Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 13 of 427
Found at i:3599357 original size:46 final size:46
Alignment explanation
Indices: 3599307--3599400 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
3599297 GTTTAAGGTT
* *
3599307 TATGGTTTAAGATATATGGTTTAGGGTTTATGGTTTATGAGTTAAC
1 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAGGAGTTAAC
3599353 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAGGAGTTAAC
1 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAGGAGTTAAC
3599399 TA
1 TA
3599401 GTATTTGAAG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.28, C:0.02, G:0.27, T:0.44
Consensus pattern (46 bp):
TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAGGAGTTAAC
Found at i:3600365 original size:19 final size:20
Alignment explanation
Indices: 3600343--3600384 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
3600333 AAATAAAAAG
3600343 AAAGAAAGAAAAGAGA-GAA
1 AAAGAAAGAAAAGAGAGGAA
* *
3600362 AAAGAGAGTAAAGAGAGGAA
1 AAAGAAAGAAAAGAGAGGAA
3600382 AAA
1 AAA
3600385 TTAAGGTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (20 bp):
AAAGAAAGAAAAGAGAGGAA
Found at i:3600585 original size:16 final size:16
Alignment explanation
Indices: 3600564--3600598 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
3600554 TTAACTTCGA
3600564 ATTTTCAATCTTGACG
1 ATTTTCAATCTTGACG
3600580 ATTTTCAATCTTGACG
1 ATTTTCAATCTTGACG
3600596 ATT
1 ATT
3600599 CCACGGGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.26, C:0.17, G:0.11, T:0.46
Consensus pattern (16 bp):
ATTTTCAATCTTGACG
Found at i:3601580 original size:58 final size:58
Alignment explanation
Indices: 3601490--3601605 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 58
3601480 AGTTTTCCTC
3601490 ATTGTCAGTGGGATGGTTTAAATAACATTTAAGGTCTAACTTTATGTTACTGGGACTA
1 ATTGTCAGTGGGATGGTTTAAATAACATTTAAGGTCTAACTTTATGTTACTGGGACTA
*
3601548 ATTGTTAGTGGGATGGTTTAAATAACATTTAAGGTCTAACTTTATGTTACTGGGACTA
1 ATTGTCAGTGGGATGGTTTAAATAACATTTAAGGTCTAACTTTATGTTACTGGGACTA
3601606 TGCAATGATA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.39
Consensus pattern (58 bp):
ATTGTCAGTGGGATGGTTTAAATAACATTTAAGGTCTAACTTTATGTTACTGGGACTA
Found at i:3610223 original size:33 final size:32
Alignment explanation
Indices: 3610186--3610297 Score: 84
Period size: 32 Copynumber: 3.5 Consensus size: 32
3610176 TACCCAAATG
* *
3610186 GTACAATTTGAAAATGTTATGTACACTTTGTGT
1 GTACAACTTGAAAA-GTTACGTACACTTTGTGT
* * *
3610219 GTAC-ACTTGGAAAGGTTAGGTATACTTTGTGT
1 GTACAACTT-GAAAAGTTACGTACACTTTGTGT
* * ** * *
3610251 ATACCACTTGAAAAGGAACGTACACCTTGAGT
1 GTACAACTTGAAAAGTTACGTACACTTTGTGT
3610283 GTACAA-TTGGAAAAG
1 GTACAACTT-GAAAAG
3610298 AAAAAGTCCA
Statistics
Matches: 62, Mismatches: 14, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
31 2 0.03
32 48 0.77
33 12 0.19
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.32
Consensus pattern (32 bp):
GTACAACTTGAAAAGTTACGTACACTTTGTGT
Found at i:3610246 original size:32 final size:33
Alignment explanation
Indices: 3610193--3610266 Score: 96
Period size: 32 Copynumber: 2.3 Consensus size: 33
3610183 ATGGTACAAT
* * *
3610193 TTGAAAATGTTATGTACACTTTGTGTGTA-CAC
1 TTGAAAAGGTTAGGTACACTTTGTGTATACCAC
* *
3610225 TTGGAAAGGTTAGGTATACTTTGTGTATACCAC
1 TTGAAAAGGTTAGGTACACTTTGTGTATACCAC
3610258 TTGAAAAGG
1 TTGAAAAGG
3610267 AACGTACACC
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
32 24 0.69
33 11 0.31
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.36
Consensus pattern (33 bp):
TTGAAAAGGTTAGGTACACTTTGTGTATACCAC
Found at i:3612132 original size:49 final size:49
Alignment explanation
Indices: 3612018--3612134 Score: 146
Period size: 49 Copynumber: 2.4 Consensus size: 49
3612008 GGTGGCCATG
** * *
3612018 TTTGACAATAATTTTTAAATACCGTGTTAATTGTTTATGGTCCATTATG
1 TTTGACAATAATTTTTAAATACCGTGTTAATTGTACATGGTCCATCATA
* * * *
3612067 TTAGACGATGACTTTTAAATACCGTGTTAATTGTACATGG-CACATCATA
1 TTTGACAATAATTTTTAAATACCGTGTTAATTGTACATGGTC-CATCATA
3612116 TTTGACAATAATTTTTAAA
1 TTTGACAATAATTTTTAAA
3612135 GATTTTTAAA
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
48 1 0.02
49 54 0.98
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (49 bp):
TTTGACAATAATTTTTAAATACCGTGTTAATTGTACATGGTCCATCATA
Found at i:3612590 original size:10 final size:9
Alignment explanation
Indices: 3612565--3612589 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
3612555 AACGAAGTTT
3612565 AAAAAAATA
1 AAAAAAATA
3612574 AAAAAAATA
1 AAAAAAATA
3612583 AAAAAAA
1 AAAAAAA
3612590 AAACTCTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (9 bp):
AAAAAAATA
Found at i:3613006 original size:12 final size:12
Alignment explanation
Indices: 3612985--3613025 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
3612975 TCAATTTCTA
3612985 TTTTAGAATTAAT
1 TTTTA-AATTAAT
3612998 TTTTAAATTAAT
1 TTTTAAATTAAT
* *
3613010 TCTAAAATTAAT
1 TTTTAAATTAAT
3613022 TTTT
1 TTTT
3613026 TGAAAAAGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
12 19 0.79
13 5 0.21
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (12 bp):
TTTTAAATTAAT
Found at i:3613730 original size:71 final size:72
Alignment explanation
Indices: 3613609--3613755 Score: 278
Period size: 71 Copynumber: 2.1 Consensus size: 72
3613599 TTAGAATTTA
3613609 AAGTATATCAAAATTTTATCTTTATCATGATGGACATCCACTTAATAAGATATTCATAACATTCC
1 AAGTATATCAAAATTTTATCTTTATCATGATGGACATCCACTTAATAAGATATTCATAACATTCC
*
3613674 CTCTTGG
66 CCCTTGG
3613681 AAGT-TATCAAAATTTTATCTTTATCATGATGGACATCCACTTAATAAGATATTCATAACATTCC
1 AAGTATATCAAAATTTTATCTTTATCATGATGGACATCCACTTAATAAGATATTCATAACATTCC
3613745 CCCTTGG
66 CCCTTGG
3613752 AAGT
1 AAGT
3613756 CCACTGGTAA
Statistics
Matches: 74, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
71 70 0.95
72 4 0.05
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (72 bp):
AAGTATATCAAAATTTTATCTTTATCATGATGGACATCCACTTAATAAGATATTCATAACATTCC
CCCTTGG
Found at i:3617645 original size:19 final size:19
Alignment explanation
Indices: 3617623--3617662 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
3617613 CTCTTTTTCG
3617623 TTTCAACCTTCTGTTTCTT
1 TTTCAACCTTCTGTTTCTT
* * *
3617642 TTTCTATCTTTTGTTTCTT
1 TTTCAACCTTCTGTTTCTT
3617661 TT
1 TT
3617663 ATTTACTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.07, C:0.20, G:0.05, T:0.68
Consensus pattern (19 bp):
TTTCAACCTTCTGTTTCTT
Found at i:3617694 original size:16 final size:15
Alignment explanation
Indices: 3617675--3617704 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
3617665 TTACTTTAAT
3617675 TATTATAATAATATTA
1 TATTATAAT-ATATTA
3617691 TATTATAATATATT
1 TATTATAATATATT
3617705 CTTAAATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATTATAATATATTA
Found at i:3623444 original size:26 final size:26
Alignment explanation
Indices: 3623407--3623490 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
3623397 TGATACAAAT
* *
3623407 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
3623433 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
3623459 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
3623485 TGATAA
1 TGATAA
3623491 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:3628023 original size:12 final size:12
Alignment explanation
Indices: 3628003--3628033 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
3627993 TACTACCTCG
*
3628003 GCCTTGACCATA
1 GCCTCGACCATA
3628015 GCCTCGACCATA
1 GCCTCGACCATA
3628027 GCCTCGA
1 GCCTCGA
3628034 ACACGGCCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.39, G:0.19, T:0.19
Consensus pattern (12 bp):
GCCTCGACCATA
Found at i:3631157 original size:32 final size:32
Alignment explanation
Indices: 3631120--3631181 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
3631110 GCTTTCCATG
3631120 CCCATCATCCATTAACTATTAAAATGCTAATC
1 CCCATCATCCATTAACTATTAAAATGCTAATC
3631152 CCCATCATCCATTAACTATTAAAATGCTAA
1 CCCATCATCCATTAACTATTAAAATGCTAA
3631182 AATGCATACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.39, C:0.27, G:0.03, T:0.31
Consensus pattern (32 bp):
CCCATCATCCATTAACTATTAAAATGCTAATC
Found at i:3633810 original size:36 final size:36
Alignment explanation
Indices: 3633763--3633853 Score: 119
Period size: 36 Copynumber: 2.5 Consensus size: 36
3633753 ACCGTTTACG
* * *
3633763 GTACTATTCACGTATATAGCACTATTTACGTATATA
1 GTACTATTCACGTATACAGCACTATTTACGAATACA
* * *
3633799 GTACTATTCACGTATACGGTACTATTTACGAATACG
1 GTACTATTCACGTATACAGCACTATTTACGAATACA
*
3633835 GTACTGTTCACGTATACAG
1 GTACTATTCACGTATACAG
3633854 TAGTTGGGAT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 47 1.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (36 bp):
GTACTATTCACGTATACAGCACTATTTACGAATACA
Found at i:3633820 original size:18 final size:18
Alignment explanation
Indices: 3633759--3633851 Score: 105
Period size: 18 Copynumber: 5.2 Consensus size: 18
3633749 TACGACCGTT
3633759 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
** * *
3633777 TATAGCACTATTTACGTA
1 TACGGTACTATTCACGTA
**
3633795 TATAGTACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
3633813 TACGGTACTATTTACGAA
1 TACGGTACTATTCACGTA
*
3633831 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
3633849 TAC
1 TAC
3633852 AGTAGTTGGG
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 62 1.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.35
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:3647004 original size:21 final size:21
Alignment explanation
Indices: 3646978--3647018 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
3646968 AGACGAGCGA
* *
3646978 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
3646999 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
3647019 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:3654886 original size:21 final size:22
Alignment explanation
Indices: 3654842--3654889 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
3654832 CAAATCTACC
*
3654842 TTAAATCTTTGAAAGTTTATTT
1 TTAAATCTTTGAAAGTTTAATT
* *
3654864 TTAAAT-TTTTAAATTTTAATT
1 TTAAATCTTTGAAAGTTTAATT
3654885 TTAAA
1 TTAAA
3654890 GCTTATCTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (22 bp):
TTAAATCTTTGAAAGTTTAATT
Found at i:3681751 original size:7 final size:7
Alignment explanation
Indices: 3681738--3681780 Score: 63
Period size: 7 Copynumber: 6.4 Consensus size: 7
3681728 TAGAAAGTTT
3681738 CTTTTT-
1 CTTTTTC
*
3681744 CTTTTTT
1 CTTTTTC
3681751 CTTTTTC
1 CTTTTTC
3681758 CTTTTTC
1 CTTTTTC
3681765 CTTTTTC
1 CTTTTTC
3681772 C-TTTTC
1 CTTTTTC
3681778 CTT
1 CTT
3681781 AATGACAAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
6 12 0.35
7 22 0.65
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (7 bp):
CTTTTTC
Found at i:3681763 original size:20 final size:20
Alignment explanation
Indices: 3681738--3681780 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
3681728 TAGAAAGTTT
* *
3681738 CTTTTTCTTTTTTCTTTTTC
1 CTTTTTCCTTTTTCCTTTTC
3681758 CTTTTTCCTTTTTCCTTTTC
1 CTTTTTCCTTTTTCCTTTTC
3681778 CTT
1 CTT
3681781 AATGACAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (20 bp):
CTTTTTCCTTTTTCCTTTTC
Found at i:3681777 original size:13 final size:13
Alignment explanation
Indices: 3681738--3681780 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
3681728 TAGAAAGTTT
* *
3681738 CTTTTTCTTTTTT
1 CTTTTTCCTTTTC
3681751 CTTTTTCCTTTTTC
1 CTTTTTCC-TTTTC
3681765 CTTTTTCCTTTTC
1 CTTTTTCCTTTTC
3681778 CTT
1 CTT
3681781 AATGACAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
13 15 0.56
14 12 0.44
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (13 bp):
CTTTTTCCTTTTC
Found at i:3682838 original size:16 final size:16
Alignment explanation
Indices: 3682817--3682862 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 16
3682807 TAACATATTT
*
3682817 TAATATATAAATTACA
1 TAATATATAAATAACA
3682833 TAATATATAAAAATAACA
1 TAATATAT--AAATAACA
3682851 TAATATA-AAATA
1 TAATATATAAATA
3682863 TTATTAACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 5 0.19
16 8 0.30
18 14 0.52
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (16 bp):
TAATATATAAATAACA
Found at i:3682846 original size:18 final size:18
Alignment explanation
Indices: 3682819--3682857 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
3682809 ACATATTTTA
* *
3682819 ATATATAAATTACATAAT
1 ATATAAAAATAACATAAT
3682837 ATATAAAAATAACATAAT
1 ATATAAAAATAACATAAT
3682855 ATA
1 ATA
3682858 AAATATTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (18 bp):
ATATAAAAATAACATAAT
Found at i:3685266 original size:22 final size:23
Alignment explanation
Indices: 3685230--3685275 Score: 85
Period size: 22 Copynumber: 2.0 Consensus size: 23
3685220 TGTGTATAAA
3685230 TAATATTAAAAACATATAAAATT
1 TAATATTAAAAACATATAAAATT
3685253 TAATATT-AAAACATATAAAATT
1 TAATATTAAAAACATATAAAATT
3685275 T
1 T
3685276 CTAACTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (23 bp):
TAATATTAAAAACATATAAAATT
Found at i:3689199 original size:22 final size:23
Alignment explanation
Indices: 3689171--3689215 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
3689161 TAGATAGCTC
*
3689171 GAATTATAAAT-AATTGAATTTA
1 GAATTATAAATAAATCGAATTTA
*
3689193 GAATTATCAATAAATCGAATTTA
1 GAATTATAAATAAATCGAATTTA
3689216 TTTACACTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.38
Consensus pattern (23 bp):
GAATTATAAATAAATCGAATTTA
Found at i:3693085 original size:23 final size:23
Alignment explanation
Indices: 3693032--3693081 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
3693022 CTACATGTAT
**
3693032 TCAAATATTTATATAAAATATGC
1 TCAAATAAATATATAAAATATGC
* *
3693055 TCATATAAATATATAAAA-ATGT
1 TCAAATAAATATATAAAATATGC
3693077 TCAAA
1 TCAAA
3693082 ATAATTACCA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.36
Consensus pattern (23 bp):
TCAAATAAATATATAAAATATGC
Found at i:3697553 original size:2 final size:2
Alignment explanation
Indices: 3697546--3697576 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
3697536 CCAACAGTGT
*
3697546 TC TC TC TC TC TC TC TC TC TC TC TT TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
3697577 AAGCCTTCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
TC
Found at i:3703345 original size:17 final size:16
Alignment explanation
Indices: 3703323--3703377 Score: 58
Period size: 17 Copynumber: 3.4 Consensus size: 16
3703313 AGATGACTAT
3703323 ATAAAAAATTTTAATAA
1 ATAAAAAATTTTAA-AA
*
3703340 ATAAAAAATATATAAAA
1 ATAAAAAAT-TTTAAAA
* *
3703357 ATATAAAATATT-AAA
1 ATAAAAAATTTTAAAA
3703372 ATAAAA
1 ATAAAA
3703378 TATAATTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
15 8 0.25
16 1 0.03
17 19 0.59
18 4 0.12
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
ATAAAAAATTTTAAAA
Found at i:3708000 original size:23 final size:23
Alignment explanation
Indices: 3707974--3708022 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
3707964 TTGTACTCAA
* *
3707974 TTTT-ATTTTTAAATTATACTTTT
1 TTTTCATTTTAAAATT-TAATTTT
3707997 TTTTCATTTTAAAATTTAATTTT
1 TTTTCATTTTAAAATTTAATTTT
3708020 TTT
1 TTT
3708023 AATAATGATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (23 bp):
TTTTCATTTTAAAATTTAATTTT
Found at i:3710394 original size:71 final size:71
Alignment explanation
Indices: 3710278--3710415 Score: 213
Period size: 71 Copynumber: 1.9 Consensus size: 71
3710268 AAAAACGAAA
* * * *
3710278 AGTAAGATCAAATACCATACTTGGTAACTTGGCAAAGTACAATTATCATTATTATTATAAATATA
1 AGTAAGATCAAATACCAAACTTAGTAACTTGGCAAAGTACAATTATCATTAGTATTATAAAAATA
3710343 TACTAT
66 TACTAT
** *
3710349 AGTAAGATCAAATACCAAACTTAGTAACTTGGGTAAGTGCAATTATCATTAGTATTATAAAAATA
1 AGTAAGATCAAATACCAAACTTAGTAACTTGGCAAAGTACAATTATCATTAGTATTATAAAAATA
3710414 TA
66 TA
3710416 TATTATACTT
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 60 1.00
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (71 bp):
AGTAAGATCAAATACCAAACTTAGTAACTTGGCAAAGTACAATTATCATTAGTATTATAAAAATA
TACTAT
Found at i:3713647 original size:22 final size:24
Alignment explanation
Indices: 3713604--3713647 Score: 56
Period size: 22 Copynumber: 1.9 Consensus size: 24
3713594 TCCTTCAAGA
*
3713604 TTGAAGATCTTTATTTAATTTCCT
1 TTGAAGATCTTTATTGAATTTCCT
*
3713628 TTGAAG-T-TTTATTGAGTTTC
1 TTGAAGATCTTTATTGAATTTC
3713648 ATTATGTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 11 0.61
23 1 0.06
24 6 0.33
ACGTcount: A:0.23, C:0.09, G:0.14, T:0.55
Consensus pattern (24 bp):
TTGAAGATCTTTATTGAATTTCCT
Found at i:3714260 original size:14 final size:14
Alignment explanation
Indices: 3714241--3714270 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
3714231 GTTGCGTTCG
3714241 TAGTTAAATTAGAT
1 TAGTTAAATTAGAT
*
3714255 TAGTTAATTTAGAT
1 TAGTTAAATTAGAT
3714269 TA
1 TA
3714271 AAAACAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (14 bp):
TAGTTAAATTAGAT
Found at i:3724641 original size:22 final size:23
Alignment explanation
Indices: 3724606--3724649 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
3724596 AAATCTAATA
*
3724606 TATTTTAAAAAAATTCATAACAT
1 TATTTTAAAAAAATTCACAACAT
3724629 TATTTT-AAAAAATTCACAACA
1 TATTTTAAAAAAATTCACAACA
3724650 ACATCATCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.36
Consensus pattern (23 bp):
TATTTTAAAAAAATTCACAACAT
Found at i:3725650 original size:23 final size:23
Alignment explanation
Indices: 3725624--3725672 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
3725614 TTGTACTCAA
* *
3725624 TTTT-ATTTTTAAATTATACTTTT
1 TTTTCATTTTAAAATT-TAATTTT
3725647 TTTTCATTTTAAAATTTAATTTT
1 TTTTCATTTTAAAATTTAATTTT
3725670 TTT
1 TTT
3725673 AATAATGATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (23 bp):
TTTTCATTTTAAAATTTAATTTT
Found at i:3727761 original size:17 final size:17
Alignment explanation
Indices: 3727739--3727772 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3727729 TTGAATTATA
*
3727739 TAAAAATTTAAAAAAAT
1 TAAAAATATAAAAAAAT
3727756 TAAAAATATAAAAAAAT
1 TAAAAATATAAAAAAAT
3727773 AATTTATCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
TAAAAATATAAAAAAAT
Found at i:3730478 original size:15 final size:15
Alignment explanation
Indices: 3730455--3730492 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
3730445 AAAGAGAATA
*
3730455 AAAAATTTTTTAAAG
1 AAAATTTTTTTAAAG
3730470 AAAATTTTTTTAAAG
1 AAAATTTTTTTAAAG
3730485 AGAAATTT
1 A-AAATTT
3730493 ATTAATTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 15 0.71
16 6 0.29
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (15 bp):
AAAATTTTTTTAAAG
Found at i:3730479 original size:16 final size:16
Alignment explanation
Indices: 3730460--3730492 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
3730450 GAATAAAAAA
3730460 TTTTTTAAAGA-AAAT
1 TTTTTTAAAGAGAAAT
3730475 TTTTTTAAAGAGAAAT
1 TTTTTTAAAGAGAAAT
3730491 TT
1 TT
3730493 ATTAATTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.48
Consensus pattern (16 bp):
TTTTTTAAAGAGAAAT
Found at i:3730497 original size:15 final size:14
Alignment explanation
Indices: 3730456--3730497 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
3730446 AAGAGAATAA
3730456 AAAATTTTTTAAAG
1 AAAATTTTTTAAAG
3730470 AAAATTTTTTTAAAG
1 AAAA-TTTTTTAAAG
*
3730485 AGAAATTTATTAA
1 A-AAATTTTTTAA
3730498 TTCATTCAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 4 0.16
15 18 0.72
16 3 0.12
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (14 bp):
AAAATTTTTTAAAG
Found at i:3731053 original size:27 final size:27
Alignment explanation
Indices: 3731023--3731077 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
3731013 TCACCTATCA
3731023 ATAACAACTTGTAAAGACAACAAAGAT
1 ATAACAACTTGTAAAGACAACAAAGAT
*
3731050 ATAACAACTTGTGAAGACAACAAAGAT
1 ATAACAACTTGTAAAGACAACAAAGAT
3731077 A
1 A
3731078 CCCACAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.55, C:0.15, G:0.13, T:0.18
Consensus pattern (27 bp):
ATAACAACTTGTAAAGACAACAAAGAT
Found at i:3732164 original size:3 final size:3
Alignment explanation
Indices: 3732156--3732198 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
3732146 AAATTAATTG
*
3732156 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AAT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
3732199 GTGTATGATG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:3733321 original size:25 final size:27
Alignment explanation
Indices: 3733284--3733336 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
3733274 TCAAACATGC
3733284 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
3733310 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
3733336 A
1 A
3733337 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:3734855 original size:32 final size:32
Alignment explanation
Indices: 3734814--3734878 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
3734804 ATTGCTTACC
3734814 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
3734846 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
3734878 A
1 A
3734879 AATGCATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:3735340 original size:2 final size:2
Alignment explanation
Indices: 3735328--3735361 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
3735318 ATGTCTTCTA
* *
3735328 AT AT TT AT AT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3735362 TTTAATATCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (2 bp):
AT
Found at i:3735422 original size:23 final size:23
Alignment explanation
Indices: 3735396--3735439 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
3735386 TTTATGTTGT
3735396 TATATA-TATATA-TTCTAATAC
1 TATATATTATATACTTCTAATAC
3735417 TATATATTATATACTTCTAATAC
1 TATATATTATATACTTCTAATAC
3735440 CATTACTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 6 0.29
22 6 0.29
23 9 0.43
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (23 bp):
TATATATTATATACTTCTAATAC
Found at i:3735633 original size:26 final size:24
Alignment explanation
Indices: 3735587--3735646 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 24
3735577 ATATATTGTG
*
3735587 TATATATTCTTAAATACTATTATC
1 TATATATTTTTAAATACTATTATC
* *
3735611 TATATATTTTTTAATACCATATTATG
1 TATATATTTTTAAATA-C-TATTATC
*
3735637 TGTATATTTT
1 TATATATTTT
3735647 CGAAACCCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 14 0.47
25 1 0.03
26 15 0.50
ACGTcount: A:0.33, C:0.08, G:0.03, T:0.55
Consensus pattern (24 bp):
TATATATTTTTAAATACTATTATC
Found at i:3740468 original size:15 final size:15
Alignment explanation
Indices: 3740437--3740475 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
3740427 GAGATTAAAG
3740437 TATAATTT-TACTAT
1 TATAATTTATACTAT
*
3740451 TATAATTTATACTTT
1 TATAATTTATACTAT
3740466 TATACATTTA
1 TATA-ATTTA
3740476 AAAATAAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.36
15 9 0.41
16 5 0.23
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTTATACTAT
Found at i:3744131 original size:23 final size:23
Alignment explanation
Indices: 3744101--3744148 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
3744091 ATGAAAAACG
3744101 AATATATTTGAAGAGCTAGTATT
1 AATATATTTGAAGAGCTAGTATT
3744124 AATATATTTGAAGAGCTAGTATT
1 AATATATTTGAAGAGCTAGTATT
3744147 AA
1 AA
3744149 GCATATGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.42, C:0.04, G:0.17, T:0.38
Consensus pattern (23 bp):
AATATATTTGAAGAGCTAGTATT
Found at i:3746425 original size:30 final size:30
Alignment explanation
Indices: 3746391--3746481 Score: 123
Period size: 30 Copynumber: 3.1 Consensus size: 30
3746381 CACGTGTTAA
* *
3746391 CAATTCTATTATAAAGTTAGCTTGTGTGAG
1 CAATTCTATTATAAAGTCAACTTGTGTGAG
* *
3746421 CAA-T-TATTACAAAGTCAACTTGTGTGAA
1 CAATTCTATTATAAAGTCAACTTGTGTGAG
*
3746449 CAATTCTAATATAAAGTCAACTTGTGTGAG
1 CAATTCTATTATAAAGTCAACTTGTGTGAG
3746479 CAA
1 CAA
3746482 GTTTGTTAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
28 23 0.44
29 2 0.04
30 27 0.52
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.34
Consensus pattern (30 bp):
CAATTCTATTATAAAGTCAACTTGTGTGAG
Found at i:3746462 original size:58 final size:57
Alignment explanation
Indices: 3746347--3746481 Score: 182
Period size: 58 Copynumber: 2.4 Consensus size: 57
3746337 GAAGTATTAC
* * *
3746347 AAAGTCAGCTTGTGTGAGC-ATTTCACAAAGTCAGCACGTGTTAACAATTCTATTAT
1 AAAGTCAGCTTGTGTGAGCAATTTCACAAAGTCAACACGTGTGAACAATTCTAATAT
* * **
3746403 AAAGTTAGCTTGTGTGAGCAATTATTACAAAGTCAACTTGTGTGAACAATTCTAATAT
1 AAAGTCAGCTTGTGTGAGCAATT-TCACAAAGTCAACACGTGTGAACAATTCTAATAT
*
3746461 AAAGTCAACTTGTGTGAGCAA
1 AAAGTCAGCTTGTGTGAGCAA
3746482 GTTTGTTAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
56 18 0.26
57 3 0.04
58 47 0.69
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.32
Consensus pattern (57 bp):
AAAGTCAGCTTGTGTGAGCAATTTCACAAAGTCAACACGTGTGAACAATTCTAATAT
Found at i:3748069 original size:27 final size:26
Alignment explanation
Indices: 3748006--3748076 Score: 98
Period size: 21 Copynumber: 2.9 Consensus size: 26
3747996 AAACAAATTG
3748006 GTTGGCATGTGAATAATAAATTGGTT
1 GTTGGCATGTGAATAATAAATTGGTT
3748032 GTT----TG-GAATAATAAATTGGTT
1 GTTGGCATGTGAATAATAAATTGGTT
3748053 GTTTGGCATGTGAATAATAAATTG
1 G-TTGGCATGTGAATAATAAATTG
3748077 CAAATTTGAG
Statistics
Matches: 39, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
21 17 0.44
22 4 0.10
26 5 0.13
27 13 0.33
ACGTcount: A:0.32, C:0.03, G:0.25, T:0.39
Consensus pattern (26 bp):
GTTGGCATGTGAATAATAAATTGGTT
Found at i:3750633 original size:19 final size:21
Alignment explanation
Indices: 3750604--3750645 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
3750594 TACTCTTCCA
*
3750604 TTTACTTTT-CCTCAAAATTT
1 TTTACTTTTCCCCCAAAATTT
3750624 TTTA-TTTTCCCCCAAAATTT
1 TTTACTTTTCCCCCAAAATTT
3750644 TT
1 TT
3750646 ACTCCCTCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.24, C:0.21, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTACTTTTCCCCCAAAATTT
Found at i:3750678 original size:30 final size:30
Alignment explanation
Indices: 3750629--3750687 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
3750619 AATTTTTTAT
*
3750629 TTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTCCCCCAAAACTTTTACTCCCTTCCCAC
3750658 TTTCCCCCTAAAACTTTTACTCCCTTCCCA
1 TTTCCCCC-AAAACTTTTACTCCCTTCCCA
3750688 TCCCACCCCC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 8 0.30
30 14 0.52
31 5 0.19
ACGTcount: A:0.20, C:0.44, G:0.00, T:0.36
Consensus pattern (30 bp):
TTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:3753120 original size:42 final size:41
Alignment explanation
Indices: 3753063--3753175 Score: 169
Period size: 39 Copynumber: 2.8 Consensus size: 41
3753053 CTCGACAAAG
3753063 AAAAAATAAGAAAAACCATGGAGGAATTGTCTACTAACTCAC
1 AAAAAATAAGAAAAACCATGGAGGAATTGTCT-CTAACTCAC
*
3753105 AAAAAATAAGAAAAACCGA-GGAGGAATTG--TCTAACTCAG
1 AAAAAATAAGAAAAACC-ATGGAGGAATTGTCTCTAACTCAC
*
3753144 AAAAAATAAGAAAAACCGTGGAGGAATTGTCT
1 AAAAAATAAGAAAAACCATGGAGGAATTGTCT
3753176 GCTGACGCTG
Statistics
Matches: 65, Mismatches: 2, Indels: 9
0.86 0.03 0.12
Matches are distributed among these distances:
39 35 0.54
40 1 0.02
41 1 0.02
42 27 0.42
43 1 0.02
ACGTcount: A:0.50, C:0.13, G:0.19, T:0.18
Consensus pattern (41 bp):
AAAAAATAAGAAAAACCATGGAGGAATTGTCTCTAACTCAC
Found at i:3756056 original size:154 final size:155
Alignment explanation
Indices: 3755828--3756171 Score: 423
Period size: 154 Copynumber: 2.3 Consensus size: 155
3755818 ACCGCCATAT
*
3755828 GTGAAGCATTAGCGGCTGTTGTCTAAAAACGCCGCAAAAGTGTTAAGCAAAACGACGCCGTCTAT
1 GTGAAGCATTAGCGGCTGTTGTCTAAAAACGCCGCAAAAGTGTTAAGCAAAACGACGACGTCTAT
* *
3755893 TGGTGAGCTATAAAGGCATTAGCGGTGTTTTTT-TAAA-A-CGCTGCAATATATCGAGAATTAGC
66 TGATGAGCTATAAAGGCATTAGCGGAGTTTTTTGTAAAGATC-C-GCAATATATCGAGAATTAGC
*
3755955 GGCATTTTTTCTAAAATGCCTCAATAG
129 GGCATTTGTTCTAAAATGCCTCAATAG
* * * * *
3755982 GTGAAGCATTAGCGGCTGTTGTTTAAAAACGCTGCAAAAGTGTTGAGCAAAATGACGATGTCTAT
1 GTGAAGCATTAGCGGCTGTTGTCTAAAAACGCCGCAAAAGTGTTAAGCAAAACGACGACGTCTAT
* * * *
3756047 TTATTAGCTATAGAGGCATTAGCGGAGTTTTTTGTAAAGATCCGCAATATATTGAGAATTAGCGG
66 TGATGAGCTATAAAGGCATTAGCGGAGTTTTTTGTAAAGATCCGCAATATATCGAGAATTAGCGG
** ** * * *
3756112 TGTTTGTTCTAAAACACCGCAAAAT
131 CATTTGTTCTAAAATGCCTCAATAG
* *
3756137 GTGAATCATTAGC-G--G-TGTATAAAAACGCCGCAAAA
1 GTGAAGCATTAGCGGCTGTTGTCTAAAAACGCCGCAAAA
3756172 AATTATGTTA
Statistics
Matches: 164, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
151 18 0.11
152 1 0.01
154 88 0.54
155 54 0.33
156 2 0.01
157 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.29
Consensus pattern (155 bp):
GTGAAGCATTAGCGGCTGTTGTCTAAAAACGCCGCAAAAGTGTTAAGCAAAACGACGACGTCTAT
TGATGAGCTATAAAGGCATTAGCGGAGTTTTTTGTAAAGATCCGCAATATATCGAGAATTAGCGG
CATTTGTTCTAAAATGCCTCAATAG
Found at i:3756521 original size:2 final size:2
Alignment explanation
Indices: 3756465--3756502 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
3756455 GTCACTTGTA
3756465 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3756503 TAGAACTTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3756853 original size:22 final size:22
Alignment explanation
Indices: 3756818--3756871 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
3756808 TACTGTGAAT
* * *
3756818 GGTTTTGGGGTTTAAAGTTTGG
1 GGTTTAGGGTTTTTAAGTTTGG
*
3756840 GG-TTAGGGTTTTTATGTTTGG
1 GGTTTAGGGTTTTTAAGTTTGG
3756861 GGTTTAGGGTT
1 GGTTTAGGGTT
3756872 CAGGGTTCAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 17 0.63
22 10 0.37
ACGTcount: A:0.11, C:0.00, G:0.41, T:0.48
Consensus pattern (22 bp):
GGTTTAGGGTTTTTAAGTTTGG
Found at i:3756905 original size:21 final size:20
Alignment explanation
Indices: 3756853--3756907 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
3756843 TAGGGTTTTT
*
3756853 ATGTTTGGGGTTTAGGGTTC
1 ATGTTTGGGGTTTAGAGTTC
* **
3756873 AGGGTTCAGGGTTTAGAGTCTC
1 A-TGTTTGGGGTTTAGAGT-TC
3756895 ATGTTTGGGGTTT
1 ATGTTTGGGGTTT
3756908 TAAGTTTAGA
Statistics
Matches: 26, Mismatches: 7, Indels: 3
0.72 0.19 0.08
Matches are distributed among these distances:
20 1 0.04
21 22 0.85
22 3 0.12
ACGTcount: A:0.13, C:0.07, G:0.38, T:0.42
Consensus pattern (20 bp):
ATGTTTGGGGTTTAGAGTTC
Found at i:3756962 original size:15 final size:15
Alignment explanation
Indices: 3756942--3756973 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
3756932 TTTAATTTAG
3756942 AAGATAAATATAAAT
1 AAGATAAATATAAAT
*
3756957 AAGATAAATATATAT
1 AAGATAAATATAAAT
3756972 AA
1 AA
3756974 ATTATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (15 bp):
AAGATAAATATAAAT
Found at i:3760409 original size:106 final size:105
Alignment explanation
Indices: 3760140--3760819 Score: 1121
Period size: 106 Copynumber: 6.4 Consensus size: 105
3760130 ATTTTAAATA
* * * *
3760140 TTTTATTTTATTTTTAAATTATCTATTTAAATTAAATTGTATTTAAAGTTTTATTTTGAATATGT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
* * *
3760205 TATTTTATTTTATTTTAATCACGAACAATATTTTGTCTAC
66 TATTTGATTTTAATTTAATCACGAAAAATATTTTGTCTAC
3760245 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
*
3760310 TCTTTGATTTTAATTTAATCACGAAAAATATTTTGTCTAC
66 TATTTGATTTTAATTTAATCACGAAAAATATTTTGTCTAC
3760350 TTTTATTTTATATTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATT
1 TTTTATTTTAT-TTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATT
3760415 TTATTTGATTTTAATTTAATCACGAAAAATATTTTGTCTAC
65 TTATTTGATTTTAATTTAATCACGAAAAATATTTTGTCTAC
3760456 TTTTATTTTATTTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATT
1 TTTTATTTTA-TTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATT
3760521 TTATTTGATTTTAATTTAATCACGAAAAATATTTTGTCTAC
65 TTATTTGATTTTAATTTAATCACGAAAAATATTTTGTCTAC
3760562 TTTTATTTTATTTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTGAATATG
1 TTTTATTTTA-TTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTT-AA-A--
* *
3760627 TTATTTTATTTGATTTTATTTTAATCACGAAAAATATTTTCTCTAC
61 -TATTTTATTTGATTTTAATTTAATCACGAAAAATATTTTGTCTAC
* *
3760673 TTTTATTTTATTTTTAAATTACATAATTAAATTAAATTTTATTTAAAGTTTTATTTTAAATATTT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
* * * *
3760738 TATTTTATTTTATTTTAATCATGAAAAACA--TTGTCTAC
66 TATTTGATTTTAATTTAATCACGAAAAATATTTTGTCTAC
*
3760776 TTTTATTTTATTTTTAAATTACTTAATTAAATTAAATTGTATTT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTT
3760820 TTAAATATTG
Statistics
Matches: 549, Mismatches: 19, Indels: 16
0.94 0.03 0.03
Matches are distributed among these distances:
103 49 0.09
105 140 0.26
106 255 0.46
107 3 0.01
108 2 0.00
109 2 0.00
110 45 0.08
111 53 0.10
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.56
Consensus pattern (105 bp):
TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
TATTTGATTTTAATTTAATCACGAAAAATATTTTGTCTAC
Found at i:3760732 original size:24 final size:23
Alignment explanation
Indices: 3760704--3760756 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 23
3760694 CATAATTAAA
3760704 TTAA-ATTTTATTTAAAGTTTTATT
1 TTAATATTTTATTT-AA-TTTTATT
*
3760728 TTAAATATTTTATTTTATTTTATT
1 TT-AATATTTTATTTAATTTTATT
3760752 TTAAT
1 TTAAT
3760757 CATGAAAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 3 0.12
24 11 0.42
25 3 0.12
26 9 0.35
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (23 bp):
TTAATATTTTATTTAATTTTATT
Found at i:3760740 original size:14 final size:13
Alignment explanation
Indices: 3760706--3760755 Score: 54
Period size: 10 Copynumber: 4.1 Consensus size: 13
3760696 TAATTAAATT
3760706 AAATTTTA-TTTA
1 AAATTTTATTTTA
*
3760718 AAGTTTTATTTTA
1 AAATTTTATTTTA
3760731 AATATTTTATTTT-
1 AA-ATTTTATTTTA
3760744 --ATTTTATTTTA
1 AAATTTTATTTTA
3760755 A
1 A
3760756 TCATGAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
10 10 0.31
12 7 0.22
13 6 0.19
14 9 0.28
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (13 bp):
AAATTTTATTTTA
Found at i:3761115 original size:9 final size:9
Alignment explanation
Indices: 3761090--3761238 Score: 94
Period size: 9 Copynumber: 16.1 Consensus size: 9
3761080 ATATCATATC
3761090 TTACATAAT
1 TTACATAAT
3761099 TTACATAAT
1 TTACATAAT
*
3761108 TTACATAAC
1 TTACATAAT
3761117 TTACATAA-
1 TTACATAAT
3761125 -TACATAAAT
1 TTACAT-AAT
3761134 ATATATCAT-AT
1 -T-TA-CATAAT
3761145 CTTACATAAT
1 -TTACATAAT
3761155 TTACATAAT
1 TTACATAAT
*** *
3761164 TCGGATAAC
1 TTACATAAT
3761173 TTACATAAT
1 TTACATAAT
**
3761182 TTACATAGC
1 TTACATAAT
*
3761191 TTATATAA-
1 TTACATAAT
3761199 -TACATAAAT
1 TTACAT-AAT
3761208 ATATATCAT-AT
1 -T-TA-CATAAT
3761219 CTTACATAAT
1 -TTACATAAT
3761229 TTACATAAT
1 TTACATAAT
3761238 T
1 T
3761239 CGGATAACTT
Statistics
Matches: 110, Mismatches: 16, Indels: 28
0.71 0.10 0.18
Matches are distributed among these distances:
7 9 0.08
8 4 0.04
9 73 0.66
10 8 0.07
11 6 0.05
12 4 0.04
13 6 0.05
ACGTcount: A:0.44, C:0.13, G:0.02, T:0.40
Consensus pattern (9 bp):
TTACATAAT
Found at i:3761156 original size:56 final size:56
Alignment explanation
Indices: 3761070--3761181 Score: 197
Period size: 56 Copynumber: 2.0 Consensus size: 56
3761060 AATCCCATCA
*
3761070 ACATAAATATATATCATATCTTACATAATTTACATAATTTACATAACTTACATAAT
1 ACATAAATATATATCATATCTTACATAATTTACATAATTCACATAACTTACATAAT
**
3761126 ACATAAATATATATCATATCTTACATAATTTACATAATTCGGATAACTTACATAAT
1 ACATAAATATATATCATATCTTACATAATTTACATAATTCACATAACTTACATAAT
3761182 TTACATAGCT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.46, C:0.14, G:0.02, T:0.38
Consensus pattern (56 bp):
ACATAAATATATATCATATCTTACATAATTTACATAATTCACATAACTTACATAAT
Found at i:3761220 original size:74 final size:74
Alignment explanation
Indices: 3761094--3761255 Score: 297
Period size: 74 Copynumber: 2.2 Consensus size: 74
3761084 CATATCTTAC
*
3761094 ATAATTTACATAATTTACATAACTTACATAATACATAAATATATATCATATCTTACATAATTTAC
1 ATAACTTACATAATTTACATAACTTACATAATACATAAATATATATCATATCTTACATAATTTAC
3761159 ATAATTCGG
66 ATAATTCGG
* *
3761168 ATAACTTACATAATTTACATAGCTTATATAATACATAAATATATATCATATCTTACATAATTTAC
1 ATAACTTACATAATTTACATAACTTACATAATACATAAATATATATCATATCTTACATAATTTAC
3761233 ATAATTCGG
66 ATAATTCGG
3761242 ATAACTTACATAAT
1 ATAACTTACATAAT
3761256 ACATAAATAT
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 85 1.00
ACGTcount: A:0.44, C:0.14, G:0.03, T:0.39
Consensus pattern (74 bp):
ATAACTTACATAATTTACATAACTTACATAATACATAAATATATATCATATCTTACATAATTTAC
ATAATTCGG
Found at i:3761254 original size:9 final size:9
Alignment explanation
Indices: 3761084--3761254 Score: 70
Period size: 9 Copynumber: 18.6 Consensus size: 9
3761074 AAATATATAT
*
3761084 CATATCTTA
1 CATAACTTA
*
3761093 CATAATTTA
1 CATAACTTA
*
3761102 CATAATTTA
1 CATAACTTA
3761111 CATAACTTA
1 CATAACTTA
3761120 CATAA--TA
1 CATAACTTA
*
3761127 CATAAATATATA
1 CAT-AA-CT-TA
*
3761139 TCATATCTTA
1 -CATAACTTA
*
3761149 CATAATTTA
1 CATAACTTA
3761158 CATAA-TT-
1 CATAACTTA
3761165 CGGATAACTTA
1 C--ATAACTTA
*
3761176 CATAATTTA
1 CATAACTTA
*
3761185 CATAGCTTA
1 CATAACTTA
*
3761194 TATAA--TA
1 CATAACTTA
*
3761201 CATAAATATATA
1 CAT-AA-CT-TA
*
3761213 TCATATCTTA
1 -CATAACTTA
*
3761223 CATAATTTA
1 CATAACTTA
3761232 CATAA-TT-
1 CATAACTTA
3761239 CGGATAACTTA
1 C--ATAACTTA
3761250 CATAA
1 CATAA
3761255 TACATAAATA
Statistics
Matches: 125, Mismatches: 17, Indels: 40
0.69 0.09 0.22
Matches are distributed among these distances:
7 11 0.09
8 8 0.06
9 82 0.66
10 8 0.06
11 4 0.03
12 6 0.05
13 6 0.05
ACGTcount: A:0.44, C:0.15, G:0.03, T:0.39
Consensus pattern (9 bp):
CATAACTTA
Found at i:3766400 original size:30 final size:30
Alignment explanation
Indices: 3766366--3766426 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
3766356 GGACTTTTTG
3766366 ATTATTTTAATGTTTAAATATATTTAATTA
1 ATTATTTTAATGTTTAAATATATTTAATTA
*
3766396 ATTATTTTAATGTTTAAATATTTTTAATTA
1 ATTATTTTAATGTTTAAATATATTTAATTA
3766426 A
1 A
3766427 ATGTGTCAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.57
Consensus pattern (30 bp):
ATTATTTTAATGTTTAAATATATTTAATTA
Found at i:3766417 original size:16 final size:16
Alignment explanation
Indices: 3766368--3766419 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
3766358 ACTTTTTGAT
3766368 TATTTTAATGTTTAAA
1 TATTTTAATGTTTAAA
*
3766384 TATATTTAA---TTAAT
1 TAT-TTTAATGTTTAAA
3766398 TATTTTAATGTTTAAA
1 TATTTTAATGTTTAAA
3766414 TATTTT
1 TATTTT
3766420 TAATTAAATG
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
13 5 0.17
14 7 0.23
16 13 0.43
17 5 0.17
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.60
Consensus pattern (16 bp):
TATTTTAATGTTTAAA
Found at i:3766422 original size:17 final size:17
Alignment explanation
Indices: 3766370--3766423 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
3766360 TTTTTGATTA
3766370 TTTTAATGTTTAAATAT
1 TTTTAATGTTTAAATAT
* *
3766387 ATTTAA---TTAATTA-
1 TTTTAATGTTTAAATAT
3766400 TTTTAATGTTTAAATAT
1 TTTTAATGTTTAAATAT
3766417 TTTTAAT
1 TTTTAAT
3766424 TAAATGTGTC
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
13 5 0.17
14 6 0.21
16 6 0.21
17 12 0.41
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (17 bp):
TTTTAATGTTTAAATAT
Found at i:3768379 original size:5 final size:5
Alignment explanation
Indices: 3768369--3768395 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
3768359 GTAATTGTGC
3768369 TTCTT TTCTT TTCTT TTCTT TTCTT TT
1 TTCTT TTCTT TTCTT TTCTT TTCTT TT
3768396 TCACGTTCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTCTT
Found at i:3771971 original size:3 final size:3
Alignment explanation
Indices: 3771965--3772028 Score: 119
Period size: 3 Copynumber: 21.0 Consensus size: 3
3771955 ACACTACTAT
3771965 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A
3772014 ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA
3772029 TAGAAATACA
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 57 0.95
4 3 0.05
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:3772138 original size:3 final size:3
Alignment explanation
Indices: 3772124--3772157 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
3772114 AAATATACAC
3772124 TAA TATA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
3772158 AATGCAGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:3773827 original size:44 final size:45
Alignment explanation
Indices: 3773741--3773840 Score: 130
Period size: 44 Copynumber: 2.2 Consensus size: 45
3773731 CGATATCTAC
* *
3773741 TATCTTTGATCTGCTCCCCGTCTAATACAAAGACGCCAAATCTGT
1 TATCTTTGATCTGCTCCCCGACTAATACAAAGACACCAAATCTGT
* * *
3773786 TATCTTTGATCTGCTCTCTGAC-AATACAGAGACACCAAATCTGT
1 TATCTTTGATCTGCTCCCCGACTAATACAAAGACACCAAATCTGT
**
3773830 CCTCTTTGATC
1 TATCTTTGATC
3773841 CCTATAAACA
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 29 0.60
45 19 0.40
ACGTcount: A:0.26, C:0.28, G:0.13, T:0.33
Consensus pattern (45 bp):
TATCTTTGATCTGCTCCCCGACTAATACAAAGACACCAAATCTGT
Found at i:3778936 original size:25 final size:24
Alignment explanation
Indices: 3778884--3778953 Score: 79
Period size: 25 Copynumber: 2.9 Consensus size: 24
3778874 TAGCTCGAAA
* *
3778884 GAGCGTCCCGTTATTAGCTCTTGT
1 GAGCTTCCCGTTATTAGCTCTTGC
* *
3778908 GAGCTTCCCGTTATATGGTTCTTGC
1 GAGCTTCCCGTTAT-TAGCTCTTGC
*
3778933 GAGCTTCCCGTTAAT-GCTCTT
1 GAGCTTCCCGTTATTAGCTCTT
3778954 CGGAGCATCC
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
23 5 0.13
24 14 0.36
25 20 0.51
ACGTcount: A:0.13, C:0.26, G:0.23, T:0.39
Consensus pattern (24 bp):
GAGCTTCCCGTTATTAGCTCTTGC
Found at i:3779042 original size:26 final size:26
Alignment explanation
Indices: 3779011--3779076 Score: 96
Period size: 26 Copynumber: 2.5 Consensus size: 26
3779001 TTAGCTCTTA
*
3779011 TGAGCTTCCTGATCATAGGCTCTTCG
1 TGAGCTTCCTGATAATAGGCTCTTCG
* * *
3779037 TGAGCTTCCTGTTAATTGGCTCTTTG
1 TGAGCTTCCTGATAATAGGCTCTTCG
3779063 TGAGCTTCCTGATA
1 TGAGCTTCCTGATA
3779077 CGACTCGCTT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.39
Consensus pattern (26 bp):
TGAGCTTCCTGATAATAGGCTCTTCG
Found at i:3782102 original size:26 final size:26
Alignment explanation
Indices: 3782040--3782148 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
3782030 TGATACAAAT
3782040 TGATAATAGGTTAGGTAAATG-TTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
3782065 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
3782091 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
3782117 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
3782143 TGATAA
1 TGATAA
3782149 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
25 21 0.26
26 59 0.74
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:3783624 original size:28 final size:26
Alignment explanation
Indices: 3783582--3783656 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 26
3783572 AAAAGTAGCT
* * * *
3783582 AAATTACTATAATACACCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-ATGCA
*
3783610 AAATTACTGTTATACCCCTAGGTGCA
1 AAATTACTGTTATACCCCTAGATGCA
*
3783636 AAATTACCGTTATACCCCTAG
1 AAATTACTGTTATACCCCTAG
3783657 GGTTAATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 23 0.56
27 1 0.02
28 17 0.41
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.31
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGATGCA
Found at i:3783802 original size:27 final size:27
Alignment explanation
Indices: 3783760--3783872 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 27
3783750 GAGGAAGCGT
*
3783760 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
3783787 TCTAGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
3783814 TCTGGTGGCTCTGCCACAATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
3783842 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
3783868 TCTGG
1 TCTGG
3783873 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
26 5 0.07
27 54 0.73
28 15 0.20
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:3783865 original size:54 final size:54
Alignment explanation
Indices: 3783758--3783872 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
3783748 TGGAGGAAGC
*
3783758 GTTCTGGTGGCTATGCCACAAATATCTGATCTAGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTAGTGACTCTGCCACATATATCT
* * * *
3783812 GTTCTGGTGGCTCTGCCACAATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTAGTGACTCTGCCACATATATCT
3783866 GTTCTGG
1 GTTCTGG
3783873 CAGCCATGCT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 38 0.69
55 17 0.31
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTAGTGACTCTGCCACATATATCT
Found at i:3793213 original size:26 final size:26
Alignment explanation
Indices: 3793183--3793264 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
3793173 TGAAATTCCC
3793183 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
3793209 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
3793235 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
3793261 ATCA
1 ATCA
3793265 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:3797541 original size:17 final size:17
Alignment explanation
Indices: 3797519--3797554 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
3797509 AATGTGTTAT
3797519 GTTCTTATTGACTAAAC
1 GTTCTTATTGACTAAAC
*
3797536 GTTCTTATTGTCTAAAC
1 GTTCTTATTGACTAAAC
3797553 GT
1 GT
3797555 ACAACTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.25, C:0.17, G:0.14, T:0.44
Consensus pattern (17 bp):
GTTCTTATTGACTAAAC
Found at i:3798495 original size:154 final size:153
Alignment explanation
Indices: 3798188--3798526 Score: 393
Period size: 154 Copynumber: 2.2 Consensus size: 153
3798178 AATAAATCGG
* * * * * * *
3798188 GTATTAGCGGCGTTTTTACGAAAGCGCCGCTATAGGTCTATCTATAGTGGTGTTTTTATAAAAAC
1 GTATTAGCAGCGTTTTTAAGAAAGCGCCGCTATAGGTCGATCTATAGCGGCGTTTGTACAAAAAC
* * *
3798253 GCCACTAAAGATTAAGCCGAACGACGTCGTTTATTGCGAGCTTCGGTAGCAATAGCGGCGCTTCA
66 GCCACTAAAGATTAAGCAGAACGACGTCGTTTATTGCGAGCTTCAGTAGCAATAGCGACGCTTCA
*
3798318 CCAAAACGCCGCTATAGGTTTGA
131 CCAAAACGCCGCTATAGGATTGA
* *
3798341 GTATTAGCAGTGTTTTTAAGGAAGCGCCGCTATAGGTCGA-CTTATAGCGGCGTTTGTACAAAAA
1 GTATTAGCAGCGTTTTTAAGAAAGCGCCGCTATAGGTCGATC-TATAGCGGCGTTTGTACAAAAA
** * * * *
3798405 CGCTGCTAAAAGATTAAGCAGAACGGCGTCGTTTATT-CTGAGCTTTAGTGGCAATAGCGACGTT
65 CGCCACT-AAAGATTAAGCAGAACGACGTCGTTTATTGC-GAGCTTCAGTAGCAATAGCGACGCT
3798469 TC-CTCAAAAACGCCGCTATA-GATTGA
128 TCAC-C-AAAACGCCGCTATAGGATTGA
*
3798495 GTATTAGCGGCGCTTTTTCAA-AAA-CGCCGCTA
1 GTATTAGCAGCG-TTTTT-AAGAAAGCGCCGCTA
3798527 AGGATTTGGG
Statistics
Matches: 157, Mismatches: 22, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
152 1 0.01
153 60 0.38
154 73 0.46
155 21 0.13
156 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.28
Consensus pattern (153 bp):
GTATTAGCAGCGTTTTTAAGAAAGCGCCGCTATAGGTCGATCTATAGCGGCGTTTGTACAAAAAC
GCCACTAAAGATTAAGCAGAACGACGTCGTTTATTGCGAGCTTCAGTAGCAATAGCGACGCTTCA
CCAAAACGCCGCTATAGGATTGA
Found at i:3798516 original size:40 final size:41
Alignment explanation
Indices: 3798472--3798616 Score: 150
Period size: 43 Copynumber: 3.5 Consensus size: 41
3798462 CGACGTTTCC
*
3798472 TCAAAAACGCCGCTATAGA-TTGAGTATTAGCGGCGCTTTT
1 TCAAAAACGCCGCTATAGATTTGAGTTTTAGCGGCGCTTTT
* * *
3798512 TCAAAAACGCCGCTA-AGGATTTGGGTTTTAGTGGCGTTTTT
1 TCAAAAACGCCGCTATA-GATTTGAGTTTTAGCGGCGCTTTT
* * *
3798553 ATAAAAAAAGGCCGCAATAGATTTGAGTTTTAGCGGCGCTTATT
1 -T-CAAAAACGCCGCTATAGATTTGAGTTTTAGCGGCGCTT-TT
** *
3798597 GGAAAAACGCCACTATAGAT
1 TCAAAAACGCCGCTATAGAT
3798617 GTAAACTATT
Statistics
Matches: 84, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
39 1 0.01
40 17 0.20
41 17 0.20
42 16 0.19
43 30 0.36
44 3 0.04
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (41 bp):
TCAAAAACGCCGCTATAGATTTGAGTTTTAGCGGCGCTTTT
Found at i:3799449 original size:23 final size:23
Alignment explanation
Indices: 3799423--3799471 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
3799413 AGGTTTATGC
*
3799423 ATGGTTTAGGGTATATATGGTTT
1 ATGGTTTAGGGTATATATGGATT
* *
3799446 ATGGTTTATGGTTTATATGGATT
1 ATGGTTTAGGGTATATATGGATT
3799469 ATG
1 ATG
3799472 ACGAGTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (23 bp):
ATGGTTTAGGGTATATATGGATT
Found at i:3799465 original size:16 final size:17
Alignment explanation
Indices: 3799408--3799454 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
3799398 TATTATTATA
3799408 GTTTAAGGTTTATGCATG
1 GTTTAAGGTTTAT-CATG
* *
3799426 GTTTAGGGTATAT-ATG
1 GTTTAAGGTTTATCATG
*
3799442 GTTTATGGTTTAT
1 GTTTAAGGTTTAT
3799455 GGTTTATATG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 14 0.56
18 11 0.44
ACGTcount: A:0.21, C:0.02, G:0.28, T:0.49
Consensus pattern (17 bp):
GTTTAAGGTTTATCATG
Found at i:3799471 original size:7 final size:7
Alignment explanation
Indices: 3799423--3799461 Score: 51
Period size: 7 Copynumber: 5.3 Consensus size: 7
3799413 AGGTTTATGC
3799423 ATGGTTT
1 ATGGTTT
*
3799430 AGGGTATAT
1 ATGGT-T-T
3799439 ATGGTTT
1 ATGGTTT
3799446 ATGGTTT
1 ATGGTTT
3799453 ATGGTTT
1 ATGGTTT
3799460 AT
1 AT
3799462 ATGGATTATG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 21 0.75
8 2 0.07
9 5 0.18
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.51
Consensus pattern (7 bp):
ATGGTTT
Found at i:3799634 original size:8 final size:7
Alignment explanation
Indices: 3799621--3799759 Score: 53
Period size: 7 Copynumber: 19.3 Consensus size: 7
3799611 AATGGCTAAA
3799621 GGTTTAG
1 GGTTTAG
3799628 GGATTTAG
1 GG-TTTAG
*
3799636 GGTTTAT
1 GGTTTAG
*
3799643 AGTTTAG
1 GGTTTAG
* *
3799650 GGGTTAA
1 GGTTTAG
** *
3799657 CATTTAAA
1 GGTTT-AG
*
3799665 GGTTAAG
1 GGTTTAG
3799672 GGTTTAG
1 GGTTTAG
*
3799679 GGTTAAG
1 GGTTTAG
** *
3799686 GGGATAT
1 GGTTTAG
3799693 GGTTTAG
1 GGTTTAG
* *
3799700 GGATTAA
1 GGTTTAG
* *
3799707 TGTTTAA
1 GGTTTAG
*
3799714 AGTTTAG
1 GGTTTAG
*
3799721 GGATTAAG
1 GG-TTTAG
*
3799729 GGTTTAT
1 GGTTTAG
*
3799736 GGTTTAA
1 GGTTTAG
*
3799743 GGTTCAAG
1 GGTT-TAG
3799751 GGTTTAG
1 GGTTTAG
3799758 GG
1 GG
3799760 GTTAATGGGA
Statistics
Matches: 92, Mismatches: 36, Indels: 8
0.68 0.26 0.06
Matches are distributed among these distances:
7 70 0.76
8 22 0.24
ACGTcount: A:0.26, C:0.01, G:0.35, T:0.38
Consensus pattern (7 bp):
GGTTTAG
Found at i:3799759 original size:29 final size:28
Alignment explanation
Indices: 3799693--3799766 Score: 69
Period size: 29 Copynumber: 2.6 Consensus size: 28
3799683 AAGGGGATAT
*
3799693 GGTTTAGGGATTAATGTTTAAAGTTTAG
1 GGTTTAGGGATTAATGTTTAAAGTTAAG
* * *
3799721 GGATTAAGGG-TTTATGGTTTAAGGTTCAAG
1 GG-TTTAGGGATTAAT-GTTTAAAGTT-AAG
*
3799751 GGTTTAGGGGTTAATG
1 GGTTTAGGGATTAATG
3799767 GGACATGATT
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
28 6 0.17
29 22 0.61
30 8 0.22
ACGTcount: A:0.26, C:0.01, G:0.34, T:0.39
Consensus pattern (28 bp):
GGTTTAGGGATTAATGTTTAAAGTTAAG
Found at i:3799791 original size:80 final size:79
Alignment explanation
Indices: 3799663--3799853 Score: 258
Period size: 80 Copynumber: 2.4 Consensus size: 79
3799653 TTAACATTTA
* *
3799663 AAGGTTAAGGGTTTA-GGGTTAAGGGGATATGGTTTAGGGATTAATGTTTAAAGTTTAGGGATTA
1 AAGGTTAAGGGTTTAGGGGTTAAGGGGACATGATTTAGGGATTAATGTTTAAAGTTTAGGGATTA
*
3799727 AGGGTTTATGGTTT
66 AGGGTTAATGGTTT
* * * *
3799741 AAGGTTCAAGGGTTTAGGGGTTAATGGGACATGATTTAGGGTTTAGTGTTTAAATTTTAGGGATT
1 AAGGTT-AAGGGTTTAGGGGTTAAGGGGACATGATTTAGGGATTAATGTTTAAAGTTTAGGGATT
3799806 AAGGGTTAATGGTTT
65 AAGGGTTAATGGTTT
* * * *
3799821 AGGGTTGAGGGGTTGAGGGATTAAGGGGACATG
1 AAGGTT-AAGGGTTTAGGGGTTAAGGGGACATG
3799854 GGTTAAGGGT
Statistics
Matches: 98, Mismatches: 13, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
78 6 0.06
79 9 0.09
80 83 0.85
ACGTcount: A:0.26, C:0.02, G:0.37, T:0.36
Consensus pattern (79 bp):
AAGGTTAAGGGTTTAGGGGTTAAGGGGACATGATTTAGGGATTAATGTTTAAAGTTTAGGGATTA
AGGGTTAATGGTTT
Found at i:3799887 original size:80 final size:78
Alignment explanation
Indices: 3799663--3799887 Score: 179
Period size: 80 Copynumber: 2.8 Consensus size: 78
3799653 TTAACATTTA
* * * * * * *
3799663 AAGGTT-AAGGGTTTAGGG-TTAAGGGGATATGGTTTAGGGATTAATGTT-TAAAGTTTAGGGAT
1 AAGGTTCAAGGGTTGAGGGATTAAGGGGACATGATTAAGGGTTTAGTGTTAAAAAG-TTA--GAT
*
3799725 TAAGGGTTTATGGTTT
63 TAAGGGTTAATGGTTT
* * * * * **
3799741 AAGGTTCAAGGGTTTAGGGGTTAATGGGACATGATTTAGGGTTTAGTGTTTAAATTTTAGGGATT
1 AAGGTTCAAGGGTTGAGGGATTAAGGGGACATGATTAAGGGTTTAGTGTTAAAAAGTTA--GATT
3799806 AAGGGTTAATGGTTT
64 AAGGGTTAATGGTTT
* * * *
3799821 AGGGTTGAGGGGTTGAGGGATTAAGGGGACATGGGTTAAGGGTAATTAGTGTTAAAAAGTTA-AT
1 AAGGTTCAAGGGTTGAGGGATTAAGGGGACAT-GATTAAGGGT--TTAGTGTTAAAAAGTTAGAT
3799885 TAA
63 TAA
3799888 AATTTGAAAT
Statistics
Matches: 121, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
78 6 0.05
79 12 0.10
80 79 0.65
81 10 0.08
83 14 0.12
ACGTcount: A:0.28, C:0.01, G:0.35, T:0.36
Consensus pattern (78 bp):
AAGGTTCAAGGGTTGAGGGATTAAGGGGACATGATTAAGGGTTTAGTGTTAAAAAGTTAGATTAA
GGGTTAATGGTTT
Found at i:3800167 original size:16 final size:17
Alignment explanation
Indices: 3800136--3800171 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
3800126 CTATATAACT
3800136 TATTGTTTTTTAATTTA
1 TATTGTTTTTTAATTTA
3800153 TATTGTTTTTT-ATTTA
1 TATTGTTTTTTAATTTA
3800169 TAT
1 TAT
3800172 ATAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (17 bp):
TATTGTTTTTTAATTTA
Found at i:3803215 original size:64 final size:64
Alignment explanation
Indices: 3803124--3803485 Score: 633
Period size: 64 Copynumber: 5.7 Consensus size: 64
3803114 TAATATTTCT
* *
3803124 ATATTTCTATCACAATTTTTAATAAATTTATTTATTGATATAATATGTCCCATCTAATATACAA
1 ATATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAA
* * *
3803188 ATATTTCTATCACGATTTTTAATAAATTTATTTATTGATATAATATGTCTCATCTAATATATAA
1 ATATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAA
* *
3803252 ATATTTCTATCACGATTTTTAATAAATTTATTTATTGATATAATATGTCTCATCTAATATACAA
1 ATATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAA
3803316 ATATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGT---ATCTAATATACAA
1 ATATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAA
3803377 ATATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAA
1 ATATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAA
3803441 ATATTTCTATCACGA-TTTTAATAAATTTATTTATTAATATAATAT
1 ATATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATAT
3803486 CAATAACATC
Statistics
Matches: 290, Mismatches: 5, Indels: 7
0.96 0.02 0.02
Matches are distributed among these distances:
61 61 0.21
63 30 0.10
64 199 0.69
ACGTcount: A:0.39, C:0.10, G:0.04, T:0.47
Consensus pattern (64 bp):
ATATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAA
Found at i:3803409 original size:189 final size:189
Alignment explanation
Indices: 3803124--3803485 Score: 636
Period size: 189 Copynumber: 1.9 Consensus size: 189
3803114 TAATATTTCT
*
3803124 ATATTTCTATCACAATTTTTAATAAATTTATTTATTGATATAATATGTCCCATCTAATATACAAA
1 ATATTTCTATCACAATTTTTAATAAATTTATTTATTAATATAATATGT--CATCTAATATACAAA
* * *
3803189 TATTTCTATCACGATTTTTAATAAATTTATTTATTGATATAATATGTCTCATCTAATATATAAAT
64 TATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAAAT
*
3803254 ATTTCTATCACGATTTTTAATAAATTTATTTATTGATATAATATGTCTCATCTAATATACAA
129 ATTTCTATCACGA-TTTTAATAAATTTATTTATTAATATAATATGTCTCATCTAATATACAA
*
3803316 ATATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGT-ATCTAATATACAAATA
1 ATATTTCTATCACAATTTTTAATAAATTTATTTATTAATATAATATGTCATCTAATATACAAATA
3803380 TTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAAATAT
66 TTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAAATAT
3803445 TTCTATCACGATTTTAATAAATTTATTTATTAATATAATAT
131 TTCTATCACGATTTTAATAAATTTATTTATTAATATAATAT
3803486 CAATAACATC
Statistics
Matches: 164, Mismatches: 6, Indels: 4
0.94 0.03 0.02
Matches are distributed among these distances:
188 29 0.18
189 89 0.54
192 46 0.28
ACGTcount: A:0.39, C:0.10, G:0.04, T:0.47
Consensus pattern (189 bp):
ATATTTCTATCACAATTTTTAATAAATTTATTTATTAATATAATATGTCATCTAATATACAAATA
TTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAAATAT
TTCTATCACGATTTTAATAAATTTATTTATTAATATAATATGTCTCATCTAATATACAA
Found at i:3804670 original size:9 final size:9
Alignment explanation
Indices: 3804647--3804691 Score: 54
Period size: 9 Copynumber: 5.0 Consensus size: 9
3804637 ATTGATCATT
*
3804647 ACTTAAATA
1 ACTTACATA
*
3804656 AATTACATA
1 ACTTACATA
3804665 ACTTACATA
1 ACTTACATA
* *
3804674 ACTCATATA
1 ACTTACATA
3804683 ACTTACATA
1 ACTTACATA
3804692 GGCTTCGTGA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (9 bp):
ACTTACATA
Found at i:3805045 original size:147 final size:146
Alignment explanation
Indices: 3804825--3805169 Score: 379
Period size: 147 Copynumber: 2.4 Consensus size: 146
3804815 CCAACCTTTG
* * * * * ** ** * *
3804825 AAAAAGGTTGTGATAAAGCTGTCTAAGACAACCTTAAAAAGGTCAATATAGTTCTTGTTTAAGAC
1 AAAAAGGTTGGGATAGACCTGTCTAAGGCAACCTTAAAAAGGTTAGGATAGACCATGTCTAAGAC
* * * * * *
3804890 AACTTTTAAAAACGGTTGGGATAGAGC-CGTCTAAAGCAACCTTAAAAAGGTTGGGATCGA-CAT
66 AACCTTTAAAAAAGGTCGGAATAGA-CTCGTCTAAAGCAACCTTAAAAAGGTTGGAATAGACCA-
3804953 TGTCTAAAACAACCTATAA
129 TGTCT-AAACAACCTATAA
* * *
3804972 AAAAAGGTTGGGATTGACCTGTCTAAGGCAACCTTAAACAGGTTAGGATAGACCATGTCTAAGGC
1 AAAAAGGTTGGGATAGACCTGTCTAAGGCAACCTTAAAAAGGTTAGGATAGACCATGTCTAAGAC
*
3805037 AACCTTTAAAAAAGGTCGGAATAGACTCGTCTAAGGCAACCTTAAAAAGGTTGGAATAGACCATG
66 AACCTTTAAAAAAGGTCGGAATAGACTCGTCTAAAGCAACCTTAAAAAGGTTGGAATAGACCATG
*** * * *
3805102 TCTAAGGTAGCTTTTA
131 TCTAAACAACCTATAA
* * *
3805118 AAAAAGGTTGGGATAGACCTGTTTAAAGCAACCTTAAAAAGGTTGGGATAGA
1 AAAAAGGTTGGGATAGACCTGTCTAAGGCAACCTTAAAAAGGTTAGGATAGA
3805170 TATTATTTAA
Statistics
Matches: 164, Mismatches: 32, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
146 55 0.34
147 107 0.65
148 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (146 bp):
AAAAAGGTTGGGATAGACCTGTCTAAGGCAACCTTAAAAAGGTTAGGATAGACCATGTCTAAGAC
AACCTTTAAAAAAGGTCGGAATAGACTCGTCTAAAGCAACCTTAAAAAGGTTGGAATAGACCATG
TCTAAACAACCTATAA
Found at i:3805193 original size:73 final size:73
Alignment explanation
Indices: 3804784--3805209 Score: 362
Period size: 73 Copynumber: 5.8 Consensus size: 73
3804774 ATGCCGACCT
* * * * * * *
3804784 TTAAAAAGGGTTGGGATAGACCTAGT-TAAGACCAACCTTTGAAAAAGGTTGTGATAAAGCTGTC
1 TTAAAAA-GGTTGGGATAGACATTGTCTAA-AACAACCTTTAAAAAAGGTTGGGATAGACCTGTC
3804848 T-AAGACAACC
64 TAAAG-CAACC
**** * * * * *
3804858 TTAAAAAGGTCAATATAGTTC-TTGTTTAAGACAACTTTTAAAAACGGTTGGGATAGAGCC-GTC
1 TTAAAAAGGTTGGGATAG-ACATTGTCTAAAACAACCTTTAAAAAAGGTTGGGATAGA-CCTGTC
3804921 TAAAGCAACC
64 TAAAGCAACC
* * *
3804931 TTAAAAAGGTTGGGATCGACATTGTCTAAAACAACCTATAAAAAAAGGTTGGGATTGACCTGTCT
1 TTAAAAAGGTTGGGATAGACATTGTCTAAAACAACCT-TTAAAAAAGGTTGGGATAGACCTGTCT
*
3804996 AAGGCAACC
65 AAAGCAACC
* * ** * *
3805005 TTAAACAGGTTAGGATAGACCA-TGTCTAAGGCAACCTTTAAAAAAGGTCGGAATAGA-CTCGTC
1 TTAAAAAGGTTGGGATAGA-CATTGTCTAAAACAACCTTTAAAAAAGGTTGGGATAGACCT-GTC
*
3805068 TAAGGCAACC
64 TAAAGCAACC
* *** * * *
3805078 TTAAAAAGGTTGGAATAGACCA-TGTCTAAGGTAGCTTTTAAAAAAGGTTGGGATAGACCTGTTT
1 TTAAAAAGGTTGGGATAGA-CATTGTCTAAAACAACCTTTAAAAAAGGTTGGGATAGACCTGTCT
3805142 AAAGCAACC
65 AAAGCAACC
* * * * *
3805151 TTAAAAAGGTTGGGATAGATATTATTTAAAACAACCTATAAAAAAAGATTGGGATAGAC
1 TTAAAAAGGTTGGGATAGACATTGTCTAAAACAACCT-TTAAAAAAGGTTGGGATAGAC
3805210 ACGTATAATA
Statistics
Matches: 283, Mismatches: 57, Indels: 24
0.78 0.16 0.07
Matches are distributed among these distances:
72 4 0.01
73 183 0.65
74 94 0.33
75 2 0.01
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (73 bp):
TTAAAAAGGTTGGGATAGACATTGTCTAAAACAACCTTTAAAAAAGGTTGGGATAGACCTGTCTA
AAGCAACC
Found at i:3805347 original size:6 final size:6
Alignment explanation
Indices: 3805315--3805358 Score: 52
Period size: 6 Copynumber: 6.8 Consensus size: 6
3805305 ATACAACTAA
*
3805315 AAAATTT AAAATTT AAAATAC AAAATT AAAATT AAAATT AAAAT
1 AAAA-TT AAAA-TT AAAAT-T AAAATT AAAATT AAAATT AAAAT
3805359 AAAGATTGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
6 18 0.53
7 16 0.47
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (6 bp):
AAAATT
Found at i:3809298 original size:64 final size:64
Alignment explanation
Indices: 3809225--3809435 Score: 151
Period size: 64 Copynumber: 3.2 Consensus size: 64
3809215 CTGGGCCAGA
*
3809225 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTTAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTTAGATAACAGTATGGCCCATAG
* * * *** * * *
3809289 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTTAGATAACA---GT
* *
3809351 ACTGGGCCAGA-
54 A-TGGCCCATAG
* *
3809362 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTTAGATAACAGTATGGCCCATAG
3809426 GCCCATTTCA
1 GCCCATTTCA
3809436 AAATACATGC
Statistics
Matches: 104, Mismatches: 26, Indels: 34
0.63 0.16 0.21
Matches are distributed among these distances:
63 9 0.09
64 25 0.24
65 5 0.05
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 12 0.12
71 1 0.01
72 5 0.05
73 16 0.15
74 9 0.09
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTTAGATAACAGTATGGCCCATAG
Found at i:3809437 original size:137 final size:137
Alignment explanation
Indices: 3809191--3809477 Score: 547
Period size: 137 Copynumber: 2.1 Consensus size: 137
3809181 TATTGGGCCT
*
3809191 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
3809256 AGCCCCTTATTTAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
3809321 CATATGC
131 CATATGC
*
3809328 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
3809393 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
3809458 CATATGC
131 CATATGC
3809465 AAGCCCATTTAGG
1 AAGCCCATTTAGG
3809478 GAGACTACTC
Statistics
Matches: 146, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 146 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:3809762 original size:25 final size:27
Alignment explanation
Indices: 3809725--3809778 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
3809715 CCAAACATGC
3809725 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
3809751 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
3809777 AT
1 AT
3809779 AACAGTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:3809786 original size:26 final size:27
Alignment explanation
Indices: 3809742--3809817 Score: 82
Period size: 26 Copynumber: 2.8 Consensus size: 27
3809732 TCAATTTAAC
* * *
3809742 CCTAGGGGTATTTCGGTAATTTTGC-A
1 CCTAGGGGTATTACAGTAATTTTCCAA
*
3809768 CCTAGGGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATTACAGTAATTTTCCA-A
* *
3809796 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATTACAGTAATTT
3809818 AGCTACTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 21 0.51
28 20 0.49
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (27 bp):
CCTAGGGGTATTACAGTAATTTTCCAA
Found at i:3811298 original size:26 final size:26
Alignment explanation
Indices: 3811261--3811396 Score: 220
Period size: 26 Copynumber: 5.2 Consensus size: 26
3811251 CATGAATTTC
*
3811261 TTATCATGAAACATTTACCTAA-CTCA
1 TTATCATGGAACATTTACCTAACCT-A
** *
3811287 TTATCATAAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
3811313 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
3811339 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
3811365 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
3811391 TTATCA
1 TTATCA
3811397 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
26 103 0.99
27 1 0.01
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:3812770 original size:24 final size:24
Alignment explanation
Indices: 3812743--3812794 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
3812733 CATGAAATAC
3812743 TAAAGAAATATATAACAAATAACA
1 TAAAGAAATATATAACAAATAACA
* * **
3812767 TAAAGATATATGTATGAAATAACA
1 TAAAGAAATATATAACAAATAACA
3812791 TAAA
1 TAAA
3812795 ACATACGAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.62, C:0.06, G:0.08, T:0.25
Consensus pattern (24 bp):
TAAAGAAATATATAACAAATAACA
Found at i:3813215 original size:12 final size:13
Alignment explanation
Indices: 3813198--3813234 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
3813188 TGTATAATGC
3813198 TAATAATAT-TAA
1 TAATAATATATAA
3813210 TAATAA-ATATAA
1 TAATAATATATAA
3813222 TAATAGATATATA
1 TAATA-ATATATA
3813235 TGCATAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 2 0.09
12 14 0.64
13 1 0.05
14 5 0.23
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (13 bp):
TAATAATATATAA
Found at i:3813306 original size:22 final size:19
Alignment explanation
Indices: 3813280--3813319 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 19
3813270 ATATATAGCT
3813280 AAATATAATACAATAATAATAA
1 AAATAT-ATA-AA-AATAATAA
3813302 AAATATATAAAAATAATA
1 AAATATATAAAAATAATA
3813320 GTGATAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 2 0.11
21 3 0.17
22 6 0.33
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (19 bp):
AAATATATAAAAATAATAA
Found at i:3813867 original size:19 final size:20
Alignment explanation
Indices: 3813832--3813870 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
3813822 GAAGAAAAAA
3813832 AAGAGAGAAGAAGGGAGAGG
1 AAGAGAGAAGAAGGGAGAGG
*
3813852 AAGAGA-AAGGAGGGAGAGG
1 AAGAGAGAAGAAGGGAGAGG
3813871 GGAAGAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (20 bp):
AAGAGAGAAGAAGGGAGAGG
Found at i:3818551 original size:15 final size:15
Alignment explanation
Indices: 3818533--3818562 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3818523 TAGATCGGCA
3818533 AAAGACGAAAAGCCG
1 AAAGACGAAAAGCCG
*
3818548 AAAGCCGAAAAGCCG
1 AAAGACGAAAAGCCG
3818563 GTATTTTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.23, G:0.27, T:0.00
Consensus pattern (15 bp):
AAAGACGAAAAGCCG
Found at i:3819214 original size:20 final size:21
Alignment explanation
Indices: 3819171--3819216 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
3819161 ACTGTTTTGT
3819171 TATGGG-CCAACTATATTGAA
1 TATGGGCCCAACTATATTGAA
*
3819191 -ATGGGCCCAACTATGTT-AA
1 TATGGGCCCAACTATATTGAA
3819210 TATGGGC
1 TATGGGC
3819217 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTATATTGAA
Found at i:3819288 original size:60 final size:59
Alignment explanation
Indices: 3819209--3819345 Score: 161
Period size: 60 Copynumber: 2.3 Consensus size: 59
3819199 AACTATGTTA
* *
3819209 ATATGGGCAAGGCCCAATATA-TCTCGACT-TGTAATAGGGCTACGGCCCAGATTGATACTG
1 ATATGGGCTAGGCCCAATATACTCT-GA-TATGTAA-AGGGCTACGGCCCAGATTAATACTG
* * * *
3819269 ATATGGGCTAGGCCTAATATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCTAGGCCCAATATACTCTGATA-TGTAAAGGGCTACGGCCCAGATTAATACTG
3819329 ATATGGGCTAAGGCCCA
1 ATATGGGCT-AGGCCCA
3819346 GTTAACACTG
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
59 1 0.02
60 51 0.77
61 14 0.21
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (59 bp):
ATATGGGCTAGGCCCAATATACTCTGATATGTAAAGGGCTACGGCCCAGATTAATACTG
Found at i:3822006 original size:22 final size:22
Alignment explanation
Indices: 3821981--3822024 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
3821971 AGATTAATCG
3821981 CAAACCCATAATCACAAAACCC
1 CAAACCCATAATCACAAAACCC
* *
3822003 CAAATCCATAATCATAAAACCC
1 CAAACCCATAATCACAAAACCC
3822025 TAAAATCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.36, G:0.00, T:0.14
Consensus pattern (22 bp):
CAAACCCATAATCACAAAACCC
Found at i:3822034 original size:22 final size:22
Alignment explanation
Indices: 3821986--3822035 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
3821976 AATCGCAAAC
*
3821986 CCATAATCACAAAACCCCAAAT
1 CCATAATCACAAAACCCAAAAT
*
3822008 CCATAATCATAAAACCCTAAAAT
1 CCATAATCACAAAACCC-AAAAT
3822031 -CATAA
1 CCATAA
3822036 ACCCCAAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 21 0.84
23 4 0.16
ACGTcount: A:0.52, C:0.30, G:0.00, T:0.18
Consensus pattern (22 bp):
CCATAATCACAAAACCCAAAAT
Found at i:3822607 original size:26 final size:26
Alignment explanation
Indices: 3822568--3822703 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
3822558 TGATACAAAT
* *
3822568 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
3822594 TGGTAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
3822620 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
3822646 TGATAATGGGTTAGGTAAATTTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
3822672 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
3822698 TGATAA
1 TGATAA
3822704 GAATACCATG
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 102 1.00
ACGTcount: A:0.32, C:0.04, G:0.25, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:3824217 original size:26 final size:26
Alignment explanation
Indices: 3824188--3824240 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
3824178 TTTACAGTTT
3824188 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
3824214 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
3824240 T
1 T
3824241 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:3828463 original size:25 final size:26
Alignment explanation
Indices: 3828396--3828504 Score: 181
Period size: 26 Copynumber: 4.3 Consensus size: 26
3828386 TTTAGGTATG
*
3828396 TCATGGTAAT-GGTTAGGTAAATG-T
1 TCATGATAATGGGTTAGGTAAATGTT
3828420 TCATGATAA-GGGTTAGGTAAATG-T
1 TCATGATAATGGGTTAGGTAAATGTT
3828444 TCATGATAATGGGTTAGGTAAATGTT
1 TCATGATAATGGGTTAGGTAAATGTT
3828470 TCATGATAATGGGTTAGGTAAATGTT
1 TCATGATAATGGGTTAGGTAAATGTT
3828496 TCATGATAA
1 TCATGATAA
3828505 GAATTCATGT
Statistics
Matches: 81, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
24 31 0.38
25 14 0.17
26 36 0.44
ACGTcount: A:0.32, C:0.05, G:0.27, T:0.37
Consensus pattern (26 bp):
TCATGATAATGGGTTAGGTAAATGTT
Found at i:3830015 original size:26 final size:26
Alignment explanation
Indices: 3829986--3830038 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
3829976 TTTACAGTTT
3829986 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
3830012 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
3830038 T
1 T
3830039 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:3832830 original size:26 final size:26
Alignment explanation
Indices: 3832801--3832910 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
3832791 TGGTACAAAT
3832801 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
3832827 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
3832853 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* * *
3832879 TGATAATGGGTTAGGTAGATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
3832905 TGATAA
1 TGATAA
3832911 GAATTTCATG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:3836167 original size:26 final size:26
Alignment explanation
Indices: 3836131--3836214 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
3836121 CATGAAATTC
3836131 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
3836157 TTATTATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
3836183 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
3836209 TTATCA
1 TTATCA
3836215 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:3841930 original size:3 final size:3
Alignment explanation
Indices: 3841917--3841995 Score: 52
Period size: 3 Copynumber: 25.3 Consensus size: 3
3841907 CCGGTCATTT
* **
3841917 TTA TATA TTA TTA TTG TTA TTA ACA -TA TTA TTA TTA TTA TTA TTAA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A
* * * *
3841963 TGTA TTG TTA CTC TCTA TTA CTA TTA TTA TTA T
1 T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
3841996 CTTAGTATTA
Statistics
Matches: 58, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
2 1 0.02
3 47 0.81
4 9 0.16
5 1 0.02
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:3841946 original size:20 final size:20
Alignment explanation
Indices: 3841921--3841958 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
3841911 TCATTTTTAT
*
3841921 ATATTATTATTGTTATTAAC
1 ATATTATTATTATTATTAAC
3841941 ATATTATTATTATTATTA
1 ATATTATTATTATTATTA
3841959 TTAATGTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.58
Consensus pattern (20 bp):
ATATTATTATTATTATTAAC
Found at i:3842216 original size:3 final size:3
Alignment explanation
Indices: 3842210--3842260 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
3842200 TTGTTGTGTC
3842210 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
3842258 ATT
1 ATT
3842261 TATTTTAATT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Done.