Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 39 of 173
Found at i:10614369 original size:14 final size:14
Alignment explanation
Indices: 10614311--10614370 Score: 59
Period size: 14 Copynumber: 4.1 Consensus size: 14
10614301 TATAATTGCT
* *
10614311 TATATATGTATCTCA
1 TATATATTTAT-TTA
10614326 TATA-ATTTATTTAA
1 TATATATTTATTT-A
10614340 TATATATATTACTTTA
1 TATATAT-TTA-TTTA
10614356 TATATATTTATTTA
1 TATATATTTATTTA
10614370 T
1 T
10614371 TTACATATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
13 1 0.03
14 15 0.38
15 9 0.23
16 11 0.28
17 3 0.08
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.57
Consensus pattern (14 bp):
TATATATTTATTTA
Found at i:10614881 original size:108 final size:108
Alignment explanation
Indices: 10614700--10615017 Score: 437
Period size: 108 Copynumber: 3.0 Consensus size: 108
10614690 TTTCTAATTG
* *
10614700 AGGCAATATTTTACGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCT
* * * *
10614765 CGTCCAACCAAATGGCTTAATATCCTTTTAAAATTTCAAAATA
66 CGTTCAACCAAATAGCTAAATATCCTTTTAAAATTTCAAAACA
* *
10614808 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTAGCTGTCGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCT
* * *
10614873 CGTTCAACCAAATAGCTAAATAGCCTTTCAAAAATTTCAAAGCA
66 CGTTCAACCAAATAGCTAAATATCCTTT-TAAAATTTCAAAACA
* *
10614917 AGGCAATGTTTTGCGTTTGGGAAATTCGAG-GAACGTGCCCTAAGGTGCTGGGTTTCGA--TTTC
1 AGGCAATGTTTTGCGTTT-GGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTC
* * * *
10614979 TCGTTTAACCAAATTGCCAAATATCCTTTT-GAATTTCAA
65 TCGTTCAACCAAATAGCTAAATATCCTTTTAAAATTTCAA
10615018 TCCATGCTAT
Statistics
Matches: 187, Mismatches: 21, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
105 8 0.04
107 29 0.16
108 85 0.45
109 54 0.29
110 11 0.06
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (108 bp):
AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCT
CGTTCAACCAAATAGCTAAATATCCTTTTAAAATTTCAAAACA
Found at i:10618245 original size:4 final size:4
Alignment explanation
Indices: 10618238--10618265 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
10618228 GGATTTAATT
10618238 TTTG TTTG TTTG TTTG TTTG TTTG TTTG
1 TTTG TTTG TTTG TTTG TTTG TTTG TTTG
10618266 ATTATTAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.25, T:0.75
Consensus pattern (4 bp):
TTTG
Found at i:10634126 original size:2 final size:2
Alignment explanation
Indices: 10634119--10634155 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
10634109 GTGCGTGCGT
10634119 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
10634156 CAAGCATCCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:10634596 original size:7 final size:7
Alignment explanation
Indices: 10634586--10634611 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
10634576 GTGGAAGCCA
10634586 GAAGAGT
1 GAAGAGT
10634593 GAAGAGT
1 GAAGAGT
10634600 GAAGAGT
1 GAAGAGT
10634607 GAAGA
1 GAAGA
10634612 TTTATGGAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.42, T:0.12
Consensus pattern (7 bp):
GAAGAGT
Found at i:10635143 original size:18 final size:17
Alignment explanation
Indices: 10635122--10635156 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
10635112 TTATTATTAA
*
10635122 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
10635140 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
10635157 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:10635295 original size:157 final size:156
Alignment explanation
Indices: 10635010--10635325 Score: 553
Period size: 157 Copynumber: 2.0 Consensus size: 156
10635000 TAGAATACCC
* *
10635010 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTAGTGTTATTTAAATTTTAATAAGATTATTA
* *
10635075 TTACAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAAT
66 ATACAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
10635140 ATATAATTTAATAAAATTCTTAATAA
131 ATATAATTTAATAAAATTCTTAATAA
* *
10635166 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTAGTGTTATTGT-TATTTTAATAAGATTATT
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTAGTGTTATT-TAAATTTTAATAAGATTATT
10635230 AATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAA
65 AATA-CAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAA
10635295 ATATATAATTTAATAAAATTCTTAATAA
129 ATATATAATTTAATAAAATTCTTAATAA
10635323 TTA
1 TTA
10635326 ATATTCTTAT
Statistics
Matches: 152, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
156 61 0.40
157 91 0.60
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (156 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTAGTGTTATTTAAATTTTAATAAGATTATTA
ATACAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
ATATAATTTAATAAAATTCTTAATAA
Found at i:10635296 original size:16 final size:16
Alignment explanation
Indices: 10635259--10635300 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
10635249 TTAATCATAT
*
10635259 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
10635275 TT-AAATATATTATAA
1 TTAAAATATATTATAA
10635290 TTAAAATATAT
1 TTAAAATATAT
10635301 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:10635307 original size:14 final size:15
Alignment explanation
Indices: 10635268--10635309 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
10635258 TTTAAACATA
*
10635268 ATTATTATTAAATAT
1 ATTATAATTAAATAT
10635283 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
10635297 A-TATAATTTAATA
1 ATTATAATTAAATA
10635310 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:10635427 original size:14 final size:15
Alignment explanation
Indices: 10635378--10635429 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
10635368 CTAAAATATA
10635378 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
10635393 TATTAAATATATTAT
1 AATTAAATATATTAT
10635408 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
10635421 AATTTAATA
1 AATTAAATA
10635430 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:10635526 original size:15 final size:15
Alignment explanation
Indices: 10635499--10635546 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
10635489 TAAAATATAA
10635499 ATTAACATA-ATTATT
1 ATTAA-ATATATTATT
*
10635514 ATTAAATATATTATA
1 ATTAAATATATTATT
*
10635529 ATTAAAATATATAATT
1 ATT-AAATATATTATT
10635545 AT
1 AT
10635547 GAAGCAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 3 0.11
15 13 0.46
16 12 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTAAATATATTATT
Found at i:10635538 original size:16 final size:16
Alignment explanation
Indices: 10635498--10635540 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
10635488 GTAAAATATA
*
10635498 AATTAACATA-ATTAT
1 AATTAAAATATATTAT
*
10635513 TATT-AAATATATTAT
1 AATTAAAATATATTAT
10635528 AATTAAAATATAT
1 AATTAAAATATAT
10635541 AATTATGAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 4 0.17
15 11 0.48
16 8 0.35
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
AATTAAAATATATTAT
Found at i:10635607 original size:123 final size:120
Alignment explanation
Indices: 10635262--10635675 Score: 681
Period size: 120 Copynumber: 3.4 Consensus size: 120
10635252 ATCATATTTA
10635262 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
10635327 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTCTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
10635382 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
10635447 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
* *
10635502 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTATGAAGCAAAATTCATAATAAT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATT-T-AA-TAAAATTCTTAATAAT
*
10635567 TAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTAT-AAATGA-AATTTT
63 TAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAT-ATAA-ATT
* * *
10635625 GAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAA
1 -AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAA
10635676 ATTTAAAATA
Statistics
Matches: 279, Mismatches: 9, Indels: 12
0.93 0.03 0.04
Matches are distributed among these distances:
120 166 0.59
121 3 0.01
122 9 0.03
123 99 0.35
124 2 0.01
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:10635661 original size:16 final size:17
Alignment explanation
Indices: 10635640--10635677 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
10635630 AATTAATATT
*
10635640 AAATATAT-TTTAATTA
1 AAATATATATTTAATAA
10635656 AAATATATGATTTAATAA
1 AAATATAT-ATTTAATAA
10635674 AAAT
1 AAAT
10635678 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
18 11 0.58
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (17 bp):
AAATATATATTTAATAA
Found at i:10635778 original size:28 final size:25
Alignment explanation
Indices: 10635722--10635778 Score: 60
Period size: 28 Copynumber: 2.2 Consensus size: 25
10635712 GAATTTGTAT
* *
10635722 AATTTAAAAAATAATTATTACATAT
1 AATTTAAAAAATAATAATTACATAA
*
10635747 AATTTAATAATAATATATAATTTCATAA
1 AATTTAA-AA-AATA-ATAATTACATAA
10635775 AATT
1 AATT
10635779 CTTGATAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 7 0.27
26 2 0.08
27 4 0.15
28 13 0.50
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (25 bp):
AATTTAAAAAATAATAATTACATAA
Found at i:10635859 original size:91 final size:90
Alignment explanation
Indices: 10635694--10635900 Score: 290
Period size: 91 Copynumber: 2.3 Consensus size: 90
10635684 TAATTATAAC
* * * * * *
10635694 TAATAAATTATATTTTATGAATTTGTATAATTTAAAAAATAATTATTACATATAATTTAATAATA
1 TAATAAATTTTCTTATATGAATTTATACAATTTAAAAAATAATTATTAAATATAATTTAATAATA
*
10635759 ATATATAATTTCATAAAATTCTTGA
66 ATATATAATTTCATAAAATTCTTAA
*
10635784 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTTAATAG
1 TAATAAATTTTCTTATATGAATTTATACAATTTAAAA-AA-TAATTATTAAATATAATTTAATAA
*
10635848 TGATATATAATTTCATAAAATTCTTAA
64 TAATATATAATTTCATAAAATTCTTAA
*
10635875 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAATTTTCTTATATGAATTTA
10635901 CTAAAATCAA
Statistics
Matches: 104, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
90 32 0.31
91 49 0.47
92 23 0.22
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (90 bp):
TAATAAATTTTCTTATATGAATTTATACAATTTAAAAAATAATTATTAAATATAATTTAATAATA
ATATATAATTTCATAAAATTCTTAA
Found at i:10638094 original size:24 final size:26
Alignment explanation
Indices: 10638042--10638091 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
10638032 TATATGTAAT
10638042 ATTATTAAAATAAAATTTTTAATTTTA
1 ATTATTAAAATAAAATTTTTAA-TTTA
* *
10638069 ATTATTTAAA-AATATTTTTAATT
1 ATTATTAAAATAAAATTTTTAATT
10638092 AATGCGTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 2 0.10
26 10 0.48
27 9 0.43
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (26 bp):
ATTATTAAAATAAAATTTTTAATTTA
Found at i:10641008 original size:13 final size:13
Alignment explanation
Indices: 10640990--10641014 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10640980 AGCTAAACTG
10640990 AAACAGAAGGAAA
1 AAACAGAAGGAAA
10641003 AAACAGAAGGAA
1 AAACAGAAGGAA
10641015 TGGCTAAGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.08, G:0.24, T:0.00
Consensus pattern (13 bp):
AAACAGAAGGAAA
Found at i:10641059 original size:13 final size:13
Alignment explanation
Indices: 10641041--10641066 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10641031 TAGCTAAACT
10641041 GAAACAGAAGGAA
1 GAAACAGAAGGAA
10641054 GAAACAGAAGGAA
1 GAAACAGAAGGAA
10641067 AGGGGAAGCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.31, T:0.00
Consensus pattern (13 bp):
GAAACAGAAGGAA
Found at i:10654727 original size:4 final size:4
Alignment explanation
Indices: 10654715--10654749 Score: 63
Period size: 4 Copynumber: 9.0 Consensus size: 4
10654705 TAAAATTAGT
10654715 TAAA T-AA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
10654750 AAGGATAGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.10
4 27 0.90
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:10655115 original size:31 final size:32
Alignment explanation
Indices: 10655052--10655116 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
10655042 GGCAAATTAC
*
10655052 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTATTTA
10655084 AAGAGTAATTGAATCCTAAT-AAAACTATTTA
1 AAGAGTAATTGAATCCTAATAAAAACTATTTA
10655115 AA
1 AA
10655117 ATTATCTAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 12 0.38
32 20 0.62
ACGTcount: A:0.49, C:0.11, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTATTTA
Found at i:10660848 original size:19 final size:20
Alignment explanation
Indices: 10660801--10660840 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
10660791 TAACTTGAGT
10660801 TACGAAACTCAAAATTTAAA
1 TACGAAACTCAAAATTTAAA
10660821 TACGAAACTC-AAATTTAAA
1 TACGAAACTCAAAATTTAAA
10660840 T
1 T
10660841 CGCAAACTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.53, C:0.15, G:0.05, T:0.28
Consensus pattern (20 bp):
TACGAAACTCAAAATTTAAA
Found at i:10661869 original size:23 final size:23
Alignment explanation
Indices: 10661839--10661883 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
10661829 CAGCTACCAT
10661839 ATGTAGCCGAAGCTACCACTGAA
1 ATGTAGCCGAAGCTACCACTGAA
10661862 ATGTAGCCGAAGCTACCACTGA
1 ATGTAGCCGAAGCTACCACTGA
10661884 TCAATAACAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.27, G:0.22, T:0.18
Consensus pattern (23 bp):
ATGTAGCCGAAGCTACCACTGAA
Found at i:10661984 original size:8 final size:8
Alignment explanation
Indices: 10661971--10661999 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
10661961 ACCCGGGACT
10661971 CACTGTAA
1 CACTGTAA
10661979 CACTGTAA
1 CACTGTAA
10661987 CACTGTAA
1 CACTGTAA
10661995 CACTG
1 CACTG
10662000 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:10669190 original size:23 final size:24
Alignment explanation
Indices: 10669164--10669233 Score: 117
Period size: 23 Copynumber: 3.0 Consensus size: 24
10669154 TGCCACATTG
10669164 ATATGTAGCCGAAGCTACCACT-A
1 ATATGTAGCCGAAGCTACCACTGA
*
10669187 ATATGTAGCCGTAGCTACCACTGA
1 ATATGTAGCCGAAGCTACCACTGA
10669211 A-ATGTAGCCGAAGCTACCACTGA
1 ATATGTAGCCGAAGCTACCACTGA
10669234 TCAATAACAC
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
23 42 0.95
24 2 0.05
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (24 bp):
ATATGTAGCCGAAGCTACCACTGA
Found at i:10669334 original size:8 final size:8
Alignment explanation
Indices: 10669321--10669349 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
10669311 ACCCAGGACT
10669321 CACTGTAA
1 CACTGTAA
10669329 CACTGTAA
1 CACTGTAA
10669337 CACTGTAA
1 CACTGTAA
10669345 CACTG
1 CACTG
10669350 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:10670618 original size:31 final size:32
Alignment explanation
Indices: 10670564--10670623 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
10670554 GGCTATCACA
10670564 TAATTAAATCCTAATAAAAACTCTTTAAAGAG
1 TAATTAAATCCTAATAAAAACTCTTTAAAGAG
*
10670596 TAATTGAATCCTAAT-AAAACTCTTTAAA
1 TAATTAAATCCTAATAAAAACTCTTTAAA
10670624 TTTATCTAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 13 0.48
32 14 0.52
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.33
Consensus pattern (32 bp):
TAATTAAATCCTAATAAAAACTCTTTAAAGAG
Found at i:10675852 original size:19 final size:19
Alignment explanation
Indices: 10675796--10675852 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
10675786 ATTTTTAAAC
10675796 TAAAAAATATTCAAAATTTTA
1 TAAAAAATA-T-AAAATTTTA
**
10675817 -AAACAAATATATGATTTTA
1 TAAA-AAATATAAAATTTTA
10675836 TAAAAAATATAAAATTT
1 TAAAAAATATAAAATTT
10675853 ATTTTATGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
19 18 0.60
20 7 0.23
21 5 0.17
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.37
Consensus pattern (19 bp):
TAAAAAATATAAAATTTTA
Found at i:10677167 original size:7 final size:7
Alignment explanation
Indices: 10677152--10677217 Score: 118
Period size: 7 Copynumber: 9.7 Consensus size: 7
10677142 TAAAAATTTT
10677152 AAAAT-A
1 AAAATAA
10677158 AAAAT-A
1 AAAATAA
10677164 AAAATAA
1 AAAATAA
10677171 AAAATAA
1 AAAATAA
10677178 AAAATAA
1 AAAATAA
10677185 AAAATAA
1 AAAATAA
10677192 AAAATAA
1 AAAATAA
10677199 AAAATAA
1 AAAATAA
10677206 AAAATAA
1 AAAATAA
10677213 AAAAT
1 AAAAT
10677218 TAAATTCTAA
Statistics
Matches: 59, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
6 11 0.19
7 48 0.81
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAATAA
Found at i:10688216 original size:45 final size:45
Alignment explanation
Indices: 10688161--10688277 Score: 155
Period size: 45 Copynumber: 2.6 Consensus size: 45
10688151 AGATCCTAGC
*
10688161 TGAAAGATGTTATGGCATCATGATAAAAGTGAGAAAGACCATAGT
1 TGAAAGATGTTATGACATCATGATAAAAGTGAGAAAGACCATAGT
* * *
10688206 TGAAATATGTTATGACATCATGATAAAAGTGAGTAAGACCATAGC
1 TGAAAGATGTTATGACATCATGATAAAAGTGAGAAAGACCATAGT
* * * *
10688251 TAAAAGACGCTATGATATCAT-ATAAAA
1 TGAAAGATGTTATGACATCATGATAAAA
10688278 TCACGCCATA
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
44 6 0.10
45 57 0.90
ACGTcount: A:0.44, C:0.10, G:0.20, T:0.26
Consensus pattern (45 bp):
TGAAAGATGTTATGACATCATGATAAAAGTGAGAAAGACCATAGT
Found at i:10693875 original size:505 final size:505
Alignment explanation
Indices: 10692925--10693937 Score: 2017
Period size: 505 Copynumber: 2.0 Consensus size: 505
10692915 ATCGACATCA
10692925 GATTTTCTTTTATATTTTCTCTAATTTTTGTATGACATTAAGGAGACCACTTCTGCATGCATTTG
1 GATTTTCTTTTATATTTTCTCTAATTTTTGTATGACATTAAGGAGACCACTTCTGCATGCATTTG
10692990 ACACTTGTAACAACCTGTTTTTCAGTGGTATTGAAAATGGTGATTTTGGGACCACAAATTCGACG
66 ACACTTGTAACAACCTGTTTTTCAGTGGTATTGAAAATGGTGATTTTGGGACCACAAATTCGACG
10693055 AGTGAGTTCGTATAAATAGTATTTAAATTATATGAGTCAATAATAAATTTTGTATTGAATTTTGA
131 AGTGAGTTCGTATAAATAGTATTTAAATTATATGAGTCAATAATAAATTTTGTATTGAATTTTGA
10693120 TTTGAGGAATTTTAACTAACTGAATTAAAAGTTAGTATAAGTGGTTCGGTTCAAAAGTCAAGTGG
196 TTTGAGGAATTTTAACTAACTGAATTAAAAGTTAGTATAAGTGGTTCGGTTCAAAAGTCAAGTGG
10693185 TTATTGAAAACGAGGTATTAGGATCTCGTTTCCATAATTAAAGGCCGTAAATATTTTTATTAAAT
261 TTATTGAAAACGAGGTATTAGGATCTCGTTTCCATAATTAAAGGCCGTAAATATTTTTATTAAAT
10693250 ATTTATAGAGTTGTATTATATGTGAATTGAAGTTTGATCTGGTAATTTTGATGATTTATTGCTTA
326 ATTTATAGAGTTGTATTATATGTGAATTGAAGTTTGATCTGGTAATTTTGATGATTTATTGCTTA
10693315 ATTATAGTAAAAGAATTAAATTGTAAAAGAAGTAAAAGTTAATTGATATAGATTTAAAATAGTAA
391 ATTATAGTAAAAGAATTAAATTGTAAAAGAAGTAAAAGTTAATTGATATAGATTTAAAATAGTAA
*
10693380 ATGGACCAAAATGGTAATTAAACTATGGTCAAAAAGTCCAAGCGGTGGTG
456 AGGGACCAAAATGGTAATTAAACTATGGTCAAAAAGTCCAAGCGGTGGTG
10693430 GATTTTCTTTTATATTTTCTCTAATTTTTGTATGACATTAAGGAGACCACTTCTGCATGCATTTG
1 GATTTTCTTTTATATTTTCTCTAATTTTTGTATGACATTAAGGAGACCACTTCTGCATGCATTTG
10693495 ACACTTGTAACAACCTGTTTTTCAGTGGTATTGAAAATGGTGATTTTGGGACCACAAATTCGACG
66 ACACTTGTAACAACCTGTTTTTCAGTGGTATTGAAAATGGTGATTTTGGGACCACAAATTCGACG
10693560 AGTGAGTTCGTATAAATAGTATTTAAATTATATGAGTCAATAATAAATTTTGTATTGAATTTTGA
131 AGTGAGTTCGTATAAATAGTATTTAAATTATATGAGTCAATAATAAATTTTGTATTGAATTTTGA
10693625 TTTGAGGAATTTTAACTAACTGAATTAAAAGTTAGTATAAGTGGTTCGGTTCAAAAGTCAAGTGG
196 TTTGAGGAATTTTAACTAACTGAATTAAAAGTTAGTATAAGTGGTTCGGTTCAAAAGTCAAGTGG
10693690 TTATTGAAAACGAGGTATTAGGATCTCGTTTCCATAATTAAAGGCCGTAAATATTTTTATTAAAT
261 TTATTGAAAACGAGGTATTAGGATCTCGTTTCCATAATTAAAGGCCGTAAATATTTTTATTAAAT
10693755 ATTTATAGAGTTGTATTATATGTGAATTGAAGTTTGATCTGGTAATTTTGATGATTTATTGCTTA
326 ATTTATAGAGTTGTATTATATGTGAATTGAAGTTTGATCTGGTAATTTTGATGATTTATTGCTTA
10693820 ATTATAGTAAAAGAATTAAATTGTAAAAGAAGTAAAAGTTAATTGATATAGATTTAAAATAGTAA
391 ATTATAGTAAAAGAATTAAATTGTAAAAGAAGTAAAAGTTAATTGATATAGATTTAAAATAGTAA
10693885 AGGGACCAAAATGGTAATTAAACTATGGTCAAAAAGTCCAAGCGGTGGTG
456 AGGGACCAAAATGGTAATTAAACTATGGTCAAAAAGTCCAAGCGGTGGTG
10693935 GAT
1 GAT
10693938 ATGATTAATC
Statistics
Matches: 507, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
505 507 1.00
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.38
Consensus pattern (505 bp):
GATTTTCTTTTATATTTTCTCTAATTTTTGTATGACATTAAGGAGACCACTTCTGCATGCATTTG
ACACTTGTAACAACCTGTTTTTCAGTGGTATTGAAAATGGTGATTTTGGGACCACAAATTCGACG
AGTGAGTTCGTATAAATAGTATTTAAATTATATGAGTCAATAATAAATTTTGTATTGAATTTTGA
TTTGAGGAATTTTAACTAACTGAATTAAAAGTTAGTATAAGTGGTTCGGTTCAAAAGTCAAGTGG
TTATTGAAAACGAGGTATTAGGATCTCGTTTCCATAATTAAAGGCCGTAAATATTTTTATTAAAT
ATTTATAGAGTTGTATTATATGTGAATTGAAGTTTGATCTGGTAATTTTGATGATTTATTGCTTA
ATTATAGTAAAAGAATTAAATTGTAAAAGAAGTAAAAGTTAATTGATATAGATTTAAAATAGTAA
AGGGACCAAAATGGTAATTAAACTATGGTCAAAAAGTCCAAGCGGTGGTG
Found at i:10694749 original size:101 final size:101
Alignment explanation
Indices: 10694554--10694754 Score: 287
Period size: 101 Copynumber: 2.0 Consensus size: 101
10694544 AGTTCATTTA
* *
10694554 GTTGGACCATGGCAGTATATATATGTAAGACCATAGCTGCGCTATGACATTCTGATGATAAGACC
1 GTTGGACCATGGCAATATATACATGTAAGACCATAGCTGCGCTATGACATTCTGATGATAAGACC
* *
10694619 ATAACTAGGTTATGGCACTATAGATATAAGACCATG
66 ATAACTAGGCTATAGCACTATAGATATAAGACCATG
* * *
10694655 GTTGGACCATGGCAATGTATACATGTAAGACCATAGTTGGGCTATGACATTCTGATGATAAGACC
1 GTTGGACCATGGCAATATATACATGTAAGACCATAGCTGCGCTATGACATTCTGATGATAAGACC
* * * *
10694720 ATAATTGGGCTATAGCATTCT-GATGATAAGACCAT
66 ATAACTAGGCTATAGCACTATAGAT-ATAAGACCAT
10694755 AACTGGGTTA
Statistics
Matches: 88, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
100 3 0.03
101 85 0.97
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.28
Consensus pattern (101 bp):
GTTGGACCATGGCAATATATACATGTAAGACCATAGCTGCGCTATGACATTCTGATGATAAGACC
ATAACTAGGCTATAGCACTATAGATATAAGACCATG
Found at i:10694756 original size:33 final size:33
Alignment explanation
Indices: 10694579--10694766 Score: 139
Period size: 33 Copynumber: 5.6 Consensus size: 33
10694569 TATATATATG
** *
10694579 TAAGACCATAGCTGCGCTATGACATTCTGATGA
1 TAAGACCATAATTGGGCTATGACATTCTGATGA
* * * * * *
10694612 TAAGACCATAACTAGGTTATGGCACTATAGAT-A
1 TAAGACCATAATTGGGCTATGACATTCT-GATGA
** * * * * *
10694645 TAAGACCATGGTTGGACCATGGCAATGTATACATG-
1 TAAGACCATAATTGGGCTATGAC-AT-TCT-GATGA
*
10694680 TAAGACCATAGTTGGGCTATGACATTCTGATGA
1 TAAGACCATAATTGGGCTATGACATTCTGATGA
10694713 TAAGACCATAATTGGGCTAT-AGCATTCTGATGA
1 TAAGACCATAATTGGGCTATGA-CATTCTGATGA
* *
10694746 TAAGACCATAACTGGGTTATG
1 TAAGACCATAATTGGGCTATG
10694767 GCACTATAGA
Statistics
Matches: 123, Mismatches: 25, Indels: 13
0.76 0.16 0.08
Matches are distributed among these distances:
32 4 0.03
33 88 0.72
34 6 0.05
35 25 0.20
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.28
Consensus pattern (33 bp):
TAAGACCATAATTGGGCTATGACATTCTGATGA
Found at i:10694768 original size:101 final size:100
Alignment explanation
Indices: 10694562--10694870 Score: 266
Period size: 101 Copynumber: 3.1 Consensus size: 100
10694552 TAGTTGGACC
* * * * *
10694562 ATGGCAGTATATATATGTAAGACCATAGCTGCGCTATGACATTCTGATGATAAGACCATAACTAG
1 ATGGCAATATATACATGTAAGACCATAGTTGGGCTATGACATTCTGATGATAAGACCATAACTGG
* * * *** ***
10694627 GTTATGGCACTATAGAT-ATAAGACCATGGTTGGACC
66 GCTAT-GCATTCT-GATGATAAGACCATAACTGGGTT
* *
10694663 ATGGCAATGTATACATGTAAGACCATAGTTGGGCTATGACATTCTGATGATAAGACCATAATTGG
1 ATGGCAATATATACATGTAAGACCATAGTTGGGCTATGACATTCTGATGATAAGACCATAACTGG
10694728 GCTATAGCATTCTGATGATAAGACCATAACTGGGTT
66 GCTAT-GCATTCTGATGATAAGACCATAACTGGGTT
* * * * * * * * * * *
10694764 ATGGCACTATAGAC--GTAAGACCATGGTTGGACCATGGCTGTGTATACATG-TAAGTCCATAGC
1 ATGGCAATATATACATGTAAGACCATAGTTGGGCTATGAC-AT-TCT-GATGATAAGACCATAAC
* *
10694826 TGGGCTATGATATTCTAATGATAAGACCATAACTGGGTT
63 TGGGCTATG-CATTCTGATGATAAGACCATAACTGGGTT
10694865 ATGGCA
1 ATGGCA
10694871 CTATGAACGT
Statistics
Matches: 171, Mismatches: 32, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
99 20 0.12
100 5 0.03
101 143 0.84
102 3 0.02
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.28
Consensus pattern (100 bp):
ATGGCAATATATACATGTAAGACCATAGTTGGGCTATGACATTCTGATGATAAGACCATAACTGG
GCTATGCATTCTGATGATAAGACCATAACTGGGTT
Found at i:10694823 original size:134 final size:134
Alignment explanation
Indices: 10694579--10694867 Score: 445
Period size: 134 Copynumber: 2.2 Consensus size: 134
10694569 TATATATATG
* * *
10694579 TAAGACCATAGCTGCGCTATGACATTCTGATGATAAGACCATAACTAGGTTATGGCACTATAGAT
1 TAAGACCATAACTGGGCTATGACATTCTGATGATAAGACCATAACTAGGTTATGGCACTATAGAC
* *
10694644 ATAAGACCATGGTTGGACCATGGCAATGTATACATGTAAGACCATAGTTGGGCTATGACATTCTG
66 ATAAGACCATGGTTGGACCATGGCAATGTATACATGTAAGACCATAGCTGGGCTATGACATTCTA
10694709 ATGA
131 ATGA
* *
10694713 TAAGACCATAATTGGGCTAT-AGCATTCTGATGATAAGACCATAACTGGGTTATGGCACTATAGA
1 TAAGACCATAACTGGGCTATGA-CATTCTGATGATAAGACCATAACTAGGTTATGGCACTATAGA
* ** * *
10694777 CGTAAGACCATGGTTGGACCATGGCTGTGTATACATGTAAGTCCATAGCTGGGCTATGATATTCT
65 CATAAGACCATGGTTGGACCATGGCAATGTATACATGTAAGACCATAGCTGGGCTATGACATTCT
10694842 AATGA
130 AATGA
*
10694847 TAAGACCATAACTGGGTTATG
1 TAAGACCATAACTGGGCTATG
10694868 GCACTATGAA
Statistics
Matches: 139, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
133 1 0.01
134 138 0.99
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (134 bp):
TAAGACCATAACTGGGCTATGACATTCTGATGATAAGACCATAACTAGGTTATGGCACTATAGAC
ATAAGACCATGGTTGGACCATGGCAATGTATACATGTAAGACCATAGCTGGGCTATGACATTCTA
ATGA
Found at i:10694856 original size:33 final size:34
Alignment explanation
Indices: 10694571--10694867 Score: 128
Period size: 33 Copynumber: 8.9 Consensus size: 34
10694561 CATGGCAGTA
* *
10694571 TATATATG-TAAGACCATAGCTGCGCTATGACAT
1 TATACATGATAAGACCATAGCTGGGCTATGACAT
* * * * * * *
10694604 TCT-GATGATAAGACCATAACTAGGTTATGGCAC
1 TATACATGATAAGACCATAGCTGGGCTATGACAT
* * * * * *
10694637 TATAGAT-ATAAGACCATGGTTGGACCATGGCAAT
1 TATACATGATAAGACCATAGCTGGGCTATGAC-AT
*
10694671 GTATACATG-TAAGACCATAGTTGGGCTATGACAT
1 -TATACATGATAAGACCATAGCTGGGCTATGACAT
* * **
10694705 TCT-GATGATAAGACCATAATTGGGCTAT-AGCAT
1 TATACATGATAAGACCATAGCTGGGCTATGA-CAT
* * * * * *
10694738 TCT-GATGATAAGACCATAACTGGGTTATGGCAC
1 TATACATGATAAGACCATAGCTGGGCTATGACAT
* * * * * * * *
10694771 TATAGACG-TAAGACCATGGTTGGACCATGGCTGT
1 TATACATGATAAGACCATAGCTGGGCTATGAC-AT
* *
10694805 GTATACATG-TAAGTCCATAGCTGGGCTATGATAT
1 -TATACATGATAAGACCATAGCTGGGCTATGACAT
* * *
10694839 TCTA-ATGATAAGACCATAACTGGGTTATG
1 TATACATGATAAGACCATAGCTGGGCTATG
10694868 GCACTATGAA
Statistics
Matches: 199, Mismatches: 53, Indels: 24
0.72 0.19 0.09
Matches are distributed among these distances:
32 10 0.05
33 132 0.66
34 10 0.05
35 47 0.24
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (34 bp):
TATACATGATAAGACCATAGCTGGGCTATGACAT
Found at i:10694902 original size:134 final size:134
Alignment explanation
Indices: 10694579--10694903 Score: 368
Period size: 134 Copynumber: 2.4 Consensus size: 134
10694569 TATATATATG
* * * * * **
10694579 TAAGACCATAGCTGCGCTAT-GACATTCTGATGATAAGACCATAACTA-GGTTATGGCACTATAG
1 TAAGACCATAACTGGGCTATAG-CACTATGACGATAAGACCATAAC-AGGGCCATGGCACTATAG
* *
10694642 ATATAAGACCATGGTTGGACCATGGCAATGTATACATGTAAGACCATAGTTGGGCTATGACATTC
64 ACATAAGACCATGGTTGGACCATGGCAATGTATACATGTAAGACCATAGCTGGGCTATGACATTC
*
10694707 TGATGA
129 TAATGA
* * * * * **
10694713 TAAGACCATAATTGGGCTATAGCATTCTGATGATAAGACCATAACTGGGTTATGGCACTATAGAC
1 TAAGACCATAACTGGGCTATAGCACTATGACGATAAGACCATAACAGGGCCATGGCACTATAGAC
* ** * *
10694778 GTAAGACCATGGTTGGACCATGGCTGTGTATACATGTAAGTCCATAGCTGGGCTATGATATTCTA
66 ATAAGACCATGGTTGGACCATGGCAATGTATACATGTAAGACCATAGCTGGGCTATGACATTCTA
10694843 ATGA
131 ATGA
* * **
10694847 TAAGACCATAACTGGGTTATGGCACTATGAACG-TAAGACCATGGCAGGGCCATGGCA
1 TAAGACCATAACTGGGCTATAGCACTATG-ACGATAAGACCATAACAGGGCCATGGCA
10694904 ATGTACATAT
Statistics
Matches: 165, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
134 162 0.98
135 3 0.02
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.27
Consensus pattern (134 bp):
TAAGACCATAACTGGGCTATAGCACTATGACGATAAGACCATAACAGGGCCATGGCACTATAGAC
ATAAGACCATGGTTGGACCATGGCAATGTATACATGTAAGACCATAGCTGGGCTATGACATTCTA
ATGA
Found at i:10701197 original size:16 final size:17
Alignment explanation
Indices: 10701170--10701203 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
10701160 TTCTCCAACT
10701170 TAATTGAATTTTTAAAA
1 TAATTGAATTTTTAAAA
*
10701187 TAATT-AATTTTTTAAA
1 TAATTGAATTTTTAAAA
10701203 T
1 T
10701204 TATCTTTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TAATTGAATTTTTAAAA
Found at i:10703725 original size:40 final size:41
Alignment explanation
Indices: 10703663--10703778 Score: 112
Period size: 40 Copynumber: 2.9 Consensus size: 41
10703653 GTTTGGAACA
* * *
10703663 AAAGCGCCACAAAAAATCGAGCATTAGCGGCGATTTAGCC-
1 AAAGCGCCGCTAAAAATAGAGCATTAGCGGCGATTTAGCCG
** * * *
10703703 AAAGCGCCGCTAAAGGTAGAGCATCAGCGGTGA-TTATCCG
1 AAAGCGCCGCTAAAAATAGAGCATTAGCGGCGATTTAGCCG
* * *
10703743 GAAGCGCCGCTAAAAATAG-GAATTAGCGGCGTTTTA
1 AAAGCGCCGCTAAAAATAGAGCATTAGCGGCGATTTA
10703779 TATAAAGCGC
Statistics
Matches: 59, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
39 14 0.24
40 45 0.76
ACGTcount: A:0.34, C:0.22, G:0.27, T:0.18
Consensus pattern (41 bp):
AAAGCGCCGCTAAAAATAGAGCATTAGCGGCGATTTAGCCG
Found at i:10703893 original size:41 final size:41
Alignment explanation
Indices: 10703836--10704114 Score: 244
Period size: 41 Copynumber: 6.8 Consensus size: 41
10703826 TTTTTTAAAC
* *
10703836 CTTTAGCGGCATTTTTGTGTAAGCGCCGCTAATGCTCGGAT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGAT
* *
10703877 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATTCTTGGAT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGAT
* * *
10703918 CTTTAGCGGCGTTTTTGTCTATGCACCGCTAATGCTCGGGT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGAT
* * *
10703959 CTTTAGCGGCGTTTTTATAC-AAGCGCCGCTAATTCTCGAAT
1 CTTTAGCGGCGTTTTTGT-CTAAGCGCCGCTAATGCTCGGAT
* ** * * *
10704000 CTTTAGTGGC-TTTTCTAACTGAGCGCCACTAATTCGCT-TG-T
1 CTTTAGCGGCGTTTT-TGTCTAAGCGCCGCTAA-T-GCTCGGAT
* * * * *** *
10704041 CTTCAGCGGCGTTTGTATTTAAGCGCCGCTAATG-TATTTAC
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCT-CGGAT
* *
10704082 CTTTAGCGGCGTTTTTGCCGAAGCGCCGCTAAT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAAT
10704115 AGTAACAAAA
Statistics
Matches: 192, Mismatches: 37, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 7 0.04
41 176 0.92
42 5 0.03
43 2 0.01
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.36
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGAT
Found at i:10704070 original size:123 final size:123
Alignment explanation
Indices: 10703836--10704074 Score: 277
Period size: 123 Copynumber: 1.9 Consensus size: 123
10703826 TTTTTTAAAC
* ** * **
10703836 CTTTAGCGGCATTTTTGTGTAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTGTCTAAGC
1 CTTTAGCGGCATTTTTATACAAGCGCCGCTAATGCTCGAATCTTTAGCGGCGTTTTTAACTAAGC
* * * * *
10703901 GCCGCTAATTCTTGGATCTTTAGCGGCGTTTTTGTCTATGCACCGCTAATGCTCGGGT
66 GCCACTAATTCTTGGATCTTCAGCGGCGTTTGTATCTAAGCACCGCTAATGCTCGGGT
* * * *
10703959 CTTTAGCGGCGTTTTTATACAAGCGCCGCTAATTCTCGAATCTTTAGTGGC-TTTTCTAACTGAG
1 CTTTAGCGGCATTTTTATACAAGCGCCGCTAATGCTCGAATCTTTAGCGGCGTTTT-TAACTAAG
* *
10704023 CGCCACTAATTCGCTT-G-TCTTCAGCGGCGTTTGTATTTAAGCGCCGCTAATG
65 CGCCACTAATT--CTTGGATCTTCAGCGGCGTTTGTATCTAAGCACCGCTAATG
10704075 TATTTACCTT
Statistics
Matches: 96, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
122 4 0.04
123 88 0.92
124 1 0.01
125 3 0.03
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.36
Consensus pattern (123 bp):
CTTTAGCGGCATTTTTATACAAGCGCCGCTAATGCTCGAATCTTTAGCGGCGTTTTTAACTAAGC
GCCACTAATTCTTGGATCTTCAGCGGCGTTTGTATCTAAGCACCGCTAATGCTCGGGT
Found at i:10704590 original size:16 final size:17
Alignment explanation
Indices: 10704569--10704600 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
10704559 TACGGAGTAT
10704569 AGATTTAAGG-TAATTG
1 AGATTTAAGGTTAATTG
10704585 AGATTTAAGGTTAATT
1 AGATTTAAGGTTAATT
10704601 TAGGGGTTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.38, C:0.00, G:0.22, T:0.41
Consensus pattern (17 bp):
AGATTTAAGGTTAATTG
Found at i:10706268 original size:35 final size:36
Alignment explanation
Indices: 10706229--10706298 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 36
10706219 AATTTATTTA
* *
10706229 TTTAT-CAATAAAATTAAATATTATAA-ATTTCAAAC
1 TTTATACAA-AAAAATAAATATTATAATATTACAAAC
10706264 TTTATACAAAAAAATAAATATTATAATATTACAAA
1 TTTATACAAAAAAATAAATATTATAATATTACAAA
10706299 TTAAAAGTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
35 21 0.68
36 10 0.32
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (36 bp):
TTTATACAAAAAAATAAATATTATAATATTACAAAC
Found at i:10709176 original size:31 final size:31
Alignment explanation
Indices: 10709151--10709748 Score: 686
Period size: 31 Copynumber: 19.8 Consensus size: 31
10709141 AATATAAGAT
10709151 ATTACATAACTTACATTAGTTAATATACATAA
1 ATTACATAACTTA-ATTAGTTAATATACATAA
* *
10709183 ATTACATAACTTAGTTAATTAATAT---T--
1 ATTACATAACTTAATTAGTTAATATACATAA
* *
10709209 A-TACATAACTTACATTA-ATATTATACATAA
1 ATTACATAACTTA-ATTAGTTAATATACATAA
*
10709239 ATTACATAACTTAATTAGTTAATACACATAA
1 ATTACATAACTTAATTAGTTAATATACATAA
* * *
10709270 ATTACATAACATACATTA-ATATTATACATAA
1 ATTACATAACTTA-ATTAGTTAATATACATAA
* *
10709301 ATTACATAACTTAGTTATTTAATAT---T--
1 ATTACATAACTTAATTAGTTAATATACATAA
* *
10709327 A-TACATAACTTACATTA-ATATTATACATAA
1 ATTACATAACTTA-ATTAGTTAATATACATAA
10709357 ATTACATAACTTAATTAGTTAATATACATAA
1 ATTACATAACTTAATTAGTTAATATACATAA
*
10709388 ATTACATAACATAATTAGTTAATATACATAA
1 ATTACATAACTTAATTAGTTAATATACATAA
*
10709419 ATTACATAACTTAATTAGTTACTATACATAA
1 ATTACATAACTTAATTAGTTAATATACATAA
10709450 ATTACATAACTTAATTAGTTAATATACATAA
1 ATTACATAACTTAATTAGTTAATATACATAA
*
10709481 ATTACATAACATAATTAGTTAATTATACATAA
1 ATTACATAACTTAATTAGTTAA-TATACATAA
*
10709513 ATTACATAACTTAATTAGTTACTATACATAA
1 ATTACATAACTTAATTAGTTAATATACATAA
10709544 ATTACATAACTTAATTAGTTAATATACATAA
1 ATTACATAACTTAATTAGTTAATATACATAA
* * *
10709575 ATTACATAACATACATTA-ATATTATACATAA
1 ATTACATAACTTA-ATTAGTTAATATACATAA
* *
10709606 ATTACATAACTTAGTTATTTAATAT---T--
1 ATTACATAACTTAATTAGTTAATATACATAA
* *
10709632 A-TACATAACTTACATTA-ATATTATACATAA
1 ATTACATAACTTA-ATTAGTTAATATACATAA
*
10709662 ATTACATAACTTAATTAGTTAATACACATAA
1 ATTACATAACTTAATTAGTTAATATACATAA
* * *
10709693 ATTACATAACATACATTA-ATATTATACATAA
1 ATTACATAACTTA-ATTAGTTAATATACATAA
* * *
10709724 ATTACGTAACTTAGTTATTTAATAT
1 ATTACATAACTTAATTAGTTAATAT
10709749 TATACATAAC
Statistics
Matches: 484, Mismatches: 51, Indels: 63
0.81 0.09 0.11
Matches are distributed among these distances:
25 48 0.10
26 12 0.02
28 6 0.01
30 24 0.05
31 340 0.70
32 54 0.11
ACGTcount: A:0.47, C:0.11, G:0.03, T:0.39
Consensus pattern (31 bp):
ATTACATAACTTAATTAGTTAATATACATAA
Found at i:10709218 original size:25 final size:22
Alignment explanation
Indices: 10709185--10709238 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 22
10709175 ATACATAAAT
10709185 TACATAACTTAGTTAATTAATATTA
1 TACATAACTTA---AATTAATATTA
*
10709210 TACATAACTTACATTAATATTA
1 TACATAACTTAAATTAATATTA
10709232 TACATAA
1 TACATAA
10709239 ATTACATAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 17 0.61
25 11 0.39
ACGTcount: A:0.46, C:0.11, G:0.02, T:0.41
Consensus pattern (22 bp):
TACATAACTTAAATTAATATTA
Found at i:10709228 original size:22 final size:22
Alignment explanation
Indices: 10709200--10709363 Score: 88
Period size: 22 Copynumber: 7.1 Consensus size: 22
10709190 AACTTAGTTA
10709200 ATTAATATTATACATAACTTAC
1 ATTAATATTATACATAACTTAC
*
10709222 ATTAATATTATACATAAATTAC
1 ATTAATATTATACATAACTTAC
* *
10709244 A-TAACTTAATTAGTTA-ATACACATAA
1 ATTAA--T-ATTA--TACATA-ACTTAC
** *
10709270 ATTACATAACATACATTAATATTATAC
1 ATTA-ATATTATACA-T-A-ACT-TAC
*
10709297 A-TAA-A-T-TACATAACTTAGTT
1 ATTAATATTATACATAACTTA--C
10709317 ATTTAATATTATACATAACTTAC
1 A-TTAATATTATACATAACTTAC
*
10709340 ATTAATATTATACATAAATTAC
1 ATTAATATTATACATAACTTAC
10709362 AT
1 AT
10709364 AACTTAATTA
Statistics
Matches: 108, Mismatches: 15, Indels: 38
0.67 0.09 0.24
Matches are distributed among these distances:
18 2 0.02
19 2 0.02
20 2 0.02
21 4 0.04
22 51 0.47
23 5 0.05
24 7 0.06
25 18 0.17
26 11 0.10
27 5 0.05
28 1 0.01
ACGTcount: A:0.48, C:0.12, G:0.01, T:0.40
Consensus pattern (22 bp):
ATTAATATTATACATAACTTAC
Found at i:10709285 original size:62 final size:62
Alignment explanation
Indices: 10709151--10709748 Score: 779
Period size: 62 Copynumber: 9.9 Consensus size: 62
10709141 AATATAAGAT
* * * *
10709151 ATTACATAACTTACATTAGTTAATATACATAAATTACATAACTTAGTTAATTAATAT---T--
1 ATTACATAACTTACATTA-ATATTATACATAAATTACATAACTTAATTAGTTAATATACATAA
*
10709209 A-TACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAGTTAATACACATAA
1 ATTACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAA
* * *
10709270 ATTACATAACATACATTAATATTATACATAAATTACATAACTTAGTTATTTAATAT---T--
1 ATTACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAA
10709327 A-TACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAA
1 ATTACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAA
* * * *
10709388 ATTACATAACATA-ATTAGTTAATATACATAAATTACATAACTTAATTAGTTACTATACATAA
1 ATTACATAACTTACATTA-ATATTATACATAAATTACATAACTTAATTAGTTAATATACATAA
* * *
10709450 ATTACATAACTTA-ATTAGTTAATATACATAAATTACATAACATAATTAGTTAATTATACATAA
1 ATTACATAACTTACATTA-ATATTATACATAAATTACATAACTTAATTAGTTAA-TATACATAA
* *
10709513 ATTACATAACTTA-ATTAGTTACTATACATAAATTACATAACTTAATTAGTTAATATACATAA
1 ATTACATAACTTACATTA-ATATTATACATAAATTACATAACTTAATTAGTTAATATACATAA
* * *
10709575 ATTACATAACATACATTAATATTATACATAAATTACATAACTTAGTTATTTAATAT---T--
1 ATTACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAA
*
10709632 A-TACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAGTTAATACACATAA
1 ATTACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAA
* * * *
10709693 ATTACATAACATACATTAATATTATACATAAATTACGTAACTTAGTTATTTAATAT
1 ATTACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAGTTAATAT
10709749 TATACATAAC
Statistics
Matches: 484, Mismatches: 35, Indels: 38
0.87 0.06 0.07
Matches are distributed among these distances:
56 134 0.28
57 18 0.04
58 1 0.00
59 5 0.01
61 7 0.01
62 255 0.53
63 64 0.13
ACGTcount: A:0.47, C:0.11, G:0.03, T:0.39
Consensus pattern (62 bp):
ATTACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAA
Found at i:10709303 original size:118 final size:121
Alignment explanation
Indices: 10709151--10709748 Score: 749
Period size: 118 Copynumber: 5.0 Consensus size: 121
10709141 AATATAAGAT
* *
10709151 ATTACATAACTTACATTAGTTAATATACATAAATTACATAACTTAGTTAATTAATAT-TA-TACA
1 ATTACATAACTTACATTAGTTAATATACATAAATTACATAACTTAATTAGTTAATATATATTACA
*
10709214 TAACTTACATTAATATTATACATAAATTACATAACTTAATTAGTTAATACACATAA
66 TAACTTACATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAA
* * * * *
10709270 ATTACATAACATACATTA-ATATTATACATAAATTACATAACTTAGTTATTTAATAT-TA-TACA
1 ATTACATAACTTACATTAGTTAATATACATAAATTACATAACTTAATTAGTTAATATATATTACA
10709332 TAACTTACATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAA
66 TAACTTACATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAA
* *
10709388 ATTACATAACATA-ATTAGTTAATATACATAAATTACATAACTTAATTAGTTACTATACATAAAT
1 ATTACATAACTTACATTAGTTAATATACATAAATTACATAACTTAATTAGTTA--AT--ATATAT
* * *
10709452 TACATAACTTA-ATTAGTTAATATACATAAATTACATAACATAATTAGTTAATTATACATAA
62 TACATAACTTACATTA-ATATTATACATAAATTACATAACTTAATTAGTTAA-TATACATAA
*
10709513 ATTACATAACTTA-ATTAGTTACTATACATAAATTACATAACTTAATTAGTTAATATACATAAAT
1 ATTACATAACTTACATTAGTTAATATACATAAATTACATAACTTAATTAGTTAATAT--AT--AT
* * *
10709577 TACATAACATACATTAATATTATACATAAATTACATAACTTAGTTATTTAATAT---T--
62 TACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAA
* * *
10709632 A-TACATAACTTACATTA-ATATTATACATAAATTACATAACTTAATTAGTTAATACACATAAAT
1 ATTACATAACTTACATTAGTTAATATACATAAATTACATAACTTAATTAGTTAAT----ATATAT
* * * *
10709695 TACATAACATACATTAATATTATACATAAATTACGTAACTTAGTTATTTAATAT
62 TACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAGTTAATAT
10709749 TATACATAAC
Statistics
Matches: 434, Mismatches: 26, Indels: 39
0.87 0.05 0.08
Matches are distributed among these distances:
117 4 0.01
118 239 0.55
119 22 0.05
120 3 0.01
121 3 0.01
122 4 0.01
123 8 0.02
124 46 0.11
125 101 0.23
126 4 0.01
ACGTcount: A:0.47, C:0.11, G:0.03, T:0.39
Consensus pattern (121 bp):
ATTACATAACTTACATTAGTTAATATACATAAATTACATAACTTAATTAGTTAATATATATTACA
TAACTTACATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAA
Found at i:10709652 original size:22 final size:22
Alignment explanation
Indices: 10709624--10709668 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
10709614 ACTTAGTTAT
*
10709624 TTAATATTATACATAACTTACA
1 TTAATATTATACATAAATTACA
10709646 TTAATATTATACATAAATTACA
1 TTAATATTATACATAAATTACA
10709668 T
1 T
10709669 AACTTAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (22 bp):
TTAATATTATACATAAATTACA
Found at i:10709775 original size:9 final size:9
Alignment explanation
Indices: 10709751--10709853 Score: 71
Period size: 9 Copynumber: 12.3 Consensus size: 9
10709741 TTTAATATTA
10709751 TACATAACT
1 TACATAACT
10709760 TAC--AACT
1 TACATAACT
10709767 TACATAACT
1 TACATAACT
**
10709776 TACATATTTT
1 TACATA-ACT
*
10709786 TA-ATTA-T
1 TACATAACT
*
10709793 T-CATAAAT
1 TACATAACT
10709801 TACATAACT
1 TACATAACT
*
10709810 TACATAATT
1 TACATAACT
*
10709819 TTCATAA--
1 TACATAACT
*
10709826 TAAATAACT
1 TACATAACT
10709835 TACATAA--
1 TACATAACT
10709842 TACATAACT
1 TACATAACT
10709851 TAC
1 TAC
10709854 GTAGCTTAAT
Statistics
Matches: 73, Mismatches: 11, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
7 24 0.33
8 2 0.03
9 44 0.60
10 3 0.04
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.39
Consensus pattern (9 bp):
TACATAACT
Found at i:10709783 original size:34 final size:33
Alignment explanation
Indices: 10709708--10709783 Score: 82
Period size: 34 Copynumber: 2.2 Consensus size: 33
10709698 ATAACATACA
* * *
10709708 TTAATATTATACATAAATTACGTAACTTAGTTAT
1 TTAATATTATACATAAATTACG-AACTTAATAAC
*
10709742 TTAATATTATACATAACTTAC-AACTTACATAAC
1 TTAATATTATACATAAATTACGAACTTA-ATAAC
10709775 TTACATATT
1 TTA-ATATT
10709784 TTTAATTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
32 6 0.17
33 5 0.14
34 25 0.69
ACGTcount: A:0.42, C:0.13, G:0.03, T:0.42
Consensus pattern (33 bp):
TTAATATTATACATAAATTACGAACTTAATAAC
Found at i:10709838 original size:34 final size:34
Alignment explanation
Indices: 10709763--10709848 Score: 104
Period size: 34 Copynumber: 2.6 Consensus size: 34
10709753 CATAACTTAC
* * **
10709763 AACTTACATAACTTACATATTTTTAATTATTCAT
1 AACTTACATAACTTACATAATTTTAATAATAAAT
* *
10709797 AAATTACATAACTTACATAATTTTCATAATAAAT
1 AACTTACATAACTTACATAATTTTAATAATAAAT
10709831 AACTTACATAA--TACATAA
1 AACTTACATAACTTACATAA
10709849 CTTACGTAGC
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
32 7 0.16
34 38 0.84
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.40
Consensus pattern (34 bp):
AACTTACATAACTTACATAATTTTAATAATAAAT
Found at i:10709840 original size:16 final size:16
Alignment explanation
Indices: 10709821--10709853 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
10709811 ACATAATTTT
10709821 CATAATAAATAACTTA
1 CATAATAAATAACTTA
*
10709837 CATAATACATAACTTA
1 CATAATAAATAACTTA
10709853 C
1 C
10709854 GTAGCTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.18, G:0.00, T:0.30
Consensus pattern (16 bp):
CATAATAAATAACTTA
Found at i:10709864 original size:305 final size:303
Alignment explanation
Indices: 10709152--10709865 Score: 908
Period size: 305 Copynumber: 2.3 Consensus size: 303
10709142 ATATAAGATA
* ** * * *
10709152 TTACATAACTTACAT-TAGTTAA-TATACATAAATTACATAACTTAGTTAATTAAT-ATTATACA
1 TTACATAACTTACATATAATTAATTATACATAAATTACATAACTTACATAATT-TTCATAATAAA
10709214 TAACTTACATTAATATTATACATAAATTACATAACTTAATTAGTTAATACACATAAATTACATAA
65 TAACTTAC----ATA--ATACATAAATTACATAACTTAATTAGTTAATACACATAAATTACATAA
10709279 CATACATTAATATTATACATAAATTACATAACTTAGTTATTTAATATTATACATAACTTACATTA
124 CATACATTAATATTATACATAAATTACATAACTTAGTTATTTAATATTATACATAACTTACATTA
* *
10709344 ATATTATACATAAATTACATAACTTAATTAGTTAATATACATAAATTACATAACATAATTAGTTA
189 ATATTATACATAAATTACATAACTTAATTAGTTAATACACATAAATTACATAACATAATTAGATA
10709409 ATATACATAAATTACATAACTTAATTAGTTACTATACATAAATTACATAAC
254 ATATACATAAATTACATAACTTAATTAGTTACTATACATAAATTACA-AAC
* * * ** * * *
10709460 TTA-ATTAGTTA-ATATACATAAATTACATAACAT-AATTAGTTAATTATACATAAATTACATAA
1 TTACATAACTTACATATA-ATTAATT--AT-ACATAAATTACATAACT-TACATAATTTTCATAA
* * * *
10709522 CTTAATTAGTTAC-T-ATACATAAATTACATAACTTAATTAGTTAATATACATAAATTACATAAC
61 -TAAATAACTTACATAATACATAAATTACATAACTTAATTAGTTAATACACATAAATTACATAAC
10709585 ATACATTAATATTATACATAAATTACATAACTTAGTTATTTAATATTATACATAACTTACATTAA
125 ATACATTAATATTATACATAAATTACATAACTTAGTTATTTAATATTATACATAACTTACATTAA
10709650 TATTATACATAAATTACATAACTTAATTAGTTAATACACATAAATTACATAACATACATTA-ATA
190 TATTATACATAAATTACATAACTTAATTAGTTAATACACATAAATTACATAACATA-ATTAGATA
* * * * * *
10709714 TTATACATAAATTACGTAACTTAGTTATTTAATATTATACATAACTTAC-AAC
254 ATATACATAAATTACATAACTTAATTA-GT--TACTATACATAAATTACAAAC
** *
10709766 TTACATAACTTACATATTTTTAATTATTCATAAATTACATAACTTACATAATTTTCATAATAAAT
1 TTACATAACTTACATATAATTAATTATACATAAATTACATAACTTACATAATTTTCATAATAAAT
* * *
10709831 AACTTACATAATACATAACTTACGTAGCTTAATTA
66 AACTTACATAATACATAAATTACATAACTTAATTA
10709866 TACTTATTCC
Statistics
Matches: 345, Mismatches: 43, Indels: 39
0.81 0.10 0.09
Matches are distributed among these distances:
303 9 0.03
304 18 0.05
305 227 0.66
306 13 0.04
307 19 0.06
308 26 0.08
309 1 0.00
311 11 0.03
312 13 0.04
313 8 0.02
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.39
Consensus pattern (303 bp):
TTACATAACTTACATATAATTAATTATACATAAATTACATAACTTACATAATTTTCATAATAAAT
AACTTACATAATACATAAATTACATAACTTAATTAGTTAATACACATAAATTACATAACATACAT
TAATATTATACATAAATTACATAACTTAGTTATTTAATATTATACATAACTTACATTAATATTAT
ACATAAATTACATAACTTAATTAGTTAATACACATAAATTACATAACATAATTAGATAATATACA
TAAATTACATAACTTAATTAGTTACTATACATAAATTACAAAC
Found at i:10715349 original size:66 final size:65
Alignment explanation
Indices: 10715243--10715397 Score: 204
Period size: 66 Copynumber: 2.4 Consensus size: 65
10715233 AGCAAATTAC
* * * *
10715243 ACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCAG
1 ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCAG
10715307 CT
65 -T
* *
10715309 ACAACTGAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCAGT
1 ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAGT
* *
10715374 AGCAGCTTAAAGCAGATGCGGCAG
1 A-CAACTTAAAGCAGATGCAGCAG
10715398 TAAGAGAAAC
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
65 2 0.03
66 72 0.92
67 4 0.05
ACGTcount: A:0.40, C:0.19, G:0.27, T:0.14
Consensus pattern (65 bp):
ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAGT
Found at i:10715424 original size:21 final size:21
Alignment explanation
Indices: 10715386--10715426 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
10715376 CAGCTTAAAG
* *
10715386 CAGATGCGGCAGTAAGAGAAA
1 CAGAGGCGGCAGCAAGAGAAA
*
10715407 CAGAGGCGGCAGCGAGAGAA
1 CAGAGGCGGCAGCAAGAGAA
10715427 GTACAGGCTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.39, C:0.17, G:0.39, T:0.05
Consensus pattern (21 bp):
CAGAGGCGGCAGCAAGAGAAA
Found at i:10715454 original size:42 final size:42
Alignment explanation
Indices: 10715407--10715495 Score: 115
Period size: 42 Copynumber: 2.1 Consensus size: 42
10715397 GTAAGAGAAA
** * *
10715407 CAGAGGCGGCAGCGAGAGAAGTACAGGCTACAGCGAGGGAAG
1 CAGAGGCGAAAGCGAGAGAAGCACAGGCTAAAGCGAGGGAAG
* * *
10715449 CAGAGGCTAAAGCGAGGGAAGCAGAGGCTAAAGCGAGGGAAG
1 CAGAGGCGAAAGCGAGAGAAGCACAGGCTAAAGCGAGGGAAG
10715491 CAGAG
1 CAGAG
10715496 CAACGTCAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.36, C:0.17, G:0.43, T:0.04
Consensus pattern (42 bp):
CAGAGGCGAAAGCGAGAGAAGCACAGGCTAAAGCGAGGGAAG
Found at i:10715455 original size:21 final size:21
Alignment explanation
Indices: 10715417--10715495 Score: 122
Period size: 21 Copynumber: 3.8 Consensus size: 21
10715407 CAGAGGCGGC
* * * *
10715417 AGCGAGAGAAGTACAGGCTAC
1 AGCGAGGGAAGCAGAGGCTAA
10715438 AGCGAGGGAAGCAGAGGCTAA
1 AGCGAGGGAAGCAGAGGCTAA
10715459 AGCGAGGGAAGCAGAGGCTAA
1 AGCGAGGGAAGCAGAGGCTAA
10715480 AGCGAGGGAAGCAGAG
1 AGCGAGGGAAGCAGAG
10715496 CAACGTCAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 54 1.00
ACGTcount: A:0.38, C:0.15, G:0.42, T:0.05
Consensus pattern (21 bp):
AGCGAGGGAAGCAGAGGCTAA
Found at i:10715903 original size:43 final size:43
Alignment explanation
Indices: 10715850--10716201 Score: 263
Period size: 43 Copynumber: 8.2 Consensus size: 43
10715840 TGGTGGCCTT
* *
10715850 TTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTC
1 TTTAGCGGCGTTTTTGGTCAAAGCGCCGCTAAAGATCAGGGTC
* ** * * *
10715893 TTTAGCGGCGTTTGTGGAAAAAGTGCCACTAAAGATCATGGTC
1 TTTAGCGGCGTTTTTGGTCAAAGCGCCGCTAAAGATCAGGGTC
* *
10715936 TTTAGCGGCGTTTGTGAG--AAAGCGCCGCTAAAGATCAGAGTC
1 TTTAGCGGCGTTTTTG-GTCAAAGCGCCGCTAAAGATCAGGGTC
* ** *
10715978 TATT-GCGGCGTTTTAGGGGAAAGCGCCGCTAAAGAAT-A-AGTC
1 T-TTAGCGGCGTTTTTGGTCAAAGCGCCGCTAAAG-ATCAGGGTC
* *
10716020 TTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGAAT-AGGTTC
1 TTTAGCGGCGTTTTTGGTCAAAGCGCCGCTAAAG-ATCAGGGTC
* * * *
10716063 TTTAGTGGCGTTTGTGGT-ATAAACGCCGCTATAGATCAGGGTC
1 TTTAGCGGCGTTTTTGGTCA-AAGCGCCGCTAAAGATCAGGGTC
* * * * * * * ** *
10716106 TATT-GCGACGTTTTAGATAAAAACGCCTCTAAAGACCCTGATC
1 T-TTAGCGGCGTTTTTGGTCAAAGCGCCGCTAAAGATCAGGGTC
* ** * *
10716149 TTTAGCGGCGCTTTT-CCCAAAAACGTCGCTAAAGATCAGGGTC
1 TTTAGCGGCGTTTTTGGTC-AAAGCGCCGCTAAAGATCAGGGTC
10716192 TTTAGCGGCG
1 TTTAGCGGCG
10716202 CTTAAACTAA
Statistics
Matches: 249, Mismatches: 47, Indels: 26
0.77 0.15 0.08
Matches are distributed among these distances:
41 3 0.01
42 71 0.29
43 169 0.68
44 6 0.02
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.28
Consensus pattern (43 bp):
TTTAGCGGCGTTTTTGGTCAAAGCGCCGCTAAAGATCAGGGTC
Found at i:10716090 original size:85 final size:83
Alignment explanation
Indices: 10715850--10716100 Score: 253
Period size: 85 Copynumber: 2.9 Consensus size: 83
10715840 TGGTGGCCTT
10715850 TTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAAAAA
1 TTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAA-GGTCTTTAGCGGCGTTTGTGG-AAAA
* * *
10715915 GTGCCACTAAAGATCATGGTC
64 -CGCCGCTAAAGATCATAGTC
* * * *
10715936 TTTAGCGGCGTTTGTGAG--AAAGCGCCGCTAAAGATCAGAGTCTATT-GCGGCGTTTTAGGGGA
1 TTTAGTGGCGTTTTTG-GTCAAAGCGCCGCTAAAGATAAG-GTCT-TTAGCGGCG-TTT-GTGGA
*
10715998 AAGCGCCGCTAAAGA--ATAAGTC
61 AAACGCCGCTAAAGATCAT-AGTC
*
10716020 TTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGA-ATAGGTTCTTTAGTGGCGTTTGTGGTATA
1 TTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATA-AGG-TCTTTAGCGGCGTTTGTGG-A-A
*
10716084 AACGCCGCTATAGATCA
62 AACGCCGCTAAAGATCA
10716101 GGGTCTATTG
Statistics
Matches: 135, Mismatches: 15, Indels: 29
0.75 0.08 0.16
Matches are distributed among these distances:
83 6 0.04
84 25 0.19
85 77 0.57
86 22 0.16
87 5 0.04
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (83 bp):
TTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGTCTTTAGCGGCGTTTGTGGAAAACG
CCGCTAAAGATCATAGTC
Found at i:10721302 original size:22 final size:21
Alignment explanation
Indices: 10721276--10721322 Score: 71
Period size: 19 Copynumber: 2.3 Consensus size: 21
10721266 AATAGATATG
10721276 TTAAAAAATCATAATAATTA-
1 TTAAAAAATCATAATAATTAT
*
10721296 TT-ATAAATCATAATAATTAT
1 TTAAAAAATCATAATAATTAT
10721316 TTAAAAA
1 TTAAAAA
10721323 TTTTAAAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 16 0.70
20 4 0.17
21 3 0.13
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.38
Consensus pattern (21 bp):
TTAAAAAATCATAATAATTAT
Found at i:10722012 original size:20 final size:20
Alignment explanation
Indices: 10721989--10722028 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
10721979 AATATTTTTT
10721989 TTTTTA-CAATTTTTCACAAA
1 TTTTTATCAATTTTT-ACAAA
*
10722009 TTTTTATGAATTTTTACAAA
1 TTTTTATCAATTTTTACAAA
10722029 GCTAGGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (20 bp):
TTTTTATCAATTTTTACAAA
Found at i:10722595 original size:16 final size:16
Alignment explanation
Indices: 10722574--10722610 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
10722564 TTAGTTCGCT
10722574 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
10722590 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
10722606 GTAAT
1 GTAAT
10722611 AGGTAATTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.35, T:0.22
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:10722643 original size:46 final size:44
Alignment explanation
Indices: 10722590--10722680 Score: 148
Period size: 46 Copynumber: 2.0 Consensus size: 44
10722580 GAATAGAGGC
10722590 GTAATGGAATAGAGGCGTAATAGGTAATTCTTT-TGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAAT-GGT-ATT-TTTGTGTTTGGTTGAAT
10722636 GTAATGGAATAGAGGCGTAATGGTATTTTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATGGTATTTTTGTGTTTGGTTGAAT
10722680 G
1 G
10722681 GAATAGAGGT
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
43 3 0.07
44 17 0.39
45 3 0.07
46 21 0.48
ACGTcount: A:0.26, C:0.03, G:0.31, T:0.40
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATGGTATTTTTGTGTTTGGTTGAAT
Found at i:10722859 original size:15 final size:15
Alignment explanation
Indices: 10722839--10722877 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 15
10722829 CATAATTGTT
10722839 ATAAAATATAATTTA
1 ATAAAATATAATTTA
10722854 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
10722871 ATAAAAT
1 ATAAAAT
10722878 TGTTAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.18
16 6 0.27
17 12 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAAAATATAATTTA
Found at i:10722884 original size:17 final size:17
Alignment explanation
Indices: 10722844--10722877 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
10722834 TTGTTATAAA
10722844 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
10722861 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
10722878 TGTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:10722889 original size:43 final size:43
Alignment explanation
Indices: 10722832--10723007 Score: 141
Period size: 43 Copynumber: 4.4 Consensus size: 43
10722822 ATTTTAACAT
10722832 AATTGTT-ATAAAATATAATTTAATAAAATATATAATTTAATAA
1 AATTGTTAAT-AAATATAATTTAATAAAATATATAATTTAATAA
* *
10722875 AATTGTTAATAAATAT--TCTT-ATATGAAT-T-T-A-CTAATAA
1 AATTGTTAATAAATATAAT-TTAATA-AAATATATAATTTAATAA
** *
10722913 AA-TCATAAT--ATATAA--TACT-AAA-ATATAATTTAA-AA
1 AATTGTTAATAAATATAATTTAATAAAATATATAATTTAATAA
* *
10722948 TAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAA
1 -AATTGTTAATAAATATAATTTAATAAAATATATAATTTAATAA
10722992 AATTGTTAATAAATAT
1 AATTGTTAATAAATAT
10723008 TCTTATATGA
Statistics
Matches: 101, Mismatches: 13, Indels: 38
0.66 0.09 0.25
Matches are distributed among these distances:
33 3 0.03
34 2 0.02
35 8 0.08
36 5 0.05
37 9 0.09
38 8 0.08
39 7 0.07
40 1 0.01
41 8 0.08
42 8 0.08
43 38 0.38
44 4 0.04
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (43 bp):
AATTGTTAATAAATATAATTTAATAAAATATATAATTTAATAA
Found at i:10722949 original size:20 final size:21
Alignment explanation
Indices: 10722910--10722949 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
10722900 AATTTACTAA
*
10722910 TAAAATCATAATATATAATAC
1 TAAAATCATAATATAAAATAC
*
10722931 TAAAAT-ATAATTTAAAATA
1 TAAAATCATAATATAAAATA
10722950 ATTATTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATCATAATATAAAATAC
Found at i:10722965 original size:117 final size:117
Alignment explanation
Indices: 10722824--10723195 Score: 579
Period size: 117 Copynumber: 3.3 Consensus size: 117
10722814 TTAATCATAT
* * *
10722824 TTTAACATAATTGTTATAAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
10722889 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
66 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
10722941 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
10723006 ATTCTTATATGAATTTACTAAT-AAATCATAATATATAATACTAAAATATAA
66 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
* * *
10723057 TTTAAAATAATAATTATTAAATATAATTTAATAATAATAGATAATTTAATAAAA---TT-CT---
1 TTTAAAATAATTATTATTAAATATAATTTAATAA-AATATATAATTTAATAAAATTGTTAATAAA
10723115 TATTCTTATATGAATTTAC---TAAAATCATAATATATAATACTATAAAATATAA
65 TATTCTTATATGAATTTACTAATAAAATCATAATATATAATAC--TAAAATATAA
10723167 TTT-AAATAATTATTATTAAATATAATTTA
1 TTTAAAATAATTATTATTAAATATAATTTA
10723196 TAATCTACTT
Statistics
Matches: 244, Mismatches: 7, Indels: 16
0.91 0.03 0.06
Matches are distributed among these distances:
107 1 0.00
108 19 0.08
109 25 0.10
110 32 0.13
113 1 0.00
114 2 0.01
116 62 0.25
117 102 0.42
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (117 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
Found at i:10723001 original size:17 final size:17
Alignment explanation
Indices: 10722961--10722994 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
10722951 TTATTATTAA
10722961 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
10722978 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
10722995 TGTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:10723084 original size:13 final size:12
Alignment explanation
Indices: 10723047--10723092 Score: 56
Period size: 13 Copynumber: 3.6 Consensus size: 12
10723037 TATATAATAC
10723047 TAAAATATAATT
1 TAAAATATAATT
10723059 TAAAATAATAATT
1 TAAAAT-ATAATT
*
10723072 ATTAAATATAATT
1 -TAAAATATAATT
10723085 TAATAATA
1 TAA-AATA
10723093 ATAGATAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 8 0.28
13 16 0.55
14 5 0.17
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAAATATAATT
Found at i:10723191 original size:32 final size:32
Alignment explanation
Indices: 10723155--10723219 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
10723145 TATATAATAC
*
10723155 TATAAAATATAATTTAAATAATTATTATTAAA
1 TATAAAATATAATCTAAATAATTATTATTAAA
** ** *
10723187 TATAATTTATAATCTACTTTATTATTATTAAA
1 TATAAAATATAATCTAAATAATTATTATTAAA
10723219 T
1 T
10723220 TGCAATACAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (32 bp):
TATAAAATATAATCTAAATAATTATTATTAAA
Found at i:10727752 original size:26 final size:26
Alignment explanation
Indices: 10727723--10727772 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
10727713 CGTAAAATAC
10727723 TGCAGCTAATACCAATGACAAAAACA
1 TGCAGCTAATACCAATGACAAAAACA
*
10727749 TGCAGCTAATATCAATGACAAAAA
1 TGCAGCTAATACCAATGACAAAAA
10727773 TAAATGCCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.50, C:0.20, G:0.12, T:0.18
Consensus pattern (26 bp):
TGCAGCTAATACCAATGACAAAAACA
Found at i:10728755 original size:23 final size:22
Alignment explanation
Indices: 10728711--10728755 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
10728701 ATAAAAAATC
*
10728711 TATTTAAAAAAAGGTCAAATTT
1 TATTTAAAAAAAGGTAAAATTT
10728733 TATTTAAAATAAAGG-AAATATTT
1 TATTTAAAA-AAAGGTAAA-ATTT
10728756 CCACTTTGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.38
Consensus pattern (22 bp):
TATTTAAAAAAAGGTAAAATTT
Found at i:10732507 original size:20 final size:20
Alignment explanation
Indices: 10732465--10732508 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
10732455 TCAAACAATA
*
10732465 ATTCAAATAATATTATAACT
1 ATTCAAATAATATTAGAACT
*
10732485 ATTCAAATATTATTCAGAA-T
1 ATTCAAATAATATT-AGAACT
10732505 ATTC
1 ATTC
10732509 TTTGGCATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.45, C:0.11, G:0.02, T:0.41
Consensus pattern (20 bp):
ATTCAAATAATATTAGAACT
Found at i:10732602 original size:23 final size:23
Alignment explanation
Indices: 10732501--10732602 Score: 102
Period size: 23 Copynumber: 4.5 Consensus size: 23
10732491 ATATTATTCA
*
10732501 GAATATTCTTTGGCATGAGTAGT
1 GAATATTCTCTGGCATGAGTAGT
** ** *
10732524 AGAA-A-TCTCTGGCAAAAACAAT
1 -GAATATTCTCTGGCATGAGTAGT
* *
10732546 -AAGATTCTCTAGCATGAGTAGT
1 GAATATTCTCTGGCATGAGTAGT
10732568 GAATATTCTCTGGCATGAGTAGT
1 GAATATTCTCTGGCATGAGTAGT
10732591 GAATATTCTCTG
1 GAATATTCTCTG
10732603 TATTTTTGTA
Statistics
Matches: 61, Mismatches: 14, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
20 2 0.03
21 1 0.02
22 22 0.36
23 33 0.54
24 3 0.05
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (23 bp):
GAATATTCTCTGGCATGAGTAGT
Found at i:10732797 original size:15 final size:15
Alignment explanation
Indices: 10732779--10732814 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
10732769 CTCGTTTCTC
10732779 CAAATTTTAAGTTTT
1 CAAATTTTAAGTTTT
*
10732794 CAAAATTTAAGTTTT
1 CAAATTTTAAGTTTT
*
10732809 TAAATT
1 CAAATT
10732815 ATTTTCCTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.50
Consensus pattern (15 bp):
CAAATTTTAAGTTTT
Found at i:10736181 original size:15 final size:15
Alignment explanation
Indices: 10736161--10736191 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
10736151 ACATCTATCG
10736161 AAATAGATGAATTAC
1 AAATAGATGAATTAC
10736176 AAATAGATGAATTAC
1 AAATAGATGAATTAC
10736191 A
1 A
10736192 TACTACATCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.06, G:0.13, T:0.26
Consensus pattern (15 bp):
AAATAGATGAATTAC
Found at i:10741471 original size:11 final size:11
Alignment explanation
Indices: 10741441--10741473 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
10741431 TTGATATGTT
10741441 AGTGAAGAGAA
1 AGTGAAGAGAA
*
10741452 AAT-AAGAGAA
1 AGTGAAGAGAA
10741462 AGTGAAGAGAA
1 AGTGAAGAGAA
10741473 A
1 A
10741474 TAGTGTAGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.61, C:0.00, G:0.30, T:0.09
Consensus pattern (11 bp):
AGTGAAGAGAA
Found at i:10743444 original size:138 final size:141
Alignment explanation
Indices: 10743270--10743559 Score: 523
Period size: 138 Copynumber: 2.1 Consensus size: 141
10743260 GCCATTGGAT
10743270 TCTAAAAAATCCAACAATATTATGAAAACATACTGGTTCAAACACTATATAGACCCAAAAGATCC
1 TCTAAAAAATCCAACAATATTATGAAAACATACTGGTTCAAACACTATATAGACCCAAAAGATCC
10743335 AAATTTTATTACCCATTCAACAGCCCAAATATTAAAAATTCTTTGACC-AAAGGATTAGG-TGAA
66 AAATTTTATTACCCATTCAACAGCCCAAATATTAAAAATTCTTTGACCAAAAGGATTAGGATGAA
10743398 AACCCAAATTC
131 AACCCAAATTC
* *
10743409 TCTAAAACA-CCAGCAATATTATGAAAACATACTGGTTCAAACACTATATAGACCCAAAAGATCC
1 TCTAAAAAATCCAACAATATTATGAAAACATACTGGTTCAAACACTATATAGACCCAAAAGATCC
*
10743473 AAATTTTATTACCCATTCAACAGCCCAAATATTAAAAATTCTTTGACCAAAAGGATTGGGATGAA
66 AAATTTTATTACCCATTCAACAGCCCAAATATTAAAAATTCTTTGACCAAAAGGATTAGGATGAA
10743538 AACCCAAATTC
131 AACCCAAATTC
10743549 TCTAAAGAAAT
1 TCTAAA-AAAT
10743560 TTCTAGCCAA
Statistics
Matches: 143, Mismatches: 4, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
138 102 0.71
139 18 0.13
140 21 0.15
141 2 0.01
ACGTcount: A:0.44, C:0.21, G:0.09, T:0.26
Consensus pattern (141 bp):
TCTAAAAAATCCAACAATATTATGAAAACATACTGGTTCAAACACTATATAGACCCAAAAGATCC
AAATTTTATTACCCATTCAACAGCCCAAATATTAAAAATTCTTTGACCAAAAGGATTAGGATGAA
AACCCAAATTC
Found at i:10744384 original size:23 final size:23
Alignment explanation
Indices: 10744358--10744415 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
10744348 AGTGAACAGG
10744358 AAATATTCTCTGGCATGAATAGT
1 AAATATTCTCTGGCATGAATAGT
* *
10744381 AAATATTCTCTGGTATGAGTAGT
1 AAATATTCTCTGGCATGAATAGT
* *
10744404 GAGTATTCTCTG
1 AAATATTCTCTG
10744416 TAGTTTGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (23 bp):
AAATATTCTCTGGCATGAATAGT
Found at i:10745623 original size:22 final size:22
Alignment explanation
Indices: 10745577--10745624 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
10745567 TTTGTTAATT
*
10745577 TAAATTTAATTATAAAAACATA
1 TAAATTTAATTATAAAAACAAA
*
10745599 TAAATATTAA-TATAAAAATAAA
1 TAAAT-TTAATTATAAAAACAAA
10745621 TAAA
1 TAAA
10745625 AATTTCTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAATTTAATTATAAAAACAAA
Found at i:10747933 original size:36 final size:36
Alignment explanation
Indices: 10747882--10747962 Score: 126
Period size: 36 Copynumber: 2.2 Consensus size: 36
10747872 AAATGTGATA
* * *
10747882 TTAATATATTTTATATTTATTTAAGTTTTGTTCGGT
1 TTAAAATATTTTATATTTATTCAAGTTTTATTCGGT
*
10747918 TTAAAATATTTTATATTTGTTCAAGTTTTATTCGGT
1 TTAAAATATTTTATATTTATTCAAGTTTTATTCGGT
10747954 TTAAAATAT
1 TTAAAATAT
10747963 GAGTTTAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.30, C:0.04, G:0.10, T:0.57
Consensus pattern (36 bp):
TTAAAATATTTTATATTTATTCAAGTTTTATTCGGT
Found at i:10748062 original size:27 final size:27
Alignment explanation
Indices: 10748031--10748093 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
10748021 TTACTTCCCC
*
10748031 ATATTATTTTTTAT-TTTGAAAATATTT
1 ATATTATTTTTAATATTT-AAAATATTT
* *
10748058 ATATTATATTTAATATTTAAAATTTTT
1 ATATTATTTTTAATATTTAAAATATTT
10748085 ATA-TATTTT
1 ATATTATTTT
10748094 CATTTATTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
26 5 0.16
27 23 0.74
28 3 0.10
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (27 bp):
ATATTATTTTTAATATTTAAAATATTT
Found at i:10754156 original size:3 final size:3
Alignment explanation
Indices: 10754150--10754174 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
10754140 AAGTTAAAAA
10754150 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
10754175 TTATATGGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:10758774 original size:15 final size:14
Alignment explanation
Indices: 10758753--10758788 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
10758743 ATAATCCTTA
*
10758753 ATAATTATCTTAAT
1 ATAATTATCCTAAT
10758767 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
10758782 ATAATTA
1 ATAATTA
10758789 AAATAGAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:10759665 original size:30 final size:30
Alignment explanation
Indices: 10759631--10759693 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
10759621 ACTTATTTTA
10759631 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* * *
10759661 TTGTTAATTTTGTTATTCTTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
10759691 TTG
1 TTG
10759694 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.24, C:0.05, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:10759793 original size:18 final size:18
Alignment explanation
Indices: 10759772--10759811 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
10759762 GAAATATTTA
*
10759772 TTTTGATGT-TTTTAGTAT
1 TTTTGATGTATTATA-TAT
10759790 TTTTGATGTATTATATAT
1 TTTTGATGTATTATATAT
10759808 TTTT
1 TTTT
10759812 TAAAATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.20, C:0.00, G:0.12, T:0.68
Consensus pattern (18 bp):
TTTTGATGTATTATATAT
Found at i:10760091 original size:31 final size:31
Alignment explanation
Indices: 10760056--10760136 Score: 162
Period size: 31 Copynumber: 2.6 Consensus size: 31
10760046 ATCTCAAAAT
10760056 TATACATGAACTTTAATTTAATGTACAATTC
1 TATACATGAACTTTAATTTAATGTACAATTC
10760087 TATACATGAACTTTAATTTAATGTACAATTC
1 TATACATGAACTTTAATTTAATGTACAATTC
10760118 TATACATGAACTTTAATTT
1 TATACATGAACTTTAATTT
10760137 GGTGCAATTA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 50 1.00
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.43
Consensus pattern (31 bp):
TATACATGAACTTTAATTTAATGTACAATTC
Found at i:10761719 original size:26 final size:26
Alignment explanation
Indices: 10761688--10761757 Score: 99
Period size: 25 Copynumber: 2.7 Consensus size: 26
10761678 AACATTATCC
10761688 GGTTGCTAACACTAGCTTCGGATT-AA
1 GGTTGCTAACACTAGCTTCGG-TTCAA
10761714 GGTTGCTAACACTAGCTT-GGTTCAA
1 GGTTGCTAACACTAGCTTCGGTTCAA
* *
10761739 TGCTGCTAACACTAGCTTC
1 GGTTGCTAACACTAGCTTC
10761758 AGAGAATCCG
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
24 2 0.05
25 20 0.50
26 18 0.45
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.31
Consensus pattern (26 bp):
GGTTGCTAACACTAGCTTCGGTTCAA
Found at i:10762834 original size:10 final size:10
Alignment explanation
Indices: 10762819--10762848 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
10762809 ACTTGGATTA
10762819 AATTATAATT
1 AATTATAATT
10762829 AATTATAATT
1 AATTATAATT
*
10762839 AACTATAATT
1 AATTATAATT
10762849 GACTAACGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (10 bp):
AATTATAATT
Found at i:10773885 original size:18 final size:18
Alignment explanation
Indices: 10773864--10773914 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 18
10773854 AAAAAATAAG
10773864 AAAATATAT-TAAAAATT
1 AAAATATATATAAAAATT
* * *
10773881 AAAA-AAATCTCAAAATT
1 AAAATATATATAAAAATT
*
10773898 AAAATGTATATAAAAAT
1 AAAATATATATAAAAAT
10773915 ACACCAATAG
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
16 3 0.12
17 15 0.58
18 8 0.31
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (18 bp):
AAAATATATATAAAAATT
Found at i:10775131 original size:18 final size:17
Alignment explanation
Indices: 10775108--10775146 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
10775098 GAAAACATAT
*
10775108 AACCATTCCCACTATTTC
1 AACCATT-CAACTATTTC
*
10775126 AACCATTTAACTATTTC
1 AACCATTCAACTATTTC
10775143 AACC
1 AACC
10775147 TACTTATATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (17 bp):
AACCATTCAACTATTTC
Found at i:10777880 original size:9 final size:9
Alignment explanation
Indices: 10777862--10777901 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
10777852 CTAACTTGAA
10777862 TTTTAGATTT
1 TTTTA-ATTT
10777872 TTTTAATTT
1 TTTTAATTT
* *
10777881 TTGTAATAT
1 TTTTAATTT
10777890 TTTTAATTT
1 TTTTAATTT
10777899 TTT
1 TTT
10777902 AGATATATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
9 21 0.81
10 5 0.19
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (9 bp):
TTTTAATTT
Found at i:10777907 original size:18 final size:18
Alignment explanation
Indices: 10777862--10777907 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
10777852 CTAACTTGAA
*
10777862 TTTTAGATTTTTTTAATT
1 TTTTAGATATTTTTAATT
10777880 TTTGTA-ATATTTTTAATT
1 TTT-TAGATATTTTTAATT
10777898 TTTTAGATAT
1 TTTTAGATAT
10777908 ATATTTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 2 0.08
18 21 0.84
19 2 0.08
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (18 bp):
TTTTAGATATTTTTAATT
Found at i:10784732 original size:12 final size:12
Alignment explanation
Indices: 10784708--10784744 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
10784698 TAAATAAACC
*
10784708 AAAT-ATAAAAA
1 AAATAATAATAA
10784719 AAATAATAATAA
1 AAATAATAATAA
10784731 AAATAA-AATAA
1 AAATAATAATAA
10784742 AAA
1 AAA
10784745 AGTTATCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 12 0.50
12 12 0.50
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (12 bp):
AAATAATAATAA
Found at i:10784738 original size:17 final size:17
Alignment explanation
Indices: 10784709--10784741 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
10784699 AAATAAACCA
10784709 AATATAAAAAAAATAAT
1 AATATAAAAAAAATAAT
10784726 AATA-AAAATAAAATAA
1 AATATAAAA-AAAATAA
10784742 AAAAGTTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (17 bp):
AATATAAAAAAAATAAT
Found at i:10785133 original size:14 final size:14
Alignment explanation
Indices: 10785114--10785141 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
10785104 AGGCAGCAAA
10785114 AAAAACAGAAATAG
1 AAAAACAGAAATAG
10785128 AAAAACAGAAATAG
1 AAAAACAGAAATAG
10785142 CAGAGAGGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.07, G:0.14, T:0.07
Consensus pattern (14 bp):
AAAAACAGAAATAG
Found at i:10786071 original size:40 final size:41
Alignment explanation
Indices: 10786015--10786114 Score: 123
Period size: 39 Copynumber: 2.5 Consensus size: 41
10786005 ATTTTTTTAA
* * *
10786015 TTTTAAAATATTTTTTTTAAAATTTTTAAAATTTT-TAATTT
1 TTTTAAAATA-CTTTTTTAAAATTTTTAAAATTTTAAAATAT
* **
10786056 TTTTAAAATAC-TTTTTAAATTTTTTTTAATTTTAAAATAT
1 TTTTAAAATACTTTTTTAAAATTTTTAAAATTTTAAAATAT
10786096 TTTTAAAATACTTTTTTAA
1 TTTTAAAATACTTTTTTAA
10786115 TTTTTGTTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
39 19 0.37
40 15 0.29
41 17 0.33
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (41 bp):
TTTTAAAATACTTTTTTAAAATTTTTAAAATTTTAAAATAT
Found at i:10786090 original size:17 final size:17
Alignment explanation
Indices: 10786068--10786101 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10786058 TTAAAATACT
* *
10786068 TTTTAAATTTTTTTTAA
1 TTTTAAAATATTTTTAA
10786085 TTTTAAAATATTTTTAA
1 TTTTAAAATATTTTTAA
10786102 AATACTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:10786113 original size:41 final size:41
Alignment explanation
Indices: 10786015--10786137 Score: 142
Period size: 41 Copynumber: 3.0 Consensus size: 41
10786005 ATTTTTTTAA
* * ** * *
10786015 TTTTAAAATATTTTTTTTAAAATTTTTAAAATTTT-TAATTT
1 TTTTAAAATA-CTTTTTTAAATTTTTTTTAATTTTAAAATAT
10786056 TTTTAAAATAC-TTTTTAAATTTTTTTTAATTTTAAAATAT
1 TTTTAAAATACTTTTTTAAATTTTTTTTAATTTTAAAATAT
*
10786096 TTTTAAAATACTTTTTTAATTTTTGTTTTAATTTTTAAAATA
1 TTTTAAAATACTTTTTTAAATTTT-TTTTAA-TTTTAAAATA
10786138 AATTTTTTGT
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
39 19 0.27
40 15 0.21
41 21 0.30
42 6 0.08
43 10 0.14
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.62
Consensus pattern (41 bp):
TTTTAAAATACTTTTTTAAATTTTTTTTAATTTTAAAATAT
Found at i:10786117 original size:40 final size:40
Alignment explanation
Indices: 10786015--10786137 Score: 131
Period size: 40 Copynumber: 3.0 Consensus size: 40
10786005 ATTTTTTTAA
* * ** * *
10786015 TTTTAAAATATTTTTTTTAAAATTTTTAAAATTTT-TAATTT
1 TTTTAAAATA-CTTTTTT-AATTTTTTTTAATTTTAAAATAT
*
10786056 TTTTAAAATACTTTTTAAATTTTTTTTAATTTTAAAATAT
1 TTTTAAAATACTTTTTTAATTTTTTTTAATTTTAAAATAT
10786096 TTTTAAAATACTTTTTTAATTTTTGTTTTAATTTTTAAAATA
1 TTTTAAAATACTTTTTTAA-TTTT-TTTTAA-TTTTAAAATA
10786138 AATTTTTTGT
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
39 13 0.19
40 27 0.39
41 14 0.20
42 6 0.09
43 10 0.14
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.62
Consensus pattern (40 bp):
TTTTAAAATACTTTTTTAATTTTTTTTAATTTTAAAATAT
Found at i:10786472 original size:18 final size:19
Alignment explanation
Indices: 10786441--10786480 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
10786431 AATTATTTTC
**
10786441 ATTTTTATTGCTA-TTATT
1 ATTTTTATCACTATTTATT
10786459 ATTTTTATCACTATTTATT
1 ATTTTTATCACTATTTATT
10786478 ATT
1 ATT
10786481 GTTCTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.25, C:0.07, G:0.03, T:0.65
Consensus pattern (19 bp):
ATTTTTATCACTATTTATT
Found at i:10786628 original size:17 final size:17
Alignment explanation
Indices: 10786606--10786638 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
10786596 TATTATTTAA
10786606 TTTTTA-ACTATATATAT
1 TTTTTATAC-ATATATAT
10786623 TTTTTATACATATATA
1 TTTTTATACATATATA
10786639 ACTTTCATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTTTATACATATATAT
Found at i:10803023 original size:21 final size:20
Alignment explanation
Indices: 10802976--10803030 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
10802966 ACCATTGTTT
*
10802976 CTAATCTCACTGCTACAGTA
1 CTAATCTCACCGCTACAGTA
* *
10802996 TTCAATCTCACCGCTATAGTAA
1 CT-AATCTCACCGCTACAGT-A
10803018 CTAATCTCACCGC
1 CTAATCTCACCGC
10803031 CACCGCTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 1 0.03
21 26 0.90
22 2 0.07
ACGTcount: A:0.29, C:0.33, G:0.09, T:0.29
Consensus pattern (20 bp):
CTAATCTCACCGCTACAGTA
Found at i:10806426 original size:83 final size:82
Alignment explanation
Indices: 10806278--10806434 Score: 224
Period size: 83 Copynumber: 1.9 Consensus size: 82
10806268 TCATATACAG
* * * * *
10806278 AGACTTCAAAACTTCGAATATCTTGCTTGATTCGGTATGCAAACATGTTTAATTATTGAAATTTT
1 AGACTTCAAAACGTAGAATATCTTGCTTGATTCGGTATGCAAACATGCTTAAGTATCGAAATTTT
10806343 CATTGACTCTGTACATCA
66 CA-TGACTCTGTACATCA
* * * *
10806361 AGACTTTAAAACGTAGAATATCTTGCTTGATTTGGTCTGCAAACATGCTTAAGTATCGAAGTTTT
1 AGACTTCAAAACGTAGAATATCTTGCTTGATTCGGTATGCAAACATGCTTAAGTATCGAAATTTT
10806426 CATGACTCT
66 CATGACTCT
10806435 ATATCGAGCA
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
82 7 0.11
83 58 0.89
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.38
Consensus pattern (82 bp):
AGACTTCAAAACGTAGAATATCTTGCTTGATTCGGTATGCAAACATGCTTAAGTATCGAAATTTT
CATGACTCTGTACATCA
Found at i:10808141 original size:21 final size:21
Alignment explanation
Indices: 10808107--10808147 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
10808097 TTAATAATTT
*
10808107 TTAAAATTAAAAAATTAAAAA
1 TTAAAATTAAAAAAATAAAAA
**
10808128 TTAAAATTCTAAAAATAAAA
1 TTAAAATTAAAAAAATAAAA
10808148 GTAAAACAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (21 bp):
TTAAAATTAAAAAAATAAAAA
Found at i:10808702 original size:3 final size:3
Alignment explanation
Indices: 10808694--10808728 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
10808684 TACATGATGT
10808694 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
10808729 TGCAGCTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:10810913 original size:21 final size:21
Alignment explanation
Indices: 10810849--10810930 Score: 91
Period size: 21 Copynumber: 4.1 Consensus size: 21
10810839 CCACACGACG
*
10810849 CTGGTTCCCTCTGCTGTTACA
1 CTGGTTCCCTCTGCTGCTACA
* **
10810870 CT-G--CTCTCTGCT-CTTTA
1 CTGGTTCCCTCTGCTGCTACA
*
10810887 CTGGTTCCCTCTGCTGCTACG
1 CTGGTTCCCTCTGCTGCTACA
10810908 CTGGTTCCCTCTGCTGCTACA
1 CTGGTTCCCTCTGCTGCTACA
10810929 CT
1 CT
10810931 ACTCTCTGCT
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
17 4 0.08
18 9 0.19
20 9 0.19
21 26 0.54
ACGTcount: A:0.07, C:0.37, G:0.18, T:0.38
Consensus pattern (21 bp):
CTGGTTCCCTCTGCTGCTACA
Found at i:10812076 original size:13 final size:13
Alignment explanation
Indices: 10812058--10812084 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10812048 ATTTTTGTTC
10812058 ATGTATATAGTTA
1 ATGTATATAGTTA
10812071 ATGTATATAGTTA
1 ATGTATATAGTTA
10812084 A
1 A
10812085 ATTTTTGTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (13 bp):
ATGTATATAGTTA
Found at i:10812103 original size:24 final size:24
Alignment explanation
Indices: 10812071--10812167 Score: 90
Period size: 24 Copynumber: 3.8 Consensus size: 24
10812061 TATATAGTTA
10812071 ATGTATATAGTTAAATTTTTGTTC
1 ATGTATATAGTTAAATTTTTGTTC
10812095 ATGTATATAGTTAAATTTTT-TAT-
1 ATGTATATAGTTAAATTTTTGT-TC
* * *
10812118 ACTGTTTTTTGTTAATACTGTTTTTTGTTC
1 A-TGTATATAGTTAA-A----TTTTTGTTC
10812148 ATGTATATAGTTAAATTTTT
1 ATGTATATAGTTAAATTTTT
10812168 TATACATATG
Statistics
Matches: 58, Mismatches: 6, Indels: 18
0.71 0.07 0.22
Matches are distributed among these distances:
23 2 0.03
24 36 0.62
25 1 0.02
28 1 0.02
29 16 0.28
30 2 0.03
ACGTcount: A:0.27, C:0.04, G:0.11, T:0.58
Consensus pattern (24 bp):
ATGTATATAGTTAAATTTTTGTTC
Found at i:10812137 original size:16 final size:16
Alignment explanation
Indices: 10812116--10812146 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
10812106 TAAATTTTTT
10812116 ATACTGTTTTTTGTTA
1 ATACTGTTTTTTGTTA
10812132 ATACTGTTTTTTGTT
1 ATACTGTTTTTTGTT
10812147 CATGTATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.06, G:0.13, T:0.65
Consensus pattern (16 bp):
ATACTGTTTTTTGTTA
Found at i:10813480 original size:72 final size:72
Alignment explanation
Indices: 10813351--10813514 Score: 213
Period size: 72 Copynumber: 2.3 Consensus size: 72
10813341 CGAAGTATGT
* * * * * * **
10813351 TTTTATCAATAGTTATTTATGTTTAGTTTTTAGATATTGAACTTATGTTCTATTTATTTATGTGT
1 TTTTATTAATAGTTGTTTATGTTTAGTCTTTAGATATTGAACTTAGGTTCCACTTATTTATGACT
10813416 -AATCTAG
66 AAAT-TAG
* * *
10813423 TTTTATTAATAGTTGTTTATGTTTGGTCTTTAGATATTGAATTTAGGTTCCACTTATTTTTGACT
1 TTTTATTAATAGTTGTTTATGTTTAGTCTTTAGATATTGAACTTAGGTTCCACTTATTTATGACT
10813488 AAATTAG
66 AAATTAG
10813495 TTTTATTAATAGTTGTTTAT
1 TTTTATTAATAGTTGTTTAT
10813515 ATGTGATTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
72 77 0.96
73 3 0.04
ACGTcount: A:0.26, C:0.05, G:0.13, T:0.55
Consensus pattern (72 bp):
TTTTATTAATAGTTGTTTATGTTTAGTCTTTAGATATTGAACTTAGGTTCCACTTATTTATGACT
AAATTAG
Found at i:10817561 original size:28 final size:27
Alignment explanation
Indices: 10817510--10817567 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 27
10817500 ACGTAACTTC
*
10817510 AAATGTAAAAACCTTATGGTTTCATTA
1 AAATGTAAAAACCTTATGATTTCATTA
10817537 AAATGTAAAAA-CTTCAATGATTTCATTA
1 AAATGTAAAAACCTT--ATGATTTCATTA
10817565 AAA
1 AAA
10817568 CATAGCAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 3 0.11
27 11 0.39
28 14 0.50
ACGTcount: A:0.47, C:0.10, G:0.09, T:0.34
Consensus pattern (27 bp):
AAATGTAAAAACCTTATGATTTCATTA
Found at i:10818654 original size:25 final size:26
Alignment explanation
Indices: 10818607--10818659 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 26
10818597 TTTTTATTTT
*
10818607 AAAAATCTAAACTTTATCTTTTTAAAAA
1 AAAAATCAAAACTTTA--TTTTTAAAAA
10818635 AAAAATCAAAACTTTA-TTTTAAAAA
1 AAAAATCAAAACTTTATTTTTAAAAA
10818660 TTTGAACTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 9 0.38
28 15 0.62
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (26 bp):
AAAAATCAAAACTTTATTTTTAAAAA
Found at i:10818690 original size:99 final size:99
Alignment explanation
Indices: 10818534--10818744 Score: 309
Period size: 99 Copynumber: 2.1 Consensus size: 99
10818524 GAAAGAGTTG
* *
10818534 AAAAAGATCAAAAAGTTGTTTTAAAAAATTTAAACTTTTCCTTAAAAATGACTAAAAAACATATT
1 AAAAAAATCAAAAAGTTATTTTAAAAAATTTAAACTTTTCCTTAAAAATGACTAAAAAACATATT
10818599 TTTATTTTAAAAATCTAAACTTTATCTTTTTAAA
66 TTTATTTTAAAAATCTAAACTTTATCTTTTTAAA
** * **
10818633 AAAAAAATCAAAACTTTATTTT-AAAAATTTGAAC-TTTCCTTTGAAATGACTAAAAAAAACATA
1 AAAAAAATCAAAAAGTTATTTTAAAAAATTTAAACTTTTCCTTAAAAATGACT--AAAAAACATA
* *
10818696 TTTTTATTTTTAAAATCTAAACTTTCTCTTTTTAAA
64 TTTTTATTTTAAAAATCTAAACTTTATCTTTTTAAA
10818732 AAAAAAATCAAAA
1 AAAAAAATCAAAA
10818745 TTTTTCTTAA
Statistics
Matches: 101, Mismatches: 9, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
97 15 0.15
98 11 0.11
99 75 0.74
ACGTcount: A:0.48, C:0.10, G:0.03, T:0.38
Consensus pattern (99 bp):
AAAAAAATCAAAAAGTTATTTTAAAAAATTTAAACTTTTCCTTAAAAATGACTAAAAAACATATT
TTTATTTTAAAAATCTAAACTTTATCTTTTTAAA
Found at i:10822827 original size:37 final size:36
Alignment explanation
Indices: 10822774--10822849 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
10822764 ATTCCAAAAA
*
10822774 TAATATTATTTTAATAGT-TTAATATTAAATTTAAT-T
1 TAATATTATCTTAATAGTATT-ATATT-AATTTAATAT
*
10822810 TAATATTTATCTTAATAGTATTTTATTAATTTAATAT
1 TAATA-TTATCTTAATAGTATTATATTAATTTAATAT
10822847 TAA
1 TAA
10822850 AGTGATTAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 13 0.37
37 20 0.57
38 2 0.06
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (36 bp):
TAATATTATCTTAATAGTATTATATTAATTTAATAT
Found at i:10822849 original size:11 final size:11
Alignment explanation
Indices: 10822774--10822849 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
10822764 ATTCCAAAAA
*
10822774 TAATATTATTT
1 TAATATTAATT
10822785 TAATAGTTTAATAT
1 TAATA--TTAAT-T
10822799 TAA-ATTTAATT
1 TAATA-TTAATT
*
10822810 TAATATTTATCT
1 TAATATTAAT-T
*
10822822 TAATAGT-ATT
1 TAATATTAATT
10822832 T--TATTAATT
1 TAATATTAATT
10822841 TAATATTAA
1 TAATATTAA
10822850 AGTGATTAAG
Statistics
Matches: 53, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 2 0.04
11 21 0.40
12 14 0.26
13 5 0.09
14 4 0.08
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (11 bp):
TAATATTAATT
Found at i:10825351 original size:24 final size:24
Alignment explanation
Indices: 10825306--10825351 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
10825296 ATTCTTTTTT
**
10825306 TTTCAAGTAATTTGCAGGATTGGA
1 TTTCAAGTAATTTGCAAAATTGGA
10825330 TTTCAAGTAATCTT-CAAAATTG
1 TTTCAAGTAAT-TTGCAAAATTG
10825352 TCTCAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 17 0.89
25 2 0.11
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (24 bp):
TTTCAAGTAATTTGCAAAATTGGA
Found at i:10828939 original size:37 final size:37
Alignment explanation
Indices: 10828898--10828973 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
10828888 TCTTATTGGA
10828898 CTGCCCAACTGGTTGGTTTGTTAATAAATATTGAAAT
1 CTGCCCAACTGGTTGGTTTGTTAATAAATATTGAAAT
10828935 CTGCCCAACTGGTTGGTTTGTTAATAAATATTGAAAT
1 CTGCCCAACTGGTTGGTTTGTTAATAAATATTGAAAT
10828972 CT
1 CT
10828974 AGGTCGTACT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.38
Consensus pattern (37 bp):
CTGCCCAACTGGTTGGTTTGTTAATAAATATTGAAAT
Done.