Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 122 of 255
Found at i:38956360 original size:29 final size:29
Alignment explanation
Indices: 38956300--38956372 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
38956290 GTTGTGAGAT
* *
38956300 TGGCACTAAGTGTGCGGGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATACA
* *
38956329 TGGCACTAAGTGTGCGAG-TTTAAAGTATA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TACA
38956358 TGGCACT-AGTGTGCG
1 TGGCACTAAGTGTGCG
38956373 TGGTTGATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
28 13 0.33
29 26 0.67
ACGTcount: A:0.25, C:0.15, G:0.33, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATACA
Found at i:38961031 original size:21 final size:21
Alignment explanation
Indices: 38961007--38961046 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
38960997 TATATTTGAT
38961007 AGCATA-AGTAATAAAATAAAG
1 AGCATAGA-TAATAAAATAAAG
*
38961028 AGCATGGATAATAAAATAA
1 AGCATAGATAATAAAATAA
38961047 TAGTGGTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.60, C:0.05, G:0.15, T:0.20
Consensus pattern (21 bp):
AGCATAGATAATAAAATAAAG
Found at i:38962993 original size:40 final size:40
Alignment explanation
Indices: 38962923--38963103 Score: 260
Period size: 40 Copynumber: 4.6 Consensus size: 40
38962913 TATTCGAATG
* *
38962923 ATATCCGGGTTAAGT-CCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
38962962 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
38963002 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
38963042 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
38963082 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
38963104 TACTTGGGTT
Statistics
Matches: 130, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
39 28 0.22
40 100 0.77
41 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:38975087 original size:50 final size:50
Alignment explanation
Indices: 38975011--38975147 Score: 166
Period size: 50 Copynumber: 2.7 Consensus size: 50
38975001 TTTAAAGATA
* * *
38975011 CAAACTTTAACTAACATGGGAATTACACAATGCATGGAAAAATTTATAATG
1 CAAAC-TTAACTAACATGAGAGTTACATAATGCATGGAAAAATTTATAATG
* ** ** * *
38975062 CAATCTTAACTAACATGAGAGTTACATAATGCATGTCATTATTTGTGATG
1 CAAACTTAACTAACATGAGAGTTACATAATGCATGGAAAAATTTATAATG
38975112 CAAACTTAACTAATCATGAGAGTTACATAATGCATG
1 CAAACTTAACTAA-CATGAGAGTTACATAATGCATG
38975148 ACTTATAAAT
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
50 48 0.65
51 26 0.35
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.31
Consensus pattern (50 bp):
CAAACTTAACTAACATGAGAGTTACATAATGCATGGAAAAATTTATAATG
Found at i:38983092 original size:37 final size:37
Alignment explanation
Indices: 38983033--38983104 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
38983023 AGCTCAGACG
*
38983033 AAATCTCCACACGAAGTTATCGGGTCTTACACGGACA
1 AAATCTCCACACGAAGTCATCGGGTCTTACACGGACA
* *
38983070 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGAAGTCATCGGGTCTTACACGGA
38983105 ATATATTTCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (37 bp):
AAATCTCCACACGAAGTCATCGGGTCTTACACGGACA
Found at i:38983374 original size:48 final size:48
Alignment explanation
Indices: 38983250--38983434 Score: 309
Period size: 48 Copynumber: 3.8 Consensus size: 48
38983240 GCACATCGCC
*
38983250 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
38983300 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
38983348 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
38983396 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
38983435 TGCATGTTCA
Statistics
Matches: 128, Mismatches: 5, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
48 84 0.66
49 2 0.02
50 42 0.33
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:38983439 original size:98 final size:97
Alignment explanation
Indices: 38983250--38983433 Score: 318
Period size: 98 Copynumber: 1.9 Consensus size: 97
38983240 GCACATCGCC
*
38983250 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA-ATACATATTTCACATT
38983315 GACCATTCGGCTTTACCACATATGCATATCTCA
65 GACCATTCGGCTTTACCACATATGCATATCTCA
*
38983348 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC-ATACATATTTCACATT-
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATTG
38983411 AGCCATTCGGCTTTACCACATAT
66 A-CCATTCGGCTTTACCACATAT
38983434 ATGCATGTTC
Statistics
Matches: 83, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
95 1 0.01
96 36 0.43
98 46 0.55
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.36
Consensus pattern (97 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATTG
ACCATTCGGCTTTACCACATATGCATATCTCA
Found at i:38983483 original size:47 final size:47
Alignment explanation
Indices: 38983404--38983597 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
38983394 CATACATATT
* * * *
38983404 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
38983451 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
38983498 TCACATTGGCCATTCGGTCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
38983545 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
38983592 TCACAT
1 TCACAT
38983598 AAAATCCTAA
Statistics
Matches: 131, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 131 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:38983525 original size:94 final size:94
Alignment explanation
Indices: 38983357--38983597 Score: 283
Period size: 94 Copynumber: 2.6 Consensus size: 94
38983347 ATACATATTT
* * * *
38983357 CACATTAGCCATTCGGCTTTA-C-CACATATACATATCTCATACATAT-TTCACATTAGCCATTC
1 CACATTGGCCATTCGGCCTTATCACACATATACACA-CTC--ACAT-TCATCACATTAGCCATTC
*
38983419 GGCTTTACCACATATATGCATGTTCATATTCAC
62 GGCTTTACCACATATATGCATGTTCACATTCAC
* ** *
38983452 CACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGG-T
1 CACATTGGCCATTCGGCCTTATCACACATATACACACTCACATTCATCACATTAGCCATTCGGCT
* *
38983516 CTTATCACATATATGCATGTTCACATTCAT
66 -TTACCACATATATGCATGTTCACATTCAC
* * *
38983546 CACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCACAT
1 CACATTGGCCATTCGGCCTTATCACACATATACACACTCACATTCATCACAT
38983598 AAAATCCTAA
Statistics
Matches: 127, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
93 2 0.02
94 92 0.72
95 19 0.15
96 4 0.03
97 10 0.08
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.34
Consensus pattern (94 bp):
CACATTGGCCATTCGGCCTTATCACACATATACACACTCACATTCATCACATTAGCCATTCGGCT
TTACCACATATATGCATGTTCACATTCAC
Found at i:38989440 original size:27 final size:27
Alignment explanation
Indices: 38989405--38989456 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
38989395 GTCATACATA
* *
38989405 TCATGGGGGCATATCAGTCATTTTACC
1 TCATAGGGGCATAACAGTCATTTTACC
*
38989432 TCATAGGGGTATAACAGTCATTTTA
1 TCATAGGGGCATAACAGTCATTTTA
38989457 TCAAATTGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (27 bp):
TCATAGGGGCATAACAGTCATTTTACC
Found at i:38989467 original size:27 final size:27
Alignment explanation
Indices: 38989410--38989468 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
38989400 ACATATCATG
* * **
38989410 GGGGCATATCAGTCATTTTACCTCATA
1 GGGGTATAACAGTCATTTTACCAAATA
* *
38989437 GGGGTATAACAGTCATTTTATCAAATT
1 GGGGTATAACAGTCATTTTACCAAATA
38989464 GGGGT
1 GGGGT
38989469 CTGGGTATAC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (27 bp):
GGGGTATAACAGTCATTTTACCAAATA
Found at i:38991358 original size:46 final size:46
Alignment explanation
Indices: 38991302--38991475 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
38991292 TGATATGTGT
38991302 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATATTATGAGA
* * * * *
38991348 GCCAGTGTAAGA-ATGCCTGGGACATGCATCAGCC-TCGAGATAT-ACCA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAT--A-TTATGA-GA
* * *
38991395 GCTAGTGTAAGACATGTCTGGCACATGCATCGG-CAT-TGAGACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATAT--TATGAGA
38991441 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCC
38991476 TCGAGATATA
Statistics
Matches: 104, Mismatches: 14, Indels: 19
0.76 0.10 0.14
Matches are distributed among these distances:
44 1 0.01
45 20 0.19
46 47 0.45
47 18 0.17
48 18 0.17
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATATTATGAGA
Found at i:38991452 original size:93 final size:94
Alignment explanation
Indices: 38991302--38991515 Score: 299
Period size: 94 Copynumber: 2.3 Consensus size: 94
38991292 TGATATGTGT
* *
38991302 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATATTATGAGAGCCAGTGTAAGA-ATGCCT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATATGACGAGAGCCAGTGTAAGACATGCCT
*
38991366 GGGACATGCATCAGCCTCGAGATATACCA
66 GGGACATGCATCAGCCTCGAGATATACAA
* * *
38991395 GCTAGTGTAAGACATGTCTGGCACATGCATCGG-CAT-TGAGACGAGAGCTAGTGTAAGACATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATAT--GACGAGAGCCAGTGTAAGACATGC
*
38991458 CTGGGACATGCATCGGCCTCGAGATATACAA
64 CTGGGACATGCATCAGCCTCGAGATATACAA
* * *
38991489 GTTGGTGTAAGACCTGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
38991516 GTGATAGCTT
Statistics
Matches: 107, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
91 1 0.01
92 3 0.03
93 48 0.45
94 55 0.51
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATATGACGAGAGCCAGTGTAAGACATGCCT
GGGACATGCATCAGCCTCGAGATATACAA
Found at i:38991600 original size:49 final size:49
Alignment explanation
Indices: 38991535--38991713 Score: 166
Period size: 49 Copynumber: 3.7 Consensus size: 49
38991525 TGTTGTGTGT
*
38991535 CAGTGTAAGACCTGTCTAGGACATGGCATCGACAC-CGATAGATGACAGC
1 CAGTGTAAGACCTGTCTAGGACATGGCATCGAC-CTCGATAGATGAAAGC
* * * * * * *
38991584 CAGTGTAAGACTTGTCTGGGACACGGCATTGGCCTCGATATATGAAAGT
1 CAGTGTAAGACCTGTCTAGGACATGGCATCGACCTCGATAGATGAAAGC
* * * * **
38991633 CAATGTAAGACCTGTCTAGGACATGGCATTGACTTTGAT-G-TGCTAGC
1 CAGTGTAAGACCTGTCTAGGACATGGCATCGACCTCGATAGATGAAAGC
* * *
38991680 CAGTGTAAGACCATGTTTGGGACATGGCGTCGAC
1 CAGTGTAAGACC-TGTCTAGGACATGGCATCGAC
38991714 ATCTTATCCC
Statistics
Matches: 104, Mismatches: 24, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
47 15 0.14
48 18 0.17
49 71 0.68
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTAGGACATGGCATCGACCTCGATAGATGAAAGC
Found at i:38994631 original size:28 final size:28
Alignment explanation
Indices: 38994560--38994654 Score: 140
Period size: 27 Copynumber: 3.5 Consensus size: 28
38994550 GAGGAAGCAT
*
38994560 TCTGGTGGCTTTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACAAATATCTGTA
*
38994587 TCTGGTGGCTCTGCCACAAATATCTGTT
1 TCTGGTGGCTCTGCCACAAATATCTGTA
*
38994615 TCTAGTGGCTCTGCCAC-AATATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTGTA
*
38994642 TCTGGTGACTCTG
1 TCTGGTGGCTCTG
38994655 TTATAATATC
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 45 0.74
28 16 0.26
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (28 bp):
TCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:38994662 original size:27 final size:27
Alignment explanation
Indices: 38994560--38994672 Score: 122
Period size: 27 Copynumber: 4.2 Consensus size: 27
38994550 GAGGAAGCAT
*
38994560 TCTGGTGGCTTTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCA-AAATATCTGTA
*
38994587 TCTGGTGGCTCTGCCACAAATATCTGTT
1 TCTGGTGGCTCTGCCA-AAATATCTGTA
* *
38994615 TCTAGTGGCTCTGCCACAATATCTGTA
1 TCTGGTGGCTCTGCCAAAATATCTGTA
* ** *
38994642 TCTGGTGACTCTGTTATAATATCTGT-
1 TCTGGTGGCTCTGCCAAAATATCTGTA
38994668 TCTGG
1 TCTGG
38994673 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 55 0.73
28 15 0.20
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.37
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCAAAATATCTGTA
Found at i:39000977 original size:46 final size:45
Alignment explanation
Indices: 39000853--39000978 Score: 164
Period size: 46 Copynumber: 2.8 Consensus size: 45
39000843 TCATTTGTGT
* * *
39000853 GCTAGTGTAAGACATGTTTGGGACATGCATCAGCCACATCATGAGA
1 GCTAGTGTAAGACATGTTTGGGACATGCATC-GGCACATAACGAGA
* * *
39000899 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCA-TTGAAGCGAGA
1 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCACAT-AA-CGAGA
39000945 GCTAGTGTAAGACATGTTTGGGACATGCATCGGC
1 GCTAGTGTAAGACATGTTTGGGACATGCATCGGC
39000979 CTCGCGAGAT
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
44 1 0.01
45 4 0.06
46 65 0.93
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTTTGGGACATGCATCGGCACATAACGAGA
Found at i:39002852 original size:27 final size:27
Alignment explanation
Indices: 39002821--39002998 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
39002811 TAAATTGTAC
39002821 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
39002848 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
39002874 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
39002902 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
39002930 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
39002957 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
39002984 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
39002999 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:39002935 original size:82 final size:81
Alignment explanation
Indices: 39002822--39002977 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
39002812 AAATTGTACA
* *
39002822 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
39002886 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
39002903 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
39002968 TGCGAGTTGA
65 TGCGAATTGA
39002978 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:39002989 original size:82 final size:81
Alignment explanation
Indices: 39002818--39002998 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
39002808 GATTAAATTG
* *
39002818 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
39002883 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
39002899 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
39002963 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
39002981 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
39002999 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:39004485 original size:26 final size:26
Alignment explanation
Indices: 39004389--39004493 Score: 93
Period size: 27 Copynumber: 4.0 Consensus size: 26
39004379 TTTACCGTAT
* * *
39004389 AGGGGTATTTTGGTAATTTTACACTAC
1 AGGGGTATTTCGATAATTTTACA-AAC
* *
39004416 AAGGGTATTTCGATAGTTTTACAAAC
1 AGGGGTATTTCGATAATTTTACAAAC
* **
39004442 AGGTGGTATTTCAATAATTTTACAAGT
1 AGG-GGTATTTCGATAATTTTACAAAC
* * *
39004469 TGGGGTATTTCGGTAATTTCACAAA
1 AGGGGTATTTCGATAATTTTACAAA
39004494 TTAGAGGTCT
Statistics
Matches: 62, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
26 22 0.35
27 40 0.65
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.38
Consensus pattern (26 bp):
AGGGGTATTTCGATAATTTTACAAAC
Found at i:39015695 original size:79 final size:82
Alignment explanation
Indices: 39015584--39015768 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
39015574 GCTACTCGTT
* *
39015584 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
39015647 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
39015664 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
39015727 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
39015744 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
39015769 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:39015768 original size:40 final size:40
Alignment explanation
Indices: 39015565--39015768 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
39015555 CGGAATTTAA
** *
39015565 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
39015605 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
39015645 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
39015684 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
39015724 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
39015764 CCGGA
1 CCGGA
39015769 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:39023658 original size:79 final size:82
Alignment explanation
Indices: 39023547--39023731 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
39023537 GCTACTCGTT
* *
39023547 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
39023610 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
39023627 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
39023690 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
39023707 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
39023732 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:39023731 original size:40 final size:40
Alignment explanation
Indices: 39023528--39023731 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
39023518 CGGAATTTAA
** *
39023528 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
39023568 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
39023608 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
39023647 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
39023687 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
39023727 CCGGA
1 CCGGA
39023732 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:39029548 original size:32 final size:34
Alignment explanation
Indices: 39029471--39029553 Score: 130
Period size: 34 Copynumber: 2.4 Consensus size: 34
39029461 ACCTTGAGAT
* *
39029471 AATATATATATATATCATACCAATACATCATGGG
1 AATAAATATATATATCATACCAACACATCATGGG
*
39029505 AATAAATATATATATCATACCAACACATCATGTG
1 AATAAATATATATATCATACCAACACATCATGGG
*
39029539 CATAAATATATATAT
1 AATAAATATATATAT
39029554 GTGCAAGTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 45 1.00
ACGTcount: A:0.47, C:0.14, G:0.06, T:0.33
Consensus pattern (34 bp):
AATAAATATATATATCATACCAACACATCATGGG
Found at i:39032027 original size:27 final size:27
Alignment explanation
Indices: 39031997--39032096 Score: 128
Period size: 27 Copynumber: 3.7 Consensus size: 27
39031987 TATTGAAATG
* * *
39031997 CCCTCAATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
*
39032024 CCCTCGATTTATAAAATTACCATTTCA
1 CCCTCGATTTATAAAATTACCATTTTA
* * *
39032051 CCCTCGATTTACAAAATTATCGTTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
*
39032078 CCCTCGATTTATAGAATTA
1 CCCTCGATTTATAAAATTA
39032097 GTGTTTTCTT
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 63 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTATAAAATTACCATTTTA
Found at i:39034275 original size:37 final size:37
Alignment explanation
Indices: 39034225--39034303 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
39034215 TTATTACGAA
* * *
39034225 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
39034262 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
39034299 GTCTT
1 GTCTT
39034304 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:39034509 original size:47 final size:47
Alignment explanation
Indices: 39034466--39034992 Score: 820
Period size: 47 Copynumber: 11.1 Consensus size: 47
39034456 TTGGCCACTC
* * *
39034466 GGCCTTGTCACATATATACACTTTCACATTCGTCACATCGGCCATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
* *
39034513 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
* * *
39034560 GGCCTTATCACACACATACACTTTCACATTCATCACGTCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
* *
39034607 GGCCTTATCACACATATACCACTTTCACATTCATCACATCAGCTATTA
1 GGCCTTATCACACATATA-CACTTTCACATTCATCACATCGGCCATTA
* * *
39034655 GGCCCTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
*
39034702 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
* * *
39034749 GGCCCTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
39034796 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
**
39034843 GGCCTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
**
39034890 GGCCTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
* *
39034937 GGCCCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCAC--ACATATACACTTTCACATTCATCACATCGGCCATTA
39034986 GGCCTTA
1 GGCCTTA
39034993 CTATCATTTC
Statistics
Matches: 453, Mismatches: 24, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 368 0.81
48 44 0.10
49 41 0.09
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.31
Consensus pattern (47 bp):
GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
Found at i:39038500 original size:40 final size:40
Alignment explanation
Indices: 39038455--39038690 Score: 319
Period size: 40 Copynumber: 5.9 Consensus size: 40
39038445 CGAATACACG
* * * *
39038455 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGACATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
* * * ** *
39038495 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
* * * *
39038535 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGAATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
* *
39038575 TCACTAGCATGAATGCTCCTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
*
39038615 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
39038655 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGA
39038691 CATCATTCAA
Statistics
Matches: 175, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 175 1.00
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
Found at i:39039030 original size:29 final size:29
Alignment explanation
Indices: 39038991--39039069 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
39038981 CTTAATAATC
*
39038991 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
39039021 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
39039050 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
39039070 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:39039112 original size:43 final size:43
Alignment explanation
Indices: 39039051--39039196 Score: 256
Period size: 43 Copynumber: 3.4 Consensus size: 43
39039041 TGCATTTCAA
39039051 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
39039094 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
* * *
39039137 GCTCACACACTTAGTGCCAATCTCACAACCGTGAAAACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
39039180 GCTCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
39039197 TGAAAACCAA
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 99 1.00
ACGTcount: A:0.28, C:0.34, G:0.14, T:0.24
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:39041095 original size:37 final size:37
Alignment explanation
Indices: 39041045--39041123 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
39041035 TTATTACGAA
* * *
39041045 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
39041082 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
39041119 GTCTT
1 GTCTT
39041124 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:39041397 original size:47 final size:47
Alignment explanation
Indices: 39041285--39041809 Score: 800
Period size: 47 Copynumber: 11.1 Consensus size: 47
39041275 TTGGCCACTC
* * * * *
39041285 GGCCTTGTCACATATATACGCTTTCACATTCGTCACAT-GGCCATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
* *
39041331 GGCCTTATCACATATATACACTTTCACATTCATTACATCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
* *
39041378 GGCCTTATCACACACATACACTTTCACATTCATCACGTCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
39041425 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
* *
39041472 GGCCCTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
*
39041519 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTGTTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
* *
39041566 GGCCCTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
*
39041613 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
** *
39041660 GGCCTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
** *
39041707 GGCCTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
* * * *
39041754 GGCCCTATCACATATATATACACTTTCACATTCATCACATCAGCCATTA
1 GGCCTTATCAC--ACATATACACTTTCACATTCATCACATCGGCTATTA
39041803 GGCCTTA
1 GGCCTTA
39041810 CTATCATTTC
Statistics
Matches: 448, Mismatches: 28, Indels: 3
0.94 0.06 0.01
Matches are distributed among these distances:
46 34 0.08
47 374 0.83
49 40 0.09
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.31
Consensus pattern (47 bp):
GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
Found at i:39055183 original size:49 final size:49
Alignment explanation
Indices: 39055009--39055203 Score: 246
Period size: 49 Copynumber: 3.9 Consensus size: 49
39054999 CTATTGTGAT
* *
39055009 GTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTTG
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA--TTG
* * * * **
39055060 ATCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAG
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT-G
* *
39055110 GTCACGTGTGTAGCACTAAGTGCAGGCTACTACGTGTACCAGATAATTG
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTG
* * *
39055159 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
39055204 GCTTTGGCTA
Statistics
Matches: 124, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 43 0.35
50 43 0.35
51 38 0.31
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (49 bp):
GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTG
Found at i:39061221 original size:30 final size:30
Alignment explanation
Indices: 39061187--39061243 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
39061177 TTTCGGGCAT
*
39061187 AGGGGTAAAATGGTCATTTTGCCAAAGCCG
1 AGGGGTAAAATGGTCATTTTACCAAAGCCG
39061217 AGGGGTAAAATGGTCATTTTACCAAAG
1 AGGGGTAAAATGGTCATTTTACCAAAG
39061244 TTGTGAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.14, G:0.28, T:0.25
Consensus pattern (30 bp):
AGGGGTAAAATGGTCATTTTACCAAAGCCG
Found at i:39061471 original size:15 final size:17
Alignment explanation
Indices: 39061441--39061472 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
39061431 ACTTGTATTC
39061441 ATATTGTCATTGAATTG
1 ATATTGTCATTGAATTG
39061458 ATATTGT-A-TGAATTG
1 ATATTGTCATTGAATTG
39061473 TTAAGTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.31, C:0.03, G:0.19, T:0.47
Consensus pattern (17 bp):
ATATTGTCATTGAATTG
Found at i:39061710 original size:18 final size:18
Alignment explanation
Indices: 39061687--39061722 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
39061677 CTAGTGTAAG
39061687 ACATGTCT-GGGACATGCT
1 ACATGTCTAGGG-CATGCT
39061705 ACATGTCTAGGGCATGCT
1 ACATGTCTAGGGCATGCT
39061723 TCAGCCATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.82
19 3 0.18
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (18 bp):
ACATGTCTAGGGCATGCT
Found at i:39061800 original size:47 final size:45
Alignment explanation
Indices: 39061736--39061914 Score: 143
Period size: 47 Copynumber: 3.9 Consensus size: 45
39061726 GCCATATTAT
*
39061736 GAGT-GCCAGAGTAAGACATGTCTGGGACATGCATCGGCCTCAACA
1 GAGTAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAA-A
**
39061781 GAGATAGCCAGTGTAAGACATGTCTGGGACACACATCGG-CT--AA
1 GAG-TAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAA
* * * ** *
39061824 GAGTTGTGCTAGTGTAAGACATGTTTGGGACATGCATCAACACGCATATA
1 GAG-T-AGCCAGTGTAAGACATGTCTGGGACATGCATCGGC-CTCA-A-A
*
39061874 TGAG-AGCCAGTATAAGACCATGTCTGGGACATGGCATCGGC
1 -GAGTAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
39061915 AATTTATCCC
Statistics
Matches: 104, Mismatches: 18, Indels: 19
0.74 0.13 0.13
Matches are distributed among these distances:
43 5 0.05
44 28 0.27
45 3 0.03
46 4 0.04
47 30 0.29
48 10 0.10
49 14 0.13
50 7 0.07
51 3 0.03
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.21
Consensus pattern (45 bp):
GAGTAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAA
Found at i:39065353 original size:256 final size:256
Alignment explanation
Indices: 39064898--39065412 Score: 1030
Period size: 256 Copynumber: 2.0 Consensus size: 256
39064888 TAAGGATCAA
39064898 ATAGATGCATGGGTACAAAGTAGGAAGAATCGGCTACTATGGTTGACACTAATGCCGAATGTAAA
1 ATAGATGCATGGGTACAAAGTAGGAAGAATCGGCTACTATGGTTGACACTAATGCCGAATGTAAA
39064963 AATGTTATATTAAATAATGTATGTGATTTGAGTTAATGATATGAAAAAGAATATTTAGATGTATT
66 AATGTTATATTAAATAATGTATGTGATTTGAGTTAATGATATGAAAAAGAATATTTAGATGTATT
39065028 ATAATTGATTAAGTAATAAATCAAAAGTTGCTAAAATTGCCATTTCTTTAGCCGAATATGTGTTT
131 ATAATTGATTAAGTAATAAATCAAAAGTTGCTAAAATTGCCATTTCTTTAGCCGAATATGTGTTT
39065093 GATCAATGAAGAATTTGTTGAAGAATATAGGTGAACTTGGTAAGAGTATTCGGCTTAGTGT
196 GATCAATGAAGAATTTGTTGAAGAATATAGGTGAACTTGGTAAGAGTATTCGGCTTAGTGT
39065154 ATAGATGCATGGGTACAAAGTAGGAAGAATCGGCTACTATGGTTGACACTAATGCCGAATGTAAA
1 ATAGATGCATGGGTACAAAGTAGGAAGAATCGGCTACTATGGTTGACACTAATGCCGAATGTAAA
39065219 AATGTTATATTAAATAATGTATGTGATTTGAGTTAATGATATGAAAAAGAATATTTAGATGTATT
66 AATGTTATATTAAATAATGTATGTGATTTGAGTTAATGATATGAAAAAGAATATTTAGATGTATT
39065284 ATAATTGATTAAGTAATAAATCAAAAGTTGCTAAAATTGCCATTTCTTTAGCCGAATATGTGTTT
131 ATAATTGATTAAGTAATAAATCAAAAGTTGCTAAAATTGCCATTTCTTTAGCCGAATATGTGTTT
39065349 GATCAATGAAGAATTTGTTGAAGAATATAGGTGAACTTGGTAAGAGTATTCGGCTTAGTGT
196 GATCAATGAAGAATTTGTTGAAGAATATAGGTGAACTTGGTAAGAGTATTCGGCTTAGTGT
39065410 ATA
1 ATA
39065413 AATGATATAA
Statistics
Matches: 259, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
256 259 1.00
ACGTcount: A:0.37, C:0.08, G:0.21, T:0.34
Consensus pattern (256 bp):
ATAGATGCATGGGTACAAAGTAGGAAGAATCGGCTACTATGGTTGACACTAATGCCGAATGTAAA
AATGTTATATTAAATAATGTATGTGATTTGAGTTAATGATATGAAAAAGAATATTTAGATGTATT
ATAATTGATTAAGTAATAAATCAAAAGTTGCTAAAATTGCCATTTCTTTAGCCGAATATGTGTTT
GATCAATGAAGAATTTGTTGAAGAATATAGGTGAACTTGGTAAGAGTATTCGGCTTAGTGT
Found at i:39067109 original size:47 final size:47
Alignment explanation
Indices: 39066576--39067101 Score: 836
Period size: 47 Copynumber: 11.1 Consensus size: 47
39066566 GAAATGGTAG
* * *
39066576 TAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATGTGTGA
* * **
39066625 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* **
39066672 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
39066719 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
39066766 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
39066813 TAGGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
39066860 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
39066907 TAGGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* *
39066954 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
39067001 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* * *
39067048 TAAGGCCTAATGGCCGATGTGACGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
39067095 CAAGGCC
1 TAAGGCC
39067102 GAGTGGCCAA
Statistics
Matches: 454, Mismatches: 23, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
47 420 0.93
49 34 0.07
ACGTcount: A:0.31, C:0.10, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
Found at i:39067320 original size:37 final size:37
Alignment explanation
Indices: 39067264--39067343 Score: 115
Period size: 37 Copynumber: 2.2 Consensus size: 37
39067254 CCGAGCTCTA
* * * *
39067264 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACTCGATAACTACGTGTGGAGATTATGTCCGGGT
*
39067301 AAGACTCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACTCGATAACTACGTGTGGAGATTATGTCCGGGT
39067338 AAGACT
1 AAGACT
39067344 TCGTAATAAG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (37 bp):
AAGACTCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:39069341 original size:43 final size:43
Alignment explanation
Indices: 39069196--39069338 Score: 268
Period size: 43 Copynumber: 3.3 Consensus size: 43
39069186 TTGGTTTTCA
39069196 GCACTAAGTGTGCGAGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGAGCAATAAGTGTTCACGGTTGTGAGATTG
*
39069239 GCACTAAGTGTGTGAGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGAGCAATAAGTGTTCACGGTTGTGAGATTG
*
39069282 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGAGCAATAAGTGTTCACGGTTGTGAGATTG
39069325 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
39069339 GGCTTGAAAT
Statistics
Matches: 97, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 97 1.00
ACGTcount: A:0.24, C:0.14, G:0.34, T:0.28
Consensus pattern (43 bp):
GCACTAAGTGTGCGAGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:39069358 original size:29 final size:29
Alignment explanation
Indices: 39069323--39069396 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
39069313 GTTGTGAGAT
* *
39069323 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
39069352 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
39069381 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
39069397 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:39069759 original size:40 final size:40
Alignment explanation
Indices: 39069704--39069933 Score: 316
Period size: 40 Copynumber: 5.8 Consensus size: 40
39069694 GTTATTTGAA
* *
39069704 TGATGTATCCGGGCTAAGTTCTGAAGAGCATTCGTGCTAG
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
*
39069744 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAG
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
* *
39069784 TGATGTATCCGGGCTAAGTCCCGAGGAGCATTCATGCTAG
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
* *
39069824 TGATGTATCCGGGCTAAGTTCTGAAGAGCATTCGTGCTAG
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
* * ** *
39069864 TGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGG
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
* * * *
39069904 TGTTATGTCCGGGCTAGGTCCCGAAGAGCA
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCA
39069934 ATCATGCTGG
Statistics
Matches: 169, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 169 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
Found at i:39069917 original size:120 final size:120
Alignment explanation
Indices: 39069704--39069946 Score: 369
Period size: 120 Copynumber: 2.0 Consensus size: 120
39069694 GTTATTTGAA
* **
39069704 TGATGTATCCGGGCTAAGTTCTGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAA
1 TGATGTATCCGGGCTAAGTTCTGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAACCCCGAA
* * *
39069769 GAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCATGCTAG
66 GAGCATTCATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCAATCATGCTAG
*
39069824 TGATGTATCCGGGCTAAGTTCTGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAACCCCGAA
1 TGATGTATCCGGGCTAAGTTCTGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAACCCCGAA
* * * * * *
39069889 GAGCATTCGTGCTGGTGTTATGTCCGGGCTAGGTCCCGAAGAGCAATCATGCTGG
66 GAGCATTCATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCAATCATGCTAG
39069944 TGA
1 TGA
39069947 CGTGTATTCG
Statistics
Matches: 110, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
120 110 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (120 bp):
TGATGTATCCGGGCTAAGTTCTGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAACCCCGAA
GAGCATTCATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCAATCATGCTAG
Found at i:39072442 original size:256 final size:256
Alignment explanation
Indices: 39071987--39072501 Score: 1021
Period size: 256 Copynumber: 2.0 Consensus size: 256
39071977 TGACGATCAA
39071987 ATAGATGCATGGGTACAAAGTAGGAAGAATCGGCTACTATGGTTGACACTAATGCCGAATGTAAA
1 ATAGATGCATGGGTACAAAGTAGGAAGAATCGGCTACTATGGTTGACACTAATGCCGAATGTAAA
39072052 AATATTATATTAAATAATGTATGTGATTTGAGTTAATGATATGAAAAAGAATATTTAGATGTATT
66 AATATTATATTAAATAATGTATGTGATTTGAGTTAATGATATGAAAAAGAATATTTAGATGTATT
39072117 ATAATTGATTAAGTAATAAATCAAAAGTTGCTAAAATTGCCATTTCTTTAGCCGAATATGTGTTT
131 ATAATTGATTAAGTAATAAATCAAAAGTTGCTAAAATTGCCATTTCTTTAGCCGAATATGTGTTT
39072182 GATCAATGAAGAATTTGTTGAAGAATATAGGTGAACTTGGTAAGAGTATTCGGCTTAGTGT
196 GATCAATGAAGAATTTGTTGAAGAATATAGGTGAACTTGGTAAGAGTATTCGGCTTAGTGT
39072243 ATAGATGCATGGGTACAAAGTAGGAAGAATCGGCTACTATGGTTGACACTAATGCCGAATGTAAA
1 ATAGATGCATGGGTACAAAGTAGGAAGAATCGGCTACTATGGTTGACACTAATGCCGAATGTAAA
*
39072308 AATGTTATATTAAATAATGTATGTGATTTGAGTTAATGATATGAAAAAGAATATTTAGATGTATT
66 AATATTATATTAAATAATGTATGTGATTTGAGTTAATGATATGAAAAAGAATATTTAGATGTATT
39072373 ATAATTGATTAAGTAATAAATCAAAAGTTGCTAAAATTGCCATTTCTTTAGCCGAATATGTGTTT
131 ATAATTGATTAAGTAATAAATCAAAAGTTGCTAAAATTGCCATTTCTTTAGCCGAATATGTGTTT
39072438 GATCAATGAAGAATTTGTTGAAGAATATAGGTGAACTTGGTAAGAGTATTCGGCTTAGTGT
196 GATCAATGAAGAATTTGTTGAAGAATATAGGTGAACTTGGTAAGAGTATTCGGCTTAGTGT
39072499 ATA
1 ATA
39072502 AATGATATAA
Statistics
Matches: 258, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
256 258 1.00
ACGTcount: A:0.37, C:0.08, G:0.21, T:0.34
Consensus pattern (256 bp):
ATAGATGCATGGGTACAAAGTAGGAAGAATCGGCTACTATGGTTGACACTAATGCCGAATGTAAA
AATATTATATTAAATAATGTATGTGATTTGAGTTAATGATATGAAAAAGAATATTTAGATGTATT
ATAATTGATTAAGTAATAAATCAAAAGTTGCTAAAATTGCCATTTCTTTAGCCGAATATGTGTTT
GATCAATGAAGAATTTGTTGAAGAATATAGGTGAACTTGGTAAGAGTATTCGGCTTAGTGT
Found at i:39074198 original size:47 final size:47
Alignment explanation
Indices: 39073665--39074190 Score: 845
Period size: 47 Copynumber: 11.1 Consensus size: 47
39073655 GAAATGGTAG
* *
39073665 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATGTGTGA
* * **
39073714 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* **
39073761 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
39073808 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
39073855 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
39073902 TAGGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
39073949 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
39073996 TAGGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* *
39074043 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
39074090 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* * *
39074137 TAAGGCCTAATGGCCGATGTGACGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
39074184 CAAGGCC
1 TAAGGCC
39074191 GAGTGGCCAA
Statistics
Matches: 455, Mismatches: 22, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
47 420 0.92
49 35 0.08
ACGTcount: A:0.31, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
Found at i:39074409 original size:37 final size:37
Alignment explanation
Indices: 39074353--39074431 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
39074343 CCGAGCTCTA
* * *
39074353 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
39074390 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
39074427 AAGAC
1 AAGAC
39074432 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:39076429 original size:43 final size:43
Alignment explanation
Indices: 39076284--39076426 Score: 268
Period size: 43 Copynumber: 3.3 Consensus size: 43
39076274 GTTGGTTTCA
39076284 GCACTAAGTGTGCGAGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGAGCAATAAGTGTTCACGGTTGTGAGATTG
*
39076327 GCACTAAGTGTGTGAGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGAGCAATAAGTGTTCACGGTTGTGAGATTG
*
39076370 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGAGCAATAAGTGTTCACGGTTGTGAGATTG
39076413 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
39076427 GGCTTGAAAT
Statistics
Matches: 97, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 97 1.00
ACGTcount: A:0.24, C:0.14, G:0.34, T:0.28
Consensus pattern (43 bp):
GCACTAAGTGTGCGAGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:39076446 original size:29 final size:29
Alignment explanation
Indices: 39076411--39076484 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
39076401 GTTGTGAGAT
* *
39076411 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
39076440 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
39076469 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
39076485 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:39076845 original size:40 final size:40
Alignment explanation
Indices: 39076790--39077019 Score: 316
Period size: 40 Copynumber: 5.8 Consensus size: 40
39076780 GTTATTTGAA
* *
39076790 TGATGTATCCGGGCTAAGTTCTGAAGAGCATTCGTGCTAG
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
*
39076830 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAG
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
* *
39076870 TGATGTATCCGGGCTAAGTCCCGAGGAGCATTCATGCTAG
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
* *
39076910 TGATGTATCCGGGCTAAGTTCTGAAGAGCATTCGTGCTAG
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
* * ** *
39076950 TGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGG
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
* * * *
39076990 TGTTATGTCCGGGCTAGGTCCCGAAGAGCA
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCA
39077020 ATCATGCTGG
Statistics
Matches: 169, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 169 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
Found at i:39077003 original size:120 final size:120
Alignment explanation
Indices: 39076790--39077032 Score: 369
Period size: 120 Copynumber: 2.0 Consensus size: 120
39076780 GTTATTTGAA
* **
39076790 TGATGTATCCGGGCTAAGTTCTGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAA
1 TGATGTATCCGGGCTAAGTTCTGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAACCCCGAA
* * *
39076855 GAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCATGCTAG
66 GAGCATTCATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCAATCATGCTAG
*
39076910 TGATGTATCCGGGCTAAGTTCTGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAACCCCGAA
1 TGATGTATCCGGGCTAAGTTCTGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAACCCCGAA
* * * * * *
39076975 GAGCATTCGTGCTGGTGTTATGTCCGGGCTAGGTCCCGAAGAGCAATCATGCTGG
66 GAGCATTCATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCAATCATGCTAG
39077030 TGA
1 TGA
39077033 CGTGTATTCG
Statistics
Matches: 110, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
120 110 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (120 bp):
TGATGTATCCGGGCTAAGTTCTGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAACCCCGAA
GAGCATTCATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCAATCATGCTAG
Found at i:39079529 original size:256 final size:256
Alignment explanation
Indices: 39079074--39079588 Score: 1021
Period size: 256 Copynumber: 2.0 Consensus size: 256
39079064 TGACGATCAA
39079074 ATAGATGCATGGGTACAAAGTAGGAAGAATCGGCTACTATGGTTGACACTAATGCCGAATGTAAA
1 ATAGATGCATGGGTACAAAGTAGGAAGAATCGGCTACTATGGTTGACACTAATGCCGAATGTAAA
39079139 AATATTATATTAAATAATGTATGTGATTTGAGTTAATGATATGAAAAAGAATATTTAGATGTATT
66 AATATTATATTAAATAATGTATGTGATTTGAGTTAATGATATGAAAAAGAATATTTAGATGTATT
39079204 ATAATTGATTAAGTAATAAATCAAAAGTTGCTAAAATTGCCATTTCTTTAGCCGAATATGTGTTT
131 ATAATTGATTAAGTAATAAATCAAAAGTTGCTAAAATTGCCATTTCTTTAGCCGAATATGTGTTT
39079269 GATCAATGAAGAATTTGTTGAAGAATATAGGTGAACTTGGTAAGAGTATTCGGCTTAGTGT
196 GATCAATGAAGAATTTGTTGAAGAATATAGGTGAACTTGGTAAGAGTATTCGGCTTAGTGT
39079330 ATAGATGCATGGGTACAAAGTAGGAAGAATCGGCTACTATGGTTGACACTAATGCCGAATGTAAA
1 ATAGATGCATGGGTACAAAGTAGGAAGAATCGGCTACTATGGTTGACACTAATGCCGAATGTAAA
*
39079395 AATGTTATATTAAATAATGTATGTGATTTGAGTTAATGATATGAAAAAGAATATTTAGATGTATT
66 AATATTATATTAAATAATGTATGTGATTTGAGTTAATGATATGAAAAAGAATATTTAGATGTATT
39079460 ATAATTGATTAAGTAATAAATCAAAAGTTGCTAAAATTGCCATTTCTTTAGCCGAATATGTGTTT
131 ATAATTGATTAAGTAATAAATCAAAAGTTGCTAAAATTGCCATTTCTTTAGCCGAATATGTGTTT
39079525 GATCAATGAAGAATTTGTTGAAGAATATAGGTGAACTTGGTAAGAGTATTCGGCTTAGTGT
196 GATCAATGAAGAATTTGTTGAAGAATATAGGTGAACTTGGTAAGAGTATTCGGCTTAGTGT
39079586 ATA
1 ATA
39079589 AATGATATAA
Statistics
Matches: 258, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
256 258 1.00
ACGTcount: A:0.37, C:0.08, G:0.21, T:0.34
Consensus pattern (256 bp):
ATAGATGCATGGGTACAAAGTAGGAAGAATCGGCTACTATGGTTGACACTAATGCCGAATGTAAA
AATATTATATTAAATAATGTATGTGATTTGAGTTAATGATATGAAAAAGAATATTTAGATGTATT
ATAATTGATTAAGTAATAAATCAAAAGTTGCTAAAATTGCCATTTCTTTAGCCGAATATGTGTTT
GATCAATGAAGAATTTGTTGAAGAATATAGGTGAACTTGGTAAGAGTATTCGGCTTAGTGT
Found at i:39081285 original size:47 final size:47
Alignment explanation
Indices: 39080752--39081277 Score: 845
Period size: 47 Copynumber: 11.1 Consensus size: 47
39080742 GAAATGGTAG
* *
39080752 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATGTGTGA
* * **
39080801 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* **
39080848 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
39080895 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
39080942 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
39080989 TAGGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
39081036 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
39081083 TAGGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* *
39081130 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
39081177 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* * *
39081224 TAAGGCCTAATGGCCGATGTGACGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
39081271 CAAGGCC
1 TAAGGCC
39081278 GAGTGGCCAA
Statistics
Matches: 455, Mismatches: 22, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
47 420 0.92
49 35 0.08
ACGTcount: A:0.31, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
Found at i:39081496 original size:37 final size:37
Alignment explanation
Indices: 39081440--39081518 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
39081430 CCGAGCTCTA
* * *
39081440 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
39081477 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
39081514 AAGAC
1 AAGAC
39081519 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:39083819 original size:49 final size:47
Alignment explanation
Indices: 39083598--39083860 Score: 393
Period size: 47 Copynumber: 5.6 Consensus size: 47
39083588 CCCTTCGGGA
* * * * * *
39083598 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
39083644 CTCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CT-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39083692 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39083739 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39083786 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39083835 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
39083861 CACAATTATC
Statistics
Matches: 199, Mismatches: 14, Indels: 7
0.90 0.06 0.03
Matches are distributed among these distances:
46 2 0.01
47 148 0.74
48 2 0.01
49 47 0.24
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:39087487 original size:40 final size:40
Alignment explanation
Indices: 39087455--39087636 Score: 265
Period size: 40 Copynumber: 4.5 Consensus size: 40
39087445 CCAGCATGAT
* * *
39087455 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATAACACTAGCACGAA
* *
39087495 TGCTCTTCGGAACTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATAACACTAGCACGAA
* *
39087535 TGCTCTTCGGAACTTAGTCCGGATACAACACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATAACACTAGCACGAA
* * *
39087575 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATAACACTAGCACGAA
*
39087615 TGCTCTTCGGAACTTAGTCCGG
1 TGCTCTTCGGAACTTAGCCCGG
39087637 TCGGAACTTA
Statistics
Matches: 125, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 125 1.00
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCCCGGATATAACACTAGCACGAA
Found at i:39087565 original size:80 final size:80
Alignment explanation
Indices: 39087455--39087636 Score: 292
Period size: 80 Copynumber: 2.3 Consensus size: 80
39087445 CCAGCATGAT
* * * *
39087455 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGAACTTAGCACGGATA
1 TGCTCTTCGGAACTTAGTCCGGATACAACACCAGCACGAATGCTCTTCGGAACTTAGCACGGATA
39087520 TATCACTAGCACGAA
66 TATCACTAGCACGAA
* * * *
39087535 TGCTCTTCGGAACTTAGTCCGGATACAACACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATA
1 TGCTCTTCGGAACTTAGTCCGGATACAACACCAGCACGAATGCTCTTCGGAACTTAGCACGGATA
39087600 TATCACTAGCACGAA
66 TATCACTAGCACGAA
39087615 TGCTCTTCGGAACTTAGTCCGG
1 TGCTCTTCGGAACTTAGTCCGG
39087637 TCGGAACTTA
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
80 94 1.00
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (80 bp):
TGCTCTTCGGAACTTAGTCCGGATACAACACCAGCACGAATGCTCTTCGGAACTTAGCACGGATA
TATCACTAGCACGAA
Found at i:39087642 original size:16 final size:16
Alignment explanation
Indices: 39087621--39087652 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
39087611 CGAATGCTCT
39087621 TCGGAACTTAGTCCGG
1 TCGGAACTTAGTCCGG
39087637 TCGGAACTTAGTCCGG
1 TCGGAACTTAGTCCGG
39087653 ATACAACACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.25, G:0.31, T:0.25
Consensus pattern (16 bp):
TCGGAACTTAGTCCGG
Found at i:39087661 original size:96 final size:96
Alignment explanation
Indices: 39087541--39087732 Score: 366
Period size: 96 Copynumber: 2.0 Consensus size: 96
39087531 CGAATGCTCT
39087541 TCGGAACTTAGTCCGGATACAACACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATATATCAC
1 TCGGAACTTAGTCCGGATACAACACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATATATCAC
*
39087606 TAGCACGAATGCTCTTCGGAACTTAGTCCGG
66 TAGCACGAATGCTCTTCGAAACTTAGTCCGG
39087637 TCGGAACTTAGTCCGGATACAACACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATATATCAC
1 TCGGAACTTAGTCCGGATACAACACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATATATCAC
*
39087702 TAGCACGAATGCTCTTTGAAACTTAGTCCGG
66 TAGCACGAATGCTCTTCGAAACTTAGTCCGG
39087733 ATACATCACT
Statistics
Matches: 94, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
96 94 1.00
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.26
Consensus pattern (96 bp):
TCGGAACTTAGTCCGGATACAACACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATATATCAC
TAGCACGAATGCTCTTCGAAACTTAGTCCGG
Found at i:39087704 original size:40 final size:40
Alignment explanation
Indices: 39087637--39087858 Score: 338
Period size: 40 Copynumber: 5.6 Consensus size: 40
39087627 CTTAGTCCGG
* * *
39087637 TCGGAACTTAGTCCGGATACAACACTAGCACGAATGCTCT
1 TCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCT
* *
39087677 TCGGGATTTAGCCCGGATATATCACTAGCACGAATGCTCT
1 TCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCT
* ** * *
39087717 TTGAAACTTAGTCCGGATACATCACTAGCATGAATGCTCT
1 TCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCT
39087757 TCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCT
1 TCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCT
39087797 TCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCT
1 TCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCT
*
39087837 TCGGGAATTAGCCCGGAT-CATC
1 TCGGGACTTAGCCCGGATACATC
39087859 GTCGAGACCT
Statistics
Matches: 164, Mismatches: 18, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 4 0.02
40 160 0.98
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCT
Found at i:39087770 original size:176 final size:176
Alignment explanation
Indices: 39087473--39087812 Score: 563
Period size: 176 Copynumber: 1.9 Consensus size: 176
39087463 GGGACCTAGC
*
39087473 CCGGATATAACACCAGCACGAATGCTCTTCGGAACTTAGCACGGATATATCACTAGCACGAATGC
1 CCGGATACAACACCAGCACGAATGCTCTTCGGAACTTAGCACGGATATATCACTAGCACGAATGC
* * *
39087538 TCTTCGGAACTTAGTCCGGATACAACACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATATAT
66 TCTTCGAAACTTAGTCCGGATACAACACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACAT
*
39087603 CACTAGCACGAATGCTCTTCGGAACTTAGTCCGGTCGGAACTTAGT
131 CACTAGCACGAATGCTCTTCGGAACTTAGCCCGGTCGGAACTTAGT
* * * *
39087649 CCGGATACAACACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAATGC
1 CCGGATACAACACCAGCACGAATGCTCTTCGGAACTTAGCACGGATATATCACTAGCACGAATGC
* * *
39087714 TCTTTGAAACTTAGTCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACAT
66 TCTTCGAAACTTAGTCCGGATACAACACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACAT
*
39087779 CACTAGCACGAATGCTCTTCGGGACTTAGCCCGG
131 CACTAGCACGAATGCTCTTCGGAACTTAGCCCGG
39087813 ATACATCACT
Statistics
Matches: 151, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
176 151 1.00
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (176 bp):
CCGGATACAACACCAGCACGAATGCTCTTCGGAACTTAGCACGGATATATCACTAGCACGAATGC
TCTTCGAAACTTAGTCCGGATACAACACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACAT
CACTAGCACGAATGCTCTTCGGAACTTAGCCCGGTCGGAACTTAGT
Found at i:39087955 original size:38 final size:38
Alignment explanation
Indices: 39087913--39087986 Score: 105
Period size: 38 Copynumber: 1.9 Consensus size: 38
39087903 AATTTTAATT
*
39087913 CGGACATAATCTCTGT-ACATAGCCATCGGGTCTTTACC
1 CGGACATAATCTCT-TCACATAGCCAGCGGGTCTTTACC
* *
39087951 CGGACATAATCTCTTCATATAGTCAGCGGGTCTTTA
1 CGGACATAATCTCTTCACATAGCCAGCGGGTCTTTA
39087987 AACTCGGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 31 0.97
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (38 bp):
CGGACATAATCTCTTCACATAGCCAGCGGGTCTTTACC
Found at i:39099841 original size:12 final size:13
Alignment explanation
Indices: 39099818--39099866 Score: 57
Period size: 12 Copynumber: 3.8 Consensus size: 13
39099808 CCCTAATGTT
39099818 ATAAAAGAAAAATA
1 ATAAAAG-AAAATA
39099832 A-AAAAGAAAATA
1 ATAAAAGAAAATA
* *
39099844 ATAATA-ATAATA
1 ATAAAAGAAAATA
39099856 ATAAAAGAAAA
1 ATAAAAGAAAA
39099867 AAAGAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
12 17 0.59
13 11 0.38
14 1 0.03
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (13 bp):
ATAAAAGAAAATA
Found at i:39102850 original size:20 final size:21
Alignment explanation
Indices: 39102813--39102851 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
39102803 TTTCAAATAT
* *
39102813 AAATAACTAAAATGTAACTTA
1 AAATAAATAAAATATAACTTA
39102834 AAATAAATAAAA-ATAACT
1 AAATAAATAAAATATAACT
39102852 ATTTTAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.64, C:0.08, G:0.03, T:0.26
Consensus pattern (21 bp):
AAATAAATAAAATATAACTTA
Found at i:39103193 original size:7 final size:7
Alignment explanation
Indices: 39103181--39103212 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
39103171 TTGGAGACAC
39103181 AAAATTA
1 AAAATTA
39103188 AAAATTA
1 AAAATTA
39103195 AAAATTA
1 AAAATTA
39103202 AAAATTA
1 AAAATTA
39103209 AAAA
1 AAAA
39103213 AAAGGGAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (7 bp):
AAAATTA
Found at i:39109963 original size:5 final size:6
Alignment explanation
Indices: 39109947--39109972 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
39109937 AACACTTTGG
39109947 ATTTTT ATTTTT ATTTTT ATTTTT AT
1 ATTTTT ATTTTT ATTTTT ATTTTT AT
39109973 CAAGAACATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
ATTTTT
Found at i:39119910 original size:24 final size:24
Alignment explanation
Indices: 39119878--39119923 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
39119868 TAGTCGGAAC
39119878 AGTGGTCTCGAGACCACAAATTCG
1 AGTGGTCTCGAGACCACAAATTCG
39119902 AGTGGTCTCGAGACCACAAATT
1 AGTGGTCTCGAGACCACAAATT
39119924 TGAAGTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.22
Consensus pattern (24 bp):
AGTGGTCTCGAGACCACAAATTCG
Found at i:39120777 original size:47 final size:44
Alignment explanation
Indices: 39120626--39120841 Score: 152
Period size: 47 Copynumber: 4.7 Consensus size: 44
39120616 TGATTTGTGC
** *
39120626 GCCAGTGTAAGACATGTCTGGGACATGTTTCGGCC-ACATTATGA-GA
1 GCCAGTGTAAGACATGTCTGGGACATGCATC-GCCTA-A-GA-GATGA
* * * *
39120672 GCCAGTGTAAGACCATGTCTGGCACATGGTATCGGC-ACAGAGATGGGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGCCTA-AGAGAT--GA
**
39120720 GCCAAAGTAAGACATGTCTGGGACATGCATCGACCTCGACAGAGAT-A
1 GCCAGTGTAAGACATGTCTGGGACATGCATCG-CCT--A-AGAGATGA
* * * * *
39120767 GCCAGTGTAAGACGTGTCTGGGACACGCATCGGCTAAGAGTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGCCTAAGAGATGA
*
39120811 GCTAGTGTAAGACATGTCTGGGACATGCATC
1 GCCAGTGTAAGACATGTCTGGGACATGCATC
39120842 AGCATGCATA
Statistics
Matches: 139, Mismatches: 21, Indels: 22
0.76 0.12 0.12
Matches are distributed among these distances:
43 5 0.04
44 29 0.21
45 2 0.01
46 20 0.14
47 60 0.43
48 15 0.11
50 8 0.06
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (44 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGCCTAAGAGATGA
Found at i:39127316 original size:5 final size:6
Alignment explanation
Indices: 39127302--39127326 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
39127292 CATTTTTAAT
39127302 AAAAGA AAAAGA AAAAGA AAAAGA A
1 AAAAGA AAAAGA AAAAGA AAAAGA A
39127327 GGAAAGAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:39127812 original size:47 final size:45
Alignment explanation
Indices: 39127700--39127971 Score: 230
Period size: 47 Copynumber: 5.8 Consensus size: 45
39127690 GGTGATTTGT
* * **
39127700 GTGCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CATAAGATGA
* * *
39127746 GAGCTAGCGTAAGACCATGTCTGGGACATGGCATCGGCATAGAGATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATA-AGATGA
* *
39127794 GTGCCAGAGTAAGACATGTCTGGGACATGCATCGGCCTCGACAGA-GA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCAT--A-AGATGA
* * *
39127841 -TAGCCAGTGTAAGACATGTTTGGGACACGCATCGGC-TAAGA-GTT
1 GT-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATAAGATG-A
* *
39127885 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGCAT-ATATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATC-G---GCATAAGATGA
* *
39127933 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCA
39127972 ATTTATCCCA
Statistics
Matches: 186, Mismatches: 24, Indels: 32
0.77 0.10 0.13
Matches are distributed among these distances:
43 4 0.02
44 29 0.16
45 2 0.01
46 25 0.13
47 64 0.34
48 41 0.22
49 16 0.09
50 5 0.03
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (45 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATAAGATGA
Found at i:39127865 original size:94 final size:93
Alignment explanation
Indices: 39127700--39127971 Score: 331
Period size: 94 Copynumber: 2.9 Consensus size: 93
39127690 GGTGATTTGT
* * *
39127700 GTGCCAGTGTAAGACATGTCTGGGACATGCTTCGGCC-ACATTATGAGAGCTAGCGTAAGACCAT
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCGACA-TATGAGAGCCAGTGTAAGACCAT
*
39127764 GTCTGGGACATGGCATCGGCAT-AGAGATGA
65 GTTTGGGACATGGCATCGGCATAAGAG-T-A
* * *
39127794 GTGCCAGAGTAAGACATGTCTGGGACATGCATCGGCCTCGACAGA-GATAGCCAGTGTAAGA-CA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGG-C-CGACATATGAGAGCCAGTGTAAGACCA
* *
39127857 TGTTTGGGACA-CGCATCGGC-TAAGAGTT
64 TGTTTGGGACATGGCATCGGCATAAGAGTA
* * *
39127885 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGCATATATGAGAGCCAGTGTAAGACCA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGC-CG-ACATATGAGAGCCAGTGTAAGACCA
39127950 TGTTTGGGACATGGCATCGGCA
64 TGTTTGGGACATGGCATCGGCA
39127972 ATTTATCCCA
Statistics
Matches: 152, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
90 3 0.02
91 35 0.23
92 17 0.11
93 25 0.16
94 53 0.35
95 14 0.09
96 2 0.01
97 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (93 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCGACATATGAGAGCCAGTGTAAGACCATG
TTTGGGACATGGCATCGGCATAAGAGTA
Found at i:39133028 original size:27 final size:27
Alignment explanation
Indices: 39132998--39133175 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
39132988 ATATTGAGTC
* * * *
39132998 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
39133025 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
39133052 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
39133080 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
39133107 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
39133134 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
39133161 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
39133176 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:39133137 original size:82 final size:81
Alignment explanation
Indices: 39133019--39133174 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
39133009 TGCTATATAA
* *
39133019 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
39133084 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
39133101 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
39133165 CACTTAGTGC
65 CACTTAGTGC
39133175 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:39150017 original size:49 final size:49
Alignment explanation
Indices: 39149896--39150261 Score: 219
Period size: 49 Copynumber: 7.7 Consensus size: 49
39149886 AGGGTAAGAT
* * ** * * *
39149896 GCCGATGCCATGTCCCAGACATGGTTTTACACTGGCTAGC--ACATCAAA
1 GCCGATGCCATGTCCCAGACA-GGTCTTACACTAGCTCTCATATATCGAG
* * * * *
39149944 GTCAATGCCATGTCCCAAATAGGTCTTACACT-GACTTTCATATATCGAG
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTAG-CTCTCATATATCGAG
* *
39149993 GCCGATGCCATGTCCTAGACAGGTCTTACACTAGCTCTCATCTATCG-G
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATATATCGAG
* * * * * * *
39150041 TGTCGATGCCATGTCCTAGATAGGTCTTACACT-G---ACACACATC-AA
1 -GCCGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATATATCGAG
* * * * * * *
39150086 GCTGAGGCCATGCCCCAGACAGGTCCTACAATAGCT-TGTATATCTCGAG
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTAGCTCT-CATATATCGAG
* * * * *
39150135 GCCGATG-CATGTCCCAGACATGTC-CACACTAGCTCTC--ATCTCAAT
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATATATCGAG
* * *
39150180 GCCAATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATA-AT--ATG
1 GCCGATGCCATGTCCCAGACA-GGTCTTACACTAGCTCTCATATATCGA-G
*
39150228 GCCGATG-CATGTCCCAGACATGTCTTACACTAGC
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTAGC
39150262 ACACATATCA
Statistics
Matches: 242, Mismatches: 58, Indels: 38
0.72 0.17 0.11
Matches are distributed among these distances:
44 24 0.10
45 18 0.07
46 25 0.10
47 37 0.15
48 56 0.23
49 80 0.33
50 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.26
Consensus pattern (49 bp):
GCCGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATATATCGAG
Found at i:39150931 original size:20 final size:18
Alignment explanation
Indices: 39150894--39150944 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
39150884 CTATAGCAGC
39150894 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
39150911 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
39150931 TTACAACTTTACAA
1 TCACAA-TTTACAA
39150945 AATAGCCCCT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:39154465 original size:7 final size:7
Alignment explanation
Indices: 39154454--39154488 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
39154444 GAAAATCACA
*
39154454 AGAAAAA
1 AGAAAAG
39154461 AGAAAAG
1 AGAAAAG
39154468 AGAAAAG
1 AGAAAAG
39154475 AGAAAAG
1 AGAAAAG
39154482 AGAAAAG
1 AGAAAAG
39154489 CTTACCTAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (7 bp):
AGAAAAG
Found at i:39154695 original size:28 final size:28
Alignment explanation
Indices: 39154658--39154713 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
39154648 TGAGTTTTGT
39154658 GAAGTCAGTTGTTGATAAATGGAAGATA
1 GAAGTCAGTTGTTGATAAATGGAAGATA
*
39154686 GAAGTTAGTTGTTGATAAATGGAAGATA
1 GAAGTCAGTTGTTGATAAATGGAAGATA
39154714 TGTTTTGGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.39, C:0.02, G:0.29, T:0.30
Consensus pattern (28 bp):
GAAGTCAGTTGTTGATAAATGGAAGATA
Found at i:39162415 original size:13 final size:13
Alignment explanation
Indices: 39162397--39162422 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
39162387 ATATAGGTGA
39162397 ATTGAAGTTTGGT
1 ATTGAAGTTTGGT
39162410 ATTGAAGTTTGGT
1 ATTGAAGTTTGGT
39162423 CCAAACATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (13 bp):
ATTGAAGTTTGGT
Found at i:39168989 original size:16 final size:17
Alignment explanation
Indices: 39168952--39168995 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
39168942 AATTCGGCCG
39168952 TGTGGGCCCCATGAGCA
1 TGTGGGCCCCATGAGCA
*
39168969 TGTGGGCCCCATG-GTA
1 TGTGGGCCCCATGAGCA
*
39168985 TGTGGGGCCCA
1 TGTGGGCCCCA
39168996 CACGGGTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 12 0.48
17 13 0.52
ACGTcount: A:0.14, C:0.27, G:0.39, T:0.20
Consensus pattern (17 bp):
TGTGGGCCCCATGAGCA
Found at i:39179170 original size:30 final size:30
Alignment explanation
Indices: 39179126--39179190 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
39179116 CCTCAAGTAC
* *
39179126 CCAAAGTTAGTTTAAATCGCACACTTAGTG
1 CCAAAATTAATTTAAATCGCACACTTAGTG
* *
39179156 CCAAAATTAATTTAAATTGCACAGTTAGTG
1 CCAAAATTAATTTAAATCGCACACTTAGTG
39179186 CCAAA
1 CCAAA
39179191 GCTTCCGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.29
Consensus pattern (30 bp):
CCAAAATTAATTTAAATCGCACACTTAGTG
Found at i:39182630 original size:17 final size:19
Alignment explanation
Indices: 39182602--39182638 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
39182592 AGGCCATTTT
39182602 TGGGCTATGTGGG-CCACA
1 TGGGCTATGTGGGCCCACA
39182620 TGGGC-ATGTGGGCCCACA
1 TGGGCTATGTGGGCCCACA
39182638 T
1 T
39182639 AGGCCTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.16, C:0.24, G:0.38, T:0.22
Consensus pattern (19 bp):
TGGGCTATGTGGGCCCACA
Found at i:39190556 original size:27 final size:26
Alignment explanation
Indices: 39190526--39190613 Score: 86
Period size: 27 Copynumber: 3.3 Consensus size: 26
39190516 TTCAGAGTTC
* *
39190526 GCCATACCTACCAGTCCTTCAAAGCTA
1 GCCATACATACCA-TTCTTCAAAGCTA
* * *
39190553 GCCACACATATCATTTCTTCAAAGCTT
1 GCCATACATACCA-TTCTTCAAAGCTA
* * *
39190580 GTCATACTTACCATTCTTCAAAGTTA
1 GCCATACATACCATTCTTCAAAGCTA
39190606 GCCATACA
1 GCCATACA
39190614 AATCATTCGT
Statistics
Matches: 47, Mismatches: 14, Indels: 1
0.76 0.23 0.02
Matches are distributed among these distances:
26 17 0.36
27 30 0.64
ACGTcount: A:0.31, C:0.31, G:0.09, T:0.30
Consensus pattern (26 bp):
GCCATACATACCATTCTTCAAAGCTA
Found at i:39190620 original size:26 final size:26
Alignment explanation
Indices: 39190515--39190621 Score: 81
Period size: 27 Copynumber: 4.0 Consensus size: 26
39190505 TGTATTATTC
* * * * *
39190515 CTTCAGAGTTCGCCATACCTACCAGTC
1 CTTCAAAGTTAGCCATACATATCA-TT
* *
39190542 CTTCAAAGCTAGCCACACATATCATTT
1 CTTCAAAGTTAGCCATACATATCA-TT
* * *
39190569 CTTCAAAGCTT-GTCATACTTACCATT
1 CTTCAAAG-TTAGCCATACATATCATT
*
39190595 CTTCAAAGTTAGCCATACAAATCATT
1 CTTCAAAGTTAGCCATACATATCATT
39190621 C
1 C
39190622 GTCAGGGTTT
Statistics
Matches: 61, Mismatches: 17, Indels: 5
0.73 0.20 0.06
Matches are distributed among these distances:
25 2 0.03
26 22 0.36
27 36 0.59
28 1 0.02
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (26 bp):
CTTCAAAGTTAGCCATACATATCATT
Found at i:39190769 original size:27 final size:27
Alignment explanation
Indices: 39190739--39190806 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
39190729 GTTCCTTTCC
* *
39190739 ATAGATCGCCACAAGGGCTTCCATTTA
1 ATAGATTGCCACAAAGGCTTCCATTTA
* * *
39190766 ATAGATTGTCACAAATGCTTCCATTTC
1 ATAGATTGCCACAAAGGCTTCCATTTA
39190793 ATAGATTGCCACAA
1 ATAGATTGCCACAA
39190807 TGATTTCCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (27 bp):
ATAGATTGCCACAAAGGCTTCCATTTA
Found at i:39190814 original size:27 final size:26
Alignment explanation
Indices: 39190730--39190808 Score: 88
Period size: 27 Copynumber: 3.0 Consensus size: 26
39190720 CATGCAAGCG
* *
39190730 TTCC-TTTCCATAGATCGCCACAAGGGC
1 TTCCATTT-CATAGATTGCCACAA-TGC
* *
39190757 TTCCATTTAATAGATTGTCACAAATGC
1 TTCCATTTCATAGATTGCCAC-AATGC
39190784 TTCCATTTCATAGATTGCCACAATG
1 TTCCATTTCATAGATTGCCACAATG
39190809 ATTTCCTTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
26 4 0.09
27 35 0.80
28 5 0.11
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (26 bp):
TTCCATTTCATAGATTGCCACAATGC
Found at i:39191022 original size:50 final size:50
Alignment explanation
Indices: 39190924--39191023 Score: 130
Period size: 50 Copynumber: 2.0 Consensus size: 50
39190914 CTTCGTTTAA
*
39190924 TTCTTTCCATATGATGCCATAACCCACCAATTATGGTTATACAGAATATG
1 TTCTTTCCATATGATGCCATAACCCACCAATTATGGTTATACACAATATG
* * ** *
39190974 TTCTTTCCATATGATTCCATAGCCCACCTGTTATGGTCT-TACTCAATATG
1 TTCTTTCCATATGATGCCATAACCCACCAATTATGGT-TATACACAATATG
39191024 GTGCCATGGA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 42 0.98
51 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.37
Consensus pattern (50 bp):
TTCTTTCCATATGATGCCATAACCCACCAATTATGGTTATACACAATATG
Found at i:39197198 original size:37 final size:37
Alignment explanation
Indices: 39197148--39197226 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
39197138 TTATTACGAA
* *
39197148 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
39197185 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
39197222 GTCTT
1 GTCTT
39197227 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:39197423 original size:47 final size:47
Alignment explanation
Indices: 39197345--39197679 Score: 481
Period size: 47 Copynumber: 7.1 Consensus size: 47
39197335 CCCTTCGGGA
* * * * * * * *
39197345 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCAGTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* * * * *
39197392 CCTGTCACATATATACACTTTCACATTCATCACCTCGGCCACTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
39197439 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
39197486 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
39197533 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
39197582 CTTATCACACATATACACTTTCACATTCGTCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* * *
39197629 CTTATCACACATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
39197676 CTTA
1 CTTA
39197680 CTATCATTTC
Statistics
Matches: 265, Mismatches: 21, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
47 219 0.83
49 46 0.17
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:39197601 original size:143 final size:143
Alignment explanation
Indices: 39197360--39197679 Score: 500
Period size: 143 Copynumber: 2.3 Consensus size: 143
39197350 CACATTTATG
* * * * * * *
39197360 CACTTTCACATCCATCACGTTGGCCAGTCGGCCCTGTCAC--ATATATACACTTTCACATTCATC
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
* *
39197423 ACCTCGGCCACTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCT
66 ACATCGGCCACTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCT
*
39197488 TATCACACATATA
131 TATCACACATACA
*
39197501 CACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATACACTTTCACATTCATC
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
* * *
39197566 ACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCGTCACATCGGCTATTAGGCCT
66 ACATCGGCCACTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCT
39197631 TATCACACATACA
131 TATCACACATACA
39197644 CACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTA
39197680 CTATCATTTC
Statistics
Matches: 162, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
141 32 0.20
143 130 0.80
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.31
Consensus pattern (143 bp):
CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
ACATCGGCCACTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCT
TATCACACATACA
Found at i:39204552 original size:7 final size:7
Alignment explanation
Indices: 39204537--39204568 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
39204527 TCAAGTAATT
*
39204537 CATTGAA
1 CATTAAA
39204544 CATTAAA
1 CATTAAA
39204551 CATTAAA
1 CATTAAA
39204558 CATTAAA
1 CATTAAA
39204565 CATT
1 CATT
39204569 TACTAATTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.50, C:0.16, G:0.03, T:0.31
Consensus pattern (7 bp):
CATTAAA
Found at i:39204764 original size:20 final size:20
Alignment explanation
Indices: 39204709--39204828 Score: 89
Period size: 20 Copynumber: 6.0 Consensus size: 20
39204699 GATGCATAAC
*
39204709 AGGGGCACCGAAGTG-AAGAC
1 AGGGGCACCGAAGTGCAA-AT
* * *
39204729 AAGGGCACAGATGTGCAAAT
1 AGGGGCACCGAAGTGCAAAT
* *
39204749 AGGGGCACCGTAGTGCGAAT
1 AGGGGCACCGAAGTGCAAAT
* * * * * * *
39204769 AGAGACACCAAAATGTATAC
1 AGGGGCACCGAAGTGCAAAT
*
39204789 AAGGGCACCGAAGTGCAAAT
1 AGGGGCACCGAAGTGCAAAT
*
39204809 AGGGGAACCGAAGTGCAAAT
1 AGGGGCACCGAAGTGCAAAT
39204829 CCCGTACAAG
Statistics
Matches: 71, Mismatches: 28, Indels: 2
0.70 0.28 0.02
Matches are distributed among these distances:
20 69 0.97
21 2 0.03
ACGTcount: A:0.38, C:0.18, G:0.32, T:0.12
Consensus pattern (20 bp):
AGGGGCACCGAAGTGCAAAT
Found at i:39213833 original size:13 final size:13
Alignment explanation
Indices: 39213815--39213840 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
39213805 ACCTTGTTAT
39213815 CCTCATCCATATC
1 CCTCATCCATATC
39213828 CCTCATCCATATC
1 CCTCATCCATATC
39213841 TAAGACAACG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.46, G:0.00, T:0.31
Consensus pattern (13 bp):
CCTCATCCATATC
Found at i:39217475 original size:41 final size:42
Alignment explanation
Indices: 39217428--39217542 Score: 126
Period size: 41 Copynumber: 2.8 Consensus size: 42
39217418 TGTGTTATCG
*
39217428 TGTAAGACCATGTCTGGGACATTGGCATTGTATATGATT-TA
1 TGTAAGACCATGTCTGGGACATTGGCATTGTATATGATTACA
* * * * *
39217469 TGTAAGACCCTGTCTGGGGCAGT-GCATCGATATTTGATTACA
1 TGTAAGACCATGTCTGGGACATTGGCATTG-TATATGATTACA
* * *
39217511 TGTAAGATCACGTCTGGGACGTTGGCATTGTA
1 TGTAAGACCATGTCTGGGACATTGGCATTGTA
39217543 CGAGCTTATG
Statistics
Matches: 58, Mismatches: 13, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
40 5 0.09
41 28 0.48
42 20 0.34
43 5 0.09
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATTGTATATGATTACA
Found at i:39220603 original size:27 final size:27
Alignment explanation
Indices: 39220573--39220640 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
39220563 GTAGGCTAGT
39220573 ATTACTGAAATACCCCTATAGCGTAGA
1 ATTACTGAAATACCCCTATAGCGTAGA
* * * *
39220600 ATTACTGAAATGCCCTTGTAGGGTAGA
1 ATTACTGAAATACCCCTATAGCGTAGA
* *
39220627 ATCACTAAAATACC
1 ATTACTGAAATACC
39220641 ATTGGTTTAC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (27 bp):
ATTACTGAAATACCCCTATAGCGTAGA
Found at i:39220660 original size:27 final size:27
Alignment explanation
Indices: 39220630--39220936 Score: 250
Period size: 27 Copynumber: 11.4 Consensus size: 27
39220620 GGGTAGAATC
* *
39220630 ACTAAAATACCATTGGTTTACAAAATT
1 ACTAAAATACCCTTGATTTACAAAATT
*
39220657 ACTAAAATACCCTTGATTTAAAAAATT
1 ACTAAAATACCCTTGATTTACAAAATT
* * *
39220684 ACT-AAATACCTTTGGTTTACAATATT
1 ACTAAAATACCCTTGATTTACAAAATT
* * *
39220710 ACCAAAATACCC-TCAATTAGCAAAATT
1 ACTAAAATACCCTTGATTTA-CAAAATT
* **
39220737 ACTAAAATACCCCT-AGTTTGTAAAATT
1 ACTAAAATACCCTTGA-TTTACAAAATT
* * **
39220764 ACCAAAATACCCTCGATTTGTAAAATT
1 ACTAAAATACCCTTGATTTACAAAATT
* **
39220791 ACCAAAATACCCTTGATTTGGAAAATT
1 ACTAAAATACCCTTGATTTACAAAATT
** **
39220818 ACCGAAATACCCTTGATTTGGAAAATT
1 ACTAAAATACCCTTGATTTACAAAATT
*
39220845 A-TAGAAATACCCCTGATTTACAAAATT
1 ACTA-AAATACCCTTGATTTACAAAATT
39220872 AC-AGAAATACCCTTGACTTT-CAAAAATT
1 ACTA-AAATACCCTTGA-TTTAC-AAAATT
* * *
39220900 A-TAAAAATACCATTGGTTTGCAAAATT
1 ACT-AAAATACCCTTGATTTACAAAATT
*
39220927 ACTGAAATAC
1 ACTAAAATAC
39220937 TCTTAGTTTG
Statistics
Matches: 235, Mismatches: 32, Indels: 26
0.80 0.11 0.09
Matches are distributed among these distances:
26 25 0.11
27 183 0.78
28 26 0.11
29 1 0.00
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (27 bp):
ACTAAAATACCCTTGATTTACAAAATT
Found at i:39220688 original size:54 final size:54
Alignment explanation
Indices: 39220630--39220928 Score: 284
Period size: 54 Copynumber: 5.5 Consensus size: 54
39220620 GGGTAGAATC
* *
39220630 ACTAAAATACCATTGGTTTACAAAATTACTAAAATACCCTTGATTTAAAAAATT
1 ACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTTGATTTAAAAAATT
* * * * *
39220684 ACT-AAATACCTTTGGTTTACAATATTACCAAAATACCC-TCAATTAGCAAAATT
1 ACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTTGATTTA-AAAAATT
* * ** * **
39220737 ACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATT
1 ACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTTGATTTAAAAAATT
* * ** * **
39220791 ACCAAAATACCCTTGATTTGGAAAATTACCGAAATACCCTTGATTTGGAAAATT
1 ACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTTGATTTAAAAAATT
* * *
39220845 A-TAGAAATACCCCTGATTTACAAAATTA-CAGAAATACCCTTGACTTTCAAAAATT
1 ACTA-AAATACCCTTGGTTTACAAAATTACCA-AAATACCCTTGA-TTTAAAAAATT
* *
39220900 A-TAAAAATACCATTGGTTTGCAAAATTAC
1 ACT-AAAATACCCTTGGTTTACAAAATTAC
39220929 TGAAATACTC
Statistics
Matches: 201, Mismatches: 36, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
52 5 0.02
53 43 0.21
54 118 0.59
55 34 0.17
56 1 0.00
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.31
Consensus pattern (54 bp):
ACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTTGATTTAAAAAATT
Found at i:39221963 original size:27 final size:26
Alignment explanation
Indices: 39221912--39221990 Score: 113
Period size: 27 Copynumber: 3.0 Consensus size: 26
39221902 TGGCTGCCAG
* *
39221912 AACAGATAATGTGACAGAGTCACCAA
1 AACAGATAATGTGGCAGAGCCACCAA
39221938 AACAGATAATCGTGGCAGAGCCACCAA
1 AACAGATAAT-GTGGCAGAGCCACCAA
*
39221965 AACAGATAATTGTGGCATAGCCACCA
1 AACAGATAA-TGTGGCAGAGCCACCA
39221991 GGACGCTTCC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
26 10 0.21
27 37 0.77
28 1 0.02
ACGTcount: A:0.42, C:0.23, G:0.20, T:0.15
Consensus pattern (26 bp):
AACAGATAATGTGGCAGAGCCACCAA
Found at i:39222430 original size:16 final size:15
Alignment explanation
Indices: 39222409--39222438 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
39222399 AAAATACCGA
39222409 CTTTTCGGCATTTTGG
1 CTTTTCGGC-TTTTGG
39222425 CTTTTCGGCTTTTG
1 CTTTTCGGCTTTTG
39222439 CCGATCTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.03, C:0.20, G:0.23, T:0.53
Consensus pattern (15 bp):
CTTTTCGGCTTTTGG
Found at i:39223458 original size:24 final size:24
Alignment explanation
Indices: 39223423--39223475 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
39223413 CCAACACCTT
39223423 TCTCCCTAATCAGCTCCTAAATCC
1 TCTCCCTAATCAGCTCCTAAATCC
* *
39223447 TCTCCCTTATCAGCTCCTAAATCT
1 TCTCCCTAATCAGCTCCTAAATCC
39223471 TCTCC
1 TCTCC
39223476 TGATAGCCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.21, C:0.42, G:0.04, T:0.34
Consensus pattern (24 bp):
TCTCCCTAATCAGCTCCTAAATCC
Found at i:39224129 original size:41 final size:41
Alignment explanation
Indices: 39224084--39224205 Score: 174
Period size: 41 Copynumber: 3.0 Consensus size: 41
39224074 GCAGGAAGAA
* **
39224084 ATTGAGGATCGCATGGTTACTTGACAACCGTGGATCCA-CTG
1 ATTGAGGATCGCATGGTTGCTTGATGACCGTGGATCCATC-G
* *
39224125 ATTGAGGATCACATGGTTGCTTGATGACTGTGGATCCATCG
1 ATTGAGGATCGCATGGTTGCTTGATGACCGTGGATCCATCG
*
39224166 ATTAAGGATCGCATGGTTGCTTGATGACCGTGGATCCATC
1 ATTGAGGATCGCATGGTTGCTTGATGACCGTGGATCCATC
39224206 AGTGGCTTTT
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
41 71 0.99
42 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (41 bp):
ATTGAGGATCGCATGGTTGCTTGATGACCGTGGATCCATCG
Found at i:39224387 original size:22 final size:22
Alignment explanation
Indices: 39224362--39224409 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
39224352 TGGCTTTGCA
39224362 CCAACCTACA-TATGGATCTGTG
1 CCAACCTA-ATTATGGATCTGTG
* *
39224384 CCAACCTAATTATGGTTGTGTG
1 CCAACCTAATTATGGATCTGTG
39224406 CCAA
1 CCAA
39224410 ACGTATTTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 1 0.04
22 22 0.96
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (22 bp):
CCAACCTAATTATGGATCTGTG
Found at i:39224656 original size:22 final size:22
Alignment explanation
Indices: 39224612--39224658 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
39224602 ATTGATGCGA
* * * *
39224612 TGTTTACGGTTATGTGCTGTCC
1 TGTTTACGGCTATATACTATCC
39224634 TGTTTACGGCTATATACTATCC
1 TGTTTACGGCTATATACTATCC
39224656 TGT
1 TGT
39224659 CTATGGCGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.15, C:0.19, G:0.21, T:0.45
Consensus pattern (22 bp):
TGTTTACGGCTATATACTATCC
Found at i:39224788 original size:21 final size:22
Alignment explanation
Indices: 39224747--39224793 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
39224737 GATCCCCACA
39224747 TGGTGTGCTGGTTGGTATGGG-
1 TGGTGTGCTGGTTGGTATGGGC
*
39224768 TGGTGTGTTGGTTGG-ATTGGGC
1 TGGTGTGCTGGTTGGTA-TGGGC
39224790 TGGT
1 TGGT
39224794 AATCTATCTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 1 0.04
21 18 0.78
22 4 0.17
ACGTcount: A:0.04, C:0.04, G:0.51, T:0.40
Consensus pattern (22 bp):
TGGTGTGCTGGTTGGTATGGGC
Found at i:39229234 original size:44 final size:44
Alignment explanation
Indices: 39229171--39229261 Score: 164
Period size: 44 Copynumber: 2.1 Consensus size: 44
39229161 TATTTTCACT
* *
39229171 GAGTTCACTCTAGTACAATGGTGTTCGACATTTACGACCTTATA
1 GAGTTCACTCCAGTACAATGGTGTTCGAAATTTACGACCTTATA
39229215 GAGTTCACTCCAGTACAATGGTGTTCGAAATTTACGACCTTATA
1 GAGTTCACTCCAGTACAATGGTGTTCGAAATTTACGACCTTATA
39229259 GAG
1 GAG
39229262 CTTTATACAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.32
Consensus pattern (44 bp):
GAGTTCACTCCAGTACAATGGTGTTCGAAATTTACGACCTTATA
Found at i:39239830 original size:24 final size:24
Alignment explanation
Indices: 39239798--39239876 Score: 104
Period size: 24 Copynumber: 3.3 Consensus size: 24
39239788 GTTAGGACAT
* * *
39239798 ATTAAATTCATCCACCAGTAGCTC
1 ATTAAATTCGTCAACCAGCAGCTC
*
39239822 ATTAAATTCGTCAACTAGCAGCTC
1 ATTAAATTCGTCAACCAGCAGCTC
* *
39239846 ATTAAATCCGTCAACCAGCAACTC
1 ATTAAATTCGTCAACCAGCAGCTC
39239870 ATTAAAT
1 ATTAAAT
39239877 CTATCTAGGC
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.37, C:0.27, G:0.09, T:0.28
Consensus pattern (24 bp):
ATTAAATTCGTCAACCAGCAGCTC
Found at i:39242335 original size:2 final size:2
Alignment explanation
Indices: 39242328--39242356 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
39242318 TAGCTAGACT
39242328 CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
39242357 TATGTTAGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:39244546 original size:31 final size:31
Alignment explanation
Indices: 39244511--39244626 Score: 144
Period size: 31 Copynumber: 3.7 Consensus size: 31
39244501 TAATTAAAAT
* * *
39244511 TGAAAAGTGGTAGCTTCAGCTACCTAATCAG
1 TGAAAAGTGGTAGCTCCGGCTACCTGATCAG
39244542 TGAAAAGTGGTAGCTCCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTCCGGCTACCTGATCAG
* **
39244573 TGAAAGGTGGTAG-TACCGGAAACCTGATCAG
1 TGAAAAGTGGTAGCT-CCGGCTACCTGATCAG
* *
39244604 TGAATAGTGGTAGCTTCGGCTAC
1 TGAAAAGTGGTAGCTCCGGCTAC
39244627 AAGTGACAAG
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
30 1 0.01
31 70 0.97
32 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTCCGGCTACCTGATCAG
Found at i:39244699 original size:46 final size:43
Alignment explanation
Indices: 39244649--39244806 Score: 153
Period size: 41 Copynumber: 3.7 Consensus size: 43
39244639 ATTTCTGTAC
* * * *
39244649 AAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATTTGTGT
1 AAGACCATAGCTGGGCTATGGCATCA--GAGATATG-AATATGTGT
*
39244695 AAGACCATAGCTGGGCTATGGCATC-GATATATGAATATGTGT
1 AAGACCATAGCTGGGCTATGGCATCAGAGATATGAATATGTGT
** * *
39244737 AAGA-CATAGCTGGGCTATGGCATCA-TTATGTGAAGATGTGT
1 AAGACCATAGCTGGGCTATGGCATCAGAGATATGAATATGTGT
* **
39244778 AAGACCATAGTTGAACTATGGCATC-GAGA
1 AAGACCATAGCTGGGCTATGGCATCAGAGA
39244807 AAACGAAGTA
Statistics
Matches: 96, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
41 37 0.39
42 29 0.30
43 7 0.07
46 23 0.24
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.28
Consensus pattern (43 bp):
AAGACCATAGCTGGGCTATGGCATCAGAGATATGAATATGTGT
Found at i:39244745 original size:41 final size:43
Alignment explanation
Indices: 39244690--39244804 Score: 164
Period size: 41 Copynumber: 2.7 Consensus size: 43
39244680 ATATGTGATT
*
39244690 TGTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATA
1 TGTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGA
*
39244732 TGTGTAAGA-CATAGCTGGGCTATGGCATC-ATTATGTGAAGA
1 TGTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGA
* **
39244773 TGTGTAAGACCATAGTTGAACTATGGCATCGA
1 TGTGTAAGACCATAGCTGGGCTATGGCATCGA
39244805 GAAAACGAAG
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
40 1 0.02
41 37 0.57
42 26 0.40
43 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (43 bp):
TGTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGA
Found at i:39252055 original size:14 final size:14
Alignment explanation
Indices: 39252036--39252065 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
39252026 GGTGTAAGAT
39252036 TTTTAAGTAAAATA
1 TTTTAAGTAAAATA
*
39252050 TTTTAAGTATAATA
1 TTTTAAGTAAAATA
39252064 TT
1 TT
39252066 AAATTTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
TTTTAAGTAAAATA
Found at i:39256235 original size:41 final size:41
Alignment explanation
Indices: 39256105--39256338 Score: 298
Period size: 41 Copynumber: 5.8 Consensus size: 41
39256095 GGATATAGCT
* * * *
39256105 ACTCGCTC-AATGCCTTCGGGACATAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATGTAATA
*
39256144 ACTCACACAAATGCCTTCGGGACTTAGCCCGG-ATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATGTAATA
* * *
39256184 ACTCGTACAAATGCTTTAGGGACTTAGCCCGGAATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATGTAATA
*
39256225 ACTCGCACAAATGCCTTCAGGACTTAGCCCGGAATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATGTAATA
* * *
39256266 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA-CTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATGTAATA
*
39256306 ACTAGCGCA-AAATTCCTTCGGGACTTAGCCCGG
1 ACT--CGCACAAATGCCTTCGGGACTTAGCCCGG
39256339 TTATCATCCA
Statistics
Matches: 173, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
39 6 0.03
40 62 0.36
41 101 0.58
42 4 0.02
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (41 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATGTAATA
Found at i:39258247 original size:42 final size:42
Alignment explanation
Indices: 39258140--39258296 Score: 208
Period size: 43 Copynumber: 3.7 Consensus size: 42
39258130 AGCTCGTACA
* *
39258140 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACATGAAATCAAATA-CG
* * *
39258183 GTGCCACTGTCCCAGACATGGTCTTACATGAAATCAAATACG
1 ATGCCAATGTCCCAGACGTGGTCTTACATGAAATCAAATACG
*
39258225 ATGCCAATGTCCCAGACGTGGTCTTACATGTAAATCATAAGT-CA
1 ATGCCAATGTCCCAGACGTGGTCTTACATG-AAATCA-AA-TACG
*
39258269 ATGCCAATGTCCCAGATGTGGTCTTACA
1 ATGCCAATGTCCCAGACGTGGTCTTACA
39258297 CGAGAACACA
Statistics
Matches: 101, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
42 29 0.29
43 41 0.41
44 30 0.30
45 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACGTGGTCTTACATGAAATCAAATACG
Found at i:39260918 original size:28 final size:28
Alignment explanation
Indices: 39260858--39260922 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
39260848 ACTTTTCACA
*
39260858 ACATTTAATGCGTTAATGCATTATCCCT
1 ACATTTAATGCGTTAATGCATTATCCAT
* *
39260886 ACATTTAATGCTTTAATGTC-TTTTCCAT
1 ACATTTAATGCGTTAATG-CATTATCCAT
*
39260914 GCATTTAAT
1 ACATTTAAT
39260923 CCCTAAAATC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 31 0.97
29 1 0.03
ACGTcount: A:0.28, C:0.18, G:0.09, T:0.45
Consensus pattern (28 bp):
ACATTTAATGCGTTAATGCATTATCCAT
Found at i:39263549 original size:42 final size:41
Alignment explanation
Indices: 39263428--39263549 Score: 154
Period size: 43 Copynumber: 2.9 Consensus size: 41
39263418 TACCATACCA
*
39263428 ATGCCATATCCCAGATATGGTCTTACATGGGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACAT-GAATCTCATATCG
* * * *
39263470 ATGCCAAGAGCCCAGCTATGGTCTTGCATGAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACATGAA-TCTCATATCG
*
39263513 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACATG-AATCTCA
39263550 ACTAACCCTA
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
42 31 0.46
43 36 0.54
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACATGAATCTCATATCG
Found at i:39264595 original size:13 final size:13
Alignment explanation
Indices: 39264577--39264601 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39264567 GCCCAAACAT
39264577 CAAAATTTTCAAA
1 CAAAATTTTCAAA
39264590 CAAAATTTTCAA
1 CAAAATTTTCAA
39264602 GAAATCATTT
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:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (13 bp):
CAAAATTTTCAAA
Found at i:39269523 original size:43 final size:42
Alignment explanation
Indices: 39269457--39269555 Score: 126
Period size: 43 Copynumber: 2.3 Consensus size: 42
39269447 AGCTCGTACA
* * ***
39269457 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAATATCG
1 ATGCCAATATCCCAGACAAGGTCTTACACAAAATCAAATAT-G
*
39269500 ATGCCACTATCCCAGACAAGGTCTTACACAAAATCAAATATG
1 ATGCCAATATCCCAGACAAGGTCTTACACAAAATCAAATATG
*
39269542 ATGCCAATGTCCCA
1 ATGCCAATATCCCA
39269556 AATGTAACAC
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 13 0.27
43 35 0.73
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.24
Consensus pattern (42 bp):
ATGCCAATATCCCAGACAAGGTCTTACACAAAATCAAATATG
Found at i:39270431 original size:37 final size:37
Alignment explanation
Indices: 39270372--39270443 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
39270362 AGCTCAGACG
*
39270372 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
* *
39270409 AAATCTCCATACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGA
39270444 ATATATTTCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
Found at i:39270713 original size:48 final size:48
Alignment explanation
Indices: 39270589--39270773 Score: 309
Period size: 48 Copynumber: 3.8 Consensus size: 48
39270579 GCACATCGCC
*
39270589 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
39270639 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
39270687 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
39270735 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
39270774 TGCATGTTCA
Statistics
Matches: 128, Mismatches: 5, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
48 84 0.66
49 2 0.02
50 42 0.33
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Done.