Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 143 of 175
Found at i:43870552 original size:11 final size:11
Alignment explanation
Indices: 43870461--43870551 Score: 59
Period size: 11 Copynumber: 8.5 Consensus size: 11
43870451 ATAAATCCTT
43870461 TCTCTAATTTCC
1 TCTC-AATTTCC
*
43870473 TCTCAATTTGC
1 TCTCAATTTCC
43870484 TCTCAAATTT-C
1 TCTC-AATTTCC
*
43870495 TCTCAA-ATCC
1 TCTCAATTTCC
**
43870505 -CT--ATTTAA
1 TCTCAATTTCC
*
43870513 TCTCAATTTGC
1 TCTCAATTTCC
43870524 TCTCAATTTCC
1 TCTCAATTTCC
*
43870535 TTTCAAATTT-C
1 TCTC-AATTTCC
43870546 TCTCAA
1 TCTCAA
43870552 ATCCCTATTT
Statistics
Matches: 62, Mismatches: 10, Indels: 16
0.70 0.11 0.18
Matches are distributed among these distances:
7 1 0.02
8 1 0.02
9 5 0.08
10 5 0.08
11 36 0.58
12 14 0.23
ACGTcount: A:0.24, C:0.29, G:0.02, T:0.45
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:43872421 original size:18 final size:18
Alignment explanation
Indices: 43872390--43872432 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
43872380 TGCCAGGTGC
** *
43872390 GTATCCTAGCCCTTTTAT
1 GTATCCTAAACCTTATAT
43872408 GTATCCTAAACCTTATAT
1 GTATCCTAAACCTTATAT
*
43872426 GTTTCCT
1 GTATCCT
43872433 TTTTCTAATC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.21, C:0.26, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAAACCTTATAT
Found at i:43876335 original size:126 final size:126
Alignment explanation
Indices: 43876109--43876411 Score: 444
Period size: 126 Copynumber: 2.4 Consensus size: 126
43876099 ACGCGGGAGC
* * * *
43876109 TTTTTTCAAGAGCTACTGTAGCAAAAAACGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGTTG
1 TTTTTTCAAGAGCTACTGTAGC-AAAAGCGCGTCCACGTAGAAGCTTCTTTCAGTACTTCTGCTG
43876174 ACAAAGCATCCTGCTTAAAGCATTTTTGACACTGTTCGCTCAGAAACGTCTACTCGAAATTA
65 ACAAAGCATCCTGCTTAAAGCATTTTTGACACTGTTCGCTCAGAAACGTCTACTCGAAATTA
* * *
43876236 TTTTTTCAAGAGCTATTGTAGCAAAAGCTCGTCCACGTAGAAGCTTTTTTCAGTACTTCTGCTGA
1 TTTTTTCAAGAGCTACTGTAGCAAAAGCGCGTCCACGTAGAAGCTTCTTTCAGTACTTCTGCTGA
* * *
43876301 CAAAGTATCTTGCTTAAAGCATTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTA
66 CAAAGCATCCTGCTTAAAGCATTTTTGACACTGTTCGCTCAGAAACGTCTACTCGAAATTA
* * * * * * *
43876362 TTTTCTCAGGAGCCACTGTAGCAAAAGAGCGTCCACATGGGAGCTTCTTT
1 TTTTTTCAAGAGCTACTGTAGCAAAAGCGCGTCCACGTAGAAGCTTCTTT
43876412 AAATTAATAA
Statistics
Matches: 156, Mismatches: 20, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
126 135 0.87
127 21 0.13
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (126 bp):
TTTTTTCAAGAGCTACTGTAGCAAAAGCGCGTCCACGTAGAAGCTTCTTTCAGTACTTCTGCTGA
CAAAGCATCCTGCTTAAAGCATTTTTGACACTGTTCGCTCAGAAACGTCTACTCGAAATTA
Found at i:43882963 original size:9 final size:9
Alignment explanation
Indices: 43882949--43883000 Score: 95
Period size: 9 Copynumber: 5.8 Consensus size: 9
43882939 TTTGGTTAAA
43882949 AATTACCCG
1 AATTACCCG
43882958 AATTACCCG
1 AATTACCCG
43882967 AATTACCCG
1 AATTACCCG
43882976 AATTACCCG
1 AATTACCCG
*
43882985 AATTAACCG
1 AATTACCCG
43882994 AATTACC
1 AATTACC
43883001 GAAAAATACC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.37, C:0.31, G:0.10, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:43891228 original size:21 final size:21
Alignment explanation
Indices: 43891202--43891242 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
43891192 AGACGAGCAA
* *
43891202 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
43891223 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
43891243 TTGAGCAGAT
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:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:43894766 original size:4 final size:4
Alignment explanation
Indices: 43894757--43894781 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
43894747 AGTAAAGTAA
43894757 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
43894782 TAAAATTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:43902487 original size:36 final size:37
Alignment explanation
Indices: 43902423--43902501 Score: 142
Period size: 36 Copynumber: 2.2 Consensus size: 37
43902413 GATTAATTTC
*
43902423 TATAAAATTTAAATTATTTTTTTATCTATATATAACT
1 TATATAATTTAAATTATTTTTTTATCTATATATAACT
43902460 TATATAATTTAAATTA-TTTTTTATCTATATATAACT
1 TATATAATTTAAATTATTTTTTTATCTATATATAACT
43902496 TATATA
1 TATATA
43902502 TAAGTACAGG
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
36 26 0.63
37 15 0.37
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (37 bp):
TATATAATTTAAATTATTTTTTTATCTATATATAACT
Found at i:43902576 original size:25 final size:24
Alignment explanation
Indices: 43902539--43902606 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 24
43902529 ATATTTTTAA
43902539 AAAAATTATATTATTAAATTTACATTT
1 AAAAA-TA-ATTATTAAATTTA-ATTT
* *
43902566 AAAAATAATTATGATATTTAATTT
1 AAAAATAATTATTAAATTTAATTT
*
43902590 -AAAATTATTAGTTAAAT
1 AAAAATAATTA-TTAAAT
43902607 AAGCTTAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
23 9 0.26
24 8 0.23
25 11 0.31
26 2 0.06
27 5 0.14
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (24 bp):
AAAAATAATTATTAAATTTAATTT
Found at i:43902589 original size:30 final size:29
Alignment explanation
Indices: 43902534--43902590 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 29
43902524 AAAAAATATT
43902534 TTTAAAAAAATTATATTATTAAATTTACA
1 TTTAAAAAAATTATATTATTAAATTTACA
*
43902563 TTTAAAAATAATTATGA-TATTTAATTTA
1 TTTAAAAA-AATTAT-ATTATTAAATTTA
43902591 AAATTATTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 8 0.32
30 16 0.64
31 1 0.04
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (29 bp):
TTTAAAAAAATTATATTATTAAATTTACA
Found at i:43902812 original size:19 final size:17
Alignment explanation
Indices: 43902788--43902822 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
43902778 TGTGCTAATT
43902788 TTATTATTGTAAAGTAGAG
1 TTATTATT-TAAA-TAGAG
43902807 TTATTATTTAAATAGA
1 TTATTATTTAAATAGA
43902823 ATTTTAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 4 0.25
19 8 0.50
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.46
Consensus pattern (17 bp):
TTATTATTTAAATAGAG
Found at i:43904349 original size:20 final size:20
Alignment explanation
Indices: 43904326--43904369 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
43904316 AAAAAAAATC
*
43904326 AAATAATTT-TAAAAATTTTA
1 AAAT-ATTTATAAAAATTTCA
43904346 AAATATTTATAAAAATTTCA
1 AAATATTTATAAAAATTTCA
43904366 AAAT
1 AAAT
43904370 TTATATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
AAATATTTATAAAAATTTCA
Found at i:43904363 original size:10 final size:9
Alignment explanation
Indices: 43904330--43904368 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
43904320 AAAATCAAAT
43904330 AATTTTAAA
1 AATTTTAAA
43904339 AATTTTAAA
1 AATTTTAAA
43904348 ATATTTATAAA
1 A-ATTT-TAAA
*
43904359 AATTTCAAA
1 AATTTTAAA
43904368 A
1 A
43904369 TTTATATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
9 14 0.52
10 8 0.30
11 5 0.19
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (9 bp):
AATTTTAAA
Found at i:43905931 original size:16 final size:16
Alignment explanation
Indices: 43905901--43905930 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
43905891 TAAATATGTA
43905901 AATTTAATAAGTTTTG
1 AATTTAATAAGTTTTG
43905917 AATTTAATAA-TTTT
1 AATTTAATAAGTTTT
43905931 TTAAAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (16 bp):
AATTTAATAAGTTTTG
Found at i:43906685 original size:3 final size:3
Alignment explanation
Indices: 43906679--43906717 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
43906669 CCCTAATAAC
43906679 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
43906718 GGCTGTAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:43907336 original size:9 final size:9
Alignment explanation
Indices: 43907322--43907351 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
43907312 GGGTTTAGAG
43907322 TTTTAGGGT
1 TTTTAGGGT
*
43907331 TTTTAGGAT
1 TTTTAGGGT
43907340 TTTTAGGGT
1 TTTTAGGGT
43907349 TTT
1 TTT
43907352 GGAGAAAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.13, C:0.00, G:0.27, T:0.60
Consensus pattern (9 bp):
TTTTAGGGT
Found at i:43913727 original size:19 final size:19
Alignment explanation
Indices: 43913689--43913724 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
43913679 TAGCTACAGA
43913689 ATTAAAACAATTAAAATTC
1 ATTAAAACAATTAAAATTC
*
43913708 ATTAATACAA-TAAAATT
1 ATTAAAACAATTAAAATT
43913725 TCAATTTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTAAAACAATTAAAATTC
Found at i:43914346 original size:24 final size:25
Alignment explanation
Indices: 43914300--43914346 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
43914290 TAAGATAACA
** *
43914300 TATTATAATATATTTTAACTTTAAT
1 TATTATAATATATAATAAATTTAAT
43914325 TATTA-AATATATAATAAATTTA
1 TATTATAATATATAATAAATTTA
43914347 CACATAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (25 bp):
TATTATAATATATAATAAATTTAAT
Found at i:43914721 original size:30 final size:32
Alignment explanation
Indices: 43914659--43914727 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
43914649 AACTAAAAAA
* *
43914659 AGTTGAAGTACTAACTTAAGAAAAAGGGGTAT
1 AGTTTAAGTACCAACTTAAGAAAAAGGGGTAT
*
43914691 AGTTTAAGTACCAATTTAAG-AAAA-GGGTAT
1 AGTTTAAGTACCAACTTAAGAAAAAGGGGTAT
*
43914721 AATTTAA
1 AGTTTAA
43914728 AAACTATTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 12 0.36
31 4 0.12
32 17 0.52
ACGTcount: A:0.45, C:0.06, G:0.20, T:0.29
Consensus pattern (32 bp):
AGTTTAAGTACCAACTTAAGAAAAAGGGGTAT
Found at i:43918810 original size:14 final size:14
Alignment explanation
Indices: 43918787--43918828 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
43918777 TGTATAGTTG
43918787 ATTCTGAAAAAATA
1 ATTCTGAAAAAATA
* *
43918801 ATTTTGAAAAGATA
1 ATTCTGAAAAAATA
*
43918815 GTTCTGAAAAAATA
1 ATTCTGAAAAAATA
43918829 TCCCGGGATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.52, C:0.05, G:0.12, T:0.31
Consensus pattern (14 bp):
ATTCTGAAAAAATA
Found at i:43919106 original size:127 final size:126
Alignment explanation
Indices: 43918859--43919173 Score: 461
Period size: 127 Copynumber: 2.5 Consensus size: 126
43918849 CTGATAGTTG
* * * ** *
43918859 GGTTTAAAAACGCTTCAAGTAGGATGCACTGTCAGCAAAAGTACTAAAAAAAGCTCTAAGCTGGA
1 GGTTGAAAAACGCTTCAAGCAGGATGCACTGTCAGAAAAAGTACTAAAAAAAGCTCCCAGCTAGA
*
43918924 CGCTTTTTTTGTACAGTTGATTCTGAAAAAATAATTTTGAGAAGATGGTTCTGAAAAAATA
66 CGCTTTTTTTGTACAGTTGATTCTGAAAAAATAAATTTGAGAAGATGGTTCTGAAAAAATA
* * * *
43918985 GGTTGAAAAACGCTTCAAGCAAGATGCATTATCAGTAAAAGTACTAAAAAAAGCTCCCAGCTAGA
1 GGTTGAAAAACGCTTCAAGCAGGATGCACTGTCAGAAAAAGTACTAAAAAAAGCTCCCAGCTAGA
* *
43919050 C-CTTTTTTTTTGTACAGTTGTTTCTGAAAAAATAAATTTGAGAAGATGGTTTTGAAAAAATA
66 CGC--TTTTTTTGTACAGTTGATTCTGAAAAAATAAATTTGAGAAGATGGTTCTGAAAAAATA
* * *
43919112 GATTGAAAAACGCTTCAAGCAGGATGCACTGTCAGAAAAAGTACTGAAAAAAGCTTCCAGCT
1 GGTTGAAAAACGCTTCAAGCAGGATGCACTGTCAGAAAAAGTACTAAAAAAAGCTCCCAGCT
43919174 GGATGCTCTT
Statistics
Matches: 168, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
125 1 0.01
126 57 0.34
127 110 0.65
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (126 bp):
GGTTGAAAAACGCTTCAAGCAGGATGCACTGTCAGAAAAAGTACTAAAAAAAGCTCCCAGCTAGA
CGCTTTTTTTGTACAGTTGATTCTGAAAAAATAAATTTGAGAAGATGGTTCTGAAAAAATA
Found at i:43919345 original size:25 final size:25
Alignment explanation
Indices: 43919273--43919334 Score: 106
Period size: 25 Copynumber: 2.5 Consensus size: 25
43919263 TTACAGCAAG
*
43919273 AGAAGTTGAAGAAGTTCAGAAGAAT
1 AGAAATTGAAGAAGTTCAGAAGAAT
*
43919298 AAAAATTGAAGAAGTTCAGAAGAAT
1 AGAAATTGAAGAAGTTCAGAAGAAT
43919323 AGAAATTGAAGA
1 AGAAATTGAAGA
43919335 TGTTGATAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.53, C:0.03, G:0.24, T:0.19
Consensus pattern (25 bp):
AGAAATTGAAGAAGTTCAGAAGAAT
Found at i:43922473 original size:59 final size:60
Alignment explanation
Indices: 43922344--43922474 Score: 196
Period size: 59 Copynumber: 2.2 Consensus size: 60
43922334 TGTATTGTCT
*
43922344 TATTCAAAAGAACTTCTATTTTATTAAATAAGACAAAATATAAAAATAATTTGTACAAAAA
1 TATTCAAAAAAACTTCTATTTTATTAAAT-AGACAAAATATAAAAATAATTTGTACAAAAA
* *
43922405 TATTCAAAAAAACTTCTATTTTATTAAAT-GA-AATAATATAAAAATAGTTTGTACAAATA
1 TATTCAAAAAAACTTCTATTTTATTAAATAGACAA-AATATAAAAATAATTTGTACAAAAA
43922464 TATT-AAAAAAA
1 TATTCAAAAAAA
43922475 TCAATGCATG
Statistics
Matches: 66, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
58 9 0.14
59 29 0.44
61 28 0.42
ACGTcount: A:0.54, C:0.07, G:0.05, T:0.34
Consensus pattern (60 bp):
TATTCAAAAAAACTTCTATTTTATTAAATAGACAAAATATAAAAATAATTTGTACAAAAA
Found at i:43923484 original size:20 final size:21
Alignment explanation
Indices: 43923448--43923487 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
43923438 TTTGCCCGGG
*
43923448 CCCAAAACTAAATAAATAAAA
1 CCCAAAACTAAAAAAATAAAA
43923469 CCCAAAA-TAAAAAAATAAA
1 CCCAAAACTAAAAAAATAAA
43923488 CAGTTTATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.70, C:0.17, G:0.00, T:0.12
Consensus pattern (21 bp):
CCCAAAACTAAAAAAATAAAA
Found at i:43924697 original size:19 final size:19
Alignment explanation
Indices: 43924673--43924709 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
43924663 CGTGATCCGA
*
43924673 TTAAAACACGATATTTTTT
1 TTAAAACACGAGATTTTTT
43924692 TTAAAACACGAGATTTTT
1 TTAAAACACGAGATTTTT
43924710 GAAACACCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (19 bp):
TTAAAACACGAGATTTTTT
Found at i:43924745 original size:19 final size:18
Alignment explanation
Indices: 43924726--43924793 Score: 66
Period size: 17 Copynumber: 3.6 Consensus size: 18
43924716 CCATAATAAT
43924726 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
43924744 TTTTTG-AAACACGAGAATTT
1 TTTTTGAAAACACGA-AA--A
*
43924764 TATTTTGGAAACACGAAACA
1 T-TTTTGAAAACACGAAA-A
43924784 TTTTTGAAAA
1 TTTTTGAAAA
43924794 ATTACGAAAC
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
17 8 0.20
18 8 0.20
19 8 0.20
20 2 0.05
21 7 0.17
22 8 0.20
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.34
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:43924753 original size:17 final size:17
Alignment explanation
Indices: 43924689--43924792 Score: 66
Period size: 22 Copynumber: 5.5 Consensus size: 17
43924679 CACGATATTT
* *
43924689 TTTTTAAAACACG-AGA
1 TTTTTGAAACACGAAAA
*
43924705 TTTTTGAAACACCATAATAA
1 TTTTTGAAACA-C-GAA-AA
43924725 TTTTTTGAAAACACGAAAA
1 -TTTTTG-AAACACGAAAA
43924744 TTTTTGAAACACGAGAATTTTA
1 TTTTTGAAACACGA-AA----A
*
43924766 TTTTGGAAACACGAAACA
1 TTTTTGAAACACGAAA-A
43924784 TTTTTGAAA
1 TTTTTGAAA
43924793 AATTACGAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 20
0.72 0.07 0.21
Matches are distributed among these distances:
16 10 0.14
17 9 0.13
18 17 0.24
19 3 0.04
20 3 0.04
21 9 0.13
22 19 0.27
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (17 bp):
TTTTTGAAACACGAAAA
Found at i:43924770 original size:39 final size:37
Alignment explanation
Indices: 43924676--43924960 Score: 140
Period size: 39 Copynumber: 7.5 Consensus size: 37
43924666 GATCCGATTA
* *
43924676 AAACACGATATTTTTTTT-AAAACACG-AGATTTTTG
1 AAACACGAAATTTTTTTTGAAAACACGAAAATTTTTG
* *
43924711 AAACACCATAATAATTTTTTGAAAACACGAAAATTTTTG
1 AAACACGA-AAT-TTTTTTTGAAAACACGAAAATTTTTG
*
43924750 AAACACGAGAATTTTATTTTGGAAACACGAAACATTTTTGAAAAATTACG
1 AAACACGA-AATTTT-TTTTGAAAACACGAAA-A--TTT------TT--G
* *** * * *
43924800 AAACACGAGAATATTTTAAAAAAACAAGGATATTTTTTG
1 AAACACGA-AATTTTTTTTGAAAAC-ACGAAAATTTTTG
* * * *
43924839 AAACA-TAATTTTTTTTTGAAAGCACGAAGATTTTTG
1 AAACACGAAATTTTTTTTGAAAACACGAAAATTTTTG
* *
43924875 AAACACGAAA--ATTTTTGAAAACACGAAAATTTGTG
1 AAACACGAAATTTTTTTTGAAAACACGAAAATTTTTG
* * *
43924910 AAAATATG-AATTTTTTTTG-AAACACG--AATTGTTG
1 -AAACACGAAATTTTTTTTGAAAACACGAAAATTTTTG
43924944 AAAACAC-AAATTTTTTT
1 -AAACACGAAATTTTTTT
43924961 CTTAAGGGCG
Statistics
Matches: 188, Mismatches: 40, Indels: 45
0.69 0.15 0.16
Matches are distributed among these distances:
34 20 0.11
35 30 0.16
36 28 0.15
37 24 0.13
38 11 0.06
39 39 0.21
40 1 0.01
41 2 0.01
42 3 0.02
47 3 0.02
48 2 0.01
49 6 0.03
50 19 0.10
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (37 bp):
AAACACGAAATTTTTTTTGAAAACACGAAAATTTTTG
Found at i:43924913 original size:18 final size:18
Alignment explanation
Indices: 43924851--43924958 Score: 93
Period size: 18 Copynumber: 6.3 Consensus size: 18
43924841 ACATAATTTT
* *
43924851 TTTTTGAAAGCACGAAGA
1 TTTTTGAAAACACGAAAA
43924869 TTTTTG-AAACACGAAAA
1 TTTTTGAAAACACGAAAA
43924886 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* * * **
43924904 TTTGTGAAAATATGAATTT
1 TTTTTGAAAACACGAA-AA
43924923 TTTTTG-AAACACG--AA
1 TTTTTGAAAACACGAAAA
*
43924938 TTGTTGAAAACAC--AAA
1 TTTTTGAAAACACGAAAA
43924954 TTTTT
1 TTTTT
43924959 TTCTTAAGGG
Statistics
Matches: 72, Mismatches: 14, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
15 5 0.07
16 12 0.17
17 15 0.21
18 35 0.49
19 5 0.07
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.35
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:43925081 original size:16 final size:17
Alignment explanation
Indices: 43925060--43925096 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
43925050 CCTTATTTAT
43925060 TAAAATTTTAA-AAAA-A
1 TAAAA-TTTAAGAAAACA
43925076 TAAAATTTAAGAAAACA
1 TAAAATTTAAGAAAACA
43925093 TAAA
1 TAAA
43925097 TACAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 5 0.26
16 9 0.47
17 5 0.26
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.27
Consensus pattern (17 bp):
TAAAATTTAAGAAAACA
Found at i:43925479 original size:20 final size:19
Alignment explanation
Indices: 43925453--43925498 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
43925443 CGAGCTCCTC
43925453 TTTTTTTTCTTT-TTCCTTT
1 TTTTTTTTCTTTCTT-CTTT
43925472 TCTTTTTTTCTTTCTTCTTT
1 T-TTTTTTTCTTTCTTCTTT
43925492 TTTTTTT
1 TTTTTTT
43925499 CTGGTTGGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.28
20 16 0.64
21 2 0.08
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (19 bp):
TTTTTTTTCTTTCTTCTTT
Found at i:43925878 original size:21 final size:20
Alignment explanation
Indices: 43925849--43925897 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
43925839 TTTATCTCTA
*
43925849 CTTTATTCTTCTTCTTCTTT
1 CTTTTTTCTTCTTCTTCTTT
*
43925869 CTTTCTTTCTTCTTCTTTTTT
1 CTTT-TTTCTTCTTCTTCTTT
43925890 CTTTTTTC
1 CTTTTTTC
43925898 ACTTCTCCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 8 0.31
21 18 0.69
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.73
Consensus pattern (20 bp):
CTTTTTTCTTCTTCTTCTTT
Found at i:43925880 original size:18 final size:17
Alignment explanation
Indices: 43925857--43925893 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 17
43925847 TACTTTATTC
43925857 TTCTTCTTCTTTCTTTCT
1 TTCTTCTTCTTT-TTTCT
43925875 TTCTTCTTCTTTTTTCT
1 TTCTTCTTCTTTTTTCT
43925892 TT
1 TT
43925894 TTTCACTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (17 bp):
TTCTTCTTCTTTTTTCT
Found at i:43926027 original size:22 final size:22
Alignment explanation
Indices: 43926000--43926070 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
43925990 TCTCCTCCCT
43926000 TTCTTTTTTTTTTTCTTTTTTC
1 TTCTTTTTTTTTTTCTTTTTTC
** **
43926022 TTCTTTGCTTTTTTCTTGCTTC
1 TTCTTTTTTTTTTTCTTTTTTC
* *
43926044 TTGTTTTTTTCTTTT-TTTTTAC
1 TTCTTTTTTT-TTTTCTTTTTTC
43926066 TTCTT
1 TTCTT
43926071 AGTTGCTTTG
Statistics
Matches: 37, Mismatches: 11, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
22 33 0.89
23 4 0.11
ACGTcount: A:0.01, C:0.15, G:0.04, T:0.79
Consensus pattern (22 bp):
TTCTTTTTTTTTTTCTTTTTTC
Found at i:43926034 original size:15 final size:14
Alignment explanation
Indices: 43925998--43926070 Score: 73
Period size: 15 Copynumber: 5.2 Consensus size: 14
43925988 ATTCTCCTCC
43925998 CTTTCTTTTTT-TT
1 CTTTCTTTTTTCTT
43926011 -TTTCTTTTTTCTT
1 CTTTCTTTTTTCTT
43926024 CTTTGCTTTTTTCTT
1 CTTT-CTTTTTTCTT
*
43926039 GC-TTCTTGTTTTTTT
1 -CTTTCTT-TTTTCTT
43926054 CTTT-TTTTTTACTT
1 CTTTCTTTTTT-CTT
43926068 CTT
1 CTT
43926071 AGTTGCTTTG
Statistics
Matches: 51, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
12 10 0.20
13 6 0.12
14 14 0.27
15 20 0.39
16 1 0.02
ACGTcount: A:0.01, C:0.16, G:0.04, T:0.78
Consensus pattern (14 bp):
CTTTCTTTTTTCTT
Found at i:43926426 original size:28 final size:29
Alignment explanation
Indices: 43926388--43926447 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 29
43926378 GATGTAACAA
* *
43926388 AAATTCTGGGGCCAAAGTGTAAATTTGGG
1 AAATTCTGGGGCCAAAATGTAAATTTGAG
* *
43926417 AAATT-TGGGGTCAAAATGTAATTTTGAG
1 AAATTCTGGGGCCAAAATGTAAATTTGAG
43926445 AAA
1 AAA
43926448 GATAAGAGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 22 0.81
29 5 0.19
ACGTcount: A:0.37, C:0.07, G:0.27, T:0.30
Consensus pattern (29 bp):
AAATTCTGGGGCCAAAATGTAAATTTGAG
Found at i:43926470 original size:30 final size:30
Alignment explanation
Indices: 43926425--43926508 Score: 91
Period size: 30 Copynumber: 2.8 Consensus size: 30
43926415 GGAAATTTGG
* *
43926425 GGTCAAAATGTAATTTTGAGAAAGA-TAAGA
1 GGTCAAAATGCAATTTTAAGAAA-ATTAAGA
* * *
43926455 GGTTAAAATGCAATTTTAAGAAAATTTAGG
1 GGTCAAAATGCAATTTTAAGAAAATTAAGA
*
43926485 GGTCAAAATGCAA-TTTAAAAAAAT
1 GGTCAAAATGCAATTTTAAGAAAAT
43926509 AAAATTCGTT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
29 11 0.24
30 35 0.76
ACGTcount: A:0.48, C:0.05, G:0.19, T:0.29
Consensus pattern (30 bp):
GGTCAAAATGCAATTTTAAGAAAATTAAGA
Found at i:43926842 original size:78 final size:79
Alignment explanation
Indices: 43926677--43927350 Score: 761
Period size: 76 Copynumber: 8.6 Consensus size: 79
43926667 GCGACCCAAA
* * * *
43926677 GCTCAACTCACCTCTCGAATTATGAGTTGATTTTTTTTGAAAAAAACATAAA-TTGAAAAACACC
1 GCTCAACTCACCTCTCGCATTATGAGTTGA---TTTTTGAAAAAAACAGAAATTTAAAAAATACC
*
43926741 TCGGCGTGTGACCCGAG
63 TCGGCATGTGACCCGAG
* * * *
43926758 GCTCAACTCACTTCTTGCATTATGAGTTGATTTTTGAAAAAAATAGAAATTTAAAAAGTACCTCG
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAAAACAGAAATTTAAAAAATACCTCG
* * *
43926823 GCACGTG-TCTGAG
66 GCATGTGACCCGAG
*
43926836 GTTCAACTCACCTCTCGCATTATGAGTTGATTTTTG--AAAAACAGAAATTTAAAAAATACCTCG
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAAAACAGAAATTTAAAAAATACCTCG
**
43926899 GCATGTG-TTCGAG
66 GCATGTGACCCGAG
* * * * *
43926912 GCTCAACTCACCTCTCGTATTACGAGTTGA--TTTAAAAAAAATAGAAATTTAAAAAATACCTCA
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAAAACAGAAATTTAAAAAATACCTCG
* *
43926975 GCGTGTGACCTGAG
66 GCATGTGACCCGAG
* * *** *
43926989 GCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAAAAATACCTC
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAAAACAGAAATT-TAAAAAATACCTC
*
43927054 GGCGTGTGACCCGAG
65 GGCATGTGACCCGAG
* * * *
43927069 ACTCAACTCACCTCTCGCAATATGAGTTGAGTTTTTG--AAAAATAGAAA-TTGAAAAATACCTC
1 GCTCAACTCACCTCTCGCATTATGAGTTGA-TTTTTGAAAAAAACAGAAATTTAAAAAATACCTC
43927131 AGG-ATGTGACCCGAG
65 -GGCATGTGACCCGAG
* * * *
43927146 GTTCAACTCACCTTTCGCAATATGAGTTGATTTTTTG--AAAAATAGAAA-TTAAAAAATACCTC
1 GCTCAACTCACCTCTCGCATTATGAGTTGA-TTTTTGAAAAAAACAGAAATTTAAAAAATACCTC
*
43927208 GGCATGTG-TCCGAG
65 GGCATGTGACCCGAG
* * *
43927222 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAAAA-AAATAAATTGAAAAATACCTC
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAAAACAGA-AATTTAAAAAATACCTC
43927286 GGCATGTG-CCCGAG
65 GGCATGTGACCCGAG
* * *
43927300 GCTCAACTCACCTCTCGCAATATGATTTGATTTTTGAAAAATACAGAAATT
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAAAACAGAAATT
43927351 GAAATGGTTT
Statistics
Matches: 513, Mismatches: 65, Indels: 33
0.84 0.11 0.05
Matches are distributed among these distances:
74 3 0.01
75 6 0.01
76 129 0.25
77 120 0.23
78 126 0.25
79 44 0.09
80 53 0.10
81 32 0.06
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (79 bp):
GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAAAACAGAAATTTAAAAAATACCTCG
GCATGTGACCCGAG
Found at i:43935610 original size:16 final size:17
Alignment explanation
Indices: 43935570--43935612 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
43935560 CGTGGTCCGA
*
43935570 TTGAAACACGATACTTTT
1 TTGAAACACGAGAC-TTT
*
43935588 TTTAAACACGAGA-TTT
1 TTGAAACACGAGACTTT
43935604 TTGAAACAC
1 TTGAAACAC
43935613 CATAATAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 11 0.50
18 11 0.50
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (17 bp):
TTGAAACACGAGACTTT
Found at i:43935666 original size:39 final size:40
Alignment explanation
Indices: 43935600--43935688 Score: 101
Period size: 39 Copynumber: 2.2 Consensus size: 40
43935590 TAAACACGAG
* *
43935600 ATTTTTGAAACACCATAATAATTTTTTGAAAATACGAAA-
1 ATTTTTGAAACACCAGAATAATTTTTTGAAAACACGAAAC
* * *
43935639 ATTTTTGAAACACGAGAAT-TTTATTTTGGAAACACGAAAC
1 ATTTTTGAAACACCAGAATAATT-TTTTGAAAACACGAAAC
*
43935679 TTTTTTGAAA
1 ATTTTTGAAA
43935689 AATTACGAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
38 2 0.05
39 31 0.74
40 9 0.21
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.37
Consensus pattern (40 bp):
ATTTTTGAAACACCAGAATAATTTTTTGAAAACACGAAAC
Found at i:43935688 original size:18 final size:17
Alignment explanation
Indices: 43935570--43935688 Score: 69
Period size: 18 Copynumber: 6.4 Consensus size: 17
43935560 CGTGGTCCGA
*
43935570 TTGAAACACGATACTTTT
1 TTGAAACACGA-AATTTT
* *
43935588 TTTAAACACGAGA-TTT
1 TTGAAACACGAAATTTT
*
43935604 TTGAAACACCATAATAATTTT
1 TTGAAACA-C--GA-AATTTT
* *
43935625 TTGAAAATACGAAAATTT
1 TTG-AAACACGAAATTTT
43935643 TTGAAACACGAGAATTTTATT
1 TTGAAACACGA-AA--TT-TT
43935664 TTGGAAACACGAAACTTTT
1 TT-GAAACACGAAA-TTTT
43935683 TTGAAA
1 TTGAAA
43935689 AATTACGAAA
Statistics
Matches: 78, Mismatches: 12, Indels: 22
0.70 0.11 0.20
Matches are distributed among these distances:
16 10 0.13
17 8 0.10
18 24 0.31
19 6 0.08
20 4 0.05
21 13 0.17
22 13 0.17
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (17 bp):
TTGAAACACGAAATTTT
Found at i:43935752 original size:20 final size:22
Alignment explanation
Indices: 43935729--43935771 Score: 65
Period size: 19 Copynumber: 2.1 Consensus size: 22
43935719 AATAAGGATA
43935729 TTTTTTGAAA-CAC-AA-ATTT
1 TTTTTTGAAAGCACGAAGATTT
43935748 TTTTTTGAAAGCACGAAGATTT
1 TTTTTTGAAAGCACGAAGATTT
43935770 TT
1 TT
43935772 AAAACATGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 10 0.48
20 3 0.14
21 2 0.10
22 6 0.29
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.47
Consensus pattern (22 bp):
TTTTTTGAAAGCACGAAGATTT
Found at i:43935788 original size:18 final size:18
Alignment explanation
Indices: 43935749--43935804 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 18
43935739 CACAAATTTT
* * *
43935749 TTTTTGAAAGCACGAAGA
1 TTTTTAAAAACACGAAAA
*
43935767 TTTTT-AAAACATGAAAA
1 TTTTTAAAAACACGAAAA
43935784 TTTTTAAAAACACGAAAA
1 TTTTTAAAAACACGAAAA
43935802 TTT
1 TTT
43935805 GTGAAAATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
17 14 0.42
18 19 0.58
ACGTcount: A:0.46, C:0.09, G:0.11, T:0.34
Consensus pattern (18 bp):
TTTTTAAAAACACGAAAA
Found at i:43935811 original size:18 final size:17
Alignment explanation
Indices: 43935750--43935811 Score: 61
Period size: 18 Copynumber: 3.5 Consensus size: 17
43935740 ACAAATTTTT
* *
43935750 TTTTGAAAGCACGAAGA
1 TTTTGAAAACACGAAAA
* *
43935767 TTTTTAAAACATGAAAA
1 TTTTGAAAACACGAAAA
*
43935784 TTTTTAAAAACACGAAAA
1 -TTTTGAAAACACGAAAA
43935802 TTTGTGAAAA
1 TTT-TGAAAA
43935812 TATGAATTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
17 16 0.44
18 20 0.56
ACGTcount: A:0.48, C:0.08, G:0.13, T:0.31
Consensus pattern (17 bp):
TTTTGAAAACACGAAAA
Found at i:43935817 original size:36 final size:35
Alignment explanation
Indices: 43935749--43935847 Score: 85
Period size: 36 Copynumber: 2.8 Consensus size: 35
43935739 CACAAATTTT
* * * *
43935749 TTTTTGAAAGCACGAAGATTTTTAAAACATGAAAA
1 TTTTTAAAAACACGAAAATTTTGAAAACATGAAAA
* **
43935784 TTTTTAAAAACACGAAAATTTGTGAAAATATGAATT
1 TTTTTAAAAACACGAAAATTT-TGAAAACATGAAAA
**
43935820 TTTTTTGAAACACG--AATTGTTGAAAACA
1 TTTTTAAAAACACGAAAATT-TTGAAAACA
43935848 CAAATTTTTT
Statistics
Matches: 52, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
34 11 0.21
35 19 0.37
36 22 0.42
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.34
Consensus pattern (35 bp):
TTTTTAAAAACACGAAAATTTTGAAAACATGAAAA
Found at i:43936381 original size:17 final size:16
Alignment explanation
Indices: 43936344--43936389 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
43936334 CTCGAGCTCC
43936344 TCTTTTTTTTCTTT-TT
1 TCTTTTTTTT-TTTCTT
*
43936360 CCTTTTCTTTTTTTCTT
1 TCTTTT-TTTTTTTCTT
43936377 TCTTTTTTTTTTT
1 TCTTTTTTTTTTT
43936390 TCTGGTTGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 15 0.58
17 11 0.42
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (16 bp):
TCTTTTTTTTTTTCTT
Found at i:43936390 original size:17 final size:17
Alignment explanation
Indices: 43936344--43936392 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
43936334 CTCGAGCTCC
*
43936344 TCTTTTTTTTCTTT-TT
1 TCTTTTTTTTTTTTCTT
* *
43936360 CCTTTTCTTTTTTTCTT
1 TCTTTTTTTTTTTTCTT
43936377 TCTTTTTTTTTTTTCT
1 TCTTTTTTTTTTTTCT
43936393 GGTTGGGCTG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
16 11 0.41
17 16 0.59
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (17 bp):
TCTTTTTTTTTTTTCTT
Found at i:43936744 original size:14 final size:14
Alignment explanation
Indices: 43936722--43936803 Score: 71
Period size: 14 Copynumber: 5.7 Consensus size: 14
43936712 CTGTTTTAGA
43936722 TTTTT-TTCTTTTT
1 TTTTTCTTCTTTTT
43936735 TTTTTCTTCTTTTT
1 TTTTTCTTCTTTTT
* * *
43936749 TATCTCTTC-TTTC
1 TTTTTCTTCTTTTT
43936762 TTTTTCTTTCTTTCTT
1 TTTTTC-TTCTTT-TT
43936778 TCTTCTTCTTCTTTTT
1 T-TT-TTCTTCTTTTT
43936794 TCTTTT-TTCT
1 T-TTTTCTTCT
43936804 CTTCTCCTTC
Statistics
Matches: 57, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
13 12 0.21
14 22 0.39
15 4 0.07
16 8 0.14
17 8 0.14
18 3 0.05
ACGTcount: A:0.01, C:0.20, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTTCTTCTTTTT
Found at i:43936759 original size:28 final size:31
Alignment explanation
Indices: 43936727--43936808 Score: 84
Period size: 27 Copynumber: 2.7 Consensus size: 31
43936717 TTAGATTTTT
43936727 TTCTTTTTTTTTTCTTCTTT-TTT-ATC-TC
1 TTCTTTTTTTTTTCTTCTTTCTTTCATCTTC
* *
43936755 TTC-TTTCTTTTTCTTTCTTTCTTTCTTCTTC
1 TTCTTTTTTTTTTC-TTCTTTCTTTCATCTTC
43936786 TTCTTTTTTCTTTT-TTCTCTTCT
1 TTCTTTTTT-TTTTCTTCT-TTCT
43936809 CCTTCGGCAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
27 9 0.20
28 9 0.20
29 3 0.07
30 2 0.05
31 9 0.20
32 8 0.18
33 4 0.09
ACGTcount: A:0.01, C:0.22, G:0.00, T:0.77
Consensus pattern (31 bp):
TTCTTTTTTTTTTCTTCTTTCTTTCATCTTC
Found at i:43936813 original size:28 final size:25
Alignment explanation
Indices: 43936728--43936809 Score: 87
Period size: 28 Copynumber: 3.1 Consensus size: 25
43936718 TAGATTTTTT
43936728 TCTT-TTTTTTTTCTTCTTTT-TTATC
1 TCTTCTTTTTTTTCTT-TTTTCTT-TC
43936753 TCTTCTTTCTTTTTCTTTCTTTCTTTC
1 TCTTCTTT-TTTTTCTTT-TTTCTTTC
43936780 TTCTTCTTCTTTTTTCTTTTTTCTCTTC
1 -TCTTCTT-TTTTTTCTTTTTTCT-TTC
43936808 TC
1 TC
43936810 CTTCGGCAGT
Statistics
Matches: 50, Mismatches: 0, Indels: 12
0.81 0.00 0.19
Matches are distributed among these distances:
25 4 0.08
26 4 0.08
27 20 0.40
28 21 0.42
29 1 0.02
ACGTcount: A:0.01, C:0.23, G:0.00, T:0.76
Consensus pattern (25 bp):
TCTTCTTTTTTTTCTTTTTTCTTTC
Found at i:43937393 original size:30 final size:30
Alignment explanation
Indices: 43937359--43937415 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
43937349 GAGAAAGACA
* * *
43937359 AGGGGTTAAAATGAAATTTTAAGAAAATTT
1 AGGGGTCAAAAAGAAATTTTAAAAAAATTT
*
43937389 AGGGGTCAAAAAGCAATTTTAAAAAAA
1 AGGGGTCAAAAAGAAATTTTAAAAAAA
43937416 AAACGAAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.51, C:0.04, G:0.19, T:0.26
Consensus pattern (30 bp):
AGGGGTCAAAAAGAAATTTTAAAAAAATTT
Found at i:43939809 original size:10 final size:10
Alignment explanation
Indices: 43939796--43939822 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
43939786 ACATAAATGA
43939796 AAAAAATATT
1 AAAAAATATT
43939806 AAAAAATATT
1 AAAAAATATT
43939816 AAAAAAT
1 AAAAAAT
43939823 TGTAATTAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (10 bp):
AAAAAATATT
Found at i:43948336 original size:38 final size:38
Alignment explanation
Indices: 43948285--43948359 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
43948275 ATCAATTCAA
43948285 ATTCATTATGCATTTAAAGGCATAATAAATTAGCATTT
1 ATTCATTATGCATTTAAAGGCATAATAAATTAGCATTT
43948323 ATTCATTATGCATTTAAAGGCATAATAAATTAGCATT
1 ATTCATTATGCATTTAAAGGCATAATAAATTAGCATT
43948360 CTTGTTGATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.39
Consensus pattern (38 bp):
ATTCATTATGCATTTAAAGGCATAATAAATTAGCATTT
Found at i:43949354 original size:13 final size:13
Alignment explanation
Indices: 43949336--43949360 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43949326 TTAAGTTAGC
43949336 TTTTTCTTTTTCT
1 TTTTTCTTTTTCT
43949349 TTTTTCTTTTTC
1 TTTTTCTTTTTC
43949361 AAAGTTCAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTCTTTTTCT
Found at i:43949764 original size:20 final size:20
Alignment explanation
Indices: 43949739--43949803 Score: 89
Period size: 20 Copynumber: 3.3 Consensus size: 20
43949729 ACAAATATTA
43949739 CAAAATAATTTTTAAAAATT
1 CAAAATAATTTTTAAAAATT
*
43949759 CAAAATAATTTTTAAAACTT
1 CAAAATAATTTTTAAAAATT
*
43949779 -AAAAT-ATTTATAAAAATT
1 CAAAATAATTTTTAAAAATT
43949797 CTAAAAT
1 C-AAAAT
43949804 TTATATTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
18 11 0.28
19 5 0.12
20 24 0.60
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.38
Consensus pattern (20 bp):
CAAAATAATTTTTAAAAATT
Found at i:43951301 original size:19 final size:21
Alignment explanation
Indices: 43951259--43951303 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
43951249 TTTTTTTGGT
*
43951259 ATTTTAAAAATAAATTTAATA
1 ATTTTAAAAATAAATTTAAGA
*
43951280 ATTTTATAAA-AAA-TTAAGA
1 ATTTTAAAAATAAATTTAAGA
43951299 ATTTT
1 ATTTT
43951304 CCAATTCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 10 0.45
20 3 0.14
21 9 0.41
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
ATTTTAAAAATAAATTTAAGA
Found at i:43951463 original size:18 final size:18
Alignment explanation
Indices: 43951436--43951480 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
43951426 TTTTCAAAGT
43951436 TTTTAGATTTTT-TTGGACA
1 TTTTA-ATTTTTCTT-GACA
43951455 TTTTAATTTTTCCTTGACA
1 TTTTAATTTTT-CTTGACA
43951474 TTTTAAT
1 TTTTAAT
43951481 CAAATATAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.25
19 16 0.67
20 2 0.08
ACGTcount: A:0.22, C:0.09, G:0.09, T:0.60
Consensus pattern (18 bp):
TTTTAATTTTTCTTGACA
Found at i:43952551 original size:6 final size:7
Alignment explanation
Indices: 43952525--43952550 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
43952515 TTATAAAGTC
43952525 TAAAAAT
1 TAAAAAT
43952532 TAAAAAT
1 TAAAAAT
43952539 TAAAAAT
1 TAAAAAT
43952546 TAAAA
1 TAAAA
43952551 TCCCAAAATA
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:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
TAAAAAT
Found at i:43957140 original size:45 final size:44
Alignment explanation
Indices: 43957091--43957177 Score: 129
Period size: 45 Copynumber: 2.0 Consensus size: 44
43957081 TTTTTGGCTA
* *
43957091 AATATAAATAATTAATAATCAATACTATGTAATTTAGTTTAAATT
1 AATATAAATAATTAATAATAAATACTATATAATTTA-TTTAAATT
* *
43957136 AATATAAATAATTTATAATAAATATTATATAATTTATTTAAA
1 AATATAAATAATTAATAATAAATACTATATAATTTATTTAAA
43957178 AATTTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
44 6 0.16
45 32 0.84
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (44 bp):
AATATAAATAATTAATAATAAATACTATATAATTTATTTAAATT
Found at i:43959536 original size:8 final size:8
Alignment explanation
Indices: 43959523--43959547 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
43959513 GGAGTTCAAA
43959523 TATAATTT
1 TATAATTT
43959531 TATAATTT
1 TATAATTT
43959539 TATAATTT
1 TATAATTT
43959547 T
1 T
43959548 TAAAAGATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TATAATTT
Found at i:43963755 original size:4 final size:4
Alignment explanation
Indices: 43963746--43963771 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
43963736 ACAACAGAAC
43963746 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
43963772 AGATGTCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:43963855 original size:4 final size:4
Alignment explanation
Indices: 43963846--43963882 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
43963836 TGATGAACAC
43963846 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
43963883 AGATAAAACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:43964333 original size:3 final size:3
Alignment explanation
Indices: 43964319--43964411 Score: 53
Period size: 3 Copynumber: 31.0 Consensus size: 3
43964309 AAATGGAAAT
* * * * * * *
43964319 ATA ATA ACA ATA ATA TTG ATA ATA ATA CTA ATA CTA ATA CTA ATA CTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
43964367 ATA AT- ATA TTA GTT TTA ATA ATA ATA TATG ATA ATA AAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
43964412 GCCCATATTA
Statistics
Matches: 64, Mismatches: 24, Indels: 4
0.70 0.26 0.04
Matches are distributed among these distances:
2 2 0.03
3 60 0.94
4 2 0.03
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:43965390 original size:11 final size:11
Alignment explanation
Indices: 43965374--43965399 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
43965364 TGTTTTTTCC
43965374 TTCTCATCTTG
1 TTCTCATCTTG
43965385 TTCTCATCTTG
1 TTCTCATCTTG
43965396 TTCT
1 TTCT
43965400 AAGCTAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.27, G:0.08, T:0.58
Consensus pattern (11 bp):
TTCTCATCTTG
Found at i:43965744 original size:12 final size:12
Alignment explanation
Indices: 43965727--43965751 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
43965717 AGACCTGATA
43965727 AAATAAGAAAAC
1 AAATAAGAAAAC
43965739 AAATAAGAAAAC
1 AAATAAGAAAAC
43965751 A
1 A
43965752 TCTCCTGCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.08, G:0.08, T:0.08
Consensus pattern (12 bp):
AAATAAGAAAAC
Found at i:43967686 original size:29 final size:29
Alignment explanation
Indices: 43967653--43967713 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
43967643 GATTCAATCA
43967653 AAATTTCTCCAACCCAAATAATTTTTTTT
1 AAATTTCTCCAACCCAAATAATTTTTTTT
43967682 AAATTTCTCCAACCCAAATAATTTTTTTT
1 AAATTTCTCCAACCCAAATAATTTTTTTT
43967711 AAA
1 AAA
43967714 ATTATTATCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.38, C:0.20, G:0.00, T:0.43
Consensus pattern (29 bp):
AAATTTCTCCAACCCAAATAATTTTTTTT
Found at i:43967964 original size:5 final size:5
Alignment explanation
Indices: 43967954--43967978 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
43967944 ATTAAAAAAT
43967954 AAACA AAACA AAACA AAACA AAACA
1 AAACA AAACA AAACA AAACA AAACA
43967979 GATAAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (5 bp):
AAACA
Found at i:43971512 original size:21 final size:21
Alignment explanation
Indices: 43971482--43971534 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
43971472 CATTGTTTCT
* *
43971482 AATCTTACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
43971503 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
43971524 AATCTCACCGC
1 AATCTCACCGC
43971535 CACCGCTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.36, G:0.09, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:43977359 original size:20 final size:20
Alignment explanation
Indices: 43977334--43977373 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
43977324 CAGAAAATGA
*
43977334 TTTCTGTAAAATGATTTACT
1 TTTCTGAAAAATGATTTACT
43977354 TTTCTGAAAAATGATTTACT
1 TTTCTGAAAAATGATTTACT
43977374 GAAAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.47
Consensus pattern (20 bp):
TTTCTGAAAAATGATTTACT
Found at i:43977444 original size:32 final size:32
Alignment explanation
Indices: 43977364--43977449 Score: 95
Period size: 33 Copynumber: 2.7 Consensus size: 32
43977354 TTTCTGAAAA
*
43977364 ATGATTTACTGAAAATATTTTTTGGTGTTTGG
1 ATGATTTCCTGAAAATATTTTTTGGTGTTTGG
* * *
43977396 ATGA-ATCTGTGTAAAATATTTTTTGTTGTTTGG
1 ATGATTTC-CTG-AAAATATTTTTTGGTGTTTGG
43977429 CA-GATTTCCTGAAAATATTTT
1 -ATGATTTCCTGAAAATATTTT
43977450 CCGGAAAAGT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
31 1 0.02
32 16 0.36
33 24 0.55
34 3 0.07
ACGTcount: A:0.27, C:0.06, G:0.19, T:0.49
Consensus pattern (32 bp):
ATGATTTCCTGAAAATATTTTTTGGTGTTTGG
Found at i:43980853 original size:35 final size:36
Alignment explanation
Indices: 43980793--43980874 Score: 112
Period size: 35 Copynumber: 2.3 Consensus size: 36
43980783 TATTTAACAT
* *
43980793 ATTATTTATAAAAAAAGTATGCATTAATAGAAATTTG
1 ATTATTTAT-AAAAAAGTATACATTAACAGAAATTTG
*
43980830 TTTATTTATAAAAAA-TATACATTAACAGAAATTTG
1 ATTATTTATAAAAAAGTATACATTAACAGAAATTTG
*
43980865 ATTATATATA
1 ATTATTTATA
43980875 TGAGTTAGTA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
35 26 0.65
36 6 0.15
37 8 0.20
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (36 bp):
ATTATTTATAAAAAAGTATACATTAACAGAAATTTG
Found at i:43984146 original size:5 final size:5
Alignment explanation
Indices: 43984136--43984164 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
43984126 GTTGATAGAG
43984136 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
43984165 ATAGAATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:43985888 original size:51 final size:51
Alignment explanation
Indices: 43985812--43985947 Score: 218
Period size: 51 Copynumber: 2.7 Consensus size: 51
43985802 TGAGATAGTA
* *
43985812 TAAGACCATGTGAGTGAGGCTCCATGATATCCATAGATATGATATGAGGTG
1 TAAGACCATGTGAGTGAGGCTCCATGACATCCATAAATATGATATGAGGTG
* * *
43985863 TAAGACCATGTGAGTGACGTTCCATGGCATCCATAAATATGATATGAGGTG
1 TAAGACCATGTGAGTGAGGCTCCATGACATCCATAAATATGATATGAGGTG
*
43985914 TAAGACCATGTGAGTGAGGCTCCATGGCATCCAT
1 TAAGACCATGTGAGTGAGGCTCCATGACATCCAT
43985948 TGTGTTAGTC
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 78 1.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (51 bp):
TAAGACCATGTGAGTGAGGCTCCATGACATCCATAAATATGATATGAGGTG
Found at i:43988072 original size:36 final size:37
Alignment explanation
Indices: 43988003--43988102 Score: 107
Period size: 36 Copynumber: 2.7 Consensus size: 37
43987993 ATATGTGTGG
* *
43988003 AATTGAAATGAATAT-TGACTTGAAAATGGAAAAGT-A
1 AATTGAATTGAAT-TGTGACTTGAAAATGAAAAAGTGA
*
43988039 AATTTGAATTGAATTGTGA-TTGAAAGTGAAAAAGTGA
1 AA-TTGAATTGAATTGTGACTTGAAAATGAAAAAGTGA
* *
43988076 AATTGAATTGAAATGTGAATTTGAAAA
1 AATTGAATTGAATTGTG-ACTTGAAAA
43988103 GTATGTGTTG
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
36 31 0.57
37 17 0.31
38 6 0.11
ACGTcount: A:0.47, C:0.01, G:0.21, T:0.31
Consensus pattern (37 bp):
AATTGAATTGAATTGTGACTTGAAAATGAAAAAGTGA
Found at i:43988374 original size:20 final size:21
Alignment explanation
Indices: 43988306--43988378 Score: 85
Period size: 21 Copynumber: 3.5 Consensus size: 21
43988296 CAGGCACTTT
* *
43988306 ATGTGTCGTACCAGGCACCTC
1 ATGTGTCGTATCAAGCACCTC
*
43988327 GTGTGTCGTATCAAGCACCTC
1 ATGTGTCGTATCAAGCACCTC
* * *
43988348 GTGTGTCGTTTCAAGCA-CTT
1 ATGTGTCGTATCAAGCACCTC
43988368 ATGTGTCGTAT
1 ATGTGTCGTAT
43988379 ACTGATCAGG
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
20 11 0.24
21 34 0.76
ACGTcount: A:0.18, C:0.25, G:0.25, T:0.33
Consensus pattern (21 bp):
ATGTGTCGTATCAAGCACCTC
Found at i:43992459 original size:21 final size:21
Alignment explanation
Indices: 43992433--43992474 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
43992423 TAATATAAAC
43992433 TATATATTAATAGATAAAATT
1 TATATATTAATAGATAAAATT
* *
43992454 TATATATTAATTGATAGAATT
1 TATATATTAATAGATAAAATT
43992475 GTATGAAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (21 bp):
TATATATTAATAGATAAAATT
Found at i:43993035 original size:55 final size:57
Alignment explanation
Indices: 43992965--43993118 Score: 186
Period size: 57 Copynumber: 2.7 Consensus size: 57
43992955 ACGTGCTACG
* * * * *
43992965 TAACAATCGAGTTAAATATATAAACAATCAATTCAAAAGAAGCGGTA-T-TCCAACA
1 TAACAATCGATTTAAACATATAAACAATCGATTCAAAAGAAGCGATATTATACAACA
* * * *
43993020 TAACAACCGATTTAAACATATAAACATTCGATTCAAAAAAAGCGATATTATACAATA
1 TAACAATCGATTTAAACATATAAACAATCGATTCAAAAGAAGCGATATTATACAACA
* * *
43993077 TGACAATCGATTTAAACATACAAACAATTGATTCAAAAGAAG
1 TAACAATCGATTTAAACATATAAACAATCGATTCAAAAGAAG
43993119 TAGTATTCAC
Statistics
Matches: 82, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
55 40 0.49
56 1 0.01
57 41 0.50
ACGTcount: A:0.50, C:0.16, G:0.10, T:0.25
Consensus pattern (57 bp):
TAACAATCGATTTAAACATATAAACAATCGATTCAAAAGAAGCGATATTATACAACA
Found at i:43993096 original size:57 final size:55
Alignment explanation
Indices: 43992965--43993114 Score: 167
Period size: 55 Copynumber: 2.7 Consensus size: 55
43992955 ACGTGCTACG
* * * * * * *
43992965 TAACAATCGAGTTAAATATATAAACAATCAATTCAAAAGAAGCGGTATTCCAACA
1 TAACAATCGATTTAAACATATAAACATTCGATTCAAAAAAAGCGATATTACAACA
* *
43993020 TAACAACCGATTTAAACATATAAACATTCGATTCAAAAAAAGCGATATTATACAATA
1 TAACAATCGATTTAAACATATAAACATTCGATTCAAAAAAAGCGATA-T-TACAACA
* *
43993077 TGACAATCGATTTAAACATACAAACAATT-GATTCAAAA
1 TAACAATCGATTTAAACATATAAAC-ATTCGATTCAAAA
43993115 GAAGTAGTAT
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
55 40 0.50
56 1 0.01
57 36 0.45
58 3 0.04
ACGTcount: A:0.50, C:0.16, G:0.09, T:0.25
Consensus pattern (55 bp):
TAACAATCGATTTAAACATATAAACATTCGATTCAAAAAAAGCGATATTACAACA
Found at i:43995979 original size:26 final size:25
Alignment explanation
Indices: 43995937--43995990 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 25
43995927 TTGAGTTAAT
43995937 AAAATTCTCTTTAAGTTTTCTTTTTA
1 AAAATTCTCTTTAAGTTTTC-TTTTA
*
43995963 AAAACTTCTC-TTGAGTTTTCTTTTA
1 AAAA-TTCTCTTTAAGTTTTCTTTTA
43995988 AAA
1 AAA
43995991 GAGTTTTAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 8 0.31
26 13 0.50
27 5 0.19
ACGTcount: A:0.30, C:0.13, G:0.06, T:0.52
Consensus pattern (25 bp):
AAAATTCTCTTTAAGTTTTCTTTTA
Found at i:43996387 original size:42 final size:43
Alignment explanation
Indices: 43996286--43996387 Score: 104
Period size: 42 Copynumber: 2.4 Consensus size: 43
43996276 TGGCACATGT
* * *
43996286 AGTG-CATCGTCGAATAAACCGAAGCAAATATACTGACACGTA
1 AGTGACATCATCGAATATACCAAAGCAAATATACTGACACGTA
* * * *
43996328 AGTGA-ACCATC-AGATATACCAAAGTAAATATATTGGCACGTA
1 AGTGACATCATCGA-ATATACCAAAGCAAATATACTGACACGTA
43996370 AGT-ACATCATCGAATATA
1 AGTGACATCATCGAATATA
43996388 TTGAAGTATA
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
41 2 0.04
42 45 0.94
43 1 0.02
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.23
Consensus pattern (43 bp):
AGTGACATCATCGAATATACCAAAGCAAATATACTGACACGTA
Found at i:43998029 original size:23 final size:22
Alignment explanation
Indices: 43998002--43998050 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 22
43997992 ACTTTAGTCC
43998002 TTAGT-TTTGAATTGATTGTAAAT
1 TTAGTCTTTGAA-TG-TTGTAAAT
*
43998025 TTAGTCCTTTGAATGTTGTAATT
1 TTAGT-CTTTGAATGTTGTAAAT
43998048 TTA
1 TTA
43998051 ATGCGATTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 15 0.65
24 2 0.09
25 6 0.26
ACGTcount: A:0.27, C:0.04, G:0.16, T:0.53
Consensus pattern (22 bp):
TTAGTCTTTGAATGTTGTAAAT
Found at i:43998312 original size:13 final size:13
Alignment explanation
Indices: 43998296--43998320 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43998286 TTAAGATATA
43998296 TTATTATTTTTAG
1 TTATTATTTTTAG
43998309 TTATTATTTTTA
1 TTATTATTTTTA
43998321 ATTTATCATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (13 bp):
TTATTATTTTTAG
Found at i:44004808 original size:3 final size:3
Alignment explanation
Indices: 44004800--44004825 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
44004790 GATAAAACAG
44004800 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
44004826 ACTATTACTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:44010068 original size:38 final size:38
Alignment explanation
Indices: 44010017--44010092 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
44010007 TAGAAAAATA
44010017 TGGATTTACAAACCCCAAAAGACTATCACCATAATTAG
1 TGGATTTACAAACCCCAAAAGACTATCACCATAATTAG
44010055 TGGATTTACAAACCCCAAAAGACTATCACCATAATTAG
1 TGGATTTACAAACCCCAAAAGACTATCACCATAATTAG
44010093 AGGAGAATTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.42, C:0.24, G:0.11, T:0.24
Consensus pattern (38 bp):
TGGATTTACAAACCCCAAAAGACTATCACCATAATTAG
Found at i:44012803 original size:14 final size:14
Alignment explanation
Indices: 44012786--44012813 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
44012776 ATACTTTTAA
44012786 AAAATATTTTTTTT
1 AAAATATTTTTTTT
44012800 AAAATATTTTTTTT
1 AAAATATTTTTTTT
44012814 GTGTTTATTA
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
AAAATATTTTTTTT
Found at i:44012811 original size:13 final size:13
Alignment explanation
Indices: 44012769--44012812 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
44012759 TATTTTTTAA
*
44012769 TTTTAAAATACTT
1 TTTTAAAATATTT
**
44012782 TTAAAAAATATTTT
1 TTTTAAAATA-TTT
44012796 TTTTAAAATATTT
1 TTTTAAAATATTT
44012809 TTTT
1 TTTT
44012813 TGTGTTTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 15 0.60
14 10 0.40
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (13 bp):
TTTTAAAATATTT
Found at i:44013449 original size:14 final size:14
Alignment explanation
Indices: 44013421--44013460 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
44013411 ATATATACGT
*
44013421 ATATGCATATAAAA
1 ATATGTATATAAAA
44013435 ACTATGTATATAAAA
1 A-TATGTATATAAAA
*
44013450 ATATATATATA
1 ATATGTATATA
44013461 CAAGTATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (14 bp):
ATATGTATATAAAA
Found at i:44013468 original size:14 final size:14
Alignment explanation
Indices: 44013427--44013471 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
44013417 ACGTATATGC
*
44013427 ATATAAAAACTATGT
1 ATATAAAAA-TATAT
44013442 ATATAAAAATATAT
1 ATATAAAAATATAT
* *
44013456 ATATACAAGTATAT
1 ATATAAAAATATAT
44013470 AT
1 AT
44013472 CTATATTCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 18 0.67
15 9 0.33
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.36
Consensus pattern (14 bp):
ATATAAAAATATAT
Found at i:44014951 original size:66 final size:65
Alignment explanation
Indices: 44014864--44015007 Score: 182
Period size: 66 Copynumber: 2.2 Consensus size: 65
44014854 CATCATTTAT
* * * *
44014864 GAGCTTGGAAAGAATCGATATCTCGTTTAGGATCTTGG-GATTGAGAAGACCTAGTATCTCATTC
1 GAGCTTGGGAAGAATCAATATCGCGTTTAGGA-CTTGGAGATTGAGAAGACCTAATATCT-ATTC
44014928 AA
64 AA
* * * *
44014930 GAGCTTGGGAAGACTCAATATCGCGTTTAGGAGTTGGAGATTGAGAAGACCTAATATCTGTTCAG
1 GAGCTTGGGAAGAATCAATATCGCGTTTAGGACTTGGAGATTGAGAAGACCTAATATCTATTCAA
*
44014995 GAGCTTAGGAAGA
1 GAGCTTGGGAAGA
44015008 TCCGATATTT
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
65 20 0.29
66 48 0.71
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (65 bp):
GAGCTTGGGAAGAATCAATATCGCGTTTAGGACTTGGAGATTGAGAAGACCTAATATCTATTCAA
Found at i:44021569 original size:4 final size:4
Alignment explanation
Indices: 44021560--44021587 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
44021550 GTGGGTGATT
44021560 TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG
44021588 GACATCTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:44022670 original size:21 final size:20
Alignment explanation
Indices: 44022627--44022670 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
44022617 AAATGAATTG
* *
44022627 ATTTACTATTTAAAAGATATA
1 ATTTGCTATTTAATAGAT-TA
44022648 ATTTGCTATTTAATAGAGTTA
1 ATTTGCTATTTAATAGA-TTA
44022669 AT
1 AT
44022671 ATTTTTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (20 bp):
ATTTGCTATTTAATAGATTA
Found at i:44029642 original size:6 final size:6
Alignment explanation
Indices: 44029633--44029675 Score: 86
Period size: 6 Copynumber: 7.2 Consensus size: 6
44029623 TTTAAATTTT
44029633 ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA A
1 ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA A
44029676 ATAAAATAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (6 bp):
ATATTA
Found at i:44029683 original size:18 final size:18
Alignment explanation
Indices: 44029633--44029680 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
44029623 TTTAAATTTT
*
44029633 ATATTAATATTAATATTA
1 ATATTAATATAAATATTA
*
44029651 ATATTAATATTAATATTA
1 ATATTAATATAAATATTA
44029669 ATATTAA-ATAAA
1 ATATTAATATAAA
44029681 ATAAAAATCC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
17 4 0.14
18 25 0.86
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATATTAATATAAATATTA
Found at i:44040597 original size:11 final size:11
Alignment explanation
Indices: 44040581--44040687 Score: 77
Period size: 11 Copynumber: 10.3 Consensus size: 11
44040571 CAAAAATAAC
44040581 AAAATATTTTA
1 AAAATATTTTA
44040592 AAAATATTTT-
1 AAAATATTTTA
**
44040602 -AAA-ATTAAA
1 AAAATATTTTA
* *
44040611 AAAAAAATTTA
1 AAAATATTTTA
*
44040622 AAAGTATTTTA
1 AAAATATTTTA
*
44040633 AAAA-AATTT-
1 AAAATATTTTA
44040642 AAAA-A-TTTA
1 AAAATATTTTA
44040651 AAAA-ATTTTAA
1 AAAATATTTT-A
44040662 AAAAGTATTTTA
1 AAAA-TATTTTA
*
44040674 AAAGTATTTTA
1 AAAATATTTTA
44040685 AAA
1 AAA
44040688 TTAAAAAAAT
Statistics
Matches: 77, Mismatches: 11, Indels: 16
0.74 0.11 0.15
Matches are distributed among these distances:
8 6 0.08
9 13 0.17
10 10 0.13
11 39 0.51
12 4 0.05
13 5 0.06
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
AAAATATTTTA
Found at i:44040617 original size:41 final size:40
Alignment explanation
Indices: 44040554--44040696 Score: 160
Period size: 41 Copynumber: 3.5 Consensus size: 40
44040544 ACCAAAAGTT
*
44040554 TATTTTAAAAATTAAAACAAAAATAACAAAATATTTTAAAAA
1 TATTTT-AAAATTAAAAAAAAAATAA-AAAATATTTTAAAAA
* *
44040596 TATTTTAAAATTAAAAAAAAAATTTAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAAAAA-TAAAAAATATTTTAAAAA
* * * *** *
44040637 AATTTAAAAATTTAAAAAATTTTAAAAAAGTATTTTAAAAG
1 TATTTTAAAATTAAAAAAAAAATAAAAAA-TATTTTAAAAA
44040678 TATTTTAAAATTAAAAAAA
1 TATTTTAAAATTAAAAAAA
44040697 TAAAAATATT
Statistics
Matches: 84, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
40 5 0.06
41 71 0.85
42 8 0.10
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (40 bp):
TATTTTAAAATTAAAAAAAAAATAAAAAATATTTTAAAAA
Found at i:44041011 original size:3 final size:3
Alignment explanation
Indices: 44041003--44041039 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
44040993 GCAAATTAGA
44041003 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
44041040 GGTTGCTCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:44041353 original size:42 final size:42
Alignment explanation
Indices: 44041262--44041353 Score: 96
Period size: 42 Copynumber: 2.2 Consensus size: 42
44041252 ATGTCCATTA
* * * * *
44041262 TTATTATTATTTAAATGTTTTAGTTTTTATTTGTTTATTTAC
1 TTATTATTATTTAAATGATTGAGTTTTTATATATATATTTAC
* * *
44041304 TTGTTATTATTTACATGATTGA-TTTTTATATATATATTTCTC
1 TTATTATTATTTAAATGATTGAGTTTTTATATATATATTT-AC
44041346 TTATTATT
1 TTATTATT
44041354 TATTCATCTT
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
41 14 0.35
42 26 0.65
ACGTcount: A:0.25, C:0.04, G:0.07, T:0.64
Consensus pattern (42 bp):
TTATTATTATTTAAATGATTGAGTTTTTATATATATATTTAC
Found at i:44047032 original size:50 final size:50
Alignment explanation
Indices: 44046957--44047098 Score: 230
Period size: 50 Copynumber: 2.8 Consensus size: 50
44046947 GATAATGACA
* **
44046957 TGCCAAAGCCATGTTCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
44047007 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
44047057 TTCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
44047099 TTACCCAAAT
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 86 1.00
ACGTcount: A:0.20, C:0.32, G:0.23, T:0.25
Consensus pattern (50 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:44047216 original size:13 final size:13
Alignment explanation
Indices: 44047198--44047224 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
44047188 GATCAACATT
44047198 AAATAAATTCATA
1 AAATAAATTCATA
44047211 AAATAAATTCATA
1 AAATAAATTCATA
44047224 A
1 A
44047225 TTGCTGGAAA
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:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (13 bp):
AAATAAATTCATA
Found at i:44051660 original size:50 final size:50
Alignment explanation
Indices: 44051524--44051662 Score: 154
Period size: 50 Copynumber: 2.8 Consensus size: 50
44051514 TAATAACATT
* * ** *
44051524 CCAAAGCCATGTCCCAGATATGGTCTTACATGGGATGTTCTCATATCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATATCAGTG
* * * *
44051575 CCCATGCCATGTCCCAGACATGGTCTTA-ACGGGGACCTCTCATCTCAGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACA-TGGGACCTCTCATATCAGTG
* *
44051625 TCAACGCCATGTCCCAGACATGATCTTACATGGGACCT
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCT
44051663 ATTTACCCAA
Statistics
Matches: 73, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
50 43 0.59
51 30 0.41
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (50 bp):
CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTG
Found at i:44058837 original size:51 final size:51
Alignment explanation
Indices: 44058695--44058839 Score: 236
Period size: 51 Copynumber: 2.8 Consensus size: 51
44058685 GAGCAGACTG
* *
44058695 AAGATAACAAATCTTATCTCTCTGAAGTTGCAGTAGAGTAAATTGAAGCTA
1 AAGATAACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGCTA
* *
44058746 AAGATCACAAATCTTATCTTTCTGAAGTTGCAGTAGAGCAGATTGAAGCTA
1 AAGATAACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGCTA
* *
44058797 TAGATTACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT
1 AAGATAACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT
44058840 CATATCAAAT
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 87 1.00
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (51 bp):
AAGATAACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGCTA
Found at i:44058866 original size:41 final size:41
Alignment explanation
Indices: 44058804--44058889 Score: 127
Period size: 41 Copynumber: 2.1 Consensus size: 41
44058794 CTATAGATTA
* * *
44058804 CAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAT
1 CAAATATTATCTCTCTAAAGTTACAGTAGAGCAGATCATAT
* *
44058845 CAAATATTTTCTCTCTAAAGTTACAGTAGAGCAGATTATAT
1 CAAATATTATCTCTCTAAAGTTACAGTAGAGCAGATCATAT
44058886 CAAA
1 CAAA
44058890 CCTTATCTTC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (41 bp):
CAAATATTATCTCTCTAAAGTTACAGTAGAGCAGATCATAT
Found at i:44059045 original size:44 final size:44
Alignment explanation
Indices: 44058939--44059091 Score: 144
Period size: 44 Copynumber: 3.4 Consensus size: 44
44058929 AAATCAAATA
* *
44058939 TTATCTCTCTGAAGTTATAGTGGAGCAGATTAAAGACGAGTTACAAATC
1 TTATCTCTCTGAAGTTATAGTGGAGTAGATTAAAG-C-A---ACAAACC
* * *
44058988 TTATCTCCCTGAAGTTGTAGTGGAGTAGATTAAAGCCACAAACC
1 TTATCTCTCTGAAGTTATAGTGGAGTAGATTAAAGCAACAAACC
* * * * * *
44059032 TTATCTCTTTGAAGTTACAGTAGAGTAGGTTGAAGTAACAAACC
1 TTATCTCTCTGAAGTTATAGTGGAGTAGATTAAAGCAACAAACC
* *
44059076 TTATCCCCCTGAAGTT
1 TTATCTCTCTGAAGTT
44059092 GCAATAGGTC
Statistics
Matches: 87, Mismatches: 17, Indels: 5
0.80 0.16 0.05
Matches are distributed among these distances:
44 54 0.62
48 1 0.01
49 32 0.37
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.31
Consensus pattern (44 bp):
TTATCTCTCTGAAGTTATAGTGGAGTAGATTAAAGCAACAAACC
Found at i:44060705 original size:3 final size:3
Alignment explanation
Indices: 44060699--44060751 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
44060689 ATTATTATTA
44060699 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
44060747 TTG TT
1 TTG TT
44060752 ATAATAATTA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:44060948 original size:13 final size:13
Alignment explanation
Indices: 44060930--44060955 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44060920 ACATTTTAAA
44060930 ATATGTATATTTT
1 ATATGTATATTTT
44060943 ATATGTATATTTT
1 ATATGTATATTTT
44060956 TTTTTTATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
ATATGTATATTTT
Found at i:44061106 original size:3 final size:3
Alignment explanation
Indices: 44061098--44061148 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
44061088 TTACACGTCC
44061098 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
44061146 ATT
1 ATT
44061149 GTACAAGCCC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:44062355 original size:12 final size:12
Alignment explanation
Indices: 44062338--44062378 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
44062328 TTATCATCTT
*
44062338 TTATTATTACTA
1 TTATTATTAGTA
*
44062350 TTATTATAAGTA
1 TTATTATTAGTA
*
44062362 TTACTATTAGTA
1 TTATTATTAGTA
44062374 TTATT
1 TTATT
44062379 GTTATGTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.56
Consensus pattern (12 bp):
TTATTATTAGTA
Found at i:44063111 original size:109 final size:109
Alignment explanation
Indices: 44062911--44063451 Score: 811
Period size: 109 Copynumber: 5.0 Consensus size: 109
44062901 CTTCAAAAGG
*
44062911 AAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTG
1 AAAATTTT-AAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
* *
44062976 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTA
65 GGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTA
* * ** *
44063021 AAAATTTTAAAATAAGGCAATGTTTTGCGTCTGGAAATTCAAGAAAATGTGCCCTAATGTGCTGG
1 AAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGG
*
44063086 GTGTCGGTTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTA
66 GTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTA
*
44063130 AAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGG
1 AAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGG
* * *
44063195 GTGTCGATTTTTCTCGTTCAACCAAACGGCTTAATATCCTTTTA
66 GTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTA
*
44063239 AAAATTTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCTTAAGGTGCT
1 AAAA-TTTTAAAATAAGGCAATGTTTTGCGTTT-GGAAATTCGAGAAAACATGCCCTAAGGTGCT
44063304 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTA
64 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTA
* * * * *
44063350 AAAATTTTAAAATAAGGTAATGTTTTGCGTTTGGAAATTTGAG-GAACGTACCCTAAGGTGCTGG
1 AAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGG
* * * *
44063414 GCT-TCGA--TTTCTCGTTTAACCAAATAGCCAAATATCCT
66 G-TGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCT
44063452 CTCGAATTTC
Statistics
Matches: 396, Mismatches: 32, Indels: 10
0.90 0.07 0.02
Matches are distributed among these distances:
106 27 0.07
108 22 0.06
109 208 0.53
110 62 0.16
111 77 0.19
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (109 bp):
AAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGG
GTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTA
Found at i:44067249 original size:7 final size:7
Alignment explanation
Indices: 44067239--44067286 Score: 50
Period size: 7 Copynumber: 7.1 Consensus size: 7
44067229 AAACTAAAAA
44067239 AAAAAGG
1 AAAAAGG
44067246 AAAAAGG
1 AAAAAGG
44067253 -AAAA--
1 AAAAAGG
44067257 AAAAA-G
1 AAAAAGG
44067263 AGAAAAGG
1 A-AAAAGG
44067271 AAAAAGAG
1 AAAAAG-G
44067279 AAAAAGG
1 AAAAAGG
44067286 A
1 A
44067287 GAGGCCAAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
5 4 0.11
6 5 0.14
7 18 0.50
8 9 0.25
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (7 bp):
AAAAAGG
Found at i:44067256 original size:18 final size:18
Alignment explanation
Indices: 44067235--44067275 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
44067225 AATAAAACTA
44067235 AAAAAAAAAG-GAAAAAGG
1 AAAAAAAAAGAG-AAAAGG
44067253 AAAAAAAAAGAGAAAAGG
1 AAAAAAAAAGAGAAAAGG
44067271 AAAAA
1 AAAAA
44067276 GAGAAAAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 21 0.95
19 1 0.05
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAGAGAAAAGG
Found at i:44067274 original size:14 final size:14
Alignment explanation
Indices: 44067240--44067282 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
44067230 AACTAAAAAA
44067240 AAAAGGAAAAAG-G
1 AAAAGGAAAAAGAG
44067253 AAAA--AAAAAGAG
1 AAAAGGAAAAAGAG
44067265 AAAAGGAAAAAGAG
1 AAAAGGAAAAAGAG
44067279 AAAA
1 AAAA
44067283 AGGAGAGGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 6 0.22
12 5 0.19
13 4 0.15
14 12 0.44
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (14 bp):
AAAAGGAAAAAGAG
Found at i:44069030 original size:88 final size:88
Alignment explanation
Indices: 44068509--44068994 Score: 828
Period size: 88 Copynumber: 5.5 Consensus size: 88
44068499 AACAGATCAA
44068509 TGAAGACAACAGATCTTGCCTTCCTGCCTTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
1 TGAAGACAACAGATCTTGCCTTCCTGCCTTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
44068574 CTCTCGGTTGTAGTGGAGCTGGT
66 CTCTCGGTTGTAGTGGAGCTGGT
44068597 TGAAGACAACAGATCTTGCCTTCCTGCCTTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
1 TGAAGACAACAGATCTTGCCTTCCTGCCTTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
*
44068662 CTCTCGATTGTAGTGGAGCTGGT
66 CTCTCGGTTGTAGTGGAGCTGGT
*
44068685 TGAAGACAACAGATCTTGCCTTCCTGCCTTGATAGCGAAGCAGATCGAAGACACAAACCTTGCCT
1 TGAAGACAACAGATCTTGCCTTCCTGCCTTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
*
44068750 CTCTCGGTTGTAGTGGAGCTAGT
66 CTCTCGGTTGTAGTGGAGCTGGT
* *
44068773 TGAAGACAACAGATCTTGCCTTCCTGCCTTGACAGCGAAGCAGATCGAAGACACAAACTTTGCTT
1 TGAAGACAACAGATCTTGCCTTCCTGCCTTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
* *
44068838 CTTTCGGTTGTAGTGAAGCTGGT
66 CTCTCGGTTGTAGTGGAGCTGGT
* * * *
44068861 TGAAAACAACAGATCTTGCCTTCTTGCATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
1 TGAAGACAACAGATCTTGCCTTCCTGCCTTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
*
44068926 CCCTCGGTTGTAGTGGAGCTGGT
66 CTCTCGGTTGTAGTGGAGCTGGT
* * **
44068949 TGAAGACAACAAATCTTACCTTCCTGAATTGACAGCGAAGCAGATC
1 TGAAGACAACAGATCTTGCCTTCCTGCCTTGACAGCGAAGCAGATC
44068995 AAAGCCGATA
Statistics
Matches: 374, Mismatches: 24, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 374 1.00
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (88 bp):
TGAAGACAACAGATCTTGCCTTCCTGCCTTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
CTCTCGGTTGTAGTGGAGCTGGT
Found at i:44069091 original size:52 final size:51
Alignment explanation
Indices: 44069024--44069283 Score: 171
Period size: 52 Copynumber: 5.4 Consensus size: 51
44069014 CCCTGGTTGG
*
44069024 CAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGTGACTA
1 CAGTGGAATACATTGAAGATC-AAGATGGCAGATTTTACCTCCCTGTGACTA
* * * * * *
44069076 CAGTGGAGTACATTGAAG--C-CGAT---A-ATTCTATCTTCCTG-G-CTGG
1 CAGTGGAATACATTGAAGATCAAGATGGCAGATTTTACCTCCCTGTGACT-A
* *
44069119 CAGTGGAATAGATTGAAGATCAAATATGGCAGATTTTACCTCCCTGTGACTA
1 CAGTGGAATACATTGAAGATC-AAGATGGCAGATTTTACCTCCCTGTGACTA
* * * * *
44069171 CAGTGGAGTACATTGAAG--C-CGAT---A-ATTCTATCTCCCTAGTTG-GT-
1 CAGTGGAATACATTGAAGATCAAGATGGCAGATTTTACCTCCCT-G-TGACTA
* *
44069215 -AGTGGAATAGATTGAAGATCGAAGATGGCAGATTTTACCTCTCTGTGACTA
1 CAGTGGAATACATTGAAGATC-AAGATGGCAGATTTTACCTCCCTGTGACTA
* *
44069266 CAGTAGAGTACATTGAAG
1 CAGTGGAATACATTGAAG
44069284 CTGATAATTC
Statistics
Matches: 152, Mismatches: 32, Indels: 48
0.66 0.14 0.21
Matches are distributed among these distances:
42 2 0.01
43 32 0.21
44 22 0.14
45 6 0.04
46 2 0.01
47 5 0.03
48 5 0.03
49 2 0.01
50 6 0.04
51 21 0.14
52 47 0.31
53 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (51 bp):
CAGTGGAATACATTGAAGATCAAGATGGCAGATTTTACCTCCCTGTGACTA
Found at i:44069108 original size:95 final size:95
Alignment explanation
Indices: 44068996--44069337 Score: 567
Period size: 95 Copynumber: 3.6 Consensus size: 95
44068986 AAGCAGATCA
*
44068996 AAGCCGATACTTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTT
1 AAGCCGATAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTT
44069061 ACCTCCCTGTGACTACAGTGGAGTACATTG
66 ACCTCCCTGTGACTACAGTGGAGTACATTG
* * *
44069091 AAGCCGATAATTCTATCTTCCTGGCTGGCAGTGGAATAGATTGAAGATCAAATATGGCAGATTTT
1 AAGCCGATAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTT
44069156 ACCTCCCTGTGACTACAGTGGAGTACATTG
66 ACCTCCCTGTGACTACAGTGGAGTACATTG
* * *
44069186 AAGCCGATAATTCTATCTCCCTAGTTGGTAGTGGAATAGATTGAAGATCGAAGATGGCAGATTTT
1 AAGCCGATAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTT
* *
44069251 ACCTCTCTGTGACTACAGTAGAGTACATTG
66 ACCTCCCTGTGACTACAGTGGAGTACATTG
* * * *
44069281 AAGCTGATAATTCTATCTCTCTGTTTGGCAGTGGAATAGATTGAAGATCGAAGATGG
1 AAGCCGATAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATCAAAGATGG
44069338 TAAATATTAT
Statistics
Matches: 230, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
95 230 1.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.30
Consensus pattern (95 bp):
AAGCCGATAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTT
ACCTCCCTGTGACTACAGTGGAGTACATTG
Found at i:44069409 original size:190 final size:190
Alignment explanation
Indices: 44069025--44069414 Score: 488
Period size: 190 Copynumber: 2.1 Consensus size: 190
44069015 CCTGGTTGGC
*
44069025 AGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATT
1 AGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGTGACTACAGTAGAGTACATT
* * *
44069090 GAAGCCGATAATTCTATCTTCCTGGCTGGCAGTGGAATAGATTGAAGATCAAATATGGCAGATTT
66 GAAGCCGATAATTCTATCTTCCTGGCTGGCAGTGGAATAGATTGAAGATCAAAGATGGCAAATAT
** * * * **
44069155 TACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTAGTTGGT
131 TACCTCCCTAAGACTACAGTGGAGAACATTGAAGCCGATAATCCTATCCCCCTAGTCAGT
* *
44069215 AGTGGAATAGATTGAAGATCGAAGATGGCAGATTTTACCTCTCTGTGACTACAGTAGAGTACATT
1 AGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGTGACTACAGTAGAGTACATT
* ** * *
44069280 GAAGCTGATAATTCTATC-TCTCTGTTTGGCAGTGGAATAGATTGAAGATCGAAGATGGTAAATA
66 GAAGCCGATAATTCTATCTTC-CTGGCTGGCAGTGGAATAGATTGAAGATCAAAGATGGCAAATA
* *
44069344 TTATCTTCCC-AAGAC-A-A-TGGAGAAGCAGATTTAAGCC-ATTAATCCTATCCCCCTAAG-CA
130 TTA-CCTCCCTAAGACTACAGTGGAGAA-C--ATTGAAGCCGA-TAATCCTATCCCCCT-AGTCA
44069403 GT
189 GT
44069405 AGTGGAATAG
1 AGTGGAATAG
44069415 GTAAAAGATT
Statistics
Matches: 173, Mismatches: 20, Indels: 14
0.84 0.10 0.07
Matches are distributed among these distances:
187 6 0.03
188 2 0.01
189 4 0.02
190 154 0.89
191 7 0.04
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (190 bp):
AGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGTGACTACAGTAGAGTACATT
GAAGCCGATAATTCTATCTTCCTGGCTGGCAGTGGAATAGATTGAAGATCAAAGATGGCAAATAT
TACCTCCCTAAGACTACAGTGGAGAACATTGAAGCCGATAATCCTATCCCCCTAGTCAGT
Found at i:44069564 original size:132 final size:132
Alignment explanation
Indices: 44069327--44069589 Score: 391
Period size: 132 Copynumber: 2.0 Consensus size: 132
44069317 TAGATTGAAG
*
44069327 ATCGAAGATGGTAAATATTATCTTCCCAAGACAATGGAGAAGCAGATTTAAGCCATTAATCCTAT
1 ATCGAAGATGGTAAATATTATCTTCCCAAGACAATGGAGAAGCAGATTTAAACCATTAATCCTAT
* * * **
44069392 CCCCCTAAGCAGTAGTGGAATAGGTAAAAGATTGCAGATTCTGTCACCTTAAGCGGTAGTGGAGC
66 CACCCTAAGCAGTAGTGGAATAGGTAAAAGACTGCAGATTCTGTCACCCTAAGCAATAGTGGAGC
44069457 AA
131 AA
* * * * * *
44069459 ATCGAAGATGGTGAATCTTTTCTTCCCAAGATAGTGGAGAAGCAGATTTAAACCATTAGTCCTAT
1 ATCGAAGATGGTAAATATTATCTTCCCAAGACAATGGAGAAGCAGATTTAAACCATTAATCCTAT
* * *
44069524 CACCCTAAGCAGTAGTGGAATAGGTCAAAGACTGTAGATTCTGTCCCCCTAAGCAATAGTGGAGC
66 CACCCTAAGCAGTAGTGGAATAGGTAAAAGACTGCAGATTCTGTCACCCTAAGCAATAGTGGAGC
44069589 A
131 A
44069590 GATCAACAAT
Statistics
Matches: 116, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
132 116 1.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.25
Consensus pattern (132 bp):
ATCGAAGATGGTAAATATTATCTTCCCAAGACAATGGAGAAGCAGATTTAAACCATTAATCCTAT
CACCCTAAGCAGTAGTGGAATAGGTAAAAGACTGCAGATTCTGTCACCCTAAGCAATAGTGGAGC
AA
Found at i:44070310 original size:19 final size:20
Alignment explanation
Indices: 44070276--44070314 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
44070266 GTATAAGCTC
44070276 TATTTTCCCTTTTATTTTTT
1 TATTTTCCCTTTTATTTTTT
*
44070296 TATTTTTCC-TTTATTTTTT
1 TATTTTCCCTTTTATTTTTT
44070315 CTTCCTTTTG
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:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (20 bp):
TATTTTCCCTTTTATTTTTT
Found at i:44070351 original size:6 final size:6
Alignment explanation
Indices: 44070340--44070378 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
44070330 ATTTGTTTTC
* *
44070340 TTTATT TTTATT TTTATT TGTATT TTT-CT TTTATT TTTA
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTA
44070379 AAAACTATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
5 4 0.14
6 24 0.86
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:44070983 original size:12 final size:12
Alignment explanation
Indices: 44070966--44071006 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
44070956 TTATCATCTT
*
44070966 TTATTATTACTA
1 TTATTATTAGTA
*
44070978 TTATTATAAGTA
1 TTATTATTAGTA
44070990 TTATTATTAGTA
1 TTATTATTAGTA
44071002 TTATT
1 TTATT
44071007 GTTATGTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (12 bp):
TTATTATTAGTA
Found at i:44071825 original size:109 final size:109
Alignment explanation
Indices: 44071543--44072084 Score: 793
Period size: 110 Copynumber: 5.0 Consensus size: 109
44071533 CTTCAAAAGG
* *
44071543 AAAATTTTCAAAATAAGGCAATGTTTTGCGTTTAGAAATTCGAGAAAACGTGCCCTAAGGTGCTG
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTG
* *
44071608 GGTGTCGATTTTTCTCGTTCAACCAAATGGTTTAATATCCTTTT
66 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTTT
* * *
44071652 AAAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAATGTGCCCTAATGTGCT
1 -AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCT
*
44071717 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTT
65 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTTT
*
44071762 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTG
* *
44071827 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCATTTT
66 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTTT
* *
44071871 AAAAATTTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGC
1 AAAAA-TTTCAAAATAAGGCAATGTTTTGCGTTT-GGAAATTCGAGAAAACGTGCCCTAAGGTGC
* * *
44071936 TGGGTGTCGATTTTTCTCATTCAACCAAATAGCTAAATATTCTTTT
64 TGGGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTTT
* * * * * *
44071982 AAAATTTTCAAAATAAGGTAATGTTTTGCGTTTGAAAATTTGAG-GAACGTACCCTAAGGTGCTG
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTG
* * * * *
44072046 GGTTTC--TATTTCTCGTTTAACCAAATAGCCAAATATCCT
66 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCT
44072085 CTCGAATTTC
Statistics
Matches: 395, Mismatches: 35, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
106 28 0.07
108 22 0.06
109 116 0.29
110 154 0.39
111 75 0.19
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.35
Consensus pattern (109 bp):
AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTG
GGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTTT
Found at i:44071988 original size:219 final size:220
Alignment explanation
Indices: 44071543--44072071 Score: 852
Period size: 219 Copynumber: 2.4 Consensus size: 220
44071533 CTTCAAAAGG
*
44071543 AAAATTTTCAAAATAAGGCAATGTTTTGCGTTTAGAAATTCGAGAAAACGTGCCCTAAGGTGCTG
1 AAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTG
* *
44071608 GGTGTCGATTTTTCTCGTTCAACCAAATGGTTTAATATCCTTTTAAAAAATTTTAAAATAAGGCA
66 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCATTTTAAAAAATTTTAAAATAAGGCA
** *
44071673 ATGTTTTGCGTTTGGAAATTCGAGAAAATGTGCCCTAATGTGCTGGGTGTCGATTTTTCTCATTC
131 ATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTC
*
44071738 AACCAAATGGCTAAATATCCTTTTA
196 AACCAAATAGCTAAATATCCTTTTA
*
44071763 AAAA-TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
1 AAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTG
*
44071827 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCATTTTAAAAATTTTTAAAATAAGGCA
66 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCATTTTAAAAAATTTTAAAATAAGGCA
44071892 ATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATT
131 ATGTTTTGCGTTT-GGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATT
*
44071957 CAACCAAATAGCTAAATATTCTTTT-
195 CAACCAAATAGCTAAATATCCTTTTA
* * * * *
44071982 AAAATTTTCAAAATAAGGTAATGTTTTGCGTTTGAAAATTTGAG-GAACGTACCCTAAGGTGCTG
1 AAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTG
* * *
44072046 GGTTTC--TATTTCTCGTTTAACCAAAT
66 GGTGTCGATTTTTCTCGTTCAACCAAAT
44072072 AGCCAAATAT
Statistics
Matches: 288, Mismatches: 19, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
217 18 0.06
219 159 0.55
220 111 0.39
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (220 bp):
AAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTG
GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCATTTTAAAAAATTTTAAAATAAGGCA
ATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTC
AACCAAATAGCTAAATATCCTTTTA
Done.