Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 8 of 378
Found at i:2438406 original size:12 final size:14
Alignment explanation
Indices: 2438375--2438403 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
2438365 CAATTTCTAC
2438375 AGAAAATTTCGAAG
1 AGAAAATTTCGAAG
2438389 AGAAAATTTCGAAG
1 AGAAAATTTCGAAG
2438403 A
1 A
2438404 AAAGAGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.21, T:0.21
Consensus pattern (14 bp):
AGAAAATTTCGAAG
Found at i:2445625 original size:5 final size:5
Alignment explanation
Indices: 2445609--2445638 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
2445599 CCTGTTTTTT
2445609 TTATA TTTATA TTATA TTATA TTATA TTAT
1 TTATA -TTATA TTATA TTATA TTATA TTAT
2445639 GTCATTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TTATA
Found at i:2447104 original size:30 final size:31
Alignment explanation
Indices: 2447063--2447128 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 31
2447053 TTAATCTCTG
*
2447063 TTTTTTAATTTAATTAATTTTAATTCTTTA-A
1 TTTTTTAATTTAATTAATATTAATT-TTTATA
*
2447094 TTTTTT-ATTTAGTTAATATTAATTTTTATA
1 TTTTTTAATTTAATTAATATTAATTTTTATA
2447124 TTTTT
1 TTTTT
2447129 AAAATTTGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
29 4 0.12
30 22 0.69
31 6 0.19
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (31 bp):
TTTTTTAATTTAATTAATATTAATTTTTATA
Found at i:2447130 original size:21 final size:21
Alignment explanation
Indices: 2447090--2447130 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
2447080 TTTTAATTCT
2447090 TTAATTTTTTATTTAGTTAATA
1 TTAATTTTTTATTTA-TTAATA
2447112 TTAATTTTTATATTT-TTAA
1 TTAATTTTT-TATTTATTAA
2447131 AATTTGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.22
22 9 0.50
23 5 0.28
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (21 bp):
TTAATTTTTTATTTATTAATA
Found at i:2449024 original size:91 final size:91
Alignment explanation
Indices: 2448876--2449043 Score: 255
Period size: 91 Copynumber: 1.8 Consensus size: 91
2448866 CGAGATTCTT
* *** *
2448876 TTTTTGTTGCGTGGTTAAGAAAATGTTTGGCTTGAAATCGCACTAGAATTTTCTGTTTGTTTGCT
1 TTTTCGTTGCGTGGTTAAGAAAATGTTTAAATTGAAATCGCACTAGAATTTTCTGTTTGCTTGCT
2448941 GAGAAACACTGTTTGAATTCTTTTTA
66 GAGAAACACTGTTTGAATTCTTTTTA
* * * *
2448967 TTTTCGTTGCGTGGTTCAGAAACTGTTTAAATTGAATTCGCACTAGAATTTTTTGTTTGCTTGCT
1 TTTTCGTTGCGTGGTTAAGAAAATGTTTAAATTGAAATCGCACTAGAATTTTCTGTTTGCTTGCT
2449032 GAGAAACACTGT
66 GAGAAACACTGT
2449044 GAGAAAAAAC
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
91 68 1.00
ACGTcount: A:0.23, C:0.12, G:0.21, T:0.43
Consensus pattern (91 bp):
TTTTCGTTGCGTGGTTAAGAAAATGTTTAAATTGAAATCGCACTAGAATTTTCTGTTTGCTTGCT
GAGAAACACTGTTTGAATTCTTTTTA
Found at i:2449133 original size:102 final size:101
Alignment explanation
Indices: 2448940--2449324 Score: 461
Period size: 101 Copynumber: 3.8 Consensus size: 101
2448930 GTTTGTTTGC
* * * * *
2448940 TGAGAAACACTGTTTGAATTCTTTTTATTTTCGTTGCGTGGTTCAGAAACTGTTTAAATTGAATT
1 TGAGAAAAACTGTTTGAATTC-TTTT-TTTTCGTTGCATGGTTAAGAAAATGTTTAATTTGAATT
* *
2449005 CGCACTAGAATTTTTTGTTTGCTTGCTGAGAAACACTG
64 CGCACTAGAATTTTCTGATTGCTTGCTGAGAAACACTG
* * * * * * *
2449043 TGAGAAAAAACTGGTTGAATTCTTTTTTTTGGTCGCGTGGATAAGAAAATGTTTGATTCGAATTC
1 TGAG-AAAAACTGTTTGAATTCTTTTTTTTCGTTGCATGGTTAAGAAAATGTTTAATTTGAATTC
* * *
2449108 GCATTAGAGTTTTCTGATTGTTTGCTGAGAAACACTG
65 GCACTAGAATTTTCTGATTGCTTGCTGAGAAACACTG
*
2449145 TGAGAAAAACTGTTTGAATTCTTTTTTTTCGTTGCACGGTTAAGAAAATG-TTAATTTGAATTCG
1 TGAGAAAAACTGTTTGAATTCTTTTTTTTCGTTGCATGGTTAAGAAAATGTTTAATTTGAATTCG
* * * *
2449209 CACTAGAATTCTCTGACTGGTAGCTGAGAAACAC--
66 CACTAGAATTTTCTGATTGCTTGCTGAGAAACACTG
* * * * *
2449243 TGAGAAAAAATCGTTTGAATTTTTTTTATTTTGTTGCATGGTTAAGAAATTGTTTAATTTGAACT
1 TGAGAAAAACT-GTTTGAATTCTTTTT-TTTCGTTGCATGGTTAAGAAAATGTTTAATTTGAATT
2449308 CGCACTAGAATTTTCTG
64 CGCACTAGAATTTTCTG
2449325 TTTTTGGTTG
Statistics
Matches: 242, Mismatches: 36, Indels: 10
0.84 0.12 0.03
Matches are distributed among these distances:
98 10 0.04
99 14 0.06
100 61 0.25
101 67 0.28
102 67 0.28
103 8 0.03
104 15 0.06
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (101 bp):
TGAGAAAAACTGTTTGAATTCTTTTTTTTCGTTGCATGGTTAAGAAAATGTTTAATTTGAATTCG
CACTAGAATTTTCTGATTGCTTGCTGAGAAACACTG
Found at i:2449279 original size:100 final size:100
Alignment explanation
Indices: 2448939--2449324 Score: 445
Period size: 100 Copynumber: 3.8 Consensus size: 100
2448929 TGTTTGTTTG
* * * * *
2448939 CTGAG-AAACACTGTTTGAATTCTTTTTATTTTCGTTGCGTGGTTCAGAAACTGTTTAAATTGAA
1 CTGAGAAAAAACTGTTTGAATTCTTTTT-TTTT-GTTGCATGGTTAAGAAAATGTTTAATTTGAA
* *
2449003 TTCGCACTAGAATTTTTTGTTTGCTTGCTGAGAAACA
64 TTCGCACTAGAATTTTCTGATTGCTTGCTGAGAAACA
* * * * * * *
2449040 CTGTGAGAAAAAACTGGTTGAATTCTTTTTTTTGGTCGCGTGGATAAGAAAATGTTTGATTCGAA
1 C--TGAGAAAAAACTGTTTGAATTCTTTTTTTTTGTTGCATGGTTAAGAAAATGTTTAATTTGAA
* * *
2449105 TTCGCATTAGAGTTTTCTGATTGTTTGCTGAGAAACA
64 TTCGCACTAGAATTTTCTGATTGCTTGCTGAGAAACA
* * *
2449142 CTGTGAGAAAAACTGTTTGAATTCTTTTTTTTCGTTGCACGGTTAAGAAAATG-TTAATTTGAAT
1 CTGAGA-AAAAACTGTTTGAATTCTTTTTTTTTGTTGCATGGTTAAGAAAATGTTTAATTTGAAT
* * * *
2449206 TCGCACTAGAATTCTCTGACTGGTAGCTGAGAAACA
65 TCGCACTAGAATTTTCTGATTGCTTGCTGAGAAACA
* *
2449242 CTGAGAAAAAA-TCGTTTGAATTTTTTTTATTTTGTTGCATGGTTAAGAAATTGTTTAATTTGAA
1 CTGAGAAAAAACT-GTTTGAATTCTTTTT-TTTTGTTGCATGGTTAAGAAAATGTTTAATTTGAA
*
2449306 CTCGCACTAGAATTTTCTG
64 TTCGCACTAGAATTTTCTG
2449325 TTTTTGGTTG
Statistics
Matches: 241, Mismatches: 37, Indels: 14
0.83 0.13 0.05
Matches are distributed among these distances:
98 1 0.00
99 19 0.08
100 69 0.29
101 68 0.28
102 57 0.24
103 7 0.03
104 20 0.08
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (100 bp):
CTGAGAAAAAACTGTTTGAATTCTTTTTTTTTGTTGCATGGTTAAGAAAATGTTTAATTTGAATT
CGCACTAGAATTTTCTGATTGCTTGCTGAGAAACA
Found at i:2449335 original size:56 final size:55
Alignment explanation
Indices: 2449271--2449380 Score: 157
Period size: 56 Copynumber: 2.0 Consensus size: 55
2449261 ATTTTTTTTA
*
2449271 TTTTGTTGCATGGTTAAGAAATTGTTTAATTTGAACTCGCACTAGAATTTTCTGT
1 TTTTGTTGCATGGTTAAGAAAATGTTTAATTTGAACTCGCACTAGAATTTTCTGT
* * * * *
2449326 TTTTGGTTGCGTGGTTAATAAAATGTTTAATTTGAATTCGCATTAGAGTTTTCTG
1 TTTT-GTTGCATGGTTAAGAAAATGTTTAATTTGAACTCGCACTAGAATTTTCTG
2449381 ATTGTTTCCT
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
55 4 0.08
56 44 0.92
ACGTcount: A:0.25, C:0.09, G:0.20, T:0.46
Consensus pattern (55 bp):
TTTTGTTGCATGGTTAAGAAAATGTTTAATTTGAACTCGCACTAGAATTTTCTGT
Found at i:2451919 original size:15 final size:15
Alignment explanation
Indices: 2451899--2451930 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
2451889 GAAAATCGCC
2451899 TCTTTAATTCTTGTT
1 TCTTTAATTCTTGTT
2451914 TCTTTAATTCTTGTT
1 TCTTTAATTCTTGTT
2451929 TC
1 TC
2451931 CATTTATCGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.16, G:0.06, T:0.66
Consensus pattern (15 bp):
TCTTTAATTCTTGTT
Found at i:2455747 original size:18 final size:20
Alignment explanation
Indices: 2455720--2455769 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
2455710 TAATCGACAT
*
2455720 GCCAAATATGCGCTT-ATGC
1 GCCAGATATGCGCTTCATGC
* *
2455739 GCCAG-TATGCACTTCATGT
1 GCCAGATATGCGCTTCATGC
2455758 GCCAGATATGCG
1 GCCAGATATGCG
2455770 TTTGGTACGC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 8 0.32
19 12 0.48
20 5 0.20
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (20 bp):
GCCAGATATGCGCTTCATGC
Found at i:2458443 original size:23 final size:24
Alignment explanation
Indices: 2458417--2458461 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
2458407 TGATGAATAT
2458417 TGGGTTT-TGATTGCTA-TATTTTC
1 TGGGTTTGTG-TTGCTATTATTTTC
2458440 TGGGTTTGTGTTGCTATTATTT
1 TGGGTTTGTGTTGCTATTATTT
2458462 GTAACAAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.11, C:0.07, G:0.24, T:0.58
Consensus pattern (24 bp):
TGGGTTTGTGTTGCTATTATTTTC
Found at i:2468687 original size:14 final size:14
Alignment explanation
Indices: 2468668--2468694 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2468658 TATTATAAGG
2468668 TCAAACTACAAAAT
1 TCAAACTACAAAAT
2468682 TCAAACTACAAAA
1 TCAAACTACAAAA
2468695 ATAGTCACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.22, G:0.00, T:0.19
Consensus pattern (14 bp):
TCAAACTACAAAAT
Found at i:2470301 original size:2 final size:2
Alignment explanation
Indices: 2470294--2470320 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2470284 ACATACATGA
2470294 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
2470321 AAAACTTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2471224 original size:47 final size:47
Alignment explanation
Indices: 2471128--2471377 Score: 362
Period size: 47 Copynumber: 5.3 Consensus size: 47
2471118 TGCACACTTT
* * *
2471128 TCACAATTGGTCATTCGGCCTTATCACATAT--TCACTTACACATAT-A
1 TCAC-ATTGGCCATTCGGCCTTATCACATATACACACTTTCACAT-TCA
** * * **
2471174 TCACATTAACCATTCGGCCTTATCTCATGTATGCACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
*
2471221 TCACATTGGCCATTCGGCCTTATCATATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
*
2471268 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
2471315 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
2471362 TCACATTGGCCATTCG
1 TCACATTGGCCATTCG
2471378 ATCTTAAGCT
Statistics
Matches: 184, Mismatches: 17, Indels: 5
0.89 0.08 0.02
Matches are distributed among these distances:
45 21 0.11
46 5 0.03
47 158 0.86
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
Found at i:2475913 original size:3 final size:3
Alignment explanation
Indices: 2475907--2475931 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
2475897 AGGCGAAGAT
2475907 GAC GAC GAC GAC GAC GAC GAC GAC G
1 GAC GAC GAC GAC GAC GAC GAC GAC G
2475932 GAGAGGAGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.32, G:0.36, T:0.00
Consensus pattern (3 bp):
GAC
Found at i:2476056 original size:21 final size:21
Alignment explanation
Indices: 2476016--2476079 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
2476006 GAGGATGTTA
* *
2476016 AAGACGATGATGACGACGATG
1 AAGACGACGACGACGACGATG
* * *
2476037 AAGGCGACGGCGATGACGATG
1 AAGACGACGACGACGACGATG
*
2476058 ACGACGACGACGACGACGATG
1 AAGACGACGACGACGACGATG
2476079 A
1 A
2476080 TGACAGTGAT
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.34, C:0.20, G:0.36, T:0.09
Consensus pattern (21 bp):
AAGACGACGACGACGACGATG
Found at i:2476076 original size:15 final size:15
Alignment explanation
Indices: 2476027--2476083 Score: 60
Period size: 15 Copynumber: 3.8 Consensus size: 15
2476017 AGACGATGAT
* *
2476027 GACGACGATGAAGGC
1 GACGACGATGACGAC
* *
2476042 GACGGCGATGACGAT
1 GACGACGATGACGAC
*
2476057 GACGACGACGACGAC
1 GACGACGATGACGAC
*
2476072 GACGATGATGAC
1 GACGACGATGAC
2476084 AGTGATGACG
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.32, C:0.23, G:0.37, T:0.09
Consensus pattern (15 bp):
GACGACGATGACGAC
Found at i:2476854 original size:12 final size:12
Alignment explanation
Indices: 2476823--2476866 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
2476813 AAGAAAATGG
*
2476823 TGAAGAGGAAGA
1 TGAAGAAGAAGA
*
2476835 AGAAGAAGAAGA
1 TGAAGAAGAAGA
* *
2476847 TGATGAAGACGA
1 TGAAGAAGAAGA
2476859 TGAAGAAG
1 TGAAGAAG
2476867 GTAGTGGAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.52, C:0.02, G:0.36, T:0.09
Consensus pattern (12 bp):
TGAAGAAGAAGA
Found at i:2487179 original size:2 final size:2
Alignment explanation
Indices: 2487172--2487201 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
2487162 AGCTTAATTT
2487172 TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2487202 TTTTTCAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2490138 original size:14 final size:14
Alignment explanation
Indices: 2490119--2490146 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2490109 GGCCTGTGAT
2490119 TCAAGATTTTAAAC
1 TCAAGATTTTAAAC
2490133 TCAAGATTTTAAAC
1 TCAAGATTTTAAAC
2490147 AACTAACAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (14 bp):
TCAAGATTTTAAAC
Found at i:2493724 original size:2 final size:2
Alignment explanation
Indices: 2493717--2493754 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
2493707 CATTTGACTC
2493717 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
2493755 TTTTTTCTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:2500224 original size:24 final size:25
Alignment explanation
Indices: 2500196--2500244 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
2500186 AAATTTTAGT
* *
2500196 TTTTTTGTTGTTATTTTTTAAAATA
1 TTTTTAGTTGTTATATTTTAAAATA
* *
2500221 TTTTTATTTTTTATATTTTAAAAT
1 TTTTTAGTTGTTATATTTTAAAAT
2500245 TTAAATTCAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (25 bp):
TTTTTAGTTGTTATATTTTAAAATA
Found at i:2505744 original size:26 final size:27
Alignment explanation
Indices: 2505684--2505744 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
2505674 AAACTTGAAT
*
2505684 ATAAATATTAAAAGAAATATTTATTTA
1 ATAAATATTAAAAGAAATATATATTTA
*
2505711 CTAAATATTAAATA-AAATATAT-TTTA
1 ATAAATATTAAA-AGAAATATATATTTA
*
2505737 ATATATAT
1 ATAAATAT
2505745 ATATACATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 10 0.34
27 18 0.62
28 1 0.03
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (27 bp):
ATAAATATTAAAAGAAATATATATTTA
Found at i:2508784 original size:20 final size:20
Alignment explanation
Indices: 2508737--2508784 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
2508727 AAAAAGAATA
*
2508737 ATTTATATTTTATTTTATAT
1 ATTTATATTTTATTATATAT
**
2508757 ATAAATATTTGT-TTATATAT
1 ATTTATATTT-TATTATATAT
2508777 ATTTATAT
1 ATTTATAT
2508785 ATTTTGTTCG
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
20 21 0.95
21 1 0.05
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (20 bp):
ATTTATATTTTATTATATAT
Found at i:2510718 original size:3 final size:3
Alignment explanation
Indices: 2510703--2510763 Score: 88
Period size: 3 Copynumber: 20.0 Consensus size: 3
2510693 GTTATTTTCA
*
2510703 TAT TAT TGA- TAT TAT TAT TAT TAT TAT TAT TATT TAT TAG TAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
2510749 TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT
2510764 GTGCTTTTGT
Statistics
Matches: 53, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
2 1 0.02
3 48 0.91
4 4 0.08
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:2511408 original size:22 final size:23
Alignment explanation
Indices: 2511346--2511409 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 23
2511336 ATTATATGTG
* *
2511346 TATATATTATGTAAAATGTTTTAA
1 TATATATTATG-AATATGCTTTAA
2511370 TATTATATTAT-ATATATGCTTT-A
1 TA-TATATTATGA-ATATGCTTTAA
2511393 TATATATTATGAATATG
1 TATATATTATGAATATG
2511410 TATTTTCAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
22 13 0.37
23 5 0.14
24 9 0.26
25 8 0.23
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.52
Consensus pattern (23 bp):
TATATATTATGAATATGCTTTAA
Found at i:2515590 original size:10 final size:10
Alignment explanation
Indices: 2515577--2515633 Score: 55
Period size: 10 Copynumber: 5.8 Consensus size: 10
2515567 AAAAGAAAAG
2515577 AAAAAAAACA
1 AAAAAAAACA
2515587 AAAAAAAAC-
1 AAAAAAAACA
*
2515596 AAAAAGAA-A
1 AAAAAAAACA
***
2515605 AAAAGGGACA
1 AAAAAAAACA
2515615 AGAAAAAAACA
1 A-AAAAAAACA
2515626 AAAAAAAA
1 AAAAAAAA
2515634 GAAATCAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 13 0.34
10 18 0.47
11 7 0.18
ACGTcount: A:0.84, C:0.07, G:0.09, T:0.00
Consensus pattern (10 bp):
AAAAAAAACA
Found at i:2517939 original size:72 final size:71
Alignment explanation
Indices: 2517804--2518028 Score: 276
Period size: 72 Copynumber: 3.1 Consensus size: 71
2517794 TGATGCTTTT
* * *
2517804 ATTTCTGT-TTCAAAAATTCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGCACGCT-AGGT
1 ATTTCTGTCTTAAAAAAATCAACTCATATTGC-GGAGGTGAGTTGAGCCTCGGACACGCTGAGGT
2517867 ATTTTCA
65 ATTTTCA
2517874 ATTTCTGCTCTTAAAAAAATCAACTCATATTGC-GAGGTGAGTTGAGCCTCAGGACACGCTGAGG
1 ATTTCTG-TCTTAAAAAAATCAACTCATATTGCGGAGGTGAGTTGAGCCTC-GGACACGCTGAGG
*
2517938 TAATTTCA
64 TATTTTCA
* ** * *
2517946 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGTCTCACATGCTGA
1 ATTTCTGTCTTAAAAAAATCAACTCATATTGCG-GAGGTGAGTTGAGCCTCG---GACACGCTGA
*
2518011 GGTCTTTTCA
62 GGTATTTTCA
2518021 ATTTCTGT
1 ATTTCTGT
2518029 TTTTCAATTT
Statistics
Matches: 135, Mismatches: 11, Indels: 13
0.85 0.07 0.08
Matches are distributed among these distances:
70 24 0.18
71 31 0.23
72 39 0.29
73 17 0.13
75 24 0.18
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (71 bp):
ATTTCTGTCTTAAAAAAATCAACTCATATTGCGGAGGTGAGTTGAGCCTCGGACACGCTGAGGTA
TTTTCA
Found at i:2518034 original size:14 final size:14
Alignment explanation
Indices: 2518015--2518049 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
2518005 TGCTGAGGTC
2518015 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
2518029 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
*
2518043 CTTTCAA
1 TTTTCAA
2518050 AAAATCAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.17, G:0.06, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:2518229 original size:240 final size:231
Alignment explanation
Indices: 2517804--2518616 Score: 641
Period size: 230 Copynumber: 3.6 Consensus size: 231
2517794 TGATGCTTTT
* * * * *
2517804 ATTTCTGTTTCAAAAATTCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGCACGCTAGGTAT
1 ATTTCTGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTAGGAAA
*
2517869 TTTCAATTTCTGCTCTTAAAAAAATCAACTCATATTGCGAGGTGAGTTGAGCCTCAGGACACGCT
66 TTTCAATTTATGCTCTTAAAAAAATCAACTCATATTGCGAGGTGAGTTGAGCCTCAGGACACGCT
* *
2517934 GAGGTAATTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGT
131 GAGGTAATTTCAATTTCTGCTCTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGT
2517999 CTCACATGCTGAGGTCTTTTCAATTTCTGTTTTTCA
196 CTCACATGCTGAGGTCTTTTCAATTTCTGTTTTTCA
2518035 ATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
1 ATTTCTG--TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCT-AG
*
2518100 GAAATTTCAATTTATG-TTTGTCACAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTC
62 GAAATTTCAATTTATGCTCT-T---AAAAAAATCAACTCATATTGCGAG-G-TGAGTTGAGCCTC
* *
2518164 AGGGCACGCTGAGGTATTTTCAATTT-TGCTCTTCAAAAAAATCAACTCATATTGCGAGA-GTGA
121 AGGACACGCTGAGGTAATTTCAATTTCTGCTCTTC--AAAAATCAACTCATATTGCGAGAGGTGA
* * *
2518227 GTTGAGCCTCAG---GACACGCTGAGGT-ATTTCAATTTCTG-------
184 GTTGAGCCTC-GTCTCACATGCTGAGGTCTTTTCAATTTCTGTTTTTCA
*
2518265 --TT-TG--TC-AAGAATCAACTCATATTGCGAGA-G-G-G-T-----T--GA-AC-CT------
1 ATTTCTGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTAGGAAA
* * *** * *
2518305 TTT-AATTTCTACT-TTTTCAAAATC-A-TCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACG
66 TTTCAATTTATGCTCTTAAAAAAATCAACTCATATTGC--GAGGTGAGTTGAGCCTCAGGACACG
* * ** *
2518366 CTGAGGTATTTTCAATTT-TG-T-TT-TAATTTCAACTCATATTGCGAGAGGTGAGTTGAACCTC
129 CTGAGGTAATTTCAATTTCTGCTCTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
* * * * ** **
2518427 AG-GTCACACGCCGAGGTATTTTCAA-TTAAGCCTTTCA
194 -GTCTCACATGCTGAGGTCTTTTCAATTTCTGTTTTTCA
* *
2518464 ATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGA-ATGAGTTGAGCCTCGGGGCACGCTGAG
1 ATTTCTG--TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCT-AG
* * ** **
2518528 GTATTTTCAATTGCTG-T-TTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
62 GAAATTTCAATTTATGCTCTT-AAAAAAATCAACTCATATTGC--GAGGTGAGTTGAGCCTCAGG
* * *
2518591 GCACGTTGAGGTATTTTCAATTTCTG
124 ACACGCTGAGGTAATTTCAATTTCTG
2518617 TTTTAATTTC
Statistics
Matches: 483, Mismatches: 39, Indels: 120
0.75 0.06 0.19
Matches are distributed among these distances:
189 20 0.04
190 15 0.03
192 16 0.03
193 7 0.01
194 49 0.10
195 2 0.00
196 9 0.02
199 1 0.00
200 7 0.01
201 6 0.01
202 2 0.00
206 2 0.00
207 22 0.05
208 3 0.01
209 3 0.01
210 3 0.01
213 1 0.00
215 1 0.00
218 2 0.00
219 3 0.01
220 3 0.01
221 1 0.00
222 22 0.05
223 2 0.00
227 8 0.02
228 15 0.03
229 1 0.00
230 52 0.11
231 9 0.02
233 41 0.08
234 10 0.02
235 16 0.03
237 12 0.02
238 35 0.07
239 7 0.01
240 51 0.11
241 24 0.05
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (231 bp):
ATTTCTGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTAGGAAA
TTTCAATTTATGCTCTTAAAAAAATCAACTCATATTGCGAGGTGAGTTGAGCCTCAGGACACGCT
GAGGTAATTTCAATTTCTGCTCTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGT
CTCACATGCTGAGGTCTTTTCAATTTCTGTTTTTCA
Found at i:2518245 original size:73 final size:73
Alignment explanation
Indices: 2518029--2518294 Score: 369
Period size: 77 Copynumber: 3.6 Consensus size: 73
2518019 CAATTTCTGT
*
2518029 TTTTCAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
1 TTTTCAATTTCTGTCTGTCAAAAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCTCAGGACAC
*
2518094 GCTGAGGAA
65 GCTGAGGTA
* * * *
2518103 ATTTCAATTTATGTTTGTCACAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGG
1 TTTTCAATTTCTGTCTGT--C-AAAAAATCAACTCATATTGCGAGAG-TGAGTTGAGCCTCAGGA
2518168 CACGCTGAGGTA
62 CACGCTGAGGTA
2518180 TTTTCAATTT-TGCTCT-TCAAAAAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTG-TCTGTC-AAAAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTCAGGACA
2518243 CGCTGAGGTA
64 CGCTGAGGTA
* *
2518253 -TTTCAATTTCTGTTTGTC-AAGAATCAACTCATATTGCGAGAG
1 TTTTCAATTTCTGTCTGTCAAAAAATCAACTCATATTGCGAGAG
2518295 GGTTGAACCT
Statistics
Matches: 174, Mismatches: 11, Indels: 17
0.86 0.05 0.08
Matches are distributed among these distances:
71 23 0.13
72 11 0.06
73 32 0.18
74 41 0.24
76 5 0.03
77 62 0.36
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (73 bp):
TTTTCAATTTCTGTCTGTCAAAAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTCAGGACACG
CTGAGGTA
Found at i:2518582 original size:73 final size:72
Alignment explanation
Indices: 2518459--2518620 Score: 254
Period size: 73 Copynumber: 2.2 Consensus size: 72
2518449 CAATTAAGCC
* *
2518459 TTTCAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGA-ATGAGTTGAGCCTCGGGGCACG
1 TTTCAATTTCTGT-TTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
2518523 CTGAGGTAT
64 CTGAGGTAT
* *
2518532 TTTCAATTGCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGT
1 TTTCAATTTCTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
2518597 TGAGGTAT
65 TGAGGTAT
2518605 TTTCAATTTCTGTTTT
1 TTTCAATTTCTGTTTT
2518621 AATTTCCATG
Statistics
Matches: 82, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
72 26 0.32
73 56 0.68
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.35
Consensus pattern (72 bp):
TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
GAGGTAT
Found at i:2518691 original size:85 final size:84
Alignment explanation
Indices: 2518548--2518704 Score: 260
Period size: 85 Copynumber: 1.9 Consensus size: 84
2518538 TTGCTGTTTG
* *
2518548 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGTTGAGGTATTTTCAATT
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGGCACGATGAGGTATTTTCAATT
2518613 TCTGTTTTAATTTCCATGTT
66 TC-GTTTTAATTTCCATGTT
* * *
2518633 TCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCACGATGAGGTATTTTTAATT
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGGCACGATGAGGTATTTTCAATT
2518698 TCGTTTT
66 TCGTTTT
2518705 CAAAAATCAA
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
84 5 0.07
85 62 0.93
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.36
Consensus pattern (84 bp):
TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGGCACGATGAGGTATTTTCAATT
TCGTTTTAATTTCCATGTT
Found at i:2518711 original size:71 final size:73
Alignment explanation
Indices: 2518617--2518762 Score: 224
Period size: 71 Copynumber: 2.0 Consensus size: 73
2518607 TCAATTTCTG
* *
2518617 TTTTAATTTCCATGTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCACGA
1 TTTTAATTTCCATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGA
2518682 TGAGGTAT
66 TGAGGTAT
* * * *
2518690 TTTTAATTT-CGT-TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGC
1 TTTTAATTTCCATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGA
2518753 TGAGGTAT
66 TGAGGTAT
2518761 TT
1 TT
2518763 CAATTCTGTT
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
71 56 0.84
72 2 0.03
73 9 0.13
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (73 bp):
TTTTAATTTCCATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGA
TGAGGTAT
Found at i:2518738 original size:156 final size:155
Alignment explanation
Indices: 2518304--2519029 Score: 699
Period size: 156 Copynumber: 4.6 Consensus size: 155
2518294 GGGTTGAACC
* * *
2518304 TTTTAATTTCTACTTTTTC-AAAATC-A-TCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACG
1 TTTTAATTTCCA-TGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
* ** *
2518366 CTGAGGTATTTTCAATTTTGTTTT--AATTTCAACTCATATTGCGAGAGGTGAGTTGAACCTCAG
65 CTGAGGTATTTTCAATTTCGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
* *
2518429 GTCACACGCCGAGGTATTTTCAATTAAGC-C
130 G--ACACGCTGAGGTATTTTCAA-T--GCTG
* ** * * *
2518459 TTTCAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGA-ATGAGTTGAGCCTCGGGGCACG
1 TTTTAATTTCCATGTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
*
2518523 CTGAGGTATTTTCAATTGCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
65 CTGAGGTATTTTCAATTTC-GTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
* * *
2518588 AGGGCACGTTGAGGTATTTTCAATTTCTG
128 AGGACACGCTGAGGTATTTTCAA-TGCTG
* * * *
2518617 TTTTAATTTCCATGTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCACGA
1 TTTTAATTTCCATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
*
2518682 TGAGGTATTTTTAATTTCGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
66 TGAGGTATTTTCAATTTCGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
* *
2518747 ACATGCTGAGGTA-TTTCAATTCTG
131 ACACGCTGAGGTATTTTCAATGCTG
* *
2518771 TTTTCCAATTT--ATGTTTTTCAAAAAT-AGCTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGC
1 TTTT--AATTTCCATG--TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGC
*
2518833 ACGCTGAGGTATTTTCGATTTCTGCTTTCCAATTTCTGCTTTCAAAAAATCAACTCATA-TGCGA
62 ACGCTGAGG-----T--A----T--TTT-CAATTTC-GTTTTC-AAAAATCAACTCATATTGCGA
2518897 GAGGTGAGTTGAGCCTCAGG-CACGCTGAGGTATTTTTCAATGCT-
111 GAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-TTTTCAATGCTG
** * ** * * *
2518941 TTCCAATTTCTGCCT-TTTCAAAAAAAAACTCATATCGCGAAAGGTGAGTTGAGCCTCAGGACAC
1 TTTTAATTTC--CATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAC
*
2519005 GCTGAGGTATTGTCAACTTTCGTTT
64 GCTGAGGTATTTTCAA-TTTCGTTT
2519030 CTTGATTTAT
Statistics
Matches: 485, Mismatches: 48, Indels: 75
0.80 0.08 0.12
Matches are distributed among these distances:
154 17 0.04
155 57 0.12
156 80 0.16
157 72 0.15
158 65 0.13
159 21 0.04
160 1 0.00
161 37 0.08
162 1 0.00
163 1 0.00
165 1 0.00
166 1 0.00
168 8 0.02
169 26 0.05
170 72 0.15
171 24 0.05
172 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.34
Consensus pattern (155 bp):
TTTTAATTTCCATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
TGAGGTATTTTCAATTTCGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
ACACGCTGAGGTATTTTCAATGCTG
Found at i:2518904 original size:86 final size:86
Alignment explanation
Indices: 2518694--2519194 Score: 483
Period size: 84 Copynumber: 5.8 Consensus size: 86
2518684 AGGTATTTTT
*
2518694 AATTTC-G-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAG
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
* *
2518757 GTA-TTTCAATTCTGTTTTCC
66 GTATTTTCATTTCTGCTTTCC
* * * *
2518777 AATTTATGTTTTTCAAAAAT-AGCTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAG
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
2518841 GTATTTTCGATTTCTGCTTTCC
66 GTATTTTC-ATTTCTGCTTTCC
*
2518863 AATTTCTG-CTTTCAAAAAATCAACTCATA-TGCGAGAGGTGAGTTGAGCCTCAGG-CACGCTGA
1 AATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
*
2518925 GGTATTTTTCA---ATGCTTTCC
65 GGTA-TTTTCATTTCTGCTTTCC
* ** * *
2518945 AATTTCTGCCTTTTCAAAAAAAAACTCATATCGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGA
1 AATTTCTG-TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
* *
2519010 GGTATTGTCAACTTTC-G-TTTCTT
65 GGTATTTTC-A-TTTCTGCTTTC-C
* * * * * *
2519033 GATTTATGTTTTTCCAAAAATTAATTCATATTGCTAGAGGTGAATTGGAGCCTCAGGACACGCTG
1 AATTTCTGTTTTT-CAAAAATCAACTCATATTGCGAGAGGTGAGTT-GAGCCTCAGGACACGCTG
* *
2519098 A-GTATTGTCAACTTTC-G-TTTCTT
64 AGGTATTTTC-A-TTTCTGCTTTC-C
* * * * * * *
2519121 AATTTATGTTTTTCCAAAATTAATTCATATTGCTAGAGGTGAATTGAGCCTCAGGATCACACGCC
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCT
2519186 GAGGTATTT
63 GAGGTATTT
2519195 ACCCATGAAG
Statistics
Matches: 361, Mismatches: 34, Indels: 39
0.83 0.08 0.09
Matches are distributed among these distances:
82 16 0.04
83 18 0.05
84 75 0.21
85 45 0.12
86 63 0.17
87 46 0.13
88 66 0.18
89 27 0.07
90 5 0.01
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (86 bp):
AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
GTATTTTCATTTCTGCTTTCC
Found at i:2518990 original size:170 final size:170
Alignment explanation
Indices: 2518694--2519176 Score: 493
Period size: 170 Copynumber: 2.8 Consensus size: 170
2518684 AGGTATTTTT
*
2518694 AATTTC-GTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGG
1 AATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
* * * * *
2518758 TA--TTTCAATTCTGTTTTCCAATTTATGTTTTTCAAAAATAGCTCATATTGCGAGAAGTGAGTT
66 TATTTTTCAA-T-TGCTTTCCAATTTATGCTTTTCAAAAAAAACTCATATCGCGAGAAGTGAGTT
* * *
2518821 GAGCCTCAGGGCACGCTGAGGTATTTTCGA-TTTCTGCTTTC-C
129 GAGCCTCAGGACACGCTGAGGTATTGTCAACTTTC-G-TTTCTC
*
2518863 AATTTCTGCTTTCAAAAAATCAACTCATA-TGCGAGAGGTGAGTTGAGCCTCAGG-CACGCTGAG
1 AATTTCTGTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
*
2518926 GTATTTTTCAA-TGCTTTCCAATTTCTGCCTTTTCAAAAAAAAACTCATATCGCGA-AAGGTGAG
65 GTATTTTTCAATTGCTTTCCAATTTATG-CTTTTC-AAAAAAAACTCATATCGCGAGAA-GTGAG
*
2518989 TTGAGCCTCAGGACACGCTGAGGTATTGTCAACTTTCGTTTCTT
127 TTGAGCCTCAGGACACGCTGAGGTATTGTCAACTTTCGTTTCTC
* * * * * *
2519033 GATTTATGTTTTTCCAAAAATTAATTCATATTGCTAGAGGTGAATTGGAGCCTCAGGACACGCTG
1 AATTTCTG-TTTT-CAAAAATCAACTCATATTGCGAGAGGTGAGTT-GAGCCTCAGGACACGCTG
* * * * ** * * * *
2519098 A-GTA-TTGTCAACTTTCGTTTCTTAATTTATGTTTTTCCAAAATTAATTCATATTGCTAGAGGT
63 AGGTATTTTTCAA-TTGC-TTTC-CAATTTATGCTTTT-CAAAAAAAACTCATATCGCGAGAAGT
*
2519161 GAATTGAGCCTCAGGA
124 GAGTTGAGCCTCAGGA
2519177 TCACACGCCG
Statistics
Matches: 263, Mismatches: 31, Indels: 34
0.80 0.09 0.10
Matches are distributed among these distances:
168 14 0.05
169 28 0.11
170 88 0.33
171 41 0.16
172 20 0.08
173 13 0.05
174 10 0.04
175 40 0.15
176 9 0.03
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (170 bp):
AATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
TATTTTTCAATTGCTTTCCAATTTATGCTTTTCAAAAAAAACTCATATCGCGAGAAGTGAGTTGA
GCCTCAGGACACGCTGAGGTATTGTCAACTTTCGTTTCTC
Found at i:2522553 original size:75 final size:73
Alignment explanation
Indices: 2522455--2522687 Score: 299
Period size: 75 Copynumber: 3.2 Consensus size: 73
2522445 TGATGCTTTT
* * * *
2522455 ATTTCTG-TTTCAAAAATTCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCTGAGG
1 ATTTCTGTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGG
2522519 TATTTTCA
66 TATTTTCA
* *
2522527 ATTTCTGCTCTTTAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGA
1 ATTTCTG-T-TTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGA
2522592 GGTAATTTT-A
64 GGT-ATTTTCA
** ** *
2522602 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGTCTCACATGCTGA
1 ATTTCTGTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG--GGACACGCTGA
*
2522667 GGTCTTTTCA
64 GGTATTTTCA
2522677 ATTTCTGTTTT
1 ATTTCTGTTTT
2522688 TCAATTTCTG
Statistics
Matches: 140, Mismatches: 14, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
72 7 0.05
73 40 0.29
74 5 0.04
75 83 0.59
76 5 0.04
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (73 bp):
ATTTCTGTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGG
TATTTTCA
Found at i:2522690 original size:14 final size:14
Alignment explanation
Indices: 2522671--2522705 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
2522661 TGCTGAGGTC
2522671 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
2522685 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
*
2522699 CTTTCAA
1 TTTTCAA
2522706 AAAAATCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.17, G:0.06, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:2522812 original size:77 final size:75
Alignment explanation
Indices: 2522686--2522963 Score: 420
Period size: 75 Copynumber: 3.7 Consensus size: 75
2522676 AATTTCTGTT
2522686 TTTCAATTTCTGTCTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTCAATTTCTGT-TTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
*
2522750 CGCTGAGGAAA
65 CGCTGAGGTAA
* * *
2522761 TTTCAATTTATGTTTGTCACAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGGC
1 TTTCAATTTCTGTTTGT--CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
*
2522826 ACGCTGAGGTAT
64 ACGCTGAGGTAA
*
2522838 TTTCAATTTCTGCTCT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTCAATTTCTG-TTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
2522902 CGCTGAGGTAA
65 CGCTGAGGTAA
* *
2522913 TTTCAATTTCTGTTTGTC--AAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 TTTCAATTTCTGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
2522964 ACCTTTTAAT
Statistics
Matches: 185, Mismatches: 13, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
73 31 0.17
74 4 0.02
75 82 0.44
77 66 0.36
78 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (75 bp):
TTTCAATTTCTGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
GCTGAGGTAA
Found at i:2522909 original size:241 final size:234
Alignment explanation
Indices: 2522455--2523285 Score: 674
Period size: 241 Copynumber: 3.7 Consensus size: 234
2522445 TGATGCTTTT
* * * * *
2522455 ATTTCTGTTTCAAAAATTCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGT
1 ATTTCTGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGA
* * *
2522520 ATTTTCAATTTCTGCTCTTTAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGAC
66 AATTTCAATTTATGCTCTTTAAAAAAATCAACTCATATTGCGAAAGATGAGTTGAGCCTCAGGAC
* *
2522585 ACGCTGAGGTAATTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
131 ACGCTGAGGTAATTTTAATTTCTGCTCTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* ** *
2522650 CTCGTCTCACATGCTGAGGTCTTTTCAATTTCTGTTTTTCA
196 CTCG--TCACACGCTGAGGTAATTTCAATTTCTGTTTGTCA
2522691 ATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
1 ATTTCTG--TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
*
2522756 GGAAATTTCAATTTATG-T-TTGTCACAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCC
63 GGAAATTTCAATTTATGCTCTT-T---AAAAAAATCAACTCATATTGCGAAAGATGAGTTGAGCC
*
2522819 TCAGGGCACGCTGAGGT-ATTTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGG
124 TCAGGACACGCTGAGGTAATTTT-AATTTCTGCTCTTC--AAAAATCAACTCATATTGCGAGAGG
*
2522883 TGAGTTGAGCCTCAG-GACACGCTGAGGTAATTTCAATTTCTGTTTGTCA
186 TGAGTTGAGCCTC-GTCACACGCTGAGGTAATTTCAATTTCTGTTTGTCA
*
2522932 A-----G--------AATCAACTCATATTGCGAGAGGT--G--G-G--T--TGA-AC-CT-----
1 ATTTCTGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGA
* * ** * * * * *
2522968 --TTT-AATTTCTACT-TTT-TCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGC
66 AATTTCAATTTATGCTCTTTAAAAAAATCAACTCATATTGCGAAAGATGAGTTGAGCCTCAGGAC
* * ** ** *
2523028 ACGCTGAGGT-ATTTTCAATTTTTG-TGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAA
131 ACGCTGAGGTAATTTT-AATTTCTGCTCTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
* * ** *
2523091 CCTCAGGTCACACGCCGAGGTATTTTCAA-TTAAGCCTT-TCA
195 CCTC--GTCACACGCTGAGGTAATTTCAATTTCTG-TTTGTCA
** * * *
2523132 ATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTAAGCCTCGGGGCACGCTGAG
1 ATTTCTG--TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
* * * ** * *
2523197 GTATTTTCAA--T-TGCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
64 GAAATTTCAATTTATGCTCTTT-AAAAAAATCAACTCATATTGCGAAAGATGAGTTGAGCCTCAG
* *
2523259 GGCACGTTGAGGT-ATTTTCAATTTCTG
128 GACACGCTGAGGTAATTTT-AATTTCTG
2523286 TTTTAATTTC
Statistics
Matches: 492, Mismatches: 51, Indels: 106
0.76 0.08 0.16
Matches are distributed among these distances:
199 34 0.07
200 8 0.02
201 23 0.05
202 62 0.13
205 1 0.00
206 7 0.01
207 6 0.01
214 2 0.00
215 23 0.05
216 2 0.00
217 1 0.00
218 1 0.00
220 2 0.00
221 1 0.00
222 1 0.00
223 1 0.00
224 1 0.00
225 25 0.05
226 2 0.00
231 3 0.01
232 4 0.01
233 3 0.01
234 64 0.13
236 8 0.02
237 2 0.00
238 6 0.01
239 61 0.12
240 5 0.01
241 94 0.19
243 38 0.08
244 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (234 bp):
ATTTCTGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGA
AATTTCAATTTATGCTCTTTAAAAAAATCAACTCATATTGCGAAAGATGAGTTGAGCCTCAGGAC
ACGCTGAGGTAATTTTAATTTCTGCTCTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
CTCGTCACACGCTGAGGTAATTTCAATTTCTGTTTGTCA
Found at i:2523248 original size:73 final size:73
Alignment explanation
Indices: 2523127--2523289 Score: 247
Period size: 73 Copynumber: 2.2 Consensus size: 73
2523117 CAATTAAGCC
*
2523127 TTTCAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTAAGCCTCGGGGCACG
1 TTTCAATTTCTGT-TTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTAAGCCTCAGGGCACG
2523192 CTGAGGTAT
65 CTGAGGTAT
* ** *
2523201 TTTCAATTGCTGTTTGTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
1 TTTCAATTTCTGTTT-TCAAAAAATCAACTCATATTGCGAGAAATGAGTTAAGCCTCAGGGCACG
*
2523265 TTGAGGTAT
65 CTGAGGTAT
2523274 TTTCAATTTCTGTTTT
1 TTTCAATTTCTGTTTT
2523290 AATTTCCATG
Statistics
Matches: 81, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
72 1 0.01
73 66 0.81
74 14 0.17
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.35
Consensus pattern (73 bp):
TTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTAAGCCTCAGGGCACGC
TGAGGTAT
Found at i:2523334 original size:159 final size:157
Alignment explanation
Indices: 2522967--2523619 Score: 636
Period size: 159 Copynumber: 4.0 Consensus size: 157
2522957 GGGTTGAACC
* * * *
2522967 TTTTAATTTCTACTTTTTC-AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACG
1 TTTTAATTTC-A-TGTTTCAAAAATCAGCTCATATTGCGAGAAGTGAGTTAAGCCTCAGGGCACG
** * ** *
2523031 CTGAGGTATTTTCAATTTTTGTGTT-T-TAATTTCAACTCATATTGCGAGAGGTGAGTTGAACCT
64 CTGAGGTATTTTCAATTGCTGT-TTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
* * *
2523094 CAGGTCACACGCCGAGGTATTTTCAATTAAGC-C
128 CAGG--ACACGCTGAGGTATTTTCAATT--TCTG
* * * *
2523127 TTTCAATTTC-TGTCTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTAAGCCTCGGGGCAC
1 TTTTAATTTCATG--TTTC-AAAAATCAGCTCATATTGCGAGAAGTGAGTTAAGCCTCAGGGCAC
2523191 GCTGAGGTATTTTCAATTGCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
63 GCTGAGGTATTTTCAATTGCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
* *
2523256 CAGGGCACGTTGAGGTATTTTCAATTTCTG
128 CAGGACACGCTGAGGTATTTTCAATTTCTG
* *
2523286 TTTTAATTTCCATGTTTCAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAA-CCTCAGGTCAC
1 TTTTAATTT-CATGTTTCA-AAAATCAGCTCATATTGCGAGAAGTGAGTT-AAGCCTCAGGGCAC
* * * * *
2523350 GATGAGGTATTTTTAATTTCCGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
63 GCTGAGGTATTTTCAATTGCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
* *
2523415 CAGGACATGCTGAGGTAATTTCAATTTCTG
128 CAGGACACGCTGAGGTATTTTCAATTTCTG
* *
2523445 TTTTCTCCAATTT-ATGTTTTTCAAAAATTAGCTCATATTGCGAGAAGTGAGTTGAGCCTCAGGG
1 -TTT-T--AATTTCATG--TTTCAAAAATCAGCTCATATTGCGAGAAGTGAGTTAAGCCTCAGGG
* * *
2523509 CACGCTGAGGTATTTTCGATTTCTGCTTTCCAATTTCTGCTCTTCAAAAAAATCAACTCGTATTG
60 CACGCTGAGGTATTTTC-A-AT-TGC--T----GTT-TG----TC--AAAAATCAACTCATATTG
*
2523574 CGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
109 CGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
2523620 TTGCTTTCCA
Statistics
Matches: 412, Mismatches: 47, Indels: 50
0.81 0.09 0.10
Matches are distributed among these distances:
157 1 0.00
158 2 0.00
159 138 0.33
160 36 0.09
161 69 0.17
162 87 0.21
163 11 0.03
164 1 0.00
165 2 0.00
171 2 0.00
172 1 0.00
176 2 0.00
178 60 0.15
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.35
Consensus pattern (157 bp):
TTTTAATTTCATGTTTCAAAAATCAGCTCATATTGCGAGAAGTGAGTTAAGCCTCAGGGCACGCT
GAGGTATTTTCAATTGCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
GACACGCTGAGGTATTTTCAATTTCTG
Found at i:2523395 original size:73 final size:74
Alignment explanation
Indices: 2523286--2523448 Score: 229
Period size: 73 Copynumber: 2.2 Consensus size: 74
2523276 TCAATTTCTG
* * * *
2523286 TTTTAATTTCCATGTTTCAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCACG
1 TTTTAATTTCCGTTTTTCAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACG
*
2523351 ATGAGGTAT
66 ATGAGGTAA
* *
2523360 TTTTAATTTCCGTTTTTCA-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATG
1 TTTTAATTTCCGTTTTTCAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACG
*
2523424 CTGAGGTAA
66 ATGAGGTAA
* *
2523433 TTTCAATTTCTGTTTT
1 TTTTAATTTCCGTTTT
2523449 CTCCAATTTA
Statistics
Matches: 79, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
73 62 0.78
74 17 0.22
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (74 bp):
TTTTAATTTCCGTTTTTCAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACG
ATGAGGTAA
Found at i:2523779 original size:88 final size:88
Alignment explanation
Indices: 2523371--2523951 Score: 550
Period size: 89 Copynumber: 6.5 Consensus size: 88
2523361 TTTAATTTCC
* *
2523371 GTTTTT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATT
1 GTTTTTCCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATT
*
2523435 -TCAATTTCTGTTTTCTCCAATTTAT
65 GTCAATTTC-GCTTTCT-CAATTTAT
* * * *
2523460 GTTTTT-CAAAAATTAGCTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTT
1 GTTTTTCCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTG
* *
2523524 TCGATTTCTGCTTTC-CAATTTCT
66 TCAATTTC-GCTTTCTCAATTTAT
* * * * * *
2523547 GCTCTTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATT
1 GTTTTTC-CAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATT
* * *
2523612 TTCAATTTTTGCTTTC-CAATTTCT
65 GTCAA-TTTCGCTTTCTCAATTTAT
** * ** * * *
2523636 GCCTTTCAAAAAAAAAAAAACTCATATCGCGAAAGGTGAGTTGAGCCTCAAGACACGCTGAGGTA
1 GTTTTTC---CAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
**
2523701 TTGTCAACTTTCG-TTTCTTGATTTAT
63 TTGTCAA-TTTCGCTTTCTCAATTTAT
* * *
2523727 GTTTTTCCAAAAATTAATTCATATTGCTAGAGGTGAATTGAGCCTCAGGACACGCTGAGGTATTG
1 GTTTTTCCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTG
*
2523792 TCAACTTTCG-TTTCTTAATTTAT
66 TCAA-TTTCGCTTTCTCAATTTAT
* * * * *
2523815 GTTTTTCCAAAATTTAATTCATATTGCTAGAGGTGAATTGAGCCTCAGGATCACACGCCGAGGTA
1 GTTTTTCCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTA
* * *
2523880 TTTTCAATTAAT-GTTTTTTCAATTTAT
63 TTGTCAATT--TCGCTTTCTCAATTTAT
** * * *
2523907 ACTTTT-CAAGAATCAACTCATATTACGAGAGGTGAGTTGAGCCTC
1 GTTTTTCCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTC
2523952 GAGTCACATG
Statistics
Matches: 421, Mismatches: 58, Indels: 24
0.84 0.12 0.05
Matches are distributed among these distances:
87 11 0.03
88 122 0.29
89 143 0.34
90 9 0.02
91 120 0.29
92 16 0.04
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (88 bp):
GTTTTTCCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTG
TCAATTTCGCTTTCTCAATTTAT
Found at i:2523880 original size:179 final size:176
Alignment explanation
Indices: 2523371--2523951 Score: 568
Period size: 179 Copynumber: 3.3 Consensus size: 176
2523361 TTTAATTTCC
*
2523371 GTTTTT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATT
1 GTTTTTCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATT
* * *
2523435 TCAATTTCTGTTTTCTCCAATTTATGTTTTT-CAAAAATTAGCTCATATTGCGAGAAGTGAGTTG
65 TCAATTTC-GCTTTCT-CAATTTATGTTTTTCCAAAAATTAACTCATATTGCGAGAGGTGAGTTG
* * *
2523499 AGCCTCAGG-GCACGCTGAGGTATTTTCGATTTCTGCTTTCCAATTTCT
128 AGCCTCAGGAACACGCTGAGGTATTTTCAATTTCTGCTTTCCAATTTAT
* * * * *
2523547 GCTCTTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATT
1 GTTTTTC-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-T
* * ** * ** * *
2523612 TTCAATTTTTGCTTTC-CAATTTCTGCCTTTCAAAAAAAAAAAAACTCATATCGCGAAAGGTGAG
64 TTCAA-TTTCGCTTTCTCAATTTATGTTTTTC---CAAAAATTAACTCATATTGCGAGAGGTGAG
* * **
2523676 TTGAGCCTCAAG-ACACGCTGAGGTATTGTCAACTTTC-G-TTTCTTGATTTAT
125 TTGAGCCTCAGGAACACGCTGAGGTATTTTCAA-TTTCTGCTTTC-CAATTTAT
* * * *
2523727 GTTTTTCCAAAAATTAATTCATATTGCTAGAGGTGAATTGAGCCTCAGGACACGCTGAGGTATTG
1 GTTTTTCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATT-
* * * * *
2523792 TCAACTTTCG-TTTCTTAATTTATGTTTTTCCAAAATTTAATTCATATTGCTAGAGGTGAATTGA
65 TCAA-TTTCGCTTTCTCAATTTATGTTTTTCCAAAAATTAACTCATATTGCGAGAGGTGAGTTGA
* ** * *
2523856 GCCTCAGGATCACACGCCGAGGTATTTTCAATTAATGTTTTTTCAATTTAT
129 GCCTCAGGA--ACACGCTGAGGTATTTTCAATTTCTG-CTTTCCAATTTAT
** * *
2523907 ACTTTT-CAAGAATCAACTCATATTACGAGAGGTGAGTTGAGCCTC
1 GTTTTTCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
2523952 GAGTCACATG
Statistics
Matches: 322, Mismatches: 65, Indels: 33
0.77 0.15 0.08
Matches are distributed among these distances:
176 47 0.15
177 1 0.00
178 69 0.21
179 126 0.39
180 72 0.22
181 7 0.02
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (176 bp):
GTTTTTCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTT
CAATTTCGCTTTCTCAATTTATGTTTTTCCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGC
CTCAGGAACACGCTGAGGTATTTTCAATTTCTGCTTTCCAATTTAT
Found at i:2525559 original size:3 final size:3
Alignment explanation
Indices: 2525544--2525612 Score: 106
Period size: 3 Copynumber: 23.0 Consensus size: 3
2525534 GTTATTTTCA
2525544 TAT TAT TGA- TAT TAT TAT TAT TAT TAT TAT TATT TAT TA- TAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
2525589 TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT
2525613 GTGCTTTTGT
Statistics
Matches: 62, Mismatches: 0, Indels: 8
0.89 0.00 0.11
Matches are distributed among these distances:
2 3 0.05
3 55 0.89
4 4 0.06
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:2526257 original size:22 final size:23
Alignment explanation
Indices: 2526195--2526258 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 23
2526185 ATTATATGTG
* *
2526195 TATATATTATGTAAAATGTTTTAA
1 TATATATTATG-AATATGCTTTAA
2526219 TATTATATTAT-ATATATGCTTT-A
1 TA-TATATTATGA-ATATGCTTTAA
2526242 TATATATTATGAATATG
1 TATATATTATGAATATG
2526259 TATTTTCAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
22 13 0.37
23 5 0.14
24 9 0.26
25 8 0.23
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.52
Consensus pattern (23 bp):
TATATATTATGAATATGCTTTAA
Found at i:2531491 original size:46 final size:46
Alignment explanation
Indices: 2531425--2531687 Score: 422
Period size: 46 Copynumber: 5.7 Consensus size: 46
2531415 AGTGTGCTCT
2531425 CTGATAT-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
2531470 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
2531516 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
2531562 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ***
2531608 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
2531654 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGA
2531688 CACTATGACA
Statistics
Matches: 205, Mismatches: 11, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
45 8 0.04
46 197 0.96
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:2533987 original size:11 final size:11
Alignment explanation
Indices: 2533973--2534003 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
2533963 AAAAGAAAAG
2533973 AAAAAAAACAA
1 AAAAAAAACAA
2533984 AAAAAAAACAA
1 AAAAAAAACAA
2533995 AAAGAAAAA
1 AAA-AAAAA
2534004 AAGGGACAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.74
12 5 0.26
ACGTcount: A:0.90, C:0.06, G:0.03, T:0.00
Consensus pattern (11 bp):
AAAAAAAACAA
Found at i:2536357 original size:75 final size:74
Alignment explanation
Indices: 2536203--2536489 Score: 341
Period size: 75 Copynumber: 3.8 Consensus size: 74
2536193 ATTCTGATGC
* * * *
2536203 TTTT-ATTTCTG-T-TTCAAAAATTCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACG
1 TTTTAATTTCTGTTCTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
2536265 CTGAGGT-A
66 CTGAGGTAA
* *
2536273 TTTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGACA
1 TTTT-AATTTCTGTTCTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
2536338 CGCTGAGGTAA
64 CGCTGAGGTAA
* *
2536349 TTTTAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATG
1 TTTTAATTTCTGTTCTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
2536413 CTGAGGTAA
66 CTGAGGTAA
*
2536422 TTTCAATTTCTGTTTTCTTCAATTTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 TTTTAATTTCTG--TTCTTC-A--------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
2536487 CTC
55 CTC
2536490 GTCTCACATG
Statistics
Matches: 188, Mismatches: 11, Indels: 21
0.85 0.05 0.10
Matches are distributed among these distances:
70 4 0.02
72 7 0.04
73 65 0.35
74 3 0.02
75 66 0.35
76 5 0.03
85 38 0.20
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.34
Consensus pattern (74 bp):
TTTTAATTTCTGTTCTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
CTGAGGTAA
Found at i:2536406 original size:73 final size:73
Alignment explanation
Indices: 2536203--2536437 Score: 334
Period size: 73 Copynumber: 3.2 Consensus size: 73
2536193 ATTCTGATGC
* * *
2536203 TTTT-ATTTCTG--TTTCAAAAATTCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACG
1 TTTTAATTTCTGTTTTTCAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
2536265 CTGAGGT-A
65 CTGAGGTAA
* * *
2536273 TTTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGACA
1 TTTT-AATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
2536338 CGCTGAGGTAA
63 CGCTGAGGTAA
*
2536349 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGC
1 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
2536414 TGAGGTAA
66 TGAGGTAA
*
2536422 TTTCAATTTCTGTTTT
1 TTTTAATTTCTGTTTT
2536438 CTTCAATTTT
Statistics
Matches: 148, Mismatches: 10, Indels: 11
0.88 0.06 0.07
Matches are distributed among these distances:
70 4 0.03
72 7 0.05
73 68 0.46
74 3 0.02
75 56 0.38
76 10 0.07
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (73 bp):
TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
TGAGGTAA
Found at i:2536527 original size:14 final size:14
Alignment explanation
Indices: 2536508--2536542 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
2536498 TGCTGAGGTC
2536508 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
2536522 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
*
2536536 CTTTCAA
1 TTTTCAA
2536543 AAAAATCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.17, G:0.06, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:2536574 original size:91 final size:87
Alignment explanation
Indices: 2536349--2536764 Score: 384
Period size: 77 Copynumber: 5.0 Consensus size: 87
2536339 GCTGAGGTAA
*
2536349 TTTT-AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATG
1 TTTTCAATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACATG
2536413 CTGAGGTAATTTCAATTTCTGTT
65 CTGAGGTAATTTCAATTTCTGTT
*
2536436 TTCTTCAA-TT-T-TTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GTCTCAC
1 TT-TTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG---CAC
**
2536497 ATGCTGAGGTCTTTTCAATTTCTG-T
62 ATGCTGAGGTAATTTCAATTTCTGTT
*
2536522 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGT-TTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACA
* * *
2536587 CGCTGAGGAAATTTCAATTTATG-T
63 TGCTGAGGTAATTTCAATTTCTGTT
* ** * ** *
2536611 TTGTC-A---C-----AAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGGCACGC
1 TTTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACATGC
* *
2536667 TGAGGTATTTTCAATTTCTG-C
66 TGAGGTAATTTCAATTTCTGTT
* * *
2536688 TCTTCAA-----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACATGC
2536742 TGAGGTAATTTCAATTTCTGTT
66 TGAGGTAATTTCAATTTCTGTT
2536764 T
1 T
2536765 GTCAAGAATC
Statistics
Matches: 289, Mismatches: 26, Indels: 39
0.82 0.07 0.11
Matches are distributed among these distances:
75 64 0.22
76 1 0.00
77 65 0.22
78 1 0.00
84 1 0.00
85 48 0.17
86 5 0.02
87 28 0.10
88 6 0.02
89 31 0.11
91 38 0.13
92 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (87 bp):
TTTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACATGC
TGAGGTAATTTCAATTTCTGTT
Found at i:2536649 original size:77 final size:75
Alignment explanation
Indices: 2536523--2536800 Score: 411
Period size: 75 Copynumber: 3.7 Consensus size: 75
2536513 AATTTCTGTT
2536523 TTTCAATTTCTGTCTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTCAATTTCTGT-TTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
*
2536587 CGCTGAGGAAA
65 CGCTGAGGTAA
* * *
2536598 TTTCAATTTATGTTTGTCACAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGGC
1 TTTCAATTTCTGTTTGT--CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
*
2536663 ACGCTGAGGTAT
64 ACGCTGAGGTAA
*
2536675 TTTCAATTTCTGCTCT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTCAATTTCTG-TTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
2536739 CGCTGAGGTAA
65 CGCTGAGGTAA
* * *
2536750 TTTCAATTTCTGTTTGTC--AAGAATCAACTCATATTGCGAAAGGTGGGTTGA
1 TTTCAATTTCTGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
2536801 ACCTTTTAAT
Statistics
Matches: 184, Mismatches: 14, Indels: 12
0.88 0.07 0.06
Matches are distributed among these distances:
73 30 0.16
74 4 0.02
75 82 0.45
77 66 0.36
78 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.30
Consensus pattern (75 bp):
TTTCAATTTCTGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
GCTGAGGTAA
Found at i:2537085 original size:73 final size:73
Alignment explanation
Indices: 2536964--2537126 Score: 247
Period size: 73 Copynumber: 2.2 Consensus size: 73
2536954 CAATTAAGCC
*
2536964 TTTCAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTAAGCCTCGGGGCACG
1 TTTCAATTTCTGT-TTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTAAGCCTCAGGGCACG
2537029 CTGAGGTAT
65 CTGAGGTAT
* ** *
2537038 TTTCAATTGCTGTTTGTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
1 TTTCAATTTCTGTTT-TCAAAAAATCAACTCATATTGCGAGAAATGAGTTAAGCCTCAGGGCACG
*
2537102 TTGAGGTAT
65 CTGAGGTAT
2537111 TTTCAATTTCTGTTTT
1 TTTCAATTTCTGTTTT
2537127 AATTTCCATG
Statistics
Matches: 81, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
72 1 0.01
73 66 0.81
74 14 0.17
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.35
Consensus pattern (73 bp):
TTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTAAGCCTCAGGGCACGC
TGAGGTAT
Found at i:2537171 original size:159 final size:157
Alignment explanation
Indices: 2536804--2537725 Score: 642
Period size: 159 Copynumber: 5.5 Consensus size: 157
2536794 GGGTTGAACC
* * * * *
2536804 TTTTAATTTCTACTTTTTC-AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACG
1 TTTTAATTTC-A-TGTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTCAGGGCACG
** * ** *
2536868 CTGAGGTATTTTCAATTTTTGTGTT-T-TAATTTCAACTCATATTGCGAGAGGTGAGTTGAACCT
64 CTGAGGTATTTTCAATTGCTGT-TTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
* * *
2536931 CAGGTCACACGCCGAGGTATTTTCAATTAAGC-C
128 CAGG--ACACGCTGAGGTATTTTCAATT--TCTG
* * *
2536964 TTTCAATTTC-TGTCTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTAAGCCTCGGGGCAC
1 TTTTAATTTCATG--TTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTCAGGGCAC
2537028 GCTGAGGTATTTTCAATTGCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
63 GCTGAGGTATTTTCAATTGCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
* *
2537093 CAGGGCACGTTGAGGTATTTTCAATTTCTG
128 CAGGACACGCTGAGGTATTTTCAATTTCTG
* * *
2537123 TTTTAATTTCCATGTTTCAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAA-CCTCAGGTCAC
1 TTTTAATTT-CATGTTTCA-AAAATCAACTCATATTGCGAGAAGTGAGTT-AAGCCTCAGGGCAC
* * * * *
2537187 GATGAGGTATTTTTAATTTCCGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
63 GCTGAGGTATTTTCAATTGCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
* *
2537252 CAGGACATGCTGAGGTAATTTCAATTTCTG
128 CAGGACACGCTGAGGTATTTTCAATTTCTG
* *
2537282 TTTTCTCCAATTT-ATGTTTTTCAAAAATTAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGG
1 -TTT-T--AATTTCATG--TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTCAGGG
* * *
2537346 CACGCTGAGGTATTTTCGATTTCTGCTTTCCAATTTCTGCTCTTCAAAAAAATCAACTCGTATTG
60 CACGCTGAGGTATTTTC-A-AT-TGC--T----GTT-TG----TC--AAAAATCAACTCATATTG
* *
2537411 CGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTTTG
109 CGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTG
* ** * *
2537460 CTTTCCAATTTC-TGCCTTTCAAAAAAAAAAAAACTCATATCGCGA-AAGGTGAGTTGAGCCTCA
1 -TTT-TAATTTCATG--TTTC----AAAAATCAACTCATATTGCGAGAA-GTGAGTTAAGCCTCA
* * * * *
2537523 AGACACGCTGAGGTATTGTCAACTTTCGTTTCTTGATTTATGTTTTTCCAAAAATTAATTCATAT
57 GGGCACGCTGAGGTATTTTCAA--TT-G---C-TG--TT-TG----T-CAAAAATCAACTCATAT
* * *
2537588 TGCTAGAGGTGAATTGAGCCTCAGGACACGCTGAGGTATTGTCAACTTTC-G
107 TGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA-TTTCTG
* * * * * * *
2537639 TTTCTTAATTT-ATGTTTTTCCAAAATTTAATTCATATTGCTAGAGGTGAATTGAGCCTCAGGAT
1 -TT-TTAATTTCATG--TTT-CAAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTCAGG--
*
2537703 CACACGCTGAGGTATTTTCAATT
59 -GCACGCTGAGGTATTTTCAATT
2537726 AATGTTTTTT
Statistics
Matches: 619, Mismatches: 86, Indels: 97
0.77 0.11 0.12
Matches are distributed among these distances:
157 1 0.00
158 2 0.00
159 138 0.22
160 36 0.06
161 69 0.11
162 86 0.14
163 11 0.02
164 1 0.00
165 2 0.00
171 2 0.00
172 1 0.00
176 43 0.07
177 3 0.00
178 66 0.11
179 90 0.15
180 64 0.10
181 1 0.00
182 2 0.00
183 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (157 bp):
TTTTAATTTCATGTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTCAGGGCACGCT
GAGGTATTTTCAATTGCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
GACACGCTGAGGTATTTTCAATTTCTG
Found at i:2537232 original size:73 final size:74
Alignment explanation
Indices: 2537123--2537285 Score: 229
Period size: 73 Copynumber: 2.2 Consensus size: 74
2537113 TCAATTTCTG
* * * *
2537123 TTTTAATTTCCATGTTTCAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCACG
1 TTTTAATTTCCGTTTTTCAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACG
*
2537188 ATGAGGTAT
66 ATGAGGTAA
* *
2537197 TTTTAATTTCCGTTTTTCA-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATG
1 TTTTAATTTCCGTTTTTCAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACG
*
2537261 CTGAGGTAA
66 ATGAGGTAA
* *
2537270 TTTCAATTTCTGTTTT
1 TTTTAATTTCCGTTTT
2537286 CTCCAATTTA
Statistics
Matches: 79, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
73 62 0.78
74 17 0.22
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (74 bp):
TTTTAATTTCCGTTTTTCAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACG
ATGAGGTAA
Found at i:2537616 original size:88 final size:88
Alignment explanation
Indices: 2537208--2537788 Score: 584
Period size: 89 Copynumber: 6.5 Consensus size: 88
2537198 TTTAATTTCC
* * *
2537208 GTTTTT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATT
1 GTTTTTCCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTT
*
2537272 TCAATTTCTGTTTTCTCCAATTTAT
66 TCAATTTC-GCTTTCT-CAATTTAT
* *
2537297 GTTTTT-CAAAAATTAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTT
1 GTTTTTCCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTT
* *
2537361 TCGATTTCTGCTTTC-CAATTTCT
66 TCAATTTC-GCTTTCTCAATTTAT
* * * * * *
2537384 GCTCTTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATT
1 GTTTTTC-CAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATT
* *
2537449 TTCAATTTTTGCTTTC-CAATTTCT
65 TTCAA-TTTCGCTTTCTCAATTTAT
** * ** * * *
2537473 GCCTTTCAAAAAAAAAAAAACTCATATCGCGAAAGGTGAGTTGAGCCTCAAGACACGCTGAGGTA
1 GTTTTTC---CAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
* **
2537538 TTGTCAACTTTCG-TTTCTTGATTTAT
63 TTTTCAA-TTTCGCTTTCTCAATTTAT
* * * *
2537564 GTTTTTCCAAAAATTAATTCATATTGCTAGAGGTGAATTGAGCCTCAGGACACGCTGAGGTATTG
1 GTTTTTCCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTT
*
2537629 TCAACTTTCG-TTTCTTAATTTAT
66 TCAA-TTTCGCTTTCTCAATTTAT
* * * *
2537652 GTTTTTCCAAAATTTAATTCATATTGCTAGAGGTGAATTGAGCCTCAGGATCACACGCTGAGGTA
1 GTTTTTCCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTA
* *
2537717 TTTTCAATTAAT-GTTTTTTCAATTTAT
63 TTTTCAATT--TCGCTTTCTCAATTTAT
** * * *
2537744 ACTTTT-CAAGAATCAACTCATATTACGAGAGGTGAGTTGAGCCTC
1 GTTTTTCCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTC
2537789 GAGTCACATG
Statistics
Matches: 424, Mismatches: 56, Indels: 22
0.84 0.11 0.04
Matches are distributed among these distances:
87 11 0.03
88 119 0.28
89 148 0.35
90 9 0.02
91 121 0.29
92 16 0.04
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.36
Consensus pattern (88 bp):
GTTTTTCCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTT
TCAATTTCGCTTTCTCAATTTAT
Found at i:2537710 original size:179 final size:176
Alignment explanation
Indices: 2537208--2537788 Score: 586
Period size: 179 Copynumber: 3.3 Consensus size: 176
2537198 TTTAATTTCC
*
2537208 GTTTTT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATT
1 GTTTTTCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATT
* *
2537272 TCAATTTCTGTTTTCTCCAATTTATGTTTTT-CAAAAATTAACTCATATTGCGAGAAGTGAGTTG
65 TCAATTTC-GCTTTCT-CAATTTATGTTTTTCCAAAAATTAACTCATATTGCGAGAGGTGAGTTG
* * *
2537336 AGCCTCAGG-GCACGCTGAGGTATTTTCGATTTCTGCTTTCCAATTTCT
128 AGCCTCAGGAACACGCTGAGGTATTTTCAATTTCTGCTTTCCAATTTAT
* * * * *
2537384 GCTCTTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATT
1 GTTTTTC-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-T
* * ** * ** * *
2537449 TTCAATTTTTGCTTTC-CAATTTCTGCCTTTCAAAAAAAAAAAAACTCATATCGCGAAAGGTGAG
64 TTCAA-TTTCGCTTTCTCAATTTATGTTTTTC---CAAAAATTAACTCATATTGCGAGAGGTGAG
* * **
2537513 TTGAGCCTCAAG-ACACGCTGAGGTATTGTCAACTTTC-G-TTTCTTGATTTAT
125 TTGAGCCTCAGGAACACGCTGAGGTATTTTCAA-TTTCTGCTTTC-CAATTTAT
* * * *
2537564 GTTTTTCCAAAAATTAATTCATATTGCTAGAGGTGAATTGAGCCTCAGGACACGCTGAGGTATTG
1 GTTTTTCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATT-
* * * * *
2537629 TCAACTTTCG-TTTCTTAATTTATGTTTTTCCAAAATTTAATTCATATTGCTAGAGGTGAATTGA
65 TCAA-TTTCGCTTTCTCAATTTATGTTTTTCCAAAAATTAACTCATATTGCGAGAGGTGAGTTGA
** * *
2537693 GCCTCAGGATCACACGCTGAGGTATTTTCAATTAATGTTTTTTCAATTTAT
129 GCCTCAGGA--ACACGCTGAGGTATTTTCAATTTCTG-CTTTCCAATTTAT
** * *
2537744 ACTTTT-CAAGAATCAACTCATATTACGAGAGGTGAGTTGAGCCTC
1 GTTTTTCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
2537789 GAGTCACATG
Statistics
Matches: 324, Mismatches: 63, Indels: 33
0.77 0.15 0.08
Matches are distributed among these distances:
176 47 0.15
177 1 0.00
178 69 0.21
179 127 0.39
180 73 0.23
181 7 0.02
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.36
Consensus pattern (176 bp):
GTTTTTCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTT
CAATTTCGCTTTCTCAATTTATGTTTTTCCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGC
CTCAGGAACACGCTGAGGTATTTTCAATTTCTGCTTTCCAATTTAT
Found at i:2539405 original size:3 final size:3
Alignment explanation
Indices: 2539390--2539462 Score: 112
Period size: 3 Copynumber: 24.0 Consensus size: 3
2539380 GTTATTTTCA
*
2539390 TAT TAT TGA- TAT TAT TAT TAT TAT TAT TAT TATT TAT TAG TAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
2539436 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
2539463 GTGCTTTTGT
Statistics
Matches: 65, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
2 1 0.02
3 60 0.92
4 4 0.06
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:2540107 original size:22 final size:23
Alignment explanation
Indices: 2540045--2540108 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 23
2540035 ATTATATGTG
* *
2540045 TATATATTATGTAAAATGTTTTAA
1 TATATATTATG-AATATGCTTTAA
2540069 TATTATATTAT-ATATATGCTTT-A
1 TA-TATATTATGA-ATATGCTTTAA
2540092 TATATATTATGAATATG
1 TATATATTATGAATATG
2540109 TATTTTCAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
22 13 0.37
23 5 0.14
24 9 0.26
25 8 0.23
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.52
Consensus pattern (23 bp):
TATATATTATGAATATGCTTTAA
Found at i:2543772 original size:23 final size:23
Alignment explanation
Indices: 2543742--2543788 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
2543732 ATTCTTTATC
2543742 TAAGGCATTCATTGAAAGGGATT
1 TAAGGCATTCATTGAAAGGGATT
2543765 TAAGGCATTCATTGAAAGGGATT
1 TAAGGCATTCATTGAAAGGGATT
2543788 T
1 T
2543789 CCTTTTCCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.09, G:0.26, T:0.32
Consensus pattern (23 bp):
TAAGGCATTCATTGAAAGGGATT
Found at i:2544903 original size:29 final size:30
Alignment explanation
Indices: 2544862--2544928 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 30
2544852 TAAATTTTAA
*
2544862 AATTATAT-ATG-AACTTTGATT-TGGTCC
1 AATTATATAATGAAACTCTGATTGTGGTCC
*
2544889 AATTATATACATGAAACTCTGATTGTGGTTC
1 AATTATATA-ATGAAACTCTGATTGTGGTCC
*
2544920 AAATATATA
1 AATTATATA
2544929 TATATATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 8 0.24
29 3 0.09
30 9 0.27
31 13 0.39
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.40
Consensus pattern (30 bp):
AATTATATAATGAAACTCTGATTGTGGTCC
Found at i:2548147 original size:17 final size:17
Alignment explanation
Indices: 2548125--2548178 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
2548115 TTTTAGTATT
2548125 AAATAAACTCAGTATAA
1 AAATAAACTCAGTATAA
* * *
2548142 AAATAAATTTTAGTAT-T
1 AAATAAA-CTCAGTATAA
2548159 AAATAAACTCAGTATAA
1 AAATAAACTCAGTATAA
2548176 AAA
1 AAA
2548179 AAGCTAGTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
16 6 0.21
17 17 0.59
18 6 0.21
ACGTcount: A:0.57, C:0.07, G:0.06, T:0.30
Consensus pattern (17 bp):
AAATAAACTCAGTATAA
Found at i:2548155 original size:34 final size:34
Alignment explanation
Indices: 2548112--2548178 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
2548102 TACAATGTGC
2548112 AAATTTTAGTATTAAATAAACTCAGTATAAAAAT
1 AAATTTTAGTATTAAATAAACTCAGTATAAAAAT
2548146 AAATTTTAGTATTAAATAAACTCAGTATAAAAA
1 AAATTTTAGTATTAAATAAACTCAGTATAAAAA
2548179 AAGCTAGTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.34
Consensus pattern (34 bp):
AAATTTTAGTATTAAATAAACTCAGTATAAAAAT
Found at i:2548199 original size:34 final size:34
Alignment explanation
Indices: 2548118--2548189 Score: 105
Period size: 34 Copynumber: 2.2 Consensus size: 34
2548108 GTGCAAATTT
**
2548118 TAGTATTAAATAAACTCAGTATAAAAATAAATTT
1 TAGTATTAAATAAACTCAGTATAAAAATAAATGC
2548152 TAGTATTAAATAAACTCAGTAT-AAAA-AAA-GC
1 TAGTATTAAATAAACTCAGTATAAAAATAAATGC
2548183 TAGTATT
1 TAGTATT
2548190 GGTAAATAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
31 7 0.19
32 3 0.08
33 4 0.11
34 22 0.61
ACGTcount: A:0.51, C:0.07, G:0.08, T:0.33
Consensus pattern (34 bp):
TAGTATTAAATAAACTCAGTATAAAAATAAATGC
Found at i:2557845 original size:53 final size:52
Alignment explanation
Indices: 2557782--2557885 Score: 199
Period size: 53 Copynumber: 2.0 Consensus size: 52
2557772 AATACTAGGC
2557782 ATACCTCCACACAAACATTGTATTTGATGCTCTCGTGTACTATCATCCTCGCA
1 ATACCTCCACACAAACATTGTATTTGATGCTCTCGTGTAC-ATCATCCTCGCA
2557835 ATACCTCCACACAAACATTGTATTTGATGCTCTCGTGTACATCATCCTCGC
1 ATACCTCCACACAAACATTGTATTTGATGCTCTCGTGTACATCATCCTCGC
2557886 TATATGATTT
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 11 0.22
53 40 0.78
ACGTcount: A:0.26, C:0.31, G:0.12, T:0.32
Consensus pattern (52 bp):
ATACCTCCACACAAACATTGTATTTGATGCTCTCGTGTACATCATCCTCGCA
Found at i:2558731 original size:10 final size:10
Alignment explanation
Indices: 2558712--2558741 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
2558702 ATTTTACTAT
2558712 TATATATATG
1 TATATATATG
*
2558722 TATATGTATG
1 TATATATATG
2558732 TATATATATG
1 TATATATATG
2558742 CTTCAGTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (10 bp):
TATATATATG
Found at i:2561816 original size:19 final size:19
Alignment explanation
Indices: 2561792--2561832 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
2561782 CTTACTCCTC
2561792 ACAAAACAAAAAAAAAAAA
1 ACAAAACAAAAAAAAAAAA
**
2561811 ACAAAACAAAACTAAAAAA
1 ACAAAACAAAAAAAAAAAA
2561830 ACA
1 ACA
2561833 GTCTTGTCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.83, C:0.15, G:0.00, T:0.02
Consensus pattern (19 bp):
ACAAAACAAAAAAAAAAAA
Found at i:2561827 original size:6 final size:5
Alignment explanation
Indices: 2561792--2561832 Score: 50
Period size: 5 Copynumber: 8.6 Consensus size: 5
2561782 CTTACTCCTC
* *
2561792 ACAAA ACAAA A-AAA AAAAA ACAAA ACAAA ACTAA A-AAA ACA
1 ACAAA ACAAA ACAAA ACAAA ACAAA ACAAA ACAAA ACAAA ACA
2561833 GTCTTGTCTG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
4 7 0.23
5 24 0.77
ACGTcount: A:0.83, C:0.15, G:0.00, T:0.02
Consensus pattern (5 bp):
ACAAA
Found at i:2566010 original size:88 final size:87
Alignment explanation
Indices: 2565843--2566017 Score: 323
Period size: 87 Copynumber: 2.0 Consensus size: 87
2565833 AATTTGGATT
*
2565843 AGTACGAATTTAAATTAAAGGTTTATATGTTAAAAAGTCCTTAAGAAATTGCAAAAAATCAATTA
1 AGTACGAATTTAAATTAAAGGTTTATATGTTAAAAAATCCTTAAGAAATTGCAAAAAATCAATTA
2565908 AGCCCTTATATTAAATTCTCAC
66 AGCCCTTATATTAAATTCTCAC
*
2565930 AGTACGAATTTAAATTAAAGGTTTATATGTTAAAAAATCCTTAAGAAATTGTAAAAAGATCAATT
1 AGTACGAATTTAAATTAAAGGTTTATATGTTAAAAAATCCTTAAGAAATTGCAAAAA-ATCAATT
2565995 AAGCCCTTATATTAAATTCTCAC
65 AAGCCCTTATATTAAATTCTCAC
2566018 CTAATTAAGC
Statistics
Matches: 85, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
87 55 0.65
88 30 0.35
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.34
Consensus pattern (87 bp):
AGTACGAATTTAAATTAAAGGTTTATATGTTAAAAAATCCTTAAGAAATTGCAAAAAATCAATTA
AGCCCTTATATTAAATTCTCAC
Found at i:2566074 original size:13 final size:13
Alignment explanation
Indices: 2566052--2566081 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2566042 AAAAAATCAA
*
2566052 TTAACTCCCTTCG
1 TTAACACCCTTCG
2566065 TTAACACCCTTCG
1 TTAACACCCTTCG
2566078 TTAA
1 TTAA
2566082 TAGTTTTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.33, G:0.07, T:0.37
Consensus pattern (13 bp):
TTAACACCCTTCG
Found at i:2566554 original size:1 final size:1
Alignment explanation
Indices: 2566506--2566539 Score: 50
Period size: 1 Copynumber: 34.0 Consensus size: 1
2566496 AACCTAACCC
* *
2566506 AAAAAAAAAACAAAAAAAAAAAAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2566540 CTTACCCCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.94, C:0.03, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:2566554 original size:16 final size:15
Alignment explanation
Indices: 2566535--2566569 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
2566525 AAAAAAAAAG
* *
2566535 AAAAACTTACCCCAA
1 AAAAACCTAACCCAA
2566550 AAAAACCTAACCCAA
1 AAAAACCTAACCCAA
2566565 AAAAA
1 AAAAA
2566570 AAAGAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.63, C:0.29, G:0.00, T:0.09
Consensus pattern (15 bp):
AAAAACCTAACCCAA
Found at i:2567448 original size:20 final size:19
Alignment explanation
Indices: 2567421--2567466 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 19
2567411 ATTATATGCA
*
2567421 TATATATATATATATGTATTTT
1 TATATACATAT-TAT-TA-TTT
2567443 TATATACATATTATTATTT
1 TATATACATATTATTATTT
2567462 TATAT
1 TATAT
2567467 TATTATTACC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 8 0.35
20 2 0.09
21 3 0.13
22 10 0.43
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (19 bp):
TATATACATATTATTATTT
Found at i:2569164 original size:12 final size:12
Alignment explanation
Indices: 2569147--2569182 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
2569137 ATTCATTTGA
2569147 CATTCATGCATT
1 CATTCATGCATT
2569159 CATTCATGCATT
1 CATTCATGCATT
*
2569171 CATTCATACATT
1 CATTCATGCATT
2569183 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:2574674 original size:69 final size:68
Alignment explanation
Indices: 2574467--2574727 Score: 269
Period size: 69 Copynumber: 3.7 Consensus size: 68
2574457 GAGTTAAGCC
* *
2574467 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGGGTGAGTTGAGCCTCGGGGC-ACGCT
1 TTTTAATTTTTG--TTT-AAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTC-GGGCAACGCT
2574531 GAGGTAT
62 GAGGTAT
* ** ** *
2574538 TTTCAATTTTTGTGTTTTAATCAAACTCATATTGCGAGAGATGAGTTGAGCCTCAAG-ACACGTT
1 TTTTAATTTTTGT-TTAAAATC-AACTCATATTGCGAGAG-TGAGTTGAGCCTCGGGCA-ACGCT
2574602 GAGGTAT
62 GAGGTAT
2574609 TTTTAA-TTTTGTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCAACGCTGA
1 TTTTAATTTTTGTTT-AAAATCAACTCATATTGCGAG-AGTGAGTTGAGCCTCGGGCAACGCTGA
2574673 GGTA-
64 GGTAT
* * * ** *
2574677 TTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 TTTTAATTTTTGTTTAAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCT
2574728 TTAATTTTTT
Statistics
Matches: 160, Mismatches: 20, Indels: 23
0.79 0.10 0.11
Matches are distributed among these distances:
67 1 0.01
68 35 0.22
69 53 0.33
70 31 0.19
71 40 0.25
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (68 bp):
TTTTAATTTTTGTTTAAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTCGGGCAACGCTGAGG
TAT
Found at i:2574762 original size:260 final size:253
Alignment explanation
Indices: 2574300--2574886 Score: 989
Period size: 260 Copynumber: 2.3 Consensus size: 253
2574290 CTTTTCAGAA
2574300 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTGTTGT
1 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATT-TTG-
2574365 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGT
64 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGT
2574430 TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
129 TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
2574495 CATATTGCTAGGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
194 CATATTGCTA-GGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
2574556 AATCAAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTGT
1 AATC-AACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTGT
2574621 TTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGG-CAACGCTGAGGTATTTTAGTT
65 TTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGAC-ACGCTGAGGTA--TT--TT
2574685 TATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCC-TTTAATTTTTTGTTTTTCAAAA
125 TA-GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAA-TTTTTGTTTTTCAAAA
2574749 TCAACTCATATTGCTAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTT
188 TCAACTCATATTGCTAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTT
2574814 T
253 T
* * * * *
2574815 AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCT
1 AA--TCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTT-T
2574880 GTTTCAA
63 GTTTCAA
2574887 TTTACGTTGT
Statistics
Matches: 315, Mismatches: 5, Indels: 17
0.93 0.01 0.05
Matches are distributed among these distances:
254 1 0.00
255 55 0.17
256 7 0.02
257 58 0.18
259 61 0.19
260 123 0.39
261 10 0.03
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.37
Consensus pattern (253 bp):
AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTGTT
TCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGTTT
TAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACTCA
TATTGCTAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
Found at i:2574779 original size:119 final size:123
Alignment explanation
Indices: 2574620--2574850 Score: 346
Period size: 119 Copynumber: 1.9 Consensus size: 123
2574610 TTTAATTTTG
2574620 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGCAACGCTGAGGTATTTT-A-
1 TTTCAAAATCAACTCATATTGCGAG-AGTGAGTTGAGCCTCGGGGC-ACGCTGAGGTATTTTAAT
*
2574682 GTTTATGTTTTAAATT-GACTCATATTGCGAGAGGTGAGTTAAGCCTTTAATTTTTTGTT
64 GTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCCTTTAATTTTTTGTT
* *
2574741 TTTCAAAATCAACTCATATTGCTAG-GTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATT
1 TTTCAAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTT-AATG
* * *
2574805 TTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCT
65 TTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCCT
2574851 CAGGTCACGC
Statistics
Matches: 99, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
119 29 0.29
120 4 0.04
121 25 0.25
122 13 0.13
123 28 0.28
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (123 bp):
TTTCAAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTAATGT
TTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCCTTTAATTTTTTGTT
Found at i:2574863 original size:191 final size:199
Alignment explanation
Indices: 2574556--2575056 Score: 555
Period size: 210 Copynumber: 2.5 Consensus size: 199
2574546 TTTGTGTTTT
* * *
2574556 AATCAAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAA--TTT-
1 AATC-AACTCATATTGCGAG-G-TGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTTG
*
2574618 TGTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCAACGCTGAGGTATTTT-A
63 TGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCAACGCTGAGGTATTTTAA
** * *
2574682 -GTTT-A-T-GTT-TT-A-AATTGACTCATATTGCGAGAGGTGAGTT-AAGCC-TTTAATTTTTT
128 TGTTTAATTAGTTGTTAAGAATCAACTCATATTGCGAGAGGTG-GTTGAA-CCTTTTAATTTCTA
*
2574738 GTTTTTCAA
191 CTTTTTCAA
* * *
2574747 AATCAACTCATATTGCTAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGT
1 AATCAACTCATATTGCGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTTGTGT
* ** *
2574812 TTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTC-ACGCTGAGGTATTTTCAAT
66 TTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGCAACGCTGAGGTATTTT-AA-
2574876 TTCTGTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGTTGAACCTTTTAAT
128 ---TGTTT-AA-TTA-GTTGTT-AAGAATCAACTCATATTGCGAGAGGTGGTTGAACCTTTTAAT
2574941 TTCTACTTTTTCAA
186 TTCTACTTTTTCAA
* * *
2574955 AATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
1 AATCAACTCATATTGC--GAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTTGT
*
2575020 -TTGTCAAAATCAACTCATATTGCGAGAGGTGGGTTGA
64 GTT-TCAAAATCAACTCATATTGCGAGAGGTGAGTTGA
2575057 ACCTTTTAAT
Statistics
Matches: 258, Mismatches: 26, Indels: 33
0.81 0.08 0.10
Matches are distributed among these distances:
188 31 0.12
189 1 0.00
190 17 0.07
191 58 0.22
192 3 0.01
193 1 0.00
198 4 0.02
200 1 0.00
202 1 0.00
204 3 0.01
205 2 0.01
207 6 0.02
208 56 0.22
209 2 0.01
210 72 0.28
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (199 bp):
AATCAACTCATATTGCGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTTGTGT
TTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCAACGCTGAGGTATTTTAATGT
TTAATTAGTTGTTAAGAATCAACTCATATTGCGAGAGGTGGTTGAACCTTTTAATTTCTACTTTT
TCAA
Found at i:2574889 original size:70 final size:69
Alignment explanation
Indices: 2574749--2574889 Score: 203
Period size: 72 Copynumber: 2.0 Consensus size: 69
2574739 TTTTTCAAAA
* * *
2574749 TCAACTCATATTGCTAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTT
1 TCAACTCATATTGCGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAA-TTTTCTGTTT
*
2574814 TAATT
65 CAATT
*
2574819 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAA-TTTCTGTT
1 TCAACTCATATTGC--GAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTTCTGTT
2574883 TCAATT
64 TCAATT
2574889 T
1 T
2574890 ACGTTGTTCA
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
70 27 0.42
72 37 0.58
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.38
Consensus pattern (69 bp):
TCAACTCATATTGCGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTTCTGTTTC
AATT
Found at i:2575051 original size:125 final size:126
Alignment explanation
Indices: 2574881--2575145 Score: 459
Period size: 125 Copynumber: 2.1 Consensus size: 126
2574871 TCAATTTCTG
2574881 TTTCAATTTAC-G-TTGTTCAAGAATCAACTCATATTGCGAGAGGT-GGTTGAACCTTTTAATTT
1 TTTCAATTT-CTGTTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTT
2574943 CTACTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
65 CTACTTTTTCAAAATCA-CTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACGCTGAGGTAA
2575007 TTTCAATTTCTGTTTG-TCAA-AATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTC
1 TTTCAATTTCTGTTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTC
*
2575070 TACTTTTTCAAAATCACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACGCTGAGGTAT
66 TACTTTTTCAAAATCACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACGCTGAGGTAA
2575131 TTTCAATTTCTGTTT
1 TTTCAATTTCTGTTT
2575146 TCTTAATTTA
Statistics
Matches: 135, Mismatches: 1, Indels: 8
0.94 0.01 0.06
Matches are distributed among these distances:
124 27 0.20
125 56 0.41
126 49 0.36
127 3 0.02
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.36
Consensus pattern (126 bp):
TTTCAATTTCTGTTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTC
TACTTTTTCAAAATCACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACGCTGAGGTAA
Found at i:2575230 original size:14 final size:14
Alignment explanation
Indices: 2575211--2575245 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
2575201 CGCCGAGGTA
2575211 TTTTCAATTTCCGT
1 TTTTCAATTTCCGT
*
2575225 TTTTCAATTTCTGT
1 TTTTCAATTTCCGT
*
2575239 CTTTCAA
1 TTTTCAA
2575246 AAAAAAATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.17, C:0.20, G:0.06, T:0.57
Consensus pattern (14 bp):
TTTTCAATTTCCGT
Found at i:2575352 original size:74 final size:76
Alignment explanation
Indices: 2575226--2575387 Score: 222
Period size: 74 Copynumber: 2.1 Consensus size: 76
2575216 AATTTCCGTT
* *
2575226 TTTCAATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-A
1 TTTCAATTTCTGTCTGTC-AAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCA
*
2575290 CACGCTGAGGTAA
65 CACGCCGA-GTAA
* *
2575303 TTTCAATTTCTGT-TGTC-AAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCA
1 TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CA
*
2575366 CACGCCGAGTAT
65 CACGCCGAGTAA
2575378 TTTCAATTTC
1 TTTCAATTTC
2575388 CGTTTTTCAA
Statistics
Matches: 77, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
74 40 0.52
75 13 0.17
76 11 0.14
77 13 0.17
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (76 bp):
TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCAC
ACGCCGAGTAA
Found at i:2575365 original size:167 final size:167
Alignment explanation
Indices: 2575079--2575721 Score: 989
Period size: 164 Copynumber: 3.9 Consensus size: 167
2575069 CTACTTTTTC
*
2575079 AAAATC-ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACGCTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
*
2575142 GTTTTCTTAATTTAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGA
66 GTTGTC--AA---AAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGA
*
2575207 GGTATTTTCAATTTCCGTTTTTCAATTTCTGTCTTTCAAAAA
126 GGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAAA
2575249 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
*
2575314 GTTGTCAAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGA-GTAT
66 GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTAT
*
2575378 TTTCAATTTCCGTTTTTCAATTTTTGCCTTTC--AAA
131 TTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAAA
2575413 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* * * *
2575478 GTTGTCAAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAT
66 GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTAT
*
2575543 TTTCAATTTCCATTTTTCAATTTCTGCCTTTCAAAAA
131 TTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAAA
*
2575580 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* * * *** * **
2575645 GTTTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG--ACACGTTGAGGTAT
66 GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTAT
*
2575706 TTTCAATTTCTGTTTT
131 TTTCAATTTCCGTTTT
2575722 CAAAAAATCA
Statistics
Matches: 445, Mismatches: 23, Indels: 17
0.92 0.05 0.04
Matches are distributed among these distances:
163 27 0.06
164 123 0.28
165 69 0.16
166 34 0.08
167 123 0.28
170 8 0.02
171 33 0.07
172 28 0.06
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.33
Consensus pattern (167 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTAT
TTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAAA
Found at i:2575507 original size:331 final size:328
Alignment explanation
Indices: 2575079--2575721 Score: 1004
Period size: 331 Copynumber: 1.9 Consensus size: 328
2575069 CTACTTTTTC
*
2575079 AAAATCACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACGCTGAGGTATTTTCAATTTCTGT
1 AAAATCACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACGCTGAGGTAATTTCAATTTCTGT
* *
2575144 TTTCTTAATTTAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGG
66 TGTC-TAA--TAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGATCACACGCCGAGG
* *
2575209 TATTTTCAATTTCCGTTTTTCAATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGT
128 TATTTTCAATTTCCATTTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGT
*
2575274 GAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATT
193 GAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTC--AAAAATCAACTCATATT
*** *
2575339 GCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGA-GTATTTTCAATTTCCGTTTTTCAATTTTT
256 GCGAGAAACGAGTTGAGCCTCAAG--ACACGCCGAGGTATTTTCAATTTCCGTTTTTCAATTTTT
2575403 GCCTTTCAAA
319 GCCTTTCAAA
2575413 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATC-ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACGCTGAGGTAATTTCAATTTCT
* * *
2575478 GTTGTC-AA-AAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGT
64 GTTGTCTAATAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGATCACACGCCGAGGT
2575541 ATTTTCAATTTCCATTTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTG
129 ATTTTCAATTTCCATTTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTG
* * *
2575606 AGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCG
194 AGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAATCAACTCATATTGCG
* ** *
2575671 AGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTT
259 AGAAACGAGTTGAGCCTCAAGACACGCCGAGGTATTTTCAATTTCCGTTTT
2575722 CAAAAAATCA
Statistics
Matches: 286, Mismatches: 20, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
327 7 0.02
328 19 0.07
329 34 0.12
331 157 0.55
334 8 0.03
335 33 0.12
336 28 0.10
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.33
Consensus pattern (328 bp):
AAAATCACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACGCTGAGGTAATTTCAATTTCTGT
TGTCTAATAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGATCACACGCCGAGGTAT
TTTCAATTTCCATTTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAG
TTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAATCAACTCATATTGCGAG
AAACGAGTTGAGCCTCAAGACACGCCGAGGTATTTTCAATTTCCGTTTTTCAATTTTTGCCTTTC
AAA
Found at i:2575514 original size:74 final size:76
Alignment explanation
Indices: 2575408--2576081 Score: 292
Period size: 77 Copynumber: 8.5 Consensus size: 76
2575398 TTTTTGCCTT
*
2575408 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACG-CTGAGGTAATTT
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTC-GAGGTAATTT
2575470 CAATTTCTGTTG
65 CAATTTCTGTTG
* * *
2575482 TCAAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTATTTTC
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAATTTC
*
2575547 AATTTCCAT-TTT
66 AATTT-C-TGTTG
* * * * * *
2575559 TCAATTTCTGCCTTTCAAAAA-AAAATCA-ACT-CATATTGCGAGAGGTGAGTTGAGCCTC-G-G
1 TCAA------------AAAAATCAACTCATATTGC-GA--GAG----GTGAGTTGAGCCTCAGAT
* *
2575619 GACACG-CTGAGGTAATTTCAATTTCTGTTT
47 CACACGTC-GAGGTAATTTCAATTTCTGTTG
* ** * * *
2575649 TC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-GACACGTTGAGGTATTTTC
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAATTTC
*
2575710 AATTTCTGTTT
66 AATTTCTGTTG
* ** * ** * *
2575721 TC-AAAAAATCAACT-ATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCG-CTGAGCTATTTT
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTC-GAGGTAATTT
* *
2575783 CAATTTCTATCTT
65 CAATTTCTGT-TG
* * *
2575796 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACAC-ACTGAGGTATTTT
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTC-GAGGTA--AT
* * *
2575860 TTCAATTTATATTT
63 TTCAATTTCTGTTG
* * * * * * *
2575874 TC-AAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATGTCGAGGTATTTTC
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAATTTC
** *
2575938 AAAATCTGTTTT
66 AATTTCTG-TTG
* * * *
2575950 TCAAATTCTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT-TG-GCTCACGTGC
1 TCAAA----------AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGT-C
* * *
2576013 TGAGCTATTTTCAATTTCTGTTTTTTTTT
55 -GAGGTAATTTCAATTTCTG------TTG
2576042 TCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 TCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
2576082 TTTTTAATTT
Statistics
Matches: 467, Mismatches: 70, Indels: 117
0.71 0.11 0.18
Matches are distributed among these distances:
72 64 0.14
73 10 0.02
74 63 0.13
75 13 0.03
76 42 0.09
77 97 0.21
78 9 0.02
79 14 0.03
82 4 0.01
83 29 0.06
85 4 0.01
86 3 0.01
87 53 0.11
88 4 0.01
89 7 0.01
90 7 0.01
91 20 0.04
92 10 0.02
93 14 0.03
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.34
Consensus pattern (76 bp):
TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAATTTC
AATTTCTGTTG
Found at i:2575680 original size:72 final size:73
Alignment explanation
Indices: 2575578--2576081 Score: 411
Period size: 72 Copynumber: 6.5 Consensus size: 73
2575568 GCCTTTCAAA
*
2575578 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
*
2575643 CTGTTTTC
66 CTATTTTC
* ** ** *
2575651 -AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
*
2575715 CTGTTTTC
66 CTATTTTC
* * ** *
2575723 AAAAAATCAACT-ATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA--CGCTGAGGTATTTTCAAT
2575787 TTCTATCTTTC
64 TTCTAT-TTTC
* ** *
2575798 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GGACACGCTGAGGTA--TTTTC
*
2575863 AATTTATATTTTC
61 AATTTCTATTTTC
* * *
2575876 AAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG--ACACGCT-GAGGTATTTTCAA
** *
2575940 AATCTGTTTTTC
63 TTTCT-ATTTTC
* * **
2575952 AAATTCTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAG
1 -AA----------AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACAC--GCTGAG
* *
2576017 CTATTTTCAATTTCTGTTTTTTTTTTC
53 GTATTTTCAATTTC------TATTTTC
2576044 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 -AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
2576082 TTTTTAATTT
Statistics
Matches: 348, Mismatches: 48, Indels: 60
0.76 0.11 0.13
Matches are distributed among these distances:
72 89 0.26
73 10 0.03
74 21 0.06
75 13 0.04
76 19 0.05
77 78 0.22
78 5 0.01
79 16 0.05
82 4 0.01
83 29 0.08
85 2 0.01
87 51 0.15
88 1 0.00
92 9 0.03
93 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.34
Consensus pattern (73 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
CTATTTTC
Found at i:2575818 original size:77 final size:75
Alignment explanation
Indices: 2575556--2576288 Score: 411
Period size: 87 Copynumber: 9.2 Consensus size: 75
2575546 CAATTTCCAT
* * **
2575556 TTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGA
1 TTTTCAATTTCTG-TTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCT
2575621 CA-CGCTGAGGTA
63 CAGCGCTGAGGTA
* * ** ** *
2575633 ATTTCAATTTCTGTTTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG-ACA
1 TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCA
*
2575695 -CGTTGAGGTA
65 GCGCTGAGGTA
*
2575705 TTTTCAATTTCTGTTTTC-AAAAAATCAACT-ATATTGCGAGAGGTGAGTTGACCCTTGGCTCAT
1 TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCA-
*
2575768 GCGCTGAGCTA
65 GCGCTGAGGTA
* * *
2575779 TTTTCAATTTCTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGATC
1 TTTTCAATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGCTC
* *
2575843 ACACACTGAGGTA
64 A-GCGCTGAGGTA
* * * * * *
2575856 TTTTTTCAATTTATATTTTC-AAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTT
1 --TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCT
*
2575920 ACA-TG-TCGAGGTA
63 -CAGCGCT-GAGGTA
** *
2575933 TTTTCAAAATCTGTTTTTCAAATTCTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAG
1 TTTTCAATTTCTG-TTTTCAAA----------AAAATCAACTCATATTGCGAGAGGTGAGTTGAG
* *
2575998 CCTTGGCTCACGTGCTGAGCTA
55 CCTTGGCTCA-GCGCTGAGGTA
2576020 TTTTCAATTTCTGTTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTT
1 TTTTCAATTTCTG------TTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC---
* ** * * *
2576085 TTAATTTCTGCGAGAGTTGAGTTGA
56 CT--TGGCT-C-AGCGCTGAGGT-A
* * ***
2576110 GTCTTTTAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCCCAG-T
1 -T-TTTCAATTTCTG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCT
**
2576172 CA-CATATCGAGGTA
63 CAGC-GCT-GAGGTA
**
2576186 TTTTCAAAATCTGCTTTTCAAGTTAAGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
1 TTTTCAATTTCTG-TTTTC------A-----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
2576251 GCCTTGGCTCACGCGCTGA-G-A
54 GCCTTGGCTCA-GCGCTGAGGTA
2576272 TTTTCAATTTCTGTTTT
1 TTTTCAATTTCTGTTTT
2576289 TAATGTCTGT
Statistics
Matches: 517, Mismatches: 75, Indels: 120
0.73 0.11 0.17
Matches are distributed among these distances:
71 1 0.00
72 87 0.17
73 11 0.02
74 35 0.07
75 14 0.03
76 28 0.05
77 91 0.18
78 9 0.02
79 15 0.03
82 4 0.01
83 29 0.06
84 29 0.06
85 11 0.02
86 16 0.03
87 95 0.18
88 9 0.02
89 9 0.02
90 3 0.01
91 1 0.00
92 20 0.04
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (75 bp):
TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCAG
CGCTGAGGTA
Found at i:2575952 original size:14 final size:13
Alignment explanation
Indices: 2575933--2575970 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
2575923 TGTCGAGGTA
2575933 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
2575946 TTTTTCAAATTCTG
1 -TTTTCAAAATCTG
2575960 TTTTCAAAATC
1 TTTTCAAAATC
2575971 AACTCATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.29, C:0.16, G:0.05, T:0.50
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:2575952 original size:154 final size:149
Alignment explanation
Indices: 2575578--2575954 Score: 444
Period size: 154 Copynumber: 2.5 Consensus size: 149
2575568 GCCTTTCAAA
* *
2575578 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-ACACGCTGAGGTAATTTCAATT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTACATGCTGAGGTATTTTCAATT
* * **
2575642 TCTG-TTTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
66 TCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAACACACACTGAGGT
* *
2575704 ATTTTCAATTTCTGTTTTC
131 ATTTTCAATTTATATTTTC
* * * *
2575723 AAAAAATCAACT-ATATTGCGAGAGGTGAGTTGACCCTTGGCT-CATGCGCTGAGCTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTACAT--GCTGAGGTATTTTCAA
* * ** *
2575786 TTTCTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTG
64 TTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-CACACACTG
2575851 AGGTATTTTTTCAATTTATATTTTC
127 AGGTA--TTTTCAATTTATATTTTC
* *
2575876 AAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-TACATGCT-GAGGTATTTTCAA
**
2575940 AATCTGTTTTTCAAA
64 TTTCTGTTTTTCAAA
2575955 TTCTGTTTTC
Statistics
Matches: 191, Mismatches: 27, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
144 28 0.15
145 12 0.06
146 19 0.10
147 4 0.02
149 35 0.18
150 1 0.01
151 11 0.06
153 29 0.15
154 48 0.25
155 1 0.01
156 3 0.02
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.33
Consensus pattern (149 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTACATGCTGAGGTATTTTCAATT
TCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAACACACACTGAGGT
ATTTTCAATTTATATTTTC
Found at i:2576099 original size:30 final size:30
Alignment explanation
Indices: 2576063--2576124 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
2576053 CAACTCATAT
2576063 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
2576093 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
2576123 TG
1 TG
2576125 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:2576248 original size:254 final size:248
Alignment explanation
Indices: 2575717--2576289 Score: 717
Period size: 254 Copynumber: 2.3 Consensus size: 248
2575707 TTCAATTTCT
* *
2575717 GTTTTCAAAAAATCAACT-ATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
*
2575781 TTCAATTTC-----TATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGA
66 TTCAATTTCTGTTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGA
* *
2575841 TCACACACTGAGGTATTTTTTCAATTTATATTTTCAAAAAATCAACTCACATTGCGAGATGTGAG
131 TCACACACTGAGGTATCTTTTCAATTTATATTTTCAAAAAATCAACTCACATTGCGAGAGGTGAG
* ** * * * **
2575906 TTGAGCCTCGGGTTACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAATTCT
196 TTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAATTAA
* *
2575959 GTTTTC--AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
* *
2576022 TTCAATTTCTGTTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTT
66 TTCAATTTCTGTTTTTTCTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--TTC
* * * * * * *
2576087 A-ATTTCTGCGAGAGTTGAGTTGAGTCTTTT-AATTTCTGTTTTTC-AAAAATCAACTCATATTG
128 AGA--TC-AC-ACA-CTGAGGT-A-TCTTTTCAATTTAT-ATTTTCAAAAAATCAACTCACATTG
*
2576149 CGAGAGGTGAGTTGAACC-CCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAGTTAA
185 CGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAATTAA
2576212 G-TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAG--ATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
2576274 TTCAATTTCTGTTTTT
66 TTCAATTTCTGTTTTT
2576290 AATGTCTGTT
Statistics
Matches: 285, Mismatches: 27, Indels: 28
0.84 0.08 0.08
Matches are distributed among these distances:
240 10 0.04
241 51 0.18
242 6 0.02
246 13 0.05
247 30 0.11
248 1 0.00
249 3 0.01
250 2 0.01
251 1 0.00
252 25 0.09
253 43 0.15
254 90 0.32
255 10 0.04
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (248 bp):
GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
TTCAATTTCTGTTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGA
TCACACACTGAGGTATCTTTTCAATTTATATTTTCAAAAAATCAACTCACATTGCGAGAGGTGAG
TTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAATTAA
Found at i:2582882 original size:70 final size:69
Alignment explanation
Indices: 2582763--2583185 Score: 403
Period size: 71 Copynumber: 6.2 Consensus size: 69
2582753 GAGTTAAGCC
*
2582763 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTG-TTTT--AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
2582827 TGAGGTA
63 TGAGGTA
* * ** * *
2582834 TTTTCAATTTTTGTGTTTTAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTG
1 TTTTCAATTTTTGT-TTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTG
2582899 AGGTA
65 AGGTA
* *
2582904 TTTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTCAATTTTTGTTTT--AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCT
2582969 GAGGTA
64 GAGGTA
* * * ** * * *
2582975 TTTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT---------TTTA
1 TTTTCAATTTTTGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGA
2583031 ---A
66 GGTA
*** ** *
2583032 TTTTTGTTTTTCA----AAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGA
1 TTTTCAATTTTTGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGA
2583093 GGTA
66 GGTA
* * *
2583097 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAA-TTTT-TGTTTTAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
2583162 TGAGGTA
63 TGAGGTA
*
2583169 TTTTCAATTTCTGTTTT
1 TTTTCAATTTTTGTTTT
2583186 CAATTTACGT
Statistics
Matches: 285, Mismatches: 44, Indels: 47
0.76 0.12 0.12
Matches are distributed among these distances:
53 31 0.11
57 9 0.03
60 2 0.01
62 2 0.01
65 5 0.02
66 4 0.01
69 34 0.12
70 64 0.22
71 70 0.25
72 64 0.22
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.39
Consensus pattern (69 bp):
TTTTCAATTTTTGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGA
GGTA
Found at i:2583071 original size:122 final size:124
Alignment explanation
Indices: 2582905--2583151 Score: 392
Period size: 122 Copynumber: 2.0 Consensus size: 124
2582895 GTTGAGGTAT
2582905 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
1 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
* *
2582970 AGGTATTTT-TA-GTTTATGTTTTAAATT-GACTCATATTGCGAGAGGTGAGTTAAGCC
66 AGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
* *
2583026 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTG-TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCT
* * * *
2583091 GAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCC
65 GAGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
2583151 T
1 T
2583152 CAGGTCACGC
Statistics
Matches: 114, Mismatches: 8, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
121 12 0.11
122 60 0.53
123 1 0.01
124 13 0.11
125 28 0.25
ACGTcount: A:0.24, C:0.14, G:0.23, T:0.39
Consensus pattern (124 bp):
TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
AGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
Found at i:2583116 original size:263 final size:257
Alignment explanation
Indices: 2582596--2583188 Score: 1042
Period size: 263 Copynumber: 2.3 Consensus size: 257
2582586 TTTCAAGGAA
*
2582596 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTGTTGT
1 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
2582661 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGT
66 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGT
2582726 TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
131 TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
2582791 CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
196 CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
2582853 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
1 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
*
2582918 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGT
66 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTA---TT--T
2582983 TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAA
126 TTA-GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAA
2583048 TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGT
190 TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGT
2583113 TTT
255 TTT
* * * * * *
2583116 AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCT
1 AA--TCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
2583181 GTTTTCAA
64 GTTTTCAA
2583189 TTTACGTTGT
Statistics
Matches: 320, Mismatches: 8, Indels: 8
0.95 0.02 0.02
Matches are distributed among these distances:
257 120 0.38
260 2 0.01
262 4 0.01
263 131 0.41
265 63 0.20
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.37
Consensus pattern (257 bp):
AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGT
TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
Found at i:2583147 original size:72 final size:71
Alignment explanation
Indices: 2583026--2583191 Score: 244
Period size: 72 Copynumber: 2.3 Consensus size: 71
2583016 GAGTTAAGCC
** * *
2583026 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
2583090 TGAGGTA
65 TGAGGTA
*
2583097 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAATTTTTGT-TTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
2583162 TGAGGTA
65 TGAGGTA
* *
2583169 TTTTCAATTTCTGTTTTCAATTT
1 TTTTCAATTTTTGTTTTTAATTT
2583192 ACGTTGTTCA
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
71 12 0.14
72 70 0.81
73 4 0.05
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.42
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
GAGGTA
Found at i:2583348 original size:124 final size:126
Alignment explanation
Indices: 2583183--2583450 Score: 438
Period size: 124 Copynumber: 2.2 Consensus size: 126
2583173 CAATTTCTGT
2583183 TTTCAATTTAC-GTTGTTCAAGAATCAACTCATATTGCGAGAGGTAGGTTGAACCTTTTAATTTC
1 TTTCAATTT-CTGTTGTTCAAGAATCAACTCATATTGCGAGAGGTAGGTTGAACCTTTTAATTTC
*
2583247 TACTTTTTCAAAATCA-CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGATGAGGTAA
65 TAC-TTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAA
*
2583309 TTTCAATTTCTGTTG-TCAA-AATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCT
1 TTTCAATTTCTGTTGTTCAAGAATCAACTCATATTGCGAGAGGTAGGTTGAACCTTTTAATTTCT
* * *
2583372 ACTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTAT
66 ACTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAA
2583433 TTTCAATTTCTGTT-TTCA
1 TTTCAATTTCTGTTGTTCA
2583451 TTATTATGTT
Statistics
Matches: 134, Mismatches: 5, Indels: 8
0.91 0.03 0.05
Matches are distributed among these distances:
123 12 0.09
124 104 0.78
125 5 0.04
126 13 0.10
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (126 bp):
TTTCAATTTCTGTTGTTCAAGAATCAACTCATATTGCGAGAGGTAGGTTGAACCTTTTAATTTCT
ACTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAA
Found at i:2583380 original size:335 final size:341
Alignment explanation
Indices: 2582917--2583579 Score: 844
Period size: 335 Copynumber: 1.9 Consensus size: 341
2582907 TTAATTTTTG
* * * * * *
2582917 TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAG
1 TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAA
* ** * **
2582982 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAA
66 TTTATGTTTAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTCTACTTTTCAAA
* * *
2583047 ATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTG
131 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTG
* *
2583112 TT-TTA-A-TT-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT-CACGCTGAGGTATTT
196 TTATTATATTTATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTACACGCCGAGGTATTT
* * **
2583172 TCAATTTCTG-TTTTCAATTTAC-GT-TGTTC-AAGAATCAACTCATATTGCGAGAGGTAGGTTG
261 TCAATTTCCGTTTTTCAATTT-CTGTCT-TTCAAAAAAAAAACTCATATTGCGAGAGGTAGGTTG
2583233 AACCTTTTAATTTCTACT
324 AACCTTTTAATTTCTACT
* *
2583251 TTTTCAAAATC-ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGATGAGGTAATTTCAA
1 TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAA
* *
2583315 TTTCTGTTGTCAAAATCAACTCATATTGCGAGAGGTGGGTTGAA-CCTTTTAATTTCTACTTTTC
66 TTTATGTT-T-AAAATCAACTCATATTGCGAGAGGTGAGTT-AAGCCTTTTAATTTCTACTTTTC
* *
2583379 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCT
128 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCT
* *
2583444 GTTTTCATTATTATGTTTTAAAGAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCAC
193 GTGTT-ATTA-TA---TTT-----ATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGT-AC
2583509 ACGCCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGTCTTTCAAAAAAAAAACTCATATTGCG
247 ACGCCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGTCTTTCAAAAAAAAAACTCATATTGCG
2583574 AGAGGT
312 AGAGGT
2583580 GAGTTGAGCC
Statistics
Matches: 277, Mismatches: 29, Indels: 27
0.83 0.09 0.08
Matches are distributed among these distances:
333 52 0.19
334 12 0.04
335 107 0.39
336 2 0.01
337 3 0.01
339 1 0.00
343 2 0.01
349 35 0.13
351 24 0.09
352 15 0.05
353 24 0.09
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.36
Consensus pattern (341 bp):
TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAA
TTTATGTTTAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTCTACTTTTCAAA
ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTG
TTATTATATTTATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTACACGCCGAGGTATTT
TCAATTTCCGTTTTTCAATTTCTGTCTTTCAAAAAAAAAACTCATATTGCGAGAGGTAGGTTGAA
CCTTTTAATTTCTACT
Found at i:2583539 original size:14 final size:14
Alignment explanation
Indices: 2583520--2583554 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
2583510 CGCCGAGGTA
2583520 TTTTCAATTTCCGT
1 TTTTCAATTTCCGT
*
2583534 TTTTCAATTTCTGT
1 TTTTCAATTTCCGT
*
2583548 CTTTCAA
1 TTTTCAA
2583555 AAAAAAAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.17, C:0.20, G:0.06, T:0.57
Consensus pattern (14 bp):
TTTTCAATTTCCGT
Found at i:2583589 original size:90 final size:87
Alignment explanation
Indices: 2583387--2583958 Score: 461
Period size: 74 Copynumber: 6.8 Consensus size: 87
2583377 TCAAAATCAG
*
2583387 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT-CACGCTGAGGTATTTTCAATTTCTGTTTTCA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTACACGCTGAGGTATTTTCAATTTCCGTTTTCA
* * **
2583451 TTATTATGTTTTAAAGAATCAA
66 ATATTATGTTTTAAAAAAAAAA
* * *
2583473 CTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTTTTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT-ACACGCTGAGGTATTTTCAATTTCCG-TTTT
*
2583538 CAAT-TTCTGTCTTTCAAAAAAAAAA
64 CAATATTATGT-TTT-AAAAAAAAAA
* * *
2583563 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTAATTTCAATTTCTGTTGTC-
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTACACGCTGAGGTATTTTCAATTTCCGTTTTCA
**
2583626 -----A------AAAAAATTAA
66 ATATTATGTTTTAAAAAAAAAA
* * * *
2583637 CTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTTTTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT-ACACGCTGAGGTATTTTCAATTTCCG-TTTT
* * *
2583702 CAAT-TTTTGCCTTTCAAAAAAATCAA
64 CAATATTATG--TTTTAAAAAAA-AAA
* * *
2583728 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTAATTTCAATTTCTGTTGTC-
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTACACGCTGAGGTATTTTCAATTTCCGTTTTCA
***
2583791 -----A------AAAAAGTCAA
66 ATATTATGTTTTAAAAAAAAAA
* * *
2583802 CTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACG-TCGAGGTATTTTCAATTTCCATTTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT-ACACGCT-GAGGTATTTTCAATTTCC-GTTT
* *
2583866 TCAAT-TTCTGCCTTTCAAAAAAAATCAA
63 TCAATATTATG--TTTTAAAAAAAA--AA
* * *
2583894 CTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGACACGCTGAGGTAATTTCAATTTCTGTTTTCA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTACACGCTGAGGTATTTTCAATTTCCGTTTTCA
2583958 A
66 A
2583959 AATTCAACTC
Statistics
Matches: 390, Mismatches: 54, Indels: 81
0.74 0.10 0.15
Matches are distributed among these distances:
74 70 0.18
75 6 0.02
76 44 0.11
77 8 0.02
86 31 0.08
87 4 0.01
88 55 0.14
89 40 0.10
90 69 0.18
91 33 0.08
92 30 0.08
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (87 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTACACGCTGAGGTATTTTCAATTTCCGTTTTCA
ATATTATGTTTTAAAAAAAAAA
Found at i:2583658 original size:74 final size:75
Alignment explanation
Indices: 2583535--2584222 Score: 252
Period size: 72 Copynumber: 8.8 Consensus size: 75
2583525 AATTTCCGTT
* *
2583535 TTTCAATTTCTGTCTTTCAAAAAAAAAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACAC
1 TTTCAATTTCTGTCTGTCAAAAAAAAAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACAC
*
2583599 GCTGAGGTAA
66 GCCGAGGTAA
* * *
2583609 TTTCAATTTCTGT-TGTCAAAAAAATTAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCAC
1 TTTCAATTTCTGTCTGTCAAAAAAA-AAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CAC
*
2583673 ACGCCGAGGTAT
64 ACGCCGAGGTAA
* * * * * * * *
2583685 TTTCAATTTCCGTTTTTCAATTTTTGCCTTTCAAAAAAA-TCA-ACT-CATATTGCGAGAGGTGA
1 TTTCAATTTCTGTCTGTCAA-----------AAAAAAAACTCATATTGC-GA--GAG-G---CGA
*
2583747 GTTGAGCCTCAGG-ACACGCTGAGGTAA
48 GTTGAGCCTCAGGCACACGCCGAGGTAA
** * * *
2583774 TTTCAATTTCTGT-TGTCAAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCAC
1 TTTCAATTTCTGTCTGTCAAAAAA-AAAACTCATATTGCGAGAGGCGAGTTGAGCCTCAG-GCAC
*
2583838 ACGTCGAGGTATTTTCAA
64 ACGCCGAGG-----T-AA
* * *** *
2583856 TTTCCATTTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTT-CA-ATTTC--TGTCTG--TCAAAAAAAAAA----CTCATATTGCGAGAGGCGAGTTGAGCC
* *
2583921 TC-GGGACACGCTGAGGTAA
56 TCAGGCACACGCCGAGGTAA
* *** *** *
2583940 TTTCAATTTCTGT-TTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG-ACAC
1 TTTCAATTTCTGTCTGTCAAAAAAAAAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACAC
** *
2584002 GTTGAGGTAT
66 GCCGAGGTAA
* ** * * * * *
2584012 TTTCAATTTCTGT-TTTC-AAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCT-TGGCTCAT
1 TTTCAATTTCTGTCTGTCAAAAAAAAAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACA-
* * *
2584074 GCGCTGAGCTAT
65 -CGCCGAGGTAA
* * * * * *
2584086 TTTCAATTTCTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCAC
1 TTTCAATTTCTGTCTGTCAAAAAAA-AAACTCATATTGCGAGAGGCGAGTTGAGCCTCAG-GCAC
* * *
2584151 ACACTGAGGTATTT
64 ACGCCGAGGTA--A
* * * * * * * *
2584165 TTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTC
1 TTTCAATTTCTGTCTGTCAAAAAAA-AAACTCATATTGCGAGAGGCGAGTTGAGCCTC
2584223 GGGTTACATG
Statistics
Matches: 478, Mismatches: 80, Indels: 107
0.72 0.12 0.16
Matches are distributed among these distances:
71 1 0.00
72 90 0.19
73 11 0.02
74 80 0.17
75 4 0.01
76 43 0.09
77 46 0.10
78 5 0.01
79 60 0.13
80 5 0.01
81 2 0.00
82 9 0.02
83 4 0.01
84 10 0.02
85 4 0.01
86 4 0.01
87 6 0.01
88 12 0.03
89 29 0.06
90 9 0.02
91 16 0.03
92 28 0.06
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (75 bp):
TTTCAATTTCTGTCTGTCAAAAAAAAAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACAC
GCCGAGGTAA
Found at i:2583812 original size:165 final size:165
Alignment explanation
Indices: 2583467--2584027 Score: 889
Period size: 165 Copynumber: 3.4 Consensus size: 165
2583457 TGTTTTAAAG
2583467 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
1 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
* *
2583532 GTTTTTCAATTTCTGTCTTTCAAAAAAA-AAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
66 GTTTTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
2583596 CACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
131 CACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
* *
2583631 AATTAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
1 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
*
2583696 GTTTTTCAATTTTTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
66 GTTTTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
2583761 CACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
131 CACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
* * * *
2583796 AGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTATTTTCAATTTCC
1 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
* *
2583861 ATTTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
66 GTTTTTCAATTTCTGCCTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
*
2583926 ACACGCTGAGGTAATTTCAATTTCTGTTTTC--AAA
130 ACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
* * *** * ** *
2583960 ATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG--ACACGTTGAGGTATTTTCAATTTCT
1 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
2584023 GTTTT
66 GTTTT
2584028 CAAAAATCAA
Statistics
Matches: 371, Mismatches: 24, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
162 27 0.07
164 124 0.33
165 148 0.40
166 72 0.19
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (165 bp):
AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
GTTTTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
CACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
Found at i:2583989 original size:329 final size:329
Alignment explanation
Indices: 2583379--2584027 Score: 948
Period size: 329 Copynumber: 1.9 Consensus size: 329
2583369 TCTACTTTTC
* * *
2583379 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* *
2583444 GTTTTCATTATTATGTTTTAAAGAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCAC
66 GTTGTCA-TA-TA-----TAAAG-ATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGATCAC
* *
2583509 ACGCCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGTCTTTCAAAAAAAAAACTCATATTGCG
123 ACGCCGAGGTATTTTCAATTTCCATTTTTCAATTTCTGCCTTTCAAAAAAAAAACTCATATTGCG
2583574 AGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATTAACT
188 AGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTC--AAAAATTAACT
* *** *
2583639 CGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTTTTTCA
251 CATATTGCGAGAAACGAGTTGAGCCTCAAG--ACACGCCGAGGTATTTTCAATTTCCGTTTTTCA
2583704 ATTTTTGCCTTTCAAA
314 ATTTTTGCCTTTCAAA
2583720 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* *
2583785 GTTGTCA-A-A-AAAG-TCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAG
66 GTTGTCATATATAAAGATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGATCACACGCCGAG
2583846 GTATTTTCAATTTCCATTTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGT
131 GTATTTTCAATTTCCATTTTTCAATTTCTGCCTTTCAAAAAAAA--AACTCATATTGCGAGAGGT
* *
2583911 GAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTTC-AAAATTCAACTCATATTG
194 GAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAATT-AACTCATATTG
* ** *
2583975 CGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTT
258 CGAGAAACGAGTTGAGCCTCAAGACACGCCGAGGTATTTTCAATTTCCGTTTT
2584028 CAAAAATCAA
Statistics
Matches: 285, Mismatches: 20, Indels: 20
0.88 0.06 0.06
Matches are distributed among these distances:
327 27 0.09
328 6 0.02
329 115 0.40
331 67 0.24
337 1 0.00
339 1 0.00
341 68 0.24
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (329 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTGTCATATATAAAGATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGATCACACGCCGAG
GTATTTTCAATTTCCATTTTTCAATTTCTGCCTTTCAAAAAAAAAACTCATATTGCGAGAGGTGA
GTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAATTAACTCATATTGCGA
GAAACGAGTTGAGCCTCAAGACACGCCGAGGTATTTTCAATTTCCGTTTTTCAATTTTTGCCTTT
CAAA
Found at i:2584206 original size:79 final size:76
Alignment explanation
Indices: 2583863--2584390 Score: 426
Period size: 72 Copynumber: 6.7 Consensus size: 76
2583853 CAATTTCCAT
* **
2583863 TTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GG
1 TTTTCAATTTCTG-TTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATC
2583926 ACACGCTGAGGTA
64 ACACGCTGAGGTA
* * ** *
2583939 ATTTCAATTTCTGTTTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-GAC
1 TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCAC
*
2584000 ACGTTGAGGTA
66 ACGCTGAGGTA
* * ** * *
2584011 TTTTCAATTTCTGTTTTC--AAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCAT
1 TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCAC
* *
2584074 GCGCTGAGCTA
66 ACGCTGAGGTA
* *
2584085 TTTTCAATTTCTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCA
1 TTTTCAATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
*
2584150 CACACTGAGGTA
65 CACGCTGAGGTA
* * * * * *
2584162 TTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGT
1 --TTTTCAATTTCT-GTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAT
* *
2584227 TACATG-TCGAGGTA
63 CACACGCT-GAGGTA
** *
2584241 TTTTCAAAATCTGTTTTTCAAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGA
1 TTTTCAATTTCTG-TTTTC-AA----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
** * ** *
2584306 GCCTTGGCTCACGTGCTGAGCTA
54 GCCTCAGATCACACGCTGAGGTA
2584329 TTTTCAATTTCTGTTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 TTTTCAATTTCTG------TTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
2584391 TTTTTAATTT
Statistics
Matches: 367, Mismatches: 55, Indels: 53
0.77 0.12 0.11
Matches are distributed among these distances:
72 97 0.26
74 22 0.06
75 8 0.02
76 12 0.03
77 60 0.16
78 3 0.01
79 63 0.17
80 1 0.00
82 5 0.01
83 29 0.08
88 58 0.16
89 1 0.00
92 2 0.01
93 6 0.02
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (76 bp):
TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCAC
ACGCTGAGGTA
Found at i:2584260 original size:14 final size:13
Alignment explanation
Indices: 2584241--2584276 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
2584231 TGTCGAGGTA
2584241 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
2584254 TTTTTCAAATTCTG
1 -TTTTCAAAATCTG
2584268 TTTTCAAAA
1 TTTTCAAAA
2584277 ATCAACTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.50
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:2584408 original size:30 final size:30
Alignment explanation
Indices: 2584372--2584433 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
2584362 CAACTCATAT
2584372 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
2584402 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
2584432 TG
1 TG
2584434 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:2584534 original size:255 final size:247
Alignment explanation
Indices: 2584023--2584599 Score: 733
Period size: 255 Copynumber: 2.3 Consensus size: 247
2584013 TTCAATTTCT
* * *
2584023 GTTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATTT
1 GTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG-GCTGAGCTATTT
*
2584088 TCAATTTC-----TATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGAT
65 TCAATTTCTGTTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGAT
* *
2584148 CACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGA
130 CACACACTGAGGTATCTTTTCAATTTATATTTTTC-AAAAAATCAACTCACATTGCGAGAGGTGA
* ** * * * **
2584213 GTTGAGCCTCGGGTTACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAATTCT
194 GTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAATTAA
*
2584267 GTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTT
1 GTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG-GCTGAGCTATTT
* *
2584332 TCAATTTCTGTTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA
65 TCAATTTCTGTTTTTTCTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--TTCA
* * * * * * *
2584397 -ATTTCTGCGAGAGTTGAGTTGAGTCTTTT-AATTTCTGTTTTTC-AAAAATCAACTCATATTGC
127 GA--TC-AC-ACA-CTGAGGT-A-TCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGC
*
2584459 GAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAGTTAA
185 GAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAATTAA
2584522 G-TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCAC-GCTGAGCTATTT
1 GTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGGCTGAGCTATTT
2584585 TCAATTTCTGTTTTT
65 TCAATTTCTGTTTTT
2584600 AATGTCTGTT
Statistics
Matches: 290, Mismatches: 27, Indels: 23
0.85 0.08 0.07
Matches are distributed among these distances:
244 68 0.23
249 13 0.04
250 30 0.10
251 1 0.00
252 3 0.01
253 29 0.10
254 5 0.02
255 118 0.41
256 5 0.02
257 13 0.04
258 5 0.02
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (247 bp):
GTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGGCTGAGCTATTTT
CAATTTCTGTTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATC
ACACACTGAGGTATCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGCGAGAGGTGAGT
TGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAATTAA
Found at i:2585291 original size:16 final size:16
Alignment explanation
Indices: 2585272--2585308 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
2585262 AAAGAAAAAG
*
2585272 AAAAACTTACCCCAAA
1 AAAAACTAACCCCAAA
*
2585288 AAAACCTAACCCCAAA
1 AAAAACTAACCCCAAA
2585304 AAAAA
1 AAAAA
2585309 AAGAAGAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.62, C:0.30, G:0.00, T:0.08
Consensus pattern (16 bp):
AAAAACTAACCCCAAA
Found at i:2587427 original size:28 final size:29
Alignment explanation
Indices: 2587395--2587457 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
2587385 TTTTTTATAA
2587395 TTTTATAAGTTTAT-ATAATTTTAATG-TT
1 TTTTATAAGTTTATAATAA-TTTAATGATT
* * *
2587423 TTTTATTATTTTTTAATAATTTAATGATT
1 TTTTATAAGTTTATAATAATTTAATGATT
2587452 TTTTAT
1 TTTTAT
2587458 TAATTCTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 18 0.60
29 12 0.40
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (29 bp):
TTTTATAAGTTTATAATAATTTAATGATT
Found at i:2587433 original size:18 final size:19
Alignment explanation
Indices: 2587385--2587434 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
2587375 TTATGAATTT
2587385 TTTTTTATAATTTTATAAG
1 TTTTTTATAATTTTATAAG
* *
2587404 -TTTATATAATTTTA-ATG
1 TTTTTTATAATTTTATAAG
*
2587421 TTTTTTATTATTTT
1 TTTTTTATAATTTT
2587435 TTAATAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 2 0.08
18 24 0.92
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (19 bp):
TTTTTTATAATTTTATAAG
Found at i:2587452 original size:19 final size:19
Alignment explanation
Indices: 2587430--2587499 Score: 65
Period size: 19 Copynumber: 3.7 Consensus size: 19
2587420 GTTTTTTATT
2587430 ATTTTTTAATAATTTAATG
1 ATTTTTTAATAATTTAATG
* *
2587449 ATTTTTTATTAATTCT-ATA
1 ATTTTTTAATAATT-TAATG
*
2587468 ATTTGTTT-ATAATTTATTAG
1 ATTT-TTTAATAATTTAAT-G
2587488 A-TTTTTAATAAT
1 ATTTTTTAATAAT
2587500 ATTTATAAGT
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
18 4 0.10
19 32 0.78
20 5 0.12
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.60
Consensus pattern (19 bp):
ATTTTTTAATAATTTAATG
Found at i:2587667 original size:14 final size:15
Alignment explanation
Indices: 2587629--2587666 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
2587619 AATATTAAAA
2587629 TAAATTTTATATTTT
1 TAAATTTTATATTTT
*
2587644 TAATATTTTATTTTTT
1 TAA-ATTTTATATTTT
2587660 TAAATTT
1 TAAATTT
2587667 AAAATAAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TAAATTTTATATTTT
Found at i:2592546 original size:29 final size:30
Alignment explanation
Indices: 2592511--2592579 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 30
2592501 TTTGAAAATG
2592511 TAAAATTTAGATC-CTATA-TTTTT-ATTTT
1 TAAAATTTAG-TCACTATATTTTTTAATTTT
*
2592539 TAAGAATTTAGTCACTCTATTTTTTAGATTTT
1 TAA-AATTTAGTCACTATATTTTTTA-ATTTT
2592571 TAAAATTTA
1 TAAAATTTA
2592580 AGTCCAATTG
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
28 5 0.14
29 11 0.31
30 5 0.14
31 6 0.17
32 8 0.23
ACGTcount: A:0.33, C:0.07, G:0.06, T:0.54
Consensus pattern (30 bp):
TAAAATTTAGTCACTATATTTTTTAATTTT
Found at i:2595241 original size:25 final size:26
Alignment explanation
Indices: 2595208--2595263 Score: 105
Period size: 25 Copynumber: 2.2 Consensus size: 26
2595198 TTTTGGTGTT
2595208 ATTTTCTTGTGGAACACTTCCTTTTG
1 ATTTTCTTGTGGAACACTTCCTTTTG
2595234 -TTTTCTTGTGGAACACTTCCTTTTG
1 ATTTTCTTGTGGAACACTTCCTTTTG
2595259 ATTTT
1 ATTTT
2595264 TCTTTAAGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 25 0.86
26 4 0.14
ACGTcount: A:0.14, C:0.18, G:0.14, T:0.54
Consensus pattern (26 bp):
ATTTTCTTGTGGAACACTTCCTTTTG
Found at i:2595693 original size:29 final size:30
Alignment explanation
Indices: 2595611--2595694 Score: 95
Period size: 29 Copynumber: 2.9 Consensus size: 30
2595601 TTTATATAAC
* * *
2595611 TTTTAAAGGG-TTAAATTATGAAATTTTTAT
1 TTTTAAAGGGATCAAA-TATGAAATTTTAAA
2595641 TTTTAAAGGGATCAAATATG-AATTTTAAA
1 TTTTAAAGGGATCAAATATGAAATTTTAAA
2595670 TTTT-AAGAGGATCAAA-ATGAAATTT
1 TTTTAAAG-GGATCAAATATGAAATTT
2595695 CACCCTTAGA
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
28 6 0.12
29 24 0.50
30 14 0.29
31 4 0.08
ACGTcount: A:0.42, C:0.02, G:0.14, T:0.42
Consensus pattern (30 bp):
TTTTAAAGGGATCAAATATGAAATTTTAAA
Found at i:2596683 original size:23 final size:25
Alignment explanation
Indices: 2596648--2596705 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 25
2596638 AGGAGTGGTA
*
2596648 AATAAACTATTAAT-TTT-ATTTTT
1 AATAAAATATTAATATTTAATTTTT
*
2596671 AATAAAATTTTAATACTTTAATTTTT
1 AATAAAATATTAATA-TTTAATTTTT
*
2596697 AATGAAATA
1 AATAAAATA
2596706 AAGAAATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
23 12 0.43
25 3 0.11
26 13 0.46
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (25 bp):
AATAAAATATTAATATTTAATTTTT
Found at i:2596830 original size:29 final size:29
Alignment explanation
Indices: 2596797--2596867 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
2596787 TTTCTAATAT
*
2596797 TTTTTGGTAAAAAAAATTATATTAAAGTC
1 TTTTTGATAAAAAAAATTATATTAAAGTC
** * * *
2596826 TTTTTTTTTACAGAAATTATATTAAAGTC
1 TTTTTGATAAAAAAAATTATATTAAAGTC
2596855 TTATTTGATAAAA
1 TT-TTTGATAAAA
2596868 TATGGGAAAA
Statistics
Matches: 32, Mismatches: 9, Indels: 1
0.76 0.21 0.02
Matches are distributed among these distances:
29 26 0.81
30 6 0.19
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.46
Consensus pattern (29 bp):
TTTTTGATAAAAAAAATTATATTAAAGTC
Found at i:2599576 original size:13 final size:14
Alignment explanation
Indices: 2599554--2599593 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
2599544 CCGATTAAAT
2599554 AATAATTATTATAA
1 AATAATTATTATAA
*
2599568 AAT-ATTATTTTAA
1 AATAATTATTATAA
*
2599581 ATTAATTATTATA
1 AATAATTATTATA
2599594 TAATTAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AATAATTATTATAA
Done.