Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 37 of 253
Found at i:9553880 original size:9 final size:9
Alignment explanation
Indices: 9553863--9553896 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
9553853 AATTTATTTG
*
9553863 ATTATTTAA
1 ATTAATTAA
9553872 ATTAATTAA
1 ATTAATTAA
*
9553881 ATTAACTAA
1 ATTAATTAA
9553890 ATTAATT
1 ATTAATT
9553897 TCTCAATTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (9 bp):
ATTAATTAA
Found at i:9553913 original size:16 final size:18
Alignment explanation
Indices: 9553887--9553919 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
9553877 TTAAATTAAC
9553887 TAAATTAA-TTTCTCAAT
1 TAAATTAATTTTCTCAAT
9553904 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
9553920 CCCAATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:9560210 original size:19 final size:20
Alignment explanation
Indices: 9560186--9560231 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
9560176 CATCCAAACA
9560186 CCAGAAAAGTAAATCA-TTT
1 CCAGAAAAGTAAATCATTTT
9560205 CCAGAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCATTTT
9560225 CCAGAAA
1 CCAGAAA
9560232 TCATTTTCCG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.48, C:0.17, G:0.11, T:0.24
Consensus pattern (20 bp):
CCAGAAAAGTAAATCATTTT
Found at i:9560234 original size:14 final size:14
Alignment explanation
Indices: 9560215--9560252 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
9560205 CCAGAAAAGT
9560215 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
9560229 AAATCATTTTCCGG
1 AAATCATTTTCCAG
*
9560243 AAAACATTTT
1 AAATCATTTT
9560253 ACTGGCAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:9566159 original size:13 final size:13
Alignment explanation
Indices: 9566141--9566165 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9566131 AATTTAGTAT
9566141 ATAACAAAAAATA
1 ATAACAAAAAATA
9566154 ATAACAAAAAAT
1 ATAACAAAAAAT
9566166 GTAGGGTAAA
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:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (13 bp):
ATAACAAAAAATA
Found at i:9575870 original size:23 final size:23
Alignment explanation
Indices: 9575840--9575890 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
9575830 TCTGAAAAGA
*
9575840 TAAGGGATTTCACAATTTGGTTT
1 TAAGGGATTTCACAATTTGGTTC
9575863 TAAGGGATTTCACAATTTGGTTC
1 TAAGGGATTTCACAATTTGGTTC
9575886 TAAGG
1 TAAGG
9575891 TATTAAAGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.27, C:0.10, G:0.24, T:0.39
Consensus pattern (23 bp):
TAAGGGATTTCACAATTTGGTTC
Found at i:9581512 original size:5 final size:4
Alignment explanation
Indices: 9581486--9581530 Score: 54
Period size: 4 Copynumber: 10.8 Consensus size: 4
9581476 CTAAAAAGTT
* *
9581486 TAAA CAAA TAAA TAAA TAAAA TGAAA TAAA CAAA TAAA TAAA TAA
1 TAAA TAAA TAAA TAAA T-AAA T-AAA TAAA TAAA TAAA TAAA TAA
9581531 TATGAAATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
4 27 0.77
5 8 0.23
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.20
Consensus pattern (4 bp):
TAAA
Found at i:9581554 original size:26 final size:26
Alignment explanation
Indices: 9581486--9581539 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
9581476 CTAAAAAGTT
9581486 TAAACAAATAAATAAATAAAATGAAA
1 TAAACAAATAAATAAATAAAATGAAA
*
9581512 TAAACAAATAAATAAATAATATGAAA
1 TAAACAAATAAATAAATAAAATGAAA
9581538 TA
1 TA
9581540 TGACAAAGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.22
Consensus pattern (26 bp):
TAAACAAATAAATAAATAAAATGAAA
Found at i:9581581 original size:3 final size:3
Alignment explanation
Indices: 9581575--9581938 Score: 112
Period size: 3 Copynumber: 119.3 Consensus size: 3
9581565 ATGAAAACAG
* * * * * * *
9581575 TAA TAA TGA TAA TAC TAA TGA TAT TAA TAG TAG TAG TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
9581622 TAA TAA TAG TAA TAA TAA T-A TAC TAAA TAA TAG TAA TAA AAA AAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
* * * * * * * * *
9581667 CAA TAG TAA TAG TAA TTA CAA AAA TGA TAA TAG TAA TAA -AA TAA -GA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
9581713 TGA TAA TAA CAA TAA TCAA -AA TAA AAA TAG TAA TAA TAG TAA TAA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * *
9581758 TAA TAA GACCA TAA TAA AAA GAA AAA GAAA TAA TAA CATG TAAA TAA
1 TAA TAA TA--A TAA TAA TAA TAA TAA -TAA TAA TAA TA-A T-AA TAA
* * * * *
9581805 TAA TAA TAA TAA TAA TGA CAA TAA TAGA AAA TAA TAA AAA CAA -ATA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TA-A
* * * ** * * * * *
9581851 TAC TATG TCGA TAA GGA TAA TAG TAG TAA TAG TAA TAA AAA CAA TAA
1 TAA TA-A T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
9581898 TAA TAA TAA -ATA TAA TAA TAGA AAA TAA TAA TAA AAA TAA T
1 TAA TAA TAA TA-A TAA TAA TA-A TAA TAA TAA TAA TAA TAA T
9581939 TAATTTGAAA
Statistics
Matches: 261, Mismatches: 80, Indels: 40
0.69 0.21 0.10
Matches are distributed among these distances:
2 11 0.04
3 231 0.89
4 16 0.06
5 3 0.01
ACGTcount: A:0.61, C:0.04, G:0.08, T:0.27
Consensus pattern (3 bp):
TAA
Found at i:9581925 original size:13 final size:13
Alignment explanation
Indices: 9581896--9581968 Score: 80
Period size: 13 Copynumber: 5.6 Consensus size: 13
9581886 TAAAAACAAT
9581896 AATAATAATA-AA
1 AATAATAATAGAA
*
9581908 TATAATAATAGAA
1 AATAATAATAGAA
9581921 AATAATAATA-AA
1 AATAATAATAGAA
*
9581933 AATAATTAATTTGAA
1 AATAA-TAA-TAGAA
9581948 AATAA-AATAGCAA
1 AATAATAATAG-AA
9581961 AATAATAA
1 AATAATAA
9581969 AAAAAGGACT
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
12 18 0.35
13 23 0.45
14 3 0.06
15 7 0.14
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.27
Consensus pattern (13 bp):
AATAATAATAGAA
Found at i:9581930 original size:25 final size:27
Alignment explanation
Indices: 9581896--9581966 Score: 85
Period size: 25 Copynumber: 2.7 Consensus size: 27
9581886 TAAAAACAAT
*
9581896 AATAATAATAAATATAA-TAA-TAGAA
1 AATAATAATAAAAATAATTAATTAGAA
*
9581921 AATAATAATAAAAATAATTAATTTGAA
1 AATAATAATAAAAATAATTAATTAGAA
9581948 AATAA-AATAGCAAAATAAT
1 AATAATAATA--AAAATAAT
9581967 AAAAAAAGGA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
25 16 0.40
26 7 0.17
27 9 0.22
28 8 0.20
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.28
Consensus pattern (27 bp):
AATAATAATAAAAATAATTAATTAGAA
Found at i:9581937 original size:37 final size:38
Alignment explanation
Indices: 9581883--9581973 Score: 98
Period size: 40 Copynumber: 2.3 Consensus size: 38
9581873 GTAGTAATAG
9581883 TAATAAAAACAATAA-TAATAAT-AAATATAATAATAG-AAAA
1 TAATAAAAA-AATAATTAAT--TGAAA-ATAA-AATAGCAAAA
9581923 TAATAATAAAAATAATTAATTTGAAAATAAAATAGCAAAA
1 TAATAA-AAAAATAATTAA-TTGAAAATAAAATAGCAAAA
9581963 TAATAAAAAAA
1 TAATAAAAAAA
9581974 GGACTAAATC
Statistics
Matches: 46, Mismatches: 0, Indels: 11
0.81 0.00 0.19
Matches are distributed among these distances:
39 10 0.22
40 26 0.57
41 9 0.20
42 1 0.02
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.25
Consensus pattern (38 bp):
TAATAAAAAAATAATTAATTGAAAATAAAATAGCAAAA
Found at i:9582408 original size:32 final size:30
Alignment explanation
Indices: 9582350--9582408 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
9582340 TTAAGTTAGA
* **
9582350 TTTTTTTTAAAAAAATTCATTTTTTTCATT
1 TTTTTTTTAAAAAAACTCATCCTTTTCATT
9582380 TTTTTTTTAAAAAACACCTCATCCTTTTC
1 TTTTTTTTAAAAAA-A-CTCATCCTTTTC
9582409 TTGTTCTCTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 14 0.58
31 1 0.04
32 9 0.38
ACGTcount: A:0.29, C:0.15, G:0.00, T:0.56
Consensus pattern (30 bp):
TTTTTTTTAAAAAAACTCATCCTTTTCATT
Found at i:9583238 original size:12 final size:12
Alignment explanation
Indices: 9583221--9583246 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9583211 AAAATAAGGC
9583221 TTTAGCGGCGTT
1 TTTAGCGGCGTT
9583233 TTTAGCGGCGTT
1 TTTAGCGGCGTT
9583245 TT
1 TT
9583247 ATCAATAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:9583515 original size:41 final size:41
Alignment explanation
Indices: 9583277--9583507 Score: 292
Period size: 41 Copynumber: 5.7 Consensus size: 41
9583267 TTGTAAAACA
* * * *
9583277 CAGAGCAATAGCGGCGTTTTTG-T--TACGCCGCTAAA-AA
1 CAGAGCATTAGCGGCGCTTTTGCTAAAACGCCGCTAAAGAC
* * * *
9583314 CTGAGCAATAGCGGCGTTTTCTGGTAAAACGCCGCT-AAGAC
1 CAGAGCATTAGCGGCGCTTT-TGCTAAAACGCCGCTAAAGAC
*
9583355 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
1 CAGAGCATTAGCGGCGCTTTTGCTAAAACGCCGCTAAAGAC
*
9583396 CAGAGCATTAGCGGCCCTTTTGCTAAAACGCCGCTAAAGAC
1 CAGAGCATTAGCGGCGCTTTTGCTAAAACGCCGCTAAAGAC
* * *
9583437 CAGAGCATTATCTGCGCTTTTGCTAAAACGTCGCTAAAGAC
1 CAGAGCATTAGCGGCGCTTTTGCTAAAACGCCGCTAAAGAC
*
9583478 CAGAGCATTAGCGGTGCTTTTGCTAAAACG
1 CAGAGCATTAGCGGCGCTTTTGCTAAAACG
9583508 TCACTAAAAG
Statistics
Matches: 173, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
37 19 0.11
38 2 0.01
39 1 0.01
40 17 0.10
41 134 0.77
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (41 bp):
CAGAGCATTAGCGGCGCTTTTGCTAAAACGCCGCTAAAGAC
Found at i:9584566 original size:18 final size:19
Alignment explanation
Indices: 9584543--9584581 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
9584533 ATCTTTTTTT
9584543 TATTTTT-TATCAAAATAA
1 TATTTTTATATCAAAATAA
*
9584561 TATTTTTATATGAAAATAA
1 TATTTTTATATCAAAATAA
9584580 TA
1 TA
9584582 AATATGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (19 bp):
TATTTTTATATCAAAATAA
Found at i:9586429 original size:19 final size:20
Alignment explanation
Indices: 9586392--9586431 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
9586382 TCAAGGTAGA
9586392 ATATGATTGCTTTGGTCTGC
1 ATATGATTGCTTTGGTCTGC
*
9586412 ATATGATT-CTTTGTTCTGC
1 ATATGATTGCTTTGGTCTGC
9586431 A
1 A
9586432 GACTGAAGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.17, C:0.15, G:0.20, T:0.47
Consensus pattern (20 bp):
ATATGATTGCTTTGGTCTGC
Found at i:9587801 original size:15 final size:15
Alignment explanation
Indices: 9587781--9587809 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
9587771 GGAGTAGACC
9587781 AGGTACGTTTTATTA
1 AGGTACGTTTTATTA
9587796 AGGTACGTTTTATT
1 AGGTACGTTTTATT
9587810 TCAAAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.07, G:0.21, T:0.48
Consensus pattern (15 bp):
AGGTACGTTTTATTA
Found at i:9588488 original size:21 final size:21
Alignment explanation
Indices: 9588459--9588498 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
9588449 GTTTTTATAT
*
9588459 TTTGGTTCAACTTAAGTATTA
1 TTTGATTCAACTTAAGTATTA
9588480 TTTGATTCAACTTAAGTAT
1 TTTGATTCAACTTAAGTAT
9588499 GAATTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (21 bp):
TTTGATTCAACTTAAGTATTA
Found at i:9594825 original size:44 final size:43
Alignment explanation
Indices: 9594690--9594950 Score: 312
Period size: 43 Copynumber: 6.0 Consensus size: 43
9594680 CTGGGAAAAT
*
9594690 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTA
* * * * *
9594733 TAGCGGCG-TTTTTATAAAAGCACCG-TTAAAGTTCTTGGTTTA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTAC-AGGTCTA
* *
9594775 TAGCGGCGTTTTTTTACAAAAGCGTCGCTAAAAGTACAGGTCTA
1 TAGCGGCG-TTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTA
* * *
9594819 TTGCGGCGTTTTTTATAAAAGCGCCGCT-AAAGTTCTTGGTCTA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTAC-AGGTCTA
* *
9594862 TAGCGGCGTTTTTTTACAAAAGCGTCGCTAAAAGTACAGGTCTA
1 TAGCGGCG-TTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTA
* ** *
9594906 TAGCAGCGTTTTTTATAAAAGCGCATCTAAAATTACAGGTCTA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTA
9594949 TA
1 TA
9594951 AAACGCCGCT
Statistics
Matches: 182, Mismatches: 29, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
41 7 0.04
42 34 0.19
43 71 0.39
44 57 0.31
45 13 0.07
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.32
Consensus pattern (43 bp):
TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTA
Found at i:9594864 original size:87 final size:87
Alignment explanation
Indices: 9594690--9594929 Score: 403
Period size: 87 Copynumber: 2.8 Consensus size: 87
9594680 CTGGGAAAAT
* *
9594690 TAGCGGCG-TTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTATAGCGGCG-TTTTTATAAAAG
1 TAGCGGCGTTTTTTTACAAAAGCGTCGCTAAAAGTACAGGTCTATAGCGGCGTTTTTTATAAAAG
* * *
9594753 CACCGTTAAAGTTCTTGGTTTA
66 CGCCGCTAAAGTTCTTGGTCTA
*
9594775 TAGCGGCGTTTTTTTACAAAAGCGTCGCTAAAAGTACAGGTCTATTGCGGCGTTTTTTATAAAAG
1 TAGCGGCGTTTTTTTACAAAAGCGTCGCTAAAAGTACAGGTCTATAGCGGCGTTTTTTATAAAAG
9594840 CGCCGCTAAAGTTCTTGGTCTA
66 CGCCGCTAAAGTTCTTGGTCTA
*
9594862 TAGCGGCGTTTTTTTACAAAAGCGTCGCTAAAAGTACAGGTCTATAGCAGCGTTTTTTATAAAAG
1 TAGCGGCGTTTTTTTACAAAAGCGTCGCTAAAAGTACAGGTCTATAGCGGCGTTTTTTATAAAAG
9594927 CGC
66 CGC
9594930 ATCTAAAATT
Statistics
Matches: 145, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
85 8 0.06
86 40 0.28
87 97 0.67
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (87 bp):
TAGCGGCGTTTTTTTACAAAAGCGTCGCTAAAAGTACAGGTCTATAGCGGCGTTTTTTATAAAAG
CGCCGCTAAAGTTCTTGGTCTA
Found at i:9595046 original size:42 final size:43
Alignment explanation
Indices: 9594950--9595089 Score: 167
Period size: 43 Copynumber: 3.3 Consensus size: 43
9594940 ACAGGTCTAT
* *
9594950 AAAA-CGCCGCTAAAGTTCTTGGTCTATAGCGGCGTTTTTTTA
1 AAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTTTTTA
** *
9594992 AAAAGCATCGCTAAAGGTCTTGGTCTTTGGCGGCGTTTTTTT-
1 AAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTTTTTA
* * * * *
9595034 AAGAGCGCCGCTAAAGGTCCTGGTCTTTAGTGGCGCTTTTATA
1 AAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTTTTTA
*
9595077 AAAAACGCCGCTA
1 AAAAGCGCCGCTA
9595090 TAGACCTATA
Statistics
Matches: 81, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
42 38 0.47
43 43 0.53
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTTTTTA
Found at i:9597632 original size:13 final size:13
Alignment explanation
Indices: 9597614--9597650 Score: 51
Period size: 11 Copynumber: 3.0 Consensus size: 13
9597604 GAATAATAAA
9597614 AAAAATATTATTT
1 AAAAATATTATTT
*
9597627 AAAAATA--AATT
1 AAAAATATTATTT
9597638 AAAAATATTATTT
1 AAAAATATTATTT
9597651 TAAATGGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
11 10 0.50
13 10 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
AAAAATATTATTT
Found at i:9601653 original size:29 final size:29
Alignment explanation
Indices: 9601620--9601710 Score: 73
Period size: 29 Copynumber: 3.2 Consensus size: 29
9601610 TGAAAATGAT
9601620 TTGAAGTCATTGTAAGCATTAATTTCAAG
1 TTGAAGTCATTGTAAGCATTAATTTCAAG
* * ** * *
9601649 TTGAA-T-GTT-TATGGCCATTGAAAAT-GAT
1 TTGAAGTCATTGTA-AG-CATT-AATTTCAAG
9601677 TTGAAGTCATTGTAAGCATTAATTTCAAG
1 TTGAAGTCATTGTAAGCATTAATTTCAAG
9601706 TTGAA
1 TTGAA
9601711 AAAGTATACC
Statistics
Matches: 43, Mismatches: 12, Indels: 14
0.62 0.17 0.20
Matches are distributed among these distances:
26 2 0.05
27 3 0.07
28 14 0.33
29 19 0.44
30 3 0.07
31 2 0.05
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (29 bp):
TTGAAGTCATTGTAAGCATTAATTTCAAG
Found at i:9601683 original size:57 final size:57
Alignment explanation
Indices: 9601595--9601710 Score: 232
Period size: 57 Copynumber: 2.0 Consensus size: 57
9601585 TAAGTTTATA
9601595 AATGTTTATGGCCATTGAAAATGATTTGAAGTCATTGTAAGCATTAATTTCAAGTTG
1 AATGTTTATGGCCATTGAAAATGATTTGAAGTCATTGTAAGCATTAATTTCAAGTTG
9601652 AATGTTTATGGCCATTGAAAATGATTTGAAGTCATTGTAAGCATTAATTTCAAGTTG
1 AATGTTTATGGCCATTGAAAATGATTTGAAGTCATTGTAAGCATTAATTTCAAGTTG
9601709 AA
1 AA
9601711 AAAGTATACC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (57 bp):
AATGTTTATGGCCATTGAAAATGATTTGAAGTCATTGTAAGCATTAATTTCAAGTTG
Found at i:9606342 original size:3 final size:3
Alignment explanation
Indices: 9606334--9606375 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
9606324 TTTTGTCACA
* *
9606334 ATT ATT ATT ATT ATT ATC ATT GTT ATT ATTT ATT -TT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT
9606376 TAATTTTTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:9606361 original size:15 final size:12
Alignment explanation
Indices: 9606335--9606382 Score: 51
Period size: 15 Copynumber: 3.6 Consensus size: 12
9606325 TTTGTCACAA
9606335 TTATTATTATTAT
1 TTATT-TTATTAT
9606348 TATCATTGTTATTAT
1 T-T-ATT-TTATTAT
9606363 TTATTTTATTAT
1 TTATTTTATTAT
9606375 TTAATTTT
1 TT-ATTTT
9606383 TTCCTTTGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
12 9 0.29
13 9 0.29
14 2 0.06
15 11 0.35
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (12 bp):
TTATTTTATTAT
Found at i:9610498 original size:20 final size:21
Alignment explanation
Indices: 9610475--9610527 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
9610465 ATTATTAAAC
*
9610475 ATAT-ATTTAATAATTTATTA
1 ATATAATTTAATAATTTAATA
* *
9610495 ATATAATTTATTATTTTAATA
1 ATATAATTTAATAATTTAATA
9610516 A-ATAATTTAATA
1 ATATAATTTAATA
9610528 TTACAAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATATAATTTAATAATTTAATA
Found at i:9610529 original size:20 final size:21
Alignment explanation
Indices: 9610462--9610529 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
9610452 TATTAATATC
9610462 AATATTATTAA-ACATAT-ATTT
1 AATATT-TTAATA-ATATAATTT
* *
9610483 AATAATTTATTAATATAATTT
1 AATATTTTAATAATATAATTT
*
9610504 ATTATTTTAATAA-ATAATTT
1 AATATTTTAATAATATAATTT
9610524 AATATT
1 AATATT
9610530 ACAAATTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
20 19 0.49
21 20 0.51
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (21 bp):
AATATTTTAATAATATAATTT
Found at i:9615156 original size:9 final size:9
Alignment explanation
Indices: 9615142--9615237 Score: 52
Period size: 9 Copynumber: 9.8 Consensus size: 9
9615132 TAAATGATTT
9615142 TTTTTATAA
1 TTTTTATAA
9615151 TTTTTATATA
1 TTTTTATA-A
*
9615161 TTATTTTTTGAA
1 -T-TTTTAT-AA
9615173 TTTTTAT-A
1 TTTTTATAA
9615181 TTATTTATAAA
1 TT-TTTAT-AA
*
9615192 TTTTTTTACGAA
1 --TTTTTA-TAA
9615204 TTTTTAT-A
1 TTTTTATAA
9615212 TATTTTATAA
1 T-TTTTATAA
*
9615222 ATTTTATAA
1 TTTTTATAA
*
9615231 GTTTTAT
1 TTTTTAT
9615238 TTTAAATTTA
Statistics
Matches: 69, Mismatches: 6, Indels: 24
0.70 0.06 0.24
Matches are distributed among these distances:
8 5 0.07
9 33 0.48
10 13 0.19
11 3 0.04
12 12 0.17
13 3 0.04
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (9 bp):
TTTTTATAA
Found at i:9615177 original size:31 final size:31
Alignment explanation
Indices: 9615142--9615226 Score: 104
Period size: 31 Copynumber: 2.7 Consensus size: 31
9615132 TAAATGATTT
* *
9615142 TTTTTATAATTTTTATATATTATTTTT-TGAA
1 TTTTTATAATTTTTATAAATT-TTTTTACGAA
9615173 TTTTTAT-ATTATTTATAAATTTTTTTACGAA
1 TTTTTATAATT-TTTATAAATTTTTTTACGAA
9615204 TTTTTAT-ATATTTTATAAATTTT
1 TTTTTATAAT-TTTTATAAATTTT
9615227 ATAAGTTTTA
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
30 8 0.16
31 40 0.82
32 1 0.02
ACGTcount: A:0.31, C:0.01, G:0.02, T:0.66
Consensus pattern (31 bp):
TTTTTATAATTTTTATAAATTTTTTTACGAA
Found at i:9615196 original size:20 final size:20
Alignment explanation
Indices: 9615143--9615197 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 20
9615133 AAATGATTTT
9615143 TTTTATAATTTTTATATATTA
1 TTTTATAATTTTT-TATATTA
*
9615164 TTTTTTGAA-TTTTTATATTA
1 TTTTAT-AATTTTTTATATTA
9615184 -TTTATAAATTTTTT
1 TTTTAT-AATTTTTT
9615198 TACGAATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 6 0.21
20 12 0.41
21 9 0.31
22 2 0.07
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTTATAATTTTTTATATTA
Found at i:9617311 original size:10 final size:10
Alignment explanation
Indices: 9617294--9617437 Score: 55
Period size: 10 Copynumber: 15.0 Consensus size: 10
9617284 CATTTTAACA
9617294 ATATATTATT
1 ATATATTATT
9617304 -TCATATTATT
1 AT-ATATTATT
9617314 AT-TATTTATT
1 ATATA-TTATT
9617324 ATATATTATTTT
1 ATATATTA--TT
* *
9617336 CACAAATTATT
1 -ATATATTATT
*
9617347 -TTTATTATT
1 ATATATTATT
* *
9617356 TTACATTATT
1 ATATATTATT
*
9617366 ATTTA-TA-T
1 ATATATTATT
9617374 AT-TATTATT
1 ATATATTATT
9617383 ATA-ATT-TT
1 ATATATTATT
*
9617391 ACT-T-GTATT
1 A-TATATTATT
9617400 ATATA-T-TT
1 ATATATTATT
9617408 AT-TAATTATT
1 ATAT-ATTATT
9617418 -TATATATATT
1 ATATAT-TATT
9617428 ATATATTATT
1 ATATATTATT
9617438 TTTACATATA
Statistics
Matches: 101, Mismatches: 11, Indels: 44
0.65 0.07 0.28
Matches are distributed among these distances:
7 3 0.03
8 15 0.15
9 27 0.27
10 38 0.38
11 10 0.10
12 2 0.02
13 6 0.06
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (10 bp):
ATATATTATT
Found at i:9617330 original size:30 final size:32
Alignment explanation
Indices: 9617294--9617438 Score: 105
Period size: 33 Copynumber: 4.3 Consensus size: 32
9617284 CATTTTAACA
9617294 ATATATTATTT-CATATTATTATTATT-TATT
1 ATATATTATTTACATATTATTATTATTATATT
* * *
9617324 ATATATTATTTTCACAAATTATTTTTATTATTTT
1 ATATATTA-TTT-ACATATTATTATTATTATATT
* * * *
9617358 ACATTATTATTTATATATTATTATTATAATTTT
1 ATA-TATTATTTACATATTATTATTATTATATT
* * **
9617391 ACTTGTATTATATATTTATTAATTATTTATATATATT
1 A--TATATTATTTACATATT-ATTA-TTAT-TATATT
9617428 ATATATTATTT
1 ATATATTATTT
9617439 TTACATATAT
Statistics
Matches: 89, Mismatches: 16, Indels: 15
0.74 0.13 0.12
Matches are distributed among these distances:
30 8 0.09
31 3 0.03
33 31 0.35
34 21 0.24
35 17 0.19
36 4 0.04
37 5 0.06
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.61
Consensus pattern (32 bp):
ATATATTATTTACATATTATTATTATTATATT
Found at i:9617355 original size:22 final size:24
Alignment explanation
Indices: 9617322--9617379 Score: 77
Period size: 22 Copynumber: 2.5 Consensus size: 24
9617312 TTATTATTTA
9617322 TTATATATTATTTTCACA-AATTAT
1 TTATATATTATTTT-ACATAATTAT
*
9617346 TT-T-TATTATTTTACATTATTAT
1 TTATATATTATTTTACATAATTAT
9617368 TTATATATTATT
1 TTATATATTATT
9617380 ATTATAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
21 3 0.10
22 16 0.53
23 2 0.07
24 9 0.30
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (24 bp):
TTATATATTATTTTACATAATTAT
Found at i:9617495 original size:16 final size:14
Alignment explanation
Indices: 9617472--9617518 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
9617462 ATAAATTATA
9617472 ATTA-TTTTATATT
1 ATTATTTTTATATT
*
9617485 ATGTCATTTTTATACT
1 AT-T-ATTTTTATATT
9617501 ATTATTTTTATATT
1 ATTATTTTTATATT
9617515 -TTAT
1 ATTAT
9617519 ATAATTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
13 6 0.21
14 11 0.38
15 2 0.07
16 10 0.34
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (14 bp):
ATTATTTTTATATT
Found at i:9617526 original size:15 final size:15
Alignment explanation
Indices: 9617508--9617562 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
9617498 ACTATTATTT
9617508 TTATATTTTATATAA
1 TTATATTTTATATAA
9617523 TTATTATTCTTATA-AA
1 TTA-TATT-TTATATAA
9617539 -TATATTTTTATTATATA
1 TTATA-TTTTA-TATA-A
9617556 TTATATT
1 TTATATT
9617563 ATTAAATATC
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
14 5 0.15
15 9 0.27
16 7 0.21
17 8 0.24
18 4 0.12
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (15 bp):
TTATATTTTATATAA
Found at i:9617569 original size:30 final size:30
Alignment explanation
Indices: 9617509--9617588 Score: 76
Period size: 30 Copynumber: 2.6 Consensus size: 30
9617499 CTATTATTTT
* *
9617509 TATATTTTATATAAT-TATTATTCTTATAAA
1 TATATTTT-TATTATATATTATTATTATAAA
9617539 TATATTTTTATTATATATTA-TATTATTAAA
1 TATATTTTTATTATATATTATTATTA-TAAA
9617569 TATCACATTTTT-TTATATAT
1 TAT---ATTTTTATTATATAT
9617589 GCTCATTCTA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
29 9 0.21
30 20 0.47
32 8 0.19
33 6 0.14
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.59
Consensus pattern (30 bp):
TATATTTTTATTATATATTATTATTATAAA
Found at i:9619236 original size:14 final size:14
Alignment explanation
Indices: 9619214--9619306 Score: 64
Period size: 14 Copynumber: 6.2 Consensus size: 14
9619204 ATAAATCATG
9619214 TGATAAAAATATATA
1 TGAT-AAAATATATA
*
9619229 TGATAAAATGTATA
1 TGATAAAATATATA
* *
9619243 TAATATAATATATA
1 TGATAAAATATATA
9619257 T-ATATAAATATCATAA
1 TGATA-AAATAT-AT-A
*
9619273 GGAGTAAAATATAATA
1 TGA-TAAAATAT-ATA
9619289 TGTAATAAAATA-ATA
1 TG--ATAAAATATATA
9619304 TGA
1 TGA
9619307 AAACAAATAA
Statistics
Matches: 63, Mismatches: 8, Indels: 16
0.72 0.09 0.18
Matches are distributed among these distances:
13 4 0.06
14 26 0.41
15 11 0.17
16 3 0.05
17 16 0.25
18 3 0.05
ACGTcount: A:0.56, C:0.01, G:0.09, T:0.34
Consensus pattern (14 bp):
TGATAAAATATATA
Found at i:9619530 original size:8 final size:8
Alignment explanation
Indices: 9619517--9619549 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
9619507 TGCCATATAA
9619517 AATAATAT
1 AATAATAT
9619525 AATAATAT
1 AATAATAT
9619533 -ATAATAT
1 AATAATAT
*
9619540 AATAAAAT
1 AATAATAT
9619548 AA
1 AA
9619550 ATGTATTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
7 7 0.30
8 16 0.70
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
AATAATAT
Found at i:9619536 original size:20 final size:20
Alignment explanation
Indices: 9619511--9619549 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9619501 TATATATGCC
*
9619511 ATATAAAATAATATAATAAT
1 ATATAAAATAATAAAATAAT
*
9619531 ATATAATATAATAAAATAA
1 ATATAAAATAATAAAATAA
9619550 ATGTATTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
ATATAAAATAATAAAATAAT
Found at i:9620080 original size:13 final size:13
Alignment explanation
Indices: 9620062--9620086 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9620052 TAAAAAAAAC
9620062 TTTAAACATTCAT
1 TTTAAACATTCAT
9620075 TTTAAACATTCA
1 TTTAAACATTCA
9620087 ACAAAAAAAA
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:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTAAACATTCAT
Found at i:9621320 original size:88 final size:85
Alignment explanation
Indices: 9621189--9621686 Score: 257
Period size: 88 Copynumber: 5.7 Consensus size: 85
9621179 ACAATACAGA
* * * * * * *
9621189 GATGCGAAACCATCTTAGATTTGCTTCAACGT-AAACATGTGAAAGCCCAAATCTGCTATATCTT
1 GATGCCAAATCATCTTGGATCTGCTTC-A-GTGAAACATCTGAAAG-TCAAATCTGCTATGTCTT
9621253 TGATTCACTCCTTGTAAACATAAG
63 TGATTCACTCCTTGT-AACATAAG
* * * * *
9621277 GATGCCAAATCATCTTGGATCTGCTTCAGTGAAATCATCTGAAAGTTAGATCTGCTGTGTATCTG
1 GATGCCAAATCATCTTGGATCTGCTTCAGTGAAA-CATCTGAAAGTCAAATCTGCTATGTCTTTG
* * * * *
9621342 -CTCTCT-ATCG-AA-AT-GG
65 ATTCACTCCTTGTAACATAAG
* **
9621358 AGATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCTGAAAGTCAAATCTGCTAT
1 -GATGCCAAATC----ATCTTGGATCTGC-TT-CAGTGA-AACATCTGAAAGTCAAATCTGCTAT
* * *
9621423 GTCTTCGATTTACTCCTTGTGAACACAAG
58 GTCTTTGATTCACTCCTTGT-AACATAAG
* * * * * *
9621452 GATGCCAAATCATCTTGGATCTGCTTCAGTAAAATTATCTGAAGGTTAGATCTGCTATG--TAT-
1 GATGCCAAATCATCTTGGATCTGCTTCAGTGAAA-CATCTGAAAGTCAAATCTGCTATGTCTTTG
* * * * *
9621514 ATGCTCT-C-AGTCAAAAT-GG
65 ATTCACTCCTTGT-AACATAAG
* * *
9621533 AGATGCCAGATCTGTTATCTTGGATCTACTTTAATGTGAGAACAT-TCGAAAGTCAAATCTGCTA
1 -GATGCCAAATC----ATCTTGGATCTGC-TTCA-GTGA-AACATCT-GAAAGTCAAATCTGCTA
* ** *
9621597 TGTCTTCGATTTGCTCCTTGTGAACACAAG
57 TGTCTTTGATTCACTCCTTGT-AACATAAG
* * * *
9621627 GATGCCAAATCATCTTGGATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGT
1 GATGCCAAATCATCTTGGATCTGCTTCAGTGAAA-CATCTGAAAGTCAAATCTGCTATGT
9621687 ATCTGCTCTC
Statistics
Matches: 300, Mismatches: 76, Indels: 69
0.67 0.17 0.16
Matches are distributed among these distances:
81 2 0.01
82 27 0.09
83 3 0.01
84 4 0.01
85 3 0.01
86 35 0.12
87 69 0.23
88 87 0.29
89 32 0.11
90 3 0.01
91 4 0.01
92 3 0.01
93 26 0.09
94 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.33
Consensus pattern (85 bp):
GATGCCAAATCATCTTGGATCTGCTTCAGTGAAACATCTGAAAGTCAAATCTGCTATGTCTTTGA
TTCACTCCTTGTAACATAAG
Found at i:9621386 original size:86 final size:84
Alignment explanation
Indices: 9621288--9621738 Score: 289
Period size: 88 Copynumber: 5.2 Consensus size: 84
9621278 ATGCCAAATC
*
9621288 ATCTTGGATCTGCTTCAGTGAAATCATCTGAAAGTTAGATCTGCTGTGTATCTGCTCTCTATCGA
1 ATCTTGGATCTGCTTCAGTGAAATCATCTGAAAGTTAGATCTGCTATGTATCTGCTCTCT-TCGA
9621353 AATGGAGATGCCAGATCTGTT
65 AATGGAGATGCCAGATCT-TT
** * * * *
9621374 ATCTTGGATCTGCTTTGGTGTGAGAA-CATCTGAAAGTCAAATCTGCTATGTCT-TCGATTTACT
1 ATCTTGGATCTGC-TT-CAGTGA-AATCATCTGAAAGTTAGATCTGCTATGTATCT-G--CT-CT
* ** *
9621437 CCTTGTGAACA-CAAGGATGCCAAATC---
59 -CTT-CGAA-ATGGA-GATGCCAGATCTTT
* * * * * *
9621463 ATCTTGGATCTGCTTCAGTAAAATTATCTGAAGGTTAGATCTGCTATGTATATGCTCTCAGTCAA
1 ATCTTGGATCTGCTTCAGTGAAATCATCTGAAAGTTAGATCTGCTATGTATCTGCTCTC-TTCGA
9621528 AATGGAGATGCCAGATCTGTT
65 AATGGAGATGCCAGATCT-TT
* * * * *
9621549 ATCTTGGATCTACTTTAATGTGAGAA-CAT-TCGAAAGTCAAATCTGCTATGTCTTCGATTTGCT
1 ATCTTGGATCTGC-TTCA-GTGA-AATCATCT-GAAAGTTAGATCTGCTATG---T--ATCTGCT
* ** *
9621612 C-CTTGTGAACA-CAAGGATGCCAAATC---
57 CTCTT-CGAA-ATGGA-GATGCCAGATCTTT
* * *
9621638 ATCTTGGATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGA
1 ATCTTGGATCTGCTTCAGTGAAATCATCTGAAAGTTAGATCTGCTATGTATCTGCTCT-CTTCGA
9621703 AATGGAGATGCCAGATCTATT
65 AATGGAGATGCCAGATCT-TT
9621724 ATCTTGGATCTGCTT
1 ATCTTGGATCTGCTT
9621739 TGATAGGAGA
Statistics
Matches: 273, Mismatches: 52, Indels: 80
0.67 0.13 0.20
Matches are distributed among these distances:
82 29 0.11
83 8 0.03
84 6 0.02
85 1 0.00
86 44 0.16
87 55 0.20
88 56 0.21
89 29 0.11
90 1 0.00
91 5 0.02
92 10 0.04
93 29 0.11
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.34
Consensus pattern (84 bp):
ATCTTGGATCTGCTTCAGTGAAATCATCTGAAAGTTAGATCTGCTATGTATCTGCTCTCTTCGAA
ATGGAGATGCCAGATCTTT
Found at i:9621511 original size:87 final size:87
Alignment explanation
Indices: 9621414--9621686 Score: 253
Period size: 87 Copynumber: 3.1 Consensus size: 87
9621404 TGAAAGTCAA
*
9621414 ATCTGCTATGTCTTCGATTTACTCCTTGTGAACACAAGGATGCCAAATCATCTTGGATCTGCTTC
1 ATCTGCTATGTCTTCGATTTGCTCCTTGTGAACACAAGGATGCCAAATCATCTTGGATCTGCTTC
9621479 AGTAAAATTATCTGAAGGTTAG
66 AGTAAAATTATCTGAAGGTTAG
* * * * *
9621501 ATCTGCTATG---T--ATATGCT-CTCAGTCAA-A-ATGGAGATGCCAGATCTGTTATCTTGGAT
1 ATCTGCTATGTCTTCGATTTGCTCCT-TGTGAACACA-AG-GATGCCAAATC----ATCTTGGAT
* * * * *
9621558 CTACTTTAATGTGAGAACA-T-TC-GAAAGTCAA
59 CTGC-TTCA-GT-A-AA-ATTATCTGAAGGTTAG
9621589 ATCTGCTATGTCTTCGATTTGCTCCTTGTGAACACAAGGATGCCAAATCATCTTGGATCTGCTTC
1 ATCTGCTATGTCTTCGATTTGCTCCTTGTGAACACAAGGATGCCAAATCATCTTGGATCTGCTTC
*
9621654 AGTAAAATCATCTGAAGGTTAG
66 AGTAAAATTATCTGAAGGTTAG
9621676 ATCTGCTATGT
1 ATCTGCTATGT
9621687 ATCTGCTCTC
Statistics
Matches: 141, Mismatches: 22, Indels: 46
0.67 0.11 0.22
Matches are distributed among these distances:
80 1 0.01
81 4 0.03
82 19 0.13
84 2 0.01
85 2 0.01
86 15 0.11
87 32 0.23
88 21 0.15
89 15 0.11
90 3 0.02
91 2 0.01
93 20 0.14
94 4 0.03
95 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (87 bp):
ATCTGCTATGTCTTCGATTTGCTCCTTGTGAACACAAGGATGCCAAATCATCTTGGATCTGCTTC
AGTAAAATTATCTGAAGGTTAG
Found at i:9621787 original size:175 final size:175
Alignment explanation
Indices: 9621236--9621783 Score: 866
Period size: 175 Copynumber: 3.1 Consensus size: 175
9621226 TGTGAAAGCC
* * * * *
9621236 CAAATCTGCTATATCTTTGATTCACTCCTTGTAAACATAAGGATGCCAAATCATCTTGGATCTGC
1 CAAATCTGCTATGTCTTCGATTTACTCCTTGTGAACACAAGGATGCCAAATCATCTTGGATCTGC
* * *
9621301 TTCAGTGAAATCATCTGAAAGTTAGATCTGCTGTGTATCTGCTCTCTA-TCGAAATGGAGATGCC
66 TTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTC-AGTCGAAATGGAGATGCC
* *
9621365 AGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCTGAAAGT
130 AGATCTGTTATCTTGGATCTGCTTTGATGTGAGAACATCCGAAAGT
9621411 CAAATCTGCTATGTCTTCGATTTACTCCTTGTGAACACAAGGATGCCAAATCATCTTGGATCTGC
1 CAAATCTGCTATGTCTTCGATTTACTCCTTGTGAACACAAGGATGCCAAATCATCTTGGATCTGC
* * *
9621476 TTCAGTAAAATTATCTGAAGGTTAGATCTGCTATGTATATGCTCTCAGTCAAAATGGAGATGCCA
66 TTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCAGTCGAAATGGAGATGCCA
* * *
9621541 GATCTGTTATCTTGGATCTACTTTAATGTGAGAACATTCGAAAGT
131 GATCTGTTATCTTGGATCTGCTTTGATGTGAGAACATCCGAAAGT
*
9621586 CAAATCTGCTATGTCTTCGATTTGCTCCTTGTGAACACAAGGATGCCAAATCATCTTGGATCTGC
1 CAAATCTGCTATGTCTTCGATTTACTCCTTGTGAACACAAGGATGCCAAATCATCTTGGATCTGC
*
9621651 TTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCA
66 TTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCAGTCGAAATGGAGATGCCA
*
9621716 GATCTATTATCTTGGATCTGCTTTGATAG-GAGAACATCCGAAAGT
131 GATCTGTTATCTTGGATCTGCTTTGAT-GTGAGAACATCCGAAAGT
* * *
9621761 CAGATCTGTTATGTCTTTGATTT
1 CAAATCTGCTATGTCTTCGATTT
9621784 GCTCTCCGTC
Statistics
Matches: 343, Mismatches: 28, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
174 1 0.00
175 341 0.99
176 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (175 bp):
CAAATCTGCTATGTCTTCGATTTACTCCTTGTGAACACAAGGATGCCAAATCATCTTGGATCTGC
TTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCAGTCGAAATGGAGATGCCA
GATCTGTTATCTTGGATCTGCTTTGATGTGAGAACATCCGAAAGT
Found at i:9631264 original size:484 final size:484
Alignment explanation
Indices: 9630348--9631277 Score: 1698
Period size: 484 Copynumber: 1.9 Consensus size: 484
9630338 GAAGTTCTCC
* * *
9630348 CTTCCATTGTTCCTCTCTTGCCTCAAGCTGCTCAATCCGTAGCTCACGGCCCTGTAGTGCTGCTT
1 CTTCCATTGTTCCTCTCTTGCCTCAAGCTGCTCAATCCGTAGCTCACAGCCATATAGTGCTGCTT
*
9630413 CCAACTCTCCAATATTGTGCTTCATTTTCTCGATCTTGTCCAAGCTTGCCTTTAACTCGATCGCA
66 CCAACTCTCCAATATCGTGCTTCATTTTCTCGATCTTGTCCAAGCTTGCCTTTAACTCGATCGCA
9630478 GAGTTACGACTTCGGTAATGATGAAGAGATCGTCCAAGCTCTGTCACCTTAACTTTTAGCCCTTG
131 GAGTTACGACTTCGGTAATGATGAAGAGATCGTCCAAGCTCTGTCACCTTAACTTTTAGCCCTTG
*
9630543 ATTTTCTTTTTCTAGGGTCTGATTACGCGACTGCATCTCTTGGAACTTCTTCTCCCAATATTCGG
196 ATTTTCTTTTTCTAGGGTCTAATTACGCGACTGCATCTCTTGGAACTTCTTCTCCCAATATTCGG
* * * *
9630608 CCTTAGCTCTTTCCTCTTGAATCTCATGCTGGCACTACTCTGAAGAGCTTCCTAATCTGACCCTT
261 CCTTAGCTCTTTCCTCTTGAATCTCATGCTGCCACTACTCTGAAGACCTCCCTAATCCGACCCTT
9630673 TTCAATGTTACCTGAGCCTTCTTATAATGCGTCTTTAAGTTATCTCGATCTTCCTCGACCTTTCT
326 TTCAATGTTACCTGAGCCTTCTTATAATGCGTCTTTAAGTTATCTCGATCTTCCTCGACCTTTCT
* *
9630738 CTTTTCCTTTTTCACCTTCTCAACTTCCATCTTTTGAACGTCAACATCGAGACTCACAGCCCTGT
391 CTTTTCCTTTTTCACCTTCTCAACTTCCATATTTTAAACGTCAACATCGAGACTCACAGCCCTGT
9630803 AGTGCTGCTTCCAACTCTCCAATGTTGTA
456 AGTGCTGCTTCCAACTCTCCAATGTTGTA
*
9630832 CTTCCATTGTTCTTCTCTTGCCTCAAGCTGCTCAATCCGTAGCTCACAGCCATATAGTGCTGCTT
1 CTTCCATTGTTCCTCTCTTGCCTCAAGCTGCTCAATCCGTAGCTCACAGCCATATAGTGCTGCTT
* *
9630897 CCAACTCTCCAATGTCGTGCTTCATTTTCTCGATCTTGTCCAAGCTTGCCTTTAACTCGATCGTA
66 CCAACTCTCCAATATCGTGCTTCATTTTCTCGATCTTGTCCAAGCTTGCCTTTAACTCGATCGCA
9630962 GAGTTACGACTTCGGTAATGATGAAGAGATCGTCCAAGCTCTGTCACCTTAACTTTTAGCCCTTG
131 GAGTTACGACTTCGGTAATGATGAAGAGATCGTCCAAGCTCTGTCACCTTAACTTTTAGCCCTTG
*
9631027 ATTTTCTTTTTCTAGGGTCTAATTACGCGACTGCATCTCTTGGAATTTCTTCTCCCAATATTCGG
196 ATTTTCTTTTTCTAGGGTCTAATTACGCGACTGCATCTCTTGGAACTTCTTCTCCCAATATTCGG
*
9631092 CCTTAGCTCTTTCCTCTTGAATCTCATGCTGCCACTGCTCTGAAGACCTCCCTAATCCGACCCTT
261 CCTTAGCTCTTTCCTCTTGAATCTCATGCTGCCACTACTCTGAAGACCTCCCTAATCCGACCCTT
*
9631157 TTCAATGTTACCTGGGCCTTCTTATAATGCGTCTTTAAGTTATCTCGATCTTCCTCGACCTTTCT
326 TTCAATGTTACCTGAGCCTTCTTATAATGCGTCTTTAAGTTATCTCGATCTTCCTCGACCTTTCT
*
9631222 CTTTTCCTTTTTCACCTTCTCGACTTCCATATTTTAAACGTCAACATCGAGACTCA
391 CTTTTCCTTTTTCACCTTCTCAACTTCCATATTTTAAACGTCAACATCGAGACTCA
9631278 AGCACATTTT
Statistics
Matches: 428, Mismatches: 18, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
484 428 1.00
ACGTcount: A:0.19, C:0.29, G:0.15, T:0.37
Consensus pattern (484 bp):
CTTCCATTGTTCCTCTCTTGCCTCAAGCTGCTCAATCCGTAGCTCACAGCCATATAGTGCTGCTT
CCAACTCTCCAATATCGTGCTTCATTTTCTCGATCTTGTCCAAGCTTGCCTTTAACTCGATCGCA
GAGTTACGACTTCGGTAATGATGAAGAGATCGTCCAAGCTCTGTCACCTTAACTTTTAGCCCTTG
ATTTTCTTTTTCTAGGGTCTAATTACGCGACTGCATCTCTTGGAACTTCTTCTCCCAATATTCGG
CCTTAGCTCTTTCCTCTTGAATCTCATGCTGCCACTACTCTGAAGACCTCCCTAATCCGACCCTT
TTCAATGTTACCTGAGCCTTCTTATAATGCGTCTTTAAGTTATCTCGATCTTCCTCGACCTTTCT
CTTTTCCTTTTTCACCTTCTCAACTTCCATATTTTAAACGTCAACATCGAGACTCACAGCCCTGT
AGTGCTGCTTCCAACTCTCCAATGTTGTA
Found at i:9634509 original size:14 final size:14
Alignment explanation
Indices: 9634487--9634577 Score: 62
Period size: 14 Copynumber: 6.2 Consensus size: 14
9634477 ATAAATCATG
9634487 TGATAAAAATATATA
1 TGAT-AAAATATATA
*
9634502 TGATAAAATGTATA
1 TGATAAAATATATA
* *
9634516 TAATATAATATATA
1 TGATAAAATATATA
9634530 T-A-AAAATATCATAA
1 TGATAAAATAT-AT-A
*
9634544 GGAGTAAAATATAATA
1 TGA-TAAAATAT-ATA
9634560 TGTAATAAAATA-ATA
1 TG--ATAAAATATATA
9634575 TGA
1 TGA
9634578 AAACAAATAA
Statistics
Matches: 61, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
12 6 0.10
13 4 0.07
14 22 0.36
15 10 0.16
16 2 0.03
17 16 0.26
18 1 0.02
ACGTcount: A:0.57, C:0.01, G:0.09, T:0.33
Consensus pattern (14 bp):
TGATAAAATATATA
Found at i:9634568 original size:17 final size:16
Alignment explanation
Indices: 9634504--9634571 Score: 55
Period size: 17 Copynumber: 4.1 Consensus size: 16
9634494 AATATATATG
* *
9634504 ATAAAATGTATATAAT
1 ATAATATGTATAAAAT
*
9634520 ATAATATATATAAAAAT
1 ATAATATGTAT-AAAAT
* * *
9634537 ATCATAAGGAGTAAAAT
1 ATAATATGTA-TAAAAT
9634554 ATAATATGTAATAAAAT
1 ATAATATGT-ATAAAAT
9634571 A
1 A
9634572 ATATGAAAAC
Statistics
Matches: 39, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
16 9 0.23
17 28 0.72
18 2 0.05
ACGTcount: A:0.59, C:0.01, G:0.07, T:0.32
Consensus pattern (16 bp):
ATAATATGTATAAAAT
Found at i:9634798 original size:8 final size:8
Alignment explanation
Indices: 9634785--9634817 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
9634775 TGCCATATAA
9634785 AATAATAT
1 AATAATAT
9634793 AATAATAT
1 AATAATAT
9634801 -ATAATAT
1 AATAATAT
*
9634808 AATAAAAT
1 AATAATAT
9634816 AA
1 AA
9634818 ATGTATTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
7 7 0.30
8 16 0.70
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
AATAATAT
Found at i:9634802 original size:20 final size:20
Alignment explanation
Indices: 9634779--9634817 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9634769 TATATATGCC
*
9634779 ATATAAAATAATATAATAAT
1 ATATAAAATAATAAAATAAT
*
9634799 ATATAATATAATAAAATAA
1 ATATAAAATAATAAAATAA
9634818 ATGTATTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
ATATAAAATAATAAAATAAT
Found at i:9635350 original size:13 final size:13
Alignment explanation
Indices: 9635332--9635356 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9635322 AAAAAAAAAC
9635332 TTTAAACATTCAT
1 TTTAAACATTCAT
9635345 TTTAAACATTCA
1 TTTAAACATTCA
9635357 ACAGAAAAAA
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:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTAAACATTCAT
Found at i:9643384 original size:26 final size:26
Alignment explanation
Indices: 9643351--9643403 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
9643341 AACTTTACCT
9643351 TTACCCTTTATTTTGCTCAGCTGTCC
1 TTACCCTTTATTTTGCTCAGCTGTCC
*
9643377 TTACCCTTTATTTTGCTCAGCTTTCC
1 TTACCCTTTATTTTGCTCAGCTGTCC
9643403 T
1 T
9643404 GCCTTCCTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.11, C:0.30, G:0.09, T:0.49
Consensus pattern (26 bp):
TTACCCTTTATTTTGCTCAGCTGTCC
Found at i:9643824 original size:16 final size:16
Alignment explanation
Indices: 9643748--9643841 Score: 61
Period size: 16 Copynumber: 6.0 Consensus size: 16
9643738 TTATTCCTTA
*
9643748 TTCTGCT-TTTGGTTT
1 TTCTGCTATTGGGTTT
*
9643763 TTCTGCTATTGTGTTT
1 TTCTGCTATTGGGTTT
* * * *
9643779 AT-AGTTTTTGTGGTTT
1 TTCTGCTATTG-GGTTT
*
9643795 TTCT--TATTTTGGTTT
1 TTCTGCTA-TTGGGTTT
9643810 TTCTGCTATTGGGTTT
1 TTCTGCTATTGGGTTT
* *
9643826 TCCTGCTATTGTGTTT
1 TTCTGCTATTGGGTTT
9643842 ATAGTTTGTG
Statistics
Matches: 59, Mismatches: 14, Indels: 11
0.70 0.17 0.13
Matches are distributed among these distances:
15 22 0.37
16 35 0.59
17 2 0.03
ACGTcount: A:0.06, C:0.11, G:0.20, T:0.63
Consensus pattern (16 bp):
TTCTGCTATTGGGTTT
Found at i:9643825 original size:63 final size:63
Alignment explanation
Indices: 9643748--9643946 Score: 319
Period size: 63 Copynumber: 3.2 Consensus size: 63
9643738 TTATTCCTTA
* *
9643748 TTCTGCT-TTTGGTTTTTCTGCTATTGTGTTTATAGTTTTTGTGGTTTTTCTTATTTTGGTTT
1 TTCTGCTATTGGGTTTTTCTGCTATTGTGTTTATAGTTTTTGTGGTTTTTCTTATTCTGGTTT
* *
9643810 TTCTGCTATTGGGTTTTCCTGCTATTGTGTTTATAGTTTGTGTGGTTTTTCTTATTCTGGTTT
1 TTCTGCTATTGGGTTTTTCTGCTATTGTGTTTATAGTTTTTGTGGTTTTTCTTATTCTGGTTT
* * * *
9643873 TTCTTCTATTGGGGTTTTCTACTATTGTGTTTATAGTTTTTGTGGGTTTTCTTATTCTGGTTT
1 TTCTGCTATTGGGTTTTTCTGCTATTGTGTTTATAGTTTTTGTGGTTTTTCTTATTCTGGTTT
9643936 TTCTGCTATTG
1 TTCTGCTATTG
9643947 CAGTCTCTAG
Statistics
Matches: 125, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
62 7 0.06
63 118 0.94
ACGTcount: A:0.08, C:0.10, G:0.21, T:0.61
Consensus pattern (63 bp):
TTCTGCTATTGGGTTTTTCTGCTATTGTGTTTATAGTTTTTGTGGTTTTTCTTATTCTGGTTT
Found at i:9654418 original size:127 final size:127
Alignment explanation
Indices: 9654273--9654569 Score: 470
Period size: 127 Copynumber: 2.3 Consensus size: 127
9654263 AATGTTTGAT
* * *
9654273 GTTTGGAAATTCGGGGAATCGTGCCCTATAGTGCTGGGTTTCGATTTCCCGTTTGTTCAAAATAA
1 GTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCGATTTCCCGTTTGTTCAAAACAA
*
9654338 TCGCATATTCCTTTAGAATTTCACTCATGTTTT-TCAAATTCTAAAACAAGGCAATGTTCAAC
66 TCGAATATTCCTTTAGAATTTCACTCATGTTTTAT-AAATTCTAAAACAAGGCAATGTTCAAC
*
9654400 GTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCGATTTCCGGTTTGTTCAAAACAA
1 GTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCGATTTCCCGTTTGTTCAAAACAA
* * * * * *
9654465 TTGAATATTCCTTTAGAATTTCCCTCGTGTTTTATAAATTCTAAAATAAGGCAATTTTCAAT
66 TCGAATATTCCTTTAGAATTTCACTCATGTTTTATAAATTCTAAAACAAGGCAATGTTCAAC
*
9654527 GTTTGGAAATTCGAGGAATCGTGCCCTACCGTGCTGGGTTTCG
1 GTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCG
9654570 GTTTTTCATT
Statistics
Matches: 157, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
127 156 0.99
128 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.36
Consensus pattern (127 bp):
GTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCGATTTCCCGTTTGTTCAAAACAA
TCGAATATTCCTTTAGAATTTCACTCATGTTTTATAAATTCTAAAACAAGGCAATGTTCAAC
Found at i:9666350 original size:45 final size:44
Alignment explanation
Indices: 9666249--9666623 Score: 233
Period size: 45 Copynumber: 8.4 Consensus size: 44
9666239 GCAAACCTTA
* * * * *
9666249 TCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAG-TAGCAAGTCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATTGCAA-TCTTG
* *
9666293 TCTCCCTGAAGTTGTAGTGGAGCAAATTGAAGATTGCAGATCTTG
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATTGCA-ATCTTG
* * *** * *
9666338 TCTCCCTGAAGTTGTAGTGGAGCAGATCGAAG-CCACAATCCATA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATTGCAAT-CTTG
** * * *
9666382 TCTCTTTGAAGTTGCAGTAGAGCAGGA-T-AAAATTACCCAAGTCTTG
1 TCTCCCTGAAGTTGCAGTGGAGCA-GATTGAAGATT--GCAA-TCTTG
*
9666428 TCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATTGCAGATCTTG
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATTGCA-ATCTTG
* * *** *
9666473 TCTCCCTGAAGTTGCAATGGAGCAGATCGAAG-CCACAATCCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATTGCAAT-CTTG
* * * * * *
9666517 TCTCTCTGAAGTTGCAGTAGAGTAGACTAAAG-TTAGCAGATCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATT-GCA-ATCTTG
* * * ** * *
9666562 TCTCCCGGAAATTACAGTGGAGCAGATCAAAG-TTACAATCCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATTGCAAT-CTTG
*
9666606 TCTCTCTGAAGTTGCAGT
1 TCTCCCTGAAGTTGCAGT
9666624 AGAGTAGGAT
Statistics
Matches: 256, Mismatches: 60, Indels: 30
0.74 0.17 0.09
Matches are distributed among these distances:
43 8 0.03
44 101 0.39
45 110 0.43
46 31 0.12
47 6 0.02
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (44 bp):
TCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATTGCAATCTTG
Found at i:9666494 original size:135 final size:133
Alignment explanation
Indices: 9666247--9666538 Score: 458
Period size: 135 Copynumber: 2.2 Consensus size: 133
9666237 TAGCAAACCT
** * *
9666247 TATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGTAGCAAGTCTTATCTCCCTGAAGTTGTAGTG
1 TATCTCTCTGAAGTTGCAGTAGAGCAGGTAAAAGTACCAAGTCTTATCTCCCTGAAGTTGCAGTG
* * *
9666312 GAGCAAATTGAAGATTGCAGATCTTGTCTCCCTGAAGTTGTAGTGGAGCAGATCGAAGCCACAAT
66 GAGCAAACTGAAGATTGCAGATCTTGTCTCCCTGAAGTTGCAATGGAGCAGATCGAAGCCACAAT
9666377 CCA
131 CCA
* * *
9666380 TATCTCTTTGAAGTTGCAGTAGAGCAGGATAAAATTACCCAAGTCTTGTCTCCCTGAAGTTGCAG
1 TATCTCTCTGAAGTTGCAGTAGAGCAGG-TAAAAGTA-CCAAGTCTTATCTCCCTGAAGTTGCAG
*
9666445 TGGAGCAGACTGAAGATTGCAGATCTTGTCTCCCTGAAGTTGCAATGGAGCAGATCGAAGCCACA
64 TGGAGCAAACTGAAGATTGCAGATCTTGTCTCCCTGAAGTTGCAATGGAGCAGATCGAAGCCACA
*
9666510 ATCCT
129 ATCCA
9666515 TATCTCTCTGAAGTTGCAGTAGAG
1 TATCTCTCTGAAGTTGCAGTAGAG
9666539 TAGACTAAAG
Statistics
Matches: 144, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
133 27 0.19
134 5 0.03
135 112 0.78
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (133 bp):
TATCTCTCTGAAGTTGCAGTAGAGCAGGTAAAAGTACCAAGTCTTATCTCCCTGAAGTTGCAGTG
GAGCAAACTGAAGATTGCAGATCTTGTCTCCCTGAAGTTGCAATGGAGCAGATCGAAGCCACAAT
CCA
Found at i:9666544 original size:89 final size:89
Alignment explanation
Indices: 9666428--9666630 Score: 282
Period size: 89 Copynumber: 2.3 Consensus size: 89
9666418 CCAAGTCTTG
* * * * * * * *
9666428 TCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATT-GCAGATCTTGTCTCCCTGAAGTTGCAATG
1 TCTCTCTGAAGTTGCAGTAGAGTAGACTAAAG-TTAGCAGATCTTATCTCCCGGAAATTACAATG
*
9666492 GAGCAGATCGAAGCCACAATCCTTA
65 GAGCAGATCAAAGCCACAATCCTTA
*
9666517 TCTCTCTGAAGTTGCAGTAGAGTAGACTAAAGTTAGCAGATCTTATCTCCCGGAAATTACAGTGG
1 TCTCTCTGAAGTTGCAGTAGAGTAGACTAAAGTTAGCAGATCTTATCTCCCGGAAATTACAATGG
**
9666582 AGCAGATCAAAGTTACAATCCTTA
66 AGCAGATCAAAGCCACAATCCTTA
9666606 TCTCTCTGAAGTTGCAGTAGAGTAG
1 TCTCTCTGAAGTTGCAGTAGAGTAG
9666631 GATAAAAATA
Statistics
Matches: 101, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
88 2 0.02
89 99 0.98
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (89 bp):
TCTCTCTGAAGTTGCAGTAGAGTAGACTAAAGTTAGCAGATCTTATCTCCCGGAAATTACAATGG
AGCAGATCAAAGCCACAATCCTTA
Found at i:9669507 original size:127 final size:126
Alignment explanation
Indices: 9669269--9669593 Score: 447
Period size: 127 Copynumber: 2.6 Consensus size: 126
9669259 GAAAATTCCT
* ** * *
9669269 TAAAACGAAGGTAATGTTTGATGTTTGAAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTTCG
1 TAAAAC-AAGGCAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCG
* *
9669334 ATTTCCTGTTTGTTTAAAATAATCGAATATTCCTTTAGAATTTCACTCATGTTTT-TCAAATTC
65 ATTT-TTGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGTTTTAT-AAATTC
*
9669397 TAAAACAAGGCAATGTTCAATGTTTGGAAATTCGAGGAATTGTGCCCTATCGTGCTGGGTTTCGA
1 TAAAACAAGGCAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCGA
* *
9669462 TTTTTGGTTTGTTCAAAA-AGATTGAATATTCCTTTAGAATTTCACTCGTGTTTTATAAATTC
66 TTTTT-GTTTGTTCAAAATA-ATCGAATATTCCTTTAGAATTTCACTCATGTTTTATAAATTC
* * * * * *
9669524 TAAAATAAGACAATATTCAATGTTTGGAAATTCGAGGAATCATGCCCTACCGTGCTGAGTTTCGA
1 TAAAACAAGGCAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCGA
9669589 TTTTT
66 TTTTT
9669594 CATTGGACTA
Statistics
Matches: 177, Mismatches: 17, Indels: 7
0.88 0.08 0.03
Matches are distributed among these distances:
126 2 0.01
127 168 0.95
128 7 0.04
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.38
Consensus pattern (126 bp):
TAAAACAAGGCAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCGA
TTTTTGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGTTTTATAAATTC
Found at i:9672756 original size:10 final size:9
Alignment explanation
Indices: 9672741--9672784 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 9
9672731 AATATTATCC
9672741 AAAAATGTAA
1 AAAAAT-TAA
9672751 AAAAATTAAA
1 AAAAATT-AA
9672761 AAGAAATTAA
1 AA-AAATTAA
9672771 AAAAAGTTAA
1 AAAAA-TTAA
9672781 AAAA
1 AAAA
9672785 CAATTTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
9 4 0.13
10 22 0.71
11 5 0.16
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (9 bp):
AAAAATTAA
Found at i:9672767 original size:11 final size:10
Alignment explanation
Indices: 9672749--9672789 Score: 55
Period size: 10 Copynumber: 3.9 Consensus size: 10
9672739 CCAAAAATGT
9672749 AAAAAAATTA
1 AAAAAAATTA
9672759 AAAAGAAATTA
1 AAAA-AAATTA
*
9672770 AAAAAAGTTA
1 AAAAAAATTA
9672780 AAAAACAATT
1 AAAAA-AATT
9672790 TTTTATATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
10 14 0.52
11 13 0.48
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (10 bp):
AAAAAAATTA
Found at i:9672767 original size:21 final size:21
Alignment explanation
Indices: 9672743--9672783 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
9672733 TATTATCCAA
9672743 AAATGTAAAAAAA-TTAAAAAG
1 AAAT-TAAAAAAAGTTAAAAAG
9672764 AAATTAAAAAAAGTTAAAAA
1 AAATTAAAAAAAGTTAAAAA
9672784 ACAATTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (21 bp):
AAATTAAAAAAAGTTAAAAAG
Found at i:9673334 original size:8 final size:8
Alignment explanation
Indices: 9673289--9673354 Score: 51
Period size: 8 Copynumber: 7.5 Consensus size: 8
9673279 AAAATATATC
9673289 ATTATAAAA
1 ATTA-AAAA
*
9673298 TTTAAAAA
1 ATTAAAAA
*
9673306 ATCAAAATA
1 ATTAAAA-A
9673315 ATATATAAAA
1 AT-TA-AAAA
9673325 ATTGAAAAA
1 ATT-AAAAA
*
9673334 TATTATAAA
1 -ATTAAAAA
9673343 ATTAAAAA
1 ATTAAAAA
9673351 ATTA
1 ATTA
9673355 TTTAAATTTC
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
8 20 0.43
9 15 0.33
10 8 0.17
11 3 0.07
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (8 bp):
ATTAAAAA
Found at i:9673356 original size:19 final size:17
Alignment explanation
Indices: 9673303--9673360 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
9673293 TAAAATTTAA
* *
9673303 AAAATCAAAATAATATATA
1 AAAATTAAAA-AATAT-TT
*
9673322 AAAATTGAAAAATATTAT
1 AAAATTAAAAAATATT-T
9673340 AAAATTAAAAAATTATTT
1 AAAATTAAAAAA-TATTT
9673358 AAA
1 AAA
9673361 TTTCAAGTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
17 1 0.03
18 20 0.61
19 12 0.36
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (17 bp):
AAAATTAAAAAATATTT
Found at i:9673360 original size:18 final size:18
Alignment explanation
Indices: 9673289--9673352 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 18
9673279 AAAATATATC
* *
9673289 ATTATAAAAT-TTAAAAA
1 ATTAAAAAATATTATAAA
*
9673306 ATCAAAATAATA-TATAAAA
1 ATTAAAA-AATATTAT-AAA
*
9673325 ATTGAAAAATATTATAAA
1 ATTAAAAAATATTATAAA
9673343 ATTAAAAAAT
1 ATTAAAAAAT
9673353 TATTTAAATT
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
17 5 0.14
18 21 0.57
19 11 0.30
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (18 bp):
ATTAAAAAATATTATAAA
Found at i:9673458 original size:24 final size:25
Alignment explanation
Indices: 9673417--9673463 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
9673407 TTTTAGAATT
*
9673417 ATATGTTTTAAAATTTTATAAAAAAA
1 ATATGTTTTAAAACTTTA-AAAAAAA
9673443 ATAT-TTTT-AAACTTTAAAAAA
1 ATATGTTTTAAAACTTTAAAAAA
9673464 TTACAATACA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 5 0.25
24 7 0.35
25 4 0.20
26 4 0.20
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (25 bp):
ATATGTTTTAAAACTTTAAAAAAAA
Found at i:9676454 original size:17 final size:17
Alignment explanation
Indices: 9676432--9676468 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
9676422 ACGGTACTTA
9676432 AATTTGTCCAGAACTCC
1 AATTTGTCCAGAACTCC
9676449 AATTTGTCCAGAACTCC
1 AATTTGTCCAGAACTCC
9676466 AAT
1 AAT
9676469 CACATGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.32, C:0.27, G:0.11, T:0.30
Consensus pattern (17 bp):
AATTTGTCCAGAACTCC
Found at i:9679404 original size:33 final size:33
Alignment explanation
Indices: 9679351--9679413 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
9679341 TTCTAAAAAT
*
9679351 CTTTGTTGGCTTAGGGGTTTAATTTTGTAGTAC
1 CTTTGTTGGCTTAGGAGTTTAATTTTGTAGTAC
* *
9679384 CTTTGTTGGTTTTGGAGTTTAATTTTGTAG
1 CTTTGTTGGCTTAGGAGTTTAATTTTGTAG
9679414 AACCATTAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.14, C:0.06, G:0.27, T:0.52
Consensus pattern (33 bp):
CTTTGTTGGCTTAGGAGTTTAATTTTGTAGTAC
Found at i:9681376 original size:13 final size:13
Alignment explanation
Indices: 9681360--9681396 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
9681350 TACATAACAA
9681360 GTTCGCATATAGG
1 GTTCGCATATAGG
*
9681373 GTTCGCCTATAGG
1 GTTCGCATATAGG
*
9681386 GTTTGCATATA
1 GTTCGCATATA
9681397 TAAGGTTCGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (13 bp):
GTTCGCATATAGG
Found at i:9681403 original size:28 final size:28
Alignment explanation
Indices: 9681366--9681438 Score: 85
Period size: 28 Copynumber: 2.5 Consensus size: 28
9681356 ACAAGTTCGC
* *
9681366 ATATAGGGTTCGC-CTATAGGGTTTGCAT
1 ATATAAGGTTCGCAC-ATAAGGTTTGCAT
9681394 ATATAAGGTTCGCACATAAGGTTTGCAT
1 ATATAAGGTTCGCACATAAGGTTTGCAT
9681422 AGTATATAGGGTTCGCA
1 A-TATA-A-GGTTCGCA
9681439 TGATATATAG
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
28 25 0.64
29 5 0.13
30 1 0.03
31 8 0.21
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
ATATAAGGTTCGCACATAAGGTTTGCAT
Found at i:9685167 original size:13 final size:13
Alignment explanation
Indices: 9685146--9685198 Score: 52
Period size: 15 Copynumber: 3.8 Consensus size: 13
9685136 ACGCCTATAA
*
9685146 GGTTTGCACATAG
1 GGTTCGCACATAG
9685159 GGTTCGCACATATAG
1 GGTTCGCAC--ATAG
*
9685174 GGTTCACACATGTAG
1 GGTTCGCACA--TAG
9685189 GGTTCGCACA
1 GGTTCGCACA
9685199 GATAAGGTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.27
15 24 0.73
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (13 bp):
GGTTCGCACATAG
Found at i:9685175 original size:15 final size:15
Alignment explanation
Indices: 9685155--9685208 Score: 72
Period size: 15 Copynumber: 3.6 Consensus size: 15
9685145 AGGTTTGCAC
9685155 ATAGGGTTCGCACAT
1 ATAGGGTTCGCACAT
*
9685170 ATAGGGTTCACACAT
1 ATAGGGTTCGCACAT
* *
9685185 GTAGGGTTCGCACAG
1 ATAGGGTTCGCACAT
*
9685200 ATAAGGTTC
1 ATAGGGTTC
9685209 ACATATTATA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.26
Consensus pattern (15 bp):
ATAGGGTTCGCACAT
Found at i:9685231 original size:18 final size:17
Alignment explanation
Indices: 9685219--9685267 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
9685209 ACATATTATA
9685219 TAGGGTTTGCATAATATG
1 TAGGGTTTGCAT-ATATG
* *
9685237 TAGGATTCGCATGATATG
1 TAGGGTTTGCAT-ATATG
*
9685255 TAAGGTTTGCATA
1 TAGGGTTTGCATA
9685268 AATATATTTA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
17 1 0.04
18 24 0.96
ACGTcount: A:0.29, C:0.08, G:0.27, T:0.37
Consensus pattern (17 bp):
TAGGGTTTGCATATATG
Found at i:9686828 original size:15 final size:16
Alignment explanation
Indices: 9686803--9686836 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
9686793 ATTATTTATC
9686803 TTATTATTTAAATTTT
1 TTATTATTTAAATTTT
9686819 TTATTA-TTAAATTTT
1 TTATTATTTAAATTTT
9686834 TTA
1 TTA
9686837 AAATTATATC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTATTATTTAAATTTT
Found at i:9691973 original size:20 final size:18
Alignment explanation
Indices: 9691925--9691977 Score: 63
Period size: 17 Copynumber: 2.9 Consensus size: 18
9691915 TTAATTAACT
*
9691925 TATTTTTTCATTTTT-TA
1 TATTTTTTAATTTTTATA
*
9691942 TCTTTTTTAATTTTTATA
1 TATTTTTTAATTTTTATA
9691960 TATTATTTTGAATTTTTA
1 TATT-TTTT-AATTTTTA
9691978 AAATTAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
17 13 0.43
18 5 0.17
19 4 0.13
20 8 0.27
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.72
Consensus pattern (18 bp):
TATTTTTTAATTTTTATA
Found at i:9691983 original size:19 final size:20
Alignment explanation
Indices: 9691945--9691983 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
9691935 TTTTTTATCT
* *
9691945 TTTTTAATTTTTATATATTA
1 TTTTGAATTTTTATAAATTA
9691965 TTTTGAATTTTTA-AAATTA
1 TTTTGAATTTTTATAAATTA
9691984 ATAATTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (20 bp):
TTTTGAATTTTTATAAATTA
Found at i:9692386 original size:18 final size:18
Alignment explanation
Indices: 9692354--9692388 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9692344 ATATTAAGAA
**
9692354 TTTTTTAAATTTTTTATT
1 TTTTTTAAAAATTTTATT
9692372 TTTTTTAAAAATTTTAT
1 TTTTTTAAAAATTTTAT
9692389 AATAATATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTTTAAAAATTTTATT
Found at i:9699703 original size:23 final size:23
Alignment explanation
Indices: 9699656--9699705 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
9699646 ACTATTTTTT
*
9699656 AATTAAAATGTATTTTAATTTAA
1 AATTAAAATGTATTTTAATTAAA
9699679 AATTAAAAT-TAATTGTT-ATTAAA
1 AATTAAAATGT-ATT-TTAATTAAA
9699702 AATT
1 AATT
9699706 TGAAAACTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 1 0.04
23 21 0.88
24 2 0.08
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (23 bp):
AATTAAAATGTATTTTAATTAAA
Found at i:9699869 original size:51 final size:52
Alignment explanation
Indices: 9699814--9699931 Score: 195
Period size: 52 Copynumber: 2.3 Consensus size: 52
9699804 AAAAATATGA
*
9699814 TGGAGGACTTATTATGGAATATTGAATA-ATTATAGAATTCTTT-AAACATGT
1 TGGAGGACTTATTATGAAATATTGAATATATTATAGAATT-TTTGAAACATGT
*
9699865 TGGAGGACTTACTATGAAATATTGAATATATTATAGAATTTTTGAAACATGT
1 TGGAGGACTTATTATGAAATATTGAATATATTATAGAATTTTTGAAACATGT
9699917 TGGAGGACTTATTAT
1 TGGAGGACTTATTAT
9699932 TGAACAAATT
Statistics
Matches: 62, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
51 29 0.47
52 33 0.53
ACGTcount: A:0.36, C:0.06, G:0.19, T:0.39
Consensus pattern (52 bp):
TGGAGGACTTATTATGAAATATTGAATATATTATAGAATTTTTGAAACATGT
Found at i:9702799 original size:137 final size:138
Alignment explanation
Indices: 9702562--9702877 Score: 393
Period size: 137 Copynumber: 2.3 Consensus size: 138
9702552 TTATCTTCGA
* * * **
9702562 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCAGGTTGCCATGGTATCTT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACTCATTTTCTGTCACATTGCCATGGTATCTT
*** * * **
9702627 TCAACCATGATCTTGTTCATTTCATGTTACATTGCCATGATATCTTTCAACCATGGTCTTATTCA
66 TCAACCATGATCTTACACATTTCATATCACATTGCCATGATATCTTTCAACCATGGTCTTACACA
* *
9702692 -TTCCCGT
131 TTTCACAT
* * *
9702699 CATGTTGCCATGGTATCTTTAAACCATGGTCTTATTC-TTTTCATGTCACATTGCCATGGTATCT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACTCATTTTC-TGTCACATTGCCATGGTATCT
* * ** *
9702763 TTCAACCATGGTCTTACACATTTTATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
65 TTCAACCATGATCTTACACATTTCATATCACATTGCCATGATATCTTTCAACCATGGTCTTACAC
*
9702828 ATTTCATAT
130 ATTTCACAT
*
9702837 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACTCATTT
9702878 CATTTCAGAA
Statistics
Matches: 149, Mismatches: 27, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
136 5 0.03
137 104 0.70
138 37 0.25
139 3 0.02
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (138 bp):
CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACTCATTTTCTGTCACATTGCCATGGTATCTT
TCAACCATGATCTTACACATTTCATATCACATTGCCATGATATCTTTCAACCATGGTCTTACACA
TTTCACAT
Found at i:9702878 original size:46 final size:46
Alignment explanation
Indices: 9702562--9702880 Score: 372
Period size: 46 Copynumber: 7.0 Consensus size: 46
9702552 TTATCTTCGA
* * * *
9702562 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGT
* * **
9702608 CAGGTTGCCATGGTATCTTTCAACCATGATCTTGTTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* ** * * **
9702654 TACATTGCCATGATATCTTTCAACCATGGTCTTATTCA-TTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * *
9702699 CATGTTGCCATGGTATCTTTAAACCATGGTCTTATTCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
** * * *
9702745 CACATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
9702791 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
9702837 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
9702881 TTCAGAAAGC
Statistics
Matches: 235, Mismatches: 36, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
45 41 0.17
46 194 0.83
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
Found at i:9706006 original size:128 final size:129
Alignment explanation
Indices: 9705842--9706082 Score: 351
Period size: 128 Copynumber: 1.9 Consensus size: 129
9705832 GTTCCACAAG
* * * *
9705842 TTACGCTTTTCCATGACATTACAACTTTCTAGAAAAGTTATGTTTATTCCTTACGAATTATTTTT
1 TTACGCTTTTCCATGACATTACAACTTTCTAGAAAAGCTATGTTTATTCATTACGAATCATTTCT
** * *
9705907 GAATGTTATATTTATTCAAATAAATTTGTTTATATGTAAATAAAAAATAATAACTAAAAAATAT
66 GAATGTTATATTTATTCAAATAAATTTACTTAGATGCAAATAAAAAATAATAACTAAAAAATAT
* * *
9705971 TTACGC-TTTCCATGACATTACAACTTTTTTA-AAAAGCTATGTTTATTCATTACGAGTCCTTTC
1 TTACGCTTTTCCATGACATTACAAC-TTTCTAGAAAAGCTATGTTTATTCATTACGAATCATTTC
*
9706034 TGAATGTTATATTTATTCGAATAAATTTACTTAGATGCAAATAAAAAAT
65 TGAATGTTATATTTATTCAAATAAATTTACTTAGATGCAAATAAAAAAT
9706083 GATTATTTCA
Statistics
Matches: 99, Mismatches: 12, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
128 88 0.89
129 11 0.11
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (129 bp):
TTACGCTTTTCCATGACATTACAACTTTCTAGAAAAGCTATGTTTATTCATTACGAATCATTTCT
GAATGTTATATTTATTCAAATAAATTTACTTAGATGCAAATAAAAAATAATAACTAAAAAATAT
Found at i:9707376 original size:9 final size:8
Alignment explanation
Indices: 9707344--9707373 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
9707334 GATAAGTAAA
*
9707344 TTATATTT
1 TTATAATT
9707352 TTATAATT
1 TTATAATT
9707360 TTATAATT
1 TTATAATT
9707368 TTATAA
1 TTATAA
9707374 ATTCATAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
TTATAATT
Found at i:9707381 original size:16 final size:15
Alignment explanation
Indices: 9707340--9707393 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 15
9707330 TGAAGATAAG
*
9707340 TAAATTATATTTTTA
1 TAAATTATAATTTTA
*
9707355 TAATTTTATAATTTTA
1 TAA-ATTATAATTTTA
9707371 TAAATTCATAATAGTTTA
1 TAAATT-ATAAT--TTTA
9707389 TAAAT
1 TAAAT
9707394 AAAAAGATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
15 5 0.16
16 18 0.56
18 9 0.28
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (15 bp):
TAAATTATAATTTTA
Found at i:9707706 original size:31 final size:32
Alignment explanation
Indices: 9707666--9707725 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
9707656 CACTTGGTAG
* *
9707666 CTTGTAATTAAAAAAATAA-ATTAGTAATTAA
1 CTTGAAATTAAAAAAATAATATTAATAATTAA
*
9707697 CTTGAAATTAACAAAATAATATTAATAAT
1 CTTGAAATTAAAAAAATAATATTAATAAT
9707726 ATACATTTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 17 0.68
32 8 0.32
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (32 bp):
CTTGAAATTAAAAAAATAATATTAATAATTAA
Found at i:9711064 original size:83 final size:83
Alignment explanation
Indices: 9710934--9711288 Score: 512
Period size: 83 Copynumber: 4.3 Consensus size: 83
9710924 TTAGGTTGTG
* * ** * *
9710934 TGGTTCACACGGGCGTATAGGCCACACGAGCGTGTGTTAGGCTGTATGGACCACACCATATAGGC
1 TGGTTCACACGAGCGTATGGGCCACACGAGCGTGTGTTAGGCCATATGGACCACACCACATGGGC
*
9710999 TAGGCCAATTAGGCTATT
66 TAGGCCAATTAGGCTATA
* * * *
9711017 TGGTTCACACGAGCGTATGGGTCACACGACCGTGTGTTAGGACGTATGGACCACACCACATGGGC
1 TGGTTCACACGAGCGTATGGGCCACACGAGCGTGTGTTAGGCCATATGGACCACACCACATGGGC
*
9711082 TAGGCCAATTAGGCTGTA
66 TAGGCCAATTAGGCTATA
* * *
9711100 TGGTTCACACAAGCGTATGGGCCGCACGAGCGTGTGTTAGGCCATATGGACCACACAACATGGGC
1 TGGTTCACACGAGCGTATGGGCCACACGAGCGTGTGTTAGGCCATATGGACCACACCACATGGGC
* *
9711165 TAGGCTAATTAGGCTATG
66 TAGGCCAATTAGGCTATA
* *
9711183 TGGTTCACATGAGCGTATGGGCCACACGAGCGTGTGTTAGGCCATATGGACCACACCGCATGGGC
1 TGGTTCACACGAGCGTATGGGCCACACGAGCGTGTGTTAGGCCATATGGACCACACCACATGGGC
*
9711248 TAGGCCAATTAGGCTGTA
66 TAGGCCAATTAGGCTATA
* *
9711266 TGGTTCACACGGGTGTATGGGCC
1 TGGTTCACACGAGCGTATGGGCC
9711289 CAATTCTTAA
Statistics
Matches: 241, Mismatches: 31, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
83 241 1.00
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.23
Consensus pattern (83 bp):
TGGTTCACACGAGCGTATGGGCCACACGAGCGTGTGTTAGGCCATATGGACCACACCACATGGGC
TAGGCCAATTAGGCTATA
Found at i:9711157 original size:46 final size:45
Alignment explanation
Indices: 9711105--9711238 Score: 113
Period size: 46 Copynumber: 3.1 Consensus size: 45
9711095 CTGTATGGTT
9711105 CACACAAGCGTATGGGCCGCACGAGCGTGTGTTAGGCCATATGGAC
1 CACACAAGCGTATGGGCC-CACGAGCGTGTGTTAGGCCATATGGAC
* ** * * **
9711151 CACACAA-C--ATGGG-CTA-G-GC-T-AATTAGGCTATGTGGTT
1 CACACAAGCGTATGGGCCCACGAGCGTGTGTTAGGCCATATGGAC
**
9711188 CACATGAGCGTATGGGCCACACGAGCGTGTGTTAGGCCATATGGAC
1 CACACAAGCGTATGGGCC-CACGAGCGTGTGTTAGGCCATATGGAC
9711234 CACAC
1 CACAC
9711239 CGCATGGGCT
Statistics
Matches: 62, Mismatches: 17, Indels: 18
0.64 0.18 0.19
Matches are distributed among these distances:
37 16 0.26
38 2 0.03
39 2 0.03
40 6 0.10
41 2 0.03
42 2 0.03
43 6 0.10
44 2 0.03
45 2 0.03
46 22 0.35
ACGTcount: A:0.25, C:0.25, G:0.30, T:0.20
Consensus pattern (45 bp):
CACACAAGCGTATGGGCCCACGAGCGTGTGTTAGGCCATATGGAC
Found at i:9712091 original size:17 final size:17
Alignment explanation
Indices: 9712066--9712099 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
9712056 ACGGTCTAGT
*
9712066 CACATAGTCGTGTGACA
1 CACACAGTCGTGTGACA
9712083 CACACAGTCGTGTGACA
1 CACACAGTCGTGTGACA
9712100 TACATGGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.21
Consensus pattern (17 bp):
CACACAGTCGTGTGACA
Found at i:9718345 original size:26 final size:26
Alignment explanation
Indices: 9718316--9718423 Score: 153
Period size: 26 Copynumber: 4.2 Consensus size: 26
9718306 TGGTACAAAT
9718316 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * * *
9718342 TGATAATAGATTAAGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
9718368 TAATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
9718394 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9718420 TGAT
1 TGAT
9718424 GAGCATTTCA
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 69 1.00
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:9725459 original size:26 final size:26
Alignment explanation
Indices: 9725421--9725540 Score: 95
Period size: 27 Copynumber: 4.5 Consensus size: 26
9725411 CCAGTCTACA
*
9725421 AAATTACCGAAATACCTCTAATTTAT
1 AAATTACTGAAATACCTCTAATTTAT
* *
9725447 AAATTACTAAAATACC-CTTATAGTGTA-
1 AAATTACTGAAATACCTC-TA-A-TTTAT
*
9725474 AAATTA-TCGAAATACCTCT-ATTTGT
1 AAATTACT-GAAATACCTCTAATTTAT
* * *
9725499 AAAATTACTGAAATACCCCCAATTTGT
1 -AAATTACTGAAATACCTCTAATTTAT
9725526 AGAATTACTGAAATA
1 A-AATTACTGAAATA
9725541 TCTTTGTAGT
Statistics
Matches: 76, Mismatches: 8, Indels: 19
0.74 0.08 0.18
Matches are distributed among these distances:
24 2 0.03
25 2 0.03
26 33 0.43
27 35 0.46
28 4 0.05
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (26 bp):
AAATTACTGAAATACCTCTAATTTAT
Found at i:9725486 original size:27 final size:26
Alignment explanation
Indices: 9725447--9725611 Score: 102
Period size: 27 Copynumber: 6.2 Consensus size: 26
9725437 TCTAATTTAT
*
9725447 AAATTACTAAAATACCCTTATAGTGTA
1 AAATTAC-GAAATACCCTTATAGTGTA
*
9725474 AAATTATCGAAATA-CCTCTAT-TTGTA
1 AAATTA-CGAAATACCCT-TATAGTGTA
** *
9725500 AAATTACTGAAATACCCCCA-ATTTGTA
1 AAATTAC-GAAATACCCTTATA-GTGTA
* * * *
9725527 GAATTACTGAAATATCTTTGTAGTGTA
1 AAATTAC-GAAATACCCTTATAGTGTA
*
9725554 AAATTACCGAAATACCCTTGTAGTGTA
1 AAATTA-CGAAATACCCTTATAGTGTA
* * * * *
9725581 AAATGACCGACATACCCCTGTAGGGTA
1 AAATTA-CGAAATACCCTTATAGTGTA
9725608 AAAT
1 AAAT
9725612 GACTGTTTTG
Statistics
Matches: 112, Mismatches: 18, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
25 1 0.01
26 20 0.18
27 88 0.79
28 3 0.03
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.32
Consensus pattern (26 bp):
AAATTACGAAATACCCTTATAGTGTA
Found at i:9725532 original size:53 final size:53
Alignment explanation
Indices: 9725420--9725570 Score: 137
Period size: 53 Copynumber: 2.8 Consensus size: 53
9725410 CCCAGTCTAC
* * **
9725420 AAAATTACCGAAATACCTCTAATT-TATAAATTACTAAAATA-CCCTTATAGTGT
1 AAAATTA-CGAAATACCTCTATTTGTA-AAATTACTGAAATACCCCCAATAGTGT
*
9725473 AAAATTATCGAAATACCTCTATTTGTAAAATTACTGAAATACCCCCAAT-TTGT
1 AAAATTA-CGAAATACCTCTATTTGTAAAATTACTGAAATACCCCCAATAGTGT
* * * * * *
9725526 AGAATTACTGAAATATCTTTGTAGTGTAAAATTACCGAAATACCC
1 AAAATTAC-GAAATACCTCTAT-TTGTAAAATTACTGAAATACCC
9725571 TTGTAGTGTA
Statistics
Matches: 82, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
52 1 0.01
53 54 0.66
54 27 0.33
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.33
Consensus pattern (53 bp):
AAAATTACGAAATACCTCTATTTGTAAAATTACTGAAATACCCCCAATAGTGT
Found at i:9725555 original size:80 final size:79
Alignment explanation
Indices: 9725420--9725569 Score: 210
Period size: 80 Copynumber: 1.9 Consensus size: 79
9725410 CCCAGTCTAC
* * *
9725420 AAAATTACCGAAATACCTCTAATTTATAAATTACTAAAATACCCTTATAGTGTAAAATTATCGAA
1 AAAATTACCGAAATACCCCCAATTTATAAATTACTAAAATACCCTTATAGTGTAAAATTACCGAA
9725485 ATACCTCTATTTGT
66 ATACCTCTATTTGT
* * * * * *
9725499 AAAATTACTGAAATACCCCCAATTTGTAGAATTACTGAAATATCTTTGTAGTGTAAAATTACCGA
1 AAAATTACCGAAATACCCCCAATTTATA-AATTACTAAAATACCCTTATAGTGTAAAATTACCGA
9725564 AATACC
65 AATACC
9725570 CTTGTAGTGT
Statistics
Matches: 61, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
79 24 0.39
80 37 0.61
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.33
Consensus pattern (79 bp):
AAAATTACCGAAATACCCCCAATTTATAAATTACTAAAATACCCTTATAGTGTAAAATTACCGAA
ATACCTCTATTTGT
Found at i:9725612 original size:27 final size:27
Alignment explanation
Indices: 9725545--9725614 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
9725535 GAAATATCTT
* *
9725545 TGTAGTGTAAAATTACCGAAATACCCT
1 TGTAGTGTAAAATGACCGAAATACCCC
*
9725572 TGTAGTGTAAAATGACCGACATACCCC
1 TGTAGTGTAAAATGACCGAAATACCCC
*
9725599 TGTAGGGTAAAATGAC
1 TGTAGTGTAAAATGAC
9725615 TGTTTTGCCC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.26
Consensus pattern (27 bp):
TGTAGTGTAAAATGACCGAAATACCCC
Found at i:9730654 original size:5 final size:5
Alignment explanation
Indices: 9730646--9730673 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
9730636 TAACATATAT
9730646 AGAAA AGAAA AGAAA AGAAA AGAAA AGA
1 AGAAA AGAAA AGAAA AGAAA AGAAA AGA
9730674 TAGGATTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:9752680 original size:38 final size:38
Alignment explanation
Indices: 9752629--9752704 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
9752619 AAATCGAGAA
9752629 TATCTACATGCGAAGATGTTCATAATCTTAGGCATGTT
1 TATCTACATGCGAAGATGTTCATAATCTTAGGCATGTT
9752667 TATCTACATGCGAAGATGTTCATAATCTTAGGCATGTT
1 TATCTACATGCGAAGATGTTCATAATCTTAGGCATGTT
9752705 AACCTAAATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (38 bp):
TATCTACATGCGAAGATGTTCATAATCTTAGGCATGTT
Found at i:9753011 original size:85 final size:85
Alignment explanation
Indices: 9752911--9753068 Score: 271
Period size: 85 Copynumber: 1.9 Consensus size: 85
9752901 TATATACTTC
* *
9752911 AAATGCAAATCGAGAAGTATGAGTTCATACAGCATGTTCATCAGAGAGAGTTAATGAATTGAAAT
1 AAATGCAAATCGAGAAGTATGAGTTCATACAGCATGTTAATCAGAAAGAGTTAATGAATTGAAAT
9752976 ACTAAAATACTACAAAAAAG
66 ACTAAAATACTACAAAAAAG
* *
9752996 AAATGCAAATGGAGAAGTATGAGTTCATACAGCATGTTAATCGGAAAGAGTTAATGAATTGAAAT
1 AAATGCAAATCGAGAAGTATGAGTTCATACAGCATGTTAATCAGAAAGAGTTAATGAATTGAAAT
*
9753061 ACTGAAAT
66 ACTAAAAT
9753069 CCTAAAATAC
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 68 1.00
ACGTcount: A:0.46, C:0.10, G:0.20, T:0.25
Consensus pattern (85 bp):
AAATGCAAATCGAGAAGTATGAGTTCATACAGCATGTTAATCAGAAAGAGTTAATGAATTGAAAT
ACTAAAATACTACAAAAAAG
Found at i:9753364 original size:10 final size:10
Alignment explanation
Indices: 9753349--9753388 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
9753339 CGAACTTTAA
9753349 AAAAAAAATG
1 AAAAAAAATG
*
9753359 AAAAAAATTG
1 AAAAAAAATG
9753369 AAACAAAAATGG
1 AAA-AAAAAT-G
9753381 AAAAAAAA
1 AAAAAAAA
9753389 AAAGTGCAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
10 12 0.46
11 10 0.38
12 4 0.15
ACGTcount: A:0.78, C:0.03, G:0.10, T:0.10
Consensus pattern (10 bp):
AAAAAAAATG
Found at i:9753558 original size:20 final size:22
Alignment explanation
Indices: 9753535--9753578 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 22
9753525 ACCAAACAGG
9753535 AAAAACAG-AAGGAAAA-GAAA
1 AAAAACAGCAAGGAAAATGAAA
* *
9753555 AAAAAGAGCAAGTAAAATGAAA
1 AAAAACAGCAAGGAAAATGAAA
9753577 AA
1 AA
9753579 CCATCACCGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 7 0.35
22 6 0.30
ACGTcount: A:0.73, C:0.05, G:0.18, T:0.05
Consensus pattern (22 bp):
AAAAACAGCAAGGAAAATGAAA
Found at i:9754524 original size:29 final size:29
Alignment explanation
Indices: 9754492--9754581 Score: 80
Period size: 26 Copynumber: 3.2 Consensus size: 29
9754482 AATTTTCCCT
*
9754492 TTTATTAAAATAATATGAA-AATTAAATTA
1 TTTATCAAAATAATAT-AATAATTAAATTA
* * *
9754521 TTTATCCACATAATATAATATTTAAATTA
1 TTTATCAAAATAATATAATAATTAAATTA
* * *
9754550 --T-TCCACATAATATAATATTTAAATTA
1 TTTATCAAAATAATATAATAATTAAATTA
9754576 TTTATC
1 TTTATC
9754582 TTAATTTGAA
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
26 25 0.47
27 1 0.02
28 3 0.06
29 24 0.45
ACGTcount: A:0.47, C:0.08, G:0.01, T:0.44
Consensus pattern (29 bp):
TTTATCAAAATAATATAATAATTAAATTA
Found at i:9754561 original size:26 final size:26
Alignment explanation
Indices: 9754525--9754577 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
9754515 AAATTATTTA
9754525 TCCACATAATATAATATTTAAATTAT
1 TCCACATAATATAATATTTAAATTAT
9754551 TCCACATAATATAATATTTAAATTAT
1 TCCACATAATATAATATTTAAATTAT
9754577 T
1 T
9754578 TATCTTAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.43
Consensus pattern (26 bp):
TCCACATAATATAATATTTAAATTAT
Found at i:9754586 original size:26 final size:26
Alignment explanation
Indices: 9754513--9754586 Score: 87
Period size: 26 Copynumber: 2.7 Consensus size: 26
9754503 AATATGAAAA
9754513 TTAAATTATTTATCCACATAATATAATAT
1 TTAAATTATTTAT---CATAATATAATAT
*
9754542 TTAAATTATTCCA-CATAATATAATAT
1 TTAAATTATT-TATCATAATATAATAT
*
9754568 TTAAATTATTTATCTTAAT
1 TTAAATTATTTATCATAAT
9754587 TTGAAATTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
25 1 0.03
26 28 0.70
29 10 0.25
30 1 0.03
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.47
Consensus pattern (26 bp):
TTAAATTATTTATCATAATATAATAT
Found at i:9755627 original size:34 final size:34
Alignment explanation
Indices: 9755589--9755653 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
9755579 AGATGCAGTT
* * *
9755589 TGGGCCTGAGCTCGTTACAATATCAGTATCAATG
1 TGGGCCTGAGCCCATTACAATAACAGTATCAATG
* *
9755623 TGGGCCTTAGCCCATTACAGTAACAGTATCA
1 TGGGCCTGAGCCCATTACAATAACAGTATCA
9755654 GTGCAGTAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (34 bp):
TGGGCCTGAGCCCATTACAATAACAGTATCAATG
Found at i:9756186 original size:54 final size:54
Alignment explanation
Indices: 9756054--9756218 Score: 222
Period size: 54 Copynumber: 3.1 Consensus size: 54
9756044 GGGCAAATCA
* ** * *
9756054 GTCATTTTACCTTATAGGGGTATTACAGTCATTTTACCCTACAGGGGTATTACA
1 GTCATTTTACCTTATAGGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCG
*
9756108 GTTATTTTACCTTATAGGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCTTATAGGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCG
* ** ** *
9756162 GTCATTTTACCCTATAGGTTTATTTTGGTCATTTTATCCTATGGGGGTATTTCG
1 GTCATTTTACCTTATAGGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCG
9756216 GTC
1 GTC
9756219 TCCATTTCGG
Statistics
Matches: 98, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 98 1.00
ACGTcount: A:0.20, C:0.16, G:0.21, T:0.43
Consensus pattern (54 bp):
GTCATTTTACCTTATAGGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCG
Found at i:9756213 original size:27 final size:27
Alignment explanation
Indices: 9756054--9756218 Score: 195
Period size: 27 Copynumber: 6.1 Consensus size: 27
9756044 GGGCAAATCA
* * *
9756054 GTCATTTTACCTTATAGGGGTATTACA
1 GTCATTTTACCCTATAGGGGTATTTCG
* * *
9756081 GTCATTTTACCCTACAGGGGTATTACA
1 GTCATTTTACCCTATAGGGGTATTTCG
* * *
9756108 GTTATTTTACCTTATAGGGGTATTTCA
1 GTCATTTTACCCTATAGGGGTATTTCG
*
9756135 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
** *
9756162 GTCATTTTACCCTATAGGTTTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTCG
* *
9756189 GTCATTTTATCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
9756216 GTC
1 GTC
9756219 TCCATTTCGG
Statistics
Matches: 119, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 119 1.00
ACGTcount: A:0.20, C:0.16, G:0.21, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTTCG
Found at i:9759270 original size:16 final size:17
Alignment explanation
Indices: 9759244--9759276 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
9759234 GGCCTAGCCG
*
9759244 TATTAATTTTTTTATAA
1 TATTAATTTTTATATAA
9759261 TATT-ATTTTTATATAA
1 TATTAATTTTTATATAA
9759277 AAACAAAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TATTAATTTTTATATAA
Found at i:9762583 original size:24 final size:23
Alignment explanation
Indices: 9762555--9762616 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 23
9762545 AGAAAATAAG
9762555 AAATAAAAAATAAGAAATTTTAAA
1 AAATAAAAAATAA-AAATTTTAAA
* *
9762579 AAATAAAGAATAAATATTTTAAA
1 AAATAAAAAATAAAAATTTTAAA
* *
9762602 TAATAACTAAATAAA
1 AAATAA-AAAATAAA
9762617 GAAAAGATAG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 14 0.44
24 18 0.56
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (23 bp):
AAATAAAAAATAAAAATTTTAAA
Found at i:9762601 original size:23 final size:24
Alignment explanation
Indices: 9762555--9762607 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
9762545 AGAAAATAAG
9762555 AAATAAAAAATAAGAAATTTTAAA
1 AAATAAAAAATAAGAAATTTTAAA
* *
9762579 AAATAAAGAATAA-ATATTTTAAA
1 AAATAAAAAATAAGAAATTTTAAA
*
9762602 TAATAA
1 AAATAA
9762608 CTAAATAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 14 0.54
24 12 0.46
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (24 bp):
AAATAAAAAATAAGAAATTTTAAA
Found at i:9762912 original size:30 final size:30
Alignment explanation
Indices: 9762876--9762936 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
9762866 GAGTTTTCAG
* *
9762876 GATCCACACGGGTAGGCCACACGCCCATGT
1 GATCCACACAGGCAGGCCACACGCCCATGT
9762906 GATCCACACAGGCAGGCCACACGCCCATGT
1 GATCCACACAGGCAGGCCACACGCCCATGT
9762936 G
1 G
9762937 CCAGCCCGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.25, C:0.38, G:0.26, T:0.11
Consensus pattern (30 bp):
GATCCACACAGGCAGGCCACACGCCCATGT
Found at i:9765286 original size:24 final size:24
Alignment explanation
Indices: 9765259--9765319 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
9765249 CACAATGTTT
* * *
9765259 ACTATCACTATCATCATAGTTTGC
1 ACTATTACTATCATCATAGCTCGC
9765283 ACTATTACTATCATCATAGCTCGC
1 ACTATTACTATCATCATAGCTCGC
9765307 ACTATTACTATCA
1 ACTATTACTATCA
9765320 AATTCTTCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (24 bp):
ACTATTACTATCATCATAGCTCGC
Found at i:9767619 original size:26 final size:28
Alignment explanation
Indices: 9767589--9767648 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 28
9767579 AATCCAGTCC
9767589 AAAAA-TTCTGCTTGCACAGTCTTCACT
1 AAAAAGTTCTGCTTGCACAGTCTTCACT
**
9767616 AAAATAGTTCTGCTTGCGTAGTCTTCACT
1 AAAA-AGTTCTGCTTGCACAGTCTTCACT
9767645 AAAA
1 AAAA
9767649 CAGTCATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 4 0.14
28 1 0.03
29 24 0.83
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.33
Consensus pattern (28 bp):
AAAAAGTTCTGCTTGCACAGTCTTCACT
Found at i:9771293 original size:21 final size:21
Alignment explanation
Indices: 9771268--9771309 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
9771258 ATTTGACCTA
9771268 TACTTAAATAAAATTTTAACC
1 TACTTAAATAAAATTTTAACC
9771289 TACTTAAATAAAATTTTAACC
1 TACTTAAATAAAATTTTAACC
9771310 AAATTAGATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (21 bp):
TACTTAAATAAAATTTTAACC
Found at i:9772243 original size:23 final size:23
Alignment explanation
Indices: 9772216--9772260 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
9772206 ATTCTCAATG
9772216 TTTAGTTCTTCATACAAATGTCA
1 TTTAGTTCTTCATACAAATGTCA
9772239 TTTAGTTCTTCATACAAATGTC
1 TTTAGTTCTTCATACAAATGTC
9772261 CCTGCTTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.29, C:0.18, G:0.09, T:0.44
Consensus pattern (23 bp):
TTTAGTTCTTCATACAAATGTCA
Found at i:9780276 original size:21 final size:22
Alignment explanation
Indices: 9780252--9780293 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
9780242 TTCCATAAAT
9780252 ATTTTA-TGATTATTTTTTATA
1 ATTTTATTGATTATTTTTTATA
9780273 ATTTTATTTGATTATTTTTTA
1 ATTTTA-TTGATTATTTTTTA
9780294 AAATATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 6 0.32
23 13 0.68
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (22 bp):
ATTTTATTGATTATTTTTTATA
Found at i:9784831 original size:44 final size:45
Alignment explanation
Indices: 9784778--9784880 Score: 127
Period size: 44 Copynumber: 2.3 Consensus size: 45
9784768 TGTCTTTGAC
* * *
9784778 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
** *
9784822 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATA-TTATAAT
*
9784868 GTGGACTTACATG
1 ATGGACTTACATG
9784881 GCTCATTTCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 33 0.66
46 17 0.34
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (45 bp):
ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
Found at i:9792207 original size:44 final size:45
Alignment explanation
Indices: 9792154--9792256 Score: 127
Period size: 44 Copynumber: 2.3 Consensus size: 45
9792144 TGTCTTTGAC
* * *
9792154 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATAGTATAAT
** *
9792198 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATGTCTAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATA-GTATAAT
*
9792244 GTGGACTTACATG
1 ATGGACTTACATG
9792257 GCTCATTTCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 33 0.66
46 17 0.34
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (45 bp):
ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATAGTATAAT
Found at i:9794474 original size:17 final size:17
Alignment explanation
Indices: 9794452--9794509 Score: 88
Period size: 17 Copynumber: 3.6 Consensus size: 17
9794442 GCGTGTGTCT
9794452 CAGCCATGTGTGACACA
1 CAGCCATGTGTGACACA
9794469 CAGCCATGTGTGACACA
1 CAGCCATGTGTGACACA
9794486 CAGCCA-G-GTG--ACA
1 CAGCCATGTGTGACACA
9794499 CAGCCATGTGT
1 CAGCCATGTGT
9794510 CCCCTGATAC
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
13 9 0.23
14 1 0.03
15 5 0.13
16 1 0.03
17 23 0.59
ACGTcount: A:0.28, C:0.29, G:0.26, T:0.17
Consensus pattern (17 bp):
CAGCCATGTGTGACACA
Found at i:9795412 original size:18 final size:18
Alignment explanation
Indices: 9795389--9795425 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
9795379 TGATTTATAC
9795389 GGTGAGATAGTATATTTT
1 GGTGAGATAGTATATTTT
9795407 GGTGAGATAGTATATTTT
1 GGTGAGATAGTATATTTT
9795425 G
1 G
9795426 ATAGGTGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.30, T:0.43
Consensus pattern (18 bp):
GGTGAGATAGTATATTTT
Found at i:9797460 original size:20 final size:20
Alignment explanation
Indices: 9797437--9797479 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
9797427 GTTCTTTGAA
9797437 AGGGAACGAATTACTTTTGG
1 AGGGAACGAATTACTTTTGG
9797457 AGGGAACGAATTACTTTTGG
1 AGGGAACGAATTACTTTTGG
9797477 AGG
1 AGG
9797480 ACTTTTGGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.09, G:0.33, T:0.28
Consensus pattern (20 bp):
AGGGAACGAATTACTTTTGG
Done.