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 168 of 320
Found at i:55506955 original size:27 final size:26
Alignment explanation
Indices: 55506910--55507257 Score: 234
Period size: 27 Copynumber: 13.0 Consensus size: 26
55506900 ATTTTGTCCT
* *
55506910 ACAGGGGTATTTTGGTAATTTTACACT
1 ACAGGGGTATTTCGGTAATTTTACA-A
**
55506937 ACAGGGGTATTTCAATAATTTTACAA
1 ACAGGGGTATTTCGGTAATTTTACAA
** ** *
55506963 ATC-GAATGTATTTTAGTAATTTTACACT
1 A-CAG-GGGTATTTCGGTAATTTTACA-A
*
55506991 A-AGGGGTATTTCGATAATTTTACAA
1 ACAGGGGTATTTCGGTAATTTTACAA
* * * *
55507016 ACCGAAGGTATTTCAGTAATTTTATAA
1 ACAG-GGGTATTTCGGTAATTTTACAA
*
55507043 ATC-GGTGGTATTTCGATAATTTTACAA
1 A-CAGG-GGTATTTCGGTAATTTTACAA
* ** *
55507070 ACTGAAAGTATTTTGGTAATTTTACAA
1 ACAG-GGGTATTTCGGTAATTTTACAA
* *
55507097 ACTGGGGGTATTTCGATAATTTTACAA
1 AC-AGGGGTATTTCGGTAATTTTACAA
* *
55507124 GCCAGGGGTATTTCAGTAATTTTACAA
1 -ACAGGGGTATTTCGGTAATTTTACAA
** * *
55507151 ATTGAGGATATTTTGGTAATTTTACAA
1 ACAG-GGGTATTTCGGTAATTTTACAA
** * *
55507178 ATTGGAGGTATGTCGATAATTTTACAA
1 ACAGG-GGTATTTCGGTAATTTTACAA
* *
55507205 ACTAAGGGTATTTCGATAATTTTACAA
1 AC-AGGGGTATTTCGGTAATTTTACAA
* * *
55507232 ACTGGGGAATTTCAGTAATTTTACAA
1 ACAGGGGTATTTCGGTAATTTTACAA
55507258 CCGGGGTCTT
Statistics
Matches: 250, Mismatches: 56, Indels: 31
0.74 0.17 0.09
Matches are distributed among these distances:
25 1 0.00
26 41 0.16
27 203 0.81
28 5 0.02
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (26 bp):
ACAGGGGTATTTCGGTAATTTTACAA
Found at i:55506975 original size:54 final size:52
Alignment explanation
Indices: 55506916--55507233 Score: 264
Period size: 54 Copynumber: 5.9 Consensus size: 52
55506906 TCCTACAGGG
* * * *
55506916 GTATTTTGGTAATTTTACACTACAGGGGTATTTCAATAATTTTACAAATCGAAT
1 GTATTTTAGTAATTTTACA-AACAGGGGTATTTCGATAATTTTACAAA-CGAAA
* *
55506970 GTATTTTAGTAATTTTACACTA-AGGGGTATTTCGATAATTTTACAAACCGAAG
1 GTATTTTAGTAATTTTACA-AACAGGGGTATTTCGATAATTTTACAAA-CGAAA
* *
55507023 GTATTTCAGTAATTTTATAAATC-GGTGGTATTTCGATAATTTTACAAACTGAAA
1 GTATTTTAGTAATTTTACAAA-CAGG-GGTATTTCGATAATTTTACAAAC-GAAA
* * * * **
55507077 GTATTTTGGTAATTTTACAAACTGGGGGTATTTCGATAATTTTACAAGCCAGGG
1 GTATTTTAGTAATTTTACAAAC-AGGGGTATTTCGATAATTTTACAAACGA-AA
* ** * * * * * *
55507131 GTATTTCAGTAATTTTACAAATTGAGGATATTTTGGTAATTTTACAAATTGGAG
1 GTATTTTAGTAATTTTACAAACAG-GGGTATTTCGATAATTTTACAAA-CGAAA
* * *
55507185 GTA-TGTCGATAATTTTACAAACTAAGGGTATTTCGATAATTTTACAAAC
1 GTATTTTAG-TAATTTTACAAAC-AGGGGTATTTCGATAATTTTACAAAC
55507234 TGGGGAATTT
Statistics
Matches: 216, Mismatches: 37, Indels: 23
0.78 0.13 0.08
Matches are distributed among these distances:
52 1 0.00
53 53 0.25
54 160 0.74
55 2 0.01
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.39
Consensus pattern (52 bp):
GTATTTTAGTAATTTTACAAACAGGGGTATTTCGATAATTTTACAAACGAAA
Found at i:55507117 original size:81 final size:81
Alignment explanation
Indices: 55506915--55507257 Score: 312
Period size: 81 Copynumber: 4.3 Consensus size: 81
55506905 GTCCTACAGG
* * * ** *
55506915 GGTATTTTGGTAATTTTACACTACAGG-GGTATTTCAATAATTTTACAAATCGAATGTATTT-TA
1 GGTATTTTGGTAATTTTACA-AACTGGAGGTATTTCGATAATTTTACAAATCG-GGGTATTTCGA
55506978 GTAATTTTAC--ACT-AA
64 GTAATTTTACAAACTGAA
* * * * *
55506993 GGGGTATTTCGATAATTTTACAAACCGAAGGTATTTC-AGTAATTTTATAAATCGGTGGTATTTC
1 --GGTATTTTGGTAATTTTACAAACTGGAGGTATTTCGA-TAATTTTACAAATCGG-GGTATTTC
55507057 GA-TAATTTTACAAACTGAA
62 GAGTAATTTTACAAACTGAA
* * **
55507076 AGTATTTTGGTAATTTTACAAACTGGGGGTATTTCGATAATTTTACAAGCCAGGGGTATTTC-AG
1 GGTATTTTGGTAATTTTACAAACTGGAGGTATTTCGATAATTTTACAAATC-GGGGTATTTCGAG
*
55507140 TAATTTTACAAATTG-A
65 TAATTTTACAAACTGAA
* * **
55507156 GGATATTTTGGTAATTTTACAAATTGGAGGTATGTCGATAATTTTACAAACTAAGGGTATTTCGA
1 GG-TATTTTGGTAATTTTACAAACTGGAGGTATTTCGATAATTTTACAAA-TCGGGGTATTTCGA
*
55507221 -TAATTTTACAAACTG-G
64 GTAATTTTACAAACTGAA
* **
55507237 GGAATTTCAGTAATTTTACAA
1 GGTATTTTGGTAATTTTACAA
55507258 CCGGGGTCTT
Statistics
Matches: 218, Mismatches: 32, Indels: 26
0.79 0.12 0.09
Matches are distributed among these distances:
79 4 0.02
80 74 0.34
81 131 0.60
82 7 0.03
83 2 0.01
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTACAAACTGGAGGTATTTCGATAATTTTACAAATCGGGGTATTTCGAGT
AATTTTACAAACTGAA
Found at i:55510644 original size:9 final size:9
Alignment explanation
Indices: 55510622--55510810 Score: 61
Period size: 9 Copynumber: 20.4 Consensus size: 9
55510612 AACAGTGCTA
55510622 AACATAACAT
1 AACAT-ACAT
55510632 -ACATACAT
1 AACATACAT
*
55510640 AACATACAC
1 AACATACAT
*
55510649 AATATACA-
1 AACATACAT
* *
55510657 CACATTAAAT
1 AACA-TACAT
55510667 ATGACATACAT
1 A--ACATACAT
*
55510678 AATATACA-
1 AACATACAT
*
55510686 ACCATAACAGT
1 AACAT-ACA-T
*
55510697 AATATA-A-
1 AACATACAT
* * *
55510704 CACATAAAA
1 AACATACAT
55510713 AACATACA-
1 AACATACAT
*
55510721 AAAATACA-
1 AACATACAT
*
55510729 CACATA-AT
1 AACATACAT
55510737 ATACATAACAT
1 A-ACAT-ACAT
*
55510748 TACATAACAT
1 AACAT-ACAT
55510758 AACATACAT
1 AACATACAT
*
55510767 ACAAATATACAT
1 ---AACATACAT
*
55510779 AATAGTACAT
1 AACA-TACAT
55510789 AACATACAT
1 AACATACAT
*
55510798 AATATACAT
1 AACATACAT
55510807 AACA
1 AACA
55510811 GTTTAAAAAC
Statistics
Matches: 135, Mismatches: 26, Indels: 37
0.68 0.13 0.19
Matches are distributed among these distances:
7 5 0.04
8 21 0.16
9 65 0.48
10 23 0.17
11 10 0.07
12 11 0.08
ACGTcount: A:0.57, C:0.19, G:0.02, T:0.23
Consensus pattern (9 bp):
AACATACAT
Found at i:55510752 original size:5 final size:5
Alignment explanation
Indices: 55510730--55510810 Score: 55
Period size: 5 Copynumber: 16.6 Consensus size: 5
55510720 AAAAATACAC
* * *
55510730 ACATA ATAT- ACATA ACATT ACATA ACATA ACAT- ACATA CAAATA TACATA
1 ACATA ACATA ACATA ACATA ACATA ACATA ACATA ACATA -ACATA -ACATA
* *
55510780 ATAGT- ACATA ACAT- ACATA ATAT- ACATA ACA
1 ACA-TA ACATA ACATA ACATA ACATA ACATA ACA
55510811 GTTTAAAAAC
Statistics
Matches: 58, Mismatches: 11, Indels: 14
0.70 0.13 0.17
Matches are distributed among these distances:
4 15 0.26
5 34 0.59
6 9 0.16
ACGTcount: A:0.56, C:0.17, G:0.01, T:0.26
Consensus pattern (5 bp):
ACATA
Found at i:55510753 original size:10 final size:9
Alignment explanation
Indices: 55510730--55510810 Score: 85
Period size: 9 Copynumber: 8.9 Consensus size: 9
55510720 AAAAATACAC
*
55510730 ACATAATAT
1 ACATAACAT
55510739 ACATAACATT
1 ACATAACA-T
55510749 ACATAACAT
1 ACATAACAT
55510758 AACAT-ACAT
1 -ACATAACAT
*
55510767 ACA-AATAT
1 ACATAACAT
*
55510775 ACATAATAGT
1 ACATAACA-T
55510785 ACATAACAT
1 ACATAACAT
*
55510794 ACATAATAT
1 ACATAACAT
55510803 ACATAACA
1 ACATAACA
55510811 GTTTAAAAAC
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
8 9 0.15
9 32 0.52
10 21 0.34
ACGTcount: A:0.56, C:0.17, G:0.01, T:0.26
Consensus pattern (9 bp):
ACATAACAT
Found at i:55510754 original size:19 final size:18
Alignment explanation
Indices: 55510730--55510810 Score: 85
Period size: 19 Copynumber: 4.4 Consensus size: 18
55510720 AAAAATACAC
*
55510730 ACATAATATACATAACATT
1 ACATAACATACATAACA-T
55510749 ACATAACATAACAT-ACAT
1 ACATAACAT-ACATAACAT
* *
55510767 ACA-AATATACATAATAGT
1 ACATAACATACATAACA-T
*
55510785 ACATAACATACATAATAT
1 ACATAACATACATAACAT
55510803 ACATAACA
1 ACATAACA
55510811 GTTTAAAAAC
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
16 4 0.07
17 6 0.11
18 17 0.31
19 23 0.43
20 4 0.07
ACGTcount: A:0.56, C:0.17, G:0.01, T:0.26
Consensus pattern (18 bp):
ACATAACATACATAACAT
Found at i:55510759 original size:15 final size:14
Alignment explanation
Indices: 55510730--55510810 Score: 64
Period size: 14 Copynumber: 5.9 Consensus size: 14
55510720 AAAAATACAC
55510730 ACATA-ATATACATA
1 ACATACATA-ACATA
55510744 ACATTACATAACATA
1 ACA-TACATAACATA
55510759 ACATACAT-ACA-A
1 ACATACATAACATA
* *
55510771 ATATACATAATAGT-
1 ACATACATAACA-TA
55510785 ACATAACAT-ACATA
1 ACAT-ACATAACATA
*
55510799 ATATACATAACA
1 ACATACATAACA
55510811 GTTTAAAAAC
Statistics
Matches: 54, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
12 8 0.15
13 10 0.19
14 19 0.35
15 14 0.26
16 3 0.06
ACGTcount: A:0.56, C:0.17, G:0.01, T:0.26
Consensus pattern (14 bp):
ACATACATAACATA
Found at i:55510805 original size:36 final size:36
Alignment explanation
Indices: 55510724--55510798 Score: 107
Period size: 36 Copynumber: 2.1 Consensus size: 36
55510714 ACATACAAAA
* *
55510724 ATACACACATAATATACATAACATTACATAACATAAC
1 ATACATACA-AATATACATAACAGTACATAACATAAC
*
55510761 ATACATACAAATATACATAATAGTACATAACAT-AC
1 ATACATACAAATATACATAACAGTACATAACATAAC
55510796 ATA
1 ATA
55510799 ATATACATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
35 5 0.14
36 22 0.63
37 8 0.23
ACGTcount: A:0.55, C:0.19, G:0.01, T:0.25
Consensus pattern (36 bp):
ATACATACAAATATACATAACAGTACATAACATAAC
Found at i:55511455 original size:21 final size:22
Alignment explanation
Indices: 55511429--55511481 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
55511419 GATATATGTC
*
55511429 ATATATATATGTTA-ACTTAAT
1 ATATATATATGTTATAATTAAT
*
55511450 ATATATGTATGTTATAATTAAT
1 ATATATATATGTTATAATTAAT
*
55511472 AAATAGTATA
1 ATATA-TATA
55511482 AAATGTATGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 13 0.50
22 10 0.38
23 3 0.12
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (22 bp):
ATATATATATGTTATAATTAAT
Found at i:55519794 original size:24 final size:24
Alignment explanation
Indices: 55519762--55519808 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
55519752 CACAAATTAT
55519762 ATAATGGCATGTATAGTTAAACTC
1 ATAATGGCATGTATAGTTAAACTC
55519786 ATAATGGCATGTATAGTTAAACT
1 ATAATGGCATGTATAGTTAAACT
55519809 AATACTTGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (24 bp):
ATAATGGCATGTATAGTTAAACTC
Found at i:55520129 original size:20 final size:21
Alignment explanation
Indices: 55520101--55520144 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
55520091 TGCAGGGCAC
55520101 ACACACCCGTAT-GCCCTAAG
1 ACACACCCGTATGGCCCTAAG
* *
55520121 ACACGCCCGTTTGGCCCTAAG
1 ACACACCCGTATGGCCCTAAG
55520142 ACA
1 ACA
55520145 TGTCCGTGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.27, C:0.39, G:0.18, T:0.16
Consensus pattern (21 bp):
ACACACCCGTATGGCCCTAAG
Found at i:55523180 original size:49 final size:47
Alignment explanation
Indices: 55522948--55523379 Score: 686
Period size: 47 Copynumber: 9.1 Consensus size: 47
55522938 GAAATGATAG
*
55522948 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
55522995 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
55523042 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
55523091 T-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
55523137 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
55523186 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
55523235 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
55523282 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
55523329 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
55523376 TAAG
1 TAAG
55523380 TCCCAAAGGG
Statistics
Matches: 365, Mismatches: 15, Indels: 10
0.94 0.04 0.03
Matches are distributed among these distances:
46 11 0.03
47 215 0.59
48 34 0.09
49 105 0.29
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:55523554 original size:37 final size:37
Alignment explanation
Indices: 55523498--55523576 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
55523488 CCGAGCTCTA
* * *
55523498 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
55523535 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
55523572 AAGAC
1 AAGAC
55523577 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:55528123 original size:83 final size:83
Alignment explanation
Indices: 55527982--55528140 Score: 255
Period size: 83 Copynumber: 1.9 Consensus size: 83
55527972 TCGCTTGCGA
* * * * *
55527982 TGAAATTAAATGTTCTGATTGGTTAGTAATGCCTGTGACCCTAATCTGATGATGGAGAGGGGTCA
1 TGAAATTAAATGTTCTAATTGGTTAGTAATGCCCGTGACCCTAATCTAACGATAGAGAGGGGTCA
55528047 GGGGTGTTACATTTAGTT
66 GGGGTGTTACATTTAGTT
* *
55528065 TGAAATTAAATGTTCTAATTGGTTAGTAATGCCCGTGACCTTAATCTAACGATAGAGAGGGGTTA
1 TGAAATTAAATGTTCTAATTGGTTAGTAATGCCCGTGACCCTAATCTAACGATAGAGAGGGGTCA
55528130 GGGGTGTTACA
66 GGGGTGTTACA
55528141 GTGAAATACT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
83 69 1.00
ACGTcount: A:0.28, C:0.11, G:0.28, T:0.33
Consensus pattern (83 bp):
TGAAATTAAATGTTCTAATTGGTTAGTAATGCCCGTGACCCTAATCTAACGATAGAGAGGGGTCA
GGGGTGTTACATTTAGTT
Found at i:55530046 original size:21 final size:21
Alignment explanation
Indices: 55530022--55530084 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
55530012 CTTGAGAGGC
55530022 AAGTATTGGTACTTGGCCTAT
1 AAGTATTGGTACTTGGCCTAT
* * *
55530043 AAGTATTGATACTTAGTCCT-C
1 AAGTATTGGTACTT-GGCCTAT
*
55530064 AAGTATTTGTACTTGGCCTAT
1 AAGTATTGGTACTTGGCCTAT
55530085 CTAGTATAGC
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
20 4 0.12
21 25 0.76
22 4 0.12
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (21 bp):
AAGTATTGGTACTTGGCCTAT
Found at i:55530885 original size:21 final size:19
Alignment explanation
Indices: 55530861--55530919 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 19
55530851 ACTAACTTTG
55530861 TTAATTAAGCTTAACATTAGA
1 TTAATTAAGCTTAA-ATTA-A
*
55530882 TTAATTAAGCTTTAATTAA
1 TTAATTAAGCTTAAATTAA
55530901 TTAATTAA--TT-AATTAA
1 TTAATTAAGCTTAAATTAA
55530917 TTA
1 TTA
55530920 TCTTTAGTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
16 9 0.24
17 2 0.05
19 9 0.24
20 4 0.11
21 13 0.35
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (19 bp):
TTAATTAAGCTTAAATTAA
Found at i:55530900 original size:4 final size:4
Alignment explanation
Indices: 55530893--55530919 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
55530883 TAATTAAGCT
55530893 TTAA TTAA TTAA TTAA TTAA TTAA TTA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTA
55530920 TCTTTAGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:55532548 original size:93 final size:94
Alignment explanation
Indices: 55532393--55532610 Score: 243
Period size: 93 Copynumber: 2.3 Consensus size: 94
55532383 TGAGAGCCAG
* * *
55532393 TGTAAGACCATGTCTAAGACATGGCATCGGCATTGA-GACAAGG--G-CTAGTGTAAGACATGTC
1 TGTAAGACCATGTCTAGGACATGGCATCGGC--T-ACGAGATGGTAGTC-AGTGTAAGACATGTC
*
55532454 TGGGACAT-GCATCGACCTCGAGATGTAAACCAA
62 TGGGACATGGCATCGA-CTCGAGATATAAACCAA
*
55532487 TGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGGTAGTCAGTGTAAGACCATGTCTGG
1 TGTAAGACCATGTCTAGGACATGGCATCGGCTACGAGATGGTAGTCAGTGTAAGA-CATGTCTGG
* * * *
55532550 GACATGGCATCGACTTGAGATATGAGCCAG
65 GACATGGCATCGACTCGAGATATAAACCAA
*
55532580 TGTAAGACCGTGTCTAGGACATGGCATCGGC
1 TGTAAGACCATGTCTAGGACATGGCATCGGC
55532611 ACCTTACCCT
Statistics
Matches: 105, Mismatches: 11, Indels: 15
0.80 0.08 0.11
Matches are distributed among these distances:
89 1 0.01
90 6 0.06
92 18 0.17
93 46 0.44
94 26 0.25
95 8 0.08
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.22
Consensus pattern (94 bp):
TGTAAGACCATGTCTAGGACATGGCATCGGCTACGAGATGGTAGTCAGTGTAAGACATGTCTGGG
ACATGGCATCGACTCGAGATATAAACCAA
Found at i:55532570 original size:47 final size:47
Alignment explanation
Indices: 55532387--55532608 Score: 206
Period size: 47 Copynumber: 4.7 Consensus size: 47
55532377 ACATTATGAG
** * * *
55532387 AGCCAGTGTAAGACCATGTCTAAGACATGGCATCGGCATTGAGA--CA
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TCGAGATGTA
*
55532433 AGGGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGACCTCGAGATGTA
1 A--GCCAGTGTAAGACCATGTCTGGGACATGGCATCGA-CTCGAGATGTA
* * *
55532481 AACCAATGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGGT-
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACT-CGAGAT-GTA
* * * *
55532527 AGTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTCGAGATGTA
* *
55532574 AGCCAGTGTAAGACCGTGTCTAGGACATGGCATCG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
55532609 GCACCTTACC
Statistics
Matches: 147, Mismatches: 19, Indels: 19
0.79 0.10 0.10
Matches are distributed among these distances:
45 2 0.01
46 58 0.39
47 66 0.45
48 21 0.14
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (47 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTCGAGATGTA
Found at i:55532594 original size:140 final size:141
Alignment explanation
Indices: 55532347--55532608 Score: 343
Period size: 140 Copynumber: 1.9 Consensus size: 141
55532337 TGTGAGCTAG
* *
55532347 TGTAAGACATGTCTAGGACATGCATTGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTAAGA
1 TGTAAGACATGTCTAGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATGTCTAAGA
* * * *
55532412 CATGGCATCGGCATTGAGACAAGGGCTAGTGTAAGACATGTCTGGGACAT-GCATCGACCTCGAG
66 CATGGCATCGACATTGAGACAAGAGCCAGTGTAAGACATGTCTAGGACATGGCATCGACCTCGAG
55532476 ATGTAAACCAA
131 ATGTAAACCAA
* * * **
55532487 TGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATG-GTAGTCAGTGTAAGACCATGTCTGG
1 TGTAAGACATGTCTAGGACATGCATCGGCCAC-ATGATGAG-AGCCAGTGTAAGACCATGTCTAA
* * *
55532550 GACATGGCATCGAC-TTGAGATATGAGCCAGTGTAAGACCGTGTCTAGGACATGGCATCG
64 GACATGGCATCGACATTGAGACAAGAGCCAGTGTAAGA-CATGTCTAGGACATGGCATCG
55532609 GCACCTTACC
Statistics
Matches: 104, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
139 20 0.19
140 77 0.74
141 7 0.07
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (141 bp):
TGTAAGACATGTCTAGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATGTCTAAGA
CATGGCATCGACATTGAGACAAGAGCCAGTGTAAGACATGTCTAGGACATGGCATCGACCTCGAG
ATGTAAACCAA
Found at i:55534680 original size:6 final size:6
Alignment explanation
Indices: 55534657--55534712 Score: 76
Period size: 6 Copynumber: 9.3 Consensus size: 6
55534647 TTGAATGATG
* * * *
55534657 TGTATA TATATT TGTATA TGTATA TGTTTT TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
55534705 TGTATA TG
1 TGTATA TG
55534713 CTATTACAGG
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.29, C:0.00, G:0.16, T:0.55
Consensus pattern (6 bp):
TGTATA
Found at i:55534680 original size:18 final size:18
Alignment explanation
Indices: 55534657--55534712 Score: 85
Period size: 18 Copynumber: 3.1 Consensus size: 18
55534647 TTGAATGATG
*
55534657 TGTATATATATTTGTATA
1 TGTATATGTATTTGTATA
*
55534675 TGTATATGTTTTTGTATA
1 TGTATATGTATTTGTATA
*
55534693 TGTATATGTATATGTATA
1 TGTATATGTATTTGTATA
55534711 TG
1 TG
55534713 CTATTACAGG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.29, C:0.00, G:0.16, T:0.55
Consensus pattern (18 bp):
TGTATATGTATTTGTATA
Found at i:55536496 original size:44 final size:43
Alignment explanation
Indices: 55536448--55536550 Score: 145
Period size: 44 Copynumber: 2.4 Consensus size: 43
55536438 TGTGTTATCG
* *
55536448 TGTAAGACCACGTCTTAGACATTGGCATCGACT-TATGATTTACA
1 TGTAAGACCACGTCTGAGACAGTGGCATCGA-TATATGA-TTACA
* *
55536492 TGTAAGACCACGTCTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCACGTCTGAGACAGTGGCATCGATATATGATTACA
55536535 TGTAAGACCACGTCTG
1 TGTAAGACCACGTCTG
55536551 GGACGTTGGC
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
43 22 0.41
44 32 0.59
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.29
Consensus pattern (43 bp):
TGTAAGACCACGTCTGAGACAGTGGCATCGATATATGATTACA
Found at i:55536548 original size:43 final size:44
Alignment explanation
Indices: 55536448--55536562 Score: 155
Period size: 43 Copynumber: 2.6 Consensus size: 44
55536438 TGTGTTATCG
** *
55536448 TGTAAGACCACGTCTTAGACATTGGCATCGACTTATGATTTACA
1 TGTAAGACCACGTCTGGGACAGTGGCATCGACTTATGATTTACA
*
55536492 TGTAAGACCACGTCTGGGACAGTGGCATCGA-TATTTGA-TTACA
1 TGTAAGACCACGTCTGGGACAGTGGCATCGACT-TATGATTTACA
55536535 TGTAAGACCACGTCTGGGAC-GTTGGCAT
1 TGTAAGACCACGTCTGGGACAG-TGGCAT
55536563 TGTACGAACT
Statistics
Matches: 65, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
42 1 0.02
43 32 0.49
44 32 0.49
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (44 bp):
TGTAAGACCACGTCTGGGACAGTGGCATCGACTTATGATTTACA
Found at i:55567664 original size:16 final size:15
Alignment explanation
Indices: 55567645--55567696 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
55567635 GTAAATCGGT
55567645 AAAAGCTGAAATGCC
1 AAAAGCTGAAATGCC
* *
55567660 GAAAAGCAGAAATACC
1 -AAAAGCTGAAATGCC
55567676 AAAAAG-TCGAAATGCC
1 -AAAAGCT-GAAATGCC
55567692 AAAAG
1 AAAAG
55567697 TTTGGCTATG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
15 5 0.17
16 25 0.83
ACGTcount: A:0.54, C:0.17, G:0.19, T:0.10
Consensus pattern (15 bp):
AAAAGCTGAAATGCC
Found at i:55568007 original size:28 final size:28
Alignment explanation
Indices: 55567910--55568012 Score: 91
Period size: 28 Copynumber: 3.7 Consensus size: 28
55567900 TAAATGTGAT
* **
55567910 TTGGACCTAAT-GGCCATTTGAATTTGA
1 TTGGACCTAATGGGCCATATGAATGAGA
* * * * * *
55567937 TTTGGGCCTAATAGACCACATAAATGTGA
1 -TTGGACCTAATGGGCCATATGAATGAGA
55567966 TTGGACCTAATGGGCCATATGAATGAGA
1 TTGGACCTAATGGGCCATATGAATGAGA
* *
55567994 TTGGGCCTAGTGGGCCATA
1 TTGGACCTAATGGGCCATA
55568013 AGCATGTATG
Statistics
Matches: 60, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
28 49 0.82
29 11 0.18
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (28 bp):
TTGGACCTAATGGGCCATATGAATGAGA
Found at i:55578054 original size:28 final size:28
Alignment explanation
Indices: 55577989--55578087 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
55577979 CATGAGATTG
* * *
55577989 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTATATA
*
55578018 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAGATTATATA
* *
55578046 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTAGATTATAT-A
55578074 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
55578088 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 45 0.71
29 17 0.27
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAGATTATATA
Found at i:55582156 original size:26 final size:26
Alignment explanation
Indices: 55582106--55582156 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
55582096 TTGATAATTT
* *
55582106 AATGTTATAATTACATGCTGTTATGA
1 AATGTTATAATTAAATGCTGCTATGA
55582132 AATGTTATAATTAAATTG-TGCTATG
1 AATGTTATAATTAAA-TGCTGCTATG
55582157 GCCGAATATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.35, C:0.06, G:0.16, T:0.43
Consensus pattern (26 bp):
AATGTTATAATTAAATGCTGCTATGA
Found at i:55590051 original size:93 final size:93
Alignment explanation
Indices: 55589939--55590109 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
55589929 GCCCATAAGT
* *
55589939 GAACTCGGACTCAACTCAACGAGCTT-GGGCATTCGCATCCATAAGTGAACTCAGACTTAACTCA
1 GAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
55590003 ATGAGTTCGGATGCCTAGTTACATTTCAC
65 ACGAGTTCGGATGCCTAGTTACATTTCAC
*
55590032 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
55590097 CGAGTTCGGATGC
66 CGAGTTCGGATGC
55590110 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:55590103 original size:46 final size:46
Alignment explanation
Indices: 55589931--55590106 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
55589921 TGTAACCCGC
*
55589931 CCATAAGTGAACTCGGACTCAACTCAACGAGCTT-GGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCAT
* * * *
55589977 CCATAAGTGAACTCAGACTTAACTCAATGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * *
55590027 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
55590070 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
55590107 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 15, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 4 0.04
46 59 0.56
47 26 0.25
48 2 0.02
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:55590564 original size:30 final size:30
Alignment explanation
Indices: 55590530--55590589 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
55590520 ATTTAATACG
55590530 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
55590560 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
55590590 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:55592056 original size:29 final size:29
Alignment explanation
Indices: 55591989--55592113 Score: 162
Period size: 29 Copynumber: 4.3 Consensus size: 29
55591979 AAGTCTACAT
* *
55591989 ACATGCATATGGCCCACTAAGCCC-AATC
1 ACATTCATATGGCCCATTAAGCCCAAATC
* *
55592017 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAAGCCCAAATC
** *
55592046 ACATTTGTATGGACCATTAAGCCCAAATC
1 ACATTCATATGGCCCATTAAGCCCAAATC
* *
55592075 ACATTCATATGGCCCATTAGGCCTAAATC
1 ACATTCATATGGCCCATTAAGCCCAAATC
55592104 ACATTCATAT
1 ACATTCATAT
55592114 ACATGCTTTC
Statistics
Matches: 82, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
28 20 0.24
29 62 0.76
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAAGCCCAAATC
Found at i:55592089 original size:58 final size:57
Alignment explanation
Indices: 55591996--55592108 Score: 181
Period size: 58 Copynumber: 2.0 Consensus size: 57
55591986 CATACATGCA
* *
55591996 TATGGCCCACTAAGCCCAATCTCATTCATATGGCCCATTAGGCCCAAATCACATTTG
1 TATGGACCACTAAGCCCAATCACATTCATATGGCCCATTAGGCCCAAATCACATTTG
* *
55592053 TATGGACCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCTAAATCACATT
1 TATGGACCACTAAGCCC-AATCACATTCATATGGCCCATTAGGCCCAAATCACATT
55592109 CATATACATG
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
57 15 0.29
58 36 0.71
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (57 bp):
TATGGACCACTAAGCCCAATCACATTCATATGGCCCATTAGGCCCAAATCACATTTG
Found at i:55592193 original size:17 final size:18
Alignment explanation
Indices: 55592171--55592205 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
55592161 TGCCTATTAT
55592171 GGGCCCA-ATAGCCCATC
1 GGGCCCACATAGCCCATC
*
55592188 GGGCCCACTTAGCCCATC
1 GGGCCCACATAGCCCATC
55592206 CTGACCTGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.20, C:0.43, G:0.23, T:0.14
Consensus pattern (18 bp):
GGGCCCACATAGCCCATC
Found at i:55595576 original size:8 final size:7
Alignment explanation
Indices: 55595537--55595646 Score: 148
Period size: 7 Copynumber: 14.9 Consensus size: 7
55595527 GTGATGCATC
55595537 ACCCTAA
1 ACCCTAA
55595544 ACCCTAA
1 ACCCTAA
55595551 ACCCTAA
1 ACCCTAA
55595558 ACCCTAA
1 ACCCTAA
55595565 ACCCTAAA
1 ACCCT-AA
55595573 ACCCTAAA
1 ACCCT-AA
55595581 ACCCTAAA
1 ACCCT-AA
55595589 ACCCTAA
1 ACCCTAA
55595596 ACCCTAAA
1 ACCCT-AA
*
55595604 ACCATAAA
1 ACCCT-AA
55595612 ACCCTAA
1 ACCCTAA
55595619 ACCCTAAA
1 ACCCT-AA
*
55595627 ACCATAA
1 ACCCTAA
55595634 ACCCTAA
1 ACCCTAA
55595641 ACCCTA
1 ACCCTA
55595647 TGGTTTGGGC
Statistics
Matches: 96, Mismatches: 4, Indels: 6
0.91 0.04 0.06
Matches are distributed among these distances:
7 54 0.56
8 42 0.44
ACGTcount: A:0.47, C:0.39, G:0.00, T:0.14
Consensus pattern (7 bp):
ACCCTAA
Found at i:55595576 original size:15 final size:14
Alignment explanation
Indices: 55595537--55595646 Score: 148
Period size: 15 Copynumber: 7.4 Consensus size: 14
55595527 GTGATGCATC
55595537 ACCCTAAACCCTAA
1 ACCCTAAACCCTAA
55595551 ACCCTAAACCCTAA
1 ACCCTAAACCCTAA
55595565 ACCCTAAAACCCTAAA
1 ACCCT-AAACCCT-AA
55595581 ACCCTAAAACCCTAA
1 ACCCT-AAACCCTAA
*
55595596 ACCCTAAAACCATAAA
1 ACCCT-AAACCCT-AA
55595612 ACCCTAAACCCTAAA
1 ACCCTAAACCCT-AA
*
55595627 ACCATAAACCCTAA
1 ACCCTAAACCCTAA
55595641 ACCCTA
1 ACCCTA
55595647 TGGTTTGGGC
Statistics
Matches: 89, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
14 26 0.29
15 41 0.46
16 22 0.25
ACGTcount: A:0.47, C:0.39, G:0.00, T:0.14
Consensus pattern (14 bp):
ACCCTAAACCCTAA
Found at i:55602455 original size:50 final size:50
Alignment explanation
Indices: 55602348--55602682 Score: 295
Period size: 50 Copynumber: 6.7 Consensus size: 50
55602338 CTGGTATGCA
* * * *
55602348 TAGTAGCCTGGACTTAGTACTACACATGCGACC-AAC-AGTCTAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACTA-TCTAGTACACG
*
55602397 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACTATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACTATCTAGTACACG
* * * * ** * *
55602447 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCA-CTATCTAGTACACG
* * * *
55602498 TAGTAGCCTGCACTTAGTACT--ACATGCGACC-AAC-AGTCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACTA-TCTAGTACACG
* * * * *
55602545 TAGTAGGCTGCACTTAGTACTACACACGTGTCCTCACCATCTAATACAAG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACTATCTAGTACACG
* * * * * ** * *
55602595 TAGTAGCCTGCACTTATTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCA-CTATCTAGTACACG
* *
55602646 TAGTAGCCTGCACTTAGTACTACACATGCGACCTCAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCAC
55602683 AATAGATCAG
Statistics
Matches: 226, Mismatches: 51, Indels: 17
0.77 0.17 0.06
Matches are distributed among these distances:
47 28 0.12
48 1 0.00
49 44 0.19
50 87 0.38
51 66 0.29
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACTATCTAGTACACG
Found at i:55602470 original size:26 final size:26
Alignment explanation
Indices: 55602391--55602471 Score: 82
Period size: 26 Copynumber: 3.2 Consensus size: 26
55602381 AACAGTCTAG
55602391 TACACGTAGTAGCCTGCACTTAGTAC
1 TACACGTAGTAGCCTGCACTTAGTAC
* *
55602417 TACAC--ACGT-GACCT-CAC-TATCTAA
1 TACACGTA-GTAG-CCTGCACTTA-GTAC
55602441 TACACGTAGTAGCCTGCACTTAGTAC
1 TACACGTAGTAGCCTGCACTTAGTAC
55602467 TACAC
1 TACAC
55602472 ACGTGATCAC
Statistics
Matches: 43, Mismatches: 4, Indels: 16
0.68 0.06 0.25
Matches are distributed among these distances:
23 2 0.05
24 12 0.28
25 10 0.23
26 17 0.40
27 2 0.05
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.26
Consensus pattern (26 bp):
TACACGTAGTAGCCTGCACTTAGTAC
Found at i:55602616 original size:148 final size:149
Alignment explanation
Indices: 55602340--55602678 Score: 581
Period size: 148 Copynumber: 2.3 Consensus size: 149
55602330 AAAGCTATCT
* *
55602340 GGTATGCATAGTAGCCTGGACTTAGTACTACACATGCGACCAACAGTCTAGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTA-ACATGCGACCAACAGTCTAGTACACGTAGTAGCC
* *
55602405 TGCACTTAGTACTACACACGTGACCTCACTATCTAATACACGTAGTAGCCTGCACTTAGTACTAC
65 TGCACTTAGTACTACACACGTGACCTCACCATCTAATACAAGTAGTAGCCTGCACTTAGTACTAC
55602470 ACACGTGATCACAGTTTTCG
130 ACACGTGATCACAGTTTTCG
* *
55602490 GGTACGCATAGTAGCCTGCACTTAGTACT-ACATGCGACCAACAGTCTGGTACACGTAGTAGGCT
1 GGTACGCATAGTAGCCTGCACTTAGTACTAACATGCGACCAACAGTCTAGTACACGTAGTAGCCT
* *
55602554 GCACTTAGTACTACACACGTGTCCTCACCATCTAATACAAGTAGTAGCCTGCACTTATTACTACA
66 GCACTTAGTACTACACACGTGACCTCACCATCTAATACAAGTAGTAGCCTGCACTTAGTACTACA
55602619 CACGTGATCACAGTTTTCG
131 CACGTGATCACAGTTTTCG
55602638 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 GGTACGCATAGTAGCCTGCACTTAGTACTA-ACATGCGACC
55602679 TCACAATAGA
Statistics
Matches: 179, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
148 142 0.79
150 37 0.21
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (149 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTAACATGCGACCAACAGTCTAGTACACGTAGTAGCCT
GCACTTAGTACTACACACGTGACCTCACCATCTAATACAAGTAGTAGCCTGCACTTAGTACTACA
CACGTGATCACAGTTTTCG
Found at i:55602681 original size:101 final size:99
Alignment explanation
Indices: 55602337--55602682 Score: 299
Period size: 101 Copynumber: 3.5 Consensus size: 99
55602327 GCCAAAGCTA
** * * * *
55602337 TCTGGTATGCATAGTAGCCTGGACTTAGTACTACACATGCGA-C-CAACAGTCTAGTACACGTAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTCACCA-TCTAGTACAAGTAG
* *
55602400 TAGCCTGCACTTAGTACTACACACGTGACCTCACT
65 TAGCCTGCACTTAGTACTACACACGTGACCACAGT
** * * * * *** ** *
55602435 ATCTAATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA-T
1 -TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTCA-CCATCTAGTAC-AAGT
* *
55602499 AGTAGCCTGCACTTAGTACT--ACATGCGACCAACAG-
63 AGTAGCCTGCACTTAGTACTACACACGTGACC-ACAGT
* * * * *
55602534 TCTGGTACACGTAGTAGGCTGCACTTAGTACTACACACGTGTCCTCACCATCTAATACAAGTAGT
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTCACCATCTAGTACAAGTAGT
* *
55602599 AGCCTGCACTTATTACTACACACGTGATCACAGTTT
66 AGCCTGCACTTAGTACTACACACGTGACCACAG--T
* * *
55602635 TCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTCAC
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTCAC
55602683 AATAGATCAG
Statistics
Matches: 193, Mismatches: 43, Indels: 20
0.75 0.17 0.08
Matches are distributed among these distances:
96 1 0.01
97 25 0.13
98 45 0.23
99 49 0.25
100 3 0.02
101 70 0.36
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (99 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTCACCATCTAGTACAAGTAGT
AGCCTGCACTTAGTACTACACACGTGACCACAGT
Found at i:55618481 original size:46 final size:45
Alignment explanation
Indices: 55618431--55618606 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 45
55618421 TGGTTGAGCA
55618431 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
55618477 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
55618524 TCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
55618570 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55618607 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 68 0.62
47 31 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:55618587 original size:93 final size:93
Alignment explanation
Indices: 55618428--55618598 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
55618418 GGATGGTTGA
* * *
55618428 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
55618493 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
55618521 GCATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
55618586 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
55618599 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:55628169 original size:37 final size:37
Alignment explanation
Indices: 55628110--55628255 Score: 229
Period size: 37 Copynumber: 3.9 Consensus size: 37
55628100 AGCTCAGACG
* *
55628110 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
55628147 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
55628184 TACTCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * *
55628221 TAATCTCCACACGTAGTCATCAGGTCTCACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
55628256 ATATATTTCC
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 102 1.00
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:55628552 original size:47 final size:47
Alignment explanation
Indices: 55628460--55628746 Score: 423
Period size: 47 Copynumber: 6.1 Consensus size: 47
55628450 TATATATATT
* * * * *
55628460 TCACATTGACCATTC-ACTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
55628506 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
55628553 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
55628600 TCACATAGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
55628647 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* **
55628694 TCACATTGGCCATTCGGCCTTATCACATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
55628741 TCACAT
1 TCACAT
55628747 AAAATCCTAA
Statistics
Matches: 216, Mismatches: 24, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
46 13 0.06
47 203 0.94
ACGTcount: A:0.28, C:0.30, G:0.11, T:0.32
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:55628651 original size:141 final size:141
Alignment explanation
Indices: 55628482--55628747 Score: 505
Period size: 141 Copynumber: 1.9 Consensus size: 141
55628472 TTCACTTTAC
55628482 CACATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCA
1 CACATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCA
* **
55628547 CATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATAGGCCA
66 CATTCATCACATTGGCCATTCGGCCTTATCACATATATACACATTCACATTCATCACATAGGCCA
55628612 TTCGGCCTTAT
131 TTCGGCCTTAT
55628623 CACATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCA
1 CACATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCA
55628688 CATTCATCACATTGGCCATTCGGCCTTATCACATATATACACATTCACATTCATCACATA
66 CATTCATCACATTGGCCATTCGGCCTTATCACATATATACACATTCACATTCATCACATA
55628748 AAATCCTAAA
Statistics
Matches: 122, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
141 122 1.00
ACGTcount: A:0.28, C:0.29, G:0.11, T:0.32
Consensus pattern (141 bp):
CACATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCA
CATTCATCACATTGGCCATTCGGCCTTATCACATATATACACATTCACATTCATCACATAGGCCA
TTCGGCCTTAT
Found at i:55635151 original size:98 final size:98
Alignment explanation
Indices: 55634982--55635184 Score: 406
Period size: 98 Copynumber: 2.1 Consensus size: 98
55634972 TAACATTAAT
55634982 AGTGTGTGTGGCTTCCTCCGAGCCCCTCGCAGCTCCGATCCGTCTAAGGCTGGAAATTACCTAAA
1 AGTGTGTGTGGCTTCCTCCGAGCCCCTCGCAGCTCCGATCCGTCTAAGGCTGGAAATTACCTAAA
55635047 AGGTTAATAAACGAGGTGAGTTTACGAAAACTC
66 AGGTTAATAAACGAGGTGAGTTTACGAAAACTC
55635080 AGTGTGTGTGGCTTCCTCCGAGCCCCTCGCAGCTCCGATCCGTCTAAGGCTGGAAATTACCTAAA
1 AGTGTGTGTGGCTTCCTCCGAGCCCCTCGCAGCTCCGATCCGTCTAAGGCTGGAAATTACCTAAA
55635145 AGGTTAATAAACGAGGTGAGTTTACGAAAACTC
66 AGGTTAATAAACGAGGTGAGTTTACGAAAACTC
55635178 AGTGTGT
1 AGTGTGT
55635185 AACATAACCC
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
98 105 1.00
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (98 bp):
AGTGTGTGTGGCTTCCTCCGAGCCCCTCGCAGCTCCGATCCGTCTAAGGCTGGAAATTACCTAAA
AGGTTAATAAACGAGGTGAGTTTACGAAAACTC
Found at i:55636250 original size:27 final size:27
Alignment explanation
Indices: 55636220--55636515 Score: 389
Period size: 27 Copynumber: 11.0 Consensus size: 27
55636210 TACCCCATGA
55636220 GGGTATCTT-AGTAATTCTACCCTACAG
1 GGGTAT-TTCAGTAATTCTACCCTACAG
* *
55636247 GGGTATTTCAGTATTTCTACCCTACAA
1 GGGTATTTCAGTAATTCTACCCTACAG
* **
55636274 GGATATTTTGGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
55636301 GGGTATTTCAGTAATTCTACCCTATAA
1 GGGTATTTCAGTAATTCTACCCTACAG
** ** *
55636328 GGGT-TTTTGGTAATTCTACTTTATAG
1 GGGTATTTCAGTAATTCTACCCTACAG
55636354 GGGTATTTCAGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
55636381 GGGTATTTCGGTAATTCTACCTTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
*
55636408 GGGTATTTCAGTAATTCTACCTTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
55636435 GGGTATTTCAGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* * *
55636462 GGGTATTTCGGCAATTCTACCTTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
55636489 GGGTATTTCAGTAATGCTAGCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
55636516 ATATGTGATT
Statistics
Matches: 233, Mismatches: 34, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
26 23 0.10
27 210 0.90
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (27 bp):
GGGTATTTCAGTAATTCTACCCTACAG
Found at i:55638541 original size:31 final size:27
Alignment explanation
Indices: 55638466--55638546 Score: 83
Period size: 27 Copynumber: 2.9 Consensus size: 27
55638456 AAGCTGCCAA
*
55638466 ATATTGTGACGAAGCCACCAGATACAG
1 ATATTGTGGCGAAGCCACCAGATACAG
* *
55638493 ATATTGTGGCTAGGCCACCAGA-ACAG
1 ATATTGTGGCGAAGCCACCAGATACAG
55638519 ATATATATATGTGGCGAAGCCACCAGAT
1 ----ATAT-TGTGGCGAAGCCACCAGAT
55638547 TGCACGAGTC
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
26 4 0.09
27 19 0.44
30 4 0.09
31 16 0.37
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (27 bp):
ATATTGTGGCGAAGCCACCAGATACAG
Found at i:55639255 original size:27 final size:27
Alignment explanation
Indices: 55639225--55639565 Score: 432
Period size: 27 Copynumber: 12.6 Consensus size: 27
55639215 GGGTAAAATA
* * *
55639225 GTAATTTTACCCCAC-GAGGGTATCTCG
1 GTAATTCTACCCTACAG-GGGTATTTCG
*
55639252 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCG
* * *
55639279 GTATTTCTACCCTACAAGGATATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
*
55639306 GTAATTCTACCCTATAGGGGTATTTCAG
1 GTAATTCTACCCTACAGGGGTATTTC-G
*
55639334 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCG
*
55639361 GTAATTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* *
55639388 GTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCG
55639415 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* * * *
55639442 ATAATTCTACCTTACAGGGGTATTCCA
1 GTAATTCTACCCTACAGGGGTATTTCG
* * **
55639469 GTAATTCTACCTTACAGAGGTATTTAA
1 GTAATTCTACCCTACAGGGGTATTTCG
* *
55639496 ATAATTCTACCCTACAGGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCG
*
55639523 GTAATTCTACCTTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* *
55639550 ATAATTCTAGCCTACA
1 GTAATTCTACCCTACA
55639566 AATATGTGAT
Statistics
Matches: 272, Mismatches: 40, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
27 245 0.90
28 27 0.10
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCG
Found at i:55640583 original size:19 final size:19
Alignment explanation
Indices: 55640548--55640590 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
55640538 AGGGATCAAA
55640548 TTGAG-AAAAATAAAAAATT
1 TTGAGAAAAAATAAAAAA-T
*
55640567 TTGAGAAAAAAT-GAAAAT
1 TTGAGAAAAAATAAAAAAT
55640585 TTGAGA
1 TTGAGA
55640591 TGTGTGTCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 7 0.32
19 9 0.41
20 6 0.27
ACGTcount: A:0.58, C:0.00, G:0.16, T:0.26
Consensus pattern (19 bp):
TTGAGAAAAAATAAAAAAT
Found at i:55641707 original size:40 final size:40
Alignment explanation
Indices: 55641662--55641764 Score: 134
Period size: 40 Copynumber: 2.6 Consensus size: 40
55641652 GAACATTATA
*
55641662 ATGCATTCAGGGGTACCAAAGTACAAACAGAAGCACGTAT
1 ATGCATTCAGGGGTATCAAAGTACAAACAGAAGCACGTAT
* * * * **
55641702 ATGCATTTAGGGGTATCGAAGTATAAATAGGGGCACGTAT
1 ATGCATTCAGGGGTATCAAAGTACAAACAGAAGCACGTAT
*
55641742 GTGCATTCAGGGGTATCAAAGTA
1 ATGCATTCAGGGGTATCAAAGTA
55641765 AATTCACACA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (40 bp):
ATGCATTCAGGGGTATCAAAGTACAAACAGAAGCACGTAT
Found at i:55646668 original size:30 final size:30
Alignment explanation
Indices: 55646634--55646694 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
55646624 TCATTATCTC
55646634 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
55646664 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
55646694 A
1 A
55646695 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:55656659 original size:41 final size:41
Alignment explanation
Indices: 55656608--55656702 Score: 127
Period size: 41 Copynumber: 2.3 Consensus size: 41
55656598 TGCAGTTACT
* *
55656608 TGACAGCTTGTGTGAGCAGCACCGAGTCTCTACGTCTTGAC
1 TGACAGCTTGTGTGAGCAGCACCGAGTCGCTACATCTTGAC
** *
55656649 TGACAGCTTGTGTGAGCAGCATTGAGTCGCTATATCTTGAC
1 TGACAGCTTGTGTGAGCAGCACCGAGTCGCTACATCTTGAC
* *
55656690 TGTCAACTTGTGT
1 TGACAGCTTGTGT
55656703 CAGTAGGCCC
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.32
Consensus pattern (41 bp):
TGACAGCTTGTGTGAGCAGCACCGAGTCGCTACATCTTGAC
Found at i:55660678 original size:13 final size:13
Alignment explanation
Indices: 55660660--55660693 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
55660650 TACAGGTTTG
55660660 ACACGGTCTAGGC
1 ACACGGTCTAGGC
55660673 ACACGGTCTAGGC
1 ACACGGTCTAGGC
55660686 ACACGGTC
1 ACACGGTC
55660694 GTGTCTATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.24, C:0.32, G:0.29, T:0.15
Consensus pattern (13 bp):
ACACGGTCTAGGC
Found at i:55662321 original size:29 final size:28
Alignment explanation
Indices: 55662236--55662350 Score: 115
Period size: 29 Copynumber: 4.0 Consensus size: 28
55662226 TACCTGTATC
* *
55662236 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
* * * *
55662264 TGGCCTATTAGGCACAAACGAC-CTCTATA
1 TGGCCCATTAGGCCCAATC-ACATTC-ATA
*
55662293 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCC-AATCACATTCATA
* *
55662322 TGGCCCGTTAGGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
55662350 T
1 T
55662351 TCATGCTCAC
Statistics
Matches: 69, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
28 29 0.42
29 36 0.52
30 4 0.06
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:55662431 original size:17 final size:18
Alignment explanation
Indices: 55662409--55662442 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
55662399 TGCCTATTAT
55662409 GGGCCCAAC-AGCCCATC
1 GGGCCCAACTAGCCCATC
*
55662426 GGGCCCATCTAGCCCAT
1 GGGCCCAACTAGCCCAT
55662443 TCTGGCTCGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.21, C:0.44, G:0.24, T:0.12
Consensus pattern (18 bp):
GGGCCCAACTAGCCCATC
Found at i:55662588 original size:8 final size:8
Alignment explanation
Indices: 55662573--55662615 Score: 59
Period size: 8 Copynumber: 5.4 Consensus size: 8
55662563 TCAGCTTTTT
55662573 GGCATTTC
1 GGCATTTC
*
55662581 GACATTTC
1 GGCATTTC
*
55662589 GGCTTTTC
1 GGCATTTC
*
55662597 GGCATTTT
1 GGCATTTC
55662605 GGCATTTC
1 GGCATTTC
55662613 GGC
1 GGC
55662616 TTTTGCCGAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.12, C:0.23, G:0.26, T:0.40
Consensus pattern (8 bp):
GGCATTTC
Found at i:55662593 original size:24 final size:24
Alignment explanation
Indices: 55662561--55662619 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
55662551 GTAGCCAAAC
* *
55662561 TTTCAGCTTTTTGGCATTTCGACA
1 TTTCGGCTTTTCGGCATTTCGACA
* *
55662585 TTTCGGCTTTTCGGCATTTTGGCA
1 TTTCGGCTTTTCGGCATTTCGACA
55662609 TTTCGGCTTTT
1 TTTCGGCTTTT
55662620 GCCGATCTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.10, C:0.20, G:0.20, T:0.49
Consensus pattern (24 bp):
TTTCGGCTTTTCGGCATTTCGACA
Found at i:55662614 original size:16 final size:16
Alignment explanation
Indices: 55662569--55662620 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 16
55662559 ACTTTCAGCT
*
55662569 TTTTGGCATTTCGACA
1 TTTTGGCATTTCGGCA
* *
55662585 TTTCGGCTTTTCGGCA
1 TTTTGGCATTTCGGCA
55662601 TTTTGGCATTTCGGC-
1 TTTTGGCATTTCGGCA
55662616 TTTTG
1 TTTTG
55662621 CCGATCTACT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
15 5 0.16
16 26 0.84
ACGTcount: A:0.10, C:0.19, G:0.23, T:0.48
Consensus pattern (16 bp):
TTTTGGCATTTCGGCA
Found at i:55666792 original size:28 final size:28
Alignment explanation
Indices: 55666761--55666860 Score: 121
Period size: 29 Copynumber: 3.5 Consensus size: 28
55666751 CCTGTATCTA
*
55666761 GCCCATTAAGCCCAAA-CATATTTATATG
1 GCCCATTAGGCCCAAACCA-ATTTATATG
* *
55666789 GCCCATTAGGCCCAAACCAACTGTATATA
1 GCCCATTAGGCCCAAACCAA-TTTATATG
*
55666818 GCCCATTAGGCCCAAATCACATTTATATG
1 GCCCATTAGGCCCAAACCA-ATTTATATG
*
55666847 GCCCGTTAGGCCCA
1 GCCCATTAGGCCCA
55666861 TTCACATTCA
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
28 16 0.26
29 45 0.73
30 1 0.02
ACGTcount: A:0.31, C:0.30, G:0.15, T:0.24
Consensus pattern (28 bp):
GCCCATTAGGCCCAAACCAATTTATATG
Found at i:55666821 original size:57 final size:58
Alignment explanation
Indices: 55666752--55666860 Score: 175
Period size: 58 Copynumber: 1.9 Consensus size: 58
55666742 ATCCACTTAC
* *
55666752 CTGTATCTAGCCCATTAAGCCCAAA-CATATTTATATGGCCCATTAGGCCCAAACCAA
1 CTGTATATAGCCCATTAAGCCCAAATCACATTTATATGGCCCATTAGGCCCAAACCAA
* *
55666809 CTGTATATAGCCCATTAGGCCCAAATCACATTTATATGGCCCGTTAGGCCCA
1 CTGTATATAGCCCATTAAGCCCAAATCACATTTATATGGCCCATTAGGCCCA
55666861 TTCACATTCA
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
57 23 0.49
58 24 0.51
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (58 bp):
CTGTATATAGCCCATTAAGCCCAAATCACATTTATATGGCCCATTAGGCCCAAACCAA
Found at i:55672144 original size:39 final size:39
Alignment explanation
Indices: 55672088--55672242 Score: 256
Period size: 39 Copynumber: 4.0 Consensus size: 39
55672078 AAGACACTGA
*
55672088 AAATGTATCCGGGCTAAAGTCCCACAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
55672127 AAATGTATCCGGACTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
55672166 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCGGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
55672205 AAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTGCTG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
55672243 ATAATATAAT
Statistics
Matches: 107, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 107 1.00
ACGTcount: A:0.22, C:0.25, G:0.30, T:0.23
Consensus pattern (39 bp):
AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
Found at i:55677914 original size:39 final size:39
Alignment explanation
Indices: 55677860--55678089 Score: 343
Period size: 39 Copynumber: 5.9 Consensus size: 39
55677850 AAGACACTGA
55677860 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
55677899 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* * *
55677938 AAATATATCCGGGCCAAAGTCCCGTAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* * * *
55677977 AAATGTATCTGGACTAAAGTCCCACAGGCTTCATGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* * * *
55678016 AAATATATCCGGGCCAAAGTCCCGCAGGCTTCATACTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
55678055 AAATCTATCCGGACTAAAGTCCCGCAGGCTTCGTG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
55678090 TAACACCCCG
Statistics
Matches: 170, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 170 1.00
ACGTcount: A:0.24, C:0.26, G:0.27, T:0.23
Consensus pattern (39 bp):
AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
Found at i:55679498 original size:37 final size:37
Alignment explanation
Indices: 55679438--55679513 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
55679428 TATTACGAAA
* *
55679438 TCTTACCCGGACATAATCTCCACACGAAGTCATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
*
55679475 TCTTACCCGGACAAAATCCCCACACGTAGTCATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
55679512 TC
1 TC
55679514 CTTAGAACTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.26, C:0.34, G:0.18, T:0.21
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
Found at i:55679712 original size:47 final size:47
Alignment explanation
Indices: 55679634--55680086 Score: 690
Period size: 47 Copynumber: 9.6 Consensus size: 47
55679624 CCCTTTGGGA
* * * * * *
55679634 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
55679681 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
55679728 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
55679775 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
55679822 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
55679871 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
55679918 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55679965 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
55680012 CTTATCACATATATACCCTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55680059 CTTATCACATATATATACACTTTCACAT
1 CTTATCAC--ATATATACACTTTCACAT
55680087 ATGGGTTTAA
Statistics
Matches: 379, Mismatches: 23, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
47 319 0.84
49 60 0.16
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:55680049 original size:237 final size:237
Alignment explanation
Indices: 55679634--55680086 Score: 753
Period size: 237 Copynumber: 1.9 Consensus size: 237
55679624 CCCTTTGGGA
** * * * * *
55679634 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACACATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACACATATACAC
*
55679699 TTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAAGCCTTATCACACATATACACTTTCACATTCATCACATC
*
55679764 GGCCATTAAGCCTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCA
131 GGCCATTAAGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCA
55679829 CATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
196 CATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* * *
55679871 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACAC
1 CTTATCACACATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACACATATACAC
* *
55679936 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAAGCCTTATCACACATATACACTTTCACATTCATCACATC
* * *
55680001 GGCCATTAGGCCTTATCACATATATACCCTTTCACATTCATCACATCGGCCATTAAGCCTTATCA
131 GGCCATTAAGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCA
55680066 CATATATATACACTTTCACAT
196 CATATATATACACTTTCACAT
55680087 ATGGGTTTAA
Statistics
Matches: 199, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
237 199 1.00
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.32
Consensus pattern (237 bp):
CTTATCACACATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACACATATACAC
TTTCACATTCATCACATCGGCCATTAAGCCTTATCACACATATACACTTTCACATTCATCACATC
GGCCATTAAGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCA
CATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:55681519 original size:13 final size:13
Alignment explanation
Indices: 55681501--55681525 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55681491 TACTAAATTT
55681501 TCATGGATTCAAG
1 TCATGGATTCAAG
55681514 TCATGGATTCAA
1 TCATGGATTCAA
55681526 TATACCATTA
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:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:55682934 original size:39 final size:39
Alignment explanation
Indices: 55682880--55682966 Score: 129
Period size: 39 Copynumber: 2.2 Consensus size: 39
55682870 GGGTGTCACA
55682880 CTTCGTGCTGAAAATGTATCCGGGCCAAAGTCCCACAGG
1 CTTCGTGCTGAAAATGTATCCGGGCCAAAGTCCCACAGG
* ** *
55682919 CTTCGTGCTGGAAATGTATCCGGGTTAAAGTCCCGCAGG
1 CTTCGTGCTGAAAATGTATCCGGGCCAAAGTCCCACAGG
*
55682958 CTTTGTGCT
1 CTTCGTGCT
55682967 AATAATATAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.21, C:0.25, G:0.28, T:0.26
Consensus pattern (39 bp):
CTTCGTGCTGAAAATGTATCCGGGCCAAAGTCCCACAGG
Found at i:55686213 original size:39 final size:39
Alignment explanation
Indices: 55686157--55686311 Score: 265
Period size: 39 Copynumber: 4.0 Consensus size: 39
55686147 AAGACACTGA
*
55686157 AAATGTATCCGGGCTAAAGTCCCACAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
55686196 AAATGTATCCGGACTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
55686235 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
55686274 AAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTGCTG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
55686312 ATAATATAAT
Statistics
Matches: 109, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 109 1.00
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (39 bp):
AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
Found at i:55691947 original size:36 final size:39
Alignment explanation
Indices: 55691875--55692093 Score: 253
Period size: 36 Copynumber: 5.9 Consensus size: 39
55691865 AAGACACTGA
*
55691875 AAATGTATCCGGGCTAAAGTCCCGCAGGC-TCG-GCTGG
1 AAATGTATCCGGACTAAAGTCCCGCAGGCTTCGTGCTGG
55691912 AAATGTATCCGG-CT-AAGTCCCGCA-GCTTCGTGCTGG
1 AAATGTATCCGGACTAAAGTCCCGCAGGCTTCGTGCTGG
* * *
55691948 AAATATATCCGG-CCAAAGT-CCGTA-GCTTCGTGCTGG
1 AAATGTATCCGGACTAAAGTCCCGCAGGCTTCGTGCTGG
* * *
55691984 AAATGTATCTGGACTAAAGTCCCACAGGCTTCATGCT-G
1 AAATGTATCCGGACTAAAGTCCCGCAGGCTTCGTGCTGG
* * * *
55692022 AAATATATCCGG-CCAAAGTCCCGCAGGC-TCATACTGG
1 AAATGTATCCGGACTAAAGTCCCGCAGGCTTCGTGCTGG
*
55692059 AAATCTATCCGGACTAAAGTCCCGCAGGCTTCGTG
1 AAATGTATCCGGACTAAAGTCCCGCAGGCTTCGTG
55692094 TAACACCCCG
Statistics
Matches: 155, Mismatches: 18, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
34 2 0.01
35 13 0.08
36 51 0.33
37 48 0.31
38 29 0.19
39 12 0.08
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.23
Consensus pattern (39 bp):
AAATGTATCCGGACTAAAGTCCCGCAGGCTTCGTGCTGG
Found at i:55692076 original size:75 final size:75
Alignment explanation
Indices: 55691875--55692090 Score: 273
Period size: 75 Copynumber: 2.9 Consensus size: 75
55691865 AAGACACTGA
* * *
55691875 AAATGTATCCGGGCTAAAGTCCCGCAGGCTCGGCTGGAAATGTATCCGG-CT-AAGTCCCGCA-G
1 AAATATATCC-GGCCAAAGTCCCGCAGGCTCTGCTGGAAATGTATCCGGACTAAAGTCCCGCAGG
*
55691937 CTTCGTGCTGG
65 CTTCATGCTGG
* * *
55691948 AAATATATCCGGCCAAAGT-CCGTA-GCTTCGTGCTGGAAATGTATCTGGACTAAAGTCCCACAG
1 AAATATATCCGGCCAAAGTCCCGCAGGC-TC-TGCTGGAAATGTATCCGGACTAAAGTCCCGCAG
55692011 GCTTCATGCT-G
64 GCTTCATGCTGG
* *
55692022 AAATATATCCGGCCAAAGTCCCGCAGGCTCATACTGGAAATCTATCCGGACTAAAGTCCCGCAGG
1 AAATATATCCGGCCAAAGTCCCGCAGGCTC-TGCTGGAAATGTATCCGGACTAAAGTCCCGCAGG
55692087 CTTC
65 CTTC
55692091 GTGTAACACC
Statistics
Matches: 123, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
70 2 0.02
71 6 0.05
72 24 0.20
73 11 0.09
74 29 0.24
75 49 0.40
76 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.23
Consensus pattern (75 bp):
AAATATATCCGGCCAAAGTCCCGCAGGCTCTGCTGGAAATGTATCCGGACTAAAGTCCCGCAGGC
TTCATGCTGG
Found at i:55693493 original size:37 final size:37
Alignment explanation
Indices: 55693433--55693508 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
55693423 TATTACGAAA
* *
55693433 TCTTACCCGGACATAATCTCCACACGAAGTCATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
*
55693470 TCTTACCCGGACAAAATCCCCACACGTAGTCATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
55693507 TC
1 TC
55693509 CTTAGAACTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.26, C:0.34, G:0.18, T:0.21
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
Found at i:55693707 original size:47 final size:47
Alignment explanation
Indices: 55693629--55694050 Score: 477
Period size: 47 Copynumber: 9.6 Consensus size: 47
55693619 CCCTTTGGGA
** * * * * **
55693629 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGC
* * *
55693676 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
55693723 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
55693770 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
55693817 CTTAT--CACATAT--A-TATCACA-TCATCACATCGG-C-TT-AGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGC
55693855 C-TATCACACATATACACTTTCACATTCATCACATC-GCCATT-AGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
55693899 CTT-TCACA-ATATACAC-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGC
55693943 CTTAT--CACATATACACTTTCA-ATT-AT-ACATC-G-CATT-A--
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
55693980 C-TATCACATATATAC-CTTTCACATTCATCACATCGGCCATT-AGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
55694024 CTTATCACATATATATACATTTCACAT
1 CTTATCACACATATACAC-TTTCACAT
55694051 ATGGGTTTAA
Statistics
Matches: 329, Mismatches: 20, Indels: 52
0.82 0.05 0.13
Matches are distributed among these distances:
36 3 0.01
37 10 0.03
38 15 0.05
39 11 0.03
40 10 0.03
41 15 0.05
42 40 0.12
43 30 0.09
44 28 0.09
45 25 0.08
46 1 0.00
47 141 0.43
ACGTcount: A:0.30, C:0.31, G:0.07, T:0.32
Consensus pattern (47 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGC
Found at i:55695479 original size:13 final size:13
Alignment explanation
Indices: 55695461--55695485 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55695451 TTACTAAATT
55695461 TCATGGATTCAAG
1 TCATGGATTCAAG
55695474 TCATGGATTCAA
1 TCATGGATTCAA
55695486 TATACCATTA
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:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:55696886 original size:39 final size:38
Alignment explanation
Indices: 55696832--55696916 Score: 118
Period size: 39 Copynumber: 2.2 Consensus size: 38
55696822 GGGTGTCACA
55696832 CTTCGTGCTGAAAATGTATCCGGGCCAAAGTCCCACAGG
1 CTTCGTGCTGAAAATGTATCCGGGCCAAAGT-CCACAGG
* ** *
55696871 CTTCGTGCTGGAAATGTATCCGGGTTAAAGTCCGCAGG
1 CTTCGTGCTGAAAATGTATCCGGGCCAAAGTCCACAGG
55696909 CTT-GTGCT
1 CTTCGTGCT
55696917 AATAATATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
37 5 0.12
38 9 0.21
39 28 0.67
ACGTcount: A:0.21, C:0.25, G:0.28, T:0.26
Consensus pattern (38 bp):
CTTCGTGCTGAAAATGTATCCGGGCCAAAGTCCACAGG
Found at i:55700164 original size:39 final size:39
Alignment explanation
Indices: 55700108--55700262 Score: 265
Period size: 39 Copynumber: 4.0 Consensus size: 39
55700098 AAGACACTGA
*
55700108 AAATGTATCCGGGCTAAAGTCCCACAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
55700147 AAATGTATCCGGACTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
55700186 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
55700225 AAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTGCTG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
55700263 ATAATATAAT
Statistics
Matches: 109, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 109 1.00
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (39 bp):
AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
Found at i:55706362 original size:22 final size:22
Alignment explanation
Indices: 55706298--55706421 Score: 108
Period size: 22 Copynumber: 5.5 Consensus size: 22
55706288 TCAGCTCGTA
* *
55706298 AGAGCTTACTACTTTCAGCTCATT
1 AGAGCTTACT-GTTT-AGCTCAAT
* *
55706322 GGAGCTTACCGTTTTAGCTC-AT
1 AGAGCTTACTG-TTTAGCTCAAT
*
55706344 ATGATCTTACTGTTTAGCTCAAT
1 A-GAGCTTACTGTTTAGCTCAAT
* *
55706367 AGAGCTTACTGTTCAGCTCGAT
1 AGAGCTTACTGTTTAGCTCAAT
55706389 AGAGCTTACCAT-TTTAGCTCAAT
1 AGAGCTTA-C-TGTTTAGCTCAAT
*
55706412 CGAGCTTACT
1 AGAGCTTACT
55706422 ATTCATCAGC
Statistics
Matches: 82, Mismatches: 13, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
21 1 0.01
22 36 0.44
23 33 0.40
24 12 0.15
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.36
Consensus pattern (22 bp):
AGAGCTTACTGTTTAGCTCAAT
Found at i:55706421 original size:45 final size:45
Alignment explanation
Indices: 55706288--55706426 Score: 124
Period size: 45 Copynumber: 3.1 Consensus size: 45
55706278 TACCGATATA
* * * * *
55706288 TCAGCTCG-TAAGAGCTTACTACTTTCAGCTCATTGGAGCTTACCGTT
1 TCAGCTCGAT-AGAGCTTACCA-TTTTAGCTCAATAGAGCTTACTG-T
* *
55706335 TTAGCTC-ATATGATCTTA-C-TGTTTAGCTCAATAGAGCTTACTGT
1 TCAGCTCGATA-GAGCTTACCAT-TTTAGCTCAATAGAGCTTACTGT
* *
55706379 TCAGCTCGATAGAGCTTACCATTTTAGCTCAATCGAGCTTACTAT
1 TCAGCTCGATAGAGCTTACCATTTTAGCTCAATAGAGCTTACTGT
55706424 TCA
1 TCA
55706427 TCAGCTCAGG
Statistics
Matches: 75, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
44 14 0.19
45 46 0.61
46 2 0.03
47 13 0.17
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.36
Consensus pattern (45 bp):
TCAGCTCGATAGAGCTTACCATTTTAGCTCAATAGAGCTTACTGT
Found at i:55710365 original size:53 final size:53
Alignment explanation
Indices: 55710170--55710424 Score: 186
Period size: 55 Copynumber: 4.8 Consensus size: 53
55710160 ATTAGGGTTT
* * *
55710170 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGAC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-CATTGGTAA-G-TTCATAAGGC
* ** * *
55710225 AAGGATTCCATGTAAGACCATTTC-AGAAAGTGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACA-TGGCATTGGTAAGTT-C-ATAAGGC
* * *
55710280 AAAGG-T-CTCATGTAAGACCGTGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATAC-CATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
** * *
55710333 AAGGATACCATGTAAGACCATGTTAAGACATGGCAATAGTAAGTT--TCAA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCAT-AAGGC
* ** * *
55710382 AAGGATACCACGTAAGACCATGAAAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
55710425 ATACCCGTGT
Statistics
Matches: 163, Mismatches: 27, Indels: 26
0.75 0.12 0.12
Matches are distributed among these distances:
49 38 0.23
51 1 0.01
52 8 0.05
53 40 0.25
54 13 0.08
55 56 0.34
56 7 0.04
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:55710376 original size:108 final size:110
Alignment explanation
Indices: 55710178--55710377 Score: 266
Period size: 108 Copynumber: 1.8 Consensus size: 110
55710168 TTAAGGATAC
*
55710178 CATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGACAAGGATTCCATGTAAGAC
1 CATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGACAAGGATACCATGTAAGAC
* *
55710243 CATTTCAGAAAGTGGCATTGATAAGTTACTATAAGGCAAAGGTCT
66 CATTTAAGAAAGTGGCATAGATAAGTTACTATAAGGCAAAGGTCT
* * * *
55710288 CATGTAAGACCGTGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAGA
1 CATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGACAAGGATACCATGTAAGA
*
55710350 CCATGTTAAGACA-TGGCAATAG-TAAGTT
65 CCAT-TTAAGAAAGTGGC-ATAGATAAGTT
55710378 TCAAAAGGAT
Statistics
Matches: 79, Mismatches: 8, Indels: 8
0.83 0.08 0.08
Matches are distributed among these distances:
107 3 0.04
108 36 0.46
109 16 0.20
110 24 0.30
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.24
Consensus pattern (110 bp):
CATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGACAAGGATACCATGTAAGAC
CATTTAAGAAAGTGGCATAGATAAGTTACTATAAGGCAAAGGTCT
Found at i:55713258 original size:7 final size:7
Alignment explanation
Indices: 55713246--55713335 Score: 117
Period size: 7 Copynumber: 12.4 Consensus size: 7
55713236 AGGAAAGCCT
55713246 GGGTTTA
1 GGGTTTA
55713253 GGGTTTAA
1 GGGTTT-A
*
55713261 GGTTTTA
1 GGGTTTA
55713268 GGGTTTTA
1 GGG-TTTA
55713276 GGGTTTA
1 GGGTTTA
*
55713283 AGGTTTA
1 GGGTTTA
55713290 GGGTTTA
1 GGGTTTA
*
55713297 AGGTTTA
1 GGGTTTA
*
55713304 GAGTTTTA
1 G-GGTTTA
55713312 GGGTTTA
1 GGGTTTA
55713319 GGGTTTA
1 GGGTTTA
55713326 GGGTTTA
1 GGGTTTA
55713333 GGG
1 GGG
55713336 ATTTGAGAGG
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
7 53 0.74
8 19 0.26
ACGTcount: A:0.18, C:0.00, G:0.39, T:0.43
Consensus pattern (7 bp):
GGGTTTA
Found at i:55713271 original size:22 final size:21
Alignment explanation
Indices: 55713246--55713335 Score: 119
Period size: 22 Copynumber: 4.1 Consensus size: 21
55713236 AGGAAAGCCT
55713246 GGGTTTAGGGTTTAAGGTTTTA
1 GGGTTTAGGGTTT-AGGTTTTA
55713268 GGGTTTTAGGGTTTAAGG-TTTA
1 GGG-TTTAGGGTTT-AGGTTTTA
*
55713290 GGGTTTAAGGTTTAGAGTTTTA
1 GGGTTTAGGGTTTAG-GTTTTA
*
55713312 GGGTTTAGGGTTTAGGGTTTA
1 GGGTTTAGGGTTTAGGTTTTA
55713333 GGG
1 GGG
55713336 ATTTGAGAGG
Statistics
Matches: 62, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
20 2 0.03
21 18 0.29
22 28 0.45
23 14 0.23
ACGTcount: A:0.18, C:0.00, G:0.39, T:0.43
Consensus pattern (21 bp):
GGGTTTAGGGTTTAGGTTTTA
Found at i:55714827 original size:24 final size:25
Alignment explanation
Indices: 55714756--55714825 Score: 88
Period size: 24 Copynumber: 2.8 Consensus size: 25
55714746 GAGGAAGTGC
* * *
55714756 AAAAGGGCTTTTGCCCTAGTTTACCG
1 AAAAGGGC-TTTGCCCCAGTTTATCA
*
55714782 AAAAGGGATTT-CCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
55714806 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
55714826 ATTAAAAGAG
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
24 20 0.53
25 11 0.29
26 7 0.18
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:55714838 original size:24 final size:24
Alignment explanation
Indices: 55714806--55714852 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
55714796 CAGTTTATCA
**
55714806 AAAAGGGCTTTGCC-CCAGTTATT
1 AAAAGGGCTAGGCCTCCAGTTATT
55714829 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTAGGCCTCCAGTTAT
55714853 ATGATAAAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 7 0.35
25 8 0.40
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTAGGCCTCCAGTTATT
Found at i:55715081 original size:30 final size:31
Alignment explanation
Indices: 55715045--55715127 Score: 116
Period size: 30 Copynumber: 2.7 Consensus size: 31
55715035 CGTTTATAGC
*
55715045 AAAGGCTTCAGCCCAGTGATATG-ATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* *
55715075 AAAGGCTTCGGCCCAGTGACATGAATAATGC
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
55715106 AAAGGCTTCGGGCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
55715128 TTGAGATTGA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 25 0.53
31 22 0.47
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.22
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:55722870 original size:30 final size:29
Alignment explanation
Indices: 55722834--55722913 Score: 126
Period size: 29 Copynumber: 2.8 Consensus size: 29
55722824 CGTTTACAGT
55722834 AAAGGCTTCGGCCCAGTGATATGATAATGA
1 AAAGGCTTCGGCCCAGT-ATATGATAATGA
* *
55722864 AAAGGCTTCGGCCCAGTACATGATAATGC
1 AAAGGCTTCGGCCCAGTATATGATAATGA
55722893 AAAGGCTTCGG-CCAGTATATG
1 AAAGGCTTCGGCCCAGTATATG
55722914 TTGAGATTGA
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
28 9 0.19
29 21 0.45
30 17 0.36
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (29 bp):
AAAGGCTTCGGCCCAGTATATGATAATGA
Found at i:55726149 original size:1 final size:1
Alignment explanation
Indices: 55726145--55726172 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
55726135 TTAAATTTAC
55726145 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
55726173 CAAATGGCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:55743376 original size:42 final size:41
Alignment explanation
Indices: 55743276--55743424 Score: 158
Period size: 43 Copynumber: 3.5 Consensus size: 41
55743266 TGTGTTCTCA
*
55743276 TGTAAGACCACGTCTGGGACGTTGGCATCG-ACTTATGATTTACG
1 TGTAAGACCACGTCTGGGAC-ATGGCATCGTA-TT-TGATTT-CG
* *
55743320 TGTAAGACCATGTCTGGGACATCAGCATCGTATTTGATTTCG
1 TGTAAGACCACGTCTGGGACAT-GGCATCGTATTTGATTTCG
* * *
55743362 TGTAAGACC-CTGTCTGGGATAGTGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGACA-TGGCATCG-TATTTGATTTCG
55743405 TGTAAGACCACGTCTGGGAC
1 TGTAAGACCACGTCTGGGAC
55743425 GTTGGCATTG
Statistics
Matches: 90, Mismatches: 9, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
42 26 0.29
43 35 0.39
44 28 0.31
45 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.30
Consensus pattern (41 bp):
TGTAAGACCACGTCTGGGACATGGCATCGTATTTGATTTCG
Found at i:55747238 original size:44 final size:46
Alignment explanation
Indices: 55747181--55747273 Score: 120
Period size: 44 Copynumber: 2.1 Consensus size: 46
55747171 TACAACATCT
55747181 ATTCCATTCAACTAAACACAAT-AA-CACT-ATTACAACTCTATTCC
1 ATTCCATTCAACTAAACA-AATGAATCACTGATTACAACTCTATTCC
* * * *
55747225 ATTCCATTGAACTAAACAATTGAATTATTGATTACAACTCTATTCC
1 ATTCCATTCAACTAAACAAATGAATCACTGATTACAACTCTATTCC
55747271 ATT
1 ATT
55747274 GCAACCTTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 2 0.05
44 19 0.45
45 2 0.05
46 19 0.45
ACGTcount: A:0.39, C:0.24, G:0.03, T:0.34
Consensus pattern (46 bp):
ATTCCATTCAACTAAACAAATGAATCACTGATTACAACTCTATTCC
Found at i:55747780 original size:139 final size:138
Alignment explanation
Indices: 55747417--55747972 Score: 821
Period size: 138 Copynumber: 4.0 Consensus size: 138
55747407 TAGAAAAAGG
* * * * *
55747417 AATTATATTCTTTCCAAAAGAATATTAATTTACATGTCTTTTATACTTTGACCGTAATTGATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTGAAATTAATTAA
* * * * *
55747482 TAGAACT-TTTATATTAATAAATTTGATAAAATATAGATAATTAATATTTTGTATAAATTAAATT
66 TATAACTATTTATATTAATAAATTTGATAAAATATATACAATTAATATTTTGTATGAATCAAATT
55747546 CATATATT
131 CATATATT
*
55747554 AATTATATT-TTTCCAAAAGAATATTAATTTCTATGTCTTTTATATTTTGACCT-AAATTAATTA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGA-CTGAAATTAATTA
* * * * *
55747617 ATATAACTATTTATATTAATAAATTTGGTACAATACATACAATTAATATTTTGTATTATTCAAAT
65 ATATAACTATTTATATTAATAAATTTGATAAAATATATACAATTAATATTTTGTATGAATCAAAT
55747682 TCATATATT
130 TCATATATT
*
55747691 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTGTTTTATTATTTTGACTGAAATTAATTA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTA-TATTTTGACTGAAATTAATTA
**
55747756 ATATAACTATTTATATTAATAAATTCAATAAAATATATACAATTAATATTTTGTATGAATCAAAT
65 ATATAACTATTTATATTAATAAATTTGATAAAATATATACAATTAATATTTTGTATGAATCAAAT
55747821 TCATATATT
130 TCATATATT
* * * * * *
55747830 AATTATATTTTTTTCAGAAGAATATTAATTACCATATATTTTATATTTTGACTGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTGAAATTAATTAA
* * *
55747895 TATAACTTTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTTTATGAATCAAATT
66 TATAACTATTTATATTAATAAATTTGATAAAATATATACAATTAATATTTTGTATGAATCAAATT
55747960 CATATATT
131 CATATATT
55747968 AATTA
1 AATTA
55747973 ATTTATGTTC
Statistics
Matches: 379, Mismatches: 35, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
136 53 0.14
137 76 0.20
138 128 0.34
139 122 0.32
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.46
Consensus pattern (138 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTGAAATTAATTAA
TATAACTATTTATATTAATAAATTTGATAAAATATATACAATTAATATTTTGTATGAATCAAATT
CATATATT
Found at i:55747917 original size:277 final size:274
Alignment explanation
Indices: 55747417--55747972 Score: 844
Period size: 277 Copynumber: 2.0 Consensus size: 274
55747407 TAGAAAAAGG
* *
55747417 AATTATATTCTTTCCAAAAGAATATTAATTTACATGTCTTTTATACTTTGACCGTAATTGATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTACATGTCTTTTATACTTTGACCGAAATTAATTAA
** * *
55747482 TAGAACTTTTATATTAATAAATTTGATAAAATATAGATAATTAATATTTTGTATAAATTAAATTC
66 TAGAACTTTTATATTAATAAATTCAATAAAATATAGACAATTAATATTTTGTATAAATCAAATTC
* * * *
55747547 ATATATTAATTATATTTTTCCAAAAGAATATTAATTTCTATGTCTTTTATATTTTGACCTAAATT
131 ATATATTAATTATATTTTTCCAAAAGAATATTAATTACCATATATTTTATATTTTGACCTAAATT
* * *
55747612 AATTAATATAACTATTTATATTAATAAATTTGGTACAATACATACAATTAATATTTTGTATTATT
196 AATTAATATAACTATTTATATTAATAAATTTGGTAAAATACATACAATTAATATTTTGTATGAAT
55747677 CAAATTCATATATT
261 CAAATTCATATATT
* * * *
55747691 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTGTTTTATTATTTTGACTGAAATTAATTA
1 AATTATATTCTTTCCAAAAGAATATTAATTTACATGTCTTTTA-TACTTTGACCGAAATTAATTA
* * *
55747756 ATATAACTATTTATATTAATAAATTCAATAAAATATATACAATTAATATTTTGTATGAATCAAAT
65 ATAGAACT-TTTATATTAATAAATTCAATAAAATATAGACAATTAATATTTTGTATAAATCAAAT
* *
55747821 TCATATATTAATTATATTTTTTTCAGAAGAATATTAATTACCATATATTTTATATTTTGA-CTGA
129 TCATATATTAATTATA-TTTTTCCAAAAGAATATTAATTACCATATATTTTATATTTTGACCT-A
* * *
55747885 AATTAATTAATATAACTTTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTTTAT
192 AATTAATTAATATAACTATTTATATTAATAAATTTGGTAAAATACATACAATTAATATTTTGTAT
55747950 GAATCAAATTCATATATT
257 GAATCAAATTCATATATT
55747968 AATTA
1 AATTA
55747973 ATTTATGTTC
Statistics
Matches: 253, Mismatches: 25, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
274 41 0.16
275 24 0.09
276 68 0.27
277 120 0.47
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.46
Consensus pattern (274 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTACATGTCTTTTATACTTTGACCGAAATTAATTAA
TAGAACTTTTATATTAATAAATTCAATAAAATATAGACAATTAATATTTTGTATAAATCAAATTC
ATATATTAATTATATTTTTCCAAAAGAATATTAATTACCATATATTTTATATTTTGACCTAAATT
AATTAATATAACTATTTATATTAATAAATTTGGTAAAATACATACAATTAATATTTTGTATGAAT
CAAATTCATATATT
Found at i:55753137 original size:49 final size:49
Alignment explanation
Indices: 55753075--55753207 Score: 171
Period size: 49 Copynumber: 2.7 Consensus size: 49
55753065 GCACATCAAA
* *
55753075 GTCGATGCCATGTCCTAGACAGGTCTTACATTGACTTTCATATATCGAG
1 GTCGATGCCATGTCCTAGACAGGTCTTACACTGACTCTCATATATCGAG
* * *
55753124 G-CTGATGCCATGT-CTGAGACAGGTCTTACACTGGCTCTCATCTATCGAT
1 GTC-GATGCCATGTCCT-AGACAGGTCTTACACTGACTCTCATATATCGAG
* *
55753173 GTCGATGCCATGTCCCAGACAAGTCTTACACTGAC
1 GTCGATGCCATGTCCTAGACAGGTCTTACACTGAC
55753208 ACACAATAAG
Statistics
Matches: 72, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
48 3 0.04
49 67 0.93
50 2 0.03
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.29
Consensus pattern (49 bp):
GTCGATGCCATGTCCTAGACAGGTCTTACACTGACTCTCATATATCGAG
Found at i:55753826 original size:20 final size:19
Alignment explanation
Indices: 55753790--55753839 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
55753780 TATAGCAACT
*
55753790 CACATTTTCAATTATTTCA
1 CACATTTACAATTATTTCA
*
55753809 CACATTTACAACTTATTTTA
1 CACATTTACAA-TTATTTCA
55753829 CA-ACTTTACAA
1 CACA-TTTACAA
55753840 AATAACCCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.36, C:0.22, G:0.00, T:0.42
Consensus pattern (19 bp):
CACATTTACAATTATTTCA
Found at i:55763848 original size:15 final size:16
Alignment explanation
Indices: 55763819--55763848 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
55763809 CAAACATACT
55763819 TTAACACATTATCAAA
1 TTAACACATTATCAAA
55763835 TTAACACA-TATCAA
1 TTAACACATTATCAA
55763849 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:55768232 original size:23 final size:24
Alignment explanation
Indices: 55768184--55768232 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
55768174 TATATATCTA
*
55768184 ATCACAATATAATCACATATTAAC
1 ATCACAATATAATCACAAATTAAC
*
55768208 ATCA-AATTTAATCA-AAATTATAC
1 ATCACAATATAATCACAAATTA-AC
55768231 AT
1 AT
55768233 AATACAGTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 5 0.23
23 13 0.59
24 4 0.18
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (24 bp):
ATCACAATATAATCACAAATTAAC
Found at i:55770943 original size:26 final size:26
Alignment explanation
Indices: 55770898--55770958 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
55770888 AATTTTCTCA
*
55770898 AAATTTTAC-AAGGGTAAAATCGTCT
1 AAATTTTACTAAGGGTAAAATCATCT
*
55770923 AAATTTTACTATGGGTAAAATCATCT
1 AAATTTTACTAAGGGTAAAATCATCT
55770949 AAATTTTACT
1 AAATTTTACT
55770959 GGAGAAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
25 9 0.27
26 24 0.73
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.38
Consensus pattern (26 bp):
AAATTTTACTAAGGGTAAAATCATCT
Found at i:55771075 original size:36 final size:36
Alignment explanation
Indices: 55771023--55771093 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
55771013 TGGAAAATAG
*
55771023 AAAATTGAATCGGGTTGGATTACATTACAGAGTACA
1 AAAACTGAATCGGGTTGGATTACATTACAGAGTACA
55771059 AAAACTGAATCGGGTTGGATTACATTACAGAGTAC
1 AAAACTGAATCGGGTTGGATTACATTACAGAGTAC
55771094 TGGGTCAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.27
Consensus pattern (36 bp):
AAAACTGAATCGGGTTGGATTACATTACAGAGTACA
Found at i:55773548 original size:244 final size:244
Alignment explanation
Indices: 55773116--55773605 Score: 890
Period size: 244 Copynumber: 2.0 Consensus size: 244
55773106 CTCATTTCCA
55773116 TAGCCAAACTTTGACTTGATACACCCTAGTCTCCATGTTTAACATCCTGGCAGATGACCCAGTCT
1 TAGCCAAACTTTGACTTGATACACCCTAGTCTCCATGTTTAACATCCTGGCAGATGACCCAGTCT
* * *
55773181 TTAATGTCCCGTCGAATTGCATATTTTTATCATCTTGATAGGCTATCTATGTTTAACATCCTGTC
66 TTAATGTCCCGTCGAACTACATATTTTTATCATCTTGATAGGCTATCTATGTTTAACATCCTGAC
*
55773246 AGACTACTTTAGTTGCCATAGTCCAACTATGGTTTTACACCTTATATTTCCCGTGTTTACCATCA
131 AGACTACTTTAGTTACCATAGTCCAACTATGGTTTTACACCTTATATTTCCCGTGTTTACCATCA
55773311 CGGTGGACTACTAGGAAGCCATATCGTCTTTCAACTATGGTCTTAATCC
196 CGGTGGACTACTAGGAAGCCATATCGTCTTTCAACTATGGTCTTAATCC
*
55773360 TAGCCAAACTTTGACTTGATACACCCTAGTCTCCATGTTTAACATCCTGGCAGATGACCCCGTCT
1 TAGCCAAACTTTGACTTGATACACCCTAGTCTCCATGTTTAACATCCTGGCAGATGACCCAGTCT
*
55773425 TTAATGTCCCGTCGAACTACATATTTTTATCATCTTGATAGGCTATCTATTTTTAACATCCTGAC
66 TTAATGTCCCGTCGAACTACATATTTTTATCATCTTGATAGGCTATCTATGTTTAACATCCTGAC
* * *
55773490 AGACTACTTTAGTTACCATGGTCCAACTATGGTTTTACACCTTATATTTCCTGTGTTTACCATTA
131 AGACTACTTTAGTTACCATAGTCCAACTATGGTTTTACACCTTATATTTCCCGTGTTTACCATCA
*
55773555 CGGTGGACTACTAGGAAGCCATATCGTCTTTCAACTATGGTCTTAGTCC
196 CGGTGGACTACTAGGAAGCCATATCGTCTTTCAACTATGGTCTTAATCC
55773604 TA
1 TA
55773606 TTTACCTTGA
Statistics
Matches: 236, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
244 236 1.00
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (244 bp):
TAGCCAAACTTTGACTTGATACACCCTAGTCTCCATGTTTAACATCCTGGCAGATGACCCAGTCT
TTAATGTCCCGTCGAACTACATATTTTTATCATCTTGATAGGCTATCTATGTTTAACATCCTGAC
AGACTACTTTAGTTACCATAGTCCAACTATGGTTTTACACCTTATATTTCCCGTGTTTACCATCA
CGGTGGACTACTAGGAAGCCATATCGTCTTTCAACTATGGTCTTAATCC
Found at i:55776902 original size:27 final size:27
Alignment explanation
Indices: 55776872--55777049 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
55776862 ATATTGAGCC
* *
55776872 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
55776899 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
55776926 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
55776954 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
55776981 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
55777008 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
55777035 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
55777050 GTACAATTTA
Statistics
Matches: 127, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 102 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:55777011 original size:82 final size:81
Alignment explanation
Indices: 55776893--55777048 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
55776883 TGCTATATAA
* * *
55776893 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
55776958 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
55776975 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
55777039 CACTTAGTGC
65 CACTTAGTGC
55777049 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 19 0.29
82 47 0.71
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:55790168 original size:137 final size:138
Alignment explanation
Indices: 55789667--55790230 Score: 794
Period size: 138 Copynumber: 4.1 Consensus size: 138
55789657 GAGAACATAG
* * * *
55789667 ATATAATTAATTTATGAGTTTGATTCATACAAAAATATTAATTGTATATATTTTACCTAATTCAT
1 ATATAATTAATATATGAATTTGATTCATAC-AAAATATTAATTGTATATATTTTACCGAATTTAT
* ** *
55789732 TAATATAAACATTTATATTAATTAATTTCAGTCAAAATATAAAAGAAATAAAAATTAATATTATT
65 TAATATAAACAGTTATATTAATTAATTTCAGTCAAAATATAAAAGAAATGGAAATTAATATTCTT
55789797 TTGGGAAGA
130 TTGGGAAGA
*
55789806 ATATAATTAATATATGAATTTGATTCATACAAAATATTAGTTGTATATATTTTACCGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
* * * *
55789871 AATATAAACAGTTATGTTAA-TAAGTTTCAATCAAAATATAAAATAGATGGAAATTAATATTCTT
66 AATATAAACAGTTATATTAATTAA-TTTCAGTCAAAATATAAAAGAAATGGAAATTAATATTCTT
*
55789935 TTGGAAAGA
130 TTGGGAAGA
*
55789944 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
* ** * *
55790009 AATATAAAGAGTTATATTAATTAATTTTGGTCAAAATATAAAAGATATGGAAATTATTATTCTTT
66 AATATAAACAGTTATATTAATTAATTTCAGTCAAAATATAAAAGAAATGGAAATTAATATTCTTT
55790074 TGGGAAGA
131 TGGGAAGA
*
55790082 ATATAATTAATATATGAATTTG-TTCATGCAAAATATTAATTGTATATATTTTACCGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
* *
55790146 AATATAAAC-GATTATATTAATTAATTTCAGTTCAAATATAAAAAAAAAACAT-GAACATTAATA
66 AATATAAACAG-TTATATTAATTAATTTCAG-TCAAA-AT-ATAAAAGAA-ATGGAA-ATTAATA
* *
55790209 TTCTTCTGGAAAGA
125 TTCTTTTGGGAAGA
*
55790223 ATACAATT
1 ATATAATT
55790231 CTTTTTTCTA
Statistics
Matches: 380, Mismatches: 37, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
136 1 0.00
137 68 0.18
138 242 0.64
139 33 0.09
140 9 0.02
141 27 0.07
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.40
Consensus pattern (138 bp):
ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
AATATAAACAGTTATATTAATTAATTTCAGTCAAAATATAAAAGAAATGGAAATTAATATTCTTT
TGGGAAGA
Found at i:55796341 original size:9 final size:9
Alignment explanation
Indices: 55796329--55796385 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
55796319 TTTGATAAAC
55796329 ATGATATGT
1 ATGATATGT
*
55796338 ATGATATGCAC
1 ATGATATG--T
*
55796349 ATGACATGT
1 ATGATATGT
*
55796358 ATGATATGCAC
1 ATGATATG--T
55796369 ATGATATGT
1 ATGATATGT
55796378 ATGATATG
1 ATGATATG
55796386 CACATGCGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:55796352 original size:20 final size:20
Alignment explanation
Indices: 55796327--55796391 Score: 121
Period size: 20 Copynumber: 3.2 Consensus size: 20
55796317 ATTTTGATAA
55796327 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
55796347 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
55796367 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
55796387 ACATG
1 ACATG
55796392 CGATGTTCAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:55796374 original size:11 final size:11
Alignment explanation
Indices: 55796338--55796391 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
55796328 CATGATATGT
55796338 ATGATATGCAC
1 ATGATATGCAC
* *
55796349 ATGACATG--T
1 ATGATATGCAC
55796358 ATGATATGCAC
1 ATGATATGCAC
*
55796369 ATGATATG--T
1 ATGATATGCAC
55796378 ATGATATGCAC
1 ATGATATGCAC
55796389 ATG
1 ATG
55796392 CGATGTTCAT
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 15 0.45
11 18 0.55
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:55796474 original size:24 final size:24
Alignment explanation
Indices: 55796442--55796571 Score: 217
Period size: 24 Copynumber: 5.4 Consensus size: 24
55796432 GGAGGAAGTG
55796442 TAAAAGGGCTTTTGCCCCAGTTAT
1 TAAAAGGGCTTTTGCCCCAGTTAT
55796466 TAAAAGGGCTTTTGCCCCAGTTAT
1 TAAAAGGGCTTTTGCCCCAGTTAT
55796490 TAAAAGGGCTTTTGCCCCAGTTAT
1 TAAAAGGGCTTTTGCCCCAGTTAT
* *
55796514 CAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTTTGCCCCAGTTAT
*
55796538 CAAAAGGGC-TTTGCCCCAGTTAT
1 TAAAAGGGCTTTTGCCCCAGTTAT
55796561 TAAAAGAGGCT
1 TAAAAG-GGCT
55796572 AGGCCTCCAG
Statistics
Matches: 100, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
23 18 0.18
24 82 0.82
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
TAAAAGGGCTTTTGCCCCAGTTAT
Found at i:55796816 original size:31 final size:32
Alignment explanation
Indices: 55796778--55796841 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
55796768 CGTTTACAGT
55796778 AAAGGCTTCGG-CCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCCAGTAATATGAAATATGA
** *
55796809 AAAGGCTTCGGCCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCCAGTAATATGAAATATGA
55796841 A
1 A
55796842 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 11 0.38
32 18 0.62
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.25
Consensus pattern (32 bp):
AAAGGCTTCGGCCCCAGTAATATGAAATATGA
Found at i:55797685 original size:25 final size:25
Alignment explanation
Indices: 55797657--55797752 Score: 86
Period size: 25 Copynumber: 3.8 Consensus size: 25
55797647 ATGCTCATAA
* *
55797657 GAGCTATGAATTGGTATGCTCTCAT
1 GAGCTATGAATCGGTAAGCTCTCAT
* * *
55797682 GAGCTGTGAATCGATAAGCTCAT-AC
1 GAGCTATGAATCGGTAAGCTC-TCAT
* *
55797707 GAGCTAAGAATCAGTAAGCTCTCAT
1 GAGCTATGAATCGGTAAGCTCTCAT
* * *
55797732 GAGCTGTAAATCGATAAGCTC
1 GAGCTATGAATCGGTAAGCTC
55797753 ATACGAGCTA
Statistics
Matches: 54, Mismatches: 15, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
24 1 0.02
25 52 0.96
26 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (25 bp):
GAGCTATGAATCGGTAAGCTCTCAT
Found at i:55797728 original size:50 final size:50
Alignment explanation
Indices: 55797649--55797762 Score: 174
Period size: 50 Copynumber: 2.3 Consensus size: 50
55797639 ATACAAGTAT
* * ** * *
55797649 GCTCATAAGAGCTATGAATTGGTATGCTCTCATGAGCTGTGAATCGATAA
1 GCTCATACGAGCTAAGAATCAGTAAGCTCTCATGAGCTGTAAATCGATAA
55797699 GCTCATACGAGCTAAGAATCAGTAAGCTCTCATGAGCTGTAAATCGATAA
1 GCTCATACGAGCTAAGAATCAGTAAGCTCTCATGAGCTGTAAATCGATAA
55797749 GCTCATACGAGCTA
1 GCTCATACGAGCTA
55797763 TGGTGTGTTC
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 58 1.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.26
Consensus pattern (50 bp):
GCTCATACGAGCTAAGAATCAGTAAGCTCTCATGAGCTGTAAATCGATAA
Found at i:55797760 original size:25 final size:25
Alignment explanation
Indices: 55797682--55797761 Score: 85
Period size: 25 Copynumber: 3.2 Consensus size: 25
55797672 ATGCTCTCAT
*
55797682 GAGCTGTGAATCGATAAGCTCATAC
1 GAGCTGTAAATCGATAAGCTCATAC
* *
55797707 GAGCT-AAGAATC-AGTAAGCTC-TCAT
1 GAGCTGTA-AATCGA-TAAGCTCAT-AC
55797732 GAGCTGTAAATCGATAAGCTCATAC
1 GAGCTGTAAATCGATAAGCTCATAC
55797757 GAGCT
1 GAGCT
55797762 ATGGTGTGTT
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
24 2 0.05
25 39 0.89
26 3 0.07
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.24
Consensus pattern (25 bp):
GAGCTGTAAATCGATAAGCTCATAC
Found at i:55801477 original size:24 final size:23
Alignment explanation
Indices: 55801442--55801487 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
55801432 AGAACTTTTA
*
55801442 ATCAGGAAGCTCACGAAA-AGCCT
1 ATCAAGAAGCTCAC-AAAGAGCCT
55801465 ATCAAGAATGCTCACAAAGAGCC
1 ATCAAGAA-GCTCACAAAGAGCC
55801488 ATGTAATAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.41, C:0.26, G:0.20, T:0.13
Consensus pattern (23 bp):
ATCAAGAAGCTCACAAAGAGCCT
Found at i:55822287 original size:21 final size:21
Alignment explanation
Indices: 55822261--55822300 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
55822251 TTACATAATG
*
55822261 GTATCGCGACACCTACCCCCC
1 GTATCGCGACACCCACCCCCC
*
55822282 GTATCGCGATACCCACCCC
1 GTATCGCGACACCCACCCC
55822301 TCGGTATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.50, G:0.15, T:0.15
Consensus pattern (21 bp):
GTATCGCGACACCCACCCCCC
Found at i:55823390 original size:28 final size:28
Alignment explanation
Indices: 55823358--55823413 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
55823348 CTAAGATGTG
55823358 GATGTAATTTATTTGCACTCGCACATCA
1 GATGTAATTTATTTGCACTCGCACATCA
55823386 GATGTAATTTATTTGCACTCGCACATCA
1 GATGTAATTTATTTGCACTCGCACATCA
55823414 CCATTACTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (28 bp):
GATGTAATTTATTTGCACTCGCACATCA
Found at i:55830620 original size:25 final size:25
Alignment explanation
Indices: 55830592--55830653 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
55830582 TTTCTAACTA
* *
55830592 ATCACTAAATTGATAAAATTTTCCT
1 ATCAATAAATTCATAAAATTTTCCT
* **
55830617 ATCAATAATTTCATACGATTTTCCT
1 ATCAATAAATTCATAAAATTTTCCT
55830642 ATCATATAAATT
1 ATCA-ATAAATT
55830654 TTCAAGCAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 24 0.80
26 6 0.20
ACGTcount: A:0.39, C:0.16, G:0.03, T:0.42
Consensus pattern (25 bp):
ATCAATAAATTCATAAAATTTTCCT
Found at i:55838434 original size:20 final size:21
Alignment explanation
Indices: 55838409--55838447 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
55838399 TCCTTAAAAC
55838409 AGGGC-ACACGCCCGTATGGA
1 AGGGCAACACGCCCGTATGGA
*
55838429 AGGGCAACATGCCCGTATG
1 AGGGCAACACGCCCGTATG
55838448 ACCAACTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.26, C:0.28, G:0.33, T:0.13
Consensus pattern (21 bp):
AGGGCAACACGCCCGTATGGA
Found at i:55841832 original size:21 final size:23
Alignment explanation
Indices: 55841788--55841832 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
55841778 ATTAAGGATT
* *
55841788 CCCTTTAGTGGTATCGCGATATC
1 CCCTTTAGTGGTATCGCAAAATC
55841811 CCCTTT-G-GGTATCGCAAAATC
1 CCCTTTAGTGGTATCGCAAAATC
55841832 C
1 C
55841833 ACCTCCCAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 13 0.65
22 1 0.05
23 6 0.30
ACGTcount: A:0.20, C:0.29, G:0.20, T:0.31
Consensus pattern (23 bp):
CCCTTTAGTGGTATCGCAAAATC
Found at i:55844887 original size:40 final size:40
Alignment explanation
Indices: 55844758--55844985 Score: 149
Period size: 40 Copynumber: 5.7 Consensus size: 40
55844748 AAGTTCATAT
* * * **
55844758 GGGGAGCTTCACTGATACACAACTTCATCACTTAAGCTCACGT
1 GGGGAGCTTCGCTGATACACAACTT-GTC-CATAAGCTCA-AA
* * * * * * *
55844801 GGGGAGCTTCACTGATCCACAACTTAT-TATTAGTTCATA
1 GGGGAGCTTCGCTGATACACAACTTGTCCATAAGCTCAAA
* * * * *
55844840 GAGGAGCTTTGCTGATACGCAGC-TGATCTATAAGCTCAAA
1 GGGGAGCTTCGCTGATACACAACTTG-TCCATAAGCTCAAA
* * *
55844880 GGGGAGCTCCGTTGATACACAACTTGTCCATAAGCTCACA
1 GGGGAGCTTCGCTGATACACAACTTGTCCATAAGCTCAAA
* * * *
55844920 GGGGAGCTTCGCTAATACACAACTTATCCTTAA-CTC-AT
1 GGGGAGCTTCGCTGATACACAACTTGTCCATAAGCTCAAA
* *
55844958 GGAGGAGCTTTGCCGATACACAACTTGT
1 GG-GGAGCTTCGCTGATACACAACTTGT
55844986 AAAATCATTT
Statistics
Matches: 145, Mismatches: 36, Indels: 12
0.75 0.19 0.06
Matches are distributed among these distances:
38 3 0.02
39 42 0.29
40 72 0.50
41 2 0.01
42 2 0.01
43 24 0.17
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (40 bp):
GGGGAGCTTCGCTGATACACAACTTGTCCATAAGCTCAAA
Found at i:55845279 original size:52 final size:52
Alignment explanation
Indices: 55845214--55845426 Score: 277
Period size: 52 Copynumber: 4.1 Consensus size: 52
55845204 AATTCCAAAC
*
55845214 CACTCATACTTTTAAAAGCTTAGTAAAGAACATACTCATAACGAAGCCCAAT
1 CACTCACACTTTTAAAAGCTTAGTAAAGAACATACTCATAACGAAGCCCAAT
* * * *
55845266 CACTCACATTTTTATAAGCTTAGTATAGAACATACTCATAACGGAGCCCAAT
1 CACTCACACTTTTAAAAGCTTAGTAAAGAACATACTCATAACGAAGCCCAAT
* * * *
55845318 CACTCCCACTTTTAAAAG-TTAGTAAAGAAAATACTCATAA-TAGAGCCTAAT
1 CACTCACACTTTTAAAAGCTTAGTAAAGAACATACTCATAACGA-AGCCCAAT
* * * * *
55845369 CACTCACACTTTTATAAGCTTAGTAAATAGCATACTCATAACGGAGCCCGAT
1 CACTCACACTTTTAAAAGCTTAGTAAAGAACATACTCATAACGAAGCCCAAT
55845421 CACTCA
1 CACTCA
55845427 TCGAAAAATG
Statistics
Matches: 136, Mismatches: 22, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
51 43 0.32
52 93 0.68
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.27
Consensus pattern (52 bp):
CACTCACACTTTTAAAAGCTTAGTAAAGAACATACTCATAACGAAGCCCAAT
Found at i:55845374 original size:103 final size:104
Alignment explanation
Indices: 55845221--55845425 Score: 315
Period size: 103 Copynumber: 2.0 Consensus size: 104
55845211 AACCACTCAT
* * *
55845221 ACTTTTAAAAGCTTAGTAAAGAACATACTCATAACGAAGCCCAATCACTCACATTTTTATAAGCT
1 ACTTTTAAAAGCTTAGTAAAGAAAATACTCATAAAGAAGCCCAATCACTCACACTTTTATAAGCT
*
55845286 TAGTATAGAACATACTCATAACGGAGCCCAATCACTCCC
66 TAGTAAAGAACATACTCATAACGGAGCCCAATCACTCCC
*
55845325 ACTTTTAAAAG-TTAGTAAAGAAAATACTCATAATAG-AGCCTAATCACTCACACTTTTATAAGC
1 ACTTTTAAAAGCTTAGTAAAGAAAATACTCATAA-AGAAGCCCAATCACTCACACTTTTATAAGC
* * *
55845388 TTAGTAAATAGCATACTCATAACGGAGCCCGATCACTC
65 TTAGTAAAGAACATACTCATAACGGAGCCCAATCACTC
55845426 ATCGAAAAAT
Statistics
Matches: 92, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
103 80 0.87
104 12 0.13
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.27
Consensus pattern (104 bp):
ACTTTTAAAAGCTTAGTAAAGAAAATACTCATAAAGAAGCCCAATCACTCACACTTTTATAAGCT
TAGTAAAGAACATACTCATAACGGAGCCCAATCACTCCC
Found at i:55849122 original size:40 final size:35
Alignment explanation
Indices: 55849049--55849117 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
55849039 ATAAGTATTT
55849049 TACCCATGCAAGACACTTCAATTGCACATCTTTAA
1 TACCCATGCAAGACACTTCAATTGCACATCTTTAA
*
55849084 TACCCATGCAAGACACTTCACTTGCACATCTTTA
1 TACCCATGCAAGACACTTCAATTGCACATCTTTA
55849118 CTTTATCATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.32, C:0.30, G:0.09, T:0.29
Consensus pattern (35 bp):
TACCCATGCAAGACACTTCAATTGCACATCTTTAA
Done.