Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 139 of 322
Found at i:45526831 original size:30 final size:30
Alignment explanation
Indices: 45526790--45526846 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
45526780 TTTTAGGAGC
* *
45526790 CACACAGGCTAGGCACATGCCCATGTGACT
1 CACACAAGCTAGACACATGCCCATGTGACT
*
45526820 CACACAAGCTAGACACATGCCTATGTG
1 CACACAAGCTAGACACATGCCCATGTG
45526847 CCAGCCCATG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.30, C:0.32, G:0.21, T:0.18
Consensus pattern (30 bp):
CACACAAGCTAGACACATGCCCATGTGACT
Found at i:45529469 original size:30 final size:30
Alignment explanation
Indices: 45529429--45529486 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
45529419 ATCTTATGAG
* *
45529429 CCACATGGGCTGGGAACATGCCCATGTGAC
1 CCACACGGGCTGGGAACATACCCATGTGAC
* *
45529459 CCACACGGGCTGGGCACATATCCATGTG
1 CCACACGGGCTGGGAACATACCCATGTG
45529487 CCAGCCCTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.22, C:0.31, G:0.29, T:0.17
Consensus pattern (30 bp):
CCACACGGGCTGGGAACATACCCATGTGAC
Found at i:45563844 original size:39 final size:39
Alignment explanation
Indices: 45563773--45563994 Score: 292
Period size: 39 Copynumber: 5.6 Consensus size: 39
45563763 GCTACTCGTT
* * *
45563773 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCA
45563813 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
45563852 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
45563891 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
45563930 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCA
45563971 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
45563995 CATCATTCAA
Statistics
Matches: 168, Mismatches: 8, Indels: 13
0.89 0.04 0.07
Matches are distributed among these distances:
39 129 0.77
40 30 0.18
41 9 0.05
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:45571804 original size:40 final size:39
Alignment explanation
Indices: 45571767--45571858 Score: 132
Period size: 39 Copynumber: 2.3 Consensus size: 39
45571757 GCTACTCGTT
*
45571767 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGAAT-TAGTAACTCGCA
* *
45571807 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
45571846 CAAATGCCTTCGG
1 CAAATGCCTTCGG
45571859 ATCTTAGTCC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 33 0.69
40 15 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
Found at i:45571838 original size:39 final size:40
Alignment explanation
Indices: 45571748--45571911 Score: 176
Period size: 40 Copynumber: 4.1 Consensus size: 40
45571738 CGGAATTTAA
** *
45571748 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
45571788 CCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
45571827 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
45571867 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
45571907 CCGGA
1 CCGGA
45571912 CATCATTCAA
Statistics
Matches: 105, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
38 3 0.03
39 32 0.30
40 58 0.55
41 12 0.11
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:45592483 original size:16 final size:16
Alignment explanation
Indices: 45592464--45592496 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
45592454 CAGAAAATCA
45592464 CGAAATGCCAAAAAGC
1 CGAAATGCCAAAAAGC
*
45592480 CGAAATGCCTAAAAGC
1 CGAAATGCCAAAAAGC
45592496 C
1 C
45592497 AGAAGTTTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.27, G:0.18, T:0.09
Consensus pattern (16 bp):
CGAAATGCCAAAAAGC
Found at i:45592771 original size:29 final size:28
Alignment explanation
Indices: 45592713--45592806 Score: 116
Period size: 28 Copynumber: 3.3 Consensus size: 28
45592703 ATTGCATGAC
** *
45592713 TATGAATGTGATTGCACCTAATGGGTCA
1 TATGAATGTGATTGGGCCTAATGGGCCA
45592741 TATGAATGTGATTTGGGCCTAATGGGCCA
1 TATGAATGTGA-TTGGGCCTAATGGGCCA
* * *
45592770 TATGAAAGAGATTGGGCCTAGTGGGCCA
1 TATGAATGTGATTGGGCCTAATGGGCCA
*
45592798 TATGCATGT
1 TATGAATGT
45592807 ATAACGACTT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
28 33 0.59
29 23 0.41
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.30
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTAATGGGCCA
Found at i:45592888 original size:4 final size:4
Alignment explanation
Indices: 45592879--45592903 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
45592869 GGCATAAAAC
45592879 TTAA TTAA TTAA TTAA TTAA TTAA T
1 TTAA TTAA TTAA TTAA TTAA TTAA T
45592904 CACGATCGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:45597066 original size:16 final size:16
Alignment explanation
Indices: 45597045--45597075 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45597035 TAGCAAATCG
45597045 CGAAATGCCAAAAAGT
1 CGAAATGCCAAAAAGT
*
45597061 CGAAATGCCGAAAAG
1 CGAAATGCCAAAAAG
45597076 CCGGAAGTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.19, G:0.23, T:0.10
Consensus pattern (16 bp):
CGAAATGCCAAAAAGT
Found at i:45597346 original size:29 final size:28
Alignment explanation
Indices: 45597299--45597388 Score: 108
Period size: 28 Copynumber: 3.2 Consensus size: 28
45597289 CATGACTATA
** *
45597299 AATGTGATTGGGCAAAATGGGCGATATG
1 AATGTGATTGGGCCTAATGGGCCATATG
*
45597327 AATGTGATTTGGGCCTAATGGGCTATATG
1 AATGTGA-TTGGGCCTAATGGGCCATATG
* *
45597356 AAAGAGATTGGGCCTAATGGGCCATATG
1 AATGTGATTGGGCCTAATGGGCCATATG
*
45597384 CATGT
1 AATGT
45597389 ATGTAGACTT
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
28 29 0.56
29 23 0.44
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (28 bp):
AATGTGATTGGGCCTAATGGGCCATATG
Found at i:45597375 original size:28 final size:28
Alignment explanation
Indices: 45597304--45597383 Score: 97
Period size: 29 Copynumber: 2.8 Consensus size: 28
45597294 CTATAAATGT
** * * *
45597304 GATTGGGCAAAATGGGCGATATGAATGT
1 GATTGGGCCTAATGGGCCATATGAAAGA
*
45597332 GATTTGGGCCTAATGGGCTATATGAAAGA
1 GA-TTGGGCCTAATGGGCCATATGAAAGA
45597361 GATTGGGCCTAATGGGCCATATG
1 GATTGGGCCTAATGGGCCATATG
45597384 CATGTATGTA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 22 0.49
29 23 0.51
ACGTcount: A:0.29, C:0.11, G:0.34, T:0.26
Consensus pattern (28 bp):
GATTGGGCCTAATGGGCCATATGAAAGA
Found at i:45609849 original size:44 final size:43
Alignment explanation
Indices: 45609778--45609860 Score: 112
Period size: 44 Copynumber: 1.9 Consensus size: 43
45609768 GATTCTAATA
* *
45609778 TGTGTTTTCGTGTAAGACCACATCTGGGACGTTGGCATCAATT
1 TGTGTTTACGTGTAAGACCACATCTGGGACATTGGCATCAATT
** *
45609821 TGTGATTTACGTGTAAGACCATGTCTGGGACATTGTCATC
1 TGTG-TTTACGTGTAAGACCACATCTGGGACATTGGCATC
45609861 GTATTCGATT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
43 4 0.12
44 30 0.88
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (43 bp):
TGTGTTTACGTGTAAGACCACATCTGGGACATTGGCATCAATT
Found at i:45613723 original size:23 final size:21
Alignment explanation
Indices: 45613687--45613739 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 21
45613677 GTGTAAGCTG
45613687 ATAATAATATACAAATGTAATA
1 ATAATAATATACAAATGTAA-A
*
45613709 ATAATATATATACAATTGTAAA
1 ATAATA-ATATACAAATGTAAA
45613731 ATAAATAAT
1 AT-AATAAT
45613740 TAATTACTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 11 0.39
23 17 0.61
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (21 bp):
ATAATAATATACAAATGTAAA
Found at i:45614290 original size:18 final size:17
Alignment explanation
Indices: 45614228--45614388 Score: 223
Period size: 18 Copynumber: 9.1 Consensus size: 17
45614218 CTTCAATGAT
*
45614228 ATGCAATCTTAGATGTG
1 ATGCAATCTTAGATATG
*
45614245 ATATGCAATCTTTGATATG
1 --ATGCAATCTTAGATATG
*
45614264 ATACAATCTTAGATATG
1 ATGCAATCTTAGATATG
45614281 ATGGCAATCTTAGATATG
1 AT-GCAATCTTAGATATG
45614299 ATAGCAATCTTAGATATG
1 AT-GCAATCTTAGATATG
*
45614317 ATACAATCTTAGATATG
1 ATGCAATCTTAGATATG
45614334 ATTGCAATCTTAGATATG
1 A-TGCAATCTTAGATATG
*
45614352 ATACAATCTTAGATATG
1 ATGCAATCTTAGATATG
45614369 ATTGCAATCTTAGATATG
1 A-TGCAATCTTAGATATG
45614387 AT
1 AT
45614389 ATACAATCTT
Statistics
Matches: 129, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
17 49 0.38
18 65 0.50
19 15 0.12
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.37
Consensus pattern (17 bp):
ATGCAATCTTAGATATG
Found at i:45614297 original size:35 final size:35
Alignment explanation
Indices: 45614231--45614401 Score: 229
Period size: 35 Copynumber: 4.8 Consensus size: 35
45614221 CAATGATATG
* *
45614231 CAATCTTAGATGTGATATGCAATCTTTGATATGA-TA
1 CAATCTTAGATATGATA--CAATCTTAGATATGATTA
*
45614267 CAATCTTAGATATGATGGCAATCTTAGATATGA-TA
1 CAATCTTAGATATGAT-ACAATCTTAGATATGATTA
*
45614302 GCAATCTTAGATATGATACAATCTTAGATATGATTG
1 -CAATCTTAGATATGATACAATCTTAGATATGATTA
*
45614338 CAATCTTAGATATGATACAATCTTAGATATGATTG
1 CAATCTTAGATATGATACAATCTTAGATATGATTA
45614373 CAATCTTAGATATGATATACAATCTTAGA
1 CAATCTTAGATATG--ATACAATCTTAGA
45614402 AGATATGATT
Statistics
Matches: 125, Mismatches: 5, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
35 80 0.64
36 32 0.26
37 13 0.10
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (35 bp):
CAATCTTAGATATGATACAATCTTAGATATGATTA
Found at i:45614315 original size:53 final size:53
Alignment explanation
Indices: 45614230--45614388 Score: 257
Period size: 53 Copynumber: 3.0 Consensus size: 53
45614220 TCAATGATAT
* *
45614230 GCAATCTTAGATGTGATATGCAATCTTTGATATGATACAATCTTAGATATGATG
1 GCAATCTTAGATATGATA-GCAATCTTAGATATGATACAATCTTAGATATGATG
*
45614284 GCAATCTTAGATATGATAGCAATCTTAGATATGATACAATCTTAGATATGATT
1 GCAATCTTAGATATGATAGCAATCTTAGATATGATACAATCTTAGATATGATG
*
45614337 GCAATCTTAGATATGATA-CAATCTTAGATATGATTGCAATCTTAGATATGAT
1 GCAATCTTAGATATGATAGCAATCTTAGATATGA-TACAATCTTAGATATGAT
45614389 ATACAATCTT
Statistics
Matches: 100, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
52 15 0.15
53 68 0.68
54 17 0.17
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.36
Consensus pattern (53 bp):
GCAATCTTAGATATGATAGCAATCTTAGATATGATACAATCTTAGATATGATG
Found at i:45614741 original size:25 final size:26
Alignment explanation
Indices: 45614694--45614742 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
45614684 TCTCTCCTTG
** *
45614694 ATTTTTTTAATTCTCTTTTATATTTT
1 ATTTTTTTAATAATCTTTAATATTTT
45614720 ATTTTTTTAATAAT-TTTAATATT
1 ATTTTTTTAATAATCTTTAATATT
45614743 ATATCAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 8 0.40
26 12 0.60
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (26 bp):
ATTTTTTTAATAATCTTTAATATTTT
Found at i:45623675 original size:29 final size:27
Alignment explanation
Indices: 45623657--45623726 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
45623647 ATATTAAGTC
45623657 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
45623684 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
45623712 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
45623727 GTACAATTTA
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:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:45623720 original size:28 final size:28
Alignment explanation
Indices: 45623657--45623754 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
45623647 ATATTAAGTC
*
45623657 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
45623684 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
45623712 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
45623741 CGCACACTTAGTGC
1 CGCACACTTAGTGC
45623755 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:45625002 original size:57 final size:57
Alignment explanation
Indices: 45624927--45625040 Score: 219
Period size: 57 Copynumber: 2.0 Consensus size: 57
45624917 CTTTCCTTTG
*
45624927 AACTAGCCATGGCCGAATGCCTTGGTTTCTTTTTTTCAATCTTTCCTTTCTCAATTT
1 AACTAGCCATGGCCGAATGCCTTGGTTTCTTTTTTTCAATCTTTCATTTCTCAATTT
45624984 AACTAGCCATGGCCGAATGCCTTGGTTTCTTTTTTTCAATCTTTCATTTCTCAATTT
1 AACTAGCCATGGCCGAATGCCTTGGTTTCTTTTTTTCAATCTTTCATTTCTCAATTT
45625041 CGGCAATGAA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.18, C:0.24, G:0.12, T:0.46
Consensus pattern (57 bp):
AACTAGCCATGGCCGAATGCCTTGGTTTCTTTTTTTCAATCTTTCATTTCTCAATTT
Found at i:45646529 original size:40 final size:40
Alignment explanation
Indices: 45646452--45646629 Score: 288
Period size: 40 Copynumber: 4.5 Consensus size: 40
45646442 AACCCAAGTA
* *
45646452 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
45646491 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
45646531 CCTTCGGGACTTAGCCCGGATATCGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
45646571 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
45646611 CCTTCTGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
45646630 TTATCATCCG
Statistics
Matches: 130, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 14 0.11
40 116 0.89
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:45647958 original size:37 final size:37
Alignment explanation
Indices: 45647900--45648081 Score: 319
Period size: 37 Copynumber: 4.9 Consensus size: 37
45647890 GCTCAGACGA
* * * *
45647900 AATCTCCACATGAAGTTATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
45647937 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
45647974 AATCTCCACACGTAGTCACCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
45648011 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
45648048 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
45648082 ATATATTTCC
Statistics
Matches: 139, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 139 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:45648294 original size:46 final size:43
Alignment explanation
Indices: 45648241--45648443 Score: 157
Period size: 46 Copynumber: 4.6 Consensus size: 43
45648231 CGTACATATC
* *
45648241 TCACATTAGCCATTTGGCTTTACCACATATCCATCTCATACACGTT
1 TCACATTAGCCATTCGGCCTTACCACATAT--AT-TCATACACGTT
* * *
45648287 TCGCATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATT
1 TCACATTAGCCATTCGGCCTTACCACATATATTCA--TACACGTT
* * * *
45648332 CATCACATTGGCCATTCGGCCTTATCTCATATATGCAT----G-T
1 --TCACATTAGCCATTCGGCCTTACCACATATATTCATACACGTT
* *
45648372 T-ACATTAGCCATTTGGCTTTACCACATATCCATCTCATACACGTT
1 TCACATTAGCCATTCGGCCTTACCACATAT--AT-TCATACACGTT
* *
45648417 TCGCATTAGCCATTCGGCCTTATCACA
1 TCACATTAGCCATTCGGCCTTACCACA
45648444 CATACGCATG
Statistics
Matches: 123, Mismatches: 21, Indels: 26
0.72 0.12 0.15
Matches are distributed among these distances:
37 23 0.19
38 1 0.01
39 2 0.02
40 4 0.03
43 3 0.02
44 3 0.02
45 9 0.07
46 48 0.39
47 30 0.24
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (43 bp):
TCACATTAGCCATTCGGCCTTACCACATATATTCATACACGTT
Found at i:45648352 original size:47 final size:47
Alignment explanation
Indices: 45648290--45648763 Score: 447
Period size: 47 Copynumber: 10.1 Consensus size: 47
45648280 ACACGTTTCG
* * * **
45648290 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
45648337 CATTGGCCATTCGGCCTTATCTCATATATGCATGTT-ACA-T--T--
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * * * *
45648378 -A---GCCATTTGGCTTTA-C-CACATATC-CATCTCATACACGTT--TCG
1 CATTGGCCATTCGGCCTTATCACACATA-CGCATGT--T-CACATTCATCA
*
45648420 CATTAGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ** * *
45648467 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTCCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ACATACGCATGTTCACATTCATCA
45648520 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
45648567 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* *
45648614 CATTGGCCATTTGGCCTTATCACACATACACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ** * *
45648661 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ACATACGCATGTTCACATTCATCA
*
45648714 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
45648761 CAT
1 CAT
45648764 AAAATCCTAA
Statistics
Matches: 357, Mismatches: 41, Indels: 58
0.78 0.09 0.13
Matches are distributed among these distances:
35 9 0.03
36 1 0.00
37 13 0.04
39 2 0.01
40 3 0.01
43 2 0.01
45 6 0.02
46 16 0.04
47 208 0.58
48 10 0.03
49 2 0.01
51 2 0.01
53 83 0.23
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:45648476 original size:130 final size:130
Alignment explanation
Indices: 45648243--45648487 Score: 454
Period size: 130 Copynumber: 1.9 Consensus size: 130
45648233 TACATATCTC
45648243 ACATTAGCCATTTGGCTTTACCACATATCCATCTCATACACGTTTCGCATTAGCCATTCGGCCTT
1 ACATTAGCCATTTGGCTTTACCACATATCCATCTCATACACGTTTCGCATTAGCCATTCGGCCTT
* **
45648308 ACCACATATATTCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
66 ACCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
45648373 ACATTAGCCATTTGGCTTTACCACATATCCATCTCATACACGTTTCGCATTAGCCATTCGGCCTT
1 ACATTAGCCATTTGGCTTTACCACATATCCATCTCATACACGTTTCGCATTAGCCATTCGGCCTT
*
45648438 ATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATC
66 ACCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATC
45648488 ACGCATATAT
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
130 111 1.00
ACGTcount: A:0.24, C:0.30, G:0.12, T:0.34
Consensus pattern (130 bp):
ACATTAGCCATTTGGCTTTACCACATATCCATCTCATACACGTTTCGCATTAGCCATTCGGCCTT
ACCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
Found at i:45648547 original size:100 final size:100
Alignment explanation
Indices: 45648420--45648763 Score: 547
Period size: 100 Copynumber: 3.5 Consensus size: 100
45648410 ACACGTTTCG
*
45648420 CATTAGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
*
45648485 ATCACGCATATATATATACAGGTCCACATTCATCA
66 ATCACGCATATATATATACAGGTTCACATTCATCA
45648520 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
* ** * *
45648585 ATCA--C----ACATACGCATGTTCACATCCATCA
66 ATCACGCATATATATATACAGGTTCACATTCATCA
* *
45648614 CATTGGCCATTTGGCCTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
*
45648679 ATCACGCATATATATATACAGGTTCACGTTCATCA
66 ATCACGCATATATATATACAGGTTCACATTCATCA
*
45648714 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACAT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACAT
45648764 AAAATCCTAA
Statistics
Matches: 220, Mismatches: 18, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
94 85 0.39
96 1 0.00
98 1 0.00
100 133 0.60
ACGTcount: A:0.27, C:0.31, G:0.12, T:0.30
Consensus pattern (100 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCACGCATATATATATACAGGTTCACATTCATCA
Found at i:45648795 original size:147 final size:138
Alignment explanation
Indices: 45648420--45648779 Score: 348
Period size: 147 Copynumber: 2.5 Consensus size: 138
45648410 ACACGTTTCG
* * ** * *
45648420 CATTAGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACATT-GAAAAT--GCCTA
* * * *
45648485 ATCACGCATATATATATACAGGTCCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
63 ATCA---A-ACATA-A-ACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACA
*
45648550 CATGTTCACATTCATCA
122 CAGGTTCACATTCATCA
* ** *
45648567 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACATTGGCCATTTGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACATT-G-AAAAT-GCCTA
* * * *
45648632 ATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACGCATATATATATA
63 ATCAAACATAAACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCA--C----ACATACA
*
45648697 CAGGTTCACGTTCATCA
122 CAGGTTCACATTCATCA
45648714 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACA-T-AAAAT-CCTAAAT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACATTGAAAATGCCT-AAT
45648776 CAAA
65 CAAA
45648780 ATATAAATTT
Statistics
Matches: 186, Mismatches: 19, Indels: 21
0.82 0.08 0.09
Matches are distributed among these distances:
141 41 0.22
142 5 0.03
143 7 0.04
146 1 0.01
147 129 0.69
148 3 0.02
ACGTcount: A:0.28, C:0.30, G:0.12, T:0.29
Consensus pattern (138 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACATTGAAAATGCCTAATC
AAACATAAACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACAGGTTCAC
ATTCATCA
Found at i:45655705 original size:40 final size:40
Alignment explanation
Indices: 45655605--45655776 Score: 204
Period size: 40 Copynumber: 4.3 Consensus size: 40
45655595 GCTCCTCGTT
* * * *
45655605 CAAATGCCTTCGGGACATAGCCCAGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
45655645 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
45655684 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
45655724 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
45655764 CAAATGCCTTCGG
1 CAAATGCCTTCGG
45655777 ATCTTAGTCC
Statistics
Matches: 116, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 33 0.28
40 79 0.68
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:45655789 original size:80 final size:80
Alignment explanation
Indices: 45655605--45655829 Score: 199
Period size: 80 Copynumber: 2.8 Consensus size: 80
45655595 GCTCCTCGTT
* * * * * * * * *
45655605 CAAATGCCTTCGGGACATAGCCCAGTTTTAGTAACTCA-CACAATGCCTTCGGGACATAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGG
** *
45655669 -ATTTAACAACTCGCA
66 AATTT-GTATCTCGCA
* * * *
45655684 CGAATGCCTTCGGGACTTAACCCGGATTTAGT-A-TCTCGCACAAAGGCCTTCGGGGCTTAACCC
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTCACT-TAGCACAAA-GCCTTCGGGACTTAACCC
45655747 GGAATTTGTATCTCGCA
64 GGAATTTGTATCTCGCA
** * *
45655764 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCG
45655828 GA
65 GA
45655830 CAGCATTCAA
Statistics
Matches: 118, Mismatches: 21, Indels: 13
0.78 0.14 0.09
Matches are distributed among these distances:
77 1 0.01
78 1 0.01
79 35 0.30
80 67 0.57
81 13 0.11
82 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGG
AATTTGTATCTCGCA
Found at i:45655838 original size:41 final size:41
Alignment explanation
Indices: 45655761--45655838 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
45655751 TTTGTATCTC
* * *
45655761 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
45655802 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
45655839 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:45662095 original size:180 final size:180
Alignment explanation
Indices: 45661880--45662239 Score: 621
Period size: 180 Copynumber: 2.0 Consensus size: 180
45661870 TAATTATCTC
*
45661880 TGGTCAATTTATAGTGAATTTCCAAAGGCGGAACAGGGAATCCAGAAACTGTTCTGGCCCTGTTC
1 TGGTCAATTTATAGTGAATTTCCAAAGGCGGAACAGGGAATCCAGAAACTGTTCTGGCCCTGTCC
*
45661945 CACAAGAACCCGAATATCTCTTACTGTACTGTCCATATGATTGTTTCGTTACTTTCCTATGAAAG
66 CACAAGAACCCGAATATCTCTTACTGTACTGTCCATATGATTGTTTCGTTACTTTCATATGAAAG
* * * *
45662010 TAGGTTCTTCAAGGTTTGTTTACATAATTTATTCACTATTTAATTCCACT
131 TAGATTCATCAAGGTTCGATTACATAATTTATTCACTATTTAATTCCACT
* *
45662060 TGGTCAATTTATAGTGAATTTCCAAAGTCGGAACAGGGAATCCAGAAACTGTTCTGGCTCTGTCC
1 TGGTCAATTTATAGTGAATTTCCAAAGGCGGAACAGGGAATCCAGAAACTGTTCTGGCCCTGTCC
* * *
45662125 CACAAGGACCTGAATATCTCTTACTGTACTGTTCATATGATTGTTTCGTTACTTTCATATGAAAG
66 CACAAGAACCCGAATATCTCTTACTGTACTGTCCATATGATTGTTTCGTTACTTTCATATGAAAG
45662190 TAGATTCATCAAGGTTCGATTACATAATTTATTCACTATTTAATTCCACT
131 TAGATTCATCAAGGTTCGATTACATAATTTATTCACTATTTAATTCCACT
45662240 CCTACGAATT
Statistics
Matches: 169, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
180 169 1.00
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.36
Consensus pattern (180 bp):
TGGTCAATTTATAGTGAATTTCCAAAGGCGGAACAGGGAATCCAGAAACTGTTCTGGCCCTGTCC
CACAAGAACCCGAATATCTCTTACTGTACTGTCCATATGATTGTTTCGTTACTTTCATATGAAAG
TAGATTCATCAAGGTTCGATTACATAATTTATTCACTATTTAATTCCACT
Found at i:45663095 original size:39 final size:40
Alignment explanation
Indices: 45663050--45663221 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
45663040 GCTCCTCGTT
* * *
45663050 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
45663090 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
45663129 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
45663169 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
45663209 CAAATGCCTTCGG
1 CAAATGCCTTCGG
45663222 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:45663150 original size:40 final size:39
Alignment explanation
Indices: 45663052--45663274 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
45663042 TCCTCGTTCA
* * * *
45663052 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
45663091 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
45663130 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
45663170 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
45663210 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
45663251 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
45663275 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:45663234 original size:80 final size:79
Alignment explanation
Indices: 45663050--45663274 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
45663040 GCTCCTCGTT
* * * * *
45663050 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
45663114 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
45663129 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
45663194 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
45663209 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
45663273 GA
63 GA
45663275 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:45663283 original size:41 final size:41
Alignment explanation
Indices: 45663206--45663283 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
45663196 TTTGTATCTC
* * *
45663206 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
45663247 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
45663284 ATTTATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:45669126 original size:40 final size:40
Alignment explanation
Indices: 45669071--45669167 Score: 133
Period size: 40 Copynumber: 2.4 Consensus size: 40
45669061 TAAGTCGGTA
* * *
45669071 TCGCACTCTTGGTGCC-TTATATAGCCGAAGCTATTCCAAC
1 TCGCACACTTAGTGCCATT-TATAGCCAAAGCTATTCCAAC
* *
45669111 TCGCACACTTAGTGCCATTTGTAGCCAAAGCTATTCTAAC
1 TCGCACACTTAGTGCCATTTATAGCCAAAGCTATTCCAAC
45669151 TCGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
45669168 AGCATAGTCG
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
40 49 0.96
41 2 0.04
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (40 bp):
TCGCACACTTAGTGCCATTTATAGCCAAAGCTATTCCAAC
Found at i:45680085 original size:27 final size:27
Alignment explanation
Indices: 45679995--45680196 Score: 142
Period size: 27 Copynumber: 7.4 Consensus size: 27
45679985 ACAAAGGTGA
* * * *
45679995 TTTGGTAAATCTACAAACCAAGGGTAT
1 TTTGGTAATTTTACAAATCAGGGGTAT
* * *
45680022 TTCT-ATAATTTTTAGAAAGTCAAGGGTAT
1 TT-TGGTAA-TTTTACAAA-TCAGGGGTAT
**
45680051 TTCT-GTAATTTTGTAAATCAGGGGTAT
1 TT-TGGTAATTTTACAAATCAGGGGTAT
* *
45680078 TTTGGTAATTTTACAAATTAAGGGTAT
1 TTTGGTAATTTTACAAATCAGGGGTAT
** * * *
45680105 TTCAGTAATTTCACAAACCAGTGGTAT
1 TTTGGTAATTTTACAAATCAGGGGTAT
45680132 TTTGGTAATTTTACAAA-CTAGGGGTAT
1 TTTGGTAATTTTACAAATC-AGGGGTAT
* **
45680159 TTTGGTAATTCTACCCTAT-AGGGGTAT
1 TTTGGTAATTTTA-CAAATCAGGGGTAT
*
45680186 TTTAGTAATTT
1 TTTGGTAATTT
45680197 CATAATCGAG
Statistics
Matches: 139, Mismatches: 29, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
26 2 0.01
27 105 0.76
28 16 0.12
29 16 0.12
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.41
Consensus pattern (27 bp):
TTTGGTAATTTTACAAATCAGGGGTAT
Found at i:45680196 original size:54 final size:54
Alignment explanation
Indices: 45680007--45680160 Score: 166
Period size: 54 Copynumber: 2.8 Consensus size: 54
45679997 TGGTAAATCT
* * * * * *
45680007 ACAAACCAAGGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTGTAATTTT
1 ACAAACCAGGGGTATTT-TGGTAA-TTTTACAAACT-AAGGGTATTTCAGTAATTTC
** * *
45680063 GTAAATCAGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCAGTAATTTC
1 ACAAACCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTC
* *
45680117 ACAAACCAGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTT
1 ACAAACCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTT
45680161 TGGTAATTCT
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 56 0.68
55 10 0.12
56 16 0.20
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (54 bp):
ACAAACCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTC
Found at i:45680219 original size:26 final size:27
Alignment explanation
Indices: 45680189--45680291 Score: 113
Period size: 27 Copynumber: 3.9 Consensus size: 27
45680179 GGGGTATTTT
*
45680189 AGTAATTTCAT-AATCGAGGGTAAAAT
1 AGTAATTTCATAAATCGAGGGTAAAAC
* **
45680215 GGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTTCATAAATCGAGGGTAAAAC
*
45680242 AGTAA-TTCTATAAATCAAGGGTAAAAC
1 AGTAATTTC-ATAAATCGAGGGTAAAAC
*
45680269 AGTAA-TTCTATAAATTGAGGGTA
1 AGTAATTTC-ATAAATCGAGGGTA
45680292 CTTTGGTAAT
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
26 10 0.15
27 55 0.85
ACGTcount: A:0.42, C:0.08, G:0.20, T:0.30
Consensus pattern (27 bp):
AGTAATTTCATAAATCGAGGGTAAAAC
Found at i:45680230 original size:27 final size:27
Alignment explanation
Indices: 45680200--45680291 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 27
45680190 GTAATTTCAT
** * *
45680200 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTCTATA
45680227 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTATA
*
45680254 AATCAAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTATA
*
45680281 AATTGAGGGTA
1 AATCGAGGGTA
45680292 CTTTGGTAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.42, C:0.08, G:0.22, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTATA
Found at i:45681766 original size:46 final size:46
Alignment explanation
Indices: 45681598--45681763 Score: 144
Period size: 46 Copynumber: 3.6 Consensus size: 46
45681588 TGTAACCCGC
* * *
45681598 CCATAAGCGAACTCGGACTTC-ATTCAACAAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGAC-TCAACTCAACGAGCTCGGACGTTCGCAT
* * *
45681644 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGATGCCTAGTTAG-AT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C--GTTCGCAT
* * * *
45681694 -C-TCA-CGAACTCAGACTTAACTCAATGAGCTCGGACGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
*
45681737 CCATAAGTGAACTCGGACTCAACTCAA
1 CCATAAGCGAACTCGGACTCAACTCAA
45681764 TGAATTCGGA
Statistics
Matches: 93, Mismatches: 17, Indels: 20
0.72 0.13 0.15
Matches are distributed among these distances:
42 4 0.04
43 2 0.02
44 2 0.02
45 4 0.04
46 46 0.49
47 25 0.27
48 2 0.02
49 2 0.02
50 2 0.02
51 4 0.04
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
Found at i:45696925 original size:107 final size:107
Alignment explanation
Indices: 45696764--45696989 Score: 319
Period size: 107 Copynumber: 2.1 Consensus size: 107
45696754 ATTACCAAAG
* * *
45696764 TACCCTCGATTTACAGAATTACAGTTTTACCCTCGATTTACAGAGTTACCATTTTACCCTCGATT
1 TACCCTCGA-TTACAGAATTACAGTTTTACCCTCAATTTACAGAATTACAATTTTACCCTCGATT
* * *
45696829 TATAGAATTACCATTTTACCCTCGATTAATAGAATTA-TCGTTT
65 TACAAAATTACCATTTTACCCTCGATTAACAGAATTACT-GTTT
* * *
45696872 TATCCTCGATTACAGAATTACTGTTTTACCCTCAATTTATAGAATTACAATTTTACCCTCGATTT
1 TACCCTCGATTACAGAATTACAGTTTTACCCTCAATTTACAGAATTACAATTTTACCCTCGATTT
* * *
45696937 ACAAAATTATCGTTTTACCCTCGATTTACAGAATTACTGTTT
66 ACAAAATTACCATTTTACCCTCGATTAACAGAATTACTGTTT
45696979 TACCCTCGATT
1 TACCCTCGATT
45696990 TATAAAATTA
Statistics
Matches: 104, Mismatches: 13, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
107 95 0.91
108 9 0.09
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (107 bp):
TACCCTCGATTACAGAATTACAGTTTTACCCTCAATTTACAGAATTACAATTTTACCCTCGATTT
ACAAAATTACCATTTTACCCTCGATTAACAGAATTACTGTTT
Found at i:45697001 original size:27 final size:27
Alignment explanation
Indices: 45696764--45697001 Score: 284
Period size: 27 Copynumber: 8.9 Consensus size: 27
45696754 ATTACCAAAG
*
45696764 TACCCTCGATTTACAGAATTACAGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* **
45696791 TACCCTCGATTTACAGAGTTACCATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* **
45696818 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
45696845 TACCCTCGATTAATAGAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
*
45696872 TATCCTCGA-TTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * **
45696898 TACCCTCAATTTATAGAATTACAATTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
45696925 TACCCTCGATTTACAAAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
45696952 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
45696979 TACCCTCGATTTATAAAATTACT
1 TACCCTCGATTTACAGAATTACT
45697002 AAAATACCAT
Statistics
Matches: 182, Mismatches: 24, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
26 20 0.11
27 161 0.88
28 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:45697009 original size:27 final size:27
Alignment explanation
Indices: 45696979--45697224 Score: 180
Period size: 27 Copynumber: 9.2 Consensus size: 27
45696969 ATTACTGTTT
* *
45696979 TACCCTCGATTTATAAAATTACTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* * * **
45697006 TACCATTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
**
45697033 TACCCTCGATCAGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* * *
45697060 TACCC-CTGGTTTGTATAATTACTAAAA
1 TACCCTC-GATTTGTAAAATTACCAAAA
*
45697087 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTGTAAAATTACCAAAA
* **
45697114 TACCC-AGGCTTGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* * *
45697140 CACCC-CTGATTTGTGAAATTATCAAAA
1 TACCCTC-GATTTGTAAAATTACCAAAA
* * *
45697167 TACTCTCGATTTGTAAAA-TATCGAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* ** *
45697193 TACCCTTG-TAGGGTAGAATTACCAAAA
1 TACCCTCGAT-TTGTAAAATTACCAAAA
45697220 TACCC
1 TACCC
45697225 CTGTAGGGTA
Statistics
Matches: 171, Mismatches: 42, Indels: 12
0.76 0.19 0.05
Matches are distributed among these distances:
25 1 0.01
26 40 0.23
27 129 0.75
28 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (27 bp):
TACCCTCGATTTGTAAAATTACCAAAA
Found at i:45697019 original size:81 final size:81
Alignment explanation
Indices: 45696745--45697026 Score: 336
Period size: 81 Copynumber: 3.5 Consensus size: 81
45696735 AATGCCCTAA
* * * *
45696745 ATTTGTAAAATTACCAAAGTACCCTCGATTTACAGAATTA-CAGTTTTACCCTCGATTTACAGAG
1 ATTTATAAAATTACCAAATTACCCTCGATTTACAAAATTATC-GTTTTACCCTCGATTTACAGAA
**
45696809 TTACCATTTTACCCTCG
65 TTACTGTTTTACCCTCG
* ** * * * *
45696826 ATTTATAGAATTACCATTTTACCCTCGATTAATAGAATTATCGTTTTATCCTCGA-TTACAGAAT
1 ATTTATAAAATTACCAAATTACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTACAGAAT
*
45696890 TACTGTTTTACCCTCA
66 TACTGTTTTACCCTCG
* *
45696906 ATTTATAGAATTA-CAATTTTACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTACAGAA
1 ATTTATAAAATTACCAA-ATTACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTACAGAA
45696970 TTACTGTTTTACCCTCG
65 TTACTGTTTTACCCTCG
* * * * *
45696987 ATTTATAAAATTACTAAAATACCATTGGTTTACAAAATTA
1 ATTTATAAAATTACCAAATTACCCTCGATTTACAAAATTA
45697027 CCAAAATACC
Statistics
Matches: 172, Mismatches: 25, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
79 2 0.01
80 68 0.40
81 99 0.58
82 3 0.02
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.39
Consensus pattern (81 bp):
ATTTATAAAATTACCAAATTACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTACAGAAT
TACTGTTTTACCCTCG
Found at i:45697064 original size:81 final size:80
Alignment explanation
Indices: 45696981--45697169 Score: 218
Period size: 81 Copynumber: 2.3 Consensus size: 80
45696971 TACTGTTTTA
* * * *
45696981 CCCTCGATTTATAAAATTACTAAAATACCATTGGTTTACAAAATTACCAAAATACCCTCGATCAG
1 CCCT-GATTTGTAAAATTACTAAAATACCACTAGTTTACAAAATTACCAAAATACCCACGAT-AG
45697046 TAAAATTACCAAAATAC
64 TAAAATTACCAAAATAC
* * * ** * * *
45697063 CCCTGGTTTGTATAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCAGGCTTGTA
1 CCCTGATTTGTAAAATTACTAAAATACCACTAGTTTACAAAATTACCAAAATACCCACGATAGTA
*
45697128 AAATTACCAAAACAC
66 AAATTACCAAAATAC
*
45697143 CCCTGATTTGTGAAATTA-TCAAAATAC
1 CCCTGATTTGTAAAATTACT-AAAATAC
45697170 TCTCGATTTG
Statistics
Matches: 90, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
79 1 0.01
80 39 0.43
81 46 0.51
82 4 0.04
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (80 bp):
CCCTGATTTGTAAAATTACTAAAATACCACTAGTTTACAAAATTACCAAAATACCCACGATAGTA
AAATTACCAAAATAC
Found at i:45697153 original size:53 final size:53
Alignment explanation
Indices: 45697020--45697169 Score: 178
Period size: 53 Copynumber: 2.8 Consensus size: 53
45697010 ATTGGTTTAC
** * *
45697020 AAAATTACCAAAATA-CCCTCGATCAGTAAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCT-GATTTGTAAAATTACCAAAATA-CCCAGGCTTGT
* *
45697074 ATAATTACTAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCAGGCTTGT
1 AAAATTACCAAAATACCCCTGA-TTTGTAAAATTACCAAAATACCCAGGCTTGT
* * *
45697127 AAAATTACCAAAACACCCCTGATTTGTGAAATTATCAAAATAC
1 AAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATAC
45697170 TCTCGATTTG
Statistics
Matches: 82, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
53 46 0.56
54 32 0.39
55 4 0.05
ACGTcount: A:0.42, C:0.22, G:0.09, T:0.27
Consensus pattern (53 bp):
AAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCAGGCTTGT
Found at i:45697180 original size:80 final size:81
Alignment explanation
Indices: 45697020--45697185 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 81
45697010 ATTGGTTTAC
* * *
45697020 AAAATTACCAAAATACCCTCGATCAGTAAAATTACCAAAATACCCCTGGTTTGTATAATTACTAA
1 AAAATTACCAAAATACCCACGATCAGTAAAATTACCAAAACACCCCTGATTTGTATAATTACTAA
*
45697085 AATACCCCTAGTTTGT
66 AATACCCCGAGTTTGT
* * *
45697101 AAAATTACCAAAATACCCAGGCT-TGTAAAATTACCAAAACACCCCTGATTTGTGA-AATTA-TC
1 AAAATTACCAAAATACCCACGATCAGTAAAATTACCAAAACACCCCTGATTTGT-ATAATTACT-
*
45697163 AAAATACTCTCGA-TTTGT
64 AAAATAC-CCCGAGTTTGT
45697181 AAAAT
1 AAAAT
45697186 ATCGAAATAC
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
79 1 0.01
80 49 0.66
81 24 0.32
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (81 bp):
AAAATTACCAAAATACCCACGATCAGTAAAATTACCAAAACACCCCTGATTTGTATAATTACTAA
AATACCCCGAGTTTGT
Found at i:45697229 original size:27 final size:27
Alignment explanation
Indices: 45697188--45697431 Score: 317
Period size: 27 Copynumber: 9.0 Consensus size: 27
45697178 TGTAAAATAT
*
45697188 CGAAATACCCTTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
45697215 CAAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
45697242 CGAGATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * *
45697269 TGAAATAACCCTATAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
45697296 CAAAATACCCCTATAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
45697323 TGAGATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * *
45697350 CGAAATACCCCTATAGGGTAGAAATAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
45697377 CGAAATACCCCTGCAAGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * * *
45697404 CGAGATACCCTTGTGGGGTAAAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
45697431 C
1 C
45697432 ATTTTGCCCC
Statistics
Matches: 186, Mismatches: 31, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 186 1.00
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.23
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:45697298 original size:81 final size:81
Alignment explanation
Indices: 45697188--45697431 Score: 355
Period size: 81 Copynumber: 3.0 Consensus size: 81
45697178 TGTAAAATAT
*
45697188 CGAAAT-ACCCTTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAGATACCC
1 CGAAATAACCC-TATAGGGTAGAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAGATACCC
45697252 CTGTAGGGTAGAATTAC
65 CTGTAGGGTAGAATTAC
* * *
45697269 TGAAATAACCCTATAGGGTAGAATTACCAAAATACCCCTATAGGGTAGAATTACTGAGATACCCC
1 CGAAATAACCCTATAGGGTAGAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAGATACCCC
45697334 TGTAGGGTAGAATTAC
66 TGTAGGGTAGAATTAC
* * * * * * *
45697350 CGAAATACCCCTATAGGGTAGAAATATCGAAATACCCCTGCAAGGTAGAATTACCGAGATACCCT
1 CGAAATAACCCTATAGGGTAGAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAGATACCCC
* *
45697415 TGTGGGGTAAAATTAC
66 TGTAGGGTAGAATTAC
45697431 C
1 C
45697432 ATTTTGCCCC
Statistics
Matches: 146, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
81 142 0.97
82 4 0.03
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.23
Consensus pattern (81 bp):
CGAAATAACCCTATAGGGTAGAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAGATACCCC
TGTAGGGTAGAATTAC
Found at i:45697686 original size:25 final size:25
Alignment explanation
Indices: 45697634--45697715 Score: 105
Period size: 25 Copynumber: 3.4 Consensus size: 25
45697624 AGGAAGTGCT
* * *
45697634 AAAAGGGCTATG-CCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
45697658 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
45697683 AAAAGGGCTTTGCCCCAG-TTATTA
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
45697707 AAAAAGGCT
1 AAAAGGGCT
45697716 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
24 24 0.46
25 28 0.54
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:45697704 original size:24 final size:25
Alignment explanation
Indices: 45697634--45697727 Score: 102
Period size: 25 Copynumber: 3.8 Consensus size: 25
45697624 AGGAAGTGCT
* *
45697634 AAAAGGGCTATG-CCCAGTTTACCG
1 AAAAGGGCTATGCCCCAGTTTATCA
*
45697658 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTATGCCCCAGTTTATCA
* *
45697683 AAAAGGGCTTTGCCCCAG-TTATTA
1 AAAAGGGCTATGCCCCAGTTTATCA
* *
45697707 AAAAAGGCTAGGCCTCCAGTT
1 AAAAGGGCTATGCC-CCAGTT
45697728 ATATGATAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
24 27 0.45
25 32 0.53
26 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTATGCCCCAGTTTATCA
Found at i:45700036 original size:27 final size:27
Alignment explanation
Indices: 45700017--45700253 Score: 316
Period size: 27 Copynumber: 8.8 Consensus size: 27
45700007 ATTACCAAAG
* * *
45700017 TACCCTCAATTTACAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACCATTT
* * *
45700044 TACCCTCAATTTACAGAGTTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
45700071 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
*
45700098 TACCCTCGATTTATAGAA-TACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
45700124 TATCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
45700151 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
** * *
45700178 TACCCTTAATTTATAGAATAACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
45700205 TACCCTCGATTTATAGAATTA-CAGTTT
1 TACCCTCGATTTATAGAATTACCA-TTT
* *
45700232 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTATAGAATTAC
45700254 TGAAATACCC
Statistics
Matches: 186, Mismatches: 21, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
26 24 0.13
27 162 0.87
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCATTT
Found at i:45700211 original size:107 final size:108
Alignment explanation
Indices: 45700017--45700253 Score: 359
Period size: 107 Copynumber: 2.2 Consensus size: 108
45700007 ATTACCAAAG
* * * *
45700017 TACCCTCAATTTACAGAATTACTATTTTACCCTCAATTTACAGAGTTACCATTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCAATTTACAGAATTACCATTTTACCCTCAATT
* *
45700082 TATAGAATTACCATTTTACCCTCGATTTATAGAA-TACCGTTT
66 TATAGAATAACCATTTTACCCTCGATTTATAGAATTACAGTTT
* * * *
45700124 TATCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTTAATT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCAATTTACAGAATTACCATTTTACCCTCAATT
*
45700189 TATAGAATAACCGTTTTACCCTCGATTTATAGAATTACAGTTT
66 TATAGAATAACCATTTTACCCTCGATTTATAGAATTACAGTTT
*
45700232 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
45700254 TGAAATACCC
Statistics
Matches: 116, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
107 89 0.77
108 27 0.23
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (108 bp):
TACCCTCGATTTACAGAATTACCATTTTACCCTCAATTTACAGAATTACCATTTTACCCTCAATT
TATAGAATAACCATTTTACCCTCGATTTATAGAATTACAGTTT
Found at i:45700262 original size:27 final size:27
Alignment explanation
Indices: 45700205--45700295 Score: 94
Period size: 27 Copynumber: 3.4 Consensus size: 27
45700195 ATAACCGTTT
* * ***
45700205 TACCCTCGATTTATAGAATTACAGTTT
1 TACCCTCGATTTACAAAATTACAGAAA
*
45700232 TACCCTCGATTTACAAAATTACTGAAA
1 TACCCTCGATTTACAAAATTACAGAAA
* *
45700259 TACCCTTGGTTTACAAAATTACCA-AAA
1 TACCCTCGATTTACAAAATTA-CAGAAA
45700286 TACCCTCGAT
1 TACCCTCGAT
45700296 CAGTAAAATT
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
27 51 0.98
28 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.09, T:0.33
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACAGAAA
Found at i:45700290 original size:54 final size:54
Alignment explanation
Indices: 45700232--45700398 Score: 149
Period size: 54 Copynumber: 3.1 Consensus size: 54
45700222 ATTACAGTTT
* ** *
45700232 TACCCTCGATTTA-CAAAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGA-TCAGCAAAATTACCAAAATACCCCTGGTTTACAAAATTACCAAAA
* ** *
45700286 TACCCTCGATCAGTAAAATTACCAAAATACCCCTGGTTTTTAAAATTACTAAAA
1 TACCCTCGATCAGCAAAATTACCAAAATACCCCTGGTTTACAAAATTACCAAAA
* ** * * * ** *
45700340 TACCC-CTAGTTTGTAAAATTACCAAAATACCCCAGGCTTGTAAAATTGCCAAAA
1 TACCCTCGA-TCAGCAAAATTACCAAAATACCCCTGGTTTACAAAATTACCAAAA
45700394 TACCC
1 TACCC
45700399 CTAATTTGTG
Statistics
Matches: 95, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
53 4 0.04
54 91 0.96
ACGTcount: A:0.40, C:0.24, G:0.08, T:0.28
Consensus pattern (54 bp):
TACCCTCGATCAGCAAAATTACCAAAATACCCCTGGTTTACAAAATTACCAAAA
Found at i:45700303 original size:27 final size:26
Alignment explanation
Indices: 45700273--45700434 Score: 153
Period size: 27 Copynumber: 6.0 Consensus size: 26
45700263 CTTGGTTTAC
**
45700273 AAAATTACCAAAATACCCTCGATCAGT
1 AAAATTACCAAAATACCC-CGATTTGT
* *
45700300 AAAATTACCAAAATACCCCTGGTTTTT
1 AAAATTACCAAAATACCCC-GATTTGT
* *
45700327 AAAATTACTAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCGA-TTTGT
**
45700354 AAAATTACCAAAATACCCCAGGCTTGT
1 AAAATTACCAAAATACCCC-GATTTGT
* *
45700381 AAAATTGCCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCC-GATTTGT
* * *
45700408 GAAATTATCAAAATACTCTCGATTTGT
1 AAAATTACCAAAATAC-CCCGATTTGT
45700435 GATATTGAAA
Statistics
Matches: 109, Mismatches: 22, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
26 1 0.01
27 106 0.97
28 2 0.02
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.30
Consensus pattern (26 bp):
AAAATTACCAAAATACCCCGATTTGT
Found at i:45700399 original size:54 final size:54
Alignment explanation
Indices: 45700273--45700423 Score: 187
Period size: 54 Copynumber: 2.8 Consensus size: 54
45700263 CTTGGTTTAC
* ** * * *
45700273 AAAATTACCAAAATA-CCCTCGATCAGTAAAATTACCAAAATACCCCTGGTTTTT
1 AAAATTACCAAAATACCCCT-AATTTGTAAAATTACCAAAATACCCCAGGCTTGT
* *
45700327 AAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCAGGCTTGT
1 AAAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCAGGCTTGT
* * *
45700381 AAAATTGCCAAAATACCCCTAATTTGTGAAATTATCAAAATAC
1 AAAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATAC
45700424 TCTCGATTTG
Statistics
Matches: 83, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
54 79 0.95
55 4 0.05
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (54 bp):
AAAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCAGGCTTGT
Found at i:45700413 original size:81 final size:81
Alignment explanation
Indices: 45700246--45700423 Score: 200
Period size: 81 Copynumber: 2.2 Consensus size: 81
45700236 CTCGATTTAC
* * *
45700246 AAAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
1 AAAATTACTAAAATACCCCTAGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
** *
45700311 AATACCCCTGGTTTTT
66 AATACCCCTAATTTGT
** * * *
45700327 AAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCC-C-AGGCTTGTAAAATTGCC
1 AAAATTACTAAAATACCCCTAGTTTACAAAATTACCAAAATACCCTCGA-TC-AGTAAAATTACC
45700390 AAAATACCCCTAATTTGT
64 AAAATACCCCTAATTTGT
*
45700408 GAAATTA-TCAAAATAC
1 AAAATTACT-AAAATAC
45700424 TCTCGATTTG
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
79 1 0.01
80 3 0.04
81 78 0.95
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (81 bp):
AAAATTACTAAAATACCCCTAGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
AATACCCCTAATTTGT
Found at i:45700683 original size:27 final size:27
Alignment explanation
Indices: 45700441--45700683 Score: 315
Period size: 27 Copynumber: 9.0 Consensus size: 27
45700431 TTGTGATATT
* *
45700441 GAAATACCCCTATAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
45700468 GAAATACCCCTATAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
45700495 GAGATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
45700522 AAAATAACCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
45700549 GAAATACCCCTATAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
45700576 GAAATACCCCTGTAAGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
45700603 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
45700630 AAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
45700657 GAGATACCCTTGTGGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
45700684 ATTTTGCCCC
Statistics
Matches: 186, Mismatches: 30, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 186 1.00
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:45700924 original size:25 final size:25
Alignment explanation
Indices: 45700886--45700955 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
45700876 AGGAAGTGCT
* *
45700886 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
45700911 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
45700936 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
45700956 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:45700968 original size:24 final size:24
Alignment explanation
Indices: 45700885--45700968 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 24
45700875 GAGGAAGTGC
* *
45700885 TAAAAGGGCTATGCCCCAGTTTACC
1 TAAAAGGGCTTTGCCCCAGTTTA-T
*
45700910 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
*
45700934 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTTTGCCCCAGTTTAT
45700958 TAAAAGAGGCT
1 TAAAAG-GGCT
45700969 AGACCTCCAG
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 5 0.10
24 8 0.15
25 39 0.75
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:45701922 original size:14 final size:13
Alignment explanation
Indices: 45701896--45701933 Score: 60
Period size: 14 Copynumber: 2.9 Consensus size: 13
45701886 ATCCTAGAAT
45701896 ATTAA-AACAAGA
1 ATTAAGAACAAGA
45701908 ATTAAGAACACAGA
1 ATTAAGAACA-AGA
45701922 ATTAAGAACAAG
1 ATTAAGAACAAG
45701934 TCAAATATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.21
13 6 0.25
14 13 0.54
ACGTcount: A:0.61, C:0.11, G:0.13, T:0.16
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:45706943 original size:27 final size:27
Alignment explanation
Indices: 45706912--45707089 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
45706902 TAAATTGTAC
45706912 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
45706939 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
45706965 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
45706993 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
45707021 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
45707048 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
45707075 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
45707090 GACTCGATAT
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 108 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:45707026 original size:82 final size:81
Alignment explanation
Indices: 45706913--45707068 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
45706903 AAATTGTACA
*
45706913 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
45706977 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
45706994 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
45707059 TGCGAGTTGA
65 TGCGAATTGA
45707069 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:45707080 original size:82 final size:81
Alignment explanation
Indices: 45706909--45707089 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
45706899 GATTAAATTG
*
45706909 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
45706974 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
45706990 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
45707054 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
45707072 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
45707090 GACTCGATAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:45713698 original size:39 final size:40
Alignment explanation
Indices: 45713653--45713784 Score: 167
Period size: 40 Copynumber: 3.3 Consensus size: 40
45713643 GCTCCTCGTT
* * *
45713653 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* **
45713693 C-AATGCCTTCGGGACATAACCCGAATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
45713732 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
45713772 CAAAGGCCTTCGG
1 CAAATGCCTTCGG
45713785 ATCTTAGTCT
Statistics
Matches: 78, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
39 33 0.42
40 45 0.58
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:45721320 original size:17 final size:17
Alignment explanation
Indices: 45721300--45721350 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
45721290 AAGTATGAGA
45721300 AAATATGCTATATGTGT
1 AAATATGCTATATGTGT
* *
45721317 AAATA-G---TATGAGA
1 AAATATGCTATATGTGT
45721330 AAATATGCTATATGTGT
1 AAATATGCTATATGTGT
45721347 AAAT
1 AAAT
45721351 TAATTGTGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
13 10 0.38
14 1 0.04
16 1 0.04
17 14 0.54
ACGTcount: A:0.43, C:0.04, G:0.18, T:0.35
Consensus pattern (17 bp):
AAATATGCTATATGTGT
Found at i:45721325 original size:30 final size:30
Alignment explanation
Indices: 45721291--45721350 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
45721281 ATGTGATATA
45721291 AGTATGAGAAAATATGCTATATGTGTAAAT
1 AGTATGAGAAAATATGCTATATGTGTAAAT
45721321 AGTATGAGAAAATATGCTATATGTGTAAAT
1 AGTATGAGAAAATATGCTATATGTGTAAAT
45721351 TAATTGTGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.43, C:0.03, G:0.20, T:0.33
Consensus pattern (30 bp):
AGTATGAGAAAATATGCTATATGTGTAAAT
Found at i:45723823 original size:18 final size:17
Alignment explanation
Indices: 45723798--45723831 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
45723788 TCATGCTATA
45723798 TGTATTTTTGAAATCCT
1 TGTATTTTTGAAATCCT
45723815 TGTATTTTTGAAATCCT
1 TGTATTTTTGAAATCCT
45723832 GATAGCTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.53
Consensus pattern (17 bp):
TGTATTTTTGAAATCCT
Found at i:45726130 original size:65 final size:65
Alignment explanation
Indices: 45726055--45726184 Score: 233
Period size: 65 Copynumber: 2.0 Consensus size: 65
45726045 ACATTTCATG
* *
45726055 ACTATTATAATTATACCTAAAATTTCTTTGTATCTCGACAATAAGTCGTATGAAACCGAATCTAA
1 ACTATTATAATTATACCTAAAATTTCTTTGTATCTCGACAATAAGTCATATGAAACCAAATCTAA
*
45726120 ACTATTATAATTATACCTAAAATTTCTTTGTATCTCGTCAATAAGTCATATGAAACCAAATCTAA
1 ACTATTATAATTATACCTAAAATTTCTTTGTATCTCGACAATAAGTCATATGAAACCAAATCTAA
45726185 GTACACAATA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 62 1.00
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (65 bp):
ACTATTATAATTATACCTAAAATTTCTTTGTATCTCGACAATAAGTCATATGAAACCAAATCTAA
Found at i:45726824 original size:28 final size:28
Alignment explanation
Indices: 45726785--45726908 Score: 96
Period size: 28 Copynumber: 4.4 Consensus size: 28
45726775 TAATTTTGCA
* *
45726785 CACACACAGTGCCTTACATCCGATCTCG
1 CACACATAGTGCCTTACATCCAATCTCG
* *
45726813 CACACATAGTGCTCGGTTA-AT--AATTTCT
1 CACACATAGTGC-C--TTACATCCAATCTCG
45726841 CACACATAGTGCCTTACA-CTCAATCTCG
1 CACACATAGTGCCTTACATC-CAATCTCG
*** *
45726869 CACACATAGTG-CTTGGTTACTAATCTCG
1 CACACATAGTGCCTTACAT-CCAATCTCG
45726897 CACACATAGTGC
1 CACACATAGTGC
45726909 ATATATTCAT
Statistics
Matches: 76, Mismatches: 10, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
25 3 0.04
26 1 0.01
27 4 0.05
28 61 0.80
29 2 0.03
30 2 0.03
31 3 0.04
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (28 bp):
CACACATAGTGCCTTACATCCAATCTCG
Found at i:45726867 original size:56 final size:56
Alignment explanation
Indices: 45726785--45726908 Score: 178
Period size: 56 Copynumber: 2.2 Consensus size: 56
45726775 TAATTTTGCA
* * * *
45726785 CACACACAGTGCCTTACATCCGATCTCGCACACATAGTGCTCGGTTAATAATTTCT
1 CACACATAGTGCCTTACATCCAATCTCGCACACATAGTGCTCGGTTAATAATCTCG
* *
45726841 CACACATAGTGCCTTACA-CTCAATCTCGCACACATAGTGCTTGGTTACTAATCTCG
1 CACACATAGTGCCTTACATC-CAATCTCGCACACATAGTGCTCGGTTAATAATCTCG
45726897 CACACATAGTGC
1 CACACATAGTGC
45726909 ATATATTCAT
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 1 0.02
56 60 0.98
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (56 bp):
CACACATAGTGCCTTACATCCAATCTCGCACACATAGTGCTCGGTTAATAATCTCG
Found at i:45732322 original size:53 final size:52
Alignment explanation
Indices: 45732242--45732346 Score: 201
Period size: 53 Copynumber: 2.0 Consensus size: 52
45732232 TTCGGGTTTT
45732242 TCTTGCCGATTGTTGCCCACACTAGCAACCGAAGTAGCTCGAGAGTTCGTTG
1 TCTTGCCGATTGTTGCCCACACTAGCAACCGAAGTAGCTCGAGAGTTCGTTG
45732294 NTCTTGCCGATTGTTGCCCACACTAGCAACCGAAGTAGCTCGAGAGTTCGTTG
1 -TCTTGCCGATTGTTGCCCACACTAGCAACCGAAGTAGCTCGAGAGTTCGTTG
45732347 ATGATCATTC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (52 bp):
TCTTGCCGATTGTTGCCCACACTAGCAACCGAAGTAGCTCGAGAGTTCGTTG
Found at i:45734517 original size:56 final size:56
Alignment explanation
Indices: 45734441--45734900 Score: 868
Period size: 56 Copynumber: 8.2 Consensus size: 56
45734431 TAATTTTGCA
*
45734441 CACACACAGTGCCTTACACCCGATCTCGCACACATAGTGCTCGGTTAATAAATTCG
1 CACACATAGTGCCTTACACCCGATCTCGCACACATAGTGCTCGGTTAATAAATTCG
45734497 CACACATAGTGCCTTACACCCGATCTCGCACACATAGTGCTCGGTTAATAAATTCG
1 CACACATAGTGCCTTACACCCGATCTCGCACACATAGTGCTCGGTTAATAAATTCG
45734553 CACACATAGTGCCTTACACCCGATCTCGCACACATAGTGCTCGGTTAATAAATTCG
1 CACACATAGTGCCTTACACCCGATCTCGCACACATAGTGCTCGGTTAATAAATTCG
45734609 CACACATAGTGCCTTACACCCGATCTCGCACACATAGTGCTCGGTTAATAAATTCG
1 CACACATAGTGCCTTACACCCGATCTCGCACACATAGTGCTCGGTTAATAAATTCG
45734665 CACACATAGTGCCTTACACCCGATCTCGCACACATAGTGCTCGGTTAATAAATTCG
1 CACACATAGTGCCTTACACCCGATCTCGCACACATAGTGCTCGGTTAATAAATTCG
45734721 CACACATAGTGCCTTACACCCGATCTCGCACACATAGTGCTCGGTTAATAAATTCG
1 CACACATAGTGCCTTACACCCGATCTCGCACACATAGTGCTCGGTTAATAAATTCG
45734777 CACACATAGTGCCTTACACCCGATCTCGCACACATAGTGCTCGGTTAATAAATTCG
1 CACACATAGTGCCTTACACCCGATCTCGCACACATAGTGCTCGGTTAATAAATTCG
** *
45734833 CACACATAGTGCCTTACACCCGATCTCGCACACATAGTGCTCAATTACT-AATCTCG
1 CACACATAGTGCCTTACACCCGATCTCGCACACATAGTGCTCGGTTAATAAAT-TCG
45734889 CACACATAGTGC
1 CACACATAGTGC
45734901 ATATATTTAT
Statistics
Matches: 399, Mismatches: 4, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
55 3 0.01
56 396 0.99
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.25
Consensus pattern (56 bp):
CACACATAGTGCCTTACACCCGATCTCGCACACATAGTGCTCGGTTAATAAATTCG
Found at i:45737830 original size:27 final size:27
Alignment explanation
Indices: 45737800--45737977 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
45737790 ATATTGAGTC
* * * *
45737800 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
45737827 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
45737854 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
45737882 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
45737909 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
45737936 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
45737963 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
45737978 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:45737939 original size:82 final size:81
Alignment explanation
Indices: 45737821--45737976 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
45737811 TGCTATATAA
* *
45737821 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
45737886 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
45737903 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
45737967 CACTTAGTGC
65 CACTTAGTGC
45737977 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:45745893 original size:27 final size:27
Alignment explanation
Indices: 45745863--45746040 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
45745853 ATATTGAGTC
* * * *
45745863 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
45745890 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
45745917 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
45745945 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
45745972 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
45745999 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
45746026 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
45746041 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:45746002 original size:82 final size:81
Alignment explanation
Indices: 45745884--45746039 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
45745874 TGCTATATAA
* *
45745884 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
45745949 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
45745966 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
45746030 CACTTAGTGC
65 CACTTAGTGC
45746040 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:45755009 original size:56 final size:56
Alignment explanation
Indices: 45754824--45754996 Score: 265
Period size: 56 Copynumber: 3.1 Consensus size: 56
45754814 TCATAAAAAC
* * *
45754824 ATATCAAAATCACATATCGATGCCAATGTATAAAACGTGGTCTTACTCGCACACAT
1 ATATCAGAATCACATATAGATGCCAACGTATAAAACGTGGTCTTACTCGCACACAT
* * *
45754880 ATATCAGAGTCACATATCGATGCCAACGTATAAAACGTGGTCTTACTCGCATACAT
1 ATATCAGAATCACATATAGATGCCAACGTATAAAACGTGGTCTTACTCGCACACAT
* * *
45754936 ATATTAGAATCACATATAGATGCGAACGTATAAAACGTGGTCTTACTTGCACACAT
1 ATATCAGAATCACATATAGATGCCAACGTATAAAACGTGGTCTTACTCGCACACAT
45754992 ATATC
1 ATATC
45754997 GGAACCATAT
Statistics
Matches: 106, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 106 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.28
Consensus pattern (56 bp):
ATATCAGAATCACATATAGATGCCAACGTATAAAACGTGGTCTTACTCGCACACAT
Found at i:45759943 original size:30 final size:30
Alignment explanation
Indices: 45759907--45759963 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
45759897 CCGAGCCTAG
45759907 AGGCAAAA-GTGTAATTATGCAAAAGTTTAA
1 AGGCAAAATG-GTAATTATGCAAAAGTTTAA
* *
45759937 AGGCAAAATGGTAATTTTGCCAAAGTT
1 AGGCAAAATGGTAATTATGCAAAAGTT
45759964 CGTATTAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.42, C:0.09, G:0.21, T:0.28
Consensus pattern (30 bp):
AGGCAAAATGGTAATTATGCAAAAGTTTAA
Found at i:45766954 original size:34 final size:34
Alignment explanation
Indices: 45766892--45766956 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
45766882 TCTATTATTG
*
45766892 TTACTGTAATGGGCTAAGGTCCACACTGATACTA
1 TTACTGTAATGGGCTAAGGCCCACACTGATACTA
*
45766926 TTACTGTAATGGGCTATGGCCCTA-ACTGATA
1 TTACTGTAATGGGCTAAGGCCC-ACACTGATA
45766957 TTGGATTGTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 27 0.96
35 1 0.04
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.31
Consensus pattern (34 bp):
TTACTGTAATGGGCTAAGGCCCACACTGATACTA
Found at i:45770515 original size:43 final size:42
Alignment explanation
Indices: 45770468--45770602 Score: 130
Period size: 44 Copynumber: 3.1 Consensus size: 42
45770458 CTAGACGTGA
* * *
45770468 TCTTACGTGTAATCAAATATTGATGCCACTGTCCCAGACAGGG
1 TCTTACATGTAATCAAATATTGATGCCA-TGTCCCAAACAAGG
* *
45770511 TCTTACATGAAATCAAATA-TGATGTCGATGTCCCAAACAAGG
1 TCTTACATGTAATCAAATATTGATG-CCATGTCCCAAACAAGG
* * * *
45770553 TCTTACACGTAAATCATAA-GTCGATGCCAATGTCCCAAACATGG
1 TCTTACATGT-AATCA-AATATTGATGCC-ATGTCCCAAACAAGG
45770597 TCTTAC
1 TCTTAC
45770603 GCGAAAACAC
Statistics
Matches: 76, Mismatches: 11, Indels: 9
0.79 0.11 0.09
Matches are distributed among these distances:
42 25 0.33
43 25 0.33
44 26 0.34
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (42 bp):
TCTTACATGTAATCAAATATTGATGCCATGTCCCAAACAAGG
Found at i:45771678 original size:115 final size:115
Alignment explanation
Indices: 45771476--45771705 Score: 460
Period size: 115 Copynumber: 2.0 Consensus size: 115
45771466 CCTAGACATA
45771476 AGGCCACATAATTTTACCGAATTAGGGTGAAACCTAATAAGGGAATCCATAGGTCGAGTTAATGC
1 AGGCCACATAATTTTACCGAATTAGGGTGAAACCTAATAAGGGAATCCATAGGTCGAGTTAATGC
45771541 AACACTAGGGGTTTTAATTAGAAAGAGATTTCAATTAATCAACCTAGGGT
66 AACACTAGGGGTTTTAATTAGAAAGAGATTTCAATTAATCAACCTAGGGT
45771591 AGGCCACATAATTTTACCGAATTAGGGTGAAACCTAATAAGGGAATCCATAGGTCGAGTTAATGC
1 AGGCCACATAATTTTACCGAATTAGGGTGAAACCTAATAAGGGAATCCATAGGTCGAGTTAATGC
45771656 AACACTAGGGGTTTTAATTAGAAAGAGATTTCAATTAATCAACCTAGGGT
66 AACACTAGGGGTTTTAATTAGAAAGAGATTTCAATTAATCAACCTAGGGT
45771706 TAGACGTTGT
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
115 115 1.00
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.27
Consensus pattern (115 bp):
AGGCCACATAATTTTACCGAATTAGGGTGAAACCTAATAAGGGAATCCATAGGTCGAGTTAATGC
AACACTAGGGGTTTTAATTAGAAAGAGATTTCAATTAATCAACCTAGGGT
Found at i:45772080 original size:47 final size:46
Alignment explanation
Indices: 45772003--45772094 Score: 148
Period size: 47 Copynumber: 2.0 Consensus size: 46
45771993 TACTGTTCGA
* *
45772003 TAGGTGCGTTTGCCTTTATCGTGATAATAGTTAGTTTTCAAGTACGT
1 TAGGTGCGCTTGCCTTTATCATGATAATAGTTAG-TTTCAAGTACGT
*
45772050 TAGGTGCGCTTGCCTTTATCATGATGATAGTTAGTTTCAAGTACG
1 TAGGTGCGCTTGCCTTTATCATGATAATAGTTAGTTTCAAGTACG
45772095 ATCATTCATA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
46 11 0.26
47 31 0.74
ACGTcount: A:0.22, C:0.14, G:0.24, T:0.40
Consensus pattern (46 bp):
TAGGTGCGCTTGCCTTTATCATGATAATAGTTAGTTTCAAGTACGT
Found at i:45775681 original size:31 final size:31
Alignment explanation
Indices: 45775646--45775707 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
45775636 TTCCTCGGAC
*
45775646 GACCAACCTTCTTCCTCTACACTATTGCATT
1 GACCAACCTCCTTCCTCTACACTATTGCATT
45775677 GACCAACCTCCTTCCTCTACACTATTGCATT
1 GACCAACCTCCTTCCTCTACACTATTGCATT
45775708 TATCTCTTCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.37, G:0.06, T:0.34
Consensus pattern (31 bp):
GACCAACCTCCTTCCTCTACACTATTGCATT
Found at i:45784821 original size:40 final size:40
Alignment explanation
Indices: 45784721--45784985 Score: 286
Period size: 40 Copynumber: 6.7 Consensus size: 40
45784711 GCTCCTCGTT
* * * *
45784721 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
45784761 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
45784800 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
45784840 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
45784880 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
45784920 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
45784961 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
45784986 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 143 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:45784945 original size:80 final size:80
Alignment explanation
Indices: 45784688--45784985 Score: 263
Period size: 80 Copynumber: 3.7 Consensus size: 80
45784678 AAATCACGTA
* ** * * *
45784688 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
45784750 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * *
45784766 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
45784829 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
45784846 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
45784910 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
45784926 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
45784986 CAGCATTCAA
Statistics
Matches: 182, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.07
79 50 0.27
80 106 0.58
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:45784994 original size:41 final size:41
Alignment explanation
Indices: 45784917--45784994 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
45784907 TTTGTATCTC
* * *
45784917 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
45784958 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
45784995 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:45792713 original size:40 final size:40
Alignment explanation
Indices: 45792669--45792930 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
45792659 GCTCCTCGTT
* *
45792669 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
45792709 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
45792749 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
45792788 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
45792827 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
45792866 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
45792907 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
45792931 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:45810835 original size:38 final size:38
Alignment explanation
Indices: 45810793--45810872 Score: 151
Period size: 38 Copynumber: 2.1 Consensus size: 38
45810783 GATAAACTAG
45810793 AACCCAAATAGCACCTTTCTTTCATGGAGATAGGGGCA
1 AACCCAAATAGCACCTTTCTTTCATGGAGATAGGGGCA
*
45810831 AACCCAAATAGCACCTTTCTTTCGTGGAGATAGGGGCA
1 AACCCAAATAGCACCTTTCTTTCATGGAGATAGGGGCA
45810869 AACC
1 AACC
45810873 TGAAACAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (38 bp):
AACCCAAATAGCACCTTTCTTTCATGGAGATAGGGGCA
Found at i:45814186 original size:26 final size:27
Alignment explanation
Indices: 45814099--45814271 Score: 208
Period size: 27 Copynumber: 6.5 Consensus size: 27
45814089 ATACTTTAGT
*
45814099 TTACCAAAATACCACTGGTTTGTAAAA
1 TTACCAAAATACCCCTGGTTTGTAAAA
* * * *
45814126 TTACTAGAATACCCTTGGTTTATAAAA
1 TTACCAAAATACCCCTGGTTTGTAAAA
45814153 TTACCAAAATACCCCTGGTTTGT-AAA
1 TTACCAAAATACCCCTGGTTTGTAAAA
45814179 TTACCAAAATACCCCTGGTTTGTAAAA
1 TTACCAAAATACCCCTGGTTTGTAAAA
* * *
45814206 TTATC--AATACCCCTAGCTTGTAAAA
1 TTACCAAAATACCCCTGGTTTGTAAAA
* * *
45814231 TTACCAAAATATCCCTGATTTGTGAAA
1 TTACCAAAATACCCCTGGTTTGTAAAA
**
45814258 TTACTGAAATACCC
1 TTACCAAAATACCC
45814272 TCGACCTGTA
Statistics
Matches: 122, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
25 22 0.18
26 26 0.21
27 74 0.61
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.32
Consensus pattern (27 bp):
TTACCAAAATACCCCTGGTTTGTAAAA
Found at i:45814324 original size:27 final size:26
Alignment explanation
Indices: 45814118--45814325 Score: 113
Period size: 27 Copynumber: 7.8 Consensus size: 26
45814108 TACCACTGGT
* * **
45814118 TTGTAAAATTACTAGAATACCCTTGGT
1 TTGTAAAATTACCA-AATACCCTCGAC
* **
45814145 TTATAAAATTACCAAAATACCC-CTGGT
1 TTGTAAAATTACC-AAATACCCTC-GAC
**
45814172 TTGT-AAATTACCAAAATACCC-CTGGT
1 TTGTAAAATTACC-AAATACCCTC-GAC
* *
45814198 TTGTAAAATTATC-AATACCC-CTAGC
1 TTGTAAAATTACCAAATACCCTCGA-C
*
45814223 TTGTAAAATTACCAAAATATCCCT-GAT
1 TTGTAAAATTACC-AAATA-CCCTCGAC
* *
45814250 TTGTGAAATTACTGAAATACCCTCGAC
1 TTGTAAAATTAC-CAAATACCCTCGAC
* **
45814277 CTGTAAAATTATTGAAATACCCTCGAC
1 TTGTAAAATTA-CCAAATACCCTCGAC
*
45814304 TTGTAGAATTACCAAAGTACCC
1 TTGTAAAATTACCAAA-TACCC
45814326 CTGATTTACA
Statistics
Matches: 148, Mismatches: 21, Indels: 24
0.77 0.11 0.12
Matches are distributed among these distances:
25 20 0.14
26 33 0.22
27 90 0.61
28 5 0.03
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.31
Consensus pattern (26 bp):
TTGTAAAATTACCAAATACCCTCGAC
Found at i:45814338 original size:27 final size:27
Alignment explanation
Indices: 45814308--45814382 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
45814298 CTCGACTTGT
*
45814308 AGAATTACCAAAGTACCCCTGATTTAC
1 AGAATTACCAAAATACCCCTGATTTAC
***
45814335 AGAATTACCATTTTA-CCCTCGATTTAC
1 AGAATTACCAAAATACCCCT-GATTTAC
*
45814362 AAAATTACCAAAATACCCCTG
1 AGAATTACCAAAATACCCCTG
45814383 TAGGGTAGAA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
26 4 0.10
27 31 0.79
28 4 0.10
ACGTcount: A:0.37, C:0.27, G:0.08, T:0.28
Consensus pattern (27 bp):
AGAATTACCAAAATACCCCTGATTTAC
Found at i:45814394 original size:27 final size:27
Alignment explanation
Indices: 45814364--45814506 Score: 232
Period size: 27 Copynumber: 5.3 Consensus size: 27
45814354 CGATTTACAA
**
45814364 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGGAATACCCCTGTAGGGTAG
*
45814391 AATTACCGGAATACCCTTGTAGGGTAG
1 AATTACCGGAATACCCCTGTAGGGTAG
45814418 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGGAATACCCCTGTAGGGTAG
**
45814445 AATTACTAGAATACCCCTGTAGGGTAG
1 AATTACCGGAATACCCCTGTAGGGTAG
*
45814472 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGGAATACCCCTGTAGGGTAG
45814499 AATTACCG
1 AATTACCG
45814507 ATCAATGGCT
Statistics
Matches: 107, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 107 1.00
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (27 bp):
AATTACCGGAATACCCCTGTAGGGTAG
Found at i:45814406 original size:54 final size:53
Alignment explanation
Indices: 45814348--45814506 Score: 162
Period size: 54 Copynumber: 2.9 Consensus size: 53
45814338 ATTACCATTT
* * *
45814348 TACCCTCGATTTACAAAATTACCAAAATACCCCTGTAGGGTAGAATTACCGGAA
1 TACCCTCGATGTA-AGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGGAA
* * * **
45814402 TACCCTTGTAGGGT-AGAATTACCGGAATACCCCTGTAGGGTAGAATTACTAGAA
1 TACCCTCG-A-TGTAAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGGAA
*
45814456 TACCC-CTGTAGGGT-AGAATTACCGAAATACCCCTGTAGGGTAGAATTACCG
1 TACCCTC-G-A-TGTAAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCG
45814507 ATCAATGGCT
Statistics
Matches: 90, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
54 88 0.98
55 1 0.01
56 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.25
Consensus pattern (53 bp):
TACCCTCGATGTAAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGGAA
Found at i:45814839 original size:25 final size:26
Alignment explanation
Indices: 45814811--45814862 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
45814801 CCACGTATTA
*
45814811 TGTT-AAGTGGCTTTGCCACATTATC
1 TGTTCAAGTGGCTTTGCCACAATATC
**
45814836 TGTTCTGGTGGCTTTGCCACAATATC
1 TGTTCAAGTGGCTTTGCCACAATATC
45814862 T
1 T
45814863 ATTTCTGGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.40
Consensus pattern (26 bp):
TGTTCAAGTGGCTTTGCCACAATATC
Found at i:45814852 original size:26 final size:26
Alignment explanation
Indices: 45814817--45814890 Score: 94
Period size: 27 Copynumber: 2.8 Consensus size: 26
45814807 ATTATGTTAA
*
45814817 GTGGCTTTGCCACATTATCTGTTCTG
1 GTGGCTTTGCCACAATATCTGTTCTG
*
45814843 GTGGCTTTGCCACAATATCTATTTCTG
1 GTGGCTTTGCCACAATATCT-GTTCTG
* * *
45814870 GTGACTCTGTCACAATATCTG
1 GTGGCTTTGCCACAATATCTG
45814891 ATAAGTGAGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 19 0.46
27 22 0.54
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.39
Consensus pattern (26 bp):
GTGGCTTTGCCACAATATCTGTTCTG
Found at i:45815060 original size:31 final size:31
Alignment explanation
Indices: 45815022--45815162 Score: 185
Period size: 31 Copynumber: 4.5 Consensus size: 31
45815012 TTGCATTCAC
*
45815022 ATTCTGATTTTGATTCTGTTACCTGATACTA
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
45815053 ATTCTGATTTTGATTCTGTTACCTGATGCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
45815084 ATTCTGATTTTGATTCGGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * * *
45815115 ATTCTTATTCTGATTCTGTCACCTAATTA-TG
1 ATTCTGATTTTGATTCTGTTACCTGA-TACTG
* *
45815146 ATTCTGGTTCTGATTCT
1 ATTCTGATTTTGATTCT
45815163 AATTCTGATT
Statistics
Matches: 98, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
31 96 0.98
32 2 0.02
ACGTcount: A:0.19, C:0.17, G:0.16, T:0.48
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:45815092 original size:6 final size:6
Alignment explanation
Indices: 45815022--45815189 Score: 94
Period size: 6 Copynumber: 27.3 Consensus size: 6
45815012 TTGCATTCAC
* * * *
45815022 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTA ATTCTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
45815071 -TTACCTG ATGCTG ATTCTG ATTTTG ATTC-G GTTACCTG ATACTG ATTCTT
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* * * * *
45815121 ATTCTG ATTCTG -TCACCTA ATTATG ATTCTG GTTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
45815170 ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG A-TTCTG AT
45815190 AATGTTTCTT
Statistics
Matches: 120, Mismatches: 28, Indels: 28
0.68 0.16 0.16
Matches are distributed among these distances:
5 9 0.08
6 96 0.80
7 10 0.08
8 5 0.04
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:45819241 original size:42 final size:42
Alignment explanation
Indices: 45819194--45819285 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
45819184 TGGCCCATAG
* * ** *
45819194 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATAGCACATGAAATACCAATGAATGTATGCAA
*
45819236 GCCCATTTCAATAGCATATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATAGCACATGAAATACCAATGAATGTATGCAA
45819278 GCCCATTT
1 GCCCATTT
45819286 GGGGAGACTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATAGCACATGAAATACCAATGAATGTATGCAA
Found at i:45819577 original size:20 final size:20
Alignment explanation
Indices: 45819552--45819618 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
45819542 TTATGAATAC
45819552 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
45819572 ATCATGTGCATTTCATAGAT
1 ATCATGTGCATTTCATACAT
*
45819592 ATCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
45819612 ATCATGT
1 ATCATGT
45819619 ATATCATATC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 42 0.98
21 1 0.02
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:45820474 original size:27 final size:27
Alignment explanation
Indices: 45820444--45820495 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
45820434 GTAAATCTAA
45820444 AAATCAAGGGTATTTCT-GTAATTTTGT
1 AAATCAAGGGTATTT-TGGTAATTTTGT
*
45820471 AAATCAGGGGTATTTTGGTAATTTT
1 AAATCAAGGGTATTTTGGTAATTTT
45820496 ACAAATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 1 0.04
27 22 0.96
ACGTcount: A:0.29, C:0.06, G:0.21, T:0.44
Consensus pattern (27 bp):
AAATCAAGGGTATTTTGGTAATTTTGT
Found at i:45820501 original size:27 final size:27
Alignment explanation
Indices: 45820429--45820677 Score: 76
Period size: 27 Copynumber: 9.4 Consensus size: 27
45820419 TACAAGAGTG
* * * *
45820429 TTTTGGTAAATCTAAAAATCAAGGGTA
1 TTTTGGTAATTTTACAAATCAGGGGTA
**
45820456 TTTCT-GTAATTTTGTAAATCAGGGGTA
1 TTT-TGGTAATTTTACAAATCAGGGGTA
45820483 TTTTGGTAATTTTACAAAT-A-----A
1 TTTTGGTAATTTTACAAATCAGGGGTA
** * ** *
45820504 -AATGGTAATTCTATCTTA-CAGGAGTA
1 TTTTGGTAATTTTA-CAAATCAGGGGTA
**
45820530 TTTCAGTAATTTTACAAAATC-GAGGGTA
1 TTTTGGTAATTTTAC-AAATCAG-GGGTA
** * * * *
45820558 TTTCAGAAATTTTAAAAAT-TGAAGGTA
1 TTTTGGTAATTTTACAAATCAG-GGGTA
*
45820585 TTTTGGTAATTTTACAAATC-GAGGATA
1 TTTTGGTAATTTTACAAATCAG-GGGTA
* * *
45820612 TTTGGGTAATTTTATAAAT-TGGAGGTA
1 TTTTGGTAATTTTACAAATCAGG-GGTA
* *
45820639 CTTTGGTAATTTTACAAGTC-GAGGGTA
1 TTTTGGTAATTTTACAAATCAG-GGGTA
**
45820666 TTTCAGTAATTT
1 TTTTGGTAATTT
45820678 GGTAAACTAA
Statistics
Matches: 164, Mismatches: 39, Indels: 38
0.68 0.16 0.16
Matches are distributed among these distances:
20 10 0.06
21 4 0.02
26 5 0.03
27 125 0.76
28 20 0.12
ACGTcount: A:0.34, C:0.07, G:0.19, T:0.40
Consensus pattern (27 bp):
TTTTGGTAATTTTACAAATCAGGGGTA
Found at i:45820560 original size:28 final size:28
Alignment explanation
Indices: 45820527--45820677 Score: 141
Period size: 27 Copynumber: 5.5 Consensus size: 28
45820517 TCTTACAGGA
45820527 GTATTTCAGTAATTTTACAAAATCGAGG
1 GTATTTCAGTAATTTTACAAAATCGAGG
* * *
45820555 GTATTTCAGAAATTTTA-AAAATTGAAG
1 GTATTTCAGTAATTTTACAAAATCGAGG
**
45820582 GTATTTTGGTAATTTTAC-AAATCGAGG
1 GTATTTCAGTAATTTTACAAAATCGAGG
* ** * * *
45820609 ATATTTGGGTAATTTTATAAATTGGA-G
1 GTATTTCAGTAATTTTACAAAATCGAGG
* *
45820636 GTACTTT-GGTAATTTTAC-AAGTCGAGG
1 GTA-TTTCAGTAATTTTACAAAATCGAGG
45820663 GTATTTCAGTAATTT
1 GTATTTCAGTAATTT
45820678 GGTAAACTAA
Statistics
Matches: 100, Mismatches: 18, Indels: 11
0.78 0.14 0.09
Matches are distributed among these distances:
26 8 0.08
27 68 0.68
28 24 0.24
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (28 bp):
GTATTTCAGTAATTTTACAAAATCGAGG
Found at i:45820623 original size:54 final size:54
Alignment explanation
Indices: 45820535--45820677 Score: 205
Period size: 54 Copynumber: 2.6 Consensus size: 54
45820525 GAGTATTTCA
* *
45820535 GTAATTTTACAAAATCGAGGGTATTTCAGAAATTTTAAAAATTGAAGGTATTTTG
1 GTAATTTTAC-AAATCGAGGGTATTTCAGTAATTTTAAAAATTGAAGGTACTTTG
* ** * *
45820590 GTAATTTTACAAATCGAGGATATTTGGGTAATTTTATAAATTGGAGGTACTTTG
1 GTAATTTTACAAATCGAGGGTATTTCAGTAATTTTAAAAATTGAAGGTACTTTG
*
45820644 GTAATTTTACAAGTCGAGGGTATTTCAGTAATTT
1 GTAATTTTACAAATCGAGGGTATTTCAGTAATTT
45820678 GGTAAACTAA
Statistics
Matches: 77, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
54 67 0.87
55 10 0.13
ACGTcount: A:0.34, C:0.06, G:0.20, T:0.40
Consensus pattern (54 bp):
GTAATTTTACAAATCGAGGGTATTTCAGTAATTTTAAAAATTGAAGGTACTTTG
Found at i:45826697 original size:86 final size:85
Alignment explanation
Indices: 45826552--45826708 Score: 192
Period size: 86 Copynumber: 1.8 Consensus size: 85
45826542 GACAAGTACA
* * * * * *
45826552 ATGCCGACGTCCCATACGTGGTCTTAGATGAAATTCAGTATCGATGCCTCTGTCGCAGACA-GAG
1 ATGCCGACGTCCCAGACATGGTCTTACAGGAAATTCAGAATCGATGCCACTGTCGCAGACACG-G
45826616 TCTTATATGTAAACAGATACG
65 TCTTATATGTAAACAGATACG
* * *
45826637 ATGCCGATGTCCCAGACATGGTCTTACAGGTAAATTTCA-AATCGATGCCAGTGTCTCAGACACG
1 ATGCCGACGTCCCAGACATGGTCTTACAGG-AAA-TTCAGAATCGATGCCACTGTCGCAGACACG
45826701 GTCTTATA
64 GTCTTATA
45826709 CGATAATTTA
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
85 25 0.42
86 30 0.50
87 5 0.08
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (85 bp):
ATGCCGACGTCCCAGACATGGTCTTACAGGAAATTCAGAATCGATGCCACTGTCGCAGACACGGT
CTTATATGTAAACAGATACG
Found at i:45829215 original size:44 final size:42
Alignment explanation
Indices: 45829052--45829196 Score: 168
Period size: 43 Copynumber: 3.4 Consensus size: 42
45829042 CAGAAAGCTC
* * * *
45829052 ATACAATGCCAATGTCCCAAACGTGGTCTTACA-TATAATCAA
1 ATACGATGCCAATGTCCCAAACATGATCTTACACGA-AATCAA
* * *
45829094 ATATCGATGCCACTGTCCTAAACAAGATCTTACACGAAATCAA
1 ATA-CGATGCCAATGTCCCAAACATGATCTTACACGAAATCAA
45829137 ATACGATGCCAATGTCCCAAACATGATCTTACACGTAAATCATA
1 ATACGATGCCAATGTCCCAAACATGATCTTACACG-AAATCA-A
45829181 AGTA-GATGCCAATGTC
1 A-TACGATGCCAATGTC
45829197 TTAGATGTGG
Statistics
Matches: 88, Mismatches: 10, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
42 32 0.36
43 39 0.44
44 15 0.17
45 2 0.02
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.25
Consensus pattern (42 bp):
ATACGATGCCAATGTCCCAAACATGATCTTACACGAAATCAA
Found at i:45836499 original size:32 final size:32
Alignment explanation
Indices: 45836460--45836544 Score: 143
Period size: 32 Copynumber: 2.6 Consensus size: 32
45836450 TTTAGTGAGT
45836460 CACACGCCTGTGTGGTTGGGGGCGTGTAGTCA
1 CACACGCCTGTGTGGTTGGGGGCGTGTAGTCA
*
45836492 CACACGCCTGTGTGGTTGGGGGCGTGTGGTCA
1 CACACGCCTGTGTGGTTGGGGGCGTGTAGTCA
*
45836524 CACACGCCCGTGTGGCTTGGG
1 CACACGCCTGTGTGG-TTGGG
45836545 ACACGCCCGT
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 45 0.90
33 5 0.10
ACGTcount: A:0.11, C:0.25, G:0.41, T:0.24
Consensus pattern (32 bp):
CACACGCCTGTGTGGTTGGGGGCGTGTAGTCA
Found at i:45858508 original size:46 final size:47
Alignment explanation
Indices: 45858345--45858706 Score: 208
Period size: 46 Copynumber: 7.7 Consensus size: 47
45858335 ATTGTAGGCT
* *** * *
45858345 AGTGTAAGA-CATGTCTGGGACATGCATCAGC-CACATTATGAAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCTTTGA-GATGTAAGCC
* * * * * *
45858391 AATGTAAGACCATGTCTGGGACATGGCATCGGCATTAAGACG-AGTGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCTTTGAGATGTA-AGCC
* *
45858439 AGTGTAAGA-AATGTCTGGGACATGCACCGGCTTTGAGATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCTTTGAGATGTAAGCC
* ** *
45858485 AGTGAAAGA-CATGTCTGGGACATGCATCGGCTACGAGATGT--GTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCTTTGAGATGTAAGCC
* ** * *
45858529 AGTGTAAGACCATGTCTGGGACATGGCATCGAC-ACGAATATGTGAAAGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCTTTG-AGATGT--AAGCC
* * * * * ** *
45858579 AGTGTAAGACCATGTCTGAGACATGGCGTCGACCTCGATTTCG-ATAGTC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCTTTGAGAT-GTA-AGCC
* *
45858628 AATGTAAGACCATGTCTGGGACATGGCATCGAC-TTGATGGATG--AGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCTTTGA--GATGTAAGCC
*
45858675 AGTGTAAGACCATGTCTAGGACATGACATCGG
1 AGTGTAAGACCATGTCTGGGACATG-CATCGG
45858707 TATTATACCC
Statistics
Matches: 254, Mismatches: 44, Indels: 35
0.76 0.13 0.11
Matches are distributed among these distances:
44 10 0.04
45 17 0.07
46 72 0.28
47 59 0.23
48 23 0.09
49 34 0.13
50 36 0.14
51 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCTTTGAGATGTAAGCC
Found at i:45858651 original size:49 final size:47
Alignment explanation
Indices: 45858345--45858705 Score: 212
Period size: 47 Copynumber: 7.7 Consensus size: 47
45858335 ATTGTAGGCT
* * * *
45858345 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCAC-ATTATGAAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTCGATT-TGATAGTC
* * * *
45858391 AATGTAAGACCATGTCTGGGACATGGCATCG--GC-ATTAAGACGAGTGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTCGATT-TGA-TAGT-C
* * * * ** *
45858438 TAGTGTAAGA-AATGTCTGGGACAT-GCACCGGCTTTGAGATG-TAAGCC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGAC-TCGATTTGAT-AGTC
* * **
45858485 AGTGAAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATG-T-GTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACT-CGATTTGATAGTC
* *
45858529 AGTGTAAGACCATGTCTGGGACATGGCATCGACACGAATATGTGAAAG-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTCG-AT-T-TGATAGTC
* *
45858578 TAGTGTAAGACCATGTCTGAGACATGGCGTCGACCTCGATTTCGATAGTC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGA-CTCGATTT-GATAGTC
* * * *
45858628 AATGTAAGACCATGTCTGGGACATGGCATCGACTTGA-TGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTCGATTTGAT-AGTC
* *
45858675 AGTGTAAGACCATGTCTAGGACATGACATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
45858706 GTATTATACC
Statistics
Matches: 253, Mismatches: 39, Indels: 45
0.75 0.12 0.13
Matches are distributed among these distances:
44 10 0.04
45 24 0.09
46 61 0.24
47 62 0.25
48 22 0.09
49 36 0.14
50 35 0.14
51 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTCGATTTGATAGTC
Found at i:45864918 original size:46 final size:46
Alignment explanation
Indices: 45864774--45864988 Score: 176
Period size: 46 Copynumber: 4.6 Consensus size: 46
45864764 ATTGTATGCT
* * *
45864774 AGTGTAAGACATGTCTAGGACATGCATC-AGCCAT--ATTATGAAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGA-CC-TCGA-GATGTAAGCC
* * ** * **
45864820 AATGTAAGACCATGTCTGGGACATGGCATCGACATTAAGA--CAAGTGTT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACCTCGAGATGTAA--GCC
45864868 AGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGATGTAAGCC
* *
45864914 AGTGTAAGACATGTCTGGGACATGCATCG-GCTACGAGATGT--GTC
1 AGTGTAAGACATGTCTGGGACATGCATCGACCT-CGAGATGTAAGCC
45864958 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCG
45864989 GCACGGATGT
Statistics
Matches: 141, Mismatches: 16, Indels: 24
0.78 0.09 0.13
Matches are distributed among these distances:
44 11 0.08
45 16 0.11
46 66 0.47
47 28 0.20
48 18 0.13
49 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGATGTAAGCC
Found at i:45864989 original size:46 final size:44
Alignment explanation
Indices: 45864822--45864998 Score: 189
Period size: 46 Copynumber: 3.9 Consensus size: 44
45864812 TGAAAGCCAA
* * * * *
45864822 TGTAAGACCATGTCTGGGACATGGCATCGACATTAAGACAAGTGTTAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGC--TACGAGATGTGTCAG
* *
45864870 TGTAAGACATGTCTGGGACATGCATCGACCT-CGAGATGTAAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCG-GCTACGAGATGT--GTCAG
45864916 TGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTGTCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTGTCAG
45864960 TGTAAGACCATGTCTGGGACATGGCATCGGC-ACG-GATGT
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGT
45864999 AACACCTCAA
Statistics
Matches: 115, Mismatches: 8, Indels: 16
0.83 0.06 0.12
Matches are distributed among these distances:
44 21 0.18
45 20 0.17
46 52 0.45
47 15 0.13
48 7 0.06
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (44 bp):
TGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTGTCAG
Found at i:45866007 original size:27 final size:26
Alignment explanation
Indices: 45865977--45866035 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
45865967 CCCTGTTTAG
*
45865977 AATACATTAGTTTACTAAAATTACCGA
1 AATACATTAGTTT-CTAAAAATACCGA
* * *
45866004 AATACCCTTAGTTTGTAAAAATACTGA
1 AATA-CATTAGTTTCTAAAAATACCGA
45866031 AATAC
1 AATAC
45866036 CCTCGATTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 1 0.04
27 18 0.67
28 8 0.30
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.32
Consensus pattern (26 bp):
AATACATTAGTTTCTAAAAATACCGA
Found at i:45866090 original size:27 final size:27
Alignment explanation
Indices: 45865992--45866081 Score: 110
Period size: 27 Copynumber: 3.3 Consensus size: 27
45865982 ATTAGTTTAC
* * *
45865992 TAAAATTACCGAAATACCCT-TAGTTTG
1 TAAAATTACTGAAATACCCTCGA-CTTG
* *
45866019 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACTGAAATACCCTCGACTTG
*
45866046 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACTGAAATACCCTCGACTTG
45866073 TAAAATTAC
1 TAAAATTAC
45866082 CAAAGTACCC
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 55 0.98
28 1 0.02
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (27 bp):
TAAAATTACTGAAATACCCTCGACTTG
Found at i:45866091 original size:54 final size:54
Alignment explanation
Indices: 45865992--45866098 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
45865982 ATTAGTTTAC
* * *
45865992 TAAAATTACCGAAATACCCTTAGTTTGTAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
* * *
45866046 TAAAATTACTGAAATA-CCTTCGACTTGTAAAATTAC-CAAAGTACCCCCGATTT
1 TAAAATTACCGAAATACCCTTAG-CTTGTAAAAATACTCAAA-TACCCCCGATTT
45866099 ACAGAATTAC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 8 0.18
54 37 0.82
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (54 bp):
TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
Found at i:45866106 original size:27 final size:27
Alignment explanation
Indices: 45866087--45866296 Score: 235
Period size: 27 Copynumber: 7.8 Consensus size: 27
45866077 ATTACCAAAG
*
45866087 TACCCCCGATTTACAGAATTACCGTTT
1 TACCCCCGATTTACAGAATTACCATTT
*
45866114 TACCCCCGATTTACATAATTACCATTT
1 TACCCCCGATTTACAGAATTACCATTT
* *
45866141 TACCCCCGATTTACATAATTACCGTTT
1 TACCCCCGATTTACAGAATTACCATTT
* * *
45866168 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCCCGATTTACAGAATTACCATTT
** * *
45866195 TACCCTGGATTTATAGAATTGCCATTT
1 TACCCCCGATTTACAGAATTACCATTT
* * *
45866222 TACCCTCGATTTATAGAATTACTATTT
1 TACCCCCGATTTACAGAATTACCATTT
**
45866249 TACCCTTGATTTACAGAATTA--ATGTT
1 TACCCCCGATTTACAGAATTACCAT-TT
* *
45866275 TACCCTCGATTTACAAAATTAC
1 TACCCCCGATTTACAGAATTAC
45866297 TAAAATACCC
Statistics
Matches: 163, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
25 2 0.01
26 21 0.13
27 140 0.86
ACGTcount: A:0.29, C:0.25, G:0.09, T:0.38
Consensus pattern (27 bp):
TACCCCCGATTTACAGAATTACCATTT
Found at i:45866134 original size:54 final size:54
Alignment explanation
Indices: 45866087--45866296 Score: 260
Period size: 54 Copynumber: 3.9 Consensus size: 54
45866077 ATTACCAAAG
* *
45866087 TACCCCCGATTTACAGAATTACCGTTTTACCCCCGATTTACATAATTACCATTT
1 TACCCCCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTT
* * *
45866141 TACCCCCGATTTACATAATTACCGTTTTACCCTCGACTTACAGAATTACCGTTT
1 TACCCCCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTT
** * * * * *
45866195 TACCCTGGATTTATAGAATTGCCATTTTACCCTCGATTTATAGAATTACTATTT
1 TACCCCCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTT
** ** *
45866249 TACCCTTGATTTACAGAATTAATG-TTTACCCTCGATTTACAAAATTAC
1 TACCCCCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTAC
45866297 TAAAATACCC
Statistics
Matches: 133, Mismatches: 23, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
53 22 0.17
54 111 0.83
ACGTcount: A:0.29, C:0.25, G:0.09, T:0.38
Consensus pattern (54 bp):
TACCCCCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTT
Found at i:45866161 original size:81 final size:81
Alignment explanation
Indices: 45866087--45866296 Score: 269
Period size: 81 Copynumber: 2.6 Consensus size: 81
45866077 ATTACCAAAG
* * *
45866087 TACCCCCGATTTACAGAATTACCGTTTTACCCCCGATTTACATAATTACCATTTTACCCCCGATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTACCCCCGATT
* *
45866152 TACATAATTACCGTTT
66 TACAGAATTACCATTT
* * * * * *
45866168 TACCCTCGACTTACAGAATTACCGTTTTACCCTGGATTTATAGAATTGCCATTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTACCCCCGATT
* *
45866233 TATAGAATTACTATTT
66 TACAGAATTACCATTT
* **
45866249 TACCCTTGATTTACAGAATTAATG-TTTACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTAC
45866297 TAAAATACCC
Statistics
Matches: 109, Mismatches: 20, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
80 20 0.18
81 89 0.82
ACGTcount: A:0.29, C:0.25, G:0.09, T:0.38
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTACCCCCGATT
TACAGAATTACCATTT
Found at i:45866319 original size:27 final size:27
Alignment explanation
Indices: 45866289--45866525 Score: 174
Period size: 27 Copynumber: 8.7 Consensus size: 27
45866279 CTCGATTTAC
*
45866289 AAAATTACTAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* *
45866316 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
45866343 AAAATTACCAAAATACCAC-TGGTTTGT
1 AAAATTACCAAAATACC-CTTGGTTTGT
* * * ***
45866370 GAAATTAACGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* * **
45866397 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACCAAAATACCCTTGGTTTGT
* * * *
45866424 AAAGTTACAAAAATACCCTTGACTTTCT
1 AAAATTACCAAAATACCCTTG-GTTTGT
* ** * **
45866452 GAAAATTA-TAGAAATA-TATTGGTATAC
1 -AAAATTACCA-AAATACCCTTGGTTTGT
* *
45866479 AAAATTACTAAAATACCTTTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* *
45866506 AGATTTACCAAAATACCCTT
1 AAAATTACCAAAATACCCTT
45866526 TTAGGATGAA
Statistics
Matches: 162, Mismatches: 41, Indels: 14
0.75 0.19 0.06
Matches are distributed among these distances:
26 13 0.08
27 130 0.80
28 8 0.05
29 11 0.07
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTGGTTTGT
Done.