Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr2
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: 41236440
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2030548 characters in sequence are not A, C, G, or T
File 63 of 106
Found at i:23814374 original size:42 final size:43
Alignment explanation
Indices: 23814316--23814397 Score: 121
Period size: 42 Copynumber: 1.9 Consensus size: 43
23814306 TTGTGTGATA
* * *
23814316 ATGATGACCCAGCTATGTGCGTGT-GGGAGTGCACATGAGCTG
1 ATGATGACCCAGCTATGTGCGAGTAGGGAATGAACATGAGCTG
*
23814358 ATGATGACCCATCTATGTGCGAGTAGGGAATGAACATGAG
1 ATGATGACCCAGCTATGTGCGAGTAGGGAATGAACATGAG
23814398 TGGAGTGTGG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
42 22 0.63
43 13 0.37
ACGTcount: A:0.27, C:0.17, G:0.33, T:0.23
Consensus pattern (43 bp):
ATGATGACCCAGCTATGTGCGAGTAGGGAATGAACATGAGCTG
Found at i:23814901 original size:19 final size:19
Alignment explanation
Indices: 23814877--23814913 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
23814867 GGGGTTTTAG
23814877 TGAGAAACCCTTGGCTAGT
1 TGAGAAACCCTTGGCTAGT
23814896 TGAGAAACCCTTGGCTAG
1 TGAGAAACCCTTGGCTAG
23814914 CTGATAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (19 bp):
TGAGAAACCCTTGGCTAGT
Found at i:23816415 original size:20 final size:20
Alignment explanation
Indices: 23816358--23816420 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
23816348 TATATACCCA
*
23816358 TCATCATCATC-TCACCAAC
1 TCATCATCATCATCACCAGC
*
23816377 CCATCATCATCATCACCAGC
1 TCATCATCATCATCACCAGC
23816397 TCATCATCATCATCACCAGC
1 TCATCATCATCATCACCAGC
23816417 TCAT
1 TCAT
23816421 GCGCACTCCC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 10 0.25
20 30 0.75
ACGTcount: A:0.30, C:0.41, G:0.03, T:0.25
Consensus pattern (20 bp):
TCATCATCATCATCACCAGC
Found at i:23816467 original size:43 final size:43
Alignment explanation
Indices: 23816419--23816528 Score: 168
Period size: 43 Copynumber: 2.6 Consensus size: 43
23816409 TCACCAGCTC
** *
23816419 ATGCGCACTCCCTACTCGCACATGGCTGGGTCATCAC-CGGATT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATC-CTCGGATT
*
23816462 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGATT
23816505 ATGCGCACTCCCTACTCGCACATA
1 ATGCGCACTCCCTACTCGCACATA
23816529 GTCGAGTCAA
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
42 1 0.02
43 61 0.98
ACGTcount: A:0.20, C:0.38, G:0.19, T:0.23
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGATT
Found at i:23821287 original size:30 final size:31
Alignment explanation
Indices: 23821253--23821319 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
23821243 AGAGGTGAAG
*
23821253 TTGTAA-TTATGAACAAG-TTAAAGGATCAAA
1 TTGTAATTTATGAA-AAGTTTAAAGGACCAAA
* *
23821283 TTGTAATTTATGAAATGTTTGAAGGACCAAA
1 TTGTAATTTATGAAAAGTTTAAAGGACCAAA
23821314 TTGTAA
1 TTGTAA
23821320 AACATAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 8 0.25
31 24 0.75
ACGTcount: A:0.42, C:0.06, G:0.18, T:0.34
Consensus pattern (31 bp):
TTGTAATTTATGAAAAGTTTAAAGGACCAAA
Found at i:23823923 original size:2 final size:2
Alignment explanation
Indices: 23823916--23823963 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
23823906 TTATATGTTG
23823916 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
23823958 AT AT AT
1 AT AT AT
23823964 NNNNNNNNNN
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23843707 original size:42 final size:42
Alignment explanation
Indices: 23843639--23843792 Score: 182
Period size: 42 Copynumber: 3.7 Consensus size: 42
23843629 GTAATGATAT
* * * * *
23843639 TGACCAGGCTATGTGCAAGTAAGAGTGTGCATAAGTCAATGC
1 TGACCCGGCTATGTGCAAGTAGGAGTGCGCATAAGCCGATGC
* * *
23843681 TGACCCGGCTATGTGCGAGTGGGAGTGCGCATAAGCCGATGT
1 TGACCCGGCTATGTGCAAGTAGGAGTGCGCATAAGCCGATGC
* *
23843723 TGACCCAGCTATGTGCAAGTAGGAGTACGCATAAGCCGATGC
1 TGACCCGGCTATGTGCAAGTAGGAGTGCGCATAAGCCGATGC
* * * *
23843765 TGACCCGGCCATATGCTAGTGGGAGTGC
1 TGACCCGGCTATGTGCAAGTAGGAGTGC
23843793 ATATGAGCTA
Statistics
Matches: 93, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 93 1.00
ACGTcount: A:0.25, C:0.21, G:0.32, T:0.21
Consensus pattern (42 bp):
TGACCCGGCTATGTGCAAGTAGGAGTGCGCATAAGCCGATGC
Found at i:23843786 original size:84 final size:84
Alignment explanation
Indices: 23843638--23843792 Score: 222
Period size: 84 Copynumber: 1.8 Consensus size: 84
23843628 TGTAATGATA
** * * *
23843638 TTGACCAGGCTATGTGCAAGTAAGAGTGTGCATAAGTCAATGCTGACCCGGCTATGTGCGAGTGG
1 TTGACCAGGCTATGTGCAAGTAAGAGTACGCATAAGCCAATGCTGACCCGGCCATATGCGAGTGG
23843703 GAGTGCGCATAAGCCGATG
66 GAGTGCGCATAAGCCGATG
* * *
23843722 TTGACCCA-GCTATGTGCAAGTAGGAGTACGCATAAGCCGATGCTGACCCGGCCATATGCTAGTG
1 TTGA-CCAGGCTATGTGCAAGTAAGAGTACGCATAAGCCAATGCTGACCCGGCCATATGCGAGTG
23843786 GGAGTGC
65 GGAGTGC
23843793 ATATGAGCTA
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
84 59 0.95
85 3 0.05
ACGTcount: A:0.25, C:0.21, G:0.32, T:0.22
Consensus pattern (84 bp):
TTGACCAGGCTATGTGCAAGTAAGAGTACGCATAAGCCAATGCTGACCCGGCCATATGCGAGTGG
GAGTGCGCATAAGCCGATG
Found at i:23855852 original size:27 final size:27
Alignment explanation
Indices: 23855807--23855900 Score: 127
Period size: 27 Copynumber: 3.5 Consensus size: 27
23855797 CTCTCCTCAA
*
23855807 TTTCTTTC-TATTGGGCCATGCCCATT
1 TTTCTTTCTTGTTGGGCCATGCCCATT
**
23855833 TTTCTTTCTTGTTGGGCCATAACCATT
1 TTTCTTTCTTGTTGGGCCATGCCCATT
* *
23855860 TTTCTTTCTTCTTGGGTCATGCCCATTT
1 TTTCTTTCTTGTTGGGCCATGCCCA-TT
23855888 TTTCTTTCTTGTT
1 TTTCTTTCTTGTT
23855901 ACTTTCTTTT
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.14
27 36 0.62
28 14 0.24
ACGTcount: A:0.10, C:0.23, G:0.14, T:0.53
Consensus pattern (27 bp):
TTTCTTTCTTGTTGGGCCATGCCCATT
Found at i:23855908 original size:15 final size:14
Alignment explanation
Indices: 23855888--23855942 Score: 69
Period size: 15 Copynumber: 3.9 Consensus size: 14
23855878 ATGCCCATTT
23855888 TTTC-TTTCTTGTTAC
1 TTTCTTTTCTT-TT-C
23855903 TTTCTTTTCTTTTC
1 TTTCTTTTCTTTTC
23855917 TTTTCTTTTCTTTTC
1 -TTTCTTTTCTTTTC
23855932 TTTC-TTTCTTT
1 TTTCTTTTCTTT
23855943 CTTCCATCGT
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
13 7 0.18
14 5 0.13
15 20 0.53
16 6 0.16
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (14 bp):
TTTCTTTTCTTTTC
Found at i:23855913 original size:5 final size:5
Alignment explanation
Indices: 23855903--23855942 Score: 66
Period size: 5 Copynumber: 8.4 Consensus size: 5
23855893 TTCTTGTTAC
23855903 TTTCT TTTCT TTTCT TTTCT TTTCT TTTC- TTTC- TTTCT TT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TT
23855943 CTTCCATCGT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 8 0.24
5 26 0.76
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTCT
Found at i:23856171 original size:35 final size:36
Alignment explanation
Indices: 23856100--23856172 Score: 96
Period size: 36 Copynumber: 2.1 Consensus size: 36
23856090 TATTGGCTTC
* *
23856100 AAAATCAGCAGCTAAGCTGCTCTATTTCTCCTCAAA
1 AAAATCAACAGCTAAGCTGCACTATTTCTCCTCAAA
* *
23856136 AAAATCAACTGCTAAGCTGCACT-TTTCT-CTCCAA
1 AAAATCAACAGCTAAGCTGCACTATTTCTCCTCAAA
23856170 AAA
1 AAA
23856173 TTAGTAGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 8 0.24
35 5 0.15
36 20 0.61
ACGTcount: A:0.36, C:0.27, G:0.10, T:0.27
Consensus pattern (36 bp):
AAAATCAACAGCTAAGCTGCACTATTTCTCCTCAAA
Found at i:23856540 original size:2 final size:2
Alignment explanation
Indices: 23856533--23856569 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
23856523 CTTATTCAAT
23856533 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23856570 TATTCTTTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:23860984 original size:21 final size:21
Alignment explanation
Indices: 23860947--23861014 Score: 84
Period size: 21 Copynumber: 3.2 Consensus size: 21
23860937 TTGACTTTGA
* *
23860947 ATGATGGCATTAGTCTTT-TCC
1 ATGAAGGCATCAGTCTTTGT-C
* *
23860968 ATGAAGGTATCATTCTTTGTC
1 ATGAAGGCATCAGTCTTTGTC
23860989 ATGAAGGCATCAGTCTTTGTC
1 ATGAAGGCATCAGTCTTTGTC
23861010 ATGAA
1 ATGAA
23861015 TTGCATGAAC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
21 39 0.98
22 1 0.03
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (21 bp):
ATGAAGGCATCAGTCTTTGTC
Found at i:23863870 original size:3 final size:3
Alignment explanation
Indices: 23863864--23863891 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
23863854 CCAGCAGCTT
23863864 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
23863892 CTTTCACGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:23864709 original size:42 final size:42
Alignment explanation
Indices: 23864650--23864775 Score: 171
Period size: 42 Copynumber: 3.0 Consensus size: 42
23864640 GTAATGATAT
*
23864650 TGACCTGGCTATGTGCGAGTAGGAGTGCACAAAAGCCATTGC
1 TGACCTGGCTATGTGCGAGTAGGAGTGCACATAAGCCATTGC
* * *
23864692 TGACCTAGCTATGTGCGAGTAGGAGTGCACTTAAGCCGTTGC
1 TGACCTGGCTATGTGCGAGTAGGAGTGCACATAAGCCATTGC
* * * * *
23864734 TAACCCGGCTATGTGTGAGTGGGAGTGCGCATAAGCCATTGC
1 TGACCTGGCTATGTGCGAGTAGGAGTGCACATAAGCCATTGC
23864776 ATATGAGATG
Statistics
Matches: 72, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 72 1.00
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (42 bp):
TGACCTGGCTATGTGCGAGTAGGAGTGCACATAAGCCATTGC
Found at i:23864823 original size:2 final size:2
Alignment explanation
Indices: 23864816--23864841 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
23864806 ATGATGATTG
23864816 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
23864842 GGTATATGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23870265 original size:2 final size:2
Alignment explanation
Indices: 23870255--23870303 Score: 80
Period size: 2 Copynumber: 24.5 Consensus size: 2
23870245 TATAACACAC
* *
23870255 AT AT CT AT AT AT GT 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 AT AT AT AT AT AT AT
23870297 AT AT AT A
1 AT AT AT A
23870304 CTACCATACA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:23876921 original size:43 final size:43
Alignment explanation
Indices: 23876861--23876986 Score: 132
Period size: 43 Copynumber: 2.9 Consensus size: 43
23876851 CACATCATCA
* * *
23876861 TCATCACCAGC-TCATGCGCACTCCCTACTTGCACAT-GGCTGGG
1 TCATCATCAGCGT-ATGCGCACTCCCTACTCGCACATAGCCT-GG
* *
23876904 TCATCATCGAG-TTATGCGCACTCTCTACTCGCACATAGCCTGG
1 TCATCATC-AGCGTATGCGCACTCCCTACTCGCACATAGCCTGG
* * *
23876947 TCATCCTCAGCGTAAGCGCACTCCCTACTCACACATAGCC
1 TCATCATCAGCGTATGCGCACTCCCTACTCGCACATAGCC
23876987 GAGTCAATAT
Statistics
Matches: 70, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
42 2 0.03
43 62 0.89
44 6 0.09
ACGTcount: A:0.21, C:0.37, G:0.17, T:0.24
Consensus pattern (43 bp):
TCATCATCAGCGTATGCGCACTCCCTACTCGCACATAGCCTGG
Found at i:23881188 original size:26 final size:26
Alignment explanation
Indices: 23881152--23881206 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
23881142 AAGCAAAAGA
*
23881152 AAGATAAATAATTCAAACTACGTATT
1 AAGATAAATAATTCAAACTACATATT
* *
23881178 AAGATAAATAATTTAGACTACATATT
1 AAGATAAATAATTCAAACTACATATT
23881204 AAG
1 AAG
23881207 TTCAATTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.31
Consensus pattern (26 bp):
AAGATAAATAATTCAAACTACATATT
Found at i:23884624 original size:92 final size:92
Alignment explanation
Indices: 23884467--23884688 Score: 286
Period size: 92 Copynumber: 2.4 Consensus size: 92
23884457 TTAATTTTGG
* * *
23884467 AGGCTGAAAGGAGTAGCTTTGGATGCTGATTTTTAAAGTTTTGGCTGCCGGTTTTGAGAGTGAGA
1 AGGCTGAAAGGAGTAGCTTTGGATGCTGATTTTTAAGGTTTTCGCTGCCGATTTTGAGAGTGAGA
23884532 TGAACAGCTTTAGCTGCTGATTTTTTA
66 TGAACAGCTTTAGCTGCTGATTTTTTA
* * * * *
23884559 AGGCTGAAAGGAGTAACTTTGGTTGCTGATTTTTAAGGTTTTCGCTGTCGATTTTTAGGGTGAGA
1 AGGCTGAAAGGAGTAGCTTTGGATGCTGATTTTTAAGGTTTTCGCTGCCGATTTTGAGAGTGAGA
* * * *
23884624 TGAGCAGCTTTGGTTGTTGATTTTTTA
66 TGAACAGCTTTAGCTGCTGATTTTTTA
* * * *
23884651 A-GCTGAAATGAGCAGTTTTGGCTGCTGA-TTTTAAGGTT
1 AGGCTGAAAGGAGTAGCTTTGGATGCTGATTTTTAAGGTT
23884689 GAAAAGGGAC
Statistics
Matches: 113, Mismatches: 17, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
90 10 0.09
91 22 0.19
92 81 0.72
ACGTcount: A:0.22, C:0.10, G:0.29, T:0.39
Consensus pattern (92 bp):
AGGCTGAAAGGAGTAGCTTTGGATGCTGATTTTTAAGGTTTTCGCTGCCGATTTTGAGAGTGAGA
TGAACAGCTTTAGCTGCTGATTTTTTA
Found at i:23886115 original size:43 final size:42
Alignment explanation
Indices: 23886029--23886157 Score: 179
Period size: 43 Copynumber: 3.0 Consensus size: 42
23886019 TTGTGTGATA
* *
23886029 ATGATGACCCAGCTATGTGCTTGTGGGAGTGCACATGAGCTG
1 ATGATGACCCAGCTATGTGCGTGTAGGAGTGCACATGAGCTG
*
23886071 ATGATGACCCAGTTATGTGCGGTGTAGGAGTGCACATGAGCTG
1 ATGATGACCCAGCTATGTGC-GTGTAGGAGTGCACATGAGCTG
* *
23886114 ATGATGACCC-GACCATGTGCGAGTAGGGAGTGCACATGAGCTG
1 ATGATGACCCAG-CTATGTGCGTGTA-GGAGTGCACATGAGCTG
23886157 A
1 A
23886158 GTATGGAGGG
Statistics
Matches: 78, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
42 24 0.31
43 54 0.69
ACGTcount: A:0.24, C:0.19, G:0.34, T:0.23
Consensus pattern (42 bp):
ATGATGACCCAGCTATGTGCGTGTAGGAGTGCACATGAGCTG
Found at i:23891369 original size:18 final size:19
Alignment explanation
Indices: 23891340--23891378 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
23891330 TGTGCGAGAG
*
23891340 AGAGCAAAAGGAAAGCAAA
1 AGAGCAAAAGGAAAGAAAA
23891359 AGAGC-AAAGGAAAGAAAA
1 AGAGCAAAAGGAAAGAAAA
23891377 AG
1 AG
23891379 GAGAGAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.64, C:0.08, G:0.28, T:0.00
Consensus pattern (19 bp):
AGAGCAAAAGGAAAGAAAA
Found at i:23901594 original size:34 final size:33
Alignment explanation
Indices: 23901556--23901650 Score: 102
Period size: 34 Copynumber: 2.8 Consensus size: 33
23901546 TTTTTGAGGT
* *
23901556 TTTGGCTGTCGGTTTTGAGGGTGAGAAGAGCAGC
1 TTTGGCTGTCGTTTTTGAGGCTGA-AAGAGCAGC
* *
23901590 TTTGGCTGTTGATTTTTGAGGCTGAAATGAGCAGT
1 TTTGGCTGTCG-TTTTTGAGGCTGAAA-GAGCAGC
*
23901625 TTTGGCTG-CTGTTTTTGAGGTTGAAA
1 TTTGGCTGTC-GTTTTTGAGGCTGAAA
23901651 AGAGGCAAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
34 26 0.50
35 26 0.50
ACGTcount: A:0.18, C:0.09, G:0.35, T:0.38
Consensus pattern (33 bp):
TTTGGCTGTCGTTTTTGAGGCTGAAAGAGCAGC
Found at i:23901622 original size:35 final size:33
Alignment explanation
Indices: 23901568--23901650 Score: 103
Period size: 35 Copynumber: 2.4 Consensus size: 33
23901558 TGGCTGTCGG
* *
23901568 TTTTGAGGGTGAGAAGAGCAGCTTTGGCTGTTGAT
1 TTTTGAGGCTGA-AAGAGCAGCTTTGGCTGCTG-T
*
23901603 TTTTGAGGCTGAAATGAGCAGTTTTGGCTGCTGT
1 TTTTGAGGCTGAAA-GAGCAGCTTTGGCTGCTGT
*
23901637 TTTTGAGGTTGAAA
1 TTTTGAGGCTGAAA
23901651 AGAGGCAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
34 16 0.37
35 27 0.63
ACGTcount: A:0.20, C:0.08, G:0.34, T:0.37
Consensus pattern (33 bp):
TTTTGAGGCTGAAAGAGCAGCTTTGGCTGCTGT
Found at i:23901792 original size:15 final size:15
Alignment explanation
Indices: 23901774--23901842 Score: 56
Period size: 15 Copynumber: 4.8 Consensus size: 15
23901764 GAGAGAGGAG
23901774 AAGAAGAAAGAGAG-
1 AAGAAGAAAGAGAGA
*
23901788 -A-AAGAAA-CGAGA
1 AAGAAGAAAGAGAGA
*
23901800 AAGCAAGAAAGAAAGA
1 AAG-AAGAAAGAGAGA
* *
23901816 AAAAAGAAAGAAAGA
1 AAGAAGAAAGAGAGA
*
23901831 AAGAAGAGAGAG
1 AAGAAGAAAGAG
23901843 TAGGCATAAC
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
11 3 0.07
12 6 0.14
13 2 0.05
15 27 0.63
16 5 0.12
ACGTcount: A:0.68, C:0.03, G:0.29, T:0.00
Consensus pattern (15 bp):
AAGAAGAAAGAGAGA
Found at i:23901793 original size:4 final size:4
Alignment explanation
Indices: 23901777--23901835 Score: 70
Period size: 4 Copynumber: 15.2 Consensus size: 4
23901767 AGAGGAGAAG
* *
23901777 AAGA AAGA GAGA AAGA AACG- -AGA AAGC AAGA AAGA AAGA AA-A AAGA
1 AAGA AAGA AAGA AAGA AA-GA AAGA AAGA AAGA AAGA AAGA AAGA AAGA
23901823 AAGA AAGA AAGA A
1 AAGA AAGA AAGA A
23901836 GAGAGAGTAG
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
2 1 0.02
3 4 0.09
4 41 0.87
5 1 0.02
ACGTcount: A:0.71, C:0.03, G:0.25, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:23901800 original size:19 final size:18
Alignment explanation
Indices: 23901774--23901837 Score: 76
Period size: 19 Copynumber: 3.4 Consensus size: 18
23901764 GAGAGAGGAG
23901774 AAGAAGAAAGAGAGAAAGA
1 AAGAAGAAAGA-AGAAAGA
23901793 AACG-AGAAAGCAAGAAAGA
1 AA-GAAGAAAG-AAGAAAGA
*
23901812 AAGAAAAAAGAAAGAAAGA
1 AAGAAGAAAG-AAGAAAGA
23901831 AAGAAGA
1 AAGAAGA
23901838 GAGAGTAGGC
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
18 1 0.03
19 36 0.92
20 2 0.05
ACGTcount: A:0.70, C:0.03, G:0.27, T:0.00
Consensus pattern (18 bp):
AAGAAGAAAGAAGAAAGA
Found at i:23901812 original size:23 final size:23
Alignment explanation
Indices: 23901777--23901835 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
23901767 AGAGGAGAAG
* **
23901777 AAGAAAGAGAGAAAGAAACGAGA
1 AAGAAAGAAAGAAAGAAAAAAGA
*
23901800 AAGCAAGAAAGAAAGAAAAAAGA
1 AAGAAAGAAAGAAAGAAAAAAGA
23901823 AAGAAAGAAAGAA
1 AAGAAAGAAAGAA
23901836 GAGAGAGTAG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.71, C:0.03, G:0.25, T:0.00
Consensus pattern (23 bp):
AAGAAAGAAAGAAAGAAAAAAGA
Found at i:23903090 original size:43 final size:42
Alignment explanation
Indices: 23903004--23903128 Score: 187
Period size: 43 Copynumber: 2.9 Consensus size: 42
23902994 TTGTGTGATA
*
23903004 ATGATGACCCAGCTATGTGCGTGTGGGAGTGCACATGAGCTG
1 ATGATGACCCAGCTATGTGCGTGTAGGAGTGCACATGAGCTG
*
23903046 ATGATGACCTAGCTATGTGCGGTGTAGGAGTGCACATGAGCTG
1 ATGATGACCCAGCTATGTGC-GTGTAGGAGTGCACATGAGCTG
* * *
23903089 ATGATGACCCGGCCATGTGCGAGTAGGGAGTGCACATGAG
1 ATGATGACCCAGCTATGTGCGTGTA-GGAGTGCACATGAG
23903129 TTGAATATGG
Statistics
Matches: 75, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
42 23 0.31
43 52 0.69
ACGTcount: A:0.23, C:0.18, G:0.36, T:0.22
Consensus pattern (42 bp):
ATGATGACCCAGCTATGTGCGTGTAGGAGTGCACATGAGCTG
Found at i:23907372 original size:6 final size:6
Alignment explanation
Indices: 23907361--23907385 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
23907351 TATCTGTTGC
23907361 TTTCTT TTTCTT TTTCTT TTTCTT T
1 TTTCTT TTTCTT TTTCTT TTTCTT T
23907386 ATTTATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTCTT
Found at i:23913717 original size:32 final size:32
Alignment explanation
Indices: 23913671--23913741 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
23913661 CTAAACCTTA
*
23913671 TGTTTTTATACACTTGTTTATAAGACTTTTCG
1 TGTTCTTATACACTTGTTTATAAGACTTTTCG
23913703 TGTTCTTATACACTTGTTTATAAGACTTTTCG
1 TGTTCTTATACACTTGTTTATAAGACTTTTCG
23913735 TGTTCTT
1 TGTTCTT
23913742 TCACTCTGTC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.20, C:0.14, G:0.13, T:0.54
Consensus pattern (32 bp):
TGTTCTTATACACTTGTTTATAAGACTTTTCG
Found at i:23913817 original size:2 final size:2
Alignment explanation
Indices: 23913810--23913838 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
23913800 TAGACGTTTT
23913810 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
23913839 TTTTCTATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:23914534 original size:36 final size:36
Alignment explanation
Indices: 23914494--23914606 Score: 95
Period size: 36 Copynumber: 3.1 Consensus size: 36
23914484 CGGGAGAGTC
**
23914494 CATGATGATATTTGCAATGTGCAGTGTGGGAGTGCA
1 CATGATGATATCAGCAATGTGCAGTGTGGGAGTGCA
* ** *
23914530 CATGA-CAGTATCAGTTATGTGCGGTGTGGGAGTGCA
1 CATGATGA-TATCAGCAATGTGCAGTGTGGGAGTGCA
* * * * *
23914566 CATCATGATTTCAGCTATGTG-TGATGTGGAAGTGCA
1 CATGATGATATCAGCAATGTGCAG-TGTGGGAGTGCA
23914602 CATGA
1 CATGA
23914607 GCTGGTGAGC
Statistics
Matches: 61, Mismatches: 13, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
35 2 0.03
36 58 0.95
37 1 0.02
ACGTcount: A:0.25, C:0.13, G:0.32, T:0.30
Consensus pattern (36 bp):
CATGATGATATCAGCAATGTGCAGTGTGGGAGTGCA
Found at i:23921226 original size:20 final size:20
Alignment explanation
Indices: 23921197--23921245 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 20
23921187 CTAGGAGAGA
*
23921197 GAAAGGAAGAAA-GAAGAAAG
1 GAAAGAAAGAAAGGAA-AAAG
23921217 GAAAGAAAGAAAGGAAAAAG
1 GAAAGAAAGAAAGGAAAAAG
23921237 GAAGAGAAA
1 GAA-AGAAA
23921246 AGCTTGCAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 18 0.69
21 8 0.31
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (20 bp):
GAAAGAAAGAAAGGAAAAAG
Found at i:23925592 original size:39 final size:39
Alignment explanation
Indices: 23925494--23925595 Score: 141
Period size: 39 Copynumber: 2.6 Consensus size: 39
23925484 GTGCTGATAG
* * * **
23925494 TGTGTAGTGTGGGAGAGCAAAAGCCGATGATATATGCCA
1 TGTGCAGTGTGGGAGAGCACATGATGATGATATATGCCA
*
23925533 TGTGCAGTGTGGGAAAGCACATGATGATGATATATGCCA
1 TGTGCAGTGTGGGAGAGCACATGATGATGATATATGCCA
*
23925572 TGTGCAGTGTGGGAGTGCACATGA
1 TGTGCAGTGTGGGAGAGCACATGA
23925596 GCTGAGTTGA
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.28, C:0.13, G:0.34, T:0.25
Consensus pattern (39 bp):
TGTGCAGTGTGGGAGAGCACATGATGATGATATATGCCA
Found at i:23947979 original size:75 final size:75
Alignment explanation
Indices: 23947856--23948000 Score: 290
Period size: 75 Copynumber: 1.9 Consensus size: 75
23947846 ATATGTTGTT
23947856 GGTACTAATATATTTGACGTATCTGCACTCTTTATTGAGTATTAGATAACTCACTCGTTTGTTGT
1 GGTACTAATATATTTGACGTATCTGCACTCTTTATTGAGTATTAGATAACTCACTCGTTTGTTGT
23947921 ACCATGTGCA
66 ACCATGTGCA
23947931 GGTACTAATATATTTGACGTATCTGCACTCTTTATTGAGTATTAGATAACTCACTCGTTTGTTGT
1 GGTACTAATATATTTGACGTATCTGCACTCTTTATTGAGTATTAGATAACTCACTCGTTTGTTGT
23947996 ACCAT
66 ACCAT
23948001 CTGTAGATAC
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 70 1.00
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.41
Consensus pattern (75 bp):
GGTACTAATATATTTGACGTATCTGCACTCTTTATTGAGTATTAGATAACTCACTCGTTTGTTGT
ACCATGTGCA
Found at i:23949322 original size:43 final size:43
Alignment explanation
Indices: 23949261--23949383 Score: 135
Period size: 43 Copynumber: 2.9 Consensus size: 43
23949251 CCCATCATCA
* * **
23949261 TCATCACC-AGCTCATGCGCACTCCCTACTCGCACAT-GGCTGGG
1 TCATCACCGAG-TTATGCGCACTCCCTACTAGCACATAATC-GGG
*
23949304 TCATCACCGAGTTATGCGCACTCCCTACTTGCACATAATCGGG
1 TCATCACCGAGTTATGCGCACTCCCTACTAGCACATAATCGGG
* *
23949347 TCATC-CTCGACTTATGCGCATTCCCTACTAGCACATA
1 TCATCAC-CGAGTTATGCGCACTCCCTACTAGCACATA
23949384 GCCAAGTCAA
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
42 1 0.01
43 66 0.94
44 3 0.04
ACGTcount: A:0.22, C:0.36, G:0.17, T:0.25
Consensus pattern (43 bp):
TCATCACCGAGTTATGCGCACTCCCTACTAGCACATAATCGGG
Found at i:23952393 original size:55 final size:55
Alignment explanation
Indices: 23952290--23952535 Score: 288
Period size: 55 Copynumber: 4.6 Consensus size: 55
23952280 TAACTGCGTG
* * * *
23952290 TGTGCAGTGTGGGAGTGCACATG-CCAG-TGAT-GGCGG--G-TGATTCTAGCTA
1 TGTGCAGTGTGGGAGTGCACATGAGCTGATGATCGGTGGATGATGATTCCAGCTA
* * *
23952339 TGCGCAGTGTGGAAGTGCACATGAGCTGATGACCGGTGGATGATGATTCCAGCTA
1 TGTGCAGTGTGGGAGTGCACATGAGCTGATGATCGGTGGATGATGATTCCAGCTA
* * * *
23952394 TGTACAGTGTGGGAGTGCACATGAGCTGGTGATCGGTGGGTGATGACTCCAGCTA
1 TGTGCAGTGTGGGAGTGCACATGAGCTGATGATCGGTGGATGATGATTCCAGCTA
* * * **
23952449 TATGCAGTGTGGGAGTGCACATGAGTTGATGATTGGTGGATGATGATTCCAATTA
1 TGTGCAGTGTGGGAGTGCACATGAGCTGATGATCGGTGGATGATGATTCCAGCTA
* *
23952504 TGTGCGGTGTGGGAGTGCACATGAGTTGATGA
1 TGTGCAGTGTGGGAGTGCACATGAGCTGATGA
23952536 GCCAGTGGTT
Statistics
Matches: 166, Mismatches: 25, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
49 21 0.13
50 2 0.01
51 3 0.02
52 4 0.02
54 1 0.01
55 135 0.81
ACGTcount: A:0.22, C:0.14, G:0.37, T:0.27
Consensus pattern (55 bp):
TGTGCAGTGTGGGAGTGCACATGAGCTGATGATCGGTGGATGATGATTCCAGCTA
Found at i:23956704 original size:42 final size:42
Alignment explanation
Indices: 23956658--23956769 Score: 136
Period size: 42 Copynumber: 2.7 Consensus size: 42
23956648 GGTTAACATT
*
23956658 GGCTTATGCGCACTTCTATTCGCACATAACCGAGTCATCATC
1 GGCTTATGCGCACTCCTATTCGCACATAACCGAGTCATCATC
* * ** *
23956700 GGCTTATACGCACTCCTACTCGCACATAGTCGGGTCATCATC
1 GGCTTATGCGCACTCCTATTCGCACATAACCGAGTCATCATC
* *
23956742 GGCATATGTGCACTCCTACTT-GCACATA
1 GGCTTATGCGCACTCCTA-TTCGCACATA
23956770 GCCAAGTCCA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 58 0.98
43 1 0.02
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (42 bp):
GGCTTATGCGCACTCCTATTCGCACATAACCGAGTCATCATC
Found at i:23956790 original size:42 final size:42
Alignment explanation
Indices: 23956662--23956791 Score: 100
Period size: 42 Copynumber: 3.1 Consensus size: 42
23956652 AACATTGGCT
* * * * * ** *
23956662 TATGCGCACTTCTATTCGCACATAACCGAGTCATCATCGGCT
1 TATGTGCACTCCTACTCGCACATAGCCAAGTCATCATCAACA
** * ** **
23956704 TATACGCACTCCTACTCGCACATAGTCGGGTCATCATCGGCA
1 TATGTGCACTCCTACTCGCACATAGCCAAGTCATCATCAACA
*
23956746 TATGTGCACTCCTACTTGCACATAGCCAAGTCCA-CATCAACA
1 TATGTGCACTCCTACTCGCACATAGCCAAGT-CATCATCAACA
23956788 TATG
1 TATG
23956792 AAAGAAACAC
Statistics
Matches: 72, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
42 70 0.97
43 2 0.03
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (42 bp):
TATGTGCACTCCTACTCGCACATAGCCAAGTCATCATCAACA
Found at i:23959304 original size:17 final size:17
Alignment explanation
Indices: 23959272--23959310 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
23959262 CAAGCCCTTG
* *
23959272 ATGAAATGTTTTATGTT
1 ATGAAATGTGTAATGTT
*
23959289 GTGAAATGTGTAATGTT
1 ATGAAATGTGTAATGTT
23959306 ATGAA
1 ATGAA
23959311 CCCACGTGTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.23, T:0.44
Consensus pattern (17 bp):
ATGAAATGTGTAATGTT
Found at i:23959485 original size:55 final size:55
Alignment explanation
Indices: 23959424--23959632 Score: 296
Period size: 55 Copynumber: 3.8 Consensus size: 55
23959414 TGATGACGAG
* * * *
23959424 TGATTCCAACTATGTACGGTGTGGGAGTGCACATGAACTAATGACC-GATGGATGA
1 TGATTCCAGCTATGTACAGTGTGGGAGTGCACATGAGCTGATGACCAG-TGGATGA
* *
23959479 TGATTCCAGCTATGTGCAGTGTGGGAGTGCACATGAGCTGATGACTAGTGGATGA
1 TGATTCCAGCTATGTACAGTGTGGGAGTGCACATGAGCTGATGACCAGTGGATGA
* *
23959534 TGATTCCAGCTATGTACAGTGTGCGAGTGCACTTGAGCTGATGACCAGTGGATGA
1 TGATTCCAGCTATGTACAGTGTGGGAGTGCACATGAGCTGATGACCAGTGGATGA
* *
23959589 TGATTCCAGCTATGTGC-GATGTGGGAATGCACATGAGCTGATGA
1 TGATTCCAGCTATGTACAG-TGTGGGAGTGCACATGAGCTGATGA
23959633 GCCGGTGGTT
Statistics
Matches: 138, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
54 1 0.01
55 136 0.99
56 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.27
Consensus pattern (55 bp):
TGATTCCAGCTATGTACAGTGTGGGAGTGCACATGAGCTGATGACCAGTGGATGA
Found at i:23967800 original size:15 final size:15
Alignment explanation
Indices: 23967776--23967805 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23967766 CACATGGACC
*
23967776 AGTATTTGATTATGA
1 AGTATATGATTATGA
23967791 AGTATATGATTATGA
1 AGTATATGATTATGA
23967806 GAATGTTCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.43
Consensus pattern (15 bp):
AGTATATGATTATGA
Found at i:23972757 original size:68 final size:68
Alignment explanation
Indices: 23972636--23972802 Score: 165
Period size: 68 Copynumber: 2.5 Consensus size: 68
23972626 ATAGTATTTA
* * * * * * * **
23972636 ATCATAAATTCATGCTTATCTCATGTAGTACATTGAATCATCATCACATACATTTCAACTTAACA
1 ATCATATAGTCATTCTTATCTCATATAGTATATTGAATCAACATCACATACATTACAAAATAACA
*
23972701 TGC
66 TAC
* * * * **
23972704 ATCATATAGTCATTCTTATCTCATATGGTATATTGTATCAACATGATATACATTACAAAATAGTA
1 ATCATATAGTCATTCTTATCTCATATAGTATATTGAATCAACATCACATACATTACAAAATAACA
23972769 TAC
66 TAC
*
23972772 ATCATGT-GCTCATTCTTATCTCATATAGTAT
1 ATCATATAG-TCATTCTTATCTCATATAGTAT
23972803 GCAGAAACAA
Statistics
Matches: 80, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
67 1 0.01
68 79 0.99
ACGTcount: A:0.35, C:0.19, G:0.08, T:0.38
Consensus pattern (68 bp):
ATCATATAGTCATTCTTATCTCATATAGTATATTGAATCAACATCACATACATTACAAAATAACA
TAC
Found at i:23977796 original size:130 final size:128
Alignment explanation
Indices: 23977555--23977797 Score: 308
Period size: 130 Copynumber: 1.9 Consensus size: 128
23977545 TTTCCTATTA
* * *
23977555 CTTCAACAACCTAAGACTAATGAAGGTTTTCTTTTGAAATATTTTCTCAAAGTGGCTCACAAAGT
1 CTTCAACAACATAAGACTAATGAAAGTTTTCTTTTGAAATATTTTCTCAAAGGGGCTCACAAAGT
* * * * * *
23977620 GATATCCCAACTCCTTAAAGTTATTTATAGACTTAAGTTTAAGTGAAAAGTATTAAGCTCTAG
66 GACATACCAACTCCTTAAAGTTACTTATAAACCTAAGCTTAAGTGAAAAGTATTAAGCTCTAG
* * * *
23977683 CTTCAACGACATATGACTAATGAAAGTTTTCTTTTGAAGTATGCTGTTCTCAAAGGGGTTCACAA
1 CTTCAACAACATAAGACTAATGAAAGTTTTCTTTTGAAATAT--T-TTCTCAAAGGGGCTCACAA
* **
23977748 A-TGACATATCAACTCCTTAAAGTTACTTATAAACCTCTGCTTAAGTGAAA
63 AGTGACATACCAACTCCTTAAAGTTACTTATAAACCTAAGCTTAAGTGAAA
23977798 TTACCAAGAT
Statistics
Matches: 96, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
128 37 0.39
130 41 0.43
131 18 0.19
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (128 bp):
CTTCAACAACATAAGACTAATGAAAGTTTTCTTTTGAAATATTTTCTCAAAGGGGCTCACAAAGT
GACATACCAACTCCTTAAAGTTACTTATAAACCTAAGCTTAAGTGAAAAGTATTAAGCTCTAG
Found at i:23983164 original size:49 final size:49
Alignment explanation
Indices: 23983124--23983300 Score: 183
Period size: 49 Copynumber: 3.6 Consensus size: 49
23983114 GTATGTTTTG
* * * *
23983124 TCCGTGGATGATTCTGGACAATGATATAATATGAGATATGTATGTTCCG
1 TCCGTAGATGATTCTGGACAATGATATGATATGAGGTATGTATGTTCCA
** * * * ** *
23983173 TCTATAGTTGATTTTGAATGATGATATGATGTGAGGTATGTATGTTCCA
1 TCCGTAGATGATTCTGGACAATGATATGATATGAGGTATGTATGTTCCA
* * * *
23983222 TCCGTATATGATTTTGGACAAAGAAATGATATGAGGTATGTATGTTCCA
1 TCCGTAGATGATTCTGGACAATGATATGATATGAGGTATGTATGTTCCA
* * *
23983271 TCCGTGGATGACTCTGGACAATGTTATGAT
1 TCCGTAGATGATTCTGGACAATGATATGAT
23983301 GTTGATTATG
Statistics
Matches: 99, Mismatches: 29, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
49 99 1.00
ACGTcount: A:0.28, C:0.11, G:0.24, T:0.37
Consensus pattern (49 bp):
TCCGTAGATGATTCTGGACAATGATATGATATGAGGTATGTATGTTCCA
Found at i:23987313 original size:5 final size:5
Alignment explanation
Indices: 23987300--23987340 Score: 64
Period size: 5 Copynumber: 8.2 Consensus size: 5
23987290 AAGACCACTT
* *
23987300 TATGA TATGT TATGA TATGA TATGA TATAA TATGA TATGA T
1 TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA T
23987341 GACTATGTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.39, C:0.00, G:0.17, T:0.44
Consensus pattern (5 bp):
TATGA
Found at i:23988990 original size:20 final size:20
Alignment explanation
Indices: 23988965--23989002 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
23988955 CCATACCCAA
*
23988965 GAATGTATTGATACATTTGG
1 GAATGTATCGATACATTTGG
23988985 GAATGTATCGATACATTT
1 GAATGTATCGATACATTT
23989003 ACACGTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (20 bp):
GAATGTATCGATACATTTGG
Found at i:23993990 original size:81 final size:81
Alignment explanation
Indices: 23993823--23994014 Score: 199
Period size: 81 Copynumber: 2.4 Consensus size: 81
23993813 CAAGAGTGTT
* * * * * * ** *
23993823 CTGAGGAACATGGTCCCCTTCAGCCTGAACTAATGCAAGGTTCCCATCCTCTCCTATAGCTGCCT
1 CTGAGGAACATGGTCTCCTTCAACCTCAACTAATGCAAGGTCCCCATCCCCTCCCATAAATGCAT
* * * *
23993888 CGACTACTGCATTGGC
66 CAACAACCGCATCGGC
* * *
23993904 TTGAGGAACATGGTCTCCTTCAACCTCAACTAAGTG-AAGGTCCCCCTCCCCTCCCGTAAATGCA
1 CTGAGGAACATGGTCTCCTTCAACCTCAACTAA-TGCAAGGTCCCCATCCCCTCCCATAAATGCA
23993968 TCAACAACCGCATCGGC
65 TCAACAACCGCATCGGC
* *
23993985 CTGAGGAACAT-GCCTCCTTCAACATCAACT
1 CTGAGGAACATGGTCTCCTTCAACCTCAACT
23994015 GATTGAAAGG
Statistics
Matches: 91, Mismatches: 19, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
80 17 0.19
81 72 0.79
82 2 0.02
ACGTcount: A:0.24, C:0.34, G:0.18, T:0.23
Consensus pattern (81 bp):
CTGAGGAACATGGTCTCCTTCAACCTCAACTAATGCAAGGTCCCCATCCCCTCCCATAAATGCAT
CAACAACCGCATCGGC
Found at i:23994984 original size:19 final size:19
Alignment explanation
Indices: 23994960--23994998 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
23994950 ACAAGTGGAA
23994960 AATTTTAAAATAAAATAAT
1 AATTTTAAAATAAAATAAT
**
23994979 AATTTTTGAATAAAATAAT
1 AATTTTAAAATAAAATAAT
23994998 A
1 A
23994999 TTAAAATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (19 bp):
AATTTTAAAATAAAATAAT
Found at i:23997225 original size:34 final size:34
Alignment explanation
Indices: 23997185--23997255 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
23997175 AGTAATTAAG
23997185 TAATAATATTTTTATTGAGGATGAATTAACGATA
1 TAATAATATTTTTATTGAGGATGAATTAACGATA
23997219 TAATAATATTTTTATTGAGGATGAATTAACGATA
1 TAATAATATTTTTATTGAGGATGAATTAACGATA
23997253 TAA
1 TAA
23997256 AAAGTAATTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.42, C:0.03, G:0.14, T:0.41
Consensus pattern (34 bp):
TAATAATATTTTTATTGAGGATGAATTAACGATA
Found at i:23997776 original size:19 final size:20
Alignment explanation
Indices: 23997742--23997779 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
23997732 TCTTCTCTTC
23997742 CATGCTCCCAATGCCATTTT
1 CATGCTCCCAATGCCATTTT
23997762 CATGCTCCC-ATGCCATTT
1 CATGCTCCCAATGCCATTT
23997780 CACCTTGCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.18, C:0.37, G:0.11, T:0.34
Consensus pattern (20 bp):
CATGCTCCCAATGCCATTTT
Found at i:24003690 original size:31 final size:31
Alignment explanation
Indices: 24003655--24003819 Score: 213
Period size: 31 Copynumber: 5.3 Consensus size: 31
24003645 AGAAAGAAAT
* *
24003655 AAATGTTGTTACACGCTATGTATACCACGTA
1 AAATGTTGTTACACGCTATGCATACCAAGTA
*
24003686 AAATGTTGTTACACACTATGCATACCAAGTA
1 AAATGTTGTTACACGCTATGCATACCAAGTA
* *
24003717 AAATGTTATTACACGCCATGCATACCAAGTA
1 AAATGTTGTTACACGCTATGCATACCAAGTA
* * * *
24003748 AAATGTTGTTACATGCTAAGCATACCAGGTC
1 AAATGTTGTTACACGCTATGCATACCAAGTA
* * * *
24003779 AAATATTGTTACACGCTAAGCATATCAAGTC
1 AAATGTTGTTACACGCTATGCATACCAAGTA
24003810 AAATGTTGTT
1 AAATGTTGTT
24003820 GCATGCCAAC
Statistics
Matches: 117, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 117 1.00
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (31 bp):
AAATGTTGTTACACGCTATGCATACCAAGTA
Found at i:24003990 original size:87 final size:87
Alignment explanation
Indices: 24003852--24004012 Score: 225
Period size: 87 Copynumber: 1.9 Consensus size: 87
24003842 GGTGACACGT
* * * *
24003852 CAACCATGTTATGTCATGACACATCAATCACTATAATTACTGTCTCGTTACATGAATTGCCCTAA
1 CAACCATGTCATGTCATGACACATCAATCAATATAATTACTGACTCGTTACATGAACTGCCCTAA
24003917 AATACCCAATATATTGACATGC
66 AATACCCAATATATTGACATGC
* * * *
24003939 CAACCATGTCATGTCGTGACAC-GCTAATCAATATAATTATTGACTCGTTACATGAACTGTCCTA
1 CAACCATGTCATGTCATGACACATC-AATCAATATAATTACTGACTCGTTACATGAACTGCCCTA
*
24004003 AAATAGCCAA
65 AAATACCCAA
24004013 CGTGGTGACA
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
86 1 0.02
87 63 0.98
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.30
Consensus pattern (87 bp):
CAACCATGTCATGTCATGACACATCAATCAATATAATTACTGACTCGTTACATGAACTGCCCTAA
AATACCCAATATATTGACATGC
Found at i:24004022 original size:87 final size:87
Alignment explanation
Indices: 24003840--24004023 Score: 217
Period size: 87 Copynumber: 2.1 Consensus size: 87
24003830 GTTGAGAAAT
* * * *
24003840 GTGGTGACACGTCAACCATGTTATGTCATGACACATCAATCACTATAATTACTGTCTCGTTACAT
1 GTGGTGACACGCCAACCATGTCATGTCATGACACATCAATCAATATAATTACTGACTCGTTACAT
* *
24003905 GAATTGCCCTAAAATACCCAAT
66 GAACTGCCCTAAAATACCCAAC
* ** * * * *
24003927 ATATTGACATGCCAACCATGTCATGTCGTGACAC-GCTAATCAATATAATTATTGACTCGTTACA
1 GTGGTGACACGCCAACCATGTCATGTCATGACACATC-AATCAATATAATTACTGACTCGTTACA
* *
24003991 TGAACTGTCCTAAAATAGCCAAC
65 TGAACTGCCCTAAAATACCCAAC
24004014 GTGGTGACAC
1 GTGGTGACAC
24004024 ACTAAAAACC
Statistics
Matches: 77, Mismatches: 19, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
86 1 0.01
87 76 0.99
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (87 bp):
GTGGTGACACGCCAACCATGTCATGTCATGACACATCAATCAATATAATTACTGACTCGTTACAT
GAACTGCCCTAAAATACCCAAC
Found at i:24004639 original size:23 final size:21
Alignment explanation
Indices: 24004597--24004674 Score: 66
Period size: 23 Copynumber: 3.4 Consensus size: 21
24004587 CAAAATGTCG
*
24004597 TGTCACAAGATTCCAACATGCCT
1 TGTCACAA-ATTCCATCATG-CT
*
24004620 TGTCACAAATTCGCATCATGTT
1 TGTCACAAATTC-CATCATGCT
* *
24004642 GTGTCACATATTCCCATCATGGCA
1 -TGTCACAAATT-CCATCAT-GCT
24004666 TGTCACAAA
1 TGTCACAAA
24004675 CTCTAAACCT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
22 5 0.11
23 38 0.84
24 2 0.04
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.29
Consensus pattern (21 bp):
TGTCACAAATTCCATCATGCT
Found at i:24004880 original size:23 final size:23
Alignment explanation
Indices: 24004829--24005016 Score: 132
Period size: 23 Copynumber: 8.3 Consensus size: 23
24004819 GTCACAGTCA
* **
24004829 TGTCACATATGCTCACCATGATG
1 TGTCACATATTCTCACCATGGCG
*
24004852 TCTCACATATTCTCACCATGGCG
1 TGTCACATATTCTCACCATGGCG
* *
24004875 TGTCACATATTCACACAATGGCG
1 TGTCACATATTCTCACCATGGCG
* * *
24004898 TGTTAC--ATTCTCA-CACTCGCA
1 TGTCACATATTCTCACCA-TGGCG
* *
24004919 TGTCACATATTCTCAACATGTCG
1 TGTCACATATTCTCACCATGGCG
* * * * *
24004942 TCTCACATATTCCCTCCAAGTCG
1 TGTCACATATTCTCACCATGGCG
* * *
24004965 TGTCACATAGT-TCACCCTGTCG
1 TGTCACATATTCTCACCATGGCG
* * * *
24004987 TGTCACATATTCGCTCTATGGCA
1 TGTCACATATTCTCACCATGGCG
24005010 TGTCACA
1 TGTCACA
24005017 AACTCTAAAC
Statistics
Matches: 126, Mismatches: 34, Indels: 10
0.74 0.20 0.06
Matches are distributed among these distances:
20 1 0.01
21 14 0.11
22 17 0.13
23 92 0.73
24 2 0.02
ACGTcount: A:0.24, C:0.30, G:0.14, T:0.31
Consensus pattern (23 bp):
TGTCACATATTCTCACCATGGCG
Found at i:24005014 original size:45 final size:46
Alignment explanation
Indices: 24004916--24005016 Score: 114
Period size: 45 Copynumber: 2.2 Consensus size: 46
24004906 TCTCACACTC
*
24004916 GCATGTCACATATTCTCAACATGTCGTCTCACATATTCCCTCCAAG
1 GCATGTCACATAGTCTCAACATGTCGTCTCACATATTCCCTCCAAG
* * * * * * * *
24004962 TCGTGTCACATAGT-TCACCCTGTCGTGTCACATATTCGCTCTATG
1 GCATGTCACATAGTCTCAACATGTCGTCTCACATATTCCCTCCAAG
24005007 GCATGTCACA
1 GCATGTCACA
24005017 AACTCTAAAC
Statistics
Matches: 44, Mismatches: 11, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
45 33 0.75
46 11 0.25
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.32
Consensus pattern (46 bp):
GCATGTCACATAGTCTCAACATGTCGTCTCACATATTCCCTCCAAG
Found at i:24005074 original size:23 final size:23
Alignment explanation
Indices: 24005045--24005143 Score: 135
Period size: 23 Copynumber: 4.3 Consensus size: 23
24005035 GTCACCATTG
* *
24005045 TGTCACATATTCTCACCATGCCA
1 TGTCACACATTCCCACCATGCCA
24005068 TGTCACACATTCCCACCATGCCA
1 TGTCACACATTCCCACCATGCCA
* **
24005091 TGTCATACATTCCCACCATGCTG
1 TGTCACACATTCCCACCATGCCA
*
24005114 TGTCACACATTCCCACCATGGCA
1 TGTCACACATTCCCACCATGCCA
*
24005137 TTTCACA
1 TGTCACA
24005144 AACTCTAAAC
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 66 1.00
ACGTcount: A:0.25, C:0.37, G:0.10, T:0.27
Consensus pattern (23 bp):
TGTCACACATTCCCACCATGCCA
Found at i:24007745 original size:12 final size:12
Alignment explanation
Indices: 24007728--24007759 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
24007718 AATTCTAATT
24007728 GTACAATATCCC
1 GTACAATATCCC
*
24007740 GTACAATATTCC
1 GTACAATATCCC
24007752 GTACAATA
1 GTACAATA
24007760 AATGCAAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.38, C:0.25, G:0.09, T:0.28
Consensus pattern (12 bp):
GTACAATATCCC
Found at i:24008777 original size:21 final size:20
Alignment explanation
Indices: 24008735--24008780 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 20
24008725 ATTAATATAT
24008735 TACTATATATAGTTAAAATA
1 TACTATATATAGTTAAAATA
*
24008755 TACT-TATATAGTATATAAGTA
1 TACTATATATAGT-TA-AAATA
24008776 TACTA
1 TACTA
24008781 AGAAGTCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 8 0.36
20 6 0.27
21 8 0.36
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.41
Consensus pattern (20 bp):
TACTATATATAGTTAAAATA
Found at i:24008915 original size:29 final size:26
Alignment explanation
Indices: 24008867--24008919 Score: 63
Period size: 27 Copynumber: 1.9 Consensus size: 26
24008857 TATTAATAAG
24008867 TATATTATTTAATATATAATATATTGT
1 TATATTATTTAATATATAAT-TATTGT
24008894 TATA-TATTATAATATAGTTAATTATT
1 TATATTATT-TAATATA--TAATTATT
24008920 AATATAAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
26 4 0.17
27 11 0.48
28 4 0.17
29 4 0.17
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (26 bp):
TATATTATTTAATATATAATTATTGT
Found at i:24008917 original size:15 final size:18
Alignment explanation
Indices: 24008896--24008935 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
24008886 TATATTGTTA
24008896 TATATTA-TAATAT-AGT
1 TATATTATTAATATAAGT
24008912 TA-ATTATTAATATAAGT
1 TATATTATTAATATAAGT
24008929 TATATTA
1 TATATTA
24008936 CTATAGGATG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 4 0.19
16 8 0.38
17 5 0.24
18 4 0.19
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (18 bp):
TATATTATTAATATAAGT
Found at i:24009429 original size:10 final size:10
Alignment explanation
Indices: 24009414--24009450 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
24009404 CATATATATA
24009414 TATGTGTGTG
1 TATGTGTGTG
24009424 TATGTGTGTG
1 TATGTGTGTG
24009434 --TGTGTGTG
1 TATGTGTGTG
*
24009442 TACGTGTGT
1 TATGTGTGT
24009451 ATATAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
8 8 0.33
10 16 0.67
ACGTcount: A:0.08, C:0.03, G:0.41, T:0.49
Consensus pattern (10 bp):
TATGTGTGTG
Found at i:24015260 original size:1 final size:1
Alignment explanation
Indices: 24015254--24015279 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
24015244 CTCAATTCTT
24015254 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
24015280 GAATACTAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:24022083 original size:39 final size:38
Alignment explanation
Indices: 24022024--24022125 Score: 141
Period size: 39 Copynumber: 2.6 Consensus size: 38
24022014 GTGCTGATAG
* *
24022024 TGTGCAGTGTGGGAGTGCACATGCTGATGATATATACCA
1 TGTGCGGTGT-GGAGTGCACATGATGATGATATATACCA
* *
24022063 TGTGCGGTGTAGGAGAGCACATGATGATGATATATGCCA
1 TGTGCGGTGT-GGAGTGCACATGATGATGATATATACCA
24022102 TGTGCGGTGTGAGAGTGCACATGA
1 TGTGCGGTGTG-GAGTGCACATGA
24022126 CAGTGATGGT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
38 1 0.02
39 55 0.98
ACGTcount: A:0.25, C:0.14, G:0.34, T:0.26
Consensus pattern (38 bp):
TGTGCGGTGTGGAGTGCACATGATGATGATATATACCA
Found at i:24023950 original size:21 final size:20
Alignment explanation
Indices: 24023907--24023957 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
24023897 TGAAAGCAAA
*
24023907 AAGAAGGAAGAAAGGAGAAAG
1 AAGAAAGAA-AAAGGAGAAAG
* *
24023928 AAGGAAAGAAAAAGGCGAGAG
1 AA-GAAAGAAAAAGGAGAAAG
24023949 AAGAAAGAA
1 AAGAAAGAA
24023958 GAAAAGCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 7 0.27
21 13 0.50
22 6 0.23
ACGTcount: A:0.63, C:0.02, G:0.35, T:0.00
Consensus pattern (20 bp):
AAGAAAGAAAAAGGAGAAAG
Found at i:24025052 original size:2 final size:2
Alignment explanation
Indices: 24025045--24025072 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
24025035 AATGTTTGTG
24025045 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24025073 ACAACATTTA
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):
TA
Found at i:24025797 original size:2 final size:2
Alignment explanation
Indices: 24025790--24025828 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
24025780 TTAAATTGTT
24025790 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
24025829 TCTTATGTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:24026454 original size:3 final size:3
Alignment explanation
Indices: 24026446--24026495 Score: 55
Period size: 3 Copynumber: 16.7 Consensus size: 3
24026436 TTACATGAAG
* * * * *
24026446 TAT TAT TAT TAT TAT TAT TAT GAT GAT GAT GAT GAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
24026494 TA
1 TA
24026496 GAAGAAGAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (3 bp):
TAT
Found at i:24027071 original size:34 final size:34
Alignment explanation
Indices: 24027033--24027187 Score: 197
Period size: 34 Copynumber: 4.6 Consensus size: 34
24027023 GTAATAAATG
*
24027033 GTGCTAAAGCTTTGGCCTTGGCATGTAACGTCTA
1 GTGCTGAAGCTTTGGCCTTGGCATGTAACGTCTA
*
24027067 GTGCTGAAG--TTGGCCTTGGCATGTAATGTCTA
1 GTGCTGAAGCTTTGGCCTTGGCATGTAACGTCTA
* *
24027099 GTGCTAAAGCTTTGGCCTTAGCATGTAACGTCTA
1 GTGCTGAAGCTTTGGCCTTGGCATGTAACGTCTA
* * * *
24027133 GTGTTGAACCTTTGGCCTTAGCATGTAACATCTA
1 GTGCTGAAGCTTTGGCCTTGGCATGTAACGTCTA
* * *
24027167 ATGCTGAAGTTTTGACCTTGG
1 GTGCTGAAGCTTTGGCCTTGG
24027188 TGTGTAACAT
Statistics
Matches: 104, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
32 30 0.29
34 74 0.71
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (34 bp):
GTGCTGAAGCTTTGGCCTTGGCATGTAACGTCTA
Found at i:24027103 original size:66 final size:67
Alignment explanation
Indices: 24027033--24027187 Score: 204
Period size: 66 Copynumber: 2.3 Consensus size: 67
24027023 GTAATAAATG
* **
24027033 GTGCTAAAGCTTTGGCCTTGGCATGTAACGTCTAGTGCTGAA-GTTGGCCTTGGCATGTAATGTC
1 GTGCTAAAGCTTTGGCCTTGGCATGTAACGTCTAGTGCTGAACGTTGGCCTTAGCATGTAACATC
24027097 TA
66 TA
* * *
24027099 GTGCTAAAGCTTTGGCCTTAGCATGTAACGTCTAGTGTTGAACCTTTGGCCTTAGCATGTAACAT
1 GTGCTAAAGCTTTGGCCTTGGCATGTAACGTCTAGTGCTGAA-CGTTGGCCTTAGCATGTAACAT
24027164 CTA
65 CTA
* * * *
24027167 ATGCTGAAGTTTTGACCTTGG
1 GTGCTAAAGCTTTGGCCTTGG
24027188 TGTGTAACAT
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
66 40 0.53
68 36 0.47
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (67 bp):
GTGCTAAAGCTTTGGCCTTGGCATGTAACGTCTAGTGCTGAACGTTGGCCTTAGCATGTAACATC
TA
Found at i:24027620 original size:58 final size:58
Alignment explanation
Indices: 24027544--24027656 Score: 181
Period size: 58 Copynumber: 1.9 Consensus size: 58
24027534 GATGTATTAA
* * *
24027544 AAAATTATTCAACGTCAAATTGGGATAAAATAGATTTCGACAAAAAGATATTATCTTG
1 AAAATTATTCAACATCAAATTGGGATAAAATAGATTTAGACAAAAACATATTATCTTG
* *
24027602 AAAATTATTCAACATCAAATTGGGATAAAATGGATTTAGGCAAAAACATATTATC
1 AAAATTATTCAACATCAAATTGGGATAAAATAGATTTAGACAAAAACATATTATC
24027657 CAAAGTCCTC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
58 50 1.00
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (58 bp):
AAAATTATTCAACATCAAATTGGGATAAAATAGATTTAGACAAAAACATATTATCTTG
Found at i:24027921 original size:3 final size:3
Alignment explanation
Indices: 24027915--24027952 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
24027905 AAATTGTCCC
* *
24027915 TTA TTA TTA TTA ATA TTA TTA TTA TTA TTA TCA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
24027953 TACGTAGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:24038442 original size:63 final size:63
Alignment explanation
Indices: 24038336--24038454 Score: 168
Period size: 63 Copynumber: 1.9 Consensus size: 63
24038326 TTAAACGAAG
* * *
24038336 TACTAGAACTTAAAGAATTGATGTCTAGGAGTTAAGAGATTGATTTTCTCAAGTCTAGAATCA
1 TACTAGAACTTAAAGAATTGATGTCTAGGAGTCAAGAGATTGATTCTCGCAAGTCTAGAATCA
* * *
24038399 TACTGGAACTTCAAGAATTGATGTTTAGGAGTCAAGA-ATTTGATTCTCGCAAGTCT
1 TACTAGAACTTAAAGAATTGATGTCTAGGAGTCAAGAGA-TTGATTCTCGCAAGTCT
24038455 TGAACTTCAA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
62 1 0.02
63 48 0.98
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.34
Consensus pattern (63 bp):
TACTAGAACTTAAAGAATTGATGTCTAGGAGTCAAGAGATTGATTCTCGCAAGTCTAGAATCA
Found at i:24041861 original size:20 final size:20
Alignment explanation
Indices: 24041836--24041877 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
24041826 CAACAATTAA
*
24041836 AATAAAAAAAAATTAAAACT
1 AATAAAAAAAAACTAAAACT
**
24041856 AATAAACTAAAACTAAAACT
1 AATAAAAAAAAACTAAAACT
24041876 AA
1 AA
24041878 AATTAAATAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.71, C:0.10, G:0.00, T:0.19
Consensus pattern (20 bp):
AATAAAAAAAAACTAAAACT
Found at i:24043755 original size:19 final size:19
Alignment explanation
Indices: 24043709--24043763 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 19
24043699 AGTGACATTT
24043709 TTTTTA-TTT-ATTAATTA
1 TTTTTAGTTTAATTAATTA
24043726 --TTTAG-TTAATTAATTA
1 TTTTTAGTTTAATTAATTA
*
24043742 TTTTTAGTTTAATTAATCA
1 TTTTTAGTTTAATTAATTA
24043761 TTT
1 TTT
24043764 GAAATTGAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
15 6 0.19
16 8 0.25
18 5 0.16
19 13 0.41
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.64
Consensus pattern (19 bp):
TTTTTAGTTTAATTAATTA
Found at i:24070828 original size:30 final size:30
Alignment explanation
Indices: 24070794--24070877 Score: 89
Period size: 30 Copynumber: 2.8 Consensus size: 30
24070784 CTTTTTCTGA
* *
24070794 AGGTATAACCGTAATCTACATTTTGAATGG
1 AGGTATAACCGTAATCTACCTTTTCAATGG
* * *
24070824 AGGTATAATC-TATAACTACCTTTTCTATGG
1 AGGTATAACCGTA-ATCTACCTTTTCAATGG
* *
24070854 AGGTATAGCCGAAATCTACCTTTT
1 AGGTATAACCGTAATCTACCTTTT
24070878 TTATAGAGGA
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
29 2 0.05
30 40 0.93
31 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.36
Consensus pattern (30 bp):
AGGTATAACCGTAATCTACCTTTTCAATGG
Found at i:24080467 original size:2 final size:2
Alignment explanation
Indices: 24080460--24080524 Score: 100
Period size: 2 Copynumber: 33.5 Consensus size: 2
24080450 CAGTTTGTTG
24080460 AT AT AT AT AT AT AT AT AT AT AT AT ACT AT AT AT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT
24080502 AT -T AT AT -T AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
24080525 ACTATTATTT
Statistics
Matches: 59, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
1 3 0.05
2 54 0.92
3 2 0.03
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:24080490 original size:23 final size:22
Alignment explanation
Indices: 24080460--24080538 Score: 98
Period size: 21 Copynumber: 3.8 Consensus size: 22
24080450 CAGTTTGTTG
24080460 ATATA-TA-TATATATATATAT
1 ATATACTATTATATATATATAT
24080480 ATATACTA-TATATATATATAT
1 ATATACTATTATATATATATAT
24080501 -TATTA-TATTATATATATATAT
1 ATA-TACTATTATATATATATAT
*
24080522 ATA-ACTATTATTTATAT
1 ATATACTATTATATATAT
24080539 TTTAAACTAT
Statistics
Matches: 53, Mismatches: 1, Indels: 9
0.84 0.02 0.14
Matches are distributed among these distances:
20 10 0.19
21 41 0.77
22 2 0.04
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.52
Consensus pattern (22 bp):
ATATACTATTATATATATATAT
Found at i:24080495 original size:25 final size:24
Alignment explanation
Indices: 24080461--24080524 Score: 103
Period size: 23 Copynumber: 2.7 Consensus size: 24
24080451 AGTTTGTTGA
24080461 TATATATATATATATATATATATAC
1 TATATATATATATATATAT-TATAC
*
24080486 TATATATATATATAT-TATTATAT
1 TATATATATATATATATATTATAC
24080509 TATATATATATATATA
1 TATATATATATATATA
24080525 ACTATTATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
23 19 0.51
24 3 0.08
25 15 0.41
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (24 bp):
TATATATATATATATATATTATAC
Found at i:24083089 original size:7 final size:7
Alignment explanation
Indices: 24083077--24083107 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
24083067 ACCAGAATGC
24083077 TTTTCCA
1 TTTTCCA
24083084 TTTTCCA
1 TTTTCCA
24083091 TTTTCCA
1 TTTTCCA
24083098 TTTTCCA
1 TTTTCCA
24083105 TTT
1 TTT
24083108 AAGACCTCGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.13, C:0.26, G:0.00, T:0.61
Consensus pattern (7 bp):
TTTTCCA
Found at i:24085108 original size:23 final size:23
Alignment explanation
Indices: 24085059--24085109 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
24085049 CATATACCCC
* *
24085059 TCATCATCATGCATACCATCCCG
1 TCATCATCATGCACACCATCCCA
*
24085082 TCATCATCATGCACACCATCTCA
1 TCATCATCATGCACACCATCCCA
24085105 TCATC
1 TCATC
24085110 CCCAGCTCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.39, G:0.06, T:0.27
Consensus pattern (23 bp):
TCATCATCATGCACACCATCCCA
Found at i:24085206 original size:43 final size:43
Alignment explanation
Indices: 24085118--24085236 Score: 112
Period size: 43 Copynumber: 2.8 Consensus size: 43
24085108 TCCCCAGCTC
* * ** * *
24085118 ATGCACACTCCCTACTCGCACATGGCTAGGTTATCACCGGGTT
1 ATGCGCACTCCCTACTCGCACATAGCCGGGTCATCACCGGCTT
* * **
24085161 ATGTGCACTCCCTACTCGCACATAACCGGGTCATCATTGGCTT
1 ATGCGCACTCCCTACTCGCACATAGCCGGGTCATCACCGGCTT
* * * *
24085204 ATGCGCACTCTCTATTTGCACATAGCCGAGTCA
1 ATGCGCACTCCCTACTCGCACATAGCCGGGTCA
24085237 ATATCATTAC
Statistics
Matches: 60, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.32, G:0.19, T:0.27
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAGCCGGGTCATCACCGGCTT
Found at i:24087271 original size:10 final size:11
Alignment explanation
Indices: 24087244--24087279 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
24087234 TATGGCCGGC
*
24087244 CAAAGCAAGAA
1 CAAAGGAAGAA
24087255 CAAAGGAAGAA
1 CAAAGGAAGAA
24087266 -AAAGGAAGAA
1 CAAAGGAAGAA
24087276 CAAA
1 CAAA
24087280 ACCCTAGGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.43
11 13 0.57
ACGTcount: A:0.67, C:0.11, G:0.22, T:0.00
Consensus pattern (11 bp):
CAAAGGAAGAA
Found at i:24087317 original size:21 final size:22
Alignment explanation
Indices: 24087292--24087332 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
24087282 CCTAGGTAGA
*
24087292 AAAATTCAAGGGAA-AAGTGTG
1 AAAATTCAAGGAAACAAGTGTG
24087313 AAAATTCAAGGAAACAAGTG
1 AAAATTCAAGGAAACAAGTG
24087333 AAAAAATGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.17
Consensus pattern (22 bp):
AAAATTCAAGGAAACAAGTGTG
Found at i:24087333 original size:20 final size:21
Alignment explanation
Indices: 24087292--24087336 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
24087282 CCTAGGTAGA
*
24087292 AAAATTCAAGGGAAAAGTGTG
1 AAAATTCAAGGGAAAAGAGTG
24087313 AAAATTCAA-GGAAACA-AGTG
1 AAAATTCAAGGGAAA-AGAGTG
24087333 AAAA
1 AAAA
24087337 AATGTTAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.56, C:0.07, G:0.22, T:0.16
Consensus pattern (21 bp):
AAAATTCAAGGGAAAAGAGTG
Found at i:24087338 original size:22 final size:21
Alignment explanation
Indices: 24087291--24087339 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
24087281 CCCTAGGTAG
* *
24087291 AAAAATTCAAGGGAAAAGTGT
1 AAAAATTCAAGGAAAAAGTGA
*
24087312 GAAAATTCAAGGAAACAAGTGA
1 AAAAATTCAAGGAAA-AAGTGA
24087334 AAAAAT
1 AAAAAT
24087340 GTTAGATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.57, C:0.06, G:0.20, T:0.16
Consensus pattern (21 bp):
AAAAATTCAAGGAAAAAGTGA
Found at i:24093915 original size:2 final size:2
Alignment explanation
Indices: 24093908--24093952 Score: 62
Period size: 2 Copynumber: 24.5 Consensus size: 2
24093898 TTCACAACCA
24093908 AT AT AT AT AT AT A- AT AT AT AT A- AT A- AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24093947 A- AT AT A
1 AT AT AT A
24093953 AAAGCATTAC
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
1 4 0.10
2 35 0.90
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:24093935 original size:25 final size:23
Alignment explanation
Indices: 24093910--24093953 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
24093900 CACAACCAAT
24093910 ATATATATATA-ATATATATAATA
1 ATATATATATATATA-ATATAATA
24093933 ATATATATATATATAATATAA
1 ATATATATATATATAATATAA
24093954 AAGCATTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
ATATATATATATATAATATAATA
Found at i:24093940 original size:23 final size:23
Alignment explanation
Indices: 24093907--24093953 Score: 76
Period size: 25 Copynumber: 2.0 Consensus size: 23
24093897 ATTCACAACC
24093907 AATATATATATATAATATATATAAT
1 AATATATATATAT-ATA-ATATAAT
24093932 AATATATATATATATAATATAA
1 AATATATATATATATAATATAA
24093954 AAGCATTACA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 6 0.27
24 3 0.14
25 13 0.59
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
AATATATATATATATAATATAAT
Found at i:24117027 original size:12 final size:12
Alignment explanation
Indices: 24117010--24117034 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24117000 ATCTCTTCGG
24117010 TGTCATAAAATA
1 TGTCATAAAATA
24117022 TGTCATAAAATA
1 TGTCATAAAATA
24117034 T
1 T
24117035 CTCGGATATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (12 bp):
TGTCATAAAATA
Found at i:24128776 original size:13 final size:13
Alignment explanation
Indices: 24128758--24128782 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24128748 TTTCAGAAAA
24128758 TTTATAAAATCAT
1 TTTATAAAATCAT
24128771 TTTATAAAATCA
1 TTTATAAAATCA
24128783 CAATTTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:24133497 original size:5 final size:5
Alignment explanation
Indices: 24133489--24133521 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
24133479 ACCTAACCTG
24133489 ACTTA ACTTA AC-TA ACTTA ACTTA ACTTA ACTT
1 ACTTA ACTTA ACTTA ACTTA ACTTA ACTTA ACTT
24133522 GAGCCACGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.39
Consensus pattern (5 bp):
ACTTA
Found at i:24133508 original size:14 final size:15
Alignment explanation
Indices: 24133489--24133521 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
24133479 ACCTAACCTG
24133489 ACTTAACTTAAC-TA
1 ACTTAACTTAACTTA
24133503 ACTTAACTTAACTTA
1 ACTTAACTTAACTTA
24133518 ACTT
1 ACTT
24133522 GAGCCACGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.39
Consensus pattern (15 bp):
ACTTAACTTAACTTA
Found at i:24133576 original size:15 final size:15
Alignment explanation
Indices: 24133556--24133601 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
24133546 TTCTTAAAAC
24133556 AACTTTAAAACCAAA
1 AACTTTAAAACCAAA
24133571 AACTTTAAAATCC-AA
1 AACTTTAAAA-CCAAA
* *
24133586 AGCTTTAAAATCAAA
1 AACTTTAAAACCAAA
24133601 A
1 A
24133602 TCTCTGACCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 1 0.04
15 24 0.89
16 2 0.07
ACGTcount: A:0.57, C:0.17, G:0.02, T:0.24
Consensus pattern (15 bp):
AACTTTAAAACCAAA
Found at i:24136097 original size:19 final size:19
Alignment explanation
Indices: 24136073--24136110 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
24136063 CTGCCAAACC
*
24136073 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
24136092 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
24136111 AGTTAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:24137088 original size:21 final size:19
Alignment explanation
Indices: 24137052--24137092 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
24137042 ACATGTTGAG
24137052 TAGTTAATTTAAGTTATTT
1 TAGTTAATTTAAGTTATTT
*
24137071 TAGTTAAATTTTATGTTATTT
1 TAGTT-AA-TTTAAGTTATTT
24137092 T
1 T
24137093 GTTTTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 2 0.11
21 12 0.63
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (19 bp):
TAGTTAATTTAAGTTATTT
Found at i:24139294 original size:69 final size:70
Alignment explanation
Indices: 24139221--24139418 Score: 184
Period size: 77 Copynumber: 2.6 Consensus size: 70
24139211 AAGAATTTCT
*
24139221 TTTAAAGTAGGAAACTATTTTCTATGAATTTA-CCAAAA-TAAAATGCTATCCTTAATTTTAGGA
1 TTTAAAGTAGGAAACTATTTTCTATGAA-TCACCCAAAATTAAAATGCTATCCTTAATTTTAGGA
*
24139284 ATTTAG
65 ATTGAG
* *
24139290 TTTAAAGTAGGAAACAATTTCATATTCTTTATGAATCACCCAAAATTAAAATTCTATCCTTAATT
1 TTTAAAGTAGGAAAC----T-AT-TT-TCTATGAATCACCCAAAATTAAAATGCTATCCTTAATT
**
24139355 TTAGGAATTGCT
59 TTAGGAATTGAG
*
24139367 TTTAAAGTAGGAAACAATTTCCTATTCTTTATGAATCACCCAAAATTAAAAT
1 TTTAAAGTAGGAAAC--TAT--T-TTC--TATGAATCACCCAAAATTAAAAT
24139419 AGATGGCATT
Statistics
Matches: 105, Mismatches: 11, Indels: 18
0.78 0.08 0.13
Matches are distributed among these distances:
69 15 0.14
73 1 0.01
74 3 0.03
75 7 0.07
76 14 0.13
77 65 0.62
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.38
Consensus pattern (70 bp):
TTTAAAGTAGGAAACTATTTTCTATGAATCACCCAAAATTAAAATGCTATCCTTAATTTTAGGAA
TTGAG
Found at i:24139371 original size:77 final size:77
Alignment explanation
Indices: 24139253--24139418 Score: 280
Period size: 77 Copynumber: 2.2 Consensus size: 77
24139243 TATGAATTTA
*
24139253 CCAAAA-TAAAATGCTATCCTTAATTTTAGGAATTTAGTTTAAAGTAGGAAACAATTTCATATTC
1 CCAAAATTAAAATGCTATCCTTAATTTTAGGAATTGAGTTTAAAGTAGGAAACAATTTCATATTC
24139317 TTTATGAATCAC
66 TTTATGAATCAC
* ** *
24139329 CCAAAATTAAAATTCTATCCTTAATTTTAGGAATTGCTTTTAAAGTAGGAAACAATTTCCTATTC
1 CCAAAATTAAAATGCTATCCTTAATTTTAGGAATTGAGTTTAAAGTAGGAAACAATTTCATATTC
24139394 TTTATGAATCAC
66 TTTATGAATCAC
24139406 CCAAAATTAAAAT
1 CCAAAATTAAAAT
24139419 AGATGGCATT
Statistics
Matches: 84, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
76 6 0.07
77 78 0.93
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.37
Consensus pattern (77 bp):
CCAAAATTAAAATGCTATCCTTAATTTTAGGAATTGAGTTTAAAGTAGGAAACAATTTCATATTC
TTTATGAATCAC
Found at i:24156967 original size:17 final size:17
Alignment explanation
Indices: 24156927--24156969 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
24156917 TTCATTTGTT
* *
24156927 TACCTTCCTTTCTTTTCT
1 TACCTT-CTTCCTTTTCC
24156945 TA-CTTCTTCCTTTTCC
1 TACCTTCTTCCTTTTCC
24156961 TACCTTCTT
1 TACCTTCTT
24156970 AGGTATCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 11 0.50
17 9 0.41
18 2 0.09
ACGTcount: A:0.07, C:0.35, G:0.00, T:0.58
Consensus pattern (17 bp):
TACCTTCTTCCTTTTCC
Found at i:24157850 original size:55 final size:55
Alignment explanation
Indices: 24157770--24158033 Score: 393
Period size: 55 Copynumber: 4.8 Consensus size: 55
24157760 TGATGACGAG
* *
24157770 TGATTCCAACTATGTGTGGTGTGGGAGTGCACATGAGCTGATGACCAGTGGGTGA
1 TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGACCAGTGGGTGA
** **
24157825 TGATTCTGGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGACCAACGGGTGA
1 TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGACCAGTGGGTGA
* * *
24157880 TGATTCCAACTATGTGTGGTGTGGGAGTGCACATGAGCTGATGACCGGTGGGTGA
1 TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGACCAGTGGGTGA
* * *
24157935 TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGATCATTGGATGA
1 TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGACCAGTGGGTGA
* * *
24157990 TGATTCCAGCTATATGCGGTGTAGGAGTGCACATGAACTGATGA
1 TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGA
24158034 GCCGGTGGTT
Statistics
Matches: 187, Mismatches: 22, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 187 1.00
ACGTcount: A:0.22, C:0.15, G:0.36, T:0.27
Consensus pattern (55 bp):
TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGACCAGTGGGTGA
Found at i:24157973 original size:28 final size:28
Alignment explanation
Indices: 24157889--24157973 Score: 70
Period size: 26 Copynumber: 3.1 Consensus size: 28
24157879 ATGATTCCAA
*
24157889 CTATGTGTGGTGTGGGAGTGCACATGAG
1 CTATGTGCGGTGTGGGAGTGCACATGAG
** * *
24157917 CTGATGACCGGTG-GGTGA-TG-A-TTCCAG
1 CT-ATGTGCGGTGTGG-GAGTGCACAT-GAG
24157944 CTATGTGCGGTGTGGGAGTGCACATGAG
1 CTATGTGCGGTGTGGGAGTGCACATGAG
24157972 CT
1 CT
24157974 GATGATCATT
Statistics
Matches: 41, Mismatches: 9, Indels: 14
0.64 0.14 0.22
Matches are distributed among these distances:
26 11 0.27
27 9 0.22
28 11 0.27
29 10 0.24
ACGTcount: A:0.18, C:0.15, G:0.40, T:0.27
Consensus pattern (28 bp):
CTATGTGCGGTGTGGGAGTGCACATGAG
Found at i:24164095 original size:43 final size:43
Alignment explanation
Indices: 24164025--24164143 Score: 177
Period size: 43 Copynumber: 2.8 Consensus size: 43
24164015 GTAATTATGT
* *
24164025 TGACTCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCG-GTGA
*
24164068 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
* *
24164111 TGACCCAGCCATGTGCGAGTAGGGAGTGCGCAT
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCAT
24164144 GAGCTGGTGA
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
42 1 0.01
43 68 0.99
ACGTcount: A:0.22, C:0.21, G:0.38, T:0.19
Consensus pattern (43 bp):
TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
Found at i:24164153 original size:43 final size:43
Alignment explanation
Indices: 24164035--24164156 Score: 174
Period size: 43 Copynumber: 2.8 Consensus size: 43
24164025 TGACTCGGCT
* **
24164035 ATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GATGACCCGGTT
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCG-GTGATGACCCAGCC
*
24164078 ATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGACCCAGCC
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAGCC
* *
24164121 ATGTGCGAGTAGGGAGTGCGCATGAGCTGGTGATGA
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGA
24164157 TGATGATGAG
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
42 1 0.01
43 70 0.99
ACGTcount: A:0.23, C:0.19, G:0.39, T:0.19
Consensus pattern (43 bp):
ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAGCC
Found at i:24164167 original size:20 final size:20
Alignment explanation
Indices: 24164142--24164204 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
24164132 GGGAGTGCGC
24164142 ATGAGCTGGTGATGATGATG
1 ATGAGCTGGTGATGATGATG
24164162 ATGAGCTGGTGATGATGATG
1 ATGAGCTGGTGATGATGATG
* *
24164182 ATGGGTTGGTGA-GATGATG
1 ATGAGCTGGTGATGATGATG
24164201 ATGA
1 ATGA
24164205 TGGGTATATA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 10 0.25
20 30 0.75
ACGTcount: A:0.25, C:0.03, G:0.41, T:0.30
Consensus pattern (20 bp):
ATGAGCTGGTGATGATGATG
Found at i:24172026 original size:43 final size:43
Alignment explanation
Indices: 24171908--24172029 Score: 174
Period size: 43 Copynumber: 2.8 Consensus size: 43
24171898 TGACTCGACT
* **
24171908 ATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GATGACCCGGTT
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCG-GTGATGACCCAGCC
*
24171951 ATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGACCCAGCC
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAGCC
* *
24171994 ATGTGCGAGTAGGGAGTGCGCATGAGCTGGTGATGA
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGA
24172030 TGATGATGAG
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
42 1 0.01
43 70 0.99
ACGTcount: A:0.23, C:0.19, G:0.39, T:0.19
Consensus pattern (43 bp):
ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAGCC
Found at i:24172040 original size:20 final size:20
Alignment explanation
Indices: 24172015--24172074 Score: 83
Period size: 20 Copynumber: 3.2 Consensus size: 20
24172005 GGGAGTGCGC
24172015 ATGAGCTGGTGATGATGATG
1 ATGAGCTGGTGATGATGATG
24172035 ATGAGCTGGTGATGATGATG
1 ATGAGCTGGTGATGATGATG
*
24172055 --G-GTTGGTGA-GATGATG
1 ATGAGCTGGTGATGATGATG
24172071 ATGA
1 ATGA
24172075 TGGGTATATA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
16 7 0.19
17 7 0.19
18 2 0.06
20 20 0.56
ACGTcount: A:0.25, C:0.03, G:0.42, T:0.30
Consensus pattern (20 bp):
ATGAGCTGGTGATGATGATG
Found at i:24172047 original size:17 final size:17
Alignment explanation
Indices: 24172027--24172071 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
24172017 GAGCTGGTGA
24172027 TGATGATGATGAGCTGG
1 TGATGATGATGAGCTGG
* *
24172044 TGATGATGATGGGTTGG
1 TGATGATGATGAGCTGG
24172061 TGA-GATGATGA
1 TGATGATGATGA
24172072 TGATGGGTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 7 0.28
17 18 0.72
ACGTcount: A:0.24, C:0.02, G:0.42, T:0.31
Consensus pattern (17 bp):
TGATGATGATGAGCTGG
Found at i:24172086 original size:2 final size:2
Alignment explanation
Indices: 24172079--24172109 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
24172069 TGATGATGGG
*
24172079 TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
24172110 GTAAATATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:24173133 original size:54 final size:54
Alignment explanation
Indices: 24173067--24173172 Score: 194
Period size: 54 Copynumber: 2.0 Consensus size: 54
24173057 GGATGGTGAT
*
24173067 ATGTCCGACTATGTGCATGATGTGGTGGGATGCACATGAGCTGGGTGAGATGGG
1 ATGTCCGACTATGTGCACGATGTGGTGGGATGCACATGAGCTGGGTGAGATGGG
*
24173121 ATGTCCGGCTATGTGCACGATGTGGTGGGATGCACATGAGCTGGGTGAGATG
1 ATGTCCGACTATGTGCACGATGTGGTGGGATGCACATGAGCTGGGTGAGATG
24173173 CACATGATGA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.20, C:0.14, G:0.41, T:0.25
Consensus pattern (54 bp):
ATGTCCGACTATGTGCACGATGTGGTGGGATGCACATGAGCTGGGTGAGATGGG
Found at i:24192735 original size:22 final size:22
Alignment explanation
Indices: 24192710--24192751 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
24192700 TTGATTAAAG
* *
24192710 TTTCAGTTTAGTAGTTTTAATT
1 TTTCAGTTTAATAATTTTAATT
*
24192732 TTTCATTTTAATAATTTTAA
1 TTTCAGTTTAATAATTTTAA
24192752 AATTTAATTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.60
Consensus pattern (22 bp):
TTTCAGTTTAATAATTTTAATT
Found at i:24198123 original size:49 final size:42
Alignment explanation
Indices: 24198066--24198185 Score: 150
Period size: 42 Copynumber: 2.7 Consensus size: 42
24198056 TATGATATAA
* *
24198066 ATTTAAATTCAATTTGTTTAAATTTAAATAAGAATTATCTATCAATTAC
1 ATTTAAATTTAATTTGTTTAAATTTAAA-AA-AA-GA--T-T-AATTAC
24198115 ATTTAAATTTAATTTGTTTAAATTTAAAAAAAGATTAATTAC
1 ATTTAAATTTAATTTGTTTAAATTTAAAAAAAGATTAATTAC
*
24198157 ATTTAAATTTTATTTGTTTAAATTTAAAA
1 ATTTAAATTTAATTTGTTTAAATTTAAAA
24198186 GTAACATCCT
Statistics
Matches: 68, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
42 34 0.50
43 1 0.01
44 1 0.01
46 1 0.01
47 2 0.03
48 2 0.03
49 27 0.40
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.47
Consensus pattern (42 bp):
ATTTAAATTTAATTTGTTTAAATTTAAAAAAAGATTAATTAC
Found at i:24198139 original size:21 final size:21
Alignment explanation
Indices: 24198115--24198184 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
24198105 TATCAATTAC
24198115 ATTTAAATTTAATTTGTTTAA
1 ATTTAAATTTAATTTGTTTAA
** * ** *
24198136 ATTTAAA-AAAAGATTAATTAC
1 ATTTAAATTTAA-TTTGTTTAA
*
24198157 ATTTAAATTTTATTTGTTTAA
1 ATTTAAATTTAATTTGTTTAA
24198178 ATTTAAA
1 ATTTAAA
24198185 AGTAACATCC
Statistics
Matches: 34, Mismatches: 13, Indels: 4
0.67 0.25 0.08
Matches are distributed among these distances:
20 2 0.06
21 31 0.91
22 1 0.03
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.50
Consensus pattern (21 bp):
ATTTAAATTTAATTTGTTTAA
Found at i:24200184 original size:15 final size:15
Alignment explanation
Indices: 24200160--24200189 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
24200150 GGTTAAAATA
24200160 ACAAACAAGTTTCCT
1 ACAAACAAGTTTCCT
*
24200175 ACAAATAAGTTTCCT
1 ACAAACAAGTTTCCT
24200190 GAACATGAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.30
Consensus pattern (15 bp):
ACAAACAAGTTTCCT
Found at i:24207066 original size:29 final size:30
Alignment explanation
Indices: 24207033--24207089 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
24207023 TTCAATCAAG
* *
24207033 TCCC-TATACTTTTATTTTGAGCTAAATAA
1 TCCCTTATACTTTTATCTTGAGCCAAATAA
**
24207062 TCCCTTATTTTTTTATCTTGAGCCAAAT
1 TCCCTTATACTTTTATCTTGAGCCAAAT
24207090 TACCTGTTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 4 0.17
30 19 0.83
ACGTcount: A:0.26, C:0.19, G:0.07, T:0.47
Consensus pattern (30 bp):
TCCCTTATACTTTTATCTTGAGCCAAATAA
Found at i:24284536 original size:24 final size:21
Alignment explanation
Indices: 24284489--24284538 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 21
24284479 CTATATATTT
* *
24284489 TATATTATTATATTTATATAA
1 TATATTATGATATCTATATAA
24284510 TATATTATGATTATCTATAATACA
1 TATATTATGA-TATCTAT-ATA-A
24284534 TATAT
1 TATAT
24284539 AAAATATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 9 0.38
22 6 0.25
23 3 0.12
24 6 0.25
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (21 bp):
TATATTATGATATCTATATAA
Found at i:24286238 original size:27 final size:27
Alignment explanation
Indices: 24286208--24286265 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
24286198 TTGGAGTAAA
*
24286208 AGGGTAAAATAGTAATTTTGCCACC-CC
1 AGGGCAAAATAGTAATTTT-CCACCACC
*
24286235 AGGGGCAAAATTGTAATTTTCCACCACC
1 A-GGGCAAAATAGTAATTTTCCACCACC
24286263 AGG
1 AGG
24286266 ACATTTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 8 0.30
28 19 0.70
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (27 bp):
AGGGCAAAATAGTAATTTTCCACCACC
Found at i:24290155 original size:13 final size:13
Alignment explanation
Indices: 24290137--24290161 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24290127 AGAGAAATTG
24290137 TGATTTTATAAAA
1 TGATTTTATAAAA
24290150 TGATTTTATAAA
1 TGATTTTATAAA
24290162 TTTTTTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Done.