Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 105 of 297
Found at i:37721821 original size:42 final size:41
Alignment explanation
Indices: 37721750--37721889 Score: 122
Period size: 42 Copynumber: 3.3 Consensus size: 41
37721740 TCTTACATGT
*
37721750 AATCAAATATCAATGCCATTGTCCCAGACAGGGTCTTACACAA
1 AATCAAATAT-GATGCCA-TGTCCCAGACAGGGTCTTACACAA
*
37721793 AATCAAATATGATGCCGATGTCCCAGACATGGTCTTACACGTAA
1 AATCAAATATGATGCC-ATGTCCCAGACAGGGTCTTACAC--AA
* * * * *
37721837 ATCTCAAAT-CGATGCCAACGTCCCAGA-TGTGGTCTTACACGA
1 A-ATCAAATATGATGCC-ATGTCCCAGACAG-GGTCTTACACAA
*
37721879 AATCACATATG
1 AATCAAATATG
37721890 GAAAATCCTA
Statistics
Matches: 79, Mismatches: 12, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
41 5 0.06
42 29 0.37
43 11 0.14
44 28 0.35
45 6 0.08
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.24
Consensus pattern (41 bp):
AATCAAATATGATGCCATGTCCCAGACAGGGTCTTACACAA
Found at i:37721839 original size:43 final size:42
Alignment explanation
Indices: 37721719--37721889 Score: 143
Period size: 43 Copynumber: 4.0 Consensus size: 42
37721709 AGCTCGTACA
* ** * *
37721719 ATGCCATCGTCTCAGATGTGGTCTTACATGT-AATCAAATATCA
1 ATGCCAT-GTCCCAGACATGGTCTTACACGTAAATCAAATAT-G
* *
37721762 ATGCCATTGTCCCAGACAGGGTCTTACAC-AAAATCAAATATG
1 ATGCCA-TGTCCCAGACATGGTCTTACACGTAAATCAAATATG
*
37721804 ATGCCGATGTCCCAGACATGGTCTTACACGTAAATCTCAAAT-CG
1 ATGCC-ATGTCCCAGACATGGTCTTACACGTAAA--TCAAATATG
* ** *
37721848 ATGCCAACGTCCCAGATGTGGTCTTACACG-AAATCACATATG
1 ATGCC-ATGTCCCAGACATGGTCTTACACGTAAATCAAATATG
37721890 GAAAATCCTA
Statistics
Matches: 105, Mismatches: 16, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
41 5 0.05
42 27 0.26
43 39 0.37
44 28 0.27
45 6 0.06
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.26
Consensus pattern (42 bp):
ATGCCATGTCCCAGACATGGTCTTACACGTAAATCAAATATG
Found at i:37721863 original size:44 final size:44
Alignment explanation
Indices: 37721752--37721882 Score: 133
Period size: 44 Copynumber: 3.0 Consensus size: 44
37721742 TTACATGTAA
* ** * *
37721752 TCAAATATCAATGCCATTGTCCCAGACAGGGTCTTACAC-AAA-A
1 TCAAATA-CGATGCCAACGTCCCAGACATGGTCTTACACGAAATC
* * *
37721795 TCAAATATGATGCCGATGTCCCAGACATGGTCTTACACGTAAATC
1 TCAAATACGATGCCAACGTCCCAGACATGGTCTTACACG-AAATC
**
37721840 TCAAAT-CGATGCCAACGTCCCAGATGTGGTCTTACACGAAATC
1 TCAAATACGATGCCAACGTCCCAGACATGGTCTTACACGAAATC
37721883 ACATATGGAA
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
42 26 0.35
43 12 0.16
44 30 0.41
45 6 0.08
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (44 bp):
TCAAATACGATGCCAACGTCCCAGACATGGTCTTACACGAAATC
Found at i:37728724 original size:22 final size:22
Alignment explanation
Indices: 37728699--37728740 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
37728689 CTTTTCACAT
*
37728699 CCATTCTCATATCAAATTCATA
1 CCATTCTCATAACAAATTCATA
* *
37728721 CCATTTTCATAACTAATTCA
1 CCATTCTCATAACAAATTCA
37728741 AATAACTAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.36, C:0.26, G:0.00, T:0.38
Consensus pattern (22 bp):
CCATTCTCATAACAAATTCATA
Found at i:37731365 original size:13 final size:13
Alignment explanation
Indices: 37731347--37731374 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
37731337 TTAAAATATG
37731347 ATTTTATTTTATC
1 ATTTTATTTTATC
37731360 ATTTTATTTTATC
1 ATTTTATTTTATC
37731373 AT
1 AT
37731375 ATTCTTCTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (13 bp):
ATTTTATTTTATC
Found at i:37733432 original size:8 final size:8
Alignment explanation
Indices: 37733421--37733448 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
37733411 TTAAATTGAT
37733421 AAATGCCG
1 AAATGCCG
37733429 AAATGCCG
1 AAATGCCG
37733437 AAATGCCG
1 AAATGCCG
37733445 AAAT
1 AAAT
37733449 TCTGGCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.21, G:0.21, T:0.14
Consensus pattern (8 bp):
AAATGCCG
Found at i:37733979 original size:20 final size:20
Alignment explanation
Indices: 37733954--37734020 Score: 118
Period size: 20 Copynumber: 3.4 Consensus size: 20
37733944 GTTTTGATAT
37733954 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
37733974 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
37733994 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
37734014 ACATGAT
1 ACATGAT
37734021 GTATTCATAA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
20 44 0.96
21 2 0.04
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:37733981 original size:11 final size:11
Alignment explanation
Indices: 37733965--37734020 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
37733955 CATGATTGAT
37733965 ATGATATGCAC
1 ATGATATGCAC
*
37733976 ATGATATG--T
1 ATGATATGCAC
37733985 ATGATATGCAC
1 ATGATATGCAC
*
37733996 ATGATATG--T
1 ATGATATGCAC
37734005 ATGATATGCAC
1 ATGATATGCAC
37734016 ATGAT
1 ATGAT
37734021 GTATTCATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.34
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:37734034 original size:40 final size:39
Alignment explanation
Indices: 37733954--37734034 Score: 103
Period size: 40 Copynumber: 2.0 Consensus size: 39
37733944 GTTTTGATAT
*
37733954 ACATGATTGATATGATATGCACATGATATGTATGATATGC
1 ACATGATTGATATGATATGCACATGA-ATGTATCATATGC
37733994 ACATGATATG-TATGATATGCACATG-ATGTATTCATAATGC
1 ACATGAT-TGATATGATATGCACATGAATGTA-TCAT-ATGC
37734034 A
1 A
37734035 TTGGGTTGGG
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
38 5 0.14
39 3 0.08
40 27 0.73
41 2 0.05
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.35
Consensus pattern (39 bp):
ACATGATTGATATGATATGCACATGAATGTATCATATGC
Found at i:37734162 original size:24 final size:24
Alignment explanation
Indices: 37734068--37734175 Score: 139
Period size: 25 Copynumber: 4.4 Consensus size: 24
37734058 AGGAAGTGCA
*
37734068 AAAAGGGCTATGCCCCAGTTTACTGT
1 AAAAGGGCTTTGCCCCAGTTTA-T-T
37734094 -AAAGGGCTTTTGCCCCAGTTTATT
1 AAAAGGGC-TTTGCCCCAGTTTATT
*
37734118 AAAAGGGCTTTCGCCCCAGTTTATC
1 AAAAGGGCTTT-GCCCCAGTTTATT
37734143 AAAAGGGCTTTGCCCCAG-TTATT
1 AAAAGGGCTTTGCCCCAGTTTATT
37734166 AAAAGAGGCT
1 AAAAG-GGCT
37734176 AGGCCTCCAG
Statistics
Matches: 75, Mismatches: 3, Indels: 10
0.85 0.03 0.11
Matches are distributed among these distances:
23 9 0.12
24 15 0.20
25 38 0.51
26 13 0.17
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATT
Found at i:37734186 original size:49 final size:50
Alignment explanation
Indices: 37734068--37734187 Score: 147
Period size: 49 Copynumber: 2.4 Consensus size: 50
37734058 AGGAAGTGCA
* **
37734068 AAAAGGGCTATGCCCCAGTTTACTGTAAAGGGCTTTTGCCCCAGTTTATT
1 AAAAGGGCTACGCCCCAGTTTACTCAAAAGGGCTTTTGCCCCAGTTTATT
*
37734118 AAAAGGGCTTTCGCCCCAGTTTA-TCAAAAGGGC-TTTGCCCCAG-TTATT
1 AAAAGGGC-TACGCCCCAGTTTACTCAAAAGGGCTTTTGCCCCAGTTTATT
*
37734166 AAAAGAGGCTAGGCCTCCAGTT
1 AAAAG-GGCTACGCC-CCAGTT
37734188 ATATGATAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
48 14 0.23
49 19 0.31
50 16 0.26
51 12 0.20
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (50 bp):
AAAAGGGCTACGCCCCAGTTTACTCAAAAGGGCTTTTGCCCCAGTTTATT
Found at i:37734431 original size:31 final size:31
Alignment explanation
Indices: 37734384--37734447 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
37734374 CATTTACAGT
*
37734384 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGACTTCGGCCCAGTAATATGAAATATGA
* **
37734415 AAAGACTTCGGTCCAGTGTTATGAAATATGA
1 AAAGACTTCGGCCCAGTAATATGAAATATGA
37734446 AA
1 AA
37734448 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGACTTCGGCCCAGTAATATGAAATATGA
Found at i:37750808 original size:39 final size:39
Alignment explanation
Indices: 37750753--37750937 Score: 262
Period size: 39 Copynumber: 4.7 Consensus size: 39
37750743 TTCCAACCCA
* * * ** *
37750753 AATGCCTTCAGAACTTAGTCCAAATATAACATCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
* * *
37750792 AATGCTTTCGGGACTTAGCCCGGATATAATATCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
* *
37750831 AATGCCTTCGGGACTTAGCCCGGATATAATACCCGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
37750870 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
*
37750909 AATGCCTTCGGGACTTAGCCCAGATATAA
1 AATGCCTTCGGGACTTAGCCCGGATATAA
37750938 ATCTCACACA
Statistics
Matches: 133, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 133 1.00
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
Found at i:37752937 original size:40 final size:40
Alignment explanation
Indices: 37752870--37753034 Score: 208
Period size: 40 Copynumber: 4.2 Consensus size: 40
37752860 GGACTAAGAT
* * ***
37752870 CCGAAGGCATTTGTGTGAGTTACTATATCCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAAAC
* * *
37752910 CCGAAGGCATTTATGCTAG-TGATTATATCCGGGCTAAAAC
1 CCGAAGGCATTTGTGCGAGTTG-CTATATCCGGGCTAAAAC
*
37752950 CCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGAC
1 CCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAAAC
* *
37752990 CCGAAGGCATTTGTGCGAGTTGTTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAAAC
37753029 CCGAAG
1 CCGAAG
37753035 ATACTTGGGT
Statistics
Matches: 108, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
39 14 0.13
40 92 0.85
41 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAAAC
Found at i:37753016 original size:80 final size:79
Alignment explanation
Indices: 37752870--37753034 Score: 242
Period size: 80 Copynumber: 2.1 Consensus size: 79
37752860 GGACTAAGAT
* * * *
37752870 CCGAAGGCATTTGTGTGAGTTACTATATCCGGGCTATGTCCCGAAGGCATTTATGCTAGTGATTA
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGATTA
37752935 TATCCGGGCTAAAAC
66 TATCC-GGCTAAAAC
* *
37752950 CCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TT
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTTATGCGAG-TGATT
*
37753014 ATATCCGGCTAAATC
65 ATATCCGGCTAAAAC
37753029 CCGAAG
1 CCGAAG
37753035 ATACTTGGGT
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
79 14 0.18
80 61 0.79
81 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGATTA
TATCCGGCTAAAAC
Found at i:37753302 original size:22 final size:22
Alignment explanation
Indices: 37753262--37753303 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
37753252 GAATGTGCAT
*
37753262 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
37753284 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
37753304 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:37755189 original size:42 final size:41
Alignment explanation
Indices: 37755084--37755229 Score: 147
Period size: 41 Copynumber: 3.5 Consensus size: 41
37755074 TCCGACTCTT
* * *
37755084 AGCACCGGCTCAAAAGCCCTTCGAGACCAAG-CTCGGATTA-G
1 AGCACTGGCTCAAAAGCCCTTCGAAACTAAGTC-CGG-TTATG
* * *
37755125 A-CTACTGGCTCGAAGGCCCTTCGGAACTAAGTCCGGTTATG
1 AGC-ACTGGCTCAAAAGCCCTTCGAAACTAAGTCCGGTTATG
* *
37755166 A-CACTGGCTCTAAAAAGCCCTTCGAAACTAAGTTCGGTTATT
1 AGCACTGGCTC--AAAAGCCCTTCGAAACTAAGTCCGGTTATG
37755208 AGCACTGGCTCAAAAGCCCTTC
1 AGCACTGGCTCAAAAGCCCTTC
37755230 TAGACCAAGC
Statistics
Matches: 88, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
40 12 0.14
41 40 0.45
42 27 0.31
43 9 0.10
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (41 bp):
AGCACTGGCTCAAAAGCCCTTCGAAACTAAGTCCGGTTATG
Found at i:37764445 original size:51 final size:49
Alignment explanation
Indices: 37764326--37764513 Score: 223
Period size: 49 Copynumber: 3.8 Consensus size: 49
37764316 AAGGCTATCT
* * ** * *
37764326 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATTT
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGATCAATTATTA
* *
37764375 GATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATTA
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGATC-AA-TTATTA
* * * **
37764426 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGATCAATTATCC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGATCAATTATTA
* *
37764475 GGTACACGTAGTAGCCTGTACTTAGTACTACACACGTGA
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA
37764514 CCTCACAATA
Statistics
Matches: 117, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
49 72 0.62
50 4 0.03
51 41 0.35
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (49 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGATCAATTATTA
Found at i:37764461 original size:100 final size:100
Alignment explanation
Indices: 37764326--37764513 Score: 322
Period size: 100 Copynumber: 1.9 Consensus size: 100
37764316 AAGGCTATCT
**
37764326 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATTTGATACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGATACACGTAGTAGCC
37764391 TGCACTTAGTACTACACACGTGATCGAAGTTATTA
66 TGCACTTAGTACTACACACGTGATCGAAGTTATTA
* * *
37764426 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGATCAATTATCCGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGATACACGTAGTAGCC
*
37764491 TGTACTTAGTACTACACACGTGA
66 TGCACTTAGTACTACACACGTGA
37764514 CCTCACAATA
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 82 1.00
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGATACACGTAGTAGCC
TGCACTTAGTACTACACACGTGATCGAAGTTATTA
Found at i:37769400 original size:31 final size:30
Alignment explanation
Indices: 37769362--37769422 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 30
37769352 AACTGAAACT
* *
37769362 GAACCGCTGCTTAATTGGTCTTAGGCCCAG
1 GAACCGCTGCTGAATTGGGCTTAGGCCCAG
37769392 NGAACCGCTGCTGAATTGGGCTTAGGCCCAG
1 -GAACCGCTGCTGAATTGGGCTTAGGCCCAG
37769423 ACTGTATATG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.20, C:0.26, G:0.30, T:0.23
Consensus pattern (30 bp):
GAACCGCTGCTGAATTGGGCTTAGGCCCAG
Found at i:37776255 original size:51 final size:49
Alignment explanation
Indices: 37776134--37776320 Score: 221
Period size: 49 Copynumber: 3.8 Consensus size: 49
37776124 AGGTCACGTT
* *
37776134 TGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATG
1 TGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCGCATG
* * * * ** *
37776183 TGTAATACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTATTCACATG
1 TGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-T-TGGTCGCATG
* * * *
37776234 TGTAGTACTAAGTGTAGGCTACTACGTGTACGAGATTATTGGTCGCATG
1 TGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCGCATG
* *
37776283 TGTAGTACTAAGTGTAGGCTACTATGCGTACCAGATAA
1 TGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA
37776321 CTTCGGCTAC
Statistics
Matches: 113, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
49 74 0.65
50 2 0.02
51 37 0.33
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (49 bp):
TGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCGCATG
Found at i:37776307 original size:100 final size:100
Alignment explanation
Indices: 37776134--37776314 Score: 310
Period size: 100 Copynumber: 1.8 Consensus size: 100
37776124 AGGTCACGTT
37776134 TGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAATACTAAGTGCA
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAATACTAAGTGCA
37776199 GGCTACTATGCGTACCCGAAAACTGTATTCACATG
66 GGCTACTATGCGTACCCGAAAACTGTATTCACATG
* * * *
37776234 TGTAGTACTAAGTGTAGGCTACTACGTGTA-CGAGATTATTGGTCGCATGTGTAGTACTAAGTGT
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCG-GATAATTGGTCGCATGTGTAATACTAAGTGC
37776298 AGGCTACTATGCGTACC
65 AGGCTACTATGCGTACC
37776315 AGATAACTTC
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
99 2 0.03
100 74 0.97
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (100 bp):
TGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAATACTAAGTGCA
GGCTACTATGCGTACCCGAAAACTGTATTCACATG
Found at i:37779657 original size:72 final size:72
Alignment explanation
Indices: 37778683--37779625 Score: 1877
Period size: 72 Copynumber: 13.1 Consensus size: 72
37778673 AATGAATTTA
*
37778683 CTTTGGTAAATTGAATTACTCAGATACAAGGTCGAGAAAAGTGTAAATCAAAATTTATTCAGAAC
1 CTTTAGTAAATTGAATTACTCAGATACAAGGTCGAGAAAAGTGTAAATCAAAATTTATTCAGAAC
37778748 TAGTCTT
66 TAGTCTT
37778755 CTTTAGTAAATTGAATTACTCAGATACAAGGTCGAGAAAAGTGTAAATCAAAATTTATTCAGAAC
1 CTTTAGTAAATTGAATTACTCAGATACAAGGTCGAGAAAAGTGTAAATCAAAATTTATTCAGAAC
37778820 TAGTCTT
66 TAGTCTT
37778827 CTTTAGTAAATTGAATTACTCAGATACAAGGTCGAGAAAAGTGTAAATCAAAATTTATTCAGAAC
1 CTTTAGTAAATTGAATTACTCAGATACAAGGTCGAGAAAAGTGTAAATCAAAATTTATTCAGAAC
37778892 TAGTCTT
66 TAGTCTT
37778899 CTTTAGTAAATTGAATTACTCAGATACAAGGTCGAGAAAAGTGTAAATCAAAATTTATTCAGAAC
1 CTTTAGTAAATTGAATTACTCAGATACAAGGTCGAGAAAAGTGTAAATCAAAATTTATTCAGAAC
37778964 TAGTCTT
66 TAGTCTT
37778971 CTTTAGTAAATTGAATTACTCAGATACAAGGTCGAGAAAAGTGTAAATCAAAATTTATTCAGAAC
1 CTTTAGTAAATTGAATTACTCAGATACAAGGTCGAGAAAAGTGTAAATCAAAATTTATTCAGAAC
37779036 TAGTCTT
66 TAGTCTT
37779043 CTTTAGTAAATTGAATTACTCAGATACAAGGTCGAGAAAAGTGTAAATCAAAATTTATTCAGAAC
1 CTTTAGTAAATTGAATTACTCAGATACAAGGTCGAGAAAAGTGTAAATCAAAATTTATTCAGAAC
37779108 TAGTCTT
66 TAGTCTT
37779115 CTTTAGTAAATTGAATTACTCAGATACAAGGTCGAGAAAAGTGTAAATCAAAATTTATTCAGAAC
1 CTTTAGTAAATTGAATTACTCAGATACAAGGTCGAGAAAAGTGTAAATCAAAATTTATTCAGAAC
37779180 TAGTCTT
66 TAGTCTT
37779187 CTTTAGTAAATTGAATTACTCAGATACAAGGTCGAGAAAAGTGTAAATCAAAATTTATTCAGAAC
1 CTTTAGTAAATTGAATTACTCAGATACAAGGTCGAGAAAAGTGTAAATCAAAATTTATTCAGAAC
37779252 TAGTCTT
66 TAGTCTT
37779259 CTTTAGTAAATTGAATTACTCAGATACAAGGTCGAGAAAAGTGTAAATCAAAATTTATTCAGAAC
1 CTTTAGTAAATTGAATTACTCAGATACAAGGTCGAGAAAAGTGTAAATCAAAATTTATTCAGAAC
37779324 TAGTCTT
66 TAGTCTT
37779331 CTTTAGTAAATTGAATTACTCAGATACAAGGTCGAGAAAAGTGTAAATCAAAATTTATTCAGAAC
1 CTTTAGTAAATTGAATTACTCAGATACAAGGTCGAGAAAAGTGTAAATCAAAATTTATTCAGAAC
37779396 TAGTCTT
66 TAGTCTT
37779403 CTTTAGTAAATTGAATTACTCAGATACAAGGTCGAGAAAAGTGTAAATCAAAATTTATTCAGAAC
1 CTTTAGTAAATTGAATTACTCAGATACAAGGTCGAGAAAAGTGTAAATCAAAATTTATTCAGAAC
37779468 TAGTCTT
66 TAGTCTT
37779475 CTTTAGTAAATTGAATTACTCAGATACAAGGTCGAGAAAAGTGTAAATCAAAATTTATTCAGAAC
1 CTTTAGTAAATTGAATTACTCAGATACAAGGTCGAGAAAAGTGTAAATCAAAATTTATTCAGAAC
37779540 TAGTCTT
66 TAGTCTT
37779547 CTTTAGTAAATTGAATTACTCAGATACAAGGTCGAGAAAAGTGTAAATCAAAATTTATTCAGAAC
1 CTTTAGTAAATTGAATTACTCAGATACAAGGTCGAGAAAAGTGTAAATCAAAATTTATTCAGAAC
37779612 TAGTCTT
66 TAGTCTT
37779619 CTTTAGT
1 CTTTAGT
37779626 GAAAAGTAAT
Statistics
Matches: 870, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 870 1.00
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (72 bp):
CTTTAGTAAATTGAATTACTCAGATACAAGGTCGAGAAAAGTGTAAATCAAAATTTATTCAGAAC
TAGTCTT
Found at i:37780160 original size:15 final size:15
Alignment explanation
Indices: 37780140--37780202 Score: 67
Period size: 15 Copynumber: 4.2 Consensus size: 15
37780130 CATAGTATCG
*
37780140 TATCTTGGGTTTCTT
1 TATCTTGGATTTCTT
37780155 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
*
37780170 TAT-TCTGGGTTT-TT
1 TATCT-TGGATTTCTT
*
37780184 CTACCTTGGATTTCTT
1 -TATCTTGGATTTCTT
37780200 TAT
1 TAT
37780203 TCGGTTTTCT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
14 3 0.08
15 33 0.85
16 3 0.08
ACGTcount: A:0.11, C:0.14, G:0.16, T:0.59
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:37780181 original size:30 final size:31
Alignment explanation
Indices: 37780145--37780213 Score: 99
Period size: 30 Copynumber: 2.3 Consensus size: 31
37780135 TATCGTATCT
*
37780145 TGGGTTTCTT-TATCTTGGATTTCTTTATTC
1 TGGGTTTCTTCTACCTTGGATTTCTTTATTC
37780175 TGGGTTT-TTCTACCTTGGATTTCTTTATTC
1 TGGGTTTCTTCTACCTTGGATTTCTTTATTC
*
37780205 -GGTTTTCTT
1 TGGGTTTCTT
37780214 GTTATCTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 7 0.20
30 28 0.80
ACGTcount: A:0.09, C:0.14, G:0.17, T:0.59
Consensus pattern (31 bp):
TGGGTTTCTTCTACCTTGGATTTCTTTATTC
Found at i:37785854 original size:42 final size:43
Alignment explanation
Indices: 37785793--37785875 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 43
37785783 TATAATTTAC
*
37785793 GTGTAAGACCATGTTTGGGACA-TCGACATCG-TATTTGATTTT
1 GTGTAAGACCATGTCTGGGACAGT-GACATCGATATTTGATTTT
* *
37785835 GTGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGATT
1 GTGTAAGACCATGTCTGGGACAGTGACATCGATATTTGATT
37785876 ACATGTAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
42 26 0.72
43 10 0.28
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.35
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACAGTGACATCGATATTTGATTTT
Found at i:37789732 original size:42 final size:43
Alignment explanation
Indices: 37789618--37789783 Score: 135
Period size: 44 Copynumber: 3.9 Consensus size: 43
37789608 AAAGCTCGTA
* *
37789618 CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAATAT
1 CAATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATAT
* * * *
37789661 CAATGCCACTGTCTCATACA-GG-CGTTACACGAAATCATATA-
1 CAATGCCAATGTCCCAGACATGGTC-TTACACGAAATCAAATAT
* * * *
37789702 CGATTCTAATGTCCCAGACATGGTCTTACACACAAAT-AACA-AGT
1 CAATGCCAATGTCCCAGACATGGTCTTACAC-GAAATCAA-ATA-T
* * * *
37789746 CGATGCCAACGTCCCAGACGTGGTCTTACACGATATCA
1 CAATGCCAATGTCCCAGACATGGTCTTACACGAAATCA
37789784 CACCTCGAAA
Statistics
Matches: 95, Mismatches: 20, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
41 15 0.16
42 26 0.27
43 26 0.27
44 28 0.29
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.25
Consensus pattern (43 bp):
CAATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATAT
Found at i:37792400 original size:28 final size:28
Alignment explanation
Indices: 37792312--37792449 Score: 109
Period size: 28 Copynumber: 5.0 Consensus size: 28
37792302 AAAGGTAGCC
* *
37792312 CTTTT-AGAGTTTGCCACAAAGGCTTTT
1 CTTTTCAGAGTTTGCCACAAATGCTATT
* * *
37792339 GTTTTCAAAGTTTGCCGCACAA-GCTATT
1 CTTTTCAGAGTTTGCCACA-AATGCTATT
* * *
37792367 CTTTTCAGAGTTTGCCACACATGTTTTT
1 CTTTTCAGAGTTTGCCACAAATGCTATT
* * ** *
37792395 CCTTTCACAGTTCACCACAAATGTTATT
1 CTTTTCAGAGTTTGCCACAAATGCTATT
* * *
37792423 CTTTTCAGAGTTCGCCATAAAGGCTAT
1 CTTTTCAGAGTTTGCCACAAATGCTAT
37792450 CCTAACTGTC
Statistics
Matches: 86, Mismatches: 22, Indels: 5
0.76 0.19 0.04
Matches are distributed among these distances:
27 5 0.06
28 79 0.92
29 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.38
Consensus pattern (28 bp):
CTTTTCAGAGTTTGCCACAAATGCTATT
Found at i:37792401 original size:56 final size:56
Alignment explanation
Indices: 37792312--37792447 Score: 141
Period size: 56 Copynumber: 2.4 Consensus size: 56
37792302 AAAGGTAGCC
** ** *
37792312 CTTTT-AGAGTTTGCCACAAAGGCTTTTGTTTTCAAAGTTTGCCGCACAA-GCTATT
1 CTTTTCAGAGTTTGCCACAAAGGCTTTTCCTTTCAAAGTTCACCACA-AATGCTATT
* * * * *
37792367 CTTTTCAGAGTTTGCCACACATGTTTTTCCTTTCACAGTTCACCACAAATGTTATT
1 CTTTTCAGAGTTTGCCACAAAGGCTTTTCCTTTCAAAGTTCACCACAAATGCTATT
* *
37792423 CTTTTCAGAGTTCGCCATAAAGGCT
1 CTTTTCAGAGTTTGCCACAAAGGCT
37792448 ATCCTAACTG
Statistics
Matches: 64, Mismatches: 15, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
55 7 0.11
56 57 0.89
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (56 bp):
CTTTTCAGAGTTTGCCACAAAGGCTTTTCCTTTCAAAGTTCACCACAAATGCTATT
Found at i:37795637 original size:29 final size:29
Alignment explanation
Indices: 37795603--37795695 Score: 143
Period size: 29 Copynumber: 3.2 Consensus size: 29
37795593 GATCCAGAGA
37795603 CTGTTTGTTGTATACCATGACATGTATAT
1 CTGTTTGTTGTATACCATGACATGTATAT
* *
37795632 CTGTTTGTTGTATACCATGATAT-TCTGATT
1 CTGTTTGTTGTATACCATGACATGTAT-A-T
37795662 CTGTTTGTTGTATACCATGACATGTATAT
1 CTGTTTGTTGTATACCATGACATGTATAT
37795691 CTGTT
1 CTGTT
37795696 GCATGGGATA
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
28 2 0.04
29 29 0.51
30 24 0.42
31 2 0.04
ACGTcount: A:0.22, C:0.14, G:0.17, T:0.47
Consensus pattern (29 bp):
CTGTTTGTTGTATACCATGACATGTATAT
Found at i:37795775 original size:28 final size:27
Alignment explanation
Indices: 37795730--37795816 Score: 95
Period size: 27 Copynumber: 3.2 Consensus size: 27
37795720 GGAGGAAGCG
*
37795730 TTCTGGTGGCCCTGCCACAAATATCTAT
1 TTCTGGTGGCTCTGCCAC-AATATCTAT
* *
37795758 TTCTGGTGGCTCTACCACAATATCTGT
1 TTCTGGTGGCTCTGCCACAATATCTAT
* * * *
37795785 ATCTAGTGACTCTGTCACAATATCTA-
1 TTCTGGTGGCTCTGCCACAATATCTAT
37795811 TTCTGG
1 TTCTGG
37795817 CAGCCATGCT
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
26 4 0.08
27 28 0.58
28 16 0.33
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (27 bp):
TTCTGGTGGCTCTGCCACAATATCTAT
Found at i:37800364 original size:28 final size:27
Alignment explanation
Indices: 37800332--37800384 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
37800322 TAGAATACTT
37800332 TAGTTTACTAAAATTACCGAAATACCTA
1 TAGTTT-CTAAAATTACCGAAATACCTA
* *
37800360 TAGTTTGTAAAATTACTGAAATACC
1 TAGTTTCTAAAATTACCGAAATACC
37800385 CTCGATTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 17 0.74
28 6 0.26
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.34
Consensus pattern (27 bp):
TAGTTTCTAAAATTACCGAAATACCTA
Found at i:37800410 original size:54 final size:54
Alignment explanation
Indices: 37800340--37800518 Score: 175
Period size: 54 Copynumber: 3.3 Consensus size: 54
37800330 TTTAGTTTAC
* * *
37800340 TAAAATTACCGAAATACCTATAGTTTGTAAAATTACTGAAATACCCTCGATTTG
1 TAAAATTACCAAAATACCTATCGATTGTAAAATTACTGAAATACCCTCGATTTG
**** * * * * *
37800394 TAAAATTATTGTAATACCT-TCGACTTGTAAAATTAC-CAAAGCACCCCCGGTTTA
1 TAAAATTACCAAAATACCTATCGA-TTGTAAAATTACTGAAA-TACCCTCGATTTG
* * *
37800448 TAAAATTACCAAAATA-CTATCGATTATAAAATTACTGAAATGCCCTCAATTTG
1 TAAAATTACCAAAATACCTATCGATTGTAAAATTACTGAAATACCCTCGATTTG
*
37800501 TAAAATTACCAAAGTACC
1 TAAAATTACCAAAATACC
37800519 CTCGATTTAC
Statistics
Matches: 97, Mismatches: 23, Indels: 10
0.75 0.18 0.08
Matches are distributed among these distances:
53 40 0.41
54 57 0.59
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.31
Consensus pattern (54 bp):
TAAAATTACCAAAATACCTATCGATTGTAAAATTACTGAAATACCCTCGATTTG
Found at i:37800520 original size:27 final size:26
Alignment explanation
Indices: 37800340--37800617 Score: 128
Period size: 27 Copynumber: 10.3 Consensus size: 26
37800330 TTTAGTTTAC
**
37800340 TAAAATTACCGAAATA-CCTATAGTTTG
1 TAAAATTACC-AAATACCCTCGA-TTTG
*
37800367 TAAAATTACTGAAATACCCTCGATTTG
1 TAAAATTAC-CAAATACCCTCGATTTG
*** * *
37800394 TAAAATTATTGTAATACCTTCGACTTG
1 TAAAATTA-CCAAATACCCTCGATTTG
* * * *
37800421 TAAAATTACCAAAGCACCCCCGGTTTA
1 TAAAATTACCAAA-TACCCTCGATTTG
** *
37800448 TAAAATTACCAAAATACTATCGA-TTA
1 TAAAATTACC-AAATACCCTCGATTTG
* * *
37800474 TAAAATTACTGAAATGCCCTCAATTTG
1 TAAAATTAC-CAAATACCCTCGATTTG
*
37800501 TAAAATTACCAAAGTACCCTCGATTTA
1 TAAAATTACCAAA-TACCCTCGATTTG
* * ** *
37800528 CAGAATTACCATTTTACCCTCGATTTA
1 TAAAATTACCA-AATACCCTCGATTTG
* * ** * *
37800555 CAGAATTACCATTTTACCCTCAATTTA
1 TAAAATTACCA-AATACCCTCGATTTG
* ** *
37800582 TAGAATTACCATTTTACCCTCGATTTA
1 TAAAATTACCA-AATACCCTCGATTTG
*
37800609 TAGAATTAC
1 TAAAATTAC
37800618 TGTTTTACCC
Statistics
Matches: 204, Mismatches: 38, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
26 25 0.12
27 172 0.84
28 7 0.03
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.34
Consensus pattern (26 bp):
TAAAATTACCAAATACCCTCGATTTG
Found at i:37800600 original size:81 final size:81
Alignment explanation
Indices: 37800490--37800643 Score: 236
Period size: 81 Copynumber: 1.9 Consensus size: 81
37800480 TACTGAAATG
*
37800490 CCCTCAATTTGTAAAATTACCAAAGTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTA
1 CCCTCAATTTATAAAATTACCAAAGTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTA
37800555 CAGAATTACCATTTTA
66 CAGAATTACCATTTTA
* *** * **
37800571 CCCTCAATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTA
1 CCCTCAATTTATAAAATTACCAAAGTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTA
37800636 CAGAATTA
66 CAGAATTA
37800644 ACTGCGACAA
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 65 1.00
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.37
Consensus pattern (81 bp):
CCCTCAATTTATAAAATTACCAAAGTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTA
CAGAATTACCATTTTA
Found at i:37800623 original size:27 final size:27
Alignment explanation
Indices: 37800515--37800643 Score: 213
Period size: 27 Copynumber: 4.8 Consensus size: 27
37800505 ATTACCAAAG
37800515 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
37800542 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
37800569 TACCCTCAATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* **
37800596 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCATTT
37800623 TACCCTCGATTTACAGAATTA
1 TACCCTCGATTTACAGAATTA
37800644 ACTGCGACAA
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 96 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:37802421 original size:27 final size:27
Alignment explanation
Indices: 37802391--37802448 Score: 84
Period size: 26 Copynumber: 2.2 Consensus size: 27
37802381 ACTAAAATAT
37802391 CCCTAAGTATG-AAAATTACCATTATAC
1 CCCTAAG-ATGCAAAATTACCATTATAC
*
37802418 CCCT-AGGTGCAAAATTACCATTATAC
1 CCCTAAGATGCAAAATTACCATTATAC
37802444 CCCTA
1 CCCTA
37802449 GGGTTAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 2 0.07
26 22 0.79
27 4 0.14
ACGTcount: A:0.36, C:0.28, G:0.09, T:0.28
Consensus pattern (27 bp):
CCCTAAGATGCAAAATTACCATTATAC
Found at i:37802600 original size:28 final size:27
Alignment explanation
Indices: 37802553--37802635 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 27
37802543 GGAGGAAGCG
37802553 TTCTGGTGGCTCTGCCACAAATATCTAT
1 TTCTGGTGGCTCTGCCAC-AATATCTAT
* * *
37802581 TTCTGGTGGCTTTGCTACAATATCTGT
1 TTCTGGTGGCTCTGCCACAATATCTAT
* * *
37802608 ATT-TGGTGACTCTGTCACAATATTTAT
1 -TTCTGGTGGCTCTGCCACAATATCTAT
37802635 T
1 T
37802636 CTAGCAGCCA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
26 1 0.02
27 26 0.58
28 18 0.40
ACGTcount: A:0.20, C:0.19, G:0.18, T:0.42
Consensus pattern (27 bp):
TTCTGGTGGCTCTGCCACAATATCTAT
Found at i:37804965 original size:26 final size:27
Alignment explanation
Indices: 37804924--37805016 Score: 145
Period size: 27 Copynumber: 3.5 Consensus size: 27
37804914 CCCTAATCGA
*
37804924 TAAAATGATTGTTTTTCCCTTATATGG
1 TAAAATGATTGTTTTGCCCTTATATGG
*
37804951 TAAAATGACTGTTTTGCCCTTATATGG
1 TAAAATGATTGTTTTGCCCTTATATGG
37804978 TAAAATGATTGTTTTGCCC-TATGA-GG
1 TAAAATGATTGTTTTGCCCTTAT-ATGG
37805004 TAAAATGATTGTT
1 TAAAATGATTGTT
37805017 AGAAGTACGC
Statistics
Matches: 62, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
26 18 0.29
27 44 0.71
ACGTcount: A:0.28, C:0.11, G:0.18, T:0.43
Consensus pattern (27 bp):
TAAAATGATTGTTTTGCCCTTATATGG
Found at i:37809430 original size:39 final size:39
Alignment explanation
Indices: 37809387--37809483 Score: 140
Period size: 39 Copynumber: 2.5 Consensus size: 39
37809377 CCGGACATAT
* *
37809387 TTCCAGCACGTAGCCTGCGAACCTTAAGTCCGGTTATAA
1 TTCCAGCACATAGCCTGCGAACCTTAAGTCCGGGTATAA
* * *
37809426 TTCCAGCACATAGCCTACGGACTTTAAGTCCGGGTATAA
1 TTCCAGCACATAGCCTGCGAACCTTAAGTCCGGGTATAA
*
37809465 TTCCAGCATATAGCCTGCG
1 TTCCAGCACATAGCCTGCG
37809484 GGTCTTTAAG
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 51 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGAACCTTAAGTCCGGGTATAA
Found at i:37813388 original size:37 final size:37
Alignment explanation
Indices: 37813282--37813390 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
37813272 AGCTCAGACG
* * *
37813282 AAATCTCCACACGAAGTTATCGGGTCTTACCCAGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
37813319 AAATCTCCACACGTAGTCATCAGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
37813356 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
37813391 ATATATTTCC
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:37813666 original size:48 final size:48
Alignment explanation
Indices: 37813536--37813818 Score: 381
Period size: 48 Copynumber: 5.8 Consensus size: 48
37813526 GCACATCGCC
*
37813536 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* ** * *
37813586 TATATATTTCACATT-GACCATTTAGCTATACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
37813634 TACATATTTCACATTAGCCATTCGGCGTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* ** *
37813684 TATATATTTCACATT-GACCATTTAGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
37813732 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
37813780 TACATTTTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
37813819 TGCATGTTCA
Statistics
Matches: 204, Mismatches: 23, Indels: 14
0.85 0.10 0.06
Matches are distributed among these distances:
48 120 0.59
49 4 0.02
50 80 0.39
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.37
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:37813823 original size:98 final size:98
Alignment explanation
Indices: 37813536--37813817 Score: 471
Period size: 98 Copynumber: 2.9 Consensus size: 98
37813526 GCACATCGCC
*
37813536 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
*
37813601 GACCATTTAGCTATACCACATATGCATATCTCA
66 GACCATTTAGCTTTACCACATATGCATATCTCA
*
37813634 TACATATTTCACATTAGCCATTCGGCGTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
37813699 GACCATTTAGCTTTACCACATATGCATATCTCA
66 GACCATTTAGCTTTACCACATATGCATATCTCA
* *
37813732 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTCTCATACAT-T-TTTCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
**
37813795 -AGCCATTCGGCTTTACCACATAT
66 GA-CCATTTAGCTTTACCACATAT
37813818 ATGCATGTTC
Statistics
Matches: 175, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
95 1 0.01
96 28 0.16
97 1 0.01
98 145 0.83
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.37
Consensus pattern (98 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
GACCATTTAGCTTTACCACATATGCATATCTCA
Found at i:37813867 original size:47 final size:47
Alignment explanation
Indices: 37813740--37813981 Score: 274
Period size: 47 Copynumber: 5.1 Consensus size: 47
37813730 CATACATATT
* * * * **
37813740 TCACATTAGCCATTCGGCTTTACCACATATA--CATTTCTCATACATTTT
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGT-TC--ACATTCA
* * * *
37813788 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * *
37813835 CCATATTGGCCATTCGGCCTTATCACACATATGCGT-TCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGT-TCACATTCA
37813882 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* **
37813929 TCACATTGGCCATTCGGCCTTATCTCATATATGCACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
37813976 TCACAT
1 TCACAT
37813982 AAAATCCTAA
Statistics
Matches: 171, Mismatches: 19, Indels: 9
0.86 0.10 0.05
Matches are distributed among these distances:
46 1 0.01
47 132 0.77
48 32 0.19
49 2 0.01
50 4 0.02
ACGTcount: A:0.26, C:0.29, G:0.10, T:0.35
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:37813908 original size:22 final size:22
Alignment explanation
Indices: 37813881--37813952 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
37813871 TCTCACATTC
37813881 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
37813903 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
37813927 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
37813950 ATC
1 ATC
37813953 TCATATATGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:37813982 original size:25 final size:25
Alignment explanation
Indices: 37813903--37813982 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
37813893 ATTCGGCCTT
**
37813903 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCACATTCACATTC
* * *
37813928 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCACATTC-ACATTC
*
37813950 ATCTCATATATGCACATTCACATTC
1 ATCACATATATGCACATTCACATTC
37813975 ATCACATA
1 ATCACATA
37813983 AAATCCTAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 10
0.67 0.17 0.17
Matches are distributed among these distances:
22 9 0.22
23 6 0.15
24 6 0.15
25 19 0.47
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.34
Consensus pattern (25 bp):
ATCACATATATGCACATTCACATTC
Found at i:37818264 original size:40 final size:40
Alignment explanation
Indices: 37818067--37818301 Score: 203
Period size: 39 Copynumber: 6.0 Consensus size: 40
37818057 ACTTGAAACC
* * *
37818067 AATTACCAGCACA-AGCCTGCGGGAATTAAAACCCGG-TAT
1 AATT-CCAGCACATAGCCTGCGGGACTTTAAGCCCGGATAT
* * * *
37818106 AATACCAGCTCGA-AGCCTGCGGGACTTT-TGCCCGGACAT
1 AATTCCAGCAC-ATAGCCTGCGGGACTTTAAGCCCGGATAT
* * * ** *
37818145 ATTTCCAGCACGTAGCCTGC-GGACCTTAAGTTCGGTTAT
1 AATTCCAGCACATAGCCTGCGGGACTTTAAGCCCGGATAT
* * * *
37818184 AATTCCAGCACATAGCCTGC-GAACCTTAAGTCCGGGTAT
1 AATTCCAGCACATAGCCTGCGGGACTTTAAGCCCGGATAT
* *
37818223 AATTCCAGCATATAGCCTGCGGGTCTTTAAGCCCGGATAT
1 AATTCCAGCACATAGCCTGCGGGACTTTAAGCCCGGATAT
* * * *
37818263 AATTCCAGCATATAGCCTGTGGGTCTTTAAGCCCAGATA
1 AATTCCAGCACATAGCCTGCGGGACTTTAAGCCCGGATA
37818302 CACATCAAAT
Statistics
Matches: 161, Mismatches: 30, Indels: 9
0.81 0.15 0.05
Matches are distributed among these distances:
38 17 0.11
39 93 0.58
40 51 0.32
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
AATTCCAGCACATAGCCTGCGGGACTTTAAGCCCGGATAT
Found at i:37822868 original size:45 final size:45
Alignment explanation
Indices: 37822804--37822893 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
37822794 CCCCCATAGG
37822804 AGGTCGATCACGGTCTCGTCTGGAAAAGCCCGAAGTGTTCTTAGA
1 AGGTCGATCACGGTCTCGTCTGGAAAAGCCCGAAGTGTTCTTAGA
37822849 AGGTCGATCACGGTCTCGTCTGGAAAAGCCCGAAGTGTTCTTAGA
1 AGGTCGATCACGGTCTCGTCTGGAAAAGCCCGAAGTGTTCTTAGA
37822894 TCGGCCTTAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.24
Consensus pattern (45 bp):
AGGTCGATCACGGTCTCGTCTGGAAAAGCCCGAAGTGTTCTTAGA
Found at i:37824764 original size:19 final size:19
Alignment explanation
Indices: 37824728--37824766 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
37824718 TTTTCACCAT
* *
37824728 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
37824747 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
37824766 A
1 A
37824767 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:37825270 original size:55 final size:56
Alignment explanation
Indices: 37825205--37825319 Score: 130
Period size: 55 Copynumber: 2.1 Consensus size: 56
37825195 AGCATGGCTG
* * *
37825205 CCAGATACAGA-AAATGT-GACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAACGTCG-CAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* *
37825261 CCAGA-ACAGATATACGTCGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAACGTCGCAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
37825316 CCAG
1 CCAG
37825320 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
54 1 0.02
55 29 0.57
56 20 0.39
57 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (56 bp):
CCAGATACAGATAAACGTCGCAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:37825468 original size:28 final size:28
Alignment explanation
Indices: 37825425--37825657 Score: 414
Period size: 28 Copynumber: 8.3 Consensus size: 28
37825415 AAATTAACCC
*
37825425 TAGGGGTATAACGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
37825453 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
37825481 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
** *
37825509 TAGGGGTATTCTAGTACA-TTTGCATACA
1 TAGGGGTATAATGGTA-ATTTTGCATACA
37825537 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
37825565 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
37825593 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
37825621 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
37825649 TAGGGGTAT
1 TAGGGGTAT
37825658 TCTAGTACAT
Statistics
Matches: 196, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
27 1 0.01
28 194 0.99
29 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.35
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:37844111 original size:39 final size:40
Alignment explanation
Indices: 37843909--37844129 Score: 241
Period size: 40 Copynumber: 5.5 Consensus size: 40
37843899 GAATGCTGTT
* * * * * *
37843909 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATC
1 CGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAATC
* * * *
37843949 CGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATC
1 CGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAATC
*
37843989 CGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATC
1 CGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATC
**
37844029 CGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATC
1 CGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATC
* * *
37844069 CGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAAC
1 CGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATC
* *
37844108 CGGGCTATGTCCCGAAGGCATT
1 CGGGTTAAGTCCCGAAGGCATT
37844130 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 116 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
CGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATC
Found at i:37844149 original size:79 final size:80
Alignment explanation
Indices: 37843982--37844164 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
37843972 GTGCGAGATA
* * *
37843982 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
37844047 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
37844062 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
37844126 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
37844141 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
37844165 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:37845990 original size:55 final size:56
Alignment explanation
Indices: 37845925--37846039 Score: 128
Period size: 55 Copynumber: 2.1 Consensus size: 56
37845915 AGCATGGCTG
* * *
37845925 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * * *
37845981 CCAGA-ACAGATATACGTGGCAGGGCCACCAGAATAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
37846036 CCAG
1 CCAG
37846040 GACGCTTCCA
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
54 1 0.02
55 28 0.56
56 21 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:37846036 original size:28 final size:27
Alignment explanation
Indices: 37845950--37846039 Score: 92
Period size: 27 Copynumber: 3.2 Consensus size: 27
37845940 GTGACAGAGT
*
37845950 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
37845979 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
*
37846006 CACCAGAATAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
37846034 CACCAG
1 CACCAG
37846040 GACGCTTCCA
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
27 22 0.43
28 22 0.43
29 7 0.14
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:37846190 original size:28 final size:28
Alignment explanation
Indices: 37846145--37846209 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
37846135 AAATTAACCC
37846145 TAGGGGTATAACGATAATTTTGCATACA
1 TAGGGGTATAACGATAATTTTGCATACA
* *
37846173 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAACGATAATTTTGCATACA
37846201 TAGGGGTAT
1 TAGGGGTAT
37846210 TCTAGTACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.32, C:0.08, G:0.26, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAACGATAATTTTGCATACA
Found at i:37847553 original size:36 final size:36
Alignment explanation
Indices: 37847506--37847577 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
37847496 CTATCCTTAT
37847506 TCAATCCCCTTACCCTCTTAAACTCTTCCTGACAGA
1 TCAATCCCCTTACCCTCTTAAACTCTTCCTGACAGA
37847542 TCAATCCCCTTACCCTCTTAAACTCTTCCTGACAGA
1 TCAATCCCCTTACCCTCTTAAACTCTTCCTGACAGA
37847578 CTTTTATTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.25, C:0.39, G:0.06, T:0.31
Consensus pattern (36 bp):
TCAATCCCCTTACCCTCTTAAACTCTTCCTGACAGA
Found at i:37848780 original size:39 final size:39
Alignment explanation
Indices: 37848574--37848793 Score: 180
Period size: 39 Copynumber: 5.6 Consensus size: 39
37848564 TACCAATACA
* * * *
37848574 AGCCTGCGGGAATTTAAACCCGG-TATAATACCAGC-TCAA
1 AGCCTGCGGGACTTT-AGCCCGGATATAATTCCAGCAT-AT
** * * **
37848613 AGCCTGCGGGACTTTTTCCCGGACATATTTCCAGCACGT
1 AGCCTGCGGGACTTTAGCCCGGATATAATTCCAGCATAT
* * * *
37848652 A-CCTGC-GGACCTTAAGTCCGGTTATAATTCCAGCACAT
1 AGCCTGCGGGA-CTTTAGCCCGGATATAATTCCAGCATAT
* * *
37848690 AGCCTGC-GGACCTTAAGTCCGGGTATAATTCCAGCATAT
1 AGCCTGCGGGA-CTTTAGCCCGGATATAATTCCAGCATAT
* *
37848729 AGCCTGCAGGTCTTTAGCCCGGATATAATTCCAGCATAT
1 AGCCTGCGGGACTTTAGCCCGGATATAATTCCAGCATAT
*
37848768 AGCCTGCGGGTCTTTAAGCCCGGATA
1 AGCCTGCGGGACTTT-AGCCCGGATA
37848794 CACATCAAAT
Statistics
Matches: 151, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
37 3 0.02
38 31 0.21
39 105 0.70
40 12 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
AGCCTGCGGGACTTTAGCCCGGATATAATTCCAGCATAT
Found at i:37850653 original size:42 final size:43
Alignment explanation
Indices: 37850604--37850718 Score: 117
Period size: 43 Copynumber: 2.7 Consensus size: 43
37850594 TATGTGTTTT
*
37850604 CATGTAAGACCATGTCTGGGACGTTGGCATC-ATATTTGATTT
1 CATGTAAGACCATGTCTGGGACGTTGGCATCGATATTTGATTA
** * * * *
37850646 TGTGTAAGACCCTATCTAGGATAG-TGGCATCGATATTTGATTA
1 CATGTAAGACCATGTCTGGGA-CGTTGGCATCGATATTTGATTA
* * *
37850689 CATGTAAGACCACGTCTGAGACATTGGCAT
1 CATGTAAGACCATGTCTGGGACGTTGGCAT
37850719 TGTATGAGCT
Statistics
Matches: 54, Mismatches: 16, Indels: 5
0.72 0.21 0.07
Matches are distributed among these distances:
42 23 0.43
43 31 0.57
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (43 bp):
CATGTAAGACCATGTCTGGGACGTTGGCATCGATATTTGATTA
Found at i:37856201 original size:14 final size:15
Alignment explanation
Indices: 37856173--37856202 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
37856163 GTTATATGTG
37856173 TTAATTTTTCGTGTT
1 TTAATTTTTCGTGTT
37856188 TTAATTTTTC-TGTT
1 TTAATTTTTCGTGTT
37856202 T
1 T
37856203 GAATGTCGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.13, C:0.07, G:0.10, T:0.70
Consensus pattern (15 bp):
TTAATTTTTCGTGTT
Found at i:37857036 original size:13 final size:13
Alignment explanation
Indices: 37857018--37857042 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37857008 GTTGACTATT
37857018 TGATATGTGATTC
1 TGATATGTGATTC
37857031 TGATATGTGATT
1 TGATATGTGATT
37857043 ATGTGTAAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.04, G:0.24, T:0.48
Consensus pattern (13 bp):
TGATATGTGATTC
Found at i:37857141 original size:43 final size:43
Alignment explanation
Indices: 37857031--37857156 Score: 198
Period size: 43 Copynumber: 2.9 Consensus size: 43
37857021 TATGTGATTC
* * *
37857031 TGATATGTGATTATGTGTAAGACCACATCTAGGACGTTGGCAT
1 TGATATGTGATTACGTGTAAGACCTCGTCTAGGACGTTGGCAT
*
37857074 CGATATGTGATTACGTGTAAGACCTCGTCTAGGACGTTGGCAT
1 TGATATGTGATTACGTGTAAGACCTCGTCTAGGACGTTGGCAT
* *
37857117 TGATATGTGATTACGTGTAAGACCTTGTCTGGGACGTTGG
1 TGATATGTGATTACGTGTAAGACCTCGTCTAGGACGTTGG
37857157 TGTAACACCC
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 76 1.00
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.33
Consensus pattern (43 bp):
TGATATGTGATTACGTGTAAGACCTCGTCTAGGACGTTGGCAT
Found at i:37858610 original size:79 final size:81
Alignment explanation
Indices: 37858508--37858691 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
37858498 GCTCCTCGTT
* *
37858508 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
*
37858570 CGGAT-TTAGTAAC-TCGCA
63 CGGATATT-GTAACTTAGCA
**
37858588 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
*
37858652 ATATTGTCACTTAGCA
66 ATATTGTAACTTAGCA
37858668 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
37858692 CATCATTCAA
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 14 0.15
79 56 0.61
80 22 0.24
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATTGTAACTTAGCA
Found at i:37858625 original size:39 final size:41
Alignment explanation
Indices: 37858508--37858691 Score: 199
Period size: 40 Copynumber: 4.6 Consensus size: 41
37858498 GCTCCTCGTT
* *
37858508 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAATCTCGCA
* *
37858548 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAA-CTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
37858588 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
* * *
37858627 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAATC-TCGCA
37858668 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
37858692 CATCATTCAA
Statistics
Matches: 128, Mismatches: 7, Indels: 19
0.83 0.05 0.12
Matches are distributed among these distances:
38 3 0.02
39 48 0.38
40 66 0.52
41 11 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
Found at i:37860358 original size:43 final size:43
Alignment explanation
Indices: 37860297--37860474 Score: 168
Period size: 43 Copynumber: 4.2 Consensus size: 43
37860287 GGCTGTCACA
* * *
37860297 GTTGGAATCTATATGTGATTACGTGTAATACCTCGTCTGGGAC
1 GTTGGCATCGATATGTGATTACGTGTAAGACCTCGTCTGGGAC
37860340 GTTGGCATCGATATGTGATTACGTGTAAGACCAT-GTCTGGGAC
1 GTTGGCATCGATATGTGATTACGTGTAAGACC-TCGTCTGGGAC
* * * * * * *
37860383 ATCGACATC-ATATTTGATT-TGTGTAAGACC-CTGTTTGGGGC
1 GTTGGCATCGATATGTGATTACGTGTAAGACCTC-GTCTGGGAC
* * **
37860424 AG-TGGCATCGATATGTGATTACATGTAAGACCACGTCTAAGAC
1 -GTTGGCATCGATATGTGATTACGTGTAAGACCTCGTCTGGGAC
37860467 GTTGGCAT
1 GTTGGCAT
37860475 TGTACGATAT
Statistics
Matches: 107, Mismatches: 20, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
41 22 0.21
42 19 0.18
43 64 0.60
44 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (43 bp):
GTTGGCATCGATATGTGATTACGTGTAAGACCTCGTCTGGGAC
Found at i:37862167 original size:38 final size:38
Alignment explanation
Indices: 37862116--37862260 Score: 164
Period size: 38 Copynumber: 3.6 Consensus size: 38
37862106 TGGAAAAATA
37862116 TGGTGCTAAGTGGATATACCACGGTTATACGTGTAACG
1 TGGTGCTAAGTGGATATACCACGGTTATACGTGTAACG
* * *
37862154 TGGTGTTAAGTGGATATACCACGATTACACATATTGATACATGTAACG
1 TGGTGCTAAGTGGATATACCACG---------GTT-ATACGTGTAACG
37862202 TGGTGCTAAGTGGATATACCACGGTTATACGTGTAACG
1 TGGTGCTAAGTGGATATACCACGGTTATACGTGTAACG
*
37862240 CGGTGCTAAGTGGATATACCA
1 TGGTGCTAAGTGGATATACCA
37862261 TGATTACACA
Statistics
Matches: 90, Mismatches: 7, Indels: 20
0.77 0.06 0.17
Matches are distributed among these distances:
38 53 0.59
39 2 0.02
47 2 0.02
48 33 0.37
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (38 bp):
TGGTGCTAAGTGGATATACCACGGTTATACGTGTAACG
Found at i:37862218 original size:48 final size:48
Alignment explanation
Indices: 37862142--37862357 Score: 220
Period size: 48 Copynumber: 4.7 Consensus size: 48
37862132 TACCACGGTT
* *
37862142 ATACGTGTAACGTGGTGTTAAGTGGATATACCACGATTACACATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTG
*
37862190 ATACATGTAACGTGGTGCTAAGTGGATATACCACG---------GTT-
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTG
* * *
37862228 ATACGTGTAACGCGGTGCTAAGTGGATATACCATGATTACACATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTG
* * ** *
37862276 ATACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATGTATCG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTG
* * * *
37862324 ATTCAT-TAATGTGGTGCTAACTGGATATGCCACG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACG
37862358 GTTAATTTGA
Statistics
Matches: 140, Mismatches: 18, Indels: 21
0.78 0.10 0.12
Matches are distributed among these distances:
38 32 0.23
39 2 0.01
47 28 0.20
48 78 0.56
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (48 bp):
ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTG
Found at i:37862266 original size:86 final size:86
Alignment explanation
Indices: 37862116--37862314 Score: 362
Period size: 86 Copynumber: 2.3 Consensus size: 86
37862106 TGGAAAAATA
* *
37862116 TGGTGCTAAGTGGATATACCACGGTTATACGTGTAACGTGGTGTTAAGTGGATATACCACGATTA
1 TGGTGCTAAGTGGATATACCACGGTTATACGTGTAACGCGGTGCTAAGTGGATATACCACGATTA
37862181 CACATATTGATACATGTAACG
66 CACATATTGATACATGTAACG
*
37862202 TGGTGCTAAGTGGATATACCACGGTTATACGTGTAACGCGGTGCTAAGTGGATATACCATGATTA
1 TGGTGCTAAGTGGATATACCACGGTTATACGTGTAACGCGGTGCTAAGTGGATATACCACGATTA
37862267 CACATATTGATACATGTAACG
66 CACATATTGATACATGTAACG
*
37862288 TGGTGCTAAGTGGATATGCCACGGTTA
1 TGGTGCTAAGTGGATATACCACGGTTA
37862315 CATGTATCGA
Statistics
Matches: 109, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
86 109 1.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (86 bp):
TGGTGCTAAGTGGATATACCACGGTTATACGTGTAACGCGGTGCTAAGTGGATATACCACGATTA
CACATATTGATACATGTAACG
Found at i:37863125 original size:34 final size:33
Alignment explanation
Indices: 37863080--37863148 Score: 120
Period size: 34 Copynumber: 2.1 Consensus size: 33
37863070 CTGAACTGCG
37863080 AAACAGGGGAGAATTCAATGAATAAAATGTATT
1 AAACAGGGGAGAATTCAATGAATAAAATGTATT
*
37863113 AANACAGGGGAGAATTCAATGAATAAACTGTATT
1 AA-ACAGGGGAGAATTCAATGAATAAAATGTATT
37863147 AA
1 AA
37863149 TTGACCCAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 2 0.06
34 32 0.94
ACGTcount: A:0.48, C:0.07, G:0.20, T:0.23
Consensus pattern (33 bp):
AAACAGGGGAGAATTCAATGAATAAAATGTATT
Found at i:37865326 original size:15 final size:14
Alignment explanation
Indices: 37865291--37865327 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 14
37865281 TCGTATCTTG
37865291 GGTTTCTTTATTCT
1 GGTTTCTTTATTCT
37865305 GGATTTCTTTATTCT
1 GG-TTTCTTTATTCT
37865320 AGGTTTCT
1 -GGTTTCT
37865328 CTATCTTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 2 0.10
15 17 0.81
16 2 0.10
ACGTcount: A:0.11, C:0.14, G:0.16, T:0.59
Consensus pattern (14 bp):
GGTTTCTTTATTCT
Found at i:37868018 original size:38 final size:38
Alignment explanation
Indices: 37867967--37868048 Score: 119
Period size: 38 Copynumber: 2.2 Consensus size: 38
37867957 ACATATTGAT
* * *
37867967 ACATGTAACGTGGTGCTAAGTGGATATACCACGGTTAA
1 ACATGTAACGTGGTGATAAATAGATATACCACGGTTAA
* *
37868005 ACATGTAACGTGGTGATAAATAGATATGCCACGGTTAT
1 ACATGTAACGTGGTGATAAATAGATATACCACGGTTAA
37868043 ACATGT
1 ACATGT
37868049 TAATTTGAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (38 bp):
ACATGTAACGTGGTGATAAATAGATATACCACGGTTAA
Found at i:37875391 original size:55 final size:54
Alignment explanation
Indices: 37875269--37875667 Score: 342
Period size: 55 Copynumber: 7.5 Consensus size: 54
37875259 GATAAGGATA
* * ***
37875269 TCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAAGAAA
1 TCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAAGGTC
*
37875323 TCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTGCTATAAGGCAAAGGTC
1 TCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGCAAAGGTC
* * * *
37875378 TAATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGAC-AAGGATAC
1 TCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAAGG-T-C
**** *** *
37875432 -CATGTAAGACCATGTTTGGAACATGGCATT--TG-GTAAGATAAGG---A--TA
1 TCATGTAAGACCATGCCAAG-ACATGGCATTGATGAGTTCTATAAGGCAAAGGTC
* * * **
37875478 TCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTTTATAAGGC-AAGGAAA
1 TCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAAGG-TC
* *
37875532 TCATGTAAGACCATGTCAAGACATGGCATTTATGAGTTACTATAAGGCAAAGGTC
1 TCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGCAAAGGTC
* * *
37875587 CCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGG-AAAGGT-
1 TCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAAGGTC
* * *
37875638 TACCACGTAAGACCATGTCAAGACAAGGCA
1 T--CATGTAAGACCATGCCAAGACATGGCA
37875668 ATGGTAAGTT
Statistics
Matches: 279, Mismatches: 48, Indels: 37
0.77 0.13 0.10
Matches are distributed among these distances:
46 9 0.03
47 16 0.06
48 1 0.00
49 8 0.03
50 1 0.00
51 3 0.01
52 17 0.06
53 50 0.18
54 82 0.29
55 88 0.32
56 4 0.01
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.24
Consensus pattern (54 bp):
TCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAAGGTC
Found at i:37875556 original size:100 final size:102
Alignment explanation
Indices: 37875209--37875675 Score: 455
Period size: 109 Copynumber: 4.5 Consensus size: 102
37875199 GCATTGGCAC
* * *** *
37875209 TAAGACAAGGATACCATATAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGG-ATA-T-C
1 TAAGGCAAGGATACCATGTAAGACCATGTCAAG-ACATGGCATTTGGTAAGATAAGGCAAAGTCC
* *
37875271 ATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
65 ATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-A
* * * *
37875310 TAAGGCAAAGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGT-TGCTATAAGGCAAA
1 TAAGGCAAGGATACCATGTAAGACCATGTCAAGACATGGCATT--TG-GTAAG--ATAAGGCAAA
*
37875374 GGTCTAATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCA
61 -GTC-CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCA
* *** *
37875418 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGG-ATA-T-C
1 TAAGGCAAGGATACCATGTAAGACCATGTCAAG-ACATGGCATTTGGTAAGATAAGGCAAAGTCC
* * *
37875480 ATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTTTA
65 ATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCA
* * **
37875519 TAAGGCAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTTATGAGTTACTATAAGGCAAAG
1 TAAGGCAAGGATACCATGTAAGACCATGTCAAGACATGGCA-TT-TG-G-TAAGATAAGGCAAA-
37875584 GTCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCA
61 GT-CCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCA
* * * * *
37875627 TAAGGAAAGGTTACCACGTAAGACCATGTCAAGACAAGGCA-ATGGTAAG
1 TAAGGCAAGGATACCATGTAAGACCATGTCAAGACATGGCATTTGGTAAG
37875676 TTCAAAAAGA
Statistics
Matches: 297, Mismatches: 47, Indels: 42
0.77 0.12 0.11
Matches are distributed among these distances:
100 50 0.17
101 57 0.19
102 6 0.02
103 5 0.02
104 17 0.06
105 12 0.04
106 2 0.01
107 5 0.02
108 65 0.22
109 78 0.26
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.24
Consensus pattern (102 bp):
TAAGGCAAGGATACCATGTAAGACCATGTCAAGACATGGCATTTGGTAAGATAAGGCAAAGTCCA
TGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCA
Found at i:37875569 original size:209 final size:209
Alignment explanation
Indices: 37875209--37875655 Score: 797
Period size: 209 Copynumber: 2.1 Consensus size: 209
37875199 GCATTGGCAC
*
37875209 TAAGACAAGGATACCATATAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATG
37875274 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAAGAAATCATGTAAGACCATGT
66 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAAGAAATCATGTAAGACCATGT
* *
37875339 CAAGACATGGCATTGATGAGTTGCTATAAGGCAAAGGTCTAATGTAAGACCATGCCAAGGCATGG
131 CAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCAATGTAAGACCATGCCAAGGCATGG
37875404 CATTGGTGAGTTCA
196 CATTGGTGAGTTCA
37875418 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATG
* *
37875483 TAAGACCATGCCAAGGCATGGCATTGATAAGTTTTATAAGGCAAGGAAATCATGTAAGACCATGT
66 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAAGAAATCATGTAAGACCATGT
* *
37875548 CAAGACATGGCATTTATGAGTTACTATAAGGCAAAGGTCCCATGTAAGACCATGCCAAGGCATGG
131 CAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCAATGTAAGACCATGCCAAGGCATGG
37875613 CATTGGTGAGTTCA
196 CATTGGTGAGTTCA
* *
37875627 TAAGGA-AAGGTTACCACGTAAGACCATGT
1 TAA-GACAAGGATACCATGTAAGACCATGT
37875656 CAAGACAAGG
Statistics
Matches: 228, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
209 226 0.99
210 2 0.01
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (209 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATG
TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAAGAAATCATGTAAGACCATGT
CAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCAATGTAAGACCATGCCAAGGCATGG
CATTGGTGAGTTCA
Found at i:37875693 original size:108 final size:109
Alignment explanation
Indices: 37875479--37875689 Score: 255
Period size: 108 Copynumber: 2.0 Consensus size: 109
37875469 ATAAGGATAT
* * * *
37875479 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTTTATAAGGCAAGGAAATCATGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTTCATAAGGAAAGGAAACCACGTAAGACC
* * * * * * **
37875544 ATGTCAAGACATGGCATTTATGAGTTACTATAAGGCAAAGGTCC
66 ATGTCAAGACAAGGCAATGATAAGTTACAAAAAGAAAAAGGTCC
* * **
37875588 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGAAAGGTTACCACGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTTCATAAGGAAAGGAAACCACGTAAGACC
*
37875652 ATGTCAAGACAAGGCAATGGTAAGTT-CAAAAAGAAAAA
66 ATGTCAAGACAAGGCAATGATAAGTTACAAAAAGAAAAA
37875690 AGGTTCCTGA
Statistics
Matches: 85, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
107 8 0.09
108 44 0.52
109 33 0.39
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.22
Consensus pattern (109 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTTCATAAGGAAAGGAAACCACGTAAGACC
ATGTCAAGACAAGGCAATGATAAGTTACAAAAAGAAAAAGGTCC
Found at i:37887634 original size:54 final size:54
Alignment explanation
Indices: 37887576--37887713 Score: 162
Period size: 53 Copynumber: 2.6 Consensus size: 54
37887566 TAGGCACTTT
*
37887576 GGCTTCCTTTACATTGATAGGCACAAAA-GCTTCTTTTACATGGGTA-CCGAGAAA
1 GGCTTCCTTTACATTGATAGGCACAAAAGGCTTCTTTTACA-GGGTAGCC-AAAAA
*
37887630 GGCTTCCTTTACA-TGAATA-GCA-ATAAAGGCTTCTTTTATAGGGTAGCCAAAAA
1 GGCTTCCTTTACATTG-ATAGGCACA-AAAGGCTTCTTTTACAGGGTAGCCAAAAA
* *
37887683 GGCTTCCTTTACATGGATAGCCAC-AAAGGCT
1 GGCTTCCTTTACATTGATAGGCACAAAAGGCT
37887714 CCCATTACAG
Statistics
Matches: 73, Mismatches: 4, Indels: 15
0.79 0.04 0.16
Matches are distributed among these distances:
52 1 0.01
53 40 0.55
54 32 0.44
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.29
Consensus pattern (54 bp):
GGCTTCCTTTACATTGATAGGCACAAAAGGCTTCTTTTACAGGGTAGCCAAAAA
Found at i:37887710 original size:27 final size:27
Alignment explanation
Indices: 37887541--37887735 Score: 153
Period size: 27 Copynumber: 7.3 Consensus size: 27
37887531 TATTTTAATT
* *
37887541 GCCACAAGGGCTTCCTTTACATGGTTA
1 GCCACAAAGGCTTCCTTTACATGGATA
* *** *
37887568 GGCACTTTGGCTTCCTTTACATTGATA
1 GCCACAAAGGCTTCCTTTACATGGATA
* * * *
37887595 GGCACAAAAGCTTCTTTTACATGGGTA
1 GCCACAAAGGCTTCCTTTACATGGATA
* *
37887622 -CCGAGAAAGGCTTCCTTTACATGAATA
1 GCC-ACAAAGGCTTCCTTTACATGGATA
* * * * *
37887649 GCAATAAAGGCTTCTTTTATA-GGGTA
1 GCCACAAAGGCTTCCTTTACATGGATA
*
37887675 GCCAAAAAGGCTTCCTTTACATGGATA
1 GCCACAAAGGCTTCCTTTACATGGATA
* * *
37887702 GCCACAAAGGCTCCCATTACA-GAGATT
1 GCCACAAAGGCTTCCTTTACATG-GATA
37887729 GCCACAA
1 GCCACAA
37887736 GTCTTTGTTT
Statistics
Matches: 130, Mismatches: 34, Indels: 8
0.76 0.20 0.05
Matches are distributed among these distances:
26 22 0.17
27 107 0.82
28 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (27 bp):
GCCACAAAGGCTTCCTTTACATGGATA
Found at i:37889700 original size:35 final size:36
Alignment explanation
Indices: 37889650--37889721 Score: 119
Period size: 35 Copynumber: 2.0 Consensus size: 36
37889640 TTGGGAAAAC
*
37889650 TATAGGGGCTGTGCATGTTTTGGGGTTTTGAGTTTT
1 TATAGGGGCTATGCATGTTTTGGGGTTTTGAGTTTT
*
37889686 TATA-GGGCTATGCATGTTTTGGGGTTTTGGGTTTT
1 TATAGGGGCTATGCATGTTTTGGGGTTTTGAGTTTT
37889721 T
1 T
37889722 CTCTTCATTC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
35 30 0.88
36 4 0.12
ACGTcount: A:0.11, C:0.06, G:0.35, T:0.49
Consensus pattern (36 bp):
TATAGGGGCTATGCATGTTTTGGGGTTTTGAGTTTT
Found at i:37891350 original size:27 final size:27
Alignment explanation
Indices: 37891312--37891364 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
37891302 AAGTGTATTA
*
37891312 TACTGGTGGCTTTGCCACATATACTGC
1 TACTAGTGGCTTTGCCACATATACTGC
*
37891339 TACTAGTGGCTTTGCTACATATACTG
1 TACTAGTGGCTTTGCCACATATACTG
37891365 ATTCTGGCAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.36
Consensus pattern (27 bp):
TACTAGTGGCTTTGCCACATATACTGC
Found at i:37891377 original size:27 final size:27
Alignment explanation
Indices: 37891320--37891381 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
37891310 TATACTGGTG
* * **
37891320 GCTTTGCCACATATACTGCTACTAGTG
1 GCTTTGCTACATATACTGATACTAGCA
* *
37891347 GCTTTGCTACATATACTGATTCTGGCA
1 GCTTTGCTACATATACTGATACTAGCA
37891374 GCTTTGCT
1 GCTTTGCT
37891382 GCGATACTGT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.37
Consensus pattern (27 bp):
GCTTTGCTACATATACTGATACTAGCA
Found at i:37899026 original size:24 final size:24
Alignment explanation
Indices: 37898999--37899055 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
37898989 ATATTTTAGG
37898999 GATGAATAAGGACCAAATTGAATA
1 GATGAATAAGGACCAAATTGAATA
*
37899023 GATGAATTAGGACCAAATTGAATA
1 GATGAATAAGGACCAAATTGAATA
37899047 GATGAATAA
1 GATGAATAA
37899056 CTATGAAGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.49, C:0.07, G:0.21, T:0.23
Consensus pattern (24 bp):
GATGAATAAGGACCAAATTGAATA
Found at i:37899269 original size:11 final size:11
Alignment explanation
Indices: 37899221--37899272 Score: 59
Period size: 11 Copynumber: 4.5 Consensus size: 11
37899211 ATTAGATAAA
37899221 TATTATTTTAT
1 TATTATTTTAT
*
37899232 TAATATTTTAAT
1 TATTATTTT-AT
* *
37899244 AATACATTTTAT
1 TAT-TATTTTAT
37899256 TATTATTTTAT
1 TATTATTTTAT
37899267 TATTAT
1 TATTAT
37899273 ATAAAGAAAG
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
11 21 0.64
12 7 0.21
13 5 0.15
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:37901468 original size:46 final size:46
Alignment explanation
Indices: 37901401--37901674 Score: 372
Period size: 46 Copynumber: 6.0 Consensus size: 46
37901391 AGTGTGCTCT
** *
37901401 CTGATATGAAATGTGTAAGACCATGGTTGAGAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
**
37901447 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
*
37901493 CTGATATGAAATGAATAAGACAATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* *
37901539 GTGATATGAAATGAATAACACCATGGTTGAAAGATA-CATTGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCA-TGGCAAC
* * *
37901585 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
37901631 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGATACTATGGCA
1 CTGATATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCA
37901675 TCATGTCAAA
Statistics
Matches: 210, Mismatches: 15, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
45 3 0.01
46 205 0.98
47 2 0.01
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:37904817 original size:11 final size:11
Alignment explanation
Indices: 37904769--37904820 Score: 59
Period size: 11 Copynumber: 4.5 Consensus size: 11
37904759 ATTAGATAAA
37904769 TATTATTTTAT
1 TATTATTTTAT
*
37904780 TAATATTTTAAT
1 TATTATTTT-AT
* *
37904792 AATACATTTTAT
1 TAT-TATTTTAT
37904804 TATTATTTTAT
1 TATTATTTTAT
37904815 TATTAT
1 TATTAT
37904821 ATAAAGAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
11 21 0.64
12 7 0.21
13 5 0.15
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:37906944 original size:46 final size:46
Alignment explanation
Indices: 37906892--37907211 Score: 426
Period size: 46 Copynumber: 7.0 Consensus size: 46
37906882 AGTGTGCTCT
*
37906892 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
37906938 CTGATATGAAATGTGTAAGACCATGGTTGAAGGATTCTATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
37906984 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
37907030 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCGTGGCAGC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
37907076 GTGATATGAAATGAATAAGACCATGTTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
37907122 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
37907168 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
37907212 TCATGTCAAA
Statistics
Matches: 250, Mismatches: 23, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.00
46 249 1.00
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:37907317 original size:13 final size:13
Alignment explanation
Indices: 37907299--37907355 Score: 51
Period size: 13 Copynumber: 4.3 Consensus size: 13
37907289 ATCAGATGAC
37907299 AAATGGTTATATG
1 AAATGGTTATATG
* *
37907312 AAATGGTTGTGTG
1 AAATGGTTATATG
* * *
37907325 AAATGTTTACAAG
1 AAATGGTTATATG
*
37907338 AACTGGTTATATGG
1 AAATGGTTATAT-G
37907352 AAAT
1 AAAT
37907356 ATATATACAA
Statistics
Matches: 31, Mismatches: 12, Indels: 1
0.70 0.27 0.02
Matches are distributed among these distances:
13 27 0.87
14 4 0.13
ACGTcount: A:0.37, C:0.04, G:0.25, T:0.35
Consensus pattern (13 bp):
AAATGGTTATATG
Found at i:37909587 original size:89 final size:90
Alignment explanation
Indices: 37909457--37909652 Score: 313
Period size: 89 Copynumber: 2.2 Consensus size: 90
37909447 TCCATCAACA
* *
37909457 TAAACCAATTACCTTACAGGGACTTACAGTCAGATGAATTCATCTATGTTCAGATC-ATATTCAA
1 TAAACAAATTACCTTACAGAGACTTACAGTCAGATGAATTCATCTATGTTCAGATCAATATTCAA
* *
37909521 TAAATAACAAATCTTTCAAATTCAT
66 CAAATAAAAAATCTTTCAAATTCAT
* * * *
37909546 TAAACAAATTACCTTACCGAGATTTACAGTCAGATGGATTCATTTATGTTCAGATCAATATTCAA
1 TAAACAAATTACCTTACAGAGACTTACAGTCAGATGAATTCATCTATGTTCAGATCAATATTCAA
37909611 CAAATAAAAAATCTTTCAAATTCAT
66 CAAATAAAAAATCTTTCAAATTCAT
37909636 TAAACAAATTACCTTAC
1 TAAACAAATTACCTTAC
37909653 TAAGATTTTC
Statistics
Matches: 98, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
89 50 0.51
90 48 0.49
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.33
Consensus pattern (90 bp):
TAAACAAATTACCTTACAGAGACTTACAGTCAGATGAATTCATCTATGTTCAGATCAATATTCAA
CAAATAAAAAATCTTTCAAATTCAT
Found at i:37909659 original size:90 final size:88
Alignment explanation
Indices: 37909457--37909660 Score: 300
Period size: 90 Copynumber: 2.3 Consensus size: 88
37909447 TCCATCAACA
* * * *
37909457 TAAACCAATTACCTTACAGGGACTTACAGTCAGATGAATTCATCTATGTTCAGATCATATTCAAT
1 TAAACAAATTACCTTACA-AGATTTACAGTCAGATGAATTCATCTATGTTCAGATCATATTCAAC
*
37909522 AAATAACAAATCTTTCAAATTCAT
65 AAATAAAAAATCTTTCAAATTCAT
* * *
37909546 TAAACAAATTACCTTACCGAGATTTACAGTCAGATGGATTCATTTATGTTCAGATCAATATTCAA
1 TAAACAAATTACCTTA-CAAGATTTACAGTCAGATGAATTCATCTATGTTCAGATC-ATATTCAA
37909611 CAAATAAAAAATCTTTCAAATTCAT
64 CAAATAAAAAATCTTTCAAATTCAT
37909636 TAAACAAATTACCTTACTAAGATTT
1 TAAACAAATTACCTTAC-AAGATTT
37909661 TCCATTTGAA
Statistics
Matches: 103, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
89 49 0.48
90 54 0.52
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.33
Consensus pattern (88 bp):
TAAACAAATTACCTTACAAGATTTACAGTCAGATGAATTCATCTATGTTCAGATCATATTCAACA
AATAAAAAATCTTTCAAATTCAT
Found at i:37913988 original size:24 final size:24
Alignment explanation
Indices: 37913949--37914053 Score: 142
Period size: 24 Copynumber: 4.4 Consensus size: 24
37913939 GCCGGCCAAC
*
37913949 TCCTGCTCCTTGATCAGCTCCTAAA
1 TCCT-CTCCTTTATCAGCTCCTAAA
*
37913974 TCTTCTCCTTTATCA-CTCCTAAA
1 TCCTCTCCTTTATCAGCTCCTAAA
*
37913997 TCCTCTCCCTTATCAGCTCCTAAA
1 TCCTCTCCTTTATCAGCTCCTAAA
37914021 TCCTCT-CTCTTATCAGCTCCTAAA
1 TCCTCTCCT-TTATCAGCTCCTAAA
*
37914045 TCTTCTCCT
1 TCCTCTCCT
37914054 GACAGCCTTT
Statistics
Matches: 71, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
23 22 0.31
24 44 0.62
25 5 0.07
ACGTcount: A:0.19, C:0.38, G:0.05, T:0.38
Consensus pattern (24 bp):
TCCTCTCCTTTATCAGCTCCTAAA
Found at i:37914034 original size:47 final size:49
Alignment explanation
Indices: 37913956--37914052 Score: 146
Period size: 47 Copynumber: 2.0 Consensus size: 49
37913946 AACTCCTGCT
*
37913956 CCTTGATCAGCTCCTAAATCTTCTCCTTTATCA-CTCCTAAATCCTCTC
1 CCTTGATCAGCTCCTAAATCCTCTCCTTTATCAGCTCCTAAATCCTCTC
*
37914004 CCTT-ATCAGCTCCTAAATCCTCT-CTCTTATCAGCTCCTAAATCTTCTC
1 CCTTGATCAGCTCCTAAATCCTCTCCT-TTATCAGCTCCTAAATCCTCTC
37914052 C
1 C
37914053 TGACAGCCTT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
46 2 0.04
47 24 0.53
48 19 0.42
ACGTcount: A:0.21, C:0.38, G:0.04, T:0.37
Consensus pattern (49 bp):
CCTTGATCAGCTCCTAAATCCTCTCCTTTATCAGCTCCTAAATCCTCTC
Found at i:37917106 original size:27 final size:27
Alignment explanation
Indices: 37917075--37917252 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
37917065 TAAATTGTAC
37917075 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
37917102 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
37917128 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
37917156 GGCACTACGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
37917184 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * * *
37917211 GGCACTAAGTGTGCGAGTTGATTTTAT
1 AGCACTAAGTGTGCGATTTGACTATGT
37917238 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
37917253 GGCTCGATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 105 0.83
28 22 0.17
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:37917189 original size:82 final size:81
Alignment explanation
Indices: 37917076--37917231 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
37917066 AAATTGTACA
*
37917076 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATG-TGGCACTAAGTG
37917140 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
37917157 GCACTACGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTGGCACTAAGTG
*
37917222 TGCGAGTTGA
65 TGCGAATTGA
37917232 TTTTATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.78
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:37917243 original size:82 final size:81
Alignment explanation
Indices: 37917072--37917252 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
37917062 GATTAAATTG
*
37917072 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
37917137 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
37917153 TGCGGCACTACGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TGGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* ***
37917217 AAGTGTGCGAGTTGATTT
64 AAGTGTGCGAATTGACCA
*
37917235 TATAGCACTAAGTGTGCG
1 TACAGCACTAAGTGTGCG
37917253 GGCTCGATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 17 0.20
82 66 0.80
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:37918381 original size:75 final size:75
Alignment explanation
Indices: 37918256--37918406 Score: 257
Period size: 75 Copynumber: 2.0 Consensus size: 75
37918246 CTAGTTTTCA
* * * *
37918256 TAGAAACAAACGGCAGCAGTATTGAAGCCCCGTGCAGGGAGATATTCAAGTCATAATGGGCAAAG
1 TAGAAACAAACGGAAACAGTATTGAAGCCCCGTGCAGAGAGATATCCAAGTCATAATGGGCAAAG
37918321 GTCAGTGTAG
66 GTCAGTGTAG
*
37918331 TAGAAACAAACGGAAACAGTATTGAAGCCCCGTGCAGAGAGATATCCAAGTCGTAATGGGCAAAG
1 TAGAAACAAACGGAAACAGTATTGAAGCCCCGTGCAGAGAGATATCCAAGTCATAATGGGCAAAG
37918396 GTCAGTGTAG
66 GTCAGTGTAG
37918406 T
1 T
37918407 CGACCCCTGC
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 71 1.00
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.19
Consensus pattern (75 bp):
TAGAAACAAACGGAAACAGTATTGAAGCCCCGTGCAGAGAGATATCCAAGTCATAATGGGCAAAG
GTCAGTGTAG
Found at i:37919624 original size:49 final size:49
Alignment explanation
Indices: 37919568--37919665 Score: 169
Period size: 49 Copynumber: 2.0 Consensus size: 49
37919558 AACACTAGTC
37919568 GAACGAGCCTGCAAGGCAGAAGAACTTGGAAAGGAGAAGAGGAAGGCTG
1 GAACGAGCCTGCAAGGCAGAAGAACTTGGAAAGGAGAAGAGGAAGGCTG
* * *
37919617 GAACGAGCCTGCAAGGCGGAGGAGCTTGGAAAGGAGAAGAGGAAGGCTG
1 GAACGAGCCTGCAAGGCAGAAGAACTTGGAAAGGAGAAGAGGAAGGCTG
37919666 AATTTGAAGC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.36, C:0.14, G:0.42, T:0.08
Consensus pattern (49 bp):
GAACGAGCCTGCAAGGCAGAAGAACTTGGAAAGGAGAAGAGGAAGGCTG
Found at i:37937533 original size:25 final size:25
Alignment explanation
Indices: 37937499--37937548 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
37937489 CAATCGGCTT
37937499 TCCTTAAGTAATTCATTGCTTCCTA
1 TCCTTAAGTAATTCATTGCTTCCTA
* *
37937524 TCCTTGAGTAATTCCTTGCTTCCTA
1 TCCTTAAGTAATTCATTGCTTCCTA
37937549 CTCTTCATCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.20, C:0.26, G:0.10, T:0.44
Consensus pattern (25 bp):
TCCTTAAGTAATTCATTGCTTCCTA
Found at i:37947898 original size:27 final size:27
Alignment explanation
Indices: 37947857--37947910 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
37947847 TGTCATGTGA
* *
37947857 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
37947884 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
37947911 GGTTGTACCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:37948939 original size:29 final size:28
Alignment explanation
Indices: 37948893--37948947 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
37948883 TAATAGCTAA
*
37948893 AGGTATTAAATAGCTATAGTAAGTAAATT
1 AGGTATTAAATAGATATAGTAA-TAAATT
*
37948922 AGGTAATTAAAT-GATATATTAATAAA
1 AGGT-ATTAAATAGATATAGTAATAAA
37948948 ACAAAACAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 4 0.17
29 12 0.52
30 7 0.30
ACGTcount: A:0.49, C:0.02, G:0.15, T:0.35
Consensus pattern (28 bp):
AGGTATTAAATAGATATAGTAATAAATT
Found at i:37950094 original size:22 final size:23
Alignment explanation
Indices: 37950055--37950097 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
37950045 GAAGTCCTAC
*
37950055 CCGTCCATCCTCTACACTCCACT
1 CCGTCCAGCCTCTACACTCCACT
37950078 CCGTCCAGCC-CTACACTCCA
1 CCGTCCAGCCTCTACACTCCA
37950098 TGTGGGGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.19, C:0.53, G:0.07, T:0.21
Consensus pattern (23 bp):
CCGTCCAGCCTCTACACTCCACT
Found at i:37951292 original size:39 final size:38
Alignment explanation
Indices: 37951249--37951325 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 38
37951239 ACCTAAAAAT
* *
37951249 ATTCGGCCAAAAGAGGGACGATTGAATGCAGGGAAAGA
1 ATTCGGCCAAAAGAGGGACGACTGAATGAAGGGAAAGA
37951287 NATTCGGCCAAAAGAGGGACGACTGAATGAAGGGAAAGA
1 -ATTCGGCCAAAAGAGGGACGACTGAATGAAGGGAAAGA
37951326 GACAGTATGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.40, C:0.13, G:0.34, T:0.12
Consensus pattern (38 bp):
ATTCGGCCAAAAGAGGGACGACTGAATGAAGGGAAAGA
Found at i:37953368 original size:37 final size:36
Alignment explanation
Indices: 37953318--37953390 Score: 101
Period size: 37 Copynumber: 2.0 Consensus size: 36
37953308 TCCATGGTTA
37953318 CTCTTTCCCACTTCTAAAGCGGAATCTTAACTGGCT
1 CTCTTTCCCACTTCTAAAGCGGAATCTTAACTGGCT
** * *
37953354 NCTCTTTCCCACTTCTCCAGTGGAATCTTAGCTGGCT
1 -CTCTTTCCCACTTCTAAAGCGGAATCTTAACTGGCT
37953391 GAAGCAACCC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.18, C:0.32, G:0.15, T:0.34
Consensus pattern (36 bp):
CTCTTTCCCACTTCTAAAGCGGAATCTTAACTGGCT
Found at i:37956914 original size:46 final size:46
Alignment explanation
Indices: 37956847--37956975 Score: 213
Period size: 46 Copynumber: 2.8 Consensus size: 46
37956837 TGTAATCCGC
* * * *
37956847 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
37956893 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
37956939 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
37956976 TGTTCAACCA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:37956994 original size:46 final size:45
Alignment explanation
Indices: 37956852--37956994 Score: 155
Period size: 46 Copynumber: 3.1 Consensus size: 45
37956842 TCCGCCCATA
* * **
37956852 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GTATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACCATCC-T
* *
37956897 AAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTC-GCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACCATCC-T
* *
37956943 AAGTGAACTCAGACTCAACTCAACGAGTTCGGATGTTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTC-ACCATCCT
37956990 AGTGA
1 AGTGA
37956995 CATGTCACTT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
46 81 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACCATCCT
Found at i:37960558 original size:34 final size:34
Alignment explanation
Indices: 37960520--37960586 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
37960510 CAAGTATTAG
*
37960520 TGTGGGCCTTAGCCCATAACAGTAGCAGTATCAA
1 TGTGGGCCTTAGCCCATAACAGTAACAGTATCAA
*
37960554 TGTGGGCCTTAGCCCATTACAGTAACAGTATCA
1 TGTGGGCCTTAGCCCATAACAGTAACAGTATCA
37960587 GTAATGCAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.25
Consensus pattern (34 bp):
TGTGGGCCTTAGCCCATAACAGTAACAGTATCAA
Found at i:37961845 original size:19 final size:19
Alignment explanation
Indices: 37961821--37961859 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
37961811 TTTATGTTGC
37961821 AATTAGTCCATTTAAAGAA
1 AATTAGTCCATTTAAAGAA
37961840 AATTAGTCCATTTAAAGAA
1 AATTAGTCCATTTAAAGAA
37961859 A
1 A
37961860 GGGTGGACGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.31
Consensus pattern (19 bp):
AATTAGTCCATTTAAAGAA
Found at i:37966882 original size:29 final size:29
Alignment explanation
Indices: 37966812--37966924 Score: 126
Period size: 29 Copynumber: 3.9 Consensus size: 29
37966802 ACTCCTACAA
* *
37966812 ACATGTATATGACCCA-CTAGGCCCAA-T-
1 ACATTTATATGGCCCATC-AGGCCCAATTC
37966839 ATCATTTATATGGCCCATGCA-GCCCAATTC
1 A-CATTTATATGGCCCAT-CAGGCCCAATTC
*
37966869 ACGTTTATATGGCCCATCAGGCCCAATTC
1 ACATTTATATGGCCCATCAGGCCCAATTC
* *
37966898 ACATTCATATGGCCCATTAGGCCCAAT
1 ACATTTATATGGCCCATCAGGCCCAAT
37966925 CTCATTATAT
Statistics
Matches: 74, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
27 1 0.01
28 21 0.28
29 50 0.68
30 2 0.03
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.27
Consensus pattern (29 bp):
ACATTTATATGGCCCATCAGGCCCAATTC
Found at i:37974621 original size:29 final size:29
Alignment explanation
Indices: 37974528--37974622 Score: 88
Period size: 29 Copynumber: 3.3 Consensus size: 29
37974518 ATGACCCACT
*
37974528 AGGCCCAATCTCAC-TT-ATATGGCCCATCC
1 AGGCCCAAT-TCACATTCAAATGGCCCAT-C
* * * *
37974557 A-ACCAAATTCACGTTCATATGGCCCATC
1 AGGCCCAATTCACATTCAAATGGCCCATC
*
37974585 AGGCCCAATTCACATTCAAATGGCCCATT
1 AGGCCCAATTCACATTCAAATGGCCCATC
*
37974614 AGGTCCAAT
1 AGGCCCAAT
37974623 CTCATTATAT
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
27 4 0.07
28 9 0.16
29 42 0.76
ACGTcount: A:0.29, C:0.33, G:0.14, T:0.24
Consensus pattern (29 bp):
AGGCCCAATTCACATTCAAATGGCCCATC
Found at i:37983760 original size:46 final size:46
Alignment explanation
Indices: 37983707--37983963 Score: 256
Period size: 46 Copynumber: 5.5 Consensus size: 46
37983697 TACATCTCTC
*
37983707 GAACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
* * * ***
37983753 GAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTTACATCTCT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--TCCATAAGT
* *
37983799 CGAACTCAGACTCACCTCAACGAGTTCGGACATTCGCATCCATAAGT
1 -GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
* * * ***
37983846 GAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTTACATCTCT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--TCCATAAGT
*
37983892 CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 -GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
37983939 GAACTCGGACTCAACTCAACGAGTT
1 GAACTCGGACTCAACTCAACGAGTT
37983964 TGGATGCCCA
Statistics
Matches: 166, Mismatches: 31, Indels: 28
0.74 0.14 0.12
Matches are distributed among these distances:
43 2 0.01
44 8 0.05
46 85 0.51
47 61 0.37
49 8 0.05
50 2 0.01
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.23
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
Found at i:37983818 original size:47 final size:47
Alignment explanation
Indices: 37983689--37983921 Score: 194
Period size: 47 Copynumber: 5.0 Consensus size: 47
37983679 ACTTGAGTGT
* * *
37983689 TGCCTAGTTACATCTCTCGAACTCGGACTCAACTCAATGAGTTCGGACA
1 TGCCTAGTTACATCTCTCGAACTCAGACTCAACTCAACGAGCTCGG--A
* * *** *
37983738 TTCGC-A--TCCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGA
1 TGC-CTAGTTACATCTCTCGAACTCAGACTCAACTCAACGAGCTCGGA
* *
37983782 TGCCTAGTTACATCTCTCGAACTCAGACTCACCTCAACGAGTTCGGACA
1 TGCCTAGTTACATCTCTCGAACTCAGACTCAACTCAACGAGCTCGG--A
* * *** *
37983831 TTCGC-A--TCCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGA
1 TGC-CTAGTTACATCTCTCGAACTCAGACTCAACTCAACGAGCTCGGA
*
37983875 TGCCTAGTTACATCTCTCGAACTCAGACTCAACTCAACGAGTTCGGA
1 TGCCTAGTTACATCTCTCGAACTCAGACTCAACTCAACGAGCTCGGA
37983922 CATTCGCATC
Statistics
Matches: 142, Mismatches: 30, Indels: 26
0.72 0.15 0.13
Matches are distributed among these distances:
43 2 0.01
44 8 0.06
46 61 0.43
47 62 0.44
49 7 0.05
50 2 0.01
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (47 bp):
TGCCTAGTTACATCTCTCGAACTCAGACTCAACTCAACGAGCTCGGA
Found at i:37983848 original size:93 final size:93
Alignment explanation
Indices: 37983689--37983971 Score: 521
Period size: 93 Copynumber: 3.0 Consensus size: 93
37983679 ACTTGAGTGT
* *
37983689 TGCCTAGTTACATCTCTCGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTG
1 TGCCTAGTTACATCTCTCGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTG
37983754 AACTCGGACTCAACTCAACGAGCTCGGA
66 AACTCGGACTCAACTCAACGAGCTCGGA
*
37983782 TGCCTAGTTACATCTCTCGAACTCAGACTCACCTCAACGAGTTCGGACATTCGCATCCATAAGTG
1 TGCCTAGTTACATCTCTCGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTG
37983847 AACTCGGACTCAACTCAACGAGCTCGGA
66 AACTCGGACTCAACTCAACGAGCTCGGA
37983875 TGCCTAGTTACATCTCTCGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTG
1 TGCCTAGTTACATCTCTCGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTG
* *
37983940 AACTCGGACTCAACTCAACGAGTTTGGA
66 AACTCGGACTCAACTCAACGAGCTCGGA
37983968 TGCC
1 TGCC
37983972 CAAATATCCT
Statistics
Matches: 184, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 184 1.00
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.24
Consensus pattern (93 bp):
TGCCTAGTTACATCTCTCGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTG
AACTCGGACTCAACTCAACGAGCTCGGA
Found at i:37993334 original size:227 final size:228
Alignment explanation
Indices: 37992939--37993389 Score: 638
Period size: 227 Copynumber: 2.0 Consensus size: 228
37992929 ATTTCAAAGT
* *
37992939 AATTTCATACTAAAAACTTCTAGAATGCAAATTTTGCAACTTATTCAATTTAGTCCCTAACTTTA
1 AATTTCATACTAAAAACTTCTAGAATGCAAATTTTACAAATTATTCAATTTAGTCCCTAACTTTA
* * * *
37993004 AATTAAACTCGTTATGCCCAAAATTTCTTCACGAAATCTTCACACAATTAAACATTCATATCATA
66 AATTAAACACGTTATGCACAAAATTTCTTCACGAAATCTTCACACAATCAAACAGTCATATCATA
* *
37993069 AACCTCAAAATAATTATAAAATAATTATTTCTATCTCGGA-TTTGTGGTCATGAAACCACTATTC
131 AACCTCAAAATAATCATAAAATAATTATTTCTATCTCGGATTTTGTGGTCACGAAACCACTATTC
* * *
37993133 CGATTAGGCCCTAATTC-GGAATATTACAAAAAC
196 CGACTAGGCCCAAAATCAGG-ATATTACAAAAAC
* * * *
37993166 AATTTCATACTAGAAACTTCTAGAATGCAAGTTTTACAAATTATTCGATTTTGTCCCTAA-TTTC
1 AATTTCATACTAAAAACTTCTAGAATGCAAATTTTACAAATTATTCAATTTAGTCCCTAACTTT-
* * * * * ** *
37993230 AATTTAAGCACTTTATGCATAAAATTTCTTCACGAAATTTTCACACAATCATGCAGTCATATCTT
65 AAATTAAACACGTTATGCACAAAATTTCTTCACGAAATCTTCACACAATCAAACAGTCATATCAT
* *
37993295 AGACCTCAAAATAATCATAAAATAATTATTTCTATCTCGGATTTTGTGGTCACGAAACCGCTATT
130 AAACCTCAAAATAATCATAAAATAATTATTTCTATCTCGGATTTTGTGGTCACGAAACCACTATT
37993360 CCGACTAGGCCCAAAATCAGGATATTACAA
195 CCGACTAGGCCCAAAATCAGGATATTACAA
37993390 CTCTCCCCCT
Statistics
Matches: 196, Mismatches: 25, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
226 3 0.02
227 146 0.74
228 45 0.23
229 2 0.01
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.34
Consensus pattern (228 bp):
AATTTCATACTAAAAACTTCTAGAATGCAAATTTTACAAATTATTCAATTTAGTCCCTAACTTTA
AATTAAACACGTTATGCACAAAATTTCTTCACGAAATCTTCACACAATCAAACAGTCATATCATA
AACCTCAAAATAATCATAAAATAATTATTTCTATCTCGGATTTTGTGGTCACGAAACCACTATTC
CGACTAGGCCCAAAATCAGGATATTACAAAAAC
Found at i:37997602 original size:93 final size:93
Alignment explanation
Indices: 37997443--37998413 Score: 1915
Period size: 93 Copynumber: 10.4 Consensus size: 93
37997433 TGTAACCCGC
37997443 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCGAACTCGGAC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCGAACTCGGAC
37997508 TCAACTCAATGAGTTCGGACATTCGCAT
66 TCAACTCAATGAGTTCGGACATTCGCAT
37997536 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCGAACTCGGAC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCGAACTCGGAC
37997601 TCAACTCAATGAGTTCGGACATTCGCAT
66 TCAACTCAATGAGTTCGGACATTCGCAT
37997629 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCGAACTCGGAC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCGAACTCGGAC
37997694 TCAACTCAATGAGTTCGGACATTCGCAT
66 TCAACTCAATGAGTTCGGACATTCGCAT
37997722 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCGAACTCGGAC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCGAACTCGGAC
37997787 TCAACTCAATGAGTTCGGACATTCGCAT
66 TCAACTCAATGAGTTCGGACATTCGCAT
37997815 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCGAACTCGGAC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCGAACTCGGAC
37997880 TCAACTCAATGAGTTCGGACATTCGCAT
66 TCAACTCAATGAGTTCGGACATTCGCAT
37997908 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCGAACTCGGAC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCGAACTCGGAC
37997973 TCAACTCAATGAGTTCGGACATTCGCAT
66 TCAACTCAATGAGTTCGGACATTCGCAT
37998001 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCGAACTCGGAC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCGAACTCGGAC
37998066 TCAACTCAATGAGTTCGGACATTCGCAT
66 TCAACTCAATGAGTTCGGACATTCGCAT
37998094 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCGAACTCGGAC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCGAACTCGGAC
37998159 TCAACTCAATGAGTTCGGACATTCGCAT
66 TCAACTCAATGAGTTCGGACATTCGCAT
37998187 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCGAACTCGGAC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCGAACTCGGAC
37998252 TCAACTCAATGAGTTCGGACATTCGCAT
66 TCAACTCAATGAGTTCGGACATTCGCAT
37998280 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCGAACTCGGAC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCGAACTCGGAC
* *
37998345 TCAATTCAACGAGTTCGGACATTCGCAT
66 TCAACTCAATGAGTTCGGACATTCGCAT
*
37998373 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCC
37998414 CAAATATCCT
Statistics
Matches: 875, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 875 1.00
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.23
Consensus pattern (93 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCGAACTCGGAC
TCAACTCAATGAGTTCGGACATTCGCAT
Found at i:38013197 original size:47 final size:47
Alignment explanation
Indices: 38013146--38013319 Score: 233
Period size: 47 Copynumber: 3.7 Consensus size: 47
38013136 TTAGGATTCT
* * *
38013146 ATGTGATGGATGTGAACA-TGCATATATGAGATAGGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAGGGCCTAATGGCCG
*
38013193 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCTAATGGCCG
* * * *
38013240 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCTAATGGCCG
* * *
38013287 ACGTGATGGATGTGAAAGTGTATAAATGTGATA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATA
38013320 AGTCCCGAAG
Statistics
Matches: 113, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
46 1 0.01
47 112 0.99
ACGTcount: A:0.32, C:0.09, G:0.32, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCTAATGGCCG
Found at i:38013498 original size:37 final size:37
Alignment explanation
Indices: 38013440--38013518 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
38013430 CCGAGCTCTA
* * *
38013440 AAGACCCGATGACTACATGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
* *
38013477 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
38013514 AAGAC
1 AAGAC
38013519 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
Found at i:38015683 original size:40 final size:40
Alignment explanation
Indices: 38015373--38015751 Score: 360
Period size: 40 Copynumber: 9.5 Consensus size: 40
38015363 TCGAATGATG
* *
38015373 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATA
* * * *
38015413 TCCGGACTAAGAT-CCGAAG-GCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCCGAAGAGCATTCGTGCTAGTGA-TATA
* * * *
38015452 TTCCGGGCTAAG-CCCGAAG-GCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA-TATA
* * * * *
38015492 TCCGGGTTAAGTCTCGAAG-GCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA-TATA
* * *
38015532 ACCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* * *
38015572 TCTGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
38015612 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
38015652 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* ** * * *
38015692 TCCGTGCTAAACCCCAAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
38015732 TCCGGGCTAGGTCCCGAAGA
1 TCCGGGCTAAGTCCCGAAGA
38015752 ACAATCATGC
Statistics
Matches: 292, Mismatches: 40, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
39 35 0.12
40 237 0.81
41 20 0.07
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:38018062 original size:40 final size:40
Alignment explanation
Indices: 38017871--38018055 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
38017861 TCGAATGATG
* * * *
38017871 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
38017911 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
38017951 TCCGGGTTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
38017990 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
38018031 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
38018056 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 35 0.28
40 80 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:38018077 original size:79 final size:79
Alignment explanation
Indices: 38017924--38018088 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
38017914 GGACTAAGAT
* * **
38017924 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGTTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
38017989 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
38018003 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
38018066 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
38018082 CCGAAGG
1 CCGAAGG
38018089 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 24 0.33
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:38019315 original size:68 final size:67
Alignment explanation
Indices: 38019182--38019316 Score: 171
Period size: 68 Copynumber: 2.0 Consensus size: 67
38019172 TAAACTGTAC
** *
38019182 TAATTGGCCCGACCAAAAATTCTAGAAAAAATACACAGATGGGCACATGAGTCTAGTTTCTGGGA
1 TAATTGGCCCGACCAAAAATTCTAGAAAAAATACACAGATGCACACATGAGTCTAGTTTCAGGGA
38019247 AA
66 AA
* **** * *
38019249 TAATTGGCCTGACCAAAAATTCTAGAAAAAAATTTGTAGATGCATATATGAGTCTAGTTTCAGGG
1 TAATTGGCCCGACCAAAAATTCTAG-AAAAAATACACAGATGCACACATGAGTCTAGTTTCAGGG
38019314 AAA
65 AAA
38019317 AATCACGAAG
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
67 24 0.42
68 33 0.58
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (67 bp):
TAATTGGCCCGACCAAAAATTCTAGAAAAAATACACAGATGCACACATGAGTCTAGTTTCAGGGA
AA
Found at i:38022581 original size:53 final size:53
Alignment explanation
Indices: 38022508--38022613 Score: 194
Period size: 53 Copynumber: 2.0 Consensus size: 53
38022498 AGAAAAATTA
*
38022508 TCCGACCCATGATCTTGAACTAGCTGCCATCGTATTTGCTTTAAAAATATGGC
1 TCCGACCCATGATCTCGAACTAGCTGCCATCGTATTTGCTTTAAAAATATGGC
*
38022561 TCCGACCCATGATCTCGAACTAGCTGCCATCGTATTTGCTTTGAAAATATGGC
1 TCCGACCCATGATCTCGAACTAGCTGCCATCGTATTTGCTTTAAAAATATGGC
38022614 GACATTATTT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (53 bp):
TCCGACCCATGATCTCGAACTAGCTGCCATCGTATTTGCTTTAAAAATATGGC
Found at i:38035666 original size:23 final size:22
Alignment explanation
Indices: 38035640--38035692 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
38035630 TAATTTGGTG
*
38035640 TAATTTAGTTTGGTTATTTTACT
1 TAATTTA-TTAGGTTATTTTACT
*
38035663 TAATTTCATTAGTTTATTTTACT
1 TAATTT-ATTAGGTTATTTTACT
*
38035686 TAGTTTA
1 TAATTTA
38035693 ATTTAATTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 1 0.04
23 24 0.92
24 1 0.04
ACGTcount: A:0.25, C:0.06, G:0.09, T:0.60
Consensus pattern (22 bp):
TAATTTATTAGGTTATTTTACT
Done.