Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 17 of 318
Found at i:6487348 original size:21 final size:21
Alignment explanation
Indices: 6487324--6487391 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
6487314 ACTCATATGA
* *
6487324 GTTTTAGTTCAACCCTTTTGG
1 GTTTCAGTTTAACCCTTTTGG
* * *
6487345 GTTTCAGTTTAGCTCTTTTGA
1 GTTTCAGTTTAACCCTTTTGG
* *
6487366 GCTTCAGTTTAACCCTTATGG
1 GTTTCAGTTTAACCCTTTTGG
6487387 GTTTC
1 GTTTC
6487392 CGTTCAGCTC
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.15, C:0.19, G:0.19, T:0.47
Consensus pattern (21 bp):
GTTTCAGTTTAACCCTTTTGG
Found at i:6487381 original size:42 final size:42
Alignment explanation
Indices: 6487329--6487433 Score: 120
Period size: 42 Copynumber: 2.5 Consensus size: 42
6487319 TATGAGTTTT
* * * * **
6487329 AGTTCAACCCTTTTGGGTTTCAGTTTAGCTCTTTTGAGCTTC
1 AGTTTAACCCTTATGGGTTTCAGTTCAGCTCCTAAGAGCTTC
*
6487371 AGTTTAACCCTTATGGGTTTCCGTTCAGCTCCTAAGAGCTTC
1 AGTTTAACCCTTATGGGTTTCAGTTCAGCTCCTAAGAGCTTC
* * *
6487413 CGTTTAACCCATACGGGTTTC
1 AGTTTAACCCTTATGGGTTTC
6487434 CGATTAGCAC
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.17, C:0.25, G:0.19, T:0.39
Consensus pattern (42 bp):
AGTTTAACCCTTATGGGTTTCAGTTCAGCTCCTAAGAGCTTC
Found at i:6487454 original size:42 final size:41
Alignment explanation
Indices: 6487343--6487454 Score: 116
Period size: 42 Copynumber: 2.7 Consensus size: 41
6487333 CAACCCTTTT
* * * *
6487343 GGGTTTCAGTTTAGCTCTTTTGAGCTTCAGTTTAACCCTTAT
1 GGGTTTCCG-TTAGCTCTTATGAGCTTCAGTTTAACCCATAC
* * *
6487385 GGGTTTCCGTTCAGCTCCTAAGAGCTTCCGTTTAACCCATAC
1 GGGTTTCCGTT-AGCTCTTATGAGCTTCAGTTTAACCCATAC
* *
6487427 GGGTTTCCGATTAGCACTTATGTGCTTC
1 GGGTTTCCG-TTAGCTCTTATGAGCTTC
6487455 TGTGTAGCCC
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
41 2 0.04
42 53 0.93
43 2 0.04
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (41 bp):
GGGTTTCCGTTAGCTCTTATGAGCTTCAGTTTAACCCATAC
Found at i:6488968 original size:30 final size:30
Alignment explanation
Indices: 6488932--6488991 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
6488922 TTCCCGAGCC
6488932 TAGGGGCAAAA-GTGTAATTATGCAAAAGTT
1 TAGGGGCAAAATG-GTAATTATGCAAAAGTT
* *
6488962 TAGGGGCAAAATGGTAATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTAATTATGCAAAAGTT
6488992 CGTATTAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTATGCAAAAGTT
Found at i:6489464 original size:47 final size:47
Alignment explanation
Indices: 6489413--6489589 Score: 204
Period size: 47 Copynumber: 3.8 Consensus size: 47
6489403 TGGTTGAACA
*
6489413 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
* * *
6489460 TCCGAACTCGTTGAGTTGAGTTCGAG-T---TTGTGAGATGT-AACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGTGAA--A--CG
*
6489507 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-AACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
* *
6489553 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
6489590 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 10, Indels: 21
0.78 0.07 0.15
Matches are distributed among these distances:
43 6 0.05
44 5 0.05
45 1 0.01
46 37 0.34
47 50 0.45
48 2 0.02
50 5 0.05
51 4 0.04
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
Found at i:6489956 original size:13 final size:13
Alignment explanation
Indices: 6489938--6489975 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
6489928 TGGGCGGCCC
6489938 GGCCCGGCCCGAA
1 GGCCCGGCCCGAA
6489951 GGCCCGGCCCGAA
1 GGCCCGGCCCGAA
6489964 GGCCC-GCCCGAA
1 GGCCCGGCCCGAA
6489976 AAATGGGAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 7 0.28
13 18 0.72
ACGTcount: A:0.16, C:0.47, G:0.37, T:0.00
Consensus pattern (13 bp):
GGCCCGGCCCGAA
Found at i:6490366 original size:19 final size:20
Alignment explanation
Indices: 6490338--6490376 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
6490328 TCCCATTATT
6490338 TATTTATTTTT-TGTTTTAA
1 TATTTATTTTTATGTTTTAA
*
6490357 TATTTGTTTTTATGTTTTAA
1 TATTTATTTTTATGTTTTAA
6490377 ATGTATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (20 bp):
TATTTATTTTTATGTTTTAA
Found at i:6490394 original size:25 final size:23
Alignment explanation
Indices: 6490357--6490402 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
6490347 TTTGTTTTAA
*
6490357 TATTTGTTTTTATGTTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
6490380 TATTTGATTTATTATATTTTAAA
1 TATTTG-TTT-TTATATTTTAAA
6490403 GTTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:6507370 original size:19 final size:19
Alignment explanation
Indices: 6507325--6507379 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 19
6507315 TTAAACATGG
* *
6507325 TATAATTTTAAATTA-TGT
1 TATAATTTTAAAATATTTT
6507343 TAT--TTTTAAAATATTTT
1 TATAATTTTAAAATATTTT
*
6507360 TATAATTTTAAAGTATTTT
1 TATAATTTTAAAATATTTT
6507379 T
1 T
6507380 TAACGTGATA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 9 0.29
17 5 0.16
18 3 0.10
19 14 0.45
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (19 bp):
TATAATTTTAAAATATTTT
Found at i:6511494 original size:21 final size:21
Alignment explanation
Indices: 6511460--6511500 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
6511450 AGACGAGCAA
* * *
6511460 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTAGAGTG
6511481 TACTCCAAAACAGGTAGAGT
1 TACTCCAAAACAGGTAGAGT
6511501 TTGAGCAGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTAGAGTG
Found at i:6513219 original size:29 final size:30
Alignment explanation
Indices: 6513160--6513217 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
6513150 TCCGAGCCTT
*
6513160 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
6513190 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
6513218 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:6513447 original size:13 final size:13
Alignment explanation
Indices: 6513429--6513460 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
6513419 TTTCCAGCAA
6513429 TTATGAATTTATT
1 TTATGAATTTATT
6513442 TTATGAATTTATT
1 TTATGAATTTATT
*
6513455 TGATGA
1 TTATGA
6513461 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:6513668 original size:50 final size:50
Alignment explanation
Indices: 6513555--6513796 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
6513545 ATTTGGGTAA
* * *
6513555 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
6513611 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
6513661 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
6513711 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
6513761 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
6513797 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:6513744 original size:100 final size:103
Alignment explanation
Indices: 6513555--6513804 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
6513545 ATTTGGGTAA
6513555 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
6513620 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
6513661 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
6513723 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
6513761 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
6513805 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:6525801 original size:46 final size:46
Alignment explanation
Indices: 6525754--6526027 Score: 343
Period size: 46 Copynumber: 6.0 Consensus size: 46
6525744 GCTCTCTGAT
** * * *
6525754 ATGAAATGTGTAAGACCATGGTTGAAAGATATCATGGCAACCTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * *
6525800 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACGTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
6525846 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * *
6525892 GGGAAATGAATAAGACCATGGTTGAAAGATATCATGGCAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
6525938 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAAATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
6525984 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
6526028 TCAAAGATAA
Statistics
Matches: 202, Mismatches: 25, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
45 1 0.00
46 201 1.00
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:6525907 original size:92 final size:92
Alignment explanation
Indices: 6525750--6526012 Score: 382
Period size: 92 Copynumber: 2.9 Consensus size: 92
6525740 GTGTGCTCTC
** * * * * *
6525750 TGATATGAAATGTGTAAGACCATGGTTGAAAGATATCATGGCAACCTGATATGAAATGTGTAAGA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGA
6525815 CCATGGTTGAAAGATACCATGACAACG
66 CCATGGTTGAAAGATACCATGACAACG
* *
6525842 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGA
* * *
6525907 CCATGGTTGAAAGATATCATGGCAGCG
66 CCATGGTTGAAAGATACCATGACAACG
* * *
6525934 TGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAAATGACAGAAAATGAGTAAGA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGA
*
6525999 CCATAGTTGAAAGA
66 CCATGGTTGAAAGA
6526013 CACTATGGCA
Statistics
Matches: 153, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
92 153 1.00
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (92 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGA
CCATGGTTGAAAGATACCATGACAACG
Found at i:6526008 original size:138 final size:138
Alignment explanation
Indices: 6525764--6526027 Score: 386
Period size: 138 Copynumber: 1.9 Consensus size: 138
6525754 ATGAAATGTG
* **
6525764 TAAGACCATGGTTGAAAGATATCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATATCATGGCAACCTGACATGAAATGAATAAGACCATGGTTGAAAGA
** * * *
6525829 TACCATGACAACGTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACGG
66 TACCATGACAAAATGACATGAAATGAATAAGACCATAGTTGAAAGACACCATGGCAACATGACGG
6525894 GAAATGAA
131 GAAATGAA
* *
6525902 TAAGACCATGGTTGAAAGATATCATGGCAGCGTGACATGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATATCATGGCAACCTGACATGAAATGAATAAGACCATGGTTGAAAGA
* * * *
6525967 TACCATGGCAAAATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
66 TACCATGACAAAATGACATG-AAATGAATAAGACCATAGTTGAAAGACACCATGGCAACATG
6526028 TCAAAGATAA
Statistics
Matches: 111, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
137 1 0.01
138 110 0.99
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (138 bp):
TAAGACCATGGTTGAAAGATATCATGGCAACCTGACATGAAATGAATAAGACCATGGTTGAAAGA
TACCATGACAAAATGACATGAAATGAATAAGACCATAGTTGAAAGACACCATGGCAACATGACGG
GAAATGAA
Found at i:6528603 original size:116 final size:109
Alignment explanation
Indices: 6528456--6528691 Score: 330
Period size: 116 Copynumber: 2.1 Consensus size: 109
6528446 ACACTGATCA
* * *
6528456 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTATTACTTGT
1 CATTTATCACTTGTCACTGATCAGACAAGTGTAGCTAAAACTACCACTTATCACTTATCACTTAT
*
6528521 CA-TTGATAAATGATAAGTGATAAGATAAGTGTAGCTAAAGCTACCACTTAT
66 CACTTG-----TCAT---TGATAAGATAAGTGTAGCTAAAGCTACCACTTAT
6528572 CATTTATCACTTGTCACTGATCAGACAAGTGTAGCTAAAACTACCACTTATCACTTATCACTTAT
1 CATTTATCACTTGTCACTGATCAGACAAGTGTAGCTAAAACTACCACTTATCACTTATCACTTAT
*
6528637 CACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
66 CACTTGTCATTGATAAGATAAGTGTAGCTAAAGCTACCACTTAT
* *
6528681 CACTTGTCACT
1 CATTTATCACT
6528692 GATCAGAAGT
Statistics
Matches: 112, Mismatches: 7, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
109 42 0.38
112 3 0.03
116 64 0.57
117 3 0.03
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (109 bp):
CATTTATCACTTGTCACTGATCAGACAAGTGTAGCTAAAACTACCACTTATCACTTATCACTTAT
CACTTGTCATTGATAAGATAAGTGTAGCTAAAGCTACCACTTAT
Found at i:6528607 original size:51 final size:51
Alignment explanation
Indices: 6528538--6528691 Score: 191
Period size: 58 Copynumber: 2.9 Consensus size: 51
6528528 AAATGATAAG
*
6528538 TGATAAGATAAGTGTAGCTAAAGCTACCACTTATCATTTATCACTTGTCAC
1 TGATCAGATAAGTGTAGCTAAAGCTACCACTTATCATTTATCACTTGTCAC
* * *
6528589 TGATCAGACAAGTGTAGCTAAAACTACCACTTATCACTTATCACTTATCACTTGTCAT
1 TGATCAGATAAGTGTAGCTAAAGCTACCACTTAT--C--AT---TTATCACTTGTCAC
* *
6528647 TGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACT
1 TGATCAGATAAGTGTAGCTAAAGCTACCACTTATCATTTATCACT
6528692 GATCAGAAGT
Statistics
Matches: 88, Mismatches: 8, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
51 38 0.43
53 1 0.01
54 1 0.01
55 2 0.02
56 1 0.01
58 45 0.51
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.32
Consensus pattern (51 bp):
TGATCAGATAAGTGTAGCTAAAGCTACCACTTATCATTTATCACTTGTCAC
Found at i:6528628 original size:7 final size:7
Alignment explanation
Indices: 6528616--6528641 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
6528606 CTAAAACTAC
6528616 CACTTAT
1 CACTTAT
6528623 CACTTAT
1 CACTTAT
6528630 CACTTAT
1 CACTTAT
6528637 CACTT
1 CACTT
6528642 GTCATTGATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.31, G:0.00, T:0.42
Consensus pattern (7 bp):
CACTTAT
Found at i:6528628 original size:58 final size:58
Alignment explanation
Indices: 6528565--6528696 Score: 210
Period size: 58 Copynumber: 2.3 Consensus size: 58
6528555 CTAAAGCTAC
*
6528565 CACTTATCATTTATCACTTGTCACTGATCAGACAAGTGTAGCTAAAACTACCACTTAT
1 CACTTATCACTTATCACTTGTCACTGATCAGACAAGTGTAGCTAAAACTACCACTTAT
* * *
6528623 CACTTATCACTTATCACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTATCACTTATCACTTGTCACTGATCAGACAAGTGTAGCTAAAACTACCACTTAT
* *
6528681 CACTTGTCACTGATCA
1 CACTTATCACTTATCA
6528697 GAAGTACTCA
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 68 1.00
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.33
Consensus pattern (58 bp):
CACTTATCACTTATCACTTGTCACTGATCAGACAAGTGTAGCTAAAACTACCACTTAT
Found at i:6531532 original size:43 final size:43
Alignment explanation
Indices: 6531471--6531557 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
6531461 TCTATTGTAA
6531471 AGCATGGTTATAACAATTTATTAATAATTATTTATTTTATTTT
1 AGCATGGTTATAACAATTTATTAATAATTATTTATTTTATTTT
6531514 AGCATGGTTATAACAATTTATTAATAATTATTTATTTTATTTT
1 AGCATGGTTATAACAATTTATTAATAATTATTTATTTTATTTT
6531557 A
1 A
6531558 CGTAAAAAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.53
Consensus pattern (43 bp):
AGCATGGTTATAACAATTTATTAATAATTATTTATTTTATTTT
Found at i:6535825 original size:3 final size:3
Alignment explanation
Indices: 6535817--6535853 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
6535807 TCTAATATAT
*
6535817 ATG ATG ATG ATG ATG ATG ATA ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
6535854 AGAAAAGGGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.38, C:0.00, G:0.30, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:6537075 original size:22 final size:22
Alignment explanation
Indices: 6537018--6537077 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
6537008 TTAAATTTTG
* *
6537018 AAATCTAAAATAAAAAAAAAGTT
1 AAATCTATAA-AAAAAAAAAGAT
* *
6537041 AAAT-TACTGAAAATAAAAAGAT
1 AAATCTA-TAAAAAAAAAAAGAT
6537063 AAATCTATAAAAAAA
1 AAATCTATAAAAAAA
6537078 TATAAAAATT
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
22 22 0.76
23 7 0.24
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.22
Consensus pattern (22 bp):
AAATCTATAAAAAAAAAAAGAT
Found at i:6554567 original size:15 final size:17
Alignment explanation
Indices: 6554547--6554588 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
6554537 TTTCAATCGC
6554547 TTTGTTTCATTT-T-AT
1 TTTGTTTCATTTCTGAT
*
6554562 TTTGTTTTATTTCTGAT
1 TTTGTTTCATTTCTGAT
*
6554579 TTTTTTTCAT
1 TTTGTTTCAT
6554589 GTTAATTCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 11 0.50
16 1 0.05
17 10 0.45
ACGTcount: A:0.12, C:0.07, G:0.07, T:0.74
Consensus pattern (17 bp):
TTTGTTTCATTTCTGAT
Found at i:6584605 original size:12 final size:12
Alignment explanation
Indices: 6584588--6584614 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
6584578 ATAAAATGAT
6584588 ATTATATTAATA
1 ATTATATTAATA
6584600 ATTATATTAATA
1 ATTATATTAATA
6584612 ATT
1 ATT
6584615 TGTGAGAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
ATTATATTAATA
Found at i:6588980 original size:14 final size:14
Alignment explanation
Indices: 6588957--6588990 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
6588947 TACACTATCC
6588957 AAATAATAATAATA
1 AAATAATAATAATA
*
6588971 AAATAGTAATAATA
1 AAATAATAATAATA
*
6588985 TAATAA
1 AAATAA
6588991 CAAAATTGTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (14 bp):
AAATAATAATAATA
Found at i:6588990 original size:22 final size:22
Alignment explanation
Indices: 6588962--6589017 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
6588952 TATCCAAATA
* *
6588962 ATAATAATAAAATAGTAATAAT
1 ATAATAACAAAATAGTAACAAT
*
6588984 ATAATAACAAAATTGTAACAAT
1 ATAATAACAAAATAGTAACAAT
* *
6589006 ACAACAACAAAA
1 ATAATAACAAAA
6589018 AATAATAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.64, C:0.09, G:0.04, T:0.23
Consensus pattern (22 bp):
ATAATAACAAAATAGTAACAAT
Found at i:6589887 original size:109 final size:109
Alignment explanation
Indices: 6589751--6589952 Score: 334
Period size: 109 Copynumber: 1.9 Consensus size: 109
6589741 TAAATTCAAT
*
6589751 AGGATATTTGACAATTTGGTTAAACGAGAAATCGAAACCCAGTACATTAGGGCACGTTCCTCGAA
1 AGGATATTTGACAATTTGGTCAAACGAGAAATCGAAACCCAGTACATTAGGGCACGTTCCTCGAA
*
6589816 TTTCCAAACGCAATACATTGCCTTATTTTTGAAAAGTTTTTAAA
66 TTTCCAAACGCAAAACATTGCCTTATTTTTGAAAAGTTTTTAAA
* * *
6589860 AGGATATTT-AGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGA
1 AGGATATTTGA-CAATTTGGTCAAACGAGAAATCGAAACCCAGTACATTAGGGCACGTTCCTCGA
*
6589924 ATTTCCAAACGCAAAATATTGCCTTATTT
65 ATTTCCAAACGCAAAACATTGCCTTATTT
6589953 GGAAATATTT
Statistics
Matches: 86, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
108 1 0.01
109 85 0.99
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30
Consensus pattern (109 bp):
AGGATATTTGACAATTTGGTCAAACGAGAAATCGAAACCCAGTACATTAGGGCACGTTCCTCGAA
TTTCCAAACGCAAAACATTGCCTTATTTTTGAAAAGTTTTTAAA
Found at i:6590560 original size:22 final size:22
Alignment explanation
Indices: 6590535--6590585 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
6590525 ATATATGCAC
* * *
6590535 ATATATATATTAAGATATGTGG
1 ATATATATAATAAGATATATAG
6590557 ATATATATAATAAGATATATAG
1 ATATATATAATAAGATATATAG
6590579 ATATATA
1 ATATATA
6590586 ACTAAATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.39
Consensus pattern (22 bp):
ATATATATAATAAGATATATAG
Found at i:6592683 original size:146 final size:146
Alignment explanation
Indices: 6592419--6592711 Score: 586
Period size: 146 Copynumber: 2.0 Consensus size: 146
6592409 GCTCCGCTAC
6592419 GGCTTAGGGAGACAAAATCTGTAACCTTTAACCAGCTCCAATGCAACCGATGGAGGCAAGGCTTT
1 GGCTTAGGGAGACAAAATCTGTAACCTTTAACCAGCTCCAATGCAACCGATGGAGGCAAGGCTTT
6592484 GTTTTTGATCTGCTTTGCTGTTAATGTAGGAAGGCAAGATCTGCTTCTTTAACTAGCTCCACTGC
66 GTTTTTGATCTGCTTTGCTGTTAATGTAGGAAGGCAAGATCTGCTTCTTTAACTAGCTCCACTGC
6592549 AATCGATGGATGCAAG
131 AATCGATGGATGCAAG
6592565 GGCTTAGGGAGACAAAATCTGTAACCTTTAACCAGCTCCAATGCAACCGATGGAGGCAAGGCTTT
1 GGCTTAGGGAGACAAAATCTGTAACCTTTAACCAGCTCCAATGCAACCGATGGAGGCAAGGCTTT
6592630 GTTTTTGATCTGCTTTGCTGTTAATGTAGGAAGGCAAGATCTGCTTCTTTAACTAGCTCCACTGC
66 GTTTTTGATCTGCTTTGCTGTTAATGTAGGAAGGCAAGATCTGCTTCTTTAACTAGCTCCACTGC
6592695 AATCGATGGATGCAAG
131 AATCGATGGATGCAAG
6592711 G
1 G
6592712 CTTTGTTTTC
Statistics
Matches: 147, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
146 147 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (146 bp):
GGCTTAGGGAGACAAAATCTGTAACCTTTAACCAGCTCCAATGCAACCGATGGAGGCAAGGCTTT
GTTTTTGATCTGCTTTGCTGTTAATGTAGGAAGGCAAGATCTGCTTCTTTAACTAGCTCCACTGC
AATCGATGGATGCAAG
Found at i:6592880 original size:88 final size:88
Alignment explanation
Indices: 6592706--6593196 Score: 783
Period size: 88 Copynumber: 5.6 Consensus size: 88
6592696 ATCGATGGAT
* * * ** *
6592706 GCAAGGCTTTGT-T-TTCGATCTGCTTCGCTGTTAATGTAGGAAGGCAAGATCTGCT-TCTTTAA
1 GCAAGG-TTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGAAAGGCAAGATCTTTTGTCTTCAA
* *
6592768 CCAGCTCCA-CTACAACCGAGAGAG
65 CCAGCTCTATC-ACAACCGAAAGAG
* * * * *
6592792 GCAAAGTTTGTATCTTCGACCTGCTTCACTGTCAATGCAGAAAGGTAAGATCTTTTGTCTTCAAC
1 GCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGAAAGGCAAGATCTTTTGTCTTCAAC
6592857 CAGCTCTATCACAACCGAAAGAG
66 CAGCTCTATCACAACCGAAAGAG
6592880 GCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGAAAGGCAAGATCTTTTGTCTTCAAC
1 GCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGAAAGGCAAGATCTTTTGTCTTCAAC
6592945 CAGCTCTATCACAACCGAAAGAG
66 CAGCTCTATCACAACCGAAAGAG
*
6592968 GCAAGGTTTGTGTCTTCGATCTGCTTCACTGTCAATGCAGAAAGGCAAGATCTTTTGTCTTCAAC
1 GCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGAAAGGCAAGATCTTTTGTCTTCAAC
*
6593033 CAGCTCCATCACAACCGAAAGAG
66 CAGCTCTATCACAACCGAAAGAG
6593056 GCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGAAAGGCAAGATCTTTTGTCTTCAAC
1 GCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGAAAGGCAAGATCTTTTGTCTTCAAC
6593121 CAGCTCTATCACAACCGAAAGAG
66 CAGCTCTATCACAACCGAAAGAG
* *
6593144 GCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCT
1 GCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGAAAGGCAAGATCT
6593197 GTAACTTCAT
Statistics
Matches: 378, Mismatches: 23, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
85 5 0.01
86 6 0.02
87 34 0.09
88 332 0.88
89 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (88 bp):
GCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGAAAGGCAAGATCTTTTGTCTTCAAC
CAGCTCTATCACAACCGAAAGAG
Found at i:6595383 original size:7 final size:8
Alignment explanation
Indices: 6595358--6595387 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
6595348 CTATTTTGAC
6595358 TTTGATTTT
1 TTTGA-TTT
6595367 TTTGATTT
1 TTTGATTT
6595375 TTTGATTT
1 TTTGATTT
6595383 TTTGA
1 TTTGA
6595388 ATTCATGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 16 0.76
9 5 0.24
ACGTcount: A:0.13, C:0.00, G:0.13, T:0.73
Consensus pattern (8 bp):
TTTGATTT
Found at i:6597910 original size:19 final size:20
Alignment explanation
Indices: 6597881--6597929 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
6597871 CACTTCGTGA
* *
6597881 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAGATGCATG
*
6597900 CAATGTAATGCAGATGCATG
1 AAATGTAATGCAGATGCATG
6597920 AAATG-AATGC
1 AAATGTAATGC
6597930 CTAAAGAGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAGATGCATG
Found at i:6599505 original size:109 final size:109
Alignment explanation
Indices: 6599311--6599512 Score: 334
Period size: 109 Copynumber: 1.9 Consensus size: 109
6599301 TAAATTCAAT
*
6599311 AGGATATTTGACAATTTGGTTAAACGAGAAATCGAAACCCAGTACATTAGGGCACGTTCCTCGAA
1 AGGATATTTGACAATTTGGTCAAACGAGAAATCGAAACCCAGTACATTAGGGCACGTTCCTCGAA
*
6599376 TTTCCAAACGCAATACATTGCCTTATTTTTGAAAAGTTTTTAAA
66 TTTCCAAACGCAAAACATTGCCTTATTTTTGAAAAGTTTTTAAA
* * *
6599420 AGGATATTT-AGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGA
1 AGGATATTTGA-CAATTTGGTCAAACGAGAAATCGAAACCCAGTACATTAGGGCACGTTCCTCGA
*
6599484 ATTTCCAAACGCAAAATATTGCCTTATTT
65 ATTTCCAAACGCAAAACATTGCCTTATTT
6599513 GGAAATATTT
Statistics
Matches: 86, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
108 1 0.01
109 85 0.99
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30
Consensus pattern (109 bp):
AGGATATTTGACAATTTGGTCAAACGAGAAATCGAAACCCAGTACATTAGGGCACGTTCCTCGAA
TTTCCAAACGCAAAACATTGCCTTATTTTTGAAAAGTTTTTAAA
Found at i:6600122 original size:24 final size:22
Alignment explanation
Indices: 6600095--6600145 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
6600085 ATATATGCAC
*
6600095 ATATATATATTAAGATATATGG
1 ATATATATAATAAGATATATGG
*
6600117 ATATATATAATAAGATATATAG
1 ATATATATAATAAGATATATGG
6600139 ATATATA
1 ATATATA
6600146 ACTAAATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (22 bp):
ATATATATAATAAGATATATGG
Found at i:6600146 original size:20 final size:21
Alignment explanation
Indices: 6600097--6600155 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
6600087 ATATGCACAT
* *
6600097 ATATATATTAAGATATATGGAT
1 ATATATAATAAGATATAT-GAG
6600119 ATATATAATAAGATATAT-AG
1 ATATATAATAAGATATATGAG
6600139 ATATATAACTAA-ATATA
1 ATATATAA-TAAGATATA
6600156 ATATTAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.41
21 3 0.09
22 17 0.50
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.37
Consensus pattern (21 bp):
ATATATAATAAGATATATGAG
Found at i:6601821 original size:5 final size:5
Alignment explanation
Indices: 6601804--6601838 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
6601794 AATAATTAAG
6601804 TATAT TA-AT TATAT TATAT TATAT TATTAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TA-TAT TATAT
6601839 ATAAAAGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 4 0.14
5 19 0.68
6 5 0.18
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:6601836 original size:16 final size:14
Alignment explanation
Indices: 6601804--6601838 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 14
6601794 AATAATTAAG
6601804 TATATTAATTATAT
1 TATATTAATTATAT
6601818 TATATTATATTATTAT
1 TATATTA-ATTA-TAT
6601834 TATAT
1 TATAT
6601839 ATAAAAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.37
15 4 0.21
16 8 0.42
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TATATTAATTATAT
Found at i:6603509 original size:39 final size:39
Alignment explanation
Indices: 6603402--6603539 Score: 120
Period size: 39 Copynumber: 3.5 Consensus size: 39
6603392 GACCTCGAGT
* * *
6603402 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTCGGCTAG-TA
** ** **
6603443 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTA
*
6603481 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTA-TA
1 CGATGAGACACTGGGTGTCAACTATTACTTCG-GCTAGTA
*
6603520 CGATGAGGCACTGGGTGTCA
1 CGATGAGACACTGGGTGTCA
6603540 TATTGGTGTG
Statistics
Matches: 78, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
38 19 0.24
39 38 0.49
40 4 0.05
41 15 0.19
42 2 0.03
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTA
Found at i:6609981 original size:21 final size:21
Alignment explanation
Indices: 6609957--6609996 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6609947 AAGATATACT
*
6609957 TATATAAATATATATTAAAGA
1 TATATAAATATATAATAAAGA
*
6609978 TATATACATATATAATAAA
1 TATATAAATATATAATAAA
6609997 ATACATGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (21 bp):
TATATAAATATATAATAAAGA
Found at i:6610184 original size:18 final size:18
Alignment explanation
Indices: 6610163--6610229 Score: 50
Period size: 18 Copynumber: 3.8 Consensus size: 18
6610153 AAACAATATA
6610163 ACATAATAAAAATACTAT
1 ACATAATAAAAATACTAT
** *
6610181 ACAT-ATAAATCTA-TGT
1 ACATAATAAAAATACTAT
*
6610197 ACATAAAAAAATATACTAT
1 ACATAATAAAA-ATACTAT
*
6610216 -TATAATAATAAATA
1 ACATAATAA-AAATA
6610230 TAATAATATT
Statistics
Matches: 36, Mismatches: 9, Indels: 8
0.68 0.17 0.15
Matches are distributed among these distances:
16 6 0.17
17 11 0.31
18 15 0.42
19 4 0.11
ACGTcount: A:0.58, C:0.09, G:0.01, T:0.31
Consensus pattern (18 bp):
ACATAATAAAAATACTAT
Found at i:6610347 original size:18 final size:20
Alignment explanation
Indices: 6610324--6610362 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
6610314 ATACATATAC
*
6610324 ATATATACTAA-AAC-ATGT
1 ATATATAATAATAACAATGT
6610342 ATATATAATAATAACAATGT
1 ATATATAATAATAACAATGT
6610362 A
1 A
6610363 AAAATAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 10 0.56
19 3 0.17
20 5 0.28
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.33
Consensus pattern (20 bp):
ATATATAATAATAACAATGT
Found at i:6624495 original size:52 final size:50
Alignment explanation
Indices: 6624287--6624496 Score: 189
Period size: 52 Copynumber: 4.2 Consensus size: 50
6624277 TTGCACATAG
* * * *
6624287 TCACATATCAC-ACACCGAAGCCATAGCCCCGCCATGGTCTTACAC-GGA
1 TCACATATCACTTCACCGAAGCCATAGCCCAGCTATGGTCTTATACGGGA
* * * *
6624335 TCACATATCA--T-ACCG-AGCCATATCCCAGATATGGTCCTATACGGAA
1 TCACATATCACTTCACCGAAGCCATAGCCCAGCTATGGTCTTATACGGGA
* * **
6624381 TCACATTATCACATCACACCGAAACCATAGCCCAGCTATGGTCTTATACAAGA
1 TCACA-TATCAC-T-TCACCGAAGCCATAGCCCAGCTATGGTCTTATACGGGA
* * *
6624434 ACACGTATCACGTTGCACCGATGCCATAGCCCAGCTATGGTCTTATACGGGA
1 TCACATATCAC-TT-CACCGAAGCCATAGCCCAGCTATGGTCTTATACGGGA
*
6624486 GCACATATCAC
1 TCACATATCAC
6624497 ATCTTTTACG
Statistics
Matches: 127, Mismatches: 26, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
45 21 0.17
46 11 0.09
47 5 0.04
48 10 0.08
52 53 0.42
53 27 0.21
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.21
Consensus pattern (50 bp):
TCACATATCACTTCACCGAAGCCATAGCCCAGCTATGGTCTTATACGGGA
Found at i:6643630 original size:24 final size:23
Alignment explanation
Indices: 6643602--6643652 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
6643592 AATGGAGTCC
*
6643602 ATCG-ACAAAACTTATTAGTCACTT
1 ATCGAACAAAACTT-TCAG-CACTT
*
6643626 ATCGAATAAAACTTTCAGCACTT
1 ATCGAACAAAACTTTCAGCACTT
6643649 ATCG
1 ATCG
6643653 GTTAGTTGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 9 0.38
24 7 0.29
25 8 0.33
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (23 bp):
ATCGAACAAAACTTTCAGCACTT
Found at i:6646767 original size:30 final size:30
Alignment explanation
Indices: 6646731--6646789 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
6646721 TGGTAAGAGT
6646731 AAAACTTTGCAATTCACATAAAATATGAAC
1 AAAACTTTGCAATTCACATAAAATATGAAC
6646761 AAAACTTTGCAATTCACATAAAATATGAA
1 AAAACTTTGCAATTCACATAAAATATGAA
6646790 AATAGGGATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.51, C:0.15, G:0.07, T:0.27
Consensus pattern (30 bp):
AAAACTTTGCAATTCACATAAAATATGAAC
Found at i:6656533 original size:21 final size:21
Alignment explanation
Indices: 6656507--6656547 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6656497 ATCTGCTCAA
* *
6656507 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
6656528 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
6656548 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:6665667 original size:24 final size:24
Alignment explanation
Indices: 6665640--6665691 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
6665630 TTAGAAAGTC
*
6665640 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
6665664 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
6665688 AAAT
1 AAAT
6665692 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:6667637 original size:24 final size:24
Alignment explanation
Indices: 6667610--6667661 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
6667600 TTAGAAAGTC
*
6667610 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
6667634 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
6667658 AAAT
1 AAAT
6667662 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:6677699 original size:18 final size:19
Alignment explanation
Indices: 6677650--6677699 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 19
6677640 TATAATATAA
6677650 TTATTTAATTAATAAATATC
1 TTATTTAA-TAATAAATATC
6677670 TT-TTATAAAATAATAAATAT-
1 TTATT-T--AATAATAAATATC
6677690 TTATTTAATA
1 TTATTTAATA
6677700 TCTAATACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 10
0.72 0.00 0.28
Matches are distributed among these distances:
18 4 0.15
19 2 0.08
20 6 0.23
21 12 0.46
22 2 0.08
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
TTATTTAATAATAAATATC
Found at i:6680175 original size:44 final size:46
Alignment explanation
Indices: 6680113--6680203 Score: 150
Period size: 47 Copynumber: 2.0 Consensus size: 46
6680103 CACTAATGAA
6680113 CAGAGAGCACTGAAGTGCT-ATA-CAGAGAGCACAAATGTGCTAAT
1 CAGAGAGCACTGAAGTGCTAATATCAGAGAGCACAAATGTGCTAAT
*
6680157 CAGAGAGCACTGACGTGCTAAATATCAGAGAGCACAAATGTGCTAAT
1 CAGAGAGCACTGAAGTGCT-AATATCAGAGAGCACAAATGTGCTAAT
6680204 AATCAGAAAG
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
44 18 0.42
46 3 0.07
47 22 0.51
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.19
Consensus pattern (46 bp):
CAGAGAGCACTGAAGTGCTAATATCAGAGAGCACAAATGTGCTAAT
Found at i:6680199 original size:25 final size:24
Alignment explanation
Indices: 6680113--6680215 Score: 99
Period size: 22 Copynumber: 4.4 Consensus size: 24
6680103 CACTAATGAA
*
6680113 CAGAGAGCACTGAA-GTGCT-ATA-
1 CAGAGAGCAC-AAATGTGCTAATAT
6680135 CAGAGAGCACAAATGTGCT-A-AT
1 CAGAGAGCACAAATGTGCTAATAT
** *
6680157 CAGAGAGCACTGACGTGCTAAATAT
1 CAGAGAGCACAAATGTGCT-AATAT
6680182 CAGAGAGCACAAATGTGCTAATAAT
1 CAGAGAGCACAAATGTGCTAAT-AT
*
6680207 CAGAAAGCA
1 CAGAGAGCA
6680216 TGCTGAGGTC
Statistics
Matches: 67, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
21 3 0.04
22 32 0.48
24 4 0.06
25 28 0.42
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.17
Consensus pattern (24 bp):
CAGAGAGCACAAATGTGCTAATAT
Found at i:6682807 original size:18 final size:19
Alignment explanation
Indices: 6682758--6682807 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 19
6682748 TATAATATAA
6682758 TTATTTAATTAATAAATATC
1 TTATTTAA-TAATAAATATC
6682778 TT-TTATAAAATAATAAATAT-
1 TTATT-T--AATAATAAATATC
6682798 TTATTTAATA
1 TTATTTAATA
6682808 TCTAATACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 10
0.72 0.00 0.28
Matches are distributed among these distances:
18 4 0.15
19 2 0.08
20 6 0.23
21 12 0.46
22 2 0.08
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
TTATTTAATAATAAATATC
Found at i:6685055 original size:25 final size:25
Alignment explanation
Indices: 6685002--6685267 Score: 141
Period size: 25 Copynumber: 10.8 Consensus size: 25
6684992 CACACCACCA
* * * * *
6685002 CTCTTATGAGCGTCTCGATACTTGC
1 CTCTCATGAGCTTCCCGATATTTGG
* *
6685027 CTCTCATGAGCTTCCCGTTATTTAG
1 CTCTCATGAGCTTCCCGATATTTGG
* * * *
6685052 CTCTTATGAGCATCCTGATATATGG
1 CTCTCATGAGCTTCCCGATATTTGG
* * *
6685077 CTCTAATGAGCTTTCCGAT-TAATGG
1 CTCTCATGAGCTTCCCGATAT-TTGG
*
6685102 CTCT-ACGGAGCTTCCCGATA-TTGG
1 CTCTCA-TGAGCTTCCCGATATTTGG
* * *
6685126 CTCGCATGAGCTTTCC-AAATTTGG
1 CTCTCATGAGCTTCCCGATATTTGG
* * *
6685150 CTCTCTTGAGCTTCCCCAT-TATGG
1 CTCTCATGAGCTTCCCGATATTTGG
*
6685174 CTCGT-ATGAGCTTCCCGATAATTGG
1 CTC-TCATGAGCTTCCCGATATTTGG
* ** * **
6685199 CTCACAAAAGCTTCCCGTTACATGG
1 CTCTCATGAGCTTCCCGATATTTGG
* * *
6685224 CT-TACATGAGCTTCCCGTTATATAG
1 CTCT-CATGAGCTTCCCGATATTTGG
** *
6685249 CTCGAAAGAGCTTCCCGAT
1 CTCTCATGAGCTTCCCGAT
6685268 TACATGCTCG
Statistics
Matches: 182, Mismatches: 48, Indels: 22
0.72 0.19 0.09
Matches are distributed among these distances:
23 2 0.01
24 52 0.29
25 128 0.70
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.33
Consensus pattern (25 bp):
CTCTCATGAGCTTCCCGATATTTGG
Found at i:6685211 original size:73 final size:73
Alignment explanation
Indices: 6685074--6685211 Score: 172
Period size: 73 Copynumber: 1.9 Consensus size: 73
6685064 TCCTGATATA
* * * **
6685074 TGGCTCTAATGAGCTTTCCGATTAATGGCTCTACGGAGCTTCCCGATATTGGCTCGCATGAGCTT
1 TGGCTCTAATGAGCTTCCCCATTAATGGCTCTACGGAGCTTCCCGATATTGGCTCACAAAAGCTT
6685139 TCCAAATT
66 TCCAAATT
** *
6685147 TGGCTCTCTTGAGCTTCCCCATT-ATGGCTCGTA-TGAGCTTCCCGATAATTGGCTCACAAAAGC
1 TGGCTCTAATGAGCTTCCCCATTAATGGCTC-TACGGAGCTTCCCGAT-ATTGGCTCACAAAAGC
6685210 TT
64 TT
6685212 CCCGTTACAT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
72 19 0.35
73 36 0.65
ACGTcount: A:0.20, C:0.26, G:0.21, T:0.33
Consensus pattern (73 bp):
TGGCTCTAATGAGCTTCCCCATTAATGGCTCTACGGAGCTTCCCGATATTGGCTCACAAAAGCTT
TCCAAATT
Found at i:6693590 original size:17 final size:17
Alignment explanation
Indices: 6693559--6693593 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
6693549 ACCTTTAATC
**
6693559 TTTTAAATTTTTAAAAA
1 TTTTAAATTAATAAAAA
6693576 TTTTAAATTAATAAAAA
1 TTTTAAATTAATAAAAA
6693593 T
1 T
6693594 AAAATTTTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TTTTAAATTAATAAAAA
Found at i:6704003 original size:22 final size:24
Alignment explanation
Indices: 6703964--6704012 Score: 59
Period size: 22 Copynumber: 2.1 Consensus size: 24
6703954 CAAATAAATT
6703964 TTACTTCTTTTTTATTAC-AG-TA
1 TTACTTCTTTTTTATTACTAGTTA
*
6703986 TTAC-TCTTTCTTTTTTACTAGTTA
1 TTACTTCTTT-TTTATTACTAGTTA
6704010 TTA
1 TTA
6704013 TTTATATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 5 0.22
22 11 0.48
23 2 0.09
24 5 0.22
ACGTcount: A:0.20, C:0.14, G:0.04, T:0.61
Consensus pattern (24 bp):
TTACTTCTTTTTTATTACTAGTTA
Found at i:6709191 original size:3 final size:3
Alignment explanation
Indices: 6709183--6709277 Score: 190
Period size: 3 Copynumber: 31.7 Consensus size: 3
6709173 TTAAACATAA
6709183 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
6709231 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
6709278 CCGTCACAAG
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 92 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:6716182 original size:22 final size:22
Alignment explanation
Indices: 6716157--6716200 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
6716147 AATATACATA
6716157 TATAAAA-AAAAACTGTAAGTAT
1 TATAAAATAAAAA-TGTAAGTAT
6716179 TATAAAATAAAAATGTAAGTAT
1 TATAAAATAAAAATGTAAGTAT
6716201 GTGCATATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.30
Consensus pattern (22 bp):
TATAAAATAAAAATGTAAGTAT
Found at i:6716436 original size:25 final size:25
Alignment explanation
Indices: 6716370--6716438 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 25
6716360 AAAAATGTGT
* *
6716370 ATATACATGTATATATA-AAAAAAC
1 ATATAGATGTAGATATATAAAAAAC
*
6716394 ATATAGATTGTAGCATATATAAAAAAT
1 ATATAGA-TGTAG-ATATATAAAAAAC
6716421 ATA-AGTATGTAGATATAT
1 ATATAG-ATGTAGATATAT
6716439 TGATTAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
24 6 0.16
25 10 0.26
26 12 0.32
27 10 0.26
ACGTcount: A:0.52, C:0.04, G:0.10, T:0.33
Consensus pattern (25 bp):
ATATAGATGTAGATATATAAAAAAC
Found at i:6718202 original size:20 final size:21
Alignment explanation
Indices: 6718164--6718205 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
6718154 TAACAATTAC
6718164 AAATAATATTTAATTATATTT
1 AAATAATATTTAATTATATTT
6718185 AAATAA-ATTT-ATTAATATTT
1 AAATAATATTTAATT-ATATTT
6718205 A
1 A
6718206 TTTTTAGGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 3 0.15
20 11 0.55
21 6 0.30
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AAATAATATTTAATTATATTT
Found at i:6730298 original size:7 final size:7
Alignment explanation
Indices: 6730281--6730313 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
6730271 GTAGCAGGAT
6730281 AAAAATAA
1 AAAAAT-A
6730289 AAAAATA
1 AAAAATA
6730296 AAAAAT-
1 AAAAATA
6730302 AAAAATA
1 AAAAATA
6730309 AAAAA
1 AAAAA
6730314 GAGAGAGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.25
7 12 0.50
8 6 0.25
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:6731933 original size:31 final size:32
Alignment explanation
Indices: 6731895--6731954 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
6731885 AAAATTTGTA
*
6731895 TTAAATATTAAAAAAT-TAATATTTTTATTTT
1 TTAAATATCAAAAAATATAATATTTTTATTTT
* *
6731926 TTAAATATCAAAATATATAATTTTTTTAT
1 TTAAATATCAAAAAATATAATATTTTTAT
6731955 CAAATATTGG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 14 0.56
32 11 0.44
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (32 bp):
TTAAATATCAAAAAATATAATATTTTTATTTT
Found at i:6733209 original size:22 final size:21
Alignment explanation
Indices: 6733184--6733228 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
6733174 ATCATAATAG
* *
6733184 TACCAACATAATAGTGAAAAAA
1 TACCAACAAAATAG-CAAAAAA
*
6733206 TACCAAGAAAATAGCAAAAAA
1 TACCAACAAAATAGCAAAAAA
6733227 TA
1 TA
6733229 AAATAGTAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.62, C:0.13, G:0.09, T:0.16
Consensus pattern (21 bp):
TACCAACAAAATAGCAAAAAA
Found at i:6738368 original size:25 final size:25
Alignment explanation
Indices: 6738321--6738368 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
6738311 TTTGGTGGTC
* * *
6738321 AAATCATGTTTTTAACGCCAAAAGG
1 AAATCACGTTTTTAACACAAAAAGG
6738346 AAATCACGTTTTTAACACAAAAA
1 AAATCACGTTTTTAACACAAAAA
6738369 CCCTCGCCCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.46, C:0.17, G:0.10, T:0.27
Consensus pattern (25 bp):
AAATCACGTTTTTAACACAAAAAGG
Found at i:6741645 original size:28 final size:29
Alignment explanation
Indices: 6741573--6741648 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 29
6741563 TTTTACCATT
* *
6741573 TTAACTTATATTTTTATAATTTTTAAAAGA
1 TTAAATTAAATTTTTATAATTTTT-AAAGA
*
6741603 TTAAATTAAATTTTTATTATTTTT-AAGA
1 TTAAATTAAATTTTTATAATTTTTAAAGA
6741631 TTAAAATGT-AATTTTTAT
1 TT-AAAT-TAAATTTTTAT
6741649 CATTATAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
28 6 0.15
29 13 0.32
30 22 0.54
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.55
Consensus pattern (29 bp):
TTAAATTAAATTTTTATAATTTTTAAAGA
Found at i:6748627 original size:20 final size:20
Alignment explanation
Indices: 6748604--6748646 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
6748594 CTATCCCCTA
6748604 TAAATTTTTTATCCATCTGT
1 TAAATTTTTTATCCATCTGT
6748624 TAAATTTTTTATCCATCTGT
1 TAAATTTTTTATCCATCTGT
6748644 TAA
1 TAA
6748647 TATTGCTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.28, C:0.14, G:0.05, T:0.53
Consensus pattern (20 bp):
TAAATTTTTTATCCATCTGT
Found at i:6758654 original size:20 final size:21
Alignment explanation
Indices: 6758609--6758656 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
6758599 TCAATCAAAC
*
6758609 AAAA-GAAATCCTAAAAAGGA
1 AAAATGAAATCCTAAAAAAGA
* *
6758629 ATAATGAAATCC-AAAAAATA
1 AAAATGAAATCCTAAAAAAGA
6758649 AAAATGAA
1 AAAATGAA
6758657 GATGAAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.67, C:0.08, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATGAAATCCTAAAAAAGA
Found at i:6759019 original size:25 final size:25
Alignment explanation
Indices: 6758991--6759054 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
6758981 TTTCTTTTTC
*
6758991 CCATTTTATTTTTTTAATATTATAT
1 CCATTTTATTTTTTTAATATTACAT
* * *
6759016 CCATTTTATTATATTATTATTACAT
1 CCATTTTATTTTTTTAATATTACAT
*
6759041 ACATTTTTATTTTT
1 CCA-TTTTATTTTT
6759055 ATAAATAAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
25 23 0.74
26 8 0.26
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.62
Consensus pattern (25 bp):
CCATTTTATTTTTTTAATATTACAT
Found at i:6762418 original size:3 final size:3
Alignment explanation
Indices: 6762412--6762475 Score: 128
Period size: 3 Copynumber: 21.3 Consensus size: 3
6762402 ACTCCTCCTG
6762412 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
6762460 CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT C
6762476 CTTACCTCCC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:6766520 original size:33 final size:33
Alignment explanation
Indices: 6766460--6766523 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
6766450 ATAATACATC
* * *
6766460 AAATATATTAAAAATATTAAAATAAATATTTCA
1 AAATAAATTAAAAATATCAAAAAAAATATTTCA
6766493 AAATAAATTAAAAATA-CAATAAAAAATATTT
1 AAATAAATTAAAAATATCAA-AAAAAATATTT
6766524 ATACTTAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 2 0.07
33 25 0.93
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (33 bp):
AAATAAATTAAAAATATCAAAAAAAATATTTCA
Found at i:6771334 original size:6 final size:6
Alignment explanation
Indices: 6771323--6771356 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
6771313 TGTTCACATG
6771323 TATACA TATACA TATACA TATACA TATACA TATA
1 TATACA TATACA TATACA TATACA TATACA TATA
6771357 TATCATTTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (6 bp):
TATACA
Found at i:6775389 original size:34 final size:34
Alignment explanation
Indices: 6775351--6775419 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
6775341 AGAAAACAAA
*
6775351 GATCATATCAATGATTATATCAATGTACCAAGAT
1 GATCATATCAATGATTATATCAATGCACCAAGAT
6775385 GATCATATCAATGATTATATCAATGCACCAAGAT
1 GATCATATCAATGATTATATCAATGCACCAAGAT
6775419 G
1 G
6775420 GTAATGTTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.30
Consensus pattern (34 bp):
GATCATATCAATGATTATATCAATGCACCAAGAT
Found at i:6779278 original size:19 final size:19
Alignment explanation
Indices: 6779256--6779310 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 19
6779246 AAAGATAAAA
6779256 TATAATTAATGTAATAATT
1 TATAATTAATGTAATAATT
*
6779275 TATAA--AAGGTAA-AA--
1 TATAATTAATGTAATAATT
6779289 TATAATTAATGTAATAATT
1 TATAATTAATGTAATAATT
6779308 TAT
1 TAT
6779311 TCCTTTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
14 5 0.17
16 8 0.28
17 8 0.28
19 8 0.28
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (19 bp):
TATAATTAATGTAATAATT
Found at i:6779288 original size:33 final size:33
Alignment explanation
Indices: 6779243--6779310 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
6779233 AAATTTTAAC
6779243 ATAAAAGATAAAATATAATTAATGTAATAATTT
1 ATAAAAGATAAAATATAATTAATGTAATAATTT
*
6779276 ATAAAAGGTAAAATATAATTAATGTAATAATTT
1 ATAAAAGATAAAATATAATTAATGTAATAATTT
6779309 AT
1 AT
6779311 TCCTTTTTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (33 bp):
ATAAAAGATAAAATATAATTAATGTAATAATTT
Found at i:6781406 original size:22 final size:22
Alignment explanation
Indices: 6781379--6781421 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
6781369 AAAACTGGGA
6781379 ACACAACACAGAGAAAATTATG
1 ACACAACACAGAGAAAATTATG
6781401 ACACAACACAGAGAAAATTAT
1 ACACAACACAGAGAAAATTAT
6781422 ATTTAACTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.56, C:0.19, G:0.12, T:0.14
Consensus pattern (22 bp):
ACACAACACAGAGAAAATTATG
Found at i:6800931 original size:15 final size:15
Alignment explanation
Indices: 6800911--6800943 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
6800901 ATAATAAATA
6800911 ATTATTTAAATTTAT
1 ATTATTTAAATTTAT
*
6800926 ATTATTTATATTTAT
1 ATTATTTAAATTTAT
6800941 ATT
1 ATT
6800944 TATATTTGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
ATTATTTAAATTTAT
Found at i:6801086 original size:3 final size:3
Alignment explanation
Indices: 6801078--6801111 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
6801068 TAAACATTAT
6801078 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
6801112 ATTATTATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:6802397 original size:32 final size:33
Alignment explanation
Indices: 6802335--6802399 Score: 89
Period size: 32 Copynumber: 2.0 Consensus size: 33
6802325 CCTAAAATTA
*
6802335 TTATTTTAGAAAAATTTTAAAATTTTAATTTTT
1 TTATTTTAGAAAAATTTTAAAATTTAAATTTTT
*
6802368 TTATTTT-TAAAAA-TTTAAAATTTGAAATTTTT
1 TTATTTTAGAAAAATTTTAAAATTT-AAATTTTT
6802400 ATAAATATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 10 0.34
32 12 0.41
33 7 0.24
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (33 bp):
TTATTTTAGAAAAATTTTAAAATTTAAATTTTT
Found at i:6802415 original size:19 final size:20
Alignment explanation
Indices: 6802388--6802435 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
6802378 AAATTTAAAA
*
6802388 TTTGAAATTTTTATAAAT-AT
1 TTTG-AATTTTTAAAAATAAT
6802408 TTTGAA-TTTTAAAAATAAT
1 TTTGAATTTTTAAAAATAAT
6802427 TTTGAATTT
1 TTTGAATTT
6802436 ATTTTGTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 9 0.36
19 10 0.40
20 6 0.24
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (20 bp):
TTTGAATTTTTAAAAATAAT
Found at i:6802963 original size:11 final size:11
Alignment explanation
Indices: 6802947--6802971 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6802937 AACTTTAACG
6802947 AATTATAAAAT
1 AATTATAAAAT
6802958 AATTATAAAAT
1 AATTATAAAAT
6802969 AAT
1 AAT
6802972 AGTTATATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AATTATAAAAT
Found at i:6805139 original size:19 final size:19
Alignment explanation
Indices: 6805111--6805147 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6805101 TAACTATTCA
6805111 TAAAAAATTGAAAAAAATT
1 TAAAAAATTGAAAAAAATT
* *
6805130 TAAAACATTGTAAAAAAT
1 TAAAAAATTGAAAAAAAT
6805148 ATAAGAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (19 bp):
TAAAAAATTGAAAAAAATT
Found at i:6805845 original size:5 final size:5
Alignment explanation
Indices: 6805837--6805866 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
6805827 ATATATATTA
6805837 TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT
6805867 AAAACATAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:6809124 original size:5 final size:5
Alignment explanation
Indices: 6809114--6809172 Score: 86
Period size: 5 Copynumber: 12.0 Consensus size: 5
6809104 TGTTTCTTTT
*
6809114 ATATA ATATA ATATA ATATA ATATA ATAATA ATAT- A-AGA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA ATATA ATATA ATATA
6809163 ATATA ATATA
1 ATATA ATATA
6809173 TTTAATTATT
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
3 1 0.02
4 2 0.04
5 41 0.84
6 5 0.10
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (5 bp):
ATATA
Found at i:6811467 original size:26 final size:26
Alignment explanation
Indices: 6811420--6811472 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
6811410 TTGAAAGGAA
* *
6811420 ATTTTAAAAATGTTCTAAATATATTTT
1 ATTTAAAAAATATTCTAAATAT-TTTT
*
6811447 ATTTAAAAAATATTC-ATATATTTTT
1 ATTTAAAAAATATTCTAAATATTTTT
6811472 A
1 A
6811473 ATAATTAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 5 0.22
26 5 0.22
27 13 0.57
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (26 bp):
ATTTAAAAAATATTCTAAATATTTTT
Found at i:6811562 original size:11 final size:11
Alignment explanation
Indices: 6811546--6811575 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
6811536 TTCACTTTCA
6811546 ATTATTTTAAC
1 ATTATTTTAAC
*
6811557 ATTATTTTAAT
1 ATTATTTTAAC
6811568 ATTATTTT
1 ATTATTTT
6811576 TTCGTACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (11 bp):
ATTATTTTAAC
Found at i:6815001 original size:18 final size:18
Alignment explanation
Indices: 6814978--6815015 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
6814968 AACTTATTGA
6814978 TCATTTCTGCTCTCTGTT
1 TCATTTCTGCTCTCTGTT
6814996 TCATTTCTGCTCTCTGTT
1 TCATTTCTGCTCTCTGTT
6815014 TC
1 TC
6815016 GGATTCTGCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.05, C:0.29, G:0.11, T:0.55
Consensus pattern (18 bp):
TCATTTCTGCTCTCTGTT
Found at i:6826352 original size:18 final size:18
Alignment explanation
Indices: 6826329--6826417 Score: 115
Period size: 18 Copynumber: 4.9 Consensus size: 18
6826319 CGTTTACGGT
**
6826329 ACTATTCACGTATATGGC
1 ACTATTCACGTATACAGC
* *
6826347 ACTATTCACGTATATAGT
1 ACTATTCACGTATACAGC
6826365 ACTATTCACGTATACAGC
1 ACTATTCACGTATACAGC
* *
6826383 ACTATTCACGTATACGGG
1 ACTATTCACGTATACAGC
*
6826401 ACTGTTCACGTATACAG
1 ACTATTCACGTATACAG
6826418 TAGTTGGGAC
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.31
Consensus pattern (18 bp):
ACTATTCACGTATACAGC
Found at i:6826374 original size:36 final size:36
Alignment explanation
Indices: 6826327--6826417 Score: 128
Period size: 36 Copynumber: 2.5 Consensus size: 36
6826317 ACCGTTTACG
** *
6826327 GTACTATTCACGTATATGGCACTATTCACGTATATA
1 GTACTATTCACGTATACAGCACTATTCACGTATACA
*
6826363 GTACTATTCACGTATACAGCACTATTCACGTATACG
1 GTACTATTCACGTATACAGCACTATTCACGTATACA
* *
6826399 GGACTGTTCACGTATACAG
1 GTACTATTCACGTATACAG
6826418 TAGTTGGGAC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 49 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (36 bp):
GTACTATTCACGTATACAGCACTATTCACGTATACA
Found at i:6842883 original size:21 final size:22
Alignment explanation
Indices: 6842841--6842885 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
6842831 AGCTGAAATT
6842841 GAGAGTGCAAGAGCAGCAGTTCA
1 GAGAGTGCAAGAG-AGCAGTTCA
* *
6842864 GAGAGTGGAAGAG-GCCGTTCA
1 GAGAGTGCAAGAGAGCAGTTCA
6842885 G
1 G
6842886 GAGCAAGAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
23 12 0.60
ACGTcount: A:0.31, C:0.16, G:0.40, T:0.13
Consensus pattern (22 bp):
GAGAGTGCAAGAGAGCAGTTCA
Found at i:6846501 original size:4 final size:4
Alignment explanation
Indices: 6846492--6846518 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
6846482 TGCTTCTAAT
6846492 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
6846519 TTCAGTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:6857216 original size:31 final size:30
Alignment explanation
Indices: 6857159--6857218 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
6857149 ATTTTATTGC
* *
6857159 TAATTTTGTTATTATTTTAAAGGTATTTGT
1 TAATTTTATTATTATTTTAAACGTATTTGT
*
6857189 TAATTTTATTATTATTTTTATACGTATTTG
1 TAATTTTATTATTA-TTTTAAACGTATTTG
6857219 CTTGTTAAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 13 0.50
31 13 0.50
ACGTcount: A:0.27, C:0.02, G:0.10, T:0.62
Consensus pattern (30 bp):
TAATTTTATTATTATTTTAAACGTATTTGT
Found at i:6859001 original size:19 final size:21
Alignment explanation
Indices: 6858978--6859024 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 21
6858968 ATAAAAAATT
*
6858978 TAAAAATA-TAATACA-TAAA
1 TAAAAATACTAAAACATTAAA
6858997 -AAAAATACTAAAACATTAAAA
1 TAAAAATACTAAAACATT-AAA
6859018 TAAAAAT
1 TAAAAAT
6859025 TTCCCAACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 7 0.30
19 6 0.26
20 1 0.04
21 3 0.13
22 6 0.26
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.23
Consensus pattern (21 bp):
TAAAAATACTAAAACATTAAA
Found at i:6862097 original size:20 final size:21
Alignment explanation
Indices: 6862072--6862117 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
6862062 GATTTCTAAT
6862072 TATTTTTATCTTGAAA-TAAA
1 TATTTTTATCTTGAAATTAAA
* *
6862092 TATTTTTTTTTTGAAATTAAA
1 TATTTTTATCTTGAAATTAAA
6862113 -ATTTT
1 TATTTT
6862118 ACTCATCCCG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (21 bp):
TATTTTTATCTTGAAATTAAA
Found at i:6862652 original size:11 final size:11
Alignment explanation
Indices: 6862623--6862658 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
6862613 ATGATGTGGC
* *
6862623 AAAAAATGAAA
1 AAAAAATTATA
6862634 AAAAAATTATA
1 AAAAAATTATA
6862645 AAAAAATTATA
1 AAAAAATTATA
6862656 AAA
1 AAA
6862659 TACTTCTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (11 bp):
AAAAAATTATA
Found at i:6862693 original size:10 final size:10
Alignment explanation
Indices: 6862678--6862807 Score: 60
Period size: 10 Copynumber: 13.4 Consensus size: 10
6862668 TGTACGATAT
6862678 TTTTTTATAA
1 TTTTTTATAA
*
6862688 TTTTTTACAA
1 TTTTTTATAA
**
6862698 -AATTTAT-A
1 TTTTTTATAA
6862706 TTTCTTTAT-A
1 TTT-TTTATAA
*
6862716 TTTTGTATAA
1 TTTTTTATAA
*
6862726 TTTTCTTACAA
1 TTTT-TTATAA
*
6862737 --CTTTATAA
1 TTTTTTATAA
**
6862745 AATTTTATAA
1 TTTTTTATAA
6862755 TTTTTT-T-A
1 TTTTTTATAA
*
6862763 TATTTCTAT-A
1 T-TTTTTATAA
*
6862773 TATTTTATAA
1 TTTTTTATAA
*
6862783 TTTTTTATGA
1 TTTTTTATAA
*
6862793 TTTTTATAAAA
1 TTTTT-TATAA
6862804 TTTT
1 TTTT
6862808 ACAATTTACA
Statistics
Matches: 89, Mismatches: 21, Indels: 19
0.69 0.16 0.15
Matches are distributed among these distances:
8 8 0.09
9 19 0.21
10 51 0.57
11 11 0.12
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:6862751 original size:57 final size:56
Alignment explanation
Indices: 6862681--6862812 Score: 133
Period size: 57 Copynumber: 2.3 Consensus size: 56
6862671 ACGATATTTT
** *
6862681 TTTATAATTTTTTACAA-AATTTATATTTCTTTATATTTTGTATAATTTTCTTA-CAAC
1 TTTATAAAATTTTACAATAATTTATATTTCTATATA-TTT-TATAATTTT-TTATCAAC
* ** * **
6862738 TTTATAAAATTTTATAATTTTTTTATATTTCTATATATTTTATAATTTTTTATGATT
1 TTTATAAAATTTTACAA-TAATTTATATTTCTATATATTTTATAATTTTTTATCAAC
6862795 TTTATAAAATTTTACAAT
1 TTTATAAAATTTTACAAT
6862813 TTACATATAT
Statistics
Matches: 62, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
56 4 0.06
57 40 0.65
58 3 0.05
59 15 0.24
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (56 bp):
TTTATAAAATTTTACAATAATTTATATTTCTATATATTTTATAATTTTTTATCAAC
Found at i:6862814 original size:19 final size:19
Alignment explanation
Indices: 6862738--6862814 Score: 68
Period size: 19 Copynumber: 4.1 Consensus size: 19
6862728 TTCTTACAAC
6862738 TTTATAAAATTTTATAATT
1 TTTATAAAATTTTATAATT
* *
6862757 TTT-TTATATTTCTAT-ATAT
1 TTTATAAAATTT-TATAAT-T
** *
6862776 TTTATAATTTTTTATGATT
1 TTTATAAAATTTTATAATT
*
6862795 TTTATAAAATTTTACAATT
1 TTTATAAAATTTTATAATT
6862814 T
1 T
6862815 ACATATATAT
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
18 8 0.17
19 30 0.65
20 8 0.17
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (19 bp):
TTTATAAAATTTTATAATT
Found at i:6862814 original size:57 final size:59
Alignment explanation
Indices: 6862700--6862814 Score: 155
Period size: 57 Copynumber: 2.0 Consensus size: 59
6862690 TTTTACAAAA
* *
6862700 TTTATATTTCTTTATATTTTGTATAATTTTCTTACAACTTTATAAAATTTTATAATTTT
1 TTTATATTTCTATATATTTTGTATAATTTTCTTACAACTTTATAAAATTTTACAATTTT
* **
6862759 TTTATATTTCTATATA-TTT-TATAATTTT-TTATGATTTTTATAAAATTTTACAATTT
1 TTTATATTTCTATATATTTTGTATAATTTTCTTA-CAACTTTATAAAATTTTACAATTT
6862815 ACATATATAT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
56 3 0.06
57 29 0.58
58 3 0.06
59 15 0.30
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (59 bp):
TTTATATTTCTATATATTTTGTATAATTTTCTTACAACTTTATAAAATTTTACAATTTT
Found at i:6866264 original size:21 final size:21
Alignment explanation
Indices: 6866240--6866282 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
6866230 AAGTTTGCTT
6866240 TCATGAGTTAATTGAAACAAA
1 TCATGAGTTAATTGAAACAAA
6866261 TCATGAGTTAATTGAAACAAA
1 TCATGAGTTAATTGAAACAAA
6866282 T
1 T
6866283 GCTTATTGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.09, G:0.14, T:0.30
Consensus pattern (21 bp):
TCATGAGTTAATTGAAACAAA
Found at i:6875107 original size:135 final size:134
Alignment explanation
Indices: 6874866--6875138 Score: 492
Period size: 135 Copynumber: 2.0 Consensus size: 134
6874856 TGTCTGCTGA
6874866 AGAGTTGAAACTCAATAATCTTAGTATGAGTTCTTTTCCTTGTGCTTAAAATGTGTATATTTCTG
1 AGAGTTGAAACTCAATAATCTTAGTATGAGTTCTTTTCCTTGTGCTTAAAATGTGTATATTTCTG
*
6874931 TAGGAGGTTTCTTCAGCAAGATTTTGATACAACCCTTGCTTTTGTTAATCATGAAAGGAAACAAA
66 TAGGAGATTTCTTCAGCAAGATTTTGATACAACCCTTGCTTTTGTTAATCATGAAAGGAAACAAA
6874996 GAAC
131 GAAC
* * *
6875000 AGAGTTGAAACTCAATAATTTTATTATTGAGTTCTTTTCCTTGTGCTTAAAATGTGTATATTTTT
1 AGAGTTGAAACTCAATAATCTTAGTA-TGAGTTCTTTTCCTTGTGCTTAAAATGTGTATATTTCT
*
6875065 GTAGGAGATTTCTTCAGCAAGATTTTGATACAACCCTTGCTTTTGTTAATCATGAACGGAAACAA
65 GTAGGAGATTTCTTCAGCAAGATTTTGATACAACCCTTGCTTTTGTTAATCATGAAAGGAAACAA
6875130 AGAAC
130 AGAAC
6875135 AGAG
1 AGAG
6875139 GTACGTCTTC
Statistics
Matches: 133, Mismatches: 5, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
134 24 0.18
135 109 0.82
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.37
Consensus pattern (134 bp):
AGAGTTGAAACTCAATAATCTTAGTATGAGTTCTTTTCCTTGTGCTTAAAATGTGTATATTTCTG
TAGGAGATTTCTTCAGCAAGATTTTGATACAACCCTTGCTTTTGTTAATCATGAAAGGAAACAAA
GAAC
Found at i:6880862 original size:22 final size:22
Alignment explanation
Indices: 6880813--6880855 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
6880803 AACATAAAAA
* *
6880813 AATATTTTTTAATATTTACTTAT
1 AATA-TTTTTAAGATTTAATTAT
6880836 AATATTTTTAAGATTTAATT
1 AATATTTTTAAGATTTAATT
6880856 TTCATATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (22 bp):
AATATTTTTAAGATTTAATTAT
Found at i:6885760 original size:51 final size:51
Alignment explanation
Indices: 6885721--6885817 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 51
6885711 ATATCTTATG
*
6885721 TAAATATTGACAAAA-ATGTAAATATTGTA-AATTAAATTTATTAAATTAAGA
1 TAAA-ATTGACAAAATATATAAATATTG-AGAATTAAATTTATTAAATTAAGA
* *
6885772 TCAAATTGACAAAATATATAAATTTTGAGAATTAAATTTATTAAAT
1 TAAAATTGACAAAATATATAAATATTGAGAATTAAATTTATTAAAT
6885818 AATAAACAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
50 11 0.27
51 30 0.73
ACGTcount: A:0.52, C:0.03, G:0.07, T:0.38
Consensus pattern (51 bp):
TAAAATTGACAAAATATATAAATATTGAGAATTAAATTTATTAAATTAAGA
Found at i:6892206 original size:19 final size:19
Alignment explanation
Indices: 6892182--6892225 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
6892172 ACTAAATATT
*
6892182 TTAATATTTTATTATCTT-A
1 TTAATATATTATTA-CTTAA
6892201 TTAATATATTATTACTTAA
1 TTAATATATTATTACTTAA
6892220 TTAATA
1 TTAATA
6892226 ATAAAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 3 0.13
19 20 0.87
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.57
Consensus pattern (19 bp):
TTAATATATTATTACTTAA
Found at i:6907903 original size:21 final size:21
Alignment explanation
Indices: 6907877--6907931 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
6907867 AACAGTGGTG
* *
6907877 GCGGTGAGATTAGTTCCTGTA
1 GCGGTGAGATTAGGTACTGTA
*
6907898 GCGGTGAGATTGGGTACTGTA
1 GCGGTGAGATTAGGTACTGTA
6907919 GCGGTGAGATTAG
1 GCGGTGAGATTAG
6907932 AAACAATGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.20, C:0.11, G:0.40, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGGTACTGTA
Found at i:6909371 original size:2 final size:2
Alignment explanation
Indices: 6909364--6909395 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
6909354 TCAACTTCCA
*
6909364 TC TC TC TC TC TC TC TC TT TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
6909396 CCTTCCACCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:6912346 original size:25 final size:25
Alignment explanation
Indices: 6912318--6912367 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
6912308 ATCCACATAG
6912318 TAATTTATACAAATTGAATAAAGAA
1 TAATTTATACAAATTGAATAAAGAA
6912343 TAATTTATACAAATTGAATAAAGAA
1 TAATTTATACAAATTGAATAAAGAA
6912368 AATCCGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.56, C:0.04, G:0.08, T:0.32
Consensus pattern (25 bp):
TAATTTATACAAATTGAATAAAGAA
Found at i:6921882 original size:27 final size:27
Alignment explanation
Indices: 6921843--6921897 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
6921833 AGAGGGAAAA
6921843 ATTAAAAAGAAAAGAAAAAATGAAACC
1 ATTAAAAAGAAAAGAAAAAATGAAACC
* *
6921870 ATTAAAAATAAAAGAAAAACTGAAACC
1 ATTAAAAAGAAAAGAAAAAATGAAACC
6921897 A
1 A
6921898 ACAATTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.69, C:0.09, G:0.09, T:0.13
Consensus pattern (27 bp):
ATTAAAAAGAAAAGAAAAAATGAAACC
Found at i:6921909 original size:32 final size:27
Alignment explanation
Indices: 6921842--6921912 Score: 81
Period size: 27 Copynumber: 2.5 Consensus size: 27
6921832 GAGAGGGAAA
6921842 AATTAAAAAGAAAAGAAAAAATGAAACC
1 AATTAAAAA-AAAAGAAAAAATGAAACC
*
6921870 -ATTAAAAATAAAAGAAAAACTGAAACCAAC
1 AATTAAAAA-AAAAGAAAAAATGAAA-C--C
6921900 AATTAAAAAAAAA
1 AATTAAAAAAAAA
6921913 ACTAGTAGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
27 23 0.62
28 1 0.03
30 5 0.14
31 8 0.22
ACGTcount: A:0.72, C:0.08, G:0.07, T:0.13
Consensus pattern (27 bp):
AATTAAAAAAAAAGAAAAAATGAAACC
Found at i:6922010 original size:22 final size:20
Alignment explanation
Indices: 6921993--6922033 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
6921983 AGAAAAATGG
*
6921993 AAATTAAAAAATTAAAAAAT
1 AAATAAAAAAATTAAAAAAT
6922013 AAATAAAAACAATTTAAAAAA
1 AAATAAAAA-AA-TTAAAAAA
6922034 AGAAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 2 0.11
22 8 0.44
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (20 bp):
AAATAAAAAAATTAAAAAAT
Found at i:6934808 original size:16 final size:17
Alignment explanation
Indices: 6934787--6934818 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
6934777 AATCACTCTA
6934787 ATAAAATT-ATATATAC
1 ATAAAATTAATATATAC
6934803 ATAAAATTAATATATA
1 ATAAAATTAATATATA
6934819 AATTCAGTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
ATAAAATTAATATATAC
Found at i:6947002 original size:22 final size:20
Alignment explanation
Indices: 6946984--6947024 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
6946974 TAGAAAATGG
*
6946984 AAATTAAAAAATTAAAAAAT
1 AAATAAAAAAATTAAAAAAT
6947004 AAATAAAAACAATTTAAAAAA
1 AAATAAAAA-AA-TTAAAAAA
6947025 AGAAAAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 2 0.11
22 8 0.44
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (20 bp):
AAATAAAAAAATTAAAAAAT
Found at i:6959810 original size:16 final size:14
Alignment explanation
Indices: 6959789--6959823 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 14
6959779 CAACTCTAAT
6959789 ATAAAATTATATATA
1 ATAAAATTA-ATATA
6959804 CATAAAATTAATATA
1 -ATAAAATTAATATA
6959819 ATAAA
1 ATAAA
6959824 TTCAGTACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.26
15 5 0.26
16 9 0.47
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (14 bp):
ATAAAATTAATATA
Found at i:6960939 original size:24 final size:26
Alignment explanation
Indices: 6960912--6960970 Score: 61
Period size: 27 Copynumber: 2.3 Consensus size: 26
6960902 TATATTTTAT
*
6960912 TTTATTA-ATCATACTTTATAA-TG-A
1 TTTATTAGATAATA-TTTATAATTGCA
6960936 TTTAATTATGATAATATTTATAATTGCA
1 TTT-ATTA-GATAATATTTATAATTGCA
6960964 TTTATTA
1 TTTATTA
6960971 TTATTTTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
24 3 0.10
25 4 0.14
26 7 0.24
27 11 0.38
28 4 0.14
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (26 bp):
TTTATTAGATAATATTTATAATTGCA
Found at i:6965022 original size:9 final size:9
Alignment explanation
Indices: 6965003--6965045 Score: 52
Period size: 9 Copynumber: 4.7 Consensus size: 9
6964993 GAATTATGTA
6965003 TTTTTAA-T
1 TTTTTAATT
6965011 TTTTTAATT
1 TTTTTAATT
6965020 TTTTTAATAAT
1 TTTTTAAT--T
6965031 TTTTTAATT
1 TTTTTAATT
*
6965040 TATTTA
1 TTTTTA
6965046 TTCTAATAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
8 7 0.23
9 15 0.48
11 9 0.29
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (9 bp):
TTTTTAATT
Found at i:6965032 original size:20 final size:20
Alignment explanation
Indices: 6965007--6965045 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
6964997 TATGTATTTT
*
6965007 TAATTTTTTAATTTTTTTAA
1 TAATTTTTTAATTTATTTAA
6965027 TAATTTTTTAATTTATTTA
1 TAATTTTTTAATTTATTTA
6965046 TTCTAATAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
TAATTTTTTAATTTATTTAA
Found at i:6965044 original size:12 final size:11
Alignment explanation
Indices: 6965007--6965038 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
6964997 TATGTATTTT
6965007 TAATTTTTTAA
1 TAATTTTTTAA
6965018 T--TTTTTTAA
1 TAATTTTTTAA
6965027 TAATTTTTTAA
1 TAATTTTTTAA
6965038 T
1 T
6965039 TTATTTATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 9 0.47
11 10 0.53
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TAATTTTTTAA
Found at i:6965361 original size:21 final size:21
Alignment explanation
Indices: 6965336--6965388 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
6965326 AGCGGTGGCT
* *
6965336 GTGAGATTAGTTATTGTAGCG
1 GTGAGATTAGATATTGTAGCA
*
6965357 GTGAGATTGGATATTGTAGCA
1 GTGAGATTAGATATTGTAGCA
6965378 GTGAGATTAGA
1 GTGAGATTAGA
6965389 AACAATGGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.28, C:0.04, G:0.34, T:0.34
Consensus pattern (21 bp):
GTGAGATTAGATATTGTAGCA
Found at i:6976377 original size:26 final size:26
Alignment explanation
Indices: 6976347--6976400 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
6976337 ATTTTCAGAA
6976347 TTTTTGGTTTACCCAATAAGTACAGT
1 TTTTTGGTTTACCCAATAAGTACAGT
6976373 TTTTTGGTTTACCCAATAAGTACAGT
1 TTTTTGGTTTACCCAATAAGTACAGT
6976399 TT
1 TT
6976401 ATTCTTTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (26 bp):
TTTTTGGTTTACCCAATAAGTACAGT
Found at i:6976794 original size:13 final size:13
Alignment explanation
Indices: 6976776--6976802 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6976766 TTCAAAGTTA
6976776 AACTACTGCTGCT
1 AACTACTGCTGCT
6976789 AACTACTGCTGCT
1 AACTACTGCTGCT
6976802 A
1 A
6976803 CCCAAAACAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.30
Consensus pattern (13 bp):
AACTACTGCTGCT
Done.