Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold84
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: 2025335
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 30794 characters in sequence are not A, C, G, or T
File 7 of 13
Found at i:966808 original size:13 final size:13
Alignment explanation
Indices: 966790--966815 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
966780 TACAGCAAGT
966790 ATGTATCGATACA
1 ATGTATCGATACA
966803 ATGTATCGATACA
1 ATGTATCGATACA
966816 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:969771 original size:13 final size:13
Alignment explanation
Indices: 969753--969780 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
969743 ATACAAAGAT
969753 CAATGTATCGATA
1 CAATGTATCGATA
969766 CAATGTATCGATA
1 CAATGTATCGATA
969779 CA
1 CA
969781 TTGAATAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:969772 original size:33 final size:33
Alignment explanation
Indices: 969735--969800 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
969725 AAATTCCTAG
969735 ATGTATCAATACAAAG-ATCAATGTATCGATACA
1 ATGTATCAATACAAAGAAT-AATGTATCGATACA
* **
969768 ATGTATCGATACATTGAATAATGTATCGATACA
1 ATGTATCAATACAAAGAATAATGTATCGATACA
969801 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.93
34 2 0.07
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (33 bp):
ATGTATCAATACAAAGAATAATGTATCGATACA
Found at i:969861 original size:19 final size:19
Alignment explanation
Indices: 969834--969894 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 19
969824 CGATACATTA
969834 TATCGATACAACACTTATG
1 TATCGATACAACACTTATG
*
969853 TAACGAT---ACA--T-TG
1 TATCGATACAACACTTATG
969866 TATCGATACAACACTTATG
1 TATCGATACAACACTTATG
969885 TATCGATACA
1 TATCGATACA
969895 TTTACTGTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
13 8 0.24
14 1 0.03
16 6 0.18
18 1 0.03
19 18 0.53
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (19 bp):
TATCGATACAACACTTATG
Found at i:969870 original size:32 final size:32
Alignment explanation
Indices: 969819--969896 Score: 129
Period size: 32 Copynumber: 2.4 Consensus size: 32
969809 GCAGTAGCTT
*
969819 TGTAGCGATACATTATATCGATACAACACTTA
1 TGTAACGATACATTATATCGATACAACACTTA
*
969851 TGTAACGATACATTGTATCGATACAACACTTA
1 TGTAACGATACATTATATCGATACAACACTTA
*
969883 TGTATCGATACATT
1 TGTAACGATACATT
969897 TACTGTTTGT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (32 bp):
TGTAACGATACATTATATCGATACAACACTTA
Found at i:970487 original size:20 final size:20
Alignment explanation
Indices: 970459--970501 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
970449 TTGACAAAGG
* *
970459 GGGAGAAATGCTTTGATTAA
1 GGGAAAAATGCTTTAATTAA
*
970479 GGGAAAAATTCTTTAATTAA
1 GGGAAAAATGCTTTAATTAA
970499 GGG
1 GGG
970502 GGAGAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.37, C:0.05, G:0.28, T:0.30
Consensus pattern (20 bp):
GGGAAAAATGCTTTAATTAA
Found at i:971077 original size:19 final size:20
Alignment explanation
Indices: 971034--971078 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
971024 CTCACCCAGA
*
971034 TGTATCGATACATTATTCTT
1 TGTATCGATACATTATTCAT
*
971054 TGTATCGATACA-TGTTCAT
1 TGTATCGATACATTATTCAT
971073 TGTATC
1 TGTATC
971079 TGTAGACACC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.24, C:0.16, G:0.13, T:0.47
Consensus pattern (20 bp):
TGTATCGATACATTATTCAT
Found at i:971472 original size:13 final size:13
Alignment explanation
Indices: 971454--971479 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
971444 CATTTTTTTG
971454 TGTATCGATACAT
1 TGTATCGATACAT
971467 TGTATCGATACAT
1 TGTATCGATACAT
971480 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:973937 original size:76 final size:78
Alignment explanation
Indices: 973850--973993 Score: 220
Period size: 76 Copynumber: 1.9 Consensus size: 78
973840 TTTCATCTCA
** * *
973850 GGGATACTCCAACCCCTGTTTTATTTCTAAAACATCAATTTTT-C-ATCGGGGATACTCCAATCC
1 GGGATACTCCAACCCCAATTTTATTTCTAAAACACCAATTTTTACAATCGGGGATACTCCAACCC
973913 CGTTATTTTCGAG
66 CGTTATTTTCGAG
*
973926 GGGATACTCCAACCCCAATTTTATTTCTAAAATACCAATTTTTCACAATCGGGGATACTCCAACC
1 GGGATACTCCAACCCCAATTTTATTTCTAAAACACCAATTTTT-ACAATCGGGGATACTCCAACC
973991 CCG
65 CCG
973994 ATTTTATTTC
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
76 39 0.65
78 1 0.02
79 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (78 bp):
GGGATACTCCAACCCCAATTTTATTTCTAAAACACCAATTTTTACAATCGGGGATACTCCAACCC
CGTTATTTTCGAG
Found at i:973982 original size:51 final size:51
Alignment explanation
Indices: 973925--974095 Score: 297
Period size: 51 Copynumber: 3.4 Consensus size: 51
973915 TTATTTTCGA
*
973925 GGGGATACTCCAACCCCAATTTTATTTCTAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTTCACAATC
973976 GGGGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTTCACAATC
* * * *
974027 GGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTCTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTTCACAATC
974078 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
974096 CTATTTTCGC
Statistics
Matches: 114, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 114 1.00
ACGTcount: A:0.31, C:0.28, G:0.11, T:0.30
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTTCACAATC
Found at i:984410 original size:6 final size:6
Alignment explanation
Indices: 984391--984458 Score: 61
Period size: 6 Copynumber: 11.5 Consensus size: 6
984381 ATTCTCTTCT
* * * *
984391 AAAAA- AAAACC AAAAAC AAAAGC AAAAGC AAAAAA AAAAAC AAAAAAAC
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC --AAAAAC
984440 AAAAA- AAAAAC -AAAAC AAA
1 AAAAAC AAAAAC AAAAAC AAA
984459 GAAAAAAGAG
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
5 14 0.27
6 32 0.62
8 6 0.12
ACGTcount: A:0.84, C:0.13, G:0.03, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:984422 original size:18 final size:18
Alignment explanation
Indices: 984391--984465 Score: 73
Period size: 18 Copynumber: 4.2 Consensus size: 18
984381 ATTCTCTTCT
*
984391 AAAAA-AAAACCAAAAAC
1 AAAAACAAAACCAAAAAA
* *
984408 AAAAGCAAAAGCAAAAAA
1 AAAAACAAAACCAAAAAA
**
984426 AAAAACAAAAAAACAAAAA
1 AAAAACAAAACCA-AAAAA
984445 AAAAACAAAA-CAAAGAAA
1 AAAAACAAAACCAAA-AAA
984463 AAA
1 AAA
984466 GAGAGAAAAG
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
17 6 0.12
18 27 0.56
19 15 0.31
ACGTcount: A:0.84, C:0.12, G:0.04, T:0.00
Consensus pattern (18 bp):
AAAAACAAAACCAAAAAA
Found at i:984428 original size:11 final size:10
Alignment explanation
Indices: 984402--984454 Score: 54
Period size: 10 Copynumber: 5.0 Consensus size: 10
984392 AAAAAAAACC
984402 AAAAACAAAA
1 AAAAACAAAA
*
984412 GCAAAAGCAAAA
1 --AAAAACAAAA
984424 AAAAA-AACAA
1 AAAAACAA-AA
984434 AAAAACAAAAA
1 AAAAAC-AAAA
984445 AAAAACAAAA
1 AAAAACAAAA
984455 CAAAGAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
9 2 0.06
10 15 0.42
11 8 0.22
12 11 0.31
ACGTcount: A:0.85, C:0.11, G:0.04, T:0.00
Consensus pattern (10 bp):
AAAAACAAAA
Found at i:984443 original size:16 final size:16
Alignment explanation
Indices: 984391--984465 Score: 73
Period size: 16 Copynumber: 4.6 Consensus size: 16
984381 ATTCTCTTCT
*
984391 AAAAAAAAACCAAAAAC
1 AAAAAAAAAAC-AAAAC
* *
984408 AAAAGCAAAAGCAAAA-
1 AAAA-AAAAAACAAAAC
984424 AAAAAAACAAA-AAAAC
1 AAAAAAA-AAACAAAAC
984440 AAAAAAAAAACAAAAC
1 AAAAAAAAAACAAAAC
984456 AAAGAAAAAA
1 AAA-AAAAAA
984466 GAGAGAAAAG
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
15 9 0.18
16 21 0.43
17 14 0.29
18 5 0.10
ACGTcount: A:0.84, C:0.12, G:0.04, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAACAAAAC
Found at i:984463 original size:19 final size:19
Alignment explanation
Indices: 984393--984465 Score: 76
Period size: 19 Copynumber: 3.7 Consensus size: 19
984383 TCTCTTCTAA
*
984393 AAAAAAACCAAAAACAAAAGC
1 AAAAAAA-CAAAAA-AAAAAC
**
984414 AAAAGCA-AAAAAAAAAAC
1 AAAAAAACAAAAAAAAAAC
984432 AAAAAAACAAAAAAAAAAC
1 AAAAAAACAAAAAAAAAAC
*
984451 AAAACAAAGAAAAAA
1 AAAA-AAACAAAAAA
984466 GAGAGAAAAG
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
18 10 0.23
19 20 0.45
20 9 0.20
21 5 0.11
ACGTcount: A:0.84, C:0.12, G:0.04, T:0.00
Consensus pattern (19 bp):
AAAAAAACAAAAAAAAAAC
Found at i:985495 original size:29 final size:29
Alignment explanation
Indices: 985462--985600 Score: 105
Period size: 26 Copynumber: 5.0 Consensus size: 29
985452 GACGCCTTTT
985462 CCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * **
985491 CCTTTC--AGTCCTCA-AAG-AGCAGGACA
1 CCTTTCAAAGCCCACACAAGTTGGTGG-CA
985517 CCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * ** *
985546 CCTTTC--AGTCCTCA-AAG-AGCAGGACG
1 CCTTTCAAAGCCCACACAAGTTGGTGG-CA
985572 CCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCA
985601 TTTTCTAGTC
Statistics
Matches: 78, Mismatches: 22, Indels: 20
0.65 0.18 0.17
Matches are distributed among these distances:
25 6 0.08
26 21 0.27
27 12 0.15
28 12 0.15
29 21 0.27
30 6 0.08
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (29 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:985546 original size:55 final size:53
Alignment explanation
Indices: 985431--986069 Score: 724
Period size: 55 Copynumber: 11.4 Consensus size: 53
985421 CTCCTTTCAC
985431 TTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCAGTCCTCAAAGAGCAGGACG------CCTTT-AAAGCCCACACAAGTTGGTGGCA
* *
985491 CCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGACGCCTTT-AAAGCCCACACAAGTTGGTGGCA
*
985546 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGACGCCTTT-AAAGCCCACACAAGTTGGTGGCA
*
985601 TTTTCTAGTCCTCAAAGAGCAGGGCGCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTC-AGTCCTCAAAGAGCAGGACGCC-TTTAAAGCCCACACAAGTTGGTGGCA
* * *
985656 CTTTTC-GATCTTCAAAGAACCA-GATGCCCTTTAAAGCCCACACAAGTTGGTGGCA
1 -TTTTCAG-TCCTCAAAG-AGCAGGACG-CCTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * *
985711 CCTTTCGGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACGAGTCGATGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGACGCC-TTTAAAGCCCACACAAGTTGGTGGCA
* *
985766 TTTTCTAGTCCTCAAAGAGCAGGACATCTTTTCTTTTTAAAAGCTCACACAAGTTGGTGGCA
1 TTTTC-AGTCCTCAAAGAGCAGGAC-GC----C--TTT-AAAGCCCACACAAGTTGGTGGCA
*
985828 TTTTCCAGTCCTCAAAGAGCAGGATGCCTCTTAAAGCCCACACAAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGACGCCT-TTAAAGCCCACACAAGTTGGTGGCA
*
985883 TTTTCCAGTCCTCAAAGAGCAGGACGCCTCTTAAAGCCCACACAAGTTGGTGGTA
1 TTTT-CAGTCCTCAAAGAGCAGGACGCCT-TTAAAGCCCACACAAGTTGGTGGCA
* * *
985938 TTTTCCAATCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTAGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGACGCCT-TTAAAGCCCACACAAGTTGGTGGCA
* *
985993 TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCCAAGCCCACACGAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGACGCCTTT-AAAGCCCACACAAGTTGGTGGCA
*
986048 CTTTTTAGTCCTCAAAGAGCAG
1 -TTTTCAGTCCTCAAAGAGCAG
986070 AATGCACTTT
Statistics
Matches: 518, Mismatches: 39, Indels: 48
0.86 0.06 0.08
Matches are distributed among these distances:
54 16 0.03
55 409 0.79
56 21 0.04
57 1 0.00
60 1 0.00
61 28 0.05
62 41 0.08
63 1 0.00
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (53 bp):
TTTTCAGTCCTCAAAGAGCAGGACGCCTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:985924 original size:227 final size:220
Alignment explanation
Indices: 985428--986069 Score: 814
Period size: 227 Copynumber: 2.9 Consensus size: 220
985418 TTTCTCCTTT
985428 CACTTTT-CAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCAC
1 CACTTTTCCAGTCCTCAAAGAGCAGGACGCC---T-CTTT-AAAGCCCACACAAGTTGGTGGCAC
* * *
985492 CTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCC
61 CTTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAG-TGATGGCA-TTTTCAGTCC
* *
985557 TCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCA
124 TCAAAGAGCAGGACGCCTTTAAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCA
* *
985622 GGGCGCCTTTTAAAGCCCACACAAGTTGGTGG
189 GGACGCCTCTTAAAGCCCACACAAGTTGGTGG
* * * *
985654 CACTTTTCGA-TCTTCAAAGAACCA-GATGCC-CTTTAAAGCCCACACAAGTTGGTGGCACCTTT
1 CACTTTTCCAGTCCTCAAAG-AGCAGGACGCCTCTTTAAAGCCCACACAAGTTGGTGGCACCTTT
* *
985716 CGGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACGAGTCGATGGCATTTTCTAGTCCTCAA
65 CAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGT-GATGGCATTTTC-AGTCCTCAA
* *
985781 AGAGCAGGACATCTTTTCTTTTTAAAAGCTCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGA
128 AGAGCAGGAC-GC----C--TTTAAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGA
*
985846 GCAGGATGCCTCTTAAAGCCCACACAAGTTGGTGG
186 GCAGGACGCCTCTTAAAGCCCACACAAGTTGGTGG
* *
985881 CA-TTTTCCAGTCCTCAAAGAGCAGGACGCCTC-TTAAAGCCCACACAAGTTGGTGGTA-TTTTC
1 CACTTTTCCAGTCCTCAAAGAGCAGGACGCCTCTTTAAAGCCCACACAAGTTGGTGGCACCTTT-
* * *
985943 CAATCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTAGTGGCATTTTCCAGTCCTCAA
65 CAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTGA-TGGCATTTT-CAGTCCTCAA
** * *
986008 AGAGCAGGACGCCTTTCCAAGCCCACACGAGTTGGTGGCACTTTT-TAGTCCTCAAAGAGCAG
128 AGAGCAGGACGCCTTTAAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAG
986070 AATGCACTTT
Statistics
Matches: 365, Mismatches: 33, Indels: 42
0.83 0.08 0.10
Matches are distributed among these distances:
219 5 0.01
220 130 0.36
221 9 0.02
222 1 0.00
225 1 0.00
226 34 0.09
227 183 0.50
228 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (220 bp):
CACTTTTCCAGTCCTCAAAGAGCAGGACGCCTCTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTGATGGCATTTTCAGTCCTCAAAGA
GCAGGACGCCTTTAAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCC
TCTTAAAGCCCACACAAGTTGGTGG
Found at i:988779 original size:51 final size:51
Alignment explanation
Indices: 988724--988837 Score: 183
Period size: 51 Copynumber: 2.2 Consensus size: 51
988714 TTTTCGAGGA
* * *
988724 GATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTTCACAATCGGG
1 GATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTCTCACAATCGGG
* *
988775 GATACTTCAACTCCGATTTTATTTCCAAAACACCAATTTCTCACAATCGGG
1 GATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTCTCACAATCGGG
988826 GATACTCCAACC
1 GATACTCCAACC
988838 TCGCTATTTT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.32, C:0.28, G:0.10, T:0.31
Consensus pattern (51 bp):
GATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTCTCACAATCGGG
Found at i:988893 original size:130 final size:127
Alignment explanation
Indices: 988643--988886 Score: 339
Period size: 130 Copynumber: 1.9 Consensus size: 127
988633 ATTTTTCATC
* * * *
988643 TCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTCCAATC
1 TCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTACATCGGGGATACTCCAATC
*
988708 CCGTTATTTTCGAGGAGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTTCACAA
66 CCGCTATTTTCGAGGAGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTTCACAA
* *
988770 TCGGGGATACTTCAACTCCGATTTTATTTCCAAAACACCAATTTCTCACAATCGGGGATACTCCA
1 TCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTT-T-AC-ATCGGGGATACTCCA
* * *
988835 A-CCTCGCTATTTTCGCGGGGATACTCCAACCTCGATTTTATTT-TCAAAATAC
63 ATCC-CGCTATTTTCGAGGAGATACTCCAACCCCGATTTTATTTCT-AAAATAC
988887 TGATTTTCTA
Statistics
Matches: 102, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
127 39 0.38
128 1 0.01
129 4 0.04
130 58 0.57
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (127 bp):
TCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTACATCGGGGATACTCCAATC
CCGCTATTTTCGAGGAGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTTCACAA
Found at i:988908 original size:130 final size:127
Alignment explanation
Indices: 988647--988917 Score: 332
Period size: 130 Copynumber: 2.1 Consensus size: 127
988637 TTCATCTCGG
* * * * * *
988647 GGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTCCAATCCCGT
1 GGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTACATCGGGGATACTCCAATCCCGC
**
988712 TATTTTCGAGGAGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTTCACAATCGG
66 TATTTTCGAGGAGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTTCACAATCAA
*
988774 GGATACTTCAACTCCGATTTTATTTCCAAAACACCAATTTCTCACAATCGGGGATACTCCAA-CC
1 GGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTT-T-AC-ATCGGGGATACTCCAATCC
* * * ** *
988838 TCGCTATTTTCGCGGGGATACTCCAACCTCGATTTTATTT-TCAAAATACTGA-TTTTCTATAAT
63 -CGCTATTTTCGAGGAGATACTCCAACCCCGATTTTATTTCT-AAAATACCAATTTTTC-ACAAT
988901 CAA
125 CAA
988904 GGATACTCCAACTC
1 GGATACTCCAACTC
988918 TATTTCTTTT
Statistics
Matches: 122, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
127 35 0.29
128 1 0.01
129 9 0.07
130 77 0.63
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (127 bp):
GGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTACATCGGGGATACTCCAATCCCGC
TATTTTCGAGGAGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTTCACAATCAA
Found at i:991294 original size:21 final size:20
Alignment explanation
Indices: 991247--991298 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
991237 CATTTGAGAC
* **
991247 ATGTATCGATGCATTCACTT
1 ATGTATCGATACATTCACCA
991267 ATGTATCGATACATTCACCA
1 ATGTATCGATACATTCACCA
991287 ATTGTATCGATA
1 A-TGTATCGATA
991299 TAAATTATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 18 0.64
21 10 0.36
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTCACCA
Found at i:1002960 original size:19 final size:19
Alignment explanation
Indices: 1002938--1002976 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
1002928 TTTTTTTATA
*
1002938 TATTTGTTTTTTTATTTTT
1 TATTTGATTTTTTATTTTT
1002957 TATTTGATTTTTTATTTTT
1 TATTTGATTTTTTATTTTT
1002976 T
1 T
1002977 TCGTTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.13, C:0.00, G:0.05, T:0.82
Consensus pattern (19 bp):
TATTTGATTTTTTATTTTT
Found at i:1002966 original size:12 final size:11
Alignment explanation
Indices: 1002929--1002977 Score: 55
Period size: 12 Copynumber: 4.4 Consensus size: 11
1002919 CACTTTTCTT
*
1002929 TTTTTTATATA
1 TTTTTTATTTA
*
1002940 TTTGTTTTTTTA
1 TTT-TTTATTTA
1002952 TTTTTTATTTGA
1 TTTTTTATTT-A
1002964 TTTTTTATTT-
1 TTTTTTATTTA
1002974 TTTT
1 TTTT
1002978 CGTTTTATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
10 4 0.12
11 9 0.27
12 20 0.61
ACGTcount: A:0.14, C:0.00, G:0.04, T:0.82
Consensus pattern (11 bp):
TTTTTTATTTA
Found at i:1006374 original size:15 final size:17
Alignment explanation
Indices: 1006344--1006378 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
1006334 TAAAACTATT
1006344 ATTAAATAATAATTTAA
1 ATTAAATAATAATTTAA
1006361 ATTAAAT-A-AATTTAA
1 ATTAAATAATAATTTAA
1006376 ATT
1 ATT
1006379 GTTAAAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 10 0.56
16 1 0.06
17 7 0.39
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATTAAATAATAATTTAA
Found at i:1008993 original size:28 final size:29
Alignment explanation
Indices: 1008937--1008995 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
1008927 GGAGCTATTA
*
1008937 AATTTATGCATCTAAGGGATGCACTAATG
1 AATTTATGCATATAAGGGATGCACTAATG
* *
1008966 AATTTATGCATATAGGGGATGC-TTAATG
1 AATTTATGCATATAAGGGATGCACTAATG
1008994 AA
1 AA
1008996 ATATAAGGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 7 0.26
29 20 0.74
ACGTcount: A:0.36, C:0.10, G:0.22, T:0.32
Consensus pattern (29 bp):
AATTTATGCATATAAGGGATGCACTAATG
Found at i:1009098 original size:6 final size:6
Alignment explanation
Indices: 1009087--1009116 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
1009077 TCTTAGGCAA
1009087 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
1009117 CAAGCGTCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:1016374 original size:13 final size:13
Alignment explanation
Indices: 1016356--1016381 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1016346 CAATTTTTTG
1016356 TGTATCGATACAT
1 TGTATCGATACAT
1016369 TGTATCGATACAT
1 TGTATCGATACAT
1016382 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1016396 original size:32 final size:33
Alignment explanation
Indices: 1016336--1016399 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
1016326 TACAAGCCAA
** *
1016336 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
1016369 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
1016400 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:1016465 original size:20 final size:21
Alignment explanation
Indices: 1016420--1016472 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
1016410 CTGCCAAGAA
* **
1016420 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTGTAAC
1016441 ATGTATCGATACAT-TGTAAC
1 ATGTATCGATACATCTGTAAC
1016461 ATGTATCGATAC
1 ATGTATCGATAC
1016473 TTTGAATTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (21 bp):
ATGTATCGATACATCTGTAAC
Found at i:1017120 original size:21 final size:21
Alignment explanation
Indices: 1017079--1017122 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1017069 TCCCCTTTTA
* *
1017079 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
1017100 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
1017121 TC
1 TC
1017123 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:1018951 original size:13 final size:13
Alignment explanation
Indices: 1018933--1018957 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1018923 ATAATCACCC
1018933 TGTATCGATACAA
1 TGTATCGATACAA
1018946 TGTATCGATACA
1 TGTATCGATACA
1018958 TTGAATTTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1021029 original size:15 final size:15
Alignment explanation
Indices: 1021009--1021039 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1020999 ATTTCTTGTG
*
1021009 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1021024 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1021039 G
1 G
1021040 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1022248 original size:80 final size:80
Alignment explanation
Indices: 1022113--1022318 Score: 209
Period size: 80 Copynumber: 2.6 Consensus size: 80
1022103 GAGATAATAA
* * * * ** * *
1022113 CGGGATTGGAGTGTTCCCTT-GAAAATAACGGGGCTAGAGTATCCTCGGTTGTGAGAAATCGATG
1 CGGGATTGGAGT-ATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-
*
1022177 A-TTAGAAAAAAAAAAT
64 ATTTAGAAAAAAAAAAC
1022193 CGGGATTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATAT
1 CGGGATTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATAT
* ** * *
1022258 TTTGGGAAATAAAGC
66 TTAGAAAAAAAAAAC
* * * * *
1022273 CGGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGAAGTATCCCC
1 CGGGATTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCC
1022319 GATGAAATAA
Statistics
Matches: 105, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
79 7 0.07
80 98 0.93
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (80 bp):
CGGGATTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATAT
TTAGAAAAAAAAAAC
Found at i:1022329 original size:28 final size:28
Alignment explanation
Indices: 1022273--1022336 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 28
1022263 GAAATAAAGC
* ** *
1022273 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGAAGTATCCCCGAGGAAATAA
*
1022301 CGGGGTTGAAGTATCCCCGATGAAATAA
1 CGGGGTTGAAGTATCCCCGAGGAAATAA
*
1022329 CGAGGTTG
1 CGGGGTTG
1022337 GAGTGTCCTC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.25, C:0.19, G:0.34, T:0.22
Consensus pattern (28 bp):
CGGGGTTGAAGTATCCCCGAGGAAATAA
Found at i:1022446 original size:52 final size:52
Alignment explanation
Indices: 1022333--1022669 Score: 204
Period size: 52 Copynumber: 6.4 Consensus size: 52
1022323 AAATAACGAG
* * * *
1022333 GTTGGAGTGTCCTCGATTGTGAAAAAATTGGTGTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTAAAAAAATTGGTG-TTTTAGAAATAAAATCGGA
* * *
1022386 GCTGGAGTATCCCCGA-T-TAAAGGAAAATTGGTGTTTTAAAAATAAAATCGGG
1 GTTGGAGTATCCCCGATTGTAAA--AAAATTGGTGTTTTAGAAATAAAATCGGA
* * ** *
1022438 GTTGGAGTATCCCCGATTGTGAAAAAATTAGTGTTTTAGCGATAAAACCGGA
1 GTTGGAGTATCCCCGATTGTAAAAAAATTGGTGTTTTAGAAATAAAATCGGA
* * ** * *** * * *
1022490 GTTGGAGTATCCCC--TCGGAAATAACGGGGTTGGAGTATCCCCGATGAT-TAA-CGGG
1 GTTGGAGTATCCCCGATTGTAAA-AA---AATTGGTGT-T-TTAGA-AATAAAATCGGA
* * * *
1022545 GTTAGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTAAAAAAATTGGTG--TTTTAGAAATAAAATCGGA
* * * *
1022599 GTTAGAGTATCCCCGATTAT-AGAAAATTAGTGTTTT-GAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTAAAAAAATTGGTGTTTTAG-AAATAAAATCGGA
* *
1022650 GTTGGAATATCCTCGATTGT
1 GTTGGAGTATCCCCGATTGT
1022670 GGAGAATTGA
Statistics
Matches: 216, Mismatches: 50, Indels: 38
0.71 0.16 0.12
Matches are distributed among these distances:
50 5 0.02
51 38 0.18
52 71 0.33
53 42 0.19
54 31 0.14
55 18 0.08
56 4 0.02
57 7 0.03
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.30
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTGTAAAAAAATTGGTGTTTTAGAAATAAAATCGGA
Found at i:1022462 original size:105 final size:105
Alignment explanation
Indices: 1022332--1022670 Score: 321
Period size: 105 Copynumber: 3.2 Consensus size: 105
1022322 GAAATAACGA
* * *
1022332 GGTTGGAGTGTCCTCGATTGTGAAAAAATTGGTGTTTTTGGAAATAAAATCGGAGCTGGAGTATC
1 GGTTGGAGTATCCCCGATTGTGAAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATC
1022397 CCCGATTAAAGGAAAATTGGTGTTTTAAAAATAAAATCGG
66 CCCGATTAAAGGAAAATTGGTGTTTTAAAAATAAAATCGG
* * *
1022437 GGTTGGAGTATCCCCGATTGTGAAAAAATTAGTGTTTTAGCG--ATAAAACCGGAGTTGGAGTAT
1 GGTTGGAGTATCCCCGATTGTGAAAAAATTGGTGTTTTTG-GAAATAAAATCGGAGTTGGAGTAT
* * ** * * ***** *
1022500 CCCCTCGGAAATAACGG--GGTTGGAGTATCCCCGATGATTAA-CGG
65 -CCC-C-G-ATTAAAGGAAAATTGGTGTTTTAAAAAT-A-AAATCGG
* * *
1022544 GGTTAGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTAGAGTAT
1 GGTTGGAGTATCCCCGATTGTGAAAAAATTGGTG-TTTTTGGAAATAAAATCGGAGTTGGAGTAT
* * *
1022609 CCCCGATTATA-GAAAATTAGTGTTTTGAAAATAAAATCGG
65 CCCCGATTAAAGGAAAATTGGTGTTTTAAAAATAAAATCGG
* * *
1022649 AGTTGGAATATCCTCGATTGTG
1 GGTTGGAGTATCCCCGATTGTG
1022671 GAGAATTGAT
Statistics
Matches: 179, Mismatches: 42, Indels: 26
0.72 0.17 0.11
Matches are distributed among these distances:
104 22 0.12
105 64 0.36
106 20 0.11
107 38 0.21
108 16 0.09
109 19 0.11
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.30
Consensus pattern (105 bp):
GGTTGGAGTATCCCCGATTGTGAAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATC
CCCGATTAAAGGAAAATTGGTGTTTTAAAAATAAAATCGG
Found at i:1022517 original size:213 final size:212
Alignment explanation
Indices: 1022266--1022670 Score: 623
Period size: 213 Copynumber: 1.9 Consensus size: 212
1022256 ATTTTGGGAA
* * *
1022266 ATAAAGCCGGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGAAGTATCCCCGATGAAATAACG
1 ATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGAAGTATCCCCGATG-AATAACG
* * * *
1022331 AGGTTGGAGTGTCCTCGATTGTGAAAAAATTGGTG-TTTTTGGAAATAAAATCGGAGCTGGAGTA
65 AGGTTAGAGTATCCCCGATTGTGAAAAAATTGGTGTTTTTTGGAAATAAAATCGGAGCTAGAGTA
* * *
1022395 TCCCCGATTAAAGGAAAATTGGTGTTTTAAAAATAAAATCGGGGTTGGAGTATCCCCGATTGTGA
130 TCCCCGATTAAA-GAAAATTAGTGTTTTAAAAATAAAATCGGAGTTGGAATATCCCCGATTGTGA
1022460 AAAAATTAGTGTTTTAGCG
194 AAAAATTAGTGTTTTAGCG
* * *
1022479 ATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGATTAACGG
1 ATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGAAGTATCCCCGATGAATAACGA
* *
1022544 GGTTAGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTAGAGTAT
66 GGTTAGAGTATCCCCGATTGTGAAAAAATTGGTGTTTTTTGGAAATAAAATCGGAGCTAGAGTAT
* * *
1022609 CCCCGATTATAGAAAATTAGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCTCGATTGTG
131 CCCCGATTAAAGAAAATTAGTGTTTTAAAAATAAAATCGGAGTTGGAATATCCCCGATTGTG
1022671 GAGAATTGAT
Statistics
Matches: 173, Mismatches: 18, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
212 82 0.47
213 91 0.53
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.28
Consensus pattern (212 bp):
ATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGAAGTATCCCCGATGAATAACGA
GGTTAGAGTATCCCCGATTGTGAAAAAATTGGTGTTTTTTGGAAATAAAATCGGAGCTAGAGTAT
CCCCGATTAAAGAAAATTAGTGTTTTAAAAATAAAATCGGAGTTGGAATATCCCCGATTGTGAAA
AAATTAGTGTTTTAGCG
Found at i:1022530 original size:28 final size:27
Alignment explanation
Indices: 1022490--1022560 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
1022480 TAAAACCGGA
**
1022490 GTTGGAGTATCCCCTCGGAAATAACGGG
1 GTTGGAGTATCCCCGAGG-AATAACGGG
* *
1022518 GTTGGAGTATCCCCGATGATTAACGGG
1 GTTGGAGTATCCCCGAGGAATAACGGG
*
1022545 GTTAGAGTATCCCCGA
1 GTTGGAGTATCCCCGA
1022561 TTGTGAAGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
27 23 0.61
28 15 0.39
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (27 bp):
GTTGGAGTATCCCCGAGGAATAACGGG
Found at i:1025040 original size:20 final size:20
Alignment explanation
Indices: 1025013--1025067 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
1025003 TAAAATTTCC
*
1025013 AAATGTATCGATACAAAGAT
1 AAATGTATCGATACAAAGAA
** *
1025033 CCATGTATCGATACACAGAA
1 AAATGTATCGATACAAAGAA
1025053 AAATGTATCGATACA
1 AAATGTATCGATACA
1025068 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.24
Consensus pattern (20 bp):
AAATGTATCGATACAAAGAA
Found at i:1025111 original size:19 final size:18
Alignment explanation
Indices: 1025087--1025154 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
1025077 CAGTAGCTAA
1025087 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
1025106 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
1025121 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
1025138 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
1025155 TCGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:1025127 original size:13 final size:13
Alignment explanation
Indices: 1025109--1025133 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1025099 ACAATACTTA
1025109 TGTATCGATACAT
1 TGTATCGATACAT
1025122 TGTATCGATACA
1 TGTATCGATACA
1025134 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1025131 original size:32 final size:32
Alignment explanation
Indices: 1025090--1025152 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1025080 TAGCTAATTA
*
1025090 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
1025122 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
1025153 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:1025216 original size:21 final size:21
Alignment explanation
Indices: 1025190--1025267 Score: 115
Period size: 21 Copynumber: 3.8 Consensus size: 21
1025180 GTTGGGACCC
1025190 TGTATCGATACATTTGTAGAA
1 TGTATCGATACATTTGTAGAA
1025211 TGTATCGATACATTTGT-GAA
1 TGTATCGATACATTTGTAGAA
* *
1025231 TGTATCGATACA-TTCTACAAA
1 TGTATCGATACATTTGTA-GAA
1025252 TGTATCGATACATTTG
1 TGTATCGATACATTTG
1025268 GAATTTTTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
19 3 0.06
20 15 0.29
21 31 0.61
22 2 0.04
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTTGTAGAA
Found at i:1025254 original size:41 final size:40
Alignment explanation
Indices: 1025190--1025271 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 40
1025180 GTTGGGACCC
* *
1025190 TGTATCGATACATTTGTAGAATGTATCGATACATTTGTGAA
1 TGTATCGATACATTTCTAAAATGTATCGATACATTTG-GAA
1025231 TGTATCGATACA-TTCTACAAATGTATCGATACATTTGGAA
1 TGTATCGATACATTTCTA-AAATGTATCGATACATTTGGAA
1025271 T
1 T
1025272 TTTTTTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
40 8 0.21
41 30 0.79
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (40 bp):
TGTATCGATACATTTCTAAAATGTATCGATACATTTGGAA
Found at i:1026161 original size:55 final size:55
Alignment explanation
Indices: 1025943--1026680 Score: 1114
Period size: 55 Copynumber: 13.3 Consensus size: 55
1025933 ATAAACTGTA
* * * **
1025943 TCCTGCTCATTGAGGAGT-AAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAAGCA
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTT---AAGAG---GTG
* * *
1026004 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
1026059 TCCTGCTCTTTGAGGACTGG-AAATGCCACCAACTTGTGTGGGCTTTGAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1026113 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
1026168 TCCTGTTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
1026223 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGGGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
1026278 TCCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1026333 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1026388 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
***
1026443 TCCTGCTCTTTGAGGACTGGAAGGCGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
1026498 TCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1026553 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
***
1026608 TCCTGCTCTTTGAGGACTGGAAGGCGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1026663 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
1026681 AAAAAGCGGA
Statistics
Matches: 631, Mismatches: 32, Indels: 34
0.91 0.05 0.05
Matches are distributed among these distances:
54 67 0.11
55 502 0.80
56 15 0.02
58 4 0.01
61 38 0.06
62 5 0.01
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
Found at i:1026410 original size:27 final size:27
Alignment explanation
Indices: 1026270--1026410 Score: 65
Period size: 28 Copynumber: 5.1 Consensus size: 27
1026260 GGTGGGCTTT
*
1026270 GAAAGGTGTCCTGCTCTTTGGGGACT-
1 GAAAGGTGTCCTGCTCTTTGAGGACTG
** * * * *
1026296 GAAAGGTG-CCACCAACTTGTGTGGGCTT
1 GAAAGGTGTCCTGC-TCTT-TGAGGACTG
*
1026324 TAAGAGGTGTCCTGCTCTTTGAGGACTG
1 GAA-AGGTGTCCTGCTCTTTGAGGACTG
* ** * * * *
1026352 GAAA-ATG-CCACCAACTTGTGTGGGCTTT
1 GAAAGGTGTCCTGC-TCTT-TGAGGAC-TG
1026380 GAAAGGTGTCCTGCTCTTTGAGGACTG
1 GAAAGGTGTCCTGCTCTTTGAGGACTG
1026407 GAAA
1 GAAA
1026411 ATGCCACCAA
Statistics
Matches: 78, Mismatches: 27, Indels: 19
0.63 0.22 0.15
Matches are distributed among these distances:
25 6 0.08
26 16 0.21
27 17 0.22
28 20 0.26
29 13 0.17
30 6 0.08
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.28
Consensus pattern (27 bp):
GAAAGGTGTCCTGCTCTTTGAGGACTG
Found at i:1040227 original size:80 final size:80
Alignment explanation
Indices: 1040113--1040297 Score: 192
Period size: 80 Copynumber: 2.3 Consensus size: 80
1040103 TTTTCCCTTG
* * * ** * * *
1040113 AAAATAACGGGGCTAGAGTATCCTCGGTTGTGAGAAATCGATGA-TTAGAAAAAAAAAATCGGGA
1 AAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-ATTTAGAAAAAAAAAACCGGGA
*
1040177 TTGGAGTATCCCTTCA
65 TTGGAGTATCCCCTCA
* ** * * *
1040193 AAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAAATAAAGCCGGGGT
1 AAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTAGAAAAAAAAAACCGGGAT
*
1040258 TGGAGTATCCCCTCG
66 TGGAGTATCCCCTCA
* *
1040273 GAAGTAACGGGGTTGGAGTATCCCC
1 AAAATAACGGGGTTGGAGTATCCCC
1040298 GATGAAATAA
Statistics
Matches: 86, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
79 1 0.01
80 85 0.99
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.24
Consensus pattern (80 bp):
AAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTAGAAAAAAAAAACCGGGAT
TGGAGTATCCCCTCA
Found at i:1040292 original size:28 final size:28
Alignment explanation
Indices: 1040252--1040323 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
1040242 GAAATAAAGC
** *
1040252 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
1040280 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
1040308 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
1040324 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:1040437 original size:105 final size:105
Alignment explanation
Indices: 1040311--1040649 Score: 330
Period size: 105 Copynumber: 3.2 Consensus size: 105
1040301 GAAATAACGA
* *
1040311 GGTTGGAGTATCCTCGATTGTGAAAAAATTGGTGTTTTTGGAAATAAAATCGGAGCTGGAGTATC
1 GGTTGGAGTATCCCCGATTGTGAAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATC
1040376 CCCGATTAAAGGAAAATTGGTGTTTTAAAAATAAAATCGG
66 CCCGATTAAAGGAAAATTGGTGTTTTAAAAATAAAATCGG
* * * *
1040416 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCG--ATAAAACCGGAGTTGGAGTAT
1 GGTTGGAGTATCCCCGATTGTGAAAAAATTGGTGTTTTTG-GAAATAAAATCGGAGTTGGAGTAT
* * ** * * **** *
1040479 CCCCTCGGAAATAACGG--GGTTGGAGTATCCCCAATGATTAA-CGG
65 -CCC-C-G-ATTAAAGGAAAATTGGTGTTTTAAAAAT-A-AAATCGG
* * *
1040523 GGTTAGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTAGAGTAT
1 GGTTGGAGTATCCCCGATTGTGAAAAAATTGGTG-TTTTTGGAAATAAAATCGGAGTTGGAGTAT
* * *
1040588 CCCCGATTATA-GAAAATTAGTGTTTTGAAAATAAAATCGG
65 CCCCGATTAAAGGAAAATTGGTGTTTTAAAAATAAAATCGG
* * *
1040628 AGTTGGAATATCCTCGATTGTG
1 GGTTGGAGTATCCCCGATTGTG
1040650 GAGAATTGAT
Statistics
Matches: 180, Mismatches: 41, Indels: 26
0.73 0.17 0.11
Matches are distributed among these distances:
104 22 0.12
105 64 0.36
106 22 0.12
107 37 0.21
108 16 0.09
109 19 0.11
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (105 bp):
GGTTGGAGTATCCCCGATTGTGAAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATC
CCCGATTAAAGGAAAATTGGTGTTTTAAAAATAAAATCGG
Found at i:1040496 original size:213 final size:212
Alignment explanation
Indices: 1040245--1040651 Score: 636
Period size: 213 Copynumber: 1.9 Consensus size: 212
1040235 ATTTTGGGAA
* * * *
1040245 ATAAAGCCGGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACG
1 ATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCAATG-AATAACG
* * *
1040310 AGGTTGGAGTATCCTCGATTGTGAAAAAATTGGTG-TTTTTGGAAATAAAATCGGAGCTGGAGTA
65 AGGTTAGAGTATCCCCGATTGTGAAAAAATTGGTGTTTTTTGGAAATAAAATCGGAGCTAGAGTA
* * *
1040374 TCCCCGATTAAAGGAAAATTGGTGTTTTAAAAATAAAATCGGGGTTGGAGTATCCCCGATTGTGG
130 TCCCCGATTAAA-GAAAATTAGTGTTTTAAAAATAAAATCGGAGTTGGAATATCCCCGATTGTGG
1040439 AAAAATTAGTGTTTTAGCG
194 AAAAATTAGTGTTTTAGCG
* *
1040458 ATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCAATGATTAACGG
1 ATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCAATGAATAACGA
* *
1040523 GGTTAGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTAGAGTAT
66 GGTTAGAGTATCCCCGATTGTGAAAAAATTGGTGTTTTTTGGAAATAAAATCGGAGCTAGAGTAT
* * *
1040588 CCCCGATTATAGAAAATTAGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCTCGATTGTGGA
131 CCCCGATTAAAGAAAATTAGTGTTTTAAAAATAAAATCGGAGTTGGAATATCCCCGATTGTGGA
1040652 GAATTGATAA
Statistics
Matches: 176, Mismatches: 17, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
212 85 0.48
213 91 0.52
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.28
Consensus pattern (212 bp):
ATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCAATGAATAACGA
GGTTAGAGTATCCCCGATTGTGAAAAAATTGGTGTTTTTTGGAAATAAAATCGGAGCTAGAGTAT
CCCCGATTAAAGAAAATTAGTGTTTTAAAAATAAAATCGGAGTTGGAATATCCCCGATTGTGGAA
AAATTAGTGTTTTAGCG
Found at i:1040509 original size:28 final size:27
Alignment explanation
Indices: 1040469--1040537 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
1040459 TAAAACCGGA
**
1040469 GTTGGAGTATCCCCTCGGAAATAACGGG
1 GTTGGAGTATCCCCAAGG-AATAACGGG
* *
1040497 GTTGGAGTATCCCCAATGATTAACGGG
1 GTTGGAGTATCCCCAAGGAATAACGGG
*
1040524 GTTAGAGTATCCCC
1 GTTGGAGTATCCCC
1040538 GATTGTGAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 21 0.58
28 15 0.42
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (27 bp):
GTTGGAGTATCCCCAAGGAATAACGGG
Found at i:1040628 original size:51 final size:51
Alignment explanation
Indices: 1040312--1040646 Score: 194
Period size: 52 Copynumber: 6.4 Consensus size: 51
1040302 AAATAACGAG
* * * *
1040312 GTTGGAGTATCCTCGATTGTGAAAAAATTGGTGTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTAT-AGAAAATTGGTG-TTTTGAAAATAAAATCGGA
* * * *
1040365 GCTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTAAAAATAAAATCGGG
1 GTTGGAGTATCCCCGATTATA-GAAAATTGGTGTTTTGAAAATAAAATCGGA
* * * ** *
1040417 GTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTT-AGCGATAAAACCGGA
1 GTTGGAGTATCCCCGATTATAG-AAAATTGGTGTTTTGA-AAATAAAATCGGA
* *** * * **** * *
1040469 GTTGGAGTATCCCCTCGGA-AATA-ACGGGGTTGGAGTATCCCCAATGATTAA-CGGG
1 GTTGGAGTAT-CCC-C-GATTATAGA--AAATTGGTGTTTTGAAAAT-A-AAATCGGA
* * *
1040524 GTTAGAGTATCCCCGATTGT-GAAGAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATAG-A-AAATTGGTG--TTTTGAAAATAAAATCGGA
* *
1040578 GTTAGAGTATCCCCGATTATAGAAAATTAGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATAGAAAATTGGTGTTTTGAAAATAAAATCGGA
* *
1040629 GTTGGAATATCCTCGATT
1 GTTGGAGTATCCCCGATT
1040647 GTGGAGAATT
Statistics
Matches: 213, Mismatches: 51, Indels: 38
0.71 0.17 0.13
Matches are distributed among these distances:
51 35 0.16
52 69 0.32
53 47 0.22
54 39 0.18
55 21 0.10
56 2 0.01
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATAGAAAATTGGTGTTTTGAAAATAAAATCGGA
Found at i:1043033 original size:13 final size:13
Alignment explanation
Indices: 1043015--1043040 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1043005 ACAAAGATCC
1043015 ATGTATCGATACA
1 ATGTATCGATACA
1043028 ATGTATCGATACA
1 ATGTATCGATACA
1043041 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1043036 original size:33 final size:33
Alignment explanation
Indices: 1042994--1043060 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1042984 AAAATTTCCA
***
1042994 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
1043027 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
1043060 A
1 A
1043061 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:1043104 original size:19 final size:18
Alignment explanation
Indices: 1043080--1043147 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
1043070 CAGTAGCTAA
1043080 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
1043099 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
1043114 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
1043131 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
1043148 TCGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:1043120 original size:13 final size:13
Alignment explanation
Indices: 1043102--1043126 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1043092 ACAATACTTA
1043102 TGTATCGATACAT
1 TGTATCGATACAT
1043115 TGTATCGATACA
1 TGTATCGATACA
1043127 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1043124 original size:32 final size:32
Alignment explanation
Indices: 1043083--1043145 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1043073 TAGCTAATTA
*
1043083 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
1043115 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
1043146 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:1043209 original size:21 final size:21
Alignment explanation
Indices: 1043183--1043260 Score: 115
Period size: 21 Copynumber: 3.8 Consensus size: 21
1043173 GTTGGGACCC
1043183 TGTATCGATACATTTGTAGAA
1 TGTATCGATACATTTGTAGAA
1043204 TGTATCGATACATTTGT-GAA
1 TGTATCGATACATTTGTAGAA
* *
1043224 TGTATCGATACA-TTCTACAAA
1 TGTATCGATACATTTGTA-GAA
1043245 TGTATCGATACATTTG
1 TGTATCGATACATTTG
1043261 GAATTTTTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
19 3 0.06
20 15 0.29
21 31 0.61
22 2 0.04
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTTGTAGAA
Found at i:1043247 original size:41 final size:40
Alignment explanation
Indices: 1043183--1043264 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 40
1043173 GTTGGGACCC
* *
1043183 TGTATCGATACATTTGTAGAATGTATCGATACATTTGTGAA
1 TGTATCGATACATTTCTAAAATGTATCGATACATTTG-GAA
1043224 TGTATCGATACA-TTCTACAAATGTATCGATACATTTGGAA
1 TGTATCGATACATTTCTA-AAATGTATCGATACATTTGGAA
1043264 T
1 T
1043265 TTTTTTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
40 8 0.21
41 30 0.79
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (40 bp):
TGTATCGATACATTTCTAAAATGTATCGATACATTTGGAA
Found at i:1045135 original size:21 final size:21
Alignment explanation
Indices: 1045106--1045150 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1045096 AAGTTTTTAT
*
1045106 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1045126 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1045148 TTT
1 TTT
1045151 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1047389 original size:13 final size:13
Alignment explanation
Indices: 1047371--1047396 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1047361 CAATTTTTTG
1047371 TGTATCGATACAT
1 TGTATCGATACAT
1047384 TGTATCGATACAT
1 TGTATCGATACAT
1047397 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1047411 original size:32 final size:33
Alignment explanation
Indices: 1047351--1047414 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
1047341 TACAAGCCAA
** *
1047351 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
1047384 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
1047415 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:1050224 original size:33 final size:34
Alignment explanation
Indices: 1050177--1050245 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 34
1050167 GAGAATTGAG
1050177 TTTGGTAGTAACCTAGAATGTTTTTCAACACATC
1 TTTGGTAGTAACCTAGAATGTTTTTCAACACATC
* * *
1050211 TTTGG-AGTGACCTAGGATGTTTTTCAACATATC
1 TTTGGTAGTAACCTAGAATGTTTTTCAACACATC
1050244 TT
1 TT
1050246 GCATGCTTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 27 0.84
34 5 0.16
ACGTcount: A:0.26, C:0.16, G:0.17, T:0.41
Consensus pattern (34 bp):
TTTGGTAGTAACCTAGAATGTTTTTCAACACATC
Found at i:1054382 original size:23 final size:23
Alignment explanation
Indices: 1054320--1054387 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 23
1054310 TTCATTTCCA
** *
1054320 AATTTTTTATGATTATTAATTTT
1 AATTTTTTAAAATTTTTAATTTT
*
1054343 AA--TTTTAAATTCCTTTTAATTTT
1 AATTTTTTAAAAT--TTTTAATTTT
1054366 AATTTTTTAAAATTTTTTAATT
1 AATTTTTTAAAA-TTTTTAATT
1054388 AAACTAGTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 9
0.71 0.10 0.18
Matches are distributed among these distances:
21 6 0.17
23 13 0.37
24 8 0.23
25 7 0.20
26 1 0.03
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.63
Consensus pattern (23 bp):
AATTTTTTAAAATTTTTAATTTT
Found at i:1054966 original size:20 final size:20
Alignment explanation
Indices: 1054935--1054983 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
1054925 TATGAAAAAA
1054935 TAATTTTT-TGATATGATGT
1 TAATTTTTGTGATATGATGT
*
1054954 TAATTTTTGTGATATGATTT
1 TAATTTTTGTGATATGATGT
1054974 TCAATTTTTG
1 T-AATTTTTG
1054984 CCATATAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 8 0.30
20 11 0.41
21 8 0.30
ACGTcount: A:0.24, C:0.02, G:0.14, T:0.59
Consensus pattern (20 bp):
TAATTTTTGTGATATGATGT
Found at i:1054989 original size:21 final size:20
Alignment explanation
Indices: 1054945--1054989 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
1054935 TAATTTTTTG
**
1054945 ATATGATGTTAATTTTTGTG
1 ATATGATGTTAATTTTTGCC
*
1054965 ATATGATTTTCAATTTTTGCC
1 ATATGATGTT-AATTTTTGCC
1054986 ATAT
1 ATAT
1054990 AAATATTCAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.27, C:0.07, G:0.13, T:0.53
Consensus pattern (20 bp):
ATATGATGTTAATTTTTGCC
Found at i:1059661 original size:27 final size:27
Alignment explanation
Indices: 1059623--1059693 Score: 142
Period size: 27 Copynumber: 2.6 Consensus size: 27
1059613 GGTTGAAAAC
1059623 GGGGTTGGAGTGTCCCCCCGGAGGAAT
1 GGGGTTGGAGTGTCCCCCCGGAGGAAT
1059650 GGGGTTGGAGTGTCCCCCCGGAGGAAT
1 GGGGTTGGAGTGTCCCCCCGGAGGAAT
1059677 GGGGTTGGAGTGTCCCC
1 GGGGTTGGAGTGTCCCC
1059694 AATGAATAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.13, C:0.23, G:0.45, T:0.20
Consensus pattern (27 bp):
GGGGTTGGAGTGTCCCCCCGGAGGAAT
Found at i:1062881 original size:49 final size:49
Alignment explanation
Indices: 1062819--1063143 Score: 269
Period size: 49 Copynumber: 6.7 Consensus size: 49
1062809 TTAAAGATGC
* * * *
1062819 CAATATGCTGATTCAAGGCCAACGATATCGGACATAAAGATGAACGTGT
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGT
* ** * *
1062868 CAATATGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGATGACGAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT---GAAGGTGT
*
1062920 CAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAAGATGAAGGTG-
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGT
* * * * **
1062968 CTAATGTGCTGATTCAAGGCCAACAACATTGGACTTAAAGATGACAAAGGTAC
1 C-AATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG---AAGGTGT
* * *
1063021 CAATATGCTGATTCGAGGCCAGCGATATTGGGC-T-----T----GTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGT
* * * * *
1063060 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGT
* *
1063108 CAATATGCTGATTCAAGGCCAGGGATATTGGGCTTA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
1063144 TGCCAATATG
Statistics
Matches: 223, Mismatches: 35, Indels: 37
0.76 0.12 0.13
Matches are distributed among these distances:
39 32 0.14
40 1 0.00
46 1 0.00
48 37 0.17
49 77 0.35
51 1 0.00
52 73 0.33
53 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGT
Found at i:1062922 original size:101 final size:88
Alignment explanation
Indices: 1062868--1063230 Score: 406
Period size: 87 Copynumber: 4.0 Consensus size: 88
1062858 ATGAACGTGT
* *
1062868 CAATATGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGATGACGAAGGCGCCAATATGCTGATT
1 CAATATGCTGATTCAAGGCCAGCGACATTGGTCTT-AA-A-GAC-AAGGTGCCAATATGCTGATT
*
1062933 CAAGGCTAGCGATATTGGACTTAAAGATGAAGGTGC
62 CAAGGCCAGCGATATTGGAC-T-----T--A-GTGC
* * * * * *
1062969 TAATGTGCTGATTCAAGGCCAACAACATTGGACTTAAAGATGACAAAGGTACCAATATGCTGATT
1 CAATATGCTGATTCAAGGCCAGCGACATTGGTCTT-AA-A-GAC-AAGGTGCCAATATGCTGATT
* *
1063034 CGAGGCCAGCGATATTGGGCTT-GTGC
62 CAAGGCCAGCGATATTGGACTTAGTGC
*
1063060 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCAAG
1 CAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCAAG
* *
1063125 GCCAGGGATATTGGGCTTA-TGC
66 GCCAGCGATATTGGACTTAGTGC
* *
1063147 CAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGATAATTCAAG
1 CAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCAAG
*
1063212 GCCAGCGATATTGGGCTTA
66 GCCAGCGATATTGGACTTA
1063231 AAGGTGCCAC
Statistics
Matches: 238, Mismatches: 23, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
87 122 0.51
88 3 0.01
89 1 0.00
90 2 0.01
91 35 0.15
95 1 0.00
100 1 0.00
101 73 0.31
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (88 bp):
CAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCAAG
GCCAGCGATATTGGACTTAGTGC
Found at i:1062937 original size:52 final size:49
Alignment explanation
Indices: 1062719--1063233 Score: 367
Period size: 52 Copynumber: 10.8 Consensus size: 49
1062709 CGAAGAATGA
* * * * * * *
1062719 CAATGTGCTGATTCATGGCCAACGACATTTAGACTTGAAGAAGAA--TGC
1 CAATATGCTGATTCAAGGCCAGCGATA-TTGGACTTAAAGATGAAGGTGC
* ** * * * * *
1062767 CAATGTGCTGAGACAAGGCCAGCGACATTGGGCTTAGGAATGTTAAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTA--AA-GATGAAGGTGC
* * * * *
1062819 CAATATGCTGATTCAAGGCCAACGATATCGGACATAAAGATGAACGTGT
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* ** *
1062868 CAATATGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGATGACGAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT---GAAGGTGC
*
1062920 CAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* * * * * *
1062969 TAATGTGCTGATTCAAGGCCAACAACATTGGACTTAAAGATGACAAAGGTAC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG---AAGGTGC
* *
1063021 CAATATGCTGATTCGAGGCCAGCGATATTGGGC-T-----T----GTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* * * *
1063060 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* *
1063108 CAATATGCTGATTCAAGGCCAGGGATATTGGGC-T-----T--A--TGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* * *
1063147 CAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* * *
1063195 CAATATGATAATTCAAGGCCAGCGATATTGGGCTTAAAG
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1063234 GTGCCACGGA
Statistics
Matches: 368, Mismatches: 67, Indels: 64
0.74 0.13 0.13
Matches are distributed among these distances:
39 65 0.18
40 2 0.01
41 1 0.00
46 2 0.01
47 7 0.02
48 94 0.26
49 86 0.23
50 5 0.01
51 1 0.00
52 105 0.29
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
Found at i:1063079 original size:39 final size:39
Alignment explanation
Indices: 1063020--1063177 Score: 172
Period size: 39 Copynumber: 3.8 Consensus size: 39
1063010 GACAAAGGTA
* *
1063020 CCAATATGCTGATTCGAGGCCAGCGATATTGGGCTTGTG
1 CCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTGTG
* *
1063059 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT---------GTG
* * *
1063107 CCAATATGCTGATTCAAGGCCAGGGATATTGGGCTTATG
1 CCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTGTG
1063146 CCAATATGCTGATTCAAGGCCAGCGACATTGG
1 CCAATATGCTGATTCAAGGCCAGCGACATTGG
1063178 TCTTAAAGAC
Statistics
Matches: 99, Mismatches: 11, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
39 64 0.65
48 35 0.35
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
CCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTGTG
Found at i:1063127 original size:48 final size:48
Alignment explanation
Indices: 1063056--1063233 Score: 221
Period size: 48 Copynumber: 3.9 Consensus size: 48
1063046 TATTGGGCTT
* *
1063056 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGACAAG
* *
1063104 GTGCCAATATGCTGATTCAAGGCCAGGGATATTGGGCTT-------A-
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGACAAG
*
1063144 -TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGACAAG
* * *
1063191 GTGCCAATATGATAATTCAAGGCCAGCGATATTGGGCTTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTAAAG
1063234 GTGCCACGGA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
39 35 0.32
41 1 0.01
46 1 0.01
48 73 0.66
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (48 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGACAAG
Found at i:1063288 original size:32 final size:32
Alignment explanation
Indices: 1063234--1063296 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
1063224 GGGCTTAAAG
* *
1063234 GTGCCACGGAGTTGTAGACTTAAAAAGAAAAT
1 GTGCAACGAAGTTGTAGACTTAAAAAGAAAAT
* * *
1063266 GTGCAACGAAGTTGTGGGCTTAAAAGGAAAA
1 GTGCAACGAAGTTGTAGACTTAAAAAGAAAA
1063297 AGATGCCACA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.40, C:0.11, G:0.29, T:0.21
Consensus pattern (32 bp):
GTGCAACGAAGTTGTAGACTTAAAAAGAAAAT
Found at i:1063353 original size:57 final size:57
Alignment explanation
Indices: 1063292--1063406 Score: 169
Period size: 57 Copynumber: 2.0 Consensus size: 57
1063282 GGCTTAAAAG
* *
1063292 GAAAAAGATGCCACAGACTTGTGGGCTTTTG-AAGGTTACCACTGACTTGTGGGCTTT
1 GAAAAAGATGCCACAGACTTGTGGGC-TTTGAAAAGATACCACTGACTTGTGGGCTTT
* *
1063349 GAAAAAGATGCCACTGACTTGTGGGCTTTGAAAAAGATGCCACTGACTTGTGGGCTTT
1 GAAAAAGATGCCACAGACTTGTGGGCTTTG-AAAAGATACCACTGACTTGTGGGCTTT
1063407 TGAAGGGTGA
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
56 4 0.08
57 25 0.48
58 23 0.44
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (57 bp):
GAAAAAGATGCCACAGACTTGTGGGCTTTGAAAAGATACCACTGACTTGTGGGCTTT
Found at i:1063372 original size:29 final size:29
Alignment explanation
Indices: 1063292--1063406 Score: 171
Period size: 29 Copynumber: 4.0 Consensus size: 29
1063282 GGCTTAAAAG
*
1063292 GAAAAAGATGCCACAGACTTGTGGGCTTTT
1 GAAAAAGATGCCACTGACTTGTGGGC-TTT
* * *
1063322 G--AAGGTTACCACTGACTTGTGGGCTTT
1 GAAAAAGATGCCACTGACTTGTGGGCTTT
1063349 GAAAAAGATGCCACTGACTTGTGGGCTTT
1 GAAAAAGATGCCACTGACTTGTGGGCTTT
1063378 GAAAAAGATGCCACTGACTTGTGGGCTTT
1 GAAAAAGATGCCACTGACTTGTGGGCTTT
1063407 TGAAGGGTGA
Statistics
Matches: 76, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
27 4 0.05
28 19 0.25
29 52 0.68
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (29 bp):
GAAAAAGATGCCACTGACTTGTGGGCTTT
Found at i:1064862 original size:10 final size:10
Alignment explanation
Indices: 1064847--1064955 Score: 96
Period size: 10 Copynumber: 10.8 Consensus size: 10
1064837 CTTTTTGTTG
1064847 TTGTTTTTTT
1 TTGTTTTTTT
*
1064857 TTGTTTTTGT
1 TTGTTTTTTT
* *
1064867 TTATTTTTTG
1 TTGTTTTTTT
1064877 TTGTTTTTTT
1 TTGTTTTTTT
*
1064887 TTGTTTTTGT
1 TTGTTTTTTT
1064897 TTGTTTTGTTTT
1 TTG-TTT-TTTT
* * *
1064909 TTGTCTCTCT
1 TTGTTTTTTT
*
1064919 TT-TTTTGTT
1 TTGTTTTTTT
*
1064928 TTGTTTTTGT
1 TTGTTTTTTT
1064938 TTGTTTGTTTT
1 TTGTTT-TTTT
1064949 TT-TTTTT
1 TTGTTTTT
1064956 GCGGAGGACG
Statistics
Matches: 77, Mismatches: 18, Indels: 9
0.74 0.17 0.09
Matches are distributed among these distances:
9 7 0.09
10 54 0.70
11 10 0.13
12 6 0.08
ACGTcount: A:0.01, C:0.03, G:0.14, T:0.83
Consensus pattern (10 bp):
TTGTTTTTTT
Found at i:1064880 original size:30 final size:29
Alignment explanation
Indices: 1064838--1064956 Score: 120
Period size: 30 Copynumber: 4.0 Consensus size: 29
1064828 ATCCGGACCC
*
1064838 TTTTTGTTGTTGTTTTTTTTTGTTTTTGT
1 TTTTTTTTGTTGTTTTTTTTTGTTTTTGT
1064867 TTATTTTTTGTTGTTTTTTTTTGTTTTTG-
1 TT-TTTTTTGTTGTTTTTTTTTGTTTTTGT
*
1064896 TTTGTTTTGTT-TTTTGTCTCTCTT-TTTTTGT
1 TTTTTTTTGTTGTTTT-T-T-T-TTGTTTTTGT
1064927 TTTGTTTTTGTTTGTTTGTTTTTT-TTTTTG
1 TTT-TTTTTG-TTGTTT-TTTTTTGTTTTTG
1064957 CGGAGGACGC
Statistics
Matches: 77, Mismatches: 3, Indels: 18
0.79 0.03 0.18
Matches are distributed among these distances:
27 4 0.05
28 9 0.12
29 5 0.06
30 32 0.42
31 13 0.17
32 6 0.08
33 3 0.04
34 4 0.05
35 1 0.01
ACGTcount: A:0.01, C:0.03, G:0.15, T:0.82
Consensus pattern (29 bp):
TTTTTTTTGTTGTTTTTTTTTGTTTTTGT
Found at i:1064910 original size:46 final size:47
Alignment explanation
Indices: 1064838--1064956 Score: 149
Period size: 46 Copynumber: 2.6 Consensus size: 47
1064828 ATCCGGACCC
* *
1064838 TTTTTGTTGTTGTTT-TTTTTTGTTTTTGTTTAT-TTTTTGTTGTTTT-
1 TTTTTGTTTTTGTTTGTTTTTT-TTTTTGTCTATCTTTTT-TTGTTTTG
* *
1064884 TTTTTGTTTTTGTTTGTTTTGTTTTTTGTCTCTCTTTTTTTGTTTTG
1 TTTTTGTTTTTGTTTGTTTTTTTTTTTGTCTATCTTTTTTTGTTTTG
1064931 TTTTTG--TTTGTTTGTTTTTTTTTTTG
1 TTTTTGTTTTTGTTTGTTTTTTTTTTTG
1064957 CGGAGGACGC
Statistics
Matches: 65, Mismatches: 5, Indels: 7
0.84 0.06 0.09
Matches are distributed among these distances:
45 19 0.29
46 30 0.46
47 16 0.25
ACGTcount: A:0.01, C:0.03, G:0.15, T:0.82
Consensus pattern (47 bp):
TTTTTGTTTTTGTTTGTTTTTTTTTTTGTCTATCTTTTTTTGTTTTG
Found at i:1064972 original size:1 final size:1
Alignment explanation
Indices: 1064850--1064955 Score: 50
Period size: 1 Copynumber: 106.0 Consensus size: 1
1064840 TTTGTTGTTG
* * * * * * * * * * *
1064850 TTTTTTTTTGTTTTTGTTTATTTTTTGTTGTTTTTTTTTGTTTTTGTTTGTTTTGTTTTTTGTCT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * *
1064915 CTCTTTTTTTGTTTTGTTTTTGTTTGTTTGTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1064956 GCGGAGGACG
Statistics
Matches: 69, Mismatches: 36, Indels: 0
0.66 0.34 0.00
Matches are distributed among these distances:
1 69 1.00
ACGTcount: A:0.01, C:0.03, G:0.13, T:0.83
Consensus pattern (1 bp):
T
Found at i:1078929 original size:13 final size:13
Alignment explanation
Indices: 1078911--1078938 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1078901 ATACAAAGAT
1078911 CAATGTATCGATA
1 CAATGTATCGATA
1078924 CAATGTATCGATA
1 CAATGTATCGATA
1078937 CA
1 CA
1078939 TTTCCTTGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1079920 original size:32 final size:33
Alignment explanation
Indices: 1079884--1079946 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
1079874 ATAATTCAAT
1079884 ATGTATCGATACCAAG-AACATGTATCGATATA
1 ATGTATCGATACCAAGCAACATGTATCGATATA
* * *
1079916 ATGTATCGATACTAAGCAAGATGTATTGATA
1 ATGTATCGATACCAAGCAACATGTATCGATA
1079947 CATCTAGGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 15 0.56
33 12 0.44
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (33 bp):
ATGTATCGATACCAAGCAACATGTATCGATATA
Found at i:1080629 original size:38 final size:40
Alignment explanation
Indices: 1080581--1080657 Score: 95
Period size: 38 Copynumber: 2.0 Consensus size: 40
1080571 AGTACTATCC
* * *
1080581 CTTAACAAATTATCTCC-TTCATAAAAC-AATTTTCTCCT
1 CTTAAAAAATTATCCCCTTTCATAAAACAAAATTTCTCCT
* *
1080619 CTTAAAAAATTCTCCCCTTTTATAAAACAAAATTTCTCC
1 CTTAAAAAATTATCCCCTTTCATAAAACAAAATTTCTCC
1080658 CCTTTTATAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
38 14 0.44
39 9 0.28
40 9 0.28
ACGTcount: A:0.36, C:0.26, G:0.00, T:0.38
Consensus pattern (40 bp):
CTTAAAAAATTATCCCCTTTCATAAAACAAAATTTCTCCT
Found at i:1080683 original size:24 final size:24
Alignment explanation
Indices: 1080623--1080687 Score: 96
Period size: 24 Copynumber: 2.8 Consensus size: 24
1080613 TCTCCTCTTA
*
1080623 AAAAATTCTCCCCTTTTATAAAAC
1 AAAATTTCTCCCCTTTTATAAAAC
1080647 AAAATTTCTCCCCTTTTATAAAAC
1 AAAATTTCTCCCCTTTTATAAAAC
* *
1080671 -AATTTTCTCCCCCTTTA
1 AAAATTTCTCCCCTTTTA
1080688 CAAATTCTCC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
23 15 0.39
24 23 0.61
ACGTcount: A:0.34, C:0.28, G:0.00, T:0.38
Consensus pattern (24 bp):
AAAATTTCTCCCCTTTTATAAAAC
Found at i:1080705 original size:64 final size:63
Alignment explanation
Indices: 1080601--1080728 Score: 177
Period size: 64 Copynumber: 2.0 Consensus size: 63
1080591 TATCTCCTTC
*
1080601 ATAAAACAATTTTCTCCTCTTAAAAAATTCTCCCCTTTTA-TAAAACAAAATTTCTCCCCTTTT
1 ATAAAACAATTTTCTCCCCTTAAAAAATTCTCCCCTTTTATTAAAAC-AAATTTCTCCCCTTTT
* * *
1080664 ATAAAACAATTTTCTCCCCCTTTACAAATTCTCCCCTTTTATTTTAAAACAATTTTCTCCCCTTT
1 ATAAAACAATTTTCT-CCCCTTAAAAAATTCTCCCCTTTTA--TTAAAACAAATTTCTCCCCTTT
1080729 GTAAATTCTC
Statistics
Matches: 57, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
63 15 0.26
64 22 0.39
66 14 0.25
67 6 0.11
ACGTcount: A:0.31, C:0.27, G:0.00, T:0.41
Consensus pattern (63 bp):
ATAAAACAATTTTCTCCCCTTAAAAAATTCTCCCCTTTTATTAAAACAAATTTCTCCCCTTTT
Found at i:1080727 original size:42 final size:43
Alignment explanation
Indices: 1080652--1080755 Score: 162
Period size: 42 Copynumber: 2.5 Consensus size: 43
1080642 AAAACAAAAT
1080652 TTCTCCCCTTTTA---TAAAACAATTTTCTCCCCCTTTACAAA
1 TTCTCCCCTTTTATTTTAAAACAATTTTCTCCCCCTTTACAAA
**
1080692 TTCTCCCCTTTTATTTTAAAACAATTTTCT-CCCCTTTGTAAA
1 TTCTCCCCTTTTATTTTAAAACAATTTTCTCCCCCTTTACAAA
1080734 TTCTCCCCTTTTATTTTAAAAC
1 TTCTCCCCTTTTATTTTAAAAC
1080756 TCTAAAACAA
Statistics
Matches: 59, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
40 13 0.22
42 32 0.54
43 14 0.24
ACGTcount: A:0.25, C:0.29, G:0.01, T:0.45
Consensus pattern (43 bp):
TTCTCCCCTTTTATTTTAAAACAATTTTCTCCCCCTTTACAAA
Found at i:1081774 original size:68 final size:67
Alignment explanation
Indices: 1081690--1081868 Score: 277
Period size: 68 Copynumber: 2.6 Consensus size: 67
1081680 AAGTAACCAA
* *
1081690 ACTTAAATTTTGATAGTTTAAAAATAGGGTTGGAGTATCTCCGACAATGATAATTTGGACAAAAT
1 ACTTAAATTTTGATAGTTTAAAAAT-GGGTTGGAGTATCCCCGAAAATGATAATTTGGACAAAAT
1081755 AAG
65 AAG
1081758 ACTTAAATTTTGATAGTTTAAAAATGGGGTTGGAGTATCCCCGAAAATGATAATTTGGACAAAAT
1 ACTTAAATTTTGATAGTTTAAAAAT-GGGTTGGAGTATCCCCGAAAATGATAATTTGGACAAAAT
*
1081823 ATG
65 AAG
* *
1081826 ATTTAAATTTTGATGAGTTTAAAAATGAGGTTAGAGTATCCCC
1 ACTTAAATTTTGAT-AGTTTAAAAATG-GGTTGGAGTATCCCC
1081869 TCGGAAGAAT
Statistics
Matches: 103, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
68 78 0.76
69 25 0.24
ACGTcount: A:0.38, C:0.09, G:0.20, T:0.34
Consensus pattern (67 bp):
ACTTAAATTTTGATAGTTTAAAAATGGGTTGGAGTATCCCCGAAAATGATAATTTGGACAAAATA
AG
Found at i:1082243 original size:194 final size:194
Alignment explanation
Indices: 1081901--1082250 Score: 497
Period size: 194 Copynumber: 1.8 Consensus size: 194
1081891 TCCCCAATGA
*
1081901 TTAAATTTTGATAAGTTTAAAAACAGGGTTGGAATATCCCCTCGGAGGAATGAGGTTGAAGTATC
1 TTAAATTTTGATAAGTTTAAAAACAGGGTTGGAAGATCCCCTCGGAGGAATGAGGTTGAAGTATC
** ** * * * *
1081966 CCTGATTTTGACAATTTAACCGAAAATAAGATTTCAATTTTGATAAGTTTAAAAACTGGGTTGAA
66 CCCAATGATGACAATTTAACCAAAAATAAGATTTAAATTTTAATAAGTTTAAAAACTGAGTTGAA
* *
1082031 GTGTCCCCTCGAAGGAATGGGGTTGGAGTGTCCCTGATGATGACAATTTAACCGAAAATAGGAT
131 GTATCCCCACGAAGGAATGGGGTTGGAGTGTCCCTGATGATGACAATTTAACCGAAAATAGGAT
* * * *
1082095 TTAAATTTTGATAAGTTTAAAAACGGGGTTGGAGGGTCCCCTCGGAGGAAT-AGGGTTGGAGTAT
1 TTAAATTTTGATAAGTTTAAAAACAGGGTTGGAAGATCCCCTCGGAGGAATGA-GGTTGAAGTAT
*
1082159 CCCCAATGATGACAATTTAACCAAAAATAAGATTTAAATTTTAATAAGTTTAAAAGC-GAAGTTG
65 CCCCAATGATGACAATTTAACCAAAAATAAGATTTAAATTTTAATAAGTTTAAAAACTG-AGTTG
* * *
1082223 GAGTATCTCCACGGAGGAATGGGGTTGG
129 AAGTATCCCCACGAAGGAATGGGGTTGG
1082251 TGTATCTTCG
Statistics
Matches: 135, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
193 2 0.01
194 133 0.99
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (194 bp):
TTAAATTTTGATAAGTTTAAAAACAGGGTTGGAAGATCCCCTCGGAGGAATGAGGTTGAAGTATC
CCCAATGATGACAATTTAACCAAAAATAAGATTTAAATTTTAATAAGTTTAAAAACTGAGTTGAA
GTATCCCCACGAAGGAATGGGGTTGGAGTGTCCCTGATGATGACAATTTAACCGAAAATAGGAT
Found at i:1082273 original size:97 final size:95
Alignment explanation
Indices: 1081901--1082256 Score: 451
Period size: 97 Copynumber: 3.7 Consensus size: 95
1081891 TCCCCAATGA
* * * *
1081901 TTAAATTTTGATAAGTTTAAAAACAGGGTTGGAATATCCCCTCGGAGGAATGAGGTTGAAGTATC
1 TTAAATTTTGATAAGTTTAAAAAC-GGGTTGGAGTGTCCCCTCGGAGGAATGGGGTTGGAGTATC
**
1081966 CCTGATTTTGACAATTTAACCGAAAATAAGAT
65 CC-GATGATGACAATTTAACCGAAAATAAGAT
* * * *
1081998 TTCAATTTTGATAAGTTTAAAAACTGGGTTGAAGTGTCCCCTCGAAGGAATGGGGTTGGAGTGTC
1 TTAAATTTTGATAAGTTTAAAAAC-GGGTTGGAGTGTCCCCTCGGAGGAATGGGGTTGGAGTATC
*
1082063 CCTGATGATGACAATTTAACCGAAAATAGGAT
65 CC-GATGATGACAATTTAACCGAAAATAAGAT
* *
1082095 TTAAATTTTGATAAGTTTAAAAACGGGGTTGGAGGGTCCCCTCGGAGGAATAGGGTTGGAGTATC
1 TTAAATTTTGATAAGTTTAAAAAC-GGGTTGGAGTGTCCCCTCGGAGGAATGGGGTTGGAGTAT-
* *
1082160 CCCAATGATGACAATTTAACCAAAAATAAGAT
64 CCCGATGATGACAATTTAACCGAAAATAAGAT
* * * * * * *
1082192 TTAAATTTTAATAAGTTTAAAAGCGAAGTTGGAGTATCTCCACGGAGGAATGGGGTTGGTGTATC
1 TTAAATTTTGATAAGTTTAAAAACG-GGTTGGAGTGTCCCCTCGGAGGAATGGGGTTGGAGTATC
1082257 TTCGATAAAC
Statistics
Matches: 226, Mismatches: 31, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
96 2 0.01
97 221 0.98
98 3 0.01
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.30
Consensus pattern (95 bp):
TTAAATTTTGATAAGTTTAAAAACGGGTTGGAGTGTCCCCTCGGAGGAATGGGGTTGGAGTATCC
CGATGATGACAATTTAACCGAAAATAAGAT
Found at i:1083580 original size:19 final size:19
Alignment explanation
Indices: 1083539--1083580 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
1083529 TGTCATTGCT
*
1083539 TGTTGGTGTAGCTGCTGGT
1 TGTTGGTGTAGCTGCTGGC
*
1083558 TGTTGGTGTTTGCTGCT-GC
1 TGTTGGTG-TAGCTGCTGGC
1083577 TGTT
1 TGTT
1083581 ACTGTTGCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.02, C:0.12, G:0.38, T:0.48
Consensus pattern (19 bp):
TGTTGGTGTAGCTGCTGGC
Found at i:1085186 original size:61 final size:62
Alignment explanation
Indices: 1085121--1085286 Score: 201
Period size: 62 Copynumber: 2.7 Consensus size: 62
1085111 GATGAGAAGA
* * * * *
1085121 GTGCCAATGTGTTGATTCAAGACCAGTGACT-TTGGACTT-AAAGATGCGAAGAATAATAAAG
1 GTGCCAATATGCTGATTCAAGACCAGCGA-TATTGGACTTGAAACATGAGAAGAATAATAAAG
* * * *
1085182 GTGCCGATATGCTGATTCACGACCAGCGATATTGGGCTTGAAACATGAGAAGAATGATAAAG
1 GTGCCAATATGCTGATTCAAGACCAGCGATATTGGACTTGAAACATGAGAAGAATAATAAAG
* * *
1085244 GTGCCAATATGCTGATTTAAGGCCAGCGATATTGGGCTTGAAA
1 GTGCCAATATGCTGATTCAAGACCAGCGATATTGGACTTGAAA
1085287 GAAAGAAGAT
Statistics
Matches: 90, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
60 1 0.01
61 31 0.34
62 58 0.64
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.25
Consensus pattern (62 bp):
GTGCCAATATGCTGATTCAAGACCAGCGATATTGGACTTGAAACATGAGAAGAATAATAAAG
Found at i:1085247 original size:62 final size:62
Alignment explanation
Indices: 1085121--1085395 Score: 213
Period size: 61 Copynumber: 4.5 Consensus size: 62
1085111 GATGAGAAGA
* * * * * *
1085121 GTGCCAATGTGTTGATTCAAGACCAGTGACT-TTGGACTT-AAAGATGCGAAGAATAATAAAG
1 GTGCCAATATGCTGATTCAAGACCAGCGA-TATTGGGCTTGAAACATGAGAAGAATAATAAAG
* * *
1085182 GTGCCGATATGCTGATTCACGACCAGCGATATTGGGCTTGAAACATGAGAAGAATGATAAAG
1 GTGCCAATATGCTGATTCAAGACCAGCGATATTGGGCTTGAAACATGAGAAGAATAATAAAG
* * * * * *
1085244 GTGCCAATATGCTGATTTAAGGCCAGCGATATTGGGCTTGAAAGA-AAGAAG-AT-TTGAAAA
1 GTGCCAATATGCTGATTCAAGACCAGCGATATTGGGCTTGAAACATGAGAAGAATAAT-AAAG
** * * ** * * * *
1085304 GTATCAATATGTTGATTCAAGGCCAATGACATCGGGCTTG-AAGATGAGAA-AACTGATAAAG
1 GTGCCAATATGCTGATTCAAGACCAGCGATATTGGGCTTGAAACATGAGAAGAA-TAATAAAG
* * * *
1085365 GTGCCAATATTCTAATTCAAGGCCAGTGATA
1 GTGCCAATATGCTGATTCAAGACCAGCGATA
1085396 CTAGACTTAA
Statistics
Matches: 172, Mismatches: 35, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
59 5 0.03
60 43 0.25
61 64 0.37
62 60 0.35
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (62 bp):
GTGCCAATATGCTGATTCAAGACCAGCGATATTGGGCTTGAAACATGAGAAGAATAATAAAG
Found at i:1085388 original size:61 final size:62
Alignment explanation
Indices: 1085160--1085389 Score: 202
Period size: 62 Copynumber: 3.8 Consensus size: 62
1085150 CTTTGGACTT
* * * * * * * * *
1085160 AAAGATGCGAAGAATAATAAAGGTGCCGATATGCTGATTCACGACCAGCGATATTGGGCTTG
1 AAAGATGAGAAGAATGATAAAGGTGCCAATATTCTGATTCAAGGCCAACGACATCGGGCTTG
* * * * * *
1085222 AAACATGAGAAGAATGATAAAGGTGCCAATATGCTGATTTAAGGCCAGCGATATTGGGCTTG
1 AAAGATGAGAAGAATGATAAAGGTGCCAATATTCTGATTCAAGGCCAACGACATCGGGCTTG
* * ** *
1085284 AAAGA-AAGAAGATTTGA-AAA-GTATCAATATGT-TGATTCAAGGCCAATGACATCGGGCTTG
1 AAAGATGAGAAGA-ATGATAAAGGTGCCAATAT-TCTGATTCAAGGCCAACGACATCGGGCTTG
*
1085344 -AAGATGAGAA-AACTGATAAAGGTGCCAATATTCTAATTCAAGGCCA
1 AAAGATGAGAAGAA-TGATAAAGGTGCCAATATTCTGATTCAAGGCCA
1085390 GTGATACTAG
Statistics
Matches: 138, Mismatches: 23, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
59 8 0.06
60 39 0.28
61 29 0.21
62 62 0.45
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (62 bp):
AAAGATGAGAAGAATGATAAAGGTGCCAATATTCTGATTCAAGGCCAACGACATCGGGCTTG
Found at i:1085571 original size:31 final size:31
Alignment explanation
Indices: 1085473--1085678 Score: 131
Period size: 32 Copynumber: 6.7 Consensus size: 31
1085463 GAAGGGTTAT
* * * ** *
1085473 GTGGACTTTAGAAGGGTTACCACTGACTTGT
1 GTGGGCTTTAAAAGGGTTGCCACCAACTTGA
* *
1085504 GCGGGCTTTGAAAAAGGTTGCCACCAACTTGA
1 GTGGGCTTT-AAAAGGGTTGCCACCAACTTGA
* *
1085536 GTGGGCTTTAAAAGGGTTGCTACCAGCTT-A
1 GTGGGCTTTAAAAGGGTTGCCACCAACTTGA
* *
1085566 TGTGGGCTTTAGAAGGAGATGCCACCAACTT--
1 -GTGGGCTTTAAAAGG-GTTGCCACCAACTTGA
** * *
1085597 GT--GCTTTGGAAGGG-TGCCACCAATTTGT
1 GTGGGCTTTAAAAGGGTTGCCACCAACTTGA
* * *
1085625 GTGGGCTTTGAAAAGAGTTTCCACCGACTT--
1 GTGGGCTTT-AAAAGGGTTGCCACCAACTTGA
*
1085655 GTGGGCTTTGAAAAGGGGTGCCAC
1 GTGGGCTTT-AAAAGGGTTGCCAC
1085679 TGACTTATGG
Statistics
Matches: 139, Mismatches: 27, Indels: 19
0.75 0.15 0.10
Matches are distributed among these distances:
26 11 0.08
27 1 0.01
28 12 0.09
30 29 0.21
31 42 0.30
32 44 0.32
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (31 bp):
GTGGGCTTTAAAAGGGTTGCCACCAACTTGA
Found at i:1085624 original size:26 final size:28
Alignment explanation
Indices: 1085571--1085625 Score: 78
Period size: 26 Copynumber: 2.0 Consensus size: 28
1085561 GCTTATGTGG
1085571 GCTTTAGAAGGAGATGCCACCAACTTGT
1 GCTTTAGAAGGAGATGCCACCAACTTGT
* *
1085599 GCTTTGGAAGG-G-TGCCACCAATTTGT
1 GCTTTAGAAGGAGATGCCACCAACTTGT
1085625 G
1 G
1085626 TGGGCTTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 14 0.56
27 1 0.04
28 10 0.40
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (28 bp):
GCTTTAGAAGGAGATGCCACCAACTTGT
Found at i:1085627 original size:28 final size:29
Alignment explanation
Indices: 1085566--1085619 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
1085556 TACCAGCTTA
*
1085566 TGTGGGCTTTAGAAGGAGATGCCACCAAC
1 TGTGTGCTTTAGAAGGAGATGCCACCAAC
*
1085595 T-TGTGCTTTGGAAGG-G-TGCCACCAA
1 TGTGTGCTTTAGAAGGAGATGCCACCAA
1085620 TTTGTGTGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 9 0.39
27 1 0.04
28 12 0.52
29 1 0.04
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.24
Consensus pattern (29 bp):
TGTGTGCTTTAGAAGGAGATGCCACCAAC
Found at i:1085658 original size:30 final size:30
Alignment explanation
Indices: 1085624--1085927 Score: 327
Period size: 30 Copynumber: 10.4 Consensus size: 30
1085614 CACCAATTTG
* * * *
1085624 TGTGGGCTTTGAAAAGAGTTTCCACCGACT
1 TGTGGGCTTTGAAAAGGGGTGCCACTGACT
1085654 TGTGGGCTTTGAAAAGGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGGGTGCCACTGACT
* * *
1085684 TATGGGCTTTGAAGAGGGGTGCCATTGACT
1 TGTGGGCTTTGAAAAGGGGTGCCACTGACT
* * * *
1085714 TGTAGGCTTTGATAA-GTGTGCCACTAACT
1 TGTGGGCTTTGAAAAGGGGTGCCACTGACT
*
1085743 TGTGGGCTTTG-AAAGGGGTGCCATTGACT
1 TGTGGGCTTTGAAAAGGGGTGCCACTGACT
* * *
1085772 TATGGGCTTTGAAAAGGGATGCCATTGACT
1 TGTGGGCTTTGAAAAGGGGTGCCACTGACT
*
1085802 TGTGGGCTTTG-AAA-GGGTGCCACTAACT
1 TGTGGGCTTTGAAAAGGGGTGCCACTGACT
* *
1085830 TGTAGGCTTTG-GAA-GGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGGGTGCCACTGACT
* * *
1085858 TGTGGGCTTT-AAAAAGTGTGCCATTGACT
1 TGTGGGCTTTGAAAAGGGGTGCCACTGACT
* * * *
1085887 CGTGGGTTTTGTAAA-GGGTGCTACTGACT
1 TGTGGGCTTTGAAAAGGGGTGCCACTGACT
1085916 TGTGGGCTTTGA
1 TGTGGGCTTTGA
1085928 CTGAGTACCG
Statistics
Matches: 228, Mismatches: 41, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
28 49 0.21
29 85 0.37
30 94 0.41
ACGTcount: A:0.21, C:0.15, G:0.33, T:0.31
Consensus pattern (30 bp):
TGTGGGCTTTGAAAAGGGGTGCCACTGACT
Found at i:1085699 original size:58 final size:57
Alignment explanation
Indices: 1085650--1086576 Score: 374
Period size: 58 Copynumber: 15.9 Consensus size: 57
1085640 AGTTTCCACC
*
1085650 GACTTGTGGGCTTTGAAAAGGGGTGCCACTGACTTATGGGCTTTGAAGAGGGGTGCCATT
1 GACTTGTGGGCTTTGAAAA-GGGTGCCACTGACTTGTGGGCTTTGAAGA--GGTGCCATT
* * * * *
1085710 GACTTGTAGGCTTTGATAAGTGTGCCACTAACTTGTGGGCTTTGAAAGGGGTGCCATT
1 GACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTG-AAGAGGTGCCATT
* * *
1085768 GACTTATGGGCTTTGAAAAGGGATGCCATTGACTTGTGGGCTTTGAA-AGGGTGCCACT
1 GACTTGTGGGCTTTGAAAAGGG-TGCCACTGACTTGTGGGCTTTGAAGA-GGTGCCATT
* * * * *
1085826 AACTTGTAGGCTTTG-GAAGGGTGCCACTGACTTGTGGGCTTTAAAAAGTGTGCCATT
1 GACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAGAG-GTGCCATT
* * * * * * **
1085883 GACTCGTGGGTTTTGTAAAGGGTGCTACTGACTTGTGGGCTTTGACTGA-GTACCGCT
1 GACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGA-AGAGGTGCCATT
* * * ** * * * **
1085940 AACTCGTACGGGCTTTCATTAGGGTGCCACTAACTTGTGTGGGCTTTGACTG-GGTGTC-GC
1 GACTTGT--GGGCTTTGAAAAGGGTGCCACTGAC-T-TGTGGGCTTTGA-AGAGGTGCCATT
** * **
1086000 GAACTTGTGTGGGCTTTGAAAATGGGTG-CTTTGA-TT-AGGG---TG-CCA----CCAACTT
1 G-AC-T-TGTGGGCTTTGAAAA-GGGTGCCACTGACTTGTGGGCTTTGAAGAGGTGCC-A-TT
* * * *
1086052 -A--TGTAGGCTTTGAAAAGGGGTGCCACTAACTTGTGGGCTTTGAAAAGTGTGCCACT
1 GACTTGTGGGCTTTGAAAA-GGGTGCCACTGACTTGTGGGCTTTGAAGAG-GTGCCATT
* * *
1086108 GACTTGTGGGCTTTGAAAGGGGATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACT
1 GACTTGTGGGCTTTGAAAAGGG-TGCCACTGACTTGTGGGCTTTGAAGAGGTGCCATT
* * * * * * ***
1086166 GACTTATGTGCTTTG-GAAGGGTGCCA-TCAACTTCTGTGGGCTTT-AACTAGGTGTCGCC
1 GACTTGTGGGCTTTGAAAAGGGTGCCACT-GAC-T-TGTGGGCTTTGAA-GAGGTGCCATT
* ** ** ** ***
1086224 AACTTGTGCGGGCTTTGATTAGGGTGCCACCAACTTGTGTGGACTTTGACTAGGTGCCGCC
1 GACTTGT--GGGCTTTGAAAAGGGTGCCACTGACTTGTG-GG-CTTTGAAGAGGTGCCATT
* *** * * *
1086285 AACTTGTGCGGGCTTTGATTTGGGTGCCACTAACTTGTGTGGGCTTTGAAAAGGGGTGCCACT
1 GACTTGT--GGGCTTTGAAAAGGGTGCCACTGAC-T-TGTGGGCTTTG--AAGAGGTGCCATT
* * * * **
1086348 AACTTGTGAGCTTTGAAAAGTGTGCCACTAACTTGTGGGCTTTGAA-AGGGATGCCCCT
1 GACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAGA-GG-TGCCATT
* ** * * ** * * **
1086406 AACTTGTGGGCTTTG-ACTGAGTGCCGCCAACTTATGCGGACTTTGAAAAGGTGCCAGC
1 GACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTG-GG-CTTTGAAGAGGTGCCATT
* * * * * **
1086464 AACTTGCGTGGGCTTTGGAAAGGGTGCCACTAACTTATGGCCTTTAGAAG-GGTGCCACC
1 GACTT--GTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTT-GAAGAGGTGCCATT
* * * * *
1086523 GATTTGTGTGGGCTTTAAAAAGAGTTACCACCGACTTGTGGGCTTTGAAGAGGT
1 GA-CT-TGTGGGCTTTGAAAAG-GGTGCCACTGACTTGTGGGCTTTGAAGAGGT
1086577 TACATTACTA
Statistics
Matches: 673, Mismatches: 130, Indels: 128
0.72 0.14 0.14
Matches are distributed among these distances:
46 19 0.03
47 3 0.00
48 2 0.00
49 4 0.01
50 1 0.00
52 2 0.00
53 1 0.00
54 2 0.00
55 1 0.00
56 31 0.05
57 66 0.10
58 155 0.23
59 155 0.23
60 68 0.10
61 132 0.20
62 10 0.01
63 21 0.03
ACGTcount: A:0.20, C:0.18, G:0.31, T:0.30
Consensus pattern (57 bp):
GACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAGAGGTGCCATT
Found at i:1085744 original size:29 final size:28
Alignment explanation
Indices: 1085624--1085927 Score: 320
Period size: 29 Copynumber: 10.4 Consensus size: 28
1085614 CACCAATTTG
* * *
1085624 TGTGGGCTTTGAAAAGAGTTTCCACCGACT
1 TGTGGGCTTTG-AAAG-GGTGCCACTGACT
1085654 TGTGGGCTTTGAAAAGGGGTGCCACTGACT
1 TGTGGGCTTTG-AAA-GGGTGCCACTGACT
* *
1085684 TATGGGCTTTGAAGAGGGGTGCCATTGACT
1 TGTGGGCTTTGAA-A-GGGTGCCACTGACT
* * *
1085714 TGTAGGCTTTGATAAGTGTGCCACTAACT
1 TGTGGGCTTTGA-AAGGGTGCCACTGACT
*
1085743 TGTGGGCTTTGAAAGGGGTGCCATTGACT
1 TGTGGGCTTTGAAA-GGGTGCCACTGACT
* *
1085772 TATGGGCTTTGAAAAGGGATGCCATTGACT
1 TGTGGGCTTTG-AAAGGG-TGCCACTGACT
*
1085802 TGTGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
1085830 TGTAGGCTTTGGAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
1085858 TGTGGGCTTTAAAAAGTGTGCCATTGACT
1 TGTGGGCTTT-GAAAGGGTGCCACTGACT
* * *
1085887 CGTGGGTTTTGTAAAGGGTGCTACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
1085916 TGTGGGCTTTGA
1 TGTGGGCTTTGA
1085928 CTGAGTACCG
Statistics
Matches: 232, Mismatches: 34, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
28 46 0.20
29 99 0.43
30 85 0.37
31 2 0.01
ACGTcount: A:0.21, C:0.15, G:0.33, T:0.31
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:1085984 original size:31 final size:30
Alignment explanation
Indices: 1085949--1086016 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
1085939 TAACTCGTAC
* *
1085949 GGGCTTTCATTAGGGTGCCACTAACTTGTGT
1 GGGCTTTCACT-GGGTGCCACGAACTTGTGT
* * *
1085980 GGGCTTTGACTGGGTGTCGCGAACTTGTGT
1 GGGCTTTCACTGGGTGCCACGAACTTGTGT
1086010 GGGCTTT
1 GGGCTTT
1086017 GAAAATGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 23 0.72
31 9 0.28
ACGTcount: A:0.12, C:0.18, G:0.35, T:0.35
Consensus pattern (30 bp):
GGGCTTTCACTGGGTGCCACGAACTTGTGT
Found at i:1086093 original size:30 final size:29
Alignment explanation
Indices: 1086027--1086571 Score: 356
Period size: 30 Copynumber: 18.3 Consensus size: 29
1086017 GAAAATGGGT
** * *
1086027 GCTTTGATTAGGGTGCCACCAACTTATGTAG
1 GCTTTGAAAAGGGTGCCACTAAC-T-TGTGG
1086058 GCTTTGAAAAGGGGTGCCACTAACTTGTGG
1 GCTTTGAAAA-GGGTGCCACTAACTTGTGG
* *
1086088 GCTTTGAAAAGTGTGCCACTGACTTGTGG
1 GCTTTGAAAAGGGTGCCACTAACTTGTGG
* *
1086117 GCTTTGAAAGGGGATGCCACTGACTTGTGG
1 GCTTTGAAAAGGG-TGCCACTAACTTGTGG
* * *
1086147 GCTTTGAAAA-GGTGCCACTGACTTATGT
1 GCTTTGAAAAGGGTGCCACTAACTTGTGG
*
1086175 GCTTTG-GAAGGGTGCCA-TCAACTTCTGTGG
1 GCTTTGAAAAGGGTGCCACT-AAC-T-TGTGG
* * * *
1086205 GCTTT-AACTA-GGTGTCGCCAACTTGTGCGG
1 GCTTTGAA-AAGGGTGCCACTAACTTGT--GG
** *
1086235 GCTTTGATTAGGGTGCCACCAACTTGTGTG
1 GCTTTGAAAAGGGTGCCACTAACTTGTG-G
** * *
1086265 GACTTTGACTA-GGTGCCGCCAACTTGTGCGG
1 G-CTTTGAAAAGGGTGCCACTAACTTGT--GG
***
1086296 GCTTTGATTTGGGTGCCACTAACTTGTGTGG
1 GCTTTGAAAAGGGTGCCACTAAC-T-TGTGG
*
1086327 GCTTTGAAAAGGGGTGCCACTAACTTGTGA
1 GCTTTGAAAA-GGGTGCCACTAACTTGTGG
*
1086357 GCTTTGAAAAGTGTGCCACTAACTTGTGG
1 GCTTTGAAAAGGGTGCCACTAACTTGTGG
*
1086386 GCTTTG-AAAGGGATGCCCCTAACTTGTGG
1 GCTTTGAAAAGGG-TGCCACTAACTTGTGG
** * * * *
1086415 GCTTTG-ACTGAGTGCCGCCAACTTATGCG
1 GCTTTGAAAAGGGTGCCACTAACTTGTG-G
1086444 GACTTTGAAAA-GGTGCCAGC-AACTTGCGTGG
1 G-CTTTGAAAAGGGTGCCA-CTAACTT--GTGG
* *
1086475 GCTTTGGAAAGGGTGCCACTAACTTATGG
1 GCTTTGAAAAGGGTGCCACTAACTTGTGG
* * * **
1086504 CCTTT-AGAAGGGTGCCACCGATTTGTGTGG
1 GCTTTGAAAAGGGTGCCA-CTAACT-TGTGG
* * * **
1086534 GCTTTAAAAAGAGTTACCACCGACTTGTGG
1 GCTTTGAAAAG-GGTGCCACTAACTTGTGG
1086564 GCTTTGAA
1 GCTTTGAA
1086572 GAGGTTACAT
Statistics
Matches: 414, Mismatches: 66, Indels: 69
0.75 0.12 0.13
Matches are distributed among these distances:
27 3 0.01
28 59 0.14
29 92 0.22
30 146 0.35
31 77 0.19
32 34 0.08
33 3 0.01
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.29
Consensus pattern (29 bp):
GCTTTGAAAAGGGTGCCACTAACTTGTGG
Found at i:1086361 original size:61 final size:59
Alignment explanation
Indices: 1086037--1086499 Score: 312
Period size: 61 Copynumber: 7.7 Consensus size: 59
1086027 GCTTTGATTA
* *
1086037 GGGTGCCACCAACTTATGTAGGCTTTGAAAAGGGGTGCCACTAAC-TTGTGGGCTTTGAAAA-
1 GGGTGCCACTAAC-T-TGTGGGCTTTG-AAA-GGGTGCCACTAACTTTGTGGGCTTTGAAAAG
* * *
1086098 GTGTGCCACTGACTTGTGGGCTTTGAAAGGGGATGCCACTGAC-TTGTGGGCTTTGAAAA-
1 GGGTGCCACTAACTTGTGGGCTTTGAAA-GGG-TGCCACTAACTTTGTGGGCTTTGAAAAG
* * * * *
1086157 -GGTGCCACTGACTTATGTGCTTTGGAAGGGTGCCA-TCAACTTCTGTGGGCTTT-AACTAG
1 GGGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACT-AACTT-TGTGGGCTTTGAA-AAG
* * * * **
1086216 GTGT-CGC-C-AACTTGTGCGGGCTTTGATTAGGGTGCCACCAACTTGTGTGGACTTTGACTA-
1 GGGTGC-CACTAACTTGT--GGGCTTTGA-AAGGGTGCCACTAACTT-TGTGGGCTTTGAAAAG
* * **
1086276 -GGTGCCGCCAACTTGTGCGGGCTTTGATTTGGGTGCCACTAACTTGTGTGGGCTTTGAAAAG
1 GGGTGCCACTAACTTGT--GGGCTTTGA-AAGGGTGCCACTAACTT-TGTGGGCTTTGAAAAG
* *
1086338 GGGTGCCACTAACTTGTGAGCTTTGAAAAGTGTGCCACTAAC-TTGTGGGCTTTG-AAAG
1 GGGTGCCACTAACTTGTGGGCTTTG-AAAGGGTGCCACTAACTTTGTGGGCTTTGAAAAG
* * ** * * * * *
1086396 GGATGCCCCTAACTTGTGGGCTTTGACTGAGTGCCGCCAACTTATGCGGACTTTGAAAA-
1 GGGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTAACTT-TGTGGGCTTTGAAAAG
1086455 -GGTGCCAGC-AACTTGCGTGGGCTTTGGAAAGGGTGCCACTAACTT
1 GGGTGCCA-CTAACTT--GTGGGCTTT-GAAAGGGTGCCACTAACTT
1086500 ATGGCCTTTA
Statistics
Matches: 326, Mismatches: 50, Indels: 52
0.76 0.12 0.12
Matches are distributed among these distances:
55 1 0.00
56 7 0.02
57 17 0.05
58 83 0.25
59 61 0.19
60 26 0.08
61 115 0.35
62 2 0.01
63 14 0.04
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.29
Consensus pattern (59 bp):
GGGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTAACTTTGTGGGCTTTGAAAAG
Found at i:1086450 original size:59 final size:58
Alignment explanation
Indices: 1086027--1086571 Score: 164
Period size: 61 Copynumber: 9.1 Consensus size: 58
1086017 GAAAATGGGT
* * * * * *
1086027 GCTTTGATTAGGG-TGCCACCAACTTATGTAGGCTTTGAAAAGGGGTGCCACTAACTTGTGG
1 GCTTTGA-AAGGGATGCCACTAACTTGTG-A-GCTTTGAAAA-GAGTGCCACCAACTTATGG
* * * * * ** *
1086088 GCTTTGAAAAGTG-TGCCACTGACTTGTGGGCTTTGAAAGGGGATGCCACTGACTTGTGG
1 GCTTTG-AAAGGGATGCCACTAACTTGTGAGCTTTGAAAAGAG-TGCCACCAACTTATGG
* * * * * * * *
1086147 GCTTTGAAAAGG-TGCCACTGACTTATGTGCTTTG-GAAGGGTGCCATCAACTTCTGTGG
1 GCTTTGAAAGGGATGCCACTAACTTGTGAGCTTTGAAAAGAGTGCCACCAAC-T-TATGG
* * * * ** * *
1086205 GCTTT-AACTA-GG-TGTCGCCAACTTGTGCGGGCTTTGATTAGGGTGCCACCAACTTGTGTG
1 GCTTTGAA--AGGGATGCCACTAACTTGT--GAGCTTTGAAAAGAGTGCCACCAACTTATG-G
* * * * *** * * *
1086265 GACTTTGACTA-GG-TGCCGCCAACTTGTGCGGGCTTTGATTTGGGTGCCACTAACTTGTGTGG
1 G-CTTTGA-AAGGGATGCCACTAACTTGT--GAGCTTTGAAAAGAGTGCCACCAAC-T-TATGG
* * * *
1086327 GCTTTGAAAAGGGGTGCCACTAACTTGTGAGCTTTGAAAAGTGTGCCACTAACTTGTGG
1 GCTTTG-AAAGGGATGCCACTAACTTGTGAGCTTTGAAAAGAGTGCCACCAACTTATGG
* * ** *
1086386 GCTTTGAAAGGGATGCCCCTAACTTGTGGGCTTTG-ACTGAGTGCCGCCAACTTATGCG
1 GCTTTGAAAGGGATGCCACTAACTTGTGAGCTTTGAAAAGAGTGCCACCAACTTATG-G
* * * * *
1086444 GACTTTGAAAAGG-TGCCAGC-AACTTGCGTGGGCTTTGGAAAGGGTGCCACTAACTTATGG
1 G-CTTTGAAAGGGATGCCA-CTAACTT--GTGAGCTTTGAAAAGAGTGCCACCAACTTATGG
* * ** * * * * *
1086504 CCTTT-AGAAGGG-TGCCACCGATTTGTGTGGGCTTTAAAAAGAGTTACCACCGACTTGTGG
1 GCTTTGA-AAGGGATGCCA-CTAACT-TGTGAGCTTTGAAAAGAG-TGCCACCAACTTATGG
1086564 GCTTTGAA
1 GCTTTGAA
1086572 GAGGTTACAT
Statistics
Matches: 388, Mismatches: 67, Indels: 59
0.75 0.13 0.11
Matches are distributed among these distances:
56 7 0.02
57 22 0.06
58 86 0.22
59 85 0.22
60 41 0.11
61 123 0.32
62 8 0.02
63 16 0.04
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.29
Consensus pattern (58 bp):
GCTTTGAAAGGGATGCCACTAACTTGTGAGCTTTGAAAAGAGTGCCACCAACTTATGG
Found at i:1086544 original size:89 final size:88
Alignment explanation
Indices: 1086071--1086571 Score: 246
Period size: 89 Copynumber: 5.6 Consensus size: 88
1086061 TTGAAAAGGG
* *
1086071 GTGCCACTAAC-T-TGTGGGCTTTGAAAAGTGTGCCACTGACTTGTGGGCTTTGAAAGGGGATGC
1 GTGCCACCAACTTATGTGGGCTTTGAAAAGTGTGCCACTAACTTGTGGGCTTTGAAA-GGGATGC
* * * *
1086134 CACTGACTTGTGGGCTTTGA-AAA
65 CACTAACTTATGGCCTTTGACAGA
** * *
1086157 GGTGCCACTGACTTATGT--GCTTTG-GAAGGGTGCCA-TCAACTTCTGTGGGCTTT-AACTA-G
1 -GTGCCACCAACTTATGTGGGCTTTGAAAAGTGTGCCACT-AAC-T-TGTGGGCTTTGAA--AGG
* * * * * * *
1086216 G-TGTCGCCAACTTGTGCGGGCTTTGATTAGG
60 GATGCCACTAACTTAT--GGCCTTTGA-CAGA
* * ** * * **
1086247 GTGCCACCAACTTGTGTGGACTTTGACTAG-GTGCCGCCAACTTGTGCGGGCTTTGATTTGGG-T
1 GTGCCACCAACTTATGTGGGCTTTGAAAAGTGTGCCACTAACTTGT--GGGCTTTGA-AAGGGAT
* * * *
1086310 GCCACTAACTTGTGTGGGCTTTGAAAAGGG
63 GCCACTAAC-T-TATGGCCTTTG-ACA-GA
* *
1086340 GTGCCACTAAC-T-TGTGAGCTTTGAAAAGTGTGCCACTAACTTGTGGGCTTTGAAAGGGATGCC
1 GTGCCACCAACTTATGTGGGCTTTGAAAAGTGTGCCACTAACTTGTGGGCTTTGAAAGGGATGCC
* * * *
1086403 CCTAACTTGTGGGCTTTGACTGA
66 ACTAACTTATGGCCTTTGACAGA
* * *
1086426 GTGCCGCCAACTTATGCGGACTTTGAAAAG-GTGCCAGC-AACTTGCGTGGGCTTTGGAAAGGG-
1 GTGCCACCAACTTATGTGGGCTTTGAAAAGTGTGCCA-CTAACTT--GTGGGCTTT-GAAAGGGA
*
1086488 TGCCACTAACTTATGGCCTTTAGA-AGG
62 TGCCACTAACTTATGGCCTTT-GACAGA
* * * * * * **
1086515 GTGCCACCGATTTGTGTGGGCTTTAAAAAGAGTTACCACCGACTTGTGGGCTTTGAA
1 GTGCCACCAACTTATGTGGGCTTTGAAAAGTG-TGCCACTAACTTGTGGGCTTTGAA
1086572 GAGGTTACAT
Statistics
Matches: 322, Mismatches: 56, Indels: 71
0.72 0.12 0.16
Matches are distributed among these distances:
85 1 0.00
86 31 0.10
87 34 0.11
88 48 0.15
89 85 0.26
90 31 0.10
91 40 0.12
92 35 0.11
93 14 0.04
94 3 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (88 bp):
GTGCCACCAACTTATGTGGGCTTTGAAAAGTGTGCCACTAACTTGTGGGCTTTGAAAGGGATGCC
ACTAACTTATGGCCTTTGACAGA
Found at i:1087600 original size:13 final size:14
Alignment explanation
Indices: 1087578--1087611 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
1087568 GTGAAAAGGA
*
1087578 TTTTTCTCTTC-CT
1 TTTTTTTCTTCTCT
1087591 TTTTTTTCTTCTCT
1 TTTTTTTCTTCTCT
1087605 TTTTTTT
1 TTTTTTT
1087612 TTACGATCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTTTTCTTCTCT
Found at i:1087894 original size:21 final size:23
Alignment explanation
Indices: 1087868--1087958 Score: 72
Period size: 22 Copynumber: 4.2 Consensus size: 23
1087858 CATGTCCTTG
1087868 TTTTTTGATTTTG-TTGTT-C-CT
1 TTTTTTGATTTTGCTT-TTGCACT
*
1087889 TTTTTTTATTTTGCTTTTGCACT
1 TTTTTTGATTTTGCTTTTGCACT
*
1087912 TTTTTTG-TTTTTCTTTT---CT
1 TTTTTTGATTTTGCTTTTGCACT
*
1087931 TATTTTGTACTTTTGCTTTTG-ACT
1 TTTTTTG-A-TTTTGCTTTTGCACT
1087955 TTTT
1 TTTT
1087959 CATAATTTTG
Statistics
Matches: 56, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
19 8 0.14
21 14 0.25
22 21 0.38
23 8 0.14
24 5 0.09
ACGTcount: A:0.07, C:0.11, G:0.10, T:0.73
Consensus pattern (23 bp):
TTTTTTGATTTTGCTTTTGCACT
Found at i:1087917 original size:44 final size:43
Alignment explanation
Indices: 1087868--1087958 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 43
1087858 CATGTCCTTG
* *
1087868 TTTTTTGATTTTGTTGTTCCTT-TTTTTTA-TTTTGCTTTTGCACT
1 TTTTTTGATTTTCTT-TT-CTTATTTTGTACTTTTGCTTTTG-ACT
*
1087912 TTTTTTGTTTTTCTTTTCTTATTTTGTACTTTTGCTTTTGACT
1 TTTTTTGATTTTCTTTTCTTATTTTGTACTTTTGCTTTTGACT
1087955 TTTT
1 TTTT
1087959 CATAATTTTG
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
42 3 0.07
43 15 0.36
44 24 0.57
ACGTcount: A:0.07, C:0.11, G:0.10, T:0.73
Consensus pattern (43 bp):
TTTTTTGATTTTCTTTTCTTATTTTGTACTTTTGCTTTTGACT
Found at i:1091157 original size:165 final size:163
Alignment explanation
Indices: 1090952--1091258 Score: 404
Period size: 165 Copynumber: 1.9 Consensus size: 163
1090942 TAAAAGAGAG
*
1090952 AAAAAGATTAAATTTTTGATTGAAAAATGAGATTAGAGTATCCTCTAAGAAGAATGGGGTTGGAG
1 AAAAAGATTAAATTTTTGATTGAAAAATGAGATTAGAGTATCCCCTAAGAAGAATGGGGTTGGAG
* * * * *
1091017 TATCTTCGACAATGATAATTTGGA-C-AAAATAAGACTTAAATTTTGAT-AGTTTAAAAACGGGG
66 CATCCTCGACAATGACAATTT-AACCGAAAATAAGACTTAAATTTTGATAAGTTTAAAAACGGAG
*
1091079 TTGGACTATCCCCGACAATGATAATTTGGACAAA
130 CTGGACTATCCCCGACAATGATAATTTGGACAAA
* * * **
1091113 AAAAAGATTTAAATTTTGATGAGTTTAAAAATGGGGTTAGAGTATCCCCTCGGAAGAATGGGGTT
1 AAAAAGA-TTAAATTTT--TGA-TTGAAAAATGAGATTAGAGTATCCCCTAAGAAGAATGGGGTT
** *
1091178 GGAGCATCCTCGATGATGACAATTTAACCGAAAATAAGATTTAAATTTTGATAAGTTTAAAAACG
62 GGAGCATCCTCGACAATGACAATTTAACCGAAAATAAGACTTAAATTTTGATAAGTTTAAAAACG
*
1091243 GAGCTGGAGTATCCCC
127 GAGCTGGACTATCCCC
1091259 TTGGAGGAAT
Statistics
Matches: 123, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
161 7 0.06
162 9 0.07
164 4 0.03
165 57 0.46
166 21 0.17
167 25 0.20
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.29
Consensus pattern (163 bp):
AAAAAGATTAAATTTTTGATTGAAAAATGAGATTAGAGTATCCCCTAAGAAGAATGGGGTTGGAG
CATCCTCGACAATGACAATTTAACCGAAAATAAGACTTAAATTTTGATAAGTTTAAAAACGGAGC
TGGACTATCCCCGACAATGATAATTTGGACAAA
Found at i:1091161 original size:70 final size:68
Alignment explanation
Indices: 1091004--1091161 Score: 235
Period size: 68 Copynumber: 2.3 Consensus size: 68
1090994 CTCTAAGAAG
** *
1091004 AATGGGGTTGGAGTATCTTCGACAATGATAATTTGGACAAAATAAGACTTAAATTTTGATAGTTT
1 AATGGGGTTGGAGTATCCCCGACAATGATAATTTGGACAAAAAAAGACTTAAATTTTGATAGTTT
1091069 AAA
66 AAA
* * *
1091072 AACGGGGTTGGACTATCCCCGACAATGATAATTTGGACAAAAAAAAGATTTAAATTTTGATGAGT
1 AATGGGGTTGGAGTATCCCCGACAATGATAATTTGGAC-AAAAAAAGACTTAAATTTTGAT-AGT
1091137 TTAAA
64 TTAAA
*
1091142 AATGGGGTTAGAGTATCCCC
1 AATGGGGTTGGAGTATCCCC
1091162 TCGGAAGAAT
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
68 34 0.43
69 20 0.25
70 25 0.32
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.30
Consensus pattern (68 bp):
AATGGGGTTGGAGTATCCCCGACAATGATAATTTGGACAAAAAAAGACTTAAATTTTGATAGTTT
AAA
Found at i:1091253 original size:97 final size:97
Alignment explanation
Indices: 1091111--1091579 Score: 597
Period size: 97 Copynumber: 4.9 Consensus size: 97
1091101 AATTTGGACA
* * * *
1091111 AAAAAAAGATTTAAATTTTGATGAGTTTAAAAATGGGGTTAGAGTATCCCCTCGGAAGAATGGGG
1 AAAATAAGATTTAAATTTTGATAAGTTTAAAAACGGAGTTAGAGTATCCCCTCGGAAGAATGGGG
*
1091176 TTGGAGCATCCTCGATGATGACAATTTAACCG
66 TTGGAGTATCCTCGATGATGACAATTTAACCG
* * * * *
1091208 AAAATAAGATTTAAATTTTGATAAGTTTAAAAACGGAGCTGGAGTATCCCCTTGGAGGAATGGAG
1 AAAATAAGATTTAAATTTTGATAAGTTTAAAAACGGAGTTAGAGTATCCCCTCGGAAGAATGGGG
* * * *
1091273 TTGGAGTGTCCCCGATTATGACAATTTAACTG
66 TTGGAGTATCCTCGATGATGACAATTTAACCG
* * * * *
1091305 AAAGTAAAATTTAAATTTTAATAAGTTT-AAAATGGGGTTAGAGTATCCCCTCGG-AGAAATGGG
1 AAAATAAGATTTAAATTTTGATAAGTTTAAAAACGGAGTTAGAGTATCCCCTCGGAAG-AATGGG
* *
1091368 GTTAGAGTGTTCCT-GATGATGACAATTTAACCG
65 GTTGGAGT-ATCCTCGATGATGACAATTTAACCG
* * *
1091401 AAAATAAGATTTAAATTTTGATAAGTTTGAAAAC-GAGGTTAGAGTGTCCCCTCAG-AGAATGGG
1 AAAATAAGATTTAAATTTTGATAAGTTTAAAAACGGA-GTTAGAGTATCCCCTCGGAAGAATGGG
* *
1091464 GTTGGAGTGTCCTCGTTGATGACAATTTAACCG
65 GTTGGAGTATCCTCGATGATGACAATTTAACCG
* * *
1091497 AGAATAAGATTTAAATTTTGATAAGTTTAAAAGCGGAGTTAGAGTATCCCCTCGGAGGAATGGGG
1 AAAATAAGATTTAAATTTTGATAAGTTTAAAAACGGAGTTAGAGTATCCCCTCGGAAGAATGGGG
* *
1091562 TTGGTGTATCCCCGATGA
66 TTGGAGTATCCTCGATGA
1091580 ACAAAATTTT
Statistics
Matches: 316, Mismatches: 49, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
95 5 0.02
96 154 0.49
97 157 0.50
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.30
Consensus pattern (97 bp):
AAAATAAGATTTAAATTTTGATAAGTTTAAAAACGGAGTTAGAGTATCCCCTCGGAAGAATGGGG
TTGGAGTATCCTCGATGATGACAATTTAACCG
Found at i:1091413 original size:96 final size:98
Alignment explanation
Indices: 1091111--1091565 Score: 600
Period size: 96 Copynumber: 4.7 Consensus size: 98
1091101 AATTTGGACA
* * *
1091111 AAAAAAAGATTTAAATTTTGATGAGTTTAAAAATGGGGTTAGAGTATCCCCTCGGA-AGAATGGG
1 AAAATAAGATTTAAATTTTGATAAGTTTAAAAACGGGGTTAGAGTATCCCCTCGGAGA-AATGGG
**
1091175 GTTGGAG-CATCCTCGATGATGACAATTTAACCG
65 GTTGGAGTGTTCCTCGATGATGACAATTTAACCG
* * * * * *
1091208 AAAATAAGATTTAAATTTTGATAAGTTTAAAAACGGAGCTGGAGTATCCCCTTGGAGGAATGGAG
1 AAAATAAGATTTAAATTTTGATAAGTTTAAAAACGGGGTTAGAGTATCCCCTCGGAGAAATGGGG
* * *
1091273 TTGGAGTG-TCCCCGATTATGACAATTTAACTG
66 TTGGAGTGTTCCTCGATGATGACAATTTAACCG
* * * *
1091305 AAAGTAAAATTTAAATTTTAATAAGTTT-AAAATGGGGTTAGAGTATCCCCTCGGAGAAATGGGG
1 AAAATAAGATTTAAATTTTGATAAGTTTAAAAACGGGGTTAGAGTATCCCCTCGGAGAAATGGGG
*
1091369 TTAGAGTGTTCCT-GATGATGACAATTTAACCG
66 TTGGAGTGTTCCTCGATGATGACAATTTAACCG
* * * *
1091401 AAAATAAGATTTAAATTTTGATAAGTTTGAAAACGAGGTTAGAGTGTCCCCTCAGAG-AATGGGG
1 AAAATAAGATTTAAATTTTGATAAGTTTAAAAACGGGGTTAGAGTATCCCCTCGGAGAAATGGGG
*
1091465 TTGGAGTG-TCCTCGTTGATGACAATTTAACCG
66 TTGGAGTGTTCCTCGATGATGACAATTTAACCG
* * * *
1091497 AGAATAAGATTTAAATTTTGATAAGTTTAAAAGCGGAGTTAGAGTATCCCCTCGGAGGAATGGGG
1 AAAATAAGATTTAAATTTTGATAAGTTTAAAAACGGGGTTAGAGTATCCCCTCGGAGAAATGGGG
1091562 TTGG
66 TTGG
1091566 TGTATCCCCG
Statistics
Matches: 309, Mismatches: 43, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
95 4 0.01
96 160 0.52
97 145 0.47
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.30
Consensus pattern (98 bp):
AAAATAAGATTTAAATTTTGATAAGTTTAAAAACGGGGTTAGAGTATCCCCTCGGAGAAATGGGG
TTGGAGTGTTCCTCGATGATGACAATTTAACCG
Found at i:1091417 original size:193 final size:192
Alignment explanation
Indices: 1091119--1091563 Score: 623
Period size: 193 Copynumber: 2.3 Consensus size: 192
1091109 CAAAAAAAAG
* *
1091119 ATTTAAATTTTGATGAGTTTAAAAATGGGGTTAGAGTATCCCCTCGGA-AGAATGGGGTTGGAGC
1 ATTTAAATTTTGATAAGTTT-AAAATGGGGTTAGAGTATCCCCTCGGAGA-AATGGGGTTAGAGC
1091183 ATCCTCGATGATGACAATTTAACCGAAAATAAGATTTAAATTTTGATAAGTTTAAAAACG-GAGC
64 ATCCTCGATGATGACAATTTAACCGAAAATAAGATTTAAATTTTGATAAGTTTAAAAACGAG-GC
* ** *
1091247 TGGAGTATCCCCTTGGAGGAATGGAGTTGGAGTGTCCCCGATT-ATGACAATTTAACTGA-AAGT
128 TAGAGTATCCCCTCAGA-GAATGGAGTTGGAGTGTCCCCG-TTGATGACAATTTAACCGAGAA-T
1091310 AAA
190 AAA
* **
1091313 ATTTAAATTTTAATAAGTTTAAAATGGGGTTAGAGTATCCCCTCGGAGAAATGGGGTTAGAGTGT
1 ATTTAAATTTTGATAAGTTTAAAATGGGGTTAGAGTATCCCCTCGGAGAAATGGGGTTAGAG-CA
* *
1091378 TCCT-GATGATGACAATTTAACCGAAAATAAGATTTAAATTTTGATAAGTTTGAAAACGAGGTTA
65 TCCTCGATGATGACAATTTAACCGAAAATAAGATTTAAATTTTGATAAGTTTAAAAACGAGGCTA
* * * *
1091442 GAGTGTCCCCTCAGAGAATGGGGTTGGAGTGTCCTCGTTGATGACAATTTAACCGAGAATAAG
130 GAGTATCCCCTCAGAGAATGGAGTTGGAGTGTCCCCGTTGATGACAATTTAACCGAGAATAAA
*
1091505 ATTTAAATTTTGATAAGTTTAAAA-GCGGAGTTAGAGTATCCCCTCGGAGGAATGGGGTT
1 ATTTAAATTTTGATAAGTTTAAAATG-GG-GTTAGAGTATCCCCTCGGAGAAATGGGGTT
1091564 GGTGTATCCC
Statistics
Matches: 227, Mismatches: 17, Indels: 15
0.88 0.07 0.06
Matches are distributed among these distances:
191 3 0.01
192 63 0.28
193 137 0.60
194 24 0.11
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (192 bp):
ATTTAAATTTTGATAAGTTTAAAATGGGGTTAGAGTATCCCCTCGGAGAAATGGGGTTAGAGCAT
CCTCGATGATGACAATTTAACCGAAAATAAGATTTAAATTTTGATAAGTTTAAAAACGAGGCTAG
AGTATCCCCTCAGAGAATGGAGTTGGAGTGTCCCCGTTGATGACAATTTAACCGAGAATAAA
Found at i:1093791 original size:8 final size:8
Alignment explanation
Indices: 1093778--1093826 Score: 55
Period size: 8 Copynumber: 5.9 Consensus size: 8
1093768 TTATTATTAT
1093778 TTTTTTGA
1 TTTTTTGA
1093786 TTTTTTTTGA
1 --TTTTTTGA
1093796 TTTTTTGA
1 TTTTTTGA
1093804 TTTCTTTGA
1 TTT-TTTGA
*
1093813 -TTTTTAA
1 TTTTTTGA
1093820 TTTTTTG
1 TTTTTTG
1093827 TGTCAAAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
7 4 0.11
8 18 0.51
9 5 0.14
10 8 0.23
ACGTcount: A:0.12, C:0.02, G:0.10, T:0.76
Consensus pattern (8 bp):
TTTTTTGA
Found at i:1093792 original size:10 final size:9
Alignment explanation
Indices: 1093758--1093817 Score: 61
Period size: 9 Copynumber: 6.7 Consensus size: 9
1093748 CATCACCATC
*
1093758 ATTTTTTTA
1 ATTTTTTTG
*
1093767 ATTATTATT-
1 ATT-TTTTTG
1093776 ATTTTTTTG
1 ATTTTTTTG
1093785 ATTTTTTTTG
1 A-TTTTTTTG
1093795 A-TTTTTTG
1 ATTTTTTTG
*
1093803 ATTTCTTTG
1 ATTTTTTTG
1093812 ATTTTT
1 ATTTTT
1093818 AATTTTTTGT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
8 12 0.28
9 18 0.42
10 13 0.30
ACGTcount: A:0.17, C:0.02, G:0.07, T:0.75
Consensus pattern (9 bp):
ATTTTTTTG
Found at i:1093799 original size:17 final size:18
Alignment explanation
Indices: 1093778--1093817 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
1093768 TTATTATTAT
1093778 TTTTTTGATTTTTTTTGA
1 TTTTTTGATTTTTTTTGA
*
1093796 TTTTTTGA-TTTCTTTGA
1 TTTTTTGATTTTTTTTGA
1093813 TTTTT
1 TTTTT
1093818 AATTTTTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.10, C:0.03, G:0.10, T:0.78
Consensus pattern (18 bp):
TTTTTTGATTTTTTTTGA
Found at i:1093806 original size:27 final size:28
Alignment explanation
Indices: 1093759--1093817 Score: 77
Period size: 27 Copynumber: 2.1 Consensus size: 28
1093749 ATCACCATCA
*
1093759 TTTTTTTAATTATTATTATTTTTTTGAT
1 TTTTTTTAATTATTATTATTTCTTTGAT
*
1093787 TTTTTTTGATT-TT-TTGATTTCTTTGAT
1 TTTTTTTAATTATTATT-ATTTCTTTGAT
1093814 TTTT
1 TTTT
1093818 AATTTTTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 2 0.07
27 16 0.57
28 10 0.36
ACGTcount: A:0.15, C:0.02, G:0.07, T:0.76
Consensus pattern (28 bp):
TTTTTTTAATTATTATTATTTCTTTGAT
Found at i:1098770 original size:164 final size:164
Alignment explanation
Indices: 1098552--1099025 Score: 641
Period size: 164 Copynumber: 2.9 Consensus size: 164
1098542 AAAAATTTTT
* * * *
1098552 AAAACCTTTCATATCCTTTCAATTTTTCTTCGGGTATGAAATAATTTTTTAAGAATTAAATAAAT
1 AAAACCTTTCGTATCCTTTC-ATTTTT-TTCGAGCATGAAATGATTTTTTAAGAATTAAATAAAT
* * *
1098617 AATAATTAAAATAAAATCAATCTAAACTTTTAAAATAAACTTAATCATTTTTTTATATTTCTACT
64 AATAATTGAAATAAAATCAATCTAACCTTTTAAAATAAAATTAATCATTTTTTTATATTTCTACT
* **
1098682 ATTGTTATGGTCATCCGTAAGGGTATAGAAATAT-C
129 ATTCTTATGGTCATCCACAAGGGTATAGAAATATCC
* * *
1098717 TAAACCTTTTGTATCCTTTCGATTTTTTGTCGAG-ATGAAATGTTTTTTTAAGAATTAAATAAAT
1 AAAACCTTTCGTATCCTTTC-ATTTTTT-TCGAGCATGAAATGATTTTTTAAGAATTAAATAAAT
* * * *
1098781 AGTAACTGAAACAAAATCAATCCAACCTTTTAAAATAAAATTAATCATTTTTTTATATTTCTACT
64 AATAATTGAAATAAAATCAATCTAACCTTTTAAAATAAAATTAATCATTTTTTTATATTTCTACT
* *
1098846 ATTCTTATGGTAATCCACAAGGTTATAGAAATATCC
129 ATTCTTATGGTCATCCACAAGGGTATAGAAATATCC
** *
1098882 AAAACCTTTCGTAT-CTTCTCAGTTTTCCATC-AGGCACGAAATGATTTTTTAAGAATTAAATAA
1 AAAACCTTTCGTATCCTT-TCA-TTTT-TTTCGA-GCATGAAATGATTTTTTAAGAATTAAATAA
*
1098945 ATAATAATTGAAATAAAATCAATCTAACCTTTTAAAATAAAATTAATTATTTTTTTATATTTCTA
62 ATAATAATTGAAATAAAATCAATCTAACCTTTTAAAATAAAATTAATCATTTTTTTATATTTCTA
1099010 CTATTCTTATGGTCAT
127 CTATTCTTATGGTCAT
1099026 TTGTATCATT
Statistics
Matches: 271, Mismatches: 31, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
164 121 0.45
165 49 0.18
166 101 0.37
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.41
Consensus pattern (164 bp):
AAAACCTTTCGTATCCTTTCATTTTTTTCGAGCATGAAATGATTTTTTAAGAATTAAATAAATAA
TAATTGAAATAAAATCAATCTAACCTTTTAAAATAAAATTAATCATTTTTTTATATTTCTACTAT
TCTTATGGTCATCCACAAGGGTATAGAAATATCC
Found at i:1103234 original size:12 final size:12
Alignment explanation
Indices: 1103217--1103244 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
1103207 AAAAACTGTA
1103217 GAATCTTTCAAG
1 GAATCTTTCAAG
1103229 GAATCTTTCAAG
1 GAATCTTTCAAG
1103241 GAAT
1 GAAT
1103245 ATGGATAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (12 bp):
GAATCTTTCAAG
Found at i:1110419 original size:79 final size:79
Alignment explanation
Indices: 1110324--1110715 Score: 330
Period size: 79 Copynumber: 5.0 Consensus size: 79
1110314 TGAAAAATTT
*
1110324 AATATTTTAGAGATAAAAATGAGGTTGGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCCC
1 AATATTTTAGAAATAAAAATGAGGTTGGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCCC
1110389 AATGGTGAGAAATC
66 AATGGTGAGAAATC
* * * * * ** *
1110403 AATATTTTGGAAATAAAAAAAGGGGTTGGAGTATCCTCTCGAAAATAATGAGGTTAAAGTATCCT
1 AATATTTTAGAAAT-AAAAATGAGGTTGGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCC
*
1110468 TAATGGT-AGAAATC
65 CAATGGTGAGAAATC
* ** * * * * * *
1110482 GATGGTTTAGAAATAAAACT-AGGGTTAGAGTATCCCCTCGGAAATAATAGTGCTGGAGTATCCC
1 AATATTTTAGAAATAAAAATGA-GGTTGGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCC
*
1110546 CAATGGTGAAAAATC
65 CAATGGTGAGAAATC
** * * * * * * *
1110561 TGTGTTTTAGAAATAAAATTGAGGTTGAAGTATCCCCT-TAGAAATAACGGGGCTAGAGTATCCC
1 AATATTTTAGAAATAAAAATGAGGTTGGAGTATCCCCTCGA-AAATAATGGGGTTGGAGTATCCC
* *
1110625 CGATGGTG-GAAAATT
65 CAATGGTGAG-AAATC
* * * * * *
1110640 GATATTTTAGAAAT-AAAATCGAGCTTAGAGTATCCCTTC-AGAAATAATGAGGTTGGATTATCC
1 AATATTTTAGAAATAAAAAT-GAGGTTGGAGTATCCCCTCGA-AAATAATGGGGTTGGAGTATCC
**
1110703 TTAATGGTG-GAAA
64 CCAATGGTGAGAAA
1110716 ATCGACGTTG
Statistics
Matches: 245, Mismatches: 60, Indels: 17
0.76 0.19 0.05
Matches are distributed among these distances:
78 49 0.20
79 146 0.60
80 50 0.20
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.28
Consensus pattern (79 bp):
AATATTTTAGAAATAAAAATGAGGTTGGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCCC
AATGGTGAGAAATC
Found at i:1110649 original size:158 final size:156
Alignment explanation
Indices: 1110325--1110718 Score: 380
Period size: 158 Copynumber: 2.5 Consensus size: 156
1110315 GAAAAATTTA
* * * *
1110325 ATATTTTAGAGATAAAAATGAGGTTGGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCCCA
1 ATATTTTAGAAAT-AAAATGAGGTTAGAGTATCCCCTCGGAAATAAT-AGGTTGGAGTATCCCCA
* * * * * * *
1110390 ATGGTGAGAAATCAATATTTTGGAAATAAAAAAAGGGGTTGGAGTATCCTCTCGAAAATAATGAG
64 ATGGTGAAAAATCAATATTTTAGAAATAAAAAAAGAGGTTGAAGTATCCCCTAGAAAATAACGAG
* **
1110455 GTTAAAGTATCCTTAATGGTAGAAATCG
129 GCTAAAGTATCCCCAATGGTAGAAATCG
** *
1110483 ATGGTTTAGAAATAAAACT-AGGGTTAGAGTATCCCCTCGGAAATAATAGTGCTGGAGTATCCCC
1 ATATTTTAGAAATAAAA-TGA-GGTTAGAGTATCCCCTCGGAAATAATAG-GTTGGAGTATCCCC
** * **
1110547 AATGGTGAAAAATCTGTGTTTTAGAAAT-AAAATTGAGGTTGAAGTATCCCCTTAG-AAATAACG
63 AATGGTGAAAAATCAATATTTTAGAAATAAAAAAAGAGGTTGAAGTATCCCC-TAGAAAATAACG
* * * * *
1110610 GGGCTAGAGTATCCCCGATGGTGGAAAATTG
127 AGGCTAAAGTATCCCCAATGGTAG-AAATCG
* * * * **
1110641 ATATTTTAGAAATAAAATCGAGCTTAGAGTATCCCTTCAGAAATAATGAGGTTGGATTATCCTTA
1 ATATTTTAGAAATAAAAT-GAGGTTAGAGTATCCCCTCGGAAATAAT-AGGTTGGAGTATCCCCA
*
1110706 ATGGTGGAAAATC
64 ATGGTGAAAAATC
1110719 GACGTTGGGT
Statistics
Matches: 191, Mismatches: 37, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
157 49 0.26
158 139 0.73
159 3 0.02
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.28
Consensus pattern (156 bp):
ATATTTTAGAAATAAAATGAGGTTAGAGTATCCCCTCGGAAATAATAGGTTGGAGTATCCCCAAT
GGTGAAAAATCAATATTTTAGAAATAAAAAAAGAGGTTGAAGTATCCCCTAGAAAATAACGAGGC
TAAAGTATCCCCAATGGTAGAAATCG
Done.