Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 39 of 144
Found at i:11790156 original size:71 final size:73
Alignment explanation
Indices: 11790007--11790182 Score: 204
Period size: 71 Copynumber: 2.5 Consensus size: 73
11789997 AAAAATTAAA
* * * * **
11790007 AGGCTTAACTCACCTCTCGCAATATGAG-TCA---ATTTAAAACATAAACTAAAAATACCTCGGC
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAACATAAACTAAAAATACCTCAAC
11790068 GTGCCTCG
66 GTGCCTCG
* *
11790076 AGGCACAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAA-A-AAATTAAAAATACCTCAAC
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAACATAAACTAAAAATACCTCAAC
* *
11790139 GTGTCTTG
66 GTGCCTCG
11790147 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTT
11790183 CCTTGGAAAG
Statistics
Matches: 91, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
69 25 0.27
70 3 0.03
71 55 0.60
72 1 0.01
73 7 0.08
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (73 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAACATAAACTAAAAATACCTCAAC
GTGCCTCG
Found at i:11802021 original size:27 final size:27
Alignment explanation
Indices: 11801988--11802138 Score: 230
Period size: 27 Copynumber: 5.6 Consensus size: 27
11801978 TAAATTGTGC
*
11801988 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
11802015 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
11802043 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
* *
11802070 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
* * *
11802097 AGCACTGAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
11802124 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
11802139 GACTTAATAT
Statistics
Matches: 119, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
27 92 0.77
28 27 0.23
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:11805878 original size:43 final size:43
Alignment explanation
Indices: 11805770--11805889 Score: 163
Period size: 42 Copynumber: 2.8 Consensus size: 43
11805760 AAAACTATTT
* * * *
11805770 GCGGCGCTTTTCACACAAACGCCACTAAAGATCATGACCTTTA
1 GCGGCGCTTTTCCCACAAACGTCGCTAAAGGTCATGACCTTTA
*
11805813 -CAGCGCTTTTCCCACAAACGTCGCTAAAGGTCATGACCTTTA
1 GCGGCGCTTTTCCCACAAACGTCGCTAAAGGTCATGACCTTTA
*
11805855 GCGGCGCTTTTCCCA-AAATCGTCGCTAAAAGTCAT
1 GCGGCGCTTTTCCCACAAA-CGTCGCTAAAGGTCAT
11805890 AAAATTTAAA
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
42 40 0.59
43 28 0.41
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (43 bp):
GCGGCGCTTTTCCCACAAACGTCGCTAAAGGTCATGACCTTTA
Found at i:11807178 original size:16 final size:15
Alignment explanation
Indices: 11807143--11807179 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
11807133 CTCAGATGAA
*
11807143 CAAAAATGGTACATC
1 CAAAAATGGAACATC
11807158 CAAAAATGGAACATC
1 CAAAAATGGAACATC
11807173 CAAAAAT
1 CAAAAAT
11807180 CAAATTAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.54, C:0.19, G:0.11, T:0.16
Consensus pattern (15 bp):
CAAAAATGGAACATC
Found at i:11811236 original size:8 final size:8
Alignment explanation
Indices: 11811225--11811263 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
11811215 ATATTAAATA
11811225 TTAAATTT
1 TTAAATTT
*
11811233 TTAAGTTT
1 TTAAATTT
11811241 TT-AATTT
1 TTAAATTT
11811248 TTAAA-TT
1 TTAAATTT
11811255 TTAAATTT
1 TTAAATTT
11811263 T
1 T
11811264 AATTTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 13 0.48
8 14 0.52
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (8 bp):
TTAAATTT
Found at i:11811236 original size:15 final size:15
Alignment explanation
Indices: 11811218--11811263 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
11811208 GACTAAAATA
*
11811218 TTAAATATTAAATTT
1 TTAAATTTTAAATTT
* *
11811233 TTAAGTTTTTAATTT
1 TTAAATTTTAAATTT
11811248 TTAAATTTTAAATTT
1 TTAAATTTTAAATTT
11811263 T
1 T
11811264 AATTTTTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (15 bp):
TTAAATTTTAAATTT
Found at i:11811267 original size:6 final size:7
Alignment explanation
Indices: 11811213--11811269 Score: 53
Period size: 7 Copynumber: 8.0 Consensus size: 7
11811203 ATATGGACTA
*
11811213 AAATATT
1 AAATTTT
*
11811220 AAATATT
1 AAATTTT
11811227 AAATTTTT
1 AAA-TTTT
*
11811235 AAGTTTTT
1 AA-ATTTT
*
11811243 AATTTTT
1 AAATTTT
11811250 AAATTTT
1 AAATTTT
11811257 AAATTTT
1 AAATTTT
11811264 -AATTTT
1 AAATTTT
11811270 TTTTGAAGAT
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
6 6 0.13
7 28 0.62
8 11 0.24
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (7 bp):
AAATTTT
Found at i:11811270 original size:7 final size:7
Alignment explanation
Indices: 11811228--11811270 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
11811218 TTAAATATTA
11811228 AATTTTT
1 AATTTTT
11811235 AAGTTTTT
1 AA-TTTTT
11811243 AATTTTT
1 AATTTTT
*
11811250 AAATTTT
1 AATTTTT
*
11811257 AAATTTT
1 AATTTTT
11811264 AATTTTT
1 AATTTTT
11811271 TTTGAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
7 26 0.79
8 7 0.21
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (7 bp):
AATTTTT
Found at i:11811742 original size:21 final size:21
Alignment explanation
Indices: 11811717--11811763 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
11811707 ATTAAACCTC
*
11811717 AAACCCCAAATTTTAGACCAT
1 AAACCCCAAATCTTAGACCAT
*
11811738 AAACCCTAAATCTTAGACCAT
1 AAACCCCAAATCTTAGACCAT
11811759 AAACC
1 AAACC
11811764 TACACCCTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.45, C:0.30, G:0.04, T:0.21
Consensus pattern (21 bp):
AAACCCCAAATCTTAGACCAT
Found at i:11811974 original size:21 final size:21
Alignment explanation
Indices: 11811950--11811991 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11811940 TATAAAACAA
*
11811950 TAAATCATAAACCCCAAACTC
1 TAAACCATAAACCCCAAACTC
* *
11811971 TAAACCATGAACCCTAAACTC
1 TAAACCATAAACCCCAAACTC
11811992 AAAAATTTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.33, G:0.02, T:0.19
Consensus pattern (21 bp):
TAAACCATAAACCCCAAACTC
Found at i:11812071 original size:21 final size:21
Alignment explanation
Indices: 11812036--11812087 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
11812026 ATAAACCCTA
* * *
11812036 AAACCCCAAACCATAGACATT
1 AAACCCTAAATCATAAACATT
* *
11812057 AAACCTTAAATCATAAACCTT
1 AAACCCTAAATCATAAACATT
11812078 AAACCCTAAA
1 AAACCCTAAA
11812088 ATAAATTATT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.50, C:0.29, G:0.02, T:0.19
Consensus pattern (21 bp):
AAACCCTAAATCATAAACATT
Found at i:11812202 original size:18 final size:19
Alignment explanation
Indices: 11812179--11812216 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
11812169 TTATTTCTTA
11812179 CATAATTTAAACT-ATAAT
1 CATAATTTAAACTCATAAT
11812197 CATAATTTAAACTCATAAT
1 CATAATTTAAACTCATAAT
11812216 C
1 C
11812217 CTTAAACCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (19 bp):
CATAATTTAAACTCATAAT
Found at i:11812255 original size:14 final size:14
Alignment explanation
Indices: 11812238--11812277 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
11812228 AACCATAAAT
11812238 CCTAAAACATAACC
1 CCTAAAACATAACC
* *
11812252 CCTAAACCATGACC
1 CCTAAAACATAACC
*
11812266 CCTAACACATAA
1 CCTAAAACATAA
11812278 ACCTTAAACC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.45, C:0.38, G:0.03, T:0.15
Consensus pattern (14 bp):
CCTAAAACATAACC
Found at i:11812271 original size:21 final size:21
Alignment explanation
Indices: 11812210--11812302 Score: 64
Period size: 21 Copynumber: 4.4 Consensus size: 21
11812200 AATTTAAACT
* *
11812210 CATAATCCTTAAACCCTGAA-C
1 CATAAACCATAAACCCT-AACC
* *
11812231 CATAAATCC-TAAAACATAACC
1 CATAAA-CCATAAACCCTAACC
* * * *
11812252 CCTAAACCATGACCCCTAACA
1 CATAAACCATAAACCCTAACC
*
11812273 CATAAACCTTAAACCCTAACC
1 CATAAACCATAAACCCTAACC
*
11812294 CTTAAACCA
1 CATAAACCA
11812303 CCCTTAAACC
Statistics
Matches: 53, Mismatches: 16, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
20 4 0.08
21 47 0.89
22 2 0.04
ACGTcount: A:0.43, C:0.35, G:0.02, T:0.19
Consensus pattern (21 bp):
CATAAACCATAAACCCTAACC
Found at i:11812294 original size:28 final size:28
Alignment explanation
Indices: 11812219--11812299 Score: 81
Period size: 28 Copynumber: 2.9 Consensus size: 28
11812209 TCATAATCCT
* **
11812219 TAAACCCTGAACCATAAATCCTAAAACA
1 TAAACCCTAAACCATAACCCCTAAAACA
* * *
11812247 TAACCCCTAAACCATGACCCCTAACACA
1 TAAACCCTAAACCATAACCCCTAAAACA
* * *
11812275 TAAACCTTAAACCCTAACCCTTAAA
1 TAAACCCTAAACCATAACCCCTAAA
11812300 CCACCCTTAA
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.44, C:0.35, G:0.02, T:0.19
Consensus pattern (28 bp):
TAAACCCTAAACCATAACCCCTAAAACA
Found at i:11812324 original size:25 final size:25
Alignment explanation
Indices: 11812279--11812326 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
11812269 AACACATAAA
*
11812279 CCTTAAACCCTAACCCTTAAACCAC
1 CCTTAAACCATAACCCTTAAACCAC
11812304 CCTTAAACCATAATCCC-TAAACC
1 CCTTAAACCATAA-CCCTTAAACC
11812327 CATAATCCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 18 0.86
26 3 0.14
ACGTcount: A:0.38, C:0.42, G:0.00, T:0.21
Consensus pattern (25 bp):
CCTTAAACCATAACCCTTAAACCAC
Found at i:11812329 original size:15 final size:15
Alignment explanation
Indices: 11812307--11812341 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
11812297 AAACCACCCT
*
11812307 TAAA-CCATAATCCC
1 TAAACCCATAATCCA
11812321 TAAACCCATAATCCA
1 TAAACCCATAATCCA
11812336 TAAACC
1 TAAACC
11812342 TTAAAATAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (15 bp):
TAAACCCATAATCCA
Found at i:11812346 original size:22 final size:22
Alignment explanation
Indices: 11812302--11812346 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
11812292 CCCTTAAACC
* *
11812302 ACCCTTAAACCATAATCCCTAA
1 ACCCATAAACCATAAACCCTAA
* *
11812324 ACCCATAATCCATAAACCTTAA
1 ACCCATAAACCATAAACCCTAA
11812346 A
1 A
11812347 ATAGTAACTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.22
Consensus pattern (22 bp):
ACCCATAAACCATAAACCCTAA
Found at i:11813417 original size:21 final size:21
Alignment explanation
Indices: 11813391--11813430 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
11813381 TTAGTAATTG
11813391 ATTTTTATTTCTAAAAATTCT
1 ATTTTTATTTCTAAAAATTCT
* *
11813412 ATTTTTATTTTTAATAATT
1 ATTTTTATTTCTAAAAATT
11813431 TTTAATAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTTTATTTCTAAAAATTCT
Found at i:11818607 original size:22 final size:21
Alignment explanation
Indices: 11818577--11818642 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
11818567 TACAAATTAA
11818577 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
11818599 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
11818620 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
11818639 ATCT
1 ATCT
11818643 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:11818629 original size:19 final size:19
Alignment explanation
Indices: 11818594--11818672 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
11818584 AGATTACAAG
11818594 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
11818615 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
11818634 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
11818651 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
11818670 ATC
1 ATC
11818673 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
20 1 0.02
21 8 0.14
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:11818636 original size:14 final size:15
Alignment explanation
Indices: 11818616--11818672 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
11818606 AGATTGCATA
11818616 TCATATCTAAGATTG
1 TCATATCTAAGATTG
11818631 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
11818650 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
11818667 -CATATC
1 TCATATC
11818673 CTTAAAGATT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.16
17 17 0.45
19 15 0.39
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:11818658 original size:36 final size:39
Alignment explanation
Indices: 11818594--11818672 Score: 128
Period size: 36 Copynumber: 2.1 Consensus size: 39
11818584 AGATTACAAG
11818594 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATCTTCAAGATTG-ATATCATATCTAAGATTGCAT
11818634 ATCATATC-T-AAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTTCAAGATTGATATCATATCTAAGATTGCAT
11818670 ATC
1 ATC
11818673 CTTAAAGATT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
36 23 0.59
38 7 0.18
39 1 0.03
40 8 0.21
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (39 bp):
ATCATATCTTCAAGATTGATATCATATCTAAGATTGCAT
Found at i:11830696 original size:26 final size:25
Alignment explanation
Indices: 11830667--11830725 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
11830657 TTCACCACCA
*
11830667 TATTTTTACAATTTTTCTTAAGCTAT
1 TATTTTTACAATTTTTATTAAG-TAT
* ** *
11830693 TATTATTAGTATTTTTATTTAGTAT
1 TATTTTTACAATTTTTATTAAGTAT
11830718 TATTTTTA
1 TATTTTTA
11830726 TTTATTTACT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
25 10 0.37
26 17 0.63
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.63
Consensus pattern (25 bp):
TATTTTTACAATTTTTATTAAGTAT
Found at i:11834066 original size:79 final size:81
Alignment explanation
Indices: 11833923--11834107 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
11833913 TTGAATGATG
* * *
11833923 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCAAAGACATT
11833987 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
11834002 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCAAAGACA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCAAAGACA
*
11834064 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
11834082 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
11834108 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 33 0.37
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCAAAGACATT
TGTGCGAGATACTATA
Found at i:11834121 original size:40 final size:40
Alignment explanation
Indices: 11833924--11834107 Score: 198
Period size: 40 Copynumber: 4.6 Consensus size: 40
11833914 TGAATGATGT
* * * *
11833924 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
11833964 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
11834004 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* * *
11834042 TCCGGGTTAAGTCCCAAAGACATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
11834083 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
11834108 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
39 35 0.29
40 77 0.63
41 10 0.08
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:11834129 original size:79 final size:79
Alignment explanation
Indices: 11833983--11834130 Score: 194
Period size: 79 Copynumber: 1.9 Consensus size: 79
11833973 GATCCGAAGG
* **
11833983 CATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGG
1 CATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATCCGGG
11834048 TTAAGTCCCAAAGA
66 TTAAGTCCCAAAGA
* * *
11834062 CATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC
1 CATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTAAATCC
11834125 -GGTTAA
63 GGGTTAA
11834131 ATTCTGAAGG
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
78 2 0.03
79 33 0.55
80 25 0.42
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (79 bp):
CATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATCCGGG
TTAAGTCCCAAAGA
Found at i:11837747 original size:6 final size:6
Alignment explanation
Indices: 11837697--11837739 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
11837687 TGTTTTATTC
* * *
11837697 ATTTTT CTTTTT ATTTTT ATTTGT ACTTTT ATTTTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT A-TTTTT ATTTTT
11837740 TTATTTTTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
6 25 0.83
7 5 0.17
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.79
Consensus pattern (6 bp):
ATTTTT
Found at i:11839354 original size:22 final size:22
Alignment explanation
Indices: 11839305--11839356 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
11839295 TTAGTAAATG
11839305 AAAGAAAT-AAAGAATGAATAA
1 AAAGAAATAAAAGAATGAATAA
*
11839326 AATGAAATAAAAGAATGAA-AA
1 AAAGAAATAAAAGAATGAATAA
11839347 ACAAGAAATA
1 A-AAGAAATA
11839357 GTTACAGAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 10 0.37
22 17 0.63
ACGTcount: A:0.71, C:0.02, G:0.13, T:0.13
Consensus pattern (22 bp):
AAAGAAATAAAAGAATGAATAA
Found at i:11844393 original size:40 final size:40
Alignment explanation
Indices: 11844309--11844426 Score: 186
Period size: 40 Copynumber: 3.0 Consensus size: 40
11844299 AGGTGACCAT
*
11844309 ATCCGGACTAAGATCCGAAGGCATTTGT-AGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
11844348 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
**
11844388 ATCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTA
1 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA
11844427 TAACCAGGCT
Statistics
Matches: 74, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
39 29 0.39
40 45 0.61
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.26
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:11844443 original size:40 final size:39
Alignment explanation
Indices: 11844274--11844454 Score: 183
Period size: 40 Copynumber: 4.6 Consensus size: 39
11844264 ATGATGTCCG
* * * * *
11844274 GGCTAAGTCCCGGAGGC-TTTGTGCTAGGTGACCATATCC
1 GGCTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAATCC
*
11844313 GGACTAAGAT-CCGAAGGCATTTGT-AGAGTTACTAAATCC
1 GG-CTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCC
11844352 GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GG-CTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
11844392 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CC
1 -GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCC
*
11844432 AGGCTATGTCCCGAAGGCATTTG
1 -GGCTAAGTCCCGAAGGCATTTG
11844455 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 11, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
39 36 0.29
40 78 0.63
41 10 0.08
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
Found at i:11844461 original size:40 final size:39
Alignment explanation
Indices: 11844274--11844487 Score: 170
Period size: 40 Copynumber: 5.4 Consensus size: 39
11844264 ATGATGTCCG
* * * * * *
11844274 GGCTAAGTCCCGGAGGC-TTTGTGCTAGGTGACCATATCC
1 GGCTAAGTCCCGAAGGCATTTGTACGA-GTTACTAAATCC
11844313 GGACTAAGAT-CCGAAGGCATTTGTA-GAGTTACTAAATCC
1 GG-CTAAG-TCCCGAAGGCATTTGTACGAGTTACTAAATCC
*
11844352 GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GG-CTAAG-TCCCGAAGGCATTTGTACGAGTTACTAAATCC
* *
11844392 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CC
1 -GGCTAAGTCCCGAAGGCATTTGTACGAGTTACTA-AATCC
* * *
11844432 AGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC
1 -GGCTAAGTCCCGAAGGCATTTGTACGAGTTA-CTAAATCC
* * *
11844472 GGTTAAATTCCGAAGG
1 GGCTAAGTCCCGAAGG
11844488 TACGTGATTT
Statistics
Matches: 148, Mismatches: 18, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
39 51 0.34
40 87 0.59
41 10 0.07
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
GGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAATCC
Found at i:11852016 original size:40 final size:40
Alignment explanation
Indices: 11851933--11852118 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
11851923 TTGAATGATG
* * * *
11851933 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
11851973 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
11852013 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
11852053 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
11852094 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
11852119 AACGAGTAGC
Statistics
Matches: 133, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 1 0.01
40 122 0.92
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:11852125 original size:80 final size:79
Alignment explanation
Indices: 11851986--11852151 Score: 228
Period size: 80 Copynumber: 2.1 Consensus size: 79
11851976 GGACTAAGAT
* **
11851986 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCT
*
11852050 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAATC
*
11852066 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCT
* *
11852130 ATATCCGGTTAAATT
65 AAATCCGGTTAAATC
11852145 CCGAAGG
1 CCGAAGG
11852152 TACGTGATTT
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
79 16 0.21
80 59 0.77
81 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAATC
Found at i:11857385 original size:3 final size:3
Alignment explanation
Indices: 11857377--11857413 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
11857367 AGATATTTAC
11857377 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
11857414 CTAATAATNN
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:11869256 original size:10 final size:10
Alignment explanation
Indices: 11869241--11869315 Score: 66
Period size: 10 Copynumber: 7.6 Consensus size: 10
11869231 AAAAAATAAC
*
11869241 TATAAAATTT
1 TATAAAATAT
11869251 TATAAAA-AT
1 TATAAAATAT
*
11869260 CATAAAATAT
1 TATAAAATAT
11869270 TATAAAATA-
1 TATAAAATAT
11869279 TATAGAAATA-
1 TATA-AAATAT
* *
11869289 TAGAAAAAAAT
1 TA-TAAAATAT
*
11869300 TATAAAATTT
1 TATAAAATAT
11869310 TATAAA
1 TATAAA
11869316 GTCATAAGAA
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
9 11 0.21
10 39 0.74
11 3 0.06
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (10 bp):
TATAAAATAT
Found at i:11869266 original size:19 final size:19
Alignment explanation
Indices: 11869242--11869337 Score: 70
Period size: 19 Copynumber: 4.9 Consensus size: 19
11869232 AAAAATAACT
11869242 ATAAAATTTTATAAAAATC
1 ATAAAATTTTATAAAAATC
*
11869261 ATAAAATATTATAAAATAT-
1 ATAAAATTTTATAAAA-ATC
** * *
11869280 ATAGAAATATAGAAAAAAATT
1 ATA-AAAT-TTTATAAAAATC
*
11869301 ATAAAATTTTAT-AAAGTC
1 ATAAAATTTTATAAAAATC
**
11869319 ATAAGAAAATTATAAAAAT
1 ATAA-AATTTTATAAAAAT
11869338 ATGTAAAGAA
Statistics
Matches: 58, Mismatches: 13, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
18 8 0.14
19 26 0.45
20 16 0.28
21 8 0.14
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.32
Consensus pattern (19 bp):
ATAAAATTTTATAAAAATC
Found at i:11869336 original size:40 final size:40
Alignment explanation
Indices: 11869244--11869336 Score: 100
Period size: 40 Copynumber: 2.3 Consensus size: 40
11869234 AAATAACTAT
* *
11869244 AAAATTTTATAAAAATCATAAAATATTATAAAATATATAG
1 AAAATTATAAAAAAATCATAAAATATTATAAAATATATAG
* * * *
11869284 -AAATATAGAAAAAAATTATAAAATTTTATAAAGTCATA-AG
1 AAAAT-TATAAAAAAATCATAAAATATTATAAAAT-ATATAG
11869324 AAAATTATAAAAA
1 AAAATTATAAAAA
11869337 TATGTAAAGA
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
39 4 0.09
40 32 0.74
41 7 0.16
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (40 bp):
AAAATTATAAAAAAATCATAAAATATTATAAAATATATAG
Found at i:11869354 original size:20 final size:20
Alignment explanation
Indices: 11869324--11869377 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
11869314 AAGTCATAAG
*
11869324 AAAATTATAAAAATAT-GTAA
1 AAAAATATAAAAAT-TCGTAA
*
11869344 AGAAATAT-AAAATTCGTAA
1 AAAAATATAAAAATTCGTAA
11869363 AAAAATATAAAAATT
1 AAAAATATAAAAATT
11869378 ATCATACCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 1 0.03
19 16 0.55
20 12 0.41
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.28
Consensus pattern (20 bp):
AAAAATATAAAAATTCGTAA
Found at i:11869545 original size:11 final size:10
Alignment explanation
Indices: 11869527--11869564 Score: 51
Period size: 9 Copynumber: 3.8 Consensus size: 10
11869517 TAAAGGGTCT
11869527 TTTTTATATA
1 TTTTTATATA
11869537 -TTTTATATA
1 TTTTTATATA
*
11869546 TTTTTTTATCA
1 TTTTTATAT-A
11869557 TTTTTATA
1 TTTTTATA
11869565 AAACTTTACC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 9 0.38
10 7 0.29
11 8 0.33
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTTTATATA
Found at i:11869612 original size:10 final size:10
Alignment explanation
Indices: 11869599--11869683 Score: 77
Period size: 10 Copynumber: 8.6 Consensus size: 10
11869589 TTTTTTTACT
11869599 ATTTTTATAA
1 ATTTTTATAA
11869609 ATTTTTATAA
1 ATTTTTATAA
11869619 ATTTTTTATTAA
1 A-TTTTTA-TAA
* *
11869631 AATTTAAT-A
1 ATTTTTATAA
*
11869640 ATTTCTAT-A
1 ATTTTTATAA
*
11869649 ATTTTTATTA
1 ATTTTTATAA
*
11869659 ATTTTTAT-T
1 ATTTTTATAA
*
11869668 TTTTTTATAA
1 ATTTTTATAA
11869678 ATTTTT
1 ATTTTT
11869684 GTCACATGTC
Statistics
Matches: 61, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
9 21 0.34
10 26 0.43
11 10 0.16
12 4 0.07
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (10 bp):
ATTTTTATAA
Found at i:11869623 original size:19 final size:19
Alignment explanation
Indices: 11869599--11869683 Score: 64
Period size: 19 Copynumber: 4.3 Consensus size: 19
11869589 TTTTTTTACT
11869599 ATTTTTATAAATTTTTATAA
1 ATTTTTATAAA-TTTTATAA
*
11869619 ATTTTTTATTAAAATTTA-ATA
1 A-TTTTTA-TAAATTTTATA-A
* * *
11869640 ATTTCTATAATTTTTATTA
1 ATTTTTATAAATTTTATAA
***
11869659 ATTTTTATTTTTTTTATAA
1 ATTTTTATAAATTTTATAA
11869678 ATTTTT
1 ATTTTT
11869684 GTCACATGTC
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
19 29 0.56
20 7 0.13
21 12 0.23
22 4 0.08
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (19 bp):
ATTTTTATAAATTTTATAA
Found at i:11869680 original size:29 final size:30
Alignment explanation
Indices: 11869608--11869683 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 30
11869598 TATTTTTATA
11869608 AATTTTTATAAATTTTTTATTAAAATTTAAT
1 AATTTTTATAAA-TTTTTATTAAAATTTAAT
* * *
11869639 AATTTCTAT-AATTTTTATT-AATTTTTAT
1 AATTTTTATAAATTTTTATTAAAATTTAAT
**
11869667 TTTTTTTATAAATTTTT
1 AATTTTTATAAATTTTT
11869684 GTCACATGTC
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
28 13 0.34
29 15 0.39
30 2 0.05
31 8 0.21
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (30 bp):
AATTTTTATAAATTTTTATTAAAATTTAAT
Found at i:11870369 original size:10 final size:10
Alignment explanation
Indices: 11870322--11870376 Score: 53
Period size: 10 Copynumber: 5.8 Consensus size: 10
11870312 TAAATTTTAG
11870322 AAAAATTATT
1 AAAAATTATT
** *
11870332 AAATTTTAAT
1 AAAAATTATT
11870342 AAAAA-T-TT
1 AAAAATTATT
*
11870350 AAAAA-AATT
1 AAAAATTATT
11870359 AAAAATTATT
1 AAAAATTATT
11870369 AAAAATTA
1 AAAAATTA
11870377 GAATTTTTTA
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
8 6 0.17
9 8 0.23
10 21 0.60
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
AAAAATTATT
Found at i:11875265 original size:22 final size:22
Alignment explanation
Indices: 11875240--11875290 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
11875230 CACAATTAAT
11875240 ATTAAATTCATTTTATTAACAA
1 ATTAAATTCATTTTATTAACAA
*
11875262 ATTAAATTTATTTTATTAACAA
1 ATTAAATTCATTTTATTAACAA
11875284 ATTAAAT
1 ATTAAAT
11875291 ATGTAACTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (22 bp):
ATTAAATTCATTTTATTAACAA
Found at i:11875385 original size:38 final size:38
Alignment explanation
Indices: 11875330--11875518 Score: 138
Period size: 38 Copynumber: 5.0 Consensus size: 38
11875320 GTTTGAATCA
* *
11875330 GATTGGACTAGCTGATTAGATGAGTTAGATCAAGAACG
1 GATTGGACTAGCCGATTAGATTAGTTAGATCAAGAACG
*
11875368 GATTGGACTAGCCGATTAGATTAGTTAGATCGAA-AACC
1 GATTGGACTAGCCGATTAGATTAGTTAGATC-AAGAACG
* * ** * * ** * * *
11875406 AACTAAGG--TAGTGGTTTGGAGGACATT-GA--ATTGAATTG
1 GA-T-TGGACTAGCCGATTAGATTA-GTTAGATCA-AGAA-CG
*
11875444 GATTGGACTAGCCGATTAGGTTAGTTAGATCAAGAACG
1 GATTGGACTAGCCGATTAGATTAGTTAGATCAAGAACG
*
11875482 GATTGGACTAGCCGATTAAATTAGTTAGATCAAGAAC
1 GATTGGACTAGCCGATTAGATTAGTTAGATCAAGAAC
11875519 CAACTAAGTT
Statistics
Matches: 110, Mismatches: 29, Indels: 24
0.67 0.18 0.15
Matches are distributed among these distances:
35 1 0.01
36 2 0.02
37 5 0.05
38 91 0.83
39 8 0.07
40 3 0.03
ACGTcount: A:0.34, C:0.12, G:0.27, T:0.28
Consensus pattern (38 bp):
GATTGGACTAGCCGATTAGATTAGTTAGATCAAGAACG
Found at i:11875520 original size:114 final size:114
Alignment explanation
Indices: 11875330--11875552 Score: 376
Period size: 114 Copynumber: 2.0 Consensus size: 114
11875320 GTTTGAATCA
* *
11875330 GATTGGACTAGCTGATTAGATGAGTTAGATCAAGAACGGATTGGACTAGCCGATTAGATTAGTTA
1 GATTGGACTAGCCGATTAGATGAGTTAGATCAAGAACGGATTGGACTAGCCGATTAAATTAGTTA
*
11875395 GATCGAAAACCAACTAAGGTAGTGGTTTGGAGGACATTGAATTGAATTG
66 GATCGAAAACCAACTAAGGTAGTGGTTTGAAGGACATTGAATTGAATTG
* *
11875444 GATTGGACTAGCCGATTAGGTTAGTTAGATCAAGAACGGATTGGACTAGCCGATTAAATTAGTTA
1 GATTGGACTAGCCGATTAGATGAGTTAGATCAAGAACGGATTGGACTAGCCGATTAAATTAGTTA
*
11875509 GATC-AAGAACCAACTAAGTTAGTGGTTTGAAGGACATTGAATTG
66 GATCGAA-AACCAACTAAGGTAGTGGTTTGAAGGACATTGAATTG
11875553 GTTAAGAATC
Statistics
Matches: 102, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
113 2 0.02
114 100 0.98
ACGTcount: A:0.34, C:0.11, G:0.27, T:0.28
Consensus pattern (114 bp):
GATTGGACTAGCCGATTAGATGAGTTAGATCAAGAACGGATTGGACTAGCCGATTAAATTAGTTA
GATCGAAAACCAACTAAGGTAGTGGTTTGAAGGACATTGAATTGAATTG
Found at i:11879474 original size:44 final size:44
Alignment explanation
Indices: 11879411--11879496 Score: 163
Period size: 44 Copynumber: 2.0 Consensus size: 44
11879401 CTTGTGTGGG
11879411 TGTGCTTGGTTCTTATCCTATGCTCTTTTCTATTTATCCATGAT
1 TGTGCTTGGTTCTTATCCTATGCTCTTTTCTATTTATCCATGAT
*
11879455 TGTGCTTGGTTCTTATCCTATGCTGTTTTCTATTTATCCATG
1 TGTGCTTGGTTCTTATCCTATGCTCTTTTCTATTTATCCATG
11879497 TTCCTGAATT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.13, C:0.20, G:0.15, T:0.52
Consensus pattern (44 bp):
TGTGCTTGGTTCTTATCCTATGCTCTTTTCTATTTATCCATGAT
Found at i:11879493 original size:21 final size:21
Alignment explanation
Indices: 11879423--11879493 Score: 56
Period size: 21 Copynumber: 3.3 Consensus size: 21
11879413 TGCTTGGTTC
*
11879423 TTATCCTATGCTCTTTTCTAT
1 TTATCCTATGCTGTTTTCTAT
* **
11879444 TTATCCATGATTG-TGCTTGGT-T
1 TTATCC-T-A-TGCTGTTTTCTAT
11879466 CTTATCCTATGCTGTTTTCTAT
1 -TTATCCTATGCTGTTTTCTAT
11879488 TTATCC
1 TTATCC
11879494 ATGTTCCTGA
Statistics
Matches: 37, Mismatches: 7, Indels: 12
0.66 0.12 0.21
Matches are distributed among these distances:
20 2 0.05
21 18 0.49
22 4 0.11
23 11 0.30
24 2 0.05
ACGTcount: A:0.14, C:0.21, G:0.11, T:0.54
Consensus pattern (21 bp):
TTATCCTATGCTGTTTTCTAT
Found at i:11883504 original size:43 final size:43
Alignment explanation
Indices: 11883456--11883548 Score: 152
Period size: 43 Copynumber: 2.2 Consensus size: 43
11883446 ATTCTAGAAA
11883456 TATTTT-TATTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
1 TATTTTCT-TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
* *
11883499 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
1 TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
11883542 TATTTTC
1 TATTTTC
11883549 CCAATTAGGA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.28, C:0.06, G:0.14, T:0.52
Consensus pattern (43 bp):
TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
Found at i:11888239 original size:43 final size:43
Alignment explanation
Indices: 11888191--11888283 Score: 152
Period size: 43 Copynumber: 2.2 Consensus size: 43
11888181 ATTCTAGAAA
11888191 TATTTT-TATTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
1 TATTTTCT-TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
* *
11888234 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
1 TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
11888277 TATTTTC
1 TATTTTC
11888284 CCAATTAGGA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.28, C:0.06, G:0.14, T:0.52
Consensus pattern (43 bp):
TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
Found at i:11889387 original size:27 final size:27
Alignment explanation
Indices: 11889349--11889403 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
11889339 ATCTATGTAA
11889349 GTTGAGATAATCGTAAAGAAAGAAAAT
1 GTTGAGATAATCGTAAAGAAAGAAAAT
11889376 GTTGAGATAATCGTAAAGAAAGAAAAT
1 GTTGAGATAATCGTAAAGAAAGAAAAT
11889403 G
1 G
11889404 AAAAAGCAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.51, C:0.04, G:0.24, T:0.22
Consensus pattern (27 bp):
GTTGAGATAATCGTAAAGAAAGAAAAT
Found at i:11895775 original size:3 final size:3
Alignment explanation
Indices: 11895767--11895795 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
11895757 TCTTTTCTTT
11895767 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
11895796 TTTACTTACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:11897051 original size:24 final size:24
Alignment explanation
Indices: 11897024--11897093 Score: 62
Period size: 24 Copynumber: 3.2 Consensus size: 24
11897014 TTTTTTATTC
11897024 TTTTTATGTTAGGTTCCTGAGCTG
1 TTTTTATGTTAGGTTCCTGAGCTG
** *
11897048 -TTTTA-CCTA----CCTGAGATG
1 TTTTTATGTTAGGTTCCTGAGCTG
*
11897066 TATTTATGTTAGGTTCCTGAGCTG
1 TTTTTATGTTAGGTTCCTGAGCTG
11897090 TTTT
1 TTTT
11897094 ACCTACCTGA
Statistics
Matches: 32, Mismatches: 8, Indels: 12
0.62 0.15 0.23
Matches are distributed among these distances:
18 8 0.25
19 4 0.12
20 2 0.06
22 2 0.06
23 5 0.16
24 11 0.34
ACGTcount: A:0.16, C:0.14, G:0.21, T:0.49
Consensus pattern (24 bp):
TTTTTATGTTAGGTTCCTGAGCTG
Found at i:11897062 original size:18 final size:18
Alignment explanation
Indices: 11897039--11897109 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
11897029 ATGTTAGGTT
*
11897039 CCTGAGCTGTTTTACCTA
1 CCTGAGATGTTTTACCTA
**
11897057 CCTGAGATGTATTTATGTTA
1 CCTGAGATGT-TTTA-CCTA
*
11897077 GGTTCCTGAGCTGTTTTACCTA
1 ----CCTGAGATGTTTTACCTA
11897099 CCTGAGATGTT
1 CCTGAGATGTT
11897110 AACCAATGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
18 19 0.47
19 4 0.10
20 2 0.05
22 2 0.05
23 4 0.10
24 9 0.22
ACGTcount: A:0.18, C:0.20, G:0.21, T:0.41
Consensus pattern (18 bp):
CCTGAGATGTTTTACCTA
Found at i:11897073 original size:42 final size:42
Alignment explanation
Indices: 11897026--11897108 Score: 166
Period size: 42 Copynumber: 2.0 Consensus size: 42
11897016 TTTTATTCTT
11897026 TTTATGTTAGGTTCCTGAGCTGTTTTACCTACCTGAGATGTA
1 TTTATGTTAGGTTCCTGAGCTGTTTTACCTACCTGAGATGTA
11897068 TTTATGTTAGGTTCCTGAGCTGTTTTACCTACCTGAGATGT
1 TTTATGTTAGGTTCCTGAGCTGTTTTACCTACCTGAGATGT
11897109 TAACCAATGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.18, C:0.17, G:0.22, T:0.43
Consensus pattern (42 bp):
TTTATGTTAGGTTCCTGAGCTGTTTTACCTACCTGAGATGTA
Found at i:11917259 original size:17 final size:18
Alignment explanation
Indices: 11917229--11917266 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
11917219 GTGTGGTTTA
*
11917229 CCCGTGTGGGCCCACATG
1 CCCGTGTGGGCCCACACG
11917247 CCCGTGT-GGCCCACACG
1 CCCGTGTGGGCCCACACG
11917264 CCC
1 CCC
11917267 AACTCAGTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.11, C:0.47, G:0.29, T:0.13
Consensus pattern (18 bp):
CCCGTGTGGGCCCACACG
Found at i:11917389 original size:12 final size:12
Alignment explanation
Indices: 11917369--11917398 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
11917359 CGTGTTATAG
11917369 CACACGGCCTAC
1 CACACGGCCTAC
*
11917381 CACATGGCCTAC
1 CACACGGCCTAC
11917393 CACACG
1 CACACG
11917399 ACCGTGTGGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.27, C:0.47, G:0.17, T:0.10
Consensus pattern (12 bp):
CACACGGCCTAC
Found at i:11919684 original size:73 final size:73
Alignment explanation
Indices: 11919600--11919736 Score: 265
Period size: 73 Copynumber: 1.9 Consensus size: 73
11919590 TAAAATTTTG
*
11919600 TTTTTAGAATAAAAGTTAATGCTTTTAAAAGATATTTGGGAGTTCCTATTTGGTTTATTAACTGT
1 TTTTTAAAATAAAAGTTAATGCTTTTAAAAGATATTTGGGAGTTCCTATTTGGTTTATTAACTGT
11919665 CTTTTCTA
66 CTTTTCTA
11919673 TTTTTAAAATAAAAGTTAATGCTTTTAAAAGATATTTGGGAGTTCCTATTTGGTTTATTAACTG
1 TTTTTAAAATAAAAGTTAATGCTTTTAAAAGATATTTGGGAGTTCCTATTTGGTTTATTAACTG
11919737 CCCTTTTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
73 63 1.00
ACGTcount: A:0.31, C:0.07, G:0.15, T:0.47
Consensus pattern (73 bp):
TTTTTAAAATAAAAGTTAATGCTTTTAAAAGATATTTGGGAGTTCCTATTTGGTTTATTAACTGT
CTTTTCTA
Found at i:11924834 original size:22 final size:22
Alignment explanation
Indices: 11924777--11924821 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
11924767 ACTCACCAAT
* * *
11924777 AGCTCGTATGAGCTTCCTGTTC
1 AGCTCGAAAGAGCTTCCCGTTC
11924799 AGCTCGAAAGAGCTTCCCGTTC
1 AGCTCGAAAGAGCTTCCCGTTC
11924821 A
1 A
11924822 TCTCAATCGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (22 bp):
AGCTCGAAAGAGCTTCCCGTTC
Found at i:11932299 original size:24 final size:23
Alignment explanation
Indices: 11932262--11932323 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 23
11932252 TTTATAACAT
*
11932262 ATTTAATTTCATAAATAT-TTT-
1 ATTTAATTTTATAAATATATTTG
11932283 ATTATACCATTTTATAAATATATTTG
1 ATT-TA--ATTTTATAAATATATTTG
11932309 ATTTAATTTTATAAA
1 ATTTAATTTTATAAA
11932324 AAAATCAACA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
21 3 0.09
22 2 0.06
23 10 0.29
24 12 0.34
25 5 0.14
26 3 0.09
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (23 bp):
ATTTAATTTTATAAATATATTTG
Found at i:11934862 original size:18 final size:19
Alignment explanation
Indices: 11934822--11934862 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
11934812 GGTGAACTAT
*
11934822 AATTTTTTTAATAAAAAAG
1 AATTATTTTAATAAAAAAG
*
11934841 -ATTATTTTAA-AAATAAG
1 AATTATTTTAATAAAAAAG
11934858 AATTA
1 AATTA
11934863 AATCTCAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (19 bp):
AATTATTTTAATAAAAAAG
Found at i:11937624 original size:87 final size:87
Alignment explanation
Indices: 11937478--11937656 Score: 358
Period size: 87 Copynumber: 2.1 Consensus size: 87
11937468 CGACTGGGAA
11937478 GGATTACAATTCCATAATTATATCTGTTAAATCATTTATTTGAATTATTTCAGATACAACTATTC
1 GGATTACAATTCCATAATTATATCTGTTAAATCATTTATTTGAATTATTTCAGATACAACTATTC
11937543 AGAATTTAAATAATTTGGGTTT
66 AGAATTTAAATAATTTGGGTTT
11937565 GGATTACAATTCCATAATTATATCTGTTAAATCATTTATTTGAATTATTTCAGATACAACTATTC
1 GGATTACAATTCCATAATTATATCTGTTAAATCATTTATTTGAATTATTTCAGATACAACTATTC
11937630 AGAATTTAAATAATTTGGGTTT
66 AGAATTTAAATAATTTGGGTTT
11937652 GGATT
1 GGATT
11937657 GGTTTTGATT
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 92 1.00
ACGTcount: A:0.35, C:0.10, G:0.11, T:0.44
Consensus pattern (87 bp):
GGATTACAATTCCATAATTATATCTGTTAAATCATTTATTTGAATTATTTCAGATACAACTATTC
AGAATTTAAATAATTTGGGTTT
Found at i:11938121 original size:5 final size:5
Alignment explanation
Indices: 11938111--11938147 Score: 65
Period size: 5 Copynumber: 7.2 Consensus size: 5
11938101 ATTATTTATG
11938111 ATTAA ATTAA ATTAA ATTTAA ATTAA ATTAA ATTAA A
1 ATTAA ATTAA ATTAA A-TTAA ATTAA ATTAA ATTAA A
11938148 CATTGAAGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 26 0.84
6 5 0.16
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATTAA
Found at i:11938133 original size:16 final size:16
Alignment explanation
Indices: 11938112--11938144 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
11938102 TTATTTATGA
11938112 TTAAATTAAATTAAAT
1 TTAAATTAAATTAAAT
11938128 TTAAATTAAATTAAAT
1 TTAAATTAAATTAAAT
11938144 T
1 T
11938145 AAACATTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAATTAAATTAAAT
Found at i:11939831 original size:59 final size:59
Alignment explanation
Indices: 11939739--11939852 Score: 183
Period size: 59 Copynumber: 1.9 Consensus size: 59
11939729 CATTAATTTA
*
11939739 TTTTGAATATTTTTGAACAAATTATTTTTATATTATTTCATTTAATAAAATAGAAGTTC
1 TTTTGAATATTTTTGAACAAATTATTTTTATATTATTACATTTAATAAAATAGAAGTTC
* * * *
11939798 TTTTGAATATTTTTGTACAATTTATTTTTATATTGTTACATTTAATAAATTAGAA
1 TTTTGAATATTTTTGAACAAATTATTTTTATATTATTACATTTAATAAAATAGAA
11939853 TTTATTTCAA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 50 1.00
ACGTcount: A:0.36, C:0.04, G:0.07, T:0.53
Consensus pattern (59 bp):
TTTTGAATATTTTTGAACAAATTATTTTTATATTATTACATTTAATAAAATAGAAGTTC
Found at i:11942008 original size:35 final size:35
Alignment explanation
Indices: 11941966--11942036 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
11941956 AATTGCTATG
11941966 AACCTTAATTTAGGGGTTTTTTAAAAGGCAATTAC
1 AACCTTAATTTAGGGGTTTTTTAAAAGGCAATTAC
* *
11942001 AACCTTAATTTGGGGGTTTTTTAAAGGGCAATTAC
1 AACCTTAATTTAGGGGTTTTTTAAAAGGCAATTAC
11942036 A
1 A
11942037 CATTTTCCTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (35 bp):
AACCTTAATTTAGGGGTTTTTTAAAAGGCAATTAC
Found at i:11956223 original size:31 final size:29
Alignment explanation
Indices: 11956183--11956253 Score: 70
Period size: 31 Copynumber: 2.3 Consensus size: 29
11956173 TAGTTTCGTG
* * *
11956183 ATTTAAATTTAAGATTTAATGTTTACATCAA
1 ATTTTAATTTAA-ATTT-ATGTTTAAATAAA
11956214 ATTTTAATTTTTAAATTTATGTTTAAATAAA
1 ATTTTAA--TTTAAATTTATGTTTAAATAAA
11956245 ATTATTAAT
1 ATT-TTAAT
11956254 AATTATTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
30 1 0.03
31 20 0.59
32 8 0.24
33 5 0.15
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (29 bp):
ATTTTAATTTAAATTTATGTTTAAATAAA
Found at i:11960325 original size:28 final size:28
Alignment explanation
Indices: 11960289--11960345 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
11960279 TAGGAAGAAA
11960289 TTATCAGAATTGGATCTCAAAGTGCTTT
1 TTATCAGAATTGGATCTCAAAGTGCTTT
*
11960317 TTATTAGAATTGGATCTCAAAGTGCTTT
1 TTATCAGAATTGGATCTCAAAGTGCTTT
11960345 T
1 T
11960346 CTCTTCTAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.28, C:0.12, G:0.18, T:0.42
Consensus pattern (28 bp):
TTATCAGAATTGGATCTCAAAGTGCTTT
Found at i:11964977 original size:4 final size:4
Alignment explanation
Indices: 11964933--11964958 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
11964923 TATATATTCA
11964933 TTGT TTGT TTGT TTGT TTGT TTGT TT
1 TTGT TTGT TTGT TTGT TTGT TTGT TT
11964959 ATTTATTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.23, T:0.77
Consensus pattern (4 bp):
TTGT
Found at i:11965044 original size:23 final size:23
Alignment explanation
Indices: 11964999--11965045 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
11964989 TTTAATGGCC
* *
11964999 ATGAACATGTTTGATTAAGTTAA
1 ATGAACATGTTTGATGAAATTAA
11965022 ATGAACATGTTTG-TGAACATTAA
1 ATGAACATGTTTGATGAA-ATTAA
11965045 A
1 A
11965046 CAAATGAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 3 0.14
23 18 0.86
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.36
Consensus pattern (23 bp):
ATGAACATGTTTGATGAAATTAA
Found at i:11969195 original size:22 final size:22
Alignment explanation
Indices: 11969165--11969227 Score: 99
Period size: 22 Copynumber: 2.9 Consensus size: 22
11969155 TACGAGGGCT
*
11969165 GTGGAGGTATGGGACTGCTGTA
1 GTGGAGGTATGGGGCTGCTGTA
* *
11969187 GTGGGGGTATGGGGCCGCTGTA
1 GTGGAGGTATGGGGCTGCTGTA
11969209 GTGGAGGTATGGGGCTGCT
1 GTGGAGGTATGGGGCTGCT
11969228 TCATGGTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.13, C:0.11, G:0.51, T:0.25
Consensus pattern (22 bp):
GTGGAGGTATGGGGCTGCTGTA
Found at i:11970515 original size:73 final size:73
Alignment explanation
Indices: 11970363--11970933 Score: 662
Period size: 73 Copynumber: 7.6 Consensus size: 73
11970353 ACGTGAGCCA
* * ** * *
11970363 AGGCTCAACTCATCTTTCGCAATATGAGTTGATTTTTTTG-AAAGTAGAATTTGAAAATACCTCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAAAATACCTCA
* * **
11970427 GCGTGCCCCG
64 ACGTGTCTTG
* *
11970437 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAATTACCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAAC
*
11970502 GTGTCCTG
66 GTGTCTTG
11970510 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAACAGGAATTGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC----A--G---A--AATTGAA
11970575 AATACCTCAACGTGTCTTG
55 AATACCTCAACGTGTCTTG
**
11970594 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGTAGAAATTGAAAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT-TTGAAAAACAGAAATTGAAAATACCTCA
*
11970659 ATGTGTCTTG
64 ACGTGTCTTG
* *
11970669 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-ACAACAGAAATTGAAATTACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAAAATACCTCA
* * *
11970733 GCTTGTCCTG
64 ACGTGTCTTG
** * *
11970743 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAAC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAAC
11970808 GTGTCTTG
66 GTGTCTTG
** * * *
11970816 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATTGAAATTACCTCAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAAC
11970880 GTGTCTTG
66 GTGTCTTG
** *
11970888 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTCTTTCAAAAACA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATT-TTTGAAAAACA
11970934 TAATAATGAA
Statistics
Matches: 442, Mismatches: 37, Indels: 36
0.86 0.07 0.07
Matches are distributed among these distances:
72 75 0.17
73 140 0.32
74 92 0.21
75 60 0.14
76 4 0.01
77 2 0.00
79 1 0.00
80 1 0.00
82 2 0.00
84 55 0.12
85 3 0.01
86 7 0.02
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (73 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAAC
GTGTCTTG
Found at i:11970518 original size:232 final size:231
Alignment explanation
Indices: 11970222--11971668 Score: 851
Period size: 233 Copynumber: 6.4 Consensus size: 231
11970212 GGCTTAACTA
* * * * * * *
11970222 CGCAGTATGAGTTGGTTTTTGCCAAACAGTAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAAC
1 CGCAATATGAGTTGATTTTTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAAC
* * *
11970287 TCACCTCTCGCAATATGAGTTGATTTAGAAAACAGACATAAA-AATAGAAATTGAAAGTGA-CTC
65 TCACCTCTCGCAATATGAGTTGATTTTGAAAACAGACATAAATAACAGAAATTGAAAAT-ACCTC
* * * *
11970350 AACACGTGAGC-CAAGGCTCAACTCATCTTTCGCAATATGAGTTGATTTTTTTG-AAAGTAGAAT
129 -A-ACGTG-GCTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGTAGAAA
**
11970413 TTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCT
191 TTGAAAATACCTCAACGTGCCCCGAGGCTCAACTCACCTCT
11970454 CGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAAC
1 CGCAATATGAGTTGATTTTTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAAC
*
11970519 TCACCTCTCGCAATATGAGTTGATTTTTG-AAA-A-ACATAAATTGAACAGGAATTGAAAATACC
65 TCACCTCTCGCAATATGAGTTGA-TTTTGAAAACAGACATAAA-T-AACAGAAATTGAAAATACC
* **
11970581 TCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGTAGAAAT
127 TCAACGTGGCTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGTAGAAAT
* * **
11970646 TGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCT
192 TGAAAATACCTCAACGTGCCCCGAGGCTCAACTCACCTCT
* *
11970686 CGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCTTGTCCTGAGGCTCAA
1 CGCAATATGAGTTGA--TTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAA
**
11970751 CTCATTTCTCGCAATATGAGTTGAATTTTG-AAA-AG----------CAGAAATTGAAAATACCT
64 CTCACCTCTCGCAATATGAGTTG-ATTTTGAAAACAGACATAAATAACAGAAATTGAAAATACCT
* ** ** * *
11970804 CAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATT-TTGAAAA-CAGAAATT
128 CAACGTGGCTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGTAGAAATT
* * * ** **
11970866 GAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCT
193 GAAAATACCTCAACGTGCCCCGAGGCTCAACTCACCTCT
* * * *
11970905 CGCAATATGAGTTGATTCTTTCAAAAACATAATAATGAAAACAGAAATGGAAAATACCTCGGTGT
1 CGCAATATGAGTTGA----TT--------T--T--TGAAAACAGAAATTGAAATTACCTCAGCGT
* * *
11970970 GACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATCAAA-AG
50 GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTG-AAAACAGACAT-AAATA-
* ** * *
11971034 GC-TTAATTGAAAATACCTCAGCGTGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
109 ACAGAAATTGAAAATACCTCAACGTG-GCT-C-AAGGCTCAACTCACCTCTCGCAATATGAGTTG
** * * *
11971097 A---AATT-AAAACATAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCT
171 ATTTTCTTGAAAA-GTAGAAATTGAAAATACCTCAACGTGCCCCGAGGCTCAACTCACCTCT
* * * * * *
11971155 TGCAATATGAGCTGA-TTTTGAAAA-AG---TAGAAATTA----A---------AAGGTTCAACC
1 CGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACT
*
11971202 CACCTCTCGCAATATGAGTTGATTCTT-------GAC----A-AACAGAAATTGAAATTACCTCA
66 CACCTCTCGCAATATGAGTTGATT-TTGAAAACAGACATAAATAACAGAAATTGAAAATACCTCA
* * *
11971255 TCGTGTC-CTGAGGCTCAACTCACCTCTCGCAATATGA----A-----TTG---A--A-AAA---
130 ACGTGGCTC-AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGTAGAAATTG
* ** ** * *
11971301 AAAATACCACAGTGTGTAATCTGAAGCTCAACTCACCTCT
194 AAAATACCTCAACGTG--CCCCGAGGCTCAACTCACCTCT
* * *
11971341 CGCAATATGAGTTGATTTTTTTTTTAAAAACAGAAATTGAAAATACCTCAGCATGTGAACC-GAG
1 CGCAATATGAGTTGA-----TTTTTGAAAACAGAAATTGAAATTACCTCAGC--GTG-TCCTGAG
* **** *
11971405 GCTCAACTCACCTCTCGCAATATAAGTTGATTTT-------TTTTTGAA-AACAGAAATTGAAAA
58 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAGACATAAATAACAGAAATTGAAAA
* ** ** * * *
11971462 TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATAAGTTGA-ATT-TTGAAAA-CAG
123 TACCTCAACGTGGCTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGTAG
* * * * **
11971524 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCT
188 AAATTGAAAATACCTCAACGTGCCCCGAGGCTCAACTCACCTCT
* *
11971568 CACAATATGAGTTGATTTTTCTTTTAACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCT
1 CGCAATATGAGTTGA---TT-TTTGAA-AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCT
*
11971633 CAACTCACCTCTAGCAATATGAGTTGATTTTGAAAA
61 CAACTCACCTCTCGCAATATGAGTTGATTTTGAAAA
11971669 ACAAAAATTA
Statistics
Matches: 990, Mismatches: 118, Indels: 216
0.75 0.09 0.16
Matches are distributed among these distances:
184 14 0.01
186 31 0.03
187 3 0.00
188 1 0.00
191 1 0.00
192 8 0.01
193 4 0.00
195 1 0.00
196 7 0.01
199 30 0.03
200 2 0.00
201 21 0.02
206 2 0.00
210 2 0.00
211 31 0.03
213 2 0.00
214 55 0.06
216 30 0.03
218 1 0.00
219 58 0.06
220 7 0.01
221 8 0.01
222 59 0.06
224 3 0.00
225 44 0.04
226 8 0.01
227 54 0.05
229 21 0.02
230 8 0.01
231 44 0.04
232 147 0.15
233 154 0.16
234 7 0.01
235 6 0.01
237 4 0.00
238 2 0.00
245 1 0.00
248 25 0.03
249 3 0.00
250 81 0.08
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (231 bp):
CGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACT
CACCTCTCGCAATATGAGTTGATTTTGAAAACAGACATAAATAACAGAAATTGAAAATACCTCAA
CGTGGCTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGTAGAAATTGAA
AATACCTCAACGTGCCCCGAGGCTCAACTCACCTCT
Found at i:11970763 original size:306 final size:297
Alignment explanation
Indices: 11970173--11971192 Score: 888
Period size: 306 Copynumber: 3.3 Consensus size: 297
11970163 AAAACATAAA
* * * * *
11970173 TTGAAAAACAGAAATAGAAAATACCTCAGCATGTCCTTAGGCTTAACT-A-----CGCAGTATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* ** * * * **
11970232 GTTGGTTTTTGCCAAACAGTAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCG
66 GTT-GATTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCG
** * * * * * *
11970297 CAATATGAGTTGATT-TAGAAAACAGACATAAAAATAGAAATTGAAAGTGA-CTCAACACGTGAG
130 CAATATGAGTTGATTCT---TTAC--ATATGAAAACAGAAATGGAAAAT-ACCTC-A-ATGTGA-
* * * * *
11970360 CC-AAGGCTCAACTCATCTTTCGCAATATGAGTTGATTTTTTTGA-AAGTAGAATTTGAAAATAC
186 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAA-AAGAAATTGAAAATAC
* * * *
11970423 CTCGGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
250 CTCAGCTTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TT
*
11970472 TTGAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
11970537 GTTGATTTTTGAAAAACATAAATTGAACAGGAATTGAAAATACCTCAACGTGTCTTGAGGCTCAA
66 GTTGA-TTTTGAAAAAC----A--G---A--AATTGAAAATACCTCAACGTGTCTTGAGGCTCAA
* *
11970602 CTCACCTCTCGCAATATGAGTTGA-T-TTT-C-T-TGAAAAGTAGAAATTGAAAATACCTCAATG
119 CTCACCTCTCGCAATATGAGTTGATTCTTTACATATGAAAA-CAGAAATGGAAAATACCTCAATG
* * * *
11970662 TGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATT
183 TGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAAAGAAATTGAAAAT
**
11970727 ACCTCAGCTTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
248 ACCTCAGCTTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATT
* * * **
11970778 TTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* * **
11970843 GTTGAATTTTG-AAAACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCG
66 GTTG-ATTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCG
**
11970907 CAATATGAGTTGATTCTTTCAAAAACATAATAATGAAAACAGAAATGGAAAATACCTCGGTGTGA
130 CAATATGAGTTGATTCTTT-----AC---AT-ATGAAAACAGAAATGGAAAATACCTCAATGTGA
11970972 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATCAAAAGGCT
186 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTT------T-G--A-CAAAA-G--
* **
11971037 TAATTGAAAATACCTCAGCGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAA
237 AAATTGAAAATACCTCAGC-T-TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
* * * * *
11971100 TT-AAAACATAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAATATG
1 TTGAAAA-ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
* *
11971164 AGCTGATTTTGAAAAAGTAGAAATT-AAAA
65 AGTTGATTTTGAAAAA-CAGAAATTGAAAA
11971193 GGTTCAACCC
Statistics
Matches: 594, Mismatches: 70, Indels: 91
0.79 0.09 0.12
Matches are distributed among these distances:
294 54 0.09
295 1 0.00
296 4 0.01
299 44 0.07
300 1 0.00
301 1 0.00
302 1 0.00
304 1 0.00
305 27 0.05
306 166 0.28
307 67 0.11
308 28 0.05
309 1 0.00
311 2 0.00
314 1 0.00
315 3 0.01
316 54 0.09
317 1 0.00
318 4 0.01
319 1 0.00
321 27 0.05
322 62 0.10
323 43 0.07
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.28
Consensus pattern (297 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGC
AATATGAGTTGATTCTTTACATATGAAAACAGAAATGGAAAATACCTCAATGTGACCTGAGGCTC
AACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAAAGAAATTGAAAATACCTCAGCTTGTC
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
Found at i:11970782 original size:233 final size:227
Alignment explanation
Indices: 11970245--11971173 Score: 873
Period size: 233 Copynumber: 4.0 Consensus size: 227
11970235 GGTTTTTGCC
* * * *
11970245 AAACAGTAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* * * * **
11970310 TTTAGAAAACAGACATAAA-AATAGAAATTGAAAGTGA-CTCAACACGTGAGC-CAAGGCTCAAC
66 TTTTG-AAA-A-ACATAAAGAACAGAAATTGAAAAT-ACCTC-A-ACGTG-TCTTGAGGCTCAAC
* * * * * * *
11970372 TCATCTTTCGCAATATGAGTTGATTTTTTTGAAAGTAGAATTTGAAAATACCTCGGCGTGCCCCG
124 TCACCTCTCGCAATATGAGTTGA---TTTTGAAAATAGAAATTGAAAATACCTCAGCGTGTCCTG
11970437 AGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTGAA
186 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTG-A
11970477 AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
11970542 TTTTTGAAAAACATAAATTGAACAGGAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCAC
66 -TTTTGAAAAACATAAA--GAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCAC
** *
11970607 CTCTCGCAATATGAGTTGATTTTCTTGAAAAGTAGAAATTGAAAATACCTCAATGTGTCTTGAGG
128 CTCTCGCAATATGAGTTGA--TT-TTGAAAA-TAGAAATTGAAAATACCTCAGCGTGTCCTGAGG
11970672 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGA
189 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGA
* * **
11970710 CAACAGAAATTGAAATTACCTCAGCTTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-
**
11970775 ATTTTG------A-AAAG--CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTT
65 ATTTTGAAAAACATAAAGAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCT
* * ** *
11970831 CTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAA
130 CTCGCAATATGAGTTG-ATTTTGAAAATAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAA
**
11970896 CTCATTTCTCGCAATATGAGTTGATTCTTTCAAAAACATAATAATGA
194 CTCACCTCTCGCAATATGAGTTGATT-TTT--------T--T--TGA
* * * * *
11970943 AAACAGAAATGGAAAATACCTCGGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* * * * * * *
11971008 TTTTTTTGAAAAATAGAAATCAAAAGGCTTAATTGAAAATACCTCAGCGTGTGTCCTGAGGCTCA
66 ---TTTTGAAAAACATAAA-GAACA-G--AAATTGAAAATACCTCAAC--GTGTCTTGAGGCTCA
** * * * *
11971073 ACTCACCTCTCGCAATATGAGTTGAAATTAAAACATAAAAATTGAAAATACCTCAGCGTGCCCCG
122 ACTCACCTCTCGCAATATGAGTTGATTTTGAAA-ATAGAAATTGAAAATACCTCAGCGTGTCCTG
* *
11971138 AGGCTCAACTCACCTCTTGCAATATGAGCTGATTTT
186 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
11971174 GAAAAAGTAG
Statistics
Matches: 589, Mismatches: 63, Indels: 73
0.81 0.09 0.10
Matches are distributed among these distances:
219 58 0.10
220 8 0.01
221 5 0.01
222 58 0.10
223 1 0.00
224 1 0.00
226 3 0.01
227 1 0.00
229 1 0.00
230 12 0.02
231 43 0.07
232 122 0.21
233 144 0.24
234 7 0.01
235 5 0.01
241 1 0.00
242 3 0.01
245 1 0.00
246 1 0.00
248 17 0.03
249 8 0.01
250 89 0.15
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (227 bp):
AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTGAAAAACATAAAGAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
TCGCAATATGAGTTGATTTTGAAAATAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACT
CACCTCTCGCAATATGAGTTGATTTTTTTTGA
Found at i:11970903 original size:72 final size:73
Alignment explanation
Indices: 11970562--11970920 Score: 517
Period size: 72 Copynumber: 4.9 Consensus size: 73
11970552 ACATAAATTG
* * **
11970562 AACAGGAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAT
*
11970627 TTTCTTGAA
66 ATT-TTGAA
* **
11970636 AAGTAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AA-CAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
* *
11970701 TTTTTTTGAC
65 -TATTTTGAA
* * *
11970711 AACAGAAATTGAAATTACCTCAGCT-TGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 AACAGAAATTGAAAATACCTCA-ATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
11970775 -ATTTTGAA
65 TATTTTGAA
*
11970783 AAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 AA-CAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
11970848 -ATTTTGAA
65 TATTTTGAA
*
11970856 AACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAT
11970921 TCTTTCAAAA
Statistics
Matches: 261, Mismatches: 18, Indels: 13
0.89 0.06 0.04
Matches are distributed among these distances:
72 68 0.26
73 67 0.26
74 56 0.21
75 66 0.25
76 4 0.02
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.31
Consensus pattern (73 bp):
AACAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAT
ATTTTGAA
Found at i:11971087 original size:90 final size:89
Alignment explanation
Indices: 11970854--11971097 Score: 300
Period size: 88 Copynumber: 2.8 Consensus size: 89
11970844 TTGAATTTTG
* * * **
11970854 AAAACAGAAATTGAAATTACCTCA-ATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 AAAACAGAAATTGAAAATACCTCAGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
11970918 GATTCTTTCAAAAACATAATAATG
66 GATTCTTTCAAAAACATAATAATC
* *
11970942 AAAACAGAAATGGAAAATACCTC-GGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAACAGAAATTGAAAATACCTCAGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* **
11971006 GATTTTTTTGAAAA-ATAGA-AATC
66 GATTCTTTCAAAAACATA-ATAATC
**
11971029 AAAAGGC-TTAATTGAAAATACCTCAGCGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 AAAA--CAGAAATTGAAAATACCTCAG-GTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
11971093 GTTGA
63 GTTGA
11971098 AATTAAAACA
Statistics
Matches: 135, Mismatches: 15, Indels: 10
0.84 0.09 0.06
Matches are distributed among these distances:
87 10 0.07
88 82 0.61
89 2 0.01
90 41 0.30
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.28
Consensus pattern (89 bp):
AAAACAGAAATTGAAAATACCTCAGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTCTTTCAAAAACATAATAATC
Found at i:11971546 original size:72 final size:73
Alignment explanation
Indices: 11971321--11971681 Score: 363
Period size: 72 Copynumber: 4.8 Consensus size: 73
11971311 AGTGTGTAAT
* * * *
11971321 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTAAAAACAGAAATTGAAAATA
1 CTGAGGCTCAACTCACCTCTCGCAATATAAGTTGA----TATTTTGAAAACAGAAATTGAAAATA
*
11971386 CCTCAGCATGTGAAC
62 CCTCAGC--GTG-TC
*
11971401 C-GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAAAACAGAAATTGAAAATAC
1 CTGAGGCTCAACTCACCTCTCGCAATATAAGTTGA---TATTTTGAAAACAGAAATTGAAAATAC
*
11971465 CTCAACGTGTC
63 CTCAGCGTGTC
* ** *
11971476 TTGAGGCTCAACTCATTTCTCGCAATATAAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTC
1 CTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATATTTTGAAAACAGAAATTGAAAATACCTC
11971540 AGCGTGTC
66 AGCGTGTC
** * * * * *
11971548 CTGAGGCTCAACTCATTTCTCACAATATGAGTTGATTTTTCTTTTAACAACAGAAATTGAAATTA
1 CTGAGGCTCAACTCACCTCTCGCAATATAAGTTGA--TAT-TTTGAA-AACAGAAATTGAAAATA
11971613 CCTCAGCGTGTC
62 CCTCAGCGTGTC
* * *
11971625 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTG--ATTTTGAAAAACAAAAATT-AAAA
1 CTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATATTTTG-AAAACAGAAATTGAAAA
11971682 GGCTTAACTC
Statistics
Matches: 250, Mismatches: 24, Indels: 23
0.84 0.08 0.08
Matches are distributed among these distances:
71 3 0.01
72 78 0.31
73 3 0.01
75 2 0.01
76 39 0.16
77 59 0.24
78 34 0.14
79 31 0.12
80 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (73 bp):
CTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATATTTTGAAAACAGAAATTGAAAATACCTC
AGCGTGTC
Found at i:11971627 original size:77 final size:75
Alignment explanation
Indices: 11971321--11971663 Score: 442
Period size: 77 Copynumber: 4.5 Consensus size: 75
11971311 AGTGTGTAAT
*
11971321 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTAAAAACAGAAATTGAAAATA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTTT-AAAACAGAAATTGAAAATA
*
11971386 CCTCAGCATGTGAAC
64 CCTCAGC--GTG-TC
*
11971401 C-GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAAAACAGAAATTGAAAATAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTT-AAAACAGAAATTGAAAATAC
*
11971465 CTCAACGTGTC
65 CTCAGCGTGTC
* ** * * * *
11971476 TTGAGGCTCAACTCATTTCTCGCAATATAAGTTGA---ATTTTGAAAACAGAAATTGAAATTACC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAAAACAGAAATTGAAAATACC
11971538 TCAGCGTGTC
66 TCAGCGTGTC
** * *
11971548 CTGAGGCTCAACTCATTTCTCACAATATGAGTTGATTTTTCTTTTAACAACAGAAATTGAAATTA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-TTTTAA-AACAGAAATTGAAAATA
11971613 CCTCAGCGTGTC
64 CCTCAGCGTGTC
*
11971625 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
11971664 GAAAAACAAA
Statistics
Matches: 236, Mismatches: 21, Indels: 15
0.87 0.08 0.06
Matches are distributed among these distances:
72 61 0.26
73 4 0.02
75 2 0.01
76 39 0.17
77 64 0.27
78 34 0.14
79 31 0.13
80 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.32
Consensus pattern (75 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAAAACAGAAATTGAAAATACC
TCAGCGTGTC
Found at i:11971636 original size:149 final size:148
Alignment explanation
Indices: 11971321--11971681 Score: 424
Period size: 149 Copynumber: 2.4 Consensus size: 148
11971311 AGTGTGTAAT
* * * *
11971321 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTAAAAACAGAAATTGAAAATA
1 CTGAGGCTCAACTCACCTCTAGCAATATAAGTTGA------TTTTGAAAACAGAAATTGAAAATA
*
11971386 CCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAAAACA
60 CCTCAGCA-GTGAACCGAGGCTCAACTCACCTCTCACAATATAAGTTGATTTTTTTTTGAAAACA
11971451 GAAATTGAAAATACCTCAACGTGTC
124 GAAATTGAAAATACCTCAACGTGTC
* ** * *
11971476 TTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCA
1 CTGAGGCTCAACTCACCTCTAGCAATATAAGTTG-ATTTTGAAAACAGAAATTGAAAATACCTCA
* ** *
11971541 GC-GTG-TCCTGAGGCTCAACTCATTTCTCACAATATGAGTTGATTTTTCTTTT-AACAACAGAA
65 GCAGTGAACC-GAGGCTCAACTCACCTCTCACAATATAAGTTGATTTTT-TTTTGAA-AACAGAA
* *
11971603 ATTGAAATTACCTCAGCGTGTC
127 ATTGAAAATACCTCAACGTGTC
* *
11971625 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATT-AAAA
1 CTGAGGCTCAACTCACCTCTAGCAATATAAGTTGATTTTG-AAAACAGAAATTGAAAA
11971682 GGCTTAACTC
Statistics
Matches: 180, Mismatches: 21, Indels: 17
0.83 0.10 0.08
Matches are distributed among these distances:
147 2 0.01
148 48 0.27
149 71 0.39
150 29 0.16
155 29 0.16
156 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (148 bp):
CTGAGGCTCAACTCACCTCTAGCAATATAAGTTGATTTTGAAAACAGAAATTGAAAATACCTCAG
CAGTGAACCGAGGCTCAACTCACCTCTCACAATATAAGTTGATTTTTTTTTGAAAACAGAAATTG
AAAATACCTCAACGTGTC
Found at i:11971824 original size:71 final size:70
Alignment explanation
Indices: 11971681--11971856 Score: 219
Period size: 71 Copynumber: 2.5 Consensus size: 70
11971671 AAAAATTAAA
* * * * * **
11971681 AGGCTTAACTCACCTTTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCGGCGTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
11971745 CCCCG
66 CCCCG
* *
11971750 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAACAAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAAAC-AAAAACTAAAAATACCTCAACGT
* **
11971815 GTCTTG
65 GCCCCG
*
11971821 AGGCTCAACTCATCTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
11971857 CCTTGGAAAG
Statistics
Matches: 92, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
69 26 0.28
70 9 0.10
71 57 0.62
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (70 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
CCCCG
Found at i:11972152 original size:29 final size:29
Alignment explanation
Indices: 11972120--11972178 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
11972110 GCGTTCATTG
11972120 CTTTGATTCTCGACCTTCTCTTCAGGCCT
1 CTTTGATTCTCGACCTTCTCTTCAGGCCT
11972149 CTTTGATTCTCGACCTTCTCTTCAGGCCT
1 CTTTGATTCTCGACCTTCTCTTCAGGCCT
11972178 C
1 C
11972179 ATACCTGTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.10, C:0.36, G:0.14, T:0.41
Consensus pattern (29 bp):
CTTTGATTCTCGACCTTCTCTTCAGGCCT
Found at i:11978448 original size:44 final size:45
Alignment explanation
Indices: 11978394--11978488 Score: 156
Period size: 44 Copynumber: 2.1 Consensus size: 45
11978384 TTCATCCTCT
*
11978394 TTCCCCACTGTGCTCACATTCCCTTCGGTATGGCTAGGGAAC-GG
1 TTCCCCACTGTGCTCACATTCCATTCGGTATGGCTAGGGAACGGG
* *
11978438 TTCCCTACTGTGCTCACATTCCATTCGGTATGGTTAGGGAACGGG
1 TTCCCCACTGTGCTCACATTCCATTCGGTATGGCTAGGGAACGGG
11978483 TTCCCC
1 TTCCCC
11978489 GTGGCGTTAC
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
44 39 0.85
45 7 0.15
ACGTcount: A:0.16, C:0.31, G:0.24, T:0.29
Consensus pattern (45 bp):
TTCCCCACTGTGCTCACATTCCATTCGGTATGGCTAGGGAACGGG
Found at i:11984640 original size:587 final size:587
Alignment explanation
Indices: 11983525--11984697 Score: 2220
Period size: 587 Copynumber: 2.0 Consensus size: 587
11983515 TTTTCTAGGT
** *
11983525 GTGATCGGACACCTATTAGATTTTTCTTTAAAAAAATGAGGAAAAGGCCGAGTTAAGGTCTACGT
1 GTGATCGGACACCTATTAGATTTTTCTTTAAAAAAACAAGAAAAAGGCCGAGTTAAGGTCTACGT
*
11983590 TAAAAGTCAGAGAAAAATTAGGGTTCGGGAGTCGGTTACGAGCGAGGAAGATATTAGCACCCTCG
66 TAAAAGTCAGAGAAAAATTAGGGTTCGGGAGTCGGTTACGAGCGAGGAAGATATTAGCACCCTCA
*
11983655 CGACGCCCAAAATTGGTATCTCCTAAACACGTGTTGTCTTGACTTTTAAAAATACGAGTTCAATG
131 CGACGCCCAAAATTGGTATCTCCTAAACACGTGTTGTCTTAACTTTTAAAAATACGAGTTCAATG
*
11983720 TTAAAATTTAGTCATAATCCGATTAAAAGAACGAGAAATTTTGGTTTATTTCGTTTTTTTTGAAG
196 TTAAAATTTAGTCATAATCCGATTAAAAGAACGAGAAATTTTGGTTTATTTCATTTTTTTTGAAG
*
11983785 GGTATATCGCTTTAATATGAGTCAATTGACGTTCACCCAACATAGCGATGAACTCGATGACTTAA
261 GGTATATCGCTTTAACATGAGTCAATTGACGTTCACCCAACATAGCGATGAACTCGATGACTTAA
11983850 TGTTAAATCGGTATATTACCTTAATTATTGATTTAAATCATGAATAAGAATATTTTCGACATAAT
326 TGTTAAATCGGTATATTACCTTAATTATTGATTTAAATCATGAATAAGAATATTTTCGACATAAT
*
11983915 GCAAAGTAAAATAATATGAAATAAAAATCAACAAATGAAAGAGCTGGGGATATATTGAAACAGAT
391 GCAAAGTAAAATAATATGAAATAAAAATCAACAAATGAAAGAGCTGGGAATATATTGAAACAGAT
*
11983980 AATCGAGGTGACAATAATATTAGAAAAGATGAAGGTATAATGGAATTGAACACGAAATGAAAATA
456 AATCGAGGTGACAATAATATTAGAAAAGATGAAGATATAATGGAATTGAACACGAAATGAAAATA
*
11984045 ATGAATGTATACGCGTAATAATAATATTAAGAATGCGTGCGTAAGATGATATATGTATAAAAACG
521 AGGAATGTATACGCGTAATAATAATATTAAGAATGCGTGCGTAAGATGATATATGTATAAAAACG
11984110 TC
586 TC
11984112 GTGATCGGACACCTATTAGATTTTTCTTTAAAAAAACAAGAAAAAGGCCGAGTTAAGGTCTACGT
1 GTGATCGGACACCTATTAGATTTTTCTTTAAAAAAACAAGAAAAAGGCCGAGTTAAGGTCTACGT
* *
11984177 TAAAAGTCAGAGAAAAATTAGGGTTCGGGAGTCGGTTACGCGCGAGGAAGGTATTAGCACCCTCA
66 TAAAAGTCAGAGAAAAATTAGGGTTCGGGAGTCGGTTACGAGCGAGGAAGATATTAGCACCCTCA
11984242 CGACGCCCAAAATTGGTATCTCCTAAACACGTGTTGTCTTAACTTTTAAAAATACGAGTTCAATG
131 CGACGCCCAAAATTGGTATCTCCTAAACACGTGTTGTCTTAACTTTTAAAAATACGAGTTCAATG
11984307 TTAAAATTTAGTCATAATCCGATTAAAAGAACGAGAAATTTTGGTTTATTTCATTTTTTTTGAAG
196 TTAAAATTTAGTCATAATCCGATTAAAAGAACGAGAAATTTTGGTTTATTTCATTTTTTTTGAAG
11984372 GGTATATCGCTTTAACATGAGTCAATTGACGTTCACCCAACATAGCGATGAACTCGATGACTTAA
261 GGTATATCGCTTTAACATGAGTCAATTGACGTTCACCCAACATAGCGATGAACTCGATGACTTAA
*
11984437 TGTTAAATCGGTATATTATCTTAATTATTGATTTAAATCATGAATAAGAATATTTTCGACATAAT
326 TGTTAAATCGGTATATTACCTTAATTATTGATTTAAATCATGAATAAGAATATTTTCGACATAAT
*
11984502 GCAAAGTAAAATAATATGAAATAAAAATCAATAAATGAAAGAGCTGGGAATATATTGAAACAGAT
391 GCAAAGTAAAATAATATGAAATAAAAATCAACAAATGAAAGAGCTGGGAATATATTGAAACAGAT
11984567 AATCGAGGTGACAATAATATTAGAAAAGATGAAGATATAATGGAATTGAACACGAAATGAAAATA
456 AATCGAGGTGACAATAATATTAGAAAAGATGAAGATATAATGGAATTGAACACGAAATGAAAATA
11984632 AGGAATGTATACGCGTAATAATAATATTAAGAATGCGTGCGTAAGATGATATATGTATAAAAACG
521 AGGAATGTATACGCGTAATAATAATATTAAGAATGCGTGCGTAAGATGATATATGTATAAAAACG
11984697 T
586 T
11984698 TTACATAAAA
Statistics
Matches: 572, Mismatches: 14, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
587 572 1.00
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.29
Consensus pattern (587 bp):
GTGATCGGACACCTATTAGATTTTTCTTTAAAAAAACAAGAAAAAGGCCGAGTTAAGGTCTACGT
TAAAAGTCAGAGAAAAATTAGGGTTCGGGAGTCGGTTACGAGCGAGGAAGATATTAGCACCCTCA
CGACGCCCAAAATTGGTATCTCCTAAACACGTGTTGTCTTAACTTTTAAAAATACGAGTTCAATG
TTAAAATTTAGTCATAATCCGATTAAAAGAACGAGAAATTTTGGTTTATTTCATTTTTTTTGAAG
GGTATATCGCTTTAACATGAGTCAATTGACGTTCACCCAACATAGCGATGAACTCGATGACTTAA
TGTTAAATCGGTATATTACCTTAATTATTGATTTAAATCATGAATAAGAATATTTTCGACATAAT
GCAAAGTAAAATAATATGAAATAAAAATCAACAAATGAAAGAGCTGGGAATATATTGAAACAGAT
AATCGAGGTGACAATAATATTAGAAAAGATGAAGATATAATGGAATTGAACACGAAATGAAAATA
AGGAATGTATACGCGTAATAATAATATTAAGAATGCGTGCGTAAGATGATATATGTATAAAAACG
TC
Found at i:11985992 original size:22 final size:22
Alignment explanation
Indices: 11985962--11986024 Score: 99
Period size: 22 Copynumber: 2.9 Consensus size: 22
11985952 TACGAGGGCT
*
11985962 GTGGAGGTATGGGACTGCTGTA
1 GTGGAGGTATGGGGCTGCTGTA
* *
11985984 GTGGGGGTATGGGGCCGCTGTA
1 GTGGAGGTATGGGGCTGCTGTA
11986006 GTGGAGGTATGGGGCTGCT
1 GTGGAGGTATGGGGCTGCT
11986025 TCATGGTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.13, C:0.11, G:0.51, T:0.25
Consensus pattern (22 bp):
GTGGAGGTATGGGGCTGCTGTA
Found at i:11990033 original size:23 final size:24
Alignment explanation
Indices: 11990007--11990057 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
11989997 AATCAAAGTC
* *
11990007 AAATATA-TATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
11990030 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
11990054 AAAT
1 AAAT
11990058 CTTTTAGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 7 0.29
24 17 0.71
ACGTcount: A:0.51, C:0.10, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:11994441 original size:24 final size:24
Alignment explanation
Indices: 11994414--11994465 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
11994404 AATTAGAGTA
* *
11994414 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
11994438 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
11994462 AAAT
1 AAAT
11994466 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:11997684 original size:3 final size:3
Alignment explanation
Indices: 11997676--11997705 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
11997666 ATAATGACAG
*
11997676 TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
11997706 ACTAATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:11999387 original size:30 final size:30
Alignment explanation
Indices: 11999347--11999410 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
11999337 TACAATTTGT
* *
11999347 TCACCAAACTATTTGAAAGTTATAAGTTGA
1 TCACCAAACTATTCGAAAGTTAAAAGTTGA
*
11999377 TCACCGAACTATTCGAAAGTTAAAAGTTGA
1 TCACCAAACTATTCGAAAGTTAAAAGTTGA
11999407 TCAC
1 TCAC
11999411 TGACACATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (30 bp):
TCACCAAACTATTCGAAAGTTAAAAGTTGA
Found at i:12001099 original size:2 final size:2
Alignment explanation
Indices: 12000944--12001080 Score: 274
Period size: 2 Copynumber: 68.5 Consensus size: 2
12000934 ACCACAAGTA
12000944 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
12000986 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
12001028 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
12001070 CT CT CT CT CT C
1 CT CT CT CT CT C
12001081 ATTTCTTTAG
Statistics
Matches: 135, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 135 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:12002630 original size:40 final size:40
Alignment explanation
Indices: 12002586--12002663 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
12002576 TACGTGGCAA
* * *
12002586 CAAAGCGCGCTTAAGTGGACGCGCTTTGTTGCCACGTATG
1 CAAAGCACGCTGAAGTGGACGCGCTTTGCTGCCACGTATG
* * *
12002626 CAAAGCACGCTGACGTGGACGTGTTTTGCTGCCACGTA
1 CAAAGCACGCTGAAGTGGACGCGCTTTGCTGCCACGTA
12002664 GCGCGCCCCT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.21, C:0.26, G:0.29, T:0.24
Consensus pattern (40 bp):
CAAAGCACGCTGAAGTGGACGCGCTTTGCTGCCACGTATG
Found at i:12002732 original size:22 final size:21
Alignment explanation
Indices: 12002703--12002743 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
12002693 TTCTCCCACA
**
12002703 TTAGGTTTTGGGTTTTTAGGG
1 TTAGGTTTAAGGTTTTTAGGG
12002724 TTAGTGTTTAAGGTTTTTAG
1 TTAG-GTTTAAGGTTTTTAG
12002744 TTTTTAAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.15, C:0.00, G:0.32, T:0.54
Consensus pattern (21 bp):
TTAGGTTTAAGGTTTTTAGGG
Found at i:12002755 original size:21 final size:21
Alignment explanation
Indices: 12002731--12002823 Score: 78
Period size: 22 Copynumber: 4.1 Consensus size: 21
12002721 GGGTTAGTGT
*
12002731 TTAAGGTTTTTAGTTTTTAAG
1 TTAAGGTTTTGAGTTTTTAAG
12002752 TTAAGGTTACGGTTAGAGTTTTTAAG
1 TTAAGGTT----TT-GAGTTTTTAAG
* *
12002778 TTAATGGTTTAGGGTTTTTAAG
1 TTAA-GGTTTTGAGTTTTTAAG
* *
12002800 TTAAGGGTTTAGGGTTTTTAAG
1 TTAA-GGTTTTGAGTTTTTAAG
12002822 TT
1 TT
12002824 TTTAAGTTAA
Statistics
Matches: 62, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
21 8 0.13
22 33 0.53
23 1 0.02
25 2 0.03
26 14 0.23
27 4 0.06
ACGTcount: A:0.24, C:0.01, G:0.26, T:0.49
Consensus pattern (21 bp):
TTAAGGTTTTGAGTTTTTAAG
Found at i:12002794 original size:22 final size:22
Alignment explanation
Indices: 12002764--12002876 Score: 120
Period size: 22 Copynumber: 4.8 Consensus size: 22
12002754 AAGGTTACGG
*
12002764 TTAGAGTTTTTAAGTTAATGGT
1 TTAGGGTTTTTAAGTTAATGGT
*
12002786 TTAGGGTTTTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAATGGT
*
12002808 TTAGGGTTTTTAAGTTTTTAAGTTAAGGG
1 TTAGGGTTTTTAAG---TTAA--T--GGT
12002837 TTTAGGGTTTTTAAGTTAA-GGT
1 -TTAGGGTTTTTAAGTTAATGGT
12002859 TTAGGGTTTTTAAGTTAA
1 TTAGGGTTTTTAAGTTAA
12002877 CTTTTTTTAA
Statistics
Matches: 78, Mismatches: 5, Indels: 17
0.78 0.05 0.17
Matches are distributed among these distances:
21 18 0.23
22 36 0.46
25 4 0.05
27 4 0.05
29 2 0.03
30 14 0.18
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.49
Consensus pattern (22 bp):
TTAGGGTTTTTAAGTTAATGGT
Found at i:12002827 original size:30 final size:30
Alignment explanation
Indices: 12002791--12002853 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
12002781 ATGGTTTAGG
12002791 GTTTTTAAGTTAAGGGTTTAGGGTTTTTAA
1 GTTTTTAAGTTAAGGGTTTAGGGTTTTTAA
12002821 GTTTTTAAGTTAAGGGTTTAGGGTTTTTAA
1 GTTTTTAAGTTAAGGGTTTAGGGTTTTTAA
12002851 GTT
1 GTT
12002854 AAGGTTTAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.22, C:0.00, G:0.27, T:0.51
Consensus pattern (30 bp):
GTTTTTAAGTTAAGGGTTTAGGGTTTTTAA
Found at i:12002839 original size:52 final size:51
Alignment explanation
Indices: 12002743--12002874 Score: 200
Period size: 52 Copynumber: 2.6 Consensus size: 51
12002733 AAGGTTTTTA
* *
12002743 GTTTTTAAGTTAAGG-TTACGG---TTAGAGTTTTTAAGTTAATGGTTTAGG
1 GTTTTTAAGTTAAGGTTTAGGGTTTTTA-AGTTTTTAAGTTAAGGGTTTAGG
12002791 GTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTTTTAAGTTAAGGGTTTAGG
1 GTTTTTAAGTTAA-GGTTTAGGGTTTTTAAGTTTTTAAGTTAAGGGTTTAGG
12002843 GTTTTTAAGTTAAGGTTTAGGGTTTTTAAGTT
1 GTTTTTAAGTTAAGGTTTAGGGTTTTTAAGTT
12002875 AACTTTTTTT
Statistics
Matches: 77, Mismatches: 2, Indels: 7
0.90 0.02 0.08
Matches are distributed among these distances:
48 13 0.17
49 2 0.03
50 5 0.06
51 19 0.25
52 35 0.45
53 3 0.04
ACGTcount: A:0.23, C:0.01, G:0.27, T:0.48
Consensus pattern (51 bp):
GTTTTTAAGTTAAGGTTTAGGGTTTTTAAGTTTTTAAGTTAAGGGTTTAGG
Found at i:12002847 original size:21 final size:21
Alignment explanation
Indices: 12002821--12002876 Score: 103
Period size: 21 Copynumber: 2.6 Consensus size: 21
12002811 GGGTTTTTAA
12002821 GTTTTTAAGTTAAGGGTTTAGG
1 GTTTTTAAGTTAA-GGTTTAGG
12002843 GTTTTTAAGTTAAGGTTTAGG
1 GTTTTTAAGTTAAGGTTTAGG
12002864 GTTTTTAAGTTAA
1 GTTTTTAAGTTAA
12002877 CTTTTTTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 21 0.62
22 13 0.38
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.48
Consensus pattern (21 bp):
GTTTTTAAGTTAAGGTTTAGG
Found at i:12002963 original size:49 final size:52
Alignment explanation
Indices: 12002891--12002992 Score: 131
Period size: 49 Copynumber: 2.0 Consensus size: 52
12002881 TTTTAAAAAT
12002891 AATTAAAAATAGGTATTTAAGAGAAATTTA-AGAGGAAATT-GAGCAAATTGA
1 AATTAAAAATAGGTATTTAAGAGAAATTTAGA-AGGAAATTAGAGCAAATTGA
* * *
12002942 AATTAAATAT-GG-ATTTGAGAGAAATTTGGAAGGAAATTGAGAGCAAATTGA
1 AATTAAAAATAGGTATTTAAGAGAAATTTAGAAGGAAATT-AGAGCAAATTGA
12002993 GAGGAAATTG
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
49 22 0.49
50 3 0.07
51 20 0.44
ACGTcount: A:0.48, C:0.02, G:0.23, T:0.27
Consensus pattern (52 bp):
AATTAAAAATAGGTATTTAAGAGAAATTTAGAAGGAAATTAGAGCAAATTGA
Found at i:12002981 original size:22 final size:22
Alignment explanation
Indices: 12002956--12003018 Score: 76
Period size: 22 Copynumber: 2.8 Consensus size: 22
12002946 AAATATGGAT
12002956 TTGAGAGAAATTTG-GAAGGAAA
1 TTGAGAGAAATTTGAG-AGGAAA
12002978 TTGAGAGCAAA-TTGAGAGGAAA
1 TTGAGAG-AAATTTGAGAGGAAA
*
12003000 TTGAGAAAATATTTGAGAG
1 TTGAGAGAA-ATTTGAGAG
12003019 AGGATTAGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
21 2 0.06
22 23 0.64
23 11 0.31
ACGTcount: A:0.44, C:0.02, G:0.30, T:0.24
Consensus pattern (22 bp):
TTGAGAGAAATTTGAGAGGAAA
Found at i:12010518 original size:2 final size:2
Alignment explanation
Indices: 12010511--12010543 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
12010501 CCCACTAGTA
12010511 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
12010544 ATTATTACCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:12011984 original size:18 final size:18
Alignment explanation
Indices: 12011963--12012004 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
12011953 CCAATATTTC
12011963 CTAATAAATGCTCA-TAAT
1 CTAAT-AATGCTCACTAAT
*
12011981 CTAAGTTATGCTCACTAAT
1 CTAA-TAATGCTCACTAAT
12012000 CTAAT
1 CTAAT
12012005 CCTAATTGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.38, C:0.19, G:0.07, T:0.36
Consensus pattern (18 bp):
CTAATAATGCTCACTAAT
Found at i:12020324 original size:27 final size:26
Alignment explanation
Indices: 12020235--12020316 Score: 137
Period size: 26 Copynumber: 3.1 Consensus size: 26
12020225 AAGGGTGTAA
12020235 TTAATCAAAAGTTATATCTTTTGATTT
1 TTAATC-AAAGTTATATCTTTTGATTT
12020262 TTAATCAAAGTTATATCTTTTGATTT
1 TTAATCAAAGTTATATCTTTTGATTT
*
12020288 TTAATCAAGAGTTATATCATTTGATTT
1 TTAATCAA-AGTTATATCTTTTGATTT
12020315 TT
1 TT
12020317 GACAAAGAAT
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
26 28 0.53
27 25 0.47
ACGTcount: A:0.32, C:0.07, G:0.09, T:0.52
Consensus pattern (26 bp):
TTAATCAAAGTTATATCTTTTGATTT
Found at i:12020329 original size:27 final size:27
Alignment explanation
Indices: 12020235--12020330 Score: 119
Period size: 27 Copynumber: 3.6 Consensus size: 27
12020225 AAGGGTGTAA
12020235 TTAATCAAA-AGTTATATCTTTTGATTT
1 TTAATCAAAGA-TTATATCTTTTGATTT
12020262 TTAATCAAAG-TTATATCTTTTGATTT
1 TTAATCAAAGATTATATCTTTTGATTT
*
12020288 TTAATC-AAGAGTTATATCATTTGATTT
1 TTAATCAAAGA-TTATATCTTTTGATTT
*
12020315 TTGA-CAAAGAATTATA
1 TTAATCAAAG-ATTATA
12020331 ATTATTCAAG
Statistics
Matches: 62, Mismatches: 2, Indels: 10
0.84 0.03 0.14
Matches are distributed among these distances:
25 3 0.05
26 23 0.37
27 35 0.56
28 1 0.02
ACGTcount: A:0.35, C:0.07, G:0.09, T:0.48
Consensus pattern (27 bp):
TTAATCAAAGATTATATCTTTTGATTT
Found at i:12025321 original size:21 final size:21
Alignment explanation
Indices: 12025297--12025452 Score: 116
Period size: 21 Copynumber: 7.5 Consensus size: 21
12025287 ACATCAGTGC
*
12025297 TAAACAAAAACCCATAAGAGT
1 TAAACAGAAACCCATAAGAGT
*
12025318 TAAACAGAAACTCATAAGAGT
1 TAAACAGAAACCCATAAGAGT
* *
12025339 TGAACAGAAACCCATAAGGGT
1 TAAACAGAAACCCATAAGAGT
* * * * *
12025360 TAAACTGAAGCTCAAAAGAGC
1 TAAACAGAAACCCATAAGAGT
* * * *
12025381 TAAACTGAAACCTAAAAGGGT
1 TAAACAGAAACCCATAAGAGT
* * *
12025402 TAAACTGAAACTCATATGAGT
1 TAAACAGAAACCCATAAGAGT
* * * *
12025423 T-AACTGAAGCTCATAAGAGC
1 TAAACAGAAACCCATAAGAGT
*
12025443 TAAACTGAAA
1 TAAACAGAAA
12025453 GCAAACACAA
Statistics
Matches: 108, Mismatches: 26, Indels: 2
0.79 0.19 0.01
Matches are distributed among these distances:
20 17 0.16
21 91 0.84
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.19
Consensus pattern (21 bp):
TAAACAGAAACCCATAAGAGT
Found at i:12025363 original size:42 final size:42
Alignment explanation
Indices: 12025297--12025452 Score: 161
Period size: 42 Copynumber: 3.7 Consensus size: 42
12025287 ACATCAGTGC
* * *
12025297 TAAACAAAAACCCATAAGAGTTAAACAGAAACTCATAAGAGT
1 TAAACAGAAACCCATAAGGGTTAAACTGAAACTCATAAGAGT
* * * *
12025339 TGAACAGAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGC
1 TAAACAGAAACCCATAAGGGTTAAACTGAAACTCATAAGAGT
* * * *
12025381 TAAACTGAAACCTAAAAGGGTTAAACTGAAACTCATATGAGT
1 TAAACAGAAACCCATAAGGGTTAAACTGAAACTCATAAGAGT
* * * * *
12025423 T-AACTGAAGCTCATAAGAGCTAAACTGAAA
1 TAAACAGAAACCCATAAGGGTTAAACTGAAA
12025453 GCAAACACAA
Statistics
Matches: 93, Mismatches: 21, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
41 23 0.25
42 70 0.75
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.19
Consensus pattern (42 bp):
TAAACAGAAACCCATAAGGGTTAAACTGAAACTCATAAGAGT
Found at i:12025385 original size:63 final size:62
Alignment explanation
Indices: 12025333--12025452 Score: 168
Period size: 62 Copynumber: 1.9 Consensus size: 62
12025323 AGAAACTCAT
* *
12025333 AAGAGTTGAACAGAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTAAACTGAAACCTAA
1 AAGAGTTAAACAGAAACCCATAAGAGTT-AACTGAAGCTCAAAAGAGCTAAACTGAAACCTAA
* * * * *
12025396 AAGGGTTAAACTGAAACTCATATGAGTTAACTGAAGCTCATAAGAGCTAAACTGAAA
1 AAGAGTTAAACAGAAACCCATAAGAGTTAACTGAAGCTCAAAAGAGCTAAACTGAAA
12025453 GCAAACACAA
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
62 28 0.56
63 22 0.44
ACGTcount: A:0.46, C:0.16, G:0.19, T:0.19
Consensus pattern (62 bp):
AAGAGTTAAACAGAAACCCATAAGAGTTAACTGAAGCTCAAAAGAGCTAAACTGAAACCTAA
Found at i:12041984 original size:18 final size:18
Alignment explanation
Indices: 12041961--12041997 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
12041951 TAAATAAATA
*
12041961 TAAAAATATGATAAAATTC
1 TAAAAA-ATAATAAAATTC
12041980 TAAAAAATAATAAAATTC
1 TAAAAAATAATAAAATTC
12041998 ATAATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (18 bp):
TAAAAAATAATAAAATTC
Found at i:12050634 original size:21 final size:21
Alignment explanation
Indices: 12050612--12050716 Score: 75
Period size: 21 Copynumber: 5.0 Consensus size: 21
12050602 GAAGCTCATG
*
12050612 AGAGCTAAACGGAAACCCATG
1 AGAGCTAAACGGAAACCCATA
* * * * * *
12050633 AGGGTTGAACGGAAGCTCGTA
1 AGAGCTAAACGGAAACCCATA
*
12050654 AGAGCTTAACGGAAACCCATA
1 AGAGCTAAACGGAAACCCATA
* * * * * *
12050675 AGGGTTAAACTGAAGCTCAAA
1 AGAGCTAAACGGAAACCCATA
*
12050696 AGAGCTAAACGGAAACTCATA
1 AGAGCTAAACGGAAACCCATA
12050717 TGAGTTAGCA
Statistics
Matches: 59, Mismatches: 25, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
21 59 1.00
ACGTcount: A:0.41, C:0.19, G:0.25, T:0.15
Consensus pattern (21 bp):
AGAGCTAAACGGAAACCCATA
Found at i:12050658 original size:42 final size:42
Alignment explanation
Indices: 12050596--12050747 Score: 162
Period size: 42 Copynumber: 3.6 Consensus size: 42
12050586 GCCTGAAGGC
* *
12050596 TGAACAGAAGCTCATGAGAGCTAAACGGAAACCCATGAGGGT
1 TGAACAGAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGT
* * *
12050638 TGAACGGAAGCTCGTAAGAGCTTAACGGAAACCCATAAGGGT
1 TGAACAGAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGT
* * * * * *
12050680 TAAACTGAAGCTCAAAAGAGCTAAACGGAAACTCATATGAGT
1 TGAACAGAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGT
* * **
12050722 T-AGCAGAAGCTCGTGTGAGCTAAACG
1 TGAACAGAAGCTCATAAGAGCTAAACG
12050748 AAAAGTAAAC
Statistics
Matches: 91, Mismatches: 19, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
41 19 0.21
42 72 0.79
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.17
Consensus pattern (42 bp):
TGAACAGAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGT
Found at i:12052718 original size:18 final size:19
Alignment explanation
Indices: 12052682--12052723 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
12052672 ATCTTAAAAG
12052682 ATAAAAAAAATTAATAACT
1 ATAAAAAAAATTAATAACT
12052701 ATAAAATAAAATT-A-AACT
1 ATAAAA-AAAATTAATAACT
12052719 ATAAA
1 ATAAA
12052724 CTTTAAAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 9 0.41
19 7 0.32
20 6 0.27
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (19 bp):
ATAAAAAAAATTAATAACT
Found at i:12053392 original size:19 final size:19
Alignment explanation
Indices: 12053368--12053404 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
12053358 TAGAAATTAA
*
12053368 TTTGGATTTAGTTTTATTG
1 TTTGGATTTAATTTTATTG
12053387 TTTGGATTTAATTTTATT
1 TTTGGATTTAATTTTATT
12053405 ATTATAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.16, T:0.65
Consensus pattern (19 bp):
TTTGGATTTAATTTTATTG
Found at i:12054438 original size:22 final size:21
Alignment explanation
Indices: 12054398--12054438 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
12054388 TCACTCAACT
* *
12054398 ATTAAATTTTTCGATTTAACC
1 ATTAAACTTTTCGAATTAACC
12054419 ATTAAACTTTTCGAAATTAA
1 ATTAAACTTTTCG-AATTAA
12054439 ATATTTTAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.44
Consensus pattern (21 bp):
ATTAAACTTTTCGAATTAACC
Found at i:12067527 original size:17 final size:18
Alignment explanation
Indices: 12067505--12067538 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
12067495 TTTAAAATTA
*
12067505 AAAACT-AAAAATAAAGT
1 AAAACTGAAAAAGAAAGT
12067522 AAAACTGAAAAAGAAAG
1 AAAACTGAAAAAGAAAG
12067539 AGTGAATGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.71, C:0.06, G:0.12, T:0.12
Consensus pattern (18 bp):
AAAACTGAAAAAGAAAGT
Found at i:12068216 original size:7 final size:7
Alignment explanation
Indices: 12068204--12068228 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
12068194 GTTTTGGGCT
12068204 TTTTCTA
1 TTTTCTA
12068211 TTTTCTA
1 TTTTCTA
12068218 TTTTCTA
1 TTTTCTA
12068225 TTTT
1 TTTT
12068229 AAAGAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTCTA
Found at i:12072594 original size:24 final size:24
Alignment explanation
Indices: 12072549--12072594 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
12072539 TTAAAGTAAA
* ** *
12072549 TTAATATTTTAATTTTTTTATTAG
1 TTAATAATTTAATCATTATATTAG
12072573 TTAATAATTTAATCATTATATT
1 TTAATAATTTAATCATTATATT
12072595 TCAAGATTTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (24 bp):
TTAATAATTTAATCATTATATTAG
Found at i:12077516 original size:6 final size:7
Alignment explanation
Indices: 12077495--12077519 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
12077485 AGTAACTTTC
12077495 AAATAAA
1 AAATAAA
12077502 AAATAAA
1 AAATAAA
12077509 AAATAAA
1 AAATAAA
12077516 AAAT
1 AAAT
12077520 GAAATGAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (7 bp):
AAATAAA
Found at i:12077650 original size:4 final size:4
Alignment explanation
Indices: 12077641--12077666 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
12077631 AAAGTAAAAG
12077641 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
12077667 GTAATATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:12080493 original size:42 final size:43
Alignment explanation
Indices: 12080390--12080494 Score: 110
Period size: 42 Copynumber: 2.5 Consensus size: 43
12080380 CGTTTTAGAA
* *
12080390 CCACACAGGCAGAGGACATGGGCGTGTCTTCAAGCCGTGTGAAG
1 CCACACAGGCA-AGGACATGGGCATGTCTCCAAGCCGTGTGAAG
* * *
12080434 -CACA-AGGGTAAGAACATGGGTATGTGC-CCAAGCCGTGTG-AG
1 CCACACA-GGCAAGGACATGGGCATGT-CTCCAAGCCGTGTGAAG
12080475 CCACACAGGCAAGGACATGG
1 CCACACAGGCAAGGACATGG
12080495 ACGTGGGTCT
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
41 2 0.04
42 39 0.78
43 9 0.18
ACGTcount: A:0.29, C:0.24, G:0.33, T:0.14
Consensus pattern (43 bp):
CCACACAGGCAAGGACATGGGCATGTCTCCAAGCCGTGTGAAG
Found at i:12083857 original size:59 final size:59
Alignment explanation
Indices: 12083785--12083920 Score: 263
Period size: 59 Copynumber: 2.3 Consensus size: 59
12083775 TAGGGTTTGA
12083785 ATTTAGCCTGGACTGGTATTTTAGATCCAAGCTCATTAGAGTAATTGTCATTGCAGGGG
1 ATTTAGCCTGGACTGGTATTTTAGATCCAAGCTCATTAGAGTAATTGTCATTGCAGGGG
12083844 ATTTAGCCTGGACTGGTATTTTAGATCCAAGCTCATTAGAGTAATTGTCATTGCAGGGG
1 ATTTAGCCTGGACTGGTATTTTAGATCCAAGCTCATTAGAGTAATTGTCATTGCAGGGG
*
12083903 ATTTAGCCTGGATTGGTA
1 ATTTAGCCTGGACTGGTA
12083921 ATCCCGCTGT
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
59 76 1.00
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.35
Consensus pattern (59 bp):
ATTTAGCCTGGACTGGTATTTTAGATCCAAGCTCATTAGAGTAATTGTCATTGCAGGGG
Done.