Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 121 of 328
Found at i:34535857 original size:22 final size:22
Alignment explanation
Indices: 34535830--34535874 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
34535820 ATTCATGAAT
*
34535830 TACATTAATATTCTTTTTATAA
1 TACATTAATATTCTTTGTATAA
34535852 TACATTAATATTCTTTGTATAA
1 TACATTAATATTCTTTGTATAA
34535874 T
1 T
34535875 GTCTTTATGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.53
Consensus pattern (22 bp):
TACATTAATATTCTTTGTATAA
Found at i:34540894 original size:20 final size:20
Alignment explanation
Indices: 34540869--34540908 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
34540859 TAAATTAACT
34540869 GGTCATGGTGAATCTGTTGA
1 GGTCATGGTGAATCTGTTGA
34540889 GGTCATGGTGAATCTGTTGA
1 GGTCATGGTGAATCTGTTGA
34540909 ATGTGGATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.10, G:0.35, T:0.35
Consensus pattern (20 bp):
GGTCATGGTGAATCTGTTGA
Found at i:34541013 original size:16 final size:18
Alignment explanation
Indices: 34540986--34541018 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
34540976 TAAGAATCGG
34540986 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
34541003 TTGAG-AAATTAATTTA
1 TTGAGAAAATTAATTTA
34541019 TGATATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:34544666 original size:16 final size:16
Alignment explanation
Indices: 34544645--34544679 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
34544635 AATGACTAAA
34544645 AAATATTATTATTTTT
1 AAATATTATTATTTTT
34544661 AAATATTATTATTTTT
1 AAATATTATTATTTTT
34544677 AAA
1 AAA
34544680 AATCTAAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
AAATATTATTATTTTT
Found at i:34547559 original size:17 final size:18
Alignment explanation
Indices: 34547537--34547573 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
34547527 GCAACTCATC
34547537 AAAACT-AGGTTTTCCTA
1 AAAACTAAGGTTTTCCTA
*
34547554 AAAACTAAGGTTTTCGTA
1 AAAACTAAGGTTTTCCTA
34547572 AA
1 AA
34547574 TAAAAACAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.32
Consensus pattern (18 bp):
AAAACTAAGGTTTTCCTA
Found at i:34566290 original size:23 final size:19
Alignment explanation
Indices: 34566264--34566311 Score: 51
Period size: 23 Copynumber: 2.3 Consensus size: 19
34566254 TAAGTATTAT
34566264 AATAAGAAATGACATTATGTAGA
1 AATAAGAAAT-A-ATTA-GTA-A
*
34566287 AATAATAAATAATTAGTAA
1 AATAAGAAATAATTAGTAA
34566306 AATAAG
1 AATAAG
34566312 GTAAAGATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 6 0.26
20 3 0.13
21 4 0.17
22 1 0.04
23 9 0.39
ACGTcount: A:0.58, C:0.02, G:0.12, T:0.27
Consensus pattern (19 bp):
AATAAGAAATAATTAGTAA
Found at i:34568008 original size:39 final size:39
Alignment explanation
Indices: 34567957--34568100 Score: 225
Period size: 39 Copynumber: 3.7 Consensus size: 39
34567947 TGTGTGAGAT
*
34567957 TTATATCCGGGCTAAGTCTCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
34567996 TTATATCTGGGCTAAGTCCCGAAGGCATTCATGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * **
34568035 TTATATCTGGGCTAAATCCCGAAGATATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
34568074 TTATATCCGGGCTAAGTCCCGAAGGCA
1 TTATATCCGGGCTAAGTCCCGAAGGCA
34568101 ATTATGTTGG
Statistics
Matches: 94, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 94 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.30
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:34580660 original size:46 final size:46
Alignment explanation
Indices: 34580610--34580782 Score: 185
Period size: 46 Copynumber: 3.7 Consensus size: 46
34580600 TGGTTGAGCA
*
34580610 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
34580656 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
34580701 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
34580749 TCC-AAGCTCATTGAGTTGAGTCCAAGTTCACTTA
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTA
34580783 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 12, Indels: 20
0.77 0.09 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 5 0.05
46 57 0.54
47 29 0.28
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:34580766 original size:93 final size:93
Alignment explanation
Indices: 34580607--34580777 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
34580597 GGATGGTTGA
* * *
34580607 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAGT
*
34580672 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCAAGTTCGTGAAATGTAACTAG
34580700 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-AAGCTCATTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAA-CTCATTGAG
34580764 TTGAGTCCAAGTTC
65 TTGAGTCCAAGTTC
34580778 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAGT
TGAGTCCAAGTTCGTGAAATGTAACTAG
Found at i:34583624 original size:43 final size:43
Alignment explanation
Indices: 34583443--34583626 Score: 206
Period size: 43 Copynumber: 4.3 Consensus size: 43
34583433 ACTTAGTTCA
* * * *
34583443 CCCATTGGCCAATACCATACAAAAGCAGACTTTATACAATTTG
1 CCCATTGGCGAATACTATATAATAGCAGACTTTATACAATTTG
* * *
34583486 CCCGTTGGCCAATACTATATAATAGCAGACTTTATACAATTTT
1 CCCATTGGCGAATACTATATAATAGCAGACTTTATACAATTTG
* * * * *
34583529 CCAATTGGTGAATACTATATAATAGCAAACTTTATATAATTTT
1 CCCATTGGCGAATACTATATAATAGCAGACTTTATACAATTTG
* * * * * *
34583572 CTCATTGGCGAACACTATATAATAGTAGACTTCATGCAATTCG
1 CCCATTGGCGAATACTATATAATAGCAGACTTTATACAATTTG
34583615 CCCATTGGCGAA
1 CCCATTGGCGAA
34583627 ATTCCAAACT
Statistics
Matches: 118, Mismatches: 23, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 118 1.00
ACGTcount: A:0.35, C:0.21, G:0.13, T:0.32
Consensus pattern (43 bp):
CCCATTGGCGAATACTATATAATAGCAGACTTTATACAATTTG
Found at i:34587647 original size:23 final size:23
Alignment explanation
Indices: 34587621--34587701 Score: 76
Period size: 23 Copynumber: 3.3 Consensus size: 23
34587611 TACTTCAAGA
34587621 TGGAAAACTAAGGTATCCTAAAG
1 TGGAAAACTAAGGTATCCTAAAG
*
34587644 TGGAAAA--AATGAGTAGAGTCCTTCAAG
1 TGGAAAACTAA-G-GT--A-TCC-TAAAG
34587671 ATGGAAAACTAAGGTATCCTAAAG
1 -TGGAAAACTAAGGTATCCTAAAG
34587695 TGGAAAA
1 TGGAAAA
34587702 AACTATCTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 18
0.70 0.03 0.27
Matches are distributed among these distances:
21 2 0.04
22 1 0.02
23 16 0.34
24 4 0.09
25 4 0.09
26 4 0.09
27 4 0.09
28 9 0.19
29 1 0.02
30 2 0.04
ACGTcount: A:0.44, C:0.11, G:0.23, T:0.21
Consensus pattern (23 bp):
TGGAAAACTAAGGTATCCTAAAG
Found at i:34587679 original size:51 final size:51
Alignment explanation
Indices: 34587606--34587703 Score: 187
Period size: 51 Copynumber: 1.9 Consensus size: 51
34587596 ATTATGTGAC
34587606 TAGAGTACTTCAAGATGGAAAACTAAGGTATCCTAAAGTGGAAAAAATGAG
1 TAGAGTACTTCAAGATGGAAAACTAAGGTATCCTAAAGTGGAAAAAATGAG
*
34587657 TAGAGTCCTTCAAGATGGAAAACTAAGGTATCCTAAAGTGGAAAAAA
1 TAGAGTACTTCAAGATGGAAAACTAAGGTATCCTAAAGTGGAAAAAA
34587704 CTATCTTTGC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.45, C:0.11, G:0.22, T:0.21
Consensus pattern (51 bp):
TAGAGTACTTCAAGATGGAAAACTAAGGTATCCTAAAGTGGAAAAAATGAG
Found at i:34587702 original size:24 final size:24
Alignment explanation
Indices: 34587624--34587702 Score: 72
Period size: 24 Copynumber: 3.2 Consensus size: 24
34587614 TTCAAGATGG
34587624 AAAACTAAGGTATCCTAAAGTGGA
1 AAAACTAAGGTATCCTAAAGTGGA
* * *
34587648 AAAAATGA-GTAGAGTCCTTCAAGATGG-
1 AAAACTAAGGT--A-TCC-TAAAG-TGGA
34587675 AAAACTAAGGTATCCTAAAGTGGA
1 AAAACTAAGGTATCCTAAAGTGGA
34587699 AAAA
1 AAAA
34587703 ACTATCTTTG
Statistics
Matches: 42, Mismatches: 6, Indels: 14
0.68 0.10 0.23
Matches are distributed among these distances:
23 5 0.12
24 14 0.33
25 4 0.10
26 4 0.10
27 10 0.24
28 5 0.12
ACGTcount: A:0.47, C:0.11, G:0.22, T:0.20
Consensus pattern (24 bp):
AAAACTAAGGTATCCTAAAGTGGA
Found at i:34587703 original size:25 final size:25
Alignment explanation
Indices: 34587624--34587706 Score: 75
Period size: 25 Copynumber: 3.3 Consensus size: 25
34587614 TTCAAGATGG
34587624 AAAACTAAGGTATCCTAAAGTGGAA
1 AAAACTAAGGTATCCTAAAGTGGAA
* *
34587649 AAAA-TGA-GTAGAGTCCTTCAAGATGG--
1 AAAACTAAGGT--A-TCC-TAAAG-TGGAA
34587675 AAAACTAAGGTATCCTAAAGTGGAA
1 AAAACTAAGGTATCCTAAAGTGGAA
34587700 AAAACTA
1 AAAACTA
34587707 TCTTTGCTCT
Statistics
Matches: 45, Mismatches: 4, Indels: 18
0.67 0.06 0.27
Matches are distributed among these distances:
23 5 0.11
24 6 0.13
25 15 0.33
26 8 0.18
27 6 0.13
28 5 0.11
ACGTcount: A:0.47, C:0.12, G:0.20, T:0.20
Consensus pattern (25 bp):
AAAACTAAGGTATCCTAAAGTGGAA
Found at i:34589890 original size:49 final size:49
Alignment explanation
Indices: 34589837--34590090 Score: 177
Period size: 49 Copynumber: 5.2 Consensus size: 49
34589827 GGAGAAGGGT
* *
34589837 CATATTATTACTTTTTGTAAGCTTCCCTCTATGCGTTT-GGAAGCAAGGC
1 CATATTATTACTTTTCGTAAGCTTCCCTCAATGCGTTTAGG-AGCAAGGC
* * * * ** *
34589886 CATATTATCA-TTTCTCGTAAGCCTTCCCT-AAAGAGTCTT-GAAATAGGGC
1 CATATTATTACTTT-TCGTAAG-CTTCCCTCAATGCGT-TTAGGAGCAAGGC
* * * * *
34589935 CATTTTATTAC-TTTCGATAAACATCCC-CAATGCGTTTAGGATCAAGAC
1 CATATTATTACTTTTCG-TAAGCTTCCCTCAATGCGTTTAGGAGCAAGGC
* * *
34589983 CATATTATTACTTTTCGTAAGTTTCCCCTC-ATGCATTTAGGAGCAAAAG-
1 CATATTATTACTTTTCGTAAGCTT-CCCTCAATGCGTTTAGGAGC-AAGGC
* *
34590032 CATATTATTAC-TTCCTGTAAGCCTTCCCTC-ATGAGTTTAGGAGCAAGGC
1 CATATTATTACTTTTC-GTAAG-CTTCCCTCAATGCGTTTAGGAGCAAGGC
*
34590081 CATTTTATTA
1 CATATTATTA
34590091 TCTTCCGTAA
Statistics
Matches: 157, Mismatches: 34, Indels: 28
0.72 0.16 0.13
Matches are distributed among these distances:
47 2 0.01
48 41 0.26
49 99 0.63
50 15 0.10
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (49 bp):
CATATTATTACTTTTCGTAAGCTTCCCTCAATGCGTTTAGGAGCAAGGC
Found at i:34590096 original size:50 final size:50
Alignment explanation
Indices: 34589964--34590114 Score: 143
Period size: 49 Copynumber: 3.0 Consensus size: 50
34589954 AACATCCCCA
* * * * * *
34589964 ATGCGTTTAGGATCAAGACCATATTATTACTTTTCGT-AAG-TTTCCCCTC
1 ATGCATTTAGGAGCAAAAGCATATTATTAC-TTCCGTAAAGCCTTCCCCTC
34590013 ATGCATTTAGGAGCAAAAGCATATTATTACTTCCTGT-AAGCCTT-CCCTC
1 ATGCATTTAGGAGCAAAAGCATATTATTACTTCC-GTAAAGCCTTCCCCTC
* *
34590062 ATG-AGTTTAGGAGC-AAGGCCATTTTATTATCTTCCGTAAAGCCTTCCCCTC
1 ATGCA-TTTAGGAGCAAAAG-CATATTATTA-CTTCCGTAAAGCCTTCCCCTC
34590113 AT
1 AT
34590115 ATGTTAAGAA
Statistics
Matches: 87, Mismatches: 8, Indels: 12
0.81 0.07 0.11
Matches are distributed among these distances:
48 7 0.08
49 59 0.68
50 14 0.16
51 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (50 bp):
ATGCATTTAGGAGCAAAAGCATATTATTACTTCCGTAAAGCCTTCCCCTC
Found at i:34591838 original size:35 final size:35
Alignment explanation
Indices: 34591793--34591862 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
34591783 TATCCTTAAT
*
34591793 TTTTTTTATCTATTTTCATTAATGTCGTTACATGA
1 TTTTTTTATCTATTTGCATTAATGTCGTTACATGA
34591828 TTTTTTTATCTATTTGCATTAATGTCGTTACATGA
1 TTTTTTTATCTATTTGCATTAATGTCGTTACATGA
34591863 GTTAATTCCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.23, C:0.11, G:0.10, T:0.56
Consensus pattern (35 bp):
TTTTTTTATCTATTTGCATTAATGTCGTTACATGA
Found at i:34594223 original size:21 final size:21
Alignment explanation
Indices: 34594188--34594248 Score: 56
Period size: 21 Copynumber: 2.9 Consensus size: 21
34594178 ACATCTACTT
*
34594188 AGGGAAATTATAATCCAA-AAC
1 AGGG-AATTACAATCCAACAAC
34594209 AAGGGAATTACAAT-CAACAAC
1 -AGGGAATTACAATCCAACAAC
*
34594230 AGTGGAACTACAAT-CAACA
1 AG-GGAATTACAATCCAACA
34594249 CACTCAGATA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
20 5 0.14
21 26 0.74
22 4 0.11
ACGTcount: A:0.51, C:0.18, G:0.15, T:0.16
Consensus pattern (21 bp):
AGGGAATTACAATCCAACAAC
Found at i:34599439 original size:29 final size:29
Alignment explanation
Indices: 34599407--34599508 Score: 195
Period size: 29 Copynumber: 3.5 Consensus size: 29
34599397 CTTCGAGCTC
34599407 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
34599436 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
34599465 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
*
34599494 GCACACCTAGTGCCA
1 GCACACTTAGTGCCA
34599509 ATCTCGTCAC
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
29 72 1.00
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.28
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:34599440 original size:58 final size:59
Alignment explanation
Indices: 34599347--34599508 Score: 186
Period size: 58 Copynumber: 2.8 Consensus size: 59
34599337 ATACTTTATT
** * ** * * *
34599347 TCGCACACTTAGTGCCATGCGATTT-AAGCCCGCACACATAGTGGCATACCCTTCGAGC-
1 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACATAGTGCCATACACTTCCAGCA
* * *
34599405 TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCA
1 TCGCACACTTAGTGCCATATATTTCCAGCATGCACACATAGTGCCATACACTTCCAGCA
*
34599464 T-GCACACTTAGTGCCATATATTTCCAGCATGCACACCTAGTGCCA
1 TCGCACACTTAGTGCCATATATTTCCAGCATGCACACATAGTGCCA
34599509 ATCTCGTCAC
Statistics
Matches: 90, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
57 4 0.04
58 85 0.94
59 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.27
Consensus pattern (59 bp):
TCGCACACTTAGTGCCATATATTTCCAGCATGCACACATAGTGCCATACACTTCCAGCA
Found at i:34607674 original size:46 final size:46
Alignment explanation
Indices: 34607607--34607776 Score: 188
Period size: 46 Copynumber: 3.7 Consensus size: 46
34607597 AACCCGCCCC
*
34607607 TAAGTGAACTCAGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAG-TTCGGGCGTTCGCATCCA
* *
34607653 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * *
34607701 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
34607746 TAAGTGAACTCGGACTCAACTCAACGAGTTC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC
34607777 AGATGCTCAA
Statistics
Matches: 103, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 4 0.04
46 55 0.53
47 28 0.27
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:34607725 original size:93 final size:93
Alignment explanation
Indices: 34607612--34607782 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
34607602 GCCCCTAAGT
* *
34607612 GAACTCAGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCAGACTCAACTCAACGAG-TTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
34607676 ACGAGTTCGGATGCCTAGTTACATTTCAC
65 ACGAGTTCAGATGCCTAGTTACATTTCAC
*
34607705 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
34607770 CGAGTTCAGATGC
66 CGAGTTCAGATGC
34607783 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATTTCAC
Found at i:34621379 original size:46 final size:46
Alignment explanation
Indices: 34621329--34621504 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
34621319 TGGTTGAGCA
34621329 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
34621375 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
34621420 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
34621468 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
34621505 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:34621485 original size:93 final size:93
Alignment explanation
Indices: 34621326--34621496 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
34621316 GGATGGTTGA
* *
34621326 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
34621391 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
34621419 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
34621484 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
34621497 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:34629910 original size:22 final size:22
Alignment explanation
Indices: 34629885--34629929 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
34629875 AATAGTGGTT
*
34629885 TTAGGGCTACAAATTTGATGAG
1 TTAGGACTACAAATTTGATGAG
34629907 TTAGGACTACAAATTTGATGAG
1 TTAGGACTACAAATTTGATGAG
34629929 T
1 T
34629930 AAATATTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.33, C:0.09, G:0.24, T:0.33
Consensus pattern (22 bp):
TTAGGACTACAAATTTGATGAG
Found at i:34638896 original size:40 final size:39
Alignment explanation
Indices: 34638736--34638898 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
34638726 TGTGTATGAA
*
34638736 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
34638775 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
34638814 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
34638853 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
34638893 TGTGCG
1 TGTGCG
34638899 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:34638914 original size:40 final size:39
Alignment explanation
Indices: 34638736--34638929 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
34638726 TGTGTATGAA
* *
34638736 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
34638775 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
34638814 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
34638853 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
34638893 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
34638930 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:34640589 original size:44 final size:47
Alignment explanation
Indices: 34640539--34640652 Score: 137
Period size: 44 Copynumber: 2.4 Consensus size: 47
34640529 TAATTATGGG
34640539 CACTTAGTGTGCGAAATTGAGATAGCTTCGG-ATATATATAT-T-TC
1 CACTTAGTGTGCGAAATTGAGATAGCTTCGGCATATATATATATATC
* *
34640583 CACTTAGTGTGTGAGAA-TGAGATAGCTTCGGCTACATATATATATATATG
1 CACTTAGTGTGCGA-AATTGAGATAGCTTCGG---CATATATATATATATC
*
34640633 CACTTAGTGTGCGAGATTGA
1 CACTTAGTGTGCGAAATTGA
34640653 TACAGTTTTG
Statistics
Matches: 58, Mismatches: 4, Indels: 10
0.81 0.06 0.14
Matches are distributed among these distances:
44 27 0.47
45 2 0.03
48 10 0.17
49 2 0.03
50 17 0.29
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.34
Consensus pattern (47 bp):
CACTTAGTGTGCGAAATTGAGATAGCTTCGGCATATATATATATATC
Found at i:34640666 original size:50 final size:50
Alignment explanation
Indices: 34640539--34640666 Score: 126
Period size: 50 Copynumber: 2.7 Consensus size: 50
34640529 TAATTATGGG
*
34640539 CACTTAGTGTGCGA-AATTGAGATAGCTTCGG----ATATATATAT-T-TC
1 CACTTAGTGTGCGAGAA-TGAGACAGCTTCGGCTACATATATATATATATC
* * *
34640583 CACTTAGTGTGTGAGAATGAGATAGCTTCGGCTACATATATATATATATG
1 CACTTAGTGTGCGAGAATGAGACAGCTTCGGCTACATATATATATATATC
* * * *
34640633 CACTTAGTGTGCGAGATTGATACAGTTTTGGCTA
1 CACTTAGTGTGCGAGAATGAGACAGCTTCGGCTA
34640667 TTTATTTGGC
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
44 27 0.39
45 2 0.03
48 10 0.14
49 1 0.01
50 29 0.42
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (50 bp):
CACTTAGTGTGCGAGAATGAGACAGCTTCGGCTACATATATATATATATC
Found at i:34641533 original size:21 final size:20
Alignment explanation
Indices: 34641493--34641533 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
34641483 CTAAACCGAT
* *
34641493 CACTTATAAAAATTTCTGAA
1 CACTTAGAAAAATTTATGAA
34641513 CACTTAGAAAAATTTTATGAA
1 CACTTAGAAAAA-TTTATGAA
34641534 AACATAGGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.34
Consensus pattern (20 bp):
CACTTAGAAAAATTTATGAA
Found at i:34642381 original size:43 final size:43
Alignment explanation
Indices: 34642334--34642435 Score: 107
Period size: 43 Copynumber: 2.4 Consensus size: 43
34642324 TCCCATATAT
* * ** *
34642334 GGTCTTACATGCTATC-ATATATCGATGCCACTGTCCCAGGCAG
1 GGTCTTACATGATATCAAT-TAACGATGCCAAAGTCCCAGACAG
* * *
34642377 GGTCTTACACGAAATCAATTAACGATGCCAAAGTCCCAGACAT
1 GGTCTTACATGATATCAATTAACGATGCCAAAGTCCCAGACAG
*
34642420 GGTCTTACATGTTATC
1 GGTCTTACATGATATC
34642436 TCTATACAAA
Statistics
Matches: 47, Mismatches: 11, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
43 45 0.96
44 2 0.04
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.27
Consensus pattern (43 bp):
GGTCTTACATGATATCAATTAACGATGCCAAAGTCCCAGACAG
Found at i:34644422 original size:43 final size:42
Alignment explanation
Indices: 34644284--34644452 Score: 137
Period size: 43 Copynumber: 4.0 Consensus size: 42
34644274 ACATAAGGTC
* * * *
34644284 ATACAATGCC-ATATCCCAGATATGGG-CTTACATGTTATCAT
1 ATACAATGCCAATGTCCCAGACA-GGGTCTTACATGTAATCAA
* * * * *
34644325 ATATCGATG-CAACTGTCCCAAGATAGGATCTTACATGAAATCGA
1 ATA-CAATGCCAA-TGTCCC-AGACAGGGTCTTACATGTAATCAA
* *
34644369 TTAACGATGCCAATGTCCCAGACAGGGTCTTACATGTAATCACA
1 AT-ACAATGCCAATGTCCCAGACAGGGTCTTACATGTAATCA-A
* * *
34644413 ATACAATGCCAATGTCCCAAACATGGTCTTATATGTAATC
1 ATACAATGCCAATGTCCCAGACAGGGTCTTACATGTAATC
34644453 CCTACTCGAT
Statistics
Matches: 103, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
41 4 0.04
42 5 0.05
43 60 0.58
44 30 0.29
45 4 0.04
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (42 bp):
ATACAATGCCAATGTCCCAGACAGGGTCTTACATGTAATCAA
Found at i:34649786 original size:46 final size:46
Alignment explanation
Indices: 34649682--34649853 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
34649672 GGCTATTGTG
* * * *
34649682 AGCTAGTGTAAGACCACGTCTGGGACATGGCATTAGCATTGAGATGA
1 AGCTAGTGTAAGA-CATGTCTGGGACATGGCATCAGCCTCGAGATGA
* *
34649729 GAGCTGGTGTAAGACATGTCTGGGACAT-GCATCAACCTCGAGATGTA
1 -AGCTAGTGTAAGACATGTCTGGGACATGGCATCAGCCTCGAGATG-A
*
34649776 AGCTAGTGTAAGACATGTCTGGGACAT-GCATC-GGCTACGAGATG-
1 AGCTAGTGTAAGACATGTCTGGGACATGGCATCAGCCT-CGAGATGA
* *
34649820 AGCCAGTGTAAGACGATGTCTGAGACATGGCATC
1 AGCTAGTGTAAGAC-ATGTCTGGGACATGGCATC
34649854 GCCATCCTAC
Statistics
Matches: 109, Mismatches: 11, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
44 13 0.12
45 14 0.13
46 56 0.51
47 14 0.13
48 12 0.11
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
AGCTAGTGTAAGACATGTCTGGGACATGGCATCAGCCTCGAGATGA
Found at i:34650000 original size:30 final size:30
Alignment explanation
Indices: 34649964--34650025 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
34649954 GTGACGTGAG
34649964 TAATACAAGTACCTATTCGTTATATATATA
1 TAATACAAGTACCTATTCGTTATATATATA
34649994 TAATACAAGTACCTATTCGTTATATATATA
1 TAATACAAGTACCTATTCGTTATATATATA
34650024 TA
1 TA
34650026 TAAGATGAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.40, C:0.13, G:0.06, T:0.40
Consensus pattern (30 bp):
TAATACAAGTACCTATTCGTTATATATATA
Found at i:34652209 original size:20 final size:20
Alignment explanation
Indices: 34652186--34652239 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
34652176 AAAAATTACA
*
34652186 AAAAATTCAAAATAATTTTC
1 AAAAATTTAAAATAATTTTC
* * *
34652206 AAAATTTTGAAATAATTTTT
1 AAAAATTTAAAATAATTTTC
34652226 AAAAATTTAAAATA
1 AAAAATTTAAAATA
34652240 TTTATAAAAG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.39
Consensus pattern (20 bp):
AAAAATTTAAAATAATTTTC
Found at i:34652247 original size:19 final size:19
Alignment explanation
Indices: 34652186--34652248 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 19
34652176 AAAAATTACA
*
34652186 AAAAATTCAAAATAATTTT
1 AAAAATTTAAAATAATTTT
* *
34652205 CAAAATTTTGAAATAATTTTT
1 -AAAAATTTAAAATAA-TTTT
34652226 AAAAATTTAAAAT-ATTTAT
1 AAAAATTTAAAATAATTT-T
34652245 AAAA
1 AAAA
34652249 GTTTTTCTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
18 3 0.08
19 6 0.17
20 23 0.64
21 4 0.11
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.40
Consensus pattern (19 bp):
AAAAATTTAAAATAATTTT
Found at i:34652281 original size:19 final size:18
Alignment explanation
Indices: 34652257--34652297 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
34652247 AAGTTTTTCT
*
34652257 TTTTTTGATAAAATTATAA
1 TTTTTT-ATAAAATAATAA
*
34652276 TTTTTTCTAAAATAATAA
1 TTTTTTATAAAATAATAA
34652294 TTTT
1 TTTT
34652298 AGATACATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (18 bp):
TTTTTTATAAAATAATAA
Found at i:34656308 original size:39 final size:39
Alignment explanation
Indices: 34656231--34656540 Score: 504
Period size: 39 Copynumber: 8.1 Consensus size: 39
34656221 ATGCAAGACA
34656231 CTGGAAATGTATCC-GGCTAAAGT-CCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
34656268 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
34656307 CT-GAAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
34656345 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * * *
34656384 CTGGAAATATAT-CTGGCCAAAGTCCCACAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
34656422 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
34656461 CTGGAAATGTATCC-GGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
34656499 CTGGAAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
34656538 CTG
1 CTG
34656541 ATAATATAAT
Statistics
Matches: 252, Mismatches: 16, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
37 14 0.06
38 116 0.46
39 122 0.48
ACGTcount: A:0.22, C:0.26, G:0.29, T:0.24
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:34656342 original size:77 final size:77
Alignment explanation
Indices: 34656231--34656548 Score: 534
Period size: 77 Copynumber: 4.1 Consensus size: 77
34656221 ATGCAAGACA
* *
34656231 CTGGAAATGTATCCGGCTAAAGT-CCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTCCC
1 CTGGAAATATATCCGGCCAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTCCC
34656295 GCAGGCTTCGTG
66 GCAGGCTTCGTG
34656307 CT-GAAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTCC
1 CTGGAAATATATCC-GGCCAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTCC
34656371 CGCAGGCTTCGTG
65 CGCAGGCTTCGTG
* *
34656384 CTGGAAATATATCTGGCCAAAGTCCCACAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTCCC
1 CTGGAAATATATCCGGCCAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTCCC
34656449 GCAGGCTTCGTG
66 GCAGGCTTCGTG
* *
34656461 CTGGAAATGTATCCGGCCAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGTTAAAGTCCC
1 CTGGAAATATATCCGGCCAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTCCC
*
34656526 GCAGGCTTTGTG
66 GCAGGCTTCGTG
34656538 CT-GATAATATA
1 CTGGA-AATATA
34656549 ATTTCGGGTT
Statistics
Matches: 228, Mismatches: 10, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
75 10 0.04
76 12 0.05
77 196 0.86
78 10 0.04
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (77 bp):
CTGGAAATATATCCGGCCAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTCCC
GCAGGCTTCGTG
Found at i:34664429 original size:40 final size:39
Alignment explanation
Indices: 34664384--34664590 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
34664374 CGGAATACAA
*
34664384 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
34664424 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
34664464 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
34664504 CCGGATTTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
* * * * *
34664544 CC-GATTTAACTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
34664583 CCGGATAT
1 CCGGATAT
34664591 CATTTAATTG
Statistics
Matches: 140, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
39 32 0.23
40 108 0.77
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:34664524 original size:80 final size:81
Alignment explanation
Indices: 34664384--34664588 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
34664374 CGGAATACAA
* * * *
34664384 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
34664448 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* *
34664464 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAG-TC-ACTAGCACAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGA-TTAGAACGACTAGCACAAA
*
34664527 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
* * ** * *
34664544 CC-GATTTAACTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
34664589 ATCATTTAAT
Statistics
Matches: 109, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
78 1 0.01
79 36 0.33
80 68 0.62
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:34669749 original size:40 final size:39
Alignment explanation
Indices: 34669704--34669911 Score: 200
Period size: 40 Copynumber: 5.2 Consensus size: 39
34669694 CGGAATACAA
*
34669704 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** *
34669744 CCGGATAGAATGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
34669784 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
34669824 CCGGATTTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
* * * * * *
34669864 CCAGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
34669904 CCGGATAT
1 CCGGATAT
34669912 CATTTAATTT
Statistics
Matches: 138, Mismatches: 29, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
39 1 0.01
40 137 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:34669844 original size:80 final size:80
Alignment explanation
Indices: 34669704--34669910 Score: 252
Period size: 80 Copynumber: 2.6 Consensus size: 80
34669694 CGGAATACAA
* * * * *
34669704 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTTGCACAAATG
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATCACTAGCACAAATG
*
34669769 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
** * *
34669784 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAGTCACTAGCACAATTG
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATCACTAGCACAAATG
*
34669849 CCTTCGGGTCTTAAC
66 CCTTCGGGTATTAAC
* * * ** * *
34669864 CCAGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
34669911 TCATTTAATT
Statistics
Matches: 108, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
80 108 1.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.27
Consensus pattern (80 bp):
CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATCACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:34686286 original size:47 final size:47
Alignment explanation
Indices: 34686232--34686474 Score: 165
Period size: 47 Copynumber: 5.1 Consensus size: 47
34686222 TTAGGATTTT
* *
34686232 ATGTGATGAATGTGAATGTGTATGTATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATATGAATGTGTATGTATGTGATAAGGCCGAATGGCCA
**
34686279 ATGTGATGAATATGAGCATGCATATG--TGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATATGA--ATGTGTATGTATGTGATAAGGCCGAATGGCCA
* ** * * * * *
34686326 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATATGAATGTGTATGTATGTGATAAGGCCGAATGGCCA
* * * * *
34686373 ATGTGA--AATATGTATGAGGTATGTATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATATGAATG-TGTATG--TATGTGATAAGGCCGAATGGCCA
* * * * * *
34686421 ATGTGA--AATATGTATGAGATATGCATATGTGGTAAAGCTGAATGGTCA
1 ATGTGATGAATATGAATGTG-TATG--TATGTGATAAGGCCGAATGGCCA
34686469 ATGTGA
1 ATGTGA
34686475 AATATATATA
Statistics
Matches: 162, Mismatches: 26, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
45 10 0.06
46 3 0.02
47 72 0.44
48 70 0.43
49 7 0.04
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATATGAATGTGTATGTATGTGATAAGGCCGAATGGCCA
Found at i:34686334 original size:25 final size:25
Alignment explanation
Indices: 34686261--34686334 Score: 61
Period size: 23 Copynumber: 3.1 Consensus size: 25
34686251 GTATGTATGA
*
34686261 GATAAGGCCGAATGGCCAATGTGAT
1 GATAAGGCCGAATGGCCAATGTGGT
*
34686286 GAATATGAG-C--AT-G-CATATGT-GT
1 G-ATAAG-GCCGAATGGCCA-ATGTGGT
34686308 GATAAGGCCGAATGGCCAATGTGGT
1 GATAAGGCCGAATGGCCAATGTGGT
34686333 GA
1 GA
34686335 ATATGAACAT
Statistics
Matches: 37, Mismatches: 3, Indels: 18
0.64 0.05 0.31
Matches are distributed among these distances:
20 1 0.03
21 5 0.14
22 4 0.11
23 7 0.19
24 7 0.19
25 7 0.19
26 5 0.14
27 1 0.03
ACGTcount: A:0.31, C:0.14, G:0.32, T:0.23
Consensus pattern (25 bp):
GATAAGGCCGAATGGCCAATGTGGT
Found at i:34686506 original size:50 final size:48
Alignment explanation
Indices: 34686348--34686532 Score: 291
Period size: 48 Copynumber: 3.8 Consensus size: 48
34686338 TGAACATGCA
*
34686348 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGGTATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
34686396 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* * *
34686444 CATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
34686494 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
34686533 GGCGATGTGC
Statistics
Matches: 125, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
47 1 0.01
48 79 0.63
49 4 0.03
50 40 0.32
51 1 0.01
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:34686507 original size:98 final size:96
Alignment explanation
Indices: 34686349--34686532 Score: 298
Period size: 98 Copynumber: 1.9 Consensus size: 96
34686339 GAACATGCAT
* *
34686349 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGGTATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
34686414 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTGAAATATGTATGAGATATGC
*
34686445 ATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATATATGAGATATGTATATGTGGTAAAGC
*
34686509 CGAATGGCTAGTGTGAAATATGTA
63 CGAATGGCTAATGTGAAATATGTA
34686533 GGCGATGTGC
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
95 1 0.01
96 26 0.32
97 2 0.02
98 52 0.64
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:34686547 original size:50 final size:50
Alignment explanation
Indices: 34686343--34686548 Score: 264
Period size: 48 Copynumber: 4.2 Consensus size: 50
34686333 GAATATGAAC
* *
34686343 ATGCATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGGT
1 ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
34686393 AT--GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
1 ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
* *
34686441 ATGC--ATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATGAGAT
1 ATGCGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGAT
* * *
34686491 AT--GTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGCGAT
1 ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
*
34686539 GTGCGTATAT
1 ATGCGTATAT
34686549 TGTCGCCGAA
Statistics
Matches: 136, Mismatches: 10, Indels: 20
0.82 0.06 0.12
Matches are distributed among these distances:
47 1 0.01
48 83 0.61
49 4 0.03
50 47 0.35
51 1 0.01
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (50 bp):
ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
Found at i:34686780 original size:59 final size:59
Alignment explanation
Indices: 34686688--34686802 Score: 221
Period size: 59 Copynumber: 1.9 Consensus size: 59
34686678 TCCGGGTAAG
34686688 ACCCGATGACTACGTGTGGAGATTTTGTCCGGGTAAGACCCGATGACTACGTGTGGCTT
1 ACCCGATGACTACGTGTGGAGATTTTGTCCGGGTAAGACCCGATGACTACGTGTGGCTT
*
34686747 ACCCGATGACTACGTGTGGAGATTTTGTCCGGGTAAGACCTGATGACTACGTGTGG
1 ACCCGATGACTACGTGTGGAGATTTTGTCCGGGTAAGACCCGATGACTACGTGTGG
34686803 ATATTTTGTC
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.27
Consensus pattern (59 bp):
ACCCGATGACTACGTGTGGAGATTTTGTCCGGGTAAGACCCGATGACTACGTGTGGCTT
Found at i:34686801 original size:37 final size:37
Alignment explanation
Indices: 34686747--34686845 Score: 162
Period size: 37 Copynumber: 2.7 Consensus size: 37
34686737 CGTGTGGCTT
34686747 ACCCGATGACTACGTGTGGAGATTTTGTCCGGGTAAG
1 ACCCGATGACTACGTGTGGAGATTTTGTCCGGGTAAG
* *
34686784 ACCTGATGACTACGTGTGGATATTTTGTCCGGGTAAG
1 ACCCGATGACTACGTGTGGAGATTTTGTCCGGGTAAG
* *
34686821 ACCCGATAACTTCGTGTGGAGATTT
1 ACCCGATGACTACGTGTGGAGATTT
34686846 CGTCTGAGCT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.30
Consensus pattern (37 bp):
ACCCGATGACTACGTGTGGAGATTTTGTCCGGGTAAG
Found at i:34691073 original size:40 final size:40
Alignment explanation
Indices: 34690790--34691059 Score: 369
Period size: 40 Copynumber: 6.8 Consensus size: 40
34690780 TTTCATTGAG
* *
34690790 AGTGATATACCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
34690830 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
34690870 AGTGATGTATCCGGACTAAGTCCCAAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
34690910 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
34690950 AGTGATGTATCCGGGCTAAGTTCCAAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * ** * *
34690990 AGTGATATATCTGTGCTAAACCCCAAAGAGCATTCGTACT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
34691030 GGTGTTATATCCGGGCTAGGTCCCGAAGAG
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAG
34691060 TAATCATGCT
Statistics
Matches: 207, Mismatches: 23, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 207 1.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:34699682 original size:21 final size:20
Alignment explanation
Indices: 34699642--34699682 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
34699632 CTAAACCGAT
* *
34699642 CACTTATAAAAATTTCTGAA
1 CACTTAGAAAAATTTATGAA
34699662 CACTTAGAAAAATTTTATGAA
1 CACTTAGAAAAA-TTTATGAA
34699683 AACATAGGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.34
Consensus pattern (20 bp):
CACTTAGAAAAATTTATGAA
Found at i:34700624 original size:43 final size:43
Alignment explanation
Indices: 34700508--34700627 Score: 143
Period size: 43 Copynumber: 2.8 Consensus size: 43
34700498 ATATATCGAT
* * * * *
34700508 GCCACTGTCCCAGACAGGGTCTTACACGAAATCAATTAACAAT
1 GCCAATGTCCCAGACATGGTCTTACATGTAATCAATTAACAAA
* * *
34700551 GTCAAAGTCCCAGACATGGTCTTACATGTAATC-TTTATACAAA
1 GCCAATGTCCCAGACATGGTCTTACATGTAATCAATTA-ACAAA
*
34700594 GCCAATGTCCCAGACATGGTCTTACGTGTAATCA
1 GCCAATGTCCCAGACATGGTCTTACATGTAATCA
34700628 CATCTCAATA
Statistics
Matches: 64, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
42 3 0.05
43 61 0.95
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.26
Consensus pattern (43 bp):
GCCAATGTCCCAGACATGGTCTTACATGTAATCAATTAACAAA
Found at i:34702573 original size:43 final size:43
Alignment explanation
Indices: 34702438--34702608 Score: 168
Period size: 43 Copynumber: 4.0 Consensus size: 43
34702428 ACATAAGGTC
* * * *
34702438 ATACAATGCC-ATATCCCAGATATGGGCTTACATGTTATCA-T
1 ATACAATGCCAATGTCCCAGATATGGTCTTACATGTAATCACA
* * * * * *
34702479 ATATCGATGCCACTGTCCCAAGATAGGGTCTTACACGAAATC-GA
1 ATA-CAATGCCAATGTCCC-AGATATGGTCTTACATGTAATCACA
* *
34702523 TTAACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
1 AT-ACAATGCCAATGTCCCAGATATGGTCTTACATGTAATCACA
* *
34702567 ATACAATGCCAATTTCCCAAATATGGTCTTACATGTAATCAC
1 ATACAATGCCAATGTCCCAGATATGGTCTTACATGTAATCAC
34702609 TACTCGATAA
Statistics
Matches: 103, Mismatches: 21, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
41 3 0.03
42 6 0.06
43 60 0.58
44 33 0.32
45 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (43 bp):
ATACAATGCCAATGTCCCAGATATGGTCTTACATGTAATCACA
Found at i:34702585 original size:87 final size:85
Alignment explanation
Indices: 34702440--34702599 Score: 205
Period size: 87 Copynumber: 1.9 Consensus size: 85
34702430 ATAAGGTCAT
* * * * *
34702440 ACAATGCCATATCCCAGATATGGGCTTACATGTTATCATATATCGATGCCACTGTCCCAAGATAG
1 ACAATGCCATATCCCAGACATGGGCTTACATGTAATCAAATATCAATGCCAATGTCCCAA-ATAG
34702505 GGTCTTACACGAAATCGATTA
65 GGTCTTACACGAAATCGATTA
* * *
34702526 ACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAATA-CAATGCCAATTTCCCAAATA
1 ACAATGCC-ATATCCCAGACATGGGCTTACATGTAATCA-AATATCAATGCCAATGTCCCAAATA
*
34702590 TGGTCTTACA
64 GGGTCTTACA
34702600 TGTAATCACT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
86 20 0.32
87 40 0.63
88 3 0.05
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (85 bp):
ACAATGCCATATCCCAGACATGGGCTTACATGTAATCAAATATCAATGCCAATGTCCCAAATAGG
GTCTTACACGAAATCGATTA
Found at i:34703150 original size:29 final size:30
Alignment explanation
Indices: 34703084--34703154 Score: 69
Period size: 29 Copynumber: 2.4 Consensus size: 30
34703074 CCATATTTTT
* *
34703084 CATTTATTTCACAATTTAACCCTTCAATTTA
1 CATTT-TTTCTCAATTTAACCCTTCAATTGA
*
34703115 CA-CTTTTCTCAATTTAATCCC-T-AATTGA
1 CATTTTTTCTCAATTTAA-CCCTTCAATTGA
34703143 CATTTTTT-TCAA
1 CATTTTTTCTCAA
34703155 AAATCACTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
28 11 0.32
29 17 0.50
30 4 0.12
31 2 0.06
ACGTcount: A:0.30, C:0.23, G:0.01, T:0.46
Consensus pattern (30 bp):
CATTTTTTCTCAATTTAACCCTTCAATTGA
Found at i:34703154 original size:28 final size:29
Alignment explanation
Indices: 34703090--34703154 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 29
34703080 TTTTCATTTA
* *
34703090 TTTCACAATTTAACCCTTCAATTTACACT
1 TTTCTCAATTTAACCCTTCAATTGACACT
*
34703119 TTTCTCAATTTAATCCC-T-AATTGACATT
1 TTTCTCAATTTAA-CCCTTCAATTGACACT
*
34703147 TTTTTCAA
1 TTTCTCAA
34703155 AAATCACTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
28 15 0.48
29 13 0.42
30 3 0.10
ACGTcount: A:0.29, C:0.23, G:0.02, T:0.46
Consensus pattern (29 bp):
TTTCTCAATTTAACCCTTCAATTGACACT
Found at i:34706487 original size:13 final size:13
Alignment explanation
Indices: 34706469--34706500 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
34706459 AGTGTGTGAC
34706469 ACACGGTCATGAT
1 ACACGGTCATGAT
34706482 ACACGGTCATGAT
1 ACACGGTCATGAT
34706495 ACACGG
1 ACACGG
34706501 CCGTGTGTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.31, C:0.25, G:0.25, T:0.19
Consensus pattern (13 bp):
ACACGGTCATGAT
Found at i:34707977 original size:46 final size:46
Alignment explanation
Indices: 34707871--34708033 Score: 163
Period size: 46 Copynumber: 3.5 Consensus size: 46
34707861 TATGGCCTAT
* * * *
34707871 TGTAAGCTAGTGTAAGACCACGTCTGGGACATGGCATTAGCATTAAGA
1 TGTAAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAACATCAAGA
* *
34707919 TG-AGAGCTAGTGTAAGACATGTCTGGGACATGCATCAACCTCGAGA
1 TGTA-AGCTAGTGTAAGACATGTCTGGGACATGCATCAACATCAAGA
* **
34707965 TGTAAGCTAGTGTAAGACATGTTTGGGACATGCATCGGC-TACAAGA
1 TGTAAGCTAGTGTAAGACATGTCTGGGACATGCATCAACAT-CAAGA
*
34708011 TG--AGCCAGTGTAAGACGATGTCT
1 TGTAAGCTAGTGTAAGAC-ATGTCT
34708034 AAGACATGGC
Statistics
Matches: 99, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
44 13 0.13
45 6 0.06
46 50 0.51
47 15 0.15
48 15 0.15
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (46 bp):
TGTAAGCTAGTGTAAGACATGTCTGGGACATGCATCAACATCAAGA
Found at i:34708193 original size:30 final size:30
Alignment explanation
Indices: 34708157--34708219 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
34708147 GTGACGTGAG
34708157 TAATACAAGTACCTATTCGTTATATATATA
1 TAATACAAGTACCTATTCGTTATATATATA
*
34708187 TAATACAAGTACCTATTTGTTATATATATA
1 TAATACAAGTACCTATTCGTTATATATATA
34708217 TAA
1 TAA
34708220 GATGAGAGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.41, C:0.11, G:0.06, T:0.41
Consensus pattern (30 bp):
TAATACAAGTACCTATTCGTTATATATATA
Found at i:34709246 original size:21 final size:22
Alignment explanation
Indices: 34709207--34709247 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
34709197 TCTAATCGGT
*
34709207 CACACGGGTGTGTTGCCCCTTC
1 CACACGGGCGTGTTGCCCCTTC
34709229 CACACGGGCGTG-TGCCCCT
1 CACACGGGCGTGTTGCCCCT
34709248 GTGTCTAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.10, C:0.39, G:0.29, T:0.22
Consensus pattern (22 bp):
CACACGGGCGTGTTGCCCCTTC
Found at i:34710413 original size:21 final size:19
Alignment explanation
Indices: 34710390--34710452 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 19
34710380 AAAATTACAA
34710390 AAAAATTCAAAATAATTTT
1 AAAAATTCAAAATAATTTT
* *
34710409 CAAAATTTCGAAATAATTTTT
1 -AAAAATTCAAAATAA-TTTT
*
34710430 AAAAATTTAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
34710449 AAAA
1 AAAA
34710453 GTTTTTCTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
18 3 0.08
19 6 0.17
20 23 0.64
21 4 0.11
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.38
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:34710442 original size:20 final size:20
Alignment explanation
Indices: 34710390--34710452 Score: 67
Period size: 19 Copynumber: 3.2 Consensus size: 20
34710380 AAAATTACAA
*
34710390 AAAAATTCAAAATAA-TTTT
1 AAAAATTTAAAATAATTTTT
* *
34710409 CAAAATTTCGAAATAATTTTT
1 AAAAATTT-AAAATAATTTTT
*
34710430 AAAAATTTAAAAT-ATTTAT
1 AAAAATTTAAAATAATTTTT
34710449 AAAA
1 AAAA
34710453 GTTTTTCTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 15 0.42
20 10 0.28
21 11 0.31
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.38
Consensus pattern (20 bp):
AAAAATTTAAAATAATTTTT
Found at i:34721606 original size:29 final size:29
Alignment explanation
Indices: 34721573--34721703 Score: 165
Period size: 29 Copynumber: 4.5 Consensus size: 29
34721563 GTGACGAGAT
*
34721573 TGGCACTAAGTGTGCATGCTGAAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
34721602 TGGCACTAAGTGTGCATACTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
34721631 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
34721660 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
34721689 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
34721704 GGGTTTAAAA
Statistics
Matches: 88, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
29 87 0.99
30 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:34721760 original size:28 final size:28
Alignment explanation
Indices: 34721691--34721791 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
34721681 GAAGGGTATG
* * * *
34721691 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
34721721 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
34721749 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
34721778 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
34721792 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:34729535 original size:29 final size:29
Alignment explanation
Indices: 34729502--34729632 Score: 174
Period size: 29 Copynumber: 4.5 Consensus size: 29
34729492 GTGACGAGAT
*
34729502 TGGCACTAAGTGTGCATGCTGAAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
34729531 TGGCACTAAGTGTGCATACTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
34729560 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* * * ***
34729589 CGGCACTAGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
34729618 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
34729633 GGGTTTAAAA
Statistics
Matches: 90, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
29 89 0.99
30 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:34729689 original size:28 final size:28
Alignment explanation
Indices: 34729620--34729720 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
34729610 GAAGGGTATG
* * * *
34729620 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
34729650 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
34729678 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
34729707 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
34729721 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:34737166 original size:31 final size:31
Alignment explanation
Indices: 34737131--34737194 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
34737121 CCTTTTCATA
34737131 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
34737162 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
34737193 TT
1 TT
34737195 ACTGTAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:34737462 original size:23 final size:23
Alignment explanation
Indices: 34737387--34737503 Score: 173
Period size: 23 Copynumber: 5.0 Consensus size: 23
34737377 GCTTTATCAT
*
34737387 ATAACTGGAGGCCTAA-CCTCTTTGA
1 ATAACTGG-GGCATAAGCC-CTTT-A
*
34737412 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCC-TTTA
34737436 ATAACTGGGGCATAAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTA
34737459 ATAACTGGGGCATAAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTA
34737482 ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTT
34737504 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
23 49 0.56
24 25 0.29
25 13 0.15
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.26
Consensus pattern (23 bp):
ATAACTGGGGCATAAGCCCTTTA
Found at i:34737580 original size:20 final size:20
Alignment explanation
Indices: 34737555--34737593 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
34737545 TATGATTACA
34737555 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATG
34737575 TCATGTGCATATCATACAT
1 TCATGTGCATATCATACAT
34737594 ACCATGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATG
Found at i:34737599 original size:20 final size:20
Alignment explanation
Indices: 34737556--34737600 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
34737546 ATGATTACAT
**
34737556 CATGTGCATATCATACATGT
1 CATGTGCATATCATACATAC
34737576 CATGTGCATATCATACATAC
1 CATGTGCATATCATACATAC
34737596 CATGT
1 CATGT
34737601 TTATCAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.33
Consensus pattern (20 bp):
CATGTGCATATCATACATAC
Found at i:34744851 original size:27 final size:26
Alignment explanation
Indices: 34744795--34744851 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
34744785 CAACCTTAAC
* * *
34744795 CCTAGGGGTATATCAGTAATTTTGCT
1 CCTAGGGGTAAATCAGTAATTTTCCA
* *
34744821 CCTAGGGTTAAATCTGTAAATTTTCCA
1 CCTAGGGGTAAATCAGT-AATTTTCCA
34744848 CCTA
1 CCTA
34744852 TAAAGGTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTCCA
Found at i:34749353 original size:2 final size:2
Alignment explanation
Indices: 34749346--34749373 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
34749336 GCTCTTGCAC
34749346 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34749374 GTTTGCACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34750193 original size:40 final size:40
Alignment explanation
Indices: 34750079--34750222 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
34750069 TACTCGAATG
*
34750079 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
34750120 ACATCCGGACTAAGAT--CGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
34750159 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
*
34750199 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
34750223 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
38 1 0.01
39 19 0.21
40 58 0.64
41 12 0.13
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:34758194 original size:40 final size:40
Alignment explanation
Indices: 34758100--34758244 Score: 202
Period size: 40 Copynumber: 3.6 Consensus size: 40
34758090 TACTCGAATG
*
34758100 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
34758141 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
34758181 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
*
34758221 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
34758245 CTTGTGCGAG
Statistics
Matches: 93, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 63 0.68
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:34769003 original size:27 final size:28
Alignment explanation
Indices: 34768973--34769029 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
34768963 ATTTTTGGTG
34768973 AAATGAGCTATTTG-GG-CTAATTTGTGA
1 AAATGAGCT-TTTGAGGACTAATTTGTGA
*
34769000 AAATGAGGTTTTGAAGGACTAATTTGTGA
1 AAATGAGCTTTTG-AGGACTAATTTGTGA
34769029 A
1 A
34769030 TTAAACATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 4 0.15
27 8 0.31
28 2 0.08
29 12 0.46
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.35
Consensus pattern (28 bp):
AAATGAGCTTTTGAGGACTAATTTGTGA
Found at i:34780564 original size:30 final size:30
Alignment explanation
Indices: 34780530--34780590 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
34780520 TTAAGTCACG
34780530 ATACATTTTACTCCCTCCAGGATGCATAGC
1 ATACATTTTACTCCCTCCAGGATGCATAGC
34780560 ATACATTTTACTCCCTCCAGGATGCATAGC
1 ATACATTTTACTCCCTCCAGGATGCATAGC
34780590 A
1 A
34780591 CACAGACCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.28, C:0.30, G:0.13, T:0.30
Consensus pattern (30 bp):
ATACATTTTACTCCCTCCAGGATGCATAGC
Found at i:34782073 original size:47 final size:48
Alignment explanation
Indices: 34781973--34782191 Score: 160
Period size: 47 Copynumber: 4.6 Consensus size: 48
34781963 ATGTGAGTAT
* * * * *
34781973 TGAGATCCCGTATAAGACCATATCTAGGATATGGCAAT-GGCATCGAGA
1 TGAGATCCCATATAAGACCATATCTGGGATATGGC-ATCGACATCAATA
*
34782021 TGAGATCCCATCTAAGACCATAT-TGGGATATGGCATCGACATCAATA
1 TGAGATCCCATATAAGACCATATCTGGGATATGGCATCGACATCAATA
* *** ** * *
34782068 AGAGATCTTGTATAAGACCACGTCT-GGACATGGCATC-AGCATCAGTA
1 TGAGATCCCATATAAGACCATATCTGGGATATGGCATCGA-CATCAATA
* * * * *
34782115 TGAGATCCCATGTAAGACCAAATCTGGGATATAGCATTTG-CATCGATA
1 TGAGATCCCATATAAGACCATATCTGGGATATGGCA-TCGACATCAATA
* * * * *
34782163 TGAGGTCCCGTACAAGTCCATGTCTGGGA
1 TGAGATCCCATATAAGACCATATCTGGGA
34782192 CATTACATCT
Statistics
Matches: 131, Mismatches: 34, Indels: 12
0.74 0.19 0.07
Matches are distributed among these distances:
46 3 0.02
47 69 0.53
48 58 0.44
49 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.25
Consensus pattern (48 bp):
TGAGATCCCATATAAGACCATATCTGGGATATGGCATCGACATCAATA
Found at i:34788854 original size:48 final size:48
Alignment explanation
Indices: 34788790--34789067 Score: 296
Period size: 48 Copynumber: 5.8 Consensus size: 48
34788780 ATGTGAGTAT
* * * * * *
34788790 TGAGATCTCGTATAAGATCATATCTGGAATATGGAATCAGCATCGAAA
1 TGAGATCCCATATAAGACCATATCTGGGATATGGCATCGGCATCGAAA
* *
34788838 TGAGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATAA
1 TGAGATCCCATATAAGACCATATCTGGGATATGGCATCGGCATCGA-AA
* *
34788887 -GAGATCTCATATAAGACCATGTCTGGGATATGGCATCGGCATCGATAA
1 TGAGATCCCATATAAGACCATATCTGGGATATGGCATCGGCATCGA-AA
* * *
34788935 -GAGATCCCATATAAGACCATGTCTGGGACATGGTATCGGCATC-AATA
1 TGAGATCCCATATAAGACCATATCTGGGATATGGCATCGGCATCGAA-A
* * * *
34788982 TGAGATCCCATGTAAGACCATATATGGGATATGGCATTGGCATC-AATG
1 TGAGATCCCATATAAGACCATATCTGGGATATGGCATCGGCATCGAA-A
* * *
34789030 TGAGATCCCGTATAAGATCATGA-CTGGGACATGGCATC
1 TGAGATCCCATATAAGACCAT-ATCTGGGATATGGCATC
34789068 TGAACCGTTA
Statistics
Matches: 198, Mismatches: 28, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
46 1 0.01
47 2 0.01
48 192 0.97
49 3 0.02
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (48 bp):
TGAGATCCCATATAAGACCATATCTGGGATATGGCATCGGCATCGAAA
Found at i:34788929 original size:96 final size:96
Alignment explanation
Indices: 34788791--34789067 Score: 326
Period size: 96 Copynumber: 2.9 Consensus size: 96
34788781 TGTGAGTATT
* * * * * *
34788791 GAGATCTCGTATAAGATCATATCTGGAATATGGAATCAGCATCGAAATGAGATCCCATGTAAGAC
1 GAGATCTCATATAAGACCATATCTGGGATATGGCATCGGCATCGAAATGAGATCCCATATAAGAC
* * *
34788856 CATATCTGGGATATGGCATTGGCATCGATAA
66 CATATCTGGGACATGGCATCGGCATCAATAA
*
34788887 GAGATCTCATATAAGACCATGTCTGGGATATGGCATCGGCATCGATAA-GAGATCCCATATAAGA
1 GAGATCTCATATAAGACCATATCTGGGATATGGCATCGGCATCGA-AATGAGATCCCATATAAGA
* * *
34788951 CCATGTCTGGGACATGGTATCGGCATCAATAT
65 CCATATCTGGGACATGGCATCGGCATCAATAA
* * * * * *
34788983 GAGATCCCATGTAAGACCATATATGGGATATGGCATTGGCATC-AATGTGAGATCCCGTATAAGA
1 GAGATCTCATATAAGACCATATCTGGGATATGGCATCGGCATCGAA-ATGAGATCCCATATAAGA
*
34789047 TCATGA-CTGGGACATGGCATC
65 CCAT-ATCTGGGACATGGCATC
34789068 TGAACCGTTA
Statistics
Matches: 154, Mismatches: 23, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
94 1 0.01
95 1 0.01
96 150 0.97
97 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.25
Consensus pattern (96 bp):
GAGATCTCATATAAGACCATATCTGGGATATGGCATCGGCATCGAAATGAGATCCCATATAAGAC
CATATCTGGGACATGGCATCGGCATCAATAA
Found at i:34789057 original size:144 final size:144
Alignment explanation
Indices: 34788791--34789067 Score: 385
Period size: 144 Copynumber: 1.9 Consensus size: 144
34788781 TGTGAGTATT
* * * *
34788791 GAGATCTCGTATAAGATCATATCTGGAATATGGAATCAGCATCGAAATGAGATCCCATGTAAGAC
1 GAGATCCCATATAAGACCATATCTGGAACATGGAATCAGCATCGAAATGAGATCCCATGTAAGAC
* * * * *
34788856 CATATCTGGGATATGGCATTGGCATCGATAAGAGATCTCATATAAGACCATGTCTGGGATATGGC
66 CATATATGGGATATGGCATTGGCATCAATAAGAGATCCCATATAAGACCATGACTGGGACATGGC
34788921 ATCGGCATCGATAA
131 ATCGGCATCGATAA
* * * *
34788935 GAGATCCCATATAAGACCATGTCTGGGACATGGTATCGGCATC-AATATGAGATCCCATGTAAGA
1 GAGATCCCATATAAGACCATATCTGGAACATGGAATCAGCATCGAA-ATGAGATCCCATGTAAGA
** * *
34788999 CCATATATGGGATATGGCATTGGCATCAATGTGAGATCCCGTATAAGATCATGACTGGGACATGG
65 CCATATATGGGATATGGCATTGGCATCAATAAGAGATCCCATATAAGACCATGACTGGGACATGG
34789064 CATC
130 CATC
34789068 TGAACCGTTA
Statistics
Matches: 115, Mismatches: 17, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
143 2 0.02
144 113 0.98
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.25
Consensus pattern (144 bp):
GAGATCCCATATAAGACCATATCTGGAACATGGAATCAGCATCGAAATGAGATCCCATGTAAGAC
CATATATGGGATATGGCATTGGCATCAATAAGAGATCCCATATAAGACCATGACTGGGACATGGC
ATCGGCATCGATAA
Found at i:34789080 original size:96 final size:96
Alignment explanation
Indices: 34788790--34789099 Score: 275
Period size: 96 Copynumber: 3.2 Consensus size: 96
34788780 ATGTGAGTAT
* * * * * * * * *
34788790 TGAGATCTCGTATAAGATCATATCTGGAATATGGAATCAGCATCGAA-ATGAGATCCCATGTAAG
1 TGAGATCTCATGTAAGACCATATATGGGATATGGCATCGGCATC-AATAAGAGATCCCATATAAG
* * * * *
34788854 ACCAT-ATCTGGGATATGGCATTGGCATCGATA
65 ACCATGA-CTGGGACATGGCATCGGAACCAATA
* * * * *
34788886 AGAGATCTCATATAAGACCATGTCTGGGATATGGCATCGGCATCGATAAGAGATCCCATATAAGA
1 TGAGATCTCATGTAAGACCATATATGGGATATGGCATCGGCATCAATAAGAGATCCCATATAAGA
* * * *
34788951 CCATGTCTGGGACATGGTATCGGCATCAATA
66 CCATGACTGGGACATGGCATCGGAACCAATA
* * ** *
34788982 TGAGATCCCATGTAAGACCATATATGGGATATGGCATTGGCATCAATGTGAGATCCCGTATAAGA
1 TGAGATCTCATGTAAGACCATATATGGGATATGGCATCGGCATCAATAAGAGATCCCATATAAGA
* * **
34789047 TCATGACTGGGACATGGCATCTGAACCGTTA
66 CCATGACTGGGACATGGCATCGGAACCAATA
*
34789078 TGAGA-CTTTATGTAAGACCATA
1 TGAGATC-TCATGTAAGACCATA
34789100 GCTGGGTTGT
Statistics
Matches: 176, Mismatches: 35, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
95 2 0.01
96 174 0.99
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (96 bp):
TGAGATCTCATGTAAGACCATATATGGGATATGGCATCGGCATCAATAAGAGATCCCATATAAGA
CCATGACTGGGACATGGCATCGGAACCAATA
Found at i:34789094 original size:144 final size:143
Alignment explanation
Indices: 34788791--34789164 Score: 366
Period size: 144 Copynumber: 2.6 Consensus size: 143
34788781 TGTGAGTATT
* * * * * * *
34788791 GAGATCTCGTATAAGATCATATCTGGAATATGGAATCAGCATCGAA-ATGAGATCCCATGTAAGA
1 GAGATCCCATATAAGACCATGTCTGGGA-ATGGTATCGGCATC-AATATGAGATCCCATGTAAGA
* * * *
34788855 CCATATCTGGGATATGGCATTGGCATCGATAAGAGATCTCATATAAGACCATGTCTGGGATATGG
64 CCATATCTGGGATATGGCATTGGCATCAATAAGAGATCCCATATAAGACCATGACTGGGACATGG
* *
34788920 CATCGGCATCGATAA
129 CATCGGAACCGATAA
34788935 GAGATCCCATATAAGACCATGTCTGGGACATGGTATCGGCATCAATATGAGATCCCATGTAAGAC
1 GAGATCCCATATAAGACCATGTCTGGGA-ATGGTATCGGCATCAATATGAGATCCCATGTAAGAC
* ** * *
34789000 CATATATGGGATATGGCATTGGCATCAATGTGAGATCCCGTATAAGATCATGACTGGGACATGGC
65 CATATCTGGGATATGGCATTGGCATCAATAAGAGATCCCATATAAGACCATGACTGGGACATGGC
* * *
34789065 ATCTGAACCGTTAT
130 ATCGGAACCGATAA
** * * ** *
34789079 GAGA-CTTTATGTAAGACCATAG-CTGGG--TTGT-T-GGCATTGATGTGAGATCCCATGTAAGA
1 GAGATC-CCATATAAGACCAT-GTCTGGGAATGGTATCGGCATCAATATGAGATCCCATGTAAGA
* * * *
34789138 CCACATCTGGGACATAGCATTAGCATC
64 CCATATCTGGGATATGGCATTGGCATC
34789165 TTTTCATGTG
Statistics
Matches: 193, Mismatches: 34, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
139 46 0.24
140 1 0.01
141 3 0.02
143 3 0.02
144 139 0.72
145 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.26
Consensus pattern (143 bp):
GAGATCCCATATAAGACCATGTCTGGGAATGGTATCGGCATCAATATGAGATCCCATGTAAGACC
ATATCTGGGATATGGCATTGGCATCAATAAGAGATCCCATATAAGACCATGACTGGGACATGGCA
TCGGAACCGATAA
Found at i:34794112 original size:43 final size:43
Alignment explanation
Indices: 34794031--34794120 Score: 126
Period size: 43 Copynumber: 2.1 Consensus size: 43
34794021 CTATGGTCAC
34794031 ACACGAAATCAAATAACGATGCCAATGTCCCAAACATGGTCTT
1 ACACGAAATCAAATAACGATGCCAATGTCCCAAACATGGTCTT
* * * ***
34794074 ACACGTAATCACATAATGATGCCAATGTCCCGGGCATGGTCTT
1 ACACGAAATCAAATAACGATGCCAATGTCCCAAACATGGTCTT
34794117 ACAC
1 ACAC
34794121 ATATTAACAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (43 bp):
ACACGAAATCAAATAACGATGCCAATGTCCCAAACATGGTCTT
Found at i:34801354 original size:3 final size:3
Alignment explanation
Indices: 34801346--34801425 Score: 160
Period size: 3 Copynumber: 26.7 Consensus size: 3
34801336 TTAAGTCTTA
34801346 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
34801394 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
34801426 GTCTAATGTG
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 77 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:34804284 original size:27 final size:27
Alignment explanation
Indices: 34804253--34804315 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
34804243 GCCCTAAAAT
*
34804253 AGGTAAAATAACCATAATACCCCTGTA
1 AGGTAAAATAACCATAATACACCTGTA
* **
34804280 AGGTAAAATGACTGTAATACACCTGTA
1 AGGTAAAATAACCATAATACACCTGTA
*
34804307 TGGTAAAAT
1 AGGTAAAAT
34804316 GATGATTTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.25
Consensus pattern (27 bp):
AGGTAAAATAACCATAATACACCTGTA
Found at i:34807620 original size:43 final size:42
Alignment explanation
Indices: 34807527--34807692 Score: 131
Period size: 43 Copynumber: 3.9 Consensus size: 42
34807517 TACTGAGATG
*
34807527 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGAATTT
1 TGATTACGTGTAAGACCATGTCTGGGACATTGGCATTGAA-TT
*
34807570 TGATTACGTGTAAGACCATGTCTGGGATATTGGTATCATT-AA-T
1 TGATTACGTGTAAGACCATGTCTGGGACATTGG---CATTGAATT
* * * * * * *
34807613 TGGTTACGTGTAAGACCCTATCTAGGACAGTGGCATCGATATG
1 TGATTACGTGTAAGACCATGTCTGGGACATTGGCATTGA-ATT
* * * * * *
34807656 TGATAACATGTAGGACCATATATGGGATA-TGGCATTG
1 TGATTACGTGTAAGACCATGTCTGGGACATTGGCATTG
34807693 TACGAGCTAT
Statistics
Matches: 98, Mismatches: 19, Indels: 13
0.75 0.15 0.10
Matches are distributed among these distances:
40 3 0.03
41 1 0.01
42 8 0.08
43 80 0.82
45 2 0.02
46 4 0.04
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (42 bp):
TGATTACGTGTAAGACCATGTCTGGGACATTGGCATTGAATT
Found at i:34816886 original size:23 final size:23
Alignment explanation
Indices: 34816857--34816910 Score: 108
Period size: 23 Copynumber: 2.3 Consensus size: 23
34816847 ATTATGTAGA
34816857 ACCAAAATACTTCAATTTAAAAT
1 ACCAAAATACTTCAATTTAAAAT
34816880 ACCAAAATACTTCAATTTAAAAT
1 ACCAAAATACTTCAATTTAAAAT
34816903 ACCAAAAT
1 ACCAAAAT
34816911 CGATAAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.28
Consensus pattern (23 bp):
ACCAAAATACTTCAATTTAAAAT
Found at i:34817742 original size:2 final size:2
Alignment explanation
Indices: 34817730--34817759 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
34817720 CATTTGTTTA
*
34817730 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34817760 TACATTTCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:34821010 original size:49 final size:49
Alignment explanation
Indices: 34820951--34821419 Score: 414
Period size: 49 Copynumber: 9.2 Consensus size: 49
34820941 ATGAGATATA
* *
34820951 TATATATGTGATAAGGCCTAATGGCAGATGTGATGAATGTGAAAGTGTG
1 TATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
34821000 TATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
34821049 TATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
34821098 TATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* ** * * ** *
34821147 TATATATGTGATAAAAAGTGTGTATATATG-TGATAAG-GCCGAATG-GCCAATGTGATG
1 TATATGTGTGAT---AAG-GCCTA-AT-GGCCGAT--GTGATGAATGTG--AAAGTG-TG
* * * ** * * *
34821204 AATGTGAAAGTGTGTATATGTGTGATAA-GGCCTAATGGCCGATG--TGATGAATGTGAAAGTTT
1 --TAT--ATGTGTG-ATAAG-G-CCTAATGGCC-GAT-G-TGATGAATG-TGAAAGT----G--T
34821266 G
49 G
*
34821267 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
34821316 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-GTG
1 TATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* * * *
34821363 TATATATGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
34821412 TATATGTG
1 TATATGTG
34821420 ATAGGGCCGA
Statistics
Matches: 351, Mismatches: 36, Indels: 66
0.77 0.08 0.15
Matches are distributed among these distances:
47 42 0.12
48 6 0.02
49 208 0.59
51 1 0.00
52 3 0.01
53 3 0.01
54 10 0.03
55 14 0.04
56 13 0.04
57 8 0.02
58 12 0.03
59 14 0.04
60 5 0.01
61 7 0.02
62 3 0.01
63 2 0.01
ACGTcount: A:0.31, C:0.07, G:0.30, T:0.31
Consensus pattern (49 bp):
TATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
Found at i:34821120 original size:98 final size:98
Alignment explanation
Indices: 34820951--34821471 Score: 522
Period size: 98 Copynumber: 5.2 Consensus size: 98
34820941 ATGAGATATA
*
34820951 TATATATGTGATAAGGCCTAATGGCAGATGTGATGAATGTGAAAGTGTGTATATGTGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGTGATAAGG
34821016 CCTAATGGCCGATGTGATGAATGTGAAAGTGTG
66 CCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
34821049 TATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGTGATAAGG
34821114 CCTAATGGCCGATGTGATGAATGTGAAAGTGTG
66 CCTAATGGCCGATGTGATGAATGTGAAAGTGTG
** * * *
34821147 TATATATGTGATAAAAAGTGTGTATATATG-TGATAAGGCCGAATGGCCAATGTGATGAA-TGTG
1 TATATATGTGAT---AAG-GCCTA-AT-GGCCGAT---G-TG-AT-G--AATGTGA--AAGTGTG
* * ** *
34821210 -A-AAGTGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTTTG
50 TATATGTGTG-ATAAG-G-CCTAA-------TGGCCGATGTGATGAATGTGAAAGTGTG
*
34821267 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGTGATAAGG
34821332 CCTAATGGCCGATGTGATGAATGTG-AAG-GTG
66 CCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* * * *
34821363 TATATATGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAAA--GTGTATATATGTGATAGGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGTGATAAGG
* * * * * *
34821426 CCGAGTGGCCAACGTGATGGATGTGGAA--GTG
66 CCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
34821457 TATAAATGTGATAAG
1 TATATATGTGATAAG
34821472 TCCCGAAGGG
Statistics
Matches: 359, Mismatches: 33, Indels: 66
0.78 0.07 0.14
Matches are distributed among these distances:
94 55 0.15
95 2 0.01
96 44 0.12
97 3 0.01
98 127 0.35
101 3 0.01
102 3 0.01
103 5 0.01
104 1 0.00
105 5 0.01
106 6 0.02
107 13 0.04
108 7 0.02
109 2 0.01
110 8 0.02
111 13 0.04
112 6 0.02
113 5 0.01
114 1 0.00
115 5 0.01
116 3 0.01
117 3 0.01
120 39 0.11
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.30
Consensus pattern (98 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGTGATAAGG
CCTAATGGCCGATGTGATGAATGTGAAAGTGTG
Found at i:34821167 original size:22 final size:22
Alignment explanation
Indices: 34821139--34821182 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
34821129 GATGAATGTG
34821139 AAAGTGTGTATATATGTGATAA
1 AAAGTGTGTATATATGTGATAA
34821161 AAAGTGTGTATATATGTGATAA
1 AAAGTGTGTATATATGTGATAA
34821183 GGCCGAATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.23, T:0.36
Consensus pattern (22 bp):
AAAGTGTGTATATATGTGATAA
Found at i:34821167 original size:71 final size:71
Alignment explanation
Indices: 34821090--34821231 Score: 248
Period size: 71 Copynumber: 2.0 Consensus size: 71
34821080 GATGAATGTG
* * *
34821090 AAAGTGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATG
1 AAAGTGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATATG
34821155 TGATAA
66 TGATAA
*
34821161 AAAGTGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTG
1 AAAGTGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATATG
34821226 TGATAA
66 TGATAA
34821232 GGCCTAATGG
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 67 1.00
ACGTcount: A:0.33, C:0.06, G:0.30, T:0.32
Consensus pattern (71 bp):
AAAGTGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATATG
TGATAA
Found at i:34821235 original size:169 final size:169
Alignment explanation
Indices: 34820992--34821329 Score: 631
Period size: 169 Copynumber: 2.0 Consensus size: 169
34820982 GATGAATGTG
* * *
34820992 AAAGTGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTG
1 AAAGTGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTG
*
34821057 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGTGATAAGGCCTAATGG
66 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGG
34821122 CCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAA
131 CCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAA
34821161 AAAGTGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTG
1 AAAGTGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTG
*
34821226 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTTTGTATATATGTGATAAGGCCTAATGG
66 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGG
34821291 CCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAA
131 CCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAA
34821330 GGCCTAATGG
Statistics
Matches: 164, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
169 164 1.00
ACGTcount: A:0.31, C:0.07, G:0.30, T:0.31
Consensus pattern (169 bp):
AAAGTGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTG
TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGG
CCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAA
Found at i:34821255 original size:120 final size:120
Alignment explanation
Indices: 34821041--34821280 Score: 444
Period size: 120 Copynumber: 2.0 Consensus size: 120
34821031 GATGAATGTG
* * *
34821041 AAAGTGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTG
1 AAAGTGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTG
34821106 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAA
66 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAA
34821161 AAAGTGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTG
1 AAAGTGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTG
*
34821226 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTTTGTATATATGTGATAA
66 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAA
34821281 GGCCTAATGG
Statistics
Matches: 116, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 116 1.00
ACGTcount: A:0.32, C:0.07, G:0.30, T:0.32
Consensus pattern (120 bp):
AAAGTGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTG
TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAA
Found at i:34821329 original size:218 final size:216
Alignment explanation
Indices: 34820951--34821376 Score: 782
Period size: 218 Copynumber: 2.0 Consensus size: 216
34820941 ATGAGATATA
*
34820951 TATATATGTGATAAGGCCTAATGGCAGATGTGATGAATGTGAAAGTGTGTATATGTGTGATAAGG
1 TATATATGTGATAAGGCCGAATGGCAGATGTGATGAATGTGAAAGTGTGTATATGTGTGATAAGG
*
34821016 CCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGTGATAAGGCCTAATGGCCGATGTG
66 CCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
*
34821081 ATGAATGTGAAAGTGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
131 ATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-GT
34821146 GTATATATGTGATAAAAAGTGTG
194 GTATATATGTGATAAAAAGTGTG
34821169 TATATATGTGATAAGGCCGAATGGCCA-ATGTGATGAATGTGAAAGTGTGTATATGTGTGATAAG
1 TATATATGTGATAAGGCCGAATGG-CAGATGTGATGAATGTGAAAGTGTGTATATGTGTGATAAG
*
34821233 GCCTAATGGCCGATGTGATGAATGTGAAAGTTTGTATATATGTGATAAGGCCTAATGGCCGATGT
65 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGT
34821298 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
130 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
34821363 TATATATGTGATAA
195 TATATATGTGATAA
34821377 GGCCAAATGG
Statistics
Matches: 203, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
216 17 0.08
217 3 0.01
218 181 0.89
219 2 0.01
ACGTcount: A:0.31, C:0.07, G:0.31, T:0.31
Consensus pattern (216 bp):
TATATATGTGATAAGGCCGAATGGCAGATGTGATGAATGTGAAAGTGTGTATATGTGTGATAAGG
CCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
ATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGT
ATATATGTGATAAAAAGTGTG
Found at i:34821386 original size:47 final size:49
Alignment explanation
Indices: 34821161--34821471 Score: 454
Period size: 49 Copynumber: 6.5 Consensus size: 49
34821151 TATGTGATAA
*
34821161 AAAGTGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 AAAGTGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTG
* *
34821210 AAAGTGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTG
* *
34821259 AAAGTTTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTG
*
34821308 AAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTG
*
34821357 -AAG-GTGTATATATGTGATAAGGCCAAATGGCCAATGTGATGAATGTG
1 AAAGTGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTG
* * * * *
34821404 AAA--GTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTG
1 AAAGTGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTG
* *
34821451 GAA--GTGTATAAATGTGATAAG
1 AAAGTGTGTATATATGTGATAAG
34821472 TCCCGAAGGG
Statistics
Matches: 245, Mismatches: 16, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
47 99 0.40
48 5 0.02
49 141 0.58
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (49 bp):
AAAGTGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTG
Found at i:34825486 original size:25 final size:26
Alignment explanation
Indices: 34825416--34825556 Score: 87
Period size: 25 Copynumber: 5.6 Consensus size: 26
34825406 CCAGATGACA
*
34825416 CACCACAAAGGCTTTCTAGA-GAGTT
1 CACCACAAAGGCTTTCTAAAGGAGTT
* * * *
34825441 TACCGCAAAGGCATTCCAAAGGA-TT
1 CACCACAAAGGCTTTCTAAAGGAGTT
*
34825466 CACCACAAAGACTTTCTAAA-GAGTT
1 CACCACAAAGGCTTTCTAAAGGAGTT
* * * ***
34825491 CGCCAAAAAGGCCTTCCGGA-GAGTT
1 CACCACAAAGGCTTTCTAAAGGAGTT
* * *
34825516 CACCATAAAGGCTTT-TCGAA-CAGTT
1 CACCACAAAGGCTTTCT-AAAGGAGTT
*
34825541 CACCACAAAGACTTTC
1 CACCACAAAGGCTTTC
34825557 CTAAGAATCT
Statistics
Matches: 87, Mismatches: 25, Indels: 7
0.73 0.21 0.06
Matches are distributed among these distances:
24 2 0.02
25 83 0.95
26 2 0.02
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (26 bp):
CACCACAAAGGCTTTCTAAAGGAGTT
Found at i:34829544 original size:27 final size:27
Alignment explanation
Indices: 34829509--34829620 Score: 102
Period size: 27 Copynumber: 4.1 Consensus size: 27
34829499 AGCATGGCTG
*
34829509 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAACTGTGACAGAGCCA
* * *
34829535 CCAGATACAGATAACCGTGGCAGAACCA
1 CCAGA-ACAGATAACTGTGACAGAGCCA
* * *
34829563 CCAGAATAGATATA-TGTGGCAGAGACA
1 CCAGAACAGATA-ACTGTGACAGAGCCA
* * *
34829590 CCAGATCAGATAATTGTGACATAGCCA
1 CCAGAACAGATAACTGTGACAGAGCCA
34829617 CCAG
1 CCAG
34829621 GACACTTCCT
Statistics
Matches: 69, Mismatches: 13, Indels: 7
0.78 0.15 0.08
Matches are distributed among these distances:
26 6 0.09
27 48 0.70
28 15 0.22
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.16
Consensus pattern (27 bp):
CCAGAACAGATAACTGTGACAGAGCCA
Found at i:34829618 original size:54 final size:54
Alignment explanation
Indices: 34829509--34829620 Score: 136
Period size: 54 Copynumber: 2.1 Consensus size: 54
34829499 AGCATGGCTG
* *
34829509 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAACCGTGGCAGAACCA
1 CCAGAACAGATAATGTGACAGAGACACCAGATACAGATAACCGTGACAGAACCA
* * ** * *
34829563 CCAGAATAGATATATGTGGCAGAGACACCAGAT-CAGATAATTGTGACATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGACACCAGATACAGATAACCGTGACAGAACCA
34829617 CCAG
1 CCAG
34829621 GACACTTCCT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 31 0.63
55 18 0.37
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGACACCAGATACAGATAACCGTGACAGAACCA
Found at i:34831082 original size:24 final size:24
Alignment explanation
Indices: 34831050--34831123 Score: 121
Period size: 24 Copynumber: 3.1 Consensus size: 24
34831040 ACACAGTTCA
34831050 CCCTAATCAGCTCCTAAATCCTCT
1 CCCTAATCAGCTCCTAAATCCTCT
*
34831074 CCCTGATCAGCTCCTAAATCCTCT
1 CCCTAATCAGCTCCTAAATCCTCT
* *
34831098 CCCTTATCAGCTCCTAAATCTTCT
1 CCCTAATCAGCTCCTAAATCCTCT
34831122 CC
1 CC
34831124 AGACAGACTT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.22, C:0.42, G:0.05, T:0.31
Consensus pattern (24 bp):
CCCTAATCAGCTCCTAAATCCTCT
Found at i:34833394 original size:12 final size:12
Alignment explanation
Indices: 34833359--34833401 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
34833349 TTTGAATATT
* *
34833359 AATCTGAATCTA
1 AATCTAAATCTG
*
34833371 AATATAAATCTG
1 AATCTAAATCTG
34833383 AATCTAAATCTG
1 AATCTAAATCTG
*
34833395 TATCTAA
1 AATCTAA
34833402 CTATGTACAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.35
Consensus pattern (12 bp):
AATCTAAATCTG
Found at i:34833399 original size:18 final size:18
Alignment explanation
Indices: 34833353--34833391 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
34833343 CTGTAATTTG
*
34833353 AATATTAATCTGAATCTA
1 AATATAAATCTGAATCTA
34833371 AATATAAATCTGAATCTA
1 AATATAAATCTGAATCTA
34833389 AAT
1 AAT
34833392 CTGTATCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.36
Consensus pattern (18 bp):
AATATAAATCTGAATCTA
Found at i:34834773 original size:20 final size:20
Alignment explanation
Indices: 34834745--34834788 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
34834735 CCACACCAAA
*
34834745 GCACTGAAGTGCAAACAGTG
1 GCACCGAAGTGCAAACAGTG
* *
34834765 GCACCGAAGTGCGAATAGTG
1 GCACCGAAGTGCAAACAGTG
34834785 GCAC
1 GCAC
34834789 TAGAGTGCGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.23, G:0.32, T:0.14
Consensus pattern (20 bp):
GCACCGAAGTGCAAACAGTG
Found at i:34834890 original size:21 final size:22
Alignment explanation
Indices: 34834838--34834907 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 22
34834828 CCAAATTATG
* * *
34834838 AATCAATAGGCACCATAGTTCG
1 AATCAGTAGGCACCATAGTGCA
*
34834860 AATCAGTAGGCATCATAGTGCA
1 AATCAGTAGGCACCATAGTGCA
* *
34834882 AAT-AGTAGGCACCAAAGTGAA
1 AATCAGTAGGCACCATAGTGCA
34834903 AATCA
1 AATCA
34834908 TGTACAAGCA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
21 18 0.45
22 22 0.55
ACGTcount: A:0.41, C:0.19, G:0.20, T:0.20
Consensus pattern (22 bp):
AATCAGTAGGCACCATAGTGCA
Found at i:34836392 original size:11 final size:11
Alignment explanation
Indices: 34836376--34836402 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
34836366 GCATGATTGT
34836376 GTGAAAATTTC
1 GTGAAAATTTC
34836387 GTGAAAATTTC
1 GTGAAAATTTC
34836398 GTGAA
1 GTGAA
34836403 GAAATTCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.33
Consensus pattern (11 bp):
GTGAAAATTTC
Found at i:34837886 original size:28 final size:28
Alignment explanation
Indices: 34837855--34837938 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
34837845 AACTGTGATC
34837855 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
34837883 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
34837905 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
34837933 ACGTGT
1 ACGTGT
34837939 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:34837986 original size:26 final size:26
Alignment explanation
Indices: 34837908--34837988 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
34837898 TTAGGTCACG
34837908 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
* * * * *
34837934 CGTGTACCGGA-TAATTG--GTC-AC-G
1 TGTGTA--GTACTAAGTGCAGGCTACTA
34837957 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
34837983 TGTGTA
1 TGTGTA
34837989 CCGGATAATT
Statistics
Matches: 38, Mismatches: 10, Indels: 14
0.61 0.16 0.23
Matches are distributed among these distances:
21 2 0.05
22 5 0.13
23 5 0.13
24 4 0.11
25 4 0.11
26 11 0.29
27 5 0.13
28 2 0.05
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (26 bp):
TGTGTAGTACTAAGTGCAGGCTACTA
Found at i:34838032 original size:49 final size:49
Alignment explanation
Indices: 34837800--34838039 Score: 327
Period size: 49 Copynumber: 4.8 Consensus size: 49
34837790 TCTATTGTGA
* * *
34837800 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCTGAAAACTGT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAA-T-T
* * * * **
34837851 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
*
34837900 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
34837950 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
* * * *
34837999 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACC
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACC
34838040 AAATAGCTTT
Statistics
Matches: 170, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
49 86 0.51
50 45 0.26
51 39 0.23
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.30
Consensus pattern (49 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
Found at i:34840205 original size:24 final size:25
Alignment explanation
Indices: 34840178--34840229 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
34840168 GCCTAGCCTC
34840178 TTTTAATA-ACTGGGGCAAAGCCCT
1 TTTTAATAGACTGGGGCAAAGCCCT
**
34840202 TTTTGGTAGACTGGGGCAAAGCCCT
1 TTTTAATAGACTGGGGCAAAGCCCT
34840227 TTT
1 TTT
34840230 CGGTAAACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (25 bp):
TTTTAATAGACTGGGGCAAAGCCCT
Found at i:34840250 original size:24 final size:25
Alignment explanation
Indices: 34840185--34840253 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
34840175 CTCTTTTAAT
*
34840185 AACTGGGGCAAAGCCCTTTTTGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
34840210 GACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
34840235 AACTAGGGCAAA-CCCTTTT
1 AACTGGGGCAAAGCCCTTTT
34840254 AGCACTTCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
24 7 0.17
25 33 0.82
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:34840533 original size:27 final size:27
Alignment explanation
Indices: 34840500--34840804 Score: 331
Period size: 27 Copynumber: 11.3 Consensus size: 27
34840490 TTCTACCCTA
* * *
34840500 CAAGGGTATTTTAGTAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
34840527 CAGGGGTATTTTGGTAATTTTACAAAG
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
34840554 TAAGGGTATTTTGGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
34840581 CAAGGGTATTTTGGTACTTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
34840608 CAAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
34840635 TAGGGGTATTTTGGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
34840662 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
34840689 TAGGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *** *
34840716 CAGGGGTATTTTGGTAATTTTATTGAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* ** *
34840743 CGAGGGTATTTTGGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* ** ** *
34840770 CGAGGGTATTTCAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
34840797 CAAGGGTA
1 CAAGGGTA
34840805 AAACAGTAAT
Statistics
Matches: 243, Mismatches: 35, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 243 1.00
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:34840777 original size:81 final size:81
Alignment explanation
Indices: 34840500--34840790 Score: 379
Period size: 81 Copynumber: 3.6 Consensus size: 81
34840490 TTCTACCCTA
* * * *
34840500 CAAGGGTATTTTAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAAGTAAGGGTATTT
1 CAAGGGTATTTTAGTAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAACTAGGGGTATTT
34840565 TGGTAATTTTATAAAC
66 TGGTAATTTTATAAAC
* * * * * *
34840581 CAAGGGTATTTTGGTACTTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTT
1 CAAGGGTATTTTAGTAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAACTAGGGGTATTT
34840646 TGGTAATTTTATAAAC
66 TGGTAATTTTATAAAC
*
34840662 CAAGGGTATTTTAGTAATTTTACAAA-CTAGGGGTATTTTAGTAATTTTACAAACCAGGGGTATT
1 CAAGGGTATTTTAGTAATTTTACAAATC-AGGGGTATTTTAGTAATTTTACAAACTAGGGGTATT
** *
34840726 TTGGTAATTTTATTGAT
65 TTGGTAATTTTATAAAC
* * ** *
34840743 CGAGGGTATTTTGGTAATTTTGTAAATC-GAGGGTATTTCAGTAATTTT
1 CAAGGGTATTTTAGTAATTTTACAAATCAG-GGGTATTTTAGTAATTTT
34840791 GTAAATCAAG
Statistics
Matches: 185, Mismatches: 22, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
80 2 0.01
81 182 0.98
82 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.41
Consensus pattern (81 bp):
CAAGGGTATTTTAGTAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAACTAGGGGTATTT
TGGTAATTTTATAAAC
Found at i:34841138 original size:27 final size:27
Alignment explanation
Indices: 34840754--34841127 Score: 455
Period size: 27 Copynumber: 13.9 Consensus size: 27
34840744 GAGGGTATTT
* **
34840754 TGGTAATTTTGTAAATCGAGGGT-ATT
1 TGGTAATTCTGTAAATCGAGGGTAAAA
* * *
34840780 TCAGTAATTTTGTAAATCAAGGGTAAAA
1 T-GGTAATTCTGTAAATCGAGGGTAAAA
**
34840808 CAGTAATTCTGTAAAT-GAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAA
* * *
34840834 CGGTAATTCTGTAAGTCGATGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAA
* * *
34840861 TGATAAATCTATAAATCGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAA
*
34840888 CGGTAATTCTGTAAATCGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAA
* * *
34840915 TAGTAATTCTATAAACCGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAA
* *
34840942 TGGTAATTCTATAAACCGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAA
34840969 TGGTAATTCTGTAAATCGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAA
* *
34840996 TGATAATTCTATAAATCGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAA
* * *
34841023 CGGTAATTTTATAAATCGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAA
* *
34841050 TGGTAATTCTATGAATCGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAA
* *
34841077 TGGAAATTCTGTAAATCGAGGCTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAA
*
34841104 CGGTAATTCTGTAAATCGAGGGTA
1 TGGTAATTCTGTAAATCGAGGGTA
34841128 CTTTGGTAAT
Statistics
Matches: 303, Mismatches: 42, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
26 24 0.08
27 278 0.92
28 1 0.00
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.29
Consensus pattern (27 bp):
TGGTAATTCTGTAAATCGAGGGTAAAA
Found at i:34841439 original size:26 final size:26
Alignment explanation
Indices: 34841410--34841515 Score: 185
Period size: 26 Copynumber: 4.1 Consensus size: 26
34841400 TGATACAAAT
34841410 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
34841436 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
34841462 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
34841488 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
34841514 TG
1 TG
34841516 GTGGGCATTT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.08, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:34846215 original size:80 final size:80
Alignment explanation
Indices: 34846084--34846274 Score: 219
Period size: 80 Copynumber: 2.4 Consensus size: 80
34846074 ATAACCACGT
* *
34846084 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTAGCACGAATGCCTTCGGGTCTTAACC
34846149 CGGATAGAATGACTC
66 CGGATAGAATGACTC
* *
34846164 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTAGCAC-AATTGCCTTCGGGTCTTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTAGCACGAA-TGCCTTCGGGTCTTA
* **
34846226 ACCCGGATATAATTTC-C
63 ACCCGGATAGAATGACTC
* * * *
34846243 AGCATAATTGTCTTCGGGGCTTAGCCCGGATA
1 -GCACAAATGCCTTCGGGTCTTAGCCCGGATA
34846275 TCATTCAATT
Statistics
Matches: 94, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
78 1 0.01
79 5 0.05
80 88 0.94
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTAGCACGAATGCCTTCGGGTCTTAACC
CGGATAGAATGACTC
Found at i:34846252 original size:40 final size:40
Alignment explanation
Indices: 34846084--34846238 Score: 213
Period size: 40 Copynumber: 3.9 Consensus size: 40
34846074 ATAACCACGT
* *
34846084 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAATGACTC
*
34846124 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAATGACTC
* *** *
34846164 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAATGACTC
*
34846204 GCAC-AATTGCCTTCGGGTCTTAACCCGGATATAAT
1 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAAT
34846239 TTCCAGCATA
Statistics
Matches: 103, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 2 0.02
40 101 0.98
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.24
Consensus pattern (40 bp):
GCACGAATGCCTTCGGGTCTTAGCCCGGATATAATGACTC
Found at i:34847615 original size:24 final size:23
Alignment explanation
Indices: 34847563--34847616 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
34847553 ATGAACACTT
*
34847563 TTTTTTTTTTTTTCTCATCCTTA
1 TTTTATTTTTTTTCTCATCCTTA
**
34847586 CATTATTTTTTTTC-CATACTCTTA
1 TTTTATTTTTTTTCTCAT-C-CTTA
34847610 TTTTATT
1 TTTTATT
34847617 ATTTCTAACA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
22 3 0.12
23 12 0.50
24 9 0.38
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.69
Consensus pattern (23 bp):
TTTTATTTTTTTTCTCATCCTTA
Found at i:34854160 original size:40 final size:37
Alignment explanation
Indices: 34854115--34854305 Score: 116
Period size: 32 Copynumber: 5.2 Consensus size: 37
34854105 CGGAATATAA
34854115 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-CA--TGCACAAATGCCTTCGGGTCTTAGC
* *
34854155 CCGGATA-GA-AT---CGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACATGCACAAATGCCTTCGGGTCTTAGC
* *
34854187 CC-G----AAGATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACATGCACAAATGCCTTCGGGTCTTAGC
* * * *
34854219 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACA-T-GCACAAATGCCTTCGGGTCTTAGC
** * *
34854259 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACATGCA-CA-AA-TGCCTTCGGGTCTTAGC
34854298 CCGGATAT
1 CCGGATAT
34854306 CATTCAATTC
Statistics
Matches: 120, Mismatches: 16, Indels: 31
0.72 0.10 0.19
Matches are distributed among these distances:
28 1 0.01
29 2 0.02
31 1 0.01
32 45 0.38
33 1 0.01
35 1 0.01
37 4 0.03
38 4 0.03
39 16 0.13
40 45 0.38
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (37 bp):
CCGGATATAACATGCACAAATGCCTTCGGGTCTTAGC
Found at i:34854177 original size:32 final size:30
Alignment explanation
Indices: 34854136--34854225 Score: 135
Period size: 32 Copynumber: 2.9 Consensus size: 30
34854126 CACGTGCACA
34854136 AATGCCTTCGGGTCTTAGCCCGGATAGAATCG
1 AATGCCTTCGGGTCTTAGCCCGGAT-GAA-CG
*
34854168 AATGCCTTCGGGTCTTAGCCCGAAGATGCACG
1 AATGCCTTCGGGTCTTAGCCCG--GATGAACG
34854200 AATGCCTTCGGGTCTTAGCCCGGATG
1 AATGCCTTCGGGTCTTAGCCCGGATG
34854226 TAGCCACTAG
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
30 4 0.07
32 46 0.84
33 2 0.04
34 3 0.05
ACGTcount: A:0.20, C:0.27, G:0.29, T:0.24
Consensus pattern (30 bp):
AATGCCTTCGGGTCTTAGCCCGGATGAACG
Done.