Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 3 of 295
Found at i:901089 original size:23 final size:23
Alignment explanation
Indices: 901063--901129 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 23
901053 ATATTTCTAC
901063 TATTATTATATTTCTATTTATTA
1 TATTATTATATTTCTATTTATTA
901086 TATT-TT-TATTTCTATTTATATA
1 TATTATTATATTTCTATTTAT-TA
*
901108 CTAATATTAT-TTTC-A-TTATTA
1 -TATTATTATATTTCTATTTATTA
901129 T
1 T
901130 TTTTCTTATA
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
20 1 0.03
21 15 0.38
22 8 0.21
23 8 0.21
24 6 0.15
25 1 0.03
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (23 bp):
TATTATTATATTTCTATTTATTA
Found at i:901097 original size:21 final size:21
Alignment explanation
Indices: 901039--901104 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 21
901029 ATACTATTAT
* *
901039 TTATTTTTTTATTTATATTT-
1 TTATATTTTTATTTCTATTTA
*
901059 CTACTATTATTATATTTCTATTTA
1 TTA-TATT-TT-TATTTCTATTTA
901083 TTATATTTTTATTTCTATTTA
1 TTATATTTTTATTTCTATTTA
901104 T
1 T
901105 ATACTAATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
20 2 0.05
21 16 0.42
22 4 0.11
23 14 0.37
24 2 0.05
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.70
Consensus pattern (21 bp):
TTATATTTTTATTTCTATTTA
Found at i:901131 original size:73 final size:70
Alignment explanation
Indices: 900978--901131 Score: 152
Period size: 73 Copynumber: 2.1 Consensus size: 70
900968 TAATTTAGTA
* * * *
900978 TATTATTGCTATTATTATTATGTTTCTATTTATATTTATTTTGTTATTCTAATACTATTATTTAT
1 TATTATTTCTACTATTATTATATTTCTATTTATATTTATTTTGTTATTCTAATACTAATATTTAT
*
901043 TTTTT
66 TTTAT
*
901048 TATTTATATTTCTACTATTATTATATTTCTATTTATTATATT-TTTATTTCTATT-TATATACTA
1 TA--T-TATTTCTACTATTATTATATTTCTATTTA-TAT-TTATTT-TGT-TATTCTA-ATACTA
901111 ATA-TTATTTTCAT
58 ATATTTATTTT-AT
901124 TATTATTT
1 TATTATTT
901132 TTCTTATATA
Statistics
Matches: 69, Mismatches: 6, Indels: 15
0.77 0.07 0.17
Matches are distributed among these distances:
70 2 0.03
72 1 0.01
73 31 0.45
74 7 0.10
75 13 0.19
76 15 0.22
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (70 bp):
TATTATTTCTACTATTATTATATTTCTATTTATATTTATTTTGTTATTCTAATACTAATATTTAT
TTTAT
Found at i:901294 original size:25 final size:24
Alignment explanation
Indices: 901233--901294 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
901223 TATGACGCTC
*
901233 ATTTCAAATTTTTATACATTATTT
1 ATTTCAAATTTTTATACATTATGT
* *
901257 ACTTT-AATATTTTCATATATTATGT
1 A-TTTCAA-ATTTTTATACATTATGT
901282 ATTTCAAATTTTT
1 ATTTCAAATTTTT
901295 TTTACATGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
24 11 0.35
25 20 0.65
ACGTcount: A:0.32, C:0.08, G:0.02, T:0.58
Consensus pattern (24 bp):
ATTTCAAATTTTTATACATTATGT
Found at i:902591 original size:88 final size:89
Alignment explanation
Indices: 902433--902604 Score: 233
Period size: 88 Copynumber: 1.9 Consensus size: 89
902423 TTTTTCTTTT
* * * **
902433 TTTTTTTACATTCAATTGAGCACTTGAATATTCAAAATACATTAAAAAGGCCCTCAAACTTTTTC
1 TTTTTTTACAATCAATTGAGCACTTGAATATTCAAAATACATCAAAAAGACCCTCAAAAATTTTC
902498 AAAAAAAGCAATTAAGCCCTCTAC
66 AAAAAAAGCAATTAAGCCCTCTAC
* * *
902522 TTTTTTTA-AATCAATTGGGCACTTGAACT-TTCAAAATGCATCAAAAAGACCCTTGAAAAATTT
1 TTTTTTTACAATCAATTGAGCACTTGAA-TATTCAAAATACATCAAAAAGACCC-TCAAAAATTT
902585 TC-AAAAAAGCAATTAAGCCC
64 TCAAAAAAAGCAATTAAGCCC
902605 CTGCTCTTAT
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
88 55 0.75
89 18 0.25
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.31
Consensus pattern (89 bp):
TTTTTTTACAATCAATTGAGCACTTGAATATTCAAAATACATCAAAAAGACCCTCAAAAATTTTC
AAAAAAAGCAATTAAGCCCTCTAC
Found at i:902885 original size:29 final size:27
Alignment explanation
Indices: 902832--902885 Score: 63
Period size: 29 Copynumber: 1.9 Consensus size: 27
902822 GAAAAATGAT
*
902832 AAAAATAAAAATCAATAAAAGTTATAG
1 AAAAATAAAAATCAAAAAAAGTTATAG
* *
902859 AAAAATTATAAAATTAAAAAAATTTAT
1 AAAAA-TA-AAAATCAAAAAAAGTTAT
902886 TTTTTATATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 5 0.23
28 2 0.09
29 15 0.68
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.28
Consensus pattern (27 bp):
AAAAATAAAAATCAAAAAAAGTTATAG
Found at i:903887 original size:15 final size:15
Alignment explanation
Indices: 903867--903897 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
903857 CCTTCAAATG
903867 CCTCTATGTTGCACT
1 CCTCTATGTTGCACT
903882 CCTCTATGTTGCACT
1 CCTCTATGTTGCACT
903897 C
1 C
903898 GCACTCATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.35, G:0.13, T:0.39
Consensus pattern (15 bp):
CCTCTATGTTGCACT
Found at i:911302 original size:20 final size:21
Alignment explanation
Indices: 911252--911303 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
911242 CGCTTGGAGT
*
911252 ACTCTTTTCGATATTACTCTA
1 ACTCTTTTCAATATTACTCTA
* *
911273 ACTTTTTTCAATATTATTCTA
1 ACTCTTTTCAATATTACTCTA
911294 A-TCTTTTCAA
1 ACTCTTTTCAA
911304 ATCTGGGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 8 0.30
21 19 0.70
ACGTcount: A:0.27, C:0.19, G:0.02, T:0.52
Consensus pattern (21 bp):
ACTCTTTTCAATATTACTCTA
Found at i:912657 original size:24 final size:24
Alignment explanation
Indices: 912612--912658 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
912602 ATTTAGCCTG
*
912612 AATTTAAATAAAATAATTTATTTA
1 AATTTAAATAAAATAATATATTTA
*
912636 AATTTAATTATAAA-AATATATTT
1 AATTTAAATA-AAATAATATATTT
912659 TATTATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
AATTTAAATAAAATAATATATTTA
Found at i:919483 original size:18 final size:18
Alignment explanation
Indices: 919460--919498 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
919450 CTACCTTTTA
919460 TTTACTTATTATCTTACC
1 TTTACTTATTATCTTACC
919478 TTTACTTATTATCTTACC
1 TTTACTTATTATCTTACC
919496 TTT
1 TTT
919499 CTTTTTTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTACTTATTATCTTACC
Found at i:921760 original size:33 final size:33
Alignment explanation
Indices: 921719--921782 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
921709 AGGAGATTGA
921719 ATTTTTAACTTTTTAAGTATAGGGATTAAATTT
1 ATTTTTAACTTTTTAAGTATAGGGATTAAATTT
921752 ATTTTTAACTTTTTAAGTATAGGGATTAAAT
1 ATTTTTAACTTTTTAAGTATAGGGATTAAAT
921783 CTCAAATTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.34, C:0.03, G:0.12, T:0.50
Consensus pattern (33 bp):
ATTTTTAACTTTTTAAGTATAGGGATTAAATTT
Found at i:923014 original size:9 final size:9
Alignment explanation
Indices: 923000--923073 Score: 94
Period size: 9 Copynumber: 8.2 Consensus size: 9
922990 ATAAGTATAA
923000 AATTAACCG
1 AATTAACCG
*
923009 AATTAATCG
1 AATTAACCG
*
923018 AATTAATCG
1 AATTAACCG
923027 AATTAACCG
1 AATTAACCG
*
923036 AATTACCCG
1 AATTAACCG
* *
923045 AATTACCCA
1 AATTAACCG
*
923054 AATTAACCA
1 AATTAACCG
923063 AATTAACCG
1 AATTAACCG
923072 AA
1 AA
923074 AAAATCGAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 59 1.00
ACGTcount: A:0.46, C:0.22, G:0.08, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:923030 original size:27 final size:27
Alignment explanation
Indices: 923000--923085 Score: 100
Period size: 27 Copynumber: 3.2 Consensus size: 27
922990 ATAAGTATAA
*
923000 AATTAACCGAATTAATCGAATTAATCG
1 AATTAACCGAATTAACCGAATTAATCG
* ** *
923027 AATTAACCGAATTACCCGAATTACCCA
1 AATTAACCGAATTAACCGAATTAATCG
* **
923054 AATTAACCAAATTAACCGAAAAAATCG
1 AATTAACCGAATTAACCGAATTAATCG
923081 AATTA
1 AATTA
923086 TTTGTATAAA
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.48, C:0.20, G:0.08, T:0.24
Consensus pattern (27 bp):
AATTAACCGAATTAACCGAATTAATCG
Found at i:923116 original size:6 final size:6
Alignment explanation
Indices: 923105--923144 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
923095 AATTATATGT
* *
923105 TTTTTA TTTTTA TTTTTA GTTTTA GATTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA -TTTTTA TTTTTA TTT
923145 ATTAAATTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
6 25 0.83
7 5 0.17
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:924317 original size:20 final size:20
Alignment explanation
Indices: 924294--924337 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
924284 TAAAAGAAGG
*
924294 AAAAATATTTA-AAAAGTTC
1 AAAAATATGTACAAAAGTTC
**
924313 AAAAATATGTACGGAAGTTC
1 AAAAATATGTACAAAAGTTC
924333 AAAAA
1 AAAAA
924338 ATTCCGTACG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.57, C:0.07, G:0.11, T:0.25
Consensus pattern (20 bp):
AAAAATATGTACAAAAGTTC
Found at i:924835 original size:30 final size:31
Alignment explanation
Indices: 924766--924836 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 31
924756 TTTAACTGTG
** **
924766 GTGACTAAAATTTTAAATTTTAAAAATATTG
1 GTGACTAAAATTAAAAATTTTAAAAATATAA
* *
924797 GT-AATAAAATTAAAAATTTTTAAAAT-TAA
1 GTGACTAAAATTAAAAATTTTAAAAATATAA
924826 GTGACTAAAAT
1 GTGACTAAAAT
924837 AGAACTTACC
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
29 3 0.09
30 27 0.84
31 2 0.06
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (31 bp):
GTGACTAAAATTAAAAATTTTAAAAATATAA
Found at i:928096 original size:24 final size:24
Alignment explanation
Indices: 928052--928099 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
928042 GATACATCCA
**
928052 TACTAAAATAAATTATTTTAAAAT
1 TACTAAAATAAATTAAGTTAAAAT
928076 TACTAAAAATAAA-TAAGTTAAAAT
1 TACT-AAAATAAATTAAGTTAAAAT
928100 AAATTATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.35
Consensus pattern (24 bp):
TACTAAAATAAATTAAGTTAAAAT
Found at i:928327 original size:9 final size:9
Alignment explanation
Indices: 928285--928327 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
928275 TAATTTTTAT
*
928285 TAAAAATAA
1 TAAAAATTA
928294 TAAAAATTA
1 TAAAAATTA
**
928303 TAATTATTA
1 TAAAAATTA
928312 TAGAAAATTA
1 TA-AAAATTA
928322 TAAAAA
1 TAAAAA
928328 AAATATACAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
9 21 0.75
10 7 0.25
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (9 bp):
TAAAAATTA
Found at i:936472 original size:24 final size:24
Alignment explanation
Indices: 936428--936475 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
936418 ATACCTCTTA
**
936428 TACTAAAATAAATTATTTTAAAAT
1 TACTAAAATAAATTAAGTTAAAAT
936452 TACTAAAAATAAA-TAAGTTAAAAT
1 TACT-AAAATAAATTAAGTTAAAAT
936476 AAATTATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.35
Consensus pattern (24 bp):
TACTAAAATAAATTAAGTTAAAAT
Found at i:936737 original size:24 final size:23
Alignment explanation
Indices: 936693--936737 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
936683 AATCATTATA
**
936693 AAAATTTCAAAAAAAGTTATTTT
1 AAAATTTCAAAAAAAAATATTTT
936716 AAAATTTACAAAAAAAAATATT
1 AAAATTT-CAAAAAAAAATATT
936738 GAAAATATAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.33
Consensus pattern (23 bp):
AAAATTTCAAAAAAAAATATTTT
Found at i:936742 original size:23 final size:23
Alignment explanation
Indices: 936693--936743 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
936683 AATCATTATA
** *
936693 AAAATTTCAAAAAAAGTTATTTT
1 AAAATTTCAAAAAAAAATATTTG
936716 AAAATTTACAAAAAAAAATA-TTG
1 AAAATTT-CAAAAAAAAATATTTG
936739 AAAAT
1 AAAAT
936744 ATAGAAAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (23 bp):
AAAATTTCAAAAAAAAATATTTG
Found at i:936881 original size:20 final size:19
Alignment explanation
Indices: 936856--936899 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
936846 TTAAATATTG
* *
936856 TAAAAAAATATGAACAATATT
1 TAAAAACATA-GAA-AATAAT
936877 TAAAAACATAGAAAATAAT
1 TAAAAACATAGAAAATAAT
936896 TAAA
1 TAAA
936900 TTTTAATAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 9 0.43
20 3 0.14
21 9 0.43
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.25
Consensus pattern (19 bp):
TAAAAACATAGAAAATAAT
Found at i:936893 original size:19 final size:20
Alignment explanation
Indices: 936848--936899 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
936838 GGAAAAAATT
936848 AAATATTGTAAAAAAATATGA
1 AAATATT-TAAAAAAATATGA
*
936869 ACAATATTTAAAAACATA-GA
1 A-AATATTTAAAAAAATATGA
*
936889 AAATAATTAAA
1 AAATATTTAAA
936900 TTTTAATAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 9 0.32
20 3 0.11
21 10 0.36
22 6 0.21
ACGTcount: A:0.63, C:0.04, G:0.06, T:0.27
Consensus pattern (20 bp):
AAATATTTAAAAAAATATGA
Found at i:937701 original size:18 final size:18
Alignment explanation
Indices: 937666--937703 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
937656 AGTGTACCAA
937666 AAATAATTAAAATGTTAT
1 AAATAATTAAAATGTTAT
*
937684 AAATATATTAATAT-TTAT
1 AAATA-ATTAAAATGTTAT
937702 AA
1 AA
937704 TTTTAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (18 bp):
AAATAATTAAAATGTTAT
Found at i:942322 original size:36 final size:38
Alignment explanation
Indices: 942246--942321 Score: 95
Period size: 36 Copynumber: 2.0 Consensus size: 38
942236 TGATCATTAT
* *
942246 AATCTAACTATATATATTAGAGTTTATGTTTCACGAAA
1 AATCTAACTATATATATTAAAATTTATGTTTCACGAAA
942284 AATCTAACTATA-A-ATTAAAATTTACT-TTTCACAGAAA
1 AATCTAACTATATATATTAAAATTTA-TGTTTCAC-GAAA
942321 A
1 A
942322 TTGATTGGAC
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 15 0.44
37 7 0.21
38 12 0.35
ACGTcount: A:0.45, C:0.12, G:0.07, T:0.37
Consensus pattern (38 bp):
AATCTAACTATATATATTAAAATTTATGTTTCACGAAA
Found at i:943612 original size:16 final size:15
Alignment explanation
Indices: 943591--943644 Score: 63
Period size: 16 Copynumber: 3.5 Consensus size: 15
943581 ATCTGGCATT
943591 TTTTTTCTGTACATAG
1 TTTTTT-TGTACATAG
* * *
943607 TTTTTTGGTCCTTAG
1 TTTTTTTGTACATAG
943622 TTTTTTATGTACATAG
1 TTTTTT-TGTACATAG
943638 TTTTTTT
1 TTTTTTT
943645 TATCACATTT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
15 13 0.42
16 18 0.58
ACGTcount: A:0.15, C:0.09, G:0.13, T:0.63
Consensus pattern (15 bp):
TTTTTTTGTACATAG
Found at i:943641 original size:15 final size:14
Alignment explanation
Indices: 943592--943643 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 14
943582 TCTGGCATTT
943592 TTTTTCTGTACATAG
1 TTTTT-TGTACATAG
* *
943607 TTTTTTGGTCCTTAG
1 TTTTTT-GTACATAG
943622 TTTTTTATGTACATAG
1 -TTTTT-TGTACATAG
943638 TTTTTT
1 TTTTTT
943644 TTATCACATT
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
14 2 0.07
15 16 0.53
16 11 0.37
17 1 0.03
ACGTcount: A:0.15, C:0.10, G:0.13, T:0.62
Consensus pattern (14 bp):
TTTTTTGTACATAG
Found at i:946088 original size:17 final size:17
Alignment explanation
Indices: 946068--946102 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
946058 TCAAAATATG
946068 TAAAACCTACACTAAAA
1 TAAAACCTACACTAAAA
946085 TAAAACCTACACTAAAA
1 TAAAACCTACACTAAAA
946102 T
1 T
946103 TGGATGACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.57, C:0.23, G:0.00, T:0.20
Consensus pattern (17 bp):
TAAAACCTACACTAAAA
Found at i:947279 original size:31 final size:31
Alignment explanation
Indices: 947225--947288 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
947215 GATAATAGGA
* *
947225 AAATGTATACTTGAAACTCTAATTATGATTT
1 AAATGTATACTTAAAACTCTAATTATAATTT
* * *
947256 AAATGTATACTTAAAATTTTAATTTTAATTT
1 AAATGTATACTTAAAACTCTAATTATAATTT
947287 AA
1 AA
947289 TCATACGCAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.45
Consensus pattern (31 bp):
AAATGTATACTTAAAACTCTAATTATAATTT
Found at i:951308 original size:23 final size:23
Alignment explanation
Indices: 951282--951375 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
951272 AAGTTAGAAG
951282 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
951305 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
*
951328 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
951351 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
951374 AG
1 AG
951376 ATACACACAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.48, C:0.04, G:0.26, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:955811 original size:23 final size:23
Alignment explanation
Indices: 955785--955878 Score: 127
Period size: 23 Copynumber: 4.1 Consensus size: 23
955775 AAGTTAGAAG
955785 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
955808 AGTGAAAAAACTTGAATAT-AAA
1 AGTGAAGAGACTTGAATATGAAA
*
955830 TAGTGAAGAGACTTGAAGATGAAA
1 -AGTGAAGAGACTTGAATATGAAA
* *
955854 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
955877 AG
1 AG
955879 ATACACACAT
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
22 3 0.05
23 55 0.90
24 3 0.05
ACGTcount: A:0.49, C:0.04, G:0.24, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:962782 original size:18 final size:18
Alignment explanation
Indices: 962747--962794 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
962737 ACTTATATAT
962747 ATTATTTATTATTACTATC
1 ATTATTTATT-TTACTATC
*
962766 ATTA-TTATTTTATCTATT
1 ATTATTTATTTTA-CTATC
962784 ATTATTTATTT
1 ATTATTTATTT
962795 ATATATGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 3 0.12
18 13 0.50
19 10 0.38
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (18 bp):
ATTATTTATTTTACTATC
Found at i:962790 original size:15 final size:14
Alignment explanation
Indices: 962752--962790 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
962742 TATATATTAT
*
962752 TTATTATTACTATCA
1 TTATTATT-TTATCA
962767 TTATTATTTTATCTA
1 TTATTATTTTATC-A
962782 TTATTATTT
1 TTATTATTT
962791 ATTTATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 4 0.18
15 18 0.82
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (14 bp):
TTATTATTTTATCA
Found at i:962795 original size:18 final size:19
Alignment explanation
Indices: 962734--962797 Score: 57
Period size: 18 Copynumber: 3.5 Consensus size: 19
962724 TTATCTCCCT
*
962734 TTTACTTATA-TA-TATTA
1 TTTATTTATACTATTATTA
*
962751 TTTA-TTATTACTATCATTA
1 TTTATTTA-TACTATTATTA
962770 -TTATTT-TATCTATTATTA
1 TTTATTTATA-CTATTATTA
962788 TTTATTTATA
1 TTTATTTATA
962798 TATGTTTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
16 3 0.08
17 8 0.21
18 13 0.34
19 12 0.32
20 2 0.05
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTATTTATACTATTATTA
Found at i:967700 original size:3 final size:3
Alignment explanation
Indices: 967692--967724 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
967682 ACCTCCATAT
967692 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
967725 GAAGTGTCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:969885 original size:18 final size:19
Alignment explanation
Indices: 969848--969888 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
969838 CATCATTAAT
*
969848 ATTTTGAATTGTAATTTTA
1 ATTTTGAATCGTAATTTTA
*
969867 ATTTT-AATCGTACTTTTA
1 ATTTTGAATCGTAATTTTA
969885 ATTT
1 ATTT
969889 CTTAAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.59
Consensus pattern (19 bp):
ATTTTGAATCGTAATTTTA
Found at i:975244 original size:3 final size:3
Alignment explanation
Indices: 975229--975278 Score: 82
Period size: 3 Copynumber: 16.7 Consensus size: 3
975219 AAGCATAAAC
* *
975229 TAA TAA AAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
975277 TA
1 TA
975279 GTAAAATCGA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:976194 original size:26 final size:27
Alignment explanation
Indices: 976164--976227 Score: 121
Period size: 26 Copynumber: 2.4 Consensus size: 27
976154 AAAAAAATTT
976164 CCTTTTTTATTCCATTACCAACTTT-C
1 CCTTTTTTATTCCATTACCAACTTTCC
976190 CCTTTTTTATTCCATTACCAACTTTCC
1 CCTTTTTTATTCCATTACCAACTTTCC
976217 CCTTTTTTATT
1 CCTTTTTTATT
976228 TTTTATTTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 25 0.68
27 12 0.32
ACGTcount: A:0.17, C:0.30, G:0.00, T:0.53
Consensus pattern (27 bp):
CCTTTTTTATTCCATTACCAACTTTCC
Found at i:976919 original size:35 final size:35
Alignment explanation
Indices: 976868--976964 Score: 140
Period size: 35 Copynumber: 2.8 Consensus size: 35
976858 GAGAGGTGGA
* *
976868 GGTGGTAGACAGCATGGGAGAGTGGGAGTGGCGCT
1 GGTGGCAGACAGCATGGGAGAATGGGAGTGGCGCT
* *
976903 GGTGGCAGACAACATGGGAGAATGGGAGTGGTGCT
1 GGTGGCAGACAGCATGGGAGAATGGGAGTGGCGCT
* *
976938 GGTGGCAAATAGCATGGGAGAATGGGA
1 GGTGGCAGACAGCATGGGAGAATGGGA
976965 AGAGGCAAGT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 55 1.00
ACGTcount: A:0.26, C:0.10, G:0.47, T:0.16
Consensus pattern (35 bp):
GGTGGCAGACAGCATGGGAGAATGGGAGTGGCGCT
Found at i:978404 original size:21 final size:22
Alignment explanation
Indices: 978358--978405 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
978348 TTGCTTTTAA
*
978358 TATTTTAAAATAAAATTTAAAG
1 TATTATAAAATAAAATTTAAAG
978380 -ATTATAAAA-AAAA-TTATAAG
1 TATTATAAAATAAAATTTA-AAG
978400 TATTAT
1 TATTAT
978406 TTTATCAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 3 0.13
20 7 0.30
21 13 0.57
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (22 bp):
TATTATAAAATAAAATTTAAAG
Found at i:979048 original size:20 final size:19
Alignment explanation
Indices: 979019--979057 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
979009 AAAATAGTTT
979019 TTAATAAAAAACTGAAATA
1 TTAATAAAAAACTGAAATA
*
979038 TTAATTAAAAAACTTAAATA
1 TTAA-TAAAAAACTGAAATA
979058 AATTTATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.31
Consensus pattern (19 bp):
TTAATAAAAAACTGAAATA
Found at i:986771 original size:30 final size:32
Alignment explanation
Indices: 986733--986809 Score: 108
Period size: 30 Copynumber: 2.5 Consensus size: 32
986723 TTTTAATAGT
986733 TTAT-ATTTTATATT-TTTTAAAAAAATTAAA
1 TTATAATTTTATATTATTTTAAAAAAATTAAA
*
986763 TTA-AATTTT-TATTATTTTAAAAATATTAAA
1 TTATAATTTTATATTATTTTAAAAAAATTAAA
986793 TTATAATTTTATCATTA
1 TTATAATTTTAT-ATTA
986810 ATAATTTAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
29 4 0.10
30 26 0.63
31 6 0.15
32 1 0.02
33 4 0.10
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (32 bp):
TTATAATTTTATATTATTTTAAAAAAATTAAA
Found at i:989739 original size:299 final size:294
Alignment explanation
Indices: 989256--990008 Score: 838
Period size: 299 Copynumber: 2.5 Consensus size: 294
989246 GAGTATTTTT
* * *
989256 ACGGTAGTGATTGGAAAGAAGAAGGTTCTGGAAGCTTTTGGTCAAACAGTTTGACTGTAGTGTAT
1 ACGGTAGTGATAGG-AA-AAGAAGATTCTGGAA--ATTTGGTCAAACAGTTTGACTGTAGT-TAT
* * *
989321 TGTGCTTCTAATTATCGTTTTCAATGATGGATCCTGTGTATTTCAATGATTGGAATTGATTTATT
61 TGTGCTTGTAGTTATCGTTTTCAATGATGGATCCTGTGTATTTCAATGATTTGAATT-ATTTATT
* *
989386 ATGAGTGAAGTGTGATTGCTTATG-AAAATGATATTCGATTTTTCTTCCTTTGGTTTCC-GGAAT
125 -TGAGT-AAATGTGATTGCTTATGAAAAATGATATTCGATTTTTCTT-CTTTGG-TTCCTAGAAT
* * * ** * *
989449 GCTTTTGGATTTAATTTGTTCTTTGCAAAGTAGCCAA-AAAGTTCCTGTTCTCTTCTTTTAGGAT
186 ACTTTTGGA-TTAACTTGTTCTTAGCAAACCAGCCAAGAAA-TTCATATTCTCTTCTTTTAGGAT
* ** *
989513 TTAGT-AACGAGAA-TTTTGTAGCTAAATCAAACATAAAGGATTTTTG
249 TTAGTGAA-G-GAACATTTGTAGCTAAATCAAACATAAAGGAGGTTTA
* * * *
989559 A-GGTATTGATAGGAAAATAAGATTCTGGAAAATTTGGTCAAATAGTTTGATTGTAGCTTATTGT
1 ACGGTAGTGATAGGAAAAGAAGATTCTGG-AAATTTGGTCAAACAGTTTGACTGTAG-TTATTGT
989623 GCTTGTAGTTATCGTTTTCAATGATGGATCCTGTGTATTTCAATGATTTGAATCTATTTAGTTTG
64 GCTTGTAGTTATCGTTTTCAATGATGGATCCTGTGTATTTCAATGATTTGAAT-TATTTA-TTTG
* * *
989688 AGTAACATGTGATTGCTTATGAAAAATGATATTTGATTTTTCATT-TTTGGTTCCTAGAGTATTT
127 AGTAA-ATGTGATTGCTTATGAAAAATGATATTCGATTTTTC-TTCTTTGGTTCCTAGAATACTT
** * *
989752 TTGGATTAACTTGTTCTTAGCAAACCAGTGAAGAAATTTATATTTTCTTCTTTTAGGATTTAGTG
190 TTGGATTAACTTGTTCTTAGCAAACCAGCCAAGAAATTCATATTCTCTTCTTTTAGGATTTAGTG
* * *
989817 AAGGAACATTTGTAGCTAAATTAAACATAGAGGGGGTTTA
255 AAGGAACATTTGTAGCTAAATCAAACATAAAGGAGGTTTA
* * * * * * *
989857 ACTGTAGTGATGGGAAAAGAAGATTCTGGAAGTTGTGGTCAAACAGTTTGACTGGA-TCATTATA
1 ACGGTAGTGATAGGAAAAGAAGATTCTGGAAATT-TGGTCAAACAGTTTGACTGTAGTTATTGTG
*** *
989921 CTTGTAGTTATCACGTTCAATGATGGATCCTGTGTATTTGAATGATTTGAATTTATTTATTTGAG
65 CTTGTAGTTATCGTTTTCAATGATGGATCCTGTGTATTTCAATGATTTGAA-TTATTTATTTGAG
*
989986 TAAAGTGTGATTACTTATGAAAA
129 TAAA-TGTGATTGCTTATGAAAA
990009 GATTTTTGAT
Statistics
Matches: 386, Mismatches: 49, Indels: 37
0.82 0.10 0.08
Matches are distributed among these distances:
295 1 0.00
296 26 0.07
297 61 0.16
298 84 0.22
299 163 0.42
300 34 0.09
301 6 0.02
302 10 0.03
303 1 0.00
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.41
Consensus pattern (294 bp):
ACGGTAGTGATAGGAAAAGAAGATTCTGGAAATTTGGTCAAACAGTTTGACTGTAGTTATTGTGC
TTGTAGTTATCGTTTTCAATGATGGATCCTGTGTATTTCAATGATTTGAATTATTTATTTGAGTA
AATGTGATTGCTTATGAAAAATGATATTCGATTTTTCTTCTTTGGTTCCTAGAATACTTTTGGAT
TAACTTGTTCTTAGCAAACCAGCCAAGAAATTCATATTCTCTTCTTTTAGGATTTAGTGAAGGAA
CATTTGTAGCTAAATCAAACATAAAGGAGGTTTA
Found at i:996818 original size:8 final size:8
Alignment explanation
Indices: 996807--996845 Score: 51
Period size: 8 Copynumber: 4.6 Consensus size: 8
996797 AAAAAAATTA
996807 TAAATAAC
1 TAAATAAC
996815 TAAATAAC
1 TAAATAAC
996823 TAAATAAC
1 TAAATAAC
*
996831 AATAAATAAT
1 --TAAATAAC
996841 TAAAT
1 TAAAT
996846 TTATAAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 21 0.75
10 7 0.25
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (8 bp):
TAAATAAC
Found at i:1003188 original size:26 final size:26
Alignment explanation
Indices: 1003152--1003208 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
1003142 TAGGTTAATC
1003152 GGTCGAGTTTAGGTTTGAATTGATTG
1 GGTCGAGTTTAGGTTTGAATTGATTG
1003178 GGTCGAGTTTAGGTTTGAATTGATTG
1 GGTCGAGTTTAGGTTTGAATTGATTG
*
1003204 AGTCG
1 GGTCG
1003209 GATTTTAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.19, C:0.05, G:0.35, T:0.40
Consensus pattern (26 bp):
GGTCGAGTTTAGGTTTGAATTGATTG
Found at i:1014404 original size:173 final size:173
Alignment explanation
Indices: 1014115--1014633 Score: 1038
Period size: 173 Copynumber: 3.0 Consensus size: 173
1014105 TATAAATTTA
1014115 GAATTTATATAACTTATAAAGTTGTACTTAGAAATTTTGATCCTGATTTTTCATTCTCGATTTTT
1 GAATTTATATAACTTATAAAGTTGTACTTAGAAATTTTGATCCTGATTTTTCATTCTCGATTTTT
1014180 GTCTGTTTTTATTCATTTGAAGAGAATATTAAGCTTTTCTCTTATACCCTTAATTTTATTATTTC
66 GTCTGTTTTTATTCATTTGAAGAGAATATTAAGCTTTTCTCTTATACCCTTAATTTTATTATTTC
1014245 CAAATTCCGATCATAACTTTGAGAAATATTTTTTAAAATACAT
131 CAAATTCCGATCATAACTTTGAGAAATATTTTTTAAAATACAT
1014288 GAATTTATATAACTTATAAAGTTGTACTTAGAAATTTTGATCCTGATTTTTCATTCTCGATTTTT
1 GAATTTATATAACTTATAAAGTTGTACTTAGAAATTTTGATCCTGATTTTTCATTCTCGATTTTT
1014353 GTCTGTTTTTATTCATTTGAAGAGAATATTAAGCTTTTCTCTTATACCCTTAATTTTATTATTTC
66 GTCTGTTTTTATTCATTTGAAGAGAATATTAAGCTTTTCTCTTATACCCTTAATTTTATTATTTC
1014418 CAAATTCCGATCATAACTTTGAGAAATATTTTTTAAAATACAT
131 CAAATTCCGATCATAACTTTGAGAAATATTTTTTAAAATACAT
1014461 GAATTTATATAACTTATAAAGTTGTACTTAGAAATTTTGATCCTGATTTTTCATTCTCGATTTTT
1 GAATTTATATAACTTATAAAGTTGTACTTAGAAATTTTGATCCTGATTTTTCATTCTCGATTTTT
1014526 GTCTGTTTTTATTCATTTGAAGAGAATATTAAGCTTTTCTCTTATACCCTTAATTTTATTATTTC
66 GTCTGTTTTTATTCATTTGAAGAGAATATTAAGCTTTTCTCTTATACCCTTAATTTTATTATTTC
1014591 CAAATTCCGATCATAACTTTGAGAAATATTTTTTAAAATACAT
131 CAAATTCCGATCATAACTTTGAGAAATATTTTTTAAAATACAT
1014634 ACTATCTTAT
Statistics
Matches: 346, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
173 346 1.00
ACGTcount: A:0.31, C:0.13, G:0.09, T:0.47
Consensus pattern (173 bp):
GAATTTATATAACTTATAAAGTTGTACTTAGAAATTTTGATCCTGATTTTTCATTCTCGATTTTT
GTCTGTTTTTATTCATTTGAAGAGAATATTAAGCTTTTCTCTTATACCCTTAATTTTATTATTTC
CAAATTCCGATCATAACTTTGAGAAATATTTTTTAAAATACAT
Found at i:1018208 original size:13 final size:13
Alignment explanation
Indices: 1018190--1018215 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1018180 ACTAAAGCCC
1018190 TTATAAACTAGAA
1 TTATAAACTAGAA
1018203 TTATAAACTAGAA
1 TTATAAACTAGAA
1018216 ACCTTCCATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.31
Consensus pattern (13 bp):
TTATAAACTAGAA
Found at i:1026982 original size:59 final size:59
Alignment explanation
Indices: 1026919--1027062 Score: 157
Period size: 59 Copynumber: 2.4 Consensus size: 59
1026909 GACAAGATTG
* *
1026919 AATAGTTCAATAATCATTTTGTAACTCGTCATAATTGAGTGAAC-AAAAAGAAATATACT
1 AATAGTTGAATAATCATTTTGTAACTCGTCATAATT-AATGAACTAAAAAGAAATATACT
* * ** * * * *
1026978 AATAGTTGGATAATCATTTTGTAAGTTTTCATAGTTAATGACCTAAGAAGAAATTTACT
1 AATAGTTGAATAATCATTTTGTAACTCGTCATAATTAATGAACTAAAAAGAAATATACT
*
1027037 AATAGTTGAATGA-CTATTTTGTAACT
1 AATAGTTGAATAATC-ATTTTGTAACT
1027063 TTTTATAGTT
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
58 6 0.09
59 64 0.91
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.37
Consensus pattern (59 bp):
AATAGTTGAATAATCATTTTGTAACTCGTCATAATTAATGAACTAAAAAGAAATATACT
Found at i:1027071 original size:59 final size:58
Alignment explanation
Indices: 1026934--1027109 Score: 187
Period size: 59 Copynumber: 3.0 Consensus size: 58
1026924 TTCAATAATC
** * * * * *
1026934 ATTTTGTAACTCGTCATAATTGAGTGAACAAAAAGAAATATACTAATAGTTGGAT-AAT
1 ATTTTGTAACTTTTCATAGTTGAATG-ACTAAAAGAAATTTACTAATAGTTGGATGACT
* *
1026992 CATTTTGTAAGTTTTCATAGTT-AATGACCTAAGAAGAAATTTACTAATAGTTGAATGACT
1 -ATTTTGTAACTTTTCATAGTTGAATGA-CTAA-AAGAAATTTACTAATAGTTGGATGACT
* * *
1027052 ATTTTGTAACTTTTTATAGTTGAGTGATTAAAA-AAATTTACTAATAGTTGGATGACT
1 ATTTTGTAACTTTTCATAGTTGAATGACTAAAAGAAATTTACTAATAGTTGGATGACT
1027109 A
1 A
1027110 CTATTGTAGT
Statistics
Matches: 99, Mismatches: 14, Indels: 10
0.80 0.11 0.08
Matches are distributed among these distances:
57 25 0.25
58 8 0.08
59 60 0.61
60 6 0.06
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.38
Consensus pattern (58 bp):
ATTTTGTAACTTTTCATAGTTGAATGACTAAAAGAAATTTACTAATAGTTGGATGACT
Found at i:1030960 original size:14 final size:15
Alignment explanation
Indices: 1030929--1030961 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
1030919 TTCATTTTGC
1030929 CATATTACTCTCCAT
1 CATATTACTCTCCAT
1030944 CATATTACTCT-CAT
1 CATATTACTCTCCAT
1030958 CATA
1 CATA
1030962 AAATTTGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.39
Consensus pattern (15 bp):
CATATTACTCTCCAT
Found at i:1034763 original size:17 final size:17
Alignment explanation
Indices: 1034731--1034774 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
1034721 GAATTATATG
*
1034731 AATATTTTT-TATTTTT
1 AATATTTTTATAATTTT
1034747 AATATTTTTATAATTTT
1 AATATTTTTATAATTTT
1034764 AA-ATTATTTAT
1 AATATT-TTTAT
1034775 TAATGTGATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 12 0.48
17 13 0.52
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
AATATTTTTATAATTTT
Found at i:1037495 original size:60 final size:59
Alignment explanation
Indices: 1037388--1037825 Score: 272
Period size: 60 Copynumber: 7.6 Consensus size: 59
1037378 TCTCAAGATA
* * **
1037388 TTAATTTGTCGTTAGCTTAAATCCAGCATTAAGCCTTTTGCTTCGAGTTCCACGTGATG
1 TTAATTTGTTGTTAGCTTAAATCCAGCATTAAGCCTTTCGCAACGAGTTCCACGTGATG
*
1037447 TTAATTTGTTGTTAGCTTAAATACCAGCATTAAGCCTTTCGCAACGAGTTCCATGTGATG
1 TTAATTTGTTGTTAGCTTAAAT-CCAGCATTAAGCCTTTCGCAACGAGTTCCACGTGATG
* * * * * * * *
1037507 TTAATTTGTTGTTAGCTTAAATACCTGCATTAA--ATGTTCACAATGTGCTCCACATGTTG
1 TTAATTTGTTGTTAGCTTAAAT-CCAGCATTAAGCCT-TTCGCAACGAGTTCCACGTGATG
* *
1037566 TTAATTTCTTGTTAGCTTAAAGTCCAGCATTAAGCCTTT-----C-A--T-GAC---ATG
1 TTAATTTGTTGTTAGCTTAAA-TCCAGCATTAAGCCTTTCGCAACGAGTTCCACGTGATG
* * * * ** * *
1037614 CTAATTTGTTGTTAGCTTAAAGTCCAGCCTTAAGCCTTTTGTAACTTGCTGCACGTGATG
1 TTAATTTGTTGTTAGCTTAAA-TCCAGCATTAAGCCTTTCGCAACGAGTTCCACGTGATG
* * * * * * * * *
1037674 TTAATTTGTTGTTTGCTTAAATCCCGGCATTAAACCTTTC-CGATGTGCTCCGCGTG-TCA
1 TTAATTTGTTGTTAGCTTAAAT-CCAGCATTAAGCCTTTCGCAACGAGTTCCACGTGAT-G
* ** * ** * *
1037733 TTAGTTTGTTGTTAGCTTAAAGTCTTGGATTAAGCCTTTCATAACGTGCTCCAC------
1 TTAATTTGTTGTTAGCTTAAA-TCCAGCATTAAGCCTTTCGCAACGAGTTCCACGTGATG
*
1037787 TTAATTTGTTGTTAGCTTAAATCCCAGCATTAAGTCTTT
1 TTAATTTGTTGTTAGCTTAAAT-CCAGCATTAAGCCTTT
1037826 TCCAATTTGC
Statistics
Matches: 303, Mismatches: 54, Indels: 49
0.75 0.13 0.12
Matches are distributed among these distances:
48 38 0.13
51 2 0.01
52 1 0.00
53 2 0.01
54 32 0.11
56 1 0.00
57 2 0.01
58 2 0.01
59 109 0.36
60 113 0.37
61 1 0.00
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.40
Consensus pattern (59 bp):
TTAATTTGTTGTTAGCTTAAATCCAGCATTAAGCCTTTCGCAACGAGTTCCACGTGATG
Found at i:1037724 original size:167 final size:167
Alignment explanation
Indices: 1037448--1037825 Score: 429
Period size: 167 Copynumber: 2.2 Consensus size: 167
1037438 CACGTGATGT
* *
1037448 TAATTTGTTGTTAGCTTAAATACCAGCATTAAGCCTTTCGCAACGAGTTCCATGTGATGTTAATT
1 TAATTTGTTGTTAGCTTAAATACCAGCATTAAGCCTTTCGCAACGAGCTCCACGTGATGTTAATT
* **
1037513 TGTTGTTAGCTTAAATACCTGCATTAAATGTTCACAATGTGCTCCACATGTTGTTAATTTCTTGT
66 TGTTGTTAGCTTAAATACCGGCATTAAATGTTCACAATGTGCTCCACATGTCATTAATTTCTTGT
1037578 TAGCTTAAAGTCCAGCATTAAGCCTTTCATGACATGC
131 TAGCTTAAAGTCCAGCATTAAGCCTTTCATGACATGC
* * * ** *
1037615 TAATTTGTTGTTAGCTTAAAGT-CCAGCCTTAAGCCTTTTGTAACTTGCTGCACGTGATGTTAAT
1 TAATTTGTTGTTAGCTTAAA-TACCAGCATTAAGCCTTTCGCAACGAGCTCCACGTGATGTTAAT
* * * * * * *
1037679 TTGTTGTTTGCTTAAATCCCGGCATTAAACCT-TTC-CGATGTGCTCCGCGTGTCATTAGTTTGT
65 TTGTTGTTAGCTTAAATACCGGCATTAAA--TGTTCACAATGTGCTCCACATGTCATTAATTTCT
** * * *
1037742 TGTTAGCTTAAAGTCTTGGATTAAGCCTTTCATAACGTGCTCCAC
128 TGTTAGCTTAAAGTCCAGCATTAAGCCTTTCATGACATG-----C
* *
1037787 TTAATTTGTTGTTAGCTTAAATCCCAGCATTAAGTCTTT
1 -TAATTTGTTGTTAGCTTAAATACCAGCATTAAGCCTTT
1037826 TCCAATTTGC
Statistics
Matches: 176, Mismatches: 25, Indels: 14
0.82 0.12 0.07
Matches are distributed among these distances:
167 135 0.77
168 4 0.02
169 1 0.01
172 2 0.01
173 34 0.19
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.40
Consensus pattern (167 bp):
TAATTTGTTGTTAGCTTAAATACCAGCATTAAGCCTTTCGCAACGAGCTCCACGTGATGTTAATT
TGTTGTTAGCTTAAATACCGGCATTAAATGTTCACAATGTGCTCCACATGTCATTAATTTCTTGT
TAGCTTAAAGTCCAGCATTAAGCCTTTCATGACATGC
Found at i:1040898 original size:25 final size:25
Alignment explanation
Indices: 1040864--1040914 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
1040854 CTCTATCTTG
1040864 ACTTGAAAGTGTAATACAAAAGGCA
1 ACTTGAAAGTGTAATACAAAAGGCA
*
1040889 ACTTGAAAGTGTAATACAGAAGGCA
1 ACTTGAAAGTGTAATACAAAAGGCA
1040914 A
1 A
1040915 TGTGTGACTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.47, C:0.12, G:0.22, T:0.20
Consensus pattern (25 bp):
ACTTGAAAGTGTAATACAAAAGGCA
Found at i:1042628 original size:15 final size:15
Alignment explanation
Indices: 1042587--1042631 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
1042577 ACAAGTAATT
1042587 TAAAATTTATAAAAA
1 TAAAATTTATAAAAA
* *
1042602 -AATATTTTTAAAAA
1 TAAAATTTATAAAAA
*
1042616 TAAAAATTATAAAAA
1 TAAAATTTATAAAAA
1042631 T
1 T
1042632 TTTCAAAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
TAAAATTTATAAAAA
Found at i:1055435 original size:17 final size:19
Alignment explanation
Indices: 1055403--1055439 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
1055393 TTGACTTGTT
1055403 TTAAAAATATTTTAAAATA
1 TTAAAAATATTTTAAAATA
1055422 TTAAAAA-A-TTTAAAATA
1 TTAAAAATATTTTAAAATA
1055439 T
1 T
1055440 AATTTATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.56
18 1 0.06
19 7 0.39
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TTAAAAATATTTTAAAATA
Found at i:1057825 original size:17 final size:18
Alignment explanation
Indices: 1057805--1057852 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 18
1057795 AATTGAATTG
1057805 ATTTATTAATTTTTTAA-
1 ATTTATTAATTTTTTAAT
* *
1057822 ATTTTTTAAATTTTTAATT
1 ATTTATTAATTTTTTAA-T
1057841 ATTTATTTAATT
1 ATTTA-TTAATT
1057853 ATTGTTGATC
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 15 0.62
19 4 0.17
20 5 0.21
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTATTAATTTTTTAAT
Found at i:1057826 original size:9 final size:9
Alignment explanation
Indices: 1057812--1057836 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
1057802 TTGATTTATT
1057812 AATTTTTTA
1 AATTTTTTA
1057821 AATTTTTTA
1 AATTTTTTA
1057830 AATTTTT
1 AATTTTT
1057837 AATTATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
AATTTTTTA
Found at i:1061819 original size:41 final size:41
Alignment explanation
Indices: 1061757--1061834 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
1061747 ACCTGGGTCC
*
1061757 TTTAGTTCAATTTAAGTTAAAAACTAGTGTAACTAGGCCCT
1 TTTAGTTCAATGTAAGTTAAAAACTAGTGTAACTAGGCCCT
1061798 TTTAGTTCAATGTAA-TGTAAAAACTAGTGTAACTAGG
1 TTTAGTTCAATGTAAGT-TAAAAACTAGTGTAACTAGG
1061835 GATGGCAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
40 1 0.03
41 34 0.97
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.36
Consensus pattern (41 bp):
TTTAGTTCAATGTAAGTTAAAAACTAGTGTAACTAGGCCCT
Found at i:1070904 original size:14 final size:14
Alignment explanation
Indices: 1070885--1070914 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
1070875 GGGGGAAAGA
1070885 TTAAGTTACATATT
1 TTAAGTTACATATT
1070899 TTAAGTTACATATT
1 TTAAGTTACATATT
1070913 TT
1 TT
1070915 TATGACGGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (14 bp):
TTAAGTTACATATT
Found at i:1071820 original size:48 final size:49
Alignment explanation
Indices: 1071764--1071878 Score: 135
Period size: 49 Copynumber: 2.4 Consensus size: 49
1071754 AATGCCTTTG
* *
1071764 AACCAGTTACACTGGGA-ACGGGT-ACAGACCGGTTGAACTAGGTAAAAA
1 AACCAGTTAAAC-AGGATACGGGTAACAGACCGGTTGAACTAGGTAAAAA
*****
1071812 AACCAGTTAAACAGGATTTTTTTAACAGACCGGTTGAACTAGGTAAAAA
1 AACCAGTTAAACAGGATACGGGTAACAGACCGGTTGAACTAGGTAAAAA
*
1071861 AACTAGTTAAACAGGATA
1 AACCAGTTAAACAGGATA
1071879 TTTTTTTTTT
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
47 3 0.05
48 12 0.21
49 41 0.73
ACGTcount: A:0.41, C:0.16, G:0.22, T:0.22
Consensus pattern (49 bp):
AACCAGTTAAACAGGATACGGGTAACAGACCGGTTGAACTAGGTAAAAA
Found at i:1071844 original size:49 final size:50
Alignment explanation
Indices: 1071787--1071884 Score: 180
Period size: 49 Copynumber: 2.0 Consensus size: 50
1071777 GGGAACGGGT
1071787 ACAGACCGGTTGAACTAGGTAAAAAAACCAGTTAAACAGGAT-TTTTTTA
1 ACAGACCGGTTGAACTAGGTAAAAAAACCAGTTAAACAGGATATTTTTTA
*
1071836 ACAGACCGGTTGAACTAGGTAAAAAAACTAGTTAAACAGGATATTTTTT
1 ACAGACCGGTTGAACTAGGTAAAAAAACCAGTTAAACAGGATATTTTTT
1071885 TTTTAAATTT
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 41 0.87
50 6 0.13
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (50 bp):
ACAGACCGGTTGAACTAGGTAAAAAAACCAGTTAAACAGGATATTTTTTA
Found at i:1073879 original size:1 final size:1
Alignment explanation
Indices: 1073873--1073897 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
1073863 TAGAAGTTTC
1073873 GGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGG
1073898 CGGAACACAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:1074990 original size:88 final size:88
Alignment explanation
Indices: 1074738--1074992 Score: 352
Period size: 88 Copynumber: 2.9 Consensus size: 88
1074728 CATATACACA
*
1074738 TCAAATATGTGAACTGAATCACTTACAAAACTCATCTGCAAAATTACAAAGCCAAACTAAAACTC
1 TCAAATATGTGAACTGAATCACTTACAAAACTCATCTGCAAAATTACAAAGCCAAATTAAAACTC
*
1074803 TATAATTCAAAAAAAAAAATTAAT
66 TATAATTC-AAACAAAAAATTAAT
*
1074827 TCAAATATGTGAAC-GATATCACTTAC-AAACTCATCTGCAAAATTACAAAGCCAAATAAAAACT
1 TCAAATATGTGAACTGA-ATCACTTACAAAACTCATCTGCAAAATTACAAAGCCAAATTAAAACT
* * ******
1074890 CTAGAATACAAACTTTTTTTTAAT
65 CTATAATTCAAACAAAAAATTAAT
* * *
1074914 TTAAATATGTGGACTGAATCACTTACAAAACTTATCTGCAAAATTACAAAGCCAAATTAAAACTC
1 TCAAATATGTGAACTGAATCACTTACAAAACTCATCTGCAAAATTACAAAGCCAAATTAAAACTC
1074979 TATAATTCAAACAA
66 TATAATTCAAACAA
1074993 GAAAGAGAAA
Statistics
Matches: 144, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
87 29 0.20
88 92 0.64
89 23 0.16
ACGTcount: A:0.48, C:0.18, G:0.07, T:0.27
Consensus pattern (88 bp):
TCAAATATGTGAACTGAATCACTTACAAAACTCATCTGCAAAATTACAAAGCCAAATTAAAACTC
TATAATTCAAACAAAAAATTAAT
Found at i:1080132 original size:89 final size:89
Alignment explanation
Indices: 1079980--1080146 Score: 228
Period size: 89 Copynumber: 1.9 Consensus size: 89
1079970 ATTTGTATTC
* * * * * * *
1079980 TAGAGTTTTTATTTGGCTTTGTAATTTTGCAGATGAGTCTTGTTAGTGGCTCACTTCACATATTT
1 TAGAGTTTTAATTTGGCTTTGTAATTATGCAGATGAATCTTGTAAGTGACTCACTTAAAATATTT
*
1080045 GATTTTTTTTAAATGTTTAAATTA
66 GAATTTTTTTAAATGTTTAAATTA
* *
1080069 TAGAGTTTTAATTTGGCTTTGTAATTATGCAGATGAATTTTGTAAGTGATTCAGC-TAAAATATT
1 TAGAGTTTTAATTTGGCTTTGTAATTATGCAGATGAATCTTGTAAGTGACTCA-CTTAAAATATT
1080133 TGAATTTTTTTAAA
65 TGAATTTTTTTAAA
1080147 AAAAGTTTGA
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
89 66 0.99
90 1 0.01
ACGTcount: A:0.28, C:0.07, G:0.17, T:0.49
Consensus pattern (89 bp):
TAGAGTTTTAATTTGGCTTTGTAATTATGCAGATGAATCTTGTAAGTGACTCACTTAAAATATTT
GAATTTTTTTAAATGTTTAAATTA
Found at i:1086358 original size:94 final size:92
Alignment explanation
Indices: 1086057--1086486 Score: 410
Period size: 88 Copynumber: 4.7 Consensus size: 92
1086047 ACTAGAACTA
* * * * ** *
1086057 AATCAGTTACAAAGCTCATCTCCAAAATTACAGAGGCAACAAAAAAAAAATCTCTAGAATTCAAA
1 AATCACTTACAAAACTCATCTGCAAAATTACA-AAGC--C-AAATTAAAA-CTCTATAATTCAAA
* ** *
1086122 CTCTTTTTTTTTAAAAACTCAAATATTTGAACTG
61 --CTTTTTTTTTAAAAATTCAAATATGCGAACGG
* * * * *
1086156 AATCACTGAAAAAAGTCATCTGCATAATTACAAAGCCAAATTAAAACTCTATAATTTAAAC----
1 AATCACTTACAAAACTCATCTGCAAAATTACAAAGCCAAATTAAAACTCTATAATTCAAACTTTT
* * * *
1086217 ATTTAAAAAAATCAAATATGTGAA-GTG
66 TTTTTAAAAATTCAAATATGCGAACG-G
** *
1086244 AATCACTTACAGGACTCATCTGCAAAATTACAAAGCTAAATTAAAACTCTATAATTCAAACTTTT
1 AATCACTTACAAAACTCATCTGCAAAATTACAAAGCCAAATTAAAACTCTATAATTCAAACTTTT
1086309 TTTTTACAAAAATTCAAATATGCGAACGG
66 TTTTT--AAAAATTCAAATATGCGAACGG
* * * * *
1086338 AACCACTTACAAAACTCATCTGCAAAATTACAAAGCCAAATAAAAACTCTAGAA-TAAAACATTT
1 AATCACTTACAAAACTCATCTGCAAAATTACAAAGCCAAATTAAAACTCTATAATTCAAACTTTT
*
1086402 TTTTT---AATTCAAATATGCGAACTG
66 TTTTTAAAAATTCAAATATGCGAACGG
* * * *
1086426 AATCACTTACAAAACTTATCTGAAAAATTACGAAGCCAAATTAAACCTCTATAATTCAAAC
1 AATCACTTACAAAACTCATCTGCAAAATTACAAAGCCAAATTAAAACTCTATAATTCAAAC
1086487 ATGAAAGAGA
Statistics
Matches: 276, Mismatches: 46, Indels: 28
0.79 0.13 0.08
Matches are distributed among these distances:
88 139 0.50
89 5 0.02
92 4 0.01
93 13 0.05
94 78 0.28
95 8 0.03
96 1 0.00
98 3 0.01
99 25 0.09
ACGTcount: A:0.46, C:0.18, G:0.08, T:0.28
Consensus pattern (92 bp):
AATCACTTACAAAACTCATCTGCAAAATTACAAAGCCAAATTAAAACTCTATAATTCAAACTTTT
TTTTTAAAAATTCAAATATGCGAACGG
Found at i:1086386 original size:182 final size:182
Alignment explanation
Indices: 1086103--1086486 Score: 475
Period size: 182 Copynumber: 2.1 Consensus size: 182
1086093 CAACAAAAAA
* * ** * *
1086103 AAAATCTCTAGAATTCAAACTCTTTTTTTTTAAAAACTCAAATATTTGAACTGAATCACTGAAAA
1 AAAA-CTCTATAATTCAAACTCTTTTTTTTCAAAAACTCAAATATGCGAACGGAACCACTGAAAA
* * * * *
1086168 AAGTCATCTGCATAATTACAAAGCCAAATTAAAACTCTATAATTTAAACA-TTTAAAAAAATCAA
65 AACTCATCTGCAAAATTACAAAGCCAAATAAAAACTCTAGAA-TAAAACATTTTAAAAAAATCAA
* * ** * *
1086232 ATATGTGAAGTGAATCACTTACAGGACTCATCTGCAAAATTACAAAGCTAAATT
129 ATATGCGAACTGAATCACTTACAAAACTCATCTGAAAAATTACAAAGCCAAATT
* * *
1086286 AAAACTCTATAATTCAAACT-TTTTTTTTACAAAAATTCAAATATGCGAACGGAACCACTTACAA
1 AAAACTCTATAATTCAAACTCTTTTTTTT-CAAAAACTCAAATATGCGAACGGAACCACTGAAAA
**** *
1086350 AACTCATCTGCAAAATTACAAAGCCAAATAAAAACTCTAGAATAAAACATTTTTTTTAATTCAAA
65 AACTCATCTGCAAAATTACAAAGCCAAATAAAAACTCTAGAATAAAACATTTTAAAAAAATCAAA
* *
1086415 TATGCGAACTGAATCACTTACAAAACTTATCTGAAAAATTACGAAGCCAAATT
130 TATGCGAACTGAATCACTTACAAAACTCATCTGAAAAATTACAAAGCCAAATT
*
1086468 AAACCTCTATAATTCAAAC
1 AAAACTCTATAATTCAAAC
1086487 ATGAAAGAGA
Statistics
Matches: 171, Mismatches: 28, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
181 14 0.08
182 153 0.89
183 4 0.02
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (182 bp):
AAAACTCTATAATTCAAACTCTTTTTTTTCAAAAACTCAAATATGCGAACGGAACCACTGAAAAA
ACTCATCTGCAAAATTACAAAGCCAAATAAAAACTCTAGAATAAAACATTTTAAAAAAATCAAAT
ATGCGAACTGAATCACTTACAAAACTCATCTGAAAAATTACAAAGCCAAATT
Found at i:1087189 original size:19 final size:19
Alignment explanation
Indices: 1087165--1087202 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
1087155 ATAAATTTAG
1087165 AATTTAATCCTTTAACTTT
1 AATTTAATCCTTTAACTTT
1087184 AATTTAATCCTTTAACTTT
1 AATTTAATCCTTTAACTTT
1087203 CCGACTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.53
Consensus pattern (19 bp):
AATTTAATCCTTTAACTTT
Found at i:1094535 original size:19 final size:20
Alignment explanation
Indices: 1094488--1094535 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
1094478 ACGAATTAAA
*
1094488 TTATATTATTTTTAATTATT
1 TTATAATATTTTTAATTATT
* *
1094508 TAGATAATATTTTTTA-TATT
1 T-TATAATATTTTTAATTATT
1094528 TTATAATA
1 TTATAATA
1094536 AAAATAATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 6 0.26
20 6 0.26
21 11 0.48
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (20 bp):
TTATAATATTTTTAATTATT
Found at i:1094562 original size:13 final size:13
Alignment explanation
Indices: 1094529--1094563 Score: 56
Period size: 11 Copynumber: 2.8 Consensus size: 13
1094519 TTTTATATTT
1094529 TATAATAAAAATA
1 TATAATAAAAATA
1094542 -AT-ATAAAAATA
1 TATAATAAAAATA
1094553 TATAATAAAAA
1 TATAATAAAAA
1094564 AAATTGACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 9 0.45
12 4 0.20
13 7 0.35
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
TATAATAAAAATA
Found at i:1096853 original size:24 final size:24
Alignment explanation
Indices: 1096826--1096873 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
1096816 ATTATGTTAA
1096826 TTAGTTATTAATTCGGATAATGTT
1 TTAGTTATTAATTCGGATAATGTT
*
1096850 TTAGTTATTAATTTGGATAATGTT
1 TTAGTTATTAATTCGGATAATGTT
1096874 GTTTTACATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.29, C:0.02, G:0.17, T:0.52
Consensus pattern (24 bp):
TTAGTTATTAATTCGGATAATGTT
Found at i:1097034 original size:23 final size:25
Alignment explanation
Indices: 1096979--1097034 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
1096969 TTACATATAA
*
1096979 ATATATTTATATCGATGTAATTTTG
1 ATATATTTATATCGATGTAATATTG
1097004 ATATATTTATAT-GTATGT-ATATT-
1 ATATATTTATATCG-ATGTAATATTG
1097027 ATATATTT
1 ATATATTT
1097035 TTAAAAATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 8 0.28
24 5 0.17
25 16 0.55
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (25 bp):
ATATATTTATATCGATGTAATATTG
Found at i:1097303 original size:13 final size:14
Alignment explanation
Indices: 1097280--1097320 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
1097270 AATTATTATT
*
1097280 TTAAGTATAAAATA
1 TTAATTATAAAATA
*
1097294 TT-TTTATAAAAT-
1 TTAATTATAAAATA
1097306 TTAATTATAAAATA
1 TTAATTATAAAATA
1097320 T
1 T
1097321 ATAAAATTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
12 2 0.09
13 17 0.77
14 3 0.14
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (14 bp):
TTAATTATAAAATA
Found at i:1102809 original size:17 final size:18
Alignment explanation
Indices: 1102775--1102829 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 18
1102765 TTAAAAATAG
*
1102775 TTAAATTGTTATTTTTTA
1 TTAAATTATTATTTTTTA
*
1102793 TTAAATTATTATTTTTAA
1 TTAAATTATTATTTTTTA
* *
1102811 TAAAAATATTATATTTTTA
1 TTAAATTATTAT-TTTTTA
1102830 ATACCTAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
18 26 0.84
19 5 0.16
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (18 bp):
TTAAATTATTATTTTTTA
Found at i:1113131 original size:20 final size:20
Alignment explanation
Indices: 1113106--1113147 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
1113096 TATTGTTCTC
*
1113106 GATTCACGTGTGTCGAATAT
1 GATTCACGTGTGCCGAATAT
*
1113126 GATTCATGTGTGCCGAATAT
1 GATTCACGTGTGCCGAATAT
1113146 GA
1 GA
1113148 GTATGTGTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.33
Consensus pattern (20 bp):
GATTCACGTGTGCCGAATAT
Found at i:1117793 original size:247 final size:244
Alignment explanation
Indices: 1117337--1117807 Score: 547
Period size: 247 Copynumber: 1.9 Consensus size: 244
1117327 TTAATGCTTA
* * ***
1117337 TAGAAACACCCACAAATAGTAGTGTAAGTGAGACAATGCTTTTGACTCGAAAAAAAGCTCTGGTT
1 TAGAAACACCCACAAATACTAG-GT-AGTGAGACAATGCTTTTGACTCGAAAAAAAGATCAAATT
* * * * * *
1117402 CAATTCAGTCATTCTCGAGCTGAGTCGAGTTCAAGCTATTGAACGAGCGAAGTTTCTTAACACTC
64 CAATTCAGTCATTCTCAAGCTGAGTCGAGCTCAAGCTATCGAACGAGCAAAGTATCTCAACACTC
* *
1117467 AATTTGAGCAACTCACAAACTTAATCAAGCTCGAGCTTTTATTACTTAATCCAAAAAAATTGTAT
129 AATCTGAGCAACTCACAAACTTAATCAAGCTCGAGCTTTTACTACTTAATCCAAAAAAATTGTAT
* * *
1117532 ATGTAACAGACTCAAGCTCGAACTTGAGTCAAACTGAGTCAAACTCGAGCT
194 ATGCAACAGACTCAAGCTCAAACTCGAGTCAAACTGAGTCAAACTCGAGCT
* *
1117583 TAGATACACCCACAAATACTA-GT-GTGAGACAATGCTTTTGACTTG-AAAAAAGATCAAATTCA
1 TAGAAACACCCACAAATACTAGGTAGTGAGACAATGCTTTTGACTCGAAAAAAAGATCAAATTCA
* * * *
1117645 ATTCAGTCATTCTCAAGCTGGGTCGAGCTCGAGCTATCGAGCGAGCCAACTTTGAGTATCTCAAT
66 ATTCAGTCATTCTCAAGCTGAGTCGAGCTCAAGCTATCGAACGAG-CAA-----AGTATCTCAAC
** *** * * *
1117710 ACTTGATCTGAGCAACTCGTTAACTTAATCAAGCTTGAGCTTTTACTACTTTATCC-AAAAATTT
125 ACTCAATCTGAGCAACTCACAAACTTAATCAAGCTCGAGCTTTTACTACTTAATCCAAAAAAATT
1117774 GTATATGCAA-ATGGACTCAAGCTCAAACTCGAGT
190 GTATATGCAACA--GACTCAAGCTCAAACTCGAGT
1117808 TTGAGTATAT
Statistics
Matches: 187, Mismatches: 30, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
241 52 0.28
242 23 0.12
244 2 0.01
245 1 0.01
246 35 0.19
247 74 0.40
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (244 bp):
TAGAAACACCCACAAATACTAGGTAGTGAGACAATGCTTTTGACTCGAAAAAAAGATCAAATTCA
ATTCAGTCATTCTCAAGCTGAGTCGAGCTCAAGCTATCGAACGAGCAAAGTATCTCAACACTCAA
TCTGAGCAACTCACAAACTTAATCAAGCTCGAGCTTTTACTACTTAATCCAAAAAAATTGTATAT
GCAACAGACTCAAGCTCAAACTCGAGTCAAACTGAGTCAAACTCGAGCT
Found at i:1119441 original size:14 final size:14
Alignment explanation
Indices: 1119422--1119460 Score: 57
Period size: 12 Copynumber: 3.0 Consensus size: 14
1119412 CGGGTCGCTC
1119422 ATATTAATTTTTTT
1 ATATTAATTTTTTT
1119436 ATATT-A-TTTTTT
1 ATATTAATTTTTTT
1119448 ATA-TAATTTTTTT
1 ATATTAATTTTTTT
1119461 TAAAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
11 1 0.04
12 10 0.43
13 7 0.30
14 5 0.22
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
ATATTAATTTTTTT
Found at i:1127279 original size:27 final size:26
Alignment explanation
Indices: 1127249--1127310 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
1127239 TTTTGTTTGT
1127249 AATTTTTA-TTGAAAATTAAATTTTTAA
1 AATTTTTATTTGAAAATT--ATTTTTAA
**
1127276 AATTCTTTATTTTTAAATTATTTTTAA
1 AATT-TTTATTTGAAAATTATTTTTAA
1127303 AATTTTTA
1 AATTTTTA
1127311 AGAATCAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 4 0.13
27 16 0.52
28 4 0.13
29 7 0.23
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (26 bp):
AATTTTTATTTGAAAATTATTTTTAA
Found at i:1128734 original size:13 final size:13
Alignment explanation
Indices: 1128718--1128742 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1128708 AAAATCCAGC
1128718 AAAAAAAAAAGAA
1 AAAAAAAAAAGAA
1128731 AAAAAAAAAAGA
1 AAAAAAAAAAGA
1128743 GCTACTCAAC
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAGAA
Found at i:1130826 original size:262 final size:261
Alignment explanation
Indices: 1130362--1130887 Score: 962
Period size: 262 Copynumber: 2.0 Consensus size: 261
1130352 GCTACAACCA
** * *
1130362 TATAGGTGTGACTTTAAATAATTGGATAAAGAAAAATTGACACAAAAATCAGGCGATCCATCAAA
1 TATAGGTGTGACTTTAAATAATTGGATAAAGAAAAACAGAAACAAAAACCAGGCGATCCATCAAA
1130427 GTTTATAAAATGGGCGAGCCTTTGGTTTCATAAAAGTCAGCAAAGAAGAAAGAAAATAGAGAAAT
66 GTTTATAAAATGGGCGAGCCTTTGGTTTCATAAAAGTCAGCAAAGAAGAAAGAAAATAGAGAAAT
1130492 GGGGAGAGCTCCCTGTTGTGACAAAGCAAATGTGAAGAAAGGGCCTTGGTCTCCTGAAGAAGACT
131 GGGGAGAGCTCCCTGTTGTGACAAAGCAAATGTGAAGAAAGGGCCTTGGTCTCCTGAAGAAGACT
*
1130557 CTAAGCTGAAGGATTATTTAGAGAAATATGGAACTGGTTTTGGATTGCTCTCCCTCAAAAAGCTG
196 CTAAGCTGAAGGATTATATAGAGAAATATGGAACTGGTTTTGGATTGCTCTCCCTCAAAAAGCTG
1130622 G
261 G
*
1130623 TATAGGTGTGACTTTAACTAATTGGATAAAAGAAAAACAGAAACAAAAACCAGGCGATCCATCAA
1 TATAGGTGTGACTTTAAATAATTGGAT-AAAGAAAAACAGAAACAAAAACCAGGCGATCCATCAA
*
1130688 AGTTTATAAAATGGGTGAGCCTTTGGTTTCATAAAAGTCAGCAAAGAAGAAAGAAAATAGAGAAA
65 AGTTTATAAAATGGGCGAGCCTTTGGTTTCATAAAAGTCAGCAAAGAAGAAAGAAAATAGAGAAA
1130753 TGGGGAGAGCTCCCTGTTGTGACAAAGCAAATGTGAAGAAAGGGCCTTGGTCTCCTGAAGAAGAC
130 TGGGGAGAGCTCCCTGTTGTGACAAAGCAAATGTGAAGAAAGGGCCTTGGTCTCCTGAAGAAGAC
* *
1130818 TCTAAGCTGAAGGGTTATATAGAGAATTATGGAACTGGTTTTGGATTGCTCTCCCTCAAAAAGCT
195 TCTAAGCTGAAGGATTATATAGAGAAATATGGAACTGGTTTTGGATTGCTCTCCCTCAAAAAGCT
1130883 GG
260 GG
1130885 TAT
1 TAT
1130888 GCATCACGTA
Statistics
Matches: 255, Mismatches: 9, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
261 26 0.10
262 229 0.90
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (261 bp):
TATAGGTGTGACTTTAAATAATTGGATAAAGAAAAACAGAAACAAAAACCAGGCGATCCATCAAA
GTTTATAAAATGGGCGAGCCTTTGGTTTCATAAAAGTCAGCAAAGAAGAAAGAAAATAGAGAAAT
GGGGAGAGCTCCCTGTTGTGACAAAGCAAATGTGAAGAAAGGGCCTTGGTCTCCTGAAGAAGACT
CTAAGCTGAAGGATTATATAGAGAAATATGGAACTGGTTTTGGATTGCTCTCCCTCAAAAAGCTG
G
Found at i:1132161 original size:51 final size:53
Alignment explanation
Indices: 1132076--1132204 Score: 151
Period size: 51 Copynumber: 2.5 Consensus size: 53
1132066 ACTTCTAATA
* *
1132076 GAAGATCATTATAAATCTCAACCTTTC--AT-CTCCTCCATTGGAGCTCCAATT
1 GAAGATCATTACAAATCTCAACCTTTCATATCCTCCTCTATTGGAGCTCCAA-T
* *
1132127 GAAGTTCATTACAAATCTCAACCTTTCATATCCTCCTTCTATTGGAGTTCCAAT
1 GAAGATCATTACAAATCTCAACCTTTCATATCCTCC-TCTATTGGAGCTCCAAT
*
1132181 --AGGTCATTACAAATCTCAAGCCTT
1 GAAGATCATTACAAATCTCAA-CCTT
1132205 CATCTCTACT
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
51 25 0.37
52 18 0.26
53 6 0.09
54 5 0.07
55 14 0.21
ACGTcount: A:0.29, C:0.26, G:0.10, T:0.34
Consensus pattern (53 bp):
GAAGATCATTACAAATCTCAACCTTTCATATCCTCCTCTATTGGAGCTCCAAT
Found at i:1132501 original size:19 final size:19
Alignment explanation
Indices: 1132477--1132523 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
1132467 CTTTCTTTCT
1132477 TTTGCATT-CATTCCATACA
1 TTTGCATTACATTCCA-ACA
*
1132496 TTTGCATTACATTGCAACA
1 TTTGCATTACATTCCAACA
1132515 TTTGCATTA
1 TTTGCATTA
1132524 AACTTTCACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.43
Consensus pattern (19 bp):
TTTGCATTACATTCCAACA
Found at i:1133036 original size:55 final size:55
Alignment explanation
Indices: 1132958--1133141 Score: 233
Period size: 55 Copynumber: 3.2 Consensus size: 55
1132948 TAGAGAAAGA
*
1132958 AGGAGATGAAGGGCTGAGATTTGTAATGACCTTCTATTAGAGCTCCAATAGAAGG
1 AGGAGATGAAGGGCTGAGATTTGTAATGACCTTCTATTGGAGCTCCAATAGAAGG
* *
1133013 AGGAGATGAAGGGCTGAGATTTGTATTGACCTTTTATTGGAGCTCCAATAGAAAGAGG
1 AGGAGATGAAGGGCTGAGATTTGTAATGACCTTCTATTGGAGCTCCAATAG--A-AGG
* * * *
1133071 AGATAAAGAGATGAAGGGTTGAGATTTGTAATGACTTTCTATTGGAACTCCAATAGAAAG
1 AG-----GAGATGAAGGGCTGAGATTTGTAATGACCTTCTATTGGAGCTCCAATAGAAGG
1133131 AGGAGATGAAG
1 AGGAGATGAAG
1133142 AGATGAAGGT
Statistics
Matches: 112, Mismatches: 9, Indels: 16
0.82 0.07 0.12
Matches are distributed among these distances:
55 57 0.51
57 1 0.01
58 5 0.04
60 4 0.04
61 1 0.01
63 44 0.39
ACGTcount: A:0.35, C:0.10, G:0.29, T:0.26
Consensus pattern (55 bp):
AGGAGATGAAGGGCTGAGATTTGTAATGACCTTCTATTGGAGCTCCAATAGAAGG
Found at i:1133094 original size:63 final size:63
Alignment explanation
Indices: 1133015--1133150 Score: 220
Period size: 63 Copynumber: 2.2 Consensus size: 63
1133005 ATAGAAGGAG
* *
1133015 GAGATGAAGGGCTGAGATTTGTATTGACCTTT-TATTGGAGCTCCAATAGAAAGAGGAGATAAA
1 GAGATGAAGGGCTGAGATTTGTAATGA-CTTTCTATTGGAACTCCAATAGAAAGAGGAGATAAA
* *
1133078 GAGATGAAGGGTTGAGATTTGTAATGACTTTCTATTGGAACTCCAATAGAAAGAGGAGATGAA
1 GAGATGAAGGGCTGAGATTTGTAATGACTTTCTATTGGAACTCCAATAGAAAGAGGAGATAAA
1133141 GAGATGAAGG
1 GAGATGAAGG
1133151 TATTTTTGTC
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
62 4 0.06
63 64 0.94
ACGTcount: A:0.36, C:0.08, G:0.30, T:0.26
Consensus pattern (63 bp):
GAGATGAAGGGCTGAGATTTGTAATGACTTTCTATTGGAACTCCAATAGAAAGAGGAGATAAA
Found at i:1133329 original size:55 final size:55
Alignment explanation
Indices: 1133248--1133367 Score: 213
Period size: 55 Copynumber: 2.2 Consensus size: 55
1133238 TAGAGAAAAT
* *
1133248 AGGAGATGAAGGGCTAAGATTTGTAATGACCTTTTATTGGAGCTCCAATAGAAGG
1 AGGAGATGAAGGGCTAAGATTTGTAATGACCTTCTATTGGAGCTCCAATAGAAAG
*
1133303 AGGAGATGAAGGGCTGAGATTTGTAATGACCTTCTATTGGAGCTCCAATAGAAAG
1 AGGAGATGAAGGGCTAAGATTTGTAATGACCTTCTATTGGAGCTCCAATAGAAAG
1133358 AGGAGATGAA
1 AGGAGATGAA
1133368 TAGATGAAGG
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 62 1.00
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (55 bp):
AGGAGATGAAGGGCTAAGATTTGTAATGACCTTCTATTGGAGCTCCAATAGAAAG
Found at i:1134323 original size:33 final size:33
Alignment explanation
Indices: 1134276--1134341 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
1134266 TTCATTACAA
1134276 ATCTCAACCCTTCATCTCCT-CTTTCTATTGGAG
1 ATCTCAACCCTTCATCTCCTCCTTT-TATTGGAG
*
1134309 ATCTGAACCCTTCATCTCCTCCTTTTATTGGAG
1 ATCTCAACCCTTCATCTCCTCCTTTTATTGGAG
1134342 CTCCAATAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 27 0.87
34 4 0.13
ACGTcount: A:0.18, C:0.32, G:0.11, T:0.39
Consensus pattern (33 bp):
ATCTCAACCCTTCATCTCCTCCTTTTATTGGAG
Found at i:1134418 original size:63 final size:61
Alignment explanation
Indices: 1134319--1134561 Score: 327
Period size: 63 Copynumber: 4.0 Consensus size: 61
1134309 ATCTGAACCC
* * *
1134319 TTCATCTCCTCCTTTTATTGGAGCTCCAATAGAAGGTCATTACGAATCTTAGCCCTTCATCTT
1 TTCATCTCCT-CTTTTATTGGAGCTCCAATAGAAGGTCAATACAAATCTCAGCCCTTCATC-T
* * *
1134382 TTCATCTCCTCCTTTTGTTGAAGCTTCAATAGAAGGTCAATACAAATCTCAGCCCTTCATCT
1 TTCATCTCCT-CTTTTATTGGAGCTCCAATAGAAGGTCAATACAAATCTCAGCCCTTCATCT
1134444 CTTCATCTCCTCTTTCTATTGGAGCTCCAATAGAAGGTCAATACAAATCTCAGCCCTTCATC-
1 -TTCATCTCCTCTTT-TATTGGAGCTCCAATAGAAGGTCAATACAAATCTCAGCCCTTCATCT
* *
1134506 -TC--CT-CT-TTCTATTGGAGCTCCAATAGAAGGTCATTACAAATCTCAGCCCTTCATCT
1 TTCATCTCCTCTTTTATTGGAGCTCCAATAGAAGGTCAATACAAATCTCAGCCCTTCATCT
1134562 CCTCCTTTCT
Statistics
Matches: 166, Mismatches: 11, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
55 45 0.27
56 2 0.01
57 2 0.01
58 2 0.01
60 2 0.01
62 5 0.03
63 108 0.65
ACGTcount: A:0.25, C:0.28, G:0.12, T:0.35
Consensus pattern (61 bp):
TTCATCTCCTCTTTTATTGGAGCTCCAATAGAAGGTCAATACAAATCTCAGCCCTTCATCT
Found at i:1134505 original size:55 final size:55
Alignment explanation
Indices: 1134444--1134571 Score: 238
Period size: 55 Copynumber: 2.3 Consensus size: 55
1134434 CCCTTCATCT
1134444 CTTCATCTCCTCTTTCTATTGGAGCTCCAATAGAAGGTCAATACAAATCTCAGCC
1 CTTCATCTCCTCTTTCTATTGGAGCTCCAATAGAAGGTCAATACAAATCTCAGCC
*
1134499 CTTCATCTCCTCTTTCTATTGGAGCTCCAATAGAAGGTCATTACAAATCTCAGCC
1 CTTCATCTCCTCTTTCTATTGGAGCTCCAATAGAAGGTCAATACAAATCTCAGCC
1134554 CTTCATCTCCTCCTTTCT
1 CTTCATCTCCT-CTTTCT
1134572 CTAACATCTG
Statistics
Matches: 71, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
55 65 0.92
56 6 0.08
ACGTcount: A:0.23, C:0.31, G:0.11, T:0.34
Consensus pattern (55 bp):
CTTCATCTCCTCTTTCTATTGGAGCTCCAATAGAAGGTCAATACAAATCTCAGCC
Found at i:1137315 original size:3 final size:3
Alignment explanation
Indices: 1137309--1137335 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
1137299 ATAAGAGTAT
1137309 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1137336 TCTACAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1137432 original size:28 final size:24
Alignment explanation
Indices: 1137370--1137433 Score: 58
Period size: 26 Copynumber: 2.5 Consensus size: 24
1137360 AAACGCACAA
*
1137370 AAAATATATATATAAAATATTTAC
1 AAAATATATATAAAAAATATTTAC
*
1137394 AACAATGATATA-AAATAATGATATGTAC
1 AA-AAT-ATATATAAA-AA--ATATTTAC
1137422 AAAATATATATA
1 AAAATATATATA
1137434 TGCATATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
24 2 0.06
25 5 0.16
26 12 0.38
27 4 0.12
28 9 0.28
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.33
Consensus pattern (24 bp):
AAAATATATATAAAAAATATTTAC
Found at i:1137702 original size:26 final size:27
Alignment explanation
Indices: 1137646--1137709 Score: 71
Period size: 26 Copynumber: 2.4 Consensus size: 27
1137636 TAGCAATAAT
*
1137646 AATACTAATATAATATATGTACTAGTG
1 AATAATAATATAATATATGTACTAGTG
*
1137673 -ATAATAATATAATA-ATGGTAGTA-TG
1 AATAATAATATAATATAT-GTACTAGTG
*
1137698 AATAATTATATA
1 AATAATAATATA
1137710 TTCAAAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
25 4 0.12
26 28 0.88
ACGTcount: A:0.48, C:0.03, G:0.11, T:0.38
Consensus pattern (27 bp):
AATAATAATATAATATATGTACTAGTG
Found at i:1137768 original size:22 final size:23
Alignment explanation
Indices: 1137743--1137789 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
1137733 ATGATATATG
* *
1137743 AATATATACAT-ATATGTATTAA
1 AATATATACATGATATATATAAA
1137765 AATATATACATGATATATATAAA
1 AATATATACATGATATATATAAA
1137788 AA
1 AA
1137790 ATACAATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.36
Consensus pattern (23 bp):
AATATATACATGATATATATAAA
Found at i:1137952 original size:19 final size:19
Alignment explanation
Indices: 1137928--1137994 Score: 61
Period size: 19 Copynumber: 3.7 Consensus size: 19
1137918 AATATGTACC
*
1137928 TATATATATACATAAAAAA
1 TATATATATACATAATAAA
*
1137947 TATATA-ATA-ATATTAAA
1 TATATATATACATAATAAA
* * *
1137964 -A-ATACATACATAGTATA
1 TATATATATACATAATAAA
1137981 TATATATATACATA
1 TATATATATACATA
1137995 TAATATAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
15 3 0.08
16 4 0.10
17 12 0.31
18 4 0.10
19 16 0.41
ACGTcount: A:0.57, C:0.06, G:0.01, T:0.36
Consensus pattern (19 bp):
TATATATATACATAATAAA
Found at i:1138044 original size:27 final size:26
Alignment explanation
Indices: 1137986--1138045 Score: 84
Period size: 27 Copynumber: 2.3 Consensus size: 26
1137976 GTATATATAT
* *
1137986 ATATACATATAATATAATTATTAAGA
1 ATATACATACAATATAAGTATTAAGA
*
1138012 AAATACATACAATATATAGTATTAAGA
1 ATATACATACAATATA-AGTATTAAGA
1138039 ATATACA
1 ATATACA
1138046 CAATACGTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 14 0.48
27 15 0.52
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (26 bp):
ATATACATACAATATAAGTATTAAGA
Found at i:1138309 original size:16 final size:16
Alignment explanation
Indices: 1138276--1138325 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
1138266 AATCATAGGC
1138276 ATAATA-AT-AAATATA
1 ATAATATATGAAA-ATA
1138291 ATAATATATGAAAATA
1 ATAATATATGAAAATA
*
1138307 ATACTATATGTAAAA-A
1 ATAATATATG-AAAATA
1138323 ATA
1 ATA
1138326 TGTATTGGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
15 6 0.19
16 18 0.58
17 7 0.23
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (16 bp):
ATAATATATGAAAATA
Found at i:1138631 original size:12 final size:12
Alignment explanation
Indices: 1138616--1138655 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
1138606 ACTAAATATA
1138616 AATAATAGTAAT
1 AATAATAGTAAT
*
1138628 AATAATAGCAAT
1 AATAATAGTAAT
1138640 AATAA-ATGTAAT
1 AATAATA-GTAAT
1138652 AATA
1 AATA
1138656 TATAAAAGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 1 0.04
12 24 0.96
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (12 bp):
AATAATAGTAAT
Found at i:1143342 original size:15 final size:15
Alignment explanation
Indices: 1143322--1143358 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
1143312 ATTGATTTTT
*
1143322 TTGAAAAAATACAAA
1 TTGAAAAAACACAAA
*
1143337 TTGAAAAAACAGAAA
1 TTGAAAAAACACAAA
1143352 TTGAAAA
1 TTGAAAA
1143359 CTCCTCAGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.65, C:0.05, G:0.11, T:0.19
Consensus pattern (15 bp):
TTGAAAAAACACAAA
Found at i:1143557 original size:77 final size:77
Alignment explanation
Indices: 1143341--1143585 Score: 329
Period size: 75 Copynumber: 3.2 Consensus size: 77
1143331 TACAAATTGA
* * * *
1143341 AAAAACAGAAATTGAAAACT-CCTCAGCATGTGAGCCGAGGCTCAACTCACTTCTTGCAATATGA
1 AAAAACAGAAATTGAAAA-TACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
1143405 GTTGA--TTTTTG
65 GTTGATTTTTTTG
* **
1143416 ACAAACAGAAATTGAAAATACCTCAGCGTGT--CCTAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
1143479 TTGATTTTTTTG
66 TTGATTTTTTTG
* * * *
1143491 AAAAACTGAAATTGGAAATACCTCGGCGTGTGACCCGAGGCTCAACTCGCCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
1143556 TTGATTTTTTTG
66 TTGATTTTTTTG
* *
1143568 AAACACATAAATTGAAAA
1 AAAAACAGAAATTGAAAA
1143586 GCAGAAATTG
Statistics
Matches: 147, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
73 31 0.21
74 1 0.01
75 60 0.41
77 55 0.37
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (77 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTTG
Found at i:1146918 original size:262 final size:261
Alignment explanation
Indices: 1146454--1146979 Score: 962
Period size: 262 Copynumber: 2.0 Consensus size: 261
1146444 GCTACAACCA
** * *
1146454 TATAGGTGTGACTTTAAATAATTGGATAAAGAAAAATTGACACAAAAATCAGGCGATCCATCAAA
1 TATAGGTGTGACTTTAAATAATTGGATAAAGAAAAACAGAAACAAAAACCAGGCGATCCATCAAA
1146519 GTTTATAAAATGGGCGAGCCTTTGGTTTCATAAAAGTCAGCAAAGAAGAAAGAAAATAGAGAAAT
66 GTTTATAAAATGGGCGAGCCTTTGGTTTCATAAAAGTCAGCAAAGAAGAAAGAAAATAGAGAAAT
1146584 GGGGAGAGCTCCCTGTTGTGACAAAGCAAATGTGAAGAAAGGGCCTTGGTCTCCTGAAGAAGACT
131 GGGGAGAGCTCCCTGTTGTGACAAAGCAAATGTGAAGAAAGGGCCTTGGTCTCCTGAAGAAGACT
*
1146649 CTAAGCTGAAGGATTATTTAGAGAAATATGGAACTGGTTTTGGATTGCTCTCCCTCAAAAAGCTG
196 CTAAGCTGAAGGATTATATAGAGAAATATGGAACTGGTTTTGGATTGCTCTCCCTCAAAAAGCTG
1146714 G
261 G
*
1146715 TATAGGTGTGACTTTAACTAATTGGATAAAAGAAAAACAGAAACAAAAACCAGGCGATCCATCAA
1 TATAGGTGTGACTTTAAATAATTGGAT-AAAGAAAAACAGAAACAAAAACCAGGCGATCCATCAA
*
1146780 AGTTTATAAAATGGGTGAGCCTTTGGTTTCATAAAAGTCAGCAAAGAAGAAAGAAAATAGAGAAA
65 AGTTTATAAAATGGGCGAGCCTTTGGTTTCATAAAAGTCAGCAAAGAAGAAAGAAAATAGAGAAA
1146845 TGGGGAGAGCTCCCTGTTGTGACAAAGCAAATGTGAAGAAAGGGCCTTGGTCTCCTGAAGAAGAC
130 TGGGGAGAGCTCCCTGTTGTGACAAAGCAAATGTGAAGAAAGGGCCTTGGTCTCCTGAAGAAGAC
* *
1146910 TCTAAGCTGAAGGGTTATATAGAGAATTATGGAACTGGTTTTGGATTGCTCTCCCTCAAAAAGCT
195 TCTAAGCTGAAGGATTATATAGAGAAATATGGAACTGGTTTTGGATTGCTCTCCCTCAAAAAGCT
1146975 GG
260 GG
1146977 TAT
1 TAT
1146980 GCATCACGTA
Statistics
Matches: 255, Mismatches: 9, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
261 26 0.10
262 229 0.90
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (261 bp):
TATAGGTGTGACTTTAAATAATTGGATAAAGAAAAACAGAAACAAAAACCAGGCGATCCATCAAA
GTTTATAAAATGGGCGAGCCTTTGGTTTCATAAAAGTCAGCAAAGAAGAAAGAAAATAGAGAAAT
GGGGAGAGCTCCCTGTTGTGACAAAGCAAATGTGAAGAAAGGGCCTTGGTCTCCTGAAGAAGACT
CTAAGCTGAAGGATTATATAGAGAAATATGGAACTGGTTTTGGATTGCTCTCCCTCAAAAAGCTG
G
Found at i:1148561 original size:19 final size:19
Alignment explanation
Indices: 1148537--1148583 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
1148527 CTTTCTTTCT
1148537 TTTGCATT-CATTCCATACA
1 TTTGCATTACATTCCA-ACA
*
1148556 TTTGCATTACATTGCAACA
1 TTTGCATTACATTCCAACA
1148575 TTTGCATTA
1 TTTGCATTA
1148584 AACTTTCACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.43
Consensus pattern (19 bp):
TTTGCATTACATTCCAACA
Found at i:1149096 original size:55 final size:55
Alignment explanation
Indices: 1149018--1149197 Score: 225
Period size: 55 Copynumber: 3.1 Consensus size: 55
1149008 TAGAGAAAGA
*
1149018 AGGAGATGAAGGGCTGAGATTTGTAATGACCTTCTATTAGAGCTCCAATAGAAGG
1 AGGAGATGAAGGGCTGAGATTTGTAATGACCTTCTATTGGAGCTCCAATAGAAGG
* *
1149073 AGGAGATGAAGGGCTGAGATTTGTATTGACCTTTTATTGGAGCTCCAATAGAAAGAGGAG
1 AGGAGATGAAGGGCTGAGATTTGTAATGACCTTCTATTGGAGCTCCAATAG--A-A-G-G
* * * *
1149133 ATGAAGAGATGAAGGGTTGAGATTTGTAATGACTTTCTATTGGAACTCCAATAGAAAG
1 A-G--GAGATGAAGGGCTGAGATTTGTAATGACCTTCTATTGGAGCTCCAATAGAAGG
1149191 AGGAGAT
1 AGGAGAT
1149198 AAAAAGATGA
Statistics
Matches: 108, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
55 53 0.49
57 2 0.02
58 3 0.03
59 1 0.01
60 3 0.03
61 2 0.02
63 44 0.41
ACGTcount: A:0.34, C:0.10, G:0.29, T:0.27
Consensus pattern (55 bp):
AGGAGATGAAGGGCTGAGATTTGTAATGACCTTCTATTGGAGCTCCAATAGAAGG
Found at i:1149154 original size:63 final size:63
Alignment explanation
Indices: 1149075--1149209 Score: 209
Period size: 63 Copynumber: 2.1 Consensus size: 63
1149065 ATAGAAGGAG
* * *
1149075 GAGATGAAGGGCTGAGATTTGTATTGACCTTT-TATTGGAGCTCCAATAGAAAGAGGAGATGAA
1 GAGATGAAGGGCTGAGATTTGTAATGA-CTTTCTATTGGAACTCCAATAGAAAGAGGAGATAAA
*
1149138 GAGATGAAGGGTTGAGATTTGTAATGACTTTCTATTGGAACTCCAATAGAAAGAGGAGATAAA
1 GAGATGAAGGGCTGAGATTTGTAATGACTTTCTATTGGAACTCCAATAGAAAGAGGAGATAAA
*
1149201 AAGATGAAG
1 GAGATGAAG
1149210 CTCTTTTTGC
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
62 4 0.06
63 62 0.94
ACGTcount: A:0.37, C:0.08, G:0.29, T:0.26
Consensus pattern (63 bp):
GAGATGAAGGGCTGAGATTTGTAATGACTTTCTATTGGAACTCCAATAGAAAGAGGAGATAAA
Found at i:1149389 original size:55 final size:55
Alignment explanation
Indices: 1149308--1149498 Score: 247
Period size: 55 Copynumber: 3.3 Consensus size: 55
1149298 TAGAGAAAGT
*
1149308 AGGAGATGAAGGGCTGAGATTTGTAATGACCTTTTATTGGAGCTCCAATAGAAGG
1 AGGAGATGAAGGGCTGAGATTTGTAATGACCTTCTATTGGAGCTCCAATAGAAGG
1149363 AGGAGATGAAGGGCTGAGATTTGTAATGACCTTCTATTGGAGCTCCAATAGAAAGCGGAG
1 AGGAGATGAAGGGCTGAGATTTGTAATGACCTTCTATTGGAGCTCCAATAG-AA---G-G
* * * *
1149423 ATGAAGAGATGAAGGGTTGAGATTTGTAATGACCTTCTATTGGAGCTCTAATAAAAGA
1 A-G--GAGATGAAGGGCTGAGATTTGTAATGACCTTCTATTGGAGCTCCAATAGAAGG
* *
1149481 AGAAGATGAAGGGTTGAG
1 AGGAGATGAAGGGCTGAG
1149499 TTCTCCAATC
Statistics
Matches: 122, Mismatches: 6, Indels: 16
0.85 0.04 0.11
Matches are distributed among these distances:
55 65 0.53
56 2 0.02
57 1 0.01
58 1 0.01
59 2 0.02
60 2 0.02
61 1 0.01
62 2 0.02
63 46 0.38
ACGTcount: A:0.34, C:0.10, G:0.31, T:0.26
Consensus pattern (55 bp):
AGGAGATGAAGGGCTGAGATTTGTAATGACCTTCTATTGGAGCTCCAATAGAAGG
Found at i:1149463 original size:290 final size:290
Alignment explanation
Indices: 1148920--1149480 Score: 964
Period size: 290 Copynumber: 1.9 Consensus size: 290
1148910 TCATTACAAA
* * *
1148920 TTTTTGTCAAATTTGAAAAATAAATAAAAATACATAAATAAAGTTTGACAAACTTTACTAATTGA
1 TTTTTGCCAAACTTGAAAAATAAATAAAAATA-AT-AATAAAGTTTGACAAACTTTACTAATTAA
1148985 AGGGTTGAGATTTTGACAGATGTTAGAGAAAGAAGGAGATGAAGGGCTGAGATTTGTAATGACCT
64 AGGGTTGAGATTTTGACAGATGTTAGAGAAAGAAGGAGATGAAGGGCTGAGATTTGTAATGACCT
* *
1149050 TCTATTAGAGCTCCAATAGAAGGAGGAGATGAAGGGCTGAGATTTGTATTGACCTTTTATTGGAG
129 TCTATTAGAGCTCCAATAGAAGGAGGAGATGAAGGGCTGAGATTTGTAATGACCTTCTATTGGAG
*
1149115 CTCCAATAGAAAGAGGAGATGAAGAGATGAAGGGTTGAGATTTGTAATGACTTTCTATTGGAACT
194 CTCCAATAGAAAGAGGAGATGAAGAGATGAAGGGTTGAGATTTGTAATGACCTTCTATTGGAACT
1149180 CCAATAGAAAGAGGAGATAAAAAGATGAAGCTC
259 CCAATA-AAAGAGGAGATAAAAAGATGAAGCTC
1149213 TTTTTGCCAAACTTGAAAAAATAAATAAAAAT-AT-ATAAAGTTTGACAAACTTTACTAATTAAA
1 TTTTTGCCAAACTTG-AAAAATAAATAAAAATAATAATAAAGTTTGACAAACTTTACTAATTAAA
*
1149276 GGGTTGAGATTTTGACAGATGTTAGAGAAAGTAGGAGATGAAGGGCTGAGATTTGTAATGACCTT
65 GGGTTGAGATTTTGACAGATGTTAGAGAAAGAAGGAGATGAAGGGCTGAGATTTGTAATGACCTT
* *
1149341 TTATTGGAGCTCCAATAGAAGGAGGAGATGAAGGGCTGAGATTTGTAATGACCTTCTATTGGAGC
130 CTATTAGAGCTCCAATAGAAGGAGGAGATGAAGGGCTGAGATTTGTAATGACCTTCTATTGGAGC
* *
1149406 TCCAATAGAAAGCGGAGATGAAGAGATGAAGGGTTGAGATTTGTAATGACCTTCTATTGGAGCTC
195 TCCAATAGAAAGAGGAGATGAAGAGATGAAGGGTTGAGATTTGTAATGACCTTCTATTGGAACTC
*
1149471 TAATAAAAGA
260 CAATAAAAGA
1149481 AGAAGATGAA
Statistics
Matches: 255, Mismatches: 12, Indels: 6
0.93 0.04 0.02
Matches are distributed among these distances:
289 5 0.02
290 219 0.86
292 2 0.01
293 13 0.05
294 16 0.06
ACGTcount: A:0.38, C:0.09, G:0.25, T:0.28
Consensus pattern (290 bp):
TTTTTGCCAAACTTGAAAAATAAATAAAAATAATAATAAAGTTTGACAAACTTTACTAATTAAAG
GGTTGAGATTTTGACAGATGTTAGAGAAAGAAGGAGATGAAGGGCTGAGATTTGTAATGACCTTC
TATTAGAGCTCCAATAGAAGGAGGAGATGAAGGGCTGAGATTTGTAATGACCTTCTATTGGAGCT
CCAATAGAAAGAGGAGATGAAGAGATGAAGGGTTGAGATTTGTAATGACCTTCTATTGGAACTCC
AATAAAAGAGGAGATAAAAAGATGAAGCTC
Found at i:1149488 original size:63 final size:63
Alignment explanation
Indices: 1149365--1149491 Score: 202
Period size: 63 Copynumber: 2.0 Consensus size: 63
1149355 ATAGAAGGAG
* *
1149365 GAGATGAAGGGCTGAGATTTGTAATGACCTTCTATTGGAGCTCCAATAGAAAGCGGAGATGAA
1 GAGATGAAGGGCTGAGATTTGTAATGACCTTCTATTGGAGCTCCAATAGAAAGAGAAGATGAA
* *
1149428 GAGATGAAGGGTTGAGATTTGTAATGACCTTCTATTGGAGCTCTAATA-AAAGAAGAAGATGAA
1 GAGATGAAGGGCTGAGATTTGTAATGACCTTCTATTGGAGCTCCAATAGAAAG-AGAAGATGAA
1149491 G
1 G
1149492 GGTTGAGTTC
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
62 4 0.07
63 55 0.93
ACGTcount: A:0.35, C:0.10, G:0.29, T:0.25
Consensus pattern (63 bp):
GAGATGAAGGGCTGAGATTTGTAATGACCTTCTATTGGAGCTCCAATAGAAAGAGAAGATGAA
Found at i:1149652 original size:51 final size:52
Alignment explanation
Indices: 1149513--1149658 Score: 213
Period size: 51 Copynumber: 2.8 Consensus size: 52
1149503 CCAATCGGAA
*
1149513 GAGGAGATGAAGGGTTGAGATTTGTAAATGACCTTCTATTGGAGCTCCAATAG
1 GAGGAGATGAAGGGTTGAGATTTGT-AATGAACTTCTATTGGAGCTCCAATAG
* *
1149566 GAGGATATGAAAGGTTGAGATTTGTAATGAACTTCTATTGGAGCTCCAAT-G
1 GAGGAGATGAAGGGTTGAGATTTGTAATGAACTTCTATTGGAGCTCCAATAG
* * * *
1149617 GAGTAGATGAAGGGCTGAGATTTGTGATGATCTTCTATTGGA
1 GAGGAGATGAAGGGTTGAGATTTGTAATGAACTTCTATTGGA
1149659 AGTAATACCT
Statistics
Matches: 84, Mismatches: 9, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
51 37 0.44
52 24 0.29
53 23 0.27
ACGTcount: A:0.29, C:0.10, G:0.30, T:0.31
Consensus pattern (52 bp):
GAGGAGATGAAGGGTTGAGATTTGTAATGAACTTCTATTGGAGCTCCAATAG
Found at i:1149710 original size:39 final size:35
Alignment explanation
Indices: 1149666--1149745 Score: 103
Period size: 32 Copynumber: 2.3 Consensus size: 35
1149656 GGAAGTAATA
1149666 CCTTCATCTTCCTCCTGAAGCTCTATTACAAATCTCAGC
1 CCTTCATCTTCCTCCTG-A--TCT-TTACAAATCTCAGC
1149705 CCTTCA---TCCTCCTGATCTTTACAAATCTCAGC
1 CCTTCATCTTCCTCCTGATCTTTACAAATCTCAGC
1149737 CCTTCATCT
1 CCTTCATCT
1149746 CTTCTTTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
32 20 0.53
33 3 0.08
35 1 0.03
36 8 0.21
39 6 0.16
ACGTcount: A:0.21, C:0.38, G:0.06, T:0.35
Consensus pattern (35 bp):
CCTTCATCTTCCTCCTGATCTTTACAAATCTCAGC
Found at i:1149906 original size:55 final size:56
Alignment explanation
Indices: 1149757--1150001 Score: 214
Period size: 55 Copynumber: 4.3 Consensus size: 56
1149747 TTCTTTTTTG
* * * *
1149757 ACTTCATTTTCTCCTTCTATTGGAGCTCCAATAGAAAGTCATTACAAATCTT-AGT-
1 ACTTCATCTCCTCTTTCTATTGGAGCTCCAATAAAAAGTCATTACAAATCTTCA-TC
* * *
1149812 -C-TCATCTCCTTTTTCTATTGGAGCTCCAATAGAAGGTCATTACAAAT-TTCATC
1 ACTTCATCTCCTCTTTCTATTGGAGCTCCAATAAAAAGTCATTACAAATCTTCATC
* * *
1149865 ACTTCATCTTCTCTTTCTATTGGAGTTCTAATAAAAAGTCATTACAAATCTCAACCGTTCATC
1 ACTTCATCTCCTCTTTCTATTGGAGCTCCAATAAAAAGTCATTACAAA--T----C-TTCATC
* * * * * *
1149928 TCTTCATCTCCACTTTCTATTGGAGCTCTAATAAAATGTCAATACAAATC-TCAGC
1 ACTTCATCTCCTCTTTCTATTGGAGCTCCAATAAAAAGTCATTACAAATCTTCATC
*
1149983 CCTTCATCTCCTCATTTCT
1 ACTTCATCTCCTC-TTTCT
1150002 CTAACATTTG
Statistics
Matches: 157, Mismatches: 20, Indels: 25
0.78 0.10 0.12
Matches are distributed among these distances:
52 3 0.02
53 42 0.27
54 2 0.01
55 54 0.34
56 5 0.03
57 2 0.01
61 1 0.01
63 48 0.31
ACGTcount: A:0.28, C:0.25, G:0.09, T:0.38
Consensus pattern (56 bp):
ACTTCATCTCCTCTTTCTATTGGAGCTCCAATAAAAAGTCATTACAAATCTTCATC
Found at i:1149933 original size:63 final size:63
Alignment explanation
Indices: 1149859--1150003 Score: 202
Period size: 63 Copynumber: 2.3 Consensus size: 63
1149849 CATTACAAAT
* * * *
1149859 TTCATCACTTCATCTTCTCTTTCTATTGGAGTTCTAATAAAAAGTCATTACAAATCTCAACCG
1 TTCATCTCTTCATCTTCTCTTTCTATTGGAGCTCTAATAAAAAGTCAATACAAATCTCAACCC
* * * *
1149922 TTCATCTCTTCATCTCCACTTTCTATTGGAGCTCTAATAAAATGTCAATACAAATCTCAGCCC
1 TTCATCTCTTCATCTTCTCTTTCTATTGGAGCTCTAATAAAAAGTCAATACAAATCTCAACCC
*
1149985 TTCATCTCCTCAT-TTCTCT
1 TTCATCTCTTCATCTTCTCT
1150004 AACATTTGTC
Statistics
Matches: 71, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
62 4 0.06
63 67 0.94
ACGTcount: A:0.27, C:0.28, G:0.07, T:0.39
Consensus pattern (63 bp):
TTCATCTCTTCATCTTCTCTTTCTATTGGAGCTCTAATAAAAAGTCAATACAAATCTCAACCC
Found at i:1150891 original size:16 final size:17
Alignment explanation
Indices: 1150859--1150892 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
1150849 TTCTTCTTTT
1150859 CTTTCCTCGCATTTTCC
1 CTTTCCTCGCATTTTCC
*
1150876 CTTTCCTCTC-TTTTCC
1 CTTTCCTCGCATTTTCC
1150892 C
1 C
1150893 ACCCTTTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.03, C:0.44, G:0.03, T:0.50
Consensus pattern (17 bp):
CTTTCCTCGCATTTTCC
Found at i:1153892 original size:15 final size:15
Alignment explanation
Indices: 1153874--1153917 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
1153864 AGATAATGAC
*
1153874 ACAAAAATAATAATA
1 ACAAAAATAAGAATA
1153889 ACAAAAATAAGAATA
1 ACAAAAATAAGAATA
**
1153904 ACAATGATAAGAAT
1 ACAAAAATAAGAAT
1153918 GATGAAATCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.68, C:0.07, G:0.07, T:0.18
Consensus pattern (15 bp):
ACAAAAATAAGAATA
Found at i:1154080 original size:26 final size:23
Alignment explanation
Indices: 1154018--1154081 Score: 56
Period size: 26 Copynumber: 2.6 Consensus size: 23
1154008 ATAATACATG
*
1154018 AAAACGAATTAAAACAACAGTAT
1 AAAACAAATTAAAACAACAGTAT
* *
1154041 ATATAGCAACTTAAAACCAACAAAGTAT
1 A-A-AACAAATTAAAA-CAAC--AGTAT
1154069 AAAACAAATTAAA
1 AAAACAAATTAAA
1154082 TTAGAACTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
23 1 0.03
24 1 0.03
25 9 0.29
26 13 0.42
27 1 0.03
28 6 0.19
ACGTcount: A:0.61, C:0.14, G:0.06, T:0.19
Consensus pattern (23 bp):
AAAACAAATTAAAACAACAGTAT
Found at i:1155861 original size:130 final size:130
Alignment explanation
Indices: 1155499--1155865 Score: 452
Period size: 130 Copynumber: 2.8 Consensus size: 130
1155489 AGAGCCGAGT
* * * *
1155499 GAAATTTTGAAGAGATATTTGATTATTTTAAAC-AAT-CGAGGAATTGCTACCCAACACGTTAGG
1 GAAATTTCGAAGAGATATTTGATTATTTTGAGCAAATGCGA--AATTGCAACCCAACACGTTAGG
* * * * * * * * *
1155562 GCACGA-TCCTACAAATTGCCAAATACCGAATATCGCCTTTGTTTTAGGGATTTTAAAAGACACG
64 GCACGATTCC-GCGAATTGCCAAACATCAAATATCGTCTTCGTTTAAGGGATTTTAAAAGAAACG
*
1155626 AGC
128 AAC
* * *
1155629 GAAATTTCAAAGTGATATTAGATTATTTTGAGCAAATGCGAAATTGCAACCCAACACGTTAGGGC
1 GAAATTTCGAAGAGATATTTGATTATTTTGAGCAAATGCGAAATTGCAACCCAACACGTTAGGGC
* * * *
1155694 ACGATTCCGCGAATTGCCAAACATCAAATCTCATCTTCGTTTAAGGGATTTTAAAAGAAATGAAT
66 ACGATTCCGCGAATTGCCAAACATCAAATATCGTCTTCGTTTAAGGGATTTTAAAAGAAACGAAC
* * *
1155759 GGAATTTCGAAGGGAAATTTGATTATTTTGAGCAAATGCGAAATTGCAACCCAACACGTTAGGGC
1 GAAATTTCGAAGAGATATTTGATTATTTTGAGCAAATGCGAAATTGCAACCCAACACGTTAGGGC
* *
1155824 ACGATTCCGCGAATTGCCGAACATCAAATTTCGTCTTCGTTT
66 ACGATTCCGCGAATTGCCAAACATCAAATATCGTCTTCGTTT
1155866 TAAAGAATTC
Statistics
Matches: 205, Mismatches: 29, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
130 196 0.96
131 6 0.03
132 3 0.01
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (130 bp):
GAAATTTCGAAGAGATATTTGATTATTTTGAGCAAATGCGAAATTGCAACCCAACACGTTAGGGC
ACGATTCCGCGAATTGCCAAACATCAAATATCGTCTTCGTTTAAGGGATTTTAAAAGAAACGAAC
Found at i:1159197 original size:16 final size:16
Alignment explanation
Indices: 1159155--1159198 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 16
1159145 TTTATAAAAT
1159155 AAATAAAACAAAAAC-A
1 AAATAAAA-AAAAACAA
1159171 AAATAGAAAAAAAATCAA
1 AAATA-AAAAAAAA-CAA
1159189 AAATAAAAAA
1 AAATAAAAAA
1159199 TAAGAGCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 10 0.40
17 9 0.36
18 6 0.24
ACGTcount: A:0.82, C:0.07, G:0.02, T:0.09
Consensus pattern (16 bp):
AAATAAAAAAAAACAA
Found at i:1164504 original size:6 final size:6
Alignment explanation
Indices: 1164485--1164522 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
1164475 GCAGCACTGT
*
1164485 AAGGAA ATGG-A AAGGAA AAGGAA AAGG-A AAGGAA AAGG
1 AAGGAA AAGGAA AAGGAA AAGGAA AAGGAA AAGGAA AAGG
1164523 GAGTAAGCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
5 9 0.32
6 19 0.68
ACGTcount: A:0.61, C:0.00, G:0.37, T:0.03
Consensus pattern (6 bp):
AAGGAA
Found at i:1164507 original size:17 final size:17
Alignment explanation
Indices: 1164485--1164522 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
1164475 GCAGCACTGT
*
1164485 AAGGAAATGGAAAGGAA
1 AAGGAAAAGGAAAGGAA
1164502 AAGGAAAAGGAAAGGAA
1 AAGGAAAAGGAAAGGAA
1164519 AAGG
1 AAGG
1164523 GAGTAAGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.61, C:0.00, G:0.37, T:0.03
Consensus pattern (17 bp):
AAGGAAAAGGAAAGGAA
Found at i:1164520 original size:11 final size:11
Alignment explanation
Indices: 1164485--1164522 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
1164475 GCAGCACTGT
1164485 AAGGAAATGG-A
1 AAGGAAA-GGAA
1164496 AAGGAAAAGGAA
1 AAGG-AAAGGAA
1164508 AAGGAAAGGAA
1 AAGGAAAGGAA
1164519 AAGG
1 AAGG
1164523 GAGTAAGCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 17 0.68
12 8 0.32
ACGTcount: A:0.61, C:0.00, G:0.37, T:0.03
Consensus pattern (11 bp):
AAGGAAAGGAA
Found at i:1165009 original size:46 final size:47
Alignment explanation
Indices: 1164826--1165038 Score: 154
Period size: 46 Copynumber: 4.5 Consensus size: 47
1164816 CGAAGCCATG
* * * * * *
1164826 TCCCGGACATGGTCTTACTCTGGCTATCATCATCGTGGCTGATGCTATA
1 TCCCAGACATGGTCTTACACTAGCTAGCATC-TCGAGGCCGATGC-ATA
* * * * *
1164875 TCCTAGACATGGTCTTACACTAGCTTTAGCATATCCG-TGCCGCTGCCATG
1 TCCCAGACATGGTCTTACACTAGC--TAGCATCT-CGAGGCCGATG-CATA
* *
1164925 TCCCAGACATAGTCTTACACT-GAC-A-CATCTTGTA-GCCGATGCATA
1 TCCCAGACATGGTCTTACACTAG-CTAGCATCTCG-AGGCCGATGCATA
* *
1164970 TCCCAGACAT-GTCTTACACTAGCTTA-CATCTCGAGGCCGATACATG
1 TCCCAGACATGGTCTTACACTAGC-TAGCATCTCGAGGCCGATGCATA
1165016 TCCCAGACAT-GTCTTACACTAGC
1 TCCCAGACATGGTCTTACACTAGC
1165039 ACTCATCTTG
Statistics
Matches: 134, Mismatches: 19, Indels: 25
0.75 0.11 0.14
Matches are distributed among these distances:
44 11 0.08
45 16 0.12
46 49 0.37
47 1 0.01
49 21 0.16
50 28 0.21
51 8 0.06
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (47 bp):
TCCCAGACATGGTCTTACACTAGCTAGCATCTCGAGGCCGATGCATA
Found at i:1165046 original size:46 final size:44
Alignment explanation
Indices: 1164921--1165172 Score: 194
Period size: 46 Copynumber: 5.6 Consensus size: 44
1164911 GTGCCGCTGC
* *
1164921 CATGTCCCAGACATAGTCTTACACT-G-ACACATCTTGTAGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCACTCATC-TG-AGCCGATA
* *
1164966 CATATCCCAGACATGTCTTACACTAGC-TTACATCTCGAGGCCGATA
1 CATGTCCCAGACATGTCTTACACTAGCACT-CATCT-GA-GCCGATA
* *
1165012 CATGTCCCAGACATGTCTTACACTAGCACTCATCT----TGATT
1 CATGTCCCAGACATGTCTTACACTAGCACTCATCTGAGCCGATA
* * *
1165052 CATGTCCCAGACATGTCTTACACTAGCACTCGTCTTAATGCCGATGC
1 CATGTCCCAGACATGTCTTACACTAGCACTCATC-TGA-GCCGAT-A
* * * * * * *
1165099 CATGTCCTAGACGTGGTCTTACATTGGCTCTCATAATGTGGCCGATA
1 CATGTCCCAGACAT-GTCTTACACTAGCACTCAT-CTG-AGCCGATA
*
1165146 AATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
1165173 TCACTTACAT
Statistics
Matches: 165, Mismatches: 26, Indels: 31
0.74 0.12 0.14
Matches are distributed among these distances:
40 36 0.22
41 1 0.01
44 10 0.06
45 16 0.10
46 56 0.34
47 24 0.15
48 22 0.13
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (44 bp):
CATGTCCCAGACATGTCTTACACTAGCACTCATCTGAGCCGATA
Found at i:1165057 original size:40 final size:40
Alignment explanation
Indices: 1165012--1165087 Score: 143
Period size: 40 Copynumber: 1.9 Consensus size: 40
1165002 GAGGCCGATA
1165012 CATGTCCCAGACATGTCTTACACTAGCACTCATCTTGATT
1 CATGTCCCAGACATGTCTTACACTAGCACTCATCTTGATT
*
1165052 CATGTCCCAGACATGTCTTACACTAGCACTCGTCTT
1 CATGTCCCAGACATGTCTTACACTAGCACTCATCTT
1165088 AATGCCGATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.24, C:0.32, G:0.13, T:0.32
Consensus pattern (40 bp):
CATGTCCCAGACATGTCTTACACTAGCACTCATCTTGATT
Done.