Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 119 of 141
Found at i:37894711 original size:21 final size:20
Alignment explanation
Indices: 37894667--37894720 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 20
37894657 TATACATATT
*
37894667 AAAA-ATATAAAAA-TGAAA
1 AAAATATATAAAAATTCAAA
37894685 ATAAATATATAGAAAATTCAAA
1 A-AAATATATA-AAAATTCAAA
37894707 AAAATATATAAAAA
1 AAAATATATAAAAA
37894721 ATCTAGAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
18 1 0.03
19 3 0.10
20 9 0.29
21 13 0.42
22 5 0.16
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.22
Consensus pattern (20 bp):
AAAATATATAAAAATTCAAA
Found at i:37896137 original size:28 final size:28
Alignment explanation
Indices: 37896106--37896163 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
37896096 ATGGACACTC
37896106 GACCCGACCCACGATCAGGTCTAATCAG
1 GACCCGACCCACGATCAGGTCTAATCAG
*
37896134 GACCCGACCCATGATCAGGTCTAATCAG
1 GACCCGACCCACGATCAGGTCTAATCAG
37896162 GA
1 GA
37896164 TTTTGATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.29, C:0.33, G:0.22, T:0.16
Consensus pattern (28 bp):
GACCCGACCCACGATCAGGTCTAATCAG
Found at i:37897253 original size:16 final size:16
Alignment explanation
Indices: 37897232--37897286 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
37897222 GTTTGGTTCA
37897232 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
*
37897248 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
*
37897264 CTGTAATGGAATAAAG
1 CTGTAATGGAATAGAG
37897280 CTGTAAT
1 CTGTAAT
37897287 CAGTAATTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.29
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:37899775 original size:26 final size:26
Alignment explanation
Indices: 37899746--37899816 Score: 81
Period size: 26 Copynumber: 2.7 Consensus size: 26
37899736 ACACACCAAT
37899746 ATCGCAGCAAAGCTGCCAGTAGT-AGC
1 ATCGCAGCAAAGCTGCCAGTA-TCAGC
* * * *
37899772 ATCGCAACAGAGCTGCCAATATCAGT
1 ATCGCAGCAAAGCTGCCAGTATCAGC
*
37899798 ATCGTAGCAAAGCTGCCAG
1 ATCGCAGCAAAGCTGCCAG
37899817 AAACAGTATA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
25 1 0.03
26 35 0.97
ACGTcount: A:0.32, C:0.27, G:0.24, T:0.17
Consensus pattern (26 bp):
ATCGCAGCAAAGCTGCCAGTATCAGC
Found at i:37899823 original size:26 final size:26
Alignment explanation
Indices: 37899745--37899825 Score: 74
Period size: 26 Copynumber: 3.1 Consensus size: 26
37899735 AACACACCAA
* **
37899745 TATCGCAGCAAAGCTGCCAGTAGTAG
1 TATCGCAGCAAAGCTGCCAGAAACAG
* * * *
37899771 CATCGCAACAGAGCTGCCA-ATATCAG
1 TATCGCAGCAAAGCTGCCAGA-AACAG
*
37899797 TATCGTAGCAAAGCTGCCAGAAACAG
1 TATCGCAGCAAAGCTGCCAGAAACAG
37899823 TAT
1 TAT
37899826 ACTTCCTCTA
Statistics
Matches: 42, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
26 41 0.98
27 1 0.02
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.19
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGAAACAG
Found at i:37899995 original size:27 final size:27
Alignment explanation
Indices: 37899963--37900138 Score: 201
Period size: 27 Copynumber: 6.5 Consensus size: 27
37899953 GGGTATAACA
* * *
37899963 GTCATTTTACTCTACGGGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* *
37899990 GCCATTTTA-CCTTATGAGGGTATTTCG
1 GTCATTTTACCCTT-CGAGGGTATTTCG
* *
37900017 ATCATTTTACCCTTCGAGGGTATTTCA
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * *
37900044 GTTATTTTACCCTTCGAGGATATTTCA
1 GTCATTTTACCCTTCGAGGGTATTTCG
37900071 GTCATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * * **
37900098 ATTATTTTACCCTTTGAGGGTATTTTA
1 GTCATTTTACCCTTCGAGGGTATTTCG
37900125 GTCATTTTACCCTT
1 GTCATTTTACCCTT
37900139 TGAATCTCAA
Statistics
Matches: 125, Mismatches: 22, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
26 2 0.02
27 119 0.95
28 4 0.03
ACGTcount: A:0.19, C:0.19, G:0.18, T:0.44
Consensus pattern (27 bp):
GTCATTTTACCCTTCGAGGGTATTTCG
Found at i:37900038 original size:54 final size:54
Alignment explanation
Indices: 37899961--37900138 Score: 234
Period size: 54 Copynumber: 3.3 Consensus size: 54
37899951 AGGGGTATAA
* * * **
37899961 CAGTCATTTTACTCTACGGGGGTATTTCGGCCATTTTA-CCTTATGAGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTTCGGTTATTTTACCCTT-TGAGGGTATTT
* * *
37900015 C-GATCATTTTACCCTTCGAGGGTATTTCAGTTATTTTACCCTTCGAGGATATTT
1 CAG-TCATTTTACCCTTCGAGGGTATTTCGGTTATTTTACCCTTTGAGGGTATTT
*
37900069 CAGTCATTTTACCCTTCGAGGGTATTTCGATTATTTTACCCTTTGAGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTTCGGTTATTTTACCCTTTGAGGGTATTT
*
37900123 TAGTCATTTTACCCTT
1 CAGTCATTTTACCCTT
37900139 TGAATCTCAA
Statistics
Matches: 108, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
53 1 0.01
54 102 0.94
55 5 0.05
ACGTcount: A:0.19, C:0.20, G:0.18, T:0.43
Consensus pattern (54 bp):
CAGTCATTTTACCCTTCGAGGGTATTTCGGTTATTTTACCCTTTGAGGGTATTT
Found at i:37900077 original size:81 final size:81
Alignment explanation
Indices: 37899961--37900138 Score: 241
Period size: 81 Copynumber: 2.2 Consensus size: 81
37899951 AGGGGTATAA
* * * * * *
37899961 CAGTCATTTTACTCTACGGGGGTATTTCGGCCATTTTA-CCTTATGAGGGTATTTCGATCATTTT
1 CAGTCATTTTACCCTTCGAGGATATTTCAGCCATTTTACCCTT-CGAGGGTATTTCGATCATTTT
37900025 ACCCTTCGAGGGTATTT
65 ACCCTTCGAGGGTATTT
* * *
37900042 CAGTTATTTTACCCTTCGAGGATATTTCAGTCATTTTACCCTTCGAGGGTATTTCGATTATTTTA
1 CAGTCATTTTACCCTTCGAGGATATTTCAGCCATTTTACCCTTCGAGGGTATTTCGATCATTTTA
*
37900107 CCCTTTGAGGGTATTT
66 CCCTTCGAGGGTATTT
*
37900123 TAGTCATTTTACCCTT
1 CAGTCATTTTACCCTT
37900139 TGAATCTCAA
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
81 80 0.95
82 4 0.05
ACGTcount: A:0.19, C:0.20, G:0.18, T:0.43
Consensus pattern (81 bp):
CAGTCATTTTACCCTTCGAGGATATTTCAGCCATTTTACCCTTCGAGGGTATTTCGATCATTTTA
CCCTTCGAGGGTATTT
Found at i:37905575 original size:9 final size:9
Alignment explanation
Indices: 37905561--37905610 Score: 64
Period size: 9 Copynumber: 5.6 Consensus size: 9
37905551 TTTGATTAAA
*
37905561 AATTAATCG
1 AATTAACCG
37905570 AATTAACCG
1 AATTAACCG
*
37905579 AATTAACTG
1 AATTAACCG
37905588 AATTAACCG
1 AATTAACCG
**
37905597 AATTGCCCG
1 AATTAACCG
37905606 AATTA
1 AATTA
37905611 CTCGAATTGA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:37905592 original size:27 final size:27
Alignment explanation
Indices: 37905561--37905623 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
37905551 TTTGATTAAA
37905561 AATTAATCGAATTAACCGAATTAACT-G
1 AATTAATCGAATTAACCGAATT-ACTCG
* **
37905588 AATTAACCGAATTGCCCGAATTACTCG
1 AATTAATCGAATTAACCGAATTACTCG
37905615 AATTGAATC
1 AATT-AATC
37905624 ACTACATAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 3 0.10
27 24 0.80
28 3 0.10
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.29
Consensus pattern (27 bp):
AATTAATCGAATTAACCGAATTACTCG
Found at i:37905608 original size:18 final size:18
Alignment explanation
Indices: 37905568--37905620 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
37905558 AAAAATTAAT
*
37905568 CGAATTAACCGAATTAAC
1 CGAATTAACCGAATTGAC
* *
37905586 TGAATTAACCGAATTGCC
1 CGAATTAACCGAATTGAC
37905604 CGAATT-ACTCGAATTGA
1 CGAATTAAC-CGAATTGA
37905621 ATCACTACAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
17 2 0.07
18 27 0.93
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (18 bp):
CGAATTAACCGAATTGAC
Found at i:37905616 original size:9 final size:10
Alignment explanation
Indices: 37905561--37905618 Score: 56
Period size: 9 Copynumber: 6.4 Consensus size: 10
37905551 TTTGATTAAA
37905561 AATTAA-TCG
1 AATTAACTCG
37905570 AATTAAC-CG
1 AATTAACTCG
37905579 AATTAACT-G
1 AATTAACTCG
37905588 AATTAAC-CG
1 AATTAACTCG
* *
37905597 AATT-GCCCG
1 AATTAACTCG
37905606 AATT-ACTCG
1 AATTAACTCG
37905615 AATT
1 AATT
37905619 GAATCACTAC
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
8 1 0.02
9 41 0.98
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (10 bp):
AATTAACTCG
Found at i:37905648 original size:17 final size:17
Alignment explanation
Indices: 37905626--37905686 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
37905616 ATTGAATCAC
37905626 TACATAATTAAAAATAT
1 TACATAATTAAAAATAT
*** *
37905643 TACATAAGTCTTTGAATCAC
1 TACATAA-T-TAAAAAT-AT
*
37905663 TACATAATTAAAAACAT
1 TACATAATTAAAAATAT
37905680 TACATAA
1 TACATAA
37905687 GTCTCGACAT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 15 0.47
18 4 0.12
19 5 0.16
20 8 0.25
ACGTcount: A:0.51, C:0.13, G:0.03, T:0.33
Consensus pattern (17 bp):
TACATAATTAAAAATAT
Found at i:37905658 original size:37 final size:37
Alignment explanation
Indices: 37905617--37905690 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
37905607 ATTACTCGAA
*
37905617 TTGAATCACTACATAATTAAAAATATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
37905654 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
37905691 CGACATTAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.46, C:0.15, G:0.05, T:0.34
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAAGTCT
Found at i:37905705 original size:37 final size:37
Alignment explanation
Indices: 37905619--37905708 Score: 112
Period size: 37 Copynumber: 2.4 Consensus size: 37
37905609 TACTCGAATT
* * *
37905619 GAATCACTACATAATTAAAAATATTACATAAGTCTTT
1 GAATAACTACATAATTAAAAACATTACATAAGTCTTC
*
37905656 GAATCACTACATAATTAAAAACATTACATAAGTC-TC
1 GAATAACTACATAATTAAAAACATTACATAAGTCTTC
37905692 GACATTAAC-ACATAATT
1 GA-A-TAACTACATAATT
37905709 GAAATGTAAG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
36 3 0.06
37 42 0.88
38 3 0.06
ACGTcount: A:0.47, C:0.17, G:0.06, T:0.31
Consensus pattern (37 bp):
GAATAACTACATAATTAAAAACATTACATAAGTCTTC
Found at i:37916708 original size:5 final size:6
Alignment explanation
Indices: 37916693--37916718 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
37916683 ACAGGGTGTT
37916693 TTTTTG TTTTTG TTTTTG TTTTTG TT
1 TTTTTG TTTTTG TTTTTG TTTTTG TT
37916719 GAGTTTAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (6 bp):
TTTTTG
Found at i:37921851 original size:44 final size:43
Alignment explanation
Indices: 37921799--37921915 Score: 132
Period size: 44 Copynumber: 2.7 Consensus size: 43
37921789 TATGAGTTAT
*
37921799 CGTGTAAGACCACGTCTGGGACGTTAGCATCAAT-TTGAGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCAATGTT-AGA-TTA
* * *
37921843 CGTGTAAGACC-CTGTTTGGGATAG-TGGCATCAATGTTTGATTA
1 CGTGTAAGACCAC-GTCTGGGA-CGTTGGCATCAATGTTAGATTA
*
37921886 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
37921916 TGTACGAGCT
Statistics
Matches: 61, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
42 1 0.02
43 27 0.44
44 30 0.49
45 3 0.05
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCAATGTTAGATTA
Found at i:37925547 original size:22 final size:23
Alignment explanation
Indices: 37925501--37925547 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
37925491 AACTCATGGA
* *
37925501 TTTTTCTGAAAATAAATTAAGTT
1 TTTTTCTGAAAATAAATAAAATT
37925524 TTTTTCT-AAAATAAATAAAATT
1 TTTTTCTGAAAATAAATAAAATT
37925546 TT
1 TT
37925548 AAATTGACTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (23 bp):
TTTTTCTGAAAATAAATAAAATT
Found at i:37926352 original size:17 final size:16
Alignment explanation
Indices: 37926329--37926366 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
37926319 AATATATAAT
37926329 ATATAAATTAATAAAA
1 ATATAAATTAATAAAA
*
37926345 ACTATAAATTTATAAAA
1 A-TATAAATTAATAAAA
37926362 ATATA
1 ATATA
37926367 TAAACATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (16 bp):
ATATAAATTAATAAAA
Found at i:37926536 original size:24 final size:25
Alignment explanation
Indices: 37926494--37926542 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
37926484 TTTTTATTAA
*
37926494 TTTATATATCTTATGATTTTAAAAT
1 TTTATATATCTTATGATTTCAAAAT
* *
37926519 TTTATATAT-TTTTTATTTCAAAAT
1 TTTATATATCTTATGATTTCAAAAT
37926543 AATAATATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (25 bp):
TTTATATATCTTATGATTTCAAAAT
Found at i:37926967 original size:9 final size:9
Alignment explanation
Indices: 37926902--37926969 Score: 50
Period size: 9 Copynumber: 7.3 Consensus size: 9
37926892 ATTTCCTATA
37926902 TAAAAATGAT
1 TAAAAAT-AT
*
37926912 TAAAAATCAA
1 TAAAAAT-AT
*
37926922 GAAAAAT-T
1 TAAAAATAT
37926930 TAAAAAATAT
1 T-AAAAATAT
*
37926940 TATAAAA-AC
1 TA-AAAATAT
*
37926949 TAAAAGTAT
1 TAAAAATAT
37926958 TAAAAATAT
1 TAAAAATAT
37926967 TAA
1 TAA
37926970 TATTGCTATA
Statistics
Matches: 45, Mismatches: 9, Indels: 9
0.71 0.14 0.14
Matches are distributed among these distances:
8 3 0.07
9 22 0.49
10 20 0.44
ACGTcount: A:0.65, C:0.03, G:0.04, T:0.28
Consensus pattern (9 bp):
TAAAAATAT
Found at i:37927019 original size:19 final size:19
Alignment explanation
Indices: 37926982--37927019 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
37926972 TTGCTATAAA
*
37926982 ATTATAAAAACTTATAAAT
1 ATTATAAAAACTTAGAAAT
37927001 ATTATAAAAA-TATAGAAAT
1 ATTATAAAAACT-TAGAAAT
37927020 CTAATAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 1 0.06
19 16 0.94
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (19 bp):
ATTATAAAAACTTAGAAAT
Found at i:37927098 original size:20 final size:20
Alignment explanation
Indices: 37927055--37927098 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
37927045 AAAATTATAA
*
37927055 AATTAAAAAAACATATTTAT
1 AATTAAAAAAACATATTTAG
37927075 AATTAAAAAAAACATA-TTAG
1 AATT-AAAAAAACATATTTAG
37927095 AATT
1 AATT
37927099 CTTAAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (20 bp):
AATTAAAAAAACATATTTAG
Found at i:37927561 original size:19 final size:18
Alignment explanation
Indices: 37927529--37927710 Score: 109
Period size: 19 Copynumber: 9.3 Consensus size: 18
37927519 TGATTTTTAT
37927529 TTTTTATATCAATTTTAATA
1 TTTTTATA--AATTTTAATA
*
37927549 CTTTTTATAAATTTTTATGA
1 -TTTTTATAAATTTTAAT-A
37927569 TTTTTATAGAATTTTAATA
1 TTTTTATA-AATTTTAATA
37927588 TGTTTTTATAAAATTTTAAATA
1 --TTTTTAT-AAATTTT-AATA
*
37927610 TTTTTATTAATTTT-ATAA
1 TTTTTATAAATTTTAAT-A
* * *
37927628 TTTTTTTAGAATTTGTTAGA
1 TTTTTATA-AATTT-TAATA
37927648 TTTATTATAATATTTATAAT-
1 TTT-TTATAA-ATTT-TAATA
*
37927668 TTTTAATAATATTTATAA-A
1 TTTTTATAA-ATTT-TAATA
* * *
37927687 TTTGTATCAATTTTCATA
1 TTTTTATAAATTTTAATA
37927705 TTTTTA
1 TTTTTA
37927711 AATATTTTTT
Statistics
Matches: 131, Mismatches: 16, Indels: 31
0.74 0.09 0.17
Matches are distributed among these distances:
17 4 0.03
18 17 0.13
19 48 0.37
20 25 0.19
21 32 0.24
22 5 0.04
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (18 bp):
TTTTTATAAATTTTAATA
Found at i:37927563 original size:10 final size:10
Alignment explanation
Indices: 37927550--37927729 Score: 85
Period size: 10 Copynumber: 18.4 Consensus size: 10
37927540 ATTTTAATAC
37927550 TTTTTATAAA
1 TTTTTATAAA
*
37927560 TTTTTAT-GA
1 TTTTTATAAA
37927569 TTTTTATAGAA
1 TTTTTATA-AA
* **
37927580 TTTTAATATG
1 TTTTTATAAA
37927590 TTTTTATAAA
1 TTTTTATAAA
*
37927600 ATTTTA-AATA
1 TTTTTATAA-A
*
37927610 TTTTTATTAA
1 TTTTTATAAA
37927620 -TTTTAT-AA
1 TTTTTATAAA
*
37927628 TTTTTTTAGAA
1 TTTTTATA-AA
* *
37927639 TTTGT-TAGA
1 TTTTTATAAA
37927648 TTTATTAT-AA
1 TTT-TTATAAA
*
37927658 TATTTAT-AA
1 TTTTTATAAA
37927667 TTTTTA-ATAA
1 TTTTTATA-AA
*
37927677 TATTTATAAA
1 TTTTTATAAA
* *
37927687 TTTGTATCAA
1 TTTTTATAAA
*
37927697 TTTTCAT--A
1 TTTTTATAAA
37927705 TTTTTA-AATA
1 TTTTTATAA-A
*
37927715 TTTTTTTATAA
1 TTTTTATA-AA
37927726 TTTT
1 TTTT
37927730 CTTTTTTTAA
Statistics
Matches: 127, Mismatches: 26, Indels: 33
0.68 0.14 0.18
Matches are distributed among these distances:
8 8 0.06
9 36 0.28
10 59 0.46
11 23 0.18
12 1 0.01
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.61
Consensus pattern (10 bp):
TTTTTATAAA
Found at i:37927748 original size:28 final size:30
Alignment explanation
Indices: 37927686--37927751 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 30
37927676 ATATTTATAA
* *
37927686 ATTTGTATCAATTTTCATATTTTTAAATAT
1 ATTTTTATCAATTTTCATATTTTTAAAAAT
* *
37927716 TTTTTTAT-AATTTTC-TTTTTTTAAAAAT
1 ATTTTTATCAATTTTCATATTTTTAAAAAT
37927744 ATTTTTAT
1 ATTTTTAT
37927752 GGGGAAAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 18 0.58
29 7 0.23
30 6 0.19
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (30 bp):
ATTTTTATCAATTTTCATATTTTTAAAAAT
Found at i:37928741 original size:31 final size:29
Alignment explanation
Indices: 37928671--37928744 Score: 85
Period size: 31 Copynumber: 2.5 Consensus size: 29
37928661 GTCTCAGGTT
*
37928671 ACATTTTAGTCACTTATGTTTGAAATGTT
1 ACATTTTAGTCACTTATGTTTGAAATGTA
* ***
37928700 ACGTTTTAGTCACTTATGTTATTGTGTTGTA
1 ACATTTTAGTCACTTATG-T-TTGAAATGTA
37928731 ACATTTTAGTCACT
1 ACATTTTAGTCACT
37928745 GAGCATTAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 17 0.46
30 1 0.03
31 19 0.51
ACGTcount: A:0.24, C:0.12, G:0.15, T:0.49
Consensus pattern (29 bp):
ACATTTTAGTCACTTATGTTTGAAATGTA
Found at i:37933881 original size:11 final size:11
Alignment explanation
Indices: 37933844--37933896 Score: 54
Period size: 11 Copynumber: 4.7 Consensus size: 11
37933834 AAAAAATAGC
37933844 AGAAGAGAAGGA
1 AGAAGA-AAGGA
* *
37933856 AGAAGAGAGGG
1 AGAAGAAAGGA
*
37933867 AGAAGAAAGAA
1 AGAAGAAAGGA
37933878 AGAAAGAAAGG-
1 AG-AAGAAAGGA
37933889 AGAAGAAA
1 AGAAGAAA
37933897 AAACAAGGAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 6 0.18
11 15 0.44
12 13 0.38
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (11 bp):
AGAAGAAAGGA
Found at i:37934200 original size:82 final size:83
Alignment explanation
Indices: 37934097--37934261 Score: 323
Period size: 82 Copynumber: 2.0 Consensus size: 83
37934087 GTTATGAATG
37934097 TAATTTTTTATTAATTTTTAATTTATTTTAAAGTTATTTTGTTAGTAAGTTTTGTGGTTAGGTTA
1 TAATTTTTTATTAATTTTTAATTTATTTTAAAGTTATTTTGTTAGTAAGTTTTGTGGTTAGGTTA
37934162 ATTGTTTGTTTAGGGTTT
66 ATTGTTTGTTTAGGGTTT
37934180 TAATTTTTTA-TAATTTTTAATTTATTTTAAAGTTATTTTGTTAGTAAGTTTTGTGGTTAGGTTA
1 TAATTTTTTATTAATTTTTAATTTATTTTAAAGTTATTTTGTTAGTAAGTTTTGTGGTTAGGTTA
37934244 ATTGTTTGTTTAGGGTTT
66 ATTGTTTGTTTAGGGTTT
37934262 AAGGTTTATT
Statistics
Matches: 82, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
82 72 0.88
83 10 0.12
ACGTcount: A:0.23, C:0.00, G:0.17, T:0.60
Consensus pattern (83 bp):
TAATTTTTTATTAATTTTTAATTTATTTTAAAGTTATTTTGTTAGTAAGTTTTGTGGTTAGGTTA
ATTGTTTGTTTAGGGTTT
Found at i:37938251 original size:27 final size:27
Alignment explanation
Indices: 37938213--37938266 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
37938203 TAAAATTATC
37938213 TCATAAATTCCAACTCAATGGTTCCAT
1 TCATAAATTCCAACTCAATGGTTCCAT
37938240 TCATAAATTCCAACTCAATGGTTCCAT
1 TCATAAATTCCAACTCAATGGTTCCAT
37938267 CATTTTCCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.26, G:0.07, T:0.33
Consensus pattern (27 bp):
TCATAAATTCCAACTCAATGGTTCCAT
Found at i:37944906 original size:23 final size:24
Alignment explanation
Indices: 37944880--37944932 Score: 76
Period size: 23 Copynumber: 2.3 Consensus size: 24
37944870 ATAAGTGCCA
37944880 CACTGAT-ATGTAGCCGTAA-CTAC
1 CACTGATAATGTAGCCG-AAGCTAC
37944903 CACTG-TAATGTAGCCGAAGCTAC
1 CACTGATAATGTAGCCGAAGCTAC
37944926 CACTGAT
1 CACTGAT
37944933 CAATAACACT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 3 0.11
23 23 0.85
24 1 0.04
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (24 bp):
CACTGATAATGTAGCCGAAGCTAC
Found at i:37951274 original size:23 final size:23
Alignment explanation
Indices: 37951259--37951303 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
37951249 TTTTACTTTG
37951259 GGCTTGTAATAATTTTTCTTTTA
1 GGCTTGTAATAATTTTTCTTTTA
* *
37951282 GGTTTGTAATAATTATT-TTTTA
1 GGCTTGTAATAATTTTTCTTTTA
37951304 TTTTATTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.24, C:0.04, G:0.13, T:0.58
Consensus pattern (23 bp):
GGCTTGTAATAATTTTTCTTTTA
Found at i:37951279 original size:22 final size:24
Alignment explanation
Indices: 37951248--37951295 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
37951238 CTTAGGGTTT
*
37951248 TTTTTAC-TTTGGGCTTGTAATAA
1 TTTTTACTTTTAGGCTTGTAATAA
*
37951271 TTTTT-CTTTTAGGTTTGTAATAA
1 TTTTTACTTTTAGGCTTGTAATAA
37951294 TT
1 TT
37951296 ATTTTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 21 0.95
ACGTcount: A:0.21, C:0.06, G:0.15, T:0.58
Consensus pattern (24 bp):
TTTTTACTTTTAGGCTTGTAATAA
Found at i:37956219 original size:26 final size:26
Alignment explanation
Indices: 37956183--37956240 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 26
37956173 ACATATTTTC
37956183 TCAAAATTTTACTAAGGG-AAAATTCG
1 TCAAAATTTTACTAAGGGTAAAA-TCG
*
37956209 TCAAAATTTTACTAGGGGTAAAATCG
1 TCAAAATTTTACTAAGGGTAAAATCG
*
37956235 CCAAAA
1 TCAAAA
37956241 ATTTGTTCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 25 0.86
27 4 0.14
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.28
Consensus pattern (26 bp):
TCAAAATTTTACTAAGGGTAAAATCG
Found at i:37964253 original size:27 final size:26
Alignment explanation
Indices: 37964204--37964409 Score: 157
Period size: 27 Copynumber: 7.7 Consensus size: 26
37964194 AAAGCCATAA
* **
37964204 CAGTCATTTCATCTCCTA-GGGGTATAA
1 CAGTCATTTTA-C-CCTATGGGGTATTT
37964231 CAGTCATTTTACCCTATGAGGGTATTT
1 CAGTCATTTTACCCTATG-GGGTATTT
*
37964258 CAGTCATTTTACCATATGGGGGTA-TT
1 CAGTCATTTTACCCTAT-GGGGTATTT
* * *
37964284 CCGATCATTTTACCTTATGGGTTTATTT
1 CAG-TCATTTTACCCTATGGG-GTATTT
* *
37964312 CGGTCATTTTACTCTATGAGGGTATTT
1 CAGTCATTTTACCCTATG-GGGTATTT
** *
37964339 TGGTTATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTAT-GGGGTATTT
* *
37964366 C-GATCATTTTATCTTATGGGGGTATTT
1 CAG-TCATTTTACCCTAT-GGGGTATTT
* *
37964393 CGGTTATTTTACCCTAT
1 CAGTCATTTTACCCTAT
37964410 TTTAGGGTCT
Statistics
Matches: 148, Mismatches: 21, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
25 4 0.03
26 10 0.07
27 125 0.84
28 9 0.06
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.44
Consensus pattern (26 bp):
CAGTCATTTTACCCTATGGGGTATTT
Found at i:37964280 original size:54 final size:51
Alignment explanation
Indices: 37964233--37964409 Score: 192
Period size: 54 Copynumber: 3.3 Consensus size: 51
37964223 GGGTATAACA
*
37964233 GTCATTTTACCCTATGAGGGTATTTCAGTCATTTTACCATATGGGGGTATTCCG
1 GTCATTTTACCCTATG-GGGTATTTC-GTCATTTTACC-TATGGGGGTATTTCG
* * * * *
37964287 ATCATTTTACCTTATGGGTTTATTTCGGTCATTTTACTCTATGAGGGTATTTTG
1 GTCATTTTACCCTATGGG-GTATTTC-GTCATTTTAC-CTATGGGGGTATTTCG
* *
37964341 GTTATTTTACCCTATGGGGGTATTTCGATCATTTTATCTTATGGGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG-TCATTTTA-CCTATGGGGGTATTTCG
*
37964395 GTTATTTTACCCTAT
1 GTCATTTTACCCTAT
37964410 TTTAGGGTCT
Statistics
Matches: 104, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
53 3 0.03
54 96 0.92
55 5 0.05
ACGTcount: A:0.19, C:0.15, G:0.20, T:0.46
Consensus pattern (51 bp):
GTCATTTTACCCTATGGGGTATTTCGTCATTTTACCTATGGGGGTATTTCG
Found at i:37964329 original size:81 final size:81
Alignment explanation
Indices: 37964233--37964409 Score: 264
Period size: 81 Copynumber: 2.2 Consensus size: 81
37964223 GGGTATAACA
37964233 GTCATTTTACCCTATGAGGGTATTTCAGTCATTTTACCATATGGGGGTATTCCGATCATTTTACC
1 GTCATTTTACCCTATGAGGGTATTTCAGTCATTTTACCATATGGGGGTATTCCGATCATTTTACC
**
37964298 TTATGGGTTTATTTCG
66 TTATGGGGGTATTTCG
* ** * * * *
37964314 GTCATTTTACTCTATGAGGGTATTTTGGTTATTTTACCCTATGGGGGTATTTCGATCATTTTATC
1 GTCATTTTACCCTATGAGGGTATTTCAGTCATTTTACCATATGGGGGTATTCCGATCATTTTACC
37964379 TTATGGGGGTATTTCG
66 TTATGGGGGTATTTCG
*
37964395 GTTATTTTACCCTAT
1 GTCATTTTACCCTAT
37964410 TTTAGGGTCT
Statistics
Matches: 85, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 85 1.00
ACGTcount: A:0.19, C:0.15, G:0.20, T:0.46
Consensus pattern (81 bp):
GTCATTTTACCCTATGAGGGTATTTCAGTCATTTTACCATATGGGGGTATTCCGATCATTTTACC
TTATGGGGGTATTTCG
Found at i:37981331 original size:38 final size:38
Alignment explanation
Indices: 37981289--37981368 Score: 115
Period size: 38 Copynumber: 2.1 Consensus size: 38
37981279 ATATAAAACG
* *
37981289 CATACCTGGCACACAAAGTACATACTGGCGCATAAGCA
1 CATACCTGGCACACAAAGTACATACTGGCACACAAGCA
* * *
37981327 CATACCTGGTACACGAAGTGCATACTGGCACACAAGCA
1 CATACCTGGCACACAAAGTACATACTGGCACACAAGCA
37981365 CATA
1 CATA
37981369 ATCCCATACT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.36, C:0.29, G:0.19, T:0.16
Consensus pattern (38 bp):
CATACCTGGCACACAAAGTACATACTGGCACACAAGCA
Found at i:37981335 original size:19 final size:20
Alignment explanation
Indices: 37981289--37981368 Score: 69
Period size: 19 Copynumber: 4.2 Consensus size: 20
37981279 ATATAAAACG
*
37981289 CATACCTGGCACACAAAGTA
1 CATACCTGGCACACAAAGCA
* *
37981309 CATA-CTGGCGCA-TAAGCA
1 CATACCTGGCACACAAAGCA
* * **
37981327 CATACCTGGTACACGAAGTG
1 CATACCTGGCACACAAAGCA
37981347 CATA-CTGGCACAC-AAGCA
1 CATACCTGGCACACAAAGCA
37981365 CATA
1 CATA
37981369 ATCCCATACT
Statistics
Matches: 47, Mismatches: 11, Indels: 6
0.73 0.17 0.09
Matches are distributed among these distances:
18 15 0.32
19 21 0.45
20 11 0.23
ACGTcount: A:0.36, C:0.29, G:0.19, T:0.16
Consensus pattern (20 bp):
CATACCTGGCACACAAAGCA
Found at i:37985937 original size:15 final size:15
Alignment explanation
Indices: 37985914--37985948 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
37985904 TTATGCACGA
37985914 TATTACTATATCTGT
1 TATTACTATATCTGT
*
37985929 TATTTCTATATCTGT
1 TATTACTATATCTGT
*
37985944 GATTA
1 TATTA
37985949 GGGTGGGTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.26, C:0.11, G:0.09, T:0.54
Consensus pattern (15 bp):
TATTACTATATCTGT
Found at i:38001492 original size:18 final size:18
Alignment explanation
Indices: 38001469--38001511 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
38001459 GTTTAAGGTG
38001469 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
38001487 TAATTAATTAAAATTATT
1 TAATTAATTAAAATTATT
38001505 TAATTAA
1 TAATTAA
38001512 AAACCTGTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:38002953 original size:24 final size:22
Alignment explanation
Indices: 38002901--38002954 Score: 54
Period size: 24 Copynumber: 2.3 Consensus size: 22
38002891 GATAAATTCA
**
38002901 TTTAATTATTTTTATTTAAAAT
1 TTTAATTATCATTATTTAAAAT
38002923 TAATTAATTATCATTATTTAAAAGGT
1 T--TTAATTATCATTATTTAAAA--T
38002949 TTTAAT
1 TTTAAT
38002955 GGAAAAGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
22 1 0.04
24 23 0.88
26 2 0.08
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.56
Consensus pattern (22 bp):
TTTAATTATCATTATTTAAAAT
Found at i:38004302 original size:64 final size:65
Alignment explanation
Indices: 38004180--38004302 Score: 176
Period size: 64 Copynumber: 1.9 Consensus size: 65
38004170 TGGGGTTAAC
* * * * **
38004180 TAAATCTTTAGTTTTAATTTATATATAACTGTAACACTAATTAAGTGATAATTTATTTATAGTGT
1 TAAATATTTAGTTTTAATTCATATATAACCGTAACACTAATTAAGTGACAATCAATTTATAGTGT
*
38004245 TAAATATTT-GTTTTAATTCATATATAACCGTAACATTAATTAAGTGACAATCAATTTA
1 TAAATATTTAGTTTTAATTCATATATAACCGTAACACTAATTAAGTGACAATCAATTTA
38004303 AAATAATAGG
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
64 43 0.84
65 8 0.16
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (65 bp):
TAAATATTTAGTTTTAATTCATATATAACCGTAACACTAATTAAGTGACAATCAATTTATAGTGT
Found at i:38005752 original size:5 final size:5
Alignment explanation
Indices: 38005744--38005770 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
38005734 TTTTGGATTC
38005744 AAATA AAATA AAATA AAATA AAATA AA
1 AAATA AAATA AAATA AAATA AAATA AA
38005771 TAGTTTAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:38011135 original size:145 final size:145
Alignment explanation
Indices: 38010872--38011166 Score: 563
Period size: 145 Copynumber: 2.0 Consensus size: 145
38010862 CATAATATAT
38010872 AATATAATATAAGTTATTGCTGATGCAGGATCTCAGCCAAGAATCATATCACAGAGGGGTTGTAG
1 AATATAATATAAGTTATTGCTGATGCAGGATCTCAGCCAAGAATCATATCACAGAGGGGTTGTAG
* *
38010937 TTGCGGCAGTCATCCAAAGAGAAAGCAACAGCATAAAGCTTCCATGGCTGCAAATGACAAACAAG
66 TTGCAGCAGTCATCCAAAGAGAAAGCAACAACATAAAGCTTCCATGGCTGCAAATGACAAACAAG
38011002 ATCACCTTCTTCAAC
131 ATCACCTTCTTCAAC
*
38011017 AATATAATATAAGTTATTGCTGATGCAGGATCTCAGCCCAGAATCATATCACAGAGGGGTTGTAG
1 AATATAATATAAGTTATTGCTGATGCAGGATCTCAGCCAAGAATCATATCACAGAGGGGTTGTAG
38011082 TTGCAGCAGTCATCCAAAGAGAAAGCAACAACATAAAGCTTCCATGGCTGCAAATGACAAACAAG
66 TTGCAGCAGTCATCCAAAGAGAAAGCAACAACATAAAGCTTCCATGGCTGCAAATGACAAACAAG
38011147 ATCACCTTCTTCAAC
131 ATCACCTTCTTCAAC
38011162 AATAT
1 AATAT
38011167 CTTTGAAAAA
Statistics
Matches: 147, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
145 147 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (145 bp):
AATATAATATAAGTTATTGCTGATGCAGGATCTCAGCCAAGAATCATATCACAGAGGGGTTGTAG
TTGCAGCAGTCATCCAAAGAGAAAGCAACAACATAAAGCTTCCATGGCTGCAAATGACAAACAAG
ATCACCTTCTTCAAC
Found at i:38015630 original size:17 final size:18
Alignment explanation
Indices: 38015598--38015635 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
38015588 AATGAGCTTA
*
38015598 AAAAGTATTATGAAAATT
1 AAAAGTATTATGAAAAAT
*
38015616 AAAATTATT-TGAAAAAT
1 AAAAGTATTATGAAAAAT
38015633 AAA
1 AAA
38015636 TAAAACTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.32
Consensus pattern (18 bp):
AAAAGTATTATGAAAAAT
Found at i:38020995 original size:10 final size:10
Alignment explanation
Indices: 38020980--38021021 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
38020970 TATTAAATTT
38020980 TTTTTAATAA
1 TTTTTAATAA
*
38020990 TTTTTATTAAA
1 TTTTTAAT-AA
*
38021001 TTTTAAATAA
1 TTTTTAATAA
38021011 TTTTTAA-AA
1 TTTTTAATAA
38021020 TT
1 TT
38021022 AATTAATTGC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
9 4 0.15
10 15 0.56
11 8 0.30
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:38021027 original size:21 final size:20
Alignment explanation
Indices: 38020980--38021021 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
38020970 TATTAAATTT
*
38020980 TTTTTAATAATTTTTATTAAA
1 TTTTAAATAATTTTTA-TAAA
38021001 TTTTAAATAATTTTTA-AAA
1 TTTTAAATAATTTTTATAAA
38021020 TT
1 TT
38021022 AATTAATTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
21 15 0.75
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTAAATAATTTTTATAAA
Found at i:38035787 original size:165 final size:163
Alignment explanation
Indices: 38035477--38035787 Score: 369
Period size: 165 Copynumber: 1.9 Consensus size: 163
38035467 GTTCAATTAG
* ** * *
38035477 AACAAGGATTTCAGAAATGCATACGGTCAATAGTATAATTACGTCATCAGATCAAAATATTGTGT
1 AACAAGGATTCCAGAAATGCATACAATCAATAGTATAATTACGTCAACAGATCAAAACATTGTGT
* * *
38035542 ACAATAGCAAAAATACATGCAAGTTCAAAAGCAAAGCTAACTCAAGAATGATGCATGGCATAAGG
66 ACAATAGCAAAAATAAATGCAAGTTCAAAAGCAAAGCTAACTCAACAATGATACATGGCATAAGG
*
38035607 CAGTAACCAATGTAATCAAAGACAACAGGAATC
131 CAGAAACCAATGTAATCAAAGACAACAGGAATC
* * *
38035640 AACAAGGATTCCA-AAACTGCATATAATCAA-AGTATAATTATGTCAACAGATCAATACATTCAG
1 AACAAGGATTCCAGAAA-TGCATACAATCAATAGTATAATTACGTCAACAGATCAAAACATT--G
* * * *
38035703 T-TACAAATAGCAAAAATAAAATGCAAGTTTAAAAGCAGAA-CTAGCTCAACAATGATATATGGT
63 TGTAC-AATAGCAAAAAT-AAATGCAAGTTCAAAAGCA-AAGCTAACTCAACAATGATACATGGC
* * *
38035766 GTATGGCAGAAACCTATGTAAT
125 ATAAGGCAGAAACCAATGTAAT
38035788 GCACCATGGA
Statistics
Matches: 123, Mismatches: 19, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
162 29 0.24
163 25 0.20
164 14 0.11
165 53 0.43
166 2 0.02
ACGTcount: A:0.45, C:0.16, G:0.16, T:0.23
Consensus pattern (163 bp):
AACAAGGATTCCAGAAATGCATACAATCAATAGTATAATTACGTCAACAGATCAAAACATTGTGT
ACAATAGCAAAAATAAATGCAAGTTCAAAAGCAAAGCTAACTCAACAATGATACATGGCATAAGG
CAGAAACCAATGTAATCAAAGACAACAGGAATC
Found at i:38041559 original size:84 final size:84
Alignment explanation
Indices: 38041415--38041616 Score: 359
Period size: 84 Copynumber: 2.4 Consensus size: 84
38041405 CAGATAGAGC
* *
38041415 AGAATATGTATCCTCCAGCTCCTTAGCAAGTTGAGAAGATGATTGGGGAGTTTTGTCAACAAAAG
1 AGAATATTTATCCTCCAGCTCCTTAGCAAGTTGAGAAGATGATTGGGGAGTTTTGCCAACAAAAG
38041480 GTTTCCAGGCAGCAATTCT
66 GTTTCCAGGCAGCAATTCT
38041499 AGAATATTTATCCTCCAGCTCCTTAGCAAGTTGAGAAGATGATTGGGGAGTTTTGCCAACAAAAG
1 AGAATATTTATCCTCCAGCTCCTTAGCAAGTTGAGAAGATGATTGGGGAGTTTTGCCAACAAAAG
38041564 GTTTCCAGGCAGCAATTCT
66 GTTTCCAGGCAGCAATTCT
* * *
38041583 GGAATATTTATCCTCCACCTCTTTAGCAAGTTGA
1 AGAATATTTATCCTCCAGCTCCTTAGCAAGTTGA
38041617 TCAGAAGACA
Statistics
Matches: 113, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 113 1.00
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (84 bp):
AGAATATTTATCCTCCAGCTCCTTAGCAAGTTGAGAAGATGATTGGGGAGTTTTGCCAACAAAAG
GTTTCCAGGCAGCAATTCT
Found at i:38047062 original size:25 final size:25
Alignment explanation
Indices: 38047034--38047103 Score: 86
Period size: 26 Copynumber: 2.8 Consensus size: 25
38047024 CGATATATGT
38047034 CTCTTCGGAGCTTCCCGATTAAAAG
1 CTCTTCGGAGCTTCCCGATTAAAAG
* * *
38047059 CTCTTTGTGAGCTTCCTGATTAATAG
1 CTCTTCG-GAGCTTCCCGATTAAAAG
**
38047085 CTCTTCAAAGCTTCCCGAT
1 CTCTTCGGAGCTTCCCGAT
38047104 ATGGCTCGCT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
25 16 0.43
26 21 0.57
ACGTcount: A:0.21, C:0.27, G:0.17, T:0.34
Consensus pattern (25 bp):
CTCTTCGGAGCTTCCCGATTAAAAG
Found at i:38049269 original size:14 final size:15
Alignment explanation
Indices: 38049241--38049269 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
38049231 CAGTTAATTG
38049241 TACTTTAGTTACTTT
1 TACTTTAGTTACTTT
38049256 TACTTTAG-TACTTT
1 TACTTTAGTTACTTT
38049270 AGTAAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.21, C:0.14, G:0.07, T:0.59
Consensus pattern (15 bp):
TACTTTAGTTACTTT
Found at i:38051653 original size:50 final size:50
Alignment explanation
Indices: 38051572--38051677 Score: 140
Period size: 50 Copynumber: 2.1 Consensus size: 50
38051562 ATGGCCGTGT
* *
38051572 GTTAGGCCGTGTGGGGGCACACGAGCATGTGCGATTACACGGGCAAATCA
1 GTTAGGCCATATGGGGGCACACGAGCATGTGCGATTACACGGGCAAATCA
* * * * *
38051622 GTTAGGCCATATGGGGGCAGACGGGCGTGTGCTATTACATGGGCAAATCA
1 GTTAGGCCATATGGGGGCACACGAGCATGTGCGATTACACGGGCAAATCA
*
38051672 GGTAGG
1 GTTAGG
38051678 TCGTGTGGGA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.24, C:0.19, G:0.38, T:0.20
Consensus pattern (50 bp):
GTTAGGCCATATGGGGGCACACGAGCATGTGCGATTACACGGGCAAATCA
Found at i:38054404 original size:12 final size:12
Alignment explanation
Indices: 38054387--38054412 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
38054377 CAAAACGAGC
38054387 TTTTAGCGGCGT
1 TTTTAGCGGCGT
38054399 TTTTAGCGGCGT
1 TTTTAGCGGCGT
38054411 TT
1 TT
38054413 GAATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:38054920 original size:114 final size:114
Alignment explanation
Indices: 38054482--38055018 Score: 706
Period size: 114 Copynumber: 4.7 Consensus size: 114
38054472 CAATAAGCAA
* * *
38054482 AAAGCGCCGCGAAAAACCTAATCTAAAACGACGCAGTTTTGTGAGCTTT-GTGGATTTAGTGGCG
1 AAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTTCGGGGATTTAGTGGCG
*
38054546 TTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTTTAG-GGCGTTTTTGAG
66 TTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAG
* * *
38054594 AAAGCGCCGCAAAAAACCTAATCCAAAACGATGCAGTTTTGTGAGCTTT-GTGGATTTAGCGGCG
1 AAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTTCGGGGATTTAGTGGCG
* *
38054658 TTTTTAAGGAAGCGCCGCTAATGCTCACGGCTTTAGCGGCGTTTTTGAG
66 TTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAG
* * ** *
38054707 ATAGCGCTGCAAAAAACCTAATGTAAAACGACGCAGTTTTTGTGAGCTTTCGGAGATTTAGTGGC
1 AAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAG-TTTTGTGAGCTTTCGGGGATTTAGTGGC
*
38054772 GTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGG
65 GTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAG
* * *
38054822 AAAGCGCCACAAAAAACCTAATCCAAAACGACGCCGTTTTGTGAGCTTTCGGGGATTTAGCGGCG
1 AAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTTCGGGGATTTAGTGGCG
* * * ** * * *
38054887 TTTTTTAGAAAGCGTCACTAATGCTCAAAGCTTTAGCAGCATTTTTGGGG
66 TTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTT-GAG
* * * * * * *
38054937 ATA-TGCCGCAAAAAAACCTAAGCC-AAACGACACCGTTTTTTGAGCTTTCGGGCATTTAGTGGC
1 AAAGCGCCGC-AAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTTCGGGGATTTAGTGGC
*
38055000 GTTTTTGAGAAAGCGCCGC
65 GTTTTTAAGAAAGCGCCGC
38055019 AAAAAACCTA
Statistics
Matches: 378, Mismatches: 42, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
112 95 0.25
113 43 0.11
114 134 0.35
115 106 0.28
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (114 bp):
AAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTTCGGGGATTTAGTGGCG
TTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAG
Found at i:38055053 original size:72 final size:73
Alignment explanation
Indices: 38054941--38055087 Score: 215
Period size: 72 Copynumber: 2.0 Consensus size: 73
38054931 TTGGGGATAT
* * **
38054941 GCCGCAAAAAAACCTAAGCCAAACGACACCGTTTTTTGAGCTTTCGGGCATTTAGTGGCGTTTTT
1 GCCGCAAAAAAACCTAAGCCAAACGACACCATTTTCTGAGCTTTCGGGCATTTAACGGCGTTTTT
38055006 GAGAAAGC
66 GAGAAAGC
* * *
38055014 GCCGC-AAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCTTTCGGGGATTTAACGGCGTTTTT
1 GCCGCAAAAAAACCTAAGCCAAACGACACCATTTTCTGAGCTTTCGGGCATTTAACGGCGTTTTT
*
38055078 TAGAAAGC
66 GAGAAAGC
38055086 GC
1 GC
38055088 GGCTAATTCT
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
72 61 0.92
73 5 0.08
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (73 bp):
GCCGCAAAAAAACCTAAGCCAAACGACACCATTTTCTGAGCTTTCGGGCATTTAACGGCGTTTTT
GAGAAAGC
Found at i:38055179 original size:302 final size:301
Alignment explanation
Indices: 38054689--38055393 Score: 884
Period size: 302 Copynumber: 2.3 Consensus size: 301
38054679 TGCTCACGGC
* * * *
38054689 TTTAGCGGCGTTTTTGAGATAGCGCTGCAAAAAACCTAATGTAAAACGACG-CAGTTTTTGTGAG
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGGCAAAACGACGCCA--TTTTGTGAG
* *
38054753 CTTTCGGAGATTTAGTGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTT
64 CTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTT
* * * * * *
38054818 TGGGAAAGCGCCACAAAAAACCTAATCCAAAACGACGCCGTTTTGTGAGCTTTCGGGGATTTAGC
129 TGGGAAAGCGCAAAAAAAAAACTAAGCCAAAACGACGCCGTTTTCTGAGCTATCGGGGATTTAGC
* * * *
38054883 GGCGTTTTTTAGAAAGCGTCACTAATGCTCAAAGCTTTAGCAGCATTTTTGGGGATATGC-CGCA
194 GGCATTTTTAAGAAAGCGCCACTAATGCTCAAAGCTTTAGCAGCATTTTT-GGGA-AAGCGC-CA
*
38054947 -AAAAAACCTAAGCC-AAACGACACCGTTTTTTGAGCTTTCGGGCA
256 CAAAAAACCTAAGCCAAAACGACACCGTTTTGTGAGCTTTCGGGCA
* ** *
38054991 TTTAGTGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAA-GCCCAACGACGCCATTTTCTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGGCAAAACGACGCCATTTTGTGAGCT
* * * * *
38055055 TTCGGGGATTTAACGGCGTTTTTTAGAAAGCGCGGCTAATTCTCAGGGCTTTAG-GGTGTTTTTG
66 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTG
* * **
38055119 GGAAGTGCCGCAAAAAATAAAAACTAAGCC-CAACGGTGCCGTTTTCTGAGCTATCGGGGATTTA
131 GGAA-AG-CGC-AAAAA-AAAAACTAAGCCAAAACGACGCCGTTTTCTGAGCTATCGGGGATTTA
* ** * *
38055183 GCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCAC
192 GCGGCATTTTTAAGAAAGCGCCACTAATGCTCAAAGCTTTAGCAGCATTTTTGGGAAAGCGCCAC
* * *
38055248 AAAAAACCTAATCCAAAACGACGCCGTTTTGTGAGCTTTCGGGGA
257 AAAAAACCTAAGCCAAAACGACACCGTTTTGTGAGCTTTCGGGCA
* * * * *
38055293 TTTAGCGGCGTTTTTTAGAAAGCGCCGCAAAAAACATAAGGCAAAACGACTCCGTTTTGTGTGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGGCAAAACGACGCCATTTTGTGAGCT
*
38055358 TTCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGC
66 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGC
38055394 AAAAAAACCT
Statistics
Matches: 344, Mismatches: 50, Indels: 17
0.84 0.12 0.04
Matches are distributed among these distances:
299 13 0.04
300 64 0.19
301 29 0.08
302 177 0.51
303 61 0.18
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (301 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGGCAAAACGACGCCATTTTGTGAGCT
TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTG
GGAAAGCGCAAAAAAAAAACTAAGCCAAAACGACGCCGTTTTCTGAGCTATCGGGGATTTAGCGG
CATTTTTAAGAAAGCGCCACTAATGCTCAAAGCTTTAGCAGCATTTTTGGGAAAGCGCCACAAAA
AACCTAAGCCAAAACGACACCGTTTTGTGAGCTTTCGGGCA
Found at i:38055307 original size:114 final size:112
Alignment explanation
Indices: 38054986--38055320 Score: 427
Period size: 116 Copynumber: 2.9 Consensus size: 112
38054976 TTGAGCTTTC
* * *
38054986 GGGCATTTAGTGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCATTTTCTG
1 GGGC-TTTAG-GGCGTTTTTGGGAAAGCGCCACAAAAAACCTAAGCCCAACGACGCCGTTTTCTG
* * *
38055051 AGCTTTCGGGGATTTAACGGCGTTTTTTAGAAAGCGCGGCTAATTCTCA
64 AGCTTTCGGGGATTTAGCGGCGTTTTTTAGAAAGCGCCGCTAATGCTCA
* * * * * **
38055100 GGGCTTTAGGGTGTTTTTGGGAAGTGCCGCAAAAAATAAAAACTAAGCCCAACGGTGCCGTTTTC
1 GGGCTTTAGGGCGTTTTTGGGAA-AG-CGC-CACAA-AAAACCTAAGCCCAACGACGCCGTTTTC
* * *
38055165 TGAGCTATCGGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCA
62 TGAGCTTTCGGGGATTTAGCGGCGTTTTTTAGAAAGCGCCGCTAATGCTCA
* * *
38055216 GGGCTTTAGCGGCGTTTTTGGGAAAGCGCCACAAAAAACCTAATCCAAAACGACGCCGTTTTGTG
1 GGGCTTTAG-GGCGTTTTTGGGAAAGCGCCACAAAAAACCTAAGCC-CAACGACGCCGTTTTCTG
38055281 AGCTTTCGGGGATTTAGCGGCGTTTTTTAGAAAGCGCCGC
64 AGCTTTCGGGGATTTAGCGGCGTTTTTTAGAAAGCGCCGC
38055321 AAAAAACATA
Statistics
Matches: 186, Mismatches: 29, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
112 12 0.06
113 16 0.09
114 61 0.33
115 5 0.03
116 79 0.42
117 13 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (112 bp):
GGGCTTTAGGGCGTTTTTGGGAAAGCGCCACAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAG
CTTTCGGGGATTTAGCGGCGTTTTTTAGAAAGCGCCGCTAATGCTCA
Found at i:38055339 original size:73 final size:73
Alignment explanation
Indices: 38055220--38055446 Score: 301
Period size: 73 Copynumber: 3.1 Consensus size: 73
38055210 TGCTCAGGGC
** * * *
38055220 TTTAGCGGCGTTTTTGGGAAAGCGCCACAAAAAACCTAATCCAAAACGACGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACACCGTTTTGTGAGCT
38055285 TTCGGGGA
66 TTCGGGGA
* * * * *
38055293 TTTAGCGGCGTTTTTTAGAAAGCGCCGCAAAAAACATAAGGCAAAACGACTCCGTTTTGTGTGCT
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACACCGTTTTGTGAGCT
38055358 TTCGGGGA
66 TTCGGGGA
* * * * *
38055366 TTTAGCGGCGTTTTTAAGGAAGCGCCGCAAAAAAACCTAAGCCAAAACTACACCTTTTTTTGCGC
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGC-AAAAAACCTAAGCCAAAACGACACCGTTTTGTGAGC
*
38055431 TTTCAGGGA
65 TTTCGGGGA
38055440 TTTAGCG
1 TTTAGCG
38055447 ATGTTTAATT
Statistics
Matches: 135, Mismatches: 18, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
73 91 0.67
74 44 0.33
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (73 bp):
TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACACCGTTTTGTGAGCT
TTCGGGGA
Found at i:38055836 original size:17 final size:17
Alignment explanation
Indices: 38055805--38055848 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
38055795 TAGGGAGTAT
38055805 TTATGGATT--TAGGGA
1 TTATGGATTAATAGGGA
38055820 TTATGGATTAATAGGGA
1 TTATGGATTAATAGGGA
*
38055837 TTATGGTTTAAT
1 TTATGGATTAAT
38055849 TAAGGGCATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 9 0.35
17 17 0.65
ACGTcount: A:0.30, C:0.00, G:0.27, T:0.43
Consensus pattern (17 bp):
TTATGGATTAATAGGGA
Found at i:38065412 original size:43 final size:43
Alignment explanation
Indices: 38065346--38065488 Score: 173
Period size: 43 Copynumber: 3.3 Consensus size: 43
38065336 GGTCTTTGAT
* *
38065346 CTATAGTGGCGTTTGTGGTAAAAGCGCCGCTAAATAT-CTAAAG
1 CTATAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGATCCT-AAG
* * *
38065389 CTATAGCGGCGTTTGTTAG-AAAAGCGCCGCTAAAGATCCTGAT
1 CTATAGCGGCGTTTG-TGGTAAAAGCGCCGCTAAAGATCCTAAG
* * * *
38065432 CTATAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCATGAT
1 CTATAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGATCCTAAG
38065475 CTATAGCGGCGTTT
1 CTATAGCGGCGTTT
38065489 ATTTCTAAAA
Statistics
Matches: 89, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
42 2 0.02
43 83 0.93
44 4 0.04
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (43 bp):
CTATAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGATCCTAAG
Found at i:38065460 original size:86 final size:87
Alignment explanation
Indices: 38065305--38065465 Score: 243
Period size: 86 Copynumber: 1.9 Consensus size: 87
38065295 ATGGTGTTTT
** ** * * *
38065305 TAGCGGCGTTTGTAATCAAAGCGTTGCTAAAGGTCTTTGATCTATAGTGGCGTTTGTGGTAAAAG
1 TAGCGGCGTTTGTAAGAAAAGCGCCGCTAAAGATCTCTGATCTATAGCGGCGTTTGTGGTAAAAG
38065370 CGCCGCTAAATATCTAAAGCTA
66 CGCCGCTAAATATCTAAAGCTA
*
38065392 TAGCGGCGTTTGTTAGAAAAGCGCCGCTAAAGATC-CTGATCTATAGCGGCGTTTGTGGTAAAAG
1 TAGCGGCGTTTGTAAGAAAAGCGCCGCTAAAGATCTCTGATCTATAGCGGCGTTTGTGGTAAAAG
38065456 CGCCGCTAAA
66 CGCCGCTAAA
38065466 GGTCATGATC
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
86 37 0.56
87 29 0.44
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (87 bp):
TAGCGGCGTTTGTAAGAAAAGCGCCGCTAAAGATCTCTGATCTATAGCGGCGTTTGTGGTAAAAG
CGCCGCTAAATATCTAAAGCTA
Found at i:38065479 original size:86 final size:87
Alignment explanation
Indices: 38065305--38065488 Score: 237
Period size: 86 Copynumber: 2.1 Consensus size: 87
38065295 ATGGTGTTTT
** ** * * *
38065305 TAGCGGCGTTTGTAATCAAAGCGTTGCTAAAGGTCTTTGATCTATAGTGGCGTTTGTGGTAAAAG
1 TAGCGGCGTTTGTAAGAAAAGCGCCGCTAAAGATCTCTGATCTATAGCGGCGTTTGTGGTAAAAG
*
38065370 CGCCGCTAAATATCTAAAGCTA
66 CGCCGCTAAAGATCTAAAGCTA
*
38065392 TAGCGGCGTTTGTTAGAAAAGCGCCGCTAAAGATC-CTGATCTATAGCGGCGTTTGTGGTAAAAG
1 TAGCGGCGTTTGTAAGAAAAGCGCCGCTAAAGATCTCTGATCTATAGCGGCGTTTGTGGTAAAAG
* * *
38065456 CGCCGCTAAAGGTC-ATGATCTA
66 CGCCGCTAAAGATCTA-AAGCTA
38065478 TAGCGGCGTTT
1 TAGCGGCGTTT
38065489 ATTTCTAAAA
Statistics
Matches: 84, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
85 1 0.01
86 54 0.64
87 29 0.35
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (87 bp):
TAGCGGCGTTTGTAAGAAAAGCGCCGCTAAAGATCTCTGATCTATAGCGGCGTTTGTGGTAAAAG
CGCCGCTAAAGATCTAAAGCTA
Found at i:38076826 original size:15 final size:15
Alignment explanation
Indices: 38076806--38076837 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
38076796 AAATACTTAT
38076806 AATTCAATTTAAACA
1 AATTCAATTTAAACA
38076821 AATTCAATTTAAACA
1 AATTCAATTTAAACA
38076836 AA
1 AA
38076838 CTTATCTTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (15 bp):
AATTCAATTTAAACA
Found at i:38080188 original size:18 final size:19
Alignment explanation
Indices: 38080165--38080202 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
38080155 TTTTTTAAAA
38080165 TATAAAT-TTTGGAATTTT
1 TATAAATATTTGGAATTTT
*
38080183 TATAAATATTTTGAATTTT
1 TATAAATATTTGGAATTTT
38080202 T
1 T
38080203 GAAATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (19 bp):
TATAAATATTTGGAATTTT
Found at i:38080230 original size:22 final size:20
Alignment explanation
Indices: 38080189--38080231 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
38080179 TTTTTATAAA
38080189 TATTTTGAATTTTTGAAATT
1 TATTTTGAATTTTTGAAATT
*
38080209 TATTTTGAACTATTTTGTAATT
1 TATTTTGAA-T-TTTTGAAATT
38080231 T
1 T
38080232 TTGTTGAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
21 1 0.05
22 10 0.50
ACGTcount: A:0.28, C:0.02, G:0.09, T:0.60
Consensus pattern (20 bp):
TATTTTGAATTTTTGAAATT
Found at i:38083699 original size:17 final size:18
Alignment explanation
Indices: 38083664--38083701 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
38083654 AGGACCTCCA
38083664 ATTTAAAATTTTATAGCT
1 ATTTAAAATTTTATAGCT
*
38083682 ATTTAATATTTT-TAGCT
1 ATTTAAAATTTTATAGCT
38083699 ATT
1 ATT
38083702 AGAACTCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.55
Consensus pattern (18 bp):
ATTTAAAATTTTATAGCT
Found at i:38086964 original size:50 final size:48
Alignment explanation
Indices: 38086791--38087025 Score: 201
Period size: 50 Copynumber: 4.9 Consensus size: 48
38086781 GGATGTTTCC
* * * * *
38086791 TGTCC-TGCCAATGCCATATCCCAGATATGGTCTTACA-TGGGA-TCACA
1 TGTCCGTGCCGATGCCATGTCCCAGACATGGTCTTACACT--GACTCTCT
* * * * * *
38086838 TATCAGTGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCA
1 TGTCCGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCT
* ** *
38086886 TCT-CAAGCCGATGCCATGTCCCAAACATGGTCTTACACTGACTCTTCTT
1 TGTCCGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTC-TC-T
*
38086935 TGTCCGTGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCACTC-CT
1 TGTCCGTGCCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACTCTCT
* * *
38086984 CGAACTGTGCCGATGCCATGTCCCAGACATGGTCTTACACTG
1 TG-TCCGTGCCGATGCCATGTCCCAGACATGGTCTTACACTG
38087026 GCATACTCAC
Statistics
Matches: 152, Mismatches: 27, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
47 38 0.25
48 35 0.23
49 6 0.04
50 68 0.45
51 1 0.01
52 4 0.03
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.28
Consensus pattern (48 bp):
TGTCCGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCT
Found at i:38090025 original size:26 final size:26
Alignment explanation
Indices: 38089983--38090034 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
38089973 TTTAATTTAT
38089983 CAAATCATATATCTATATATCATGTA
1 CAAATCATATATCTATATATCATGTA
* *
38090009 CAAATCAT-TTTCATATATCTCATGTA
1 CAAATCATATATC-TATATATCATGTA
38090035 AATACCTGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 3 0.13
26 20 0.87
ACGTcount: A:0.38, C:0.17, G:0.04, T:0.40
Consensus pattern (26 bp):
CAAATCATATATCTATATATCATGTA
Found at i:38090196 original size:25 final size:25
Alignment explanation
Indices: 38090165--38090222 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
38090155 GCTATAAACG
*
38090165 GTAAGCTCCTCCGAGCTGAATAACA
1 GTAAGCTCCTCCAAGCTGAATAACA
** *
38090190 GTAAGCTATTCCAAGCTGAATAACG
1 GTAAGCTCCTCCAAGCTGAATAACA
38090215 GTAAGCTC
1 GTAAGCTC
38090223 AAAAGAGCTG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (25 bp):
GTAAGCTCCTCCAAGCTGAATAACA
Found at i:38102221 original size:82 final size:85
Alignment explanation
Indices: 38102135--38102304 Score: 204
Period size: 86 Copynumber: 2.0 Consensus size: 85
38102125 AAAAACCCTG
* * * * *
38102135 AAAAC-CTCAACCATACCATTTTAGTATTTAATTT-GTTTTTT-AT-ACTAATTAAGAAGCATAC
1 AAAACTCTCAAACATACCATTTCAGTATTT-ATTTAGTTTTTTCATAACTAAGTAACAAACATAC
38102196 AAATAAATAATAATACAAAAA
65 AAATAAATAATAATACAAAAA
* * * *
38102217 AAAACTTCTCAAATATATCATTTCAGTATTTATTTAGTTTTTTCATAATTAAGTGACAAACATAC
1 AAAAC-TCTCAAACATACCATTTCAGTATTTATTTAGTTTTTTCATAACTAAGTAACAAACATAC
*
38102282 AAATAAATAATACTACAAAAA
65 AAATAAATAATAATACAAAAA
38102303 AA
1 AA
38102305 TTAAAACCCT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
82 5 0.07
83 4 0.05
84 27 0.37
85 2 0.03
86 35 0.48
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.35
Consensus pattern (85 bp):
AAAACTCTCAAACATACCATTTCAGTATTTATTTAGTTTTTTCATAACTAAGTAACAAACATACA
AATAAATAATAATACAAAAA
Found at i:38109091 original size:16 final size:17
Alignment explanation
Indices: 38109070--38109102 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
38109060 GGGTTCTGGC
*
38109070 TTATAT-TATGTTATTT
1 TTATATATATGTAATTT
38109086 TTATATATATGTAATTT
1 TTATATATATGTAATTT
38109103 AGAATACATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (17 bp):
TTATATATATGTAATTT
Found at i:38111831 original size:5 final size:5
Alignment explanation
Indices: 38111823--38111850 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
38111813 TTCTTCAGTC
38111823 TATTT TATTT TATTT TATTT TATTT TAT
1 TATTT TATTT TATTT TATTT TATTT TAT
38111851 CAAAAACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TATTT
Found at i:38112653 original size:16 final size:16
Alignment explanation
Indices: 38112632--38112664 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
38112622 CATTTTCTAA
*
38112632 TTCATATGCATTTTTT
1 TTCATATACATTTTTT
38112648 TTCATATACATTTTTT
1 TTCATATACATTTTTT
38112664 T
1 T
38112665 AGAAATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.12, G:0.03, T:0.64
Consensus pattern (16 bp):
TTCATATACATTTTTT
Found at i:38116409 original size:20 final size:20
Alignment explanation
Indices: 38116384--38116423 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
38116374 TTCACCTCAT
38116384 GCATCGCATCATATGCATTA
1 GCATCGCATCATATGCATTA
38116404 GCATCGCATCATATGCATTA
1 GCATCGCATCATATGCATTA
38116424 AAGACCTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (20 bp):
GCATCGCATCATATGCATTA
Found at i:38124602 original size:44 final size:45
Alignment explanation
Indices: 38124492--38124908 Score: 360
Period size: 45 Copynumber: 9.3 Consensus size: 45
38124482 TGAAAAGTAA
* * * *
38124492 CAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGGTCAAAGAAAG
1 CAGATCTTGTCTTCCCATACTGGTCGTGAAGCAGATCAAAGAAAC
*** * *
38124537 CAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGATAC
1 CAGATCTTGTCTTCCCATACTGGTCGTGAAGCAGATCAAAGAAAC
* * * * *
38124581 CAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGGTCAAAGAAAG
1 CAGATCTTGTCTTCCCATACTGGTCGTGAAGCAGATCAAAGAAAC
** *
38124626 CAGATCTTGTCTTCATATACTGG-CGTGAAGTAGATCAAAGATAA-
1 CAGATCTTGTCTTCCCATACTGGTCGTGAAGCAGATCAAAGA-AAC
* * * * *
38124670 CAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGGTCAAAGAAAG
1 CAGATCTTGTCTTCCCATACTGGTCGTGAAGCAGATCAAAGAAAC
*** * *
38124715 CAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGATAC
1 CAGATCTTGTCTTCCCATACTGGTCGTGAAGCAGATCAAAGAAAC
* * * ** *
38124759 CAGATCTTGTCTCCCCATACTGGTGGTGGAGCAGATTGAAGAAAAA
1 CAGATCTTGTCTTCCCATACTGGTCGTGAAGCAGATCAAAG-AAAC
* * *** * *
38124805 TAGATATTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGATAC
1 CAGATCTTGTCTTCCCATACTGGTCGTGAAGCAGATCAAAGAAAC
* * * *
38124849 CAGATCTTGTCTCCCCATACTGGTGGTGGAA-CAGATTAAAGAAAAG
1 CAGATCTTGTCTTCCCATACTGGTCGT-GAAGCAGATCAAAG-AAAC
38124895 CAGATCTTGTCTTC
1 CAGATCTTGTCTTC
38124909 ATGTATCGGT
Statistics
Matches: 284, Mismatches: 79, Indels: 17
0.75 0.21 0.04
Matches are distributed among these distances:
44 123 0.43
45 124 0.44
46 37 0.13
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (45 bp):
CAGATCTTGTCTTCCCATACTGGTCGTGAAGCAGATCAAAGAAAC
Found at i:38124647 original size:89 final size:89
Alignment explanation
Indices: 38124492--38124960 Score: 672
Period size: 89 Copynumber: 5.2 Consensus size: 89
38124482 TGAAAAGTAA
38124492 CAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGGTCAAAGAAAGCAGATCTTGTCTTCATGTAC
1 CAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGGTCAAAGAAAGCAGATCTTGTCTTCATGTAC
38124557 TGGCGTGAAGTAGATCAAAGATAC
66 TGGCGTGAAGTAGATCAAAGATAC
* *
38124581 CAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGGTCAAAGAAAGCAGATCTTGTCTTCATATAC
1 CAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGGTCAAAGAAAGCAGATCTTGTCTTCATGTAC
*
38124646 TGGCGTGAAGTAGATCAAAGATAA
66 TGGCGTGAAGTAGATCAAAGATAC
*
38124670 CAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGGTCAAAGAAAGCAGATCTTGTCTTCATGTAC
1 CAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGGTCAAAGAAAGCAGATCTTGTCTTCATGTAC
38124735 TGGCGTGAAGTAGATCAAAGATAC
66 TGGCGTGAAGTAGATCAAAGATAC
* * * * ** ** *
38124759 CAGATCTTGTCTCCCCATACTGGTGGTGGAGCAGATTGAAGAAAAATAGATATTGTCTTCATGTA
1 CAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGGTCAAAG-AAAGCAGATCTTGTCTTCATGTA
38124824 CTGGCGTGAAGTAGATCAAAGATAC
65 CTGGCGTGAAGTAGATCAAAGATAC
* * * *
38124849 CAGATCTTGTCTCCCCATACTGGTGGTGGAA-CAGATTAAAGAAAAGCAGATCTTGTCTTCATGT
1 CAGATCTTGTCTTCCCATACTGGTGG-CGAAGCAGGTCAAAG-AAAGCAGATCTTGTCTTCATGT
* * * *
38124913 A-TCGGTGTGAAGTAGATCAAATACAA
64 ACT-GGCGTGAAGTAGATCAAAGATAC
* * *
38124939 CAAATATTGTCTCCCCATACTG
1 CAGATCTTGTCTTCCCATACTG
38124961 ATGGTGGAAT
Statistics
Matches: 350, Mismatches: 27, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
89 208 0.59
90 140 0.40
91 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.26
Consensus pattern (89 bp):
CAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGGTCAAAGAAAGCAGATCTTGTCTTCATGTAC
TGGCGTGAAGTAGATCAAAGATAC
Found at i:38126834 original size:16 final size:16
Alignment explanation
Indices: 38126813--38126845 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
38126803 CATTTTCTAA
*
38126813 TTCATATGCATTTTTT
1 TTCATATACATTTTTT
38126829 TTCATATACATTTTTT
1 TTCATATACATTTTTT
38126845 T
1 T
38126846 AGAAATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.12, G:0.03, T:0.64
Consensus pattern (16 bp):
TTCATATACATTTTTT
Found at i:38129044 original size:15 final size:17
Alignment explanation
Indices: 38129026--38129059 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
38129016 GATTTTCTTT
38129026 AATAAT-AATAT-TTTA
1 AATAATAAATATATTTA
38129041 AATAATAAATATATTTA
1 AATAATAAATATATTTA
38129058 AA
1 AA
38129060 CATCCTGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 5 0.29
17 6 0.35
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AATAATAAATATATTTA
Found at i:38130482 original size:27 final size:23
Alignment explanation
Indices: 38130456--38130501 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
38130446 AAGCAGAACA
38130456 AACAGAGTCAAATGTGTGGGTTT
1 AACAGAGTCAAATGTGTGGGTTT
38130479 AACAGAGTCAAATGTGTGGGTTT
1 AACAGAGTCAAATGTGTGGGTTT
38130502 TCAGGCTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.09, G:0.30, T:0.30
Consensus pattern (23 bp):
AACAGAGTCAAATGTGTGGGTTT
Found at i:38139150 original size:36 final size:34
Alignment explanation
Indices: 38139101--38139224 Score: 94
Period size: 36 Copynumber: 3.6 Consensus size: 34
38139091 CCAGATCTTG
38139101 CCAAGCTCCTGAACGAGATATCAGGTATTCTCAATC
1 CCAAGCTCCTGAACGAGATATCA-G-ATTCTCAATC
* * *
38139137 CCAAGCTCTTGAACGCGATATC-GAGTCT---TC
1 CCAAGCTCCTGAACGAGATATCAGATTCTCAATC
* * * * *
38139167 CCAAACTCTTGAACAAGATAACAAGCCTTCTCAATC
1 CCAAGCTCCTGAACGAGATATC-AG-ATTCTCAATC
* *
38139203 CCAAGATCCTAAACGAGATATC
1 CCAAGCTCCTGAACGAGATATC
38139225 GAGTCTTCTC
Statistics
Matches: 67, Mismatches: 15, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
30 20 0.30
32 1 0.01
33 7 0.10
34 1 0.01
36 38 0.57
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.23
Consensus pattern (34 bp):
CCAAGCTCCTGAACGAGATATCAGATTCTCAATC
Found at i:38141286 original size:30 final size:31
Alignment explanation
Indices: 38141237--38141294 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
38141227 TGGAATAAAA
*
38141237 ACAAACAACAAAATACAAAACACCAACACAC
1 ACAAACAACAAAATACAAAACACAAACACAC
* *
38141268 ACAAA-AACAAATTGCAAAACACAAACA
1 ACAAACAACAAAATACAAAACACAAACA
38141295 ATAACAACAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 19 0.79
31 5 0.21
ACGTcount: A:0.66, C:0.28, G:0.02, T:0.05
Consensus pattern (31 bp):
ACAAACAACAAAATACAAAACACAAACACAC
Found at i:38141307 original size:30 final size:30
Alignment explanation
Indices: 38141235--38141309 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
38141225 ATTGGAATAA
*
38141235 AAACAAACAACAAAATACAAAACACCAACAC
1 AAAC-AACAACAAAATACAAAACACAAACAC
* * * *
38141266 ACACAAAAACAAATTGCAAAACACAAACA-
1 AAACAACAACAAAATACAAAACACAAACAC
38141295 ATAACAACAACAAAA
1 A-AACAACAACAAAA
38141310 CAAAAGAAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
29 1 0.03
30 31 0.89
31 3 0.09
ACGTcount: A:0.68, C:0.25, G:0.01, T:0.05
Consensus pattern (30 bp):
AAACAACAACAAAATACAAAACACAAACAC
Found at i:38145080 original size:25 final size:25
Alignment explanation
Indices: 38145029--38145094 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 25
38145019 AGTCTGGATA
* *
38145029 AGCTTCTCGTTATATGGCTCAGAAG
1 AGCTTCCCGTTATATGGCTAAGAAG
*
38145054 AGCTTCCCGTTATTTGGCTTAAGAGAG
1 AGCTTCCCGTTATATGGC-TAAGA-AG
*
38145081 GGCTTCCCGATTAT
1 AGCTTCCCG-TTAT
38145095 GTGCTCTAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 16 0.47
26 4 0.12
27 10 0.29
28 4 0.12
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.33
Consensus pattern (25 bp):
AGCTTCCCGTTATATGGCTAAGAAG
Found at i:38150066 original size:29 final size:29
Alignment explanation
Indices: 38150024--38150080 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
38150014 ATTGAAGTTA
*
38150024 AATTTGTCAAGAATGTATTAATTTCAACT
1 AATTTGCCAAGAATGTATTAATTTCAACT
*
38150053 AATTTGCCAAGAATGTATTAGTTTCAAC
1 AATTTGCCAAGAATGTATTAATTTCAAC
38150081 CTTTTTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (29 bp):
AATTTGCCAAGAATGTATTAATTTCAACT
Found at i:38151551 original size:17 final size:19
Alignment explanation
Indices: 38151510--38151552 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
38151500 TATTAATTTA
38151510 ATGTTTATATTAGAGTAGT
1 ATGTTTATATTAGAGTAGT
*
38151529 AT-TTTATATT-TAGTA-T
1 ATGTTTATATTAGAGTAGT
38151545 ATGTTTAT
1 ATGTTTAT
38151553 TTTTTTAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 3 0.14
17 9 0.41
18 8 0.36
19 2 0.09
ACGTcount: A:0.30, C:0.00, G:0.14, T:0.56
Consensus pattern (19 bp):
ATGTTTATATTAGAGTAGT
Found at i:38151952 original size:8 final size:9
Alignment explanation
Indices: 38151920--38151949 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
38151910 CATTTTGGTC
38151920 TTTTAAAAT
1 TTTTAAAAT
38151929 TTTTAAAAT
1 TTTTAAAAT
38151938 TTTTAAAAT
1 TTTTAAAAT
38151947 TTT
1 TTT
38151950 AAATTATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TTTTAAAAT
Found at i:38153798 original size:30 final size:32
Alignment explanation
Indices: 38153764--38153826 Score: 85
Period size: 30 Copynumber: 2.0 Consensus size: 32
38153754 ATTCTTTAAG
*
38153764 TTTTTATAACATT-TAATAATTTAT-ATATTT
1 TTTTTATAACATTCTAAAAATTTATAATATTT
**
38153794 TTTTTATAATTTTCTAAAAATTTATAATATTT
1 TTTTTATAACATTCTAAAAATTTATAATATTT
38153826 T
1 T
38153827 AGTAATTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 11 0.39
31 10 0.36
32 7 0.25
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (32 bp):
TTTTTATAACATTCTAAAAATTTATAATATTT
Found at i:38154128 original size:28 final size:27
Alignment explanation
Indices: 38154087--38154158 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 27
38154077 CCTTTTTTTA
*
38154087 TTAATTTTTATAT-ATTCTTTTATCATT
1 TTAATTTTTATATAATT-TTCTATCATT
38154114 TTAATTTTTGATATAATTTTCTATCATT
1 TTAATTTTT-ATATAATTTTCTATCATT
38154142 TCTAATTTCTT-TATAAT
1 T-TAATTT-TTATATAAT
38154159 ATTTTATTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
27 9 0.22
28 20 0.50
29 9 0.22
30 2 0.05
ACGTcount: A:0.28, C:0.08, G:0.01, T:0.62
Consensus pattern (27 bp):
TTAATTTTTATATAATTTTCTATCATT
Found at i:38155798 original size:28 final size:27
Alignment explanation
Indices: 38155757--38155828 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 27
38155747 CCTTTTTTTA
*
38155757 TTAATTTTTATAT-ATTCTTTTATCATT
1 TTAATTTTTATATAATT-TTCTATCATT
38155784 TTAATTTTTGATATAATTTTCTATCATT
1 TTAATTTTT-ATATAATTTTCTATCATT
38155812 TCTAATTTCTT-TATAAT
1 T-TAATTT-TTATATAAT
38155829 ATTTTATTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
27 9 0.22
28 20 0.50
29 9 0.22
30 2 0.05
ACGTcount: A:0.28, C:0.08, G:0.01, T:0.62
Consensus pattern (27 bp):
TTAATTTTTATATAATTTTCTATCATT
Found at i:38155912 original size:20 final size:19
Alignment explanation
Indices: 38155871--38155913 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
38155861 ATTAATAATA
* *
38155871 TTTTATAATATTTAATAGT
1 TTTTATAATATTTAAAAAT
*
38155890 TTTTATATATTTTTAAAAAT
1 TTTTATA-ATATTTAAAAAT
38155910 TTTT
1 TTTT
38155914 TTTTATTTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTTATAATATTTAAAAAT
Found at i:38156002 original size:23 final size:23
Alignment explanation
Indices: 38155959--38156027 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
38155949 TTCAATTTTC
*
38155959 AATAATATTTTA-ATAACTTTTAGCT
1 AATAAT-TTTTATATAA-TTTTA-AT
38155984 AA-AATTTTTATATAATTTTAAT
1 AATAATTTTTATATAATTTTAAT
* *
38156006 AATAGTTTTTATATATTTTTAA
1 AATAATTTTTATATAATTTTAA
38156028 AAATTTTATG
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
22 3 0.08
23 27 0.69
24 7 0.18
25 2 0.05
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (23 bp):
AATAATTTTTATATAATTTTAAT
Found at i:38156023 original size:122 final size:123
Alignment explanation
Indices: 38155883--38156129 Score: 469
Period size: 122 Copynumber: 2.0 Consensus size: 123
38155873 TTATAATATT
* *
38155883 TAATAGTTTTTATATATTTTTAAAAATTTTTTTTTATTTGATAATTTTGATAGATTTTCTATAAT
1 TAATAGTTTTTATATATTTTTAAAAATTTTATGTTATTTGATAATTTTGATAGATTTTCTATAAT
38155948 TTTCAATTTTCAATAATATTTTAATAACTTTTAGCTAAAATTTTTAT-ATAATTTTAA
66 TTTCAATTTTCAATAATATTTTAATAACTTTTAGCTAAAATTTTTATAATAATTTTAA
38156005 TAATAGTTTTTATATATTTTTAAAAATTTTATGTTATTTGATAATTTTGATAGATTTTCTATAAT
1 TAATAGTTTTTATATATTTTTAAAAATTTTATGTTATTTGATAATTTTGATAGATTTTCTATAAT
38156070 TTTCAATTTTCAATAATATTTTAATAACTTTTAGCTAAAATTTTTATAATAATTTTAA
66 TTTCAATTTTCAATAATATTTTAATAACTTTTAGCTAAAATTTTTATAATAATTTTAA
38156128 TA
1 TA
38156130 TTTTCGTTTT
Statistics
Matches: 122, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
122 110 0.90
123 12 0.10
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.55
Consensus pattern (123 bp):
TAATAGTTTTTATATATTTTTAAAAATTTTATGTTATTTGATAATTTTGATAGATTTTCTATAAT
TTTCAATTTTCAATAATATTTTAATAACTTTTAGCTAAAATTTTTATAATAATTTTAA
Found at i:38163585 original size:10 final size:10
Alignment explanation
Indices: 38163563--38163609 Score: 51
Period size: 11 Copynumber: 4.6 Consensus size: 10
38163553 TTTAGAAAAT
38163563 TTTAAATTT-
1 TTTAAATTTC
38163572 TTTAAATTTC
1 TTTAAATTTC
*
38163582 TTTACATATTC
1 TTTAAAT-TTC
*
38163593 TTTAGAATTTT
1 TTTA-AATTTC
38163604 TTTAAA
1 TTTAAA
38163610 AAATTATCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 9 0.28
10 8 0.25
11 13 0.41
12 2 0.06
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (10 bp):
TTTAAATTTC
Found at i:38163664 original size:18 final size:18
Alignment explanation
Indices: 38163633--38163682 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 18
38163623 TAAAATATAA
38163633 ATTTTGAAATTTTTATAAA-T
1 ATTTTG-AA-TTTTA-AAATT
38163653 ATTTTGAATTTTAAAATTT
1 ATTTTGAATTTTAAAA-TT
38163672 ATTTT-AATTTT
1 ATTTTGAATTTT
38163683 TTTGAGAGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
17 3 0.11
18 11 0.39
19 8 0.29
20 6 0.21
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (18 bp):
ATTTTGAATTTTAAAATT
Found at i:38169379 original size:84 final size:85
Alignment explanation
Indices: 38169290--38169458 Score: 322
Period size: 84 Copynumber: 2.0 Consensus size: 85
38169280 AAAAATTGAT
*
38169290 ATAAAAATTAAACGAGATTTTAGTTAAAATAGTAAAGTTATATGTTTAAATTTTATTATTATTTT
1 ATAAAAATTAAACGAGATTTTAGTTAAAATAGTAAAGTTATATGTTTAAAATTTATTATTATTTT
38169355 TTATTGA-TTATATAAAATA
66 TTATTGATTTATATAAAATA
38169374 ATAAAAATTAAACGAGATTTTAGTTAAAATAGTAAAGTTATATGTTTAAAATTTATTATTATTTT
1 ATAAAAATTAAACGAGATTTTAGTTAAAATAGTAAAGTTATATGTTTAAAATTTATTATTATTTT
38169439 TTATTGATTTATATAAAATA
66 TTATTGATTTATATAAAATA
38169459 TAAGAAGATA
Statistics
Matches: 83, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
84 71 0.86
85 12 0.14
ACGTcount: A:0.44, C:0.01, G:0.08, T:0.46
Consensus pattern (85 bp):
ATAAAAATTAAACGAGATTTTAGTTAAAATAGTAAAGTTATATGTTTAAAATTTATTATTATTTT
TTATTGATTTATATAAAATA
Found at i:38175334 original size:23 final size:22
Alignment explanation
Indices: 38175308--38175354 Score: 76
Period size: 23 Copynumber: 2.1 Consensus size: 22
38175298 TCATTTTATA
38175308 ATTTGTAAAATAATAATAGACAT
1 ATTTGTAAAATAATAATAGA-AT
*
38175331 ATTTGTAATATAATAATAGAAT
1 ATTTGTAAAATAATAATAGAAT
38175353 AT
1 AT
38175355 CTATATTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.38
Consensus pattern (22 bp):
ATTTGTAAAATAATAATAGAAT
Found at i:38177405 original size:20 final size:21
Alignment explanation
Indices: 38177380--38177422 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
38177370 TATTATTTCC
*
38177380 ATTACTATTATTATTA-CATT
1 ATTACTATCATTATTACCATT
38177400 ATTACTATCATTATTACCATT
1 ATTACTATCATTATTACCATT
38177421 AT
1 AT
38177423 ATTTTTTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.35, C:0.14, G:0.00, T:0.51
Consensus pattern (21 bp):
ATTACTATCATTATTACCATT
Found at i:38177645 original size:17 final size:17
Alignment explanation
Indices: 38177611--38177643 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
38177601 TTTTGTTTTT
38177611 TTTTAATATATCTTATA
1 TTTTAATATATCTTATA
38177628 TTTT-ATATAT-TTATA
1 TTTTAATATATCTTATA
38177643 T
1 T
38177644 ATACTCATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 6 0.38
17 4 0.25
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTAATATATCTTATA
Found at i:38185736 original size:42 final size:42
Alignment explanation
Indices: 38185677--38185758 Score: 155
Period size: 42 Copynumber: 2.0 Consensus size: 42
38185667 CCTTTCCAAT
38185677 AAAAGAAAAGACTTCCATTCATGTAATTGGCATGGAATTGGC
1 AAAAGAAAAGACTTCCATTCATGTAATTGGCATGGAATTGGC
*
38185719 AAAAGGAAAGACTTCCATTCATGTAATTGGCATGGAATTG
1 AAAAGAAAAGACTTCCATTCATGTAATTGGCATGGAATTG
38185759 CAGGATACAC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (42 bp):
AAAAGAAAAGACTTCCATTCATGTAATTGGCATGGAATTGGC
Found at i:38191731 original size:17 final size:16
Alignment explanation
Indices: 38191704--38191758 Score: 67
Period size: 17 Copynumber: 3.4 Consensus size: 16
38191694 TTATTACTTG
38191704 AAAATTAAAAAAAATT
1 AAAATTAAAAAAAATT
**
38191720 AAAATCTAAAAATTATT
1 AAAAT-TAAAAAAAATT
38191737 AAAATTATAAAAAAA-T
1 AAAATTA-AAAAAAATT
38191753 AAAATT
1 AAAATT
38191759 TTTTAAGTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 14 0.42
17 19 0.58
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAATTAAAAAAAATT
Found at i:38196709 original size:18 final size:18
Alignment explanation
Indices: 38196686--38196766 Score: 58
Period size: 18 Copynumber: 4.6 Consensus size: 18
38196676 TCCGGCTCTT
38196686 CATCTTCATCTTCACCTC
1 CATCTTCATCTTCACCTC
* *
38196704 CATCTT-ATCCT-ATCTC
1 CATCTTCATCTTCACCTC
* * * *
38196720 CACCTCCACCTCCACCTC
1 CATCTTCATCTTCACCTC
* * * *
38196738 CATCTTGATCTTGATCTT
1 CATCTTCATCTTCACCTC
38196756 CATCTTCATCT
1 CATCTTCATCT
38196767 CCAACAGTGT
Statistics
Matches: 44, Mismatches: 17, Indels: 4
0.68 0.26 0.06
Matches are distributed among these distances:
16 8 0.18
17 6 0.14
18 30 0.68
ACGTcount: A:0.17, C:0.42, G:0.02, T:0.38
Consensus pattern (18 bp):
CATCTTCATCTTCACCTC
Found at i:38204888 original size:2 final size:2
Alignment explanation
Indices: 38204881--38204906 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
38204871 NNNNNNATAA
38204881 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
38204907 TACGACATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38205507 original size:21 final size:20
Alignment explanation
Indices: 38205450--38205508 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
38205440 TCGAATCTCA
38205450 AACCCGAAC-CTTGAACCATG
1 AACCCGAACAC-TGAACCATG
*
38205470 AACCCTAA-ACCTCGAACCATG
1 AACCCGAACA-CT-GAACCATG
38205491 AACACCGAACACTGAACC
1 AAC-CCGAACACTGAACC
38205509 TCGAAGAAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
20 8 0.25
21 17 0.53
22 6 0.19
23 1 0.03
ACGTcount: A:0.39, C:0.37, G:0.12, T:0.12
Consensus pattern (20 bp):
AACCCGAACACTGAACCATG
Found at i:38206713 original size:18 final size:19
Alignment explanation
Indices: 38206679--38206720 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
38206669 CAGTTAATAT
38206679 ATAATTAAAATATATTAAA
1 ATAATTAAAATATATTAAA
* *
38206698 ATAATTAATA-ATATTACA
1 ATAATTAAAATATATTAAA
38206716 ATAAT
1 ATAAT
38206721 AGAAAACTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
ATAATTAAAATATATTAAA
Found at i:38209392 original size:16 final size:15
Alignment explanation
Indices: 38209355--38209394 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
38209345 TAATCCGAAT
*
38209355 CTAAAAATTTTAAAA
1 CTAAAAATTATAAAA
38209370 CTCAAAAATTATAAAA
1 CT-AAAAATTATAAAA
38209386 CCTAAAAAT
1 -CTAAAAAT
38209395 AACATATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 2 0.09
16 18 0.82
17 2 0.09
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (15 bp):
CTAAAAATTATAAAA
Found at i:38209543 original size:12 final size:12
Alignment explanation
Indices: 38209526--38209551 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
38209516 CAAAACAGGC
38209526 TTTTAGCGGCGT
1 TTTTAGCGGCGT
38209538 TTTTAGCGGCGT
1 TTTTAGCGGCGT
38209550 TT
1 TT
38209552 GGACAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:38209640 original size:38 final size:38
Alignment explanation
Indices: 38209567--38209666 Score: 107
Period size: 38 Copynumber: 2.6 Consensus size: 38
38209557 AAAAACGCCA
*
38209567 CTAAAAATCGAGCATTAGCGGCGCTTCACGTAAAGCTG
1 CTAAAAATCGAGCATTAGCGGCGCTTCACGGAAAGCTG
* *
38209605 CTAAAGATCGAGCATTAGCGGCGTTTCTA-GGAAAGC-G
1 CTAAAAATCGAGCATTAGCGGCGCTTC-ACGGAAAGCTG
*
38209642 CCACTAAAAAT-TAGCATTAGCGGCG
1 ---CTAAAAATCGAGCATTAGCGGCG
38209667 TTTTTCCAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
37 1 0.02
38 31 0.58
39 14 0.26
40 7 0.13
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.21
Consensus pattern (38 bp):
CTAAAAATCGAGCATTAGCGGCGCTTCACGGAAAGCTG
Found at i:38209805 original size:41 final size:41
Alignment explanation
Indices: 38209722--38210000 Score: 452
Period size: 41 Copynumber: 6.8 Consensus size: 41
38209712 TTTGTACCTT
* * *
38209722 TCAGATCTTTAGCCGCGTTTTTAAAAAAAGCGCCACTAATGC
1 TCAGATCTTTAGCGGCGTTTTT-GAAAAAGCGCCGCTAATGC
*
38209764 TCAGATCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGC
1 TCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
*
38209805 TCAGATCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGC
1 TCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
*
38209846 TCAGATCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGC
1 TCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
38209887 T-AGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
1 TCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
*
38209927 TCAGATCTTTAGTGGCGTTTTTGAAAAAGCGCCGCTAATGC
1 TCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
** *
38209968 TCAGGGCTTTAACGGCGTTTTTGAAAAAGCGCC
1 TCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCC
38210001 ACAAAAACAT
Statistics
Matches: 226, Mismatches: 10, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
40 39 0.17
41 166 0.73
42 21 0.09
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (41 bp):
TCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
Found at i:38209944 original size:122 final size:123
Alignment explanation
Indices: 38209722--38210002 Score: 456
Period size: 122 Copynumber: 2.3 Consensus size: 123
38209712 TTTGTACCTT
* *
38209722 TCAGATCTTTAGCCGCGTTTTTAAAAAAAGCGCCACTAATGCTCAGATCTTTAGCGGCGTTTTTG
1 TCAGATCTTTAGCGGCGTTTTT-GAAAAAGCGCCACTAATGCTCAGATCTTTAGCGGCGTTTTTG
* *
38209787 AGAAAGCGCCGCTAATGCTCAGATCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGC
65 AAAAAGCGCCGCTAATGCTCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* *
38209846 TCAGATCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCT-AGATCTTTAGCGGCGTTTTTGA
1 TCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCACTAATGCTCAGATCTTTAGCGGCGTTTTTGA
*
38209910 AAAAGCGCCGCTAATGCTCAGATCTTTAGTGGCGTTTTTGAAAAAGCGCCGCTAATGC
66 AAAAGCGCCGCTAATGCTCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
** *
38209968 TCAGGGCTTTAACGGCGTTTTTGAAAAAGCGCCAC
1 TCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCAC
38210003 AAAAACATTT
Statistics
Matches: 145, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
122 107 0.74
123 17 0.12
124 21 0.14
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.29
Consensus pattern (123 bp):
TCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCACTAATGCTCAGATCTTTAGCGGCGTTTTTGA
AAAAGCGCCGCTAATGCTCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
Found at i:38210405 original size:14 final size:15
Alignment explanation
Indices: 38210378--38210409 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
38210368 AGGTTTATAA
38210378 ATTATGGAATTAGGG
1 ATTATGGAATTAGGG
38210393 ATTATGG-ATTAGGG
1 ATTATGGAATTAGGG
38210407 ATT
1 ATT
38210410 CTGATTTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.38
Consensus pattern (15 bp):
ATTATGGAATTAGGG
Found at i:38214674 original size:53 final size:53
Alignment explanation
Indices: 38214593--38214707 Score: 212
Period size: 53 Copynumber: 2.2 Consensus size: 53
38214583 AAGGGATAAT
*
38214593 TTTCAGTTTAAATCAGAACTTTTAGGTCAAGTCATCATGCTATTGCATTCTCC
1 TTTCAGTTTAAATCAGAACTTTTAGGTCAAGCCATCATGCTATTGCATTCTCC
*
38214646 TTTCAGTTTAAATCAGAACTTTTGGGTCAAGCCATCATGCTATTGCATTCTCC
1 TTTCAGTTTAAATCAGAACTTTTAGGTCAAGCCATCATGCTATTGCATTCTCC
38214699 TTTCAGTTT
1 TTTCAGTTT
38214708 TATTAATTCT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
53 60 1.00
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.41
Consensus pattern (53 bp):
TTTCAGTTTAAATCAGAACTTTTAGGTCAAGCCATCATGCTATTGCATTCTCC
Found at i:38215602 original size:43 final size:43
Alignment explanation
Indices: 38215541--38215667 Score: 218
Period size: 43 Copynumber: 3.0 Consensus size: 43
38215531 TGTCATAGTT
* *
38215541 TTTAGCGGCGTTTATGGGAAAAGCGGCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
38215584 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* *
38215627 TATAACGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGG
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGG
38215668 AAGTTAGCGA
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 80 1.00
ACGTcount: A:0.21, C:0.17, G:0.35, T:0.27
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
Found at i:38217586 original size:846 final size:846
Alignment explanation
Indices: 38215944--38218046 Score: 3774
Period size: 846 Copynumber: 2.5 Consensus size: 846
38215934 ACTTCAAACT
*
38215944 TAATCAAAATCTCAAAATTTTTAAAATTTCAACAAAACCATTAAATTAATATTAATGGAGCGTAT
1 TAATCAAAATCTCAAAATTTTTAAAATTTCAACAAAACCATTAAATTAATATTAATGGAGGGTAT
* * * * * * * * *
38216009 GCTTAGGGTAAGTGTTCGATCGAATAGAGTGAAAATATTTCAAGCTAATCGAGTTGACGAGTTTG
66 GCTTAGGGTGAGTGTTCGGTCGAATAAAGTAAAAAAATTCCGAGCTAATCGAGTTGACAAGTCTG
* * * * ** * *
38216074 ATTTTATCATCCGAAATCGATTTGAATTTTTTTCGAATCAAGTCAAGTGAAACGAAATTCGAGTC
131 ATTTTATCATTCTAACTCGAATTGAATTTTTTTCGAATTGAGTCAAGTGAAACAAAATTCGAGTG
** * * * * *
38216139 AAGTTGAGTCAAATCAAATCGAGTGAAATTGTTTGAGTTTAATTAAAAATTAAACATGTCAAATT
196 AAGTTGAGTGGAATCAGATCAAGTGAAATTATTTGAGTTAAATTAAAAATTAAACATGTTAAATT
* * * * *
38216204 AAAATCTTGTTACAGTATAACTAATTTCATGTTAGAGCACATAAATTTGAAACCATACTTTTATA
261 AAAATCTTGTTAAAGTACATCTAATTCCATGTTATAGCACATAAATTTGAAA-C---C------A
* * * *
38216269 TGATAAAATTGAATAATTAATTCACTTATTTAGGTCTCGAAATTAATTAATTAAAATTTTTATAA
316 T-ATAAACTTGAATAATTAATTAACTTATTTAGATCTCAAAATTAATTAATTAAAATTTTTATAA
38216334 TTTTTAAAAAATTATAAATTTTGGAATTTTTTTAAAATTTAAAATTTATTTTGATTTTTTTTGTA
380 TTTTTAAAAAATTATAAATTTTGGAATTTTTTTAAAATTTAAAATTTATTTTGATTTTTTTTGTA
38216399 ATTTTTGTTGAGGGAGAACAATTTGCTCATTTTCAAATTTATAAAATTCAACTTGACTTAAACTC
445 ATTTTTGTTGAGGGAGAACAATTTGCTCATTTTCAAATTTATAAAATTCAACTTGACTTAAACTC
38216464 AAAATTCGAATGCTTATTTTGAGTTGACTCGAGTAAATCAATTCGATTAACTAGAAATTCGAATT
510 AAAATTCGAATGCTTATTTTGAGTTGACTCGAGTAAATCAATTCGATTAACTAGAAATTCGAATT
38216529 TTTTTAATTTTTTCAAATTAAAATTCGATTAGCTCAACCTGTCCAATTACCGAATATAATTTAAA
575 TTTTTAATTTTTTCAAATTAAAATTCGATTAGCTCAACCTGTCCAATTACCGAATATAATTTAAA
38216594 TAGTGTGCTTTTATGTTTTCTTTTAAGTTGCACTAATTCTAGTAGAATCAATCATTATAAGTATC
640 TAGTGTGCTTTTATGTTTTCTTTTAAGTTGCACTAATTCTAGTAGAATCAATCATTATAAGTATC
38216659 GGAATGAATAGTTAACTCAATTCTAATTAATTAATTAATTAATTTATCATTATAAACACTAAATT
705 GGAATGAATAGTTAACTCAATTCTAATTAATTAATTAATTAATTTATCATTATAAACACTAAATT
38216724 GAATAATTTACTCAATAATTAACTCAATTATTCTAATTAATTAATCAGAACAAATTTTGGAAAAA
770 GAATAATTTACTCAATAATTAACTCAATTATTCTAATTAATTAATCAGAACAAATTTTGGAAAAA
38216789 AATATATATTCC
835 AATATATATTCC
38216801 TAATCAAAATCTCAAAATTTTTAAAATTTCAACAAAACCATTAAATTAATATTAATGGAGGGTAT
1 TAATCAAAATCTCAAAATTTTTAAAATTTCAACAAAACCATTAAATTAATATTAATGGAGGGTAT
38216866 GCTTAGGGTGAGTGTTCGGTCGAATAAAGTAAAAAAATTCCGAGCTAATCGAGTTGACAAGTCTG
66 GCTTAGGGTGAGTGTTCGGTCGAATAAAGTAAAAAAATTCCGAGCTAATCGAGTTGACAAGTCTG
38216931 ATTTTATCATTCTAACTCGAATTGAATTTTTTTCGAATTGAGTCAAGTGAAACAAAATTCGAGTG
131 ATTTTATCATTCTAACTCGAATTGAATTTTTTTCGAATTGAGTCAAGTGAAACAAAATTCGAGTG
38216996 AAGTTGAGTGGAATCAGATCAAGTGAAATTATTTGAGTTAAATTAAAAATTAAACATGTTAAATT
196 AAGTTGAGTGGAATCAGATCAAGTGAAATTATTTGAGTTAAATTAAAAATTAAACATGTTAAATT
38217061 AAAATCTTGTTAAAGTACATCTAATTCCATGTTATAGCACATAAATTTGAAACCATATAAACTTG
261 AAAATCTTGTTAAAGTACATCTAATTCCATGTTATAGCACATAAATTTGAAACCATATAAACTTG
38217126 AATAATTAATTAACTTATTTAGATCTCAAAATTAATTAATTAAAATTTTTATAATTTTTAAAAAA
326 AATAATTAATTAACTTATTTAGATCTCAAAATTAATTAATTAAAATTTTTATAATTTTTAAAAAA
38217191 TTATAAATTTTGGAATTTTTTTAAAATTTAAAATTTATTTTGATTTTTTTTGTAATTTTTGTTGA
391 TTATAAATTTTGGAATTTTTTTAAAATTTAAAATTTATTTTGATTTTTTTTGTAATTTTTGTTGA
38217256 GGGAGAACAATTTGCTCATTTTCAAATTTATAAAATTCAACTTGACTTAAACTCAAAATTCGAAT
456 GGGAGAACAATTTGCTCATTTTCAAATTTATAAAATTCAACTTGACTTAAACTCAAAATTCGAAT
38217321 GCTTATTTTGAGTTGACTCGAGTAAATCAATTCGATTAACTAGAAATTCGAATTTTTTTAATTTT
521 GCTTATTTTGAGTTGACTCGAGTAAATCAATTCGATTAACTAGAAATTCGAATTTTTTTAATTTT
38217386 TTCAAATTAAAATTCGATTAGCTCAACCTGTCCAATTACCGAATATAATTTAAATAGTGTGCTTT
586 TTCAAATTAAAATTCGATTAGCTCAACCTGTCCAATTACCGAATATAATTTAAATAGTGTGCTTT
38217451 TATGTTTTCTTTTAAGTTGCACTAATTCTAGTAGAATCAATCATTATAAGTATCGGAATGAATAG
651 TATGTTTTCTTTTAAGTTGCACTAATTCTAGTAGAATCAATCATTATAAGTATCGGAATGAATAG
38217516 TTAACTCAATTCTAATTAATTAATTAATTAATTTATCATTATAAACACTAAATTGAATAATTTAC
716 TTAACTCAATTCTAATTAATTAATTAATTAATTTATCATTATAAACACTAAATTGAATAATTTAC
38217581 TCAATAATTAACTCAATTATTCTAATTAATTAATCAGAACAAATTTTGGAAAAAAATATATATTC
781 TCAATAATTAACTCAATTATTCTAATTAATTAATCAGAACAAATTTTGGAAAAAAATATATATTC
38217646 C
846 C
38217647 TAATCAAAATCTCAAAATTTTTAAAATTTCAACAAAACCATTAAATTAATATTAATGGAGGGTAT
1 TAATCAAAATCTCAAAATTTTTAAAATTTCAACAAAACCATTAAATTAATATTAATGGAGGGTAT
38217712 GCTTAGGGTGAGTGTTCGGTCGAATAAAGTAAAAAAATTCCGAGCTAATCGAGTTGACAAGTCTG
66 GCTTAGGGTGAGTGTTCGGTCGAATAAAGTAAAAAAATTCCGAGCTAATCGAGTTGACAAGTCTG
38217777 ATTTTATCATTCTAACTCGAATTGAATTTTTTTCGAATTGAGTCAAGTGAAACAAAATTCGAGTG
131 ATTTTATCATTCTAACTCGAATTGAATTTTTTTCGAATTGAGTCAAGTGAAACAAAATTCGAGTG
38217842 AAGTTGAGTGGAATCAGATCAAGTGAAATTATTTGAGTTAAATTAAAAATTAAACATGTTAAATT
196 AAGTTGAGTGGAATCAGATCAAGTGAAATTATTTGAGTTAAATTAAAAATTAAACATGTTAAATT
38217907 AAAATCTTGTTAAAGTACATCTAATTCCATGTTATAGCACATAAATTTGAAACCATATAAACTTG
261 AAAATCTTGTTAAAGTACATCTAATTCCATGTTATAGCACATAAATTTGAAACCATATAAACTTG
38217972 AATAATTAATTAACTTATTTAGATCTCAAAATTAATTAATTAAAATTTTTATAATTATTTAAAAA
326 AATAATTAATTAACTTATTTAGATCTCAAAATTAATTAATTAAAATTTTTATAATT-TTTAAAAA
* *
38218037 TTTAAAAATT
390 ATTATAAATT
38218047 ATTTTGATTT
Statistics
Matches: 1209, Mismatches: 36, Indels: 12
0.96 0.03 0.01
Matches are distributed among these distances:
846 907 0.75
847 18 0.01
853 1 0.00
856 1 0.00
857 282 0.23
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.38
Consensus pattern (846 bp):
TAATCAAAATCTCAAAATTTTTAAAATTTCAACAAAACCATTAAATTAATATTAATGGAGGGTAT
GCTTAGGGTGAGTGTTCGGTCGAATAAAGTAAAAAAATTCCGAGCTAATCGAGTTGACAAGTCTG
ATTTTATCATTCTAACTCGAATTGAATTTTTTTCGAATTGAGTCAAGTGAAACAAAATTCGAGTG
AAGTTGAGTGGAATCAGATCAAGTGAAATTATTTGAGTTAAATTAAAAATTAAACATGTTAAATT
AAAATCTTGTTAAAGTACATCTAATTCCATGTTATAGCACATAAATTTGAAACCATATAAACTTG
AATAATTAATTAACTTATTTAGATCTCAAAATTAATTAATTAAAATTTTTATAATTTTTAAAAAA
TTATAAATTTTGGAATTTTTTTAAAATTTAAAATTTATTTTGATTTTTTTTGTAATTTTTGTTGA
GGGAGAACAATTTGCTCATTTTCAAATTTATAAAATTCAACTTGACTTAAACTCAAAATTCGAAT
GCTTATTTTGAGTTGACTCGAGTAAATCAATTCGATTAACTAGAAATTCGAATTTTTTTAATTTT
TTCAAATTAAAATTCGATTAGCTCAACCTGTCCAATTACCGAATATAATTTAAATAGTGTGCTTT
TATGTTTTCTTTTAAGTTGCACTAATTCTAGTAGAATCAATCATTATAAGTATCGGAATGAATAG
TTAACTCAATTCTAATTAATTAATTAATTAATTTATCATTATAAACACTAAATTGAATAATTTAC
TCAATAATTAACTCAATTATTCTAATTAATTAATCAGAACAAATTTTGGAAAAAAATATATATTC
C
Found at i:38218046 original size:19 final size:19
Alignment explanation
Indices: 38218005--38218050 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
38217995 TCTCAAAATT
* * * *
38218005 AATTAATTAAAATTTTTAT
1 AATTATTTAAAAATTTAAA
38218024 AATTATTTAAAAATTTAAA
1 AATTATTTAAAAATTTAAA
38218043 AATTATTT
1 AATTATTT
38218051 TGATTTTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
AATTATTTAAAAATTTAAA
Found at i:38220657 original size:32 final size:32
Alignment explanation
Indices: 38220621--38220685 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
38220611 TGTCTAATAA
38220621 TCTTCATGTTCCTGAGGCTAACCTAAATTTAT
1 TCTTCATGTTCCTGAGGCTAACCTAAATTTAT
38220653 TCTTCATGTTCCTGAGGCTAACCTAAATTTAT
1 TCTTCATGTTCCTGAGGCTAACCTAAATTTAT
38220685 T
1 T
38220686 GTCTGTTCCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.42
Consensus pattern (32 bp):
TCTTCATGTTCCTGAGGCTAACCTAAATTTAT
Found at i:38221954 original size:16 final size:16
Alignment explanation
Indices: 38221933--38222002 Score: 113
Period size: 16 Copynumber: 4.4 Consensus size: 16
38221923 TTGAATTGCT
*
38221933 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
38221949 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
38221965 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
38221981 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
38221997 AATACA
1 ATTACA
38222003 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 52 1.00
ACGTcount: A:0.26, C:0.36, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:38223955 original size:11 final size:11
Alignment explanation
Indices: 38223939--38223969 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
38223929 ATATAGAACC
38223939 CAAATTTTCAA
1 CAAATTTTCAA
38223950 CAAATTTTCAA
1 CAAATTTTCAA
*
38223961 CATATTTTC
1 CAAATTTTC
38223970 CTGTAACAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.39, C:0.19, G:0.00, T:0.42
Consensus pattern (11 bp):
CAAATTTTCAA
Found at i:38225960 original size:14 final size:14
Alignment explanation
Indices: 38225941--38225969 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
38225931 AGGTGGCTCC
38225941 ATCAACACTTTAGA
1 ATCAACACTTTAGA
38225955 ATCAACACTTTAGA
1 ATCAACACTTTAGA
38225969 A
1 A
38225970 AACTGAGGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.21, G:0.07, T:0.28
Consensus pattern (14 bp):
ATCAACACTTTAGA
Found at i:38226420 original size:12 final size:12
Alignment explanation
Indices: 38226403--38226427 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38226393 GAAATAAAGG
38226403 TTATTTTCATTT
1 TTATTTTCATTT
38226415 TTATTTTCATTT
1 TTATTTTCATTT
38226427 T
1 T
38226428 CTTGGAAAAT
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:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (12 bp):
TTATTTTCATTT
Done.