Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 284 of 344
Found at i:95249712 original size:22 final size:24
Alignment explanation
Indices: 95249669--95249713 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 24
95249659 CAAATTTACA
* *
95249669 TAAAAAATATTTATATATTAAATT
1 TAAAAAATATTTATAAAGTAAATT
95249693 TAAAAAA-A-TTATAAAGTAAAT
1 TAAAAAATATTTATAAAGTAAAT
95249714 ATTATTTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 11 0.58
23 1 0.05
24 7 0.37
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (24 bp):
TAAAAAATATTTATAAAGTAAATT
Found at i:95257349 original size:24 final size:24
Alignment explanation
Indices: 95257317--95257369 Score: 79
Period size: 25 Copynumber: 2.2 Consensus size: 24
95257307 TAGATTTCAG
95257317 TATGCTTTTGTATCTAGTTTCTTTT
1 TATGCTTTTGTATCTA-TTTCTTTT
* *
95257342 TATGTTTTTGTATCTATTTTTTTT
1 TATGCTTTTGTATCTATTTCTTTT
95257366 TATG
1 TATG
95257370 ATTTGATATG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 11 0.42
25 15 0.58
ACGTcount: A:0.13, C:0.08, G:0.11, T:0.68
Consensus pattern (24 bp):
TATGCTTTTGTATCTATTTCTTTT
Found at i:95279653 original size:24 final size:25
Alignment explanation
Indices: 95279560--95279653 Score: 63
Period size: 25 Copynumber: 3.8 Consensus size: 25
95279550 GAAGAGCTAT
*
95279560 TATCAGGAAGCTC-TGGATAGCCATA
1 TATCAGGAAGCTCAT-GAAAGCCATA
* * *
95279585 TACCAGGAAGTTCA--AACGAACC-TA
1 TATCAGGAAGCTCATGAA--AGCCATA
* *
95279609 TATCAGAAAGCTCATTAAAAGCCATA
1 TATCAGGAAGCTCA-TGAAAGCCATA
95279635 TATCAGGAAGCTCAT-AAAG
1 TATCAGGAAGCTCATGAAAG
95279654 AACTGTGGTA
Statistics
Matches: 53, Mismatches: 9, Indels: 15
0.69 0.12 0.19
Matches are distributed among these distances:
23 1 0.02
24 17 0.32
25 18 0.34
26 15 0.28
27 2 0.04
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.21
Consensus pattern (25 bp):
TATCAGGAAGCTCATGAAAGCCATA
Found at i:95281182 original size:30 final size:29
Alignment explanation
Indices: 95281146--95281209 Score: 110
Period size: 30 Copynumber: 2.2 Consensus size: 29
95281136 ATGAATCGGA
*
95281146 AGCTTTGGCACTAAGTGTGCGATTTAAACT
1 AGCTTTGGCACTAAGTGTACGATTT-AACT
95281176 AGCTTTGGCACTAAGTGTACGATTTAACT
1 AGCTTTGGCACTAAGTGTACGATTTAACT
95281205 AGCTT
1 AGCTT
95281210 CGCCTACTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 9 0.27
30 24 0.73
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (29 bp):
AGCTTTGGCACTAAGTGTACGATTTAACT
Found at i:95284714 original size:19 final size:19
Alignment explanation
Indices: 95284692--95284730 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
95284682 AACATGAACA
*
95284692 ATTGATATAAACAAAATAT
1 ATTGACATAAACAAAATAT
**
95284711 ATTGACATTTACAAAATAT
1 ATTGACATAAACAAAATAT
95284730 A
1 A
95284731 ACATTATTAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.33
Consensus pattern (19 bp):
ATTGACATAAACAAAATAT
Found at i:95290468 original size:18 final size:18
Alignment explanation
Indices: 95290441--95290475 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
95290431 ATCGGATCAC
*
95290441 TTTTATTTTAATAAAACA
1 TTTTAGTTTAATAAAACA
*
95290459 TTTTAGTTTACTAAAAC
1 TTTTAGTTTAATAAAAC
95290476 GACAATTTTA
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:0.40, C:0.09, G:0.03, T:0.49
Consensus pattern (18 bp):
TTTTAGTTTAATAAAACA
Found at i:95291843 original size:29 final size:27
Alignment explanation
Indices: 95291793--95291860 Score: 68
Period size: 29 Copynumber: 2.5 Consensus size: 27
95291783 ACAAAAGAGC
* *
95291793 TTAAAATGAATAATGTGTAAAAGAGAAAT
1 TTAAAATAAATATTGTGTAAAA-A-AAAT
*
95291822 TTAAAATAAATATTGT-TCAAAAATAAT
1 TTAAAATAAATATTGTGT-AAAAAAAAT
95291849 TT-AAATAAATAT
1 TTAAAATAAATAT
95291861 ATATAAATCC
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 10 0.29
27 5 0.14
28 2 0.06
29 18 0.51
ACGTcount: A:0.56, C:0.01, G:0.09, T:0.34
Consensus pattern (27 bp):
TTAAAATAAATATTGTGTAAAAAAAAT
Found at i:95291964 original size:22 final size:23
Alignment explanation
Indices: 95291912--95291965 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
95291902 CTATATAGTC
* *
95291912 TTAAAATTAATAATAATAAAGGT
1 TTAAAATAAATAATAATAAAGAT
*
95291935 TTACAATAAATAAT-A-AAAGAAT
1 TTAAAATAAATAATAATAAAG-AT
95291957 TTAAAATAA
1 TTAAAATAA
95291966 TTTTCATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 4 0.15
22 10 0.38
23 12 0.46
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (23 bp):
TTAAAATAAATAATAATAAAGAT
Found at i:95292548 original size:4 final size:4
Alignment explanation
Indices: 95292541--95292568 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
95292531 ATAAAACCTG
95292541 ATAA ATAA ATAA ATAA ATAA ATAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA
95292569 GGAATTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAA
Found at i:95294919 original size:29 final size:28
Alignment explanation
Indices: 95294837--95294917 Score: 81
Period size: 29 Copynumber: 2.7 Consensus size: 28
95294827 GAATTGGATC
*
95294837 AAATCAAAATTTCATGTATAAAATTGCACA
1 AAATC-AAAGTTCATGTAT-AAATTGCACA
* *
95294867 ATATCAAAGTTCATATATACAATTGCACA
1 AAATCAAAGTTCATGTATA-AATTGCACA
*
95294896 TTAAATCATAGTTCATGTATAA
1 --AAATCAAAGTTCATGTATAA
95294918 TTTTGGTATT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
28 1 0.02
29 20 0.48
30 5 0.12
31 16 0.38
ACGTcount: A:0.46, C:0.14, G:0.07, T:0.33
Consensus pattern (28 bp):
AAATCAAAGTTCATGTATAAATTGCACA
Found at i:95297481 original size:14 final size:14
Alignment explanation
Indices: 95297462--95297490 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
95297452 TTGAAGTATA
95297462 CGAATTCTATGTGG
1 CGAATTCTATGTGG
95297476 CGAATTCTATGTGG
1 CGAATTCTATGTGG
95297490 C
1 C
95297491 TTCTAGTGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.34
Consensus pattern (14 bp):
CGAATTCTATGTGG
Found at i:95301308 original size:47 final size:47
Alignment explanation
Indices: 95301247--95301353 Score: 187
Period size: 47 Copynumber: 2.3 Consensus size: 47
95301237 GCTCCTTTAT
* *
95301247 GTTTGACAACAAAAGTGGCTTTAATACAACCAAAATTCAACCCCAAA
1 GTTTGAAAAAAAAAGTGGCTTTAATACAACCAAAATTCAACCCCAAA
*
95301294 GTTTGAAAAAAAAAGTGGCTTTAATACAACCAAAATTCAACCCTAAA
1 GTTTGAAAAAAAAAGTGGCTTTAATACAACCAAAATTCAACCCCAAA
95301341 GTTTGAAAAAAAA
1 GTTTGAAAAAAAA
95301354 TGCCCTTAGA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 57 1.00
ACGTcount: A:0.49, C:0.18, G:0.11, T:0.22
Consensus pattern (47 bp):
GTTTGAAAAAAAAAGTGGCTTTAATACAACCAAAATTCAACCCCAAA
Found at i:95305375 original size:10 final size:10
Alignment explanation
Indices: 95305362--95305389 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
95305352 GCACTGAATT
95305362 TCACTGATAA
1 TCACTGATAA
95305372 TCACTGATAA
1 TCACTGATAA
95305382 TCACTGAT
1 TCACTGAT
95305390 GCCATAGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.32
Consensus pattern (10 bp):
TCACTGATAA
Found at i:95305628 original size:31 final size:31
Alignment explanation
Indices: 95305593--95305678 Score: 136
Period size: 31 Copynumber: 2.8 Consensus size: 31
95305583 TTGTCACTTT
*
95305593 TAGCCGAAGCTACCACTATTCACTGATCAGG
1 TAGCCGAAGCTACCACTTTTCACTGATCAGG
*
95305624 TAGCCGAAGCTACCACTTTTCACTGATTAGG
1 TAGCCGAAGCTACCACTTTTCACTGATCAGG
**
95305655 TAGCTAAAGCTACCACTTTTCACT
1 TAGCCGAAGCTACCACTTTTCACT
95305679 TGTCATTTGT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 51 1.00
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (31 bp):
TAGCCGAAGCTACCACTTTTCACTGATCAGG
Found at i:95305759 original size:50 final size:51
Alignment explanation
Indices: 95305661--95305782 Score: 201
Period size: 50 Copynumber: 2.4 Consensus size: 51
95305651 TAGGTAGCTA
* * * *
95305661 AAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCG
1 AAGCTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAGTGTAGCCG
95305712 AAGCTATCACTTATCACTT-TCACTTATCCTTGATCAGATAAGTGTAGCCG
1 AAGCTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAGTGTAGCCG
95305762 AAGCTATCACTTATCACTTGT
1 AAGCTATCACTTATCACTTGT
95305783 TGCCATGGTC
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
50 48 0.73
51 18 0.27
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (51 bp):
AAGCTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAGTGTAGCCG
Found at i:95322109 original size:16 final size:17
Alignment explanation
Indices: 95322088--95322119 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
95322078 TATAAAAATT
95322088 ATTTTT-AAAAATTAAA
1 ATTTTTAAAAAATTAAA
95322104 ATTTTTAAAAAATTAA
1 ATTTTTAAAAAATTAA
95322120 TTAAATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATTTTTAAAAAATTAAA
Found at i:95324986 original size:9 final size:9
Alignment explanation
Indices: 95324972--95325008 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
95324962 TATCGTTTGA
95324972 TATTCGAAT
1 TATTCGAAT
95324981 TATTCGAAT
1 TATTCGAAT
*
95324990 TATTCGAGT
1 TATTCGAAT
95324999 TATTCGAAT
1 TATTCGAAT
95325008 T
1 T
95325009 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:95325072 original size:9 final size:9
Alignment explanation
Indices: 95325058--95325088 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
95325048 ATTTGAGTTG
95325058 ACTCGAATA
1 ACTCGAATA
95325067 ACTCGAATA
1 ACTCGAATA
95325076 ACTCGAATA
1 ACTCGAATA
95325085 ACTC
1 ACTC
95325089 TATTCTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.42, C:0.26, G:0.10, T:0.23
Consensus pattern (9 bp):
ACTCGAATA
Found at i:95325608 original size:23 final size:23
Alignment explanation
Indices: 95325576--95325625 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
95325566 GGTTCGGGTA
*
95325576 GGTTAAGGTTTTTTATGGTTTAG
1 GGTTAAGGTTTTTTAGGGTTTAG
* *
95325599 GGTTAGGGTTTTTTAGGGTTTAT
1 GGTTAAGGTTTTTTAGGGTTTAG
95325622 GGTT
1 GGTT
95325626 TTTGTAAGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.14, C:0.00, G:0.34, T:0.52
Consensus pattern (23 bp):
GGTTAAGGTTTTTTAGGGTTTAG
Found at i:95325613 original size:16 final size:17
Alignment explanation
Indices: 95325594--95325640 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
95325584 TTTTTTATGG
95325594 TTTAGGG-TTAGGGTTT
1 TTTAGGGTTTAGGGTTT
*
95325610 TTTAGGGTTTATGGTTT
1 TTTAGGGTTTAGGGTTT
95325627 TTGTAAGGGTTTAG
1 TT-T-AGGGTTTAG
95325641 TTAATTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 7 0.27
17 10 0.38
18 1 0.04
19 8 0.31
ACGTcount: A:0.15, C:0.00, G:0.34, T:0.51
Consensus pattern (17 bp):
TTTAGGGTTTAGGGTTT
Found at i:95325619 original size:33 final size:32
Alignment explanation
Indices: 95325546--95325607 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
95325536 TCTGTTGGGA
*
95325546 TTAGGGTTTTTTAAGGTTAGGGTTCGGGTAGG
1 TTAGGGTTTTTTAAGGTTAGGGTTAGGGTAGG
* *
95325578 TTAAGGTTTTTTATGGTTTAGGGTTAGGGT
1 TTAGGGTTTTTTAAGG-TTAGGGTTAGGGT
95325608 TTTTTAGGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 14 0.54
33 12 0.46
ACGTcount: A:0.16, C:0.02, G:0.37, T:0.45
Consensus pattern (32 bp):
TTAGGGTTTTTTAAGGTTAGGGTTAGGGTAGG
Found at i:95325986 original size:126 final size:126
Alignment explanation
Indices: 95325806--95326194 Score: 502
Period size: 126 Copynumber: 3.1 Consensus size: 126
95325796 AATGTTTTGG
* * * * * *
95325806 TTTTTTT-T-CAGTAGTATCT-GGAAAAAAATTATAAGAAGAAGTTTCTGAAGAAATAGTATCCA
1 TTTTTTTCTACAGTGGTATCTAAGAAAATAATTATGAGAAGAAGTTTCTGAAAAAATAGTGT-CA
* *
95325868 AAAA-GCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAATGCTCCCACGTGGACGC
65 AAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCTCACGTGGACGC
* *
95325929 TTTTTTTCTACAGTGGTATCTAAGAAAATAATTTTGAGAAGAAGTTTCTGAAAAAATAGTGTAAA
1 TTTTTTTCTACAGTGGTATCTAAGAAAATAATTATGAGAAGAAGTTTCTGAAAAAATAGTGTCAA
* *
95325994 AAACGCTTTAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAAAGCTCTCACGTGGACGC
66 AAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCTCACGTGGACGC
* ** * **
95326055 TCTTTTGATACAGTGGTATCTGAA-AAAATAATTGTGA-AATGACCTTTCTGAAAAAATAGTGTC
1 TTTTTTTCTACAGTGGTATCT-AAGAAAATAATTATGAGAA-GAAGTTTCTGAAAAAATAGTGTC
* * * *
95326118 AAAAACGCTTCATGCAGTATGCACTTTCAGCAAAATTACTGAAAAAAGCTCTCATGTGGACGC
64 AAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCTCACGTGGACGC
*
95326181 TATTTTTCTACAGT
1 TTTTTTTCTACAGT
95326195 AGTTCCTATT
Statistics
Matches: 232, Mismatches: 28, Indels: 9
0.86 0.10 0.03
Matches are distributed among these distances:
123 7 0.03
124 1 0.00
125 17 0.07
126 205 0.88
127 2 0.01
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (126 bp):
TTTTTTTCTACAGTGGTATCTAAGAAAATAATTATGAGAAGAAGTTTCTGAAAAAATAGTGTCAA
AAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCTCACGTGGACGC
Found at i:95329507 original size:21 final size:21
Alignment explanation
Indices: 95329482--95329521 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
95329472 GTTTCGGAAA
95329482 GGGTTCTGGTTGC-TCCGGCGG
1 GGGTTCTGGTT-CATCCGGCGG
*
95329503 GGGTTGTGGTTCATCCGGC
1 GGGTTCTGGTTCATCCGGC
95329522 TGGAGATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.03, C:0.23, G:0.45, T:0.30
Consensus pattern (21 bp):
GGGTTCTGGTTCATCCGGCGG
Found at i:95329894 original size:30 final size:30
Alignment explanation
Indices: 95329860--95329928 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
95329850 GTTGAAGTGT
**
95329860 TGGGCCCGGTGACTGTATGGGTGCTATTGA
1 TGGGCCCGGTGACTGTATGGGCACTATTGA
* * * * *
95329890 TGGGCCAGCTGATTGTATGGGCATTGTTGA
1 TGGGCCCGGTGACTGTATGGGCACTATTGA
95329920 TGGGCCCGG
1 TGGGCCCGG
95329929 GTCGTTATTC
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.13, C:0.17, G:0.41, T:0.29
Consensus pattern (30 bp):
TGGGCCCGGTGACTGTATGGGCACTATTGA
Found at i:95330434 original size:7 final size:7
Alignment explanation
Indices: 95330424--95330462 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
95330414 TTGTATACAT
95330424 AATACTA
1 AATACTA
95330431 AATACTA
1 AATACTA
95330438 AATACTA
1 AATACTA
*
95330445 AATATTA
1 AATACTA
95330452 AA-ACTA
1 AATACTA
95330458 AATAC
1 AATAC
95330463 GAAACGATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 5 0.17
7 24 0.83
ACGTcount: A:0.59, C:0.13, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:95331499 original size:48 final size:49
Alignment explanation
Indices: 95331407--95331499 Score: 143
Period size: 49 Copynumber: 1.9 Consensus size: 49
95331397 ATAAAATTAA
**
95331407 AATTAAAATTGCATAAATGAAAAAAATTATTAAATTGTATTGAAAAATT
1 AATTAAAATTGCATAAATGAAAAAAATTATTAAATACTATTGAAAAATT
**
95331456 AATTAAAATTGCATAAATTTAAAAAA-TATTAAATACTATTGAAA
1 AATTAAAATTGCATAAATGAAAAAAATTATTAAATACTATTGAAA
95331500 TATTTAAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
48 16 0.40
49 24 0.60
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.34
Consensus pattern (49 bp):
AATTAAAATTGCATAAATGAAAAAAATTATTAAATACTATTGAAAAATT
Found at i:95331692 original size:22 final size:22
Alignment explanation
Indices: 95331680--95331733 Score: 108
Period size: 22 Copynumber: 2.5 Consensus size: 22
95331670 GAGAGAATAC
95331680 GAGAGAATTTTTGGAAGAATTT
1 GAGAGAATTTTTGGAAGAATTT
95331702 GAGAGAATTTTTGGAAGAATTT
1 GAGAGAATTTTTGGAAGAATTT
95331724 GAGAGAATTT
1 GAGAGAATTT
95331734 GGATAGGAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.37, C:0.00, G:0.28, T:0.35
Consensus pattern (22 bp):
GAGAGAATTTTTGGAAGAATTT
Found at i:95331698 original size:12 final size:12
Alignment explanation
Indices: 95331683--95331723 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
95331673 AGAATACGAG
95331683 AGAATTTTTGGA
1 AGAATTTTTGGA
95331695 AGAA--TTT-GA
1 AGAATTTTTGGA
95331704 GAGAATTTTTGGA
1 -AGAATTTTTGGA
95331717 AGAATTT
1 AGAATTT
95331724 GAGAGAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
9 2 0.08
10 7 0.28
12 14 0.56
13 2 0.08
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (12 bp):
AGAATTTTTGGA
Found at i:95331702 original size:10 final size:11
Alignment explanation
Indices: 95331689--95331736 Score: 50
Period size: 10 Copynumber: 4.5 Consensus size: 11
95331679 CGAGAGAATT
95331689 TTTGGA-AGAA
1 TTTGGAGAGAA
95331699 TTT-GAGAGAA
1 TTTGGAGAGAA
95331709 TTTTTGGA-AGAA
1 --TTTGGAGAGAA
95331721 TTT-GAGAGAA
1 TTTGGAGAGAA
95331731 TTTGGA
1 TTTGGA
95331737 TAGGAGGACT
Statistics
Matches: 32, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
9 4 0.12
10 17 0.53
11 2 0.06
12 7 0.22
13 2 0.06
ACGTcount: A:0.35, C:0.00, G:0.29, T:0.35
Consensus pattern (11 bp):
TTTGGAGAGAA
Found at i:95333991 original size:20 final size:20
Alignment explanation
Indices: 95333966--95334005 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
95333956 AATATTTTCT
*
95333966 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
95333986 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
95334006 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:95334008 original size:34 final size:35
Alignment explanation
Indices: 95333954--95334020 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
95333944 CAAACAGCAG
* *
95333954 AAAATATTTTCTAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
95333989 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
95334021 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:95334012 original size:14 final size:14
Alignment explanation
Indices: 95333989--95334028 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
95333979 ACAGAAAAGT
*
95333989 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
95334003 AAATCATTTTACGG
1 AAAACATTTTACAG
95334017 AAAACATTTTAC
1 AAAACATTTTAC
95334029 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:95335190 original size:22 final size:22
Alignment explanation
Indices: 95335168--95335209 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
95335158 TTTTAAAATA
*
95335168 AAAC-ACATAAACTAAATTTAT
1 AAACTACATAAACAAAATTTAT
*
95335189 AAACTACATATACAAAATTTA
1 AAACTACATAAACAAAATTTA
95335210 ACTTCTAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (22 bp):
AAACTACATAAACAAAATTTAT
Found at i:95339981 original size:12 final size:12
Alignment explanation
Indices: 95339964--95339996 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
95339954 AATAAATCAA
95339964 AATTAATTATAT
1 AATTAATTATAT
95339976 AATTAATTATAT
1 AATTAATTATAT
95339988 AATTAATTA
1 AATTAATTA
95339997 AAATTTAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AATTAATTATAT
Found at i:95341663 original size:291 final size:291
Alignment explanation
Indices: 95341139--95341721 Score: 1157
Period size: 291 Copynumber: 2.0 Consensus size: 291
95341129 CATAAGATAA
*
95341139 AATAAGATCATATTGGAAGAACAAATTTATCCCAAAGAGATTAAACATATCCTATAAGGGTAACA
1 AATAAGATCAGATTGGAAGAACAAATTTATCCCAAAGAGATTAAACATATCCTATAAGGGTAACA
95341204 TACTTATAACAAGATCATTGGACGAACACTGATCGAGTAACTTTCGAAATGATATGCCATTAAGG
66 TACTTATAACAAGATCATTGGACGAACACTGATCGAGTAACTTTCGAAATGATATGCCATTAAGG
95341269 AGAGCTCAATAATGATATTATAGTGAAATGACTTCGTGACTAAATGAGTTTACAATTAATAGGTG
131 AGAGCTCAATAATGATATTATAGTGAAATGACTTCGTGACTAAATGAGTTTACAATTAATAGGTG
95341334 AAAAATTGAAACTTAATTATAAATCATTTGAGCCCTAATTACATATATTCAATTAGTCCCTCTAC
196 AAAAATTGAAACTTAATTATAAATCATTTGAGCCCTAATTACATATATTCAATTAGTCCCTCTAC
95341399 TAGCTCGTTGAAACAAAAAATGAATTACATG
261 TAGCTCGTTGAAACAAAAAATGAATTACATG
95341430 AATAAGATCAGATTGGAAGAACAAATTTATCCCAAAGAGATTAAACATATCCTATAAGGGTAACA
1 AATAAGATCAGATTGGAAGAACAAATTTATCCCAAAGAGATTAAACATATCCTATAAGGGTAACA
95341495 TACTTATAACAAGATCATTGGACGAACACTGATCGAGTAACTTTCGAAATGATATGCCATTAAGG
66 TACTTATAACAAGATCATTGGACGAACACTGATCGAGTAACTTTCGAAATGATATGCCATTAAGG
95341560 AGAGCTCAATAATGATATTATAGTGAAATGACTTCGTGACTAAATGAGTTTACAATTAATAGGTG
131 AGAGCTCAATAATGATATTATAGTGAAATGACTTCGTGACTAAATGAGTTTACAATTAATAGGTG
95341625 AAAAATTGAAACTTAATTATAAATCATTTGAGCCCTAATTACATATATTCAATTAGTCCCTCTAC
196 AAAAATTGAAACTTAATTATAAATCATTTGAGCCCTAATTACATATATTCAATTAGTCCCTCTAC
95341690 TAGCTCGTTGAAACAAAAAATGAATTACATG
261 TAGCTCGTTGAAACAAAAAATGAATTACATG
95341721 A
1 A
95341722 TGAATCAAAT
Statistics
Matches: 291, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
291 291 1.00
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.29
Consensus pattern (291 bp):
AATAAGATCAGATTGGAAGAACAAATTTATCCCAAAGAGATTAAACATATCCTATAAGGGTAACA
TACTTATAACAAGATCATTGGACGAACACTGATCGAGTAACTTTCGAAATGATATGCCATTAAGG
AGAGCTCAATAATGATATTATAGTGAAATGACTTCGTGACTAAATGAGTTTACAATTAATAGGTG
AAAAATTGAAACTTAATTATAAATCATTTGAGCCCTAATTACATATATTCAATTAGTCCCTCTAC
TAGCTCGTTGAAACAAAAAATGAATTACATG
Found at i:95342022 original size:17 final size:19
Alignment explanation
Indices: 95341977--95342023 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 19
95341967 TGATTTTAAC
* *
95341977 AAAATTAAATTAGGTTGAG
1 AAAATTAATTTAGATTGAG
95341996 AAAATT-ATTTA-ATTGA-
1 AAAATTAATTTAGATTGAG
95342012 AAAATTAATTTA
1 AAAATTAATTTA
95342024 TTTAAATTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 6 0.24
17 9 0.36
18 4 0.16
19 6 0.24
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.38
Consensus pattern (19 bp):
AAAATTAATTTAGATTGAG
Found at i:95343076 original size:11 final size:11
Alignment explanation
Indices: 95343060--95343089 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
95343050 TCAATGAAAT
95343060 GCCTATTACGA
1 GCCTATTACGA
95343071 GCCTATTACGA
1 GCCTATTACGA
95343082 GCCTATTA
1 GCCTATTA
95343090 TGTTATGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.30
Consensus pattern (11 bp):
GCCTATTACGA
Found at i:95345876 original size:58 final size:59
Alignment explanation
Indices: 95345714--95345880 Score: 170
Period size: 58 Copynumber: 2.9 Consensus size: 59
95345704 TTAAAGTAGG
* * * * * *
95345714 TTATATATTATTTTTA-TAATATTATATATTTTTTAATTCA-TATTATAATAATTATTAAA
1 TTATATATTATTTTTATTAA-AATATATATTTTTAAAATAATTATTAAAAT-ATGATTAAA
95345773 TTATATATTA-TTTTATT-AAAT-TATA--TTTAATAATAATTATGTTAAAATATGATTAAA
1 TTATATATTATTTTTATTAAAATATATATTTTTAA-AATAATTA--TTAAAATATGATTAAA
*
95345830 TTATTTATTATTTTTATTAAAATATATATTTTTAAAAT-ATTATTAAAATAT
1 TTATATATTATTTTTATTAAAATATATATTTTTAAAATAATTATTAAAATAT
95345881 ATTTAATAAA
Statistics
Matches: 91, Mismatches: 7, Indels: 21
0.76 0.06 0.18
Matches are distributed among these distances:
54 4 0.04
55 3 0.03
56 6 0.07
57 19 0.21
58 28 0.31
59 15 0.16
60 8 0.09
61 3 0.03
62 5 0.05
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (59 bp):
TTATATATTATTTTTATTAAAATATATATTTTTAAAATAATTATTAAAATATGATTAAA
Found at i:95345892 original size:26 final size:26
Alignment explanation
Indices: 95345843--95345902 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
95345833 TTTATTATTT
* *
95345843 TTATTAAAATATATATTTTTAAAATA
1 TTATTAAAATATATATTATAAAAATA
*
95345869 TTATTAAAATATAT-TTAATAAAAATG
1 TTATTAAAATATATATT-ATAAAAATA
95345895 TTATTAAA
1 TTATTAAA
95345903 GTTTAATAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
25 2 0.07
26 28 0.93
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (26 bp):
TTATTAAAATATATATTATAAAAATA
Found at i:95347248 original size:29 final size:29
Alignment explanation
Indices: 95347210--95347268 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
95347200 CAATAGTATT
*
95347210 AGTCGAAATAATTAATATTATTTCAATTA
1 AGTCCAAATAATTAATATTATTTCAATTA
95347239 AGTCCAAATAATTAATATTATTTCAATTA
1 AGTCCAAATAATTAATATTATTTCAATTA
95347268 A
1 A
95347269 ATTTTTTATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (29 bp):
AGTCCAAATAATTAATATTATTTCAATTA
Found at i:95350995 original size:19 final size:19
Alignment explanation
Indices: 95350957--95350995 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
95350947 CTAATCAAAT
* *
95350957 AATATTTTTAATTATTTCA
1 AATATTTTTAACTATCTCA
*
95350976 AATATTTTTTACTATCTCA
1 AATATTTTTAACTATCTCA
95350995 A
1 A
95350996 GACAAATTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.54
Consensus pattern (19 bp):
AATATTTTTAACTATCTCA
Found at i:95351861 original size:31 final size:31
Alignment explanation
Indices: 95351826--95351886 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
95351816 TGATCTAGTT
* *
95351826 TTTGGCCCTTGAACTTGACAACTAGGTCCAC
1 TTTGGCCATTGAAATTGACAACTAGGTCCAC
*
95351857 TTTGGTCATTGAAATTGACAACTAGGTCCA
1 TTTGGCCATTGAAATTGACAACTAGGTCCA
95351887 TTTAGATCCC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (31 bp):
TTTGGCCATTGAAATTGACAACTAGGTCCAC
Found at i:95353066 original size:14 final size:14
Alignment explanation
Indices: 95353023--95353066 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
95353013 ATTTTGAAAG
95353023 AAATTAAATTCTTAA
1 AAATTAAATTC-TAA
* * *
95353038 AAATAAAAATATAA
1 AAATTAAATTCTAA
95353052 AAATTAAATTCTAA
1 AAATTAAATTCTAA
95353066 A
1 A
95353067 TTTTGTAAGA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
14 15 0.65
15 8 0.35
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (14 bp):
AAATTAAATTCTAA
Found at i:95353211 original size:74 final size:75
Alignment explanation
Indices: 95353126--95353283 Score: 302
Period size: 74 Copynumber: 2.1 Consensus size: 75
95353116 CTCTCATGCT
95353126 ATTATTATTATTAATTTAATAATAATAACTTTTTGTGTTTAATTTTATGATCAATTTTTCATCAA
1 ATTATTATTATTAATTTAATAATAATAACTTTTTGTGTTTAATTTTATGATCAATTTTTCATCAA
95353191 ATTTGTCT-A
66 ATTTGTCTAA
95353200 ATTATTATTATTAATTTAATAATAATAACTTTTTGTGTTTAATTTTATGATCAATTTTTCATCAA
1 ATTATTATTATTAATTTAATAATAATAACTTTTTGTGTTTAATTTTATGATCAATTTTTCATCAA
95353265 ATTTGTCTAA
66 ATTTGTCTAA
95353275 ATT-TTATTA
1 ATTATTATTA
95353284 AATCGTTAAC
Statistics
Matches: 83, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
74 79 0.95
75 4 0.05
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.54
Consensus pattern (75 bp):
ATTATTATTATTAATTTAATAATAATAACTTTTTGTGTTTAATTTTATGATCAATTTTTCATCAA
ATTTGTCTAA
Found at i:95353743 original size:23 final size:21
Alignment explanation
Indices: 95353697--95353744 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 21
95353687 TGAATTGAAG
*
95353697 AAAATTTAAAAAAAATAATTC
1 AAAATTTAAAAAAAATAATGC
95353718 AAAATTCTAAAAATAACA-AATGC
1 AAAATT-TAAAAA-AA-ATAATGC
95353741 AAAA
1 AAAA
95353745 AAGAGAATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 6 0.26
22 6 0.26
23 10 0.43
24 1 0.04
ACGTcount: A:0.67, C:0.08, G:0.02, T:0.23
Consensus pattern (21 bp):
AAAATTTAAAAAAAATAATGC
Found at i:95356380 original size:19 final size:19
Alignment explanation
Indices: 95356356--95356420 Score: 67
Period size: 19 Copynumber: 3.2 Consensus size: 19
95356346 CTCGTAACCA
95356356 AAAATTCAAAATATTTTTT
1 AAAATTCAAAATATTTTTT
* * *
95356375 AAAATTCAGAATATTTATA
1 AAAATTCAAAATATTTTTT
95356394 AAAATTCTAAAATTTATATTTTT
1 AAAATTC-AAAA--TAT-TTTTT
95356417 AAAA
1 AAAA
95356421 AAAATTCTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 23 0.64
20 3 0.08
22 3 0.08
23 7 0.19
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.43
Consensus pattern (19 bp):
AAAATTCAAAATATTTTTT
Found at i:95358344 original size:483 final size:484
Alignment explanation
Indices: 95357439--95358405 Score: 1501
Period size: 483 Copynumber: 2.0 Consensus size: 484
95357429 GAGTCCACAG
*
95357439 GGATTGATAATTATGATCAACTTTCATGTTTTTCTTGAAAACAGAATTTTCATCGTGTCGATAAT
1 GGATTGATAATTATGATCAACTTTCATGTTTTTCTTGAAAACAGAATTTTCATCATGTCGATAAT
* *
95357504 CGTGGCAATAGTCATGCCTACAACGTCACAACTCCAAACGAACCTGTGAAAAATAAATAAAATAA
66 CGTGGCAATAGTCATGCCTACAACGGCACAACTCCAAACGAACCTCTGAAAAATAAATAAAATAA
* * *
95357569 ATTAGGAGAGTTGAAAATGTCTAAAAATTAAATAATTGAGATAGCAGAAATTAACAATTACGTAA
131 ATTAGAAGAGTTGAAAATGTCTAAAAATTAAATAATTGAGATAGCAGAAATTAAAAATTACATAA
*
95357634 ATTGAAAATAAAATAAAATTAGAAAATAAATTTGAACTTTGTAAACAGAATTATAAAGCCGTAGC
196 ATCGAAAATAAAATAAAATTAGAAAATAAATTTGAACTTTGTAAACAGAATTATAAAGCCGTAGC
* * *
95357699 CTTAGACTTGGTAAAGTTTGGTTTCCGAATCAATCCTCGAAAATAATTTTTCTCCTCCAAAAAAT
261 CTTAGACTTGGTAAAGCTCGGTTTCCGAATCAATCCTCGAAAATAAGTTTTCTCCTCCAAAAAAT
95357764 AGGCTAGTTATAGCGGCTAAGAACGTCTTAACCACCAATCCTTCCTCTCGTAGTTGATTCTGGTA
326 AGGCTAGTTATAGCGGCTAAGAACGTCTTAACCACCAATCCTTCCTCTCGTAGTTGATTCTGGTA
* * * ** *
95357829 TGCCTTGCAAACCAACCCTGACCGATTGTCTAA-C-GACACACGTGTTGGCAATTCAAGACCTCG
391 CGCCCTGCAAACCAACCATGACCGATTGTCTAACCGGACACACACGTTCGCAATTCAAGACCTCG
*
95357892 ATAGCCTTGTGTTCTGAAGAACCCAACTC
456 ATAGCCTTGCGTTCTGAAGAACCCAACTC
* ** **
95357921 GGATTGATAATTATGATCAACTTTCGTGTTTTTCTTGTGAACAGAATTTTTGTCATGTCGATAAT
1 GGATTGATAATTATGATCAACTTTCATGTTTTTCTTGAAAACAGAATTTTCATCATGTCGATAAT
* * * *
95357986 CGTGGGC-ATAGTCGTGCCTACAATGGCACGACTCCAAAC-AGACCTACTGAAAAATAAATAGAA
66 CGT-GGCAATAGTCATGCCTACAACGGCACAACTCCAAACGA-ACCT-CTGAAAAATAAATAAAA
* * * * *
95358049 TAAATTCGAAGAGTTGACATTGTCTAGAAATTAAATAATTGAGATAGCAGAAATTAAAAATTATA
128 TAAATTAGAAGAGTTGAAAATGTCTAAAAATTAAATAATTGAGATAGCAGAAATTAAAAATTACA
* * *
95358114 TAAATCGAAAATAAAATAAAATTAGAAAATGAATTTGAATTTTGTAAACAGAATTATAAAGCCTT
193 TAAATCGAAAATAAAATAAAATTAGAAAATAAATTTGAACTTTGTAAACAGAATTATAAAGCCGT
* *
95358179 AGCCTTAGACTTGGTAAAGCTCGGTTTCCGAATCAATCCTTGAAAATAAGTTTTCTCCTCCAAAC
258 AGCCTTAGACTTGGTAAAGCTCGGTTTCCGAATCAATCCTCGAAAATAAGTTTTCTCCTCCAAAA
* *
95358244 AATAGGCTAGTTATAGCGGCTGAGAACGTCTTAACCACCAATTCTTCCTCTCGTAGTTGATTCTG
323 AATAGGCTAGTTATAGCGGCTAAGAACGTCTTAACCACCAATCCTTCCTCTCGTAGTTGATTCTG
* * *
95358309 GTACGCCCTGTAAACCAACCATTATCGATTGTCTAACCGTGACACACACGTTCGCAATTCAAGAC
388 GTACGCCCTGCAAACCAACCATGACCGATTGTCTAACCG-GACACACACGTTCGCAATTCAAGAC
95358374 CTCGATAGCCTTGCGTTCTGAAGAACCCAACT
452 CTCGATAGCCTTGCGTTCTGAAGAACCCAACT
95358406 TAGATTAATG
Statistics
Matches: 438, Mismatches: 41, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
481 1 0.00
482 94 0.21
483 289 0.66
484 1 0.00
486 53 0.12
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (484 bp):
GGATTGATAATTATGATCAACTTTCATGTTTTTCTTGAAAACAGAATTTTCATCATGTCGATAAT
CGTGGCAATAGTCATGCCTACAACGGCACAACTCCAAACGAACCTCTGAAAAATAAATAAAATAA
ATTAGAAGAGTTGAAAATGTCTAAAAATTAAATAATTGAGATAGCAGAAATTAAAAATTACATAA
ATCGAAAATAAAATAAAATTAGAAAATAAATTTGAACTTTGTAAACAGAATTATAAAGCCGTAGC
CTTAGACTTGGTAAAGCTCGGTTTCCGAATCAATCCTCGAAAATAAGTTTTCTCCTCCAAAAAAT
AGGCTAGTTATAGCGGCTAAGAACGTCTTAACCACCAATCCTTCCTCTCGTAGTTGATTCTGGTA
CGCCCTGCAAACCAACCATGACCGATTGTCTAACCGGACACACACGTTCGCAATTCAAGACCTCG
ATAGCCTTGCGTTCTGAAGAACCCAACTC
Found at i:95361646 original size:17 final size:16
Alignment explanation
Indices: 95361624--95361676 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 16
95361614 AATGTGCAAA
95361624 TATGAATGAATACAGGG
1 TATGAATGAATACA-GG
**
95361641 TATGAAT-AATA-AAA
1 TATGAATGAATACAGG
95361655 TATGAATGAATACATGG
1 TATGAATGAATACA-GG
95361672 TATGA
1 TATGA
95361677 TCATATAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
14 7 0.24
15 5 0.17
16 5 0.17
17 12 0.41
ACGTcount: A:0.47, C:0.04, G:0.21, T:0.28
Consensus pattern (16 bp):
TATGAATGAATACAGG
Found at i:95361656 original size:31 final size:31
Alignment explanation
Indices: 95361621--95361691 Score: 108
Period size: 31 Copynumber: 2.3 Consensus size: 31
95361611 ATAAATGTGC
95361621 AAATATGAATGAATACAGGGTATGAATAATA-
1 AAATATGAATGAATACAGGGTATG-ATAATAT
* *
95361652 AAATATGAATGAATACATGGTATGATCATAT
1 AAATATGAATGAATACAGGGTATGATAATAT
95361683 AAATATGAA
1 AAATATGAA
95361692 AATTTGATAC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 5 0.14
31 32 0.86
ACGTcount: A:0.51, C:0.04, G:0.17, T:0.28
Consensus pattern (31 bp):
AAATATGAATGAATACAGGGTATGATAATAT
Found at i:95363308 original size:3 final size:3
Alignment explanation
Indices: 95363300--95363343 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
95363290 AATAAATAGG
95363300 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
95363344 GGACTAATTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:95364829 original size:99 final size:99
Alignment explanation
Indices: 95364653--95365190 Score: 997
Period size: 99 Copynumber: 5.4 Consensus size: 99
95364643 GTCTTGCCGA
*
95364653 GGAAATAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCGC
1 GGAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCGC
* *
95364718 TGTTGTAGCTTCAATCTGCTCCGCTGCATCGCCT
66 TGTTGTAGCTTCAATCTGTTCCACTGCATCGCCT
95364752 GGAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCGC
1 GGAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCGC
95364817 TGTTGTAGCTTCAATCTGTTCCACTGCATCGCCT
66 TGTTGTAGCTTCAATCTGTTCCACTGCATCGCCT
95364851 GGAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCGC
1 GGAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCGC
*
95364916 TGTTGTAGCTTCAATCTGTTCCACTACATCGCCT
66 TGTTGTAGCTTCAATCTGTTCCACTGCATCGCCT
95364950 GGAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCGC
1 GGAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCGC
95365015 TGTTGTAGCTT-AATCTGTTCCACTGCATCGCCT
66 TGTTGTAGCTTCAATCTGTTCCACTGCATCGCCT
* *
95365048 GAAAGTAAGATTCGCCATTGTGGCTTCGATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCGC
1 GGAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCGC
*
95365113 TGTTGTAGCTTCAATCTGTTCCACTGCATCGCTT
66 TGTTGTAGCTTCAATCTGTTCCACTGCATCGCCT
*
95365147 GGAAGTAAGATTCGCCGTTGTGGCTTTGATCTTTTAAATTGCAA
1 GGAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAA
95365191 ACTATGGTTT
Statistics
Matches: 427, Mismatches: 11, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
98 95 0.22
99 332 0.78
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.34
Consensus pattern (99 bp):
GGAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCGC
TGTTGTAGCTTCAATCTGTTCCACTGCATCGCCT
Found at i:95380727 original size:70 final size:70
Alignment explanation
Indices: 95380651--95380812 Score: 173
Period size: 70 Copynumber: 2.3 Consensus size: 70
95380641 CTTGTGAAGT
* * *
95380651 TATATTGAACTTGTATATTTGATTACATATGAGG-TTATATTGAATTTGTATATTCAGCCATATG
1 TATATTGAACTTGTATATTTGATTACATATGAGGATAAT-TTGAACTTATATATTCAGCCATATG
*
95380715 AGATAT
65 AGATAA
* * * * * * * *
95380721 TTTATTGAACTTGAACATTAGGTTACATGTGATGATAATTTGAACTTATATATTCGGCCATATGA
1 TATATTGAACTTGTATATTTGATTACATATGAGGATAATTTGAACTTATATATTCAGCCATATGA
95380786 GATAA
66 GATAA
* *
95380791 TATAATGAACCTTGTGTATTTG
1 TATATTGAA-CTTGTATATTTG
95380813 GCTATATAGG
Statistics
Matches: 72, Mismatches: 18, Indels: 3
0.77 0.19 0.03
Matches are distributed among these distances:
70 61 0.85
71 11 0.15
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.42
Consensus pattern (70 bp):
TATATTGAACTTGTATATTTGATTACATATGAGGATAATTTGAACTTATATATTCAGCCATATGA
GATAA
Found at i:95388648 original size:12 final size:12
Alignment explanation
Indices: 95388631--95388660 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
95388621 CCACACACGC
95388631 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
95388643 CCGTGTGCTAGG
1 CCGTGTGCCAGG
95388655 CCGTGT
1 CCGTGT
95388661 AACACCTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.30, G:0.40, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:95392895 original size:20 final size:20
Alignment explanation
Indices: 95392872--95392910 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
95392862 AACCACTCCG
*
95392872 TTTATTTACTTACCATTCCT
1 TTTACTTACTTACCATTCCT
*
95392892 TTTACTTACTTTCCATTCC
1 TTTACTTACTTACCATTCC
95392911 ATTGACTTAG
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:0.18, C:0.28, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTACTTACTTACCATTCCT
Found at i:95392918 original size:20 final size:20
Alignment explanation
Indices: 95392877--95392919 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
95392867 CTCCGTTTAT
* *
95392877 TTACTTACCATTCCTTTTAC
1 TTACTTACCATTCCATTGAC
*
95392897 TTACTTTCCATTCCATTGAC
1 TTACTTACCATTCCATTGAC
95392917 TTA
1 TTA
95392920 GCATAGTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.21, C:0.28, G:0.02, T:0.49
Consensus pattern (20 bp):
TTACTTACCATTCCATTGAC
Found at i:95398146 original size:20 final size:20
Alignment explanation
Indices: 95398110--95398147 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
95398100 AAAATATTAA
*
95398110 AATAATCTTTTATATTTTGT
1 AATAATCTTTAATATTTTGT
95398130 AATAAT-TTTAATGATTTT
1 AATAATCTTTAAT-ATTTT
95398148 TGAACATCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (20 bp):
AATAATCTTTAATATTTTGT
Found at i:95403411 original size:32 final size:32
Alignment explanation
Indices: 95403370--95403430 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
95403360 AAGAAGAAAG
95403370 GTAACAAAAACATGGAATCCGATTGCAAAAAA
1 GTAACAAAAACATGGAATCCGATTGCAAAAAA
95403402 GTAACAAAAACATGGAATCCGATTGCAAA
1 GTAACAAAAACATGGAATCCGATTGCAAA
95403431 TGCCAGGAGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.51, C:0.16, G:0.16, T:0.16
Consensus pattern (32 bp):
GTAACAAAAACATGGAATCCGATTGCAAAAAA
Found at i:95407989 original size:119 final size:121
Alignment explanation
Indices: 95407838--95408054 Score: 332
Period size: 119 Copynumber: 1.8 Consensus size: 121
95407828 TGAAATATGA
* * *
95407838 GGATCAAATTGAAATTTAACCATTCTTATAATCGTAAAGAATTAGAGGGATTGGAGTTGAAA-TT
1 GGATCAAATTGAAATTTAACCATTCTTATAATCGTAAAAAATTAGAGGGATTAGAATT-AAACTT
95407902 TACCCA-TATGTTCTCATGTAAAAAAGAA-AAGATAAAACAATCGACAAGTGTCCAT
65 TACCCATTATGTTCTCATGTAAAAAAGAAGAAGATAAAACAATCGACAAGTGTCCAT
* * *
95407957 GGATCAAATTGAAATTTCACCATTCTTATAATCTTAAAAAATTAGAGGGGTTAGAATTAAACTTT
1 GGATCAAATTGAAATTTAACCATTCTTATAATCGTAAAAAATTAGAGGGATTAGAATTAAACTTT
* *
95408022 ACTCATTATGTTCTCATGTTAAAAAGAAGAAGA
66 ACCCATTATGTTCTCATGTAAAAAAGAAGAAGA
95408055 AGATGAAAGA
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
118 3 0.03
119 59 0.68
120 21 0.24
121 4 0.05
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (121 bp):
GGATCAAATTGAAATTTAACCATTCTTATAATCGTAAAAAATTAGAGGGATTAGAATTAAACTTT
ACCCATTATGTTCTCATGTAAAAAAGAAGAAGATAAAACAATCGACAAGTGTCCAT
Found at i:95408366 original size:25 final size:26
Alignment explanation
Indices: 95408338--95408394 Score: 82
Period size: 24 Copynumber: 2.3 Consensus size: 26
95408328 ACATTTTGAA
*
95408338 ATTTTAAAAAAATTA-ATTGCAATGT
1 ATTTTAAAAAAATAATATTGCAATGT
*
95408363 A-TTTAAAAAAATAATATTGTAATGT
1 ATTTTAAAAAAATAATATTGCAATGT
95408388 ATTTTAA
1 ATTTTAA
95408395 TTTAACAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 12 0.43
25 11 0.39
26 5 0.18
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.42
Consensus pattern (26 bp):
ATTTTAAAAAAATAATATTGCAATGT
Found at i:95408371 original size:24 final size:25
Alignment explanation
Indices: 95408340--95408391 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
95408330 ATTTTGAAAT
*
95408340 TTTAAAAAAATTA-ATTGCAATGTA
1 TTTAAAAAAATAATATTGCAATGTA
*
95408364 TTTAAAAAAATAATATTGTAATGTA
1 TTTAAAAAAATAATATTGCAATGTA
95408389 TTT
1 TTT
95408392 TAATTTAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 12 0.48
25 13 0.52
ACGTcount: A:0.48, C:0.02, G:0.08, T:0.42
Consensus pattern (25 bp):
TTTAAAAAAATAATATTGCAATGTA
Found at i:95410970 original size:166 final size:160
Alignment explanation
Indices: 95410702--95411027 Score: 580
Period size: 166 Copynumber: 2.0 Consensus size: 160
95410692 ATCAATGGTT
95410702 GGGTCAGCTGAAGTGTTTTCTATCAGTAAGTTAGCATTGAAAGTGTTGTCATAGCAAGTGTGGGT
1 GGGTCAGCTGAAGTGTTTTCTATCAGTAAGTTAGCATTGAAAGTGTTGTCATAGCAAGTGTGGGT
*
95410767 CTTGAGGTTTGTAGATGATTTCCATTGTTCATATCAAAAATATAATTTCTTCATTTAATACTAAA
66 CTTGAGGTTTGTAGATGATTTCCATTGTTCATATCAAAAATATAATTTCTTCATTTAACACTAAA
95410832 AATAGTCATGAAATTTCATAAACATACAAA
131 AATAGTCATGAAATTTCATAAACATACAAA
*
95410862 GGGTCAGCTGAAGTGTTTTCTATCAGTAATTTTAACTTGGCATTGAAAGTGTTGTCATAGCAAGT
1 GGGTCAGCTGAAGTGTTTTCTATCAGTAA-GTT-A----GCATTGAAAGTGTTGTCATAGCAAGT
95410927 GTGGGTCTTGAGGTTTGTAGATGATTTCCATTGTTCATATCAAAAATATAATTTCTTCATTTAAC
60 GTGGGTCTTGAGGTTTGTAGATGATTTCCATTGTTCATATCAAAAATATAATTTCTTCATTTAAC
95410992 ACTAAAAATAGTCATGAAATTTCATAAACATACAAA
125 ACTAAAAATAGTCATGAAATTTCATAAACATACAAA
95411028 CCTTCCAAGA
Statistics
Matches: 158, Mismatches: 2, Indels: 6
0.95 0.01 0.04
Matches are distributed among these distances:
160 29 0.18
161 2 0.01
162 1 0.01
166 126 0.80
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (160 bp):
GGGTCAGCTGAAGTGTTTTCTATCAGTAAGTTAGCATTGAAAGTGTTGTCATAGCAAGTGTGGGT
CTTGAGGTTTGTAGATGATTTCCATTGTTCATATCAAAAATATAATTTCTTCATTTAACACTAAA
AATAGTCATGAAATTTCATAAACATACAAA
Found at i:95411277 original size:15 final size:15
Alignment explanation
Indices: 95411257--95411321 Score: 53
Period size: 15 Copynumber: 4.3 Consensus size: 15
95411247 TCCTCCAGCT
95411257 CTTCATCATCATCAA
1 CTTCATCATCATCAA
*
95411272 CTTCAT-ATACATCAT
1 CTTCATCAT-CATCAA
**
95411287 CACCATCATCAT-AA
1 CTTCATCATCATCAA
* *
95411301 TCTTCATCATCTTCGA
1 -CTTCATCATCATCAA
95411317 CTTCA
1 CTTCA
95411322 GCTTCATCAT
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
14 3 0.08
15 32 0.84
16 3 0.08
ACGTcount: A:0.31, C:0.32, G:0.02, T:0.35
Consensus pattern (15 bp):
CTTCATCATCATCAA
Found at i:95423150 original size:16 final size:16
Alignment explanation
Indices: 95423115--95423174 Score: 50
Period size: 16 Copynumber: 3.6 Consensus size: 16
95423105 CCTGTAAAGA
* * *
95423115 AGAAATAAATAAATTT
1 AGAAATAAAGAAAATG
95423131 AGAAATAAAGAAAATG
1 AGAAATAAAGAAAATG
95423147 AGAACACTAAAAGAAAATTG
1 AGAA-A-T-AAAGAAAA-TG
95423167 AG-AATAAA
1 AGAAATAAA
95423175 TAATAAATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
16 20 0.54
17 2 0.05
18 2 0.05
19 9 0.24
20 4 0.11
ACGTcount: A:0.65, C:0.03, G:0.13, T:0.18
Consensus pattern (16 bp):
AGAAATAAAGAAAATG
Found at i:95425414 original size:43 final size:43
Alignment explanation
Indices: 95425355--95425506 Score: 153
Period size: 43 Copynumber: 3.5 Consensus size: 43
95425345 CAAGTTATAC
* *
95425355 TTCGGTATATCCGATGATGCACTATGTGTGCCAGTACATTTCT
1 TTCGGTTTATTCGATGATGCACTATGTGTGCCAGTACATTTCT
* * * * ** *
95425398 TTCAGTTTATTCGATGATGCATTGTGTGTGCCAGTATAAATGT
1 TTCGGTTTATTCGATGATGCACTATGTGTGCCAGTACATTTCT
* * * * *
95425441 TTCGGTATATCCGATGATGCACTATGTGTGTCAATACATTTTT
1 TTCGGTTTATTCGATGATGCACTATGTGTGCCAGTACATTTCT
*
95425484 TTTGGTTTA-TCTGATGATGCACT
1 TTCGGTTTATTC-GATGATGCACT
95425507 GTATGCCAGT
Statistics
Matches: 85, Mismatches: 23, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
42 1 0.01
43 84 0.99
ACGTcount: A:0.22, C:0.16, G:0.21, T:0.41
Consensus pattern (43 bp):
TTCGGTTTATTCGATGATGCACTATGTGTGCCAGTACATTTCT
Found at i:95425556 original size:84 final size:85
Alignment explanation
Indices: 95425354--95425557 Score: 259
Period size: 86 Copynumber: 2.4 Consensus size: 85
95425344 ACAAGTTATA
* *
95425354 CTTCGGTATATCCGATGATGCACTATGTGTGCCAGTACATTTCTTTCAGTTTATTCGATGATGCA
1 CTTCGGTATATCCGATGATGCACTATGTGTGTCAATACATTTCTTTCAGTTTATTCGATGATGCA
* *
95425419 TTGTGTGTGCCAGTATAAATG
66 -TCTGTATGCCAGTATAAATG
* * **
95425440 TTTCGGTATATCCGATGATGCACTATGTGTGTCAATACATTTTTTTTGGTTTA-TCTGATGATGC
1 CTTCGGTATATCCGATGATGCACTATGTGTGTCAATACATTTCTTTCAGTTTATTC-GATGATGC
*
95425504 A-CTGTATGCCAGTGTAAATG
65 ATCTGTATGCCAGTATAAATG
** * *
95425524 CTTCGGTATATTTGAAGATGCACTATATGTGTCA
1 CTTCGGTATATCCGATGATGCACTATGTGTGTCA
95425558 TTATTCTTCG
Statistics
Matches: 103, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
84 45 0.44
85 2 0.02
86 56 0.54
ACGTcount: A:0.23, C:0.16, G:0.22, T:0.40
Consensus pattern (85 bp):
CTTCGGTATATCCGATGATGCACTATGTGTGTCAATACATTTCTTTCAGTTTATTCGATGATGCA
TCTGTATGCCAGTATAAATG
Found at i:95434834 original size:46 final size:46
Alignment explanation
Indices: 95434767--95434939 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
95434757 TGTAACCCGC
* *
95434767 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
*
95434813 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCACAT
* * * *
95434863 --TTCA-CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
* *
95434906 CCATAAGTGAACTCGGACTCGACTCAACGAGCTC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC
95434940 AGATGCCCAA
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 59 0.56
47 28 0.26
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
Found at i:95434885 original size:93 final size:93
Alignment explanation
Indices: 95434774--95434946 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
95434764 CGCCCATAAG
* * * *
95434774 CGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
*
95434839 ACGAGCTCGGATGCCTAGTTACATTTCA
66 ACGAGCTCAGATGCCTAGTTACATTTCA
*
95434867 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCGACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
95434932 ACGAGCTCAGATGCC
66 ACGAGCTCAGATGCC
95434947 CAAATATCCT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCAGATGCCTAGTTACATTTCA
Found at i:95439258 original size:29 final size:28
Alignment explanation
Indices: 95439221--95439292 Score: 71
Period size: 29 Copynumber: 2.6 Consensus size: 28
95439211 AATAGTTATT
95439221 AATT-TTAAAAAAATTAGAAA-GTATTAAA
1 AATTATTAAAAAAATTAGAAATGTA--AAA
* *
95439249 ACATTA-TAAAAATA-TAGAAATGTAGAA
1 A-ATTATTAAAAAAATTAGAAATGTAAAA
95439276 AATTATTAAAAAAATTA
1 AATTATTAAAAAAATTA
95439293 AAAACACTAC
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
26 4 0.11
27 10 0.28
28 9 0.25
29 13 0.36
ACGTcount: A:0.61, C:0.01, G:0.07, T:0.31
Consensus pattern (28 bp):
AATTATTAAAAAAATTAGAAATGTAAAA
Found at i:95439414 original size:21 final size:20
Alignment explanation
Indices: 95439377--95439433 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
95439367 TCCCCAACTA
95439377 AAATTTTAATAATTTTTAAT
1 AAATTTTAATAATTTTTAAT
*
95439397 AAATTCTT-ATAATTTTTTAT
1 AAATT-TTAATAATTTTTAAT
* *
95439417 -CATTTGAATAATTTTTA
1 AAATTTTAATAATTTTTA
95439434 TGTAAAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
18 1 0.03
19 12 0.39
20 16 0.52
21 2 0.06
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.56
Consensus pattern (20 bp):
AAATTTTAATAATTTTTAAT
Found at i:95439555 original size:31 final size:31
Alignment explanation
Indices: 95439520--95439581 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
95439510 ATTTTGCAAT
*
95439520 AATTTTCTAT-ATTCTTATATAATTTTAAATA
1 AATTTTCTATAATT-TTATATAAATTTAAATA
*
95439551 AATTTTCTATAATTTTTTATAAATTTAAATA
1 AATTTTCTATAATTTTATATAAATTTAAATA
95439582 TTCTTTTAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 25 0.89
32 3 0.11
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (31 bp):
AATTTTCTATAATTTTATATAAATTTAAATA
Found at i:95439563 original size:21 final size:21
Alignment explanation
Indices: 95439537--95439576 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
95439527 TATATTCTTA
95439537 TATAATTTTAAATAAATTTTC
1 TATAATTTTAAATAAATTTTC
**
95439558 TATAATTTTTTATAAATTT
1 TATAATTTTAAATAAATTT
95439577 AAATATTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (21 bp):
TATAATTTTAAATAAATTTTC
Found at i:95446109 original size:17 final size:18
Alignment explanation
Indices: 95446083--95446123 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
95446073 ATTATCAATT
95446083 TGGA-TTTTAAATATTAA
1 TGGATTTTTAAATATTAA
*
95446100 T-GATTTTTAAATTTTAA
1 TGGATTTTTAAATATTAA
95446117 TGGATTT
1 TGGATTT
95446124 AAGCTTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 2 0.10
17 14 0.67
18 5 0.24
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (18 bp):
TGGATTTTTAAATATTAA
Found at i:95447601 original size:4 final size:4
Alignment explanation
Indices: 95447592--95447622 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
95447582 GTAAAAGAGA
95447592 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
95447623 ATTGCCAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:95451755 original size:31 final size:30
Alignment explanation
Indices: 95451717--95451820 Score: 97
Period size: 31 Copynumber: 3.5 Consensus size: 30
95451707 AAAAAAAAAC
95451717 TTAGGTACCAAATAAGGAAAAAATGTCAAGT
1 TTAGGTACCAAATAAGGAAAAAAT-TCAAGT
** *
95451748 TTAGGTACCAAATTGGGGCAAAAA---AAGT
1 TTAGGTACCAAA-TAAGGAAAAAATTCAAGT
* * *
95451776 TTGGGTACCAAATTAGGAAAAAGTATCAAGT
1 TTAGGTACCAAATAAGGAAAAAAT-TCAAGT
*
95451807 TTAGATACCAAATA
1 TTAGGTACCAAATA
95451821 TTATATTAAA
Statistics
Matches: 57, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
27 7 0.12
28 15 0.26
31 27 0.47
32 8 0.14
ACGTcount: A:0.45, C:0.11, G:0.20, T:0.24
Consensus pattern (30 bp):
TTAGGTACCAAATAAGGAAAAAATTCAAGT
Found at i:95452318 original size:19 final size:19
Alignment explanation
Indices: 95452277--95452326 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
95452267 AAAAATATAA
*
95452277 ATTTTGAA-TTTTATAAAT
1 ATTTTGAATTTTTAAAAAT
95452295 ATTTT-AATTTTTAAAAATT
1 ATTTTGAATTTTTAAAAA-T
95452314 ATTTTGAATTTTT
1 ATTTTGAATTTTT
95452327 TTTGAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 2 0.07
18 13 0.46
19 6 0.21
20 7 0.25
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (19 bp):
ATTTTGAATTTTTAAAAAT
Found at i:95453125 original size:22 final size:25
Alignment explanation
Indices: 95453079--95453125 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
95453069 GATTCATATA
95453079 TTTTAATTTAGAATTATTAAATAATT
1 TTTTAATTTAGAATTA-TAAATAATT
95453105 TTTTAATTTA-AA-TA-AAATAAT
1 TTTTAATTTAGAATTATAAATAAT
95453126 AATTATGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 7 0.33
24 2 0.10
25 2 0.10
26 10 0.48
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (25 bp):
TTTTAATTTAGAATTATAAATAATT
Found at i:95453509 original size:15 final size:16
Alignment explanation
Indices: 95453444--95453504 Score: 50
Period size: 16 Copynumber: 3.6 Consensus size: 16
95453434 TTATTAATAC
*
95453444 AAATACAAAAAAATATA
1 AAATA-AAATAAATATA
* *
95453461 AATATAACACTAAAACATA
1 AA-ATAA-AAT-AAATATA
*
95453480 AAATTAAATAAATATA
1 AAATAAAATAAATATA
95453496 AAATAAAAT
1 AAATAAAAT
95453505 TATATTAAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 7
0.71 0.15 0.15
Matches are distributed among these distances:
16 14 0.41
17 5 0.15
18 7 0.21
19 8 0.24
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (16 bp):
AAATAAAATAAATATA
Found at i:95459231 original size:47 final size:46
Alignment explanation
Indices: 95459162--95459338 Score: 182
Period size: 47 Copynumber: 3.8 Consensus size: 46
95459152 TGGTTGAGCA
95459162 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGT-GAATG
* * *
95459209 TCCGAACTTGTTGAGTTGAGTCCGAGTTC-GTGA--GATGT-AACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA-T--G
* * * *
95459254 CATCTGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* * *
95459302 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
95459339 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 15, Indels: 19
0.76 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 1 0.01
44 5 0.05
45 1 0.01
46 34 0.32
47 54 0.51
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
Found at i:95461046 original size:49 final size:49
Alignment explanation
Indices: 95460974--95461067 Score: 170
Period size: 49 Copynumber: 1.9 Consensus size: 49
95460964 TGCTATGCAA
*
95460974 TGCTAAACTTGGTCTTCCACTGTCTACACTCTTATCACTATTTATACAT
1 TGCTAAACTTAGTCTTCCACTGTCTACACTCTTATCACTATTTATACAT
*
95461023 TGCTAAACTTAGTCTTCCACTGTCTACACTCTTATCATTATTTAT
1 TGCTAAACTTAGTCTTCCACTGTCTACACTCTTATCACTATTTAT
95461068 CCCCTTTTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.24, C:0.26, G:0.07, T:0.43
Consensus pattern (49 bp):
TGCTAAACTTAGTCTTCCACTGTCTACACTCTTATCACTATTTATACAT
Found at i:95463333 original size:19 final size:18
Alignment explanation
Indices: 95463293--95463333 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
95463283 AATATTACAC
*
95463293 ATTTCAATTTCACATTAA
1 ATTTCAATTTCACACTAA
*
95463311 ATTTCAATTTTCACACTAT
1 ATTTCAA-TTTCACACTAA
95463330 ATTT
1 ATTT
95463334 TGCTTATTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTTCAATTTCACACTAA
Found at i:95463745 original size:13 final size:13
Alignment explanation
Indices: 95463727--95463751 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
95463717 CTTCTTCTCA
95463727 TTTTCTTTCTTTC
1 TTTTCTTTCTTTC
95463740 TTTTCTTTCTTT
1 TTTTCTTTCTTT
95463752 AATGTTTGCA
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:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTCTTTCTTTC
Found at i:95467253 original size:31 final size:30
Alignment explanation
Indices: 95467217--95467429 Score: 135
Period size: 31 Copynumber: 7.2 Consensus size: 30
95467207 GCTTAGATAT
*
95467217 CAAATTAGGAAAAAAGGTCAAGTTTAGGTAC
1 CAAATTAGGCAAAAA-GTCAAGTTTAGGTAC
* * * *
95467248 CAAATTCCGCCCAAAA---AAGTTTAGATAC
1 CAAATT-AGGCAAAAAGTCAAGTTTAGGTAC
95467276 CAAATTAGG-AAAAAGTGTCAAGTTTAGGTAC
1 CAAATTAGGCAAAAA--GTCAAGTTTAGGTAC
* *
95467307 CAAATTGGGCCCAAAA---AAGTTTAGGTAC
1 CAAATTAGG-CAAAAAGTCAAGTTTAGGTAC
95467335 CAAATTAGG-AAAAAGTGTCAAGTTTAGGTAC
1 CAAATTAGGCAAAAA--GTCAAGTTTAGGTAC
* *
95467366 TAAATTGGGCCAAAAA---AAGTTTAGGTAC
1 CAAATTAGG-CAAAAAGTCAAGTTTAGGTAC
** * *
95467394 C-AATTAAGAAAAAAATGTCAAGTTCAGATAC
1 CAAATT-AGGCAAAAA-GTCAAGTTTAGGTAC
95467425 CAAAT
1 CAAAT
95467430 GTTATATTAA
Statistics
Matches: 140, Mismatches: 21, Indels: 41
0.69 0.10 0.20
Matches are distributed among these distances:
26 8 0.06
27 10 0.07
28 50 0.36
31 55 0.39
32 8 0.06
33 9 0.06
ACGTcount: A:0.44, C:0.14, G:0.19, T:0.23
Consensus pattern (30 bp):
CAAATTAGGCAAAAAGTCAAGTTTAGGTAC
Found at i:95467269 original size:28 final size:27
Alignment explanation
Indices: 95467236--95467396 Score: 101
Period size: 28 Copynumber: 5.6 Consensus size: 27
95467226 AAAAAAGGTC
*
95467236 AAGTTTAGGTACCAAATTCCGCCCAAAA
1 AAGTTTAGGTACCAAATT-AGCCCAAAA
* **
95467264 AAGTTTAGATACCAAATTAG-GAAAAA
1 AAGTTTAGGTACCAAATTAGCCCAAAA
*
95467290 GTGTCAAGTTTAGGTACCAAATTGGGCCCAAAA
1 -----AAGTTTAGGTACCAAATT-AGCCCAAAA
**
95467323 AAGTTTAGGTACCAAATTAG-GAAAAA
1 AAGTTTAGGTACCAAATTAGCCCAAAA
* * *
95467349 GTGTCAAGTTTAGGTACTAAATTGGGCCAAAAA
1 -----AAGTTTAGGTACCAAATT-AGCCCAAAA
95467382 AAGTTTAGGTACCAA
1 AAGTTTAGGTACCAA
95467397 TTAAGAAAAA
Statistics
Matches: 104, Mismatches: 15, Indels: 28
0.71 0.10 0.19
Matches are distributed among these distances:
26 8 0.08
27 2 0.02
28 49 0.47
31 34 0.33
32 2 0.02
33 9 0.09
ACGTcount: A:0.42, C:0.14, G:0.20, T:0.24
Consensus pattern (27 bp):
AAGTTTAGGTACCAAATTAGCCCAAAA
Found at i:95467272 original size:59 final size:59
Alignment explanation
Indices: 95467201--95467429 Score: 318
Period size: 59 Copynumber: 3.9 Consensus size: 59
95467191 TTGAACCTAA
* * **
95467201 AAAAAAGCTTAGATATCAAATTAGGAAAAAAG-GTCAAGTTTAGGTACCAAATTCCGCCC
1 AAAAAAGTTTAGATACCAAATTAGG-AAAAAGTGTCAAGTTTAGGTACCAAATTGGGCCC
95467260 AAAAAAGTTTAGATACCAAATTAGGAAAAAGTGTCAAGTTTAGGTACCAAATTGGGCCC
1 AAAAAAGTTTAGATACCAAATTAGGAAAAAGTGTCAAGTTTAGGTACCAAATTGGGCCC
* * *
95467319 AAAAAAGTTTAGGTACCAAATTAGGAAAAAGTGTCAAGTTTAGGTACTAAATTGGGCCA
1 AAAAAAGTTTAGATACCAAATTAGGAAAAAGTGTCAAGTTTAGGTACCAAATTGGGCCC
* * * * *
95467378 AAAAAAGTTTAGGTACC-AATTAAGAAAAAAATGTCAAGTTCAGATACCAAAT
1 AAAAAAGTTTAGATACCAAATT-AGGAAAAAGTGTCAAGTTTAGGTACCAAAT
95467430 GTTATATTAA
Statistics
Matches: 156, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
58 10 0.06
59 146 0.94
ACGTcount: A:0.45, C:0.13, G:0.18, T:0.24
Consensus pattern (59 bp):
AAAAAAGTTTAGATACCAAATTAGGAAAAAGTGTCAAGTTTAGGTACCAAATTGGGCCC
Found at i:95468075 original size:33 final size:35
Alignment explanation
Indices: 95468012--95468076 Score: 82
Period size: 33 Copynumber: 1.9 Consensus size: 35
95468002 CATTATTTTT
* *
95468012 TTAATTTACAATTTTTAATTTTATATTTAATTCAA
1 TTAATTTACAATTTTAAATGTTATATTTAATTCAA
95468047 TTAA-TTAC-ATTTTAAATGTTAT-TCTTAATT
1 TTAATTTACAATTTTAAATGTTATAT-TTAATT
95468077 GCAAGGATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 1 0.04
33 18 0.67
34 4 0.15
35 4 0.15
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (35 bp):
TTAATTTACAATTTTAAATGTTATATTTAATTCAA
Found at i:95474245 original size:46 final size:45
Alignment explanation
Indices: 95474178--95474348 Score: 188
Period size: 46 Copynumber: 3.7 Consensus size: 45
95474168 TGGTTGAGCA
95474178 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTTGGATGTGGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTTGGATGT-GAATG
*
95474224 TCCGAACTCGTTGAGTTGAGTCCGAGTT--C-GTGAGATGT-AACTAG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTTG-GATGTGAA-T-G
* * *
95474268 GCATCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TC--CGAACTCGTTGAGTTGAGTCCGAGTTCACTT-TGGATGTGAATG
* * *
95474316 CCCGAGCTCGTTGAGTTGAGTCCGGGTTCACTT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTT
95474349 ATGGGCGGGT
Statistics
Matches: 107, Mismatches: 8, Indels: 20
0.79 0.06 0.15
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 8 0.07
46 83 0.78
48 3 0.03
49 4 0.04
50 4 0.04
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTTGGATGTGAATG
Found at i:95474337 original size:92 final size:93
Alignment explanation
Indices: 95474175--95474344 Score: 272
Period size: 92 Copynumber: 1.8 Consensus size: 93
95474165 GAATGGTTGA
* * *
95474175 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTTGGATGTGGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTTGGATGTCGAACGCCCGAACTCGTTGAGT
95474240 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
95474268 GCAT-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-CGAACGCCCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTT-TGGATGTCGAACGCCCGAACTCGTTGAG
*
95474331 TTGAGTCCGGGTTC
65 TTGAGTCCGAGTTC
95474345 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
92 61 0.86
93 10 0.14
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTTGGATGTCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:95477622 original size:43 final size:45
Alignment explanation
Indices: 95477541--95477628 Score: 108
Period size: 43 Copynumber: 2.0 Consensus size: 45
95477531 TCACATCTCA
* * * * * *
95477541 TTTCATCATTTGATATTTCTTTTCTCATCTTTTCCATTTTAATAT
1 TTTCATCATTTCATATTTCATTTCTAATATTTGCCATTTCAATAT
95477586 TTTC-TCATTTCATATTT-ATTTCTAATATTTGCCATTTCAATAT
1 TTTCATCATTTCATATTTCATTTCTAATATTTGCCATTTCAATAT
95477629 CAATCACATA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
43 21 0.57
44 12 0.32
45 4 0.11
ACGTcount: A:0.23, C:0.17, G:0.02, T:0.58
Consensus pattern (45 bp):
TTTCATCATTTCATATTTCATTTCTAATATTTGCCATTTCAATAT
Found at i:95477772 original size:27 final size:27
Alignment explanation
Indices: 95477734--95477788 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
95477724 GCCTCATTGG
95477734 ATAAATCCAAAGTAATAACTGTGCCTA
1 ATAAATCCAAAGTAATAACTGTGCCTA
* *
95477761 ATAAATCCAAAGTAGTAATTGTGCCTA
1 ATAAATCCAAAGTAATAACTGTGCCTA
95477788 A
1 A
95477789 CGCTATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.44, C:0.16, G:0.13, T:0.27
Consensus pattern (27 bp):
ATAAATCCAAAGTAATAACTGTGCCTA
Found at i:95478368 original size:19 final size:18
Alignment explanation
Indices: 95478328--95478368 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
95478318 AATATTACAC
*
95478328 ATTTCAATTTCACATTAA
1 ATTTCAATTTCACACTAA
*
95478346 ATTTCAATTTTCACACTAT
1 ATTTCAA-TTTCACACTAA
95478365 ATTT
1 ATTT
95478369 TGCTTATTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTTCAATTTCACACTAA
Found at i:95478872 original size:13 final size:15
Alignment explanation
Indices: 95478854--95478889 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
95478844 AAAGTAAATT
95478854 TATAAT-TATAT-TA
1 TATAATATATATATA
95478867 TATAATATATATATA
1 TATAATATATATATA
95478882 TAT-ATATA
1 TATAATATA
95478890 ACATGATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 6 0.29
14 10 0.48
15 5 0.24
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TATAATATATATATA
Found at i:95482356 original size:59 final size:59
Alignment explanation
Indices: 95482256--95482475 Score: 298
Period size: 59 Copynumber: 3.7 Consensus size: 59
95482246 TTGAACCTAA
* * **
95482256 AAAAAAGCTTAGATATCAAATTAGGAAAAAAAG-GTCAAGTTTAGGTACCAAATTCTGCCC
1 AAAAAAGTTTAGATACCAAATTAGG--AAAAAGTGTCAAGTTTAGGTACCAAATTGGGCCC
95482316 AAAAAAGTTTAGATACCAAATTAGGAAAAAGTGTCAAGTTTAGGTACCAAATTGGGCCC
1 AAAAAAGTTTAGATACCAAATTAGGAAAAAGTGTCAAGTTTAGGTACCAAATTGGGCCC
* * *
95482375 AAAAAAGTTTAGGTACCAAATTAGGAAAAAGTGTCAAGTTTAGGTACTAAATTGGGCCAA
1 AAAAAAGTTTAGATACCAAATTAGGAAAAAGTGTCAAGTTTAGGTACCAAATTGGGCC-C
* ** *
95482435 AAAAAAGTTTAGGTACCAAATTAACAAAAAAATGTCAAGTT
1 AAAAAAGTTTAGATACCAAATT-AGGAAAAAGTGTCAAGTT
95482476 CTGATACCAA
Statistics
Matches: 147, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
58 6 0.04
59 81 0.55
60 45 0.31
61 15 0.10
ACGTcount: A:0.45, C:0.12, G:0.18, T:0.24
Consensus pattern (59 bp):
AAAAAAGTTTAGATACCAAATTAGGAAAAAGTGTCAAGTTTAGGTACCAAATTGGGCCC
Found at i:95482358 original size:31 final size:31
Alignment explanation
Indices: 95482320--95482427 Score: 127
Period size: 31 Copynumber: 3.6 Consensus size: 31
95482310 CTGCCCAAAA
*
95482320 AAGTTTAGATACCAAATTAGGAAAAAGTGTC
1 AAGTTTAGGTACCAAATTAGGAAAAAGTGTC
* *
95482351 AAGTTTAGGTACCAAATTGGGCCCAAAA-----
1 AAGTTTAGGTACCAAATTAGG--AAAAAGTGTC
95482379 AAGTTTAGGTACCAAATTAGGAAAAAGTGTC
1 AAGTTTAGGTACCAAATTAGGAAAAAGTGTC
*
95482410 AAGTTTAGGTACTAAATT
1 AAGTTTAGGTACCAAATT
95482428 GGGCCAAAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
26 4 0.06
28 20 0.31
31 36 0.56
33 4 0.06
ACGTcount: A:0.42, C:0.11, G:0.20, T:0.27
Consensus pattern (31 bp):
AAGTTTAGGTACCAAATTAGGAAAAAGTGTC
Found at i:95482389 original size:28 final size:28
Alignment explanation
Indices: 95482292--95482457 Score: 133
Period size: 28 Copynumber: 5.7 Consensus size: 28
95482282 AAAAAAGGTC
** *
95482292 AAGTTTAGGTACCAAATTCTGCCCAAAA
1 AAGTTTAGGTACCAAATTAGGCCAAAAA
*
95482320 AAGTTTAGATACCAAATTAGG--AAAAA
1 AAGTTTAGGTACCAAATTAGGCCAAAAA
* *
95482346 GTGTCAAGTTTAGGTACCAAATTGGGCCCAAAA
1 -----AAGTTTAGGTACCAAATTAGGCCAAAAA
95482379 AAGTTTAGGTACCAAATTAGG--AAAAA
1 AAGTTTAGGTACCAAATTAGGCCAAAAA
* *
95482405 GTGTCAAGTTTAGGTACTAAATTGGGCCAAAAAA
1 -----AAGTTTAGGTACCAAATTAGGCC-AAAAA
95482439 AAGTTTAGGTACCAAATTA
1 AAGTTTAGGTACCAAATTA
95482458 ACAAAAAAAT
Statistics
Matches: 110, Mismatches: 13, Indels: 29
0.72 0.09 0.19
Matches are distributed among these distances:
26 8 0.07
28 38 0.35
29 17 0.15
31 38 0.35
33 4 0.04
34 5 0.05
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.25
Consensus pattern (28 bp):
AAGTTTAGGTACCAAATTAGGCCAAAAA
Found at i:95482979 original size:17 final size:17
Alignment explanation
Indices: 95482957--95482991 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
95482947 TTTGAGACAC
95482957 ATATTTAGACCATGTTA
1 ATATTTAGACCATGTTA
95482974 ATATTTAGACCATGTTA
1 ATATTTAGACCATGTTA
95482991 A
1 A
95482992 GTTTAAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.40
Consensus pattern (17 bp):
ATATTTAGACCATGTTA
Found at i:95483151 original size:33 final size:35
Alignment explanation
Indices: 95483088--95483152 Score: 82
Period size: 33 Copynumber: 1.9 Consensus size: 35
95483078 CATTATTTTT
* *
95483088 TTAATTTACAATTTTTAATTTTATATTTAATTCAA
1 TTAATTTACAATTTTAAATGTTATATTTAATTCAA
95483123 TTAA-TTAC-ATTTTAAATGTTAT-TCTTAATT
1 TTAATTTACAATTTTAAATGTTATAT-TTAATT
95483153 GCAAGGATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 1 0.04
33 18 0.67
34 4 0.15
35 4 0.15
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (35 bp):
TTAATTTACAATTTTAAATGTTATATTTAATTCAA
Found at i:95483615 original size:15 final size:16
Alignment explanation
Indices: 95483551--95483610 Score: 50
Period size: 16 Copynumber: 3.6 Consensus size: 16
95483541 TTATTAATAC
95483551 AAATACAAA-AAATATA
1 AAATA-AAATAAATATA
* *
95483567 AATATAACACTAAAACATA
1 AA-ATAA-AAT-AAATATA
*
95483586 AAATTAAATAAATATA
1 AAATAAAATAAATATA
95483602 AAATAAAAT
1 AAATAAAAT
95483611 TATATTAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
16 17 0.50
17 6 0.18
18 3 0.09
19 8 0.24
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (16 bp):
AAATAAAATAAATATA
Found at i:95487182 original size:21 final size:21
Alignment explanation
Indices: 95487156--95487197 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
95487146 CTTTATATTA
* *
95487156 ATTTTTGTTTGGGATGGGTTT
1 ATTTTTATTTAGGATGGGTTT
*
95487177 ATTTTTATTTAGGTTGGGTTT
1 ATTTTTATTTAGGATGGGTTT
95487198 TGAATAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.29, T:0.60
Consensus pattern (21 bp):
ATTTTTATTTAGGATGGGTTT
Found at i:95503057 original size:66 final size:66
Alignment explanation
Indices: 95502944--95503083 Score: 219
Period size: 66 Copynumber: 2.1 Consensus size: 66
95502934 CTTAAGGCAA
*
95502944 CCAAACTTCTTACCCCTTAAACCAGCAGGCTCATTCTGATATGATTTGACTAGAAATAAAATATA
1 CCAAA-TTCTTACCCCTTAAACCAGCAGGCTCATTCTGATATAATTTGACTAGAAATAAAATATA
95503009 AG
65 AG
* * *
95503011 CTAAATTCTTACCCCTTAAGCTAGCTA-GCTCATTCTGATATAATTTGACTAGAAATAAAATATA
1 CCAAATTCTTACCCCTTAAACCAGC-AGGCTCATTCTGATATAATTTGACTAGAAATAAAATATA
95503075 AG
65 AG
95503077 CCAAATT
1 CCAAATT
95503084 GCCAAGGATA
Statistics
Matches: 67, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
66 62 0.93
67 5 0.07
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.31
Consensus pattern (66 bp):
CCAAATTCTTACCCCTTAAACCAGCAGGCTCATTCTGATATAATTTGACTAGAAATAAAATATAA
G
Found at i:95505829 original size:47 final size:47
Alignment explanation
Indices: 95505778--95505875 Score: 126
Period size: 47 Copynumber: 2.1 Consensus size: 47
95505768 AGAAATAAAA
* *
95505778 AAAATATTATTTCATCATGTGTTTTGATC-CTAAAATGTAAGATCATT
1 AAAATATTATTTCATCACGTGTTTTGATCTC-AAAATGTAACATCATT
* * * *
95505825 AAAATTTTATTTTATCACGTGTTTTGATTTCAGAATGTAACATCATT
1 AAAATATTATTTCATCACGTGTTTTGATCTCAAAATGTAACATCATT
95505872 AAAA
1 AAAA
95505876 AAAACTTACG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
47 43 0.98
48 1 0.02
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.43
Consensus pattern (47 bp):
AAAATATTATTTCATCACGTGTTTTGATCTCAAAATGTAACATCATT
Found at i:95515442 original size:14 final size:15
Alignment explanation
Indices: 95515413--95515442 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
95515403 GTTTCTTTGG
95515413 CTAAAACAATTAAAA
1 CTAAAACAATTAAAA
95515428 CTAAAACAA-TAAAA
1 CTAAAACAATTAAAA
95515442 C
1 C
95515443 AACCTCTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.67, C:0.17, G:0.00, T:0.17
Consensus pattern (15 bp):
CTAAAACAATTAAAA
Found at i:95525877 original size:16 final size:17
Alignment explanation
Indices: 95525850--95525882 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
95525840 CTGTATAAAG
95525850 AACTTATATTTTAACAA
1 AACTTATATTTTAACAA
*
95525867 AACTT-TATTTTTACAA
1 AACTTATATTTTAACAA
95525883 TATTTCTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (17 bp):
AACTTATATTTTAACAA
Found at i:95536460 original size:46 final size:46
Alignment explanation
Indices: 95536402--95536577 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
95536392 TGTTTGGGCA
*
95536402 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * * *
95536448 TCCGGACTCGTTGAGTTGAGTCCGAGTT--CGTA-AGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* *
95536493 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
95536541 CCCGAGCTTGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
95536578 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 5 0.05
44 3 0.03
45 2 0.02
46 59 0.56
47 27 0.25
48 2 0.02
49 2 0.02
50 6 0.06
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:95536557 original size:93 final size:93
Alignment explanation
Indices: 95536398--95536570 Score: 285
Period size: 93 Copynumber: 1.9 Consensus size: 93
95536388 AGGATGTTTG
* * * *
95536398 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGGACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGGACTCGTTGAG
95536463 TTGAGTCCGAGTTCGTAAGATGTAACTA
66 TTGAGTCCGAGTTCGTAAGATGTAACTA
*
95536491 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCC-GAGCTTGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGGA-CTCGTTGA
95536555 GTTGAGTCCGAGTTCG
65 GTTGAGTCCGAGTTCG
95536571 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGGACTCGTTGAG
TTGAGTCCGAGTTCGTAAGATGTAACTA
Found at i:95547476 original size:14 final size:14
Alignment explanation
Indices: 95547457--95547486 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
95547447 GCTGAGGTAA
*
95547457 TTTCAATTTATGTT
1 TTTCAATTTATATT
95547471 TTTCAATTTATATT
1 TTTCAATTTATATT
95547485 TT
1 TT
95547487 GCAAAAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.67
Consensus pattern (14 bp):
TTTCAATTTATATT
Found at i:95547532 original size:89 final size:86
Alignment explanation
Indices: 95547410--95547739 Score: 396
Period size: 89 Copynumber: 3.8 Consensus size: 86
95547400 CAAAAAGACG
95547410 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTATGTTTTTC
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTATGTTTTTC
95547475 AATTTATATTTTGCAAAAAAATCA
66 AATTTATATTTT-C--AAAAATCA
* * * *
95547499 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTATTCTT-
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTATGTTTTTC
* * * *
95547563 AATGTCTGTTTT--TAAATCA
66 AATTTATATTTTCAAAAATCA
* * * * * * *
95547582 ACTCATATTACAAAAGGTGAGTTGAGCCTCAGGAAAAGTTGAGGTATTTTCAATTTATGTTTTTT
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTATG---TTT
*
95547647 TTCCAAATTATATTTTTCAAAAATCA
63 TT-CAATTTATA-TTTTCAAAAATCA
* * *
95547673 ACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTAATTTCAATTTCTGTTTTTC
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTATGTTTTTC
95547738 AA
66 AA
95547740 AAAAGTCAAT
Statistics
Matches: 201, Mismatches: 32, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
83 57 0.28
86 4 0.02
87 3 0.01
88 18 0.09
89 64 0.32
91 55 0.27
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (86 bp):
ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTATGTTTTTC
AATTTATATTTTCAAAAATCA
Found at i:95547726 original size:174 final size:171
Alignment explanation
Indices: 95547410--95547730 Score: 482
Period size: 174 Copynumber: 1.9 Consensus size: 171
95547400 CAAAAAGACG
* * * * *
95547410 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTATGTTTTTC
1 ACTCATATTACAAAAGGTGAGTTGAGCCTCAGGAAAAGCTGAGGTAATTTCAATTTATGTTTTTC
*
95547475 AATTTATATTTTGCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
66 AAATTATATTTTGC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
*
95547540 AGGTATTTTCAATTTCTATTCTTAATGTCTGTTTTTAAATCA
130 AGGTAATTTCAATTTCTATTCTTAATGTCTGTTTTTAAATCA
* *
95547582 ACTCATATTACAAAAGGTGAGTTGAGCCTCAGGAAAAGTTGAGGTATTTTCAATTTATGTTTTTT
1 ACTCATATTACAAAAGGTGAGTTGAGCCTCAGGAAAAGCTGAGGTAATTTCAATTTATG---TTT
* * *
95547647 TTCCAAATTATATTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACG
63 TT-CAAATTATATTTTGCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
95547711 CTGAGGTAATTTCAATTTCT
127 CTGAGGTAATTTCAATTTCT
95547731 GTTTTTCAAA
Statistics
Matches: 133, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
172 52 0.39
174 63 0.47
175 5 0.04
176 13 0.10
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (171 bp):
ACTCATATTACAAAAGGTGAGTTGAGCCTCAGGAAAAGCTGAGGTAATTTCAATTTATGTTTTTC
AAATTATATTTTGCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
GGTAATTTCAATTTCTATTCTTAATGTCTGTTTTTAAATCA
Found at i:95547937 original size:54 final size:54
Alignment explanation
Indices: 95547730--95547934 Score: 324
Period size: 54 Copynumber: 3.8 Consensus size: 54
95547720 TTTCAATTTC
*
95547730 TGTTTTTCAAAAAAGTCAATTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTCA
1 TGTTTTTC-AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTCA
*
95547786 TG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTGATTCA
1 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTCA
* *
95547839 TGTTTTTCAAAAAACAACTCATATTGCGAGAGGTGAGTTGAGTCTTTTAATTTC-
1 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAA-TTCA
*
95547893 TGTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAG
1 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
95547935 TCTCGAGACA
Statistics
Matches: 140, Mismatches: 7, Indels: 6
0.92 0.05 0.04
Matches are distributed among these distances:
53 41 0.29
54 89 0.64
55 8 0.06
56 2 0.01
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (54 bp):
TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTCA
Found at i:95547984 original size:73 final size:74
Alignment explanation
Indices: 95547895--95548035 Score: 221
Period size: 73 Copynumber: 1.9 Consensus size: 74
95547885 TTAATTTCTG
* *
95547895 TTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCGAGACACAT-TGAGGTATTTT
1 TTTTTCAAAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCGAGACACATATGAGGTATTTT
95547959 CAGTTTTTA
66 CAGTTTTTA
* * *
95547968 TTTTTCGAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGAGTCACATAATGAGGTATTT
1 TTTTTCAAAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCGAGACACAT-ATGAGGTATTT
95548033 TCA
65 TCA
95548036 AAATCTACTT
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
73 48 0.79
75 13 0.21
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (74 bp):
TTTTTCAAAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCGAGACACATATGAGGTATTTT
CAGTTTTTA
Found at i:95548081 original size:78 final size:73
Alignment explanation
Indices: 95547896--95548085 Score: 209
Period size: 73 Copynumber: 2.5 Consensus size: 73
95547886 TAATTTCTGT
* * * *
95547896 TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCGAGACACATTGAGGTATTTTCA
1 TTTTAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACATTGAGGTATTTTCA
*** * *
95547961 GTTTTTAT
66 AAATCTAC
** * * *
95547969 TTTTCGAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGAGTCACATAATGAGGTATTTT
1 TTTTAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACAT--TGAGGTATTTT
95548034 CAAAATCTAC
64 CAAAATCTAC
95548044 TTTTAAATTAAGACCAACTCATATTGCGAGAGGTGAGTTGAG
1 TTTTAAA--AA-ACCAACTCATATTGCGAGAGGTGAGTTGAG
95548086 TCTTGGCGCA
Statistics
Matches: 98, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
73 47 0.48
75 21 0.21
77 2 0.02
78 28 0.29
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (73 bp):
TTTTAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACATTGAGGTATTTTCA
AAATCTAC
Found at i:95549691 original size:30 final size:30
Alignment explanation
Indices: 95549613--95549674 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
95549603 ATTTTAACAT
*
95549613 TACTAGTTATATATATATCTTTTACTATTC
1 TACTAGTTATATATATATTTTTTACTATTC
95549643 TACTAGTTATATATATATTTTTTACTATTC
1 TACTAGTTATATATATATTTTTTACTATTC
95549673 TA
1 TA
95549675 TGTATATCTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.31, C:0.11, G:0.03, T:0.55
Consensus pattern (30 bp):
TACTAGTTATATATATATTTTTTACTATTC
Found at i:95549700 original size:21 final size:20
Alignment explanation
Indices: 95549668--95549713 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
95549658 TATTTTTTAC
* *
95549668 TATTCTATGTATATCTCTAA
1 TATTATATGTATATCTCCAA
*
95549688 TATTATATAGTATATTTCCAA
1 TATTATAT-GTATATCTCCAA
95549709 TATTA
1 TATTA
95549714 GTACTAATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.35, C:0.11, G:0.04, T:0.50
Consensus pattern (20 bp):
TATTATATGTATATCTCCAA
Found at i:95552328 original size:22 final size:22
Alignment explanation
Indices: 95552303--95552345 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
95552293 TATCCAAATA
95552303 ATAACAATAAAATAGTAGCAAC
1 ATAACAATAAAATAGTAGCAAC
* * *
95552325 ATAATAGTAAAATGGTAGCAA
1 ATAACAATAAAATAGTAGCAA
95552346 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATAGTAGCAAC
Found at i:95552479 original size:51 final size:51
Alignment explanation
Indices: 95552403--95552507 Score: 192
Period size: 51 Copynumber: 2.1 Consensus size: 51
95552393 ATTTTTTTTG
95552403 TCCTTTAGTGAATTCAGACCGGGCCGGCCCAGGCCCCGACCAAAAATGCCT
1 TCCTTTAGTGAATTCAGACCGGGCCGGCCCAGGCCCCGACCAAAAATGCCT
* *
95552454 TCCTTTAGTGAATTCAGACCGGGCCGGCCCAGGCTCTGACCAAAAATGCCT
1 TCCTTTAGTGAATTCAGACCGGGCCGGCCCAGGCCCCGACCAAAAATGCCT
95552505 TCC
1 TCC
95552508 CCGAAGCCTA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.23, C:0.34, G:0.23, T:0.20
Consensus pattern (51 bp):
TCCTTTAGTGAATTCAGACCGGGCCGGCCCAGGCCCCGACCAAAAATGCCT
Found at i:95558960 original size:25 final size:25
Alignment explanation
Indices: 95558932--95559003 Score: 92
Period size: 25 Copynumber: 2.9 Consensus size: 25
95558922 ATGCTATCAT
*
95558932 GAGCTATGAATCAGGAAGCTCAAAC
1 GAGCTATAAATCAGGAAGCTCAAAC
* *
95558957 GAGCTACAAATCAGGAAGCTCATAC
1 GAGCTATAAATCAGGAAGCTCAAAC
*
95558982 GAGCCATAAATC-GAGAAGCTCA
1 GAGCTATAAATCAG-GAAGCTCA
95559004 TACAAGTTGT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
24 1 0.02
25 40 0.98
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.15
Consensus pattern (25 bp):
GAGCTATAAATCAGGAAGCTCAAAC
Found at i:95559016 original size:25 final size:25
Alignment explanation
Indices: 95558988--95559038 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
95558978 ATACGAGCCA
95558988 TAAATCGAGAAGCTCATACAAGTTG
1 TAAATCGAGAAGCTCATACAAGTTG
* *
95559013 TAAATTGGGAAGCTCATACAAGTTG
1 TAAATCGAGAAGCTCATACAAGTTG
95559038 T
1 T
95559039 GGTGTGTCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (25 bp):
TAAATCGAGAAGCTCATACAAGTTG
Found at i:95565142 original size:21 final size:21
Alignment explanation
Indices: 95565118--95565157 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
95565108 AATATTAATC
95565118 TTCTTGACCTTGTAAGACCTT
1 TTCTTGACCTTGTAAGACCTT
95565139 TTCTTGACCTTGTAAGACC
1 TTCTTGACCTTGTAAGACC
95565158 CAGTCCAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.40
Consensus pattern (21 bp):
TTCTTGACCTTGTAAGACCTT
Found at i:95568940 original size:29 final size:29
Alignment explanation
Indices: 95568898--95568955 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
95568888 CTTTAAGTTG
95568898 ATTGATAAAAGTTTAGAGTTTGATCTTTA
1 ATTGATAAAAGTTTAGAGTTTGATCTTTA
95568927 ATTGATAAAAGTTTAGAGTTTGATCTTTA
1 ATTGATAAAAGTTTAGAGTTTGATCTTTA
95568956 TTTGTAGGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.03, G:0.17, T:0.45
Consensus pattern (29 bp):
ATTGATAAAAGTTTAGAGTTTGATCTTTA
Found at i:95574435 original size:22 final size:22
Alignment explanation
Indices: 95574403--95574444 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
95574393 CAACAAAACC
95574403 CAAGATCGAACCAAGCTTCACT
1 CAAGATCGAACCAAGCTTCACT
*
95574425 CAAGATTGAACCAAGCTTCA
1 CAAGATCGAACCAAGCTTCA
95574445 TCGATGCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.38, C:0.29, G:0.14, T:0.19
Consensus pattern (22 bp):
CAAGATCGAACCAAGCTTCACT
Found at i:95582322 original size:28 final size:28
Alignment explanation
Indices: 95582282--95582344 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
95582272 GTCATTATCA
95582282 ACCCCATAAGTTATAAAACTCTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
* * *
95582310 ACCCCATAAGTTATGAGACTTTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
95582338 ACCCCAT
1 ACCCCAT
95582345 TAATATGGGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.30, G:0.06, T:0.32
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACTCTTCCTAT
Done.