Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 14 of 320
Found at i:3931053 original size:40 final size:39
Alignment explanation
Indices: 3930890--3931056 Score: 115
Period size: 40 Copynumber: 4.1 Consensus size: 39
3930880 TGATTAAAAA
* *
3930890 ATAAAAATCA-ATAAAATTTATAAAAAATTAT-AAAATTTT
1 ATAAAAAT-ATATAAAA-TTATAAAAAAATATAAAAAATTT
* * * * * *
3930929 AATAAATAATATTTAGAAGTTATTAAAAATTAGAAAAAAAATT
1 -ATAAA-AATATATA-AAATTATAAAAAAATA-TAAAAAATTT
* * *
3930972 ATAAAAATATGTAAAATTTTATAAAAATCATAAAAAATTT
1 ATAAAAATATATAAAATTATAAAAAAAT-ATAAAAAATTT
* *
3931012 ATAAAAATATATAGAAATATATAAAAAAAT-TATAAATTTT
1 ATAAAAATATATA-AAAT-TATAAAAAAATATAAAAAATTT
3931052 ATAAA
1 ATAAA
3931057 GTCGTAAGAA
Statistics
Matches: 100, Mismatches: 19, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
40 49 0.49
41 29 0.29
42 16 0.16
43 6 0.06
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (39 bp):
ATAAAAATATATAAAATTATAAAAAAATATAAAAAATTT
Found at i:3931585 original size:16 final size:16
Alignment explanation
Indices: 3931564--3931594 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3931554 TTTTATAATA
3931564 TTTTTACAATTTTATG
1 TTTTTACAATTTTATG
*
3931580 TTTTTACTATTTTAT
1 TTTTTACAATTTTAT
3931595 AAAAAAATTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.06, G:0.03, T:0.68
Consensus pattern (16 bp):
TTTTTACAATTTTATG
Found at i:3931716 original size:16 final size:17
Alignment explanation
Indices: 3931680--3931717 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
3931670 TTTACGATTT
3931680 TTTTATAATTTTTGTGA
1 TTTTATAATTTTTGTGA
*
3931697 -TTTATAATTTTT-TTA
1 TTTTATAATTTTTGTGA
3931712 TTTTAT
1 TTTTAT
3931718 GATAAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 2 0.11
16 17 0.89
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (17 bp):
TTTTATAATTTTTGTGA
Found at i:3931743 original size:21 final size:21
Alignment explanation
Indices: 3931719--3931804 Score: 86
Period size: 21 Copynumber: 4.2 Consensus size: 21
3931709 TTATTTTATG
*
3931719 ATAAATTTTAAATATTTTTCT
1 ATAAATTTTTAATATTTTTCT
* *
3931740 ATAAATTTTTTATATTTTT-A
1 ATAAATTTTTAATATTTTTCT
** * *
3931760 ATATGTTTCT-ATATTTTTTT
1 ATAAATTTTTAATATTTTTCT
*
3931780 ATAAATTTTTAATAATTTTCT
1 ATAAATTTTTAATATTTTTCT
3931801 ATAA
1 ATAA
3931805 CTTTATTGAT
Statistics
Matches: 51, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
19 8 0.16
20 14 0.27
21 29 0.57
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.60
Consensus pattern (21 bp):
ATAAATTTTTAATATTTTTCT
Found at i:3931760 original size:31 final size:31
Alignment explanation
Indices: 3931722--3931804 Score: 107
Period size: 30 Copynumber: 2.7 Consensus size: 31
3931712 TTTTATGATA
*
3931722 AATTTTAAATATTTTTCTATAAATTTTTTAT
1 AATTTTTAATATTTTTCTATAAATTTTTTAT
* *
3931753 -ATTTTTAATATGTTTCTAT-ATTTTTTTAT
1 AATTTTTAATATTTTTCTATAAATTTTTTAT
*
3931782 AAATTTTTAATAATTTTCTATAA
1 -AATTTTTAATATTTTTCTATAA
3931805 CTTTATTGAT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
29 9 0.20
30 17 0.39
31 17 0.39
32 1 0.02
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (31 bp):
AATTTTTAATATTTTTCTATAAATTTTTTAT
Found at i:3933745 original size:21 final size:21
Alignment explanation
Indices: 3933719--3933767 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
3933709 CAATTCGTGC
* *
3933719 ATTCAATTGTATTGGTTCCGT
1 ATTCAATTGTACTAGTTCCGT
*
3933740 ATTCAATTGTACTAGTTCCTT
1 ATTCAATTGTACTAGTTCCGT
3933761 ATTCAAT
1 ATTCAAT
3933768 AAAAGACTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.24, C:0.16, G:0.12, T:0.47
Consensus pattern (21 bp):
ATTCAATTGTACTAGTTCCGT
Found at i:3935710 original size:36 final size:36
Alignment explanation
Indices: 3935645--3935747 Score: 98
Period size: 36 Copynumber: 2.9 Consensus size: 36
3935635 GATTCTGGGT
* *
3935645 ATAGTCAGGATTTGCCCCTTGCCCAAAATTCTGCCC
1 ATAGCCAGGATTTGCCCCCTGCCCAAAATTCTGCCC
* * * *
3935681 ATAGCCAGGATTTGCCCCCTGTCCGAAATTTTGTCC
1 ATAGCCAGGATTTGCCCCCTGCCCAAAATTCTGCCC
* * * ** *
3935717 ATAACCAGAACTTGGTCCCTGCCCATAATTC
1 ATAGCCAGGATTTGCCCCCTGCCCAAAATTC
3935748 CCACCTTGTG
Statistics
Matches: 52, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
36 52 1.00
ACGTcount: A:0.23, C:0.32, G:0.17, T:0.28
Consensus pattern (36 bp):
ATAGCCAGGATTTGCCCCCTGCCCAAAATTCTGCCC
Found at i:3937624 original size:22 final size:21
Alignment explanation
Indices: 3937586--3937655 Score: 90
Period size: 21 Copynumber: 3.3 Consensus size: 21
3937576 CAATAAAAAT
* *
3937586 ATAAAAAATTATTAAATTTTA
1 ATAAAAAATTGTAAAATTTTA
3937607 ATAAAAAATTGTAAAAATTTATA
1 ATAAAAAATTGT-AAAATTT-TA
3937630 AT-AAAAATTGTAAAATTTT-
1 ATAAAAAATTGTAAAATTTTA
3937649 ATAAAAA
1 ATAAAAA
3937656 TCATAAAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
19 2 0.05
20 5 0.11
21 18 0.41
22 15 0.34
23 4 0.09
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (21 bp):
ATAAAAAATTGTAAAATTTTA
Found at i:3937662 original size:19 final size:21
Alignment explanation
Indices: 3937589--3937663 Score: 57
Period size: 21 Copynumber: 3.6 Consensus size: 21
3937579 TAAAAATATA
* *
3937589 AAAAATTATTAAATTT-TAAT
1 AAAAATCATAAAATTTATAAT
**
3937609 AAAAAATTGTAAAAATTTATAAT
1 -AAAAATCAT-AAAATTTATAAT
**
3937632 AAAAATTGTAAAATTT-T-AT
1 AAAAATCATAAAATTTATAAT
3937651 AAAAATCATAAAA
1 AAAAATCATAAAA
3937664 AAATATAGAA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
19 13 0.27
20 1 0.02
21 15 0.31
22 15 0.31
23 4 0.08
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (21 bp):
AAAAATCATAAAATTTATAAT
Found at i:3937798 original size:12 final size:12
Alignment explanation
Indices: 3937781--3937805 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3937771 AAAAGGAGCA
3937781 TTTTATAATTTT
1 TTTTATAATTTT
3937793 TTTTATAATTTT
1 TTTTATAATTTT
3937805 T
1 T
3937806 ATTGATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTATAATTTT
Found at i:3937956 original size:9 final size:9
Alignment explanation
Indices: 3937942--3938000 Score: 64
Period size: 9 Copynumber: 6.2 Consensus size: 9
3937932 TTGATGCATG
3937942 TTATAATTT
1 TTATAATTT
3937951 TTATAAATTT
1 TTAT-AATTT
*
3937961 TTACAATTT
1 TTATAATTT
*
3937970 TTACAATTT
1 TTATAATTT
*
3937979 TTTTACTATTT
1 TTATA--ATTT
3937990 TTATAATTT
1 TTATAATTT
3937999 TT
1 TT
3938001 TTTCTAATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
9 27 0.63
10 8 0.19
11 8 0.19
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (9 bp):
TTATAATTT
Found at i:3937971 original size:20 final size:20
Alignment explanation
Indices: 3937946--3938022 Score: 77
Period size: 20 Copynumber: 3.9 Consensus size: 20
3937936 TGCATGTTAT
3937946 AATTTTTATAA-ATTTTTAC
1 AATTTTTATAATATTTTTAC
* *
3937965 AATTTTTACAATTTTTTTAC
1 AATTTTTATAATATTTTTAC
* * *
3937985 TATTTTTATAATTTTTTTTC
1 AATTTTTATAATATTTTTAC
3938005 TAATTTTTAATAA-ATTTT
1 -AATTTTT-ATAATATTTT
3938023 AAATACTTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
19 10 0.21
20 24 0.50
21 10 0.21
22 4 0.08
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (20 bp):
AATTTTTATAATATTTTTAC
Found at i:3938033 original size:30 final size:30
Alignment explanation
Indices: 3937999--3938062 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
3937989 TTTATAATTT
*
3937999 TTTTTCTAATTTTTAATAAATTTTAA-ATAC
1 TTTTTCTAATTTTTAATAAAATTTAATA-AC
* * *
3938029 TTTTTGTATTTTTTATTAAAATTTAATAAC
1 TTTTTCTAATTTTTAATAAAATTTAATAAC
3938059 TTTT
1 TTTT
3938063 ATAACTTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 28 0.97
31 1 0.03
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.61
Consensus pattern (30 bp):
TTTTTCTAATTTTTAATAAAATTTAATAAC
Found at i:3943593 original size:19 final size:18
Alignment explanation
Indices: 3943553--3943593 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
3943543 TAATTTACAC
*
3943553 ATTTCAATTTCACATTAA
1 ATTTCAATTTCACACTAA
*
3943571 ATTTCAATTTTCACACTAT
1 ATTTCAA-TTTCACACTAA
3943590 ATTT
1 ATTT
3943594 TGATTATTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTTCAATTTCACACTAA
Found at i:3951283 original size:3 final size:3
Alignment explanation
Indices: 3951275--3951304 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
3951265 CATATTAAAA
3951275 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
3951305 CTTTTGTTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:3960214 original size:10 final size:10
Alignment explanation
Indices: 3960199--3960223 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
3960189 TATAGTTTGT
3960199 ATTTACTATA
1 ATTTACTATA
3960209 ATTTACTATA
1 ATTTACTATA
3960219 ATTTA
1 ATTTA
3960224 TTTAACTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (10 bp):
ATTTACTATA
Found at i:3961332 original size:13 final size:14
Alignment explanation
Indices: 3961305--3961334 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
3961295 GATTTAGGTT
3961305 TTTATTTTTAGAAA
1 TTTATTTTTAGAAA
3961319 TTTATTTTTA-AAA
1 TTTATTTTTAGAAA
3961332 TTT
1 TTT
3961335 TAAAATTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (14 bp):
TTTATTTTTAGAAA
Found at i:3981835 original size:25 final size:25
Alignment explanation
Indices: 3981801--3981853 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
3981791 TGAATTTTTT
3981801 CAGAATGAAGCTAGCAGAAAAAATA
1 CAGAATGAAGCTAGCAGAAAAAATA
*
3981826 CAGAATGAAGCTAGCAGAGAAAATA
1 CAGAATGAAGCTAGCAGAAAAAATA
3981851 CAG
1 CAG
3981854 CTTCTGTTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.53, C:0.13, G:0.23, T:0.11
Consensus pattern (25 bp):
CAGAATGAAGCTAGCAGAAAAAATA
Found at i:3985052 original size:174 final size:175
Alignment explanation
Indices: 3984734--3985081 Score: 468
Period size: 174 Copynumber: 2.0 Consensus size: 175
3984724 CTTCAAGCAA
* * * * * *
3984734 GGAACAAAATAAAAGCATAAAGTGACCATACAGAATGTTTCCATTTAAAACGACCATCATAGCAA
1 GGAACAAAATAAAAGCATAAAGTGAACATACAGAATGTTTCCATCTAAAACAAACATCACAGAAA
* * * * * *
3984799 ACTGCAGTAACATCATCAGAAAGGCTGAATATTTCAAGGCCCATAACCCCAAACAGTGTGATGCT
66 ACTGCAGTAACATCATAAGAAAGACTAAATATTTCAAGGCCAAAAACCCCAAACAGTGTGATACT
* *
3984864 TACTATATTTTCAACATTGTGGGAGA-CCTAAATCCTCACCACAAT
131 TACTACAATTTCAACATTGTGGGA-ACCCTAAATCCTCACCACAAT
* *
3984909 GGAACGAAATAAAAGCATGAATGTGAACATACAGAATGTTTCC-TCTAAAA-AAACATCACAGAA
1 GGAACAAAATAAAAGCAT-AAAGTGAACATACAGAATGTTTCCATCTAAAACAAACATCACAGAA
* ** *
3984972 AACTGCAGTGACATCATAAGAAAGACTAAATATTTCAAGGCCAAAAATTCCAAACTGTGTGATAC
65 AACTGCAGTAACATCATAAGAAAGACTAAATATTTCAAGGCCAAAAACCCCAAACAGTGTGATAC
*
3985037 TTACTACAATTTCAACATTGTGGGAACCCTAGATCCTCACCACAA
130 TTACTACAATTTCAACATTGTGGGAACCCTAAATCCTCACCACAA
3985082 CGGACATGCA
Statistics
Matches: 150, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
173 1 0.01
174 104 0.69
175 23 0.15
176 22 0.15
ACGTcount: A:0.41, C:0.21, G:0.15, T:0.23
Consensus pattern (175 bp):
GGAACAAAATAAAAGCATAAAGTGAACATACAGAATGTTTCCATCTAAAACAAACATCACAGAAA
ACTGCAGTAACATCATAAGAAAGACTAAATATTTCAAGGCCAAAAACCCCAAACAGTGTGATACT
TACTACAATTTCAACATTGTGGGAACCCTAAATCCTCACCACAAT
Found at i:3990673 original size:46 final size:46
Alignment explanation
Indices: 3990620--3990711 Score: 157
Period size: 46 Copynumber: 2.0 Consensus size: 46
3990610 ATTTAAGATT
*
3990620 GAATTCCATGGGGGTTTCAGCTGGTTTACACCCCAACATCCCAACC
1 GAATTCCATGGGAGTTTCAGCTGGTTTACACCCCAACATCCCAACC
* *
3990666 GAATTCCATGGGAGTTTTAGCTGGTTTACACCCCAACATCCTAACC
1 GAATTCCATGGGAGTTTCAGCTGGTTTACACCCCAACATCCCAACC
3990712 TCAAATAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (46 bp):
GAATTCCATGGGAGTTTCAGCTGGTTTACACCCCAACATCCCAACC
Found at i:4003565 original size:16 final size:16
Alignment explanation
Indices: 4003531--4003584 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
4003521 AAGTGAAAAG
* * *
4003531 AAAATTAAAAATATGA
1 AAAAATAAAAAGATAA
* * *
4003547 AAAATTAAAGAGGTAA
1 AAAAATAAAAAGATAA
4003563 AAAAATAAAAAGATAA
1 AAAAATAAAAAGATAA
4003579 AAAAAT
1 AAAAAT
4003585 TTATATATAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (16 bp):
AAAAATAAAAAGATAA
Found at i:4011062 original size:43 final size:43
Alignment explanation
Indices: 4010995--4011108 Score: 167
Period size: 43 Copynumber: 2.7 Consensus size: 43
4010985 TATTTTCGTC
* *
4010995 CACATGGTCA-GAGACACGGGCGTGTGTCTTAGTCGTGTGTGA
1 CACATGGTCAGGTGACACGGCCGTGTGTCTTAGTCGTGTGTGA
**
4011037 TGCATGGTCAGGTGACACGGCCGTGTGTCTTAGTCGTGTGTGA
1 CACATGGTCAGGTGACACGGCCGTGTGTCTTAGTCGTGTGTGA
* *
4011080 CACACGGTCAGGTGACACGACCGTGTGTC
1 CACATGGTCAGGTGACACGGCCGTGTGTC
4011109 CTCTGTGGCT
Statistics
Matches: 63, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
42 8 0.13
43 55 0.87
ACGTcount: A:0.18, C:0.22, G:0.35, T:0.25
Consensus pattern (43 bp):
CACATGGTCAGGTGACACGGCCGTGTGTCTTAGTCGTGTGTGA
Found at i:4015620 original size:23 final size:23
Alignment explanation
Indices: 4015556--4015621 Score: 66
Period size: 21 Copynumber: 3.0 Consensus size: 23
4015546 TTTATTTTAA
* * *
4015556 AAAAACTTGAAATATATA-TTTG
1 AAAAATTTTAAATATATATTTTT
* *
4015578 AAATATTTTATA-ATAT-TTTTT
1 AAAAATTTTAAATATATATTTTT
4015599 AAAAATTTTAAATATATATTTTT
1 AAAAATTTTAAATATATATTTTT
4015622 GAAATTATTT
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
21 17 0.50
22 12 0.35
23 5 0.15
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (23 bp):
AAAAATTTTAAATATATATTTTT
Found at i:4015651 original size:21 final size:21
Alignment explanation
Indices: 4015623--4015672 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
4015613 TATATTTTTG
*
4015623 AAAT-TATTTTTTAAAAATTT
1 AAATATATTTTTTAAAAATAT
*
4015643 AAATATATTTTTTAATAATAT
1 AAATATATTTTTTAAAAATAT
4015664 AAA-ATATTT
1 AAATATATTT
4015673 AAATATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
AAATATATTTTTTAAAAATAT
Found at i:4015757 original size:10 final size:10
Alignment explanation
Indices: 4015742--4015789 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
4015732 ATATTTTAAA
*
4015742 TTTTAAATAT
1 TTTTAAATTT
4015752 TTTT-AATTT
1 TTTTAAATTT
4015761 GTTTTATAATTT
1 -TTTTA-AATTT
*
4015773 TTTTAATTTT
1 TTTTAAATTT
4015783 TTTTAAA
1 TTTTAAA
4015790 ATGTATTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
9 4 0.12
10 18 0.56
11 5 0.16
12 5 0.16
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (10 bp):
TTTTAAATTT
Found at i:4015777 original size:21 final size:20
Alignment explanation
Indices: 4015742--4015789 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 20
4015732 ATATTTTAAA
4015742 TTTTAAATATTTTTAATTTG
1 TTTTAAATATTTTTAATTTG
* *
4015762 TTTTATAATTTTTTTAATTTT
1 TTTTA-AATATTTTTAATTTG
4015783 TTTTAAA
1 TTTTAAA
4015790 ATGTATTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTTAAATATTTTTAATTTG
Found at i:4015890 original size:9 final size:9
Alignment explanation
Indices: 4015853--4015885 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
4015843 TTTTAAATGT
4015853 ATATTTTAA
1 ATATTTTAA
4015862 ATATTTTAA
1 ATATTTTAA
4015871 ATATTTTAA
1 ATATTTTAA
4015880 A-ATTTT
1 ATATTTT
4015886 TAAAAATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 5 0.21
9 19 0.79
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
ATATTTTAA
Found at i:4022188 original size:30 final size:30
Alignment explanation
Indices: 4022148--4022250 Score: 154
Period size: 30 Copynumber: 3.4 Consensus size: 30
4022138 GGTTTCTCTA
*
4022148 GGTGAAATGAACTCGAACCGCCTATG-TCAG
1 GGTGATATGAACTCGAACCGCCTATGTTC-G
4022178 GGTGATATGAACTCGAACCGCCTATGTTCG
1 GGTGATATGAACTCGAACCGCCTATGTTCG
* * *
4022208 AGTGATATGAACTCGAACTGCCAATGTTCG
1 GGTGATATGAACTCGAACCGCCTATGTTCG
4022238 GGTGATATGAACT
1 GGTGATATGAACT
4022251 GTTCTTCAAC
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
30 65 0.97
31 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.25
Consensus pattern (30 bp):
GGTGATATGAACTCGAACCGCCTATGTTCG
Found at i:4024699 original size:53 final size:53
Alignment explanation
Indices: 4024600--4024701 Score: 120
Period size: 53 Copynumber: 1.9 Consensus size: 53
4024590 ATATCTGCAT
* * * *
4024600 AATATAAAAAAATAAATACAATATAATTAATTATTATATTACAATAACTATAA
1 AATATAAAAAAATAAATACAAAATAATAAATTATTAAATTAAAATAACTATAA
4024653 AATATAAAAATACA-AAATACAAAATAA-AAATTA-TAAATTATAAATAACT
1 AATATAAAAA-A-ATAAATACAAAATAATAAATTATTAAATTA-AAATAACT
4024702 TACTTTTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
52 6 0.14
53 22 0.52
54 13 0.31
55 1 0.02
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (53 bp):
AATATAAAAAAATAAATACAAAATAATAAATTATTAAATTAAAATAACTATAA
Found at i:4024882 original size:21 final size:20
Alignment explanation
Indices: 4024844--4024895 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 20
4024834 ATTAGTTATG
4024844 ATATATATTTTTTATTTTTA
1 ATATATATTTTTTATTTTTA
*
4024864 ATTTA-ATTTTTTACTTTTTTA
1 ATATATATTTTTTA--TTTTTA
4024885 ATATATATTTT
1 ATATATATTTT
4024896 AAATAAAGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 8 0.30
20 4 0.15
21 10 0.37
22 5 0.19
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (20 bp):
ATATATATTTTTTATTTTTA
Found at i:4025113 original size:13 final size:13
Alignment explanation
Indices: 4025095--4025120 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4025085 AAATTAAAAA
4025095 ATATTTAAAATAT
1 ATATTTAAAATAT
4025108 ATATTTAAAATAT
1 ATATTTAAAATAT
4025121 TATAAAACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATATTTAAAATAT
Found at i:4025206 original size:21 final size:22
Alignment explanation
Indices: 4025182--4025222 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
4025172 TTTTATATTA
4025182 TTAAAAGACATATT-TAAAATT
1 TTAAAAGACATATTATAAAATT
* *
4025203 TTAAAATATATATTATAAAA
1 TTAAAAGACATATTATAAAA
4025223 CATTTCAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.39
Consensus pattern (22 bp):
TTAAAAGACATATTATAAAATT
Found at i:4037532 original size:21 final size:20
Alignment explanation
Indices: 4037454--4037523 Score: 106
Period size: 21 Copynumber: 3.5 Consensus size: 20
4037444 TGTTTTATAA
*
4037454 TATTTTT-AATTTTAAATAT
1 TATTTTTAAAATTTAAATAT
4037473 ATATTTTTAAAATTTAAATAT
1 -TATTTTTAAAATTTAAATAT
4037494 TATTTTTAAAATTTTAAATAT
1 TATTTTTAAAA-TTTAAATAT
4037515 TATTTTTAA
1 TATTTTTAA
4037524 TAATATAAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
20 18 0.38
21 29 0.62
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TATTTTTAAAATTTAAATAT
Found at i:4037739 original size:23 final size:24
Alignment explanation
Indices: 4037686--4037737 Score: 81
Period size: 22 Copynumber: 2.2 Consensus size: 24
4037676 ATTTTTAAAG
4037686 ATATTTAAATATTTTTAAAAAATA
1 ATATTTAAATATTTTTAAAAAATA
*
4037710 CTATTTAAA-A-TTTTAAAAAATA
1 ATATTTAAATATTTTTAAAAAATA
4037732 ATATTT
1 ATATTT
4037738 TATTTCAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 17 0.65
23 1 0.04
24 8 0.31
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (24 bp):
ATATTTAAATATTTTTAAAAAATA
Found at i:4037840 original size:21 final size:20
Alignment explanation
Indices: 4037816--4037868 Score: 70
Period size: 21 Copynumber: 2.6 Consensus size: 20
4037806 TGATTTTTTT
4037816 AAATATATATTAAAAAAGTAA
1 AAATATATATTAAAAAA-TAA
* * *
4037837 AAATTTATATTAGAAAATTA
1 AAATATATATTAAAAAATAA
4037857 AAATATATATTA
1 AAATATATATTA
4037869 CAATTAGTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 13 0.46
21 15 0.54
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (20 bp):
AAATATATATTAAAAAATAA
Found at i:4042697 original size:54 final size:53
Alignment explanation
Indices: 4042490--4042697 Score: 158
Period size: 54 Copynumber: 3.9 Consensus size: 53
4042480 TATCATACCG
* * * * * *
4042490 ATGCCATATCCCAGATATGGTCTTACACGGGAGCACTTATCA-TTATTCA-CAG-
1 ATGCCATAGCCCAGCTATGGTCTTATA-GGGATCACTTATCACTTGTT-ATCCGA
* * *
4042542 ATGCCATAGCCCAGCTATGGTCTTATACGGATCACTTGTATCACAT-TAATCCGA
1 ATGCCATAGCCCAGCTATGGTCTTATAGGGATCAC-T-TATCACTTGTTATCCGA
* * ** *
4042596 A-GCCATAGCCCAGCTCTGGTCTTATACGGAAATCACTTATCTTTTGTTTTCC-A
1 ATGCCATAGCCCAGCTATGGTCTTATA-GG-GATCACTTATCACTTGTTATCCGA
* *
4042649 ATGCCATAGCCCAGCTATGGTATTATATGGGTATCGCTTATCACTTGTT
1 ATGCCATAGCCCAGCTATGGTCTTATA-GGG-ATCACTTATCACTTGTT
4042698 GCCATGGTCC
Statistics
Matches: 123, Mismatches: 23, Indels: 18
0.75 0.14 0.11
Matches are distributed among these distances:
51 6 0.05
52 26 0.21
53 39 0.32
54 47 0.38
55 5 0.04
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (53 bp):
ATGCCATAGCCCAGCTATGGTCTTATAGGGATCACTTATCACTTGTTATCCGA
Found at i:4044703 original size:21 final size:22
Alignment explanation
Indices: 4044664--4044705 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
4044654 AACCACCAAA
**
4044664 TAAATATTAATTTTTAAAATTT
1 TAAATATTAATTTGAAAAATTT
4044686 TAAATA-TAATTTGAAAAATT
1 TAAATATTAATTTGAAAAATT
4044706 AACAATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
TAAATATTAATTTGAAAAATTT
Found at i:4044858 original size:20 final size:19
Alignment explanation
Indices: 4044837--4044888 Score: 61
Period size: 18 Copynumber: 2.6 Consensus size: 19
4044827 TATAATATTA
*
4044837 AAAAAATATATTTAAGATT
1 AAAAAATATATTTAAAATT
4044856 -AAAAATATATTTAAAATTTT
1 AAAAAATATATTTAAAA--TT
4044876 AAAAAATAATATT
1 AAAAAAT-ATATT
4044889 ATTAAACATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 15 0.54
20 2 0.07
21 6 0.21
22 5 0.18
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AAAAAATATATTTAAAATT
Found at i:4044944 original size:9 final size:9
Alignment explanation
Indices: 4044932--4044999 Score: 52
Period size: 9 Copynumber: 7.2 Consensus size: 9
4044922 TAAAACCAAT
4044932 AATAAATAA
1 AATAAATAA
4044941 AATAAATAA
1 AATAAATAA
4044950 AATAAAATAA
1 AAT-AAATAA
*
4044960 AGGACAAATAA
1 A--ATAAATAA
4044971 AA-AACATAAA
1 AATAA-AT-AA
4044981 AATTAAAT-A
1 AA-TAAATAA
4044990 AATAAA-AA
1 AATAAATAA
4044998 AA
1 AA
4045000 ACTTAAAAAG
Statistics
Matches: 50, Mismatches: 1, Indels: 17
0.74 0.01 0.25
Matches are distributed among these distances:
8 9 0.18
9 18 0.36
10 11 0.22
11 9 0.18
12 3 0.06
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (9 bp):
AATAAATAA
Found at i:4044945 original size:5 final size:5
Alignment explanation
Indices: 4044935--4045000 Score: 50
Period size: 5 Copynumber: 13.6 Consensus size: 5
4044925 AACCAATAAT
** * *
4044935 AAATA AAAT- AAATA AAATA AAATA AAGGA CAAATA AAA-A ACATAA AAATT
1 AAATA AAATA AAATA AAATA AAATA AAATA -AAATA AAATA AAAT-A AAATA
4044985 AAAT- AAATA AAA-A AAA
1 AAATA AAATA AAATA AAA
4045001 CTTAAAAAGT
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
4 15 0.31
5 27 0.55
6 7 0.14
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.17
Consensus pattern (5 bp):
AAATA
Found at i:4045027 original size:18 final size:18
Alignment explanation
Indices: 4044978--4045027 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
4044968 TAAAAAACAT
*
4044978 AAAAATTAAATAAATAAAA
1 AAAAATTAAA-AAGTAAAA
*
4044997 AAAACTTAAAAAGTAAAA
1 AAAAATTAAAAAGTAAAA
*
4045015 AAAAATTACAAAG
1 AAAAATTAAAAAG
4045028 AACCAGAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
18 18 0.67
19 9 0.33
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.18
Consensus pattern (18 bp):
AAAAATTAAAAAGTAAAA
Found at i:4045677 original size:20 final size:20
Alignment explanation
Indices: 4045652--4045700 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
4045642 CTCAACAGTG
4045652 AAAAAAAATA-CTGAAAACGA
1 AAAAAAAATAGCTGAAAAC-A
4045672 AAAAAAAA-AGCTGAAAACA
1 AAAAAAAATAGCTGAAAACA
4045691 AAAAAAAATA
1 AAAAAAAATA
4045701 AAAAAATAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 10 0.37
20 17 0.63
ACGTcount: A:0.76, C:0.08, G:0.08, T:0.08
Consensus pattern (20 bp):
AAAAAAAATAGCTGAAAACA
Found at i:4045906 original size:22 final size:22
Alignment explanation
Indices: 4045838--4045907 Score: 56
Period size: 22 Copynumber: 3.1 Consensus size: 22
4045828 ACAAAGAAGG
* *
4045838 AGAAG-AAGAAAAAGAAAAGAA
1 AGAAGAAAGAAAAAGAAAGGGA
*
4045859 TGAGAAGAAAG--AAAGAAGAGCAGA
1 --AGAAGAAAGAAAAAGAA-AG-GGA
4045883 AGAAGAAAGAAAAAGAAAGGGA
1 AGAAGAAAGAAAAAGAAAGGGA
4045905 AGA
1 AGA
4045908 GGAGGAGAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 11
0.72 0.08 0.21
Matches are distributed among these distances:
22 20 0.53
23 8 0.21
24 10 0.26
ACGTcount: A:0.67, C:0.01, G:0.30, T:0.01
Consensus pattern (22 bp):
AGAAGAAAGAAAAAGAAAGGGA
Found at i:4046577 original size:150 final size:147
Alignment explanation
Indices: 4046457--4047696 Score: 1568
Period size: 150 Copynumber: 8.3 Consensus size: 147
4046447 TGCTGACGAG
* * *
4046457 TTTTTTGCTAAAATAATATAAAAAATAAAATATGAAAATAGTATATTTT-AAAA-AA-ATCCGAA
1 TTTTTTGCTAAAATAATATAAAAAATAAAATACGAAAATAATATATTTTAAAAATAAGATACGAA
* * *
4046519 AATAAAAAAATACGAACAAGGTGCCAAAGTCAGGGTTATTTATTAAATTAATATAAAAAAA-ACT
66 AAT-AAAAAATACGAATAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACT
4046583 TAAATAATACATTTGAAACA
130 T-AATAATA-ATTTGAAACA
* *
4046603 TTTTTTGCTAAAATAATATAAAAAATAAAATACAAAAATAATATATTTTAAAAATAATATACGAA
1 TTTTTTGCTAAAATAATATAAAAAATAAAATACGAAAATAATATATTTTAAAAATAAGATACGAA
* * *
4046668 AATAAAAAATACAAATAAAGTGCTAAAATCAGGGTTATTTATTAAA-AAATATAAAAAAACACTT
66 AATAAAAAATACGAATAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTT
*
4046732 AAATAATACATTTAAAACA
131 -AATAATA-ATTTGAAACA
* * ** *
4046751 TTATGTATTAAAATAATATAAAGAAATAAAATATGAAAATAATATATTTTAAAAAATAAGATACG
1 TTTTTTGCTAAAATAATATAAA-AAATAAAATACGAAAATAATATATTTT-AAAAATAAGATACG
*
4046816 AAAATAAAAAATACAAATAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACAC
64 AAAATAAAAAATACGAATAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACAC
4046881 TTAAGTAATACATTTGAAACA
129 TTAA-TAATA-ATTTGAAACA
* * * *
4046902 TTTTTTGCTAAAATAATATAAAAAAAATAAAATACAAAAATAAAATATTTTAAAAAATAATATAT
1 TTTTTTGCTAAAATAATAT--AAAAAATAAAATACGAAAATAATATATTTT-AAAAATAAGATAC
* *
4046967 GAAAATAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAGA-AAATAT-AAAAAAC
63 GAAAATAAAAAATACGAATAAAGTGCCAAAATCAGGGTTATTTATTAA-ATTAATATAAAAAAAC
*
4047030 ACTTAAATAATACATTTGAAATA
127 ACTT-AATAATA-ATTTGAAACA
* * *
4047053 TTATGTACTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACG
1 TTTTTTGCTAAAATAATATAAA-AAATAAAATACGAAAATAATATATTTT-AAAAATAAGATACG
*
4047118 AAAATAAAAAAATACGAAGAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATAT-AAAAAACA
64 AAAAT-AAAAAATACGAATAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACA
*
4047182 CTTACGTAATACATTTGAAACA
128 CTTA-ATAATA-ATTTGAAACA
* * *
4047204 TTTTTTACTAAAATAATATAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACAA
1 TTTTTTGCTAAAATAATATAAAAAATAAAATACGAAAATAATATATTTT-AAAAATAAGATACGA
* * *
4047269 AAAT-AAAAATACGAATAAAGTGCTAAAATCAGGATTATTTATTAAGA-AAATATAAAAAAACAC
65 AAATAAAAAATACGAATAAAGTGCCAAAATCAGGGTTATTTATTAA-ATTAATATAAAAAAACAC
4047332 TTAAATAATACATTTGAAACA
129 TT-AATAATA-ATTTGAAACA
* * * *
4047353 TTATGTACTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACA
1 TTTTTTGCTAAAATAATATAAA-AAATAAAATACGAAAATAATATATTTT-AAAAATAAGATACG
* * * *
4047418 AAAATAAAAAA-ATGAATAAAGTGCTAAAATCAGGATTATTTATTAAGA-AAATATAAAAAAACA
64 AAAATAAAAAATACGAATAAAGTGCCAAAATCAGGGTTATTTATTAA-ATTAATATAAAAAAACA
4047481 CTTAAATAATACATTTGAAACA
128 CTT-AATAATA-ATTTGAAACA
* * * * * * *
4047503 TTATGTACTAAAATAATGTAAAGGAATAAAATAGGAAAATAATATATTTTAAAAAATAAGATACA
1 TTTTTTGCTAAAATAATATAAA-AAATAAAATACGAAAATAATATATTTT-AAAAATAAGATACG
* * * * * *
4047568 AAAATAAAAAAATACGAAGAAAATGCCAAAATTAGGATTTTTTATTAAATTAATATAAAAAAATA
64 AAAAT-AAAAAATACGAATAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACA
4047633 CTTACATAATACATTTGAAACA
128 CTTA-ATAATA-ATTTGAAACA
4047655 TTTTTTGCTAAAATAATATAAATAAATAAAATACGAAAATAA
1 TTTTTTGCTAAAATAATATAAA-AAATAAAATACGAAAATAA
4047697 AAAATACGAA
Statistics
Matches: 992, Mismatches: 77, Indels: 44
0.89 0.07 0.04
Matches are distributed among these distances:
146 46 0.05
147 16 0.02
148 123 0.12
149 85 0.09
150 339 0.34
151 193 0.19
152 186 0.19
153 4 0.00
ACGTcount: A:0.57, C:0.06, G:0.07, T:0.29
Consensus pattern (147 bp):
TTTTTTGCTAAAATAATATAAAAAATAAAATACGAAAATAATATATTTTAAAAATAAGATACGAA
AATAAAAAATACGAATAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTT
AATAATAATTTGAAACA
Found at i:4046627 original size:12 final size:13
Alignment explanation
Indices: 4046612--4046672 Score: 61
Period size: 13 Copynumber: 4.5 Consensus size: 13
4046602 ATTTTTTGCT
4046612 AAAATAATATA-A
1 AAAATAATATACA
*
4046624 AAAATAAAATACA
1 AAAATAATATACA
*
4046637 AAAATAATATATTTTA
1 AAAATAATATA---CA
*
4046653 AAAATAATATACG
1 AAAATAATATACA
4046666 AAAATAA
1 AAAATAA
4046673 AAAATACAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
12 10 0.25
13 18 0.45
16 12 0.30
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.26
Consensus pattern (13 bp):
AAAATAATATACA
Found at i:4046940 original size:13 final size:13
Alignment explanation
Indices: 4046924--4046948 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4046914 ATAATATAAA
4046924 AAAAATAAAATAC
1 AAAAATAAAATAC
4046937 AAAAATAAAATA
1 AAAAATAAAATA
4046949 TTTTAAAAAA
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:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAAATAAAATAC
Found at i:4047012 original size:302 final size:302
Alignment explanation
Indices: 4046464--4047696 Score: 1868
Period size: 302 Copynumber: 4.1 Consensus size: 302
4046454 GAGTTTTTTG
* * *
4046464 CTAAAATAATATAAA-AAATAAAATATGAAAATAGTATATTTT--AAAA-AA-ATCCGAAAATAA
1 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAA
* * *
4046524 AAAAATACGAACAAGGTGCCAAAGTCAGGGTTATTTATTAAATTAATATAAAAAAA-ACTTAAAT
66 AAAAATACGAATAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTAAAT
*
4046588 AATACATTTGAAACATTTTTTGCTAAAATAATATAAAAAATAAAATACAAAAATAATATATTTT-
131 AATACATTTGAAACATTTTTTACTAAAATAATATAAAAAATAAAATACAAAAATAATATATTTTA
* * *
4046652 AAAAATAATATACGAAAATAAAAAATACAAATAAAGTGCTAAAATCAGGGTTATTTATTAA-AAA
196 AAAAATAATATACAAAAATAAAAAATACGAATAAAGTGCTAAAATCAGGATTATTTATTAAGAAA
*
4046716 ATATAAAAAAACACTTAAATAATACATTTAAAACATTATGTA
261 ATATAAAAAAACACTTAAATAATACATTTGAAACATTATGTA
* *
4046758 TTAAAATAATATAAAGAAATAAAATATGAAAATAATATATTTTAAAAAATAAGATACGAAAAT-A
1 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAA
* *
4046822 AAAAATACAAATAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTAAGT
66 AAAAATACGAATAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTAAAT
* *
4046887 AATACATTTGAAACATTTTTTGCTAAAATAATATAAAAAAAATAAAATACAAAAATAAAATATTT
131 AATACATTTGAAACATTTTTTACTAAAATAATAT--AAAAAATAAAATACAAAAATAATATATTT
** *
4046952 TAAAAAATAATATATGAAAATAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAGA
194 TAAAAAATAATATACAAAAATAAAAAATACGAATAAAGTGCTAAAATCAGGATTATTTATTAAGA
*
4047017 AAATAT-AAAAAACACTTAAATAATACATTTGAAATATTATGTA
259 AAATATAAAAAAACACTTAAATAATACATTTGAAACATTATGTA
4047060 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAA
1 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAA
* **
4047125 AAAAATACGAAGAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATAT-AAAAAACACTTACGT
66 AAAAATACGAATAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTAAAT
*
4047189 AATACATTTGAAACATTTTTTACTAAAATAATATAAAAAATAAAATACGAAAATAATATATTTTA
131 AATACATTTGAAACATTTTTTACTAAAATAATATAAAAAATAAAATACAAAAATAATATATTTTA
4047254 AAAAATAATATACAAAAAT-AAAAATACGAATAAAGTGCTAAAATCAGGATTATTTATTAAGAAA
196 AAAAATAATATACAAAAATAAAAAATACGAATAAAGTGCTAAAATCAGGATTATTTATTAAGAAA
4047318 ATATAAAAAAACACTTAAATAATACATTTGAAACATTATGTA
261 ATATAAAAAAACACTTAAATAATACATTTGAAACATTATGTA
*
4047360 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACAAAAATAA
1 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAA
* * *
4047425 AAAAAT--GAATAAAGTGCTAAAATCAGGATTATTTATTAAGA-AAATATAAAAAAACACTTAAA
66 AAAAATACGAATAAAGTGCCAAAATCAGGGTTATTTATTAA-ATTAATATAAAAAAACACTTAAA
* * * * **
4047487 TAATACATTTGAAACATTATGTACTAAAATAATGTAAAGGAATAAAATAGGAAAATAATATATTT
130 TAATACATTTGAAACATTTTTTACTAAAATAATATAAA-AAATAAAATACAAAAATAATATATTT
* * * * * *
4047552 TAAAAAATAAGATACAAAAATAAAAAAATACGAAGAAAATGCCAAAATTAGGATTTTTTATTAA-
194 TAAAAAATAATATACAAAAAT-AAAAAATACGAATAAAGTGCTAAAATCAGGATTATTTATTAAG
* * * * * *
4047616 ATTAATATAAAAAAATACTTACATAATACATTTGAAACATTTTTTG
258 A-AAATATAAAAAAACACTTAAATAATACATTTGAAACATTATGTA
*
4047662 CTAAAATAATATAAATAAATAAAATACGAAAATAA
1 CTAAAATAATATAAAGAAATAAAATACGAAAATAA
4047697 AAAATACGAA
Statistics
Matches: 871, Mismatches: 50, Indels: 28
0.92 0.05 0.03
Matches are distributed among these distances:
294 14 0.02
295 26 0.03
297 4 0.00
298 90 0.10
299 146 0.17
300 196 0.23
301 30 0.03
302 310 0.36
303 55 0.06
ACGTcount: A:0.58, C:0.06, G:0.07, T:0.29
Consensus pattern (302 bp):
CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAA
AAAAATACGAATAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTAAAT
AATACATTTGAAACATTTTTTACTAAAATAATATAAAAAATAAAATACAAAAATAATATATTTTA
AAAAATAATATACAAAAATAAAAAATACGAATAAAGTGCTAAAATCAGGATTATTTATTAAGAAA
ATATAAAAAAACACTTAAATAATACATTTGAAACATTATGTA
Found at i:4047272 original size:13 final size:13
Alignment explanation
Indices: 4047213--4047274 Score: 54
Period size: 13 Copynumber: 4.5 Consensus size: 13
4047203 ATTTTTTACT
4047213 AAAATAATATA-A
1 AAAATAATATACA
* *
4047225 AAAATAAAATACG
1 AAAATAATATACA
*
4047238 AAAATAATATATTTTAA
1 AAAATAATATA----CA
4047255 AAAATAATATACA
1 AAAATAATATACA
4047268 AAAATAA
1 AAAATAA
4047275 AAATACGAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
12 10 0.26
13 18 0.46
17 11 0.28
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.26
Consensus pattern (13 bp):
AAAATAATATACA
Found at i:4047719 original size:26 final size:26
Alignment explanation
Indices: 4047660--4047720 Score: 63
Period size: 26 Copynumber: 2.3 Consensus size: 26
4047650 AAACATTTTT
4047660 TGCTAAAATAATATAAATAAATAAAA
1 TGCTAAAATAATATAAATAAATAAAA
* * *
4047686 TACGAAAATAA-A-AAATACGAATAAAG
1 TGCTAAAATAATATAAATA--AATAAAA
4047712 TGCTAAAAT
1 TGCTAAAAT
4047721 CAGGGTTATT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
24 5 0.18
25 1 0.04
26 22 0.79
ACGTcount: A:0.62, C:0.07, G:0.08, T:0.23
Consensus pattern (26 bp):
TGCTAAAATAATATAAATAAATAAAA
Found at i:4047786 original size:120 final size:120
Alignment explanation
Indices: 4047552--4047816 Score: 354
Period size: 120 Copynumber: 2.2 Consensus size: 120
4047542 TAATATATTT
* * * *
4047552 TAAAAAATAAGATACAAAAATAAAAAAATACGAAGAAAATGCCAAAATTAGGATTTTTTATTAAA
1 TAAAAAATAAAATACGAAAAT-AAAAAATACGAAGAAAATGCCAAAATCAGGATTATTTATTAAA
* * * * * *
4047617 TTAATATAAAAAAATACTTACATAATACATTTGAAACATTTTTTGCTAAAATAATA
65 TAAATATAAAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATA
* * * *
4047673 TAAATAAATAAAATACGAAAATAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAG
1 TAAA-AAATAAAATACGAAAATAAAAAATACGAAGAAAATGCCAAAATCAGGATTATTTATTAA-
4047738 A-AAATAT-AAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATA
64 ATAAATATAAAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATA
4047793 TAAAGAAATAAAATACGAAAATAA
1 TAAA-AAATAAAATACGAAAATAA
4047817 TATATTTTAA
Statistics
Matches: 127, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
120 66 0.52
121 45 0.35
122 16 0.13
ACGTcount: A:0.57, C:0.07, G:0.08, T:0.28
Consensus pattern (120 bp):
TAAAAAATAAAATACGAAAATAAAAAATACGAAGAAAATGCCAAAATCAGGATTATTTATTAAAT
AAATATAAAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATA
Found at i:4047843 original size:150 final size:151
Alignment explanation
Indices: 4047673--4047996 Score: 519
Period size: 151 Copynumber: 2.1 Consensus size: 151
4047663 TAAAATAATA
* *
4047673 TAAATAAATAAAATACGAAAATAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAG
1 TAAA-AAATAAAATACGAAAATAAAAAATACGAAGAAAGTGCCAAAATCAGGGTTATTTATTAA-
4047738 A-AAATAT-AAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATA-TAAAGAA
64 ATAAATATAAAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATTAAA-AA
4047800 ATAAAATACGAAAATAATATATTT
128 ATAAAATACGAAAATAATATATTT
*
4047824 TAAAAAATAAGATACGAAAATAAAAAATACGAAGAAAGTGCCAAAATCAGGGTTATTTATTAAAT
1 TAAAAAATAAAATACGAAAATAAAAAATACGAAGAAAGTGCCAAAATCAGGGTTATTTATTAAAT
* * * * *
4047889 TAATATAAAAAAACACTTACATAATACATTTGAAACATTTTTTGCTAAAATAATATTAAAAAATA
66 AAATATAAAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATTAAAAAATA
4047954 AAATACGAAAATAATATATTT
131 AAATACGAAAATAATATATTT
*
4047975 TAAAAAATAATATACGAAAATA
1 TAAAAAATAAAATACGAAAATA
4047997 TTTTACTTAT
Statistics
Matches: 161, Mismatches: 9, Indels: 6
0.91 0.05 0.03
Matches are distributed among these distances:
149 1 0.01
150 61 0.38
151 95 0.59
152 4 0.02
ACGTcount: A:0.57, C:0.07, G:0.08, T:0.28
Consensus pattern (151 bp):
TAAAAAATAAAATACGAAAATAAAAAATACGAAGAAAGTGCCAAAATCAGGGTTATTTATTAAAT
AAATATAAAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATTAAAAAATA
AAATACGAAAATAATATATTT
Found at i:4050558 original size:17 final size:17
Alignment explanation
Indices: 4050538--4050576 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
4050528 AATACATTAC
4050538 AACATTAATCT-AATTGG
1 AACATTAAT-TAAATTGG
4050555 AACATTAATTAAATTGG
1 AACATTAATTAAATTGG
4050572 AACAT
1 AACAT
4050577 ACTATTACCG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 1 0.05
17 20 0.95
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.33
Consensus pattern (17 bp):
AACATTAATTAAATTGG
Found at i:4055490 original size:14 final size:15
Alignment explanation
Indices: 4055453--4055510 Score: 50
Period size: 15 Copynumber: 3.9 Consensus size: 15
4055443 AAAATTATAC
4055453 CTTCTT-TTT-TTCT
1 CTTCTTCTTTCTTCT
*
4055466 TTTCTTTCTTTCTTC-
1 CTTC-TTCTTTCTTCT
4055481 CTTCTTCTTTTTCTTCT
1 CTTCTTC--TTTCTTCT
*
4055498 CTTCTCCTTTCTT
1 CTTCTTCTTTCTT
4055511 TCCCTTTCTT
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
13 3 0.08
14 5 0.14
15 12 0.33
16 10 0.28
17 6 0.17
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (15 bp):
CTTCTTCTTTCTTCT
Found at i:4055507 original size:17 final size:16
Alignment explanation
Indices: 4055474--4055507 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
4055464 CTTTTCTTTC
*
4055474 TTTCTTCCTTCTTCTT
1 TTTCTTCCTTCTCCTT
4055490 TTTCTTCTCTTCTCCTT
1 TTTCTTC-CTTCTCCTT
4055507 T
1 T
4055508 CTTTCCCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTCTTCCTTCTCCTT
Found at i:4055677 original size:16 final size:17
Alignment explanation
Indices: 4055658--4055699 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
4055648 TTTTTTTTAT
4055658 TTTTTTTTGTTTTCAG-
1 TTTTTTTTGTTTTCAGA
4055674 TTTTTTTTGTTTTCAGCA
1 TTTTTTTTGTTTTCAG-A
4055692 TTTTTTTT
1 TTTTTTTT
4055700 TCACTATTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 16 0.67
18 8 0.33
ACGTcount: A:0.07, C:0.07, G:0.10, T:0.76
Consensus pattern (17 bp):
TTTTTTTTGTTTTCAGA
Found at i:4068908 original size:47 final size:47
Alignment explanation
Indices: 4068799--4068909 Score: 127
Period size: 47 Copynumber: 2.4 Consensus size: 47
4068789 CCGGGATAAG
* * *
4068799 CACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
* * * *
4068846 CACAAAGTACTTCATCGGAACAAATCTGAAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTA
4068893 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
4068910 ACTCAATGTC
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
46 1 0.02
47 50 0.94
48 2 0.04
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
Found at i:4072411 original size:39 final size:39
Alignment explanation
Indices: 4072337--4072489 Score: 109
Period size: 39 Copynumber: 3.9 Consensus size: 39
4072327 TTACCAGCAC
* * *
4072337 AAGCCTGCGGGAATTTAAACCCGG-TATAATACCAGCTCG
1 AAGCCTGCGGGACTTT-AGCCCGGATATAATTCCAGCTCG
* *
4072376 AAGCCTGCGGGACTTTAGCCCGGACATATTTCCAGCAT-G
1 AAGCCTGCGGGACTTTAGCCCGGATATAATTCCAGC-TCG
* * * *
4072415 TAGCCTGC-GGACCTTAAGTCCGGATATAATTCCAGCAC-
1 AAGCCTGCGGGA-CTTTAGCCCGGATATAATTCCAGCTCG
* * **
4072453 ATAGCCTGC-GGACCCTAATTCCGGATATAATTCCAGC
1 A-AGCCTGCGGGA-CTTTAGCCCGGATATAATTCCAGC
4072490 ATATAGCCTG
Statistics
Matches: 95, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
38 9 0.09
39 85 0.89
40 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (39 bp):
AAGCCTGCGGGACTTTAGCCCGGATATAATTCCAGCTCG
Found at i:4072444 original size:78 final size:78
Alignment explanation
Indices: 4072357--4072520 Score: 181
Period size: 78 Copynumber: 2.1 Consensus size: 78
4072347 GAATTTAAAC
* * * * *
4072357 CCGG-TATAATACCAGCTCGA-AGCCTGCGGGA-CTTTAGCCCGGACATATTTCCAGCATGTAGC
1 CCGGATATAATACCAGCAC-ATAGCCTGC-GGACCCTAAGCCCGGACATAATTCCAGCATATAGC
*
4072419 CTGCGGACCTTAAGT
64 CTGCGGACCCTAAGT
* ** *
4072434 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAATTCCGGATATAATTCCAGCATATAGCCT
1 CCGGATATAATACCAGCACATAGCCTGCGGACCCTAAGCCCGGACATAATTCCAGCATATAGCCT
*
4072499 GTGGACCCTAAGT
66 GCGGACCCTAAGT
*
4072512 CCAGATATA
1 CCGGATATA
4072521 CATCACTGAA
Statistics
Matches: 72, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
77 8 0.11
78 64 0.89
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (78 bp):
CCGGATATAATACCAGCACATAGCCTGCGGACCCTAAGCCCGGACATAATTCCAGCATATAGCCT
GCGGACCCTAAGT
Found at i:4072490 original size:39 final size:39
Alignment explanation
Indices: 4072395--4072520 Score: 180
Period size: 39 Copynumber: 3.2 Consensus size: 39
4072385 GGACTTTAGC
* * * *
4072395 CCGGACATATTTCCAGCATGTAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCATATAGCCTGCGGACCCTAAGT
* *
4072434 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAATT
1 CCGGATATAATTCCAGCATATAGCCTGCGGACCCTAAGT
*
4072473 CCGGATATAATTCCAGCATATAGCCTGTGGACCCTAAGT
1 CCGGATATAATTCCAGCATATAGCCTGCGGACCCTAAGT
*
4072512 CCAGATATA
1 CCGGATATA
4072521 CATCACTGAA
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (39 bp):
CCGGATATAATTCCAGCATATAGCCTGCGGACCCTAAGT
Found at i:4096794 original size:31 final size:29
Alignment explanation
Indices: 4096742--4096812 Score: 72
Period size: 31 Copynumber: 2.4 Consensus size: 29
4096732 ACTATAAAAA
* *
4096742 TGGTCA-TCTAATTATGCTTTTTGTTCTATTT
1 TGGTCACT-TAATTATGATTTTT-TT-TAATT
*
4096773 TGGTCACTTAATTATTATTTTTTTTAATT
1 TGGTCACTTAATTATGATTTTTTTTAATT
*
4096802 TAGTCACTTAA
1 TGGTCACTTAA
4096813 CTTTTCAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
29 14 0.40
30 2 0.06
31 18 0.51
32 1 0.03
ACGTcount: A:0.23, C:0.11, G:0.10, T:0.56
Consensus pattern (29 bp):
TGGTCACTTAATTATGATTTTTTTTAATT
Found at i:4097488 original size:60 final size:60
Alignment explanation
Indices: 4097396--4097510 Score: 162
Period size: 60 Copynumber: 1.9 Consensus size: 60
4097386 TATCTTTTAA
* * * *
4097396 TTTTTTAGAGATAGGACTAAATTGATAGATTTTGTAAATATTAAGGG-TCAAATTTATTAT
1 TTTTTTAGAGATAGAACTAAAATGACAAATTTTGTAAATATTAAGGGCT-AAATTTATTAT
4097456 TTTTTTAGA-ATTAGAACTAAAATGACAAATTTTGTAAATATTAAGGGCTAAATTT
1 TTTTTTAGAGA-TAGAACTAAAATGACAAATTTTGTAAATATTAAGGGCTAAATTT
4097511 GTTGAAATTT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
59 1 0.02
60 47 0.96
61 1 0.02
ACGTcount: A:0.39, C:0.04, G:0.15, T:0.42
Consensus pattern (60 bp):
TTTTTTAGAGATAGAACTAAAATGACAAATTTTGTAAATATTAAGGGCTAAATTTATTAT
Found at i:4099386 original size:58 final size:58
Alignment explanation
Indices: 4099246--4099387 Score: 171
Period size: 58 Copynumber: 2.4 Consensus size: 58
4099236 AAATCTTTTG
* *
4099246 GGCTCTCGATC-AAGGTGAGGTATATCTTCAACACTCGGGTCCCTCCATGAACCATTCA
1 GGCTCTCGA-CGAAGGTGAGGCATATCTTCAACACTCGGGCCCCTCCATGAACCATTCA
* * * * * *
4099304 GGCTCTCAATGAAAGTGAGACATATCTTCAACATTCGGGCCCCTCCATGAACCGTTCTA
1 GGCTCTCGACGAAGGTGAGGCATATCTTCAACACTCGGGCCCCTCCATGAACCATTC-A
*
4099363 -GCTCTCGACGAAGGTAAGGCATATC
1 GGCTCTCGACGAAGGTGAGGCATATC
4099388 ATCTTCATAA
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
58 68 0.99
59 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (58 bp):
GGCTCTCGACGAAGGTGAGGCATATCTTCAACACTCGGGCCCCTCCATGAACCATTCA
Found at i:4099482 original size:18 final size:19
Alignment explanation
Indices: 4099449--4099489 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
4099439 CACACGCACT
4099449 TTATTTCTCTAGATCAACA
1 TTATTTCTCTAGATCAACA
4099468 GTTATTT-TC-AGATCAACA
1 -TTATTTCTCTAGATCAACA
4099486 TTAT
1 TTAT
4099490 AATACCACCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.19
18 9 0.43
19 2 0.10
20 6 0.29
ACGTcount: A:0.32, C:0.17, G:0.07, T:0.44
Consensus pattern (19 bp):
TTATTTCTCTAGATCAACA
Found at i:4101266 original size:26 final size:28
Alignment explanation
Indices: 4101230--4101282 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 28
4101220 GCTCACTGGA
4101230 GTTTTCTTTTAA-TTTTTAA-TTCAGTG
1 GTTTTCTTTTAATTTTTTAACTTCAGTG
*
4101256 GTTTTTTTTTAATTTTTTAACTTCAGT
1 GTTTTCTTTTAATTTTTTAACTTCAGT
4101283 TTGATTTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 11 0.46
27 7 0.29
28 6 0.25
ACGTcount: A:0.19, C:0.08, G:0.09, T:0.64
Consensus pattern (28 bp):
GTTTTCTTTTAATTTTTTAACTTCAGTG
Found at i:4101290 original size:26 final size:26
Alignment explanation
Indices: 4101236--4101299 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
4101226 TGGAGTTTTC
**
4101236 TTTTAA-TTTTTAATTCAGTGGTTTTT
1 TTTTAATTTTTTAATTCAGT-GTTGAT
4101262 TTTTAATTTTTTAACTTCAGT-TTGAT
1 TTTTAATTTTTTAA-TTCAGTGTTGAT
*
4101288 TTTCAATTTTTT
1 TTTTAATTTTTT
4101300 CATATTAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 20 0.61
27 7 0.21
28 6 0.18
ACGTcount: A:0.20, C:0.06, G:0.08, T:0.66
Consensus pattern (26 bp):
TTTTAATTTTTTAATTCAGTGTTGAT
Found at i:4102532 original size:44 final size:44
Alignment explanation
Indices: 4102482--4102577 Score: 131
Period size: 44 Copynumber: 2.2 Consensus size: 44
4102472 GTAGGTCAAA
* * * *
4102482 TAATATTAAAATAACTTACTCTAA-TTAGAGTTTAAGTGGGTAAC
1 TAATATTAAAATAACCTACACTAATTTA-AGTTTAAGTGAGAAAC
4102526 TAATATTAAAATAACCTACACTAATTTAAGTTTAAGTGAGAAAC
1 TAATATTAAAATAACCTACACTAATTTAAGTTTAAGTGAGAAAC
*
4102570 TAAAATTA
1 TAATATTA
4102578 GAGTTTAATA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 43 0.93
45 3 0.07
ACGTcount: A:0.46, C:0.09, G:0.10, T:0.34
Consensus pattern (44 bp):
TAATATTAAAATAACCTACACTAATTTAAGTTTAAGTGAGAAAC
Found at i:4103084 original size:40 final size:40
Alignment explanation
Indices: 4103029--4103148 Score: 204
Period size: 40 Copynumber: 3.0 Consensus size: 40
4103019 TTTGCCTCTA
* * *
4103029 ATGTTAGGTCATTTAACACGTTATCAAAATATCAAAATTT
1 ATGTTACGTCATTTAACATGTTATCAAAATGTCAAAATTT
4103069 ATGTTACGTCATTTAACATGTTATCAAAATGTCAAAATTT
1 ATGTTACGTCATTTAACATGTTATCAAAATGTCAAAATTT
*
4103109 ATGTTACATCATTTAACATGTTATCAAAATGTCAAAATTT
1 ATGTTACGTCATTTAACATGTTATCAAAATGTCAAAATTT
4103149 TATCATGTTC
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 76 1.00
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.39
Consensus pattern (40 bp):
ATGTTACGTCATTTAACATGTTATCAAAATGTCAAAATTT
Found at i:4106076 original size:46 final size:46
Alignment explanation
Indices: 4106024--4106247 Score: 222
Period size: 46 Copynumber: 4.8 Consensus size: 46
4106014 GATATTTGGG
*
4106024 CATCCGACCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA
* * * **
4106070 CATCCGAACTTGTTGAGTTGAATCTTG-GTTCACTTATGGATGTGAA
1 CATCCGAACTCGTTGAGTTGAGTC-CGAGTTCACTTATGGATGCAAA
* * * * *
4106116 CGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-AG-TGTAACTA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A
* *
4106161 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAA
1 --CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA
** * *
4106209 CGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
4106248 GCGGGTTACA
Statistics
Matches: 143, Mismatches: 26, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
43 4 0.03
44 1 0.01
45 4 0.03
46 97 0.68
47 30 0.21
48 3 0.02
49 1 0.01
50 3 0.02
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA
Found at i:4106197 original size:93 final size:93
Alignment explanation
Indices: 4106070--4106240 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
4106060 TGGATGCAAA
* *** * *
4106070 CATCCGAACTTGTTGAGTTGAATCTTGGTTCACTTATGGATGTGAACGTCCGAACTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAATCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
4106135 GAGTCCGAGTTCGTGAAGTGTAACTAGG
66 GAGTCCGAGTTCGTGAAGTGTAACTAGG
* *
4106163 CATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAATCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
4106228 GAGTCCGAGTTCG
66 GAGTCCGAGTTCG
4106241 CTTATGGGCG
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
CATCCGAACTCGTTGAGTTGAATCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAAGTGTAACTAGG
Found at i:4117202 original size:11 final size:11
Alignment explanation
Indices: 4117186--4117214 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
4117176 ATATGCAATG
4117186 ATGAATGATGC
1 ATGAATGATGC
4117197 ATGAATGATGC
1 ATGAATGATGC
4117208 ATGAATG
1 ATGAATG
4117215 TCAAATGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.38, C:0.07, G:0.28, T:0.28
Consensus pattern (11 bp):
ATGAATGATGC
Found at i:4118799 original size:13 final size:14
Alignment explanation
Indices: 4118776--4118829 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 14
4118766 GATGTGAATA
4118776 ATAAAATATATAAAT
1 ATAAAATAT-TAAAT
4118791 ATAAAATATTAAAAT
1 ATAAAATATT-AAAT
*
4118806 ATCAAATATTAGAAT
1 ATAAAATATTA-AAT
4118821 ATAATAATA
1 ATAA-AATA
4118830 ATATTGACAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
14 2 0.06
15 28 0.82
16 4 0.12
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (14 bp):
ATAAAATATTAAAT
Found at i:4118821 original size:23 final size:23
Alignment explanation
Indices: 4118771--4118822 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
4118761 ATAATGATGT
* *
4118771 GAATAATAAAATATATAAATATA
1 GAATATTAAAATATACAAATATA
*
4118794 AAATATTAAAATAT-CAAATATTA
1 GAATATTAAAATATACAAATA-TA
4118817 GAATAT
1 GAATAT
4118823 AATAATAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.33
Consensus pattern (23 bp):
GAATATTAAAATATACAAATATA
Found at i:4118829 original size:8 final size:7
Alignment explanation
Indices: 4118776--4118829 Score: 54
Period size: 8 Copynumber: 7.1 Consensus size: 7
4118766 GATGTGAATA
4118776 ATAAAAT
1 ATAAAAT
4118783 ATATAAAT
1 ATA-AAAT
4118791 ATAAAAT
1 ATAAAAT
4118798 ATTAAAAT
1 A-TAAAAT
*
4118806 ATCAAAT
1 ATAAAAT
*
4118813 ATTAGAAT
1 A-TAAAAT
4118821 ATAATAAT
1 ATAA-AAT
4118829 A
1 A
4118830 ATATTGACAA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
7 16 0.41
8 23 0.59
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (7 bp):
ATAAAAT
Found at i:4119057 original size:30 final size:29
Alignment explanation
Indices: 4119021--4119088 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 29
4119011 TATAGTTAAG
*
4119021 ATATATACATAAGATAACATGTAAAAATAT
1 ATATATAAATAAGATAACAT-TAAAAATAT
* * *
4119051 ATATATAAATAATATAATATTAAAGATAT
1 ATATATAAATAAGATAACATTAAAAATAT
*
4119080 ATACATAAA
1 ATATATAAA
4119089 ATAGTATAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.32
Consensus pattern (29 bp):
ATATATAAATAAGATAACATTAAAAATAT
Found at i:4119079 original size:25 final size:25
Alignment explanation
Indices: 4118962--4119182 Score: 113
Period size: 25 Copynumber: 9.0 Consensus size: 25
4118952 TAAATACGTG
* *
4118962 ATAATATTAAAAATATGTACATAAT
1 ATAATATTAAAGATATATACATAAT
* * * *
4118987 ATAGTGTTAAAAATACATACATAAT
1 ATAATATTAAAGATATATACATAAT
* *
4119012 AT-A-GTT-AAGATATATACATAAG
1 ATAATATTAAAGATATATACATAAT
* * *
4119034 ATAACATGTAAAAATATATATATAAATAAT
1 ATAATAT-T---AA-AGATATATACATAAT
*
4119064 ATAATATTAAAGATATATACATAAA
1 ATAATATTAAAGATATATACATAAT
* * *
4119089 ATAGTA-TAATATATATATACGTAAT
1 ATAATATTAA-AGATATATACATAAT
* *
4119114 ATAGA-ATTTAA-A-ATATACCTAAT
1 ATA-ATATTAAAGATATATACATAAT
* *
4119137 AT-AT-TAAAAGA-ATATATATAAT
1 ATAATATTAAAGATATATACATAAT
*
4119159 ATAATATTAAGAAATATATA-ATAA
1 ATAATATTAA-AGATATATACATAA
4119183 CAAAAAGGAG
Statistics
Matches: 150, Mismatches: 29, Indels: 34
0.70 0.14 0.16
Matches are distributed among these distances:
21 4 0.03
22 27 0.18
23 18 0.12
24 8 0.05
25 64 0.43
26 9 0.06
29 2 0.01
30 18 0.12
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.34
Consensus pattern (25 bp):
ATAATATTAAAGATATATACATAAT
Found at i:4119158 original size:22 final size:22
Alignment explanation
Indices: 4119124--4119181 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 22
4119114 ATAGAATTTA
*
4119124 AAATATACCTAATATATTA-AAAG
1 AAATATA--TAATATAATATAAAG
*
4119147 AATATATATAATATAATATTAAG
1 AA-ATATATAATATAATATAAAG
4119170 AAATATATAATA
1 AAATATATAATA
4119182 ACAAAAAGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 19 0.61
23 7 0.23
24 5 0.16
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.34
Consensus pattern (22 bp):
AAATATATAATATAATATAAAG
Found at i:4119757 original size:30 final size:29
Alignment explanation
Indices: 4119664--4119809 Score: 175
Period size: 30 Copynumber: 4.9 Consensus size: 29
4119654 TAGGTACAAG
*
4119664 TGGTGGTGGAGCAAGTGTGGTTAGTGGAGT
1 TGGTGGTGGAG-AAGTGTGGCTAGTGGAGT
* ** *
4119694 AGGTAATGGAGCAAGTGTGGCTAGTGGATT
1 TGGTGGTGGAG-AAGTGTGGCTAGTGGAGT
4119724 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGAA-GTGTGGCTAGTGGAGT
* *
4119754 TGGTGGTGGAAAATGAGTGGCTAGTGGAGT
1 TGGTGGTGGAGAA-GTGTGGCTAGTGGAGT
*
4119784 TGGTGGTGGAAAAGGTGTGGCTAGTG
1 TGGTGGTGGAGAA-GTGTGGCTAGTG
4119810 AGAAAAGTTT
Statistics
Matches: 101, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
29 2 0.02
30 99 0.98
ACGTcount: A:0.21, C:0.04, G:0.48, T:0.27
Consensus pattern (29 bp):
TGGTGGTGGAGAAGTGTGGCTAGTGGAGT
Found at i:4125977 original size:14 final size:14
Alignment explanation
Indices: 4125958--4125988 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
4125948 TCTATTGAAA
4125958 CTAGACTCATATTT
1 CTAGACTCATATTT
4125972 CTAGACTCATATTT
1 CTAGACTCATATTT
4125986 CTA
1 CTA
4125989 CTTACTAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.29, C:0.23, G:0.06, T:0.42
Consensus pattern (14 bp):
CTAGACTCATATTT
Found at i:4126765 original size:46 final size:46
Alignment explanation
Indices: 4126713--4126886 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
4126703 TGTAACCCGC
*
4126713 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
*
4126759 CCATAAGTGAACTCGGA-TCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C-A-TTCGCAT
* * * **
4126808 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
*
4126851 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
4126887 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 19 0.18
46 53 0.50
47 19 0.18
48 2 0.02
49 4 0.04
50 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
Found at i:4126832 original size:92 final size:93
Alignment explanation
Indices: 4126721--4126890 Score: 288
Period size: 92 Copynumber: 1.8 Consensus size: 93
4126711 GCCCATAAGT
**
4126721 GAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCATCCATAAGTGAACTCGGA-TCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
4126785 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
* *
4126813 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
4126878 CGAGTTCGGATGC
66 CGAGCTCGGATGC
4126891 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 51 0.71
93 21 0.29
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:4127478 original size:20 final size:18
Alignment explanation
Indices: 4127444--4127480 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
4127434 GCAACTCATA
4127444 ATTTCAACTATTTTACAC
1 ATTTCAACTATTTTACAC
4127462 ATTTACAACTCATTTTACA
1 ATTT-CAACT-ATTTTACA
4127481 ACTTAGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTCAACTATTTTACAC
Found at i:4129485 original size:37 final size:38
Alignment explanation
Indices: 4129341--4129495 Score: 210
Period size: 37 Copynumber: 4.2 Consensus size: 38
4129331 CTCAGATGAA
** * * *
4129341 ATCTCCACACAAAGTTATCGGGTCTTACGCGGACA-AA
1 ATCTCCACACGTAGTCATCGGGTCTTACCCGGACATAT
*
4129378 ATCTCCACACATAGTCATCGGGTCTTACCCGGACATA-
1 ATCTCCACACGTAGTCATCGGGTCTTACCCGGACATAT
4129415 ATCTCCACACGTAGTCATCGGGTCTTACCCGGA-ATAT
1 ATCTCCACACGTAGTCATCGGGTCTTACCCGGACATAT
*
4129452 ATTTCCACACGTAGTCATCGGGTCTTACCCGGA-ATAT
1 ATCTCCACACGTAGTCATCGGGTCTTACCCGGACATAT
*
4129489 ATTTCCA
1 ATCTCCA
4129496 AGTTTCATGT
Statistics
Matches: 111, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
36 3 0.03
37 107 0.96
38 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.26
Consensus pattern (38 bp):
ATCTCCACACGTAGTCATCGGGTCTTACCCGGACATAT
Found at i:4129685 original size:48 final size:48
Alignment explanation
Indices: 4129631--4130167 Score: 921
Period size: 48 Copynumber: 11.1 Consensus size: 48
4129621 ACACATCGCC
* *
4129631 TACATATTTCACACTAGTCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
4129679 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
**
4129727 TACATATTTCACATTAGCCATTCGGCTTTACCACATATATTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
4129775 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* * *
4129823 TACATATTTCATATTAGCCACTCGGCTTTACCACATATACTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
4129871 TACATATTTCACATTAGCCATTAGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
4129919 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
4129967 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCTTA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
4130017 TATATATTTCACATTAGCCGTTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
4130065 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
*
4130115 TATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
4130163 TACAT
1 TACAT
4130168 CAATTTCCGC
Statistics
Matches: 467, Mismatches: 18, Indels: 8
0.95 0.04 0.02
Matches are distributed among these distances:
48 374 0.80
50 93 0.20
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.37
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:4134423 original size:36 final size:36
Alignment explanation
Indices: 4134383--4134495 Score: 122
Period size: 36 Copynumber: 3.2 Consensus size: 36
4134373 ACTGGTCAAT
* *
4134383 TAAACCGATAATGTTTTGCGCCCAGCGCTAGTCAGA
1 TAAACCGACAATGTTTTGCGCCCAGCGCTAGTCGGA
* * * * *
4134419 TAAACTGACAATAG--TTGTGCCCTGCACTGGTCGGA
1 TAAACCGACAAT-GTTTTGCGCCCAGCGCTAGTCGGA
* *
4134454 TAAACCGACGATGTTTTGCGCTCAGCGCTAGTCGGA
1 TAAACCGACAATGTTTTGCGCCCAGCGCTAGTCGGA
4134490 TAAACC
1 TAAACC
4134496 AATATCATAT
Statistics
Matches: 60, Mismatches: 14, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
34 1 0.02
35 26 0.43
36 32 0.53
37 1 0.02
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.25
Consensus pattern (36 bp):
TAAACCGACAATGTTTTGCGCCCAGCGCTAGTCGGA
Found at i:4134443 original size:71 final size:70
Alignment explanation
Indices: 4134324--4134495 Score: 229
Period size: 71 Copynumber: 2.4 Consensus size: 70
4134314 CCGTAGTTAA
* * *
4134324 GTTTTGCGCCTAGCGCTAGTCGAGTATACCGACAATAGTTGTGTCCTGCACTGGTC-AATTAAAC
1 GTTTTGCGCCCAGCGCTAGTCGA-TAAACCGACAATAGTTGTGCCCTGCACTGGTCGAA-TAAAC
*
4134388 CGATAAT
64 CGACAAT
* *
4134395 GTTTTGCGCCCAGCGCTAGTCAGATAAACTGACAATAGTTGTGCCCTGCACTGGTCGGATAAACC
1 GTTTTGCGCCCAGCGCTAGTC-GATAAACCGACAATAGTTGTGCCCTGCACTGGTCGAATAAACC
*
4134460 GACGAT
65 GACAAT
*
4134466 GTTTTGCGCTCAGCGCTAGTCGGATAAACC
1 GTTTTGCGCCCAGCGCTAGTC-GATAAACC
4134496 AATATCATAT
Statistics
Matches: 89, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
71 86 0.97
72 3 0.03
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (70 bp):
GTTTTGCGCCCAGCGCTAGTCGATAAACCGACAATAGTTGTGCCCTGCACTGGTCGAATAAACCG
ACAAT
Found at i:4134456 original size:35 final size:34
Alignment explanation
Indices: 4134342--4134462 Score: 100
Period size: 35 Copynumber: 3.4 Consensus size: 34
4134332 CCTAGCGCTA
* *
4134342 GTCGAGTATACCGACAATAGTTGTGTCCTGCACTG
1 GTCGA-TAAACCGACAATAGTTGTGCCCTGCACTG
* * * * * *
4134377 GTCAATTAAACCGATAAT-GTTTTGCGCCCAGCGCTA
1 GTCGA-TAAACCGACAATAG--TTGTGCCCTGCACTG
*
4134413 GTCAGATAAACTGACAATAGTTGTGCCCTGCACTG
1 GTC-GATAAACCGACAATAGTTGTGCCCTGCACTG
4134448 GTCGGATAAACCGAC
1 GTC-GATAAACCGAC
4134463 GATGTTTTGC
Statistics
Matches: 64, Mismatches: 18, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
34 1 0.02
35 38 0.59
36 23 0.36
37 2 0.03
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (34 bp):
GTCGATAAACCGACAATAGTTGTGCCCTGCACTG
Found at i:4137605 original size:13 final size:13
Alignment explanation
Indices: 4137566--4137607 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
4137556 GTTATTTTAG
4137566 TTTTTTATTTAAA
1 TTTTTTATTTAAA
4137579 TTTTTTATTT---
1 TTTTTTATTTAAA
*
4137589 TTTTATATTTAAA
1 TTTTTTATTTAAA
4137602 TTTTTT
1 TTTTTT
4137608 GAACTTTTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
10 9 0.38
13 15 0.62
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTTTATTTAAA
Found at i:4137615 original size:23 final size:23
Alignment explanation
Indices: 4137566--4137615 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
4137556 GTTATTTTAG
* **
4137566 TTTTTTATTTAAATTTTTTATTT
1 TTTTATATTTAAATTTTTTATAC
4137589 TTTTATATTTAAATTTTTTGA-AC
1 TTTTATATTTAAATTTTTT-ATAC
4137612 TTTT
1 TTTT
4137616 CGTAGAAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 22 0.96
24 1 0.04
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (23 bp):
TTTTATATTTAAATTTTTTATAC
Found at i:4138181 original size:24 final size:22
Alignment explanation
Indices: 4138137--4138181 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
4138127 TTTCAATTTA
* *
4138137 AGAGGGAGAAATAAAATAATTC
1 AGAGGAAGAAATAAAAGAATTC
4138159 AGAGGAAGAAATTAAAAAGAATT
1 AGAGGAAGAAA-T-AAAAGAATT
4138182 TTGAATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 10 0.53
23 1 0.05
24 8 0.42
ACGTcount: A:0.58, C:0.02, G:0.22, T:0.18
Consensus pattern (22 bp):
AGAGGAAGAAATAAAAGAATTC
Found at i:4138693 original size:31 final size:31
Alignment explanation
Indices: 4138641--4138712 Score: 85
Period size: 29 Copynumber: 2.3 Consensus size: 31
4138631 TTTAAATTAG
4138641 TAATAATAAAATTATACTTTAATCCCTCTTAAAA
1 TAATAA-AAAATTATACTTTAAT--CTCTTAAAA
*
4138675 TAATAAAAAATTA-A-TTTAATCTTTTAAAA
1 TAATAAAAAATTATACTTTAATCTCTTAAAA
*
4138704 TTATAAAAA
1 TAATAAAAA
4138713 TATAAACTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
29 16 0.44
31 6 0.17
32 1 0.03
33 7 0.19
34 6 0.17
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (31 bp):
TAATAAAAAATTATACTTTAATCTCTTAAAA
Found at i:4139729 original size:4 final size:4
Alignment explanation
Indices: 4139722--4139753 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
4139712 GAAGGAAGGT
4139722 GATG GATG GATG GATG GATG GATG GATG GATG
1 GATG GATG GATG GATG GATG GATG GATG GATG
4139754 AGTTTACGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.50, T:0.25
Consensus pattern (4 bp):
GATG
Found at i:4140898 original size:16 final size:17
Alignment explanation
Indices: 4140868--4140901 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
4140858 AATAAATCAT
*
4140868 TAAAAATTTTATAAAAA
1 TAAAAATTATATAAAAA
4140885 TAAAAATTAT-TAAAAA
1 TAAAAATTATATAAAAA
4140901 T
1 T
4140902 CTAATTCAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TAAAAATTATATAAAAA
Found at i:4143210 original size:20 final size:20
Alignment explanation
Indices: 4143173--4143228 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
4143163 TTTTGACCTT
4143173 AATCCTAAACCTTAAAATC-CA
1 AATCCT-AACCTT-AAATCTCA
*
4143194 AATCCTAACCTCTAAATCTTA
1 AATCCTAACCT-TAAATCTCA
4143215 AATCC-AACCTTAAA
1 AATCCTAACCTTAAA
4143229 CCTTAAAATC
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 4 0.12
20 15 0.47
21 13 0.41
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.27
Consensus pattern (20 bp):
AATCCTAACCTTAAATCTCA
Found at i:4143238 original size:20 final size:21
Alignment explanation
Indices: 4143193--4143235 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
4143183 CTTAAAATCC
*
4143193 AAATCCTAACCTCTAAATCTT
1 AAATCCTAACCTCTAAACCTT
4143214 AAATCC-AACCT-TAAACCTT
1 AAATCCTAACCTCTAAACCTT
4143233 AAA
1 AAA
4143236 ATCTTTAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.48
20 5 0.24
21 6 0.29
ACGTcount: A:0.44, C:0.28, G:0.00, T:0.28
Consensus pattern (21 bp):
AAATCCTAACCTCTAAACCTT
Found at i:4145039 original size:11 final size:11
Alignment explanation
Indices: 4144985--4145051 Score: 53
Period size: 11 Copynumber: 5.9 Consensus size: 11
4144975 AAAATGCCTC
*
4144985 TAAAATAGTAA
1 TAAAATAATAA
* *
4144996 CAAAATTAACAA
1 TAAAA-TAATAA
* *
4145008 TAAAACAAGTTA
1 TAAAATAA-TAA
*
4145020 TACAATAATAA
1 TAAAATAATAA
4145031 TAAAATAATAA
1 TAAAATAATAA
*
4145042 TAACATAATA
1 TAAAATAATA
4145052 GTGAAAGGTA
Statistics
Matches: 42, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
11 27 0.64
12 15 0.36
ACGTcount: A:0.64, C:0.07, G:0.03, T:0.25
Consensus pattern (11 bp):
TAAAATAATAA
Found at i:4159756 original size:22 final size:24
Alignment explanation
Indices: 4159702--4159756 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 24
4159692 CATATAACTG
4159702 ATAATAT-TA-AAATATATACATA
1 ATAATATATATAAATATATACATA
* *
4159724 ATATTATATATAAAT-TATTCAT-
1 ATAATATATATAAATATATACATA
4159746 ATAATATATAT
1 ATAATATATAT
4159757 TAAAAAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 16 0.57
23 8 0.29
24 4 0.14
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (24 bp):
ATAATATATATAAATATATACATA
Found at i:4160061 original size:3 final size:3
Alignment explanation
Indices: 4160045--4160088 Score: 54
Period size: 3 Copynumber: 14.3 Consensus size: 3
4160035 ACTAATGTAC
*
4160045 AAT AAT AACT -AT AAT AAT AAT AAT AAT AAAT AAT ATT AAT AAT A
1 AAT AAT AA-T AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT A
4160089 TGAAAATAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
2 1 0.03
3 31 0.86
4 4 0.11
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:4160975 original size:35 final size:35
Alignment explanation
Indices: 4160935--4161001 Score: 134
Period size: 35 Copynumber: 1.9 Consensus size: 35
4160925 GTGTGTGATG
4160935 GTGCTGGTGGCAGACAGCATGGGAGAGTGGGAGTA
1 GTGCTGGTGGCAGACAGCATGGGAGAGTGGGAGTA
4160970 GTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
1 GTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
4161002 AGAGGCAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.22, C:0.12, G:0.49, T:0.16
Consensus pattern (35 bp):
GTGCTGGTGGCAGACAGCATGGGAGAGTGGGAGTA
Found at i:4165103 original size:15 final size:14
Alignment explanation
Indices: 4165074--4165100 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4165064 TCTTGGCCCA
4165074 AAAGGTATTAAAAT
1 AAAGGTATTAAAAT
4165088 AAAGGTATTAAAA
1 AAAGGTATTAAAA
4165101 ATAGTAATAT
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:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (14 bp):
AAAGGTATTAAAAT
Found at i:4165146 original size:3 final size:3
Alignment explanation
Indices: 4165138--4165164 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
4165128 ACAAGGATAT
4165138 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
4165165 TTGAAACACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:4166183 original size:35 final size:35
Alignment explanation
Indices: 4166137--4166205 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
4166127 GGGTGTGTGA
4166137 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGAG
1 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGAG
4166172 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
1 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
4166206 AGAGGCAAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.20, C:0.12, G:0.51, T:0.17
Consensus pattern (35 bp):
TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGAG
Found at i:4168244 original size:46 final size:46
Alignment explanation
Indices: 4168186--4168401 Score: 238
Period size: 46 Copynumber: 4.7 Consensus size: 46
4168176 GATATTTAGG
* *
4168186 CATCCGACCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
*
4168232 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* * * * * * * *
4168278 CGTCTGAACTCGTTGAGTTGAGTCCTAGTTC-GTGAAATGTA-ACTAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCGAA
*
4168324 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTTACTTATGGATGCGAA
1 -CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
** * * *
4168371 CGCCCGAGCTCGTTGAATTAAGTCCGAGTTC
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTC
4168402 GGTTATGGGC
Statistics
Matches: 138, Mismatches: 27, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
45 1 0.01
46 102 0.74
47 34 0.25
48 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
Found at i:4168352 original size:93 final size:93
Alignment explanation
Indices: 4168232--4168402 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
4168222 TGGATGCGAA
* * *
4168232 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAACTCGTTGAGTT
1 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAATT
* *
4168297 GAGTCCTAGTTCGTGAAATGTAACTAAG
66 AAGTCCGAGTTCGTGAAATGTAACTAAG
* * *
4168325 CATCCGAACTCGTTGAGTTGAGTCCGAGTTTACTTATGGATGCGAACGCCCGAGCTCGTTGAATT
1 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAATT
4168390 AAGTCCGAGTTCG
66 AAGTCCGAGTTCG
4168403 GTTATGGGCG
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (93 bp):
CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAATT
AAGTCCGAGTTCGTGAAATGTAACTAAG
Found at i:4174896 original size:13 final size:13
Alignment explanation
Indices: 4174880--4174929 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
4174870 TTTAAACTAA
4174880 ACTTTTTAAAAAC
1 ACTTTTTAAAAAC
* *
4174893 ACTTTTTTATAAC
1 ACTTTTTAAAAAC
* *
4174906 ATTTTTTAAAAAT
1 ACTTTTTAAAAAC
4174919 ACTTTTTAAAA
1 ACTTTTTAAAA
4174930 GTAACGAGGA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (13 bp):
ACTTTTTAAAAAC
Found at i:4177454 original size:24 final size:24
Alignment explanation
Indices: 4177417--4177465 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
4177407 AATATTAAAA
*
4177417 GATATATATATAAAATGTATACAT
1 GATATATATATAAAATATATACAT
*
4177441 GATATA-ATATTAAAATATTTACAT
1 GATATATATA-TAAAATATATACAT
4177465 G
1 G
4177466 GTATTTACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 3 0.14
24 19 0.86
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.39
Consensus pattern (24 bp):
GATATATATATAAAATATATACAT
Found at i:4178020 original size:38 final size:39
Alignment explanation
Indices: 4177968--4178125 Score: 192
Period size: 39 Copynumber: 4.1 Consensus size: 39
4177958 AAAGCTGATT
* * * *
4177968 CCACTCCCCCATGCTACTTTGTTTTATTATTAATCAAAA
1 CCACTTCCCCATACTATTTTGTTTTATTATTAATTAAAA
* *
4178007 CCAC-TCCCCATGCTATTTTGTTTTATTGTTAATTAAAA
1 CCACTTCCCCATACTATTTTGTTTTATTATTAATTAAAA
* * * *
4178045 CTACTTTCCCATACTATTTTGTTTTCTTGTTAATTAAAA
1 CCACTTCCCCATACTATTTTGTTTTATTATTAATTAAAA
* * *
4178084 CTACTTCCTCATACCATTTTGTTTTATTATTAATTAAAA
1 CCACTTCCCCATACTATTTTGTTTTATTATTAATTAAAA
4178123 CCA
1 CCA
4178126 TACTTTATTT
Statistics
Matches: 104, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
38 33 0.32
39 71 0.68
ACGTcount: A:0.28, C:0.22, G:0.05, T:0.45
Consensus pattern (39 bp):
CCACTTCCCCATACTATTTTGTTTTATTATTAATTAAAA
Found at i:4182671 original size:17 final size:17
Alignment explanation
Indices: 4182649--4182688 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
4182639 ATTGAACCAA
4182649 TTTTTACTATTTTTTAG
1 TTTTTACTATTTTTTAG
* * *
4182666 TTTTTATTTTTTTTTAT
1 TTTTTACTATTTTTTAG
4182683 TTTTTA
1 TTTTTA
4182689 TGATCTTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.80
Consensus pattern (17 bp):
TTTTTACTATTTTTTAG
Found at i:4188596 original size:16 final size:16
Alignment explanation
Indices: 4188575--4188643 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
4188565 GATTAGCTAT
4188575 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
4188591 TACACCTCTAATCCTAA
1 TACACCTCTAATCC-AA
4188608 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
4188624 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
4188640 TACA
1 TACA
4188644 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.38, C:0.36, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:4188617 original size:33 final size:32
Alignment explanation
Indices: 4188575--4188643 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
4188565 GATTAGCTAT
4188575 TACACCTCTAATCCAATACACCTCTAATCCTAA
1 TACACCTCTAATCCAATACACCTCTAATCC-AA
4188608 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
4188640 TACA
1 TACA
4188644 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.38, C:0.36, G:0.00, T:0.26
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:4203688 original size:21 final size:21
Alignment explanation
Indices: 4203664--4203704 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4203654 AAAATAATAA
4203664 CAAGAA-AATAGAAAAAAAAAG
1 CAAGAATAATA-AAAAAAAAAG
*
4203685 CAAGAATAGTAAAAAAAAAA
1 CAAGAATAATAAAAAAAAAA
4203705 CAACAGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.76, C:0.05, G:0.12, T:0.07
Consensus pattern (21 bp):
CAAGAATAATAAAAAAAAAAG
Found at i:4204985 original size:18 final size:19
Alignment explanation
Indices: 4204951--4204987 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
4204941 TTAAATTTAT
4204951 TAAATAAAATATACATTAA
1 TAAATAAAATATACATTAA
4204970 TAAA-AAAAT-TAGCATTAA
1 TAAATAAAATATA-CATTAA
4204988 CACAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 2 0.12
18 11 0.65
19 4 0.24
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (19 bp):
TAAATAAAATATACATTAA
Found at i:4205174 original size:25 final size:25
Alignment explanation
Indices: 4205133--4205183 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 25
4205123 AGTAAATTTC
4205133 TTTTTTGGTCACTCAACAATTCGAAT
1 TTTTTTGGTCACTCAACAATT-GAAT
*
4205159 TTTTTTTGTCAC-CAACAATTGAAT
1 TTTTTTGGTCACTCAACAATTGAAT
4205183 T
1 T
4205184 ACTAACAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 5 0.21
25 8 0.33
26 11 0.46
ACGTcount: A:0.27, C:0.18, G:0.10, T:0.45
Consensus pattern (25 bp):
TTTTTTGGTCACTCAACAATTGAAT
Found at i:4208624 original size:31 final size:32
Alignment explanation
Indices: 4208562--4208624 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 32
4208552 ACAAAATTTT
* *
4208562 AATAAGACCTTAATATAATCATATAAACATTA
1 AATAAGACCTTAAAATAATAATATAAACATTA
* * *
4208594 AATAA-ACTTTAAAATAATAATTTAATCATTA
1 AATAAGACCTTAAAATAATAATATAAACATTA
4208625 GAATTGTGAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
31 21 0.81
32 5 0.19
ACGTcount: A:0.54, C:0.10, G:0.02, T:0.35
Consensus pattern (32 bp):
AATAAGACCTTAAAATAATAATATAAACATTA
Found at i:4211632 original size:21 final size:23
Alignment explanation
Indices: 4211592--4211633 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
4211582 AAACAGTAGC
*
4211592 TATTCATTTATTTAGTTATTTCA
1 TATTCATTTATATAGTTATTTCA
4211615 TATT-ATTTATAT-GTTATTT
1 TATTCATTTATATAGTTATTT
4211634 TATTTTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 7 0.39
23 4 0.22
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.64
Consensus pattern (23 bp):
TATTCATTTATATAGTTATTTCA
Found at i:4227250 original size:19 final size:21
Alignment explanation
Indices: 4227195--4227250 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 21
4227185 ATATTAAGTC
*
4227195 TAAAAAAATTTAAATATATGTA
1 TAAAAAAATAT-AATATATGTA
*
4227217 TAAAACACATA-AATAT-T-TA
1 TAAAA-AAATATAATATATGTA
4227236 TAAAAAAATATAATA
1 TAAAAAAATATAATA
4227251 ATAAATTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
18 4 0.14
19 11 0.38
20 1 0.03
21 5 0.17
22 5 0.17
23 3 0.10
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (21 bp):
TAAAAAAATATAATATATGTA
Found at i:4232172 original size:21 final size:21
Alignment explanation
Indices: 4232148--4232216 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
4232138 ATTGGGTGGA
* * *
4232148 TCAGCTTTTACGACCTTCTGT
1 TCAGCTCTTATGAGCTTCTGT
4232169 TCAGCTCTTATGAGCTTCTG-
1 TCAGCTCTTATGAGCTTCTGT
4232189 TCAAGCTCTTATGAGCTTCTGT
1 TC-AGCTCTTATGAGCTTCTGT
4232211 TCAGCT
1 TCAGCT
4232217 TTTAAGCTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
20 2 0.05
21 39 0.91
22 2 0.05
ACGTcount: A:0.16, C:0.26, G:0.17, T:0.41
Consensus pattern (21 bp):
TCAGCTCTTATGAGCTTCTGT
Found at i:4239904 original size:15 final size:15
Alignment explanation
Indices: 4239880--4239909 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4239870 TAATTCATAC
*
4239880 ATTTTGTTTAAATTT
1 ATTTTCTTTAAATTT
4239895 ATTTTCTTTAAATTT
1 ATTTTCTTTAAATTT
4239910 TTATATATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (15 bp):
ATTTTCTTTAAATTT
Found at i:4245988 original size:26 final size:26
Alignment explanation
Indices: 4245959--4246011 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
4245949 TCAAACATGC
*
4245959 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGAT-AATTTAACTCCTAGGGGT
* *
4245985 ATTTCGATAATTTATCTCCTAGGGGT
1 ATTTAGATAATTTAACTCCTAGGGGT
4246011 A
1 A
4246012 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAGATAATTTAACTCCTAGGGGT
Found at i:4247605 original size:26 final size:26
Alignment explanation
Indices: 4247496--4247597 Score: 186
Period size: 26 Copynumber: 3.9 Consensus size: 26
4247486 CATGAAATTC
4247496 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
4247522 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
4247548 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
4247574 TTATCATGAAACATTTACCTAACC
1 TTATCATGAAACATTTACCTAACC
4247598 TTTTATCAAT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:4254604 original size:26 final size:26
Alignment explanation
Indices: 4254495--4254596 Score: 186
Period size: 26 Copynumber: 3.9 Consensus size: 26
4254485 CATGAAATTC
4254495 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
4254521 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
4254547 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
4254573 TTATCATGAAACATTTACCTAACC
1 TTATCATGAAACATTTACCTAACC
4254597 TTTTATCAAT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Done.