Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008591.1 Hibiscus syriacus cultivar Beakdansim tig00111540_pilon, whole genome shotgun sequence
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: 1730314
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 4 of 8
Found at i:606569 original size:29 final size:31
Alignment explanation
Indices: 606537--606596 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
606527 AAATTTTGAA
*
606537 TAAATTCAATT-AAGTCCAAATA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
606566 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
606597 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.35
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:609730 original size:21 final size:21
Alignment explanation
Indices: 609704--609745 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
609694 CCAGAATGGG
*
609704 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
*
609725 GGGAATCGATACTCCTTCATA
1 GGGAATCGATACCCCTTCATA
609746 ATATTCAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:609892 original size:18 final size:19
Alignment explanation
Indices: 609850--609915 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
609840 AAGCCTCGGG
* * *
609850 TTACTGTTCAAACAGTGAT
1 TTACTGTTCAAATAGTAAA
609869 TTACTGTTCAAATAGT-AA
1 TTACTGTTCAAATAGTAAA
609887 TTACTGTTCAAATAGTAAA
1 TTACTGTTCAAATAGTAAA
*
609906 TTACTATTCA
1 TTACTGTTCA
609916 TAAAAACATT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
18 17 0.40
19 26 0.60
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (19 bp):
TTACTGTTCAAATAGTAAA
Found at i:610012 original size:29 final size:31
Alignment explanation
Indices: 609980--610039 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
609970 AAATTTTGAA
*
609980 TAAATTCAATT-AAGTCCAAATA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
610009 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
610040 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.35
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:610938 original size:38 final size:38
Alignment explanation
Indices: 610886--610981 Score: 147
Period size: 38 Copynumber: 2.5 Consensus size: 38
610876 CTCGCATAAA
* *
610886 TGTCCCGAATGACCTATCATCCCGAAGGATATCATCTG
1 TGTCCCGAAGGACCTATCATCCCGAAGGATATAATCTG
* *
610924 TGTCCCGAAGGACCTGTCATCCCGAAGGATGTAATCTG
1 TGTCCCGAAGGACCTATCATCCCGAAGGATATAATCTG
*
610962 TGTCCCGTAGGACCTATCAT
1 TGTCCCGAAGGACCTATCAT
610982 ATGTCTTATA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 52 1.00
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (38 bp):
TGTCCCGAAGGACCTATCATCCCGAAGGATATAATCTG
Found at i:616288 original size:13 final size:12
Alignment explanation
Indices: 616266--616305 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
616256 AAAACCCGAC
616266 CCGACCCGTTGA
1 CCGACCCGTTGA
*
616278 TCCGACTCGTTGA
1 -CCGACCCGTTGA
616291 CCTGACCCGTTGA
1 CC-GACCCGTTGA
616304 CC
1 CC
616306 ACTAATGACC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 2 0.08
13 22 0.92
ACGTcount: A:0.15, C:0.40, G:0.23, T:0.23
Consensus pattern (12 bp):
CCGACCCGTTGA
Found at i:618789 original size:24 final size:24
Alignment explanation
Indices: 618762--618849 Score: 88
Period size: 24 Copynumber: 3.7 Consensus size: 24
618752 ATTTCCGACT
*
618762 TGAATTCTGTTCTGATATATGACC
1 TGAATTCTGTTCTGATATATGATC
* *
618786 TGAATTCTGTTTTGATTTCA-GATC
1 TGAATTCTGTTCTGATAT-ATGATC
* * *
618810 TGGATTCTTTTCTGATATATGTTC
1 TGAATTCTGTTCTGATATATGATC
* *
618834 TGAATTCGGTTTTGAT
1 TGAATTCTGTTCTGAT
618850 TTCTGATATC
Statistics
Matches: 50, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
23 1 0.02
24 48 0.96
25 1 0.02
ACGTcount: A:0.20, C:0.12, G:0.18, T:0.49
Consensus pattern (24 bp):
TGAATTCTGTTCTGATATATGATC
Found at i:619023 original size:2 final size:2
Alignment explanation
Indices: 619016--619051 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
619006 GGGATGGGGG
619016 TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
619052 GTGTGTGTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:619038 original size:17 final size:17
Alignment explanation
Indices: 619016--619049 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
619006 GGGATGGGGG
619016 TATATATATATATATAT
1 TATATATATATATATAT
619033 TATATATATATATATAT
1 TATATATATATATATAT
619050 ATGTGTGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATATATATATATATAT
Found at i:619056 original size:2 final size:2
Alignment explanation
Indices: 619051--619091 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
619041 TATATATATA
619051 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
619092 TTTAAAAGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:620949 original size:18 final size:18
Alignment explanation
Indices: 620926--620966 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
620916 ACCGATCACA
620926 ACCCGACCCATTGACCCG
1 ACCCGACCCATTGACCCG
* *
620944 ACCCGATCCGTTGACCCG
1 ACCCGACCCATTGACCCG
620962 ACCCG
1 ACCCG
620967 TTGACCGTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.20, C:0.49, G:0.20, T:0.12
Consensus pattern (18 bp):
ACCCGACCCATTGACCCG
Found at i:620959 original size:13 final size:13
Alignment explanation
Indices: 620943--620972 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
620933 CCATTGACCC
*
620943 GACCCGATCCGTT
1 GACCCGACCCGTT
620956 GACCCGACCCGTT
1 GACCCGACCCGTT
620969 GACC
1 GACC
620973 GTTGACCGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.43, G:0.23, T:0.17
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:623477 original size:24 final size:24
Alignment explanation
Indices: 623450--623506 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
623440 AAATATTTTA
623450 TCTGATTTCCGACATGAATTATGT
1 TCTGATTTCCGACATGAATTATGT
* ** * *
623474 TCTGATATATGACCTGAATTCTGT
1 TCTGATTTCCGACATGAATTATGT
623498 TCTGATTTC
1 TCTGATTTC
623507 TGATCTAGAT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.23, C:0.18, G:0.16, T:0.44
Consensus pattern (24 bp):
TCTGATTTCCGACATGAATTATGT
Found at i:623518 original size:24 final size:24
Alignment explanation
Indices: 623464--623558 Score: 68
Period size: 24 Copynumber: 4.0 Consensus size: 24
623454 ATTTCCGACA
* * * * *
623464 TGAATTATGTTCTGATATATGACC
1 TGAATTCTGTTATGATTTCTGATC
*
623488 TGAATTCTGTTCTGATTTCTGATC
1 TGAATTCTGTTATGATTTCTGATC
* *
623512 T-AGATTCTATTATGATATCT-ATTC
1 TGA-ATTCTGTTATGATTTCTGA-TC
* *
623536 TGAATTCTGTTTTGATTTTTGAT
1 TGAATTCTGTTATGATTTCTGAT
623559 ATCTCCGTTT
Statistics
Matches: 56, Mismatches: 11, Indels: 8
0.75 0.15 0.11
Matches are distributed among these distances:
23 2 0.04
24 52 0.93
25 2 0.04
ACGTcount: A:0.23, C:0.12, G:0.15, T:0.51
Consensus pattern (24 bp):
TGAATTCTGTTATGATTTCTGATC
Found at i:630504 original size:244 final size:244
Alignment explanation
Indices: 630047--630539 Score: 909
Period size: 244 Copynumber: 2.0 Consensus size: 244
630037 CTTCGAAGGC
630047 ATGAACTGGGCTTTAATCCGTTGTGCGAGTCCACCGGAGATTCCAAAACCGGTTGAGATCGGCGG
1 ATGAACTGGGCTTTAATCCGTTGTGCGAGTCCACCGGAGATTCCAAAACCGGTTGAGATCGGCGG
630112 TTTCCCGCCCCCAGCATCATCAGTGGCAATAAACCTGCTGTTCCTGCTACCAAGGATCAAAATAA
66 TTTCCCGCCCCCAGCATCATCAGTGGCAATAAACCTGCTGTTCCTGCTACCAAGGATCAAAATAA
630177 ATATCTGGAATTTGATTTCTTTTAATTATTCTCACTTCTCAGAACCATTTACCTTTGTTTCTGTT
131 ATATCTGGAATTTGATTTCTTTTAATTATTCTCACTTCTCAGAACCATTTACCTTTGTTTCTGTT
630242 TGTTTGTCTGCCCCCCCCCTCTCATTTCAGAAATGTAG-ATTCATGAAAT
196 TGTTTGTCTG-CCCCCCCCTCTCATTTCAGAAATGTAGAATTCATGAAAT
630291 ATGAACTGGGCTTTAATCCGTTGTGCGAGTCCACCGGAGATTCCAAAACCGGTTGAGATCGGCGG
1 ATGAACTGGGCTTTAATCCGTTGTGCGAGTCCACCGGAGATTCCAAAACCGGTTGAGATCGGCGG
630356 TTTCCCG-CCCCAGCATCATCAGCTGGCAATAAACCTGCTGTTCCTGCTACCAAGGATCAAAATA
66 TTTCCCGCCCCCAGCATCATCAG-TGGCAATAAACCTGCTGTTCCTGCTACCAAGGATCAAAATA
630420 AATATCTGGAATTTGATTTCTTTTAATTATTCTCACTTCTCAGAACCATTTACCTTCTGTTTCTG
130 AATATCTGGAATTTGATTTCTTTTAATTATTCTCACTTCTCAGAACCATTTACCTT-TGTTTCTG
630485 TTTTGTTTGTCTGCCCCCCCCCCCTCTCATTTCAGAAATGTAGAATTCATGAAAT
194 -TTTGTTTGTCTG---CCCCCCCCTCTCATTTCAGAAATGTAGAATTCATGAAAT
630540 GTCGATGATG
Statistics
Matches: 243, Mismatches: 0, Indels: 7
0.97 0.00 0.03
Matches are distributed among these distances:
243 15 0.06
244 169 0.70
245 8 0.03
246 12 0.05
248 28 0.12
249 11 0.05
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (244 bp):
ATGAACTGGGCTTTAATCCGTTGTGCGAGTCCACCGGAGATTCCAAAACCGGTTGAGATCGGCGG
TTTCCCGCCCCCAGCATCATCAGTGGCAATAAACCTGCTGTTCCTGCTACCAAGGATCAAAATAA
ATATCTGGAATTTGATTTCTTTTAATTATTCTCACTTCTCAGAACCATTTACCTTTGTTTCTGTT
TGTTTGTCTGCCCCCCCCTCTCATTTCAGAAATGTAGAATTCATGAAAT
Found at i:632903 original size:2 final size:2
Alignment explanation
Indices: 632896--632941 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
632886 GGGTTAATTG
632896 AT AT 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 AT AT
632938 AT AT
1 AT AT
632942 TAGGGGTGAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:642730 original size:17 final size:17
Alignment explanation
Indices: 642708--642742 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
642698 GCAGATAATA
642708 TATGAGCTAATATGTAT
1 TATGAGCTAATATGTAT
642725 TATGAGCTAATATGTAT
1 TATGAGCTAATATGTAT
642742 T
1 T
642743 TTCAGTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.06, G:0.17, T:0.43
Consensus pattern (17 bp):
TATGAGCTAATATGTAT
Found at i:653504 original size:82 final size:81
Alignment explanation
Indices: 653412--653568 Score: 253
Period size: 82 Copynumber: 1.9 Consensus size: 81
653402 TTTTGTTTGG
* *
653412 AAAAGATGTAAATTGAACTCCTT-AAATTATTTGATAATTTTAATTTAAACCTCTATTTTTTAAA
1 AAAAGATGTAAATTGAACT-CTTCAAATTATTTAAAAATTTTAATTTAAACCTCTATTTTTT-AA
*
653476 AAATTTCAAGTTTGGTGA
64 AAATATCAAGTTTGGTGA
*
653494 AAAAGATGTAAATTGAACTCTTCAAATTATTTAAAAATTTTAATTTAAACCTCTATTTTTTTAAA
1 AAAAGATGTAAATTGAACTCTTCAAATTATTTAAAAATTTTAATTTAAACCTCTATTTTTTAAAA
653559 ATATCAAGTT
66 ATATCAAGTT
653569 GACACCCAAA
Statistics
Matches: 70, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
81 15 0.21
82 55 0.79
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.43
Consensus pattern (81 bp):
AAAAGATGTAAATTGAACTCTTCAAATTATTTAAAAATTTTAATTTAAACCTCTATTTTTTAAAA
ATATCAAGTTTGGTGA
Found at i:655856 original size:23 final size:23
Alignment explanation
Indices: 655825--655887 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
655815 TTGAGTGATT
*
655825 CAGTATTGACTGATTCAACAAAA
1 CAGTGTTGACTGATTCAACAAAA
655848 CAGTGTTGACTGATTCAACAAAA
1 CAGTGTTGACTGATTCAACAAAA
* *
655871 CAATGTTGAATGATTCA
1 CAGTGTTGACTGATTCA
655888 GCACAGAAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (23 bp):
CAGTGTTGACTGATTCAACAAAA
Found at i:655915 original size:27 final size:27
Alignment explanation
Indices: 655877--655942 Score: 123
Period size: 27 Copynumber: 2.4 Consensus size: 27
655867 AAAACAATGT
655877 TGAATGATTCAGCACAGAAGTACATTC
1 TGAATGATTCAGCACAGAAGTACATTC
655904 TGAATGATTCAGCACAGAAGTACATTC
1 TGAATGATTCAGCACAGAAGTACATTC
*
655931 TTAATGATTCAG
1 TGAATGATTCAG
655943 AGCCATTATC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (27 bp):
TGAATGATTCAGCACAGAAGTACATTC
Found at i:656017 original size:16 final size:15
Alignment explanation
Indices: 655996--656033 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
655986 AGAACCTCTG
655996 AATCATTCAACATTT
1 AATCATTCAACATTT
*
656011 AAATCATTCAATATTT
1 -AATCATTCAACATTT
656027 AATCATT
1 AATCATT
656034 TTGAAATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (15 bp):
AATCATTCAACATTT
Found at i:657671 original size:21 final size:22
Alignment explanation
Indices: 657645--657685 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
657635 TTAATTATAT
*
657645 TTTTATTTTTATT-TTTAATAA
1 TTTTATTTTAATTATTTAATAA
657666 TTTTATTTTAATTATTTAAT
1 TTTTATTTTAATTATTTAAT
657686 TTGAATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTTATTTTAATTATTTAATAA
Found at i:657870 original size:25 final size:25
Alignment explanation
Indices: 657837--657946 Score: 86
Period size: 24 Copynumber: 4.2 Consensus size: 25
657827 ATTATATGTT
657837 ATATAATTTTATATATATTAACTTAAA
1 ATAT-ATTTT-TATATATTAACTTAAA
657864 A-ATA-TTTT-TATATTAACTTATTAA
1 ATATATTTTTATATATTAACTTA--AA
*
657888 ATATATTTTTATTATTAACTTAATTTAAA
1 ATATATTTTTA-TA-T-A-TTAACTTAAA
*
657917 ATATATTTTTAT-T-TTCACTTAAAA
1 ATATATTTTTATATATTAACTT-AAA
657941 ATATAT
1 ATATAT
657947 AATTTATTTT
Statistics
Matches: 70, Mismatches: 3, Indels: 23
0.73 0.03 0.24
Matches are distributed among these distances:
22 12 0.17
23 6 0.09
24 15 0.21
25 4 0.06
26 7 0.10
27 1 0.01
28 3 0.04
29 14 0.20
30 1 0.01
31 7 0.10
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.53
Consensus pattern (25 bp):
ATATATTTTTATATATTAACTTAAA
Found at i:657872 original size:26 final size:27
Alignment explanation
Indices: 657843--657928 Score: 92
Period size: 25 Copynumber: 3.2 Consensus size: 27
657833 TGTTATATAA
657843 TTTTATATAT-A-TTAACTTAAAAATAT
1 TTTTATATATAACTTAA-TTAAAAATAT
*
657869 TTTTATAT-TAACTT-ATTAAATATAT
1 TTTTATATATAACTTAATTAAAAATAT
657894 TTTTAT-TATTAACTTAATTTAAAATATAT
1 TTTTATATA-TAACTTAA-TTAAAA-ATAT
657923 TTTTAT
1 TTTTAT
657929 TTTCACTTAA
Statistics
Matches: 51, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
24 1 0.02
25 16 0.31
26 16 0.31
27 3 0.06
28 5 0.10
29 10 0.20
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (27 bp):
TTTTATATATAACTTAATTAAAAATAT
Found at i:657929 original size:26 final size:23
Alignment explanation
Indices: 657852--657929 Score: 79
Period size: 26 Copynumber: 3.2 Consensus size: 23
657842 ATTTTATATA
657852 TATTAACTTA--AAAATATTTTT
1 TATTAACTTATTAAAATATTTTT
657873 ATATTAACTTATTAAATATATTTTTAT
1 -TATTAACTTATTAAA-ATA-TTTT-T
657900 TATTAACTTAATTTAAAATATATTTT
1 TATTAACTT-A-TTAAAATAT-TTTT
657926 TATT
1 TATT
657930 TTCACTTAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
22 10 0.21
24 3 0.06
25 3 0.06
26 19 0.40
27 8 0.17
28 5 0.10
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (23 bp):
TATTAACTTATTAAAATATTTTT
Found at i:657946 original size:26 final size:25
Alignment explanation
Indices: 657854--657958 Score: 92
Period size: 25 Copynumber: 4.2 Consensus size: 25
657844 TTTATATATA
*
657854 TTAACTT--AAAA-ATATTTTTATA
1 TTAACTTAAAAAATATATTTTTATT
**
657876 TTAACTTATTAAATATATTTTTATT
1 TTAACTTAAAAAATATATTTTTATT
657901 ATTAACTTAATTTAAAATATATTTTTATT
1 -TTAACTTAA---AAAATATATTTTTATT
* *
657930 TTCACTT-AAAAATATATAATTTATT
1 TTAACTTAAAAAATATAT-TTTTATT
657955 TTAA
1 TTAA
657959 TTTATTAATA
Statistics
Matches: 68, Mismatches: 7, Indels: 13
0.77 0.08 0.15
Matches are distributed among these distances:
22 7 0.10
24 12 0.18
25 19 0.28
26 8 0.12
27 1 0.01
28 6 0.09
29 15 0.22
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (25 bp):
TTAACTTAAAAAATATATTTTTATT
Found at i:657953 original size:54 final size:52
Alignment explanation
Indices: 657854--657958 Score: 131
Period size: 54 Copynumber: 2.0 Consensus size: 52
657844 TTTATATATA
* *
657854 TTAACTTAAAAATATTTTTATATTAACTTATTAAATATATTTTTATTATTAAC
1 TTAACTTAAAAATATTTTTATATTAACTTATAAAATATATATTTATT-TTAAC
* * *
657907 TTAATTTAAAATATATTTTTATTTTCACTTA-AAAATATATAATTTATTTTAA
1 TTAACTTAAAA-ATATTTTTATATTAACTTATAAAATATAT-ATTTATTTTAA
657959 TTTATTAATA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
53 22 0.49
54 23 0.51
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (52 bp):
TTAACTTAAAAATATTTTTATATTAACTTATAAAATATATATTTATTTTAAC
Found at i:658940 original size:2 final size:2
Alignment explanation
Indices: 658933--658959 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
658923 ATTTAAGTTC
658933 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
658960 TAAGATGTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:670068 original size:17 final size:17
Alignment explanation
Indices: 670030--670067 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
670020 TCTTTTGAAA
670030 ATTTTAATTTTTTATAT
1 ATTTTAATTTTTTATAT
670047 ATTTTAATTTTTT-TAT
1 ATTTTAATTTTTTATAT
670063 ATTTT
1 ATTTT
670068 TGTTGAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
ATTTTAATTTTTTATAT
Found at i:673230 original size:33 final size:33
Alignment explanation
Indices: 673188--673282 Score: 181
Period size: 33 Copynumber: 2.9 Consensus size: 33
673178 AGTTGACAAG
673188 TTGAAAATTTCATCTTGGTTGGTGGCCAACTTA
1 TTGAAAATTTCATCTTGGTTGGTGGCCAACTTA
673221 TTGAAAATTTCATCTTGGTTGGTGGCCAACTTA
1 TTGAAAATTTCATCTTGGTTGGTGGCCAACTTA
*
673254 TTGGAAATTTCATCTTGGTTGGTGGCCAA
1 TTGAAAATTTCATCTTGGTTGGTGGCCAA
673283 ACTTTGAACA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 61 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.39
Consensus pattern (33 bp):
TTGAAAATTTCATCTTGGTTGGTGGCCAACTTA
Found at i:674641 original size:15 final size:15
Alignment explanation
Indices: 674621--674649 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
674611 ATAAAAAACA
674621 ACAAATATTAATGAT
1 ACAAATATTAATGAT
674636 ACAAATATTAATGA
1 ACAAATATTAATGA
674650 GCAATAACTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.31
Consensus pattern (15 bp):
ACAAATATTAATGAT
Found at i:675026 original size:23 final size:22
Alignment explanation
Indices: 674974--675026 Score: 52
Period size: 23 Copynumber: 2.3 Consensus size: 22
674964 ATTTTATATC
* **
674974 AAATTTTAAAAAATAAAATTAT
1 AAATTTTAAAAAAAAAAAACAT
*
674996 ATACTTTTAAAAAAGAAAAAACAT
1 A-AATTTTAAAAAA-AAAAAACAT
675020 AAATTTT
1 AAATTTT
675027 GAAATAACCC
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
22 1 0.04
23 16 0.67
24 7 0.29
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (22 bp):
AAATTTTAAAAAAAAAAAACAT
Found at i:676530 original size:15 final size:15
Alignment explanation
Indices: 676510--676560 Score: 84
Period size: 15 Copynumber: 3.4 Consensus size: 15
676500 CGCCCCACAT
*
676510 CCGCCCCGCATCCGC
1 CCGCCCCACATCCGC
676525 CCGCCCCACATCCGC
1 CCGCCCCACATCCGC
*
676540 CCACCCCACATCCGC
1 CCGCCCCACATCCGC
676555 CCGCCC
1 CCGCCC
676561 AGCTAAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.12, C:0.69, G:0.14, T:0.06
Consensus pattern (15 bp):
CCGCCCCACATCCGC
Found at i:678321 original size:14 final size:14
Alignment explanation
Indices: 678293--678368 Score: 54
Period size: 14 Copynumber: 5.6 Consensus size: 14
678283 TCATGTACAT
*
678293 AACT-TAAACCCTA
1 AACTCTAAATCCTA
678306 AACATC-AAATCCTA
1 AAC-TCTAAATCCTA
*
678320 AACTCTAAATACTA
1 AACTCTAAATCCTA
* *
678334 AACCCTAAA-CCTT
1 AACTCTAAATCCTA
*
678347 AACT-TATA-CCATA
1 AACTCTAAATCC-TA
678360 AACTCTAAA
1 AACTCTAAA
678369 CACTAAACCA
Statistics
Matches: 49, Mismatches: 9, Indels: 9
0.73 0.13 0.13
Matches are distributed among these distances:
12 5 0.10
13 15 0.31
14 29 0.59
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (14 bp):
AACTCTAAATCCTA
Found at i:678482 original size:14 final size:14
Alignment explanation
Indices: 678463--678492 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
678453 TATAATTATC
*
678463 AATAATGTATTTTT
1 AATAATGTAATTTT
678477 AATAATGTAATTTT
1 AATAATGTAATTTT
678491 AA
1 AA
678493 AATATCTAAA
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:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
AATAATGTAATTTT
Found at i:681572 original size:3 final size:3
Alignment explanation
Indices: 681566--681597 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
681556 TGCAAGTATA
681566 TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
681598 AAAGTTATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:681845 original size:86 final size:88
Alignment explanation
Indices: 681740--681921 Score: 341
Period size: 87 Copynumber: 2.1 Consensus size: 88
681730 TTAGTGTAGA
*
681740 ATTTTAATATTTTGTAGTTATGAATGGTTATTAATTT-AAATGTTGATATTATTAAAAAATACCA
1 ATTTAAATATTTTGTAGTTATGAATGGTTATTAATTTAAAATGTTGATATTATTAAAAAATACCA
681804 TTATCTAACTTTAATTGC-AAAG
66 TTATCTAACTTTAATTGCAAAAG
681826 ATTTAAATATTTTGTAGTTATGAATGGTTATTAATTTAAAATGTTGATATTATTAAAAAATACCA
1 ATTTAAATATTTTGTAGTTATGAATGGTTATTAATTTAAAATGTTGATATTATTAAAAAATACCA
681891 TTATCTAACTTTAATTGCAAAAG
66 TTATCTAACTTTAATTGCAAAAG
681914 ATTTAAAT
1 ATTTAAAT
681922 TAAAAGGATA
Statistics
Matches: 93, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
86 36 0.39
87 45 0.48
88 12 0.13
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (88 bp):
ATTTAAATATTTTGTAGTTATGAATGGTTATTAATTTAAAATGTTGATATTATTAAAAAATACCA
TTATCTAACTTTAATTGCAAAAG
Found at i:689012 original size:36 final size:36
Alignment explanation
Indices: 688967--689043 Score: 109
Period size: 36 Copynumber: 2.1 Consensus size: 36
688957 TTTTCATTGT
* * *
688967 ATTTCCTATTAATTACGTAATTTCACGGTCTCTAAA
1 ATTTTCTATTAATGACGTAATTTCACAGTCTCTAAA
**
689003 ATTTTCTATTAATGACGTAATTTCGTAGTCTCTAAA
1 ATTTTCTATTAATGACGTAATTTCACAGTCTCTAAA
689039 ATTTT
1 ATTTT
689044 ATAACTCTAC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.30, C:0.16, G:0.09, T:0.45
Consensus pattern (36 bp):
ATTTTCTATTAATGACGTAATTTCACAGTCTCTAAA
Found at i:697763 original size:2 final size:2
Alignment explanation
Indices: 697756--697812 Score: 107
Period size: 2 Copynumber: 29.0 Consensus size: 2
697746 GACTATAGTG
697756 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
697798 TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA
697813 CCATTTGTTT
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 53 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:700459 original size:20 final size:20
Alignment explanation
Indices: 700434--700486 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
700424 GACCAACAAA
700434 TTCGCAACGCGAACTCCAAT
1 TTCGCAACGCGAACTCCAAT
* **
700454 TTCGCAACTC-AGTTTCCAAT
1 TTCGCAACGCGA-ACTCCAAT
700474 TTCGCAACGCGAA
1 TTCGCAACGCGAA
700487 TCTGTAAATC
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
19 1 0.04
20 24 0.92
21 1 0.04
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.25
Consensus pattern (20 bp):
TTCGCAACGCGAACTCCAAT
Found at i:700498 original size:20 final size:20
Alignment explanation
Indices: 700475--700565 Score: 164
Period size: 20 Copynumber: 4.5 Consensus size: 20
700465 GTTTCCAATT
700475 TCGCAACGCGAATCTGTAAA
1 TCGCAACGCGAATCTGTAAA
700495 TCGCAACGCGAATCTGTAAA
1 TCGCAACGCGAATCTGTAAA
700515 TCGCAACGCGAATCTGTAAA
1 TCGCAACGCGAATCTGTAAA
* *
700535 TCGCAACGTGAATTTGTAAA
1 TCGCAACGCGAATCTGTAAA
700555 TCGCAACGCGA
1 TCGCAACGCGA
700566 TAGTCAAATT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 68 1.00
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (20 bp):
TCGCAACGCGAATCTGTAAA
Found at i:700578 original size:20 final size:20
Alignment explanation
Indices: 700555--700622 Score: 102
Period size: 20 Copynumber: 3.5 Consensus size: 20
700545 AATTTGTAAA
700555 TCGCAACGCGATAGTCAAAT
1 TCGCAACGCGATAGTCAAAT
* *
700575 TCGCAACAC-AAAGTCAAAT
1 TCGCAACGCGATAGTCAAAT
*
700594 TTGCAACGCGATAGTCAAAT
1 TCGCAACGCGATAGTCAAAT
700614 TCGCAACGC
1 TCGCAACGC
700623 AAATTTAATT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 16 0.39
20 25 0.61
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.19
Consensus pattern (20 bp):
TCGCAACGCGATAGTCAAAT
Found at i:700579 original size:40 final size:39
Alignment explanation
Indices: 700495--700621 Score: 118
Period size: 40 Copynumber: 3.2 Consensus size: 39
700485 AATCTGTAAA
* *
700495 TCGCAACGCGAATCTGTAAATCGCAACGCGAATCTGT-AAA-
1 TCGCAACGAGAAT-TGTAAATCGCAACGCG-AT-AGTCAAAT
*
700535 TCGCAACGTGAATTTGTAAATCGCAACGCGATAGTCAAAT
1 TCGCAACGAGAA-TTGTAAATCGCAACGCGATAGTCAAAT
* * *
700575 TCGCAAC-ACAA-AGTCAAATTTGCAACGCGATAGTCAAAT
1 TCGCAACGAGAATTGT-AAA-TCGCAACGCGATAGTCAAAT
700614 TCGCAACG
1 TCGCAACG
700622 CAAATTTAAT
Statistics
Matches: 75, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
37 2 0.03
38 5 0.07
39 33 0.44
40 34 0.45
41 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (39 bp):
TCGCAACGAGAATTGTAAATCGCAACGCGATAGTCAAAT
Found at i:700589 original size:19 final size:19
Alignment explanation
Indices: 700567--700640 Score: 76
Period size: 19 Copynumber: 3.8 Consensus size: 19
700557 GCAACGCGAT
700567 AGTCAAATTCGCAACACAA
1 AGTCAAATTCGCAACACAA
* * *
700586 AGTCAAATTTGCAACGCGAT
1 AGTCAAATTCGCAACAC-AA
*
700606 AGTCAAATTCGCAACGCAA
1 AGTCAAATTCGCAACACAA
* * *
700625 ATTTAATTTCGCAACA
1 AGTCAAATTCGCAACA
700641 GGTTTTAGTT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
19 28 0.62
20 17 0.38
ACGTcount: A:0.41, C:0.23, G:0.14, T:0.23
Consensus pattern (19 bp):
AGTCAAATTCGCAACACAA
Found at i:700639 original size:39 final size:40
Alignment explanation
Indices: 700555--700639 Score: 129
Period size: 39 Copynumber: 2.2 Consensus size: 40
700545 AATTTGTAAA
700555 TCGCAACGCGATAGTCAAATTCGCAACACAAAGTCAAATT
1 TCGCAACGCGATAGTCAAATTCGCAACACAAAGTCAAATT
* **
700595 T-GCAACGCGATAGTCAAATTCGCAACGCAAA-TTTAATT
1 TCGCAACGCGATAGTCAAATTCGCAACACAAAGTCAAATT
700633 TCGCAAC
1 TCGCAAC
700640 AGGTTTTAGT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
38 6 0.15
39 34 0.83
40 1 0.02
ACGTcount: A:0.38, C:0.25, G:0.15, T:0.22
Consensus pattern (40 bp):
TCGCAACGCGATAGTCAAATTCGCAACACAAAGTCAAATT
Found at i:700769 original size:95 final size:95
Alignment explanation
Indices: 700596--700785 Score: 326
Period size: 95 Copynumber: 2.0 Consensus size: 95
700586 AGTCAAATTT
* * * *
700596 GCAACGCGATAGTCAAATTCGCAACGCAAATTTAATTTCGCAACAGGTTTTAGTTTCGTAATACA
1 GCAAAGCGACAGTCAAATTCGCAACGCAAATTTAATTTCGCAACAGGTTTTAGTTTCGCAACACA
700661 AATGTTTTGGGTATATAACAACGCAGCAGC
66 AATGTTTTGGGTATATAACAACGCAGCAGC
*
700691 GCAAAGCGACAGTCAAATTCGCAACGCGAATTTAATTTCGCAACAGGTTTTAGTTTCGCAACACA
1 GCAAAGCGACAGTCAAATTCGCAACGCAAATTTAATTTCGCAACAGGTTTTAGTTTCGCAACACA
*
700756 AATGTTTTGGGTATATAATAACGCAGCAGC
66 AATGTTTTGGGTATATAACAACGCAGCAGC
700786 ATCAACTCAT
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
95 89 1.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.27
Consensus pattern (95 bp):
GCAAAGCGACAGTCAAATTCGCAACGCAAATTTAATTTCGCAACAGGTTTTAGTTTCGCAACACA
AATGTTTTGGGTATATAACAACGCAGCAGC
Found at i:701647 original size:85 final size:84
Alignment explanation
Indices: 701502--701671 Score: 297
Period size: 85 Copynumber: 2.0 Consensus size: 84
701492 GTTAGTATAA
701502 ATTTATTGTGTATGTATGTTTTGGTTTGATTATATTGTAGTATATTTTCATTTAGATGAGATGGG
1 ATTTATTGTGTATGTATGTTTTGGTTTGATTATATTGTAGTATATTTTCATTTAGATGAGATGGG
*
701567 -GTGTATAACAAAACAATC
66 TGTGGATAACAAAACAATC
701585 ATTTATTGTGTATGTATGTTTTTGGTTTGATTATATTGTATGTATATTTTCATTTAGATGAGATG
1 ATTTATTGTGTATGTATG-TTTTGGTTTGATTATATTGTA-GTATATTTTCATTTAGATGAGATG
701650 GGTTGTGGATAACAAAACAATC
64 GG-TGTGGATAACAAAACAATC
701672 TATCTCTTCC
Statistics
Matches: 82, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
83 18 0.22
84 21 0.26
85 26 0.32
87 17 0.21
ACGTcount: A:0.28, C:0.05, G:0.21, T:0.46
Consensus pattern (84 bp):
ATTTATTGTGTATGTATGTTTTGGTTTGATTATATTGTAGTATATTTTCATTTAGATGAGATGGG
TGTGGATAACAAAACAATC
Found at i:701737 original size:122 final size:121
Alignment explanation
Indices: 701585--701814 Score: 451
Period size: 122 Copynumber: 1.9 Consensus size: 121
701575 CAAAACAATC
701585 ATTTATTGTGTATGTATGTTTTTGGTTTGATTATATTGTATGTATATTTTCATTTAGATGAGATG
1 ATTTATTGTGTATGTATGTTTTTGGTTTGATTATATTGTATGTATATTTTCATTTAGATGAGATG
701650 GGTTGTGGATAACAAAACAATCTATCTCTTCCATGTGAGTACTTTTGTTATGTATAA
66 GGTTGT-GATAACAAAACAATCTATCTCTTCCATGTGAGTACTTTTGTTATGTATAA
701707 ATTTATTGTGTATGTATGTTTTTGGTTTGATTATATTGTATGTATATTTTCATTTAGATGAGATG
1 ATTTATTGTGTATGTATGTTTTTGGTTTGATTATATTGTATGTATATTTTCATTTAGATGAGATG
701772 GGTTGTGATAACAAAACAATCTATCTCTTCCATGTGAGTACTT
66 GGTTGTGATAACAAAACAATCTATCTCTTCCATGTGAGTACTT
701815 ATTCCAACCA
Statistics
Matches: 108, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
121 37 0.34
122 71 0.66
ACGTcount: A:0.26, C:0.08, G:0.19, T:0.47
Consensus pattern (121 bp):
ATTTATTGTGTATGTATGTTTTTGGTTTGATTATATTGTATGTATATTTTCATTTAGATGAGATG
GGTTGTGATAACAAAACAATCTATCTCTTCCATGTGAGTACTTTTGTTATGTATAA
Found at i:702371 original size:39 final size:39
Alignment explanation
Indices: 702328--702453 Score: 225
Period size: 39 Copynumber: 3.2 Consensus size: 39
702318 TCTGATGCTC
*
702328 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAATCTCATATGGTGCCAAGCAAAAGGAA
* *
702367 ATCAAAATTCAAATCTCATATGGTGTCAAGCAAAAGGAA
1 ATCAAAATCCAAATCTCATATGGTGCCAAGCAAAAGGAA
702406 ATCAAAATCCAAATCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAATCTCATATGGTGCCAAGCAAAAGGAA
702445 ATCAAAATC
1 ATCAAAATC
702454 TACAACTTGA
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 82 1.00
ACGTcount: A:0.47, C:0.19, G:0.15, T:0.19
Consensus pattern (39 bp):
ATCAAAATCCAAATCTCATATGGTGCCAAGCAAAAGGAA
Found at i:704299 original size:21 final size:21
Alignment explanation
Indices: 704275--704326 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
704265 TGAATCGGGG
704275 TCTTGAACGGCGAGC-GGGACC
1 TCTTGAACGGCGA-CAGGGACC
** *
704296 TCTTGAACGATGACAGGGGCC
1 TCTTGAACGGCGACAGGGACC
704317 TCTTGAACGG
1 TCTTGAACGG
704327 TAGGAGGGGC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 1 0.04
21 25 0.96
ACGTcount: A:0.21, C:0.25, G:0.35, T:0.19
Consensus pattern (21 bp):
TCTTGAACGGCGACAGGGACC
Found at i:704334 original size:21 final size:21
Alignment explanation
Indices: 704294--704386 Score: 93
Period size: 21 Copynumber: 4.4 Consensus size: 21
704284 GCGAGCGGGA
*
704294 CCTCTTGAACGAT-GACAGGGG
1 CCTCTTGAACGATAG-GAGGGG
*
704315 CCTCTTGAACGGTAGGAGGGG
1 CCTCTTGAACGATAGGAGGGG
* *
704336 CTTCTTCG-ATGAT-GAGAGGGG
1 CCTCTT-GAACGATAG-GAGGGG
*
704357 CCTCTTGAACGATAGGAGGCG
1 CCTCTTGAACGATAGGAGGGG
704378 CCTCTTGAA
1 CCTCTTGAA
704387 TGATGATAGG
Statistics
Matches: 59, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
20 2 0.03
21 54 0.92
22 3 0.05
ACGTcount: A:0.22, C:0.22, G:0.34, T:0.23
Consensus pattern (21 bp):
CCTCTTGAACGATAGGAGGGG
Found at i:704350 original size:42 final size:42
Alignment explanation
Indices: 704294--704392 Score: 137
Period size: 42 Copynumber: 2.4 Consensus size: 42
704284 GCGAGCGGGA
* * *
704294 CCTCTTGAACGATGACAGGGGCCTCTTGAACGGTAGGAGGGG
1 CCTCTTGAATGATGACAGGGGCCTCTTGAACGATAGGAGGCG
* *
704336 CTTCTTCG-ATGATGAGAGGGGCCTCTTGAACGATAGGAGGCG
1 CCTCTT-GAATGATGACAGGGGCCTCTTGAACGATAGGAGGCG
704378 CCTCTTGAATGATGA
1 CCTCTTGAATGATGA
704393 TAGGTGCATC
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
41 1 0.02
42 47 0.96
43 1 0.02
ACGTcount: A:0.22, C:0.20, G:0.34, T:0.23
Consensus pattern (42 bp):
CCTCTTGAATGATGACAGGGGCCTCTTGAACGATAGGAGGCG
Found at i:707030 original size:40 final size:40
Alignment explanation
Indices: 706985--707144 Score: 193
Period size: 40 Copynumber: 4.0 Consensus size: 40
706975 GCGTAAAAAC
* *
706985 ATTTGACTTTCGCGTTGCAAATTTGACTATCGCGTTGCAA
1 ATTTGACTTTCGTGTTGCAAATTTGACTATCGCGTTGCGA
* *
707025 ATTTGAC-TTCTGTGTTGC-GATTT-ACAAATTCGCGTTGCGA
1 ATTTGACTTTC-GTGTTGCAAATTTGAC-TA-TCGCGTTGCGA
*
707065 ATTTGACTTTTGTGTTGCAAATTTGACTATCGCGTTGCGA
1 ATTTGACTTTCGTGTTGCAAATTTGACTATCGCGTTGCGA
* **
707105 ATTTGACTTT-GTGTTGCGAATTTGACTATCGTATTGCGA
1 ATTTGACTTTCGTGTTGCAAATTTGACTATCGCGTTGCGA
707144 A
1 A
707145 ATTGGAAATT
Statistics
Matches: 104, Mismatches: 10, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
38 2 0.02
39 35 0.34
40 58 0.56
41 7 0.07
42 2 0.02
ACGTcount: A:0.21, C:0.16, G:0.22, T:0.41
Consensus pattern (40 bp):
ATTTGACTTTCGTGTTGCAAATTTGACTATCGCGTTGCGA
Found at i:707068 original size:60 final size:59
Alignment explanation
Indices: 706985--707135 Score: 173
Period size: 60 Copynumber: 2.5 Consensus size: 59
706975 GCGTAAAAAC
* *
706985 ATTTGACTTTCGCGTTGCAAATTTGACTATCGCGTTGCAAATTTGACT-TCTGTGTTGCG-
1 ATTTGAC-TTCGCGTTGCGAATTTGACTATCGCGTTGCAAATTTGACTATC-GCGTTGCGA
* * *
707044 ATTT-ACAAATTCGCGTTGCGAATTTGACTTTTGTGTTGCAAATTTGACTATCGCGTTGCGA
1 ATTTGAC---TTCGCGTTGCGAATTTGACTATCGCGTTGCAAATTTGACTATCGCGTTGCGA
* *
707105 ATTTGACTTTGTGTTGCGAATTTGACTATCG
1 ATTTGACTTCGCGTTGCGAATTTGACTATCG
707136 TATTGCGAAA
Statistics
Matches: 77, Mismatches: 10, Indels: 10
0.79 0.10 0.10
Matches are distributed among these distances:
58 2 0.03
59 24 0.31
60 43 0.56
61 6 0.08
62 2 0.03
ACGTcount: A:0.21, C:0.17, G:0.22, T:0.41
Consensus pattern (59 bp):
ATTTGACTTCGCGTTGCGAATTTGACTATCGCGTTGCAAATTTGACTATCGCGTTGCGA
Found at i:707144 original size:20 final size:20
Alignment explanation
Indices: 706985--707135 Score: 148
Period size: 20 Copynumber: 7.6 Consensus size: 20
706975 GCGTAAAAAC
* *
706985 ATTTGACTTTCGCGTTGCAA
1 ATTTGACTATCGCGTTGCGA
*
707005 ATTTGACTATCGCGTTGCAA
1 ATTTGACTATCGCGTTGCGA
*
707025 ATTTGACT-TCTGTGTTGCG-
1 ATTTGACTATC-GCGTTGCGA
*
707044 ATTT-ACAAATTCGCGTTGCGA
1 ATTTGAC-TA-TCGCGTTGCGA
* * * *
707065 ATTTGACTTTTGTGTTGCAA
1 ATTTGACTATCGCGTTGCGA
707085 ATTTGACTATCGCGTTGCGA
1 ATTTGACTATCGCGTTGCGA
* *
707105 ATTTGACT-TTGTGTTGCGA
1 ATTTGACTATCGCGTTGCGA
707124 ATTTGACTATCG
1 ATTTGACTATCG
707136 TATTGCGAAA
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
18 2 0.02
19 23 0.21
20 74 0.69
21 6 0.06
22 2 0.02
ACGTcount: A:0.21, C:0.17, G:0.22, T:0.41
Consensus pattern (20 bp):
ATTTGACTATCGCGTTGCGA
Found at i:707184 original size:20 final size:20
Alignment explanation
Indices: 707138--707184 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
707128 GACTATCGTA
*
707138 TTGCGAAATTGGAAATTGGG
1 TTGCGAAATTGGAAATTGCG
* *
707158 TTACGAAATTGG-AGTTCGCG
1 TTGCGAAATTGGAAATT-GCG
707178 TTGCGAA
1 TTGCGAA
707185 TTTTGTTGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.28, C:0.11, G:0.32, T:0.30
Consensus pattern (20 bp):
TTGCGAAATTGGAAATTGCG
Found at i:717466 original size:25 final size:25
Alignment explanation
Indices: 717438--717487 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
717428 TCTATTGTGC
*
717438 GACACCAGATGGTGTTCCATGGTGT
1 GACACCAGACGGTGTTCCATGGTGT
717463 GACACCAGACGGTGTTCCATGGTGT
1 GACACCAGACGGTGTTCCATGGTGT
717488 ATGCTTTTCG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.20, C:0.22, G:0.32, T:0.26
Consensus pattern (25 bp):
GACACCAGACGGTGTTCCATGGTGT
Found at i:718587 original size:13 final size:13
Alignment explanation
Indices: 718569--718595 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
718559 TTACATACAC
718569 GCATATGAAGACT
1 GCATATGAAGACT
718582 GCATATGAAGACT
1 GCATATGAAGACT
718595 G
1 G
718596 TTCACCTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (13 bp):
GCATATGAAGACT
Found at i:719215 original size:80 final size:80
Alignment explanation
Indices: 719077--719232 Score: 285
Period size: 80 Copynumber: 1.9 Consensus size: 80
719067 GATTACCAGA
* *
719077 GTTTTGGACTAAAACGCCCTTACTTTTTTTTCTTTAAAAAATATCCTTATTCTGTCATTGAATAA
1 GTTTTGGACTAAAACGCCCTTAATTTTTTTTCTTTAAAAAATATCCTTATTCTATCATTGAATAA
719142 TAAAAATTCTAGGGC
66 TAAAAATTCTAGGGC
*
719157 GTTTTGGACTAAAACGTCCTTAATTTTTTTTCTTTAAAAAATATCCTTATTCTATCATTGAATAA
1 GTTTTGGACTAAAACGCCCTTAATTTTTTTTCTTTAAAAAATATCCTTATTCTATCATTGAATAA
719222 TAAAAATTCTA
66 TAAAAATTCTA
719233 CGAAGGTTAA
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 73 1.00
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.43
Consensus pattern (80 bp):
GTTTTGGACTAAAACGCCCTTAATTTTTTTTCTTTAAAAAATATCCTTATTCTATCATTGAATAA
TAAAAATTCTAGGGC
Found at i:721081 original size:17 final size:17
Alignment explanation
Indices: 721059--721091 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
721049 AACTGAATTC
*
721059 ATTGCATCTTGATTTTT
1 ATTGCAACTTGATTTTT
721076 ATTGCAACTTGATTTT
1 ATTGCAACTTGATTTT
721092 CATATTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.12, G:0.12, T:0.55
Consensus pattern (17 bp):
ATTGCAACTTGATTTTT
Found at i:734624 original size:2 final size:2
Alignment explanation
Indices: 734617--734649 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
734607 ATAGACATTC
734617 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
734650 CCATTTAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:736775 original size:10 final size:10
Alignment explanation
Indices: 736760--736834 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
736750 CATTTAATAA
736760 ATAAACGAAC
1 ATAAACGAAC
736770 ATAAACGAAC
1 ATAAACGAAC
736780 ----ACGAAC
1 ATAAACGAAC
736786 ATAAACGAAC
1 ATAAACGAAC
** *
736796 ACGAAC-ATAA
1 ATAAACGA-AC
736806 ATGAACACGAAC
1 AT-AA-ACGAAC
736818 ATAAACGAAC
1 ATAAACGAAC
736828 ATAAACG
1 ATAAACG
736835 TTGGAGACCC
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 6 0.12
9 1 0.02
10 35 0.69
11 3 0.06
12 5 0.10
13 1 0.02
ACGTcount: A:0.57, C:0.21, G:0.12, T:0.09
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:736785 original size:16 final size:16
Alignment explanation
Indices: 736764--736828 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
736754 TAATAAATAA
736764 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
736780 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
736796 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
736812 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
736828 A
1 A
736829 TAAACGTTGG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.57, C:0.23, G:0.12, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:737879 original size:24 final size:24
Alignment explanation
Indices: 737865--737926 Score: 106
Period size: 24 Copynumber: 2.6 Consensus size: 24
737855 ATAAATGAAT
737865 GAACATAAACGAACATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
*
737889 GAATATAAACGAACATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
*
737913 GAACATAACCGAAC
1 GAACATAAACGAAC
737927 GTTCACGAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.53, C:0.24, G:0.13, T:0.10
Consensus pattern (24 bp):
GAACATAAACGAACATAACCGAAC
Found at i:737889 original size:14 final size:14
Alignment explanation
Indices: 737872--737927 Score: 75
Period size: 14 Copynumber: 4.3 Consensus size: 14
737862 AATGAACATA
737872 AACGAACATAACCG
1 AACGAACATAACCG
*
737886 AACGAATAT-A---
1 AACGAACATAACCG
737896 AACGAACATAACCG
1 AACGAACATAACCG
737910 AACGAACATAACCG
1 AACGAACATAACCG
737924 AACG
1 AACG
737928 TTCACGAACG
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
10 8 0.22
11 1 0.03
13 1 0.03
14 26 0.72
ACGTcount: A:0.52, C:0.25, G:0.14, T:0.09
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:743027 original size:32 final size:32
Alignment explanation
Indices: 742986--743051 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
742976 TGATAGTATC
742986 TTATGTTGGCACGTTAATATCACTATTAAATT
1 TTATGTTGGCACGTTAATATCACTATTAAATT
743018 TTATGTTGGCACGTTAATATCACTATTAAATT
1 TTATGTTGGCACGTTAATATCACTATTAAATT
743050 TT
1 TT
743052 TAATGATGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.45
Consensus pattern (32 bp):
TTATGTTGGCACGTTAATATCACTATTAAATT
Found at i:747060 original size:16 final size:17
Alignment explanation
Indices: 747027--747063 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
747017 AAATTTTCTT
747027 TTTTAGTTTTTTATTAC
1 TTTTAGTTTTTTATTAC
747044 TTTTA-TTTTTCTA-TAC
1 TTTTAGTTTTT-TATTAC
747060 TTTT
1 TTTT
747064 TAATTGGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.16, C:0.08, G:0.03, T:0.73
Consensus pattern (17 bp):
TTTTAGTTTTTTATTAC
Found at i:747064 original size:17 final size:18
Alignment explanation
Indices: 747026--747065 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
747016 TAAATTTTCT
747026 TTTTTAGTTTTTTATTAC
1 TTTTTAGTTTTTTATTAC
747044 -TTTTA-TTTTTCTA-TAC
1 TTTTTAGTTTTT-TATTAC
747060 TTTTTA
1 TTTTTA
747066 ATTGGATTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.17, C:0.07, G:0.03, T:0.72
Consensus pattern (18 bp):
TTTTTAGTTTTTTATTAC
Found at i:748645 original size:18 final size:18
Alignment explanation
Indices: 748624--748658 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
748614 CAAATGTCCC
748624 TTTTTATGGCTAATTGGG
1 TTTTTATGGCTAATTGGG
748642 TTTTTATGGCTAATTGG
1 TTTTTATGGCTAATTGG
748659 TCCCAGTCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.06, G:0.26, T:0.51
Consensus pattern (18 bp):
TTTTTATGGCTAATTGGG
Found at i:749283 original size:27 final size:26
Alignment explanation
Indices: 749250--749337 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 26
749240 TTAAATTCAT
749250 AATATTTTATATATATTAACTTAAAAA
1 AATATTTT-TATATATTAACTTAAAAA
* **
749277 AATATTTTT-TATATTGACTT-ATTA
1 AATATTTTTATATATTAACTTAAAAA
*
749301 AATATACTTTAT-TATTAACTTAATTTAAA
1 AATAT-TTTTATATATTAACTTAA---AAA
749330 AATATTTT
1 AATATTTT
749338 ATTTTTATTT
Statistics
Matches: 47, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
24 7 0.15
25 21 0.45
26 3 0.06
27 8 0.17
28 2 0.04
29 6 0.13
ACGTcount: A:0.43, C:0.05, G:0.01, T:0.51
Consensus pattern (26 bp):
AATATTTTTATATATTAACTTAAAAA
Found at i:749338 original size:27 final size:26
Alignment explanation
Indices: 749263--749340 Score: 81
Period size: 25 Copynumber: 3.0 Consensus size: 26
749253 ATTTTATATA
*
749263 TATTAACTTAA--AAAAATATTTTTT
1 TATTAACTTAATTAAAAATATTTTAT
* * *
749287 ATATTGACTT-ATTAAATATACTTTAT
1 -TATTAACTTAATTAAAAATATTTTAT
749313 TATTAACTTAATTTAAAAATATTTTAT
1 TATTAACTTAA-TTAAAAATATTTTAT
749340 T
1 T
749341 TTTATTTTCA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
24 1 0.02
25 16 0.38
26 11 0.26
27 14 0.33
ACGTcount: A:0.42, C:0.05, G:0.01, T:0.51
Consensus pattern (26 bp):
TATTAACTTAATTAAAAATATTTTAT
Found at i:750395 original size:12 final size:12
Alignment explanation
Indices: 750350--750415 Score: 55
Period size: 12 Copynumber: 5.4 Consensus size: 12
750340 ACTTCATAGT
750350 ATAATATTTTTA
1 ATAATATTTTTA
*
750362 TTTTAATATATTTT-
1 --ATAATAT-TTTTA
750376 AT-ATATTTTTA
1 ATAATATTTTTA
750387 ATAATATTTTTA
1 ATAATATTTTTA
* * *
750399 TTAAAATTGTTA
1 ATAATATTTTTA
750411 ATAAT
1 ATAAT
750416 TTATAAATAT
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
10 4 0.10
11 6 0.14
12 22 0.52
14 6 0.14
15 4 0.10
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (12 bp):
ATAATATTTTTA
Found at i:750502 original size:22 final size:23
Alignment explanation
Indices: 750460--750543 Score: 79
Period size: 22 Copynumber: 3.6 Consensus size: 23
750450 TAAATTTATT
750460 ATTTTATAATATTTT-ATCTTTTTA
1 ATTTTAT-ATATTTTCA-CTTTTTA
750484 ATTTTATA-ATTTTCACTTTTT-
1 ATTTTATATATTTTCACTTTTTA
750505 ATCTTTA-ATATTTTCA-TTTTAATA
1 AT-TTTATATATTTTCACTTTT--TA
750529 TATTTTATATATTTT
1 -ATTTTATATATTTT
750544 AATAATATTT
Statistics
Matches: 52, Mismatches: 0, Indels: 15
0.78 0.00 0.22
Matches are distributed among these distances:
21 7 0.13
22 22 0.42
23 3 0.06
24 11 0.21
25 9 0.17
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (23 bp):
ATTTTATATATTTTCACTTTTTA
Found at i:750551 original size:11 final size:10
Alignment explanation
Indices: 750520--750554 Score: 54
Period size: 9 Copynumber: 3.5 Consensus size: 10
750510 TAATATTTTC
750520 ATTTTAATAT
1 ATTTTAATAT
750530 ATTTT-ATAT
1 ATTTTAATAT
750539 ATTTTAATAAT
1 ATTTTAAT-AT
750550 ATTTT
1 ATTTT
750555 TAAAATTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.39
10 7 0.30
11 7 0.30
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
ATTTTAATAT
Found at i:752628 original size:2 final size:2
Alignment explanation
Indices: 752623--752651 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
752613 GTGTATGTAC
752623 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
752652 CACACCGTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:754177 original size:14 final size:14
Alignment explanation
Indices: 754155--754207 Score: 60
Period size: 14 Copynumber: 4.1 Consensus size: 14
754145 TCGATTATAT
*
754155 GTTCGTTTATGTTC
1 GTTCATTTATGTTC
754169 GTTCATTTA---T-
1 GTTCATTTATGTTC
*
754179 GTTCATTTATGTTT
1 GTTCATTTATGTTC
754193 GTTCATTTATGTTC
1 GTTCATTTATGTTC
754207 G
1 G
754208 AACAGAGGAC
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
10 9 0.27
11 1 0.03
13 1 0.03
14 22 0.67
ACGTcount: A:0.13, C:0.11, G:0.17, T:0.58
Consensus pattern (14 bp):
GTTCATTTATGTTC
Found at i:754187 original size:24 final size:24
Alignment explanation
Indices: 754142--754206 Score: 94
Period size: 24 Copynumber: 2.6 Consensus size: 24
754132 CGTTCGTGAA
*
754142 CGTTCGATTATATGTTCGTTTATGTT
1 CGTTC-ATT-TATGTTCATTTATGTT
754168 CGTTCATTTATGTTCATTTATGTT
1 CGTTCATTTATGTTCATTTATGTT
*
754192 TGTTCATTTATGTTC
1 CGTTCATTTATGTTC
754207 GAACAGAGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
24 29 0.78
25 3 0.08
26 5 0.14
ACGTcount: A:0.15, C:0.12, G:0.15, T:0.57
Consensus pattern (24 bp):
CGTTCATTTATGTTCATTTATGTT
Found at i:754486 original size:14 final size:14
Alignment explanation
Indices: 754458--754497 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
754448 GTTTTTTTAT
754458 GTTTGTGTT-GTTC
1 GTTTGTGTTCGTTC
*
754471 GTTTATGTTCGTTC
1 GTTTGTGTTCGTTC
*
754485 GTTCGTGTTCGTT
1 GTTTGTGTTCGTT
754498 TATTATTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 8 0.35
14 15 0.65
ACGTcount: A:0.03, C:0.12, G:0.28, T:0.57
Consensus pattern (14 bp):
GTTTGTGTTCGTTC
Found at i:754587 original size:16 final size:16
Alignment explanation
Indices: 754566--754598 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
754556 AAAAAAAATT
754566 TGTTCGTTTACGTTCG
1 TGTTCGTTTACGTTCG
*
754582 TGTTCGTTTATGTTCG
1 TGTTCGTTTACGTTCG
754598 T
1 T
754599 TTATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.15, G:0.24, T:0.55
Consensus pattern (16 bp):
TGTTCGTTTACGTTCG
Found at i:761778 original size:28 final size:28
Alignment explanation
Indices: 761747--761804 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
761737 TGAATGTATG
761747 AATACATTATTTGTAATGAAGAGTATAC
1 AATACATTATTTGTAATGAAGAGTATAC
761775 AATACATTATTTGTAATGAAGAGTATAC
1 AATACATTATTTGTAATGAAGAGTATAC
761803 AA
1 AA
761805 GCATTCAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (28 bp):
AATACATTATTTGTAATGAAGAGTATAC
Found at i:764051 original size:38 final size:36
Alignment explanation
Indices: 764016--764085 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 36
764006 TACAAATTGT
764016 AAAATATTTATAT-ATTTTCTTTAAAAAAATTAAATTC
1 AAAATATTTATATAATTTT-TTT-AAAAAATTAAATTC
* *
764053 ATAATATTTATATAATTTTTTTACAAAATTAAA
1 AAAATATTTATATAATTTTTTTAAAAAATTAAA
764086 AATATAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
36 10 0.33
37 15 0.50
38 5 0.17
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (36 bp):
AAAATATTTATATAATTTTTTTAAAAAATTAAATTC
Found at i:766264 original size:21 final size:21
Alignment explanation
Indices: 766238--766279 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
766228 AGTAGACTGT
766238 TGGCACATGTGGTTGGGATCG
1 TGGCACATGTGGTTGGGATCG
766259 TGGCACATGTGGTTGGGATCG
1 TGGCACATGTGGTTGGGATCG
766280 AGGAATTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.43, T:0.29
Consensus pattern (21 bp):
TGGCACATGTGGTTGGGATCG
Found at i:768069 original size:9 final size:9
Alignment explanation
Indices: 768055--768081 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
768045 TTGGTTATGC
768055 TATTTTATT
1 TATTTTATT
768064 TATTTTATT
1 TATTTTATT
768073 TATTTTATT
1 TATTTTATT
768082 ACTACTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (9 bp):
TATTTTATT
Found at i:768824 original size:25 final size:27
Alignment explanation
Indices: 768782--768832 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
768772 TCAGGCTTAT
*
768782 AAAAAATTTAAAATTTTATTT-TAAAC
1 AAAAAATATAAAATTTTATTTATAAAC
*
768808 AAAAAATATATAA-TTTATTTATAAA
1 AAAAAATATAAAATTTTATTTATAAA
768833 AGAACTCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (27 bp):
AAAAAATATAAAATTTTATTTATAAAC
Found at i:771162 original size:16 final size:17
Alignment explanation
Indices: 771119--771167 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 17
771109 ACGTAGAAAT
771119 TAAATGAATATAATAATAA
1 TAAAT-AAT-TAATAATAA
*
771138 T-AATTATTAAT-ATAA
1 TAAATAATTAATAATAA
771153 TAAATAATTAA-AATA
1 TAAATAATTAATAATA
771168 TAGTAATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
15 5 0.19
16 15 0.58
17 2 0.08
18 3 0.12
19 1 0.04
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (17 bp):
TAAATAATTAATAATAA
Found at i:771167 original size:18 final size:21
Alignment explanation
Indices: 771125--771174 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 21
771115 AAATTAAATG
*
771125 AATATAATAATAATAATTATT
1 AATATAATAATAATAATTATA
771146 AATATAAT-A-AATAATTA-A
1 AATATAATAATAATAATTATA
*
771164 AATATAGTAAT
1 AATATAATAAT
771175 TAAAATAGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
18 7 0.28
19 9 0.36
20 1 0.04
21 8 0.32
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (21 bp):
AATATAATAATAATAATTATA
Found at i:773534 original size:7 final size:7
Alignment explanation
Indices: 773522--773548 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
773512 TTCTTTGATA
773522 AGATTCC
1 AGATTCC
773529 AGATTCC
1 AGATTCC
773536 AGATTCC
1 AGATTCC
773543 AGATTC
1 AGATTC
773549 ATGTTCAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (7 bp):
AGATTCC
Found at i:774983 original size:12 final size:12
Alignment explanation
Indices: 774966--774997 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
774956 TAACGAGCAA
774966 CGAGCAACGAGT
1 CGAGCAACGAGT
774978 CGAGCAACGAGT
1 CGAGCAACGAGT
774990 CGAGCAAC
1 CGAGCAAC
774998 AAGTTTTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.34, C:0.28, G:0.31, T:0.06
Consensus pattern (12 bp):
CGAGCAACGAGT
Found at i:778607 original size:18 final size:20
Alignment explanation
Indices: 778585--778621 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
778575 TAAATAAATG
778585 AAAA-AGGCCAAAAAAACGA
1 AAAACAGGCCAAAAAAACGA
*
778604 AAAACATGCCAAAAAAAC
1 AAAACAGGCCAAAAAAAC
778622 ATAAGAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.68, C:0.19, G:0.11, T:0.03
Consensus pattern (20 bp):
AAAACAGGCCAAAAAAACGA
Found at i:780008 original size:58 final size:58
Alignment explanation
Indices: 779917--780028 Score: 197
Period size: 58 Copynumber: 1.9 Consensus size: 58
779907 CACGTCAACG
* *
779917 TGACGAGATCCAAATCAATGTAGTAAATGTCGTAAATCCCTAAATAATTTACTTGACA
1 TGACGAGATCCAAATCAAGGTAGTAAATATCGTAAATCCCTAAATAATTTACTTGACA
*
779975 TGACGAGATCCAAATCACGGTAGTAAATATCGTAAATCCCTAAATAATTTACTT
1 TGACGAGATCCAAATCAAGGTAGTAAATATCGTAAATCCCTAAATAATTTACTT
780029 TGTATTGTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
58 51 1.00
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.29
Consensus pattern (58 bp):
TGACGAGATCCAAATCAAGGTAGTAAATATCGTAAATCCCTAAATAATTTACTTGACA
Found at i:781535 original size:61 final size:61
Alignment explanation
Indices: 781470--781662 Score: 156
Period size: 61 Copynumber: 3.1 Consensus size: 61
781460 TTAATATTTT
781470 AATTTAATTATTGAATGTTCCTTTTTATTTCTGACTATGGTTCTTTATATTATTTTATTAC
1 AATTTAATTATTGAATGTTCCTTTTTATTTCTGACTATGGTTCTTTATATTATTTTATTAC
** * * * * * * * * ** * * *
781531 AATTTGGTCATT-AATCCTTCGTTTTTATTTATTTCGAATTTAAG-ACACTATTTTGTTAATATT
1 AATTTAATTATTGAAT-GTTCCTTTTTA-TT-TCT-GACTAT-GGTTCTTTATATTATT-TTATT
**
781594 TT
60 AC
*
781596 AATTTAATTACTGAATGTTCCTTTTTATTTCTGACTATGGTTCTTTATATTATTTTATTAC
1 AATTTAATTATTGAATGTTCCTTTTTATTTCTGACTATGGTTCTTTATATTATTTTATTAC
781657 AATTTA
1 AATTTA
781663 GTCATTATTT
Statistics
Matches: 89, Mismatches: 35, Indels: 16
0.64 0.25 0.11
Matches are distributed among these distances:
60 3 0.03
61 29 0.33
62 14 0.16
63 4 0.04
64 14 0.16
65 22 0.25
66 3 0.03
ACGTcount: A:0.26, C:0.10, G:0.08, T:0.55
Consensus pattern (61 bp):
AATTTAATTATTGAATGTTCCTTTTTATTTCTGACTATGGTTCTTTATATTATTTTATTAC
Found at i:781573 original size:126 final size:127
Alignment explanation
Indices: 781400--781669 Score: 515
Period size: 126 Copynumber: 2.1 Consensus size: 127
781390 TGCCGTGTTT
781400 TTACAATTTGGTCATTAATCCCTTCGTTTTTATTTATTTCGAATTTAAGACACTATTTTGTTAAT
1 TTACAATTTGGTCATTAATCCCTTCGTTTTTATTTATTTCGAATTTAAGACACTATTTTGTTAAT
*
781465 ATTTTAATTTAATTATTGAATGTTCCTTTTTATTTCTGACTATGGTTCTTTATATTATTTTA
66 ATTTTAATTTAATTACTGAATGTTCCTTTTTATTTCTGACTATGGTTCTTTATATTATTTTA
781527 TTACAATTTGGTCATTAAT-CCTTCGTTTTTATTTATTTCGAATTTAAGACACTATTTTGTTAAT
1 TTACAATTTGGTCATTAATCCCTTCGTTTTTATTTATTTCGAATTTAAGACACTATTTTGTTAAT
781591 ATTTTAATTTAATTACTGAATGTTCCTTTTTATTTCTGACTATGGTTCTTTATATTATTTTA
66 ATTTTAATTTAATTACTGAATGTTCCTTTTTATTTCTGACTATGGTTCTTTATATTATTTTA
*
781653 TTACAATTTAGTCATTA
1 TTACAATTTGGTCATTA
781670 TTTATGTTGT
Statistics
Matches: 141, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
126 122 0.87
127 19 0.13
ACGTcount: A:0.26, C:0.11, G:0.09, T:0.54
Consensus pattern (127 bp):
TTACAATTTGGTCATTAATCCCTTCGTTTTTATTTATTTCGAATTTAAGACACTATTTTGTTAAT
ATTTTAATTTAATTACTGAATGTTCCTTTTTATTTCTGACTATGGTTCTTTATATTATTTTA
Found at i:781621 original size:65 final size:64
Alignment explanation
Indices: 781426--781625 Score: 167
Period size: 65 Copynumber: 3.1 Consensus size: 64
781416 AATCCCTTCG
781426 TTTTTATTTATTTCGAATTTAAGACACTATTTTGTTAATATTTTAATTTAATTATTGAATGTTCC
1 TTTTTATTTATTTCGAATTTAAGACACTATTTTGTTAATATTTTAATTTAATTA-TGAATGTTCC
* * * * * ** * * * ** ** * * *
781491 TTTTTA-TT-TCT-GACTAT-GGTTCTTTATATTATT-TTATTACAATTTGGTCATTAATCCTTC
1 TTTTTATTTATTTCGAATTTAAG-ACACTATTTTGTTAATATTTTAATTTAATTATGAAT-GTTC
*
781551 G
64 C
781552 TTTTTATTTATTTCGAATTTAAGACACTATTTTGTTAATATTTTAATTTAATTACTGAATGTTCC
1 TTTTTATTTATTTCGAATTTAAGACACTATTTTGTTAATATTTTAATTTAATTA-TGAATGTTCC
781617 TTTTTATTT
1 TTTTTATTT
781626 CTGACTATGG
Statistics
Matches: 91, Mismatches: 36, Indels: 16
0.64 0.25 0.11
Matches are distributed among these distances:
60 4 0.04
61 21 0.23
62 14 0.15
63 4 0.04
64 14 0.15
65 30 0.33
66 4 0.04
ACGTcount: A:0.26, C:0.10, G:0.08, T:0.56
Consensus pattern (64 bp):
TTTTTATTTATTTCGAATTTAAGACACTATTTTGTTAATATTTTAATTTAATTATGAATGTTCC
Found at i:783302 original size:24 final size:26
Alignment explanation
Indices: 783275--783323 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
783265 TAAAGATTTA
783275 TATTTTAAATT-T-TGTATAAAAAAC
1 TATTTTAAATTCTATGTATAAAAAAC
**
783299 TATTTTTTATTCTATGTATAAAAAA
1 TATTTTAAATTCTATGTATAAAAAA
783324 GGTTATTCTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 9 0.43
25 1 0.05
26 11 0.52
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (26 bp):
TATTTTAAATTCTATGTATAAAAAAC
Found at i:802991 original size:38 final size:36
Alignment explanation
Indices: 802919--803171 Score: 186
Period size: 35 Copynumber: 7.0 Consensus size: 36
802909 TTGCAAATTG
802919 TTTTTGAAAATACATATATAATATATAGTTTTTAAAATA
1 TTTTTGAAAAT--ATATATAATATATAGTTTTTAAAA-A
* *
802958 TTTTTTGAAAATATGTATATTATATAGTTTTTAAAACA
1 -TTTTTGAAAATATATATAATATATAGTTTTTAAAA-A
*
802996 TTTTTGAAAAT-TATATAATATATAGTTTTTGAAAACG
1 TTTTTGAAAATATATATAATATATAGTTTTT-AAAA-A
* *
803033 TTTTT-AAAATATATATAATATATAG-TTTTGAAAC
1 TTTTTGAAAATATATATAATATATAGTTTTTAAAAA
* * * * *
803067 GTTATGAAAACATTTATATATATATAATTTTT--AAA
1 TTTTTGAAAATATATATA-ATATATAGTTTTTAAAAA
* *
803102 TCATTTG-AAATATATAT-ATATAGT-TTTTTTAAAACA
1 T-TTTTGAAAATATATATAATATA-TAGTTTTTAAAA-A
* * *
803138 -TTTTAAAAACT-TATATATTATAT-GTTTTTGAAAA
1 TTTTTGAAAA-TATATATAATATATAGTTTTTAAAAA
803172 CGTTTATATA
Statistics
Matches: 175, Mismatches: 25, Indels: 32
0.75 0.11 0.14
Matches are distributed among these distances:
33 10 0.06
34 8 0.05
35 42 0.24
36 42 0.24
37 39 0.22
38 23 0.13
40 11 0.06
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (36 bp):
TTTTTGAAAATATATATAATATATAGTTTTTAAAAA
Found at i:803031 original size:37 final size:36
Alignment explanation
Indices: 802919--803172 Score: 206
Period size: 37 Copynumber: 7.0 Consensus size: 36
802909 TTGCAAATTG
*
802919 TTTTTGAAAATACATATATAATATATAGTTTTTAAAATA
1 TTTTTGAAAAT---TATATAATATATAGTTTTTAAAACA
* *
802958 TTTTTTGAAAATATGTATATTATATAGTTTTTAAAACA
1 -TTTTTGAAAAT-TATATAATATATAGTTTTTAAAACA
*
802996 TTTTTGAAAATTATATAATATATAGTTTTTGAAAACG
1 TTTTTGAAAATTATATAATATATAGTTTTT-AAAACA
*
803033 TTTTT-AAAATATATATAATATATAG-TTTTGAAAC-
1 TTTTTGAAAAT-TATATAATATATAGTTTTTAAAACA
* * * *
803067 GTTATGAAAACATT-TATATATATATAATTTTTAAATCA
1 TTTTTG-AAA-ATTATATA-ATATATAGTTTTTAAAACA
803105 --TTTG-AAA-TATAT-ATATATAGTTTTTTTAAAACA
1 TTTTTGAAAATTATATAATATATAG--TTTTTAAAACA
* *
803138 -TTTTAAAAACTTATATATTATAT-GTTTTTGAAAAC
1 TTTTTGAAAA-TTATATAATATATAGTTTTT-AAAAC
803173 GTTTATATAT
Statistics
Matches: 180, Mismatches: 17, Indels: 38
0.77 0.07 0.16
Matches are distributed among these distances:
31 7 0.04
32 1 0.01
33 14 0.08
34 8 0.04
35 16 0.09
36 45 0.25
37 50 0.28
38 28 0.16
40 11 0.06
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.47
Consensus pattern (36 bp):
TTTTTGAAAATTATATAATATATAGTTTTTAAAACA
Found at i:804297 original size:106 final size:108
Alignment explanation
Indices: 804110--804324 Score: 416
Period size: 106 Copynumber: 2.0 Consensus size: 108
804100 GAAAAGTGGG
804110 CCTCGTTTGGATTTAAGTACTAGAACCAAAACGGTGTCGTTTTGGCACCAGATGAAACGGCGCCG
1 CCTCGTTTGGATTTAAGTACTAGAACCAAAACGGTGTCGTTTTGGCACCAGATGAAACGGCGCCG
804175 TTTTACGAGGGGCCATTGTGCAATTATGGGATTGTT-AATTCT
66 TTTTACGAGGGGCCATTGTGCAATTATGGGATTGTTAAATTCT
804217 CCTCGTTTGGATTTAAGTACTAGAACCAAAACGGTGTCG-TTTGGCACCAGATGAAACGGCGCCG
1 CCTCGTTTGGATTTAAGTACTAGAACCAAAACGGTGTCGTTTTGGCACCAGATGAAACGGCGCCG
804281 TTTTACGAGGGGCCATTGTGCAATTATGGGATTGTTAAATTCT
66 TTTTACGAGGGGCCATTGTGCAATTATGGGATTGTTAAATTCT
804324 C
1 C
804325 TCCACCGTCT
Statistics
Matches: 107, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
106 61 0.57
107 46 0.43
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (108 bp):
CCTCGTTTGGATTTAAGTACTAGAACCAAAACGGTGTCGTTTTGGCACCAGATGAAACGGCGCCG
TTTTACGAGGGGCCATTGTGCAATTATGGGATTGTTAAATTCT
Found at i:804513 original size:13 final size:13
Alignment explanation
Indices: 804497--804530 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
804487 CGTCAATTCC
804497 ATTTTTTTATTTT
1 ATTTTTTTATTTT
*
804510 ATTTTTTAATTTT
1 ATTTTTTTATTTT
804523 ATTTTTTT
1 ATTTTTTT
804531 TGGTCCCCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (13 bp):
ATTTTTTTATTTT
Found at i:808955 original size:94 final size:94
Alignment explanation
Indices: 808822--810437 Score: 2754
Period size: 94 Copynumber: 17.2 Consensus size: 94
808812 ATATCGTGCC
* * * ** *
808822 ACTCGAGACAACACAAGTTCAACTTCACGACGATGGGACCGGCTAATTGTC-ATAAACAATTTTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACC-GCTGGTTGTCAATAAACAATTTCC
*
808886 CAATTTCAACTTCACAACGAAGGATATTGG
65 CAATTTCAACTTCGCAACGAAGGATATTGG
* *
808916 ACTCCAGACAATGCAAGTTCAACTTCACGACGGAGGGACCG-TGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
* *
808980 AATTTCAACTTTGCAATGAAGGATATTGG
66 AATTTCAACTTCGCAACGAAGGATATTGG
*
809009 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGA-CG-TGGTTGTCAATAAACAA-TTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
*
809071 AATTTCAACTTCGCAACGAAGGCTATTGG
66 AATTTCAACTTCGCAACGAAGGATATTGG
809100 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
*
809165 AATTTTAACTTCGCAACGAAGGATATTGG
66 AATTTCAACTTCGCAACGAAGGATATTGG
*
809194 ACTCCAGACAACGCAAGTTCAACTTCACGACAAAGGGA-CGCTGGTTGTCAATAAACCAATTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA-CAATTTCC
* *
809258 CAATTTCAA--TCAC-ACAAAGGATATTGG
65 CAATTTCAACTTCGCAACGAAGGATATTGG
809285 ACTCCAGACAACGCAAGTTCAACTTCACGACGACTTCACGACGAAGAGACCGCTGGTTGTCAATA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACG-----A--A-G--G-GACCGCTGGTTGTCAATA
809350 AACAATTTCCCAATTTCAACTTCGCAACGAAGGATATTGG
55 AACAATTTCCCAATTTCAACTTCGCAACGAAGGATATTGG
*
809390 ACTCCAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
*
809455 AATTTTAACTTCGCAACGAAGGATATTGG
66 AATTTCAACTTCGCAACGAAGGATATTGG
809484 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
*
809549 AATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAACTTCGCAACGAAGGATATTGG
809578 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTT-CC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
809642 AATTTCAACTTCGCAACGAAGGATATTGG
66 AATTTCAACTTCGCAACGAAGGATATTGG
*
809671 ACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCT--TTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
809734 AATTTCAACTTCGCAACGAAGGATATTGG
66 AATTTCAACTTCGCAACGAAGGATATTGG
809763 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
809828 AATTTCAACTTCGCAACGAAGGAT-TTGG
66 AATTTCAACTTCGCAACGAAGGATATTGG
809856 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
809921 AATTTCAACTTCGCAACGAAGGATATTGG
66 AATTTCAACTTCGCAACGAAGGATATTGG
809950 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
810015 AATTTCAACTTCGCAACGAAGGATATTGG
66 AATTTCAACTTCGCAACGAAGGATATTGG
* * *
810044 ACTCCAGATAACGCAAGTTCAACTTCACGACAAAGGGACCGCTGGTTATCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
* * *
810109 AATTTCAACTTCACAACGAATGATATTTG
66 AATTTCAACTTCGCAACGAAGGATATTGG
*
810138 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
810203 AATTTCAACTTCGCAACGAAGGATATTGG
66 AATTTCAACTTCGCAACGAAGGATATTGG
810232 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
*
810297 AATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAACTTCGCAACGAAGGATATTGG
810326 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
*
810391 AATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAACTTCGCAACGAAGGATATTGG
810420 ACTCCAGACAACGCAAGT
1 ACTCCAGACAACGCAAGT
810438 CGAGAAGGGC
Statistics
Matches: 1448, Mismatches: 50, Indels: 48
0.94 0.03 0.03
Matches are distributed among these distances:
91 129 0.09
92 103 0.07
93 274 0.19
94 851 0.59
95 1 0.00
96 1 0.00
97 1 0.00
98 2 0.00
99 1 0.00
100 1 0.00
101 1 0.00
102 19 0.01
103 17 0.01
104 3 0.00
105 44 0.03
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (94 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
AATTTCAACTTCGCAACGAAGGATATTGG
Found at i:811233 original size:38 final size:37
Alignment explanation
Indices: 811161--811413 Score: 242
Period size: 36 Copynumber: 7.0 Consensus size: 37
811151 TTGCAAATTG
811161 TTTTTGAAAATACATATATAATATATAGTTTTTAAAACA
1 TTTTTGAAAAT--ATATATAATATATAGTTTTTAAAACA
* *
811200 TTTTTTGAAAATATGTATATTATATAGTTTTTAAAACA
1 -TTTTTGAAAATATATATAATATATAGTTTTTAAAACA
* *
811238 TTTTTGAAAAT-TATATAATATATAGTTTTGAAAACG
1 TTTTTGAAAATATATATAATATATAGTTTTTAAAACA
* *
811274 CTTTT-AAAATATATATAATATATAGTTTTGAAAAC-
1 TTTTTGAAAATATATATAATATATAGTTTTTAAAACA
* * * *
811309 GTTATGAAAACATTTAT-ATATATA-TTTTTAAAATCA
1 TTTTTGAAAATATATATAATATATAGTTTTTAAAA-CA
*
811345 -TTTTGAAAATATATAT-ATA-AGT-TTTTTTAAAACA
1 TTTTTGAAAATATATATAATATA-TAGTTTTTAAAACA
* *
811379 -TTTTAAAAACT-TATATATTATAT-GTTTTTGAAAAC
1 TTTTTGAAAA-TATATATAATATATAGTTTTT-AAAAC
811414 GTTTATATAT
Statistics
Matches: 185, Mismatches: 18, Indels: 24
0.81 0.08 0.11
Matches are distributed among these distances:
34 24 0.13
35 51 0.28
36 64 0.35
37 11 0.06
38 24 0.13
40 11 0.06
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (37 bp):
TTTTTGAAAATATATATAATATATAGTTTTTAAAACA
Found at i:813405 original size:2 final size:2
Alignment explanation
Indices: 813398--813470 Score: 146
Period size: 2 Copynumber: 36.5 Consensus size: 2
813388 CTGGAAAAAC
813398 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
813440 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
813471 GAAGGTAAAG
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 71 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:820544 original size:23 final size:24
Alignment explanation
Indices: 820517--820567 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
820507 CCAAACGACC
*
820517 AAAAACATG-CAATAAAGATAG-AG
1 AAAAACATGTC-ATAAAGACAGAAG
*
820540 AAAAATATGTCATAAAGACAGAAG
1 AAAAACATGTCATAAAGACAGAAG
820564 AAAA
1 AAAA
820568 TGTTTCATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.63, C:0.08, G:0.16, T:0.14
Consensus pattern (24 bp):
AAAAACATGTCATAAAGACAGAAG
Found at i:829960 original size:44 final size:44
Alignment explanation
Indices: 829905--829990 Score: 154
Period size: 44 Copynumber: 2.0 Consensus size: 44
829895 GAAAGTAACC
*
829905 TCAAAGATTCTTTCTTCACAGCTTGTTTTGGATCATTTGAAGAA
1 TCAAAGATTCTTTCTTCACAGCTTGTTTTGGATCATTGGAAGAA
*
829949 TCAAAGATTCTTTCTTTACAGCTTGTTTTGGATCATTGGAAG
1 TCAAAGATTCTTTCTTCACAGCTTGTTTTGGATCATTGGAAG
829991 GGAGTCAGGG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (44 bp):
TCAAAGATTCTTTCTTCACAGCTTGTTTTGGATCATTGGAAGAA
Found at i:831755 original size:22 final size:24
Alignment explanation
Indices: 831710--831766 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 24
831700 AAATTGAACG
* *
831710 ACCGGTTTTTTTACCGGATTAAAA
1 ACCGGTTTTTTAACCGGATAAAAA
831734 ACCGGTTTTTTAACC-GA-AAAAA
1 ACCGGTTTTTTAACCGGATAAAAA
**
831756 TTCGGTTTTTT
1 ACCGGTTTTTT
831767 TAAAAACCGG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 13 0.45
23 2 0.07
24 14 0.48
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (24 bp):
ACCGGTTTTTTAACCGGATAAAAA
Found at i:840384 original size:14 final size:12
Alignment explanation
Indices: 840347--840379 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
840337 CTTATTAAAA
*
840347 TCCTTCTCTCTC
1 TCCTTCTCTTTC
840359 TCCTTCTCTTTC
1 TCCTTCTCTTTC
840371 TCCTTCTCT
1 TCCTTCTCT
840380 GTTTCCCTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (12 bp):
TCCTTCTCTTTC
Found at i:850099 original size:15 final size:13
Alignment explanation
Indices: 850071--850128 Score: 57
Period size: 12 Copynumber: 4.4 Consensus size: 13
850061 TATAGCTAAT
*
850071 TTTTTCCTATTTTC
1 TTTTTCTTA-TTTC
850085 TTTTATCATTATTTC
1 TTTT-TC-TTATTTC
850100 TTTTTCTTATTT-
1 TTTTTCTTATTTC
*
850112 TTTTTCCTATTT-
1 TTTTTCTTATTTC
850124 TTTTT
1 TTTTT
850129 ATCATTAACA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
12 16 0.40
13 6 0.15
14 6 0.15
15 10 0.25
16 2 0.05
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTTCTTATTTC
Found at i:850408 original size:30 final size:32
Alignment explanation
Indices: 850365--850462 Score: 128
Period size: 30 Copynumber: 3.0 Consensus size: 32
850355 TTCGAAACAT
850365 TAATTACCGATATAGGTAAACACAACTATCG-
1 TAATTACCGATATAGGTAAACACAACTATCGA
*
850396 T-ATTAGCGATATAGGTAAACACAACTATCGCAACA
1 TAATTACCGATATAGGTAAACACAACTATCG----A
850431 CTAATTACCGATATAGGTAAACACAACTATCG
1 -TAATTACCGATATAGGTAAACACAACTATCG
850463 CAATGCGAAT
Statistics
Matches: 58, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
30 28 0.48
31 1 0.02
36 1 0.02
37 28 0.48
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.24
Consensus pattern (32 bp):
TAATTACCGATATAGGTAAACACAACTATCGA
Found at i:851495 original size:30 final size:30
Alignment explanation
Indices: 851459--851548 Score: 180
Period size: 30 Copynumber: 3.0 Consensus size: 30
851449 TATAAACCGA
851459 CCATTGTGCATGTTTGTGATAGATTTATAG
1 CCATTGTGCATGTTTGTGATAGATTTATAG
851489 CCATTGTGCATGTTTGTGATAGATTTATAG
1 CCATTGTGCATGTTTGTGATAGATTTATAG
851519 CCATTGTGCATGTTTGTGATAGATTTATAG
1 CCATTGTGCATGTTTGTGATAGATTTATAG
851549 TCAATATTAC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 60 1.00
ACGTcount: A:0.23, C:0.10, G:0.23, T:0.43
Consensus pattern (30 bp):
CCATTGTGCATGTTTGTGATAGATTTATAG
Found at i:856163 original size:34 final size:34
Alignment explanation
Indices: 856125--856194 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
856115 GACCAATATA
856125 TAAATATTTCAAAATATTGGATTTAATAACTTAT
1 TAAATATTTCAAAATATTGGATTTAATAACTTAT
856159 TAAATATTTCAAAATATTGGATTTAATAACTTAT
1 TAAATATTTCAAAATATTGGATTTAATAACTTAT
856193 TA
1 TA
856195 CAAACTTACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (34 bp):
TAAATATTTCAAAATATTGGATTTAATAACTTAT
Found at i:867768 original size:4 final size:4
Alignment explanation
Indices: 867759--867795 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
867749 CCCACAGATC
* *
867759 TTAT TTAT TTAT TTAT TTAC TTAT TTAC TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT T
867796 AAATTCATTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.70
Consensus pattern (4 bp):
TTAT
Found at i:868977 original size:24 final size:24
Alignment explanation
Indices: 868909--868979 Score: 106
Period size: 24 Copynumber: 3.0 Consensus size: 24
868899 TTGTATAAAT
*
868909 TGCACCGAAGTGCCGCGTAAAAAG
1 TGCACCGAAGTGCCGCGTAGAAAG
*
868933 TGCACTGAAGTGCCGCGTAGAAAG
1 TGCACCGAAGTGCCGCGTAGAAAG
* *
868957 TGCACCGAAGTGCCACATAGAAA
1 TGCACCGAAGTGCCGCGTAGAAA
868980 TATCCCAAAG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.34, C:0.24, G:0.28, T:0.14
Consensus pattern (24 bp):
TGCACCGAAGTGCCGCGTAGAAAG
Found at i:869029 original size:23 final size:23
Alignment explanation
Indices: 868969--869030 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
868959 CACCGAAGTG
*
868969 CCACATAGAAATATCCCAAAGGA
1 CCACATAGAAATGTCCCAAAGGA
* * *
868992 CCACATAGTATTGTCCCGAAGGA
1 CCACATAGAAATGTCCCAAAGGA
* *
869015 CCGCGTAGAAATGTCC
1 CCACATAGAAATGTCC
869031 AGAAAAACCA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.18
Consensus pattern (23 bp):
CCACATAGAAATGTCCCAAAGGA
Found at i:871857 original size:17 final size:17
Alignment explanation
Indices: 871835--871868 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
871825 GGGAAGAGAA
871835 GAAAAAGATAGCTAAAC
1 GAAAAAGATAGCTAAAC
871852 GAAAAAGATAGCTAAAC
1 GAAAAAGATAGCTAAAC
871869 CAAGTCTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.12, G:0.18, T:0.12
Consensus pattern (17 bp):
GAAAAAGATAGCTAAAC
Found at i:872672 original size:19 final size:20
Alignment explanation
Indices: 872648--872733 Score: 158
Period size: 20 Copynumber: 4.4 Consensus size: 20
872638 CATAATACTT
872648 AAATAATATTA-TTTTTTAA
1 AAATAATATTATTTTTTTAA
872667 AAATAATATTA-TTTTTTAA
1 AAATAATATTATTTTTTTAA
872686 AAATAATATTATTTTTTTAA
1 AAATAATATTATTTTTTTAA
872706 AAATAATATTATTTTTTTAA
1 AAATAATATTATTTTTTTAA
872726 AAATAATA
1 AAATAATA
872734 CTTTTATCAC
Statistics
Matches: 66, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
19 30 0.45
20 36 0.55
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
AAATAATATTATTTTTTTAA
Found at i:872829 original size:91 final size:92
Alignment explanation
Indices: 872706--872874 Score: 268
Period size: 91 Copynumber: 1.8 Consensus size: 92
872696 ATTTTTTTAA
** *
872706 AAATAATATTATTTTTTTAAAAATAATACTTTTATCACGTAAAATAAAAACATATCATCTAAAAA
1 AAATAATATTA-TTTTAAAAAAACAATACTTTTATCACGTAAAATAAAAACATATCATCTAAAAA
872771 ATAAAGACATATTAGAGACATAATACTT
65 ATAAAGACATATTAGAGACATAATACTT
* * *
872799 AAATAATATTA-TTTAAAAAAACAATACTTTTATCAGGTAAAATCAAAATATATCATCTAAAAAA
1 AAATAATATTATTTTAAAAAAACAATACTTTTATCACGTAAAATAAAAACATATCATCTAAAAAA
872863 TAAAGACATATT
66 TAAAGACATATT
872875 TAACTAATTA
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
91 59 0.84
93 11 0.16
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.33
Consensus pattern (92 bp):
AAATAATATTATTTTAAAAAAACAATACTTTTATCACGTAAAATAAAAACATATCATCTAAAAAA
TAAAGACATATTAGAGACATAATACTT
Found at i:873000 original size:27 final size:27
Alignment explanation
Indices: 872962--873014 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
872952 GAAATTTTCT
* *
872962 ATTTTTTCTATTTTAAT-TTTTTTATA
1 ATTTTTTATATTTTAATATTTATTATA
872988 ATTTTTTAATATTTTAATATTTATTAT
1 ATTTTTT-ATATTTTAATATTTATTAT
873015 TTTTAATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 7 0.30
27 9 0.39
28 7 0.30
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (27 bp):
ATTTTTTATATTTTAATATTTATTATA
Found at i:877655 original size:9 final size:8
Alignment explanation
Indices: 877641--877720 Score: 58
Period size: 9 Copynumber: 9.8 Consensus size: 8
877631 TAATGTTTTT
877641 TTATATTAA
1 TTATATT-A
877650 TTATATATA
1 TTATAT-TA
*
877659 TAATATT-
1 TTATATTA
*
877666 TTATATTTT
1 TTATA-TTA
877675 TTATATTAA
1 TTATATT-A
877684 TTATA-TA
1 TTATATTA
*
877691 TAATATT-
1 TTATATTA
*
877698 TTATATTT
1 TTATATTA
877706 TTATATTAA
1 TTATATT-A
877715 TTATAT
1 TTATAT
877721 AATACAAACC
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
7 15 0.26
8 14 0.24
9 28 0.48
10 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TTATATTA
Found at i:877680 original size:34 final size:34
Alignment explanation
Indices: 877637--877721 Score: 149
Period size: 32 Copynumber: 2.6 Consensus size: 34
877627 TATATAATGT
877637 TTTTTTATATTAATTATATATATAATATTTTATA
1 TTTTTTATATTAATTATATATATAATATTTTATA
877671 TTTTTTATATTAA-T-TATATATAATATTTTATA
1 TTTTTTATATTAATTATATATATAATATTTTATA
877703 -TTTTTATATTAATTATATA
1 TTTTTTATATTAATTATATA
877722 ATACAAACCC
Statistics
Matches: 49, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
31 12 0.24
32 19 0.39
33 5 0.10
34 13 0.27
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (34 bp):
TTTTTTATATTAATTATATATATAATATTTTATA
Found at i:878135 original size:22 final size:22
Alignment explanation
Indices: 878110--878152 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
878100 ATTGCAATTT
878110 ATGAAATATAAATATTTTTTTG
1 ATGAAATATAAATATTTTTTTG
*
878132 ATGAAATCTAAATATTTTTTT
1 ATGAAATATAAATATTTTTTT
878153 AATATTTTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.51
Consensus pattern (22 bp):
ATGAAATATAAATATTTTTTTG
Found at i:878811 original size:24 final size:24
Alignment explanation
Indices: 878783--878837 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
878773 AGGATAATCA
878783 AATAAACGAGTCGATAAACGAGCT
1 AATAAACGAGTCGATAAACGAGCT
* * * *
878807 TATAAACGATTCGATAAGCGGGCT
1 AATAAACGAGTCGATAAACGAGCT
878831 AATAAAC
1 AATAAAC
878838 AAACTTGTAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.44, C:0.16, G:0.20, T:0.20
Consensus pattern (24 bp):
AATAAACGAGTCGATAAACGAGCT
Done.