Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 118 of 310
Found at i:37814482 original size:27 final size:27
Alignment explanation
Indices: 37814402--37814484 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 27
37814392 TAAATTGTAC
* * *
37814402 AGCACTAAGTGTGCGAGTTTGATTACAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
37814430 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
37814457 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
37814484 A
1 A
37814485 CTTTTGAATC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
27 29 0.59
28 20 0.41
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:37819419 original size:14 final size:15
Alignment explanation
Indices: 37819391--37819419 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
37819381 AATGGTCGTG
37819391 AAAAGAAAAATAAGA
1 AAAAGAAAAATAAGA
37819406 AAAAGAAAAA-AAGA
1 AAAAGAAAAATAAGA
37819420 GAGCATATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (15 bp):
AAAAGAAAAATAAGA
Found at i:37819528 original size:22 final size:22
Alignment explanation
Indices: 37819503--37819544 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
37819493 TAATTATTCC
* *
37819503 TGTAATGCCCTAAAATTTAACT
1 TGTAACGCCCCAAAATTTAACT
37819525 TGTAACGCCCCAAAATTTAA
1 TGTAACGCCCCAAAATTTAA
37819545 GTATTTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (22 bp):
TGTAACGCCCCAAAATTTAACT
Found at i:37831373 original size:20 final size:18
Alignment explanation
Indices: 37831340--37831376 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
37831330 TGTGATGTTG
37831340 ATATGTTTAATTTAATTA
1 ATATGTTTAATTTAATTA
37831358 ATATGTCTTAAATTTAATT
1 ATATGT-TT-AATTTAATT
37831377 CGTTTTAGGT
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:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (18 bp):
ATATGTTTAATTTAATTA
Found at i:37837589 original size:43 final size:43
Alignment explanation
Indices: 37837540--37837645 Score: 133
Period size: 43 Copynumber: 2.5 Consensus size: 43
37837530 CCGAAATTTC
* * * * *
37837540 GCCTGCTAGGCTTGACGCTCGATATCATTTCA-TCGGCATTATA
1 GCCTGCTAGGCCTGAAGCCCAATATCATCTCACT-GGCATTATA
*
37837583 GCCTGCTAGGCCTGAAGCCCAATATTATCTCACTGGCATTATA
1 GCCTGCTAGGCCTGAAGCCCAATATCATCTCACTGGCATTATA
*
37837626 GCCTGCTAGGCCCGAAGCCC
1 GCCTGCTAGGCCTGAAGCCC
37837646 GATAATATTA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
43 54 0.98
44 1 0.02
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (43 bp):
GCCTGCTAGGCCTGAAGCCCAATATCATCTCACTGGCATTATA
Found at i:37837680 original size:44 final size:43
Alignment explanation
Indices: 37837575--37837680 Score: 117
Period size: 43 Copynumber: 2.4 Consensus size: 43
37837565 CATTTCATCG
* * **
37837575 GCATTATAGCCTGCTAGGCCTGAAGCCCAATATTATCTCACTG
1 GCATTAAAGCCTGCTAGGCCCGAAGCCCAATATTATCTCACCA
*
37837618 GCATTATAGCCTGCTAGGCCCGAAGCCCGATAATATTAT-TCACCA
1 GCATTAAAGCCTGCTAGGCCCGAAGCCC---AATATTATCTCACCA
*
37837663 GC-TTAAAGCTTGCTAGGC
1 GCATTAAAGCCTGCTAGGC
37837681 TGAGGCCCGA
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
43 27 0.49
44 14 0.25
45 6 0.11
46 8 0.15
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.26
Consensus pattern (43 bp):
GCATTAAAGCCTGCTAGGCCCGAAGCCCAATATTATCTCACCA
Found at i:37840101 original size:40 final size:40
Alignment explanation
Indices: 37840046--37840342 Score: 431
Period size: 40 Copynumber: 7.5 Consensus size: 40
37840036 CGGATGATAA
* * *
37840046 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
37840086 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
37840126 CCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
37840166 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
37840206 CCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
37840246 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
37840286 CC-GGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
37840325 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
37840343 TACCTGGCTT
Statistics
Matches: 236, Mismatches: 19, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
38 2 0.01
39 46 0.19
40 188 0.80
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:37843476 original size:50 final size:50
Alignment explanation
Indices: 37843409--37843695 Score: 371
Period size: 50 Copynumber: 5.7 Consensus size: 50
37843399 AATTATCCGG
*
37843409 TACACGTAGTAGCCTGCACTTAGTACTACACACGTAACCTAACCATCTGA
1 TACACGTAGTACCCTGCACTTAGTACTACACACGTAACCTAACCATCTGA
* * ** * *
37843459 TACACGTAGTACCCTGCACTTAGTACTACACACGTGA-TTGAAATTATCGGG
1 TACACGTAGTACCCTGCACTTAGTACTACACACGTAACCT--AACCATCTGA
* *
37843510 TACACATAGTAGCCTGCACTTAGTACTACACACGTAACCTAACCATCTGA
1 TACACGTAGTACCCTGCACTTAGTACTACACACGTAACCTAACCATCTGA
* * ** * *
37843560 TACACGTAGTACCCTGCACTTAGTACTACACACGTGA-TTGAAATTATCGGG
1 TACACGTAGTACCCTGCACTTAGTACTACACACGTAACCT--AACCATCTGA
* *
37843611 TACACATAGTAGCCTGCACTTAGTACTACACACGTAACCTAACCATCTGA
1 TACACGTAGTACCCTGCACTTAGTACTACACACGTAACCTAACCATCTGA
37843661 TACACGTAGTACCCTGCACTTAGTACTACACACGT
1 TACACGTAGTACCCTGCACTTAGTACTACACACGT
37843696 GATTGAAATT
Statistics
Matches: 198, Mismatches: 33, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
49 2 0.01
50 114 0.58
51 80 0.40
52 2 0.01
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.25
Consensus pattern (50 bp):
TACACGTAGTACCCTGCACTTAGTACTACACACGTAACCTAACCATCTGA
Found at i:37843530 original size:101 final size:101
Alignment explanation
Indices: 37843399--37843743 Score: 672
Period size: 101 Copynumber: 3.4 Consensus size: 101
37843389 ACATGCGACC
* *
37843399 AATTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTAACCTAACCATCTGATACAC
1 AATTATCGGGTACACATAGTAGCCTGCACTTAGTACTACACACGTAACCTAACCATCTGATACAC
37843464 GTAGTACCCTGCACTTAGTACTACACACGTGATTGA
66 GTAGTACCCTGCACTTAGTACTACACACGTGATTGA
37843500 AATTATCGGGTACACATAGTAGCCTGCACTTAGTACTACACACGTAACCTAACCATCTGATACAC
1 AATTATCGGGTACACATAGTAGCCTGCACTTAGTACTACACACGTAACCTAACCATCTGATACAC
37843565 GTAGTACCCTGCACTTAGTACTACACACGTGATTGA
66 GTAGTACCCTGCACTTAGTACTACACACGTGATTGA
37843601 AATTATCGGGTACACATAGTAGCCTGCACTTAGTACTACACACGTAACCTAACCATCTGATACAC
1 AATTATCGGGTACACATAGTAGCCTGCACTTAGTACTACACACGTAACCTAACCATCTGATACAC
37843666 GTAGTACCCTGCACTTAGTACTACACACGTGATTGA
66 GTAGTACCCTGCACTTAGTACTACACACGTGATTGA
37843702 AATTATCGGGTACACATAGTAGCCTGCACTTAGTACTACACA
1 AATTATCGGGTACACATAGTAGCCTGCACTTAGTACTACACA
37843744 TGCGACCTCA
Statistics
Matches: 242, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
101 242 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.26
Consensus pattern (101 bp):
AATTATCGGGTACACATAGTAGCCTGCACTTAGTACTACACACGTAACCTAACCATCTGATACAC
GTAGTACCCTGCACTTAGTACTACACACGTGATTGA
Found at i:37848009 original size:17 final size:17
Alignment explanation
Indices: 37847987--37848028 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
37847977 CACAAGTCAG
* *
37847987 ATATAATAGACTTTTAA
1 ATATAATACACATTTAA
37848004 ATATAA-ACACATTTAA
1 ATATAATACACATTTAA
37848020 ATA-AATACA
1 ATATAATACA
37848029 TACAATAAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 2 0.09
16 14 0.64
17 6 0.27
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (17 bp):
ATATAATACACATTTAA
Found at i:37850013 original size:56 final size:57
Alignment explanation
Indices: 37849909--37850018 Score: 161
Period size: 56 Copynumber: 1.9 Consensus size: 57
37849899 TCTTACATGT
* *
37849909 AATCACATATCGATGCCACTGTCCCAGACAGGGTCTTACTCGCACATCACATATTGG
1 AATCACATATCGATGCCACTGTCACAAACAGGGTCTTACTCGCACATCACATATTGG
* *
37849966 AATCACATATCGATGCCAAC-GT-ATAAACATGGTCTTACTCGCACATCACATAT
1 AATCACATATCGATGCC-ACTGTCACAAACAGGGTCTTACTCGCACATCACATAT
37850019 CGAAATCCTA
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
56 27 0.56
57 19 0.40
58 2 0.04
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (57 bp):
AATCACATATCGATGCCACTGTCACAAACAGGGTCTTACTCGCACATCACATATTGG
Found at i:37851944 original size:29 final size:29
Alignment explanation
Indices: 37851881--37851948 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
37851871 TAATCAACCG
*
37851881 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
37851910 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
37851939 CGCACACTTA
1 CGCACACTTA
37851949 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:37852060 original size:174 final size:174
Alignment explanation
Indices: 37851770--37852097 Score: 611
Period size: 174 Copynumber: 1.9 Consensus size: 174
37851760 AACTCAAGGT
* *
37851770 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
37851835 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
*
37851900 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTCAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
37851944 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
37852009 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
*
37852074 ACTTCAAACTCGCACACTTAGTGC
131 ACTTCAAACTCACACACTTAGTGC
37852098 TGTACAATTT
Statistics
Matches: 149, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 149 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
ACTTCAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:37852089 original size:29 final size:30
Alignment explanation
Indices: 37852050--37852128 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 30
37852040 CTTAATAATC
37852050 AACCGCGCACACTTAGTGCCATGTAC-TTCA
1 AACC-CGCACACTTAGTGCCATGTACATTCA
* *
37852080 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTCA
37852109 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
37852129 ATCTCATGAC
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 32 0.76
30 4 0.10
ACGTcount: A:0.29, C:0.32, G:0.15, T:0.24
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTCA
Found at i:37856459 original size:206 final size:206
Alignment explanation
Indices: 37856105--37856519 Score: 830
Period size: 206 Copynumber: 2.0 Consensus size: 206
37856095 AGGGCATTAG
37856105 TGAGCCCAAACGGCATCACTAAGAACTCGTAGTGACCGTACCTCGTTCTGAAAGCAGTTTTGGGT
1 TGAGCCCAAACGGCATCACTAAGAACTCGTAGTGACCGTACCTCGTTCTGAAAGCAGTTTTGGGT
37856170 ATGTCCGAATCTCGAATTCGCAACTGATAATAACCCGATCTCAAATCTATTTTTGAGAACACTGA
66 ATGTCCGAATCTCGAATTCGCAACTGATAATAACCCGATCTCAAATCTATTTTTGAGAACACTGA
37856235 GGCTCCCTTCAGTTGGTCGAACAAATCATCGATGCACGGCAATGGATATTTGTTCTTTATCGTCA
131 GGCTCCCTTCAGTTGGTCGAACAAATCATCGATGCACGGCAATGGATATTTGTTCTTTATCGTCA
37856300 CTTTATTCAAT
196 CTTTATTCAAT
37856311 TGAGCCCAAACGGCATCACTAAGAACTCGTAGTGACCGTACCTCGTTCTGAAAGCAGTTTTGGGT
1 TGAGCCCAAACGGCATCACTAAGAACTCGTAGTGACCGTACCTCGTTCTGAAAGCAGTTTTGGGT
37856376 ATGTCCGAATCTCGAATTCGCAACTGATAATAACCCGATCTCAAATCTATTTTTGAGAACACTGA
66 ATGTCCGAATCTCGAATTCGCAACTGATAATAACCCGATCTCAAATCTATTTTTGAGAACACTGA
37856441 GGCTCCCTTCAGTTGGTCGAACAAATCATCGATGCACGGCAATGGATATTTGTTCTTTATCGTCA
131 GGCTCCCTTCAGTTGGTCGAACAAATCATCGATGCACGGCAATGGATATTTGTTCTTTATCGTCA
37856506 CTTTATTCAAT
196 CTTTATTCAAT
37856517 TGA
1 TGA
37856520 CGATAGTCAA
Statistics
Matches: 209, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
206 209 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (206 bp):
TGAGCCCAAACGGCATCACTAAGAACTCGTAGTGACCGTACCTCGTTCTGAAAGCAGTTTTGGGT
ATGTCCGAATCTCGAATTCGCAACTGATAATAACCCGATCTCAAATCTATTTTTGAGAACACTGA
GGCTCCCTTCAGTTGGTCGAACAAATCATCGATGCACGGCAATGGATATTTGTTCTTTATCGTCA
CTTTATTCAAT
Found at i:37856653 original size:71 final size:71
Alignment explanation
Indices: 37856572--37856713 Score: 275
Period size: 71 Copynumber: 2.0 Consensus size: 71
37856562 ACGAACAATA
37856572 CTGGTGCACCCCAAGGTGAGAAACTTGGTCGAGCAAAACCTCTATCCGTCAATTCTTGCAACTGA
1 CTGGTGCACCCCAAGGTGAGAAACTTGGTCGAGCAAAACCTCTATCCGTCAATTCTTGCAACTGA
37856637 GATTTT
66 GATTTT
37856643 CTGGTGCACCCCAAGGTGAGAAACTTGGTCGAGCAAAACCTCTATCCGTCAATTCTTGCAACTGA
1 CTGGTGCACCCCAAGGTGAGAAACTTGGTCGAGCAAAACCTCTATCCGTCAATTCTTGCAACTGA
*
37856708 GCTTTT
66 GATTTT
37856714 AACTCTTTTA
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (71 bp):
CTGGTGCACCCCAAGGTGAGAAACTTGGTCGAGCAAAACCTCTATCCGTCAATTCTTGCAACTGA
GATTTT
Found at i:37871030 original size:43 final size:41
Alignment explanation
Indices: 37870980--37871156 Score: 160
Period size: 43 Copynumber: 4.2 Consensus size: 41
37870970 ATAGCATTTC
37870980 TGATATGTGTTCTTGTGTAAGACCACGTCTGGGACATTGGCAT
1 TGATATGTGTTC--GTGTAAGACCACGTCTGGGACATTGGCAT
* * *
37871023 CGATATGTGGTTACGTGTAAGACCAAGTTCTTGGACATTGGCAT
1 TGATATGT-GTT-CGTGTAAGACCACG-TCTGGGACATTGGCAT
* ** **
37871067 TG-TATTTGATTCGTGTAAGACCTTGTCTGGGACGGTGGCAT
1 TGATATGTG-TTCGTGTAAGACCACGTCTGGGACATTGGCAT
* * * *
37871108 TGATATGTGATGGCATGTAAAACCACGTCTGGGACGTTGGCAT
1 TGATATGTG-T-TCGTGTAAGACCACGTCTGGGACATTGGCAT
37871151 TG-TATG
1 TGATATG
37871157 ATATGTGTGC
Statistics
Matches: 111, Mismatches: 17, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
41 15 0.14
42 24 0.22
43 52 0.47
44 19 0.17
45 1 0.01
ACGTcount: A:0.22, C:0.15, G:0.29, T:0.33
Consensus pattern (41 bp):
TGATATGTGTTCGTGTAAGACCACGTCTGGGACATTGGCAT
Found at i:37885847 original size:24 final size:24
Alignment explanation
Indices: 37885810--37885963 Score: 227
Period size: 24 Copynumber: 6.4 Consensus size: 24
37885800 CTGGAGGTCT
*
37885810 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
* *
37885835 AGCCCTTTTAATAATTGGGGTATA
1 AGCCCTTTTAATAACTGGGGCATA
*
37885859 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
* **
37885883 AGCCCTTTTAATCACTATGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
37885907 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
37885931 AGCCCTTTTAATCACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
37885955 AGCCCTTTT
1 AGCCCTTTT
37885964 GCACTTCCTC
Statistics
Matches: 115, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
24 111 0.97
25 4 0.03
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.32
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:37886044 original size:11 final size:11
Alignment explanation
Indices: 37886013--37886070 Score: 61
Period size: 11 Copynumber: 5.6 Consensus size: 11
37886003 TTATGAATAC
37886013 ATCATGTGCAT
1 ATCATGTGCAT
*
37886024 ATCA--TACAT
1 ATCATGTGCAT
37886033 ATCATGTGCAT
1 ATCATGTGCAT
*
37886044 ATCA--TACAT
1 ATCATGTGCAT
*
37886053 GTCATGTGCAT
1 ATCATGTGCAT
37886064 ATCATGT
1 ATCATGT
37886071 ATACCATGTT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
9 15 0.41
11 22 0.59
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:37886079 original size:20 final size:20
Alignment explanation
Indices: 37886013--37886068 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
37886003 TTATGAATAC
37886013 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
37886033 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
37886053 GTCATGTGCATATCAT
1 ATCATGTGCATATCAT
37886069 GTATACCATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:37889027 original size:48 final size:49
Alignment explanation
Indices: 37888954--37889074 Score: 140
Period size: 48 Copynumber: 2.5 Consensus size: 49
37888944 GCCGTATACT
**
37888954 AGATATGGTCTTACA-TGAAATCACATACCAA-GACCGACGCCATATCCC
1 AGATATGGTCTTACACTGGCATCACATACCAATG-CCGACGCCATATCCC
* * *
37889002 AGATATGGTCTTACACTGGCA-CACATATCAATGCCGATGCCATGTCCC
1 AGATATGGTCTTACACTGGCATCACATACCAATGCCGACGCCATATCCC
* *
37889050 AAACATGGTCTTACACTGGCTATCA
1 AGATATGGTCTTACACTGGC-ATCA
37889075 TATCAACGTT
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
48 55 0.89
49 5 0.08
50 2 0.03
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (49 bp):
AGATATGGTCTTACACTGGCATCACATACCAATGCCGACGCCATATCCC
Found at i:37889077 original size:48 final size:49
Alignment explanation
Indices: 37888987--37889118 Score: 160
Period size: 48 Copynumber: 2.7 Consensus size: 49
37888977 CATACCAAGA
* * * *
37888987 CCGACGCCATATCCCAGATATGGTCTTACACTGGC-ACACATATCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTACACATATCAACG
* *
37889035 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTA-TCATATCAACG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTACACATATCAACG
** * *
37889083 TTGATACCATGTCCCAGACATGGCCTTACACTGGCT
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
37889119 CTCACTAATC
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
48 71 0.99
49 1 0.01
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (49 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTACACATATCAACG
Found at i:37896667 original size:56 final size:55
Alignment explanation
Indices: 37896607--37896711 Score: 133
Period size: 55 Copynumber: 1.9 Consensus size: 55
37896597 GTAGGGTATA
* *
37896607 CTGACTTATGCAACATGGCCA-AGTCACAAGCCCGTGTGCT-AGGCCATGTGCCATTT
1 CTGACTTATACAACATGG-CAGA-TCACAAGCCCATGTG-TGAGGCCATGTGCCATTT
* *
37896663 CTGACTTATACCACATGGCAGATCACATGCCCATGTGTGAGGCCATGTG
1 CTGACTTATACAACATGGCAGATCACAAGCCCATGTGTGAGGCCATGTG
37896712 GAGCATACTG
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
54 1 0.02
55 25 0.58
56 17 0.40
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (55 bp):
CTGACTTATACAACATGGCAGATCACAAGCCCATGTGTGAGGCCATGTGCCATTT
Found at i:37896723 original size:56 final size:55
Alignment explanation
Indices: 37896604--37896725 Score: 124
Period size: 56 Copynumber: 2.2 Consensus size: 55
37896594 ACTGTAGGGT
* *
37896604 ATACTGACTTATGCAACATGGCCAAGTCACAAGCCCGTGTGCTAGGCCATGTGCC
1 ATACTGACTTATACAACATGGCCAAGTCACAAGCCCATGTGCTAGGCCATGTGCC
* * * *
37896659 ATTTCTGACTTATACCACATGG-C-AGATCACATGCCCATGTG-TGAGGCCATGTGGAGC
1 A-TACTGACTTATACAACATGGCCAAG-TCACAAGCCCATGTGCT-AGGCCATGT-G-CC
37896716 ATACTGACTT
1 ATACTGACTT
37896726 CAATTCCATT
Statistics
Matches: 55, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
54 3 0.05
55 24 0.44
56 26 0.47
57 2 0.04
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (55 bp):
ATACTGACTTATACAACATGGCCAAGTCACAAGCCCATGTGCTAGGCCATGTGCC
Found at i:37897742 original size:23 final size:23
Alignment explanation
Indices: 37897688--37897841 Score: 125
Period size: 23 Copynumber: 6.6 Consensus size: 23
37897678 TCGAGCCATG
*
37897688 AACAGTAAGCTCCTCTTGAGCT-A
1 AACAGTAAGCT-CTATTGAGCTGA
* *
37897711 ATGATCAGTAAACTCTATTGAACTGA
1 A--A-CAGTAAGCTCTATTGAGCTGA
*
37897737 AACAGTAAGCTCTATTGAGCTAA
1 AACAGTAAGCTCTATTGAGCTGA
* *
37897760 AACGGTAAGCTCTATCGAGCTG-
1 AACAGTAAGCTCTATTGAGCTGA
* * * *
37897782 AAGAGTAACCTC-ATACGAGCTAA
1 AACAGTAAGCTCTAT-TGAGCTGA
* *
37897805 AACGGTAAGCTCTAATGAGCTGAA
1 AACAGTAAGCTCTATTGAGCTG-A
37897829 AACAGTAAGCTCT
1 AACAGTAAGCTCT
37897842 TACGAGCTGG
Statistics
Matches: 103, Mismatches: 20, Indels: 15
0.75 0.14 0.11
Matches are distributed among these distances:
21 2 0.02
22 15 0.15
23 52 0.50
24 15 0.15
25 9 0.09
26 10 0.10
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.24
Consensus pattern (23 bp):
AACAGTAAGCTCTATTGAGCTGA
Found at i:37900036 original size:43 final size:43
Alignment explanation
Indices: 37899987--37900092 Score: 113
Period size: 43 Copynumber: 2.5 Consensus size: 43
37899977 TCCCATATAT
* ** * * *
37899987 GGTCTTACATGTTATCACATATTGATGCCACTGTCCTAGACAG
1 GGTCTTACATGTAATCACATAACGATGCCAATGTCCCAAACAG
* * * * *
37900030 GGTCTTACACGAAATCATATAACGATGCTAATGTCCCAAACAT
1 GGTCTTACATGTAATCACATAACGATGCCAATGTCCCAAACAG
37900073 GGTCTTACATGTAATCACAT
1 GGTCTTACATGTAATCACAT
37900093 CTCAATAACC
Statistics
Matches: 49, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (43 bp):
GGTCTTACATGTAATCACATAACGATGCCAATGTCCCAAACAG
Found at i:37912555 original size:121 final size:121
Alignment explanation
Indices: 37912341--37912824 Score: 959
Period size: 121 Copynumber: 4.0 Consensus size: 121
37912331 CTAAGATCTA
*
37912341 GTAAAGCTTACTCGTGTCATTTCTTTAATTTATTTGTAGATTACATTTTGTAGAAATCGGGCGAT
1 GTAAAGCTTACTCGTGTCATTTCTTTAATTTCTTTGTAGATTACATTTTGTAGAAATCGGGCGAT
37912406 TGGATCAACTCGAAGAATCACACTCTCTAAAGATATTTTGGTAGTTTTTGAATTTT
66 TGGATCAACTCGAAGAATCACACTCTCTAAAGATATTTTGGTAGTTTTTGAATTTT
37912462 GTAAAGCTTACTCGTGTCATTTCTTTAATTTCTTTGTAGATTACATTTTGTAGAAATCGGGCGAT
1 GTAAAGCTTACTCGTGTCATTTCTTTAATTTCTTTGTAGATTACATTTTGTAGAAATCGGGCGAT
37912527 TGGATCAACTCGAAGAATCACACTCTCTAAAGATATTTTGGTAGTTTTTGAATTTT
66 TGGATCAACTCGAAGAATCACACTCTCTAAAGATATTTTGGTAGTTTTTGAATTTT
37912583 GTAAAGCTTACTCGTGTCATTTCTTTAATTTCTTTGTAGATTACATTTTGTAGAAATCGGGCGAT
1 GTAAAGCTTACTCGTGTCATTTCTTTAATTTCTTTGTAGATTACATTTTGTAGAAATCGGGCGAT
37912648 TGGATCAACTCGAAGAATCACACTCTCTAAAGATATTTTGGTAGTTTTTGAATTTT
66 TGGATCAACTCGAAGAATCACACTCTCTAAAGATATTTTGGTAGTTTTTGAATTTT
37912704 GTAAAGCTTACTCGTGTCATTTCTTTAATTTCTTTGTAGATTACATTTTGTAGAAATCGGGCGAT
1 GTAAAGCTTACTCGTGTCATTTCTTTAATTTCTTTGTAGATTACATTTTGTAGAAATCGGGCGAT
37912769 TGGATCAACTCGAAGAATCACACTCTCTAAAGATATTTTGGTAGTTTTTGAATTTT
66 TGGATCAACTCGAAGAATCACACTCTCTAAAGATATTTTGGTAGTTTTTGAATTTT
37912825 TTCTTTTGGG
Statistics
Matches: 362, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
121 362 1.00
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.41
Consensus pattern (121 bp):
GTAAAGCTTACTCGTGTCATTTCTTTAATTTCTTTGTAGATTACATTTTGTAGAAATCGGGCGAT
TGGATCAACTCGAAGAATCACACTCTCTAAAGATATTTTGGTAGTTTTTGAATTTT
Found at i:37914758 original size:40 final size:40
Alignment explanation
Indices: 37914703--37914819 Score: 191
Period size: 40 Copynumber: 3.0 Consensus size: 40
37914693 CTGGAAAAAA
37914703 TATAACC-GGTTAAGTCCCGAAGGCATTAGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTAGTGCGGGTTAT
* *
37914742 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGTGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTAGTGCGGGTTAT
* *
37914782 TATAACCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTT
1 TATAACCGGGTTAAGTCCCGAAGGCATTAGTGCGGGTT
37914820 GTTACATCCG
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
39 7 0.10
40 65 0.90
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (40 bp):
TATAACCGGGTTAAGTCCCGAAGGCATTAGTGCGGGTTAT
Found at i:37919876 original size:47 final size:46
Alignment explanation
Indices: 37919807--37919976 Score: 150
Period size: 47 Copynumber: 3.6 Consensus size: 46
37919797 GTATAATGCC
* *
37919807 GATGCCATGTCCTAGACATGGTCTTACATTGGCTCATTCATCAAGTT
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCTCATTCATCAAGTT
** * * *
37919854 GATGCCATGTCCCAGACATGGTCTTACACTAACAC-CTCTAT-ATGTGT
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCTCATTC-ATCAAGT-T
* * * *
37919901 CGATGCCATGTCCCAGACATATCTTACACTGGTTTATATC-TCAAGGTC
1 -GATGCCATGTCCCAGACATGTCTTACACTGGCTCAT-TCATCAA-GTT
37919949 GATG-CATGTCCCAGACATGTCTTACACT
1 GATGCCATGTCCCAGACATGTCTTACACT
37919977 AGCGCACAAT
Statistics
Matches: 99, Mismatches: 17, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
46 28 0.28
47 47 0.47
48 20 0.20
49 4 0.04
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (46 bp):
GATGCCATGTCCCAGACATGTCTTACACTGGCTCATTCATCAAGTT
Found at i:37922852 original size:148 final size:149
Alignment explanation
Indices: 37922584--37922876 Score: 507
Period size: 148 Copynumber: 2.0 Consensus size: 149
37922574 CTCCTGTAGT
**
37922584 GGATGCAATCACGTTTAGATACCTTATTAGTCTAGCAGTATGTAAAAAACTTGATATGTGTCTAA
1 GGATGCAATCACGTTTAGATACCTTATTAGTCTAGCAGTATGTAAAAAACTTGATATACGTCTAA
* *
37922649 TGGATGATGTTACAACCTATTTGTATGGTACACTTGAAAGTGAAATTTATATGAAAATCC-TGAA
66 TAGATGATGTTACAACCTATTTGTATGGTACACTTAAAAGTGAAATTTATATGAAAATCCTTGAA
*
37922713 GGATATAGAGTTTCTTGGG
131 GGATAAAGAGTTTCTTGGG
*
37922732 GGATGCAATCACGTTTAGATACCTTATTAGTCTAGCAGTATGTGAAAAACTTGATATACGTCTAA
1 GGATGCAATCACGTTTAGATACCTTATTAGTCTAGCAGTATGTAAAAAACTTGATATACGTCTAA
* *
37922797 TAGATGTTGTTACAGCCTATTTGTATGGTACACTTAAAAGTGAAATTTATATGAAAATCCTTGAA
66 TAGATGATGTTACAACCTATTTGTATGGTACACTTAAAAGTGAAATTTATATGAAAATCCTTGAA
37922862 GGATAAAGAGTTTCT
131 GGATAAAGAGTTTCT
37922877 CGTGAAAATT
Statistics
Matches: 136, Mismatches: 8, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
148 118 0.87
149 18 0.13
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (149 bp):
GGATGCAATCACGTTTAGATACCTTATTAGTCTAGCAGTATGTAAAAAACTTGATATACGTCTAA
TAGATGATGTTACAACCTATTTGTATGGTACACTTAAAAGTGAAATTTATATGAAAATCCTTGAA
GGATAAAGAGTTTCTTGGG
Found at i:37924386 original size:12 final size:13
Alignment explanation
Indices: 37924369--37924397 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
37924359 TGTTTAATTA
37924369 TATTA-GGATAAT
1 TATTAGGGATAAT
37924381 TATTAGGGATAAT
1 TATTAGGGATAAT
37924394 TATT
1 TATT
37924398 TAGATTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.45
Consensus pattern (13 bp):
TATTAGGGATAAT
Found at i:37924439 original size:10 final size:10
Alignment explanation
Indices: 37924420--37924463 Score: 54
Period size: 10 Copynumber: 4.3 Consensus size: 10
37924410 TAGGATTTAA
37924420 TTTAATTTATC
1 TTTAA-TTATC
37924431 TTTAATTATC
1 TTTAATTATC
37924441 TTTAATTAT-
1 TTTAATTATC
*
37924450 TTGTATTTATC
1 TT-TAATTATC
37924461 TTT
1 TTT
37924464 TAGAATTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
9 2 0.07
10 21 0.70
11 7 0.23
ACGTcount: A:0.25, C:0.07, G:0.02, T:0.66
Consensus pattern (10 bp):
TTTAATTATC
Found at i:37925875 original size:23 final size:23
Alignment explanation
Indices: 37925780--37925910 Score: 77
Period size: 23 Copynumber: 5.7 Consensus size: 23
37925770 ACACATAATC
* *
37925780 TTCTGTAAAGCCTTTGTGGCGTA
1 TTCTATAAAGCCTTTGTGGCATA
*
37925803 TT-TAGTAAAG-CTTGTGTGGAATA
1 TTCTA-TAAAGCCTT-TGTGGCATA
* * ** *** *
37925826 TTATGTAAAGATTTTGTGATGTG
1 TTCTATAAAGCCTTTGTGGCATA
37925849 TTCTATAAAGCCTTTGTGGCATA
1 TTCTATAAAGCCTTTGTGGCATA
* * * * *
37925872 TTCTGTGATGCCTATGTGGCACA
1 TTCTATAAAGCCTTTGTGGCATA
*
37925895 TTCTATAATGCCTTTG
1 TTCTATAAAGCCTTTG
37925911 AGGTGAGATC
Statistics
Matches: 79, Mismatches: 25, Indels: 8
0.71 0.22 0.07
Matches are distributed among these distances:
22 4 0.05
23 72 0.91
24 3 0.04
ACGTcount: A:0.23, C:0.13, G:0.23, T:0.41
Consensus pattern (23 bp):
TTCTATAAAGCCTTTGTGGCATA
Found at i:37928434 original size:21 final size:21
Alignment explanation
Indices: 37928410--37928457 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
37928400 AGAAATTCTA
*
37928410 AAGTTAT-TTATTATGAAAAAT
1 AAGTTATATT-TTATAAAAAAT
37928431 AAGTTATATTTTATAAAAAA-
1 AAGTTATATTTTATAAAAAAT
37928451 AA-TTATA
1 AAGTTATA
37928458 ATATATTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 5 0.20
20 2 0.08
21 16 0.64
22 2 0.08
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (21 bp):
AAGTTATATTTTATAAAAAAT
Found at i:37930573 original size:7 final size:7
Alignment explanation
Indices: 37930561--37930587 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
37930551 TTCGGCTTAA
37930561 TGCCAGT
1 TGCCAGT
37930568 TGCCAGT
1 TGCCAGT
37930575 TGCCAGT
1 TGCCAGT
37930582 TGCCAG
1 TGCCAG
37930588 CTCTGAGCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.30, G:0.30, T:0.26
Consensus pattern (7 bp):
TGCCAGT
Found at i:37936120 original size:27 final size:27
Alignment explanation
Indices: 37936090--37936143 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
37936080 ATTTTGCCAA
37936090 TCTATTTAACAAGCTAGAGTTCACCAG
1 TCTATTTAACAAGCTAGAGTTCACCAG
* *
37936117 TCTATTTAACGAGCTGGAGTTCACCAG
1 TCTATTTAACAAGCTAGAGTTCACCAG
37936144 GTAAGTTGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (27 bp):
TCTATTTAACAAGCTAGAGTTCACCAG
Found at i:37936576 original size:13 final size:13
Alignment explanation
Indices: 37936558--37936583 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37936548 GTGTGAAAAT
37936558 GTTATGTTTTAAA
1 GTTATGTTTTAAA
37936571 GTTATGTTTTAAA
1 GTTATGTTTTAAA
37936584 TATAAGTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
GTTATGTTTTAAA
Found at i:37955001 original size:14 final size:14
Alignment explanation
Indices: 37954982--37955010 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
37954972 AATATTTTTG
37954982 AGTAATAAGTGAAA
1 AGTAATAAGTGAAA
37954996 AGTAATAAGTGAAA
1 AGTAATAAGTGAAA
37955010 A
1 A
37955011 TGCCTCATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.21, T:0.21
Consensus pattern (14 bp):
AGTAATAAGTGAAA
Found at i:37966783 original size:22 final size:21
Alignment explanation
Indices: 37966743--37966783 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
37966733 CTCTTAACAT
* *
37966743 AGGGGCACATGCCCGTGTGGA
1 AGGGGCACACGCCCATGTGGA
37966764 AGGGGCAACACGCCCATGTG
1 AGGGGC-ACACGCCCATGTG
37966784 ACATATCAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.22, C:0.27, G:0.39, T:0.12
Consensus pattern (21 bp):
AGGGGCACACGCCCATGTGGA
Found at i:37971830 original size:28 final size:29
Alignment explanation
Indices: 37971765--37971830 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 29
37971755 ATTGAAATTG
* ***
37971765 AAAGAAAAAGTACAAGAAAAATGATTGAA
1 AAAGAGAAAGTACAAGAAAAATGAAAAAA
37971794 AAAGAGAAAG-ACAAGAAAAATGAAAAAA
1 AAAGAGAAAGTACAAGAAAAATGAAAAAA
37971822 GAAAG-GAAA
1 -AAAGAGAAA
37971831 AAGTGAGAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 19 0.59
29 13 0.41
ACGTcount: A:0.70, C:0.03, G:0.20, T:0.08
Consensus pattern (29 bp):
AAAGAGAAAGTACAAGAAAAATGAAAAAA
Found at i:37979346 original size:47 final size:47
Alignment explanation
Indices: 37979292--37979485 Score: 291
Period size: 47 Copynumber: 4.1 Consensus size: 47
37979282 TTAGGATTTT
** * *
37979292 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
37979339 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
37979386 ATGTGATGAATGT-AAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-CATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
37979433 ATGTGGTGAATGTGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
37979480 ATGTGA
1 ATGTGA
37979486 AATATGTACG
Statistics
Matches: 134, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
46 2 0.01
47 130 0.97
48 2 0.01
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:37979392 original size:22 final size:22
Alignment explanation
Indices: 37979321--37979392 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
37979311 GTATATATGA
37979321 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
37979343 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
37979368 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
37979390 GAT
1 GAT
37979393 GAATGTAAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:37979441 original size:25 final size:25
Alignment explanation
Indices: 37979366--37979441 Score: 61
Period size: 23 Copynumber: 3.2 Consensus size: 25
37979356 ATGCATATAT
37979366 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * *** *
37979391 ATGA-ATGTAAGCAT-G-CATATGT-
1 GTGATAAGGCCGAATGGCCA-ATGTG
37979413 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
37979438 GTGA
1 GTGA
37979442 ATGTGAACAT
Statistics
Matches: 34, Mismatches: 12, Indels: 10
0.61 0.21 0.18
Matches are distributed among these distances:
22 5 0.15
23 10 0.29
24 10 0.29
25 9 0.26
ACGTcount: A:0.30, C:0.13, G:0.33, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:37979493 original size:94 final size:95
Alignment explanation
Indices: 37979321--37979589 Score: 309
Period size: 94 Copynumber: 2.8 Consensus size: 95
37979311 GTATATATGA
* * * *
37979321 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 GATAAGGCCGAATGGCCAATGTGGTGAATGTGAACATGCATATATGTGGTAAAGCCGAATGGCTA
*
37979386 ATGTGATGA-ATGTA-AG-CATGCATATGTG
66 ATGTGA-AATATGTACAGACATGCATATGTG
37979414 TGATAAGGCCGAATGGCCAATGTGGTGAATGTGAACATGCATATATGTGGTAAAGCCGAATGGCT
1 -GATAAGGCCGAATGGCCAATGTGGTGAATGTGAACATGCATATATGTGGTAAAGCCGAATGGCT
* *
37979479 AATGTGAAATATGTACGAGATATGTATATGTG
65 AATGTGAAATATGTAC-AGACATGCATATGTG
* * ** *
37979511 G-TAAAGCCGAATGGCTAATGT-GAAATATGTATGAGATATG--TATATGTGGTAAAGCCGAATG
1 GATAAGGCCGAATGGCCAATGTGGTGA-ATG--TGA-ACATGCATATATGTGGTAAAGCCGAATG
*
37979572 GCTAGTGTGAAATATGTA
62 GCTAATGTGAAATATGTA
37979590 GGCGATGTGC
Statistics
Matches: 154, Mismatches: 13, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
93 1 0.01
94 74 0.48
95 21 0.14
96 41 0.27
97 13 0.08
98 4 0.03
ACGTcount: A:0.34, C:0.10, G:0.29, T:0.27
Consensus pattern (95 bp):
GATAAGGCCGAATGGCCAATGTGGTGAATGTGAACATGCATATATGTGGTAAAGCCGAATGGCTA
ATGTGAAATATGTACAGACATGCATATGTG
Found at i:37979518 original size:48 final size:48
Alignment explanation
Indices: 37979455--37979589 Score: 252
Period size: 48 Copynumber: 2.8 Consensus size: 48
37979445 TGAACATGCA
37979455 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTACGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTACGAGATATG
*
37979503 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTACGAGATATG
*
37979551 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
37979590 GGCGATGTGC
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 85 1.00
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.30
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTACGAGATATG
Found at i:37979881 original size:37 final size:37
Alignment explanation
Indices: 37979736--37979880 Score: 254
Period size: 37 Copynumber: 3.9 Consensus size: 37
37979726 CGAAATATAT
37979736 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
37979773 TCCGGGTAAGACCCGATGACTACGTGTAGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
37979810 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
37979847 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
37979881 TCGTCTGAGC
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:37981171 original size:23 final size:23
Alignment explanation
Indices: 37981145--37981211 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 23
37981135 ATATATCCGG
37981145 GCTAAGTCCCGAAGAGCATTCGT
1 GCTAAGTCCCGAAGAGCATTCGT
* * * *
37981168 GCT-AGT---G-A-TGTATCCGG
1 GCTAAGTCCCGAAGAGCATTCGT
37981185 GCTAAGTCCCGAAGAGCATTCGT
1 GCTAAGTCCCGAAGAGCATTCGT
37981208 GCTA
1 GCTA
37981212 GTGATGTATC
Statistics
Matches: 30, Mismatches: 8, Indels: 12
0.60 0.16 0.24
Matches are distributed among these distances:
17 8 0.27
18 4 0.13
19 1 0.03
21 1 0.03
22 4 0.13
23 12 0.40
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (23 bp):
GCTAAGTCCCGAAGAGCATTCGT
Found at i:37981694 original size:40 final size:40
Alignment explanation
Indices: 37981138--37981682 Score: 874
Period size: 40 Copynumber: 13.6 Consensus size: 40
37981128 GAGTTATATA
37981138 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
37981178 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
*
37981218 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
*
37981258 TATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
*
37981298 TATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
* *
37981338 TATCTGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
* ** * *
37981378 TATCCGAGCTAAGTTTCGAAGAACATTCGTGCTAGTGATA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
37981418 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
*
37981458 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGGTG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
*
37981498 TATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
*
37981538 TATCCGGGTTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
* * * *
37981578 TATCCGGGCTAAGTTCCGAAGAACATTCGTGCCAGTGATA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
* ** * * *
37981618 TATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
*
37981658 TATCCGGGCTAGGTCCCGAAGAGCA
1 TATCCGGGCTAAGTCCCGAAGAGCA
37981683 ATCATGCTGG
Statistics
Matches: 467, Mismatches: 38, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 467 1.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
Found at i:37985182 original size:46 final size:45
Alignment explanation
Indices: 37985047--37985223 Score: 117
Period size: 46 Copynumber: 3.8 Consensus size: 45
37985037 ACATTATGAG
* * *
37985047 AGCCTGTGTAAGACCATGTCT-GAGACATGGCATCGGCATCGAGATGAGT
1 AGCCAGTGTAA-AACATGTCTGGA-ACAT-GCATCGGC-TCGAGACGA-T
* * * * * *
37985096 -GCTAGTGTAAGACATATCCGGGACATGCATCAGCCTCGAGACG-T
1 AGCCAGTGTAAAACATGTCTGGAACATGCATC-GGCTCGAGACGAT
*
37985140 AAGCCAGTGTAAAACATGTCTGGAACATGCATCGGCTACGAGATGAT
1 -AGCCAGTGTAAAACATGTCTGGAACATGCATCGGCT-CGAGACGAT
* * * *
37985187 AGTCAGTGTAAGACCATGTTTGGAATATGGCATCGGC
1 AGCCAGTGTAA-AACATGTCTGGAACAT-GCATCGGC
37985224 ACCCTACCCC
Statistics
Matches: 100, Mismatches: 20, Indels: 17
0.73 0.15 0.12
Matches are distributed among these distances:
44 1 0.01
45 3 0.03
46 54 0.54
47 25 0.25
48 17 0.17
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (45 bp):
AGCCAGTGTAAAACATGTCTGGAACATGCATCGGCTCGAGACGAT
Found at i:38001665 original size:46 final size:48
Alignment explanation
Indices: 38001518--38001739 Score: 189
Period size: 46 Copynumber: 4.7 Consensus size: 48
38001508 GTTATTGTGG
* *
38001518 GCTAGTGTAAGACATGTTTGGGACATGCATCTG-CT--AGATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGA-TATGAGA
* * *
38001564 GCCTA-TGTAAGACCATGTCTGGGACATGACATCGACATCGA-A-ATGAGT
1 G-CTAGTGTAAGA-CATGTCTGGGACATG-CATCGGCCTCGAGATATGAGA
* *
38001612 GCTAGTGTAAGACATGTCCGGGACATGCATCGGCCTCGAGACAT-A-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATGAGA
* * *
38001658 GCTAGTGTAAGACATGTGTAGGACATGCATCGG-CTACGAGATA--ATA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATATGAGA
*
38001704 G-TCAGTGTAAGACCATGTCTGGGATATGGCATCGGC
1 GCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
38001740 ACCCTACCCT
Statistics
Matches: 145, Mismatches: 16, Indels: 27
0.77 0.09 0.14
Matches are distributed among these distances:
45 4 0.03
46 65 0.45
47 47 0.32
48 26 0.18
49 1 0.01
50 1 0.01
51 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.24
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATGAGA
Found at i:38008138 original size:26 final size:24
Alignment explanation
Indices: 38008101--38008149 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
38008091 AAGGATATAC
*
38008101 ATATATAGATTTAAAATAGATAAA
1 ATATATAGATTTAAAATAAATAAA
*
38008125 ATATATATGAATTTCAAATAAATAA
1 ATATATA-G-ATTTAAAATAAATAA
38008150 TATGTACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 1 0.05
26 13 0.62
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (24 bp):
ATATATAGATTTAAAATAAATAAA
Found at i:38010418 original size:177 final size:177
Alignment explanation
Indices: 38010216--38010980 Score: 1190
Period size: 177 Copynumber: 4.3 Consensus size: 177
38010206 GCTACCTTGG
* * * *
38010216 GAAGATAAAACTCGCCGTCTTCGATCTGCTCCACTGCTACTTAGGGAGATAAGATCTACAATTTT
1 GAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTT
*
38010281 TAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGTATCTTGAACCTGCTCCACTGCAACTT
66 CAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGTATCTTGAACCTGCTCCACTGCAACTT
*
38010346 CAGAGAGATTAGGCTGGTGGCTTAAATCTGCTCCATTGCCGCTACAT
131 CAGGGAGATTAGGCTGGTGGCTTAAATCTGCTCCATTGCCGCTACAT
* * * *
38010393 GAAGATAAGATTCGCCGTTTTCGATCTGCTCTACTACTGCTTAAGGAGATAAGATCTGCAATTTT
1 GAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTT
* * *
38010458 TAGTTTGCTCCACTGCAACCTCAGAGAGATAAGACTTGTATCTTGAACCTGCTCCACTGCAACTT
66 CAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGTATCTTGAACCTGCTCCACTGCAACTT
*
38010523 CAGGGAGATTAGGCTGGTGGCTTAAATCTGCTCCATTGCCGCTACAC
131 CAGGGAGATTAGGCTGGTGGCTTAAATCTGCTCCATTGCCGCTACAT
* * * **
38010570 GGAGATAAGATTCGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGTAATTTT
1 GAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTT
* * *
38010635 CAGTCTGTTCCACTGTAACCTCAGGGAGATAAGACTTGTATCTTGAACCTACTCCACTGCAACTT
66 CAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGTATCTTGAACCTGCTCCACTGCAACTT
*
38010700 CAGGGAGATTAGGCTGGTGGCTTAAATCTGCTCCATTGTCGCTACAT
131 CAGGGAGATTAGGCTGGTGGCTTAAATCTGCTCCATTGCCGCTACAT
* *
38010747 -AGAGATAAGATTCGCTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGAAAAGATCTACAATTT
1 GA-AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTT
* * * * *
38010811 TCAGTCTGCTCCACTACCACTTCAGGGAGATAAGACTTGTATCTTAAACCTGCTCCACTGAAACT
65 TCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGTATCTTGAACCTGCTCCACTGCAACT
* * * *
38010876 TTAGGGAGATAAGGCTGGTAGCTTAAATCTACTCCATTGCCGCTACAT
130 TCAGGGAGATTAGGCTGGTGGCTTAAATCTGCTCCATTGCCGCTACAT
* *
38010924 GAAGATAAAATTCGCCGTCTTCGATTTGCTCCACTACTGCTTAGGGAGATAAGATCT
1 GAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
38010981 GCAAATTCAC
Statistics
Matches: 535, Mismatches: 51, Indels: 4
0.91 0.09 0.01
Matches are distributed among these distances:
177 534 1.00
178 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.30
Consensus pattern (177 bp):
GAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTT
CAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGTATCTTGAACCTGCTCCACTGCAACTT
CAGGGAGATTAGGCTGGTGGCTTAAATCTGCTCCATTGCCGCTACAT
Found at i:38010665 original size:89 final size:89
Alignment explanation
Indices: 38010231--38010978 Score: 243
Period size: 88 Copynumber: 8.4 Consensus size: 89
38010221 TAAAACTCGC
* * * ** *
38010231 CGTCTTCGATCTGCTCCACTGCTACTTAGGGAGATAAGATCTACAATTTTTAGTCTGCTCCACTG
1 CGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGTAATTTTAAGTCTGCTCCACTG
*
38010296 CAACCTCAGGGAGATAAGACTT-GT
66 TAACCTCAGGGAGATAAGA-TTCGT
* * * ** * * ** * *** *
38010320 -ATCTT-GAACCTGCTCCACTGCAACTTCAGAGAGATTAGGCTGGT-GGCTTAAATCTGCTCCA-
1 CGTCTTCG-ATCTGCTCCACTACTGCTT-AGGGAGATAAGATTTGTAATTTTAAGTCTGCTCCAC
** * * *
38010381 T-TGCCGCTACATGAAGATAAGATTCGC
64 TGTAAC-CT-CAGGGAGATAAGATTCGT
* * * * * * *
38010408 CGTTTTCGATCTGCTCTACTACTGCTTAAGGAGATAAGATCTGCAATTTTTAGTTTGCTCCACTG
1 CGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGTAATTTTAAGTCTGCTCCACTG
* *
38010473 CAACCTCAGAGAGATAAGACTT-GT
66 TAACCTCAGGGAGATAAGA-TTCGT
* * * ** * ** * *** *
38010497 -ATCTT-GAACCTGCTCCACTGCAACTTCAGGGAGATTAGGCTGGT-GGCTTAAATCTGCTCCA-
1 CGTCTTCG-ATCTGCTCCACTACTGCTT-AGGGAGATAAGATTTGTAATTTTAAGTCTGCTCCAC
** *
38010558 T-TGCCGCTACACGGAGATAAGATTCGT
64 TGTAAC-CT-CAGGGAGATAAGATTCGT
* *
38010585 CGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGTAATTTTCAGTCTGTTCCACTG
1 CGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGTAATTTTAAGTCTGCTCCACTG
38010650 TAACCTCAGGGAGATAAGACTT-GT
66 TAACCTCAGGGAGATAAGA-TTCGT
* * * * ** * ** * *** * *
38010674 -ATCTT-GAACCTACTCCACTGCAACTTCAGGGAGATTAGGCTGGT-GGCTTAAATCTGCTCCAT
1 CGTCTTCG-ATCTGCTCCACTACTGCTT-AGGGAGATAAGATTTGTAATTTTAAGTCTGCTCCAC
**
38010736 TGT--CGCTACATAGAGATAAGATTCG-
64 TGTAAC-CT-CAGGGAGATAAGATTCGT
* * ** *
38010761 CTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGAAAAGATCTACAATTTTCAGTCTGCTCCACT
1 C-GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGTAATTTTAAGTCTGCTCCACT
*** *
38010826 ACCACTTCAGGGAGATAAGACTT-GT
65 GTAACCTCAGGGAGATAAGA-TTCGT
* ** * ** * ** * *
38010851 -ATCTTAAACCTGCTCCACTGAAACT--TTAGGGAGATAAGGCTGGT-AGCTTAAATCTACTCCA
1 CGTCTTCGATCTGCTCCACT---ACTGCTTAGGGAGATAAGATTTGTAATTTTAAGTCTGCTCCA
** * * * *
38010912 -T-TGCCGCTACATGAAGATAAAATTCGC
63 CTGTAAC-CT-CAGGGAGATAAGATTCGT
*
38010939 CGTCTTCGATTTGCTCCACTACTGCTTAGGGAGATAAGAT
1 CGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGAT
38010979 CTGCAAATTC
Statistics
Matches: 447, Mismatches: 168, Indels: 89
0.63 0.24 0.13
Matches are distributed among these distances:
86 7 0.02
87 21 0.05
88 212 0.47
89 184 0.41
90 16 0.04
91 7 0.02
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.30
Consensus pattern (89 bp):
CGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGTAATTTTAAGTCTGCTCCACTG
TAACCTCAGGGAGATAAGATTCGT
Found at i:38010864 original size:44 final size:44
Alignment explanation
Indices: 38010239--38010911 Score: 284
Period size: 44 Copynumber: 15.2 Consensus size: 44
38010229 GCCGTCTTCG
* *** * *
38010239 ATCTGCTCCACTGCTACTT-AGGGAGATAAGATCTACAATTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA-CTTGTATCTTAA
* * *
38010283 GTCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGTATCTTGA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTAA
* * * * * **
38010327 ACCTGCTCCACTGCAACTTCAGAGAGATTAGGCTGGTGGCTTAA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTAA
* ** * * * ** * **
38010371 ATCTGCTCCATTGCCGCTACATGAAGATAAGA-TTCGCCGTTTTCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-G-TATCTTAA
* * ** * * * *
38010416 ATCTGCTCTACTACTGCTT-AAGGAGATAAGA-TCTGCAATTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACT-TG-TATCTTAA
* * * * *
38010460 GTTTGCTCCACTGCAACCTCAGAGAGATAAGACTTGTATCTTGA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTAA
* * * * **
38010504 ACCTGCTCCACTGCAACTTCAGGGAGATTAGGCTGGTGGCTTAA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTAA
* ** * * * **
38010548 ATCTGCTCCATTGCCGCTACACGGAGATAAGA-TTCGTCGTCTTCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GT-ATCTTAA
* ** * * *
38010593 ATCTGCTCCACTACTGCTT-AGGGAGATAAGATTTGTAATTTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT-ATCTTAA
* * * * *
38010637 GTCTGTTCCACTGTAACCTCAGGGAGATAAGACTTGTATCTTGA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTAA
* * * * * **
38010681 ACCTACTCCACTGCAACTTCAGGGAGATTAGGCTGGTGGCTTAA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTAA
* * * ** * **
38010725 ATCTGCTCCATTGTC-GCTACATAGAGATAAGA-TTCGCTGTCTTCG
1 ATCTGCTCCACTG-CAACTTCAGGGAGATAAGACTT-G-TATCTTAA
* ** * *** * *
38010770 ATCTGCTCCACTACTGCTT-AGGGAGAAAAGATCTACAATTTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA-CTTGTATCTTAA
* * *
38010814 GTCTGCTCCACTACCACTTCAGGGAGATAAGACTTGTATCTTAA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTAA
* * * * * *
38010858 ACCTGCTCCACTGAAACTTTAGGGAGATAAGGCTGGTAGCTTAA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTAA
*
38010902 ATCTACTCCA
1 ATCTGCTCCA
38010912 TTGCCGCTAC
Statistics
Matches: 456, Mismatches: 156, Indels: 34
0.71 0.24 0.05
Matches are distributed among these distances:
43 3 0.01
44 341 0.75
45 110 0.24
46 2 0.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTAA
Found at i:38012642 original size:26 final size:24
Alignment explanation
Indices: 38012605--38012653 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
38012595 AAGGATATAC
*
38012605 ATATATAGATTTAAAATAGATAAA
1 ATATATAGATTTAAAATAAATAAA
*
38012629 ATATATATGAATTTCAAATAAATAA
1 ATATATA-G-ATTTAAAATAAATAA
38012654 TATGTATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 1 0.05
26 13 0.62
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (24 bp):
ATATATAGATTTAAAATAAATAAA
Found at i:38020611 original size:3 final size:3
Alignment explanation
Indices: 38020603--38020644 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
38020593 CTTGTTTGGT
38020603 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
38020645 GGTTATGATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:38025226 original size:3 final size:3
Alignment explanation
Indices: 38025218--38025263 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
38025208 CTACTTTAAT
38025218 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
38025264 GTGTTGTCAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:38026336 original size:17 final size:16
Alignment explanation
Indices: 38026296--38026337 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
38026286 AAATCCGTAC
38026296 TTTTTTTATATTAATA
1 TTTTTTTATATTAATA
38026312 TTTATTTTAGT-TTAATA
1 TTT-TTTTA-TATTAATA
38026329 TATTTTTTA
1 T-TTTTTTA
38026338 ACTTTATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 3 0.13
17 17 0.74
18 3 0.13
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (16 bp):
TTTTTTTATATTAATA
Found at i:38032191 original size:20 final size:20
Alignment explanation
Indices: 38032166--38032224 Score: 82
Period size: 20 Copynumber: 3.0 Consensus size: 20
38032156 TTGTACAAGA
* *
38032166 TTGCACTTTGGTGCCTCTGT
1 TTGCACTTCGGTGCCTCTAT
38032186 TTGCACTTCGGTGCCTCTAT
1 TTGCACTTCGGTGCCTCTAT
* *
38032206 TTGCACTACGGTACCTCTA
1 TTGCACTTCGGTGCCTCTA
38032225 GTTAGCATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.12, C:0.29, G:0.20, T:0.39
Consensus pattern (20 bp):
TTGCACTTCGGTGCCTCTAT
Found at i:38035919 original size:45 final size:45
Alignment explanation
Indices: 38035863--38035950 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
38035853 GAACTATGTG
*
38035863 ATCTGAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGAC
1 ATCTGAACTCATTGAGTTATGGTCTGAGTTCATGATATATGTGAC
* *
38035908 ATCTGAACTCATTGAGTTATGTTCTGAGTTCATGATGTATGTG
1 ATCTGAACTCATTGAGTTATGGTCTGAGTTCATGATATATGTG
38035951 GCACATGTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.40
Consensus pattern (45 bp):
ATCTGAACTCATTGAGTTATGGTCTGAGTTCATGATATATGTGAC
Found at i:38042223 original size:51 final size:52
Alignment explanation
Indices: 38042155--38042257 Score: 190
Period size: 51 Copynumber: 2.0 Consensus size: 52
38042145 TATTTTCTAA
38042155 AATGAAAATGAATAATAAATGTCTCCTTCCTTC-TTTCCATAAGTTATTCTC
1 AATGAAAATGAATAATAAATGTCTCCTTCCTTCTTTTCCATAAGTTATTCTC
*
38042206 AATGAAAATGAATAATAAGTGTCTCCTTCCTTCTTTTCCATAAGTTATTCTC
1 AATGAAAATGAATAATAAATGTCTCCTTCCTTCTTTTCCATAAGTTATTCTC
38042258 TTTTTCTTAC
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
51 32 0.64
52 18 0.36
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.40
Consensus pattern (52 bp):
AATGAAAATGAATAATAAATGTCTCCTTCCTTCTTTTCCATAAGTTATTCTC
Found at i:38042692 original size:31 final size:31
Alignment explanation
Indices: 38042657--38042715 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
38042647 TTCTTTTAAC
38042657 AATTAAATCGTGAATTATTATTTATTAAAAA
1 AATTAAATCGTGAATTATTATTTATTAAAAA
* * *
38042688 AATTAAATTGTGATTTATTTTTTATTAA
1 AATTAAATCGTGAATTATTATTTATTAA
38042716 CTATCATTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (31 bp):
AATTAAATCGTGAATTATTATTTATTAAAAA
Found at i:38043157 original size:25 final size:25
Alignment explanation
Indices: 38043107--38043157 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
38043097 CTGACTTGTA
* * *
38043107 GTTAGGGTTTTCCTTTTGTAGTTTT
1 GTTAGGGTTTGCATTTTGTAGGTTT
38043132 GTTAGGGTTTGCA-TTTGTTAGGTTT
1 GTTAGGGTTTGCATTTTG-TAGGTTT
38043157 G
1 G
38043158 GGCTCTAGGC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.10, C:0.06, G:0.29, T:0.55
Consensus pattern (25 bp):
GTTAGGGTTTGCATTTTGTAGGTTT
Found at i:38043911 original size:18 final size:17
Alignment explanation
Indices: 38043890--38043934 Score: 63
Period size: 19 Copynumber: 2.5 Consensus size: 17
38043880 CAGTTAAAAT
38043890 TATTTTATAATAAGATAA
1 TATTTTATAATAA-ATAA
*
38043908 TATTTTTACAATAAATAA
1 TA-TTTTATAATAAATAA
38043926 TATTTTATA
1 TATTTTATA
38043935 TAGACTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 6 0.25
18 8 0.33
19 10 0.42
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (17 bp):
TATTTTATAATAAATAA
Found at i:38043920 original size:19 final size:18
Alignment explanation
Indices: 38043892--38043931 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
38043882 GTTAAAATTA
*
38043892 TTTTATAATAAGATAATAT
1 TTTTACAATAA-ATAATAT
38043911 TTTTACAATAAATAATAT
1 TTTTACAATAAATAATAT
38043929 TTT
1 TTT
38043932 ATATAGACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
TTTTACAATAAATAATAT
Found at i:38044239 original size:21 final size:22
Alignment explanation
Indices: 38044208--38044249 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
38044198 ATGTTTAATA
38044208 ATATTGAAAA-TTATAATATTTG
1 ATATTGAAAATTTA-AATATTTG
38044230 ATATT-AAAATTTAAATATTT
1 ATATTGAAAATTTAAATATTT
38044250 TTTAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (22 bp):
ATATTGAAAATTTAAATATTTG
Found at i:38044830 original size:20 final size:20
Alignment explanation
Indices: 38044788--38044841 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
38044778 ATTATTAATA
**
38044788 AATTTAAATTTTACTAACTT
1 AATTTAAATTTTACTAAAAT
38044808 AATTTAAATTATTA-TAAAAT
1 AATTTAAATT-TTACTAAAAT
38044828 AATCATTAAATTTT
1 AAT--TTAAATTTT
38044842 TTTAAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 17 0.59
21 5 0.17
22 7 0.24
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (20 bp):
AATTTAAATTTTACTAAAAT
Found at i:38046071 original size:12 final size:12
Alignment explanation
Indices: 38046056--38046082 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
38046046 TTTGCCTAGC
38046056 AATTGATTAGAA
1 AATTGATTAGAA
38046068 AATTGATTAGAA
1 AATTGATTAGAA
38046080 AAT
1 AAT
38046083 CAATTTATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.15, T:0.33
Consensus pattern (12 bp):
AATTGATTAGAA
Found at i:38061040 original size:47 final size:47
Alignment explanation
Indices: 38060941--38061114 Score: 219
Period size: 47 Copynumber: 3.7 Consensus size: 47
38060931 GATTTTTTGT
* * * *
38060941 GTGCCAGTATAAGACATGTCTGGGACATGCATCGG-CCACATTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGTCTAGATAATGA
* * *
38060987 GGGCCAGTGTAAGACATGTCTGGGACATGGCATCGGTGTAGA-GATGA
1 GTGCCAGTGTAAGACATGTCTGGGACAT-GCATCGGTCTAGATAATGA
*
38061034 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGTCTCGATAATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGTCTAGATAATGA
* *
38061081 -TAGCCAATGTAAGACGTGTCTGGGACATGCATCG
1 GT-GCCAGTGTAAGACATGTCTGGGACATGCATCG
38061115 ACTAAGAGTC
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
46 38 0.34
47 72 0.64
48 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (47 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGTCTAGATAATGA
Found at i:38061113 original size:93 final size:93
Alignment explanation
Indices: 38060941--38061114 Score: 260
Period size: 93 Copynumber: 1.9 Consensus size: 93
38060931 GATTTTTTGT
* * *
38060941 GTGCCAGTATAAGACATGTCTGGGACATGCATCGGCCACATTATGAGGGCCAGTGTAAGACATGT
1 GTGCCAGTATAAGACATGTCTGGGACATGCATCGGCCACATAATGAGAGCCAATGTAAGACATGT
38061006 CTGGGACATGGCATCGGTGTAGAGATGA
66 CTGGGACATGGCATCGGTGTAGAGATGA
* * * * *
38061034 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGTCTCGATAATGATAGCCAATGTAAGACGTG
1 GTGCCAGTATAAGACATGTCTGGGACATGCATCGGCCAC-ATAATGAGAGCCAATGTAAGACATG
38061099 TCTGGGACAT-GCATCG
65 TCTGGGACATGGCATCG
38061115 ACTAAGAGTC
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
93 42 0.58
94 30 0.42
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (93 bp):
GTGCCAGTATAAGACATGTCTGGGACATGCATCGGCCACATAATGAGAGCCAATGTAAGACATGT
CTGGGACATGGCATCGGTGTAGAGATGA
Found at i:38062032 original size:55 final size:55
Alignment explanation
Indices: 38061948--38062082 Score: 186
Period size: 55 Copynumber: 2.5 Consensus size: 55
38061938 GCACTTAAAA
* * *
38061948 TTTT-AAGTCAGT-TTAGTACACGGGCAGGCCATACGAGCGTGTGTCATGGCCGTG
1 TTTTAAAGTCAGTGTT-GCACACGGGTAGGCCATACGAGCATGTGTCATGGCCGTG
* *
38062002 TTTTAAAGTTAGTGTTGTC-CACGGGTAGGCCATACGGGCATGTGTCATGGCCGTG
1 TTTTAAAGTCAGTGTTG-CACACGGGTAGGCCATACGAGCATGTGTCATGGCCGTG
38062057 TTTTAAAGTCAGTGTTGCACACGGGT
1 TTTTAAAGTCAGTGTTGCACACGGGT
38062083 TAAGGGCAAG
Statistics
Matches: 71, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
54 5 0.07
55 64 0.90
56 2 0.03
ACGTcount: A:0.20, C:0.19, G:0.31, T:0.30
Consensus pattern (55 bp):
TTTTAAAGTCAGTGTTGCACACGGGTAGGCCATACGAGCATGTGTCATGGCCGTG
Found at i:38066348 original size:18 final size:18
Alignment explanation
Indices: 38066325--38066363 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
38066315 TTTTGGGCCT
38066325 AAAACAAATAACCTACCC
1 AAAACAAATAACCTACCC
38066343 AAAACAAATAACCTACCC
1 AAAACAAATAACCTACCC
38066361 AAA
1 AAA
38066364 TAACTCCCAA
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:0.59, C:0.31, G:0.00, T:0.10
Consensus pattern (18 bp):
AAAACAAATAACCTACCC
Found at i:38066363 original size:13 final size:12
Alignment explanation
Indices: 38066347--38066379 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
38066337 CTACCCAAAA
38066347 CAAATAACCTACC
1 CAAATAACCT-CC
38066360 CAAATAA-CTCC
1 CAAATAACCTCC
38066371 CAAATAACC
1 CAAATAACC
38066380 CCAGACCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 9 0.47
12 3 0.16
13 7 0.37
ACGTcount: A:0.48, C:0.36, G:0.00, T:0.15
Consensus pattern (12 bp):
CAAATAACCTCC
Found at i:38071912 original size:9 final size:9
Alignment explanation
Indices: 38071898--38071937 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
38071888 ACGTTTTTTT
38071898 GCATTCATC
1 GCATTCATC
*
38071907 GCATTCATT
1 GCATTCATC
38071916 GCATTCATC
1 GCATTCATC
38071925 GCATTCAT-
1 GCATTCATC
38071933 GCATT
1 GCATT
38071938 AGCATTGCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
8 5 0.17
9 24 0.83
ACGTcount: A:0.23, C:0.28, G:0.12, T:0.38
Consensus pattern (9 bp):
GCATTCATC
Found at i:38071919 original size:18 final size:18
Alignment explanation
Indices: 38071896--38071937 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
38071886 CAACGTTTTT
38071896 TTGCATTCATCGCATTCA
1 TTGCATTCATCGCATTCA
38071914 TTGCATTCATCGCATTCA
1 TTGCATTCATCGCATTCA
38071932 -TGCATT
1 TTGCATT
38071938 AGCATTGCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 6 0.25
18 18 0.75
ACGTcount: A:0.21, C:0.26, G:0.12, T:0.40
Consensus pattern (18 bp):
TTGCATTCATCGCATTCA
Found at i:38080038 original size:43 final size:44
Alignment explanation
Indices: 38079977--38080063 Score: 131
Period size: 43 Copynumber: 2.0 Consensus size: 44
38079967 ATTCACCAAG
* *
38079977 CCTTAAACCCCTAAGCAGTAGGGTAACAGG-TTAAATTTACAGA
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGA
* *
38080020 CCTTAACCCCCTAAGCAGTAGGGTAATAGGCTGAAAATTACAGA
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGA
38080064 TCTCGTCTCC
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 28 0.72
44 11 0.28
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.22
Consensus pattern (44 bp):
CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGA
Found at i:38081046 original size:18 final size:18
Alignment explanation
Indices: 38081022--38081063 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
38081012 CAATTTTGGG
38081022 CCCAAAACAAATAACCTA
1 CCCAAAACAAATAACCTA
*
38081040 TCCAAAACAAATAACCTA
1 CCCAAAACAAATAACCTA
38081058 CCCAAA
1 CCCAAA
38081064 TAACTCCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.55, C:0.33, G:0.00, T:0.12
Consensus pattern (18 bp):
CCCAAAACAAATAACCTA
Found at i:38081063 original size:13 final size:12
Alignment explanation
Indices: 38081047--38081079 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
38081037 CTATCCAAAA
38081047 CAAATAACCTACC
1 CAAATAACCT-CC
38081060 CAAATAA-CTCC
1 CAAATAACCTCC
38081071 CAAATAACC
1 CAAATAACC
38081080 CTAGACCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 9 0.47
12 3 0.16
13 7 0.37
ACGTcount: A:0.48, C:0.36, G:0.00, T:0.15
Consensus pattern (12 bp):
CAAATAACCTCC
Found at i:38082095 original size:21 final size:22
Alignment explanation
Indices: 38082066--38082112 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
38082056 CAGAAGGAGT
*
38082066 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
38082088 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
38082109 GAGT
1 GAGT
38082113 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:38085305 original size:21 final size:22
Alignment explanation
Indices: 38085276--38085322 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
38085266 CAGAAGGAGT
*
38085276 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
38085298 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
38085319 GAGT
1 GAGT
38085323 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:38088546 original size:24 final size:21
Alignment explanation
Indices: 38088486--38088553 Score: 118
Period size: 21 Copynumber: 3.2 Consensus size: 21
38088476 CAGAAGGAGT
*
38088486 GAGTAGTACTTCGCAGCAGGTG
1 GAGT-GTACTCCGCAGCAGGTG
38088508 GAGTGTACTCCGCAGCAGGTG
1 GAGTGTACTCCGCAGCAGGTG
38088529 GAGTGTACTCCGCAGCAGGTG
1 GAGTGTACTCCGCAGCAGGTG
38088550 GAGT
1 GAGT
38088554 TTGAGTAGAG
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
21 41 0.91
22 4 0.09
ACGTcount: A:0.21, C:0.21, G:0.38, T:0.21
Consensus pattern (21 bp):
GAGTGTACTCCGCAGCAGGTG
Found at i:38091748 original size:21 final size:22
Alignment explanation
Indices: 38091719--38091765 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
38091709 CAGAAGGAGT
*
38091719 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
38091741 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
38091762 GAGT
1 GAGT
38091766 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:38092630 original size:15 final size:15
Alignment explanation
Indices: 38092610--38092639 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
38092600 GTCGCTTCCG
38092610 CAACATTATCATTAT
1 CAACATTATCATTAT
*
38092625 CAACATTATTATTAT
1 CAACATTATCATTAT
38092640 TATCGTTTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (15 bp):
CAACATTATCATTAT
Found at i:38096867 original size:41 final size:40
Alignment explanation
Indices: 38096755--38096867 Score: 106
Period size: 40 Copynumber: 2.8 Consensus size: 40
38096745 AACTATGATC
* *
38096755 GGCACTAAGTGTGCGATTTGAAATAGCTTTGGCTACAAAT
1 GGCACTAAGTGTGCGATTTGAGATAGCTTCGGCTACAAAT
* * * * *
38096795 GGCAATAAGTATGC-TTGTTG-GAATAGCTTCGGCTATATGA-
1 GGCACTAAGTGTGCGAT-TTGAG-ATAGCTTCGGCTACA-AAT
38096835 GGCACTAAGTGTGCGATATTGAGATAGCTTCGG
1 GGCACTAAGTGTGCGAT-TTGAGATAGCTTCGG
38096868 TTTATTGAAA
Statistics
Matches: 57, Mismatches: 11, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
39 1 0.02
40 40 0.70
41 15 0.26
42 1 0.02
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.30
Consensus pattern (40 bp):
GGCACTAAGTGTGCGATTTGAGATAGCTTCGGCTACAAAT
Found at i:38102209 original size:20 final size:20
Alignment explanation
Indices: 38102184--38102238 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
38102174 TGTGGTTCAA
*
38102184 CTCATTCGAGCTCAAGTTAG
1 CTCATTCGAGCTCAAGTCAG
*
38102204 CTCATTCGTGCTCAAGTCAG
1 CTCATTCGAGCTCAAGTCAG
*
38102224 CTCATTCAAGCTCAA
1 CTCATTCGAGCTCAA
38102239 TTTAACTCGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
CTCATTCGAGCTCAAGTCAG
Found at i:38104363 original size:12 final size:12
Alignment explanation
Indices: 38104348--38104392 Score: 54
Period size: 12 Copynumber: 3.5 Consensus size: 12
38104338 AAGAAATTCG
38104348 AAAAAAAATGAA
1 AAAAAAAATGAA
*
38104360 AAAAAAAAAGAA
1 AAAAAAAATGAA
38104372 AAAAAAGAAGTGACA
1 AAAAAA-AA-TGA-A
38104387 AAAAAA
1 AAAAAA
38104393 TTCGAGTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 17 0.61
13 2 0.07
14 2 0.07
15 7 0.25
ACGTcount: A:0.82, C:0.02, G:0.11, T:0.04
Consensus pattern (12 bp):
AAAAAAAATGAA
Found at i:38104421 original size:10 final size:10
Alignment explanation
Indices: 38104401--38104432 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
38104391 AATTCGAGTT
38104401 AAAAG-AAAA
1 AAAAGAAAAA
38104410 AAAAGAAAAA
1 AAAAGAAAAA
38104420 AAAAGAAAAA
1 AAAAGAAAAA
38104430 AAA
1 AAA
38104433 GTGAAAAGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 5 0.23
10 17 0.77
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:38104439 original size:10 final size:9
Alignment explanation
Indices: 38104401--38104433 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
38104391 AATTCGAGTT
38104401 AAAAGAAAA
1 AAAAGAAAA
38104410 AAAAGAAAAA
1 AAAAG-AAAA
38104420 AAAAGAAAA
1 AAAAGAAAA
38104429 AAAAG
1 AAAAG
38104434 TGAAAAGTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (9 bp):
AAAAGAAAA
Found at i:38107150 original size:20 final size:20
Alignment explanation
Indices: 38107125--38107179 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
38107115 TGTGGTTCAA
*
38107125 CTCATTCGAGCTCAAGTTAG
1 CTCATTCGAGCTCAAGTCAG
*
38107145 CTCATTCGTGCTCAAGTCAG
1 CTCATTCGAGCTCAAGTCAG
*
38107165 CTCATTCAAGCTCAA
1 CTCATTCGAGCTCAA
38107180 TTTAACTCGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
CTCATTCGAGCTCAAGTCAG
Found at i:38108390 original size:11 final size:11
Alignment explanation
Indices: 38108374--38108398 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
38108364 AATAGCTTGC
38108374 TTTGTATTCGT
1 TTTGTATTCGT
38108385 TTTGTATTCGT
1 TTTGTATTCGT
38108396 TTT
1 TTT
38108399 AAGGTTAGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.08, G:0.16, T:0.68
Consensus pattern (11 bp):
TTTGTATTCGT
Found at i:38109118 original size:50 final size:50
Alignment explanation
Indices: 38109064--38109209 Score: 141
Period size: 50 Copynumber: 2.9 Consensus size: 50
38109054 TTAATAAAGT
* *
38109064 CATGCATTATGTAACTATCATGTTAGTTTAGTTTGCATCATAAATTATGA
1 CATGCATTATGTAACTATCATGTTAGTTTAGTTTGCATCATAAATGAAGA
** * * *
38109114 CATGCATTATGTAACTCCCATGTTAGTTAAATTTTGCATCATTAAATGAAGT
1 CATGCATTATGTAACTATCATGTTAGTT-TAGTTTGCATCA-TAAATGAAGA
* * * * * *
38109166 CATGCAATAAGTAACTCAT-TTGTTCGTTTAGTTTACATCTTAAA
1 CATGCATTATGTAACT-ATCATGTTAGTTTAGTTTGCATCATAAA
38109210 CATGCATTTA
Statistics
Matches: 76, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
50 30 0.39
51 18 0.24
52 28 0.37
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.40
Consensus pattern (50 bp):
CATGCATTATGTAACTATCATGTTAGTTTAGTTTGCATCATAAATGAAGA
Found at i:38109180 original size:52 final size:51
Alignment explanation
Indices: 38109051--38109182 Score: 149
Period size: 50 Copynumber: 2.6 Consensus size: 51
38109041 AGGTGTTCTA
* ** *
38109051 CATTTAATAAAGTCATGCATTATGTAACTATCATGTTAGTTTAGTTTGCAT
1 CATTAAATAAAGTCATGCATTATGTAACTCCCATGTTAGTTAAGTTTGCAT
* * * *
38109102 CA-TAAATTATGACATGCATTATGTAACTCCCATGTTAGTTAAATTTTGCAT
1 CATTAAATAAAGTCATGCATTATGTAACTCCCATGTTAGTT-AAGTTTGCAT
* * *
38109153 CATTAAATGAAGTCATGCAATAAGTAACTC
1 CATTAAATAAAGTCATGCATTATGTAACTC
38109183 ATTTGTTCGT
Statistics
Matches: 66, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
50 32 0.48
51 12 0.18
52 22 0.33
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (51 bp):
CATTAAATAAAGTCATGCATTATGTAACTCCCATGTTAGTTAAGTTTGCAT
Found at i:38111461 original size:29 final size:29
Alignment explanation
Indices: 38111429--38111555 Score: 211
Period size: 29 Copynumber: 4.4 Consensus size: 29
38111419 TTCGGGCTGG
38111429 ATGGGCCATATGAACGTGATTTGGGCCTA
1 ATGGGCCATATGAACGTGATTTGGGCCTA
*
38111458 ATGGGCCATATAAACGTGATTTGGGCCTA
1 ATGGGCCATATGAACGTGATTTGGGCCTA
*
38111487 ATGGGCCATATGAACATGATTTGGGCCTA
1 ATGGGCCATATGAACGTGATTTGGGCCTA
*
38111516 ATGGGCCATATGAATGTGA-TTGGGCCTA
1 ATGGGCCATATGAACGTGATTTGGGCCTA
*
38111544 GTGGGCCATATG
1 ATGGGCCATATG
38111556 CATGTATGTA
Statistics
Matches: 92, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
28 20 0.22
29 72 0.78
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.28
Consensus pattern (29 bp):
ATGGGCCATATGAACGTGATTTGGGCCTA
Found at i:38115961 original size:38 final size:38
Alignment explanation
Indices: 38115864--38115966 Score: 143
Period size: 38 Copynumber: 2.7 Consensus size: 38
38115854 AGCTTAAAGA
** * *
38115864 CCCGCAGGCTTCGTGCTGGTAAAATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCAGGGATAAAT
*
38115902 CCCGCAGGCTTCGAGCTGGTATTATATCAGGGATAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCAGGGATAAAT
* *
38115940 CCCGCAGGCCTAGTGCTGGTATTATAT
1 CCCGCAGGCTTCGTGCTGGTATTATAT
38115967 TCGGGCCTTC
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 57 1.00
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.27
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTATTATATCAGGGATAAAT
Found at i:38116012 original size:43 final size:43
Alignment explanation
Indices: 38115964--38116290 Score: 528
Period size: 43 Copynumber: 7.6 Consensus size: 43
38115954 GCTGGTATTA
38115964 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* * * *
38116007 TATTCGGGCCTTCGTGCTTAGGAGGCTTCGTGTCGGAGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
38116050 TATTCGGGACTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
38116093 TATTCGGGCCTTCGTGCCTAGCAGGCTTCCTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
38116136 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCTGGTGATGTA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* * *
38116179 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGTCGGTGATGTA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* * *
38116222 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTACCGGTGACGTA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
38116265 TATTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
38116291 GTAATGCCGG
Statistics
Matches: 263, Mismatches: 21, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 263 1.00
ACGTcount: A:0.12, C:0.25, G:0.33, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:38121069 original size:39 final size:39
Alignment explanation
Indices: 38121026--38121151 Score: 171
Period size: 39 Copynumber: 3.2 Consensus size: 39
38121016 TTTAGTTATT
* * *
38121026 TTAGTTTGTGTCTTTAATTATGTCGTAGTTTGAACATCA
1 TTAGTATGAGTCTTTAATTATGTCATAGTTTGAACATCA
*
38121065 TTAGTATGAGTCATTAATTATGTCATAGTTTGAACATCA
1 TTAGTATGAGTCTTTAATTATGTCATAGTTTGAACATCA
* * *
38121104 TTAGCAATGAGTCTTTAATTAAGTCATAATTTGAACATCA
1 TTAG-TATGAGTCTTTAATTATGTCATAGTTTGAACATCA
*
38121144 TTAATATG
1 TTAGTATG
38121152 TGTTCTGCAT
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
39 42 0.55
40 34 0.45
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.43
Consensus pattern (39 bp):
TTAGTATGAGTCTTTAATTATGTCATAGTTTGAACATCA
Found at i:38121130 original size:40 final size:39
Alignment explanation
Indices: 38121035--38121146 Score: 170
Period size: 40 Copynumber: 2.8 Consensus size: 39
38121025 TTTAGTTTGT
* *
38121035 GTCTTTAATTATGTCGTAGTTTGAACATCATTAGTATGA
1 GTCTTTAATTATGTCATAGTTTGAACATCATTAGAATGA
*
38121074 GTCATTAATTATGTCATAGTTTGAACATCATTAGCAATGA
1 GTCTTTAATTATGTCATAGTTTGAACATCATTAG-AATGA
* *
38121114 GTCTTTAATTAAGTCATAATTTGAACATCATTA
1 GTCTTTAATTATGTCATAGTTTGAACATCATTA
38121147 ATATGTGTTC
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
39 32 0.48
40 34 0.52
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (39 bp):
GTCTTTAATTATGTCATAGTTTGAACATCATTAGAATGA
Found at i:38121230 original size:50 final size:52
Alignment explanation
Indices: 38121172--38121290 Score: 170
Period size: 50 Copynumber: 2.3 Consensus size: 52
38121162 TTAATAAAGT
* *
38121172 CATGCATTATGTAACTCTCATGTTAGTT-AAGTTTGCATCA-TAAATTATGA
1 CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTAAGA
* *
38121222 CATGCATTATTTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTAAGT
1 CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTAAGA
* *
38121274 CATGCAATAAGTAACTC
1 CATGCATTATGTAACTC
38121291 ATTTGTTCAT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 26 0.43
51 12 0.20
52 22 0.37
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.38
Consensus pattern (52 bp):
CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTAAGA
Found at i:38127397 original size:20 final size:20
Alignment explanation
Indices: 38127374--38127421 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
38127364 AGCTTTGTCC
38127374 AGCTCAACTCAGCTCATTTG
1 AGCTCAACTCAGCTCATTTG
***
38127394 AGCTCGTTTCAGCTCATTTG
1 AGCTCAACTCAGCTCATTTG
*
38127414 AACTCAAC
1 AGCTCAAC
38127422 CGAGCTTACT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (20 bp):
AGCTCAACTCAGCTCATTTG
Found at i:38128015 original size:85 final size:85
Alignment explanation
Indices: 38127886--38128054 Score: 329
Period size: 85 Copynumber: 2.0 Consensus size: 85
38127876 GGCATTTATA
*
38127886 GCATGTTCATGTACGGCCATATTCAAGCTCCCTTCTAGTTCATGCATGGCCGAATGTATGTGGGT
1 GCATGTTCATGTACGGCCAGATTCAAGCTCCCTTCTAGTTCATGCATGGCCGAATGTATGTGGGT
38127951 GAAATACATGAATTGTTTGT
66 GAAATACATGAATTGTTTGT
38127971 GCATGTTCATGTACGGCCAGATTCAAGCTCCCTTCTAGTTCATGCATGGCCGAATGTATGTGGGT
1 GCATGTTCATGTACGGCCAGATTCAAGCTCCCTTCTAGTTCATGCATGGCCGAATGTATGTGGGT
38128036 GAAATACATGAATTGTTTG
66 GAAATACATGAATTGTTTG
38128055 CTGTCCAAAT
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 83 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (85 bp):
GCATGTTCATGTACGGCCAGATTCAAGCTCCCTTCTAGTTCATGCATGGCCGAATGTATGTGGGT
GAAATACATGAATTGTTTGT
Found at i:38129977 original size:21 final size:21
Alignment explanation
Indices: 38129953--38130020 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
38129943 GATTTTGAAT
38129953 GAAATCGAGAGAAGAAACAAA
1 GAAATCGAGAGAAGAAACAAA
***** *
38129974 GAAAAT-GAGAGAATCTTGAAT
1 G-AAATCGAGAGAAGAAACAAA
*
38129995 GAAATCGAGAAAAGAAACAAA
1 GAAATCGAGAGAAGAAACAAA
38130016 GAAAT
1 GAAAT
38130021 TAAAGAAAAA
Statistics
Matches: 32, Mismatches: 13, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
20 4 0.12
21 24 0.75
22 4 0.12
ACGTcount: A:0.59, C:0.07, G:0.22, T:0.12
Consensus pattern (21 bp):
GAAATCGAGAGAAGAAACAAA
Found at i:38129993 original size:42 final size:42
Alignment explanation
Indices: 38129931--38130019 Score: 151
Period size: 42 Copynumber: 2.1 Consensus size: 42
38129921 AGATTATGAG
* * *
38129931 AGAAAATGAGAGGATTTTGAATGAAATCGAGAGAAGAAACAA
1 AGAAAATGAGAGAATCTTGAATGAAATCGAGAAAAGAAACAA
38129973 AGAAAATGAGAGAATCTTGAATGAAATCGAGAAAAGAAACAA
1 AGAAAATGAGAGAATCTTGAATGAAATCGAGAAAAGAAACAA
38130015 AGAAA
1 AGAAA
38130020 TTAAAGAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.56, C:0.06, G:0.24, T:0.15
Consensus pattern (42 bp):
AGAAAATGAGAGAATCTTGAATGAAATCGAGAAAAGAAACAA
Found at i:38130052 original size:16 final size:17
Alignment explanation
Indices: 38130031--38130078 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
38130021 TAAAGAAAAA
*
38130031 GAAAAAGAGAGTGAG-T
1 GAAAAAGAGAATGAGAT
*
38130047 GAAAAAGAAAATGAGATT
1 GAAAAAGAGAATGAGA-T
38130065 GAAAAAGAGAATGA
1 GAAAAAGAGAATGA
38130079 AAAAGAGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 13 0.48
18 14 0.52
ACGTcount: A:0.58, C:0.00, G:0.29, T:0.12
Consensus pattern (17 bp):
GAAAAAGAGAATGAGAT
Found at i:38130132 original size:18 final size:19
Alignment explanation
Indices: 38130096--38130134 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
38130086 TTTGAGAGAG
*
38130096 AAAAAGAATGTGAACAAGA
1 AAAAAGAATGTGAAAAAGA
*
38130115 AAAAAGAGTG-GAAAAAGA
1 AAAAAGAATGTGAAAAAGA
38130133 AA
1 AA
38130135 TTGAGATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.67, C:0.03, G:0.23, T:0.08
Consensus pattern (19 bp):
AAAAAGAATGTGAAAAAGA
Found at i:38136473 original size:22 final size:22
Alignment explanation
Indices: 38136445--38136487 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
38136435 TATACGCTTC
*
38136445 TCGAATTGTC-AGATCTGAATTG
1 TCGAATTATCAAGAT-TGAATTG
38136467 TCGAATTATCAAGATTGAATT
1 TCGAATTATCAAGATTGAATT
38136488 TCCATAAGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.37
Consensus pattern (22 bp):
TCGAATTATCAAGATTGAATTG
Found at i:38139003 original size:20 final size:20
Alignment explanation
Indices: 38138980--38139027 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
38138970 AGCTCTGTCC
38138980 AGCTCAACTCAGCTCATTTG
1 AGCTCAACTCAGCTCATTTG
*** *
38139000 AGCTCGTTTCAGCTCGTTTG
1 AGCTCAACTCAGCTCATTTG
*
38139020 AACTCAAC
1 AGCTCAAC
38139028 CGAGCTTACT
Statistics
Matches: 20, Mismatches: 8, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (20 bp):
AGCTCAACTCAGCTCATTTG
Found at i:38139764 original size:18 final size:20
Alignment explanation
Indices: 38139741--38139785 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
38139731 TTTCTAGAAG
38139741 GTTCATGT-CTTAAT-TTAA
1 GTTCATGTACTTAATATTAA
38139759 GTTCAT-TACTTAATCATTAA
1 GTTCATGTACTTAAT-ATTAA
38139779 GTTCATG
1 GTTCATG
38139786 AATGGACTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 1 0.04
18 12 0.52
20 10 0.43
ACGTcount: A:0.29, C:0.13, G:0.11, T:0.47
Consensus pattern (20 bp):
GTTCATGTACTTAATATTAA
Found at i:38140858 original size:10 final size:10
Alignment explanation
Indices: 38140843--38140869 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
38140833 TACTCCTTCA
38140843 AGCTCAAATC
1 AGCTCAAATC
38140853 AGCTCAAATC
1 AGCTCAAATC
38140863 AGCTCAA
1 AGCTCAA
38140870 CTTCAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.30, G:0.11, T:0.19
Consensus pattern (10 bp):
AGCTCAAATC
Found at i:38141375 original size:42 final size:42
Alignment explanation
Indices: 38141316--38141421 Score: 203
Period size: 42 Copynumber: 2.5 Consensus size: 42
38141306 CATTTAAGCC
38141316 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
1 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
38141358 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
1 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
38141400 TCTTAGTTTAAATAAATGAGTT
1 TCTTAGTTT-AATAAATGAGTT
38141422 TATTTAATGA
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 51 0.81
43 12 0.19
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (42 bp):
TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
Found at i:38142116 original size:29 final size:29
Alignment explanation
Indices: 38142083--38142142 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
38142073 ATAACCAAAC
*
38142083 CTACAAAAACTTTATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
38142112 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
38142141 CT
1 CT
38142143 TTGAATCCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:38142135 original size:15 final size:15
Alignment explanation
Indices: 38142089--38142136 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
38142079 AAACCTACAA
*
38142089 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
38142104 AAAC-CCATCTACAT
1 AAACTTCATATCCAT
38142118 AAACTTCATATCCAT
1 AAACTTCATATCCAT
38142133 AAAC
1 AAAC
38142137 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:38149354 original size:22 final size:22
Alignment explanation
Indices: 38149326--38149369 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
38149316 TTTTGAACCA
*
38149326 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCATACCAAATCCC
*
38149348 TTACCATTTCATACCAATTCCC
1 TTACCATTTCATACCAAATCCC
38149370 AAATACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.27, C:0.36, G:0.02, T:0.34
Consensus pattern (22 bp):
TTACCATTTCATACCAAATCCC
Found at i:38151534 original size:30 final size:30
Alignment explanation
Indices: 38151500--38151596 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
38151490 TAAACTAAAA
*
38151500 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAACTCGTGAGCTAAAGT
* * * * *
38151530 TGAGCTGAGGC-TAAACTCTTAAGCTGAAGT
1 TGAGCT-AAGCTTTAACTCGTGAGCTAAAGT
* * *
38151560 TGAGCTAAGGTTTACCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAACTCGTGAGCT-AAAGT
38151590 TGAGCTA
1 TGAGCTA
38151597 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGCTTTAACTCGTGAGCTAAAGT
Found at i:38155108 original size:19 final size:19
Alignment explanation
Indices: 38155084--38155123 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
38155074 AGCTCCCATG
38155084 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
38155103 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
38155122 TA
1 TA
38155124 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:38156387 original size:14 final size:14
Alignment explanation
Indices: 38156365--38156412 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
38156355 ACCTAAACCG
* *
38156365 ACCAATTTGTTCAT
1 ACCATTTTGTTCCT
38156379 ACCATTTTGTTCCT
1 ACCATTTTGTTCCT
* *
38156393 ACCCTTTCGTTCCT
1 ACCATTTTGTTCCT
38156407 ACCATT
1 ACCATT
38156413 CCATTCGTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.19, C:0.31, G:0.06, T:0.44
Consensus pattern (14 bp):
ACCATTTTGTTCCT
Found at i:38158194 original size:27 final size:27
Alignment explanation
Indices: 38158163--38158340 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
38158153 TAAATTGTAC
38158163 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
38158190 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
38158216 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
38158244 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
38158272 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
38158299 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
38158326 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
38158341 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:38158277 original size:82 final size:81
Alignment explanation
Indices: 38158164--38158319 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
38158154 AAATTGTACA
* *
38158164 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
38158228 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
38158245 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
38158310 TGCGAGTTGA
65 TGCGAATTGA
38158320 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:38158331 original size:82 final size:81
Alignment explanation
Indices: 38158160--38158340 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
38158150 GATTAAATTG
* *
38158160 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
38158225 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
38158241 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
38158305 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
38158323 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
38158341 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:38159522 original size:64 final size:64
Alignment explanation
Indices: 38159421--38159550 Score: 224
Period size: 64 Copynumber: 2.0 Consensus size: 64
38159411 CAGTGTAGTC
* * *
38159421 GACCCCTGCAACATGGGAGATTTTTACTAATAAACTGTACTAATTGGCCCAACTAAAAATTCTA
1 GACCCCTGCAACATGGGAGAATTTGACTAATAAACTGTACTAATTGGCCCAACCAAAAATTCTA
*
38159485 GACCCCTGCAACATGGGAGAATTTGACTAATAAACTGTACTAATTGGCCCGACCAAAAATTCTA
1 GACCCCTGCAACATGGGAGAATTTGACTAATAAACTGTACTAATTGGCCCAACCAAAAATTCTA
38159549 GA
1 GA
38159551 AAAAAATACA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.25
Consensus pattern (64 bp):
GACCCCTGCAACATGGGAGAATTTGACTAATAAACTGTACTAATTGGCCCAACCAAAAATTCTA
Found at i:38174108 original size:10 final size:10
Alignment explanation
Indices: 38174081--38174114 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
38174071 ATTTGGAGAC
38174081 TTTAAAATCA
1 TTTAAAATCA
38174091 TATTAAAATCA
1 T-TTAAAATCA
*
38174102 TTTAAAAACA
1 TTTAAAATCA
38174112 TTT
1 TTT
38174115 TTCAGATGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (10 bp):
TTTAAAATCA
Done.