Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 140 of 214
Found at i:42270542 original size:9 final size:9
Alignment explanation
Indices: 42270519--42270557 Score: 60
Period size: 9 Copynumber: 4.1 Consensus size: 9
42270509 CCCTGGTAGA
42270519 TTTTGTTTTG
1 TTTT-TTTTG
42270529 TTTTTTTTTG
1 -TTTTTTTTG
42270539 TTTTTTTTG
1 TTTTTTTTG
42270548 TTTTTTTTG
1 TTTTTTTTG
42270557 T
1 T
42270558 CATCCCCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 19 0.68
10 5 0.18
11 4 0.14
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:42272788 original size:24 final size:24
Alignment explanation
Indices: 42272760--42272805 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
42272750 ATCATTTTTT
* *
42272760 GCTACTCATTCATTTGCTTTTGAA
1 GCTACTCATGCATTTCCTTTTGAA
*
42272784 GCTACTCCTGCATTTCCTTTTG
1 GCTACTCATGCATTTCCTTTTG
42272806 GGATTGTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.15, C:0.26, G:0.13, T:0.46
Consensus pattern (24 bp):
GCTACTCATGCATTTCCTTTTGAA
Found at i:42275694 original size:22 final size:21
Alignment explanation
Indices: 42275659--42275754 Score: 74
Period size: 19 Copynumber: 4.7 Consensus size: 21
42275649 AAGGGGTATC
* *
42275659 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
42275680 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
42275703 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
42275722 TATATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
42275741 TGCATATCATATCT
1 TACAAATCATATCT
42275755 AAGATTGCAT
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
19 34 0.54
21 4 0.06
22 15 0.24
23 10 0.16
ACGTcount: A:0.41, C:0.16, G:0.06, T:0.38
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:42275702 original size:23 final size:22
Alignment explanation
Indices: 42275659--42275716 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
42275649 AAGGGGTATC
* *
42275659 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
42275680 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
42275703 TGCATATCATATCT
1 TACAAATCATATCT
42275717 AAGATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:42275719 original size:19 final size:19
Alignment explanation
Indices: 42275695--42275767 Score: 128
Period size: 19 Copynumber: 3.8 Consensus size: 19
42275685 AATCATATCT
42275695 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
42275714 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
42275733 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
42275752 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
42275768 CCTGAAGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:42283347 original size:27 final size:27
Alignment explanation
Indices: 42283306--42283381 Score: 125
Period size: 27 Copynumber: 2.8 Consensus size: 27
42283296 TAGTATTGGC
* *
42283306 GCCTATCTAGAAGGCGCCAATGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTGGT
42283333 GCCTATCTGGGAGGCGCCAATGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTGGT
*
42283360 GCCTATTTGGGAGGCGCCAATG
1 GCCTATCTGGGAGGCGCCAATG
42283382 TGATTTTTCT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.18, C:0.22, G:0.37, T:0.22
Consensus pattern (27 bp):
GCCTATCTGGGAGGCGCCAATGGTGGT
Found at i:42283470 original size:22 final size:22
Alignment explanation
Indices: 42283442--42283483 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
42283432 AACAGAAGAA
42283442 AGAAGAAAAGAATGAAGGAAGC
1 AGAAGAAAAGAATGAAGGAAGC
42283464 AGAAGAAAAGAATGAAGGAA
1 AGAAGAAAAGAATGAAGGAA
42283484 AAGAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.62, C:0.02, G:0.31, T:0.05
Consensus pattern (22 bp):
AGAAGAAAAGAATGAAGGAAGC
Found at i:42283487 original size:18 final size:21
Alignment explanation
Indices: 42283442--42283493 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 21
42283432 AACAGAAGAA
42283442 AGAAGAAAAGAATGAAGGAAGC
1 AGAAGAAAAGAATGAAGGAA-C
*
42283464 AGAAGAAAAGAATGAAGGAAA
1 AGAAGAAAAGAATGAAGGAAC
*
42283485 AGAAAAAAA
1 AGAAGAAAA
42283494 ATTAGGTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
21 8 0.29
22 20 0.71
ACGTcount: A:0.67, C:0.02, G:0.27, T:0.04
Consensus pattern (21 bp):
AGAAGAAAAGAATGAAGGAAC
Found at i:42283494 original size:22 final size:22
Alignment explanation
Indices: 42283436--42283493 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
42283426 TACAGAAACA
*
42283436 GAAGAAAGAAGAAAAGAATGAAG
1 GAAG-AAGAAAAAAAGAATGAAG
* *
42283459 GAAGCAGAAGAAAAGAATGAAG
1 GAAGAAGAAAAAAAGAATGAAG
42283481 GAA-AAGAAAAAAA
1 GAAGAAGAAAAAAA
42283494 ATTAGGTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
21 8 0.25
22 20 0.62
23 4 0.12
ACGTcount: A:0.67, C:0.02, G:0.28, T:0.03
Consensus pattern (22 bp):
GAAGAAGAAAAAAAGAATGAAG
Found at i:42286837 original size:6 final size:6
Alignment explanation
Indices: 42286818--42286870 Score: 79
Period size: 6 Copynumber: 8.8 Consensus size: 6
42286808 AGAATGTAGT
* * *
42286818 TCTGCC TCTCGC TCTGGC TCTGGC TCTGGC TTTGGC TCTGGC TCTGGC
1 TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC
42286866 TCTGG
1 TCTGG
42286871 TGCATGATGC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.00, C:0.34, G:0.30, T:0.36
Consensus pattern (6 bp):
TCTGGC
Found at i:42288520 original size:16 final size:15
Alignment explanation
Indices: 42288489--42288530 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
42288479 ACAAAATCAG
*
42288489 ATAAAATTTAATTAT
1 ATAAAAGTTAATTAT
42288504 ATAAAAGTTACATTAT
1 ATAAAAGTTA-ATTAT
*
42288520 ATAAAAATTAA
1 ATAAAAGTTAA
42288531 ATGAGTTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (15 bp):
ATAAAAGTTAATTAT
Found at i:42288695 original size:38 final size:38
Alignment explanation
Indices: 42288641--42288714 Score: 139
Period size: 38 Copynumber: 1.9 Consensus size: 38
42288631 TAAAAAACCC
42288641 AAACTTTTAATAAAATGATTTTTAATTTTTTTATAATT
1 AAACTTTTAATAAAATGATTTTTAATTTTTTTATAATT
*
42288679 AAACTTTTAATGAAATGATTTTTAATTTTTTTATAA
1 AAACTTTTAATAAAATGATTTTTAATTTTTTTATAA
42288715 ACTTTATATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (38 bp):
AAACTTTTAATAAAATGATTTTTAATTTTTTTATAATT
Found at i:42288888 original size:21 final size:23
Alignment explanation
Indices: 42288844--42288895 Score: 74
Period size: 21 Copynumber: 2.4 Consensus size: 23
42288834 CAAATTACTA
*
42288844 ACAA-ATTAATTATAAAATAATT
1 ACAATATTAATTACAAAATAATT
42288866 ACAATATTAA-TACAAAA-AATT
1 ACAATATTAATTACAAAATAATT
42288887 ACAATATTA
1 ACAATATTA
42288896 CAATATATCC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 13 0.46
22 10 0.36
23 5 0.18
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.33
Consensus pattern (23 bp):
ACAATATTAATTACAAAATAATT
Found at i:42288934 original size:19 final size:19
Alignment explanation
Indices: 42288910--42289199 Score: 105
Period size: 19 Copynumber: 15.2 Consensus size: 19
42288900 ATATCCCCAC
42288910 ATTACAATATTCATACAAA
1 ATTACAATATTCATACAAA
*
42288929 ATTACAATA-T--TACAAT
1 ATTACAATATTCATACAAA
*
42288945 ATT-C-ATA--CA-AAAAA
1 ATTACAATATTCATACAAA
*
42288959 ATTGCAATATTCATACAAA
1 ATTACAATATTCATACAAA
* *
42288978 ATTATAATA-T--TACAAT
1 ATTACAATATTCATACAAA
*
42288994 ATT-C-ATA--CA-AAAAA
1 ATTACAATATTCATACAAA
*
42289008 ATTGCAATATTCATACAAAACTATAA
1 ATTACAATATTCAT-----AC-A-AA
*
42289034 TATTACAATGTTCATACAAA
1 -ATTACAATATTCATACAAA
42289054 ATTACAATATTCATACAAAAA
1 ATTACAATATTCATAC--AAA
* * *
42289075 ATTACTA-ATCCA-AAATTATA
1 ATTACAATATTCATACA--A-A
* *
42289095 AATACAAATTTAATT-ATAAAATA
1 ATTAC-AA--T-ATTCATACAA-A
*
42289118 ATTACAATATTCATACAAC
1 ATTACAATATTCATACAAA
*
42289137 ATTACAATATTCATAAAAA
1 ATTACAATATTCATACAAA
*
42289156 ATTATAATATTCATACAAAAA
1 ATTACAATATTCATAC--AAA
*
42289177 ATTTAAAATATTCATACAAA
1 A-TTACAATATTCATACAAA
42289197 ATT
1 ATT
42289200 CTAATCTAAA
Statistics
Matches: 206, Mismatches: 28, Indels: 74
0.67 0.09 0.24
Matches are distributed among these distances:
14 18 0.09
15 3 0.01
16 22 0.11
17 1 0.00
18 6 0.03
19 73 0.35
20 21 0.10
21 15 0.07
22 18 0.09
23 7 0.03
24 2 0.01
25 6 0.03
26 2 0.01
27 12 0.06
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.33
Consensus pattern (19 bp):
ATTACAATATTCATACAAA
Found at i:42288987 original size:49 final size:49
Alignment explanation
Indices: 42288914--42289073 Score: 263
Period size: 49 Copynumber: 3.3 Consensus size: 49
42288904 CCCCACATTA
*
42288914 CAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAAATTG
1 CAATATTCATACAAAATTATAATATTACAATATTCATACAAAAAAATTG
42288963 CAATATTCATACAAAATTATAATATTACAATATTCATACAAAAAAATTG
1 CAATATTCATACAAAATTATAATATTACAATATTCATACAAAAAAATTG
* * *
42289012 CAATATTCATACAAAACTATAATATTACAATGTTCATAC---AAAATTA
1 CAATATTCATACAAAATTATAATATTACAATATTCATACAAAAAAATTG
42289058 CAATATTCATACAAAA
1 CAATATTCATACAAAA
42289074 AATTACTAAT
Statistics
Matches: 107, Mismatches: 4, Indels: 3
0.94 0.04 0.03
Matches are distributed among these distances:
46 22 0.21
49 85 0.79
ACGTcount: A:0.53, C:0.14, G:0.02, T:0.31
Consensus pattern (49 bp):
CAATATTCATACAAAATTATAATATTACAATATTCATACAAAAAAATTG
Found at i:42289001 original size:76 final size:75
Alignment explanation
Indices: 42288910--42289064 Score: 192
Period size: 76 Copynumber: 2.0 Consensus size: 75
42288900 ATATCCCCAC
*
42288910 ATTACAATATTCATACAAAATTACAATATTACAATATTCATAC-AAA-A-AA-ATTGCAATATTC
1 ATTACAATATTCATAC-AAA--A-AA-ATTACAATATTCATACAAAACATAATATTACAATATTC
*
42288971 ATACAAAATTATAAT
61 ATACAAAATTACAAT
* *
42288986 ATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAACTATAATATTACAATGTTCATAC
1 ATTACAATATTCATACAAAAAAATTACAATATTCATACAAAAC-ATAATATTACAATATTCATAC
42289051 AAAATTACAAT
65 AAAATTACAAT
42289062 ATT
1 ATT
42289065 CATACAAAAA
Statistics
Matches: 70, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
71 15 0.21
72 5 0.07
73 1 0.01
74 1 0.01
75 5 0.07
76 43 0.61
ACGTcount: A:0.52, C:0.14, G:0.02, T:0.33
Consensus pattern (75 bp):
ATTACAATATTCATACAAAAAAATTACAATATTCATACAAAACATAATATTACAATATTCATACA
AAATTACAAT
Found at i:42289017 original size:30 final size:27
Alignment explanation
Indices: 42288910--42289064 Score: 186
Period size: 27 Copynumber: 6.1 Consensus size: 27
42288900 ATATCCCCAC
42288910 ATTACAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
42288937 ATTACAATATTCATAC-AAA--A-AA-
1 ATTACAATATTCATACAAAATTACAAT
* *
42288959 ATTGCAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTACAAT
42288986 ATTACAATATTCATAC-AAA--A-AA-
1 ATTACAATATTCATACAAAATTACAAT
* * *
42289008 ATTGCAATATTCATACAAAACTATAAT
1 ATTACAATATTCATACAAAATTACAAT
*
42289035 ATTACAATGTTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
42289062 ATT
1 ATT
42289065 CATACAAAAA
Statistics
Matches: 111, Mismatches: 7, Indels: 20
0.80 0.05 0.14
Matches are distributed among these distances:
22 30 0.27
23 10 0.09
24 2 0.02
25 2 0.02
26 10 0.09
27 57 0.51
ACGTcount: A:0.52, C:0.14, G:0.02, T:0.33
Consensus pattern (27 bp):
ATTACAATATTCATACAAAATTACAAT
Found at i:42289100 original size:98 final size:96
Alignment explanation
Indices: 42288914--42289175 Score: 235
Period size: 98 Copynumber: 2.7 Consensus size: 96
42288904 CCCCACATTA
* *
42288914 CAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAA
1 CAATATTCATACAAAACTACAATATTACAATATTCATAC--AAAAATTACAATATTCATACAAAA
** * **
42288979 TTATAATATTACAATATTCATACAAAAAAATTG
64 TTATAATACCAAAATATAAATACAAAAAAATTG
* *
42289012 CAATATTCATACAAAACTATAATATTACAATGTTCATAC-AAAATTACAATATTCATACAAAAAA
1 CAATATTCATACAAAACTACAATATTACAATATTCATACAAAAATTACAATATTCATAC--AAAA
** *
42289076 TTACTAAT-CCAAAATTATAAATACAAATTTAATTA
64 TTA-TAATACCAAAA-TATAAATACAAA-AAAATTG
* * * * * *
42289111 TAA-AATAATTACAATATTCATACAACATTACAATATTCATA-AAAAATTATAATATTCATACAA
1 CAATATTCA-TACAA-A-AC-TACAATATTACAATATTCATACAAAAATTACAATATTCATACAA
42289174 AA
62 AA
42289176 AATTTAAAAT
Statistics
Matches: 134, Mismatches: 20, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
95 18 0.13
97 10 0.07
98 53 0.40
99 11 0.08
100 5 0.04
101 1 0.01
102 36 0.27
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.32
Consensus pattern (96 bp):
CAATATTCATACAAAACTACAATATTACAATATTCATACAAAAATTACAATATTCATACAAAATT
ATAATACCAAAATATAAATACAAAAAAATTG
Found at i:42289173 original size:49 final size:48
Alignment explanation
Indices: 42288910--42289174 Score: 154
Period size: 49 Copynumber: 5.4 Consensus size: 48
42288900 ATATCCCCAC
*
42288910 ATTACAATATTCATACAAAAT--TACAATATTACAATATTCATACAAAAAA
1 ATTACAATATTCATACAAATTCATACAATATTACAATATTCAT---AAAAA
*
42288959 ATTGCAATATTCATACAAAATT-AT--AATATTACAATATTCATACAAAAAA
1 ATTACAATATTCATAC-AAATTCATACAATATTACAATATTCAT---AAAAA
* * * * *
42289008 ATTGCAATATTCATACAAA-AC-TATAATATTACAATGTTCATACAAA
1 ATTACAATATTCATACAAATTCATACAATATTACAATATTCATAAAAA
* * * * **
42289054 ATTACAATATTCATACAAAAAATTACTAATCCAAAATTATAA-ATACA-AATTTA
1 ATTACAATATTCATAC---AAATT-C--ATACAATATTACAATATTCATAA-AAA
* * * *
42289107 ATTATAA-AATAATTACAATATTCATACAACATTACAATATTCATAAAAA
1 ATTACAATATTCA-TACAA-ATTCATACAATATTACAATATTCATAAAAA
*
42289156 ATTATAATATTCATACAAA
1 ATTACAATATTCATACAAA
42289175 AAATTTAAAA
Statistics
Matches: 170, Mismatches: 27, Indels: 39
0.72 0.11 0.17
Matches are distributed among these distances:
46 19 0.11
47 1 0.01
48 15 0.09
49 92 0.54
50 12 0.07
51 5 0.03
52 4 0.02
53 13 0.08
54 9 0.05
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.32
Consensus pattern (48 bp):
ATTACAATATTCATACAAATTCATACAATATTACAATATTCATAAAAA
Found at i:42289373 original size:3 final size:3
Alignment explanation
Indices: 42289367--42289427 Score: 83
Period size: 3 Copynumber: 21.3 Consensus size: 3
42289357 TTTTTTCTCT
*
42289367 TTC TTC TTC TTC TTC -TC TTC TTC TTC TTC TTC TCC TTC -TC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
*
42289413 TCC TTC -TC TTC TTC T
1 TTC TTC TTC TTC TTC T
42289428 CCTTTCTCTC
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
2 6 0.12
3 45 0.88
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (3 bp):
TTC
Found at i:42289387 original size:14 final size:15
Alignment explanation
Indices: 42289369--42289431 Score: 94
Period size: 14 Copynumber: 4.2 Consensus size: 15
42289359 TTTTCTCTTT
42289369 CTTCTTCTTCTTCTC
1 CTTCTTCTTCTTCTC
42289384 TTCTTCTTCTTCTTCTC
1 --CTTCTTCTTCTTCTC
42289401 CTTC-TCTTCTTCTC
1 CTTCTTCTTCTTCTC
42289415 CTTC-TCTTCTTCTC
1 CTTCTTCTTCTTCTC
42289429 CTT
1 CTT
42289432 TCTCTCTTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
14 27 0.59
15 4 0.09
17 15 0.33
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (15 bp):
CTTCTTCTTCTTCTC
Found at i:42289439 original size:14 final size:13
Alignment explanation
Indices: 42289368--42289439 Score: 83
Period size: 14 Copynumber: 5.3 Consensus size: 13
42289358 TTTTTCTCTT
*
42289368 TCTTCTTCTTCTTC
1 TCTTCTCCTTC-TC
*
42289382 TCTTCTTCTTCT-
1 TCTTCTCCTTCTC
42289394 TCTTCTCCTTCTC
1 TCTTCTCCTTCTC
42289407 TTCTTCTCCTTCTC
1 -TCTTCTCCTTCTC
42289421 TTCTTCTCCTTTCTC
1 -TCTTCTCC-TTCTC
42289436 TCTT
1 TCTT
42289440 TTTTTTTTCT
Statistics
Matches: 54, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
12 11 0.20
13 1 0.02
14 37 0.69
15 5 0.09
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (13 bp):
TCTTCTCCTTCTC
Found at i:42294050 original size:14 final size:14
Alignment explanation
Indices: 42294031--42294060 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
42294021 ATATGCTATT
42294031 TTTTTATAACATTA
1 TTTTTATAACATTA
*
42294045 TTTTTATAATATTA
1 TTTTTATAACATTA
42294059 TT
1 TT
42294061 ATTTTTATAA
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:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTTTATAACATTA
Found at i:42298384 original size:29 final size:29
Alignment explanation
Indices: 42298316--42298385 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 29
42298306 AATTAATATT
*
42298316 AAAATTCAATCAAAAAATATAATTTTAGTGAC
1 AAAATTCAATCAAAAAAAATAA---TAGTGAC
42298348 AAAATTCAATCAAACAAAAATAA-AGTGAC
1 AAAATTCAATCAAA-AAAAATAATAGTGAC
42298377 AAAATTCAA
1 AAAATTCAA
42298386 GATAAAGTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
29 15 0.42
32 14 0.39
33 7 0.19
ACGTcount: A:0.59, C:0.11, G:0.06, T:0.24
Consensus pattern (29 bp):
AAAATTCAATCAAAAAAAATAATAGTGAC
Found at i:42301665 original size:6 final size:7
Alignment explanation
Indices: 42301647--42301685 Score: 60
Period size: 7 Copynumber: 5.4 Consensus size: 7
42301637 AATTCTTATT
42301647 ATTTTTA
1 ATTTTTA
42301654 ATTTTTA
1 ATTTTTA
42301661 ATTTTTA
1 ATTTTTA
42301668 ATTTTTAA
1 ATTTTT-A
*
42301676 AATTTTA
1 ATTTTTA
42301683 ATT
1 ATT
42301686 ATTTTTCAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 23 0.79
8 6 0.21
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (7 bp):
ATTTTTA
Found at i:42301673 original size:15 final size:15
Alignment explanation
Indices: 42301647--42301690 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
42301637 AATTCTTATT
42301647 ATTTTTAA-TTTTTA
1 ATTTTTAATTTTTTA
*
42301661 ATTTTTAATTTTTAA
1 ATTTTTAATTTTTTA
*
42301676 AATTTTAATTATTTT
1 ATTTTTAATT-TTTT
42301691 TCAATTAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 8 0.32
15 14 0.56
16 3 0.12
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
ATTTTTAATTTTTTA
Found at i:42307912 original size:13 final size:14
Alignment explanation
Indices: 42307890--42307937 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
42307880 TTAAATCTAT
*
42307890 ATTTATATAAA-AA
1 ATTTAAATAAATAA
*
42307903 ATTTAAATAAATGA
1 ATTTAAATAAATAA
* *
42307917 ATTTAAATTAATCA
1 ATTTAAATAAATAA
42307931 ATTTAAA
1 ATTTAAA
42307938 ATATGAATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
13 10 0.33
14 20 0.67
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (14 bp):
ATTTAAATAAATAA
Found at i:42307921 original size:14 final size:14
Alignment explanation
Indices: 42307902--42307946 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
42307892 TTATATAAAA
42307902 AATTTAAATAAATG
1 AATTTAAATAAATG
* *
42307916 AATTTAAATTAATC
1 AATTTAAATAAATG
*
42307930 AATTTAAA-ATATG
1 AATTTAAATAAATG
42307943 AATT
1 AATT
42307947 AATTTGAGTA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
13 6 0.23
14 20 0.77
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.40
Consensus pattern (14 bp):
AATTTAAATAAATG
Found at i:42308898 original size:14 final size:14
Alignment explanation
Indices: 42308879--42308905 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
42308869 ATCGTGATAG
42308879 AATCCAAATTCAAA
1 AATCCAAATTCAAA
42308893 AATCCAAATTCAA
1 AATCCAAATTCAA
42308906 GTACTGAGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.22, G:0.00, T:0.22
Consensus pattern (14 bp):
AATCCAAATTCAAA
Found at i:42312416 original size:4 final size:4
Alignment explanation
Indices: 42312407--42312431 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
42312397 TAGAATGATA
42312407 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
42312432 TTGAATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:42314915 original size:21 final size:23
Alignment explanation
Indices: 42314876--42314920 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
42314866 GATTCGAATC
42314876 ATAAATATTTTGATATCC-ATAA
1 ATAAATATTTTGATATCCAATAA
42314898 ATAAA-ATTTTGGAT-TCCAATAA
1 ATAAATATTTT-GATATCCAATAA
42314920 A
1 A
42314921 AATTTTATGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.47, C:0.09, G:0.07, T:0.38
Consensus pattern (23 bp):
ATAAATATTTTGATATCCAATAA
Found at i:42315724 original size:189 final size:190
Alignment explanation
Indices: 42315404--42315788 Score: 684
Period size: 189 Copynumber: 2.0 Consensus size: 190
42315394 CTAAGAAGGG
*
42315404 TATTTGGTTATTTAGGTAAAATGAAGAGAATCGAAACCCAATAAGTTAGAGCACAATTTCTCAAA
1 TATTTGGTTATTTAGGTAAAATGAAGAGAATCAAAACCCAATAAGTTAGAGCACAATTTCTCAAA
* *
42315469 ATTCCAAATATCGAACATTGCCTTTATTTATTTACCTTTTTTAAAAATTCTTATTTCGAGATGAC
66 ATTCCAAATACCGAACATTGCCTTTATTTATTTACCTTTTTTAAAAATTCTTATTTCAAGATGAC
*
42315534 -AAAATGTCATGTCCAGTGAGTTAGGACCCAATATTTTTGAATTCCCGAGAATAAGCTTT
131 AAAAATGTCATGTCCAGTGAGTTAGGACCCAACATTTTTGAATTCCCGAGAATAAGCTTT
*
42315593 TATTTGGTTATTTAGGTAAAATGAAGAGAATCAAAACCCAGTAAGTTAG-GACACAATTTCTCAA
1 TATTTGGTTATTTAGGTAAAATGAAGAGAATCAAAACCCAATAAGTTAGAG-CACAATTTCTCAA
*
42315657 AATTCCAAATACCGGACATTGCCTTTATTTATTTACCTTTTTTAAAAATTCTTATTTCAAGATGA
65 AATTCCAAATACCGAACATTGCCTTTATTTATTTACCTTTTTTAAAAATTCTTATTTCAAGATGA
*
42315722 CAAAAATGTCATGTCCAGTGAGTTAGGACCCAACATTTTTGAATTCCTGAGAATAAGCTTT
130 CAAAAATGTCATGTCCAGTGAGTTAGGACCCAACATTTTTGAATTCCCGAGAATAAGCTTT
42315783 TATTTG
1 TATTTG
42315789 AATCCGTGTG
Statistics
Matches: 187, Mismatches: 7, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
188 1 0.01
189 123 0.66
190 63 0.34
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (190 bp):
TATTTGGTTATTTAGGTAAAATGAAGAGAATCAAAACCCAATAAGTTAGAGCACAATTTCTCAAA
ATTCCAAATACCGAACATTGCCTTTATTTATTTACCTTTTTTAAAAATTCTTATTTCAAGATGAC
AAAAATGTCATGTCCAGTGAGTTAGGACCCAACATTTTTGAATTCCCGAGAATAAGCTTT
Found at i:42318134 original size:43 final size:41
Alignment explanation
Indices: 42318027--42318134 Score: 101
Period size: 40 Copynumber: 2.6 Consensus size: 41
42318017 TCTTCAGTCT
* * * * *
42318027 GCTCCACTGTAACTTCAGGGAGATAAGACTTGATGCGATCT
1 GCTCTACTGTAACTTCAGGGAAATAAGACTGGATGCAATCC
* ** *
42318068 GCTCT-CTGTAACCTCAGAAAAATAAGACCTGGATGTTAATCC
1 GCTCTACTGTAACTTCAGGGAAATAAGA-CTGGATG-CAATCC
*
42318110 GCTCTACTGTAACTTTAGGGAAATA
1 GCTCTACTGTAACTTCAGGGAAATA
42318135 GTATTATTTA
Statistics
Matches: 51, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
40 18 0.35
41 10 0.20
42 8 0.16
43 15 0.29
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (41 bp):
GCTCTACTGTAACTTCAGGGAAATAAGACTGGATGCAATCC
Found at i:42318275 original size:50 final size:50
Alignment explanation
Indices: 42318219--42318467 Score: 187
Period size: 50 Copynumber: 5.0 Consensus size: 50
42318209 ACTACACCGC
*
42318219 CAGGGAAGTAAGATCCACCGTTGTGGCTACAATCTTTTTAATTGCAATGT
1 CAGGGAAGTAAGATCCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGT
* *** * * * * ** * * *
42318269 CGGGGAAACCAGATCCACCGTCGTAGTTTCAATCTGTTCCACTGCACTGC
1 CAGGGAAGTAAGATCCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGT
** ** *
42318319 CAGAAAAGTAAGATCTGCTGTTGTGGCTTCAATCTTTTTAATTGCAATGT
1 CAGGGAAGTAAGATCCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGT
* * * * * * * ** **
42318369 CGGGGAAATCAGATTCACCGTCGTAGCTTCAATCTATTCCATTGCACCG-
1 CAGGGAAGTAAGATCCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGT
*
42318418 CTAAGGAAGTAAGA-CTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATG
1 C-AGGGAAGTAAGATC-CACCGTTGTGGCTTCAATCTTTTTAATTGCAATG
42318468 CCTGGGAAAC
Statistics
Matches: 137, Mismatches: 60, Indels: 4
0.68 0.30 0.02
Matches are distributed among these distances:
49 1 0.01
50 136 0.99
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (50 bp):
CAGGGAAGTAAGATCCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGT
Found at i:42318328 original size:100 final size:100
Alignment explanation
Indices: 42318145--42318647 Score: 540
Period size: 100 Copynumber: 5.1 Consensus size: 100
42318135 GTATTATTTA
* * * * * *
42318145 CTTCAAT-TTGTTTAACTGCAATGTCGGGGAAACAAGATTCGCTGTCG-CGACTTCAATCTATTC
1 CTTCAATCTT-TTTAATTGCAATGTCGGGGAAACAAGATCCACCGTCGTAG-CTTCAATCTGTTC
* *
42318208 CACTACACCGCCAGGGAAGTAAGA-TCCACCGTTGTGG
64 CACTGCACCGCCAGAGAAGTAAGACT-CACCGTTGTGG
* * *
42318245 CTACAATCTTTTTAATTGCAATGTCGGGGAAACCAGATCCACCGTCGTAGTTTCAATCTGTTCCA
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAAACAAGATCCACCGTCGTAGCTTCAATCTGTTCCA
* * * *
42318310 CTGCACTGCCAGAAAAGTAAGA-TCTGCTGTTGTGG
66 CTGCACCGCCAGAGAAGTAAGACTC-ACCGTTGTGG
* *
42318345 CTTCAATCTTTTTAATTGCAATGTCGGGGAAATC-AGATTCACCGTCGTAGCTTCAATCTATTCC
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAAA-CAAGATCCACCGTCGTAGCTTCAATCTGTTCC
* *
42318409 ATTGCACCGCTA-AGGAAGTAAGACTCACCGTTGTGG
65 ACTGCACCGCCAGA-GAAGTAAGACTCACCGTTGTGG
* * * * * *
42318445 CTTCAATCTTTTTAATTGCAATGCCTGGGAAACAAGATCCGCTGTCATAGCTTCAATATGTTCCA
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAAACAAGATCCACCGTCGTAGCTTCAATCTGTTCCA
*
42318510 CTGCACCG-C---TAAGTAAGACTCACCGTTGTGG
66 CTGCACCGCCAGAGAAGTAAGACTCACCGTTGTGG
* * * * *
42318541 CTTCAATCTATTTAACTGCAATGTCTGGGAAACAAGATCCACCGTCGTAGCTTTAACCTGTTCCA
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAAACAAGATCCACCGTCGTAGCTTCAATCTGTTCCA
* * * * * * *
42318606 CTACATCGCCAGGGAAGCAAGATTCGCCGTAGTGG
66 CTGCACCGCCAGAGAAGTAAGACTCACCGTTGTGG
42318641 CTTCAAT
1 CTTCAAT
42318648 TTGTTCCACT
Statistics
Matches: 340, Mismatches: 52, Indels: 22
0.82 0.13 0.05
Matches are distributed among these distances:
96 83 0.24
97 1 0.00
99 3 0.01
100 247 0.73
101 6 0.02
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.29
Consensus pattern (100 bp):
CTTCAATCTTTTTAATTGCAATGTCGGGGAAACAAGATCCACCGTCGTAGCTTCAATCTGTTCCA
CTGCACCGCCAGAGAAGTAAGACTCACCGTTGTGG
Found at i:42318509 original size:200 final size:195
Alignment explanation
Indices: 42318145--42318647 Score: 600
Period size: 200 Copynumber: 2.5 Consensus size: 195
42318135 GTATTATTTA
* * *
42318145 CTTCAAT-TTGTTTAACTGCAATGTCGGGGAAACAAGATTCGCTGTCG-CGACTTCAATCTATTC
1 CTTCAATCTT-TTTAACTGCAATGTCGGGGAAACAAGATTCACCGTCGTAG-CTTCAATCTATTC
* *
42318208 CACTACACCGCCAGGGAAGTAAGATCCACCGTTGTGGCTACAATCTTTTTAATTGCAATGTCGGG
64 CACTACACCGCCAGGGAAGTAAGAT-CACCGTTGTGGCTTCAATCTTTTTAATTGCAATGCCGGG
* * * * *
42318273 GAAACCAGATCCACCGTCGTAGTTTCAATCTGTTCCACTGCACTGCCAGAAAAGTAAGA-TCTGC
128 GAAACAAGATCCACCGTCATAGCTTCAATATGTTCCACTGCA---CC-GAAAAGTAAGACTC-AC
*
42318337 TGTTGTGG
188 CGTTGTGG
*
42318345 CTTCAATCTTTTTAATTGCAATGTCGGGGAAATC-AGATTCACCGTCGTAGCTTCAATCTATTCC
1 CTTCAATCTTTTTAACTGCAATGTCGGGGAAA-CAAGATTCACCGTCGTAGCTTCAATCTATTCC
* * * * *
42318409 ATTGCACCGCTAAGGAAGTAAGACTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGCCTGGG
65 ACTACACCGCCAGGGAAGTAAGA-TCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGCCGGGG
* * **
42318474 AAACAAGATCCGCTGTCATAGCTTCAATATGTTCCACTGCACCGCTAAGTAAGACTCACCGTTGT
129 AAACAAGATCCACCGTCATAGCTTCAATATGTTCCACTGCACCGAAAAGTAAGACTCACCGTTGT
42318539 GG
194 GG
* * * * * *
42318541 CTTCAATCTATTTAACTGCAATGTCTGGGAAACAAGATCCACCGTCGTAGCTTTAACCTGTTCCA
1 CTTCAATCTTTTTAACTGCAATGTCGGGGAAACAAGATTCACCGTCGTAGCTTCAATCTATTCCA
* * * *
42318606 CTACATCGCCAGGGAAGCAAGATTCGCCGTAGTGGCTTCAAT
66 CTACACCGCCAGGGAAGTAAGA-TCACCGTTGTGGCTTCAAT
42318648 TTGTTCCACT
Statistics
Matches: 260, Mismatches: 37, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
195 1 0.00
196 106 0.41
197 4 0.02
200 144 0.55
201 5 0.02
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.29
Consensus pattern (195 bp):
CTTCAATCTTTTTAACTGCAATGTCGGGGAAACAAGATTCACCGTCGTAGCTTCAATCTATTCCA
CTACACCGCCAGGGAAGTAAGATCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGCCGGGGAA
ACAAGATCCACCGTCATAGCTTCAATATGTTCCACTGCACCGAAAAGTAAGACTCACCGTTGTGG
Found at i:42318946 original size:88 final size:88
Alignment explanation
Indices: 42318851--42319020 Score: 261
Period size: 88 Copynumber: 1.9 Consensus size: 88
42318841 AAGACTAGTG
* * * *
42318851 TCTTCGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCT-CTCATTTTCAACCTACTCCACTG
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCT-ATTTTCAACCTACTCCACTA
*
42318915 CTGCTCATGGAGATAAGGCTGGTA
65 CTGCTCAGGGAGATAAGGCTGGTA
*
42318939 TCTTCGATCTACTTTGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTAC
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTAC
*
42319004 TGTTCAGGGAGATAAGG
66 TGCTCAGGGAGATAAGG
42319021 GTTTATGGTT
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
88 72 0.97
89 2 0.03
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (88 bp):
TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTAC
TGCTCAGGGAGATAAGGCTGGTA
Found at i:42320304 original size:13 final size:13
Alignment explanation
Indices: 42320286--42320310 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42320276 ACTTTTTCCA
42320286 TTTTTCATTTTTC
1 TTTTTCATTTTTC
42320299 TTTTTCATTTTT
1 TTTTTCATTTTT
42320311 TCATTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTCATTTTTC
Found at i:42320319 original size:8 final size:7
Alignment explanation
Indices: 42320278--42320318 Score: 57
Period size: 7 Copynumber: 5.7 Consensus size: 7
42320268 CAATTTTTAC
42320278 TTTTTCCA
1 TTTTT-CA
42320286 TTTTTCA
1 TTTTTCA
42320293 TTTTTC-
1 TTTTTCA
42320299 TTTTTCA
1 TTTTTCA
42320306 TTTTTTCA
1 -TTTTTCA
42320314 TTTTT
1 TTTTT
42320319 TTTCATTTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.19
7 13 0.42
8 12 0.39
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTTCA
Found at i:42320322 original size:18 final size:18
Alignment explanation
Indices: 42320299--42320338 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
42320289 TTCATTTTTC
**
42320299 TTTTTCATTTTTTCATTT
1 TTTTTCATTTCATCATTT
42320317 TTTTTCATTTCATCATTT
1 TTTTTCATTTCATCATTT
42320335 TTTT
1 TTTT
42320339 ACGACTCGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTTCATTTCATCATTT
Found at i:42320830 original size:6 final size:6
Alignment explanation
Indices: 42320821--42320867 Score: 85
Period size: 6 Copynumber: 7.7 Consensus size: 6
42320811 TTTTTGTTTC
42320821 TTTTTG TTTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTT
1 TTTTTG -TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTT
42320868 CTTTTCTTTC
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
6 34 0.85
7 6 0.15
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (6 bp):
TTTTTG
Found at i:42320843 original size:18 final size:18
Alignment explanation
Indices: 42320811--42320867 Score: 73
Period size: 18 Copynumber: 3.2 Consensus size: 18
42320801 TTGGTAGAGG
*
42320811 TTTTTGTTTCT-TTTTGT
1 TTTTTGTTTTTGTTTTGT
42320828 TTTTTGTTTTTGTTTT-T
1 TTTTTGTTTTTGTTTTGT
42320845 GTTTTTGTTTTTGTTTTTGT
1 -TTTTTGTTTTTG-TTTTGT
42320865 TTT
1 TTT
42320868 CTTTTCTTTC
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
17 11 0.31
18 16 0.46
19 7 0.20
20 1 0.03
ACGTcount: A:0.00, C:0.02, G:0.14, T:0.84
Consensus pattern (18 bp):
TTTTTGTTTTTGTTTTGT
Found at i:42325389 original size:16 final size:15
Alignment explanation
Indices: 42325368--42325402 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
42325358 ACCTATAGGC
42325368 ATAATAATAAAATAAT
1 ATAATAAT-AAATAAT
*
42325384 ATAATAATAATTAAT
1 ATAATAATAAATAAT
42325399 ATAA
1 ATAA
42325403 CAAAATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
ATAATAATAAATAAT
Found at i:42326027 original size:21 final size:23
Alignment explanation
Indices: 42325992--42326033 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
42325982 TATTTATTTT
42325992 AAGAAACAAGTAAAA-GAAAACA
1 AAGAAACAAGTAAAAGGAAAACA
*
42326014 AAGAAAC-GGTAAAAGGAAAA
1 AAGAAACAAGTAAAAGGAAAA
42326034 AAAACAGAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.69, C:0.07, G:0.19, T:0.05
Consensus pattern (23 bp):
AAGAAACAAGTAAAAGGAAAACA
Found at i:42326973 original size:29 final size:30
Alignment explanation
Indices: 42326916--42326988 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 30
42326906 ACAATTGGAC
42326916 CTAAATTTTAAAATATCAAAAAGAAATGAA
1 CTAAATTTTAAAATATCAAAAAGAAATGAA
* * *
42326946 TTAAAGTTTTAAAA-AT-AAAAATACATGAA
1 CTAAA-TTTTAAAATATCAAAAAGAAATGAA
*
42326975 CTAAATTTCAAAAT
1 CTAAATTTTAAAAT
42326989 TTTAAAGAGT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
28 7 0.19
29 15 0.42
30 6 0.17
31 8 0.22
ACGTcount: A:0.58, C:0.07, G:0.05, T:0.30
Consensus pattern (30 bp):
CTAAATTTTAAAATATCAAAAAGAAATGAA
Found at i:42327196 original size:23 final size:25
Alignment explanation
Indices: 42327144--42327230 Score: 76
Period size: 23 Copynumber: 3.6 Consensus size: 25
42327134 AGTCAAGACT
42327144 AAAATATTAAAATTTAACAAATAT-
1 AAAATATTAAAATTTAACAAATATA
* * *
42327168 AGAA-ATTAAAATTTACCAACT-TGA
1 AAAATATTAAAATTTAACAAATAT-A
*
42327192 AAAATATTAAAA-TTAA-AACTATA
1 AAAATATTAAAATTTAACAAATATA
*
42327215 ATAGATATTAAAATTT
1 A-AAATATTAAAATTT
42327231 TACTTTTTCT
Statistics
Matches: 51, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
22 1 0.02
23 21 0.41
24 20 0.39
25 9 0.18
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.33
Consensus pattern (25 bp):
AAAATATTAAAATTTAACAAATATA
Found at i:42330586 original size:56 final size:56
Alignment explanation
Indices: 42330500--42330611 Score: 206
Period size: 56 Copynumber: 2.0 Consensus size: 56
42330490 CGAACCATAG
* *
42330500 TGACTTTGTTCAGGGCTGCTCCTTTTATTGGAAGTGATAAAATTGGACTTATAGCA
1 TGACTTTATTCAGGGCTGCTCCTTTTATTGGAAGTGATAAAATTAGACTTATAGCA
42330556 TGACTTTATTCAGGGCTGCTCCTTTTATTGGAAGTGATAAAATTAGACTTATAGCA
1 TGACTTTATTCAGGGCTGCTCCTTTTATTGGAAGTGATAAAATTAGACTTATAGCA
42330612 GTGATGCCCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.38
Consensus pattern (56 bp):
TGACTTTATTCAGGGCTGCTCCTTTTATTGGAAGTGATAAAATTAGACTTATAGCA
Found at i:42330722 original size:74 final size:74
Alignment explanation
Indices: 42330601--42330746 Score: 292
Period size: 74 Copynumber: 2.0 Consensus size: 74
42330591 GATAAAATTA
42330601 GACTTATAGCAGTGATGCCCACGGAGTTGGCATTAATGGCTGAGGTTGAGAATGATGAACTACCT
1 GACTTATAGCAGTGATGCCCACGGAGTTGGCATTAATGGCTGAGGTTGAGAATGATGAACTACCT
42330666 GACTTGTTG
66 GACTTGTTG
42330675 GACTTATAGCAGTGATGCCCACGGAGTTGGCATTAATGGCTGAGGTTGAGAATGATGAACTACCT
1 GACTTATAGCAGTGATGCCCACGGAGTTGGCATTAATGGCTGAGGTTGAGAATGATGAACTACCT
42330740 GACTTGT
66 GACTTGT
42330747 CAAGTTTATC
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 72 1.00
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.28
Consensus pattern (74 bp):
GACTTATAGCAGTGATGCCCACGGAGTTGGCATTAATGGCTGAGGTTGAGAATGATGAACTACCT
GACTTGTTG
Found at i:42339336 original size:21 final size:21
Alignment explanation
Indices: 42339318--42339357 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
42339308 TCTAAAACAT
42339318 AAAACCTTAAAC-CTTAAACTC
1 AAAACC-TAAACGCTTAAACTC
*
42339339 AAATCCTAAACGCTTAAAC
1 AAAACCTAAACGCTTAAAC
42339358 CATGAACCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.47, C:0.28, G:0.03, T:0.23
Consensus pattern (21 bp):
AAAACCTAAACGCTTAAACTC
Found at i:42347164 original size:3 final size:3
Alignment explanation
Indices: 42347156--42347184 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
42347146 CTAAAATAGA
42347156 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
42347185 AGGAAACAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:42347484 original size:22 final size:23
Alignment explanation
Indices: 42347440--42347484 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
42347430 TTCAAGGATA
*
42347440 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
42347463 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
42347485 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:42347757 original size:7 final size:7
Alignment explanation
Indices: 42347745--42347774 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
42347735 TAGTCTTTTT
42347745 TTATTTA
1 TTATTTA
42347752 TTATTTA
1 TTATTTA
42347759 TTATTTA
1 TTATTTA
42347766 TT-TTTA
1 TTATTTA
42347772 TTA
1 TTA
42347775 AATTTGATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TTATTTA
Found at i:42347806 original size:3 final size:3
Alignment explanation
Indices: 42347798--42347848 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
42347788 TGTTATTAAG
* * * *
42347798 TTA TTA TTA TTA TTA TTG TTG TTA TTA TTA TCA TTA TTG TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
42347846 TTA
1 TTA
42347849 CTATATATAC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.27, C:0.02, G:0.06, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:42347822 original size:21 final size:21
Alignment explanation
Indices: 42347797--42347848 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
42347787 TTGTTATTAA
*
42347797 GTTATTATTATTATTATTGTT
1 GTTATTATTATCATTATTGTT
42347818 GTTATTATTATCATTATTGTT
1 GTTATTATTATCATTATTGTT
*
42347839 ATTATTATTA
1 GTTATTATTA
42347849 CTATATATAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.63
Consensus pattern (21 bp):
GTTATTATTATCATTATTGTT
Found at i:42347824 original size:18 final size:18
Alignment explanation
Indices: 42347801--42347848 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
42347791 TATTAAGTTA
*
42347801 TTATTATTATTATTGTTG
1 TTATTATTATTATTATTG
*
42347819 TTATTATTATCATTATTG
1 TTATTATTATTATTATTG
42347837 TTATTATTATTA
1 TTATTATTATTA
42347849 CTATATATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.27, C:0.02, G:0.06, T:0.65
Consensus pattern (18 bp):
TTATTATTATTATTATTG
Found at i:42348000 original size:17 final size:17
Alignment explanation
Indices: 42347969--42348012 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
42347959 CATAACTTTT
*
42347969 ATATACA-TATATATAC
1 ATATACATTTTATATAC
*
42347985 ATTTACATTTTATATAC
1 ATATACATTTTATATAC
42348002 ATATACATTTT
1 ATATACATTTT
42348013 TTATTTCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (17 bp):
ATATACATTTTATATAC
Found at i:42348110 original size:23 final size:23
Alignment explanation
Indices: 42348084--42348131 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
42348074 ATACGTATGT
42348084 TTTTTTATAT-TATTCTTCATAAA
1 TTTTTTATATATATTCTTC-TAAA
*
42348107 TTTTTTATATATATTTTTCTAAA
1 TTTTTTATATATATTCTTCTAAA
42348130 TT
1 TT
42348132 AATTAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (23 bp):
TTTTTTATATATATTCTTCTAAA
Found at i:42348204 original size:30 final size:30
Alignment explanation
Indices: 42348168--42348224 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
42348158 ATTATTTGTT
*
42348168 TATATATATGTA-ATTATCTTTTTTATAATC
1 TATATATATGTATATAAT-TTTTTTATAATC
42348198 TATATATATGTATATAATTTTTTTATA
1 TATATATATGTATATAATTTTTTTATA
42348225 TATGTACATG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (30 bp):
TATATATATGTATATAATTTTTTTATAATC
Found at i:42357363 original size:14 final size:14
Alignment explanation
Indices: 42357344--42357370 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
42357334 AATAAAAAAA
42357344 TAAAAAATTTATTT
1 TAAAAAATTTATTT
42357358 TAAAAAATTTATT
1 TAAAAAATTTATT
42357371 ACTAATATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TAAAAAATTTATTT
Found at i:42358644 original size:61 final size:61
Alignment explanation
Indices: 42358549--42358669 Score: 206
Period size: 61 Copynumber: 2.0 Consensus size: 61
42358539 ACAACTTAAT
*
42358549 TTAAATTTATCTTATAAAAAAGATAAATATTATATATGTATGTAAAAGTTATATACAATAA
1 TTAAATTTATCTTATAAAAAAGATAAATAATATATATGTATGTAAAAGTTATATACAATAA
* * *
42358610 TTAAATTTGTCTTATAAAAAAGATAAATAATATATATGTATGTAAAATTTATATATAATA
1 TTAAATTTATCTTATAAAAAAGATAAATAATATATATGTATGTAAAAGTTATATACAATA
42358670 GAGTTTTTTA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 56 1.00
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.40
Consensus pattern (61 bp):
TTAAATTTATCTTATAAAAAAGATAAATAATATATATGTATGTAAAAGTTATATACAATAA
Found at i:42360294 original size:31 final size:30
Alignment explanation
Indices: 42360216--42360298 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 30
42360206 CCAATACTTT
*
42360216 AATTTGACCCAATTTAGTTCTTGTATTTTTCA
1 AATTTGA--CAATTTAGTCCTTGTATTTTTCA
* ** *
42360248 AATTAGTTAATTTTAGTCCTTGTATTTTTTGA
1 AATTTGACAA-TTTAGTCCTTGTA-TTTTTCA
42360280 AATTTGACAATTTAGTCCT
1 AATTTGACAATTTAGTCCT
42360299 GACCTAAATA
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
30 2 0.05
31 21 0.51
32 18 0.44
ACGTcount: A:0.27, C:0.12, G:0.11, T:0.51
Consensus pattern (30 bp):
AATTTGACAATTTAGTCCTTGTATTTTTCA
Found at i:42360782 original size:22 final size:22
Alignment explanation
Indices: 42360735--42360793 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
42360725 ATATATATTT
* *
42360735 AAACCCAAACCCAGTACCAACA
1 AAACCTAAACCCAATACCAACA
* *
42360757 AAACCTAAACCCAATACCACCC
1 AAACCTAAACCCAATACCAACA
*
42360779 AAACCTAATCCCAAT
1 AAACCTAAACCCAAT
42360794 TTAAAACTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.47, C:0.41, G:0.02, T:0.10
Consensus pattern (22 bp):
AAACCTAAACCCAATACCAACA
Found at i:42360889 original size:17 final size:17
Alignment explanation
Indices: 42360863--42360901 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
42360853 ATATAAAGAT
42360863 AATT-ATATTAATCAAA
1 AATTAATATTAATCAAA
* *
42360879 ATTTAATATTAATGAAA
1 AATTAATATTAATCAAA
42360896 AATTAA
1 AATTAA
42360902 ACGTTAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 3 0.16
17 16 0.84
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (17 bp):
AATTAATATTAATCAAA
Found at i:42361104 original size:17 final size:16
Alignment explanation
Indices: 42361066--42361117 Score: 63
Period size: 15 Copynumber: 3.2 Consensus size: 16
42361056 ATTATGTATT
42361066 TTATATATTTTA-ATAA
1 TTAT-TATTTTATATAA
*
42361082 TTATTAATTTTATATAT
1 TTATT-ATTTTATATAA
42361099 TTATTA-TTTATATAA
1 TTATTATTTTATATAA
42361114 TTAT
1 TTAT
42361118 GGTATTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
15 13 0.41
16 11 0.34
17 8 0.25
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTATTATTTTATATAA
Found at i:42361609 original size:64 final size:64
Alignment explanation
Indices: 42361508--42361638 Score: 262
Period size: 64 Copynumber: 2.0 Consensus size: 64
42361498 GTTACTGACT
42361508 CATGCTTTGATCAATATGGGATGAGCTTTCAAACTTCAGCATATTTTGTATCTCTAGTGACGTC
1 CATGCTTTGATCAATATGGGATGAGCTTTCAAACTTCAGCATATTTTGTATCTCTAGTGACGTC
42361572 CATGCTTTGATCAATATGGGATGAGCTTTCAAACTTCAGCATATTTTGTATCTCTAGTGACGTC
1 CATGCTTTGATCAATATGGGATGAGCTTTCAAACTTCAGCATATTTTGTATCTCTAGTGACGTC
42361636 CAT
1 CAT
42361639 ATGTATTGAA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 67 1.00
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.37
Consensus pattern (64 bp):
CATGCTTTGATCAATATGGGATGAGCTTTCAAACTTCAGCATATTTTGTATCTCTAGTGACGTC
Found at i:42371671 original size:29 final size:29
Alignment explanation
Indices: 42371629--42371688 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
42371619 TCCACTAGGT
42371629 ATACGGGCGTGTGTGATTGGGAATTAGTG
1 ATACGGGCGTGTGTGATTGGGAATTAGTG
42371658 ATACGGGCGTGTGTGATTGGGAATTAGTG
1 ATACGGGCGTGTGTGATTGGGAATTAGTG
42371687 AT
1 AT
42371689 TTAATGATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.22, C:0.07, G:0.40, T:0.32
Consensus pattern (29 bp):
ATACGGGCGTGTGTGATTGGGAATTAGTG
Found at i:42371703 original size:22 final size:22
Alignment explanation
Indices: 42371671--42371720 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
42371661 CGGGCGTGTG
*
42371671 TGATTGGGAATTAGTGATTTAA
1 TGATTGAGAATTAGTGATTTAA
42371693 TGATTGAGAATTAGTGATTTAA
1 TGATTGAGAATTAGTGATTTAA
*
42371715 CGATTG
1 TGATTG
42371721 GGATCGTGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.32, C:0.02, G:0.26, T:0.40
Consensus pattern (22 bp):
TGATTGAGAATTAGTGATTTAA
Found at i:42373383 original size:159 final size:160
Alignment explanation
Indices: 42373084--42373396 Score: 502
Period size: 159 Copynumber: 2.0 Consensus size: 160
42373074 CTTAACTGTA
* *
42373084 TTTTTTTCTTCTTCTGACTGAATTCTAAACGATTAAATATTTTCAGTTTGAAGTGACAACTTGAT
1 TTTTTTTCTTCTTCTGACTGAATTCTAAACGATTAAATATGTTCAGTTCGAAGTGACAACTTGAT
* * * *
42373149 TTGTAAAGCTTTTCCATCGATCACTTCGGTGATCAATGTGACCTCCGAAATTCGGTTTAAACTTT
66 TTGTAAAGATTTGCCATCGATCACTTCGGTGATCAATGTGACCTCCGAAATTCGGTCTAAACTTC
* *
42373214 TAGGCCGGGTTTTGGGGCGTTACATTTAGT
131 TAAGCAGGGTTTTGGGGCGTTACATTTAGT
* * *
42373244 TTTTTTTCTTCTTTTGACTGAATTCTAAACGATTAAATGTGTTCGGTTCGAAGTGACAACTTGAT
1 TTTTTTTCTTCTTCTGACTGAATTCTAAACGATTAAATATGTTCAGTTCGAAGTGACAACTTGAT
* *
42373309 TTGTAAA-ATTTGCCATCGGTCACTTCGGTGATCAATGTGACCTTCGAAATTCGGTCTAAACTTC
66 TTGTAAAGATTTGCCATCGATCACTTCGGTGATCAATGTGACCTCCGAAATTCGGTCTAAACTTC
42373373 TAAGCAGGGTTTTGGGGCGTTACA
131 TAAGCAGGGTTTTGGGGCGTTACA
42373397 ATCTCAGTCG
Statistics
Matches: 140, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
159 73 0.52
160 67 0.48
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (160 bp):
TTTTTTTCTTCTTCTGACTGAATTCTAAACGATTAAATATGTTCAGTTCGAAGTGACAACTTGAT
TTGTAAAGATTTGCCATCGATCACTTCGGTGATCAATGTGACCTCCGAAATTCGGTCTAAACTTC
TAAGCAGGGTTTTGGGGCGTTACATTTAGT
Found at i:42375926 original size:24 final size:27
Alignment explanation
Indices: 42375896--42375955 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 27
42375886 TGGTAAGGGT
42375896 TAATTTTAT-TTT-TTAATATTATTTA
1 TAATTTTATATTTATTAATATTATTTA
*
42375921 -AATTTTATAATTTAATTAATATTTTTTA
1 TAATTTTAT-ATTT-ATTAATATTATTTA
42375949 TAATTTT
1 TAATTTT
42375956 TTATAATAGC
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
24 8 0.28
26 3 0.10
28 12 0.41
29 6 0.21
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (27 bp):
TAATTTTATATTTATTAATATTATTTA
Found at i:42375931 original size:19 final size:19
Alignment explanation
Indices: 42375902--42375945 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
42375892 GGGTTAATTT
* *
42375902 TATTTTTTAATATTATTTAA
1 TATTTTATAAT-TTAATTAA
42375922 -ATTTTATAATTTAATTAA
1 TATTTTATAATTTAATTAA
42375940 TATTTT
1 TATTTT
42375946 TTATAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TATTTTATAATTTAATTAA
Found at i:42379359 original size:8 final size:8
Alignment explanation
Indices: 42379346--42379374 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
42379336 TATGTATACT
42379346 AAATAATA
1 AAATAATA
42379354 AAATAATA
1 AAATAATA
42379362 AAATAATA
1 AAATAATA
42379370 AAATA
1 AAATA
42379375 TCATTTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAATAATA
Found at i:42381044 original size:92 final size:92
Alignment explanation
Indices: 42380887--42381071 Score: 327
Period size: 92 Copynumber: 2.0 Consensus size: 92
42380877 CTATTGTGCT
*
42380887 TATTTTAATGTATGACTTAAGTATGTGTTGGATTGTTATTTGCATGAAAATGATGATTGGTAACT
1 TATTTTAATGTATGACTTAAGTATGTGTTGGATTGCTATTTGCATGAAAATGATGATTGGTAACT
42380952 AAATTTATGGTGGTTGGTTGATAGAAG
66 AAATTTATGGTGGTTGGTTGATAGAAG
*
42380979 TATTTTAATGTATGACTTGAA-TATGTGTTGGGTTGCTATTTGCATGAAAATGATGATTGGTAAC
1 TATTTTAATGTATGACTT-AAGTATGTGTTGGATTGCTATTTGCATGAAAATGATGATTGGTAAC
*
42381043 TAAATTTATGGTGGTTGGTTGATGGAAG
65 TAAATTTATGGTGGTTGGTTGATAGAAG
42381071 T
1 T
42381072 GTTCTTTGGT
Statistics
Matches: 89, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
92 87 0.98
93 2 0.02
ACGTcount: A:0.28, C:0.04, G:0.26, T:0.42
Consensus pattern (92 bp):
TATTTTAATGTATGACTTAAGTATGTGTTGGATTGCTATTTGCATGAAAATGATGATTGGTAACT
AAATTTATGGTGGTTGGTTGATAGAAG
Found at i:42386754 original size:21 final size:21
Alignment explanation
Indices: 42386730--42386775 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
42386720 ATACTCAGGG
42386730 AATTTTTCCCAAAATCTCAAA
1 AATTTTTCCCAAAATCTCAAA
*
42386751 AATTTTTCCCAAAATCTCCAA
1 AATTTTTCCCAAAATCTCAAA
42386772 AATT
1 AATT
42386776 GGAGACATGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.41, C:0.24, G:0.00, T:0.35
Consensus pattern (21 bp):
AATTTTTCCCAAAATCTCAAA
Found at i:42389271 original size:7 final size:7
Alignment explanation
Indices: 42389259--42389312 Score: 90
Period size: 7 Copynumber: 7.7 Consensus size: 7
42389249 CATTTAACTC
42389259 ATAAATA
1 ATAAATA
42389266 ATAAATA
1 ATAAATA
*
42389273 ATAAATT
1 ATAAATA
*
42389280 ATAAATT
1 ATAAATA
42389287 ATAAATA
1 ATAAATA
42389294 ATAAATA
1 ATAAATA
42389301 ATAAATA
1 ATAAATA
42389308 ATAAA
1 ATAAA
42389313 ATTTTCAAAC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 45 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
ATAAATA
Found at i:42391340 original size:54 final size:54
Alignment explanation
Indices: 42391278--42391406 Score: 134
Period size: 54 Copynumber: 2.4 Consensus size: 54
42391268 TGTGTCTCAA
* * *
42391278 ACCGTGTAACTCACTGAGTTAG-GTCACATGGTCGTCTCACAAGCCGTGTGCTAG
1 ACCGTGTAACTCACTGACTT-GTGACACATGATCGTCTCACAAGCCGTGTGCTAG
** * * *
42391332 ACCGTGTAACTGTCTGACTTGTGACACATGATTGTGTCACAAGCTGTGTGCTAG
1 ACCGTGTAACTCACTGACTTGTGACACATGATCGTCTCACAAGCCGTGTGCTAG
** * *
42391386 GTCGTGTAACACACTAACTTG
1 ACCGTGTAACTCACTGACTTG
42391407 ATACACAAAA
Statistics
Matches: 60, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
53 1 0.02
54 59 0.98
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (54 bp):
ACCGTGTAACTCACTGACTTGTGACACATGATCGTCTCACAAGCCGTGTGCTAG
Found at i:42406754 original size:22 final size:23
Alignment explanation
Indices: 42406726--42406770 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
42406716 TGGGAATTTC
* *
42406726 AAAATAAAA-AAATAACAAAAAT
1 AAAATAAAATAAACAAAAAAAAT
42406748 AAAATAAAATAAACAAAAAAAAT
1 AAAATAAAATAAACAAAAAAAAT
42406771 TCAACCCCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.82, C:0.04, G:0.00, T:0.13
Consensus pattern (23 bp):
AAAATAAAATAAACAAAAAAAAT
Found at i:42409303 original size:48 final size:48
Alignment explanation
Indices: 42409176--42409292 Score: 175
Period size: 48 Copynumber: 2.5 Consensus size: 48
42409166 TTTTAGGGTT
* ** *
42409176 TAGGTTTAACCTAAACAAGTCACCAGACAC--TTATTCATTAATCATG
1 TAGGTTTAACCCAAACGGGTAACCAGACACTATTATTCATTAATCATG
*
42409222 TAGGTTTAACCCAAACGGGTAACCAGACACTATTATTCATTATTCATG
1 TAGGTTTAACCCAAACGGGTAACCAGACACTATTATTCATTAATCATG
42409270 TAGGTTTAACCCAAACGGGTAAC
1 TAGGTTTAACCCAAACGGGTAAC
42409293 TAGGAACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
46 26 0.41
48 38 0.59
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (48 bp):
TAGGTTTAACCCAAACGGGTAACCAGACACTATTATTCATTAATCATG
Found at i:42417132 original size:16 final size:17
Alignment explanation
Indices: 42417111--42417149 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
42417101 CTTATAAATA
*
42417111 AATATTA-CTTTTATAG
1 AATATTATCTTTTATAC
*
42417127 AATATTATTTTTTATAC
1 AATATTATCTTTTATAC
42417144 AATATT
1 AATATT
42417150 GGGGTGGGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (17 bp):
AATATTATCTTTTATAC
Found at i:42419233 original size:17 final size:18
Alignment explanation
Indices: 42419211--42419247 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
42419201 CAATTTGGGC
*
42419211 CATGTGGGCC-ACACGGG
1 CATGTGGGCCTACAAGGG
42419228 CATGTGGGCCTACAAGGG
1 CATGTGGGCCTACAAGGG
42419246 CA
1 CA
42419248 AACATCATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.22, C:0.27, G:0.38, T:0.14
Consensus pattern (18 bp):
CATGTGGGCCTACAAGGG
Found at i:42420220 original size:18 final size:18
Alignment explanation
Indices: 42420186--42420234 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
42420176 TAATAAAAAA
42420186 AACGTTTGGAAATTGAAT
1 AACGTTTGGAAATTGAAT
*
42420204 AACGATTTGTAAA-TGAAT
1 AACG-TTTGGAAATTGAAT
*
42420222 AATGTTTTGGAAA
1 AACG-TTTGGAAA
42420235 CGAAAGATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 19 0.73
19 7 0.27
ACGTcount: A:0.41, C:0.04, G:0.20, T:0.35
Consensus pattern (18 bp):
AACGTTTGGAAATTGAAT
Found at i:42422094 original size:24 final size:24
Alignment explanation
Indices: 42422040--42422133 Score: 80
Period size: 24 Copynumber: 3.8 Consensus size: 24
42422030 TGGCTCTTCG
* * **
42422040 GAGCTTCCCGATATTGGTTCACTT
1 GAGCTTCCCGTTATTGGCTCAAAT
* ***
42422064 GAACTTCCCGTTATTGGCTTGTAT
1 GAGCTTCCCGTTATTGGCTCAAAT
* *
42422088 GAGCTTCCCATTACATGGCTCAAAT
1 GAGCTTCCCGTTA-TTGGCTCAAAT
42422113 GAGCTTCCCGTTATATGGCTC
1 GAGCTTCCCGTTAT-TGGCTC
42422134 GAAAGAGGGC
Statistics
Matches: 53, Mismatches: 15, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
24 28 0.53
25 25 0.47
ACGTcount: A:0.19, C:0.26, G:0.20, T:0.35
Consensus pattern (24 bp):
GAGCTTCCCGTTATTGGCTCAAAT
Found at i:42422114 original size:25 final size:25
Alignment explanation
Indices: 42422086--42422133 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
42422076 ATTGGCTTGT
42422086 ATGAGCTTCCCATTACATGGCTCAA
1 ATGAGCTTCCCATTACATGGCTCAA
* *
42422111 ATGAGCTTCCCGTTATATGGCTC
1 ATGAGCTTCCCATTACATGGCTC
42422134 GAAAGAGGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (25 bp):
ATGAGCTTCCCATTACATGGCTCAA
Found at i:42429866 original size:24 final size:24
Alignment explanation
Indices: 42429839--42429895 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
42429829 AGCTTCCGGA
* * *
42429839 TATTGGGTCGCCTGAACTTCCCGT
1 TATTGGCTCGCATGAACTTCCCGC
* *
42429863 TATTGGCTCGTATGAGCTTCCCGC
1 TATTGGCTCGCATGAACTTCCCGC
42429887 TATTGGCTC
1 TATTGGCTC
42429896 CCTACAGTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.12, C:0.28, G:0.25, T:0.35
Consensus pattern (24 bp):
TATTGGCTCGCATGAACTTCCCGC
Found at i:42430084 original size:9 final size:9
Alignment explanation
Indices: 42430070--42430095 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
42430060 TTTTATGCCC
42430070 AGGCCCAAT
1 AGGCCCAAT
42430079 AGGCCCAAT
1 AGGCCCAAT
42430088 AGGCCCAA
1 AGGCCCAA
42430096 ACCCAACTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.35, G:0.23, T:0.08
Consensus pattern (9 bp):
AGGCCCAAT
Found at i:42431714 original size:26 final size:26
Alignment explanation
Indices: 42431685--42431767 Score: 67
Period size: 26 Copynumber: 3.0 Consensus size: 26
42431675 ACACATACTT
42431685 TTATATATTTTTATATTTCATAATTC
1 TTATATATTTTTATATTTCATAATTC
** * * *
42431711 TTATATACATATATATGTATATATACATAC
1 TTATATATTTTTATAT-T-T-CATA-ATTC
42431741 TTACATATATTTTTATATTTCATAATT
1 TT--ATATATTTTTATATTTCATAATT
42431768 TTAAAATATA
Statistics
Matches: 41, Mismatches: 10, Indels: 10
0.67 0.16 0.16
Matches are distributed among these distances:
26 13 0.32
27 1 0.02
28 3 0.07
29 6 0.15
30 6 0.15
31 1 0.02
32 11 0.27
ACGTcount: A:0.36, C:0.08, G:0.01, T:0.54
Consensus pattern (26 bp):
TTATATATTTTTATATTTCATAATTC
Found at i:42431777 original size:44 final size:44
Alignment explanation
Indices: 42431731--42431814 Score: 111
Period size: 42 Copynumber: 2.0 Consensus size: 44
42431721 ATATATGTAT
* *
42431731 ATATACATACTTACATATA-T-TT-TTATATTTCATAATTTTAAA
1 ATATATATACATACATATACTCTTCTTAT-TTTCATAATTTTAAA
*
42431773 ATATATATACATACATATACTCTTCTTATTTTTATAATTTTA
1 ATATATATACATACATATACTCTTCTTATTTTCATAATTTTA
42431815 TGTACATACA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 17 0.47
43 1 0.03
44 14 0.39
45 4 0.11
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (44 bp):
ATATATATACATACATATACTCTTCTTATTTTCATAATTTTAAA
Found at i:42431781 original size:58 final size:58
Alignment explanation
Indices: 42431667--42431781 Score: 171
Period size: 58 Copynumber: 2.0 Consensus size: 58
42431657 TTTTATAAAC
** *
42431667 ATGTATATACACATACTTTTATATATTTTTATATTTCATAATTCTTATATACATATAT
1 ATGTATATACACATACTTACATATATTTTTATATTTCATAATTCTTAAATACATATAT
* *
42431725 ATGTATATATACATACTTACATATATTTTTATATTTCATAATT-TTAAA-ATATATAT
1 ATGTATATACACATACTTACATATATTTTTATATTTCATAATTCTTAAATACATATAT
42431781 A
1 A
42431782 CATACATATA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
56 8 0.15
57 4 0.08
58 40 0.77
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.50
Consensus pattern (58 bp):
ATGTATATACACATACTTACATATATTTTTATATTTCATAATTCTTAAATACATATAT
Found at i:42437182 original size:13 final size:12
Alignment explanation
Indices: 42437142--42437189 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 12
42437132 AATATATTTC
42437142 AAAAAAGAAGAAG
1 AAAAAAGAA-AAG
42437155 AAGAAAAGAAAAG
1 AA-AAAAGAAAAG
*
42437168 AAAAAATAAACAG
1 AAAAAAGAAA-AG
42437181 AAAATAAGA
1 AAAA-AAGA
42437190 GGCCAGGGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
12 7 0.23
13 13 0.43
14 10 0.33
ACGTcount: A:0.77, C:0.02, G:0.17, T:0.04
Consensus pattern (12 bp):
AAAAAAGAAAAG
Found at i:42439008 original size:88 final size:87
Alignment explanation
Indices: 42438931--42439100 Score: 209
Period size: 88 Copynumber: 1.9 Consensus size: 87
42438921 AGATTTAAGC
* * * *
42438931 CACCAGTCC-TATC-TCTCTGAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTTCCTA
1 CACCAG-CCTTATCTTCT-TGAGCAGCAATGGAGTAGGTTGAAGATTGTAGATCCTATCTCCCTA
* *
42438994 TACTGGCAGTGAAGCAGATCGAAAA
64 AAC-AGCAGTGAAGCAGATCGAAAA
** *
42439019 CACTTGCCTTATCTTCTTGAGTAGCAATGGAGTAGGTTGAAGATTGTAGATCCTATCTCCCTAAA
1 CACCAGCCTTATCTTCTTGAGCAGCAATGGAGTAGGTTGAAGATTGTAGATCCTATCTCCCTAAA
*
42439084 CAGCAGTGGAGCAGATC
66 CAGCAGTGAAGCAGATC
42439101 AAAGACGGTG
Statistics
Matches: 70, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
87 16 0.23
88 51 0.73
89 3 0.04
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.29
Consensus pattern (87 bp):
CACCAGCCTTATCTTCTTGAGCAGCAATGGAGTAGGTTGAAGATTGTAGATCCTATCTCCCTAAA
CAGCAGTGAAGCAGATCGAAAA
Found at i:42439013 original size:133 final size:132
Alignment explanation
Indices: 42438534--42438982 Score: 736
Period size: 132 Copynumber: 3.4 Consensus size: 132
42438524 AGATCGAAAG
** * *
42438534 CACCAGTCCTATCTCCCTGAGCAGTGGTGGAGTAAGTTGAAGATTCTAGATCCTGTCTCCCTAAG
1 CACCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAG
* * *
42438599 CAGTAGTGGAGCAGATCAAAGACAGCGAATCTTATTTTCCCAAGGTAGTAGGGCAGCAGATTTAA
66 CAGTAGTGGAGCAGATCAAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAA
42438664 GC
131 GC
* * * * **
42438666 CACCAATCCTATCTCCCTAAGCAGCAGTAGAGTAGGTTGAAGATTGCAGATCCTGTCTTTCTAAG
1 CACCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAG
*
42438731 CAGTAGTGGAGCAGATCAAAGACGGCGGATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAA
66 CAGTAGTGGAGCAGATCAAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAA
42438796 GC
131 GC
42438798 CACCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTTGTAGATCCTGTCTCCCTAA
1 CACCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGA-TTGTAGATCCTGTCTCCCTAA
*
42438863 GCAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTA
65 GCAGTAGTGGAGCAGATCAAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTA
42438928 AGC
130 AGC
* *
42438931 CACCAGTCCTATCTCTCTGAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATC
1 CACCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATC
42438983 TTATCTTCCT
Statistics
Matches: 292, Mismatches: 24, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
132 167 0.57
133 125 0.43
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (132 bp):
CACCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAG
CAGTAGTGGAGCAGATCAAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAA
GC
Found at i:42439034 original size:265 final size:264
Alignment explanation
Indices: 42438534--42439013 Score: 728
Period size: 265 Copynumber: 1.8 Consensus size: 264
42438524 AGATCGAAAG
**
42438534 CACCAGTCCTATCTCCCTGAGCAGTGGTGGAGTAAGTTGAAGATTCTAGATCCTGTCTCCCTAAG
1 CACCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAAGTTGAAGATTCTAGATCCTGTCTCCCTAAG
* *
42438599 CAGTAGTGGAGCAGATCAAAGACAGCGAATCTTATTTTCCCAAGGTAGTAGGGCAGCAGATTTAA
66 CAGTAGTGGAGCAGATCAAAGACAGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAA
* *
42438664 GCCACCAATCCTATCTCCCTAAGCAGCAGTAGAGTAGGTTGAAGATTGCAGATCCTGTCTTTCTA
131 GCCACCAATCCTATCTCCCTAAGCAGCAGTAGAGTAGGTTGAAGATTGCAGATCCTATCTTCCTA
* * * *
42438729 AGCAGTAGTGGAGCAGATCAAAGACGGCGGATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTT
196 AGCAGCAGTGAAGCAGATCAAAGACGACGGACCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTT
42438794 AAGC
261 AAGC
* *
42438798 CACCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTTGTAGATCCTGTCTCCCTAA
1 CACCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAAGTTGAAGA-TTCTAGATCCTGTCTCCCTAA
* *
42438863 GCAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTA
65 GCAGTAGTGGAGCAGATCAAAGACAGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTA
* * * * * * *
42438928 AGCCACCAGTCCTATCTCTCTGAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTTCCT
130 AGCCACCAATCCTATCTCCCTAAGCAGCAGTAGAGTAGGTTGAAGATTGCAGATCCTATCTTCCT
*
42438993 ATA-CTGGCAGTGAAGCAGATC
195 A-AGC-AGCAGTGAAGCAGATC
42439014 GAAAACACTT
Statistics
Matches: 193, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
264 40 0.21
265 139 0.72
266 14 0.07
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (264 bp):
CACCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAAGTTGAAGATTCTAGATCCTGTCTCCCTAAG
CAGTAGTGGAGCAGATCAAAGACAGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAA
GCCACCAATCCTATCTCCCTAAGCAGCAGTAGAGTAGGTTGAAGATTGCAGATCCTATCTTCCTA
AGCAGCAGTGAAGCAGATCAAAGACGACGGACCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTT
AAGC
Found at i:42439616 original size:40 final size:40
Alignment explanation
Indices: 42439557--42439632 Score: 143
Period size: 40 Copynumber: 1.9 Consensus size: 40
42439547 GTAGTAGAGC
42439557 AGTTGCAGCAGAGTAGATTGAAGCTACAAGTCATATCTGA
1 AGTTGCAGCAGAGTAGATTGAAGCTACAAGTCATATCTGA
*
42439597 AGTTGCAGCAGAGTGGATTGAAGCTACAAGTCATAT
1 AGTTGCAGCAGAGTAGATTGAAGCTACAAGTCATAT
42439633 TTTTCTGAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.25
Consensus pattern (40 bp):
AGTTGCAGCAGAGTAGATTGAAGCTACAAGTCATATCTGA
Found at i:42441649 original size:63 final size:63
Alignment explanation
Indices: 42441572--42441695 Score: 180
Period size: 63 Copynumber: 2.0 Consensus size: 63
42441562 TTTTATAAAC
**
42441572 ATGTATATACACATACTTTTATATATTTTTTATATTTCATAATTCTT-AAT-TATATACATATAT
1 ATGTATATACACATACTTACATATA-TTTTTATATTTCATAATT-TTAAATATATATACATATAT
*
42441635 ATGTATATATACATACTTACATATATTTTTATATTTCATAATTTTAAAATATATATACATA
1 ATGTATATACACATACTTACATATATTTTTATATTTCATAATTTT-AAATATATATACATA
42441696 CTAATATTCT
Statistics
Matches: 55, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
61 2 0.04
62 18 0.33
63 25 0.45
64 10 0.18
ACGTcount: A:0.40, C:0.09, G:0.02, T:0.50
Consensus pattern (63 bp):
ATGTATATACACATACTTACATATATTTTTATATTTCATAATTTTAAATATATATACATATAT
Found at i:42441794 original size:17 final size:17
Alignment explanation
Indices: 42441774--42441822 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 17
42441764 TTTTTATAAT
*
42441774 TTTATTCATTTTGTTTA
1 TTTATTCATTTTATTTA
42441791 TTTATT-A-TTTATTTA
1 TTTATTCATTTTATTTA
42441806 TATT-TTCATTTTCATTT
1 T-TTATTCATTTT-ATTT
42441823 TGAAAGAACG
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
15 10 0.37
16 4 0.15
17 9 0.33
18 4 0.15
ACGTcount: A:0.20, C:0.06, G:0.02, T:0.71
Consensus pattern (17 bp):
TTTATTCATTTTATTTA
Found at i:42455208 original size:16 final size:16
Alignment explanation
Indices: 42455170--42455212 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
42455160 CACATGGGCT
* *
42455170 TGTGGGCCACACACGCG
1 TGTGGGCC-CACAAGCA
*
42455187 TATGGGCCCACAAGCA
1 TGTGGGCCCACAAGCA
42455203 TGTGGGCCCA
1 TGTGGGCCCA
42455213 AAATTCTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 15 0.68
17 7 0.32
ACGTcount: A:0.21, C:0.33, G:0.33, T:0.14
Consensus pattern (16 bp):
TGTGGGCCCACAAGCA
Found at i:42455453 original size:17 final size:18
Alignment explanation
Indices: 42455431--42455475 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
42455421 TTGTTATATC
*
42455431 TGTATATGTGATG-TATT
1 TGTATATGTGATGAGATT
* *
42455448 TGTATATGGGGTGAGATT
1 TGTATATGTGATGAGATT
42455466 TGTATATGTG
1 TGTATATGTG
42455476 GAGAAAGTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (18 bp):
TGTATATGTGATGAGATT
Found at i:42456808 original size:26 final size:26
Alignment explanation
Indices: 42456758--42456808 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
42456748 TAATAAATAT
**
42456758 TTTTTTTATTTTAAAATACTTTTTTA
1 TTTTTTTATTTTAAAATACAATTTTA
42456784 TTTTTTTATTTTTAAAATA-AATTTT
1 TTTTTTTA-TTTTAAAATACAATTTT
42456809 TGGTGTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (26 bp):
TTTTTTTATTTTAAAATACAATTTTA
Found at i:42456808 original size:27 final size:26
Alignment explanation
Indices: 42456758--42456809 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
42456748 TAATAAATAT
**
42456758 TTTTTTTATTTTAAAATACTTTTTTA
1 TTTTTTTATTTTAAAATAAATTTTTA
42456784 TTTTTTTATTTTTAAAATAAATTTTT
1 TTTTTTTA-TTTTAAAATAAATTTTT
42456810 GGTGTTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (26 bp):
TTTTTTTATTTTAAAATAAATTTTTA
Found at i:42458109 original size:6 final size:6
Alignment explanation
Indices: 42458098--42458122 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
42458088 AGGTTTCCAT
42458098 AAATGA AAATGA AAATGA AAATGA A
1 AAATGA AAATGA AAATGA AAATGA A
42458123 GAGAATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (6 bp):
AAATGA
Found at i:42459411 original size:22 final size:22
Alignment explanation
Indices: 42459377--42459420 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
42459367 ATTTGATAAT
42459377 ATGTTTTGAAATACAAA-TTAAA
1 ATGTTTTGAAATA-AAAGTTAAA
**
42459399 ATGTTTTTCAATAAAAGTTAAA
1 ATGTTTTGAAATAAAAGTTAAA
42459421 GTTGAACAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.48, C:0.05, G:0.09, T:0.39
Consensus pattern (22 bp):
ATGTTTTGAAATAAAAGTTAAA
Found at i:42460858 original size:3 final size:3
Alignment explanation
Indices: 42460850--42460898 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
42460840 ACATTGGTTA
42460850 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
42460898 T
1 T
42460899 TCTTTATTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:42461099 original size:21 final size:21
Alignment explanation
Indices: 42461053--42461099 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
42461043 AGTCAAATAT
*
42461053 TTTTAATTGATTCGATTTTAA
1 TTTTAATTGATTCGACTTTAA
*
42461074 ATTTAATTGATTCGAACTTT-A
1 TTTTAATTGATTCG-ACTTTAA
42461095 TTTTA
1 TTTTA
42461100 TTAATATTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.30, C:0.06, G:0.09, T:0.55
Consensus pattern (21 bp):
TTTTAATTGATTCGACTTTAA
Found at i:42461844 original size:31 final size:31
Alignment explanation
Indices: 42461808--42461871 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
42461798 CCCAACATTT
*
42461808 TTTTAAAACAATTTCATTAAA-CTCC-TAAAAC
1 TTTTAAAA-AATTT-ACTAAATCTCCTTAAAAC
*
42461839 TTTTAAAAACTTTACTAAATCTCCTTAAAAC
1 TTTTAAAAAATTTACTAAATCTCCTTAAAAC
42461870 TT
1 TT
42461872 GATCCCAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 5 0.17
30 8 0.28
31 16 0.55
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.39
Consensus pattern (31 bp):
TTTTAAAAAATTTACTAAATCTCCTTAAAAC
Found at i:42463003 original size:17 final size:17
Alignment explanation
Indices: 42462975--42463016 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
42462965 AAAATACCTA
42462975 ATTATA-TTTTACTACT
1 ATTATATTTTTACTACT
*
42462991 ATTATATTTTTACTTCT
1 ATTATATTTTTACTACT
*
42463008 ATTAAATTT
1 ATTATATTT
42463017 CTAAATATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 6 0.26
17 17 0.74
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTATATTTTTACTACT
Found at i:42463356 original size:18 final size:18
Alignment explanation
Indices: 42463335--42463371 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
42463325 GAAAAGTAAG
42463335 TCATTTTCTATAATTCAT
1 TCATTTTCTATAATTCAT
*
42463353 TCATTTTTTATAATTCAT
1 TCATTTTCTATAATTCAT
42463371 T
1 T
42463372 TTCTGGCAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.14, G:0.00, T:0.59
Consensus pattern (18 bp):
TCATTTTCTATAATTCAT
Found at i:42466475 original size:58 final size:57
Alignment explanation
Indices: 42466351--42466507 Score: 228
Period size: 57 Copynumber: 2.7 Consensus size: 57
42466341 CAACCTTAAA
* *
42466351 ATTCAAAATGTGGTTGCAAAATTTGACCTTTTATTTTGTTTTTCACCATTATAAGTTT
1 ATTCAAAATGTGATTGCAAAATTTGACC-TTTATTTTGTTTTTCACCATTATAAGCTT
*
42466409 ATTCAAAATGTGATTGCAAAATTTTG-CCTTTATTTTGTTTTTCACCTTTATAAGCTT
1 ATTCAAAATGTGATTGCAAAA-TTTGACCTTTATTTTGTTTTTCACCATTATAAGCTT
* *
42466466 ATTCAAAA-ATGACTGCAAAATTTGACCTTTATTTTTGTTTTT
1 ATTCAAAATGTGATTGCAAAATTTGACCTTTA-TTTTGTTTTT
42466508 TGTTTTTTAC
Statistics
Matches: 91, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
55 4 0.04
56 16 0.18
57 45 0.49
58 22 0.24
59 4 0.04
ACGTcount: A:0.28, C:0.13, G:0.11, T:0.48
Consensus pattern (57 bp):
ATTCAAAATGTGATTGCAAAATTTGACCTTTATTTTGTTTTTCACCATTATAAGCTT
Found at i:42468552 original size:182 final size:182
Alignment explanation
Indices: 42468245--42468610 Score: 696
Period size: 182 Copynumber: 2.0 Consensus size: 182
42468235 TGAGAAAACC
42468245 TTGAGCTGGAGGCATCCAACAGATATCCCTCCAAACTGCTTTAACAGGAGTAGCCGAGAAGCAAA
1 TTGAGCTGGAGGCATCCAACAGATATCCCTCCAAACTGCTTTAACAGGAGTAGCCGAGAAGCAAA
*
42468310 GCAGTGGGCAATCCCACCAAGCTGACTCCATAGCAAGTAATTTATCGTCTGCAGCCTTGATCCAA
66 GCAGTGGGCAATCCCACCAAGCTGACTCCATAACAAGTAATTTATCGTCTGCAGCCTTGATCCAA
*
42468375 ACTACCCGTTTTCTCGGGCTGATTTCAAGAGGAATACCAACTACCAAGATAT
131 ACTACCCGTTTTCTCGGGCTGATTCCAAGAGGAATACCAACTACCAAGATAT
* *
42468427 TTGAGCTGGAGGCGTCCAACAGATATCCCTCCGAACTGCTTTAACAGGAGTAGCCGAGAAGCAAA
1 TTGAGCTGGAGGCATCCAACAGATATCCCTCCAAACTGCTTTAACAGGAGTAGCCGAGAAGCAAA
42468492 GCAGTGGGCAATCCCACCAAGCTGACTCCATAACAAGTAATTTATCGTCTGCAGCCTTGATCCAA
66 GCAGTGGGCAATCCCACCAAGCTGACTCCATAACAAGTAATTTATCGTCTGCAGCCTTGATCCAA
42468557 ACTACCCGTTTTCTCGGGCTGATTCCAAGAGGAATACCAACTACCAAGATAT
131 ACTACCCGTTTTCTCGGGCTGATTCCAAGAGGAATACCAACTACCAAGATAT
42468609 TT
1 TT
42468611 AAGGGGGAAC
Statistics
Matches: 180, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
182 180 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (182 bp):
TTGAGCTGGAGGCATCCAACAGATATCCCTCCAAACTGCTTTAACAGGAGTAGCCGAGAAGCAAA
GCAGTGGGCAATCCCACCAAGCTGACTCCATAACAAGTAATTTATCGTCTGCAGCCTTGATCCAA
ACTACCCGTTTTCTCGGGCTGATTCCAAGAGGAATACCAACTACCAAGATAT
Found at i:42469986 original size:23 final size:22
Alignment explanation
Indices: 42469959--42470007 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 22
42469949 ACTTTAGTCC
42469959 TTAGT-TTTGAATTGATTGTAAAT
1 TTAGTCTTTGAA-TG-TTGTAAAT
*
42469982 TTAGTCCTTTGAATGTTGTAATT
1 TTAGT-CTTTGAATGTTGTAAAT
42470005 TTA
1 TTA
42470008 ATGCGATTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 15 0.65
24 2 0.09
25 6 0.26
ACGTcount: A:0.27, C:0.04, G:0.16, T:0.53
Consensus pattern (22 bp):
TTAGTCTTTGAATGTTGTAAAT
Found at i:42470111 original size:3 final size:3
Alignment explanation
Indices: 42470105--42470159 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
42470095 ATTATTATTA
42470105 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
42470153 TTG TTG T
1 TTG TTG T
42470160 ACTTTAAATT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:42470317 original size:13 final size:13
Alignment explanation
Indices: 42470301--42470329 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
42470291 TTTAAGATAT
42470301 ATTATTATTTTTA
1 ATTATTATTTTTA
42470314 ATTATTATTTTTA
1 ATTATTATTTTTA
42470327 ATT
1 ATT
42470330 TATCATACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
ATTATTATTTTTA
Found at i:42471982 original size:27 final size:27
Alignment explanation
Indices: 42471940--42471991 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
42471930 AAAACTGATA
42471940 TATTTTCCAACACCCA-CATTCTCCACT
1 TATTTTCCAACACCCATC-TTCTCCACT
42471967 TATTTTCCGAAC-CCCATCTTCTCCA
1 TATTTTCC-AACACCCATCTTCTCCA
42471992 ATATGTGCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.23, C:0.40, G:0.02, T:0.35
Consensus pattern (27 bp):
TATTTTCCAACACCCATCTTCTCCACT
Found at i:42487680 original size:16 final size:15
Alignment explanation
Indices: 42487661--42487707 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 15
42487651 ATTTAGTCAT
42487661 ATAATAAATTATATTA
1 ATAATAAATTAT-TTA
**
42487677 ATAATTTATTATTT-
1 ATAATAAATTATTTA
42487691 -TAATAAATTATTTA
1 ATAATAAATTATTTA
42487705 ATA
1 ATA
42487708 TTTCAATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
13 11 0.44
15 4 0.16
16 10 0.40
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
ATAATAAATTATTTA
Found at i:42487734 original size:13 final size:14
Alignment explanation
Indices: 42487717--42487749 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
42487707 ATTTCAATTT
*
42487717 TATTTTAATAATAA
1 TATTTTAAAAATAA
42487731 -ATTTTAAAAATAA
1 TATTTTAAAAATAA
42487744 TATTTT
1 TATTTT
42487750 TACATATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TATTTTAAAAATAA
Found at i:42492545 original size:32 final size:33
Alignment explanation
Indices: 42492500--42492562 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 33
42492490 AAAATAACAA
* *
42492500 AAAATTAATATAGTTG-GCTGACCAAAAAAAGAT
1 AAAATGAATATAGTTGAG-TGACAAAAAAAAGAT
42492533 AAAATGAA-ATAGTTGAGTGACAAAAAAAAG
1 AAAATGAATATAGTTGAGTGACAAAAAAAAG
42492563 CATAGTTGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 19 0.70
33 8 0.30
ACGTcount: A:0.56, C:0.06, G:0.17, T:0.21
Consensus pattern (33 bp):
AAAATGAATATAGTTGAGTGACAAAAAAAAGAT
Found at i:42492691 original size:3 final size:3
Alignment explanation
Indices: 42492683--42492711 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
42492673 AAATTAGTCA
42492683 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
42492712 AGAAAAGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:42498914 original size:22 final size:22
Alignment explanation
Indices: 42498889--42498934 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
42498879 TTGTTATTTG
* *
42498889 TTGTTGCTATTTTGCTACTATT
1 TTGTTACTATATTGCTACTATT
* *
42498911 TTGTTATTATATTGCTACTGTT
1 TTGTTACTATATTGCTACTATT
42498933 TT
1 TT
42498935 ATTATTATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.15, C:0.11, G:0.13, T:0.61
Consensus pattern (22 bp):
TTGTTACTATATTGCTACTATT
Found at i:42498939 original size:22 final size:22
Alignment explanation
Indices: 42498900--42498942 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
42498890 TGTTGCTATT
*
42498900 TTGCTACTATTTTGTTATTATA
1 TTGCTACTATTTTATTATTATA
*
42498922 TTGCTACTGTTTTATTATTAT
1 TTGCTACTATTTTATTATTAT
42498943 TTGGATATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.09, G:0.09, T:0.60
Consensus pattern (22 bp):
TTGCTACTATTTTATTATTATA
Found at i:42512300 original size:31 final size:31
Alignment explanation
Indices: 42512265--42512327 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
42512255 CAAAACGGTC
42512265 ATTGAACTATTCAAAAGTTTTTATTTAAGTT
1 ATTGAACTATTCAAAAGTTTTTATTTAAGTT
* *
42512296 ATTGAATTATTCCAAAGTTTTTATTTAAGTT
1 ATTGAACTATTCAAAAGTTTTTATTTAAGTT
42512327 A
1 A
42512328 CTATGTTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.49
Consensus pattern (31 bp):
ATTGAACTATTCAAAAGTTTTTATTTAAGTT
Found at i:42512773 original size:28 final size:28
Alignment explanation
Indices: 42512740--42512812 Score: 119
Period size: 28 Copynumber: 2.6 Consensus size: 28
42512730 AATTTACCTT
42512740 TAATTTAAATTAGTTTTCTATTGTTAAA
1 TAATTTAAATTAGTTTTCTATTGTTAAA
42512768 TAATTTAAATTAGTTTTCTATTGTTAAA
1 TAATTTAAATTAGTTTTCTATTGTTAAA
* * *
42512796 AAAATTAATTTAGTTTT
1 TAATTTAAATTAGTTTT
42512813 TATACAAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.37, C:0.03, G:0.07, T:0.53
Consensus pattern (28 bp):
TAATTTAAATTAGTTTTCTATTGTTAAA
Found at i:42519302 original size:19 final size:19
Alignment explanation
Indices: 42519278--42519316 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
42519268 CGTTTTGTTA
42519278 TTCTAT-TTCTATTCTCTTT
1 TTCTATCTTCTATT-TCTTT
*
42519297 TTCTATCTTTTATTTCTTT
1 TTCTATCTTCTATTTCTTT
42519316 T
1 T
42519317 GTTTTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.10, C:0.18, G:0.00, T:0.72
Consensus pattern (19 bp):
TTCTATCTTCTATTTCTTT
Done.