanation
Indices: 43934619--43934766 Score: 118
Period size: 40 Copynumber: 3.6 Consensus size: 40
43934609 GGGCTTTGGG
* * * *
43934619 CCTAGCAGGCTATAATGCCGGTGAAATG-ATATCGGGCTTCAAG
1 CCTAGCAGGCTA-AATGCCGGTG--ATGAAT-TCAGACTTAAAA
* * *
43934662 CCTAGCAGGCTAAATGTCGGTGAATGAGTTCAGACTTAAAG
1 CCTAGCAGGCTAAATGCCGGTG-ATGAATTCAGACTTAAAA
* *** **
43934703 TCTAGCAGGCTTCGTGCCGGTGATGAATTCAGGTTTAAAA
1 CCTAGCAGGCTAAATGCCGGTGATGAATTCAGACTTAAAA
*
43934743 CCTAGCAGGATAAATGCCGGTGAT
1 CCTAGCAGGCTAAATGCCGGTGAT
43934767 TTGATAAAAG
Statistics
Matches: 85, Mismatches: 19, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
40 33 0.39
41 30 0.35
42 10 0.12
43 12 0.14
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (40 bp):
CCTAGCAGGCTAAATGCCGGTGATGAATTCAGACTTAAAA
Found at i:43936299 original size:49 final size:49
Alignment explanation
Indices: 43936222--43936466 Score: 301
Period size: 49 Copynumber: 4.9 Consensus size: 49
43936212 TAGCCGAAGC
* * *
43936222 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * * *
43936271 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTATACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* * ** *
43936321 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACATGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* * * * *
43936372 TATCAGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
*
43936421 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
43936467 TCACAATAGC
Statistics
Matches: 163, Mismatches: 30, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 81 0.50
50 46 0.28
51 36 0.22
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:43936399 original size:101 final size:98
Alignment explanation
Indices: 43936235--43936460 Score: 299
Period size: 100 Copynumber: 2.3 Consensus size: 98
43936225 CTGGTACGCA
** * * *
43936235 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACACGACCAATTATCAGGTACACATAGTAGCCTACACTTA
* *
43936300 GTACTATACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACC-AACCATCTGATACACG
* * *
43936334 TAGTAGCCTGCACTTAGTACTACACACATGATCGAAGTTATCAGGTACGCATAGTAGCCTACACT
1 TAGTAGCCTGCACTTAGTACTACACACACGA-CCAA-TTATCAGGTACACATAGTAGCCTACACT
* ** *
43936399 TAGTACTACACATGCGACCAATTATCTGGTACACG
64 TAGTACTACACACGCGACCAACCATCTGATACACG
43936434 TAGTAGCCTGCACTTAGTACTACACAC
1 TAGTAGCCTGCACTTAGTACTACACAC
43936461 GTGACCTCAC
Statistics
Matches: 111, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
99 28 0.25
100 43 0.39
101 40 0.36
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACACGACCAATTATCAGGTACACATAGTAGCCTACACTTA
GTACTACACACGCGACCAACCATCTGATACACG
Found at i:43938319 original size:28 final size:27
Alignment explanation
Indices: 43938256--43938325 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
43938246 ATAGTGAGTC
43938256 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
43938283 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
43938311 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
43938326 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:43940171 original size:30 final size:30
Alignment explanation
Indices: 43940137--43940196 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
43940127 CTTTAATATG
*
43940137 AACTTTGGTAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* *
43940167 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
43940197 GGCTCGAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:43947168 original size:28 final size:28
Alignment explanation
Indices: 43947128--43947234 Score: 124
Period size: 28 Copynumber: 3.8 Consensus size: 28
43947118 GCAATCAAAT
* *
43947128 ATGGTACTCAGTGTACAAAATATTGAGA
1 ATGGCACTTAGTGTACAAAATATTGAGA
*
43947156 ATGGCACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACAAAATATTGAGA
* * * *
43947184 ATGGCACTTCGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTACAAAATATTGAGA
* * *
43947212 ATGACACTTCGTGTGCAAAATAT
1 ATGGCACTTAGTGTACAAAATAT
43947235 GAATGATTCA
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 70 1.00
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTACAAAATATTGAGA
Found at i:43947453 original size:42 final size:42
Alignment explanation
Indices: 43947345--43947471 Score: 125
Period size: 42 Copynumber: 3.0 Consensus size: 42
43947335 TTTATAATGG
* * * *
43947345 TGATATTCGGGCTTTGAGCCTAGCAAGCTTTAA-GCTGGTGAATAA
1 TGATA-TCGGGC-TTCAGCCTAGCAGGCTATAATGCCGGTG-A-AA
* *
43947390 T-ATTATCGGGCTTCGGGCTAGCAGGCTATAATGCCGGTGAAA
1 TGA-TATCGGGCTTCAGCCTAGCAGGCTATAATGCCGGTGAAA
*
43947432 TGATATCGGGCTTCAGCCTAGCAGGCGA-AATGCCGGTGAA
1 TGATATCGGGCTTCAGCCTAGCAGGCTATAATGCCGGTGAA
43947472 TGAGTTCAGA
Statistics
Matches: 70, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
41 12 0.17
42 25 0.36
43 17 0.24
44 13 0.19
45 3 0.04
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (42 bp):
TGATATCGGGCTTCAGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:43947552 original size:40 final size:41
Alignment explanation
Indices: 43947407--43947551 Score: 143
Period size: 40 Copynumber: 3.5 Consensus size: 41
43947397 GGGCTTCGGG
*
43947407 CTAGCAGGCTATAATGCCGGTGAAATG-ATATCGGGCTT-CAGC
1 CTAGCAGGCTA-AATGCCGGTG-AATGAAT-TCGGGCTTAAAGC
* * * * *
43947449 CTAGCAGGCGAAATGCCGGTGAATGAGTTCAGACTTAAAGT
1 CTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAAGC
*** * *
43947490 CTAGCAGGCTTCGTGCCGGTG-ATGAATTCGGGTTTAAAAC
1 CTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAAGC
43947530 CTAGCAGGCTAAATGCCGGTGA
1 CTAGCAGGCTAAATGCCGGTGA
43947552 TTTGATAAAA
Statistics
Matches: 81, Mismatches: 19, Indels: 7
0.76 0.18 0.07
Matches are distributed among these distances:
40 41 0.51
41 30 0.37
42 10 0.12
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (41 bp):
CTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAAGC
Found at i:43950870 original size:40 final size:40
Alignment explanation
Indices: 43950825--43950952 Score: 145
Period size: 40 Copynumber: 3.2 Consensus size: 40
43950815 CGGAATATAA
43950825 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
43950865 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
43950905 CCGG--ATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
43950943 CCGGATATAA
1 CCGGATATAA
43950953 TTTCCAGCAT
Statistics
Matches: 70, Mismatches: 15, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
38 29 0.41
39 1 0.01
40 40 0.57
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:43950939 original size:38 final size:37
Alignment explanation
Indices: 43950841--43950989 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 37
43950831 ATAACCACGT
*
43950841 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAA--TCTA
*
43950881 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGCCA-CTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAG-AATCTA
* * *
43950919 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAGAA--TCTA
* *
43950959 GCATAATTGTCTTCGGGAT-TTAGCCCGGATA
1 GCACAA-TGCCTTCGGG-TCTTAGCCCGGATA
43950990 TCATTCAATT
Statistics
Matches: 93, Mismatches: 10, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
37 3 0.03
38 29 0.31
40 59 0.63
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (37 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATCTA
Found at i:43950973 original size:78 final size:78
Alignment explanation
Indices: 43950841--43950989 Score: 196
Period size: 78 Copynumber: 1.9 Consensus size: 78
43950831 ATAACCACGT
*
43950841 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
43950905 CCGGATAGCCACTA
65 CCGGATAGCCACTA
* * * * *
43950919 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
43950982 CCCGGATA
64 CCCGGATA
43950990 TCATTCAATT
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
77 3 0.05
78 58 0.94
79 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (78 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATAGCCACTA
Found at i:43961218 original size:17 final size:18
Alignment explanation
Indices: 43961176--43961224 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
43961166 AGTTGAAAAG
43961176 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
43961195 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
43961212 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
43961225 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:43962169 original size:39 final size:40
Alignment explanation
Indices: 43962046--43962211 Score: 171
Period size: 40 Copynumber: 4.2 Consensus size: 40
43962036 AAATTGAATG
* * *
43962046 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTAATT
* * **
43962085 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTAATT
*
43962125 ATATCCGGGCTAAG-CCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTAATT
* * *
43962164 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTAATT
43962204 ATATCCGG
1 ATATCCGG
43962212 TTATATTCCG
Statistics
Matches: 106, Mismatches: 15, Indels: 11
0.80 0.11 0.08
Matches are distributed among these distances:
38 3 0.03
39 45 0.42
40 56 0.53
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTAATT
Found at i:43962178 original size:79 final size:79
Alignment explanation
Indices: 43962046--43962211 Score: 212
Period size: 79 Copynumber: 2.1 Consensus size: 79
43962036 AAATTGAATG
*
43962046 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
*
43962111 TTGTGCTA-GTGGTT
66 TTGTGC-ACGTGATT
* * ** *
43962125 ATATCCGGGCTAAGCCCGAAGGC-ATTCGTGC-GAGTTATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGCCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
43962188 ATTTGTGCACGTGATT
64 AATTGTGCACGTGATT
43962204 ATATCCGG
1 ATATCCGG
43962212 TTATATTCCG
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 5 0.07
79 71 0.93
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCACGTGATT
Found at i:43969195 original size:17 final size:18
Alignment explanation
Indices: 43969153--43969201 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
43969143 AGTTGAAAAG
43969153 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
43969172 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
43969189 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
43969202 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:43970089 original size:40 final size:40
Alignment explanation
Indices: 43970023--43970189 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
43970013 AAATTGAATG
* * *
43970023 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
43970062 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
43970102 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
43970142 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
43970182 ATATCCGG
1 ATATCCGG
43970190 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:43978758 original size:2 final size:2
Alignment explanation
Indices: 43978751--43978781 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
43978741 AAACACGTAT
43978751 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
43978782 TATATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:43980502 original size:12 final size:14
Alignment explanation
Indices: 43980467--43980507 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
43980457 TTTTTTTTTA
43980467 AGTAGTTATTGATAT
1 AGTA-TTATTGATAT
43980482 AGTCATTATT-ATAT
1 AGT-ATTATTGATAT
43980496 AGT-TTATTGATA
1 AGTATTATTGATA
43980508 AAAATAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
12 5 0.21
13 3 0.12
14 7 0.29
15 8 0.33
16 1 0.04
ACGTcount: A:0.34, C:0.02, G:0.15, T:0.49
Consensus pattern (14 bp):
AGTATTATTGATAT
Found at i:43989645 original size:19 final size:19
Alignment explanation
Indices: 43989617--43989656 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
43989607 AGAGCGAAAG
43989617 AAACGAG-AAATAGGCCAA
1 AAACGAGAAAATAGGCCAA
*
43989635 AAACGGAGAAAATGGGCCAA
1 AAAC-GAGAAAATAGGCCAA
43989655 AA
1 AA
43989657 TATGAAATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 3 0.16
20 12 0.63
ACGTcount: A:0.55, C:0.15, G:0.25, T:0.05
Consensus pattern (19 bp):
AAACGAGAAAATAGGCCAA
Found at i:43993356 original size:68 final size:68
Alignment explanation
Indices: 43993209--43993364 Score: 149
Period size: 68 Copynumber: 2.2 Consensus size: 68
43993199 AGCCGATTTG
* * * * *
43993209 TCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATT
1 TCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACATA
*
43993274 TATC
65 TATA
* *
43993278 TCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTACT
1 TCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTAC-
43993340 ATATAGTA
62 ATATA-TA
43993348 TCTCGTAGC-CTTCTTGT
1 TCTCGTAGCTC-TCTTGT
43993365 ACACATGATG
Statistics
Matches: 73, Mismatches: 8, Indels: 13
0.78 0.09 0.14
Matches are distributed among these distances:
67 1 0.01
68 33 0.45
69 7 0.10
70 6 0.08
71 26 0.36
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.35
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACATAT
ATA
Found at i:43999798 original size:29 final size:29
Alignment explanation
Indices: 43999756--43999814 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
43999746 CTTAGTAAGT
43999756 AAGTATATAAATAACAAATAAGGAATCTA
1 AAGTATATAAATAACAAATAAGGAATCTA
43999785 AAGTATATAAATAACAAATAAGGAATCTA
1 AAGTATATAAATAACAAATAAGGAATCTA
43999814 A
1 A
43999815 TATATTTACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.59, C:0.07, G:0.10, T:0.24
Consensus pattern (29 bp):
AAGTATATAAATAACAAATAAGGAATCTA
Found at i:44001014 original size:2 final size:2
Alignment explanation
Indices: 44001007--44001033 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
44000997 ACATCAGCTA
44001007 AT 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 AT A
44001034 ATAGGCTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:44005697 original size:40 final size:40
Alignment explanation
Indices: 44005642--44005722 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
44005632 TTTTACGGTG
44005642 TATGTCGCACGTACATGTCATCAACCTTGCCTATTTCATC
1 TATGTCGCACGTACATGTCATCAACCTTGCCTATTTCATC
44005682 TATGTCGCACGTACATGTCATCAACCTTGCCTATTTCATC
1 TATGTCGCACGTACATGTCATCAACCTTGCCTATTTCATC
44005722 T
1 T
44005723 CCCTCGCGAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.22, C:0.30, G:0.12, T:0.36
Consensus pattern (40 bp):
TATGTCGCACGTACATGTCATCAACCTTGCCTATTTCATC
Found at i:44012142 original size:55 final size:54
Alignment explanation
Indices: 44012034--44012267 Score: 216
Period size: 55 Copynumber: 4.4 Consensus size: 54
44012024 ATTAGGGTTT
* * * * *
44012034 AAGGATACCATGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTT-TCTAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGC-ATTGGTAA-GTTCTATAAGGA
* *
44012089 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATATGTTACTATAAGGAA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT-CTATAAGG-A
* * * * * *
44012145 AAGG-TCCCATGTAAGATCACG-CTAAGGCATGGCATTGGTGAG-TCCATAAGGA
1 AAGGATACCATGTAAGACCATGTC-AAGACATGGCATTGGTAAGTTCTATAAGGA
** *
44012197 AAGGATACCATGTAAGACCATGTCAAGACATGGCAACGGTAAG-T-T-TCA--A
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCTATAAGGA
44012246 AAGGATACCATGTAAGACCATG
1 AAGGATACCATGTAAGACCATG
44012268 AAAAGTCGTG
Statistics
Matches: 149, Mismatches: 24, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
49 23 0.15
51 2 0.01
52 5 0.03
53 40 0.27
54 9 0.06
55 66 0.44
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCTATAAGGA
Found at i:44018457 original size:27 final size:27
Alignment explanation
Indices: 44018427--44018478 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
44018417 AATCTCATAT
* *
44018427 CTGTAGGCTAGCATTGCTGAAATACTC
1 CTGTAGGCTAGAATTACTGAAATACTC
*
44018454 CTGTAGGGTAGAATTACTGAAATAC
1 CTGTAGGCTAGAATTACTGAAATAC
44018479 CCTTGATTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (27 bp):
CTGTAGGCTAGAATTACTGAAATACTC
Found at i:44018495 original size:27 final size:27
Alignment explanation
Indices: 44018465--44018706 Score: 204
Period size: 27 Copynumber: 9.0 Consensus size: 27
44018455 TGTAGGGTAG
*
44018465 AATTACTGAAATACCCTTGATTTGTGA
1 AATTACTGAAATACCCTTGATTTGTAA
* * *
44018492 AATTACCGAAATA-CTTTCGACTTGTAA
1 AATTACTGAAATACCCTT-GATTTGTAA
* *
44018519 AATTACCGAAATACCCTCGATTTGTAA
1 AATTACTGAAATACCCTTGATTTGTAA
** * *
44018546 AATTACAAAAATACCCCTGATTTGAAA
1 AATTACTGAAATACCCTTGATTTGTAA
44018573 AATTA-TCGAAATACCCTTGATTTGTAA
1 AATTACT-GAAATACCCTTGATTTGTAA
** * * **
44018600 AATTACAAAAATACCCCTAATTTACAA
1 AATTACTGAAATACCCTTGATTTGTAA
* * **
44018627 ATTTA-TAAAATACCCTTGACTTTCAAA
1 AATTACTGAAATACCCTTGA-TTTGTAA
* * *
44018654 AATTA-TAGAAATACCATTGGTTTGCAA
1 AATTACT-GAAATACCCTTGATTTGTAA
*
44018681 AATTACTGAAATACCCTTGGTTTGTA
1 AATTACTGAAATACCCTTGATTTGTA
44018707 GATTTACCAA
Statistics
Matches: 172, Mismatches: 36, Indels: 14
0.77 0.16 0.06
Matches are distributed among these distances:
26 14 0.08
27 145 0.84
28 13 0.08
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGATTTGTAA
Found at i:44018788 original size:27 final size:27
Alignment explanation
Indices: 44018758--44018833 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
44018748 CCCCTAATAA
* *
44018758 GTAAAAAGACCGTAATGCCCCTGTAGC
1 GTAAAATGACCGTAATGCCCCTATAGC
* * *
44018785 GTAAAATGACAGTAAAGCCCCTATAGG
1 GTAAAATGACCGTAATGCCCCTATAGC
* *
44018812 GTAAAGTGACCGTAATACCCCT
1 GTAAAATGACCGTAATGCCCCT
44018834 TCTTTCTGTC
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.20
Consensus pattern (27 bp):
GTAAAATGACCGTAATGCCCCTATAGC
Found at i:44020459 original size:33 final size:33
Alignment explanation
Indices: 44020422--44020498 Score: 127
Period size: 33 Copynumber: 2.3 Consensus size: 33
44020412 TAAGGTCCAT
* *
44020422 ACTGTACTGATATTGAATAGGGCTTTGGCCCAG
1 ACTGTACTGATACTGAATAAGGCTTTGGCCCAG
44020455 ACTGTACTGATACTGAATAAGGCTTTGGCCCAG
1 ACTGTACTGATACTGAATAAGGCTTTGGCCCAG
*
44020488 ACTATACTGAT
1 ACTGTACTGAT
44020499 GCTGTGTTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.30
Consensus pattern (33 bp):
ACTGTACTGATACTGAATAAGGCTTTGGCCCAG
Found at i:44020802 original size:17 final size:16
Alignment explanation
Indices: 44020762--44020826 Score: 51
Period size: 18 Copynumber: 3.9 Consensus size: 16
44020752 AGTCAAGGAA
44020762 AACACGAGTTTTTAAG
1 AACACGAGTTTTTAAG
*
44020778 ATAGCACGATTTTTTAAAG
1 A-A-CACGAGTTTTT-AAG
* * *
44020797 AACACGAGCTTTCAAT
1 AACACGAGTTTTTAAG
*
44020813 AACA-AAGTTTTTAA
1 AACACGAGTTTTTAA
44020827 AATGTTTTCG
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
15 7 0.18
16 7 0.18
17 9 0.24
18 11 0.29
19 4 0.11
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (16 bp):
AACACGAGTTTTTAAG
Found at i:44023310 original size:55 final size:54
Alignment explanation
Indices: 44023222--44023476 Score: 201
Period size: 55 Copynumber: 4.8 Consensus size: 54
44023212 ATTAGGGTTT
* * **
44023222 AAGGATACCTTGAAAGACCATGCCAAGGTATGGCAATTGGTAAGGTTTCTAAGGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGA
* * * *
44023277 AAGGATACCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAATGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAA-GGA
* * * *
44023333 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGTTGAG-TTCATAAGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGG-A
* * *
44023386 AA-GATACCATTTAAGTCCATG-TAGAGACATGGCAA-TGGTAAGTTTC--A--A
1 AAGGATACCATGTAAGACCATGCCA-AGACATGGCAATTGGTAAGTTTCTAAGGA
* * *
44023434 AAGGATACCATGTAAAACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
44023477 GTACCCGTGT
Statistics
Matches: 162, Mismatches: 27, Indels: 28
0.75 0.12 0.13
Matches are distributed among these distances:
48 3 0.02
49 33 0.20
50 1 0.01
51 1 0.01
52 4 0.02
53 36 0.22
54 12 0.07
55 66 0.41
56 6 0.04
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGA
Found at i:44023417 original size:53 final size:54
Alignment explanation
Indices: 44023271--44023429 Score: 162
Period size: 53 Copynumber: 2.9 Consensus size: 54
44023261 GTAAGGTTTC
44023271 TAAGG-AAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTA
1 TAAGGCAAA-GATACCATGTAAGACCATGT-AAGACATGGCATTGATAAGTTACTA
* * * * * * *
44023326 TAATGCAAAGGTCCCATGTAAGACCATGCCAAGGCATGGCATTGTTGAGTT-C-A
1 TAAGGCAAAGATACCATGTAAGACCATG-TAAGACATGGCATTGATAAGTTACTA
* * * *
44023379 TAAGGCAAAGATACCATTTAAGTCCATGTAGAGACATGGCAATGGTAAGTT
1 TAAGGCAAAGATACCATGTAAGACCATGTA-AGACATGGCATTGATAAGTT
44023430 TCAAAAGGAT
Statistics
Matches: 84, Mismatches: 17, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
52 1 0.01
53 40 0.48
54 1 0.01
55 39 0.46
56 3 0.04
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (54 bp):
TAAGGCAAAGATACCATGTAAGACCATGTAAGACATGGCATTGATAAGTTACTA
Found at i:44035032 original size:29 final size:29
Alignment explanation
Indices: 44034999--44035130 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
44034989 GTGATGAGAT
44034999 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
44035028 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
44035057 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
44035086 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
44035115 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
44035131 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:44043067 original size:29 final size:29
Alignment explanation
Indices: 44043034--44043136 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 29
44043024 GTGACGAGAT
44043034 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
44043063 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
44043092 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
44043121 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
44043137 GGCTTAAATC
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.25, C:0.16, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:44076430 original size:46 final size:46
Alignment explanation
Indices: 44076377--44076552 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
44076367 TGGTTGAGCA
44076377 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
44076423 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
44076468 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
44076516 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44076553 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 61 0.55
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:44076533 original size:93 final size:93
Alignment explanation
Indices: 44076374--44076545 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
44076364 AGATGGTTGA
*
44076374 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
44076439 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
44076467 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
44076531 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
44076546 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:44112106 original size:30 final size:30
Alignment explanation
Indices: 44112070--44112229 Score: 204
Period size: 29 Copynumber: 5.5 Consensus size: 30
44112060 GACAAGATTG
* * * * *
44112070 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
44112100 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
44112128 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
44112157 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
44112187 GCACTAAGTGAGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
44112216 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
44112230 GATTCACTAT
Statistics
Matches: 117, Mismatches: 8, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.19
29 47 0.40
30 44 0.38
31 2 0.02
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:44112202 original size:59 final size:57
Alignment explanation
Indices: 44112099--44112229 Score: 201
Period size: 59 Copynumber: 2.3 Consensus size: 57
44112089 AAAATTGTAC
* *
44112099 AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGTCTGATTATATAGCACTAAGTGAGCGAGCTGAAAATATAT
44112156 AGCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGAGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGTCTG---ATTATATAGCACTAAGTGAGCGAGCTGAAAATATAT
*
44112215 AACACTAAGTGTGCG
1 AGCACTAAGTGTGCG
44112230 GATTCACTAT
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
56 2 0.03
57 17 0.25
59 49 0.72
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (57 bp):
AGCACTAAGTGTGCGAGTCTGATTATATAGCACTAAGTGAGCGAGCTGAAAATATAT
Found at i:44125333 original size:18 final size:18
Alignment explanation
Indices: 44125310--44125348 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
44125300 TACGGCCTTG
44125310 CTTGAGTTCCAAGAATTC
1 CTTGAGTTCCAAGAATTC
44125328 CTTGAGTTCCAAGAATTC
1 CTTGAGTTCCAAGAATTC
44125346 CTT
1 CTT
44125349 ACGCTTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (18 bp):
CTTGAGTTCCAAGAATTC
Found at i:44127533 original size:28 final size:28
Alignment explanation
Indices: 44127501--44127599 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
44127491 GCAATAAGCC
*
44127501 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
44127529 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
44127557 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
44127586 CGCACACTTAGTGC
1 CGCACACTTAGTGC
44127600 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:44128946 original size:30 final size:30
Alignment explanation
Indices: 44128910--44129039 Score: 160
Period size: 30 Copynumber: 4.4 Consensus size: 30
44128900 GGCTGTCACA
* * * * *
44128910 CACTAAGTGTGCGGGTTTAAAATTGTACAG
1 CACTAAGTGTGCGAGCTGAAAATTATATAG
*
44128940 CACTAAGTGTGCGAGTTTG---ATTATATAG
1 CACTAAGTGTGCGAG-CTGAAAATTATATAG
44128968 CACTAAGTGTGCGAGCTGAAAATTATATAG
1 CACTAAGTGTGCGAGCTGAAAATTATATAG
*
44128998 CACTAAGTGAGCGAGCTGAAAA-TATATAG
1 CACTAAGTGTGCGAGCTGAAAATTATATAG
44129027 CACTAAGTGTGCG
1 CACTAAGTGTGCG
44129040 GATTCACTAT
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
27 2 0.02
28 22 0.25
29 19 0.21
30 44 0.49
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (30 bp):
CACTAAGTGTGCGAGCTGAAAATTATATAG
Found at i:44129000 original size:58 final size:58
Alignment explanation
Indices: 44128910--44129039 Score: 163
Period size: 58 Copynumber: 2.2 Consensus size: 58
44128900 GGCTGTCACA
* * * * * * *
44128910 CACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATAG
1 CACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGAGCGAG-CTGAAATATATAG
*
44128968 CACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGAGCGAGCTGAAAATATATAG
1 CACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGAGCGAGCTG-AAATATATAG
44129027 CACTAAGTGTGCG
1 CACTAAGTGTGCG
44129040 GATTCACTAT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 39 0.63
59 21 0.34
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (58 bp):
CACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGAGCGAGCTGAAATATATAG
Found at i:44134318 original size:42 final size:42
Alignment explanation
Indices: 44134218--44134388 Score: 166
Period size: 43 Copynumber: 4.0 Consensus size: 42
44134208 TGTGTTATCG
* * *
44134218 TGTAAGACCATGTTTGGGACATTGGCATCG-ACTTATGATTTACA
1 TGTAAGACCATGTCTGGGACGTTGGCATTGTA-TT-TGATTT-CA
* * *
44134262 TGTAAGACCATGTCTAGGACGTTGGAATTGTATTTGATTTCG
1 TGTAAGACCATGTCTGGGACGTTGGCATTGTATTTGATTTCA
* * * *
44134304 TGTAAGACCCTGTCTGGGATAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTGGGA-CGTTGGCATTG-TATTTGATTTCA
* * *
44134347 TGTAAGACCAAGTCTGGGACGTTGGCATTGTACTAGATTTCA
1 TGTAAGACCATGTCTGGGACGTTGGCATTGTATTTGATTTCA
44134389 GAGCTATCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
42 34 0.33
43 41 0.40
44 27 0.26
45 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACGTTGGCATTGTATTTGATTTCA
Found at i:44134386 original size:85 final size:86
Alignment explanation
Indices: 44134215--44134387 Score: 233
Period size: 85 Copynumber: 2.0 Consensus size: 86
44134205 ATATGTGTTA
* * *
44134215 TCGTGTAAGACCATGTTTGGGACATTGGCATCGACTTATGATTTACATGTAAGACCATGTCTAGG
1 TCGTGTAAGACCATGTCTGGGACAGTGGCATCGACTTATGATTTACATGTAAGACCAAGTCTAGG
* *
44134280 ACGTTGGAATTGTATTTGATT
66 ACGTTGGAATTGTACTAGATT
* * * *
44134301 TCGTGTAAGACCCTGTCTGGGATAGTGGCATCGA-TATTTGA-TTACATGTAAGACCAAGTCTGG
1 TCGTGTAAGACCATGTCTGGGACAGTGGCATCGACT-TATGATTTACATGTAAGACCAAGTCTAG
*
44134364 GACGTTGGCATTGTACTAGATT
65 GACGTTGGAATTGTACTAGATT
44134386 TC
1 TC
44134388 AGAGCTATCC
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
85 42 0.55
86 34 0.45
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (86 bp):
TCGTGTAAGACCATGTCTGGGACAGTGGCATCGACTTATGATTTACATGTAAGACCAAGTCTAGG
ACGTTGGAATTGTACTAGATT
Found at i:44143203 original size:29 final size:28
Alignment explanation
Indices: 44143169--44143271 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
44143159 TACTCAATCA
*
44143169 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
44143198 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
44143227 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
44143256 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
44143272 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:44151220 original size:29 final size:28
Alignment explanation
Indices: 44151186--44151288 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
44151176 TACTCAATCA
*
44151186 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
44151215 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
44151244 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
44151273 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
44151289 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:44163626 original size:40 final size:40
Alignment explanation
Indices: 44163541--44163691 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
44163531 AATTGAATGA
* * *
44163541 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
44163581 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
44163622 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
44163661 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
44163692 ACGTGATTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:44163705 original size:40 final size:40
Alignment explanation
Indices: 44163577--44163707 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
44163567 TATGCTGGAA
* * *
44163577 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
44163617 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
44163657 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
44163697 ATTATATCCGG
1 ATTATATCCGG
44163708 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:44167664 original size:29 final size:29
Alignment explanation
Indices: 44167622--44167750 Score: 231
Period size: 29 Copynumber: 4.4 Consensus size: 29
44167612 AAAATTGTAC
*
44167622 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
44167651 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
*
44167680 AGCACTAACTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
44167710 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
44167739 AGCACTAAGTGT
1 AGCACTAAGTGT
44167751 ACGGATTCAC
Statistics
Matches: 96, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
29 68 0.71
30 28 0.29
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:44167718 original size:59 final size:58
Alignment explanation
Indices: 44167622--44167746 Score: 223
Period size: 59 Copynumber: 2.1 Consensus size: 58
44167612 AAAATTGTAC
*
44167622 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAACTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
*
44167680 AGCACTAACTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAACTGTGCGAACTGAAAA-TATATAGCACTAAGTGTGCGAGCTGAAAATATAT
44167739 AGCACTAA
1 AGCACTAA
44167747 GTGTACGGAT
Statistics
Matches: 64, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
58 22 0.34
59 42 0.66
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (58 bp):
AGCACTAACTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:44175022 original size:40 final size:39
Alignment explanation
Indices: 44174978--44175165 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 39
44174968 ATAACCACAA
* * *** *
44174978 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTC
44175018 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
*
44175058 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAA-CAACTC
* * *
44175098 GCATAAATGCCTTCGGGACTTAGCCCGGATATAATC-ACTA
1 GCA-CAATGCCTTCGGGTCTTAGCCCGGATATAA-CAACTC
* *
44175138 GCATAAATGCCTTCGGGACTTAGCCCGG
1 GCA-CAATGCCTTCGGGTCTTAGCCCGG
44175166 GTATCATTCA
Statistics
Matches: 135, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
40 132 0.98
41 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
Found at i:44175106 original size:80 final size:80
Alignment explanation
Indices: 44174962--44175165 Score: 248
Period size: 80 Copynumber: 2.5 Consensus size: 80
44174952 CGGAATTTAA
* * * * * * ** *
44174962 CCGGACATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAAATG
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATAACTAGCACAAATG
*
44175027 CCTTCGGGTCTTAGC
66 CCTTCGGGACTTAGC
* * * *
44175042 CCGGATATAA-CAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAAT
1 CCGGATATAATC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATAACTAGCACAAAT
44175106 GCCTTCGGGACTTAGC
65 GCCTTCGGGACTTAGC
* *
44175122 CCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGG
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGG
44175166 GTATCATTCA
Statistics
Matches: 105, Mismatches: 17, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
79 1 0.01
80 103 0.98
81 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATAACTAGCACAAATG
CCTTCGGGACTTAGC
Found at i:44185007 original size:29 final size:29
Alignment explanation
Indices: 44184974--44185133 Score: 221
Period size: 29 Copynumber: 5.5 Consensus size: 29
44184964 TGACGAGATC
44184974 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
44185003 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
*
44185032 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
* *
44185061 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
* * ** * *
44185090 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
**
44185119 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
44185134 AGCTCGGAGG
Statistics
Matches: 119, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 119 1.00
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAATATAT
Found at i:44187518 original size:2 final size:2
Alignment explanation
Indices: 44187511--44187542 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
44187501 TTGTGCAAAC
44187511 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
44187543 GCTAGAGCCG
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):
AT
Found at i:44194849 original size:40 final size:39
Alignment explanation
Indices: 44194789--44194952 Score: 168
Period size: 40 Copynumber: 4.1 Consensus size: 39
44194779 CGGAATTTAA
* ** *
44194789 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAA-TGCCTTCGGGTCTTAGC
* *** *
44194829 CCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATGCCTTCGGGTCTTAGC
44194869 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATGCCTTCGGGTCTTAGC
* * *
44194909 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTCGCA-CAATGCCTTCGGGTCTTAGC
44194949 CCGG
1 CCGG
44194953 GTATCATTCA
Statistics
Matches: 104, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
40 101 0.97
41 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
CCGGATATAACAACTCGCACAATGCCTTCGGGTCTTAGC
Found at i:44194933 original size:80 final size:80
Alignment explanation
Indices: 44194789--44194952 Score: 213
Period size: 80 Copynumber: 2.0 Consensus size: 80
44194779 CGGAATTTAA
* * ** *
44194789 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAAATG
1 CCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATG
*
44194854 CCTTCGGGTCTTAGC
66 CCTTCGGGACTTAGC
** * * *
44194869 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAAT
1 CCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAAT
44194933 GCCTTCGGGACTTAGC
65 GCCTTCGGGACTTAGC
44194949 CCGG
1 CCGG
44194953 GTATCATTCA
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
80 70 0.97
81 2 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATG
CCTTCGGGACTTAGC
Found at i:44201626 original size:46 final size:46
Alignment explanation
Indices: 44201576--44201751 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
44201566 TATTTGGGCA
44201576 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
44201622 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
44201669 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
44201715 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44201752 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:44201731 original size:93 final size:93
Alignment explanation
Indices: 44201572--44201743 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
44201562 TGGATATTTG
* *
44201572 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
44201637 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
44201665 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
44201730 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
44201744 ACTTATGGGC
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:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:44204735 original size:15 final size:15
Alignment explanation
Indices: 44204696--44204774 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
44204686 GTATCTTGGG
*
44204696 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
44204711 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
44204726 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
44204740 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
44204755 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
44204769 TTTCTT
1 TTTCTT
44204775 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:44204759 original size:29 final size:29
Alignment explanation
Indices: 44204687--44204773 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
44204677 CATAGTATCG
* * * *
44204687 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
44204717 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
44204746 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
44204774 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:44207205 original size:46 final size:46
Alignment explanation
Indices: 44207155--44207330 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
44207145 TATTTGGGCA
44207155 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
44207201 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
44207248 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
44207294 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44207331 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:44207310 original size:93 final size:93
Alignment explanation
Indices: 44207151--44207322 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
44207141 TGGATATTTG
* *
44207151 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
44207216 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
44207244 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
44207309 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
44207323 ACTTATGGGC
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:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:44209517 original size:38 final size:38
Alignment explanation
Indices: 44209474--44209604 Score: 145
Period size: 38 Copynumber: 3.2 Consensus size: 38
44209464 TTTCAAATTA
44209474 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* * *
44209512 ACATGTTTAACCATGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACG-T--T
*
44209553 GAATCGATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
44209597 ACATGTAT
1 ACATGTAT
44209605 CAATATGTGT
Statistics
Matches: 76, Mismatches: 8, Indels: 18
0.75 0.08 0.18
Matches are distributed among these distances:
38 34 0.45
39 1 0.01
40 4 0.05
41 2 0.03
42 1 0.01
43 1 0.01
44 2 0.03
45 3 0.04
46 1 0.01
47 27 0.36
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:44209588 original size:47 final size:48
Alignment explanation
Indices: 44209519--44209640 Score: 183
Period size: 48 Copynumber: 2.6 Consensus size: 48
44209509 GTTACATGTT
* *
44209519 TAACCATGGTATATCCACTTAGCACCACGTTA-ATGAATCGATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAATATATG
* * *
44209566 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAATATATG
*
44209614 TAATCGTGGTATATCCACTTAGCACCA
1 TAACCGTGGTATATCCACTTAGCACCA
44209641 AATTTTTTCC
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
47 30 0.45
48 37 0.55
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.30
Consensus pattern (48 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAATATATG
Found at i:44215224 original size:48 final size:48
Alignment explanation
Indices: 44215153--44215248 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
44215143 AGCTTTGTTA
44215153 AGCTCGAGTGCCAGCGGTGTGGTAGAAATCATTTTGGGCCATGTAGAG
1 AGCTCGAGTGCCAGCGGTGTGGTAGAAATCATTTTGGGCCATGTAGAG
44215201 AGCTCGAGTGCCAGCGGTGTGGTAGAAATCATTTTGGGCCATGTAGAG
1 AGCTCGAGTGCCAGCGGTGTGGTAGAAATCATTTTGGGCCATGTAGAG
44215249 CGAATGAATG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.23, C:0.17, G:0.35, T:0.25
Consensus pattern (48 bp):
AGCTCGAGTGCCAGCGGTGTGGTAGAAATCATTTTGGGCCATGTAGAG
Found at i:44215707 original size:70 final size:70
Alignment explanation
Indices: 44215589--44215736 Score: 269
Period size: 70 Copynumber: 2.1 Consensus size: 70
44215579 AATTGGTGTC
*
44215589 TAGTATGAATATACCTGTTGAGAACACAAAATTTATGATTAGAGTGTCGAATCCGTTAGACAAAT
1 TAGT-TGAATATACCTGTTGAGAACACAAAATTTATGATTAGAGTGTCGAATCCGTTAGAAAAAT
44215654 GTGTGA
65 GTGTGA
*
44215660 TAGTTGAATATACCTGTTGAGAACATAAAATTTATGATTAGAGTGTCGAATCCGTTAGAAAAATG
1 TAGTTGAATATACCTGTTGAGAACACAAAATTTATGATTAGAGTGTCGAATCCGTTAGAAAAATG
44215725 TGTGA
66 TGTGA
44215730 TAGTTGA
1 TAGTTGA
44215737 TAAAGTATGC
Statistics
Matches: 75, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
70 71 0.95
71 4 0.05
ACGTcount: A:0.36, C:0.09, G:0.22, T:0.32
Consensus pattern (70 bp):
TAGTTGAATATACCTGTTGAGAACACAAAATTTATGATTAGAGTGTCGAATCCGTTAGAAAAATG
TGTGA
Found at i:44216885 original size:17 final size:18
Alignment explanation
Indices: 44216843--44216891 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
44216833 AGTTGAAAAG
44216843 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
44216862 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
44216879 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
44216892 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:44217778 original size:40 final size:40
Alignment explanation
Indices: 44217712--44217878 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
44217702 AAATTGAATG
* * *
44217712 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
44217751 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
44217791 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
44217831 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
44217871 ATATCCGG
1 ATATCCGG
44217879 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:44224884 original size:17 final size:18
Alignment explanation
Indices: 44224842--44224890 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
44224832 AGTTGAAAAG
44224842 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
44224861 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
44224878 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
44224891 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:44225778 original size:40 final size:40
Alignment explanation
Indices: 44225712--44225878 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
44225702 AAATTGAATG
* * *
44225712 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
44225751 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
44225791 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
44225831 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
44225871 ATATCCGG
1 ATATCCGG
44225879 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:44230987 original size:30 final size:30
Alignment explanation
Indices: 44230953--44231013 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
44230943 TTCCCGAGCC
*
44230953 TAGGGGCAAAAGTATAATTATGCAAAAGTT
1 TAGGGGCAAAAATATAATTATGCAAAAGTT
* *
44230983 TAGGGGCAAAAATATAATTTTGCCAAAGTT
1 TAGGGGCAAAAATATAATTATGCAAAAGTT
44231013 T
1 T
44231014 GTATTAAAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAATATAATTATGCAAAAGTT
Found at i:44233738 original size:43 final size:43
Alignment explanation
Indices: 44233644--44233757 Score: 126
Period size: 43 Copynumber: 2.7 Consensus size: 43
44233634 TCACATATCG
* * * *
44233644 ATGCCACTGTCCCAGACAGGGTCTTACACGAAATCGATTAATG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCGATCAATA
*
44233687 ATGGCAATGTCCCAGACATGGTCTTACAC-ATAATC-A-CAATACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGA-AATCGATCAAT--A
*
44233730 ATGCCAATGTCCCAGGCATGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
44233758 TGTAATCTCA
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
41 3 0.05
42 2 0.03
43 56 0.92
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCGATCAATA
Found at i:44244034 original size:27 final size:26
Alignment explanation
Indices: 44243976--44244060 Score: 73
Period size: 27 Copynumber: 3.2 Consensus size: 26
44243966 GCATACCTAA
**
44243976 ACCCTTATGTGATAAAATGACGATTTT
1 ACCCTTATGTGATAAAATGACGA-AAT
*
44244003 GCCCTTATGTGATAAAATGACTGAAAT
1 ACCCTTATGTGATAAAATGAC-GAAAT
* * *
44244030 ACCCTCATAG-GGTAAGATGACCGAAAT
1 ACCCTTAT-GTGATAAAATGA-CGAAAT
44244057 ACCC
1 ACCC
44244061 CCGTAGGGTA
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
27 44 0.92
28 4 0.08
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (26 bp):
ACCCTTATGTGATAAAATGACGAAAT
Found at i:44244067 original size:27 final size:27
Alignment explanation
Indices: 44244015--44244084 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
44244005 CCTTATGTGA
* *
44244015 TAAAATGACTGAAATACCCTCATAGGG
1 TAAAATGACCGAAATACCCCCATAGGG
* *
44244042 TAAGATGACCGAAATACCCCCGTAGGG
1 TAAAATGACCGAAATACCCCCATAGGG
44244069 TAAAATGACCGAAATA
1 TAAAATGACCGAAATA
44244085 TCCCTGTTGT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.19
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCCCATAGGG
Found at i:44245522 original size:40 final size:40
Alignment explanation
Indices: 44245478--44245665 Score: 308
Period size: 40 Copynumber: 4.7 Consensus size: 40
44245468 GCTACTTGCT
44245478 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
44245518 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
44245558 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
44245598 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
*
44245637 CAAATTCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
44245666 CATCCGAATA
Statistics
Matches: 139, Mismatches: 6, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
38 1 0.01
39 33 0.24
40 104 0.75
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:44253614 original size:39 final size:40
Alignment explanation
Indices: 44253550--44253775 Score: 379
Period size: 39 Copynumber: 5.7 Consensus size: 40
44253540 GCTACTTGCT
44253550 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
44253590 CAAATGCCTT-GGGACTTAGCCCGGTTATAGTAACTCG-A
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
44253628 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
44253668 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
44253708 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
44253747 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
44253776 CATCCGAATA
Statistics
Matches: 176, Mismatches: 5, Indels: 10
0.92 0.03 0.05
Matches are distributed among these distances:
38 12 0.07
39 88 0.50
40 75 0.43
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:44253731 original size:79 final size:79
Alignment explanation
Indices: 44253550--44253771 Score: 369
Period size: 79 Copynumber: 2.8 Consensus size: 79
44253540 GCTACTTGCT
44253550 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTT-GGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
44253614 TTATAGTAACTCGA
66 ATATAGTAACTCGA
44253628 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
44253693 ATATAGTAACTCGCA
66 ATATAGTAACTCG-A
* * *
44253708 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
44253771 G
65 G
44253772 TTATCATCCG
Statistics
Matches: 137, Mismatches: 4, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
78 51 0.37
79 71 0.52
80 15 0.11
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
ATATAGTAACTCGA
Found at i:44263550 original size:85 final size:85
Alignment explanation
Indices: 44263419--44263630 Score: 293
Period size: 85 Copynumber: 2.5 Consensus size: 85
44263409 ATGACAAATT
* * * * * *
44263419 GACTATGTTTGGCATTTAGTGTGC-GTTTCGAGATAGCTTCGGCTATGTATATATAATACTCATT
1 GACTATATGTGGCATTAAGTGTGCAATATCGAGATAGCTTCAGCTATGTATATATAATACTCATT
*
44263483 GTGCGAGTTGGAA-AAGCTTC
66 GTACGAGTTGGAAGAA-CTTC
* *
44263503 GACTATATGTGGCATTAGGTGTGCAATATCGAGATAGCTTCAGCTATGTATATATAGTACTCATT
1 GACTATATGTGGCATTAAGTGTGCAATATCGAGATAGCTTCAGCTATGTATATATAATACTCATT
* *
44263568 GTACGAGTTGGAAGCACTTT
66 GTACGAGTTGGAAGAACTTC
*
44263588 GGCTATATGTGGCATTAAGTGTGCAATATCGAGATAGCTTCAG
1 GACTATATGTGGCATTAAGTGTGCAATATCGAGATAGCTTCAG
44263631 TTTAATGTGA
Statistics
Matches: 113, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
84 20 0.18
85 92 0.81
86 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.34
Consensus pattern (85 bp):
GACTATATGTGGCATTAAGTGTGCAATATCGAGATAGCTTCAGCTATGTATATATAATACTCATT
GTACGAGTTGGAAGAACTTC
Found at i:44265000 original size:27 final size:27
Alignment explanation
Indices: 44264964--44265093 Score: 170
Period size: 27 Copynumber: 4.8 Consensus size: 27
44264954 AGTGGATAAG
* *
44264964 TTGTAGAATTACCAAAATACCCTTGGT
1 TTGTAAAATTACCAAAATACCCCTGGT
*
44264991 TTATAAAATTACCAAAATACCCCTGGT
1 TTGTAAAATTACCAAAATACCCCTGGT
* *
44265018 TTGTACAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTGGT
**
44265045 TTGTAAAATTACCAAAATACCCCTAAT
1 TTGTAAAATTACCAAAATACCCCTGGT
* **
44265072 TTGTGAAATTACTGAAATACCC
1 TTGTAAAATTACCAAAATACCC
44265094 TCTACCTGTA
Statistics
Matches: 92, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 92 1.00
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCTGGT
Found at i:44265052 original size:54 final size:53
Alignment explanation
Indices: 44264964--44265120 Score: 172
Period size: 54 Copynumber: 2.9 Consensus size: 53
44264954 AGTGGATAAG
* * * **
44264964 TTGTAGAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGT
1 TTGTA-AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAAT
44265018 TTGTACAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAAT
1 TTGTA-AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAAT
** ** **
44265072 TTGTGAAATTACTGAAATACCCTCTA-CCTGTAAAATTACTGAAATACCC
1 TTGT-AAATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCC
44265121 TCGACTTGTA
Statistics
Matches: 89, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
54 85 0.96
55 4 0.04
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (53 bp):
TTGTAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAAT
Found at i:44265107 original size:27 final size:27
Alignment explanation
Indices: 44265018--44265137 Score: 118
Period size: 27 Copynumber: 4.4 Consensus size: 27
44265008 TACCCCTGGT
* ** *
44265018 TTGTACAATTACCAAAATACCC-CTAGT
1 TTGTAAAATTACTGAAATACCCTCTA-C
** *
44265045 TTGTAAAATTACCAAAATACCC-CTAAT
1 TTGTAAAATTACTGAAATACCCTCT-AC
*
44265072 TTGTGAAATTACTGAAATACCCTCTAC
1 TTGTAAAATTACTGAAATACCCTCTAC
* *
44265099 CTGTAAAATTACTGAAATACCCTCGAC
1 TTGTAAAATTACTGAAATACCCTCTAC
44265126 TTGTAAAATTAC
1 TTGTAAAATTAC
44265138 CAAGGTACCA
Statistics
Matches: 82, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
27 79 0.96
28 3 0.04
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (27 bp):
TTGTAAAATTACTGAAATACCCTCTAC
Found at i:44265146 original size:27 final size:26
Alignment explanation
Indices: 44264964--44265140 Score: 99
Period size: 27 Copynumber: 6.6 Consensus size: 26
44264954 AGTGGATAAG
* * **
44264964 TTGTAGAATTACCAAAATACCCTTGGT
1 TTGTAAAATTACC-AAATACCCTCGAC
* **
44264991 TTATAAAATTACCAAAATACCC-CTGGT
1 TTGTAAAATTACC-AAATACCCTC-GAC
* * *
44265018 TTGTACAATTACCAAAATACCC-CTAGT
1 TTGTAAAATTACC-AAATACCCTCGA-C
* *
44265045 TTGTAAAATTACCAAAATACCC-CTAAT
1 TTGTAAAATTACC-AAATACCCTC-GAC
* * *
44265072 TTGTGAAATTACTGAAATACCCTCTAC
1 TTGTAAAATTAC-CAAATACCCTCGAC
* *
44265099 CTGTAAAATTACTGAAATACCCTCGAC
1 TTGTAAAATTAC-CAAATACCCTCGAC
44265126 TTGTAAAATTACCAA
1 TTGTAAAATTACCAA
44265141 GGTACCATCG
Statistics
Matches: 127, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
26 2 0.02
27 123 0.97
28 2 0.02
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (26 bp):
TTGTAAAATTACCAAATACCCTCGAC
Found at i:44266863 original size:46 final size:46
Alignment explanation
Indices: 44266810--44266985 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
44266800 TATTTGGGCA
44266810 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
44266856 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
44266903 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
44266949 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44266986 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:44266965 original size:93 final size:93
Alignment explanation
Indices: 44266806--44266977 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
44266796 GGGATATTTG
* *
44266806 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
44266871 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
44266899 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
44266964 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
44266978 ACTTATGGGC
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:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:44269957 original size:15 final size:15
Alignment explanation
Indices: 44269937--44270005 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
44269927 GTATCTTGGG
44269937 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
44269952 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
44269967 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
44269982 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
44269997 TTTCTTTAT
1 TTTCTTTAT
44270006 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:44270006 original size:30 final size:30
Alignment explanation
Indices: 44269928--44270015 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
44269918 CATAGTATCG
* * * *
44269928 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
44269958 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
44269988 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
44270016 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:44272449 original size:46 final size:46
Alignment explanation
Indices: 44272399--44272574 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
44272389 TATTTGGGCA
44272399 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
44272445 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
44272492 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
44272538 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44272575 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:44272554 original size:93 final size:93
Alignment explanation
Indices: 44272395--44272566 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
44272385 TGGATATTTG
* *
44272395 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
44272460 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
44272488 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
44272553 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
44272567 ACTTATGGGC
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:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:44275621 original size:40 final size:40
Alignment explanation
Indices: 44275576--44275743 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
44275566 CGGAATATAA
*
44275576 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAAC
* * * *
44275616 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAAC
** *
44275656 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAAC
** * * * * * *
44275696 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAAC
44275736 CCGGATAT
1 CCGGATAT
44275744 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:44294529 original size:40 final size:40
Alignment explanation
Indices: 44294472--44294616 Score: 238
Period size: 40 Copynumber: 3.6 Consensus size: 40
44294462 CGGATGATAA
* *
44294472 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
44294512 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
44294552 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
44294592 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
44294617 AGCAAGTCGT
Statistics
Matches: 99, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
40 98 0.99
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:44294631 original size:80 final size:80
Alignment explanation
Indices: 44294472--44294648 Score: 232
Period size: 80 Copynumber: 2.2 Consensus size: 80
44294462 CGGATGATAA
* * *
44294472 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCTGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGTCCCGAAGGCATTTG
* * *
44294537 TGCGAGTTACTATAT
66 AGCAAGTCACTATAT
*
44294552 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAGTCCCGAAGGCATTT
**
44294616 GAGCAAGTCGTTATAT
65 GAGCAAGTCACTATAT
* *
44294632 TC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAG
44294649 ATGCTTGGGT
Statistics
Matches: 85, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
79 16 0.19
80 69 0.81
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGTCCCGAAGGCATTTG
AGCAAGTCACTATAT
Found at i:44294916 original size:22 final size:21
Alignment explanation
Indices: 44294875--44294918 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
44294865 GAATGTGCAT
44294875 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
44294897 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
44294919 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:44300952 original size:42 final size:42
Alignment explanation
Indices: 44300905--44301053 Score: 271
Period size: 42 Copynumber: 3.5 Consensus size: 42
44300895 TATTGGTCTC
44300905 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
44300947 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
*
44300989 GGCACTAAGTGTACGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
* *
44301031 GGCACTACGTGTGCGGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
44301054 ATTGTACAGC
Statistics
Matches: 103, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 103 1.00
ACGTcount: A:0.30, C:0.15, G:0.33, T:0.22
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
Found at i:44301118 original size:27 final size:28
Alignment explanation
Indices: 44301061--44301130 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
44301051 AAAATTGTAC
**
44301061 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
44301089 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
44301116 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
44301131 GATTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:44305843 original size:40 final size:40
Alignment explanation
Indices: 44305786--44305970 Score: 284
Period size: 40 Copynumber: 4.6 Consensus size: 40
44305776 CGGATGATAA
*
44305786 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-T
* *
44305826 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
*
44305866 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
*
44305906 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-GTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTG-ACTATAT
*
44305946 CCGGGCTAAGTCCCGTAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
44305971 AGCAAGTAGT
Statistics
Matches: 136, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
40 135 0.99
41 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
Found at i:44305985 original size:80 final size:79
Alignment explanation
Indices: 44305782--44306002 Score: 293
Period size: 80 Copynumber: 2.8 Consensus size: 79
44305772 TATTCGGATG
* * *
44305782 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCTGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGT-ATTATA-TCCGGGCTAAGTCCCGAAGGC
*
44305846 ATTTGTGCGAGTTACT
64 ATTTGTGCGAGGTACT
* * *
44305862 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TATTATATCCGGGCTAAGTCCCGAAGGCA
44305927 TTTGTGCGAGGTACT
65 TTTGTGCGAGGTACT
* * * *
44305942 ATAACCGGGCTAAGTCCCGTAGGCATTTGAGCAAGTAGTTATATTC-GGCTAAATCCCGAAG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTA-TTATATCCGGGCTAAGTCCCGAAG
44306003 ATGCTTGGGT
Statistics
Matches: 127, Mismatches: 11, Indels: 7
0.88 0.08 0.05
Matches are distributed among these distances:
79 16 0.13
80 109 0.86
81 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTATTATATCCGGGCTAAGTCCCGAAGGCAT
TTGTGCGAGGTACT
Found at i:44314509 original size:16 final size:16
Alignment explanation
Indices: 44314483--44314533 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
44314473 ATGTATCGGC
*
44314483 AAAAGCCGAAATGCCA
1 AAAAGCTGAAATGCCA
* *
44314499 AAAATCTGAAATGCCG
1 AAAAGCTGAAATGCCA
*
44314515 AAAAGCTGAAAAGCCA
1 AAAAGCTGAAATGCCA
44314531 AAA
1 AAA
44314534 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.53, C:0.20, G:0.18, T:0.10
Consensus pattern (16 bp):
AAAAGCTGAAATGCCA
Found at i:44317329 original size:58 final size:57
Alignment explanation
Indices: 44317257--44317367 Score: 150
Period size: 57 Copynumber: 1.9 Consensus size: 57
44317247 TGAATGTGAC
* * *
44317257 TGGGCCTAACGGGCCAAATAAATGTGATTTGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAACGGGCCAAATAAATATGA-TTGGGCCTAATGGGCCAGACACAGGTGATT
* * * *
44317315 TGGGCCTAATGGGCCATATGAATATGATTGGGCTTAATGGGCCAGACACAGGT
1 TGGGCCTAACGGGCCAAATAAATATGATTGGGCCTAATGGGCCAGACACAGGT
44317368 ATGTGAAATT
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 23 0.50
58 23 0.50
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (57 bp):
TGGGCCTAACGGGCCAAATAAATATGATTGGGCCTAATGGGCCAGACACAGGTGATT
Found at i:44317354 original size:28 final size:29
Alignment explanation
Indices: 44317245--44317358 Score: 135
Period size: 29 Copynumber: 4.0 Consensus size: 29
44317235 TGAACATGAT
* *
44317245 TATGAATGTGA-CTGGGCCTAACGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
* *
44317273 AATAAATGTGATTTGGGCCTAATGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
*
44317302 TAT-ACAGGTGATTTGGGCCTAATGGGCCA
1 TATGA-ATGTGATTTGGGCCTAATGGGCCA
* *
44317331 TATGAATATGA-TTGGGCTTAATGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
44317359 GACACAGGTA
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
28 26 0.35
29 47 0.64
30 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (29 bp):
TATGAATGTGATTTGGGCCTAATGGGCCA
Found at i:44326049 original size:22 final size:20
Alignment explanation
Indices: 44326019--44326064 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
44326009 TGAAATTTTA
44326019 ATTAGTATTATGAGATAAAATT
1 ATTAGTATTATGAGA-AAAA-T
* *
44326041 ATTATTATTATTAGAAAAAT
1 ATTAGTATTATGAGAAAAAT
44326061 ATTA
1 ATTA
44326065 CTGTATGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 5 0.23
21 4 0.18
22 13 0.59
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (20 bp):
ATTAGTATTATGAGAAAAAT
Found at i:44327951 original size:27 final size:28
Alignment explanation
Indices: 44327887--44327955 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
44327877 GCGTAGATCA
44327887 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
44327915 CGAAATTACCCTTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
44327943 CGATA-TACCCCTA
1 CGAAATTACCCCTA
44327956 GGGTTTTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
27 7 0.18
28 31 0.82
ACGTcount: A:0.43, C:0.26, G:0.10, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:44335313 original size:15 final size:15
Alignment explanation
Indices: 44335293--44335321 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
44335283 TGAGGATCCC
44335293 AAAGAAGAAGAAGAA
1 AAAGAAGAAGAAGAA
44335308 AAAGAAGAAGAAGA
1 AAAGAAGAAGAAGA
44335322 TCCCACAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (15 bp):
AAAGAAGAAGAAGAA
Found at i:44341228 original size:20 final size:18
Alignment explanation
Indices: 44341195--44341231 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
44341185 TGTGATGTTG
44341195 ATATGTTTAATTTAATTA
1 ATATGTTTAATTTAATTA
44341213 ATATGTCTTGAATTTAATT
1 ATATGT-TT-AATTTAATT
44341232 CGTGTTAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 2 0.12
20 9 0.53
ACGTcount: A:0.35, C:0.03, G:0.08, T:0.54
Consensus pattern (18 bp):
ATATGTTTAATTTAATTA
Found at i:44342271 original size:20 final size:20
Alignment explanation
Indices: 44342242--44342311 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
44342232 TTTAAGGTTA
44342242 AATTGTAATTAAGTTTATTT
1 AATTGTAATTAAGTTTATTT
* *
44342262 AATTGGAATTTAA-TATAATTT
1 AATTGTAA-TTAAGT-TTATTT
*
44342283 -GTTGTAATTAAGTTTATTT
1 AATTGTAATTAAGTTTATTT
*
44342302 AATTGAAATT
1 AATTGTAATT
44342312 TAATATAATT
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
19 9 0.23
20 21 0.54
21 9 0.23
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.51
Consensus pattern (20 bp):
AATTGTAATTAAGTTTATTT
Found at i:44342288 original size:40 final size:40
Alignment explanation
Indices: 44342244--44342321 Score: 147
Period size: 40 Copynumber: 1.9 Consensus size: 40
44342234 TAAGGTTAAA
*
44342244 TTGTAATTAAGTTTATTTAATTGGAATTTAATATAATTTG
1 TTGTAATTAAGTTTATTTAATTGAAATTTAATATAATTTG
44342284 TTGTAATTAAGTTTATTTAATTGAAATTTAATATAATT
1 TTGTAATTAAGTTTATTTAATTGAAATTTAATATAATT
44342322 GAAAGACCAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (40 bp):
TTGTAATTAAGTTTATTTAATTGAAATTTAATATAATTTG
Found at i:44346418 original size:20 final size:20
Alignment explanation
Indices: 44346393--44346443 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
44346383 ATTTTGATAA
*
44346393 ACATGATATGTATGATATGC
1 ACATGACATGTATGATATGC
44346413 ACATGACATGTATGATATGC
1 ACATGACATGTATGATATGC
*
44346433 ACATGAGATGT
1 ACATGACATGT
44346444 TCATAAATGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (20 bp):
ACATGACATGTATGATATGC
Found at i:44346520 original size:23 final size:23
Alignment explanation
Indices: 44346490--44346656 Score: 244
Period size: 23 Copynumber: 7.1 Consensus size: 23
44346480 AGGAAGTGCA
*
44346490 AAAGGGCTTATGCCCCAGATATT
1 AAAGGGCTTATGCCCCAGTTATT
*
44346513 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
* *
44346537 AAAGGGCTTATGCCCCTGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
44346561 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
44346584 AAAGGGCTTATGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
44346607 AAAGGACTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
44346630 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
44346654 AAA
1 AAA
44346657 AGAGGCTAGG
Statistics
Matches: 132, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
23 67 0.51
24 65 0.49
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:44346545 original size:24 final size:23
Alignment explanation
Indices: 44346489--44346678 Score: 238
Period size: 24 Copynumber: 8.0 Consensus size: 23
44346479 GAGGAAGTGC
*
44346489 AAAAGGGCTTATGCCCCAGATAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
44346512 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
44346535 CAAAAGGGCTTATGCCCCTGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
44346559 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
* *
44346583 TAAAGGGCTTATGCCCTAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
* *
44346606 TAAAGGACTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
44346630 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
44346654 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
44346678 A
1 A
44346679 TGATAAAGCA
Statistics
Matches: 149, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
23 62 0.42
24 77 0.52
25 10 0.07
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:44346588 original size:47 final size:46
Alignment explanation
Indices: 44346490--44346677 Score: 234
Period size: 47 Copynumber: 4.0 Consensus size: 46
44346480 AGGAAGTGCA
* * *
44346490 AAAGGGCTTATGCCCCAGATATTAAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT-T
*
44346537 AAAGGGCTTATGCCCCTGTTATCAAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATT
* * *
44346584 AAAGGGCTTATGCCCTAGTTATTAAAGGACTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
* *
44346630 AAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 -AAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
44346678 ATGATAAAGC
Statistics
Matches: 123, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
46 22 0.18
47 59 0.48
48 32 0.26
49 10 0.08
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (46 bp):
AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
Found at i:44346925 original size:31 final size:31
Alignment explanation
Indices: 44346871--44346934 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
44346861 CGTTTACAGT
44346871 AAAGGCTTCGGCCCAGTAATATGAAACT-TGA
1 AAAGGCTTCGGCCCAGTAATATG-AACTATGA
**
44346902 AAAGGCTTCGGCCCAGTGTTATGAACTATGA
1 AAAGGCTTCGGCCCAGTAATATGAACTATGA
44346933 AA
1 AA
44346935 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 4 0.13
31 26 0.87
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAACTATGA
Found at i:44348854 original size:40 final size:40
Alignment explanation
Indices: 44348795--44349002 Score: 182
Period size: 40 Copynumber: 5.2 Consensus size: 40
44348785 CAATTGAATG
* * * *
44348795 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * ** *
44348835 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
44348875 ACATCCGGGCTAAGACCTGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
44348915 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * * **
44348955 CTATCCGGGTTAAGACCCAAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
44348995 ATATCCGG
1 ATATCCGG
44349003 TTGTATTCCG
Statistics
Matches: 136, Mismatches: 32, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 136 1.00
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:44348938 original size:80 final size:80
Alignment explanation
Indices: 44348796--44349002 Score: 202
Period size: 80 Copynumber: 2.6 Consensus size: 80
44348786 AATTGAATGA
* * * ** * ** * *
44348796 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCAAAGGCATTCGTGCAAGTGGTTAAATCCGGGCTAAGACCCGAAGGCAA
*
44348861 TTGTGCTAG-CG-AC
66 TTGTGCAAGTCGTAC
** * *
44348874 TACATCCGGGCTAAGACCTGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCAAAGGCATTCGTGCAAGTGGTTAAATCCGGGCTAAGACCCGAAGGC
* *
44348939 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* * *
44348956 TATCCGGGTTAAGACCCAAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCAAAGGCATTCGTGCAAGTGGTTAAATCCGG
44349003 TTGTATTCCG
Statistics
Matches: 105, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
78 1 0.01
80 100 0.95
81 2 0.02
82 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCAAAGGCATTCGTGCAAGTGGTTAAATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:44358237 original size:49 final size:49
Alignment explanation
Indices: 44358177--44358512 Score: 613
Period size: 49 Copynumber: 6.9 Consensus size: 49
44358167 GTATGAGATA
*
44358177 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
44358226 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAAGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
44358275 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
44358324 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGAGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
44358373 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
44358422 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA--GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
44358469 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
44358513 TATATGTGTG
Statistics
Matches: 278, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
47 45 0.16
49 233 0.84
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
Found at i:44358669 original size:36 final size:37
Alignment explanation
Indices: 44358599--44358688 Score: 155
Period size: 36 Copynumber: 2.4 Consensus size: 37
44358589 AACTTGGAAA
*
44358599 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
44358637 TATGTCCGGGTAAGACCCGAT-ACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
44358673 TATGTCCGGGTAAGAC
1 TATGTCCGGGTAAGAC
44358689 TTCGTAATAA
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
36 31 0.61
37 16 0.31
38 4 0.08
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:44360684 original size:40 final size:40
Alignment explanation
Indices: 44360509--44360682 Score: 285
Period size: 40 Copynumber: 4.3 Consensus size: 40
44360499 GAGAATTGAG
*
44360509 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
44360549 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
44360589 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * * * *
44360629 AGTGATGTATCCGGGCTAGGTCCCGAAGAGCAATCATGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
44360669 GGTGATGTATCCGG
1 AGTGATGTATCCGG
44360683 GCCTTCGTGC
Statistics
Matches: 127, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 127 1.00
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
Found at i:44378762 original size:40 final size:40
Alignment explanation
Indices: 44378692--44378896 Score: 204
Period size: 39 Copynumber: 5.2 Consensus size: 40
44378682 CGGGATTTAA
** * *
44378692 CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAGC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGC
* *
44378731 CCGGATAT-GATCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAG-TCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
44378771 CCGGATATAGTCGCTAGCACAAATGCCTTCGGGTTTTGGC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
44378811 CC-GATATAGTAACTCGCATAAATGCCTTCGGATCTTAGT
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
44378850 CCGGATATAGT-ACTTAACACAAA-ACCTTCGGGACTTAGC
1 CCGGATATAGTCAC-TAGCACAAATGCCTTCGGGTCTTAGC
44378889 CCGGATAT
1 CCGGATAT
44378897 CATTCGAATA
Statistics
Matches: 135, Mismatches: 26, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
39 68 0.50
40 66 0.49
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGC
Done.