Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 23 of 175
Found at i:6226944 original size:13 final size:13
Alignment explanation
Indices: 6226923--6226962 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
6226913 TTTAAACAAA
* *
6226923 ACTTCTCAAAAGT
1 ACTTATCAAAAGC
6226936 ACTTATCAAAAGC
1 ACTTATCAAAAGC
*
6226949 ACTTTTCAAAAGC
1 ACTTATCAAAAGC
6226962 A
1 A
6226963 ATATTAAGGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.42, C:0.23, G:0.07, T:0.28
Consensus pattern (13 bp):
ACTTATCAAAAGC
Found at i:6230060 original size:14 final size:14
Alignment explanation
Indices: 6230041--6230071 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
6230031 CAAGGTTCGA
6230041 GTTTAGGGTTTAAG
1 GTTTAGGGTTTAAG
*
6230055 GTTTAGGGTTTGAG
1 GTTTAGGGTTTAAG
6230069 GTT
1 GTT
6230072 CAAATTTAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.39, T:0.45
Consensus pattern (14 bp):
GTTTAGGGTTTAAG
Found at i:6230071 original size:34 final size:34
Alignment explanation
Indices: 6230033--6230108 Score: 91
Period size: 34 Copynumber: 2.2 Consensus size: 34
6230023 CTTAGGTTCA
* * * *
6230033 AGGTTCGAGTTTAGGGTTTAAGGTTTAGGGTTTG
1 AGGTTCAAATTTAAGGTTCAAGGTTTAGGGTTTG
*
6230067 AGGTTCAAATTTAAGGTTCAAGGTTTGGGGTTTCG
1 AGGTTCAAATTTAAGGTTCAAGGTTTAGGGTTT-G
6230102 -GGTTCAA
1 AGGTTCAA
6230109 GGTAAAAAGA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
34 35 0.97
35 1 0.03
ACGTcount: A:0.21, C:0.07, G:0.34, T:0.38
Consensus pattern (34 bp):
AGGTTCAAATTTAAGGTTCAAGGTTTAGGGTTTG
Found at i:6230905 original size:11 final size:11
Alignment explanation
Indices: 6230889--6230960 Score: 56
Period size: 11 Copynumber: 6.4 Consensus size: 11
6230879 TTTTTTTTAA
6230889 TTTTAAAATAC
1 TTTTAAAATAC
6230900 TTTTAAAATAC
1 TTTTAAAATAC
**
6230911 TTTTTTAAAATTT
1 --TTTTAAAATAC
** *
6230924 TTTTAATTTTAA
1 TTTTAA-AATAC
*
6230936 ATTTAAAATA-
1 TTTTAAAATAC
6230946 TTTTAAAATAC
1 TTTTAAAATAC
6230957 TTTT
1 TTTT
6230961 TAATTTTTTT
Statistics
Matches: 47, Mismatches: 10, Indels: 8
0.72 0.15 0.12
Matches are distributed among these distances:
10 9 0.19
11 23 0.49
12 6 0.13
13 9 0.19
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:6230981 original size:38 final size:41
Alignment explanation
Indices: 6230874--6231009 Score: 129
Period size: 38 Copynumber: 3.3 Consensus size: 41
6230864 TTTATTTTTA
* * *
6230874 TTTT-ATTTTTTTTAATTTTAAAATACTTTTAAAATACT-T
1 TTTTAATTTTTTTTAAATTTAAAATATTTTTAAAATAATCT
6230913 TTTTAAAATTTTTTTAATTTTAAATTTAAAATA-TTTTAAAAT-A-CT
1 TTTT--AA---TTTT--TTTTAAATTTAAAATATTTTTAAAATAATCT
* *
6230958 TTTTAATTTTTTTTAATTTTAAAATATTTTTAAAATAATTT
1 TTTTAATTTTTTTTAAATTTAAAATATTTTTAAAATAATCT
6230999 TTTTAATTTTT
1 TTTTAATTTTT
6231010 AAAATAAATT
Statistics
Matches: 81, Mismatches: 4, Indels: 22
0.76 0.04 0.21
Matches are distributed among these distances:
38 15 0.19
39 13 0.16
40 5 0.06
41 12 0.15
42 1 0.01
43 2 0.02
45 9 0.11
46 9 0.11
47 15 0.19
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (41 bp):
TTTTAATTTTTTTTAAATTTAAAATATTTTTAAAATAATCT
Found at i:6231000 original size:12 final size:12
Alignment explanation
Indices: 6230974--6231022 Score: 52
Period size: 11 Copynumber: 4.3 Consensus size: 12
6230964 TTTTTTTTAA
6230974 TTTTAAAAT-AT
1 TTTTAAAATAAT
6230985 TTTTAAAATAAT
1 TTTTAAAATAAT
*
6230997 TTTT---TTAAT
1 TTTTAAAATAAT
6231006 TTTTAAAATAAAT
1 TTTTAAAAT-AAT
6231019 TTTT
1 TTTT
6231023 GGTATTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
9 8 0.26
11 9 0.29
12 7 0.23
13 7 0.23
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTTTAAAATAAT
Found at i:6231007 original size:21 final size:21
Alignment explanation
Indices: 6230983--6231022 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
6230973 ATTTTAAAAT
*
6230983 ATTTTTAAAATAATTTTTTTA
1 ATTTTTAAAATAAATTTTTTA
6231004 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
6231023 GGTATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTTAAAATAAATTTTTTA
Found at i:6231029 original size:22 final size:20
Alignment explanation
Indices: 6230982--6231029 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 20
6230972 AATTTTAAAA
*
6230982 TATTTTTAAAATAATTTTTT
1 TATTTTTAAAATAATTTTTG
6231002 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAAT-AATTTTT-G
6231025 TATTT
1 TATTT
6231030 ATTTAAAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 1 0.04
21 11 0.46
22 11 0.46
23 1 0.04
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.60
Consensus pattern (20 bp):
TATTTTTAAAATAATTTTTG
Found at i:6235357 original size:44 final size:43
Alignment explanation
Indices: 6235266--6235359 Score: 102
Period size: 44 Copynumber: 2.2 Consensus size: 43
6235256 GTATCTTCAG
* *
6235266 GGAGATAAGACTTGTATCTTCGATCTACTCCACTACTGCCTAA
1 GGAGATAAGACTTGTATCTTCAATCTACTCCACTACTGCCCAA
* * *
6235309 GGAGATAAGA-TCTGTAATCTTCAATCTATTCCAC-AGTTGCCCAT
1 GGAGATAAGACT-TGT-ATCTTCAATCTACTCCACTA-CTGCCCAA
6235353 GGAGATA
1 GGAGATA
6235360 GAATTATTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
42 1 0.02
43 14 0.33
44 28 0.65
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (43 bp):
GGAGATAAGACTTGTATCTTCAATCTACTCCACTACTGCCCAA
Found at i:6235788 original size:89 final size:89
Alignment explanation
Indices: 6235544--6236609 Score: 1545
Period size: 89 Copynumber: 12.0 Consensus size: 89
6235534 TCTGCTGTGC
* * * * * *
6235544 TTGATCTACTTCACTCCAATACATGAAGACAAGGTATGTTCTT-TTTGATCT-ATTCCACCACCA
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTT-TTCTTCGATCTGCTT-CACCACCA
* *
6235607 GTATGGGGAGACAAGATCTGTTGTCT
64 GTATGGGAAGACAAGATCTGTTATCT
* * *
6235633 TTGATCTA-TTACACG-CA--AAATGAAGACAATATCTGTTTT-TTCGATCTGTTTCACCACCAG
1 TTGATCTACTT-CACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCACCACCAG
*
6235693 TATGGGAAGACAAGATCTATTATCT
65 TATGGGAAGACAAGATCTGTTATCT
* * *
6235718 TTGATCTACTCCACGCCAGTACACGAAGACAAGATCTGCTTTCTTCGATCTGCTTCACCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCACCACCAGT
*
6235783 ATGGGAAGGCAAGATCTGTTATCT
66 ATGGGAAGACAAGATCTGTTATCT
* * * *
6235807 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTATTTTCTTCGATCTACTTCGCCACCGGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCACCACCAGT
*
6235872 ATGGGAAGACAAGATCTGGTATCT
66 ATGGGAAGACAAGATCTGTTATCT
* * *
6235896 TTGATCTACTTCACGCCAGTACATGAAGACAAGATTTGTTTTCTTCGATCTACTTCGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCACCACCAGT
*
6235961 ATGGGAAGACAAGATCTGGTATCT
66 ATGGGAAGACAAGATCTGTTATCT
* * * * * *
6235985 TTGATCTACTTCACGCCAGTACATGAAGATAAGATCTATTTGCTTCGATCTACTTCGCCACTAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCACCACCAGT
*
6236050 ATGGGAAGACAAGATCTGGTATCT
66 ATGGGAAGACAAGATCTGTTATCT
* * * *
6236074 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTATTCAATCTGCTTCACCGCCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCACCACCAGT
* *
6236139 ATGAGAAGGCAAGATCTGTTATCT
66 ATGGGAAGACAAGATCTGTTATCT
* * * *
6236163 TTGATCTACTTCACGCCAGTACATGAAGAGAAGATCTTTTTTTTTCGATCTGCTTCACCACCGGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCACCACCAGT
6236228 ATGGGAA-AGCAAGATCTGTTATCT
66 ATGGGAAGA-CAAGATCTGTTATCT
* * *
6236252 TTGATCTACTTCACGCTAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCACCACCAGT
6236317 ATGGGAAGACAAGATCTGTTATCT
66 ATGGGAAGACAAGATCTGTTATCT
* *
6236341 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCACCGCCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCACCACCAGT
*
6236406 ATGGGAAGGCAAGATCTGTTATCT
66 ATGGGAAGACAAGATCTGTTATCT
*
6236430 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCAACACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCACCACCAGT
*
6236495 ATGGGAAGACAAGATCTGGTATCT
66 ATGGGAAGACAAGATCTGTTATCT
* * *
6236519 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACTAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCACCACCAGT
* *
6236584 ATAGGAAGGCAAGATCTGTTATCT
66 ATGGGAAGACAAGATCTGTTATCT
6236608 TT
1 TT
6236610 CAACCTACTC
Statistics
Matches: 886, Mismatches: 82, Indels: 18
0.90 0.08 0.02
Matches are distributed among these distances:
85 52 0.06
86 21 0.02
88 22 0.02
89 790 0.89
90 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.32
Consensus pattern (89 bp):
TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCACCACCAGT
ATGGGAAGACAAGATCTGTTATCT
Found at i:6241022 original size:47 final size:47
Alignment explanation
Indices: 6240959--6241602 Score: 938
Period size: 47 Copynumber: 13.6 Consensus size: 47
6240949 CCCTTCGGGA
* * *
6240959 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
6241006 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
6241053 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
6241100 CTTATCACACATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
6241147 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
6241194 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGAC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
6241241 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
6241288 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
6241337 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
6241384 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
6241433 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
6241480 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
6241527 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
6241576 CTTATCACATATATATACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
6241603 TATTCAAATA
Statistics
Matches: 564, Mismatches: 25, Indels: 16
0.93 0.04 0.03
Matches are distributed among these distances:
46 1 0.00
47 426 0.76
49 136 0.24
50 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:6243117 original size:56 final size:56
Alignment explanation
Indices: 6243050--6243169 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
6243040 TATTAGTTTA
6243050 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
6243106 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
6243162 TTGCCCAT
1 TTGCCCAT
6243170 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:6250143 original size:20 final size:20
Alignment explanation
Indices: 6250105--6250144 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
6250095 TAAATGTCTT
**
6250105 TAATGCATATAATGTGATGC
1 TAATGCATATAATACGATGC
*
6250125 TAATGCATATGATACGATGC
1 TAATGCATATAATACGATGC
6250145 ATGAGATGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (20 bp):
TAATGCATATAATACGATGC
Found at i:6255981 original size:41 final size:41
Alignment explanation
Indices: 6255935--6256020 Score: 145
Period size: 41 Copynumber: 2.1 Consensus size: 41
6255925 AAACTAGAAT
* * *
6255935 AATTTAGTTCCCATCAATTTTGAAAGTCAGCAACTATAGGC
1 AATTTAGTCCCCATCAATCTTGAAAGTCAACAACTATAGGC
6255976 AATTTAGTCCCCATCAATCTTGAAAGTCAACAACTATAGGC
1 AATTTAGTCCCCATCAATCTTGAAAGTCAACAACTATAGGC
6256017 AATT
1 AATT
6256021 AACCACAATG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (41 bp):
AATTTAGTCCCCATCAATCTTGAAAGTCAACAACTATAGGC
Found at i:6257541 original size:18 final size:16
Alignment explanation
Indices: 6257506--6257545 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 16
6257496 CCCGACCCAG
6257506 TAAACACCAAAAATAAA
1 TAAA-ACCAAAAATAAA
6257523 TAAAACCAATAAATAAAA
1 TAAAACCAA-AAAT-AAA
6257541 TAAAA
1 TAAAA
6257546 GTCTAAATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.24
17 8 0.38
18 8 0.38
ACGTcount: A:0.72, C:0.12, G:0.00, T:0.15
Consensus pattern (16 bp):
TAAAACCAAAAATAAA
Found at i:6259437 original size:17 final size:17
Alignment explanation
Indices: 6259415--6259447 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6259405 GTTGCTATGC
6259415 TTGTTTGTATTAATTAA
1 TTGTTTGTATTAATTAA
*
6259432 TTGTTTGTATTCATTA
1 TTGTTTGTATTAATTA
6259448 GTGTACATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.03, G:0.12, T:0.61
Consensus pattern (17 bp):
TTGTTTGTATTAATTAA
Found at i:6264051 original size:46 final size:46
Alignment explanation
Indices: 6263920--6264053 Score: 166
Period size: 46 Copynumber: 3.0 Consensus size: 46
6263910 AAAGAGAAGG
* * *
6263920 GACCAAGGTGAAAACTCGCAAATGGCGCTTTGAGT-AT-TAAAAAA
1 GACCAAGGTGAAAACACGCAAAGGGCGCTTTGAGTCATAAAAAAAA
* * * *
6263964 GACTAAGGTGAAAACACGCAAGGGGCGCATTAAGTTC-TAAAAAAAA
1 GACCAAGGTGAAAACACGCAAAGGGCGCTTTGAG-TCATAAAAAAAA
*
6264010 GACCAAGGTGAAAACCCGCAAAGGGCGCTTTGAGTCATAAAAAA
1 GACCAAGGTGAAAACACGCAAAGGGCGCTTTGAGTCATAAAAAA
6264054 TAATATAAAA
Statistics
Matches: 74, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
44 28 0.38
45 4 0.05
46 42 0.57
ACGTcount: A:0.43, C:0.17, G:0.24, T:0.16
Consensus pattern (46 bp):
GACCAAGGTGAAAACACGCAAAGGGCGCTTTGAGTCATAAAAAAAA
Found at i:6264071 original size:10 final size:12
Alignment explanation
Indices: 6264046--6264074 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
6264036 GCTTTGAGTC
6264046 ATAAAAAATAAT
1 ATAAAAAATAAT
6264058 ATAAAAAATAAT
1 ATAAAAAATAAT
6264070 A-AAAA
1 ATAAAA
6264075 GGAGAAGCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (12 bp):
ATAAAAAATAAT
Found at i:6265040 original size:24 final size:24
Alignment explanation
Indices: 6265007--6265070 Score: 92
Period size: 24 Copynumber: 2.7 Consensus size: 24
6264997 TCAAATTTTA
6265007 TGAAGATTACAGTGGATTGAACCT
1 TGAAGATTACAGTGGATTGAACCT
* * *
6265031 TGAAGCTTACAGTGAATTGAATCT
1 TGAAGATTACAGTGGATTGAACCT
*
6265055 TGAAGATTATAGTGGA
1 TGAAGATTACAGTGGA
6265071 GGCAATCTGG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.34, C:0.09, G:0.25, T:0.31
Consensus pattern (24 bp):
TGAAGATTACAGTGGATTGAACCT
Found at i:6265678 original size:36 final size:36
Alignment explanation
Indices: 6265625--6265698 Score: 123
Period size: 36 Copynumber: 2.1 Consensus size: 36
6265615 GTGGAGCAGA
6265625 TTAAAGCTGAAAGTAGCGAATCTTATCTCCCTGGCG
1 TTAAAGCTGAAAGTAGCGAATCTTATCTCCCTGGCG
*
6265661 TTAAAGCTG-AAGATAGCGAATCTTATTTCCCTGGCG
1 TTAAAGCTGAAAG-TAGCGAATCTTATCTCCCTGGCG
6265697 TT
1 TT
6265699 GCAGTGGAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
35 3 0.08
36 33 0.92
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (36 bp):
TTAAAGCTGAAAGTAGCGAATCTTATCTCCCTGGCG
Found at i:6265743 original size:87 final size:87
Alignment explanation
Indices: 6265574--6265746 Score: 213
Period size: 87 Copynumber: 2.0 Consensus size: 87
6265564 GTGGAACAAA
* * * *
6265574 TTAAAGCTAAAGGTAGCGAATCTTGTTTATCTAGCATTACAGTGGAGCAGATTAAAGCTGAAAGT
1 TTAAAGCTAAAGATAGCGAATCTTATTTACCTAGCATTACAGTGGAACAGATTAAAGCTGAAAGT
*
6265639 AGCGAATCTTATCTCCCTGGCG
66 AGCGAATCTCATCTCCCTGGCG
* * * * * *
6265661 TTAAAGCTGAAGATAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAG-TTAAAGG
1 TTAAAGCTAAAGATAGCGAATCTTATTTACCTAGCATTACAGTGGAACAGATTAAAGCTGAAA-G
* *
6265725 TAGCGAATCTCGTTTCCCTGGC
65 TAGCGAATCTCATCTCCCTGGC
6265747 ATTGTAGTGG
Statistics
Matches: 72, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
86 4 0.06
87 68 0.94
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (87 bp):
TTAAAGCTAAAGATAGCGAATCTTATTTACCTAGCATTACAGTGGAACAGATTAAAGCTGAAAGT
AGCGAATCTCATCTCCCTGGCG
Found at i:6265848 original size:261 final size:260
Alignment explanation
Indices: 6265384--6266823 Score: 1919
Period size: 261 Copynumber: 5.5 Consensus size: 260
6265374 AAGACACAGT
* * ** * *
6265384 TCTTATCTCCCTGGCGTTAAAACTGAGGGCAGTGAATCTTATTTCCCTGGTGTTGCAGTGGAACA
1 TCTTATCTCCCTGGCGTTAAAGCTGAAGATAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACA
* *
6265449 GATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCATTGCAGTGGAATAGATTAAGGCTGAAA
66 GATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCATTGCAGTGGAATAGATTAAAGCTGAAG
* ** * * *
6265514 TAGAATAGATTAAAGCTGAAGGCAACGAATCCTATCTCATTGGCGTTACGGTGGAACAAATTAAA
131 TGGAGCAGATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCGTTACGGTGGAACAGATTAAA
** * * * * *
6265579 GCTAAAGGTAGCGAATCTTGTTTATCTAGCATTACAGTGGAGCAGATTAAAGCTGAAAGTAGCGA
196 GCTAAAGGTAGCGAATCTTGTTTCCCT-GCGTTGCAGCGGAGCAGATTAAAGCTGAAGGCAGCGA
6265644 A
260 A
6265645 TCTTATCTCCCTGGCGTTAAAGCTGAAGATAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACA
1 TCTTATCTCCCTGGCGTTAAAGCTGAAGATAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACA
* * *
6265710 GATTAAAGTTAAAGGTAGCGAATCTCGTTTCCCTGGCATTGTAGTGGAATAGATTAAAGCTGAAG
66 GATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCATTGCAGTGGAATAGATTAAAGCTGAAG
* * * * ** *
6265775 TAGAGCGGATTAAAGCTTAAGGCAGCGAATCCTATCTCCTTGGTGTTATAGTGTAACAGATTAAA
131 TGGAGCAGATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCGTTACGGTGGAACAGATTAAA
* *** * *
6265840 GCTAAAGGTAGCGAATCTTATTTTTTTGGCGTTGCAGTGGAGCAGATTAAAGCTGAAGGCAGCAA
196 GCTAAAGGTAGCGAATCTTGTTTCCCT-GCGTTGCAGCGGAGCAGATTAAAGCTGAAGGCAGCGA
6265905 A
260 A
* *
6265906 TCTTATCTCCCTGGCGTTAAAGCTGAAGATAGTGAATCTTATTTCCCTGGCGTTGCAGTGGAATA
1 TCTTATCTCCCTGGCGTTAAAGCTGAAGATAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACA
** * * * *
6265971 GATTAAAGCTAAAGGTAGTAAATCTTGTTTCCCTGGCGTTGCAATGGAATAAATTAAAGCTGAAA
66 GATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCATTGCAGTGGAATAGATTAAAGCTGAAG
* *
6266036 TGGAGCAGATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGTGTTACGGTGGAATAGATTAAA
131 TGGAGCAGATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCGTTACGGTGGAACAGATTAAA
* * *
6266101 GCTAAATGTAGCGAATCTTGTTTCCCTGACGTTGTAGCGGAGCAGATTAAAGCTGAAGGCAACGA
196 GCTAAAGGTAGCGAATCTTGTTTCCCTG-CGTTGCAGCGGAGCAGATTAAAGCTGAAGGCAGCGA
6266166 A
260 A
* * * *
6266167 TCTTATCTCCCTAGCGTTAAAGCTGAAGATAGCAAATCTTATTTCCGTGGCGTTGCAGTGGAATA
1 TCTTATCTCCCTGGCGTTAAAGCTGAAGATAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACA
* * * * *
6266232 GATTAAAGTTAAAAGTAGCAAATCTTATTTCCCTGGCATTGCAGTGGAATAGATTAAAGCTAAAG
66 GATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCATTGCAGTGGAATAGATTAAAGCTGAAG
** * * * * * * **
6266297 TGGAGTGGATTAAAACTCAAGACAGTGAATCCTATCTCGTTGACGTTATAGTGGAACAGATTAAA
131 TGGAGCAGATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCGTTACGGTGGAACAGATTAAA
* * * * * * * *
6266362 GCTGAAGGTCGCAAATCTTATTTCCCTGGCGTTGCAGCGAAGTAGATTAAAGCTGAAGGTAGTGA
196 GCTAAAGGTAGCGAATCTTGTTTCCCT-GCGTTGCAGCGGAGCAGATTAAAGCTGAAGGCAGCGA
6266427 A
260 A
* * * * *
6266428 TCTTATCTCCTTGGCGTTAAATCTGAAGATAGCAAATCTTATTTTCCTGGCGTTGCAATGGAACA
1 TCTTATCTCCCTGGCGTTAAAGCTGAAGATAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACA
* * * *
6266493 GATTAAAACTAAAGGTAGTGAATCTTGTTTCCCTGGCGTTGCAATGGAATAGATTAAAGCTGGAA
66 GATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCATTGCAGTGGAATAGATTAAAGCT-GAA
* *
6266558 -TGGAGCAGATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCGTTACGGTGAAATAGATTAA
130 GTGGAGCAGATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCGTTACGGTGGAACAGATTAA
* * * * *
6266622 AGCTAAATGTAGCAAATCTTGTTTCCCTGACGTTGTAGCGGAGCAGATTAAAGCTAAAGGCAACG
195 AGCTAAAGGTAGCGAATCTTGTTTCCCTG-CGTTGCAGCGGAGCAGATTAAAGCTGAAGGCAGCG
6266687 AA
259 AA
* *
6266689 TCTTATCTCCCTGGCGTTAAAGCTGAAGATAGCGAATCTTTTTTCCCTGGTGTTGCAGTGGAACA
1 TCTTATCTCCCTGGCGTTAAAGCTGAAGATAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACA
* * * * *
6266754 GATTAAAGCTAAAAGTAGCGAATCTTATTTTCCTGGCGTTGCAGTGGAATAGATTAAAGCTAAAG
66 GATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCATTGCAGTGGAATAGATTAAAGCTGAAG
6266819 TGGAG
131 TGGAG
6266824 TGGATTGAAG
Statistics
Matches: 1027, Mismatches: 147, Indels: 10
0.87 0.12 0.01
Matches are distributed among these distances:
260 4 0.00
261 1020 0.99
262 3 0.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (260 bp):
TCTTATCTCCCTGGCGTTAAAGCTGAAGATAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACA
GATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCATTGCAGTGGAATAGATTAAAGCTGAAG
TGGAGCAGATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCGTTACGGTGGAACAGATTAAA
GCTAAAGGTAGCGAATCTTGTTTCCCTGCGTTGCAGCGGAGCAGATTAAAGCTGAAGGCAGCGAA
Found at i:6265886 original size:51 final size:51
Alignment explanation
Indices: 6265777--6265924 Score: 161
Period size: 51 Copynumber: 2.9 Consensus size: 51
6265767 AGCTGAAGTA
* * * * *
6265777 GAGCGGATTAAAGCTTAAGGCAGCGAATCCTATCTCCTTGGTGTTATAGTG
1 GAGCAGATTAAAGCTAAAGGCAGCGAATCTTATCTCCTTGGCGTTACAGTG
* * * * ** *
6265828 TAACAGATTAAAGCTAAAGGTAGCGAATCTTATTTTTTTGGCGTTGCAGTG
1 GAGCAGATTAAAGCTAAAGGCAGCGAATCTTATCTCCTTGGCGTTACAGTG
* * *
6265879 GAGCAGATTAAAGCTGAAGGCAGCAAATCTTATCTCCCTGGCGTTA
1 GAGCAGATTAAAGCTAAAGGCAGCGAATCTTATCTCCTTGGCGTTA
6265925 AAGCTGAAGA
Statistics
Matches: 75, Mismatches: 22, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
51 75 1.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (51 bp):
GAGCAGATTAAAGCTAAAGGCAGCGAATCTTATCTCCTTGGCGTTACAGTG
Found at i:6265933 original size:36 final size:36
Alignment explanation
Indices: 6265886--6265959 Score: 103
Period size: 36 Copynumber: 2.1 Consensus size: 36
6265876 GTGGAGCAGA
*
6265886 TTAAAGCTGAAGGCAGCAAATCTTATCTCCCTGGCG
1 TTAAAGCTGAAGACAGCAAATCTTATCTCCCTGGCG
* ** *
6265922 TTAAAGCTGAAGATAGTGAATCTTATTTCCCTGGCG
1 TTAAAGCTGAAGACAGCAAATCTTATCTCCCTGGCG
6265958 TT
1 TT
6265960 GCAGTGGAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (36 bp):
TTAAAGCTGAAGACAGCAAATCTTATCTCCCTGGCG
Found at i:6265994 original size:87 final size:87
Alignment explanation
Indices: 6265835--6266010 Score: 235
Period size: 87 Copynumber: 2.0 Consensus size: 87
6265825 GTGTAACAGA
* *** * *
6265835 TTAAAGCTAAAGGTAGCGAATCTTATTTTTTTGGCGTTGCAGTGGAGCAGATTAAAGCTGAAGGC
1 TTAAAGCTAAAGATAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTAAAGGC
6265900 AGCAAATCTTATCTCCCTGGCG
66 AGCAAATCTTATCTCCCTGGCG
* * * *
6265922 TTAAAGCTGAAGATAGTGAATCTTATTTCCCTGGCGTTGCAGTGGAATAGATTAAAGCTAAAGGT
1 TTAAAGCTAAAGATAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTAAAGGC
* * *
6265987 AGTAAATCTTGTTTCCCTGGCG
66 AGCAAATCTTATCTCCCTGGCG
6266009 TT
1 TT
6266011 GCAATGGAAT
Statistics
Matches: 76, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
87 76 1.00
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (87 bp):
TTAAAGCTAAAGATAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTAAAGGC
AGCAAATCTTATCTCCCTGGCG
Found at i:6266002 original size:51 final size:51
Alignment explanation
Indices: 6265922--6266031 Score: 166
Period size: 51 Copynumber: 2.2 Consensus size: 51
6265912 CTCCCTGGCG
* * * *
6265922 TTAAAGCTGAAGATAGTGAATCTTATTTCCCTGGCGTTGCAGTGGAATAGA
1 TTAAAGCTAAAGATAGTAAATCTTATTTCCCTGGCGTTGCAATGGAATAAA
* *
6265973 TTAAAGCTAAAGGTAGTAAATCTTGTTTCCCTGGCGTTGCAATGGAATAAA
1 TTAAAGCTAAAGATAGTAAATCTTATTTCCCTGGCGTTGCAATGGAATAAA
6266024 TTAAAGCT
1 TTAAAGCT
6266032 GAAATGGAGC
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.32
Consensus pattern (51 bp):
TTAAAGCTAAAGATAGTAAATCTTATTTCCCTGGCGTTGCAATGGAATAAA
Found at i:6266039 original size:21 final size:21
Alignment explanation
Indices: 6266013--6266055 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
6266003 CTGGCGTTGC
*
6266013 AATGGAATAAATTAAAGCTGA
1 AATGGAACAAATTAAAGCTGA
* *
6266034 AATGGAGCAGATTAAAGCTGA
1 AATGGAACAAATTAAAGCTGA
6266055 A
1 A
6266056 GGCAGCGAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.49, C:0.07, G:0.23, T:0.21
Consensus pattern (21 bp):
AATGGAACAAATTAAAGCTGA
Found at i:6266178 original size:51 final size:51
Alignment explanation
Indices: 6266037--6266178 Score: 140
Period size: 51 Copynumber: 2.8 Consensus size: 51
6266027 AAGCTGAAAT
* * ** * *
6266037 GGAGCAGATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGTGTTACGGT
1 GGAGCAGATTAAAGCTGAAGGCAGCGAATCTTATCTCCCTGACGTTACAGC
** * * * * * **
6266088 GGAATAGATTAAAGCTAAATGTAGCGAATCTTGTTTCCCTGACGTTGTAGC
1 GGAGCAGATTAAAGCTGAAGGCAGCGAATCTTATCTCCCTGACGTTACAGC
*
6266139 GGAGCAGATTAAAGCTGAAGGCAACGAATCTTATCTCCCT
1 GGAGCAGATTAAAGCTGAAGGCAGCGAATCTTATCTCCCT
6266179 AGCGTTAAAG
Statistics
Matches: 68, Mismatches: 23, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
51 68 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (51 bp):
GGAGCAGATTAAAGCTGAAGGCAGCGAATCTTATCTCCCTGACGTTACAGC
Found at i:6266259 original size:51 final size:51
Alignment explanation
Indices: 6266183--6266295 Score: 174
Period size: 51 Copynumber: 2.2 Consensus size: 51
6266173 CTCCCTAGCG
* * *
6266183 TTAAAGCT-GAAGATAGCAAATCTTATTTCCGTGGCGTTGCAGTGGAATAGA
1 TTAAAGCTAAAAG-TAGCAAATCTTATTTCCCTGGCATTGCAGTGGAATAGA
*
6266234 TTAAAGTTAAAAGTAGCAAATCTTATTTCCCTGGCATTGCAGTGGAATAGA
1 TTAAAGCTAAAAGTAGCAAATCTTATTTCCCTGGCATTGCAGTGGAATAGA
6266285 TTAAAGCTAAA
1 TTAAAGCTAAA
6266296 GTGGAGTGGA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
51 53 0.95
52 3 0.05
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.30
Consensus pattern (51 bp):
TTAAAGCTAAAAGTAGCAAATCTTATTTCCCTGGCATTGCAGTGGAATAGA
Found at i:6266381 original size:522 final size:522
Alignment explanation
Indices: 6265384--6266829 Score: 2174
Period size: 522 Copynumber: 2.8 Consensus size: 522
6265374 AAGACACAGT
* ** *
6265384 TCTTATCTCCCTGGCGTTAAAACTGAGGGCAGTGAATCTTATTTCCCTGGTGTTGCAGTGGAACA
1 TCTTATCTCCCTGGCGTTAAAACTGAAGATAGTGAATCTTATTTCCCTGGCGTTGCAGTGGAACA
* * * *
6265449 GATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCATTGCAGTGGAATAGATTAAGGCTGAAA
66 GATTAAAGCTAAAGGTAGTGAATCTTGTTTCCCTGGCGTTGCAATGGAATAGATTAAAGCTGAAA
* ** * * * *
6265514 TAGAATAGATTAAAGCTGAAGGCAACGAATCCTATCTCATTGGCGTTACGGTGGAACAAATTAAA
131 TGGAGCAGATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCGTTACGGTGGAATAGATTAAA
* ** * ** * * * *
6265579 GCTAAAGGTAGCGAATCTTGTTTATCT-AGCATTACAGTGGAGCAGATTAAAGCTGAAAGTAGCG
196 GCTAAATGTAGCGAATCTTGTTTCCCTGA-CGTTGTAGCGGAGCAGATTAAAGCTGAAGGCAACG
6265643 AATCTTATCTCCCTGGCGTTAAAGCTGAAGATAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAA
260 AATCTTATCTCCCTGGCGTTAAAGCTGAAGATAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAA
* ** * *
6265708 CAGATTAAAGTTAAAGGTAGCGAATCTCGTTTCCCTGGCATTGTAGTGGAATAGATTAAAGCTGA
325 CAGATTAAAGTTAAAAGTAGCGAATCTTATTTCCCTGGCATTGCAGTGGAATAGATTAAAGCTAA
* * * * * ** *
6265773 AGTAGAGCGGATTAAAGCTTAAGGCAGCGAATCCTATCTCCTTGGTGTTATAGTGTAACAGATTA
390 AGTGGAGTGGATTAAAACTCAAGACAGCGAATCCTATCTCCTTGACGTTATAGTGGAACAGATTA
* *** * *
6265838 AAGCTAAAGGTAGCGAATCTTATTTTTTTGGCGTTGCAGTGGAGCAGATTAAAGCTGAAGGCAGC
455 AAGCTAAAGGTAGCAAATCTTATTTCCCTGGCGTTGCAGCGAAGCAGATTAAAGCTGAAGGCAGC
6265903 AAA
520 AAA
* *
6265906 TCTTATCTCCCTGGCGTTAAAGCTGAAGATAGTGAATCTTATTTCCCTGGCGTTGCAGTGGAATA
1 TCTTATCTCCCTGGCGTTAAAACTGAAGATAGTGAATCTTATTTCCCTGGCGTTGCAGTGGAACA
* *
6265971 GATTAAAGCTAAAGGTAGTAAATCTTGTTTCCCTGGCGTTGCAATGGAATAAATTAAAGCTGAAA
66 GATTAAAGCTAAAGGTAGTGAATCTTGTTTCCCTGGCGTTGCAATGGAATAGATTAAAGCTGAAA
*
6266036 TGGAGCAGATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGTGTTACGGTGGAATAGATTAAA
131 TGGAGCAGATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCGTTACGGTGGAATAGATTAAA
6266101 GCTAAATGTAGCGAATCTTGTTTCCCTGACGTTGTAGCGGAGCAGATTAAAGCTGAAGGCAACGA
196 GCTAAATGTAGCGAATCTTGTTTCCCTGACGTTGTAGCGGAGCAGATTAAAGCTGAAGGCAACGA
* * * *
6266166 ATCTTATCTCCCTAGCGTTAAAGCTGAAGATAGCAAATCTTATTTCCGTGGCGTTGCAGTGGAAT
261 ATCTTATCTCCCTGGCGTTAAAGCTGAAGATAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAAC
*
6266231 AGATTAAAGTTAAAAGTAGCAAATCTTATTTCCCTGGCATTGCAGTGGAATAGATTAAAGCTAAA
326 AGATTAAAGTTAAAAGTAGCGAATCTTATTTCCCTGGCATTGCAGTGGAATAGATTAAAGCTAAA
* *
6266296 GTGGAGTGGATTAAAACTCAAGACAGTGAATCCTATCTCGTTGACGTTATAGTGGAACAGATTAA
391 GTGGAGTGGATTAAAACTCAAGACAGCGAATCCTATCTCCTTGACGTTATAGTGGAACAGATTAA
* * * * **
6266361 AGCTGAAGGTCGCAAATCTTATTTCCCTGGCGTTGCAGCGAAGTAGATTAAAGCTGAAGGTAGTG
456 AGCTAAAGGTAGCAAATCTTATTTCCCTGGCGTTGCAGCGAAGCAGATTAAAGCTGAAGGCAGCA
6266426 AA
521 AA
* * ** * *
6266428 TCTTATCTCCTTGGCGTTAAATCTGAAGATAGCAAATCTTATTTTCCTGGCGTTGCAATGGAACA
1 TCTTATCTCCCTGGCGTTAAAACTGAAGATAGTGAATCTTATTTCCCTGGCGTTGCAGTGGAACA
* *
6266493 GATTAAAACTAAAGGTAGTGAATCTTGTTTCCCTGGCGTTGCAATGGAATAGATTAAAGCTGGAA
66 GATTAAAGCTAAAGGTAGTGAATCTTGTTTCCCTGGCGTTGCAATGGAATAGATTAAAGCTGAAA
*
6266558 TGGAGCAGATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCGTTACGGTGAAATAGATTAAA
131 TGGAGCAGATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCGTTACGGTGGAATAGATTAAA
* *
6266623 GCTAAATGTAGCAAATCTTGTTTCCCTGACGTTGTAGCGGAGCAGATTAAAGCTAAAGGCAACGA
196 GCTAAATGTAGCGAATCTTGTTTCCCTGACGTTGTAGCGGAGCAGATTAAAGCTGAAGGCAACGA
* *
6266688 ATCTTATCTCCCTGGCGTTAAAGCTGAAGATAGCGAATCTTTTTTCCCTGGTGTTGCAGTGGAAC
261 ATCTTATCTCCCTGGCGTTAAAGCTGAAGATAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAAC
* * *
6266753 AGATTAAAGCTAAAAGTAGCGAATCTTATTTTCCTGGCGTTGCAGTGGAATAGATTAAAGCTAAA
326 AGATTAAAGTTAAAAGTAGCGAATCTTATTTCCCTGGCATTGCAGTGGAATAGATTAAAGCTAAA
6266818 GTGGAGTGGATT
391 GTGGAGTGGATT
6266830 GAAGTGAAGT
Statistics
Matches: 836, Mismatches: 87, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
522 835 1.00
523 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (522 bp):
TCTTATCTCCCTGGCGTTAAAACTGAAGATAGTGAATCTTATTTCCCTGGCGTTGCAGTGGAACA
GATTAAAGCTAAAGGTAGTGAATCTTGTTTCCCTGGCGTTGCAATGGAATAGATTAAAGCTGAAA
TGGAGCAGATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCGTTACGGTGGAATAGATTAAA
GCTAAATGTAGCGAATCTTGTTTCCCTGACGTTGTAGCGGAGCAGATTAAAGCTGAAGGCAACGA
ATCTTATCTCCCTGGCGTTAAAGCTGAAGATAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAAC
AGATTAAAGTTAAAAGTAGCGAATCTTATTTCCCTGGCATTGCAGTGGAATAGATTAAAGCTAAA
GTGGAGTGGATTAAAACTCAAGACAGCGAATCCTATCTCCTTGACGTTATAGTGGAACAGATTAA
AGCTAAAGGTAGCAAATCTTATTTCCCTGGCGTTGCAGCGAAGCAGATTAAAGCTGAAGGCAGCA
AA
Found at i:6266508 original size:87 final size:87
Alignment explanation
Indices: 6266357--6266532 Score: 230
Period size: 87 Copynumber: 2.0 Consensus size: 87
6266347 GTGGAACAGA
* * * * *
6266357 TTAAAGCTGAAGGTCGCAAATCTTATTTCCCTGGCGTTGCAGCGAAGTAGATTAAAGCTGAAGGT
1 TTAAAGCTGAAGATAGCAAATCTTATTTCCCTGGCGTTGCAGCGAAGCAGATTAAAACTAAAGGT
*
6266422 AGTGAATCTTATCTCCTTGGCG
66 AGTGAATCTTATCTCCCTGGCG
* *
6266444 TTAAATCTGAAGATAGCAAATCTTATTTTCCTGGCGTTGCAATG-GAA-CAGATTAAAACTAAAG
1 TTAAAGCTGAAGATAGCAAATCTTATTTCCCTGGCGTTGC-A-GCGAAGCAGATTAAAACTAAAG
* *
6266507 GTAGTGAATCTTGTTTCCCTGGCG
64 GTAGTGAATCTTATCTCCCTGGCG
6266531 TT
1 TT
6266533 GCAATGGAAT
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
87 72 0.94
88 4 0.05
89 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (87 bp):
TTAAAGCTGAAGATAGCAAATCTTATTTCCCTGGCGTTGCAGCGAAGCAGATTAAAACTAAAGGT
AGTGAATCTTATCTCCCTGGCG
Found at i:6266561 original size:21 final size:21
Alignment explanation
Indices: 6266535--6266575 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6266525 CTGGCGTTGC
*
6266535 AATGGAATAGATTAAAGCTGG
1 AATGGAACAGATTAAAGCTGG
*
6266556 AATGGAGCAGATTAAAGCTG
1 AATGGAACAGATTAAAGCTG
6266576 AAGGCAGCGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.07, G:0.29, T:0.22
Consensus pattern (21 bp):
AATGGAACAGATTAAAGCTGG
Found at i:6266571 original size:72 final size:72
Alignment explanation
Indices: 6266484--6266625 Score: 167
Period size: 72 Copynumber: 2.0 Consensus size: 72
6266474 CTGGCGTTGC
* * * * * * *
6266484 AATGGAACAGATTAAAACTAAAGGTAGTGAATCTTGTTTCCCTGGCGTTGCAATGGAATAGATTA
1 AATGGAACAGATTAAAACTAAAGGCAGCGAATCCTATCTCCCTGGCGTTACAATGAAATAGATTA
6266549 AAGCTGG
66 AAGCTGG
* * * * **
6266556 AATGGAGCAGATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCGTTACGGTGAAATAGATTA
1 AATGGAACAGATTAAAACTAAAGGCAGCGAATCCTATCTCCCTGGCGTTACAATGAAATAGATTA
6266621 AAGCT
66 AAGCT
6266626 AAATGTAGCA
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
72 57 1.00
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (72 bp):
AATGGAACAGATTAAAACTAAAGGCAGCGAATCCTATCTCCCTGGCGTTACAATGAAATAGATTA
AAGCTGG
Found at i:6266764 original size:87 final size:87
Alignment explanation
Indices: 6266618--6266793 Score: 219
Period size: 87 Copynumber: 2.0 Consensus size: 87
6266608 GTGAAATAGA
* * *
6266618 TTAAAGCTAAATGTAGCAAATCTTGTTTCCCTGACGTTGTAGCGGAGCAGATTAAAGCTAAAGGC
1 TTAAAGCTAAATGTAGCAAATCTTGTTTCCCTGACGTTGCAGCGGAACAGATTAAAGCTAAAAGC
6266683 AACGAATCTTATCTCCCTGGCG
66 AACGAATCTTATCTCCCTGGCG
* * * ** *
6266705 TTAAAGCTGAA-GATAGCGAATCTTTTTTCCCTGGTGTTGCAGTGGAACAGATTAAAGCTAAAAG
1 TTAAAGCTAAATG-TAGCAAATCTTGTTTCCCTGACGTTGCAGCGGAACAGATTAAAGCTAAAAG
* * * *
6266769 TAGCGAATCTTATTTTCCTGGCG
65 CAACGAATCTTATCTCCCTGGCG
6266792 TT
1 TT
6266794 GCAGTGGAAT
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
86 1 0.01
87 74 0.99
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (87 bp):
TTAAAGCTAAATGTAGCAAATCTTGTTTCCCTGACGTTGCAGCGGAACAGATTAAAGCTAAAAGC
AACGAATCTTATCTCCCTGGCG
Found at i:6266789 original size:51 final size:52
Alignment explanation
Indices: 6266705--6266817 Score: 169
Period size: 51 Copynumber: 2.2 Consensus size: 52
6266695 CTCCCTGGCG
* *
6266705 TTAAAGCT-GAAGATAGCGAATCTTTTTTCCCTGGTGTTGCAGTGGAACAGA
1 TTAAAGCTAAAAGATAGCGAATCTTTTTTCCCTGGCGTTGCAGTGGAACAGA
*
6266756 TTAAAGCTAAAAG-TAGCGAATCTTATTTT-CCTGGCGTTGCAGTGGAATAGA
1 TTAAAGCTAAAAGATAGCGAATCTT-TTTTCCCTGGCGTTGCAGTGGAACAGA
6266807 TTAAAGCTAAA
1 TTAAAGCTAAA
6266818 GTGGAGTGGA
Statistics
Matches: 57, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
51 50 0.88
52 7 0.12
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (52 bp):
TTAAAGCTAAAAGATAGCGAATCTTTTTTCCCTGGCGTTGCAGTGGAACAGA
Found at i:6267463 original size:3 final size:3
Alignment explanation
Indices: 6267455--6267538 Score: 60
Period size: 3 Copynumber: 28.0 Consensus size: 3
6267445 ATTAGTTTAA
* * * * * * *
6267455 TAT TAT TAT TAG TAT TAT TAT TGT TGT TGT TGT TGT TGT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* ** * *
6267503 TAT TAC TAT TAT TAT TGC TAT TAA TAG TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6267539 CTATATATAT
Statistics
Matches: 68, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.26, C:0.02, G:0.11, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:6267656 original size:20 final size:20
Alignment explanation
Indices: 6267619--6267656 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
6267609 TGTATATTAT
*
6267619 TTTCATATATTATTATTTAA
1 TTTCATATATTATAATTTAA
6267639 TTTCATA-ATGTATAATTT
1 TTTCATATAT-TATAATTT
6267657 TATATTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.12
20 14 0.88
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (20 bp):
TTTCATATATTATAATTTAA
Found at i:6272610 original size:19 final size:17
Alignment explanation
Indices: 6272586--6272620 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
6272576 AAACAGTTTG
6272586 TAAAGATAAATATAAAAAT
1 TAAAGA-AAATA-AAAAAT
6272605 TAAAGAAAATAAAAAA
1 TAAAGAAAATAAAAAA
6272621 AAAGACTCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 5 0.31
19 6 0.38
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (17 bp):
TAAAGAAAATAAAAAAT
Found at i:6272622 original size:19 final size:19
Alignment explanation
Indices: 6272586--6272621 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
6272576 AAACAGTTTG
*
6272586 TAAAGATAAATATAAAAAT
1 TAAAGATAAATAAAAAAAT
6272605 TAAAGA-AAATAAAAAAA
1 TAAAGATAAATAAAAAAA
6272622 AAGACTCAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (19 bp):
TAAAGATAAATAAAAAAAT
Found at i:6281894 original size:27 final size:28
Alignment explanation
Indices: 6281855--6281921 Score: 109
Period size: 27 Copynumber: 2.4 Consensus size: 28
6281845 TTGTTTACTA
6281855 TGAACCCCAAACCCCAAACACTAAACCT
1 TGAACCCCAAACCCCAAACACTAAACCT
* *
6281883 TGAA-CCCAAACCCTAAACCCTAAACCT
1 TGAACCCCAAACCCCAAACACTAAACCT
6281910 TGAACCCCAAAC
1 TGAACCCCAAAC
6281922 TCAAACTTGA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 25 0.69
28 11 0.31
ACGTcount: A:0.42, C:0.42, G:0.04, T:0.12
Consensus pattern (28 bp):
TGAACCCCAAACCCCAAACACTAAACCT
Found at i:6281900 original size:7 final size:7
Alignment explanation
Indices: 6281857--6281908 Score: 52
Period size: 7 Copynumber: 7.6 Consensus size: 7
6281847 GTTTACTATG
*
6281857 AACCCCA
1 AACCCTA
*
6281864 AACCCCA
1 AACCCTA
*
6281871 AACACTA
1 AACCCTA
* *
6281878 AACCTTG
1 AACCCTA
6281885 AACCC-A
1 AACCCTA
6281891 AACCCTA
1 AACCCTA
6281898 AACCCTA
1 AACCCTA
6281905 AACC
1 AACC
6281909 TTGAACCCCA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
6 5 0.14
7 32 0.86
ACGTcount: A:0.44, C:0.44, G:0.02, T:0.10
Consensus pattern (7 bp):
AACCCTA
Found at i:6281908 original size:20 final size:20
Alignment explanation
Indices: 6281857--6281908 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
6281847 GTTTACTATG
*
6281857 AACCCCAAACCCCAAACACTA
1 AACCCTAAA-CCCAAACACTA
* * *
6281878 AACCTTGAACCCAAACCCTA
1 AACCCTAAACCCAAACACTA
6281898 AACCCTAAACC
1 AACCCTAAACC
6281909 TTGAACCCCA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
20 19 0.76
21 6 0.24
ACGTcount: A:0.44, C:0.44, G:0.02, T:0.10
Consensus pattern (20 bp):
AACCCTAAACCCAAACACTA
Found at i:6281915 original size:14 final size:14
Alignment explanation
Indices: 6281875--6281921 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
6281865 ACCCCAAACA
6281875 CTAAACCTTGAACC
1 CTAAACCTTGAACC
* *
6281889 C-AAACCCTAAACC
1 CTAAACCTTGAACC
6281902 CTAAACCTTGAACC
1 CTAAACCTTGAACC
*
6281916 CCAAAC
1 CTAAAC
6281922 TCAAACTTGA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.40, C:0.40, G:0.04, T:0.15
Consensus pattern (14 bp):
CTAAACCTTGAACC
Found at i:6281983 original size:13 final size:14
Alignment explanation
Indices: 6281967--6282004 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
6281957 AGGTTTAAGG
6281967 TTTAGGGTTCAA-A
1 TTTAGGGTTCAAGA
* *
6281980 TTTAGGATTCAAGG
1 TTTAGGGTTCAAGA
6281994 TTTAGGGTTCA
1 TTTAGGGTTCA
6282005 TAGTAAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.39
Consensus pattern (14 bp):
TTTAGGGTTCAAGA
Found at i:6282004 original size:14 final size:14
Alignment explanation
Indices: 6281958--6282004 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
6281948 TGAGGTTCTA
*
6281958 GGTTTAAGGTTTAG
1 GGTTCAAGGTTTAG
*
6281972 GGTTCAA-ATTTAG
1 GGTTCAAGGTTTAG
*
6281985 GATTCAAGGTTTAG
1 GGTTCAAGGTTTAG
6281999 GGTTCA
1 GGTTCA
6282005 TAGTAAAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.26, C:0.06, G:0.30, T:0.38
Consensus pattern (14 bp):
GGTTCAAGGTTTAG
Found at i:6284947 original size:22 final size:23
Alignment explanation
Indices: 6284902--6284947 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
6284892 TTCTATTTTC
* **
6284902 TTTCTTTTTTTTTGTTTCTTTAA
1 TTTCTTTTTTGTTGTTTCAATAA
6284925 TTTCTTTTTTGTT-TTTCAATAA
1 TTTCTTTTTTGTTGTTTCAATAA
6284947 T
1 T
6284948 AAACCATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.13, C:0.09, G:0.04, T:0.74
Consensus pattern (23 bp):
TTTCTTTTTTGTTGTTTCAATAA
Found at i:6287120 original size:32 final size:32
Alignment explanation
Indices: 6287040--6287267 Score: 276
Period size: 32 Copynumber: 6.8 Consensus size: 32
6287030 TCACTTGTCT
* * * *
6287040 TTTCTTGCAGGGAATATTTCATGTTCACGCATTA
1 TTTCTTGCAGGGAATCTCTCCTGTTCA--CATCA
* *
6287074 TTCTGTTGCAGGGAATCTTTCCTGTTCACATCA
1 TT-TCTTGCAGGGAATCTCTCCTGTTCACATCA
*
6287107 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
1 TTTCTTGCAGGGAATCTCTCCTGTTCA--CATCA
* *
6287141 TTTTGTTGCAGGGAATCTTTCCTGTTCACATCA
1 -TTTCTTGCAGGGAATCTCTCCTGTTCACATCA
*
6287174 TTTCTTGCAGGGAATCTCTCCTGTTCACGGATTA
1 TTTCTTGCAGGGAATCTCTCCTGTTCAC--ATCA
*
6287208 TTTTGTTGCAGGGAATCTCTCCTGTTCACATCA
1 -TTTCTTGCAGGGAATCTCTCCTGTTCACATCA
6287241 TTTCTTGCAGGGAATCTCTCCTGTTCA
1 TTTCTTGCAGGGAATCTCTCCTGTTCA
6287268 TGTATTATTT
Statistics
Matches: 171, Mismatches: 16, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
32 75 0.44
33 13 0.08
34 9 0.05
35 74 0.43
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.40
Consensus pattern (32 bp):
TTTCTTGCAGGGAATCTCTCCTGTTCACATCA
Found at i:6287148 original size:67 final size:67
Alignment explanation
Indices: 6287040--6287277 Score: 404
Period size: 67 Copynumber: 3.6 Consensus size: 67
6287030 TCACTTGTCT
* * * *
6287040 TTTCTTGCAGGGAATATTTCATGTTCACGCATTATTCTGTTGCAGGGAATCTTTCCTGTTCACAT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTTTCCTGTTCACAT
6287105 CA
66 CA
6287107 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTTTCCTGTTCACAT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTTTCCTGTTCACAT
6287172 CA
66 CA
* *
6287174 TTTCTTGCAGGGAATCTCTCCTGTTCACGGATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTTTCCTGTTCACAT
6287239 CA
66 CA
* *
6287241 TTTCTTGCAGGGAATCTCTCCTGTTCATGTATTATTT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTT
6287278 CTTTTTGGAC
Statistics
Matches: 163, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 163 1.00
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.41
Consensus pattern (67 bp):
TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTTTCCTGTTCACAT
CA
Found at i:6290047 original size:105 final size:101
Alignment explanation
Indices: 6289868--6290063 Score: 259
Period size: 105 Copynumber: 1.9 Consensus size: 101
6289858 GAATTGACGG
* * * *
6289868 ATAAGACCATGGTTGGACCATGGCAATGTTTAAATGTAAGACCATAGCTGGGCTATGACATTTTA
1 ATAAGACCATGGTTGGACCATGGCAATGTATAAATGTAAGACAATAGCTAGGCTATGACATTCTA
*
6289933 ATGAAAAGACCACAATTGGGTTATGGTACCTTGAAC
66 ATGAAAAGACCACAACTGGGTTATGGTACCTTGAAC
*
6289969 ATAAGACCATGGTTGGACCATGGCAGTATAG-ATACATGTGTAAGACAATAGCTAGGCTATGACA
1 ATAAGACCATGGTTGGACCATGGCA--AT-GTATA-A-ATGTAAGACAATAGCTAGGCTATGACA
* * *
6290033 TTCTGATGATAAGACCATAACTGGGTTATGG
61 TTCTAATGAAAAGACCACAACTGGGTTATGG
6290064 CACTACAAAT
Statistics
Matches: 81, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
101 25 0.31
103 4 0.05
104 2 0.02
105 50 0.62
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (101 bp):
ATAAGACCATGGTTGGACCATGGCAATGTATAAATGTAAGACAATAGCTAGGCTATGACATTCTA
ATGAAAAGACCACAACTGGGTTATGGTACCTTGAAC
Found at i:6290079 original size:105 final size:101
Alignment explanation
Indices: 6289868--6290118 Score: 244
Period size: 105 Copynumber: 2.5 Consensus size: 101
6289858 GAATTGACGG
* * * *
6289868 ATAAGACCATGGTTGGACCATGGCAATGTTTAAATGTAAGACCATAGCTGGGCTATGACATTTTA
1 ATAAGACCATGGTTGGACCATGGCAATGTATAAATGTAAGACAATAGCTAGGCTATGACATTCTA
* * **
6289933 ATGAAAAGACCACAATTGGGTTATGGTACCTTGAAC
66 ATGAAAAGACCACAACTGGGTTATGGCACCTACAAC
*
6289969 ATAAGACCATGGTTGGACCATGGCAGTATAG-ATACATGTGTAAGACAATAGCTAGGCTATGACA
1 ATAAGACCATGGTTGGACCATGGCA--AT-GTATA-A-ATGTAAGACAATAGCTAGGCTATGACA
* * *
6290033 TTCTGATGATAAGACCATAACTGGGTTATGGCA-CTACAA-
61 TTCTAATGAAAAGACCACAACTGGGTTATGGCACCTACAAC
** * *
6290072 ATGTAAGACCATGGCAAGG-CCATGGCAATGCAT--ATGTAAGACCATAG
1 A--TAAGACCATGG-TTGGACCATGGCAATGTATAAATGTAAGACAATAG
6290119 TTGGACCATG
Statistics
Matches: 125, Mismatches: 16, Indels: 20
0.78 0.10 0.12
Matches are distributed among these distances:
99 12 0.10
101 25 0.20
102 1 0.01
103 9 0.07
104 6 0.05
105 70 0.56
106 2 0.02
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.25
Consensus pattern (101 bp):
ATAAGACCATGGTTGGACCATGGCAATGTATAAATGTAAGACAATAGCTAGGCTATGACATTCTA
ATGAAAAGACCACAACTGGGTTATGGCACCTACAAC
Found at i:6290821 original size:33 final size:32
Alignment explanation
Indices: 6290784--6290879 Score: 91
Period size: 33 Copynumber: 3.2 Consensus size: 32
6290774 TGAGTTAATG
6290784 CATGACTTAATTTAATGATGCACACTTAACTAA
1 CATGACTTAATTTAATGATGCA-ACTTAACTAA
* *
6290817 CATGA---AAGTT-A-CAT--AA-TTAAACTAA
1 CATGACTTAATTTAATGATGCAACTT-AACTAA
6290842 CATGACTTAATTTAATGATGCAAACTTAACTAA
1 CATGACTTAATTTAATGATGC-AACTTAACTAA
6290875 CATGA
1 CATGA
6290880 AAGTTACATA
Statistics
Matches: 49, Mismatches: 4, Indels: 20
0.67 0.05 0.27
Matches are distributed among these distances:
24 2 0.04
25 12 0.24
26 1 0.02
28 6 0.12
29 2 0.04
30 6 0.12
33 18 0.37
34 2 0.04
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (32 bp):
CATGACTTAATTTAATGATGCAACTTAACTAA
Found at i:6292172 original size:42 final size:42
Alignment explanation
Indices: 6292114--6292208 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 42
6292104 ATTAATTATA
* ** *
6292114 AATAATAATTT-TAAAATTAATGGATGTTCACACTATT-TTAC
1 AATAATGATTTATAAAATTAATAAATATTCACACT-TTCTTAC
*
6292155 AATAATGATTTATAAAATTAATAAATATTCACTCTTTCTTAC
1 AATAATGATTTATAAAATTAATAAATATTCACACTTTCTTAC
6292197 AATAATGATTTA
1 AATAATGATTTA
6292209 CCATAATATG
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
41 12 0.26
42 35 0.74
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.42
Consensus pattern (42 bp):
AATAATGATTTATAAAATTAATAAATATTCACACTTTCTTAC
Found at i:6301641 original size:11 final size:11
Alignment explanation
Indices: 6301621--6301684 Score: 61
Period size: 11 Copynumber: 6.4 Consensus size: 11
6301611 TTAAAAATTA
6301621 AAAAAGTATTTT
1 AAAAA-TATTTT
6301633 AAAAATATTTT
1 AAAAATATTTT
6301644 --AAA-A--TT
1 AAAAATATTTT
6301650 AAAAA-A-TTT
1 AAAAATATTTT
6301659 AAAAATATTTT
1 AAAAATATTTT
*
6301670 TAAAATATTTT
1 AAAAATATTTT
6301681 AAAA
1 AAAA
6301685 TTAAAAAATA
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
6 2 0.04
8 5 0.11
9 10 0.22
10 1 0.02
11 22 0.49
12 5 0.11
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:6301653 original size:37 final size:38
Alignment explanation
Indices: 6301613--6301742 Score: 190
Period size: 40 Copynumber: 3.3 Consensus size: 38
6301603 AATTTATTTT
6301613 AAAAATTAAAAAAGTATTTTAAAAATATTTTAAAATTA
1 AAAAATTAAAAAAGTATTTTAAAAATATTTTAAAATTA
* *
6301651 AAAAATTTAAAAA-TATTTTTAAAATATTTTAAAATTA
1 AAAAATTAAAAAAGTATTTTAAAAATATTTTAAAATTA
*
6301688 AAAAATAAAAAAAAAGTATTTTAAAAATATTTTAAAATTA
1 AAAAAT--TAAAAAAGTATTTTAAAAATATTTTAAAATTA
6301728 AAAAATAATAAAAAA
1 AAAAAT--TAAAAAA
6301743 ATGTAACAGC
Statistics
Matches: 83, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
37 29 0.35
38 12 0.14
39 5 0.06
40 37 0.45
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (38 bp):
AAAAATTAAAAAAGTATTTTAAAAATATTTTAAAATTA
Found at i:6302223 original size:14 final size:13
Alignment explanation
Indices: 6302183--6302230 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
6302173 TAAAGTATAT
*
6302183 TATTATTTTATTA
1 TATTATTATATTA
* *
6302196 TATT-GTAAATTA
1 TATTATTATATTA
6302208 TATTTATTATATTA
1 TA-TTATTATATTA
6302222 TATTATTAT
1 TATTATTAT
6302231 TTTTTAAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
12 7 0.25
13 13 0.46
14 8 0.29
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (13 bp):
TATTATTATATTA
Found at i:6304785 original size:10 final size:11
Alignment explanation
Indices: 6304759--6304784 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
6304749 GTATTACAAA
6304759 AAAAATATTTT
1 AAAAATATTTT
6304770 AAAAATATTTT
1 AAAAATATTTT
6304781 AAAA
1 AAAA
6304785 TTAAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:6305817 original size:126 final size:126
Alignment explanation
Indices: 6305488--6305841 Score: 593
Period size: 125 Copynumber: 2.8 Consensus size: 126
6305478 ATTATTTCGA
* * * *
6305488 GTTGACGTTTCTTATCAAATAGTATAAATTCGCTTCTACCAGGATGCTATTTGAGAATAAATTGT
1 GTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
6305553 GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTT
66 GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTT
* * * * *
6305614 -CTGATGTTTCTGAGCAAATAGTATAAAATCGTTTCTACGAGAATGCTATTTGAGAAGAAATTGT
1 GTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
*
6305678 GAAATCGCGCCCTCGTAGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTT
66 GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTT
* *
6305739 GTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTATACCAGGATGCTATTTAAGAAGAAATTGT
1 GTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
6305804 GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAG
66 GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAG
6305842 CAAGTTTGAG
Statistics
Matches: 209, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
125 115 0.55
126 94 0.45
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (126 bp):
GTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTT
Found at i:6306577 original size:18 final size:18
Alignment explanation
Indices: 6306554--6306592 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
6306544 TACTACCTAC
6306554 GACGTCAACCGGTGAGGG
1 GACGTCAACCGGTGAGGG
6306572 GACGTCAACCGGTGAGGG
1 GACGTCAACCGGTGAGGG
6306590 GAC
1 GAC
6306593 CTCGTACGCT
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:0.23, C:0.23, G:0.44, T:0.10
Consensus pattern (18 bp):
GACGTCAACCGGTGAGGG
Found at i:6308990 original size:10 final size:10
Alignment explanation
Indices: 6308975--6308999 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
6308965 CAAATCTAAC
6308975 ATTATGTAAA
1 ATTATGTAAA
6308985 ATTATGTAAA
1 ATTATGTAAA
6308995 ATTAT
1 ATTAT
6309000 TAAGCCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (10 bp):
ATTATGTAAA
Found at i:6309132 original size:29 final size:29
Alignment explanation
Indices: 6309099--6309768 Score: 698
Period size: 29 Copynumber: 23.1 Consensus size: 29
6309089 AATTGTGTTA
6309099 AGGGTTTTTAATTAAGTTAGGTTAGGGTT
1 AGGGTTTTTAATTAAGTTAGGTTAGGGTT
6309128 AGGGTTAGGGTTTTAATTAAGTTAGGTTAGGGTT
1 AGGG-T----TTTTAATTAAGTTAGGTTAGGGTT
*
6309162 AGGGTTTTTAATTAATTTAGGTTAGGGTT
1 AGGGTTTTTAATTAAGTTAGGTTAGGGTT
*
6309191 AGGGTTTTTAATTAATTTAGGTTAGGGTT
1 AGGGTTTTTAATTAAGTTAGGTTAGGGTT
* *
6309220 AGGGTTTTTAATTAATTTAGGTTGGGGTT
1 AGGGTTTTTAATTAAGTTAGGTTAGGGTT
* * *
6309249 ----TTAGTTAGGTTAGGTTAGGGTTAGGGTT
1 AGGGTT-TTTA-ATTAAGTTA-GGTTAGGGTT
6309277 AGGGTTTTTAATTAAGTTAGGTTAGGGTT
1 AGGGTTTTTAATTAAGTTAGGTTAGGGTT
*
6309306 AGGGTTAAGGTTTTTAATTAAGTAAGGTTAGGGTT
1 A--G----GGTTTTTAATTAAGTTAGGTTAGGGTT
* *
6309341 AGGGTTTTTAGTTAGGTTAGGTTAGGGTT
1 AGGGTTTTTAATTAAGTTAGGTTAGGGTT
*
6309370 AGGGTTTTTAATTAATTTAGGTTAGGGTT
1 AGGGTTTTTAATTAAGTTAGGTTAGGGTT
* *
6309399 AGGGTTTTTAATTAATTTAGGTTAAGGTT
1 AGGGTTTTTAATTAAGTTAGGTTAGGGTT
* *
6309428 AGGGTTTTTAATTGATTTAGGTTAGGGTT
1 AGGGTTTTTAATTAAGTTAGGTTAGGGTT
6309457 AGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTT
1 AGGGTTTTTAATT-A---A-GTTA-GGTTAGGGTT
*
6309492 AGGGTTTTTAATTAAGTAAGGTTAGGGTT
1 AGGGTTTTTAATTAAGTTAGGTTAGGGTT
* *
6309521 AGGGTTTTTAGTTAGGTTAGGTTAGGGTT
1 AGGGTTTTTAATTAAGTTAGGTTAGGGTT
*
6309550 AGGGTTTTTAATTAATTTAGGTTAGGGTT
1 AGGGTTTTTAATTAAGTTAGGTTAGGGTT
*
6309579 AGGGTTTTTAATTAGGTTAGGTTA-GGTT
1 AGGGTTTTTAATTAAGTTAGGTTAGGGTT
*
6309607 A-GG-------TTAGGTTAGGTTAGGGTT
1 AGGGTTTTTAATTAAGTTAGGTTAGGGTT
***** * * *
6309628 -TTTAATTAAGTTAGGTTAGGGTTAGGG-T
1 AGGGTTTTTAATTAAGTTA-GGTTAGGGTT
*
6309656 -----TTTTAATTAAGTTAGGTTAAGGTT
1 AGGGTTTTTAATTAAGTTAGGTTAGGGTT
* *
6309680 AGGGTTTTTAGTTAGGTTAGGTTAGGGTT
1 AGGGTTTTTAATTAAGTTAGGTTAGGGTT
*
6309709 AGGGTTTTTAATTAATTTAGGTTAGGGTT
1 AGGGTTTTTAATTAAGTTAGGTTAGGGTT
*
6309738 AGGGTTTTTAATTAGGTTAGGTTA-GGTT
1 AGGGTTTTTAATTAAGTTAGGTTAGGGTT
6309766 AGG
1 AGG
6309769 TTAGGTTAGG
Statistics
Matches: 555, Mismatches: 46, Indels: 81
0.81 0.07 0.12
Matches are distributed among these distances:
20 13 0.02
21 4 0.01
23 7 0.01
24 11 0.02
25 2 0.00
26 3 0.01
27 8 0.01
28 30 0.05
29 374 0.67
30 11 0.02
31 5 0.01
32 2 0.00
33 3 0.01
34 32 0.06
35 50 0.09
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.45
Consensus pattern (29 bp):
AGGGTTTTTAATTAAGTTAGGTTAGGGTT
Found at i:6309261 original size:22 final size:22
Alignment explanation
Indices: 6309202--6309270 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
6309192 GGGTTTTTAA
*
6309202 TTAATTTAGGTTAGGGTTAGGGTTT
1 TTAA-TTAGGTTA-GGTT-GGGGTT
**
6309227 TTAATTAATTTAGGTTGGGGTT
1 TTAATTAGGTTAGGTTGGGGTT
* *
6309249 TTAGTTAGGTTAGGTTAGGGTT
1 TTAATTAGGTTAGGTTGGGGTT
6309271 AGGGTTAGGG
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
22 23 0.62
23 4 0.11
24 6 0.16
25 4 0.11
ACGTcount: A:0.20, C:0.00, G:0.32, T:0.48
Consensus pattern (22 bp):
TTAATTAGGTTAGGTTGGGGTT
Found at i:6309421 original size:87 final size:87
Alignment explanation
Indices: 6309099--6309768 Score: 842
Period size: 87 Copynumber: 7.7 Consensus size: 87
6309089 AATTGTGTTA
*
6309099 AGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTAGGGTTTTAATTAAGTTAGGTTAGGGTTAG
1 AGGGTTTTTAATTAATTTAGGTTAGGGTTAGGG-T----TTTTAATTAAGTTAGGTTAGGGTTAG
* **
6309164 GGTTTTTAATTAATTTAGGTTAGGGTT
61 GGTTTTTAGTTAGGTTAGGTTAGGGTT
* *
6309191 AGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTGGGGTT----TTA
1 AGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTT-
*
6309252 GTTAGGTTAGGTTAGGGTTAGGGTT
65 TTTA-GTTAGGTTA-GGTTAGGGTT
* *
6309277 AGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTAAGGTTTTTAATTAAGTAAGGTTAGGGTTA
1 AGGGTTTTTAATTAA--T---TTA-GGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTA
6309342 GGGTTTTTAGTTAGGTTAGGTTAGGGTT
60 GGGTTTTTAGTTAGGTTAGGTTAGGGTT
* *
6309370 AGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTAAGGTTAGGGTTT
1 AGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTT
* *
6309435 TTAATT-GATTTAGGTTAGGGTT
66 TTAGTTAG-GTTAGGTTAGGGTT
*
6309457 AGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTAGGGTTTTTAATTAAGTAAGGTTAGGGTTA
1 AGGGTTTTTAATTAA--T---TTA-GGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTA
6309522 GGGTTTTTAGTTAGGTTAGGTTAGGGTT
60 GGGTTTTTAGTTAGGTTAGGTTAGGGTT
*
6309550 AGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTTAATTAGGTTAGGTTA-GGTTA--G---
1 AGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTT
6309609 ---GTTAGGTTAGGTTA--G--
66 TTAGTTAGGTTAGGTTAGGGTT
* *
6309624 --GGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAAGGTTAGGGTTT
1 AGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTT
6309687 TTAGTTAGGTTAGGTTAGGGTT
66 TTAGTTAGGTTAGGTTAGGGTT
*
6309709 AGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTTAATTAGGTTAGGTTA-GGTTAGG
1 AGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGG
6309769 TTAGGTTAGG
Statistics
Matches: 513, Mismatches: 29, Indels: 78
0.83 0.05 0.13
Matches are distributed among these distances:
72 49 0.10
73 5 0.01
75 1 0.00
76 1 0.00
78 14 0.03
81 14 0.03
83 3 0.01
84 4 0.01
85 6 0.01
86 38 0.07
87 178 0.35
88 7 0.01
89 1 0.00
91 6 0.01
92 70 0.14
93 101 0.20
94 10 0.02
95 3 0.01
96 2 0.00
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.45
Consensus pattern (87 bp):
AGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTT
TTAGTTAGGTTAGGTTAGGGTT
Found at i:6309600 original size:5 final size:5
Alignment explanation
Indices: 6309590--6309778 Score: 75
Period size: 5 Copynumber: 39.0 Consensus size: 5
6309580 GGGTTTTTAA
* * *
6309590 TTAGG TTAGG TTAGG TTAGG TTAGG TTAGG TTAGGG TT--T TTA-A TTAAG
1 TTAGG TTAGG TTAGG TTAGG TTAGG TTAGG TTA-GG TTAGG TTAGG TTAGG
* * *
6309638 TTAGG TTAGGG TTAGGG TT--T TTA-A TTAAG TTAGG TTAAGG TTAGGG
1 TTAGG TTA-GG TTA-GG TTAGG TTAGG TTAGG TTAGG TT-AGG TTA-GG
* * * **
6309684 TT--T TTA-G TTAGG TTAGG TTAGGG TTAGGG TT--T TTA-A TTAAT TTAGG
1 TTAGG TTAGG TTAGG TTAGG TTA-GG TTA-GG TTAGG TTAGG TTAGG TTAGG
* *
6309730 TTAGGG TTAGGG TT--T TTA-A TTAGG TTAGG TTAGG TTAGG TTAGG TTAGG
1 TTA-GG TTA-GG TTAGG TTAGG TTAGG TTAGG TTAGG TTAGG TTAGG TTAGG
6309779 GTTTTCAATT
Statistics
Matches: 150, Mismatches: 18, Indels: 32
0.75 0.09 0.16
Matches are distributed among these distances:
3 10 0.07
4 15 0.10
5 82 0.55
6 43 0.29
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.44
Consensus pattern (5 bp):
TTAGG
Found at i:6309627 original size:43 final size:45
Alignment explanation
Indices: 6309566--6309653 Score: 153
Period size: 43 Copynumber: 2.0 Consensus size: 45
6309556 TTTAATTAAT
*
6309566 TTAGGTTAGGGTTAGGGTTTTTAATTAGGTTAGGTTA-GGTTAGG
1 TTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGG
6309610 TTAGGTTA-GGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGG
1 TTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGG
6309654 GTTTTTAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
43 27 0.64
44 15 0.36
ACGTcount: A:0.22, C:0.00, G:0.35, T:0.43
Consensus pattern (45 bp):
TTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGG
Found at i:6309642 original size:101 final size:103
Alignment explanation
Indices: 6309148--6309768 Score: 459
Period size: 93 Copynumber: 5.7 Consensus size: 103
6309138 TTTTAATTAA
* *
6309148 GTTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGGT
1 GTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGT
* *
6309213 TAGGGTTAGGGTTTTTAATTAATTTAGGTTGGGGTTTTAGTTAGGTTAG
66 TAAGGTTAGGG--TTT--TTAA-TTAGGTT-AGG--TTAG---GGTTAG
6309262 GTTAGGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTAAGGTTTTTAATTAA
1 GTTA-GGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTA--G----GGTTTTTAATTAA
* * *
6309327 GTAAGGTTAGGGTTAGGGTTTTTAGTTAGGTTAGGTTAGGGTTAGG
59 GTTAGGTTAAGGTTAGGGTTTTTAATTAGGTTAGGTTAGGGTTA-G
* *
6309373 GTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTAAGGTTAGGGTTTTTA
1 G------------TTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTA
* * *
6309438 ATTGATTTAGGTTAGGGTTAGGGTTTTTAATTA----A-GTTA-GGTTA-
54 ATTAAGTTAGGTTAAGGTTAGGGTTTTTAATTAGGTTAGGTTAGGGTTAG
* * *
6309481 G---GGTTAGGGTTAGGGTTTTTAATTAAGTAAGGTTAGGGTTAGGGTTTTTAGTTAGGTTAGGT
1 GTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGT
* **
6309543 TAGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGG
66 TAAGGTTAGGGTTTTTAATTAGGTTAGGTTAGGGTTA-G
* * *
6309582 GTTTTTA-ATTA-GGTTA-GG---TTAGGTTAGGTTAGGTTA-GGTTAGGGTTTTTAATTAAGTT
1 G---TTAGGTTAGGGTTAGGGTTTTTA-ATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTT
*
6309640 AGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAAGGTTAGGGTTTTTAGTTAG
62 AGGTTAAGGTTAGGG--TTT--TTAA-TTAGGTT-AGGTTA-GG------GTTAG
* *
6309695 GTTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTTAATTAGGTTAGGT
1 GTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGT
6309760 T-AGGTTAGG
66 TAAGGTTAGG
6309769 TTAGGTTAGG
Statistics
Matches: 420, Mismatches: 32, Indels: 109
0.75 0.06 0.19
Matches are distributed among these distances:
93 75 0.18
97 1 0.00
98 4 0.01
99 5 0.01
101 39 0.09
102 11 0.03
103 3 0.01
104 2 0.00
105 9 0.02
106 8 0.02
107 6 0.01
108 3 0.01
110 13 0.03
111 9 0.02
112 6 0.01
113 8 0.02
114 8 0.02
115 59 0.14
116 73 0.17
117 4 0.01
119 3 0.01
120 1 0.00
121 29 0.07
122 38 0.09
123 3 0.01
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.45
Consensus pattern (103 bp):
GTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGT
TAAGGTTAGGGTTTTTAATTAGGTTAGGTTAGGGTTAG
Found at i:6309873 original size:26 final size:25
Alignment explanation
Indices: 6309843--6309891 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
6309833 TCTTCAAAAT
6309843 TTCTATGCGTATTACATCAAATAAAC
1 TTCTAT-CGTATTACATCAAATAAAC
**
6309869 TTCTATTTTATTACATCAAATAA
1 TTCTATCGTATTACATCAAATAA
6309892 TAAATTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.39, C:0.16, G:0.04, T:0.41
Consensus pattern (25 bp):
TTCTATCGTATTACATCAAATAAAC
Found at i:6311921 original size:15 final size:14
Alignment explanation
Indices: 6311901--6311930 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6311891 ATAATTATCT
6311901 AAAAATACTTAAATA
1 AAAAAT-CTTAAATA
6311916 AAAAATCTTAAATA
1 AAAAATCTTAAATA
6311930 A
1 A
6311931 TAATTACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (14 bp):
AAAAATCTTAAATA
Found at i:6312041 original size:10 final size:10
Alignment explanation
Indices: 6312022--6312069 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
6312012 GCCATTGATG
*
6312022 AAAATATAAA
1 AAAATTTAAA
6312032 AAAATTTAAA
1 AAAATTTAAA
** *
6312042 ATTATTTTAA
1 AAAATTTAAA
*
6312052 AAAATATAAA
1 AAAATTTAAA
6312062 AAAATTTA
1 AAAATTTA
6312070 TAATTATTTT
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
10 29 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAATTTAAA
Found at i:6312056 original size:30 final size:30
Alignment explanation
Indices: 6312022--6312084 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
6312012 GCCATTGATG
6312022 AAAATATAAAAAAATTTAAAATTATTTTAA
1 AAAATATAAAAAAATTTAAAATTATTTTAA
*
6312052 AAAATATAAAAAAATTTATAATTATTTTAA
1 AAAATATAAAAAAATTTAAAATTATTTTAA
6312082 AAA
1 AAA
6312085 TAGATTTGAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (30 bp):
AAAATATAAAAAAATTTAAAATTATTTTAA
Found at i:6312663 original size:68 final size:66
Alignment explanation
Indices: 6312574--6312868 Score: 223
Period size: 68 Copynumber: 4.5 Consensus size: 66
6312564 TCTCTTTTCT
* * *
6312574 AAAAAAAAGACACTTCTTTAGCTTATCAATTTAACAACTCTTTTAACCATAATTTCACCCCCCCC
1 AAAAAAAA-ACTCTTCTTTAGCTTCTCAATTTCACAACTCTTTTAACCATAATTTCACCCCCCCC
6312639 CC
65 CC
* * * ** *
6312641 AAACAAAAGAACTCTTCTTTAGCTTCTTAATTTCACAAATCTTCTAATTATAATTTCA----ACC
1 AAA-AAAA-AACTCTTCTTTAGCTTCTCAATTTCACAACTCTTTTAACCATAATTTCACCCCCCC
*
6312702 ACC
64 CCC
* * * * * *
6312705 TAAAAAAAA-TAGTTCTTTTA-CTTTTCAATTTCACAACTTTTTTAACAATAA-ATC-CCCCCCC
1 AAAAAAAAACT-CTTC-TTTAGCTTCTCAATTTCACAACTCTTTTAACCATAATTTCACCCCCCC
6312766 CCC
64 CCC
* ** * **
6312769 GAAAAAAAAACGTCCTTATTTCTCTTCTCAATTTCACAACTCTTTTAACCATAGTTTCAATCCCC
1 -AAAAAAAAAC-T-CTTCTTTAGCTTCTCAATTTCACAACTCTTTTAACCATAATTTCACCCCCC
*
6312834 TCCC
63 CCCC
* *
6312838 AAAAAAAAACT-TT-TTTAACTTCTAAATTTCA
1 AAAAAAAAACTCTTCTTTAGCTTCTCAATTTCA
6312869 TAAATTTTCT
Statistics
Matches: 176, Mismatches: 38, Indels: 31
0.72 0.16 0.13
Matches are distributed among these distances:
61 3 0.02
62 29 0.16
63 8 0.05
64 25 0.14
65 10 0.06
66 3 0.02
67 34 0.19
68 56 0.32
69 8 0.05
ACGTcount: A:0.36, C:0.27, G:0.03, T:0.35
Consensus pattern (66 bp):
AAAAAAAAACTCTTCTTTAGCTTCTCAATTTCACAACTCTTTTAACCATAATTTCACCCCCCCCC
C
Found at i:6312842 original size:129 final size:131
Alignment explanation
Indices: 6312590--6312828 Score: 290
Period size: 129 Copynumber: 1.8 Consensus size: 131
6312580 AAGACACTTC
* *
6312590 TTTAGCTTATCAATTTAACAACTCTTTTAACCATAATTTCACCCCCCCCCCAAACAAAAGAACTC
1 TTTAGCTTATCAATTTAACAACTCTTTTAACAATAATATCACCCCCCCCCCAAACAAAAGAACTC
* * **
6312655 TTCTTTAGCTTCTTAATTTCACAAATCTTCTAATTATAATTTCAACCACCTAAAAAAAATAGTTC
66 TTATTTAGCTTCTCAATTTCACAAATCTTCTAACCATAATTTCAACCACCTAAAAAAAATAGTTC
6312720 T
131 T
* * *
6312721 TTTA-CTTTTCAATTTCACAACTTTTTTAACAATAA-ATC-CCCCCCCCCCGAAA-AAAA-AACG
1 TTTAGCTTATCAATTTAACAACTCTTTTAACAATAATATCACCCCCCCCCC-AAACAAAAGAAC-
** * * *
6312781 TCCTTATTTCTCTTCTCAATTTCACAACTCTTTTAACCATAGTTTCAA
64 T-CTTATTTAGCTTCTCAATTTCACAAATCTTCTAACCATAATTTCAA
6312829 TCCCCTCCCA
Statistics
Matches: 91, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
127 3 0.03
128 15 0.16
129 42 0.46
130 27 0.30
131 4 0.04
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.36
Consensus pattern (131 bp):
TTTAGCTTATCAATTTAACAACTCTTTTAACAATAATATCACCCCCCCCCCAAACAAAAGAACTC
TTATTTAGCTTCTCAATTTCACAAATCTTCTAACCATAATTTCAACCACCTAAAAAAAATAGTTC
T
Found at i:6312924 original size:58 final size:57
Alignment explanation
Indices: 6312838--6313186 Score: 235
Period size: 58 Copynumber: 6.0 Consensus size: 57
6312828 ATCCCCTCCC
*
6312838 AAAAAAAAAC-TTTTTTAACTTCTAAATTTCATAAATTTTCTAACTATAGTTTCACA
1 AAAAAAAAACATTTTTTAACTTCTTAATTTCATAAATTTTCTAACTATAGTTTCACA
* * *
6312894 AAAAAAAAACATTTATTTAACTTCTTAATTTCATAAATTTTCTAACAATAGTTTTAACCC
1 AAAAAAAAACATTT-TTTAACTTCTTAATTTCATAAATTTTCTAACTATAG-TTTCA-CA
** * * * * * *
6312954 AAAAAATTA-GTTCTTTT-GCTTCTCAATTTCATAACTTTTTTAACCATAGTTTCAACA
1 AAAAAAAAACATT-TTTTAACTTCTTAATTTCATAAATTTTCTAACTATAGTTTC-ACA
*** * * * * *
6313011 AAAAAAAATA-AGAACTTCAGCTTCTTAATTTGACAAATCTTCTAA-TAATAGTTTCAACCCCCC
1 AAAAAAAA-ACA-TTTTTTAACTTCTTAATTTCATAAATTTTCTAACT-ATAGTTTC-A-----C
6313074 TA
57 -A
** * * * ** *
6313076 AAAAAATCACATCTTTT-GCTTCTCAATTTCATAAACCTTCTAACCATAGTTTCAC-
1 AAAAAAAAACATTTTTTAACTTCTTAATTTCATAAATTTTCTAACTATAGTTTCACA
* *
6313131 AAAAAAAAACACTTTTTTAACTTCTTAATTTCACAAATTCTCTAACTATAGTTTCA
1 AAAAAAAAACA-TTTTTTAACTTCTTAATTTCATAAATTTTCTAACTATAGTTTCA
6313187 ACCACCACCC
Statistics
Matches: 224, Mismatches: 49, Indels: 39
0.72 0.16 0.12
Matches are distributed among these distances:
55 9 0.04
56 15 0.07
57 44 0.20
58 65 0.29
59 39 0.17
60 9 0.04
62 1 0.00
63 30 0.13
64 4 0.02
65 8 0.04
ACGTcount: A:0.40, C:0.19, G:0.03, T:0.38
Consensus pattern (57 bp):
AAAAAAAAACATTTTTTAACTTCTTAATTTCATAAATTTTCTAACTATAGTTTCACA
Found at i:6313397 original size:67 final size:63
Alignment explanation
Indices: 6313317--6313469 Score: 166
Period size: 67 Copynumber: 2.4 Consensus size: 63
6313307 GTTTCACTCT
* * * *
6313317 TAAAAAAAATACTTCTTTAGCTTTTCAATTTAACAAGTCTTTCAAACAATAGTTTCAATCTTTCT
1 TAAAAAACATACTTCTTTAGCTTTTAAATTTAACAAATC-TTCAAACAATAGTTTCAA-C--CCT
6313382 AC
62 AC
* * * * *
6313384 TAAAAAACATACTTTTTTAGCTTCTAAATTTTAGAAATCTTCTAACAATAGTTTCAACCCTAC
1 TAAAAAACATACTTCTTTAGCTTTTAAATTTAACAAATCTTCAAACAATAGTTTCAACCCTAC
*
6313447 TAAAAAAC--ACTTCTTTGGCTTTT
1 TAAAAAACATACTTCTTTAGCTTTT
6313470 TTAGTAGTGA
Statistics
Matches: 74, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
61 12 0.16
63 12 0.16
65 1 0.01
66 17 0.23
67 32 0.43
ACGTcount: A:0.37, C:0.18, G:0.05, T:0.40
Consensus pattern (63 bp):
TAAAAAACATACTTCTTTAGCTTTTAAATTTAACAAATCTTCAAACAATAGTTTCAACCCTAC
Found at i:6313505 original size:23 final size:23
Alignment explanation
Indices: 6313479--6313523 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
6313469 TTTAGTAGTG
* * *
6313479 AAATCTTCTAACCATAGTTTCAA
1 AAATATTCTAAACATAATTTCAA
6313502 AAATATTCTAAACATAATTTCA
1 AAATATTCTAAACATAATTTCA
6313524 CCAAAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.44, C:0.18, G:0.02, T:0.36
Consensus pattern (23 bp):
AAATATTCTAAACATAATTTCAA
Found at i:6314126 original size:65 final size:63
Alignment explanation
Indices: 6313879--6314489 Score: 449
Period size: 65 Copynumber: 9.6 Consensus size: 63
6313869 CCCCCGCGCC
* * * * * * * *
6313879 ACCCCCCAAAAAAAATACAGTTCTTTAGTTTCTCAATTTTACAACTCTTTTAACCATAGTTTC-
1 ACCCCCCCACAAAAA-ACAATTCTTTAGCTTCTTAATTTCACAAATCTTCTAACCATAGTTTCA
* * * *
6313942 A----CCCAAAAAAAATAATTCTTTAGCTTCTTAATTTCAAAAATTTTCTAACCATAGTTTCA
1 ACCCCCCCACAAAAAACAATTCTTTAGCTTCTTAATTTCACAAATCTTCTAACCATAGTTTCA
* * * * *
6314001 ACCCCCCCTA-AAAAAA-AGTTAC-TTATCTTCTCAATTTCACAACTCTTTTAACCATAGTTTCA
1 ACCCCCCC-ACAAAAAACAATT-CTTTAGCTTCTTAATTTCACAAATCTTCTAACCATAGTTTCA
* *
6314063 ACCCTCCCCACAAAGAAACAATTCTTTAGATTCTTAATTTCACAAATCTTCTAACCATGGTTTCA
1 ACCC-CCCCACAAA-AAACAATTCTTTAGCTTCTTAATTTCACAAATCTTCTAACCATAGTTTCA
* * * * * * * *
6314128 A--CCCCTA-AAAAAACAGTTATTTATCTTCTCAATTTCATAACTCTTTTAACCATAGTTTCA
1 ACCCCCCCACAAAAAACAATTCTTTAGCTTCTTAATTTCACAAATCTTCTAACCATAGTTTCA
* * * *
6314188 ACTCTTCCCCCCACCACAAAAAAATACTTCTTTAGCTTCTTATTTTCACAACTCTTTTAACCATA
1 A--C--CCCCCCA-CA-AAAAACA-A-TTCTTTAGCTTCTTAATTTCACAAATCTTCTAACCATA
6314253 GTTTCA
58 GTTTCA
* * * *
6314259 ACCCTTCCCCCACCAAAAAAACACTTCTTTAGCTTCTAAATTTAAAAAATCTTCTAACCATAGTT
1 A-CC--CCCCCA-C-AAAAAACAATTCTTTAGCTTCTTAATTTCACAAATCTTCTAACCATAGTT
6314324 TCAA
61 TC-A
* * * ** *
6314328 ACCCCCTCC-CAAAAAAACACTTCTTTAGCTTCTTAATTTTATAAATCTTCTAATTATAGTTTTA
1 ACCCCC-CCAC-AAAAAACAATTCTTTAGCTTCTTAATTTCACAAATCTTCTAACCATAGTTTCA
* * * * * *
6314392 ACCCACACAAAAAAAACACTTTTTTACCTT-TTCAATTTCACAAATCTTCTAACCATAGTTTCA
1 ACCCCCCCACAAAAAACAATTCTTTAGCTTCTT-AATTTCACAAATCTTCTAACCATAGTTTCA
* * * ** *
6314455 ACTCCTCTA-AAAAAACACCTCTTTAACTTCTTAAT
1 ACCCCCCCACAAAAAACAATTCTTTAGCTTCTTAAT
6314490 GATGTAGTCA
Statistics
Matches: 442, Mismatches: 75, Indels: 63
0.76 0.13 0.11
Matches are distributed among these distances:
58 38 0.09
59 10 0.02
60 42 0.10
61 3 0.01
62 68 0.15
63 69 0.16
64 11 0.02
65 86 0.19
66 8 0.02
67 2 0.00
68 41 0.09
69 8 0.02
70 15 0.03
71 41 0.09
ACGTcount: A:0.35, C:0.26, G:0.03, T:0.35
Consensus pattern (63 bp):
ACCCCCCCACAAAAAACAATTCTTTAGCTTCTTAATTTCACAAATCTTCTAACCATAGTTTCA
Found at i:6314378 original size:264 final size:261
Alignment explanation
Indices: 6313947--6314458 Score: 624
Period size: 264 Copynumber: 2.0 Consensus size: 261
6313937 GTTTCACCCA
*
6313947 AAAAAAATAATTCTTTAGCTTCTTAATTTCAAAAATTTTCTAACCATAGTTTCAACCCCCCCTAA
1 AAAAAAATAATTCTTTAGCTTCTTAATTTCAAAAATTTTCTAACCATAGTTTCAACCCCCCCCAA
* * * * * * *
6314012 AAAAAAGTTACTTATCTTCTCAATTTCACAACTCTTTTAACCATAGTTTCAACCCTCCCCACAAA
66 AAAAAACTTACTTAGCTTCTAAATTTAAAAAATCTTCTAACCATAGTTTCAACCCTCCCCACAAA
* * *
6314077 GAAACAATTCTTTAGATTCTTAATTTCACAAATCTTCTAACCATGGTTTCAA-CC-C-CTAAAAA
131 AAAACAATTCTTTAGATTCTTAATTTCACAAATCTTCTAACCATAGTTTCAACCCACACAAAAAA
* * * * *
6314139 AACAGTTATTTATCTTCTCAATTTCATAACTCTTTTAACCATAGTTTCAACTCTTCCCCCCACCA
196 AACACTTATTTACCTTCTCAATTTCACAAATCTTCTAACCATAGTTTCAACTCTTCCCCCCACCA
6314204 C
261 C
* * * *
6314205 AAAAAAATACTTCTTTAGCTTCTTATTTTCACAACTCTTT-TAACCATAGTTTCAACCCTTCCCC
1 AAAAAAATAATTCTTTAGCTTCTTAATTTCAAAAAT-TTTCTAACCATAGTTTCAA--C--CCCC
6314269 CACCAAAAAAACACTT-CTTTAGCTTCTAAATTTAAAAAATCTTCTAACCATAGTTTCAAACCC-
61 C-CCAAAAAAA-ACTTAC-TTAGCTTCTAAATTTAAAAAATCTTCTAACCATAGTTTC-AACCCT
* * * * ** *
6314332 CCTCC-CAAAAAAACACTTCTTTAGCTTCTTAATTTTATAAATCTTCTAATTATAGTTTTAACCC
122 CC-CCACAAAAAAACAATTCTTTAGATTCTTAATTTCACAAATCTTCTAACCATAGTTTCAACCC
* *
6314396 ACACAAAAAAAACACTTTTTTACCTTTTCAATTTCACAAATCTTCTAACCATAGTTTCAACTC
186 ACACAAAAAAAACACTTATTTACCTTCTCAATTTCACAAATCTTCTAACCATAGTTTCAACTC
6314459 CTCTAAAAAA
Statistics
Matches: 212, Mismatches: 29, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
258 47 0.22
259 3 0.01
260 1 0.00
262 5 0.02
263 9 0.04
264 85 0.40
265 9 0.04
266 1 0.00
267 52 0.25
ACGTcount: A:0.35, C:0.26, G:0.03, T:0.36
Consensus pattern (261 bp):
AAAAAAATAATTCTTTAGCTTCTTAATTTCAAAAATTTTCTAACCATAGTTTCAACCCCCCCCAA
AAAAAACTTACTTAGCTTCTAAATTTAAAAAATCTTCTAACCATAGTTTCAACCCTCCCCACAAA
AAAACAATTCTTTAGATTCTTAATTTCACAAATCTTCTAACCATAGTTTCAACCCACACAAAAAA
AACACTTATTTACCTTCTCAATTTCACAAATCTTCTAACCATAGTTTCAACTCTTCCCCCCACCA
C
Found at i:6314407 original size:196 final size:187
Alignment explanation
Indices: 6313882--6314461 Score: 565
Period size: 196 Copynumber: 3.0 Consensus size: 187
6313872 CCGCGCCACC
* * * * * * * *
6313882 CCCCAAAAAAAATACAGTTCTTTAGTTTCTCAATTTTACAACTCTTTTAACCATAGTTTC-A-CC
1 CCCCACAAAAAA-ACAATTCTTTAGATTCTAAATTTAAAAAATCTTCTAACCATAGTTTCAACCC
* * * * * *
6313945 CAAAAAAAATAATTCTTTAGCTTCTTAATTTCAAAAATTTTCTAACCATAGTTTCAACCCCCCCT
65 CTAAAAAAACAATTCTTTAGCTTCTTAATTTCATAAATCTTCTAACCATAGTTTCAACCCCCACA
* * *
6314010 AAAAAAAAGTTAC-TTATCTTCTCAATTTCACAACTCTTTTAACCATAGTTTCAACCCT
130 AAAAAAAACTT-CTTTACCTTCTTAATTTCACAACTCTTTTAACCATAGTTTCAACCCT
* * * * *
6314068 CCCCACAAAGAAACAATTCTTTAGATTCTTAATTTCACAAATCTTCTAACCATGGTTTCAACCCC
1 CCCCACAAAAAAACAATTCTTTAGATTCTAAATTTAAAAAATCTTCTAACCATAGTTTCAACCCC
* * * * * *
6314133 TAAAAAAACAGTTATTTATCTTCTCAATTTCATAACTCTTTTAACCATAGTTTCAACTCTTCCCC
66 TAAAAAAACAATTCTTTAGCTTCTTAATTTCATAAATCTTCTAACCATAGTTTCAA------CCC
* *
6314198 CCACCACAAAAAAATACTTCTTTAGCTTCTTATTTTCACAACTCTTTTAACCATAGTTTCAACCC
125 CCA-CA-AAAAAAA-ACTTCTTTACCTTCTTAATTTCACAACTCTTTTAACCATAGTTTCAACCC
6314263 TT
187 -T
* *
6314265 CCCCCACCAAAAAAACACTTCTTTAGCTTCTAAATTTAAAAAATCTTCTAACCATAGTTTCAAAC
1 -CCCCA-CAAAAAAACAATTCTTTAGATTCTAAATTTAAAAAATCTTCTAACCATAGTTTC-AA-
* * ** *
6314330 CCCCTCCCAAAAAAACACTTCTTTAGCTTCTTAATTTTATAAATCTTCTAATTATAGTTTTAACC
62 CCCCT---AAAAAAACAATTCTTTAGCTTCTTAATTTCATAAATCTTCTAACCATAGTTTCAACC
* * * *
6314395 CACACAAAAAAAACACTTTTTTACCTT-TTCAATTTCACAAATCTTCTAACCATAGTTTCAACTC
124 CCCACAAAAAAAA-ACTTCTTTACCTTCTT-AATTTCACAACTCTTTTAACCATAGTTTCAAC-C
6314459 CT
186 CT
6314461 C
1 C
6314462 TAAAAAAACA
Statistics
Matches: 323, Mismatches: 49, Indels: 35
0.79 0.12 0.09
Matches are distributed among these distances:
185 40 0.12
186 11 0.03
187 49 0.15
193 5 0.02
194 1 0.00
195 11 0.03
196 92 0.28
197 5 0.02
198 10 0.03
199 47 0.15
200 2 0.01
201 5 0.02
204 45 0.14
ACGTcount: A:0.35, C:0.26, G:0.03, T:0.36
Consensus pattern (187 bp):
CCCCACAAAAAAACAATTCTTTAGATTCTAAATTTAAAAAATCTTCTAACCATAGTTTCAACCCC
TAAAAAAACAATTCTTTAGCTTCTTAATTTCATAAATCTTCTAACCATAGTTTCAACCCCCACAA
AAAAAAACTTCTTTACCTTCTTAATTTCACAACTCTTTTAACCATAGTTTCAACCCT
Found at i:6316338 original size:3 final size:3
Alignment explanation
Indices: 6316330--6316374 Score: 72
Period size: 3 Copynumber: 14.7 Consensus size: 3
6316320 ATAAATTTGA
*
6316330 TAT TAT TAT TAT TAT TAC TAT TAT TAT TAT TAT CTAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TA
6316375 GTTTTATTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:6316697 original size:6 final size:6
Alignment explanation
Indices: 6316681--6316732 Score: 95
Period size: 6 Copynumber: 8.7 Consensus size: 6
6316671 GTTATTCTAC
*
6316681 TATTAA AATTAA TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA
1 TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA
6316729 TATT
1 TATT
6316733 TACTTATTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TATTAA
Found at i:6317282 original size:72 final size:72
Alignment explanation
Indices: 6317165--6317306 Score: 239
Period size: 72 Copynumber: 2.0 Consensus size: 72
6317155 TATTTTCAAA
* * *
6317165 CAAGTTTTAAACGATCTCGGGAATTAAGAAGAGATCGTGTCCTAACTTACTGGGCATGATCCCTT
1 CAAGTTTTAAACGATATCGGGAATTAAGAAAAGATCGTGTCCTAACTAACTGGGCATGATCCCTT
6317230 TTTTTCT
66 TTTTTCT
* *
6317237 CAAGTTTTAAACGGTATCGGGAATTAAGAAAAGATTGTGTCCTAACTAACTGGGCATGATCCCTT
1 CAAGTTTTAAACGATATCGGGAATTAAGAAAAGATCGTGTCCTAACTAACTGGGCATGATCCCTT
6317302 TTTTT
66 TTTTT
6317307 AAATCCGAGA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
72 65 1.00
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.35
Consensus pattern (72 bp):
CAAGTTTTAAACGATATCGGGAATTAAGAAAAGATCGTGTCCTAACTAACTGGGCATGATCCCTT
TTTTTCT
Found at i:6329395 original size:50 final size:50
Alignment explanation
Indices: 6329282--6330270 Score: 726
Period size: 50 Copynumber: 19.7 Consensus size: 50
6329272 GCAGCGGAAC
* * ** * *
6329282 AGATTGAAGCTAGAACAGCGAATCTTGCTTCCCCTAAAATTGCAGTTAAAT
1 AGATTGAAGCTACAACAGCGAATCTTACTT-CCCTAGCAGTGCAGTGAAAT
* *
6329333 AGATTGAAGCTACAACAGCGAATCTTACTTCACTAGCAGTGCAGTGAAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAGCAGTGCAGTGAAAT
* * * * * *
6329383 AGATTAAAGCTACAACAACGAATCTTGCTTCCC-CGACATTGCAGTTAAAT
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAG-CAGTGCAGTGAAAT
* ** * * *
6329433 AGATTGAAGCTACAATAGCGAATCTTACTTCCCTAGTGGTGTAGTGGAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAGCAGTGCAGTGAAAT
* * * * * * *
6329483 AGATTGAAGCTACAATAGTGAATCTTGCTTTCCCGA-CATTACAGTTAAAT
1 AGATTGAAGCTACAACAGCGAATCTTAC-TTCCCTAGCAGTGCAGTGAAAT
* * * * * *
6329533 AGATTGAAGCTACAACAACGAATCTTGCTTCCC-CGACATTGTAGTTAAAT
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAG-CAGTGCAGTGAAAT
** * * *
6329583 AGATTGAAGCTACAACAATGAATCTTACTTCCCTAGCGGTGTAGTGGAAT
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAGCAGTGCAGTGAAAT
* * * * * * * *
6329633 AGATTGAAGCTACAACATCAAATCTTACGTCCCTGGCGGTGTAGTGGAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAGCAGTGCAGTGAAAT
* * * * * *
6329683 AGATTGAAGCTACAACAACAAATCTTGCTTCCC-CGACATTGCAGTTAAAT
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAG-CAGTGCAGTGAAAT
* * * * * *
6329733 AGATTGAAGCTACAACAGTGAATCTTATTTCCCTGGCGGTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAGCAGTGCAGTGAAAT
* * * *
6329783 AGATTGAAGCTGCAACAGCGAATCTTGCTTCCCT-GACATTGCAGTTAAAT
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAG-CAGTGCAGTGAAAT
** * * *
6329833 AGATTGAAGCTACAACAGCGAATCTTACTTTTCTAGTAGTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAGCAGTGCAGTGAAAT
* * * * *
6329883 AGATTGAAGCTACAACAGCAAATCTTGCTTCCC-CGACATTGCAGTTAAAT
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAG-CAGTGCAGTGAAAT
* * * * *
6329933 AGATTGAAGCTACAATAGCGAATCTTACTTCCCTAGCTGTGTAGTGGAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAGCAGTGCAGTGAAAT
* * * * * * *
6329983 AGATTGAAGCTACAACAGTGAATCTTGCTTTCCT-GAAATTACAGTTAAAT
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAG-CAGTGCAGTGAAAT
* * * * * *
6330033 AGATTGAAACTACAACAGCGAATCTTGCTTCCC-CGACATTGTAGTTAAAT
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAG-CAGTGCAGTGAAAT
* * ** * * * * * *
6330083 AAATTGAAGTTACAACAATGAATCATACTTCCCTGGCGGTGTAGTGGAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAGCAGTGCAGTGAAAT
* * *
6330133 AGATTGAAGCTACAACATCAAATCTTATTTCCCTAGC-GTGGCAGT-AGAAT
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAGCAGT-GCAGTGA-AAT
* * * * ** * * *
6330183 AGA-TAAAACTAAAGACAGTGAATCTTGTTTCCCTGGCATTGCAGTGGAAT
1 AGATTGAAGCTACA-ACAGCGAATCTTACTTCCCTAGCAGTGCAGTGAAAT
* *
6330233 AGATTAAAGCTGA-AGGCAGCGAATCTTA-TCTCCCTAGC
1 AGATTGAAGCT-ACA-ACAGCGAATCTTACT-TCCCTAGC
6330271 GTTAAGACTG
Statistics
Matches: 741, Mismatches: 174, Indels: 46
0.77 0.18 0.05
Matches are distributed among these distances:
49 19 0.03
50 655 0.88
51 66 0.09
52 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.27
Consensus pattern (50 bp):
AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAGCAGTGCAGTGAAAT
Found at i:6329455 original size:100 final size:100
Alignment explanation
Indices: 6329277--6330065 Score: 1006
Period size: 100 Copynumber: 7.9 Consensus size: 100
6329267 AAGTCGCAGC
* * *
6329277 GGAACAGATTGAAGCTAGAACAGCGAATCTTGCTTCCCCTAAAATTGCAGTTAAATAGATTGAAG
1 GGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCC-GACATTGCAGTTAAATAGATTGAAG
* *
6329342 CTACAACAGCGAATCTTACTTCACTAGCAGTGCAGT
65 CTACAACAGCGAATCTTACTTCCCTAGCAGTGTAGT
* * *
6329378 GAAACAGATTAAAGCTACAACAACGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGC
1 GGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGC
* **
6329443 TACAATAGCGAATCTTACTTCCCTAGTGGTGTAGT
66 TACAACAGCGAATCTTACTTCCCTAGCAGTGTAGT
* * * *
6329478 GGAACAGATTGAAGCTACAATAGTGAATCTTGCTTTCCCGACATTACAGTTAAATAGATTGAAGC
1 GGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGC
* * * *
6329543 TACAACAACGAATCTTGCTTCCC-CGACATTGTAGT
66 TACAACAGCGAATCTTACTTCCCTAG-CAGTGTAGT
** * ** * * ** * **
6329578 TAAATAGATTGAAGCTACAACAATGAATCTTACTT-CCCTAGCGGTGTAGTGGAATAGATTGAAG
1 GGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGA-CATTGCAGTTAAATAGATTGAAG
* * * * *
6329642 CTACAACATCAAATCTTACGTCCCTGGCGGTGTAGT
65 CTACAACAGCGAATCTTACTTCCCTAGCAGTGTAGT
* *
6329678 GGAACAGATTGAAGCTACAACAACAAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGC
1 GGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGC
* * * * *
6329743 TACAACAGTGAATCTTATTTCCCTGGCGGTGCAGT
66 TACAACAGCGAATCTTACTTCCCTAGCAGTGTAGT
* *
6329778 GGAACAGATTGAAGCTGCAACAGCGAATCTTGCTTCCCTGACATTGCAGTTAAATAGATTGAAGC
1 GGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGC
** * *
6329843 TACAACAGCGAATCTTACTTTTCTAGTAGTGCAGT
66 TACAACAGCGAATCTTACTTCCCTAGCAGTGTAGT
*
6329878 GGAACAGATTGAAGCTACAACAGCAAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGC
1 GGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGC
* *
6329943 TACAATAGCGAATCTTACTTCCCTAGCTGTGTAGT
66 TACAACAGCGAATCTTACTTCCCTAGCAGTGTAGT
* * * * * *
6329978 GGAACAGATTGAAGCTACAACAGTGAATCTTGCTTTCCTGAAATTACAGTTAAATAGATTGAAAC
1 GGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGC
*
6330043 TACAACAGCGAATCTTGCTTCCC
66 TACAACAGCGAATCTTACTTCCC
6330066 CGACATTGTA
Statistics
Matches: 592, Mismatches: 92, Indels: 9
0.85 0.13 0.01
Matches are distributed among these distances:
99 5 0.01
100 547 0.92
101 40 0.07
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (100 bp):
GGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGC
TACAACAGCGAATCTTACTTCCCTAGCAGTGTAGT
Found at i:6330066 original size:150 final size:150
Alignment explanation
Indices: 6329282--6330158 Score: 843
Period size: 150 Copynumber: 5.8 Consensus size: 150
6329272 GCAGCGGAAC
* * * * *
6329282 AGATTGAAGCTAGAACAGCGAATCTTGCTTCCCCTAAAATTGCAGTTAAATAGATTGAAGCTACA
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCC-GACATTGCAGTGAAATAGATTGAAGCTACA
* * *
6329347 ACAGCGAATCTTACTTCACTAGCAGTGCAGTGAAACAGATTAAAGCTACAACAACGAATCTTGCT
65 ACAGCGAATCTTACTTCCCTAGCTGTGCAGTGAAACAGATTGAAGCTACAACAACGAATCTTGCT
6329412 TCCCCGACATTGCAGTTAAAT
130 TCCCCGACATTGCAGTTAAAT
* * * * * *
6329433 AGATTGAAGCTACAATAGCGAATCTTACTT-CCCTA-GTGGTGTAGTGGAACAGATTGAAGCTAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCCGACAT--TGCAGTGAAATAGATTGAAGCTAC
* * * * * * *
6329496 AATAGTGAATCTTGCTTTCCCGA-CAT-TACAGTTAAATAGATTGAAGCTACAACAACGAATCTT
64 AACAGCGAATCTTAC-TTCCCTAGC-TGTGCAGTGAAACAGATTGAAGCTACAACAACGAATCTT
*
6329559 GCTTCCCCGACATTGTAGTTAAAT
127 GCTTCCCCGACATTGCAGTTAAAT
** * ** * *
6329583 AGATTGAAGCTACAACAATGAATCTTACTT-CCCTAGCGGTGTAGTGGAATAGATTGAAGCTACA
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCCGA-CATTGCAGTGAAATAGATTGAAGCTACA
* * * * * * * *
6329647 ACATCAAATCTTACGTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAACAACAAATCTTGCT
65 ACAGCGAATCTTACTTCCCTAGCTGTGCAGTGAAACAGATTGAAGCTACAACAACGAATCTTGCT
6329712 TCCCCGACATTGCAGTTAAAT
130 TCCCCGACATTGCAGTTAAAT
* * * * ** * * *
6329733 AGATTGAAGCTACAACAGTGAATCTTATTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTGCAA
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCCGACATTGCAGTGAAATAGATTGAAGCTACAA
* * * * *
6329798 CAGCGAATCTTGCTTCCCT-GACAT-TGCAGTTAAATAGATTGAAGCTACAACAGCGAATCTTAC
66 CAGCGAATCTTACTTCCCTAG-C-TGTGCAGTGAAACAGATTGAAGCTACAACAACGAATCTTGC
** * * * ** *
6329861 TT-TTCTAGTAGTGCAGTGGAAC
129 TTCCCCGA-CATTGCAGTTAAAT
* * *
6329883 AGATTGAAGCTACAACAGCAAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCCGACATTGCAGTGAAATAGATTGAAGCTACAA
* * * **
6329948 TAGCGAATCTTACTTCCCTAGCTGTGTAGTGGAACAGATTGAAGCTACAACAGTGAATCTTGCTT
66 CAGCGAATCTTACTTCCCTAGCTGTGCAGTGAAACAGATTGAAGCTACAACAACGAATCTTGCTT
* * * *
6330013 TCCTGAAATTACAGTTAAAT
131 CCCCGACATTGCAGTTAAAT
* * * * * *
6330033 AGATTGAAACTACAACAGCGAATCTTGCTTCCCCGACATTGTAGTTAAATAAATTGAAGTTACAA
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCCGACATTGCAGTGAAATAGATTGAAGCTACAA
** * * * * * * *
6330098 CAATGAATCATACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAACATCAAATCTT
66 CAGCGAATCTTACTTCCCTAGCTGTGCAGTGAAACAGATTGAAGCTACAACAACGAATCTT
6330159 ATTTCCCTAG
Statistics
Matches: 598, Mismatches: 113, Indels: 31
0.81 0.15 0.04
Matches are distributed among these distances:
148 1 0.00
149 9 0.02
150 551 0.92
151 36 0.06
152 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.27
Consensus pattern (150 bp):
AGATTGAAGCTACAACAGCGAATCTTACTTCCCCGACATTGCAGTGAAATAGATTGAAGCTACAA
CAGCGAATCTTACTTCCCTAGCTGTGCAGTGAAACAGATTGAAGCTACAACAACGAATCTTGCTT
CCCCGACATTGCAGTTAAAT
Found at i:6330105 original size:100 final size:99
Alignment explanation
Indices: 6329277--6330165 Score: 925
Period size: 100 Copynumber: 8.9 Consensus size: 99
6329267 AAGTCGCAGC
* * * *
6329277 GGAACAGATTGAAGCTAGAACAGCGAATCTTGCTTCCCCTAAAATTGCAGTTAAATAGATTGAAG
1 GGAACAGATTGAAGCTACAACAACGAATCTTGCTTCCCC-GACATTGCAGTTAAATAGATTGAAG
* * *
6329342 CTACAACAGCGAATCTTACTTCACTAGCAGTGCAGT
65 CTACAACAGCGAATCTTACTTCCCGA-CAGTGTAGT
* *
6329378 GAAACAGATTAAAGCTACAACAACGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGC
1 GGAACAGATTGAAGCTACAACAACGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGC
* * **
6329443 TACAATAGCGAATCTTACTTCCCTAGTGGTGTAGT
66 TACAACAGCGAATCTTACTTCCCGA-CAGTGTAGT
* ** * *
6329478 GGAACAGATTGAAGCTACAATAGTGAATCTTGCTTTCCCGACATTACAGTTAAATAGATTGAAGC
1 GGAACAGATTGAAGCTACAACAACGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGC
* * *
6329543 TACAACAACGAATCTTGCTTCCCCGACATTGTAGT
66 TACAACAGCGAATCTTACTT-CCCGACAGTGTAGT
** * * * * ** * **
6329578 TAAATAGATTGAAGCTACAACAATGAATCTTACTT-CCCTAGCGGTGTAGTGGAATAGATTGAAG
1 GGAACAGATTGAAGCTACAACAACGAATCTTGCTTCCCCGA-CATTGCAGTTAAATAGATTGAAG
* * * * *
6329642 CTACAACATCAAATCTTACGTCCCTGGCGGTGTAGT
65 CTACAACAGCGAATCTTACTTCCC-GACAGTGTAGT
*
6329678 GGAACAGATTGAAGCTACAACAACAAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGC
1 GGAACAGATTGAAGCTACAACAACGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGC
* * * * *
6329743 TACAACAGTGAATCTTATTTCCCTGGCGGTGCAGT
66 TACAACAGCGAATCTTACTTCCC-GACAGTGTAGT
* * *
6329778 GGAACAGATTGAAGCTGCAACAGCGAATCTTGCTTCCCTGACATTGCAGTTAAATAGATTGAAGC
1 GGAACAGATTGAAGCTACAACAACGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGC
** * * *
6329843 TACAACAGCGAATCTTACTTTTCTAGTAGTGCAGT
66 TACAACAGCGAATCTTACTTCCCGA-CAGTGTAGT
* *
6329878 GGAACAGATTGAAGCTACAACAGCAAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGC
1 GGAACAGATTGAAGCTACAACAACGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGC
* * *
6329943 TACAATAGCGAATCTTACTTCCCTAGCTGTGTAGT
66 TACAACAGCGAATCTTACTTCCCGA-CAGTGTAGT
** * * * * *
6329978 GGAACAGATTGAAGCTACAACAGTGAATCTTGCTTTCCTGAAATTACAGTTAAATAGATTGAAAC
1 GGAACAGATTGAAGCTACAACAACGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGC
* *
6330043 TACAACAGCGAATCTTGCTTCCCCGACATTGTAGT
66 TACAACAGCGAATCTTACTT-CCCGACAGTGTAGT
** * * * * * * * * ** * ** *
6330078 TAAATAAATTGAAGTTACAACAATGAATCATACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGC
1 GGAACAGATTGAAGCTACAACAACGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGC
* * *
6330143 TACAACATCAAATCTTATTTCCC
66 TACAACAGCGAATCTTACTTCCC
6330166 TAGCGTGGCA
Statistics
Matches: 663, Mismatches: 119, Indels: 14
0.83 0.15 0.02
Matches are distributed among these distances:
99 10 0.02
100 606 0.91
101 47 0.07
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (99 bp):
GGAACAGATTGAAGCTACAACAACGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGC
TACAACAGCGAATCTTACTTCCCGACAGTGTAGT
Found at i:6330502 original size:132 final size:132
Alignment explanation
Indices: 6330333--6330595 Score: 391
Period size: 132 Copynumber: 2.0 Consensus size: 132
6330323 TCGAAGATAC
* * * *
6330333 CAGCCTTGTCTCCTTGAGAAGCAGTAGAGTAGGTTGAAGATTGTATATCATGTCTCCCTAAGCAG
1 CAGCCTTGTCTCCCTGAGAAGCAGTAGAGTAGATTGAAGATTGTAGATCATATCTCCCTAAGCAG
* * ** *
6330398 TAGTGGAGCAGATCGAAGACGGCGAATCTTATTTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCC
66 TAGTAGAGCAGATCGAAGACAGAAAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCC
6330463 AA
131 AA
* *
6330465 CAGCCTTGTCTCCCTGAGAAGCAGTGGAGTAGATTGAAGATTGTAGATCCTATCTCCCTAAGCAG
1 CAGCCTTGTCTCCCTGAGAAGCAGTAGAGTAGATTGAAGATTGTAGATCATATCTCCCTAAGCAG
** * *
6330530 TAGTAGAGCAGATCGAAGGTAGAAAATCTTATCTTCTCAAGGTAGTAGGGAAGTAGATTTAAGCC
66 TAGTAGAGCAGATCGAAGACAGAAAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCC
6330595 A
131 A
6330596 CTAGTCTTAT
Statistics
Matches: 116, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
132 116 1.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (132 bp):
CAGCCTTGTCTCCCTGAGAAGCAGTAGAGTAGATTGAAGATTGTAGATCATATCTCCCTAAGCAG
TAGTAGAGCAGATCGAAGACAGAAAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCC
AA
Found at i:6330733 original size:46 final size:48
Alignment explanation
Indices: 6330671--6330788 Score: 125
Period size: 49 Copynumber: 2.5 Consensus size: 48
6330661 TATCTCCTTA
*
6330671 AAGTTGCAGTCG-AGCAGGTTAAAAATAAAC-CAA-TCTTATCTTCCTG
1 AAGTTGCAGT-GAAGCAGATTAAAAATAAACACAAGTCTTATCTTCCTG
* * ** **
6330717 AAGTTGCAGTGAAGCAGATTGAAGATATGCTACAAGTCTTATCTTTTTG
1 AAGTTGCAGTGAAGCAGATTAAAAATAAAC-ACAAGTCTTATCTTCCTG
*
6330766 AAGTTACAGTGAAGCAGATTAAA
1 AAGTTGCAGTGAAGCAGATTAAA
6330789 GCCACAAACA
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
45 1 0.02
46 23 0.39
48 3 0.05
49 32 0.54
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (48 bp):
AAGTTGCAGTGAAGCAGATTAAAAATAAACACAAGTCTTATCTTCCTG
Found at i:6330825 original size:44 final size:44
Alignment explanation
Indices: 6330766--6330863 Score: 106
Period size: 44 Copynumber: 2.2 Consensus size: 44
6330756 TATCTTTTTG
* * * * *
6330766 AAGTTACAGTGAAGCAGATTAAAGCCACAAACATTATCTCTCTA
1 AAGTTGCAGTAAAGCAGATTAAAGCAACAAACATTATCCCCCTA
* * * * *
6330810 AAGTTGCAGTAAAGCAGGTTGAAGTAACAAACCTTATCCCCCTG
1 AAGTTGCAGTAAAGCAGATTAAAGCAACAAACATTATCCCCCTA
6330854 AAGTTGCAGT
1 AAGTTGCAGT
6330864 GGGGCAGGTT
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.24
Consensus pattern (44 bp):
AAGTTGCAGTAAAGCAGATTAAAGCAACAAACATTATCCCCCTA
Found at i:6330871 original size:44 final size:44
Alignment explanation
Indices: 6330823--6330908 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 44
6330813 TTGCAGTAAA
*
6330823 GCAGGTTGAAGTA-ACAAACCTTATCCCCCTGAAGTTGCAGTGGG
1 GCAGGTTGAA-TATACAAACCTTATCCCCCTGAAGTAGCAGTGGG
* ** *
6330867 GCAGGTTGAATATGCAAGTCTTATCTCCCTGAAGTAGCAGTG
1 GCAGGTTGAATATACAAACCTTATCCCCCTGAAGTAGCAGTG
6330909 CAGCAGATTG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
43 2 0.06
44 34 0.94
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (44 bp):
GCAGGTTGAATATACAAACCTTATCCCCCTGAAGTAGCAGTGGG
Found at i:6332038 original size:38 final size:38
Alignment explanation
Indices: 6331987--6332062 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
6331977 GAAAAGGCGC
*
6331987 TTAAAAGGGCACTCTTTTATTTTCGCCGACCGCCGTAT
1 TTAAAAGGGCACTCTTTTATTTTCGCCGACCACCGTAT
6332025 TTAAAAGGGCACTCTTTTATTTTCGCCGACCACCGTAT
1 TTAAAAGGGCACTCTTTTATTTTCGCCGACCACCGTAT
6332063 AAGGCGGCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.34
Consensus pattern (38 bp):
TTAAAAGGGCACTCTTTTATTTTCGCCGACCACCGTAT
Found at i:6333523 original size:72 final size:72
Alignment explanation
Indices: 6333437--6333578 Score: 230
Period size: 72 Copynumber: 2.0 Consensus size: 72
6333427 TATTTTCAAA
* * * *
6333437 CAAGTTTTAAACGATCTCGTGAATTAATAAGAGATCGTGTCCTAACTTACTATGCATGATCCCTT
1 CAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTAGGCATGATCCCTT
6333502 TTTTTCT
66 TTTTTCT
* *
6333509 CAAGTTTTAAACGATCTTGGGAATTAAGAAAAGATTGTGTCCTAACTTACTAGGCATGATCCCTT
1 CAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTAGGCATGATCCCTT
6333574 TTTTT
66 TTTTT
6333579 AAATCCGAGA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 64 1.00
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (72 bp):
CAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTAGGCATGATCCCTT
TTTTTCT
Found at i:6341831 original size:31 final size:31
Alignment explanation
Indices: 6341795--6341878 Score: 102
Period size: 30 Copynumber: 2.7 Consensus size: 31
6341785 ATAAATATAT
*
6341795 TTATTTTTTTAATTTTAAAATACTTTTTT-TA
1 TTATTTTTTTAATTTTAAAATA-TTTTTTAAA
6341826 TTA-TTTTTTAATTTTAAAAT-TTTTTTAAA
1 TTATTTTTTTAATTTTAAAATATTTTTTAAA
*
6341855 ATACTTTTTTTAATTTTTAAAATA
1 TTA-TTTTTTTAA-TTTTAAAATA
6341879 AAATTTTGGT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
28 6 0.13
29 3 0.07
30 17 0.37
31 11 0.24
32 9 0.20
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (31 bp):
TTATTTTTTTAATTTTAAAATATTTTTTAAA
Found at i:6343041 original size:31 final size:31
Alignment explanation
Indices: 6343006--6343073 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
6342996 AAAAAAACAT
*
6343006 AATAGCCCAATGACTTAAATAAAAACTTTCA
1 AATAGCCCAATAACTTAAATAAAAACTTTCA
** * *
6343037 AATAGTTCAATAACTTAAATGAAAACTTTCG
1 AATAGCCCAATAACTTAAATAAAAACTTTCA
6343068 AATAGC
1 AATAGC
6343074 TCCGTGATCA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.28
Consensus pattern (31 bp):
AATAGCCCAATAACTTAAATAAAAACTTTCA
Found at i:6347370 original size:28 final size:30
Alignment explanation
Indices: 6347337--6347417 Score: 78
Period size: 33 Copynumber: 2.7 Consensus size: 30
6347327 TAGTAACAAC
6347337 AATAATGATAAAATATAAG-A-AATAATAG
1 AATAATGATAAAATATAAGTACAATAATAG
**
6347365 AATAATGGCAATAATAATAAGTAGCAATAATAG
1 AATAATGATAA-AAT-ATAAGTA-CAATAATAG
*
6347398 AATTAATAATAAAATA-AAGT
1 AA-TAATGATAAAATATAAGT
6347418 TGATTAATTA
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
28 9 0.21
29 3 0.07
30 5 0.12
31 5 0.12
32 1 0.02
33 13 0.31
34 6 0.14
ACGTcount: A:0.60, C:0.02, G:0.11, T:0.26
Consensus pattern (30 bp):
AATAATGATAAAATATAAGTACAATAATAG
Found at i:6353258 original size:23 final size:23
Alignment explanation
Indices: 6353232--6353277 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
6353222 TTTGCTTTAA
6353232 GGTTAGTTTATTAATAGATTTTT
1 GGTTAGTTTATTAATAGATTTTT
6353255 GGTTAGTTTATTAATAGATTTTT
1 GGTTAGTTTATTAATAGATTTTT
6353278 TCTTTCTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.17, T:0.57
Consensus pattern (23 bp):
GGTTAGTTTATTAATAGATTTTT
Found at i:6355907 original size:29 final size:30
Alignment explanation
Indices: 6355861--6355920 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 30
6355851 CCAAAAATAT
*
6355861 TATGTTATAAAAATATTATAT-TAATTATA
1 TATGTTATAAAAAAATTATATATAATTATA
*
6355890 TATGTTA-AATAAAAATTATATATATTTATA
1 TATGTTATAA-AAAAATTATATATAATTATA
6355920 T
1 T
6355921 TAAATCACTG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 2 0.07
29 17 0.63
30 8 0.30
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (30 bp):
TATGTTATAAAAAAATTATATATAATTATA
Found at i:6362596 original size:18 final size:19
Alignment explanation
Indices: 6362582--6362617 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
6362572 ACCAAAAATT
6362582 TATTTT-AAAATAAAAAAA
1 TATTTTAAAAATAAAAAAA
6362600 TATTTTAAAAATAAAAAA
1 TATTTTAAAAATAAAAAA
6362618 TAAAAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
TATTTTAAAAATAAAAAAA
Found at i:6365507 original size:27 final size:27
Alignment explanation
Indices: 6365460--6365574 Score: 115
Period size: 27 Copynumber: 4.3 Consensus size: 27
6365450 TCCAGTCTGA
* *
6365460 TCCAAAGCC-CAGGTTGGAGAATGTGGG
1 TCCAAAGCCTGAGG-TGGAGAATGAGGG
*
6365487 TCCAAAGCCTGAGGTGAAGAATGAGGG
1 TCCAAAGCCTGAGGTGGAGAATGAGGG
* * *
6365514 TTCAAAGCCCGAGGTGGAGATTGAGGG
1 TCCAAAGCCTGAGGTGGAGAATGAGGG
* * * * *
6365541 TCTAAAGGCTGAGGGGGAGAATGATGA
1 TCCAAAGCCTGAGGTGGAGAATGAGGG
6365568 TCCAAAG
1 TCCAAAG
6365575 GGCCAGCTGC
Statistics
Matches: 71, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
27 68 0.96
28 3 0.04
ACGTcount: A:0.30, C:0.15, G:0.37, T:0.17
Consensus pattern (27 bp):
TCCAAAGCCTGAGGTGGAGAATGAGGG
Found at i:6365574 original size:54 final size:54
Alignment explanation
Indices: 6365457--6365574 Score: 139
Period size: 54 Copynumber: 2.2 Consensus size: 54
6365447 AGCTCCAGTC
* *
6365457 TGATCCAAAGCCCAGGTTGGAGAATGTGGGTCCAAAGCCTGAGGTGAAGAATGA
1 TGATCCAAAGCCCAGGTTGGAGAATGAGGGTCCAAAGCCTGAGGGGAAGAATGA
* * * * * * *
6365511 GGGTTCAAAGCCCGAGG-TGGAGATTGAGGGTCTAAAGGCTGAGGGGGAGAATGA
1 TGATCCAAAGCCC-AGGTTGGAGAATGAGGGTCCAAAGCCTGAGGGGAAGAATGA
6365565 TGATCCAAAG
1 TGATCCAAAG
6365575 GGCCAGCTGC
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
54 48 0.94
55 3 0.06
ACGTcount: A:0.31, C:0.14, G:0.37, T:0.18
Consensus pattern (54 bp):
TGATCCAAAGCCCAGGTTGGAGAATGAGGGTCCAAAGCCTGAGGGGAAGAATGA
Found at i:6369073 original size:21 final size:22
Alignment explanation
Indices: 6369049--6369098 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
6369039 TAAAATTTTA
*
6369049 TTTTTTTAATTATGT-T-AATAT
1 TTTTTTTAA-TAAGTCTAAATAT
6369070 TTTTTTT-ATAAGTCTAAATAT
1 TTTTTTTAATAAGTCTAAATAT
6369091 TTTTTTTA
1 TTTTTTTA
6369099 TGTTATAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 4 0.16
20 2 0.08
21 19 0.76
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (22 bp):
TTTTTTTAATAAGTCTAAATAT
Found at i:6369107 original size:20 final size:20
Alignment explanation
Indices: 6369065--6369109 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
6369055 TAATTATGTT
*
6369065 AATATTTTTTTTATAAGTCTA
1 AATATTTTTTTTAT-AGTATA
6369086 AATATTTTTTTTAT-GTTATA
1 AATATTTTTTTTATAG-TATA
6369106 AATA
1 AATA
6369110 GACGGGGAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 7 0.32
21 14 0.64
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (20 bp):
AATATTTTTTTTATAGTATA
Found at i:6371298 original size:27 final size:27
Alignment explanation
Indices: 6371243--6371299 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
6371233 AACTGCAGGG
* * *
6371243 TTCAAATCCTCAGCTGGAGAGTGATGA
1 TTCAAAGCCTCAGCTGGACAGTGAAGA
* *
6371270 TTCAAAGCCTCAGCTTGACATTGAAGA
1 TTCAAAGCCTCAGCTGGACAGTGAAGA
6371297 TTC
1 TTC
6371300 GAAGGTGCAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (27 bp):
TTCAAAGCCTCAGCTGGACAGTGAAGA
Found at i:6375140 original size:20 final size:20
Alignment explanation
Indices: 6375110--6375159 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
6375100 TTAAATTTTG
* *
6375110 AAAAATCAAAATAAT-ATAT
1 AAAAATTAAAAAAATGATAT
*
6375129 AAAAATTAAAAAAATGTTAT
1 AAAAATTAAAAAAATGATAT
*
6375149 AAAAGTTAAAA
1 AAAAATTAAAA
6375160 GAAAACTTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (20 bp):
AAAAATTAAAAAAATGATAT
Found at i:6375253 original size:26 final size:25
Alignment explanation
Indices: 6375212--6375266 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
6375202 ATATTTTAGA
6375212 TTTTTATAAAAAAATTATTTT-TAAT
1 TTTTTATAAAAAAATT-TTTTATAAT
6375237 TTTTTA-AAAATATAATTTTTTATAAT
1 TTTTTATAAAA-A-AATTTTTTATAAT
6375263 TTTT
1 TTTT
6375267 ACAATTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
24 4 0.15
25 11 0.41
26 12 0.44
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
TTTTTATAAAAAAATTTTTTATAAT
Found at i:6375258 original size:24 final size:24
Alignment explanation
Indices: 6375205--6375256 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
6375195 GAATTATATA
*
6375205 TTTTAGATTTTTATAAAAAAATTAT
1 TTTTAGATTTTT-TAAAAAAATAAT
*
6375230 TTTTA-ATTTTTTAAAAATATAAT
1 TTTTAGATTTTTTAAAAAAATAAT
6375253 TTTT
1 TTTT
6375257 TATAATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 14 0.56
24 6 0.24
25 5 0.20
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (24 bp):
TTTTAGATTTTTTAAAAAAATAAT
Found at i:6375262 original size:10 final size:10
Alignment explanation
Indices: 6375247--6375290 Score: 56
Period size: 9 Copynumber: 4.6 Consensus size: 10
6375237 TTTTTAAAAA
6375247 TATAATTTTT
1 TATAATTTTT
6375257 TATAA-TTTT
1 TATAATTTTT
*
6375266 TACAATTTTT
1 TATAATTTTT
*
6375276 T-TTATTTTT
1 TATAATTTTT
6375285 TATAAT
1 TATAAT
6375291 AACATAATTG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
9 15 0.54
10 13 0.46
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (10 bp):
TATAATTTTT
Found at i:6375274 original size:19 final size:19
Alignment explanation
Indices: 6375250--6375286 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6375240 TTAAAAATAT
6375250 AATTTTTTATAATTTTTAC
1 AATTTTTTATAATTTTTAC
* *
6375269 AATTTTTTTTATTTTTTA
1 AATTTTTTATAATTTTTA
6375287 TAATAACATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (19 bp):
AATTTTTTATAATTTTTAC
Found at i:6376562 original size:20 final size:20
Alignment explanation
Indices: 6376539--6376582 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
6376529 AAAATTATAG
6376539 AAAATT-CTAAAAAAACTATT
1 AAAATTACTAAAAAAA-TATT
* *
6376559 AAAATTATTTAAAAAATATT
1 AAAATTACTAAAAAAATATT
6376579 AAAA
1 AAAA
6376583 ATAACATTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (20 bp):
AAAATTACTAAAAAAATATT
Found at i:6377903 original size:2 final size:2
Alignment explanation
Indices: 6377896--6377920 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6377886 TGTTACAGGA
6377896 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
6377921 CGTGAATGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6380508 original size:61 final size:61
Alignment explanation
Indices: 6380430--6380547 Score: 150
Period size: 61 Copynumber: 1.9 Consensus size: 61
6380420 TAAAAGGTAT
* *
6380430 CATGAGAATTTTCAAAAA-CTTGATGGGTCTAATTAAAATTTTCTAAAAACTTCAAGGGATA
1 CATGAGAATTTTCAAAAATCTTG-GGGGTCTAAATAAAATTTTCTAAAAACTTCAAGGGATA
* * * *
6380491 CATGA-AATTTTTCAAAAATTTTGGGGGTTTAAATAAAATTTTTTAAAAATTTCAAGG
1 CATGAGAA-TTTTCAAAAATCTTGGGGGTCTAAATAAAATTTTCTAAAAACTTCAAGG
6380548 AAAAAATCAT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
60 2 0.04
61 44 0.90
62 3 0.06
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.36
Consensus pattern (61 bp):
CATGAGAATTTTCAAAAATCTTGGGGGTCTAAATAAAATTTTCTAAAAACTTCAAGGGATA
Found at i:6380564 original size:61 final size:60
Alignment explanation
Indices: 6380436--6380570 Score: 137
Period size: 61 Copynumber: 2.2 Consensus size: 60
6380426 GTATCATGAG
* * * * * *
6380436 AATTTTCAAAAACTTGATGGGTCTAATTAAAATTTTCTAAAAACTTCAAGGGATACATGA
1 AATTTTCAAAAACTTGAGGGGTCTAAATAAAATTTTCTAAAAACTTCAAGGAAAAAATCA
* * * *
6380496 AATTTTTCAAAAATTTTG-GGGGTTTAAATAAAATTTTTTAAAAATTTCAAGGAAAAAATCA
1 AA-TTTTCAAAAA-CTTGAGGGGTCTAAATAAAATTTTCTAAAAACTTCAAGGAAAAAATCA
6380557 TAATTTTCCAAAAA
1 -AATTTT-CAAAAA
6380571 AAAATTTGGG
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
60 2 0.03
61 48 0.79
62 11 0.18
ACGTcount: A:0.44, C:0.09, G:0.11, T:0.36
Consensus pattern (60 bp):
AATTTTCAAAAACTTGAGGGGTCTAAATAAAATTTTCTAAAAACTTCAAGGAAAAAATCA
Found at i:6381873 original size:6 final size:6
Alignment explanation
Indices: 6381862--6381890 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
6381852 CTTTATAAAT
6381862 TAATTA TAATTA TAATTA TAATTA TAATT
1 TAATTA TAATTA TAATTA TAATTA TAATT
6381891 TTATAATTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TAATTA
Found at i:6382731 original size:138 final size:138
Alignment explanation
Indices: 6382478--6382884 Score: 681
Period size: 138 Copynumber: 2.9 Consensus size: 138
6382468 ACATTAAAAG
* *
6382478 TGTTGTGTCACGACACCAAGCCTCCAAGGTCGCGATACCACTGCTGATTGTTGAAGTGAAAAAGC
1 TGTTTTGTCACGACACCAAGCCTCCAAGGTCGCGATACCACTGCTGATTGTTGAAGTGAAGAAGC
* * *
6382543 CAGGACTACTGCTGAGGATGTCGCAACACCAACCAGCTAGTGTTGCAACATTGAGAACCCCTAAA
66 CAGGACTACTGCTGAGAATGTCGCAACACCAACCAGTTAGTGTTGCAACATTGAGAACCCCCAAA
6382608 GCTAAGAA
131 GCTAAGAA
* * *
6382616 TGTTTTGTCACAACACCAAGCCTCGAAGGTCGCGATACCACTGCTGATTGTTGAAGTGAGGAAGC
1 TGTTTTGTCACGACACCAAGCCTCCAAGGTCGCGATACCACTGCTGATTGTTGAAGTGAAGAAGC
* *
6382681 CAGGACTACTGTTGAGAATGTCGTAACACCAACCAGTTAGTGTTGCAACATTGAGAACCCCCAAA
66 CAGGACTACTGCTGAGAATGTCGCAACACCAACCAGTTAGTGTTGCAACATTGAGAACCCCCAAA
*
6382746 GCTAAGAG
131 GCTAAGAA
6382754 TGTTTTGTCACGACACCAAGCCTCCAAGGTCGCGATACCACTGCTGATTGTTGAAGTGAAGAAGC
1 TGTTTTGTCACGACACCAAGCCTCCAAGGTCGCGATACCACTGCTGATTGTTGAAGTGAAGAAGC
* *
6382819 CAGGACTACTGCTGA-AGATGTCGCAACACCAACCAGTTAGAGTTGCAACATTGAGAACCTCCAA
66 CAGGACTACTGCTGAGA-ATGTCGCAACACCAACCAGTTAGTGTTGCAACATTGAGAACCCCCAA
6382883 AG
130 AG
6382885 TCAAGAGTGT
Statistics
Matches: 250, Mismatches: 18, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
137 1 0.00
138 249 1.00
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.21
Consensus pattern (138 bp):
TGTTTTGTCACGACACCAAGCCTCCAAGGTCGCGATACCACTGCTGATTGTTGAAGTGAAGAAGC
CAGGACTACTGCTGAGAATGTCGCAACACCAACCAGTTAGTGTTGCAACATTGAGAACCCCCAAA
GCTAAGAA
Found at i:6386787 original size:14 final size:14
Alignment explanation
Indices: 6386751--6386788 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
6386741 TATGATTCCC
6386751 TTTTTA-TATTTTA
1 TTTTTATTATTTTA
6386764 TTTATT-TTATTTTA
1 TTT-TTATTATTTTA
6386778 TTTTTATTATT
1 TTTTTATTATT
6386789 CATATTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 5 0.23
14 17 0.77
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTTATTATTTTA
Found at i:6390389 original size:2 final size:2
Alignment explanation
Indices: 6390382--6390450 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
6390372 TCTTGCCATT
6390382 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
6390424 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
6390451 TATTATCAAT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:6392764 original size:20 final size:20
Alignment explanation
Indices: 6392741--6392779 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6392731 CATTGATCGG
* *
6392741 TGTTTATCAGCGTTGACCAA
1 TGTTTATAAGCATTGACCAA
6392761 TGTTTATAAGCATTGACCA
1 TGTTTATAAGCATTGACCA
6392780 GACGTTGACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (20 bp):
TGTTTATAAGCATTGACCAA
Found at i:6395004 original size:21 final size:21
Alignment explanation
Indices: 6394980--6395036 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 21
6394970 AAATTAAAAA
6394980 AAATATTTTTAAATTT-TTTAG
1 AAATATTTTTAAATTTGTTT-G
* *
6395001 AAATAATTTATATATTTGTTTG
1 AAAT-ATTTTTAAATTTGTTTG
6395023 -AAT-TTTTTAAATTT
1 AAATATTTTTAAATTT
6395037 AAAAAAATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
19 9 0.30
21 7 0.23
22 11 0.37
23 3 0.10
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (21 bp):
AAATATTTTTAAATTTGTTTG
Found at i:6396076 original size:40 final size:40
Alignment explanation
Indices: 6396023--6396184 Score: 222
Period size: 40 Copynumber: 4.0 Consensus size: 40
6396013 ATATATTTAT
* *
6396023 TTTTTTTAATTTTAAAATATTTTTTACATACTTTTTT-AA
1 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAAA
6396062 TTTATTTTAATTTTAAAATATTTTTAAAATACTTTTTTAAA
1 TTT-TTTTAATTTTAAAATATTTTTAAAATACTTTTTTAAA
* *
6396103 ATTTTTTAATTTTAATTTAAAATTTTTAAAATACTTTTTTAAA
1 TTTTTTTAATTTTAA---AATATTTTTAAAATACTTTTTTAAA
6396146 TTTTTTTAATTTTAAAATACTTTTTAAAAT--TTTTTTAAA
1 TTTTTTTAATTTTAAAATA-TTTTTAAAATACTTTTTTAAA
6396185 ATACTTTTTA
Statistics
Matches: 111, Mismatches: 6, Indels: 12
0.86 0.05 0.09
Matches are distributed among these distances:
39 12 0.11
40 47 0.42
41 14 0.13
43 38 0.34
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.60
Consensus pattern (40 bp):
TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAAA
Found at i:6396086 original size:11 final size:11
Alignment explanation
Indices: 6396072--6396218 Score: 104
Period size: 12 Copynumber: 13.9 Consensus size: 11
6396062 TTTATTTTAA
6396072 TTTTAAAATAT
1 TTTTAAAATAT
6396083 TTTTAAAATACTT
1 TTTTAAAATA--T
6396096 TTTTAAAAT-T
1 TTTTAAAATAT
6396106 TTTT--AAT-T
1 TTTTAAAATAT
*
6396114 TTAATTTAAA-AT
1 TT--TTAAAATAT
6396126 TTTTAAAATACT
1 TTTTAAAATA-T
*
6396138 TTTTTAAAT-T
1 TTTTAAAATAT
*
6396148 TTTT----TAA
1 TTTTAAAATAT
6396155 TTTTAAAATACT
1 TTTTAAAATA-T
*
6396167 TTTTAAAATTT
1 TTTTAAAATAT
6396178 TTTTAAAATACT
1 TTTTAAAATA-T
6396190 TTTTAAAAT-T
1 TTTTAAAATAT
6396200 TTTT-AAA-AT
1 TTTTAAAATAT
6396209 TTTTAAAATA
1 TTTTAAAATA
6396219 AAAATAGGCC
Statistics
Matches: 111, Mismatches: 6, Indels: 38
0.72 0.04 0.25
Matches are distributed among these distances:
6 1 0.01
7 4 0.04
8 6 0.05
9 8 0.07
10 25 0.23
11 24 0.22
12 33 0.30
13 10 0.09
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:6396121 original size:21 final size:21
Alignment explanation
Indices: 6396097--6396160 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
6396087 AAAATACTTT
6396097 TTTAAAATTTTTTAATTTTAA
1 TTTAAAATTTTTTAATTTTAA
*
6396118 TTTAAAATTTTTAAAATACTTT--
1 TTTAAAATTTTT-TAAT--TTTAA
*
6396140 TTTAAATTTTTTTAATTTTAA
1 TTTAAAATTTTTTAATTTTAA
6396161 AATACTTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
19 3 0.09
21 15 0.43
22 14 0.40
24 3 0.09
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTAAAATTTTTTAATTTTAA
Found at i:6396137 original size:83 final size:82
Alignment explanation
Indices: 6396024--6396218 Score: 251
Period size: 83 Copynumber: 2.4 Consensus size: 82
6396014 TATATTTATT
* * *
6396024 TTTTTTAATTTTAA---AATATTTTTTACATACTTTTTT-AATTTATTTTAATTTTAAAATA-TT
1 TTTTTTAATTTTAATTTAAAATTTTTAAAATACTTTTTTAAATTT-TTTTAATTTTAAAATACTT
6396084 TTTAAAATACTTTTTTAAAA
65 TTTAAAAT--TTTTTTAAAA
6396104 TTTTTTAATTTTAATTTAAAATTTTTAAAATACTTTTTTAAATTTTTTTAATTTTAAAATACTTT
1 TTTTTTAATTTTAATTTAAAATTTTTAAAATACTTTTTTAAATTTTTTTAATTTTAAAATACTTT
6396169 TTAAAATTTTTTTAAAA
66 TTAAAATTTTTTTAAAA
*
6396186 TACTTTTTAAAATTT--TTTAAAATTTTTAAAATA
1 T--TTTTT-AATTTTAATTTAAAATTTTTAAAATA
6396219 AAAATAGGCC
Statistics
Matches: 103, Mismatches: 4, Indels: 13
0.86 0.03 0.11
Matches are distributed among these distances:
80 14 0.14
82 11 0.11
83 53 0.51
84 20 0.19
85 5 0.05
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (82 bp):
TTTTTTAATTTTAATTTAAAATTTTTAAAATACTTTTTTAAATTTTTTTAATTTTAAAATACTTT
TTAAAATTTTTTTAAAA
Done.