Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold407
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: 4418299
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 127125 characters in sequence are not A, C, G, or T
File 15 of 28
Found at i:2143355 original size:13 final size:13
Alignment explanation
Indices: 2143337--2143387 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
2143327 TTGAATTAAC
2143337 AATCATTTAACAA
1 AATCATTTAACAA
2143350 AATCATTTAACAA
1 AATCATTTAACAA
** *
2143363 GTGTCATATGAACAA
1 -AATCAT-TTAACAA
2143378 AATCATTTAA
1 AATCATTTAA
2143388 TCATCAAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
13 16 0.53
14 8 0.27
15 6 0.20
ACGTcount: A:0.49, C:0.14, G:0.06, T:0.31
Consensus pattern (13 bp):
AATCATTTAACAA
Found at i:2144549 original size:21 final size:21
Alignment explanation
Indices: 2144524--2144578 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
2144514 CACTTGCAAC
*
2144524 TCATTTCTTTTCTCCTCTAAT
1 TCATTTATTTTCTCCTCTAAT
**
2144545 TCATTTATTTTCTTTTCTAAT
1 TCATTTATTTTCTCCTCTAAT
* *
2144566 TCACTTAATTTCT
1 TCATTTATTTTCT
2144579 TTTCAAGAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.18, C:0.22, G:0.00, T:0.60
Consensus pattern (21 bp):
TCATTTATTTTCTCCTCTAAT
Found at i:2144579 original size:21 final size:21
Alignment explanation
Indices: 2144539--2144582 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
2144529 TCTTTTCTCC
* *
2144539 TCTAATTCATTTATTTTCTTT
1 TCTAATTCACTTAATTTCTTT
2144560 TCTAATTCACTTAATTTCTTT
1 TCTAATTCACTTAATTTCTTT
2144581 TC
1 TC
2144583 AAGAATATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.18, G:0.00, T:0.61
Consensus pattern (21 bp):
TCTAATTCACTTAATTTCTTT
Found at i:2146700 original size:10 final size:10
Alignment explanation
Indices: 2146685--2146833 Score: 63
Period size: 10 Copynumber: 14.1 Consensus size: 10
2146675 GTATCAATAA
2146685 ATGAACAGTG
1 ATGAACAGTG
*
2146695 ATGAACAGTA
1 ATGAACAGTG
*
2146705 ATGAATAGTG
1 ATGAACAGTG
2146715 AACATGAACAGTG
1 ---ATGAACAGTG
* *
2146728 ATGTATC-GATAC
1 ATG-AACAG-T-G
*
2146740 ATGAATAGTG
1 ATGAACAGTG
2146750 ATGAACAGTG
1 ATGAACAGTG
* *
2146760 ATGTATC-GATAC
1 ATG-AACAG-T-G
2146772 ATGAACAGTG
1 ATGAACAGTG
*
2146782 ACGAACAGTG
1 ATGAACAGTG
* *
2146792 ATGTATC-GATAC
1 ATG-AACAG-T-G
2146804 ATGAACAGTG
1 ATGAACAGTG
*
2146814 AT-AATAGTG
1 ATGAACAGTG
2146823 ATGAACAGTG
1 ATGAACAGTG
2146833 A
1 A
2146834 AAATAAGATT
Statistics
Matches: 101, Mismatches: 22, Indels: 32
0.65 0.14 0.21
Matches are distributed among these distances:
9 8 0.08
10 55 0.54
11 17 0.17
12 12 0.12
13 9 0.09
ACGTcount: A:0.40, C:0.11, G:0.25, T:0.24
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:2146759 original size:32 final size:32
Alignment explanation
Indices: 2146718--2146825 Score: 182
Period size: 32 Copynumber: 3.4 Consensus size: 32
2146708 AATAGTGAAC
*
2146718 ATGAACAGTGATGTATCGATACATGAATAGTG
1 ATGAACAGTGATGTATCGATACATGAACAGTG
2146750 ATGAACAGTGATGTATCGATACATGAACAGTG
1 ATGAACAGTGATGTATCGATACATGAACAGTG
*
2146782 ACGAACAGTGATGTATCGATACATGAACAGTG
1 ATGAACAGTGATGTATCGATACATGAACAGTG
*
2146814 AT-AATAGTGATG
1 ATGAACAGTGATG
2146826 AACAGTGAAA
Statistics
Matches: 72, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
31 9 0.12
32 63 0.88
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.26
Consensus pattern (32 bp):
ATGAACAGTGATGTATCGATACATGAACAGTG
Found at i:2155163 original size:21 final size:21
Alignment explanation
Indices: 2155130--2155174 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2155120 TTGCAAGATG
*
2155130 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
2155152 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
2155172 AAA
1 AAA
2155175 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:2156998 original size:15 final size:15
Alignment explanation
Indices: 2156978--2157008 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2156968 TAAAAATGTC
*
2156978 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2156993 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2157008 C
1 C
2157009 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2159105 original size:13 final size:13
Alignment explanation
Indices: 2159087--2159123 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
2159077 ACATTTTTCT
2159087 TTGTATCGATACA
1 TTGTATCGATACA
2159100 TTGTATCGATACA
1 TTGTATCGATACA
2159113 TTGTATCGATA
1 TTGTATCGATA
2159124 TAGGGTGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2160964 original size:36 final size:36
Alignment explanation
Indices: 2160917--2161024 Score: 207
Period size: 36 Copynumber: 3.0 Consensus size: 36
2160907 GTGCAAATAA
2160917 ATTTTTGATATGAATTACTTGATTAAGGGGGAGAAT
1 ATTTTTGATATGAATTACTTGATTAAGGGGGAGAAT
*
2160953 ATTTTTGATATGAATTACTTGATTGAGGGGGAGAAT
1 ATTTTTGATATGAATTACTTGATTAAGGGGGAGAAT
2160989 ATTTTTGATATGAATTACTTGATTAAGGGGGAGAAT
1 ATTTTTGATATGAATTACTTGATTAAGGGGGAGAAT
2161025 TATTAATAAA
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 70 1.00
ACGTcount: A:0.32, C:0.03, G:0.26, T:0.39
Consensus pattern (36 bp):
ATTTTTGATATGAATTACTTGATTAAGGGGGAGAAT
Found at i:2168502 original size:33 final size:33
Alignment explanation
Indices: 2168463--2168661 Score: 253
Period size: 33 Copynumber: 6.1 Consensus size: 33
2168453 TTCAAAAGGA
* *
2168463 CATGACTCAGTGGCAT-TTTTTTCCTTCAAAGTC
1 CATGACTCAGTGGCATCCTTTTT-CTTAAAAGTC
*
2168496 CATGACTCAATGGCATCCTTTTTCTTAAAAGTC
1 CATGACTCAGTGGCATCCTTTTTCTTAAAAGTC
* *
2168529 CACGACTCAGTGGCATCCTTTTTCTTCAAAGTC
1 CATGACTCAGTGGCATCCTTTTTCTTAAAAGTC
* *
2168562 CACGACTCAGTGGCATCCATTTTCTTAAAAGTC
1 CATGACTCAGTGGCATCCTTTTTCTTAAAAGTC
* *
2168595 TATTACTCAGTGGCATCCTTTTTC-T--AAGTC
1 CATGACTCAGTGGCATCCTTTTTCTTAAAAGTC
* * *
2168625 CATGACTTAGTGGCATCCTATTTCTTAAAAGTT
1 CATGACTCAGTGGCATCCTTTTTCTTAAAAGTC
2168658 CATG
1 CATG
2168662 TAGACACCAA
Statistics
Matches: 145, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
30 25 0.17
31 1 0.01
32 1 0.01
33 113 0.78
34 5 0.03
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.37
Consensus pattern (33 bp):
CATGACTCAGTGGCATCCTTTTTCTTAAAAGTC
Found at i:2168886 original size:20 final size:20
Alignment explanation
Indices: 2168858--2168932 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
2168848 TTTTACCCAG
2168858 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
2168878 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
2168898 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
*
2168918 ATGTATTGATACATT
1 ATGTATCGATACATT
2168933 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:2168918 original size:40 final size:39
Alignment explanation
Indices: 2168858--2168935 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
2168848 TTTTACCCAG
*
2168858 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTTCAATATATCGATACAT-TATGA
* * *
2168898 ATGTATCGATATATTCTTCAATGTATTGATACATTATG
1 ATGTATCGATACATTCTTCAATATATCGATACATTATG
2168936 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (39 bp):
ATGTATCGATACATTCTTCAATATATCGATACATTATGA
Found at i:2172800 original size:19 final size:19
Alignment explanation
Indices: 2172773--2172840 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
2172763 AATTCAACAA
*
2172773 TTTGCATCGATACATAAGT
1 TTTGTATCGATACATAAGT
2172792 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
2172807 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
2172824 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
2172841 TTAGCTACTG
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 27 0.64
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:2172812 original size:13 final size:13
Alignment explanation
Indices: 2172794--2172818 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2172784 ACATAAGTTT
2172794 TGTATCGATACAA
1 TGTATCGATACAA
2172807 TGTATCGATACA
1 TGTATCGATACA
2172819 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2172898 original size:13 final size:13
Alignment explanation
Indices: 2172880--2172905 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2172870 CATTTTTCTG
2172880 TGTATCGATACAT
1 TGTATCGATACAT
2172893 TGTATCGATACAT
1 TGTATCGATACAT
2172906 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2175317 original size:51 final size:53
Alignment explanation
Indices: 2175253--2175383 Score: 169
Period size: 51 Copynumber: 2.5 Consensus size: 53
2175243 AGTTTCTCAA
* * * *
2175253 TTCTCCACAATCGGGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
* *
2175304 TT-TTCTATAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAAT
1 TTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAAT
2175358 TTCTTCACAATCGGGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAAC
2175384 CCCGTTATTT
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
50 2 0.03
51 33 0.49
53 9 0.13
54 20 0.30
55 3 0.04
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.33
Consensus pattern (53 bp):
TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
Found at i:2175392 original size:51 final size:49
Alignment explanation
Indices: 2175250--2175395 Score: 143
Period size: 51 Copynumber: 2.9 Consensus size: 49
2175240 TTGAGTTTCT
* * *
2175250 CAATTCTCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACAC
1 CAATTCTTCACAATCGGGGATACTCCAACTCCG--TTTATTTCCAAAACAC
* * *
2175301 TAATT-TTCTATAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACAC
1 CAATTCTTC-ACAATCGGGGATACTCCAACTCCG--TTTATTTCC--AAAACAC
*
2175354 CAATTTCTTCACAATCGGGGATACTCCAACCCCG-TTATTTCC
1 CAA-TTCTTCACAATCGGGGATACTCCAACTCCGTTTATTTCC
2175396 GAGGGGATAC
Statistics
Matches: 80, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
50 2 0.03
51 43 0.54
53 9 0.11
54 23 0.29
55 3 0.04
ACGTcount: A:0.30, C:0.27, G:0.10, T:0.33
Consensus pattern (49 bp):
CAATTCTTCACAATCGGGGATACTCCAACTCCGTTTATTTCCAAAACAC
Found at i:2175451 original size:80 final size:82
Alignment explanation
Indices: 2175316--2175465 Score: 225
Period size: 80 Copynumber: 1.9 Consensus size: 82
2175306 TTCTATAATC
* *
2175316 GGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCC
2175381 AACCCCGTTATTTCCGA
66 AACCCCGTTATTTCCGA
* * *
2175398 GGGGATACTCCAACCCCGATTTTA-TTGC-TAAAACACTAATTT-TTCCACAATCGGGGATACTC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAAAACACCAATTTCTT-CACAATCGGGGATACTC
2175460 CAACCC
65 CAACCC
2175466 TGGTTTTATT
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
79 2 0.03
80 35 0.56
81 3 0.05
82 22 0.35
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.28
Consensus pattern (82 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCC
AACCCCGTTATTTCCGA
Found at i:2175465 original size:52 final size:51
Alignment explanation
Indices: 2175398--2175565 Score: 157
Period size: 52 Copynumber: 3.3 Consensus size: 51
2175388 TTATTTCCGA
* *
2175398 GGGGATACTCCAACCCCGATTTTATTGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACCCCGATTTTATT-CTAAAATACCAATTTTTCCACAATC
* * * * **
2175450 GGGGATACTCCAACCCTGGTTTTATTTTCAAAATGCCAA-TTTTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTCT-AAAATACCAATTTTTCC-ACAATC
* *
2175502 GGGG---CTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAACCCCGATTTTA-TT-CTAAAATACCAATTTTTCCACAATC
*
2175551 GAGGATACTCCAACC
1 GGGGATACTCCAACC
2175566 TCGTTATTTC
Statistics
Matches: 90, Mismatches: 18, Indels: 16
0.73 0.15 0.13
Matches are distributed among these distances:
49 21 0.23
50 12 0.13
51 11 0.12
52 46 0.51
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTCTAAAATACCAATTTTTCCACAATC
Found at i:2175584 original size:28 final size:28
Alignment explanation
Indices: 2175548--2175624 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
2175538 ATTTTTCACA
* * *
2175548 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
2175576 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
2175604 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
2175625 GCTTTATTTC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:2175585 original size:181 final size:183
Alignment explanation
Indices: 2175256--2175596 Score: 501
Period size: 181 Copynumber: 1.9 Consensus size: 183
2175246 TTCTCAATTC
* *
2175256 TCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGG-
* *
2175321 TACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCC
65 -ACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
*
2175386 CGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTGCTAAAACACTAATTTT
129 CGTTATTTCAGAGGGGATACTCCAACCCCGATTTTATTGCTAAAACACTAATTTT
* ** *
2175441 TCCACAATCGGGGATACTCCAAC-CCTGGTTTTATTTTCAAAATGCCAATTTTCCTTTAATCGGG
1 TCCACAATCGGGGATACTCCAACTCC-GATTTTATTTTCAAAACACCAATTTT-CTATAATCGGG
* *
2175505 G-CTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATACTCCAACCT
64 GACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
**
2175567 CGTTATTTCATCGGGGATACTCCAACCCCG
129 CGTTATTTCAGAGGGGATACTCCAACCCCG
2175597 TTACTTCCGA
Statistics
Matches: 141, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
181 50 0.35
182 13 0.09
183 21 0.15
184 2 0.01
185 44 0.31
186 11 0.08
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.32
Consensus pattern (183 bp):
TCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
CTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCCG
TTATTTCAGAGGGGATACTCCAACCCCGATTTTATTGCTAAAACACTAATTTT
Found at i:2175727 original size:79 final size:79
Alignment explanation
Indices: 2175578--2175782 Score: 223
Period size: 79 Copynumber: 2.6 Consensus size: 79
2175568 GTTATTTCAT
* * *
2175578 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTTCCAAAATAT
* * *
2175643 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * * * * * *
2175657 TGGGGATACTCCAACCCCGTTGTTTTCGAGGGGATACTCCAATCCCGATTTTTTTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTTCCAAAAT-A
2175721 TCGATTTCTCACAAC
65 TCGATTTCTCACAAC
* * * * * *
2175736 CGGGGATACTCGAGCCTCGTTATTTTCAAGGGAACACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG
2175783 TTATTATCTC
Statistics
Matches: 103, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 3 0.03
79 100 0.97
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTTCCAAAATAT
CGATTTCTCACAAC
Found at i:2180666 original size:52 final size:52
Alignment explanation
Indices: 2180588--2180768 Score: 317
Period size: 52 Copynumber: 3.5 Consensus size: 52
2180578 TGAAATATGG
* *
2180588 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
* *
2180640 AAATTTGCCTACATGTATCGATACATTTTATAATGTATCGATACATCTTGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
2180692 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
*
2180744 AAATTTGCCTGCACGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
2180769 AAGATCAATG
Statistics
Matches: 122, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 122 1.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
Found at i:2180792 original size:13 final size:13
Alignment explanation
Indices: 2180774--2180801 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2180764 ATACAAAGAT
2180774 CAATGTATCGATA
1 CAATGTATCGATA
2180787 CAATGTATCGATA
1 CAATGTATCGATA
2180800 CA
1 CA
2180802 TTTGAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:2180879 original size:33 final size:33
Alignment explanation
Indices: 2180842--2180910 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
2180832 AGTAGCTTAA
2180842 ATTGTATCAATACAAAAAAATATGTATCGATAC
1 ATTGTATCAATACAAAAAAATATGTATCGATAC
* * ***
2180875 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCAATACAAAAAAATATGTATCGATAC
2180908 ATT
1 ATT
2180911 TGGACCAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.35
Consensus pattern (33 bp):
ATTGTATCAATACAAAAAAATATGTATCGATAC
Found at i:2180882 original size:13 final size:13
Alignment explanation
Indices: 2180864--2180888 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2180854 CAAAAAAATA
2180864 TGTATCGATACAT
1 TGTATCGATACAT
2180877 TGTATCGATACA
1 TGTATCGATACA
2180889 ACACTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2180988 original size:15 final size:15
Alignment explanation
Indices: 2180968--2180998 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
2180958 ATCTCGATTA
2180968 GGGACGATGGGAAAT
1 GGGACGATGGGAAAT
2180983 GGGACGATGGGAAAT
1 GGGACGATGGGAAAT
2180998 G
1 G
2180999 AATTCATCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.48, T:0.13
Consensus pattern (15 bp):
GGGACGATGGGAAAT
Found at i:2181640 original size:52 final size:52
Alignment explanation
Indices: 2181577--2181818 Score: 252
Period size: 52 Copynumber: 4.8 Consensus size: 52
2181567 AGATGAAGGT
* * *
2181577 GCCAATGTGCTGATTCAAGGCTAGCGATATTGGATTTAAAGATGACAAAGAC
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGAC
* * * *
2181629 GCCAATATGCTGATCCAAGGCCAGCGATATAGGACTTAAGGATGACAAAGGC
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGAC
**
2181681 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT---G--G----AGGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGAC
* * * * * **
2181724 GCCAATGTGCTGATTCAAGGCCAGCTACAGTGGACTTAAAGGT-ACCAAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGA-CAAAGAC
2181776 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAAGA
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA-AAGA
2181819 AGACGCCACC
Statistics
Matches: 160, Mismatches: 19, Indels: 21
0.80 0.09 0.10
Matches are distributed among these distances:
43 36 0.22
46 1 0.01
47 1 0.01
49 1 0.01
52 118 0.74
53 3 0.02
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.22
Consensus pattern (52 bp):
GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGAC
Found at i:2181792 original size:95 final size:95
Alignment explanation
Indices: 2181629--2181812 Score: 275
Period size: 95 Copynumber: 1.9 Consensus size: 95
2181619 TGACAAAGAC
*
2181629 GCCAATATGCTGATCCAAGGCCAGCGATATAGGACTTAAGGATGACAAAGGCGCCAATATGCTGA
1 GCCAATATGCTGATCCAAGGCCAGCGACATAGGACTTAAGGATGACAAAGGCGCCAATATGCTGA
2181694 TTCAAGGCCAGCGATATTGGACTTGGAGGT
66 TTCAAGGCCAGCGATATTGGACTTGGAGGT
* * * *
2181724 GCCAATGTGCTGATTCAAGGCCAGCTACAGT-GGACTTAAAGG-T-ACCAAAGGTGCCAATATGC
1 GCCAATATGCTGATCCAAGGCCAGCGACA-TAGGACTT-AAGGATGA-CAAAGGCGCCAATATGC
2181786 TGATTCAAGGCCAGCGATATTGGACTT
63 TGATTCAAGGCCAGCGATATTGGACTT
2181813 AGAAGAAGAC
Statistics
Matches: 81, Mismatches: 5, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
94 1 0.01
95 75 0.93
96 5 0.06
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (95 bp):
GCCAATATGCTGATCCAAGGCCAGCGACATAGGACTTAAGGATGACAAAGGCGCCAATATGCTGA
TTCAAGGCCAGCGATATTGGACTTGGAGGT
Found at i:2181893 original size:28 final size:28
Alignment explanation
Indices: 2181860--2181926 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 28
2181850 GGCTTGCATC
*
2181860 AACTTGTGTGCTTTTG-AAGGTTGCCACT
1 AACTTGTG-GCTTTTGAAAGGGTGCCACT
*
2181888 GACTTGTAGGCTTTTGAAAAGGGTGCCACT
1 AACTTGT-GGCTTTTG-AAAGGGTGCCACT
2181918 AACTTGTGG
1 AACTTGTGG
2181927 GCTTAAAAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
28 13 0.39
29 3 0.09
30 17 0.52
ACGTcount: A:0.21, C:0.16, G:0.28, T:0.34
Consensus pattern (28 bp):
AACTTGTGGCTTTTGAAAGGGTGCCACT
Found at i:2181959 original size:34 final size:35
Alignment explanation
Indices: 2181904--2181995 Score: 107
Period size: 35 Copynumber: 2.7 Consensus size: 35
2181894 TAGGCTTTTG
* * *
2181904 AAAAGGGTGCCACTA-ACTTGTGGGCTTA-AAAGGA
1 AAAAGAGTGCCAC-AGAGTTGTGGGCTTACAAAAGA
* *
2181938 AAAAGAGTGCTACAGAGTTGTGAGCTTACAAAAGA
1 AAAAGAGTGCCACAGAGTTGTGGGCTTACAAAAGA
*
2181973 AAAAGAGTGCCACGGAGTTGTGG
1 AAAAGAGTGCCACAGAGTTGTGG
2181996 ACTTTGGAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
33 1 0.02
34 22 0.46
35 25 0.52
ACGTcount: A:0.37, C:0.13, G:0.30, T:0.20
Consensus pattern (35 bp):
AAAAGAGTGCCACAGAGTTGTGGGCTTACAAAAGA
Found at i:2182022 original size:29 final size:29
Alignment explanation
Indices: 2181973--2182316 Score: 349
Period size: 29 Copynumber: 11.9 Consensus size: 29
2181963 TTACAAAAGA
* * *
2181973 AAAAGAGTGCCACGGAGTTGTGGACTTTGG
1 AAAAGA-TGCCACTGACTTGTGGGCTTTGG
* * *
2182003 AAAAGATGCCACCGACTTGTGGGCGTCGG
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
* *
2182032 AAAAGGGTGCCACTGATTTGTGGGCTTT-G
1 AAAA-GATGCCACTGACTTGTGGGCTTTGG
* * *
2182061 -AAGGTTGCCACTGACTTGTGGACTTTGG
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
* * *
2182089 AAAAGATGCCACCGACTTGTGGGCGTCGG
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
* *
2182118 AAAAGGGTGCCACTGATTTGTGGGCTTT-G
1 AAAA-GATGCCACTGACTTGTGGGCTTTGG
* * * *
2182147 -AAGGTTGCCACTGACTTGTGGACTTTGA
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
*
2182175 AAAAGATGCCACTGACTTGTGGGCTTCGG
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
* *
2182204 AAAAGGGTGCCACTGATTTGTGGGCTTT-G
1 AAAA-GATGCCACTGACTTGTGGGCTTTGG
* * * * *
2182233 -AAGGTTGCCATTGACTTGTGGACTTTGA
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
*
2182261 AAAAGATGCCACTGACTTGTGGGCTTTGA
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
2182290 AAAAGATGCCACTGACTTGTGGGCTTT
1 AAAAGATGCCACTGACTTGTGGGCTTT
2182317 TGAAGGGTGA
Statistics
Matches: 257, Mismatches: 48, Indels: 19
0.79 0.15 0.06
Matches are distributed among these distances:
27 59 0.23
28 7 0.03
29 129 0.50
30 62 0.24
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (29 bp):
AAAAGATGCCACTGACTTGTGGGCTTTGG
Found at i:2182125 original size:86 final size:86
Alignment explanation
Indices: 2181980--2182322 Score: 553
Period size: 86 Copynumber: 4.0 Consensus size: 86
2181970 AGAAAAAGAG
* * *
2181980 TGCCACGGAGTTGTGGACTTTGGAAAAGATGCCACCGACTTGTGGGCGTCGGAAAAGGGTGCCAC
1 TGCCACTGACTTGTGGACTTTGAAAAAGATGCCACCGACTTGTGGGCGTCGGAAAAGGGTGCCAC
2182045 TGATTTGTGGGCTTTGAAGGT
66 TGATTTGTGGGCTTTGAAGGT
*
2182066 TGCCACTGACTTGTGGACTTTGGAAAAGATGCCACCGACTTGTGGGCGTCGGAAAAGGGTGCCAC
1 TGCCACTGACTTGTGGACTTTGAAAAAGATGCCACCGACTTGTGGGCGTCGGAAAAGGGTGCCAC
2182131 TGATTTGTGGGCTTTGAAGGT
66 TGATTTGTGGGCTTTGAAGGT
* *
2182152 TGCCACTGACTTGTGGACTTTGAAAAAGATGCCACTGACTTGTGGGCTTCGGAAAAGGGTGCCAC
1 TGCCACTGACTTGTGGACTTTGAAAAAGATGCCACCGACTTGTGGGCGTCGGAAAAGGGTGCCAC
2182217 TGATTTGTGGGCTTTGAAGGT
66 TGATTTGTGGGCTTTGAAGGT
* * ** * *
2182238 TGCCATTGACTTGTGGACTTTGAAAAAGATGCCACTGACTTGTGGGC-TTTGAAAAAGATGCCAC
1 TGCCACTGACTTGTGGACTTTGAAAAAGATGCCACCGACTTGTGGGCGTCGGAAAAGGGTGCCAC
*
2182302 TGACTTGTGGGCTTTTGAAGG
66 TGATTTGTGGGC-TTTGAAGG
2182323 GTGAGGAATG
Statistics
Matches: 245, Mismatches: 11, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
85 24 0.10
86 221 0.90
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.28
Consensus pattern (86 bp):
TGCCACTGACTTGTGGACTTTGAAAAAGATGCCACCGACTTGTGGGCGTCGGAAAAGGGTGCCAC
TGATTTGTGGGCTTTGAAGGT
Found at i:2183777 original size:16 final size:16
Alignment explanation
Indices: 2183758--2183825 Score: 95
Period size: 16 Copynumber: 4.3 Consensus size: 16
2183748 TCCGGACCCT
*
2183758 TTTTGTTGTTGTTTTG
1 TTTTGTTGTTTTTTTG
*
2183774 TTTTTTTGTTTTTTTG
1 TTTTGTTGTTTTTTTG
2183790 TTTTGTT-TTTTTTCTG
1 TTTTGTTGTTTTTT-TG
2183806 TTTTGTTGTTTTTTT-
1 TTTTGTTGTTTTTTTG
2183821 TTTTG
1 TTTTG
2183826 CGGAGGACGC
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
15 11 0.23
16 30 0.64
17 6 0.13
ACGTcount: A:0.00, C:0.01, G:0.16, T:0.82
Consensus pattern (16 bp):
TTTTGTTGTTTTTTTG
Found at i:2183780 original size:8 final size:8
Alignment explanation
Indices: 2183757--2183824 Score: 77
Period size: 8 Copynumber: 8.5 Consensus size: 8
2183747 ATCCGGACCC
2183757 TTTTTGTTG
1 TTTTT-TTG
*
2183766 TTGTTTTG
1 TTTTTTTG
2183774 TTTTTTTG
1 TTTTTTTG
2183782 TTTTTTTG
1 TTTTTTTG
2183790 TTTTGTTT-
1 TTTT-TTTG
*
2183798 TTTTTCTG
1 TTTTTTTG
*
2183806 TTTTGTTG
1 TTTTTTTG
2183814 TTTTTTT-
1 TTTTTTTG
2183821 TTTT
1 TTTT
2183825 GCGGAGGACG
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
7 6 0.12
8 38 0.75
9 7 0.14
ACGTcount: A:0.00, C:0.01, G:0.15, T:0.84
Consensus pattern (8 bp):
TTTTTTTG
Found at i:2183792 original size:21 final size:21
Alignment explanation
Indices: 2183763--2183825 Score: 83
Period size: 21 Copynumber: 2.9 Consensus size: 21
2183753 ACCCTTTTTG
2183763 TTGTTGTTTTGTTTTTTTGTT
1 TTGTTGTTTTGTTTTTTTGTT
*
2183784 TTTTTGTTTTGTTTTTTTTCTGTT
1 TTGTTGTTTTG--TTTTTT-TGTT
2183808 TTGTTGTTTT-TTTTTTTG
1 TTGTTGTTTTGTTTTTTTG
2183826 CGGAGGACGC
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
20 2 0.05
21 16 0.43
23 6 0.16
24 13 0.35
ACGTcount: A:0.00, C:0.02, G:0.16, T:0.83
Consensus pattern (21 bp):
TTGTTGTTTTGTTTTTTTGTT
Found at i:2187024 original size:28 final size:28
Alignment explanation
Indices: 2186985--2187056 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
2186975 GGAGTAAAGC
* ** *
2186985 CGGGGTTAGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
2187013 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
2187041 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
2187057 TCGACTGTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:2187317 original size:27 final size:26
Alignment explanation
Indices: 2187248--2187323 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 26
2187238 GAAATAAAGT
2187248 CGGGGTTGGAGTATCCCCTCGGA-AATAA
1 CGGGGTTGGAGTAT-CCC-C-GATAATAA
* * *
2187276 CAGGGTTGGACTATCCCCGATGATCAA
1 CGGGGTTGGAGTATCCCCGATAAT-AA
2187303 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
2187324 TGTGAAGAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
25 2 0.05
26 3 0.07
27 24 0.59
28 12 0.29
ACGTcount: A:0.22, C:0.24, G:0.32, T:0.22
Consensus pattern (26 bp):
CGGGGTTGGAGTATCCCCGATAATAA
Found at i:2187411 original size:51 final size:51
Alignment explanation
Indices: 2187044--2187429 Score: 257
Period size: 52 Copynumber: 7.4 Consensus size: 51
2187034 GAAATAACGA
* * * * *
2187044 GGTTGGAGTATCCTCGACTGTGAAAAATTGGTATTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGT-GTTTTGAAAATAAAATCGG
* * * * * *
2187096 AGTTGGAGTATCCCTGATTAATGGAAAATTGGTGTTTCGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-ATGAAAAATTAGTGTTTTGAAAATAAAATCGG
* * *
2187148 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTT-AGTAATAAAACCGG
1 GGTTGGAGTATCCCCGATTAT-GAAAAATTAGTGTTTTGA-AAATAAAATCGG
* * * * * *
2187200 GGATGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGAAAATAAAATCGG
** * * * * *
2187251 GGTTGGAGTATCCCC---TCGGAAATAA-CAG-GGTTGGACTATCCCCGATGATCAA-CGG
1 GGTTGGAGTATCCCCGATTATGAAA-AATTAGTGTTTTGA--A-----AAT-A-AAATCGG
* * *
2187306 GGTTGGAGTATCCCCGATTGTGAAGAAATTTGTGTTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAA-AAATTAGTG--TTTTGAAAATAAAATCGG
*
2187360 AGTTGGAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGA-AAAATTAGTGTTTTGAAAATAAAATCGG
* *
2187411 AGTTGGAATATCCCCGATT
1 GGTTGGAGTATCCCCGATT
2187430 GTGGAGAATT
Statistics
Matches: 260, Mismatches: 50, Indels: 49
0.72 0.14 0.14
Matches are distributed among these distances:
47 3 0.01
48 7 0.03
49 3 0.01
51 73 0.28
52 91 0.35
53 22 0.08
54 26 0.10
55 21 0.08
56 1 0.00
58 6 0.02
59 2 0.01
60 2 0.01
62 3 0.01
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGAAAATAAAATCGG
Found at i:2187425 original size:263 final size:262
Alignment explanation
Indices: 2186934--2187434 Score: 747
Period size: 263 Copynumber: 1.9 Consensus size: 262
2186924 TCGAAAATAA
* * * *
2186934 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAGTAAAGCCGGGGTTAGAGTAT
1 CGGGGATGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTTAGAGTAT
* * * *
2186999 CCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGACTG
66 CCCCTCGGAAATAACAGGGTTGGACTATCCCCGATG-AATAACGAGGTTGGAGTATCCCCGACTG
* * *
2187064 TGAAAAATTGGTATTTTTGAAAATAAAATCGGAGTTGGAGTATCCCTGATTAATGGAAAATTGGT
130 TGAAAAATTGGTATTTTTGAAAATAAAATCGGAGTTGGAGTATCCCCGATTAATAGAAAATTAGT
* *
2187129 GTTTCGAAAATAAAACCGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGTAATAA
195 GTTTCGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGAAAAATTAGTGTTTTAGTAATAA
2187194 AAC
260 AAC
* * *
2187197 CGGGGATGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGGGGTTGGAGTAT
1 CGGGGATGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTTAGAGTAT
* *
2187262 CCCCTCGGAAATAACAGGGTTGGACTATCCCCGATG-ATCAACGGGGTTGGAGTATCCCCGATTG
66 CCCCTCGGAAATAACAGGGTTGGACTATCCCCGATGAAT-AACGAGGTTGGAGTATCCCCGACTG
*
2187326 TGAAGAAATTTGTGT-TTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATT-ATAGAAAATT
130 TGAA-AAA-TTG-GTATTTTTGAAAATAAAATCGGAGTTGGAGTATCCCCGATTAATAGAAAATT
* *
2187389 AGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATTGTGGA
192 AGTGTTTCGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGA
2187435 GAATTGAGAA
Statistics
Matches: 213, Mismatches: 21, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
261 2 0.01
262 26 0.12
263 144 0.68
264 39 0.18
265 2 0.01
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (262 bp):
CGGGGATGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTTAGAGTAT
CCCCTCGGAAATAACAGGGTTGGACTATCCCCGATGAATAACGAGGTTGGAGTATCCCCGACTGT
GAAAAATTGGTATTTTTGAAAATAAAATCGGAGTTGGAGTATCCCCGATTAATAGAAAATTAGTG
TTTCGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGAAAAATTAGTGTTTTAGTAATAAA
AC
Found at i:2189805 original size:13 final size:13
Alignment explanation
Indices: 2189787--2189812 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2189777 ACAAAGATCC
2189787 ATGTATCGATACA
1 ATGTATCGATACA
2189800 ATGTATCGATACA
1 ATGTATCGATACA
2189813 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2189808 original size:33 final size:33
Alignment explanation
Indices: 2189766--2189832 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2189756 AAAATTTCCA
***
2189766 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
2189799 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
2189832 A
1 A
2189833 TTTCCTTAGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:2189873 original size:13 final size:13
Alignment explanation
Indices: 2189855--2189879 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2189845 TAGCTAATTA
2189855 TGTATCGATACAC
1 TGTATCGATACAC
2189868 TGTATCGATACA
1 TGTATCGATACA
2189880 AAACTTATGT
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:2189963 original size:21 final size:21
Alignment explanation
Indices: 2189937--2189992 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
2189927 TTGGGACCCT
2189937 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCCACAAA
*
2189958 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCCACAAA
*
2189979 TATATCGATACATT
1 TGTATCGATACATT
2189993 TGGATAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.34
Consensus pattern (21 bp):
TGTATCGATACATTCCACAAA
Found at i:2190813 original size:55 final size:55
Alignment explanation
Indices: 2190729--2191668 Score: 1341
Period size: 55 Copynumber: 17.0 Consensus size: 55
2190719 ATAAAGTGTA
* * * * *
2190729 TCCTGCTCATTGAGGAGT-AAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
2190784 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
2190839 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAATTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
2190894 TCCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
2190949 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGGGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
2191004 TCCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
2191059 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
2191114 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
2191169 TCCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
2191224 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
2191279 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
2191334 TCCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
2191389 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
2191444 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
**
2191499 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGG-G
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGTG
* ** * *
2191557 TCCCGCTCTTTGAGGACT-GAAGGTGCCACCAACTTCTGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGTG
* *
2191616 TCCCGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGG
2191669 AAAAGGCATC
Statistics
Matches: 820, Mismatches: 38, Indels: 54
0.90 0.04 0.06
Matches are distributed among these distances:
54 52 0.06
55 632 0.77
56 30 0.04
58 57 0.07
59 24 0.03
60 25 0.03
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
Found at i:2190914 original size:26 final size:26
Alignment explanation
Indices: 2190885--2191029 Score: 73
Period size: 26 Copynumber: 5.3 Consensus size: 26
2190875 GTGTGGGCTT
2190885 TGAAAGGTGTCCTGCTCTTTGGGGAC
1 TGAAAGGTGTCCTGCTCTTTGGGGAC
** *
2190911 TGAAAGGTG-CCACCAACTTGTGTGGG-C
1 TGAAAGGTGTCCTGC-TCTT-TG-GGGAC
* *
2190938 TTTAAGAGGTGTCCTGCTCTTTGAGGAC
1 -TGAA-AGGTGTCCTGCTCTTTGGGGAC
* ** * * *
2190966 TGGAAA-ATG-CCACCAACTTGGGTGGGC
1 T-GAAAGGTGTCCTGC-TCTTTGG-GGAC
2190993 TTTGAAAGGTGTCCTGCTCTTTGGGGAC
1 --TGAAAGGTGTCCTGCTCTTTGGGGAC
2191021 TGAAAGGTG
1 TGAAAGGTG
2191030 CCACCAACTT
Statistics
Matches: 83, Mismatches: 22, Indels: 28
0.62 0.17 0.21
Matches are distributed among these distances:
25 6 0.07
26 27 0.33
27 10 0.12
28 18 0.22
29 16 0.19
30 6 0.07
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.28
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGGGGAC
Found at i:2192699 original size:12 final size:11
Alignment explanation
Indices: 2192676--2192729 Score: 65
Period size: 12 Copynumber: 4.7 Consensus size: 11
2192666 CTTTTCTCTC
*
2192676 TTTTTCTTTGT
1 TTTTTTTTTGT
2192687 TTTGTTTTTTGT
1 TTT-TTTTTTGT
2192699 TTTGTTTTTT-T
1 TTT-TTTTTTGT
2192710 CTTTTTTTTTGT
1 -TTTTTTTTTGT
2192722 TTTTTTTT
1 TTTTTTTT
2192730 GAAGAGAAGG
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
11 18 0.46
12 21 0.54
ACGTcount: A:0.00, C:0.04, G:0.09, T:0.87
Consensus pattern (11 bp):
TTTTTTTTTGT
Found at i:2205214 original size:79 final size:79
Alignment explanation
Indices: 2205083--2205281 Score: 213
Period size: 79 Copynumber: 2.5 Consensus size: 79
2205073 GGGGTTGGAG
* * * * ** * *
2205083 TTGGAGTGTTCCCTTGAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGA-TTAG
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-ATTTAG
**
2205147 AAAAAAAAATC-GAGA
65 AAAAAAAAGCCAG-GA
* *
2205162 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGG
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTAGA
* * *
2205227 GAATAAAGCCAGGG
66 AAAAAAAGCCAGGA
* *
2205241 TTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCC
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCC
2205282 GATGAAATAA
Statistics
Matches: 101, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
78 1 0.01
79 99 0.98
80 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (79 bp):
TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTAGA
AAAAAAAGCCAGGA
Found at i:2205292 original size:28 final size:28
Alignment explanation
Indices: 2205238--2205307 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
2205228 AATAAAGCCA
** *
2205238 GGGTTGGAGTATCCCCTCGGAAGTAACG
1 GGGTTGGAGTATCCCCGAGGAAATAACG
*
2205266 GGGTTGGAGTATCCCCGATGAAATAACG
1 GGGTTGGAGTATCCCCGAGGAAATAACG
* *
2205294 AGGTTAGAGTATCC
1 GGGTTGGAGTATCC
2205308 TCGACTGTGA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.26, C:0.19, G:0.33, T:0.23
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCGAGGAAATAACG
Found at i:2205502 original size:51 final size:52
Alignment explanation
Indices: 2205387--2205516 Score: 181
Period size: 51 Copynumber: 2.5 Consensus size: 52
2205377 GGTGTTTCAA
* * * *
2205387 AAATAAAACCGGGGTTGGAGTATCCCCAATTATGGAAAAATTAGTGTTTTAG
1 AAATAAAATCGGGGTTGGAGTATCCCCAATTATGGAAAAATCAATATTTTAG
* * *
2205439 CAATAAAATCGGGGTTGGAGTATCCCCGATTAT-GAAAAATCAATATTTTGG
1 AAATAAAATCGGGGTTGGAGTATCCCCAATTATGGAAAAATCAATATTTTAG
*
2205490 AAATAAAGTCGGGGTTGGAGTATCCCC
1 AAATAAAATCGGGGTTGGAGTATCCCC
2205517 TCGGAAATAA
Statistics
Matches: 69, Mismatches: 9, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
51 39 0.57
52 30 0.43
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.28
Consensus pattern (52 bp):
AAATAAAATCGGGGTTGGAGTATCCCCAATTATGGAAAAATCAATATTTTAG
Found at i:2205563 original size:27 final size:26
Alignment explanation
Indices: 2205499--2205574 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 26
2205489 GAAATAAAGT
2205499 CGGGGTTGGAGTATCCCCTCGGA-AATAA
1 CGGGGTTGGAGTAT-CCC-C-GATAATAA
*
2205527 CGGGGTTGGAGTATCCCCGATGATCAA
1 CGGGGTTGGAGTATCCCCGATAAT-AA
2205554 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
2205575 TGTGAAGAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
25 2 0.04
26 3 0.07
27 26 0.58
28 14 0.31
ACGTcount: A:0.21, C:0.22, G:0.34, T:0.22
Consensus pattern (26 bp):
CGGGGTTGGAGTATCCCCGATAATAA
Found at i:2205655 original size:263 final size:262
Alignment explanation
Indices: 2205185--2205685 Score: 754
Period size: 263 Copynumber: 1.9 Consensus size: 262
2205175 TCGAAAATAA
* *
2205185 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCAGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCAGGGTTGGAGTAT
* *
2205250 CCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTAGAGTATCCTCGACTG
66 CCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG-AATAACGAGGTTAGAGTATCCCCGACTG
*
2205315 TGAAAAATTGGTATTTTTGAAAATAAAATCGAAGTTGGAGTATCCCCGATTAAAGGAAAATTGGT
130 TGAAAAATTGGTATTTTTGAAAATAAAATCGAAGTTGGAGTATCCCCGATTAAAGGAAAATTAGT
* *
2205380 GTTTCAAAAATAAAACCGGGGTTGGAGTATCCCCAATTATGGAAAAATTAGTGTTTTAGCAATAA
195 GTTTCAAAAATAAAACCGGAGTTGGAATATCCCCAATTATGGAAAAATTAGTGTTTTAGCAATAA
2205445 AAT
260 AAT
* * *
2205448 CGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCAGGGTTGGAGTAT
* * *
2205513 CCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG-ATCAACGGGGTTGGAGTATCCCCGATTG
66 CCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAT-AACGAGGTTAGAGTATCCCCGACTG
* * * *
2205577 TGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTATA-GAAAATTA
130 TGAA-AAATTGGT-ATTTTTGAAAATAAAATCGAAGTTGGAGTATCCCCGATTAAAGGAAAATTA
** * * *
2205641 GTGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATTGTGGA
193 GTGTTTCAAAAATAAAACCGGAGTTGGAATATCCCCAATTATGGA
2205686 TTATTGAGAA
Statistics
Matches: 213, Mismatches: 22, Indels: 6
0.88 0.09 0.02
Matches are distributed among these distances:
261 2 0.01
262 25 0.12
263 148 0.69
264 38 0.18
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (262 bp):
CGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCAGGGTTGGAGTAT
CCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTAGAGTATCCCCGACTGT
GAAAAATTGGTATTTTTGAAAATAAAATCGAAGTTGGAGTATCCCCGATTAAAGGAAAATTAGTG
TTTCAAAAATAAAACCGGAGTTGGAATATCCCCAATTATGGAAAAATTAGTGTTTTAGCAATAAA
AT
Found at i:2205662 original size:51 final size:52
Alignment explanation
Indices: 2205329--2205680 Score: 243
Period size: 52 Copynumber: 6.7 Consensus size: 52
2205319 AAATTGGTAT
** * * *
2205329 TTTTGAAAATAAAATCGAAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTG
1 TTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTATAGAAAAATTAGTG
** * * *
2205381 TTTCAAAAATAAAACCGGGGTTGGAGTATCCCCAATTATGGAAAAATTAGTG
1 TTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTATAGAAAAATTAGTG
* * * *
2205433 TTTT-AGCAATAAAATCGGGGTTGGAGTATCCCCGATTAT-GAAAAATCAATA
1 TTTTGA-AAATAAAATCGGGGTTGGAGTATCCCCGATTATAGAAAAATTAGTG
* * * **** *
2205484 TTTTGGAAATAAAGTCGGGGTTGGAGTATCCCCTCGGA-AATA-ACGGGGTTGGAGTA
1 TTTTGAAAATAAAATCGGGGTTGGAGTAT-CCC-C-GATTATAGA-AAAATT--AGTG
*** ** * * *
2205540 TCCCCGATGAT-CAA-CGGGGTTGGAGTATCCCCGATTGT-GAAGAAATTGGTG
1 T-TTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTATAGAA-AAATTAGTG
* *
2205591 TTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTATAG-AAAATTAGTG
1 --TTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTATAGAAAAATTAGTG
* *
2205644 TTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATT
1 TTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATT
2205681 GTGGATTATT
Statistics
Matches: 227, Mismatches: 55, Indels: 37
0.71 0.17 0.12
Matches are distributed among these distances:
51 72 0.32
52 83 0.37
53 20 0.09
54 29 0.13
55 15 0.07
56 5 0.02
57 3 0.01
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (52 bp):
TTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTATAGAAAAATTAGTG
Found at i:2207840 original size:20 final size:20
Alignment explanation
Indices: 2207817--2207890 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
2207807 ACAATTCAAA
2207817 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
2207837 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
2207858 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
2207878 GTATCGATACATG
1 GTATCGATACATG
2207891 AAAAAGATGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:2207861 original size:21 final size:21
Alignment explanation
Indices: 2207835--2207910 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
2207825 ACATGTTGCA
2207835 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
2207856 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
2207876 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
2207897 ATGTATCGATACAT
1 ATGTATCGATACAT
2207911 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:2207868 original size:41 final size:41
Alignment explanation
Indices: 2207817--2207910 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
2207807 ACAATTCAAA
2207817 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
2207858 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
2207899 GTATCGATACAT
1 GTATCGATACAT
2207911 TTCTTGGCAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
Found at i:2207967 original size:13 final size:13
Alignment explanation
Indices: 2207949--2207974 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2207939 TACAGCAAGT
2207949 ATGTATCGATACA
1 ATGTATCGATACA
2207962 ATGTATCGATACA
1 ATGTATCGATACA
2207975 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2214145 original size:13 final size:13
Alignment explanation
Indices: 2214127--2214165 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2214117 ACATTTTTCC
2214127 TTGTATCGATACA
1 TTGTATCGATACA
2214140 TTGTATCGATACA
1 TTGTATCGATACA
*
2214153 CTGTATCGATACA
1 TTGTATCGATACA
2214166 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2216261 original size:20 final size:20
Alignment explanation
Indices: 2216238--2216311 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
2216228 ACAATTCAAA
2216238 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
2216258 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
2216279 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
2216299 GTATCGATACATG
1 GTATCGATACATG
2216312 AAAAAGATGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:2216282 original size:21 final size:21
Alignment explanation
Indices: 2216256--2216331 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
2216246 ACATGTTGCA
2216256 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
2216277 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
2216297 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
2216318 ATGTATCGATACAT
1 ATGTATCGATACAT
2216332 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:2216289 original size:41 final size:41
Alignment explanation
Indices: 2216238--2216331 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
2216228 ACAATTCAAA
2216238 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
2216279 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
2216320 GTATCGATACAT
1 GTATCGATACAT
2216332 TTCTTGGCAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
Found at i:2216388 original size:13 final size:13
Alignment explanation
Indices: 2216370--2216395 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2216360 TACAGCAAGT
2216370 ATGTATCGATACA
1 ATGTATCGATACA
2216383 ATGTATCGATACA
1 ATGTATCGATACA
2216396 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2217673 original size:20 final size:20
Alignment explanation
Indices: 2217646--2217700 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
2217636 TAAAATTTCT
*
2217646 AAATGTATCGATACAAAGAT
1 AAATGTATCGATACAAAGAA
** *
2217666 CCATGTATCGATACACAGAA
1 AAATGTATCGATACAAAGAA
2217686 AAATGTATCGATACA
1 AAATGTATCGATACA
2217701 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.24
Consensus pattern (20 bp):
AAATGTATCGATACAAAGAA
Found at i:2217760 original size:13 final size:13
Alignment explanation
Indices: 2217742--2217766 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2217732 ACAATACTTA
2217742 TGTATCGATACAT
1 TGTATCGATACAT
2217755 TGTATCGATACA
1 TGTATCGATACA
2217767 AAACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2217765 original size:32 final size:32
Alignment explanation
Indices: 2217723--2217785 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
2217713 TAGCTAATTA
* *
2217723 TGTATTGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
2217755 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
2217786 AATTGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.37
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:2217779 original size:19 final size:19
Alignment explanation
Indices: 2217720--2217787 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
2217710 CAGTAGCTAA
* *
2217720 TTATGTATTGATACAATAC
1 TTATGTATCGATACAAAAC
2217739 TTATGTATCGATAC---A-
1 TTATGTATCGATACAAAAC
2217754 -T-TGTATCGATACAAAAC
1 TTATGTATCGATACAAAAC
2217771 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
2217788 TTGTTGAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 1 0.02
19 27 0.64
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (19 bp):
TTATGTATCGATACAAAAC
Found at i:2217849 original size:21 final size:21
Alignment explanation
Indices: 2217823--2217899 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
2217813 GTTGGGACCC
* *
2217823 TGTATCGATACATTTGTA-GAA
1 TGTATCGATACA-TTCTACAAA
*
2217844 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCTACAAA
2217865 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
2217886 TGTATCGATACATT
1 TGTATCGATACATT
2217900 TGGATAAATT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 3 0.06
21 48 0.94
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:2229701 original size:52 final size:52
Alignment explanation
Indices: 2229623--2229751 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
2229613 CGAAATATGG
*
2229623 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
* *
2229675 AAATTTGCTTGCATGTATCTATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
*
2229727 AAATTTGCCTGCATGTATTGATACA
1 AAATTTGCCTGCATGTATCGATACA
2229752 AAGATCAGTG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
Found at i:2229778 original size:13 final size:13
Alignment explanation
Indices: 2229760--2229818 Score: 67
Period size: 13 Copynumber: 4.9 Consensus size: 13
2229750 CAAAGATCAG
2229760 TGTATCGATACAA
1 TGTATCGATACAA
2229773 TGTATCGATAC-A
1 TGTATCGATACAA
2229785 T-T-T-GAGT--AA
1 TGTATCGA-TACAA
2229794 TGTATCGATACAA
1 TGTATCGATACAA
2229807 TGTATCGATACA
1 TGTATCGATACA
2229819 TTTGAGTAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
9 4 0.10
10 3 0.08
11 3 0.08
12 4 0.10
13 25 0.64
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2229803 original size:34 final size:34
Alignment explanation
Indices: 2229760--2229839 Score: 151
Period size: 34 Copynumber: 2.4 Consensus size: 34
2229750 CAAAGATCAG
2229760 TGTATCGATACAATGTATCGATACATTTGAGTAA
1 TGTATCGATACAATGTATCGATACATTTGAGTAA
2229794 TGTATCGATACAATGTATCGATACATTTGAGTAA
1 TGTATCGATACAATGTATCGATACATTTGAGTAA
*
2229828 TATATCGATACA
1 TGTATCGATACA
2229840 TTTTTTGGCA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 45 1.00
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.35
Consensus pattern (34 bp):
TGTATCGATACAATGTATCGATACATTTGAGTAA
Found at i:2229896 original size:33 final size:33
Alignment explanation
Indices: 2229859--2229925 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2229849 AGTAGCTTAA
2229859 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
2229892 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
2229925 A
1 A
2229926 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:2229899 original size:13 final size:13
Alignment explanation
Indices: 2229881--2229905 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2229871 CAAAAAAATA
2229881 TGTATCGATACAT
1 TGTATCGATACAT
2229894 TGTATCGATACA
1 TGTATCGATACA
2229906 ACACTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2241139 original size:5 final size:5
Alignment explanation
Indices: 2241125--2241168 Score: 51
Period size: 5 Copynumber: 9.4 Consensus size: 5
2241115 CTTTACACCT
2241125 AAAA- AAAAC AAAAC AAAAAC AAAAC -AAA- AAAAC AAAA- AAAAC AA
1 AAAAC AAAAC AAAAC -AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AA
2241169 GAAAAAATAG
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
4 14 0.40
5 16 0.46
6 5 0.14
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:2241156 original size:19 final size:18
Alignment explanation
Indices: 2241125--2241174 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 18
2241115 CTTTACACCT
*
2241125 AAAAAAAACAA-AACAA-
1 AAAAAAAACAAGAAAAAC
*
2241141 AAACAAAACAA-AAAAAC
1 AAAAAAAACAAGAAAAAC
2241158 AAAAAAAACAAGAAAAA
1 AAAAAAAACAAGAAAAA
2241175 ATAGCAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 14 0.48
17 10 0.34
18 5 0.17
ACGTcount: A:0.86, C:0.12, G:0.02, T:0.00
Consensus pattern (18 bp):
AAAAAAAACAAGAAAAAC
Found at i:2241173 original size:11 final size:10
Alignment explanation
Indices: 2241125--2241186 Score: 61
Period size: 11 Copynumber: 5.6 Consensus size: 10
2241115 CTTTACACCT
2241125 AAAAAAAACA
1 AAAAAAAACA
2241135 AAACAAAAACA
1 AAA-AAAAACA
*
2241146 AAACAAAAAAA
1 AAA-AAAAACA
2241157 CAAAAAAAACA
1 -AAAAAAAACA
2241168 AGAAAAAATAGCA
1 A-AAAAAA-A-CA
2241181 AAAAAA
1 AAAAAA
2241187 TAGAAGGGTC
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
10 4 0.09
11 29 0.64
12 9 0.20
13 3 0.07
ACGTcount: A:0.84, C:0.11, G:0.03, T:0.02
Consensus pattern (10 bp):
AAAAAAAACA
Found at i:2241175 original size:19 final size:19
Alignment explanation
Indices: 2241134--2241174 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
2241124 TAAAAAAAAC
2241134 AAAACAAAAACAAAACAAA
1 AAAACAAAAACAAAACAAA
2241153 AAAAC-AAAA-AAAACAAGA
1 AAAACAAAAACAAAACAA-A
2241171 AAAA
1 AAAA
2241175 ATAGCAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.33
18 9 0.43
19 5 0.24
ACGTcount: A:0.85, C:0.12, G:0.02, T:0.00
Consensus pattern (19 bp):
AAAACAAAAACAAAACAAA
Found at i:2241175 original size:22 final size:21
Alignment explanation
Indices: 2241125--2241186 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 21
2241115 CTTTACACCT
2241125 AAAAAAAACAAAACAAAAACAAA
1 AAAAAAAAC-AAA-AAAAACAAA
2241148 ACAAAAAAACAAAAAAAACAAGA
1 A-AAAAAAACAAAAAAAACAA-A
* *
2241171 AAAAATAGCAAAAAAA
1 AAAAAAAACAAAAAAA
2241187 TAGAAGGGTC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
22 21 0.60
23 6 0.17
24 8 0.23
ACGTcount: A:0.84, C:0.11, G:0.03, T:0.02
Consensus pattern (21 bp):
AAAAAAAACAAAAAAAACAAA
Found at i:2242474 original size:29 final size:28
Alignment explanation
Indices: 2242401--2243687 Score: 1522
Period size: 28 Copynumber: 44.6 Consensus size: 28
2242391 GAACGTTCAA
2242401 ACCCTTTCAAAGCCCACAAGTCAGTGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGC
*
2242429 ACCCTTTCAAAGTCCACAAGTCAGTGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGC
2242457 ACCCCTTTCAAAGCCCACAAGTCAGTGGC
1 A-CCCTTTCAAAGCCCACAAGTCAGTGGC
2242486 ACCCTTTCAAAGCCCACAAGTCAGTGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGC
* *
2242514 ACCCTTTTAAAGCCCACAAGTCAATGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGC
* * *
2242542 ACTCTTTTCAAAGCCCACACGAGTCGGTGGTA
1 AC-CCTTTCAAAGCCCACA--AGTCAGTGG-C
*
2242574 ACTCTTTTCAAAGCCCACGCAAGTCAGTGGC
1 AC-CCTTTCAAAGCCCA--CAAGTCAGTGGC
**
2242605 ACTTTTTC-AAGCCCACAAGTCAGTGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGC
**
2242632 ACTTTTTC-AAGCCCACAAGTCAGTGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGC
** *
2242659 ACTTTTTCAAAGCCCACAAGTTAGTGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGC
* *
2242687 ATCCTTTCAAAGCCCACACGAGTCGGTGGC
1 ACCCTTTCAAAGCCCACA--AGTCAGTGGC
* * *
2242717 AACTCTTTTCAAAGCCTACAAGTTAGTGGC
1 -AC-CCTTTCAAAGCCCACAAGTCAGTGGC
2242747 ACCCTTTCAAAGCCCACAAGTCAGTGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGC
2242775 ACCCCTTTCAAAGCCCACAAGTCAGTGGC
1 A-CCCTTTCAAAGCCCACAAGTCAGTGGC
*
2242804 ACCTTTTCAAAGCCCACAAGTCAGTGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGC
*
2242832 ACCCTTTTAAAGCCCACAAGTCAGTGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGC
* *
2242860 ACTCTTTTCAAAGCCCACACGAGTCGGTGGC
1 AC-CCTTTCAAAGCCCACA--AGTCAGTGGC
*
2242891 AGCTCTTTTCAAAGCCCACGCAAGTCAGTGGC
1 A-C-CCTTTCAAAGCCCA--CAAGTCAGTGGC
**
2242923 ACTTTTTC-AAGCCCACAAGTCAGTGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGC
** *
2242950 ACTTTTTCAAAGCCCACAAGTTAGTGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGC
* *
2242978 ATCCTTTCAAAGCCCACACGAGTCGGTGGC
1 ACCCTTTCAAAGCCCACA--AGTCAGTGGC
*
2243008 AACTCTTTTCAAAGCCCACAAGTCAGTGGC
1 -AC-CCTTTCAAAGCCCACAAGTCAGTGGC
*
2243038 ACCCTTACAAAGCCCACAAGTCAGTGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGC
*
2243066 ACCCCTTTCAAAGCCCACAAGTCAGTGAC
1 A-CCCTTTCAAAGCCCACAAGTCAGTGGC
*
2243095 ACCTCTTTCAAAGCCCACACGAGTCGGTGGC
1 ACC-CTTTCAAAGCCCACA--AGTCAGTGGC
* *
2243126 ACCCTTTTAAAGCCCACAAGTCAGTGGT
1 ACCCTTTCAAAGCCCACAAGTCAGTGGC
* *
2243154 ACTCTTTTCAAAGCCCACAAGTCAGTGGT
1 AC-CCTTTCAAAGCCCACAAGTCAGTGGC
* *
2243183 ACTCTTTTCAAAGCCCACAAGACAGTGGC
1 AC-CCTTTCAAAGCCCACAAGTCAGTGGC
2243212 ACCCCTTTCAAAGCCCACAAGTCAGTGGC
1 A-CCCTTTCAAAGCCCACAAGTCAGTGGC
* * *
2243241 ACCCTTGCGAAGCCCACAATTCAGTGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGC
* *
2243269 ACTCTTTCAAAG-CCATAAGTCAGTGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGC
2243296 ACCCTTTCAAAGCCCACACAAGTCAGTGGC
1 ACCCTTTCAAAG-CC-CACAAGTCAGTGGC
*
2243326 ACTCCTTTCAAAGCCCACAAGTTAGTGGC
1 AC-CCTTTCAAAGCCCACAAGTCAGTGGC
* *
2243355 ATCCTTTCAAAGCCCACGAGTCAGTGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGC
**
2243383 ATTCTTTCAAAGCCCACGCAAGTCAGTGGC
1 ACCCTTTCAAAGCCCA--CAAGTCAGTGGC
*
2243413 ACCCTTTTAAAGCCCACGCAAGTCAGTGGC
1 ACCCTTTCAAAGCCCA--CAAGTCAGTGGC
* *
2243443 ACCTTTTCAAAGCCCACGAGTCAGTGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGC
* *
2243471 ACTCTTTCAAAGCCCACAAGTTAGTGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGC
* *
2243499 ACCCTTTC-AAGCCCACGAGTCAGTGGT
1 ACCCTTTCAAAGCCCACAAGTCAGTGGC
* *
2243526 ACCTTTTCAAAGCCCACGAGTCAGTGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGC
* *
2243554 ACTCTTTCAAATCCCACAAGTCAGTGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGC
* *
2243582 ATCCTTTCAAAGCCCACGAGTCAGTGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGC
** *
2243610 ATTCTTTCAAAGCCCATGCAAGTCAGTGCC
1 ACCCTTTCAAAGCCCA--CAAGTCAGTGGC
* * *
2243640 ACCCTTTTAAAGCCCACAAGCCAGTGGTA
1 ACCCTTTCAAAGCCCACAAGTCAGTGG-C
*
2243669 ACTCTTTTCAAAGCCCACA
1 AC-CCTTTCAAAGCCCACA
2243688 CGAGTCGGTG
Statistics
Matches: 1109, Mismatches: 109, Indels: 80
0.85 0.08 0.06
Matches are distributed among these distances:
27 114 0.10
28 468 0.42
29 236 0.21
30 164 0.15
31 43 0.04
32 80 0.07
34 4 0.00
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.22
Consensus pattern (28 bp):
ACCCTTTCAAAGCCCACAAGTCAGTGGC
Found at i:2243235 original size:318 final size:316
Alignment explanation
Indices: 2242401--2243687 Score: 1676
Period size: 318 Copynumber: 4.1 Consensus size: 316
2242391 GAACGTTCAA
*
2242401 ACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGTCCACAAGTCAGTGGCACCCCTTTC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCCTTTC
*
2242466 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCAC
66 AAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCAC
* * * *
2242531 AAGTCAATGGCACTCTTTTCAAAGCCCACACGAGTCGGTGGTAACTCTTTTCAAAGCCCACGCAA
131 AAGTCAGTGGCACTCTTTTCAAAGCCCACAC-AGTCAGTGG-CACCCTTTTCAAAGCCCAC-CAA
* *
2242596 GTCAGTGGCACTTTTTC-AAGCCCACAAGTCAGTGGCACTTTTTC-AAGCCCACAAGTCAGTGGC
193 GTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGC
* * *
2242659 A-CTTTTTCAAAG-CC-CACAAGTTAGTGGCA-TCCTTTCAAAGCCCACACGAGTCGGTGGC
258 ATC-CTTTCAAAGCCCACACAAGTCAGTGGCACTCCTTTCAAAGCCCACA--AGTCAGTGGC
* * *
2242717 AACTCTTTTCAAAGCCTACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCCTT
1 -AC-CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCCTT
2242782 TCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCC
64 TCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCC
* *
2242847 ACAAGTCAGTGGCACTCTTTTCAAAGCCCACACGAGTCGGTGGCAGCTCTTTTCAAAGCCCACGC
129 ACAAGTCAGTGGCACTCTTTTCAAAGCCCACAC-AGTCAGTGGCA-CCCTTTTCAAAGCCCAC-C
* * *
2242912 AAGTCAGTGGCACTTTTTC-AAGCCCACAAGTCAGTGGCACTTTTTCAAAGCCCACAAGTTAGTG
191 AAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTG
* * *
2242976 GCATCCTTTCAAAGCCCACACGAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGC
256 GCATCCTTTCAAAGCCCACACAAGTCAGTGGC-ACTCCTTTCAAAGCCCACAAGTCAGTGGC
* * *
2243038 ACCCTTACAAAGCCCACAAGTCAGTGGCACCCCTTTCAAAGCCCACAAGTCAGTGACACCTCTTT
1 ACCCTTTCAAAGCCCACAAGTCAGTGGCA-CCCTTTCAAAGCCCACAAGTCAGTGGCACCCCTTT
* * *
2243103 CAAAGCCCACACGAGTCGGTGGCACCCTTTT-AAAGCCCACAAGTCAGTGGTACTCTTTTCAAAG
65 CAAAGCCCACA--AGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTT-AAAG
* * *
2243167 CCCACAAGTCAGTGGTACTCTTTTCAAAGCCCACA-AGACAGTGGCACCCCTTTCAAAGCCCA-C
126 CCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACACAGTCAGTGGCACCCTTTTCAAAGCCCACC
* * * * *
2243230 AAGTCAGTGGCACCCTTGCGAAGCCCACAATTCAGTGGCACTCTTTCAAAG-CCATAAGTCAGTG
191 AAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTG
* *
2243294 GCACCCTTTCAAAGCCCACACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTTAGTGGC
256 GCATCCTTTCAAAGCCCACACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGC
* * **
2243355 ATCCTTTCAAAGCCCACGAGTCAGTGGCATTCTTTCAAAGCCCACGCAAGTCAGTGGCA-CCCTT
1 ACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCA--CAAGTCAGTGGCACCCCTT
* * * *
2243419 TTAAAGCCCACGCAAGTCAGTGGCACCTTTTCAAAGCCCACGAGTCAGTGGCACTCTTTCAAAGC
64 TCAAAGCCCA--CAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGC
* * * * *
2243484 CCACAAGTTAGTGGCAC-CCTTTC-AAGCCCAC-GAGTCAGTGGTA-CCTTTTCAAAGCCCA-CG
127 CCACAAGTCAGTGGCACTCTTTTCAAAGCCCACACAGTCAGTGGCACCCTTTTCAAAGCCCACCA
* *
2243544 AGTCAGTGGCACTCTTTCAAATCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACGAGTCAGTG
192 AGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACT-CTTTCAAAGCCCACAAGTCAGTG
* ** * * * *
2243608 GCATTCTTTCAAAGCCCATGCAAGTCAGTGCCAC-CCTTTTAAAGCCCACAAGCCAGTGGTA
256 GCATCCTTTCAAAGCCCACACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGG-C
*
2243669 ACTCTTTTCAAAGCCCACA
1 AC-CCTTTCAAAGCCCACA
2243688 CGAGTCGGTG
Statistics
Matches: 868, Mismatches: 78, Indels: 50
0.87 0.08 0.05
Matches are distributed among these distances:
312 1 0.00
313 80 0.09
314 58 0.07
315 19 0.02
316 39 0.04
317 104 0.12
318 297 0.34
319 81 0.09
320 63 0.07
321 29 0.03
322 37 0.04
323 60 0.07
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.22
Consensus pattern (316 bp):
ACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCCTTTC
AAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCAC
AAGTCAGTGGCACTCTTTTCAAAGCCCACACAGTCAGTGGCACCCTTTTCAAAGCCCACCAAGTC
AGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATC
CTTTCAAAGCCCACACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGC
Found at i:2244322 original size:20 final size:20
Alignment explanation
Indices: 2244294--2244368 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
2244284 TTTTACCCAG
2244294 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
2244314 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
2244334 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
*
2244354 ATGTATTGATACATT
1 ATGTATCGATACATT
2244369 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:2244354 original size:40 final size:39
Alignment explanation
Indices: 2244294--2244371 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
2244284 TTTTACCCAG
*
2244294 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTTCAATATATCGATACAT-TATGA
* * *
2244334 ATGTATCGATATATTCTTCAATGTATTGATACATTATG
1 ATGTATCGATACATTCTTCAATATATCGATACATTATG
2244372 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (39 bp):
ATGTATCGATACATTCTTCAATATATCGATACATTATGA
Found at i:2247686 original size:33 final size:32
Alignment explanation
Indices: 2247613--2248143 Score: 209
Period size: 33 Copynumber: 16.7 Consensus size: 32
2247603 ATAGTTCACT
*
2247613 ACTCAGTGGCATCCTTTTTC-T-AAGCCCATG
1 ACTCAGTGGCATCCTTTTTCTTAAAGTCCATG
* * *
2247643 ACTCACTGGCATCATTTTTCTTAAAAGTCCATT
1 ACTCAGTGGCATCCTTTTTCTT-AAAGTCCATG
*
2247676 ACTCAGTGGCATCTTTTTTC-T-AAGTCCATG
1 ACTCAGTGGCATCCTTTTTCTTAAAGTCCATG
* **
2247706 ACTCAGTGGCATCCTTTTT-TTCAAAGTTCACA
1 ACTCAGTGGCATCCTTTTTCTT-AAAGTCCATG
* * *
2247738 ACTCAGTGGCATCCTTTCTCTTCAAAGTTCACG
1 ACTCAGTGGCATCCTTTTTCTT-AAAGTCCATG
* *
2247771 ACTTAGTGGCATCTTTTTTCTTAAAAGTCC---
1 ACTCAGTGGCATCCTTTTTCTT-AAAGTCCATG
* * * *
2247801 A--CA-T----TCTTTTTCT-TCAAAATCCACG
1 ACTCAGTGGCATCCTTTT-TCTTAAAGTCCATG
* * *
2247826 ACTCAATGGCAT-CTTCTTTCTTCAAAGTTCACG
1 ACTCAGTGGCATCCTT-TTTCTT-AAAGTCCATG
* * **
2247859 ACTCAGTGGCATTCTTTTTCTTAAAGCCCACA
1 ACTCAGTGGCATCCTTTTTCTTAAAGTCCATG
* *
2247891 ACTCTGTGGCAT-CTTTTCCTTCAAAGTCCACT-
1 ACTCAGTGGCATCCTTTTTCTT-AAAGTCCA-TG
* * **
2247923 ACTCCA-TGGCA-CCTTGTTCTTTTTAAGTCCACA
1 ACT-CAGTGGCATCCTT-TT-TCTTAAAGTCCATG
* ** * *
2247956 ACTCCGTACCA-CCTTTTTCTTTTCAAAGCCCATA
1 ACTCAGTGGCATCCTTTTTC--TT-AAAGTCCATG
* * * **
2247990 ACTCCGTGGCAT-CTTTTTCCTTTTAAGTCTACA
1 ACTCAGTGGCATCCTTTTT-C-TTAAAGTCCATG
*
2248023 ACTTC-GTGGCA-CCTTTTTCTTTTCAAAGCCCATG
1 AC-TCAGTGGCATCCTTTTTC--TT-AAAGTCCATG
* * *
2248057 ACTCAGTGTCATCCTTTTCCTTTAAAGTCCATT
1 ACTCAGTGGCATCCTTTTTC-TTAAAGTCCATG
* * *
2248090 ACTCCA-TGGCA-CCTTGTTCATTTTAAGTCCATA
1 ACT-CAGTGGCATCCTTTTTC--TTAAAGTCCATG
*
2248123 ACTCTGTGGCA-CCTTTTTCTT
1 ACTCAGTGGCATCCTTTTTCTT
2248144 TTCAAAGCCC
Statistics
Matches: 390, Mismatches: 67, Indels: 87
0.72 0.12 0.16
Matches are distributed among these distances:
22 6 0.02
23 8 0.02
24 1 0.00
25 1 0.00
27 3 0.01
28 2 0.01
30 46 0.12
31 15 0.04
32 76 0.19
33 175 0.45
34 49 0.13
35 8 0.02
ACGTcount: A:0.22, C:0.28, G:0.12, T:0.38
Consensus pattern (32 bp):
ACTCAGTGGCATCCTTTTTCTTAAAGTCCATG
Found at i:2247716 original size:63 final size:63
Alignment explanation
Indices: 2247609--2247926 Score: 239
Period size: 63 Copynumber: 5.1 Consensus size: 63
2247599 CGCGATAGTT
* * *
2247609 CACTACTCAGTGGCATCCTTTTTCTAAGCCCATGACTCACTGGCATCATTTTTCTTAAAAGTC
1 CACTACTCAGTGGCATCTTTTTTCTAAGTCCATGACTCAGTGGCATCATTTTTCTTAAAAGTC
* * * *
2247672 CATTACTCAGTGGCATCTTTTTTCTAAGTCCATGACTCAGTGGCATCCTTTTT-TTCAAAGTT
1 CACTACTCAGTGGCATCTTTTTTCTAAGTCCATGACTCAGTGGCATCATTTTTCTTAAAAGTC
* * * * * *
2247734 CACAACTCAGTGGCATCCTTTCTCTTCAAAGTTCACGACTTAGTGGCATCTTTTTTCTTAAAAGT
1 CACTACTCAGTGGCAT-CTTT-T-TTCTAAGTCCATGACTCAGTGGCATCATTTTTCTTAAAAGT
2247799 C
63 C
* * * * * *
2247800 CAC-A-T---T--C-T-TTTTCTTCAAAATCCACGACTCAATGGCATC-TTCTTTCTTCAAAGTT
1 CACTACTCAGTGGCATCTTTT-TTCTAAGTCCATGACTCAGTGGCATCATT-TTTCTTAAAAGTC
* * ** * * *
2247855 CACGACTCAGTGGCAT-TCTTTTTCTTAAAGCCCACAACTCTGTGGCATC-TTTTCCTTCAAAGT
1 CACTACTCAGTGGCATCT-TTTTTC-T-AAGTCCATGACTCAGTGGCATCATTTTTCTTAAAAGT
2247918 C
63 C
2247919 CACTACTC
1 CACTACTC
2247927 CATGGCACCT
Statistics
Matches: 208, Mismatches: 31, Indels: 31
0.77 0.11 0.11
Matches are distributed among these distances:
54 2 0.01
55 38 0.18
56 4 0.02
57 1 0.00
58 1 0.00
59 1 0.00
60 1 0.00
61 1 0.00
62 22 0.11
63 57 0.27
64 23 0.11
65 47 0.23
66 10 0.05
ACGTcount: A:0.23, C:0.27, G:0.12, T:0.37
Consensus pattern (63 bp):
CACTACTCAGTGGCATCTTTTTTCTAAGTCCATGACTCAGTGGCATCATTTTTCTTAAAAGTC
Found at i:2247779 original size:95 final size:93
Alignment explanation
Indices: 2247613--2247791 Score: 223
Period size: 95 Copynumber: 1.9 Consensus size: 93
2247603 ATAGTTCACT
* ** * **
2247613 ACTCAGTGGCATCCTTTTTCTAAGCCCATGACTCACTGGCATCATTTTTCTTAAAAGTCCATTAC
1 ACTCAGTGGCATCCTTTTTCAAAGCCCACAACTCACTGGCATCATTTCTCTTAAAAGTCCACGAC
2247678 TCAGTGGCATCTTTTTTCTAAGTCCATG
66 TCAGTGGCATCTTTTTTCTAAGTCCATG
** * * * *
2247706 ACTCAGTGGCATCCTTTTTTTCAAAGTTCACAACTCAGTGGCATCCTTTCTCTTCAAAGTTCACG
1 ACTCAGTGGCATCC--TTTTTCAAAGCCCACAACTCACTGGCATCATTTCTCTTAAAAGTCCACG
*
2247771 ACTTAGTGGCATCTTTTTTCT
64 ACTCAGTGGCATCTTTTTTCT
2247792 TAAAAGTCCA
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
93 14 0.20
95 57 0.80
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.39
Consensus pattern (93 bp):
ACTCAGTGGCATCCTTTTTCAAAGCCCACAACTCACTGGCATCATTTCTCTTAAAAGTCCACGAC
TCAGTGGCATCTTTTTTCTAAGTCCATG
Found at i:2247877 original size:88 final size:87
Alignment explanation
Indices: 2247719--2247883 Score: 235
Period size: 88 Copynumber: 1.9 Consensus size: 87
2247709 CAGTGGCATC
* * * *
2247719 CTTTTTTTCAAAGTTCACAACTCAGTGGCATCCTTTCTCTTCAAAGTTCACGACTTAGTGGCATC
1 CTTTTTTTCAAAATCCACAACTCAATGGCATCCTTTCTCTTCAAAGTTCACGACTCAGTGGCATC
2247784 TTTTTTCTTAAAAGTCCACATT
66 TTTTTTCTTAAAAGTCCACATT
* *
2247806 CTTTTTCTTCAAAATCCACGACTCAATGGCAT-CTTCTTTCTTCAAAGTTCACGACTCAGTGGCA
1 CTTTTT-TTCAAAATCCACAACTCAATGGCATCCTT-TCTCTTCAAAGTTCACGACTCAGTGGCA
2247870 T-TCTTTTTCTTAAA
64 TCT-TTTTTCTTAAA
2247884 GCCCACAACT
Statistics
Matches: 69, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
87 10 0.14
88 59 0.86
ACGTcount: A:0.24, C:0.25, G:0.11, T:0.40
Consensus pattern (87 bp):
CTTTTTTTCAAAATCCACAACTCAATGGCATCCTTTCTCTTCAAAGTTCACGACTCAGTGGCATC
TTTTTTCTTAAAAGTCCACATT
Found at i:2248034 original size:100 final size:98
Alignment explanation
Indices: 2247879--2248211 Score: 314
Period size: 100 Copynumber: 3.4 Consensus size: 98
2247869 ATTCTTTTTC
* * ** * * * *
2247879 TTAAAGCCCACAACTCTGTGGCATC-TTTTCCTTCAAAGTCCACTACTCCATGGCACCTTGTTCT
1 TTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAGTCCACAACTTCGTGGCACCTTTTTCT
* * *
2247943 TTT-TAAGTCCACAACTCCGTACCACCTTTTTCTT
66 TTTCAAAGCCCACAACTCAGTA-CACC-TTTTCTT
* * *
2247977 TTCAAAGCCCATAACTCCGTGGCATCTTTTTCCTTTTAAGTCTACAACTTCGTGGCACCTTTTTC
1 TT-AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAGTCCACAACTTCGTGGCACCTTTTTC
** * *
2248042 TTTTCAAAGCCCATGACTCAGTGTCATCCTTTTCCT
65 TTTTCAAAGCCCACAACTCAGT-ACA-CCTTTTCTT
* ** * * * *
2248078 TTAAAGTCCATTACTCCATGGCACCTTGTTCATTTTAAGTCCATAAC-TCTGTGGCACCTTTTTC
1 TTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAGTCCACAACTTC-GTGGCACCTTTTTC
* *
2248142 TTTTCAAAGCCCACAACTCTGTGACATCTTTTCTT
65 TTTTCAAAGCCCACAACTCAGT-ACACCTTTTCTT
* *
2248177 TTTAAGTCCACAACTCCGTGGCACCTTTTT-CTTTT
1 TTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
2248212 CAAAACCCAT
Statistics
Matches: 193, Mismatches: 36, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
98 6 0.03
99 55 0.28
100 108 0.56
101 22 0.11
102 2 0.01
ACGTcount: A:0.21, C:0.30, G:0.11, T:0.38
Consensus pattern (98 bp):
TTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAGTCCACAACTTCGTGGCACCTTTTTCT
TTTCAAAGCCCACAACTCAGTACACCTTTTCTT
Found at i:2248207 original size:33 final size:33
Alignment explanation
Indices: 2247806--2248489 Score: 375
Period size: 33 Copynumber: 21.2 Consensus size: 33
2247796 AGTCCACATT
* * * ** *
2247806 CTTTTTC-TTCAAAATCCACGACTCAATGGCAT
1 CTTTTTCTTTTAAAGTCCACAACTCCGTGGCAC
* * * * *
2247838 CTTCTTTC-TTCAAAGTTCACGACTCAGTGGCATT
1 CTT-TTTCTTTTAAAGTCCACAACTCCGTGGCA-C
* * *
2247872 CTTTTTC--TTAAAGCCCACAACTCTGTGGCAT
1 CTTTTTCTTTTAAAGTCCACAACTCCGTGGCAC
* * * *
2247903 C-TTTTCCTTCAAAGTCCACTACTCCATGGCAC
1 CTTTTTCTTTTAAAGTCCACAACTCCGTGGCAC
* * **
2247935 CTTGTTCTTTTTAAGTCCACAACTCCGTACCAC
1 CTTTTTCTTTTAAAGTCCACAACTCCGTGGCAC
* * *
2247968 CTTTTTCTTTTCAAAGCCCATAACTCCGTGGCAT
1 CTTTTTCTTTT-AAAGTCCACAACTCCGTGGCAC
* *
2248002 CTTTTTCCTTTT-AAGTCTACAACTTCGTGGCAC
1 CTTTTT-CTTTTAAAGTCCACAACTCCGTGGCAC
* ** * *
2248035 CTTTTTCTTTTCAAAGCCCATGACTCAGTGTCATC
1 CTTTTTCTTTT-AAAGTCCACAACTCCGTGGCA-C
* ** *
2248070 C-TTTTCCTTTAAAGTCCATTACTCCATGGCAC
1 CTTTTTCTTTTAAAGTCCACAACTCCGTGGCAC
* * *
2248102 CTTGTTCATTTT-AAGTCCATAACTCTGTGGCAC
1 CTTTTTC-TTTTAAAGTCCACAACTCCGTGGCAC
* * * *
2248135 CTTTTTCTTTTCAAAGCCCACAACTCTGTGACAT
1 CTTTTTCTTTT-AAAGTCCACAACTCCGTGGCAC
*
2248169 C-TTTTCTTTTTAAGTCCACAACTCCGTGGCAC
1 CTTTTTCTTTTAAAGTCCACAACTCCGTGGCAC
** * * * *
2248201 CTTTTTCTTTTCAAAACCCATAACTCGGTGCCAT
1 CTTTTTCTTTT-AAAGTCCACAACTCCGTGGCAC
* *
2248235 C-TTTTCCTTCAAAGTCCACAACTCCGTGGCAC
1 CTTTTTCTTTTAAAGTCCACAACTCCGTGGCAC
* * * * *
2248267 CTTGTTCCTTTT-AAGTCCACAACTTCATGACAA
1 CTT-TTTCTTTTAAAGTCCACAACTCCGTGGCAC
* * * *
2248300 CTTTTTCTTTCCAAAG-CCTAAAACTTCGTGGCAT
1 CTTTTTCTTT-TAAAGTCC-ACAACTCCGTGGCAC
* * **
2248334 CTTTTCCTTTT-AAGCCCACAACTCCGTGAAAC
1 CTTTTTCTTTTAAAGTCCACAACTCCGTGGCAC
* *
2248366 C-----CTTTT-AATTCCATAACTCCGTGGCAC
1 CTTTTTCTTTTAAAGTCCACAACTCCGTGGCAC
*
2248393 C-----CTTTT-AAGT-C-CAACTCCATGGCAC
1 CTTTTTCTTTTAAAGTCCACAACTCCGTGGCAC
*
2248418 CTTTTTCTTTTCAAAG-CCTACAACAT-CGTGGCAT
1 CTTTTTCTTTT-AAAGTCC-ACAAC-TCCGTGGCAC
* * *
2248452 CTTTTGCTTTT-AAGTCCACAACTCCATGACAC
1 CTTTTTCTTTTAAAGTCCACAACTCCGTGGCAC
2248484 CTTTTT
1 CTTTTT
2248490 AAGTCCACAA
Statistics
Matches: 505, Mismatches: 112, Indels: 70
0.74 0.16 0.10
Matches are distributed among these distances:
25 13 0.03
26 1 0.00
27 30 0.06
30 10 0.02
31 3 0.01
32 128 0.25
33 180 0.36
34 132 0.26
35 8 0.02
ACGTcount: A:0.22, C:0.30, G:0.11, T:0.37
Consensus pattern (33 bp):
CTTTTTCTTTTAAAGTCCACAACTCCGTGGCAC
Found at i:2248383 original size:27 final size:27
Alignment explanation
Indices: 2248339--2248405 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
2248329 GGCATCTTTT
*
2248339 CCTTTTAAGCCCACAACTCCGTGAAAC
1 CCTTTTAAGTCCACAACTCCGTGAAAC
* * **
2248366 CCTTTTAATTCCATAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGAAAC
2248393 CCTTTTAAGTCCA
1 CCTTTTAAGTCCA
2248406 ACTCCATGGC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.25, C:0.34, G:0.10, T:0.30
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCCGTGAAAC
Found at i:2248415 original size:25 final size:26
Alignment explanation
Indices: 2248339--2248423 Score: 82
Period size: 27 Copynumber: 3.2 Consensus size: 26
2248329 GGCATCTTTT
* * **
2248339 CCTTTTAAGCCCACAACTCCGTGAAAC
1 CCTTTTAAGTCCA-AACTCCATGGCAC
* *
2248366 CCTTTTAATTCCATAACTCCGTGGCAC
1 CCTTTTAAGTCCA-AACTCCATGGCAC
2248393 CCTTTTAAGTCC-AACTCCATGGCAC
1 CCTTTTAAGTCCAAACTCCATGGCAC
*
2248418 CTTTTT
1 CCTTTT
2248424 CTTTTCAAAG
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
25 17 0.34
27 33 0.66
ACGTcount: A:0.24, C:0.34, G:0.11, T:0.32
Consensus pattern (26 bp):
CCTTTTAAGTCCAAACTCCATGGCAC
Found at i:2248495 original size:27 final size:27
Alignment explanation
Indices: 2248459--2248511 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
2248449 CATCTTTTGC
2248459 TTTTAAGTCCACAACTCCATGACACCT
1 TTTTAAGTCCACAACTCCATGACACCT
* *
2248486 TTTTAAGTCCACAACTTCATGGCACC
1 TTTTAAGTCCACAACTCCATGACACC
2248512 CCATTCTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.30
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCCATGACACCT
Found at i:2248509 original size:118 final size:120
Alignment explanation
Indices: 2248273--2248512 Score: 331
Period size: 118 Copynumber: 2.0 Consensus size: 120
2248263 GCACCTTGTT
* *
2248273 CCTTTTAAGTCCACAACTTCATGACAACTTTTTCTTTCCAAAGCCTAAAACTTCGTGGCATCTTT
1 CCTTTTAAGTCCACAACTCCATGACAACTTTTTCTTTCCAAAGCCTAAAACATCGTGGCATCTTT
* * * *
2248338 TCCTTTTAAGCCCACAACTCCGTGAAACCCTTTTAATTCCATAACTCCGTGGCAC
66 TCCTTTTAAGCCCACAACTCCATGAAACCCTTTTAAGTCCACAACTCCATGGCAC
* * * *
2248393 CCTTTTAAGT-C-CAACTCCATGGCACCTTTTTCTTTTCAAAGCCTACAACATCGTGGCATCTTT
1 CCTTTTAAGTCCACAACTCCATGACAACTTTTTCTTTCCAAAGCCTAAAACATCGTGGCATCTTT
* * * * *
2248456 TGCTTTTAAGTCCACAACTCCATGACACCTTTTTAAGTCCACAACTTCATGGCAC
66 TCCTTTTAAGCCCACAACTCCATGAAACCCTTTTAAGTCCACAACTCCATGGCAC
2248511 CC
1 CC
2248513 CATTCTAAAG
Statistics
Matches: 105, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
118 94 0.90
119 1 0.01
120 10 0.10
ACGTcount: A:0.25, C:0.31, G:0.10, T:0.33
Consensus pattern (120 bp):
CCTTTTAAGTCCACAACTCCATGACAACTTTTTCTTTCCAAAGCCTAAAACATCGTGGCATCTTT
TCCTTTTAAGCCCACAACTCCATGAAACCCTTTTAAGTCCACAACTCCATGGCAC
Found at i:2248766 original size:32 final size:32
Alignment explanation
Indices: 2248707--2248772 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 32
2248697 AAGTTGGTGC
*
2248707 CAACCTTCTCCAAAGACCATACAAGCTAGTGG
1 CAACCTTCTCCAAAGACCACACAAGCTAGTGG
* * * *
2248739 CAACCTTCTTCAAGGCCCACACGAGCTAGTGG
1 CAACCTTCTCCAAAGACCACACAAGCTAGTGG
2248771 CA
1 CA
2248773 CCTAATCTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.30, C:0.33, G:0.18, T:0.18
Consensus pattern (32 bp):
CAACCTTCTCCAAAGACCACACAAGCTAGTGG
Found at i:2248972 original size:231 final size:231
Alignment explanation
Indices: 2248519--2248991 Score: 659
Period size: 231 Copynumber: 2.0 Consensus size: 231
2248509 ACCCCATTCT
* *
2248519 AAAGCCCACACGAGCTAGTGGCACCTAATCTTTTAAGCCCATCAGTATAGATGGCACCAAGTTCA
1 AAAGCCCACACGAGCTAGTGGCACCTAATCTTTTAAGCCCACCAATATAGATGGCACCAAGTTCA
2248584 TAGTCAGACATGCATCACAAGCATGTCATCCCCAAGAAGTTTAATATCCCCAGTGGAAAAGCCTT
66 TAGTCAGACATGCATCACAAGCATGTCATCCCCAAGAAGTTTAATATCCCCAGTGGAAAAGCCTT
* * * *
2248649 CTTCAAAAGCCCACACAAGTTGGTTGTAACTTTTTTCAATGCCCACAAAAGTTGGTGCCAACCTT
131 CTTCAAAAGCCCACACAAGTTGGTAGTAACCTTCTTCAAAGCCCACAAAAGTTGGTGCCAACCTT
*
2248714 CTCCAAAGACCATACAAGCTAGTGGCAACCTTCTTC-
196 CTCCAAAGACCACACAAGCTAGTGGCAACCTT-TTCA
* * * *
2248750 AAGGCCCACACGAGCTAGTGGCACCTAATCTTTTAAGTCCACCAATATCGGTGGCACCAAGTTCA
1 AAAGCCCACACGAGCTAGTGGCACCTAATCTTTTAAGCCCACCAATATAGATGGCACCAAGTTCA
* * * *
2248815 TAGTTAGACATGCATCACAAGTATGTCATCCCTAAGAAGTTTAATATCCCCAGTGGAGTAA-CCT
66 TAGTCAGACATGCATCACAAGCATGTCATCCCCAAGAAGTTTAATATCCCCAGTGGA-AAAGCCT
* * * *
2248879 TCTTCAAAAGCCTACACAAGTTGGTAGTAACCTTCTTCAAAGCCCACACAA-TCTTGTGGCAACC
130 TCTTCAAAAGCCCACACAAGTTGGTAGTAACCTTCTTCAAAGCCCACAAAAGT-TGGTGCCAA-C
** * *
2248943 CTT-TTTAAAGCCCACACAAG-TCGGTGGCAACCTTTTCA
193 CTTCTCCAAAGACCACACAAGCT-AGTGGCAACCTTTTCA
2248981 AAAGCCCACAC
1 AAAGCCCACAC
2248992 AAGTTGGTGG
Statistics
Matches: 213, Mismatches: 24, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
230 5 0.02
231 202 0.95
232 6 0.03
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.24
Consensus pattern (231 bp):
AAAGCCCACACGAGCTAGTGGCACCTAATCTTTTAAGCCCACCAATATAGATGGCACCAAGTTCA
TAGTCAGACATGCATCACAAGCATGTCATCCCCAAGAAGTTTAATATCCCCAGTGGAAAAGCCTT
CTTCAAAAGCCCACACAAGTTGGTAGTAACCTTCTTCAAAGCCCACAAAAGTTGGTGCCAACCTT
CTCCAAAGACCACACAAGCTAGTGGCAACCTTTTCA
Found at i:2249001 original size:32 final size:33
Alignment explanation
Indices: 2248874--2249001 Score: 149
Period size: 32 Copynumber: 4.0 Consensus size: 33
2248864 CCAGTGGAGT
* * *
2248874 AACCTTCTTCAAAAGCCTACACAAGTTGGTAGT
1 AACCTTCTTCAAAAGCCCACACAAGTTGGTGGC
*
2248907 AACCTTCTTC-AAAGCCCACACAA-TCTTGTGGC
1 AACCTTCTTCAAAAGCCCACACAAGT-TGGTGGC
* *
2248939 AACCCTT-TT-TAAAGCCCACACAAGTCGGTGGC
1 AA-CCTTCTTCAAAAGCCCACACAAGTTGGTGGC
2248971 AACCTT-TTCAAAAGCCCACACAAGTTGGTGG
1 AACCTTCTTCAAAAGCCCACACAAGTTGGTGG
2249002 TACCTCTTTC
Statistics
Matches: 82, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
31 7 0.09
32 60 0.73
33 15 0.18
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.24
Consensus pattern (33 bp):
AACCTTCTTCAAAAGCCCACACAAGTTGGTGGC
Found at i:2249091 original size:43 final size:43
Alignment explanation
Indices: 2249012--2249246 Score: 155
Period size: 43 Copynumber: 5.0 Consensus size: 43
2249002 TACCTCTTTC
* * * *
2249012 TAAGCCCAATGTCGCTGGCCTTAAATCAGCACATTGGCACCTT
1 TAAGTCCAATATCGCTAGCCTTGAATCAGCACATTGGCACCTT
* * * *
2249055 TAAGTCTAATATCGCTAGCCTTGAATTAGCATATTGGTGCCTTTGTCATCTT
1 TAAGTCCAATATCGCTAGCCTTGAATCAGCACA-T--TG-----G-CACCTT
* *
2249107 TAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCAT
1 TAAGTCCAATATCGCTAGCCTTGAATCAGCACATTGGCACCTT
* * * *
2249150 TAAGTCCAATATCGCTGGCCTTGGATCAACACATTAGCACCATTACCATCTT
1 TAAGTCCAATATCGCTAGCCTTGAATCAGCACATT-G--GC---A-C--CTT
* * *
2249202 TAAGTCCAATGTCACTAGCCTTGAATCAGCACATTGGTACCTT
1 TAAGTCCAATATCGCTAGCCTTGAATCAGCACATTGGCACCTT
2249245 TA
1 TA
2249247 TTTTTAAGTC
Statistics
Matches: 147, Mismatches: 27, Indels: 36
0.70 0.13 0.17
Matches are distributed among these distances:
43 66 0.45
44 3 0.02
45 1 0.01
46 4 0.03
49 3 0.02
50 1 0.01
51 3 0.02
52 66 0.45
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.31
Consensus pattern (43 bp):
TAAGTCCAATATCGCTAGCCTTGAATCAGCACATTGGCACCTT
Found at i:2249200 original size:95 final size:95
Alignment explanation
Indices: 2249012--2249238 Score: 301
Period size: 95 Copynumber: 2.4 Consensus size: 95
2249002 TACCTCTTTC
* * * * *
2249012 TAAGCCCAATGTCGCTGGCCTTAAATCAGCACATTGGCACCTTTAAGTCTAATATCGCTAGCCTT
1 TAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCATTAAGTCCAATATCGCTAGCCTT
* * * * ** * **
2249077 GAATTAGCATATTGGTGCCTTTGTCATCTT
66 GAATCAACACATTAGCACCATTACCATCTT
*
2249107 TAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCATTAAGTCCAATATCGCTGGCCTT
1 TAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCATTAAGTCCAATATCGCTAGCCTT
*
2249172 GGATCAACACATTAGCACCATTACCATCTT
66 GAATCAACACATTAGCACCATTACCATCTT
*
2249202 TAAGTCCAATGTCACTAGCCTTGAATCAGCACATTGG
1 TAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGG
2249239 TACCTTTATT
Statistics
Matches: 115, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
95 115 1.00
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (95 bp):
TAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCATTAAGTCCAATATCGCTAGCCTT
GAATCAACACATTAGCACCATTACCATCTT
Found at i:2249512 original size:61 final size:61
Alignment explanation
Indices: 2249392--2249528 Score: 184
Period size: 61 Copynumber: 2.2 Consensus size: 61
2249382 AGTACATTGA
* * * * * *
2249392 CACTCTTCGCATTTTTGAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
1 CACTCTTCTCATCTTTAAGCCCAATATCGCTAGCCCTAAATCAGCATATTGGCACCTTTAT
* * * *
2249453 CATTCTTTTCATCTTTAAGCCGAATATCGCTAGCCCTAAATCAGCATATTGGCATCTTTAT
1 CACTCTTCTCATCTTTAAGCCCAATATCGCTAGCCCTAAATCAGCATATTGGCACCTTTAT
2249514 CACTCTTCTCATCTT
1 CACTCTTCTCATCTT
2249529 CATCATCTTT
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 64 1.00
ACGTcount: A:0.23, C:0.28, G:0.12, T:0.37
Consensus pattern (61 bp):
CACTCTTCTCATCTTTAAGCCCAATATCGCTAGCCCTAAATCAGCATATTGGCACCTTTAT
Found at i:2250189 original size:17 final size:17
Alignment explanation
Indices: 2250167--2250216 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 17
2250157 TATTTATCAT
2250167 TGTATCGATACATTCAA
1 TGTATCGATACATTCAA
*
2250184 TGTATCGATTCATTATTCAA
1 TGTATCGA-T-A-CATTCAA
*
2250204 TGTATCAATACAT
1 TGTATCGATACAT
2250217 GTAGGTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
17 10 0.37
18 2 0.07
19 2 0.07
20 13 0.48
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (17 bp):
TGTATCGATACATTCAA
Found at i:2253499 original size:36 final size:36
Alignment explanation
Indices: 2253451--2253524 Score: 98
Period size: 37 Copynumber: 2.1 Consensus size: 36
2253441 ACTTAGTCTT
* *
2253451 GAAAAATAAAAGAGGTT-CT-ATCTTAGCCTTCAAAA
1 GAAAAAAAAAAGAGGTTGCTAAT-TAAGCCTTCAAAA
2253486 GAAAAAAAGAAAGAGGTTGCTAATTAAGCCTTCAAAA
1 GAAAAAAA-AAAGAGGTTGCTAATTAAGCCTTCAAAA
2253523 GA
1 GA
2253525 TAAAGAGTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
35 7 0.21
36 9 0.26
37 16 0.47
38 2 0.06
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.22
Consensus pattern (36 bp):
GAAAAAAAAAAGAGGTTGCTAATTAAGCCTTCAAAA
Found at i:2254129 original size:16 final size:15
Alignment explanation
Indices: 2254108--2254145 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
2254098 CCTAAGACTC
2254108 AATTAAAAGATAATAA
1 AATTAAAAGATAA-AA
2254124 AATTAAAAGATAAAA
1 AATTAAAAGATAAAA
2254139 AA-TAAAA
1 AATTAAAA
2254146 CTAAGGGATG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 5 0.23
15 4 0.18
16 13 0.59
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (15 bp):
AATTAAAAGATAAAA
Found at i:2257111 original size:84 final size:84
Alignment explanation
Indices: 2257005--2257222 Score: 233
Period size: 84 Copynumber: 2.6 Consensus size: 84
2256995 GAGAGGATAC
* * * * * *
2257005 TCTAATCCCGATC-TTAATAAAACTCAAACTTTTCTTTCATATAAATTTTGGGGAAAGTTCATTC
1 TCTAACCCCAATCTTTAA-AAAACTCAAACTTTTCTTTCATATAATTTTTGGGGAAACTCCATCC
* * ***
2257069 CTATTA-TTCCGAGGGGTTAA
65 CTACTACTT-CGAAGAAATAA
* * * *
2257089 TGTAACCCTAATCTTTAAAAAACTCAAACTTTTCCTTCATATAATTTTTAGGGAAACTCCATCCC
1 TCTAACCCCAATCTTTAAAAAACTCAAACTTTTCTTTCATATAATTTTTGGGGAAACTCCATCCC
* *
2257154 TACTACTTCTAAGAAATAT
66 TACTACTTCGAAGAAATAA
* *
2257173 TCTAACCCCAATCTTTAAAAAATTCAAACTTTTTTTTCATATAATTTTTG
1 TCTAACCCCAATCTTTAAAAAACTCAAACTTTTCTTTCATATAATTTTTG
2257223 AAAAAACTCT
Statistics
Matches: 109, Mismatches: 23, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
84 103 0.94
85 6 0.06
ACGTcount: A:0.33, C:0.20, G:0.08, T:0.39
Consensus pattern (84 bp):
TCTAACCCCAATCTTTAAAAAACTCAAACTTTTCTTTCATATAATTTTTGGGGAAACTCCATCCC
TACTACTTCGAAGAAATAA
Found at i:2257263 original size:84 final size:84
Alignment explanation
Indices: 2257018--2257293 Score: 214
Period size: 84 Copynumber: 3.3 Consensus size: 84
2257008 AATCCCGATC
* * * * ** * * *
2257018 TTAATAAAACTCAAACTTTTCTTTCATATAAATTTTGGGGAAAGTTCATTCC-TATTATTCCGAG
1 TTAA-AAAATTCAAACTTTTCCTTCATATAATTTTTAGAAAAACTCCA-TCCATATTATTTCGAG
*
2257082 GGGTTAATGTAACCCTAATCT
64 GGGATAATGTAACCCTAATCT
* ** * * * * * *
2257103 TTAAAAAACTCAAACTTTTCCTTCATATAATTTTTAGGGAAACTCCATCCCTACTACTTCTAAGA
1 TTAAAAAATTCAAACTTTTCCTTCATATAATTTTTAGAAAAACTCCATCCATATTATTTCGAGGG
* * * *
2257168 AATATTCTAACCCCAATCT
66 GATAATGTAACCCTAATCT
** * * *
2257187 TTAAAAAATTCAAACTTTTTTTTCATATAATTTTT-GAAAAAACTCTATCTATTTTATTTCGAGG
1 TTAAAAAATTCAAACTTTTCCTTCATATAATTTTTAG-AAAAACTCCATCCATATTATTTCGAGG
* *
2257251 GGATACTGTAACCCTGATCT
65 GGATAATGTAACCCTAATCT
* * *
2257271 TCAAAAAATTCAAAATTTCCCTT
1 TTAAAAAATTCAAACTTTTCCTT
2257294 TATACAATCC
Statistics
Matches: 149, Mismatches: 40, Indels: 5
0.77 0.21 0.03
Matches are distributed among these distances:
83 4 0.03
84 141 0.95
85 4 0.03
ACGTcount: A:0.34, C:0.19, G:0.08, T:0.38
Consensus pattern (84 bp):
TTAAAAAATTCAAACTTTTCCTTCATATAATTTTTAGAAAAACTCCATCCATATTATTTCGAGGG
GATAATGTAACCCTAATCT
Found at i:2259899 original size:24 final size:26
Alignment explanation
Indices: 2259856--2259916 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 26
2259846 TACATGGGAA
*
2259856 TTTAATGAAAAATTCTACAA-T-AAG
1 TTTAATTAAAAATTCTACAAGTAAAG
2259880 TTTAATTAAAAA-TCTCACAAGTGAAAG
1 TTTAATTAAAAATTCT-ACAAGT-AAAG
2259907 -TTAATTAAAA
1 TTTAATTAAAA
2259917 TTTTACAGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
23 3 0.09
24 15 0.47
25 1 0.03
26 10 0.31
27 3 0.09
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.33
Consensus pattern (26 bp):
TTTAATTAAAAATTCTACAAGTAAAG
Found at i:2262086 original size:15 final size:15
Alignment explanation
Indices: 2262061--2262108 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
2262051 TAATTAAATG
* *
2262061 ATGAAAGAAAATAAA
1 ATGAAAAAAAACAAA
2262076 ATGAAAAAAAAAACAAA
1 ATG--AAAAAAAACAAA
*
2262093 ATGAAAAAAAAGAAA
1 ATGAAAAAAAACAAA
2262108 A
1 A
2262109 GCATGGACGG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
15 15 0.54
17 13 0.46
ACGTcount: A:0.79, C:0.02, G:0.10, T:0.08
Consensus pattern (15 bp):
ATGAAAAAAAACAAA
Found at i:2262099 original size:16 final size:17
Alignment explanation
Indices: 2262068--2262103 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
2262058 ATGATGAAAG
*
2262068 AAAATAAAATGAAAAAA
1 AAAACAAAATGAAAAAA
2262085 AAAACAAAATGAAAAAA
1 AAAACAAAATGAAAAAA
2262102 AA
1 AA
2262104 GAAAAGCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.83, C:0.03, G:0.06, T:0.08
Consensus pattern (17 bp):
AAAACAAAATGAAAAAA
Found at i:2262236 original size:24 final size:23
Alignment explanation
Indices: 2262204--2262256 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 23
2262194 AGAAAACTTG
2262204 GAAAAAAAAGAGAGAAAAGAAAAA
1 GAAAAAAAAGAGAGAAAA-AAAAA
* * *
2262228 GAAAGAAAATAGAGAAAAAAATA
1 GAAAAAAAAGAGAGAAAAAAAAA
2262251 GAAAAA
1 GAAAAA
2262257 TTAGTTAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 9 0.36
24 16 0.64
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.04
Consensus pattern (23 bp):
GAAAAAAAAGAGAGAAAAAAAAA
Found at i:2263852 original size:154 final size:153
Alignment explanation
Indices: 2263597--2264644 Score: 837
Period size: 154 Copynumber: 6.9 Consensus size: 153
2263587 GTTGTTAGCT
* ** * * * *
2263597 ACTTCTAAGTCGAGGGTATCTTTTAGAGGTATTTTCGTAATTTTTTTAGAACTAAGTCTTAGGTT
1 ACTTTTAAGTCGAGGGTATCCCTTAGGGGTATTTTCGTAA-TTTTTTAAAACTAATTCCTAGGTT
* * * * * * * * *
2263662 ATCACTAGGTCTGCTTTTATGCCAAAAGTGGATATTTAGGATAGGCTCATCTCATTTATATTCTT
65 ATCAC-CGGTCTGCTTTTATGTCGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCTT
*
2263727 TTTCAGTCCTTTAGGGATATTGGGC
129 TTTAAGTCCTTTAGGGATATTGGGC
* * * *
2263752 ACTTTTAAGTCGAGGGTATCCCTTAGGGGTATTTTTGTAATGTTTTAAAACTGAGTCCTAGGTTA
1 ACTTTTAAGTCGAGGGTATCCCTTAGGGGTATTTTCGTAATTTTTTAAAACTAATTCCTAGGTTA
* * * **
2263817 TCATCGTGTCCT-CTTTTATGCCGAAGGTGGGTATTTAGGATAGGTACATATCATCTAT-ATCCT
66 TCACCG-GT-CTGCTTTTATGTCGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAAT-CT
* * *
2263880 TTTTAAGTCCTTTAAGGATATGGGGT
128 TTTTAAGTCCTTTAGGGATATTGGGC
* * * * * *
2263906 ACTTCTAAGTCGAGGGTAT-CCTATAAGGGCATTTTCATAATTTTTTAAAATTGATTCCTAGGTT
1 ACTTTTAAGTCGAGGGTATCCCT-TAGGGGTATTTTCGTAATTTTTTAAAACTAATTCCTAGGTT
* * * * * *
2263970 GTCACCGAGTTTGCTTTTATGCCGAAGGTAGGTGTTTAGGATAGGTTCATCCCATCTATAACCTT
65 ATCACCG-GTCTGCTTTTATGTCGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCTT
** *
2264035 CGTAA-----TTAGGCAT-TT----
129 TTTAAGTCCTTTAGGGATATTGGGC
* * * * * *
2264050 -C---TAAGTAGAGGGTATCCCCTCGGGGTATTTTTGTAATTTTTTAAAATTAATTCCCAGGTTA
1 ACTTTTAAGTCGAGGGTATCCCTTAGGGGTATTTTCGTAATTTTTTAAAACTAATTCCTAGGTTA
* * * *
2264111 TTACTGGGTCTGCTTTTATGTTGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAACCTTT
66 TCAC-CGGTCTGCTTTTATGTCGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCTTT
* * *
2264176 TTAAGTCCTTTAGGGGTGTTGAGC
130 TTAAGTCCTTTAGGGATATTGGGC
* ** * * * *
2264200 ACTTTTAAGTTGAAAGTAT-CTTTTGGAGGCATTTTCGTAATTTTTTAAAA-TCGATTCCTAGGT
1 ACTTTTAAGTCGAGGGTATCCCTTAGG-GGTATTTTCGTAATTTTTTAAAACT-AATTCCTAGGT
** * * * *
2264263 TATCAGTGGATCCGCTTTTATGTCGAAGGTGGGTATTTAGGATAGGTGCATCCCATTTAAAAT-T
64 TATCACCGG-TCTGCTTTTATGTCGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCT
* * **
2264327 CTTTTAAGTCCTTTAGAGG-CATCGGAT
128 -TTTTAAGTCCTTTAG-GGATATTGGGC
* ** * * * * *
2264354 ACTTTTACGTCGAAAGTATCCCTTAGGGGTATTTTCATAATTTTTTAGAACCAACTCCTAGGTCA
1 ACTTTTAAGTCGAGGGTATCCCTTAGGGGTATTTTCGTAATTTTTTAAAACTAATTCCTAGGTTA
* * * *
2264419 TCGCCAGGTCTGCTTTTATGTCGAAGGTGGATATTTAGGATAGGTTCATCCCTTTTATAATCATT
66 TCACC-GGTCTGCTTTTATGTCGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATC-TT
* *
2264484 TTTAAGTCCTTTAAGGG-TATTTGGT
129 TTTAAGTCCTTT-AGGGATATTGGGC
* * * * * * * * * *
2264509 ACTTCTACGTCAAAGGTATCCCCTAAGGGTATCTTT-GTAATTTTTCAAAACCAACTCCTACGTT
1 ACTTTTAAGTCGAGGGTATCCCTTAGGGGTAT-TTTCGTAATTTTTTAAAACTAATTCCTAGGTT
* * * * *
2264573 GTCACCAAGTCTGCTTTTTATGTCAAAGATGGGTATTTAGGATAGGTTCATCTCATCTATAATCT
65 ATCACC-GGTCTGC-TTTTATGTCGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCT
2264638 TTTTAAG
128 TTTTAAG
2264645 GTTATCGAGA
Statistics
Matches: 724, Mismatches: 134, Indels: 70
0.78 0.14 0.08
Matches are distributed among these distances:
140 105 0.15
141 3 0.00
143 1 0.00
145 6 0.01
146 2 0.00
148 1 0.00
149 6 0.01
151 1 0.00
153 14 0.02
154 401 0.55
155 135 0.19
156 49 0.07
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (153 bp):
ACTTTTAAGTCGAGGGTATCCCTTAGGGGTATTTTCGTAATTTTTTAAAACTAATTCCTAGGTTA
TCACCGGTCTGCTTTTATGTCGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCTTTT
TAAGTCCTTTAGGGATATTGGGC
Found at i:2264292 original size:294 final size:294
Alignment explanation
Indices: 2263749--2264318 Score: 700
Period size: 294 Copynumber: 1.9 Consensus size: 294
2263739 AGGGATATTG
* * * *
2263749 GGCACTTTTAAGTCGAGGGTATCCCTTAGGGGTATTTTTGTAATGTTTTAAAACTGAGTCCTAGG
1 GGCACTTTTAAGTAGAGGGTATCCCCTAGGGGTATTTTTGTAATGTTTTAAAACTAAGTCCCAGG
* * *
2263814 TTATCATCGTGTCCTCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTACATATCATCTATATCC
66 TTATCATCGGGTCCTCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTACATACCATCTATAACC
* * **
2263879 TTTTTAAGTCCTTTAAGGATATGGGGTACTTCTAAGTCGAGGGTATCCTATAAGGGCATTTTCAT
131 TTTTTAAGTCCTTTAAGGATATGGAGCACTTCTAAGTCGAAAGTATCCTATAAGGGCATTTTCAT
* * ** *
2263944 AATTTTTTAAAATTGATTCCTAGGTTGTCACCGAGTTTGCTTTTATGCCGAAGGTAGGTGTTTAG
196 AATTTTTTAAAATCGATTCCTAGGTTATCACCGAGTCCGCTTTTATGCCGAAGGTAGGTATTTAG
*
2264009 GATAGGTTCATCCCATCTATAACCTTCGTAATTA
261 GATAGGTGCATCCCATCTATAACCTTCGTAATTA
* * * *
2264043 GGCA-TTTCTAAGTAGAGGGTATCCCCTCGGGGTATTTTTGTAATTTTTTAAAATTAATTCCCAG
1 GGCACTTT-TAAGTAGAGGGTATCCCCTAGGGGTATTTTTGTAATGTTTTAAAACTAAGTCCCAG
* ** * *
2264107 GTTATTA-CTGGGT-CTGCTTTTATGTTGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATA
65 GTTATCATC-GGGTCCT-CTTTTATGCCGAAGGTGGGTATTTAGGATAGGTACATACCATCTATA
* * * * * * * **
2264170 ACCTTTTTAAGTCCTTTAGGGGTGTTGAGCACTTTTAAGTTGAAAGTAT-CTTTTGGAGGCATTT
128 ACCTTTTTAAGTCCTTTAAGGATATGGAGCACTTCTAAGTCGAAAGTATCCTATAAG-GGCATTT
* ** * *
2264234 TCGTAATTTTTTAAAATCGATTCCTAGGTTATCAGTG-GATCCGCTTTTATGTCGAAGGTGGGTA
192 TCATAATTTTTTAAAATCGATTCCTAGGTTATCACCGAG-TCCGCTTTTATGCCGAAGGTAGGTA
2264298 TTTAGGATAGGTGCATCCCAT
256 TTTAGGATAGGTGCATCCCAT
2264319 TTAAAATTCT
Statistics
Matches: 231, Mismatches: 40, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
293 11 0.05
294 220 0.95
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.39
Consensus pattern (294 bp):
GGCACTTTTAAGTAGAGGGTATCCCCTAGGGGTATTTTTGTAATGTTTTAAAACTAAGTCCCAGG
TTATCATCGGGTCCTCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTACATACCATCTATAACC
TTTTTAAGTCCTTTAAGGATATGGAGCACTTCTAAGTCGAAAGTATCCTATAAGGGCATTTTCAT
AATTTTTTAAAATCGATTCCTAGGTTATCACCGAGTCCGCTTTTATGCCGAAGGTAGGTATTTAG
GATAGGTGCATCCCATCTATAACCTTCGTAATTA
Found at i:2268130 original size:16 final size:15
Alignment explanation
Indices: 2268105--2268135 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
2268095 GGTTACTTGG
2268105 TTTTAATTTAAATTA
1 TTTTAATTTAAATTA
2268120 TTTTAAATTTAAATTA
1 TTTT-AATTTAAATTA
2268136 AATATATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTTAATTTAAATTA
Found at i:2268164 original size:20 final size:22
Alignment explanation
Indices: 2268141--2268191 Score: 72
Period size: 19 Copynumber: 2.5 Consensus size: 22
2268131 AATTAAATAT
2268141 ATTTTTTAAAAA-TT-ATTAAA
1 ATTTTTTAAAAACTTAATTAAA
2268161 A-TTTTTAAAAACTTAATTAAA
1 ATTTTTTAAAAACTTAATTAAA
*
2268182 ATTATTTAAA
1 ATTTTTTAAA
2268192 TTTATAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 10 0.37
20 3 0.11
21 7 0.26
22 7 0.26
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
ATTTTTTAAAAACTTAATTAAA
Found at i:2268224 original size:29 final size:29
Alignment explanation
Indices: 2268185--2268250 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
2268175 AATTAAAATT
2268185 ATTTAAATTT-ATAATAATAAAAATAAAAA
1 ATTTAAATTTAATAA-AATAAAAATAAAAA
* *
2268214 ATTTAAATTTAATAAAATATAAATATAAA
1 ATTTAAATTTAATAAAATAAAAATAAAAA
2268243 A-TTAAATT
1 ATTTAAATT
2268251 AAATTTAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
28 7 0.21
29 23 0.68
30 4 0.12
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (29 bp):
ATTTAAATTTAATAAAATAAAAATAAAAA
Found at i:2268287 original size:20 final size:19
Alignment explanation
Indices: 2268264--2268323 Score: 52
Period size: 19 Copynumber: 3.1 Consensus size: 19
2268254 TTTAAATTTA
2268264 ATAATAAAAATAATTACATT
1 ATAATAAAAATAATTA-ATT
* *
2268284 ATAAT-TAAATAATTTTATT
1 ATAATAAAAATAA-TTAATT
*
2268303 ATAA-AATAAAAAATTAATT
1 ATAATAA-AAATAATTAATT
2268322 AT
1 AT
2268324 CAATTTTATT
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
19 20 0.62
20 12 0.38
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
ATAATAAAAATAATTAATT
Found at i:2268290 original size:39 final size:38
Alignment explanation
Indices: 2268212--2268293 Score: 103
Period size: 39 Copynumber: 2.1 Consensus size: 38
2268202 TAAAAATAAA
*
2268212 AAATTTAAATTTAATAAAATATAAATATAAAATTAAATT
1 AAATTTAAATTTAAT-AAATAAAAATATAAAATTAAATT
* *
2268251 AAATTTAAATTTAAT-AATAAAAATAATTACATTATAATT
1 AAATTTAAATTTAATAAATAAAAAT-ATAAAATTA-AATT
2268290 AAAT
1 AAAT
2268294 AATTTTATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
37 8 0.21
38 7 0.18
39 23 0.61
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (38 bp):
AAATTTAAATTTAATAAATAAAAATATAAAATTAAATT
Found at i:2268295 original size:19 final size:19
Alignment explanation
Indices: 2268271--2268328 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 19
2268261 TTAATAATAA
2268271 AAATAATTACATTAT-AATT
1 AAATAATTA-ATTATAAATT
* *
2268290 AAATAATTTTATTATAAAAT
1 AAATAA-TTAATTATAAATT
* *
2268310 AAAAAATTAATTATCAATT
1 AAATAATTAATTATAAATT
2268329 TTATTAATTT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
19 21 0.68
20 10 0.32
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (19 bp):
AAATAATTAATTATAAATT
Found at i:2269812 original size:16 final size:16
Alignment explanation
Indices: 2269778--2269828 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
2269768 GATCTAAAAA
2269778 AAAAAG-TTCAAA-CT
1 AAAAAGCTTCAAACCT
2269792 CAAAAGAGCTT-AAACCT
1 -AAAA-AGCTTCAAACCT
*
2269809 AAAAAGGTTCAAACCT
1 AAAAAGCTTCAAACCT
2269825 AAAA
1 AAAA
2269829 TAATTTATCT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
15 8 0.26
16 19 0.61
17 4 0.13
ACGTcount: A:0.55, C:0.18, G:0.10, T:0.18
Consensus pattern (16 bp):
AAAAAGCTTCAAACCT
Found at i:2270456 original size:16 final size:17
Alignment explanation
Indices: 2270427--2270459 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
2270417 TTAAAAAGAT
*
2270427 AGAAGAAAACAATGAAA
1 AGAAGAAAAAAATGAAA
2270444 AGAA-AAAAAAATGAAA
1 AGAAGAAAAAAATGAAA
2270460 TCTGAAAAAT
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:0.76, C:0.03, G:0.15, T:0.06
Consensus pattern (17 bp):
AGAAGAAAAAAATGAAA
Found at i:2271451 original size:17 final size:17
Alignment explanation
Indices: 2271411--2271492 Score: 55
Period size: 17 Copynumber: 4.8 Consensus size: 17
2271401 ACATTAATAA
*
2271411 TTTAT-TTTTTATAAATT
1 TTTATATTTTTAT-TATT
*
2271428 TTAATATTTTTATT-TT
1 TTTATATTTTTATTATT
*
2271444 TATTATATTTATATTATT
1 T-TTATATTTTTATTATT
*
2271462 TTT-TATTTTATATAATAT
1 TTTATATTTT-TATTAT-T
2271480 TTTA-ATTATTTAT
1 TTTATATT-TTTAT
2271493 ATAATCGTAT
Statistics
Matches: 52, Mismatches: 6, Indels: 13
0.73 0.08 0.18
Matches are distributed among these distances:
16 8 0.15
17 22 0.42
18 20 0.38
19 2 0.04
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTATATTTTTATTATT
Found at i:2271491 original size:25 final size:24
Alignment explanation
Indices: 2271404--2271492 Score: 81
Period size: 25 Copynumber: 3.5 Consensus size: 24
2271394 ATTTAATACA
*
2271404 TTAATAATTTATTTTTTATAA-ATT
1 TTAATTATTTA-TTTTTATAATATT
* *
2271428 TTAATATTTTTATTTTTATTATATT
1 TTAAT-TATTTATTTTTATAATATT
*
2271453 TATATTATTTTTTATTTTATATAATATT
1 T-TA--ATTATTTATTTT-TATAATATT
2271481 TTAATTATTTAT
1 TTAATTATTTAT
2271493 ATAATCGTAT
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
24 13 0.24
25 16 0.30
26 2 0.04
27 12 0.22
28 11 0.20
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (24 bp):
TTAATTATTTATTTTTATAATATT
Found at i:2271495 original size:20 final size:19
Alignment explanation
Indices: 2271405--2271497 Score: 69
Period size: 19 Copynumber: 5.2 Consensus size: 19
2271395 TTTAATACAT
*
2271405 TAATAATTTATT-TTT-TA
1 TAATATTTTATTATTTATA
*
2271422 TAA-ATTTTAATATTT-T-
1 TAATATTTTATTATTTATA
2271438 T-AT-TTTTATTATATT-TA
1 TAATATTTTATTAT-TTATA
*
2271455 TATTATTTT-TTATTTTATA
1 TAATATTTTATTA-TTTATA
2271474 TAATATTTTAATTATTTATA
1 TAATATTTT-ATTATTTATA
2271494 TAAT
1 TAAT
2271498 CGTATTATAT
Statistics
Matches: 61, Mismatches: 5, Indels: 17
0.73 0.06 0.20
Matches are distributed among these distances:
15 9 0.15
16 10 0.16
17 8 0.13
18 6 0.10
19 15 0.25
20 10 0.16
21 3 0.05
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TAATATTTTATTATTTATA
Found at i:2271757 original size:73 final size:71
Alignment explanation
Indices: 2271675--2271832 Score: 230
Period size: 73 Copynumber: 2.2 Consensus size: 71
2271665 ATAATACTAA
* *
2271675 TATTTTTATATATTAAAAATAATAATTAAAATTAT-TAATAATTACATTTAATACAATATTATTA
1 TATTATTATATATTAAAAATAATAATTAAAATT-TGTAATAATTACATTTAATAAAATATTATTA
2271739 TAATAATT
65 TAATAA-T
*
2271747 TATTAATTATACATTAAAAATAATAATTAAAATTTGTAATAATTACATTTAATAAAATATTATTA
1 TATT-ATTATATATTAAAAATAATAATTAAAATTTGTAATAATTACATTTAATAAAATATTATTA
* *
2271812 TTATTAT
65 TAATAAT
2271819 TATTATTAT-TATTA
1 TATTATTATATATTA
2271833 TTATAATAGT
Statistics
Matches: 78, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
70 4 0.05
71 5 0.06
72 10 0.13
73 59 0.76
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.48
Consensus pattern (71 bp):
TATTATTATATATTAAAAATAATAATTAAAATTTGTAATAATTACATTTAATAAAATATTATTAT
AATAAT
Done.