Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 308 of 438
Found at i:96217758 original size:36 final size:36
Alignment explanation
Indices: 96217718--96217799 Score: 119
Period size: 36 Copynumber: 2.3 Consensus size: 36
96217708 TGAATAAAGA
* *
96217718 TACTGAATGACTGACTGTTACTGAATAATTGATTGT
1 TACTGAATGACTGACTGCTACTGAATAATTGATTAT
* * *
96217754 TACTGAATAACTGATTGCTACTTAATAATTGATTAT
1 TACTGAATGACTGACTGCTACTGAATAATTGATTAT
96217790 TACTGAATGA
1 TACTGAATGA
96217800 TATTGGTAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (36 bp):
TACTGAATGACTGACTGCTACTGAATAATTGATTAT
Found at i:96218713 original size:21 final size:21
Alignment explanation
Indices: 96218680--96218733 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
96218670 CGGGCTCTCA
96218680 ACACGGCCGTGTAACCTAGCG
1 ACACGGCCGTGTAACCTAGCG
* * * *
96218701 ACATGGTCGTGTAATCTAGTG
1 ACACGGCCGTGTAACCTAGCG
96218722 ACACGGCCGTGT
1 ACACGGCCGTGT
96218734 GAGTCACATG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.22, C:0.26, G:0.30, T:0.22
Consensus pattern (21 bp):
ACACGGCCGTGTAACCTAGCG
Found at i:96219080 original size:21 final size:21
Alignment explanation
Indices: 96219021--96219082 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 21
96219011 CAAAAGCAGT
* *
96219021 ATACAACACATAAAGTGCCTA
1 ATACGACACATATAGTGCCTA
* * ** *
96219042 AAATGACACACGTGGTGCCTA
1 ATACGACACATATAGTGCCTA
96219063 ATACGACACATATAGTGCCT
1 ATACGACACATATAGTGCCT
96219083 GATTGGCAAA
Statistics
Matches: 29, Mismatches: 12, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.39, C:0.24, G:0.16, T:0.21
Consensus pattern (21 bp):
ATACGACACATATAGTGCCTA
Found at i:96220327 original size:16 final size:17
Alignment explanation
Indices: 96220306--96220338 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
96220296 AAACCATAAA
96220306 TTCTTTCTT-TTTCTTT
1 TTCTTTCTTCTTTCTTT
96220322 TTCTTTCTTCTTTCTTT
1 TTCTTTCTTCTTTCTTT
96220339 CTATTTCGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (17 bp):
TTCTTTCTTCTTTCTTT
Found at i:96220345 original size:17 final size:17
Alignment explanation
Indices: 96220309--96220350 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
96220299 CCATAAATTC
* *
96220309 TTTCTT-TTTCTTTTTC
1 TTTCTTCTTTCTTTCTA
96220325 TTTCTTCTTTCTTTCTA
1 TTTCTTCTTTCTTTCTA
*
96220342 TTTCGTCTT
1 TTTCTTCTT
96220351 GTTTTAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 6 0.27
17 16 0.73
ACGTcount: A:0.02, C:0.21, G:0.02, T:0.74
Consensus pattern (17 bp):
TTTCTTCTTTCTTTCTA
Found at i:96220479 original size:47 final size:43
Alignment explanation
Indices: 96220385--96220477 Score: 118
Period size: 45 Copynumber: 2.1 Consensus size: 43
96220375 TTTACTTTAC
*
96220385 TATAT-ATATAACATAATAATAATATAATATTATAATATATAA
1 TATATAATAAAACATAATAATAATATAATATTATAATATATAA
* *
96220427 TATATAATAAAACATAATAAATATATTTATTATT-TAATAATATAA
1 TATATAATAAAACATAAT-AATA-ATATAATATTATAAT-ATATAA
96220472 TATATA
1 TATATA
96220478 TATTAAACTT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
42 5 0.11
43 11 0.25
44 8 0.18
45 20 0.45
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (43 bp):
TATATAATAAAACATAATAATAATATAATATTATAATATATAA
Found at i:96227964 original size:44 final size:44
Alignment explanation
Indices: 96227915--96228006 Score: 112
Period size: 44 Copynumber: 2.1 Consensus size: 44
96227905 TGTTCAGGGA
* * *
96227915 TACTTCGACCTTGAGTCCATCAGGCACTATAAGTGTCGTACTGT
1 TACTTCGACCTTAAGTCAATCAGGCACTATAAGTGTCGTACTAT
* * * **
96227959 TACTTCGACTTTAAGTCAATGAGGCACTTTGTGTGTCGTACTAT
1 TACTTCGACCTTAAGTCAATCAGGCACTATAAGTGTCGTACTAT
96228003 TACT
1 TACT
96228007 GTTACTTCGG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.36
Consensus pattern (44 bp):
TACTTCGACCTTAAGTCAATCAGGCACTATAAGTGTCGTACTAT
Found at i:96231207 original size:23 final size:22
Alignment explanation
Indices: 96231164--96231207 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
96231154 ATGCAATCTT
* *
96231164 AGATATGATTTGTAAGCTTAGA
1 AGATATGATCTGTAAGATTAGA
*
96231186 AGATATGATCCTGTAATATTAG
1 AGATATGAT-CTGTAAGATTAG
96231208 GGATTTGATT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.36
Consensus pattern (22 bp):
AGATATGATCTGTAAGATTAGA
Found at i:96235727 original size:3 final size:3
Alignment explanation
Indices: 96235715--96235890 Score: 81
Period size: 3 Copynumber: 59.0 Consensus size: 3
96235705 TTTTCTTTAC
* * * * * * *
96235715 TAT T-T TAT TAT TAT TAT TAT TAG TAG TAG TAG TAG TAT CAT TAT TCT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* ** * * * *
96235762 T-T TAT TAT TGT CCT T-T CTAT TGT TAT TCTT TAT TAT TTT TAA TAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT T-AT TAT TAT TAT TAT TAT
* * * *
96235807 TAA TAT TAA TATT TAT TAT TAC TAT TAT TAT TAT TAG TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* ** * * *
96235853 TAC TGC CAT TAT T-T TAT TAT TAC TAT TAT AAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
96235891 ATTTCTCTTT
Statistics
Matches: 131, Mismatches: 35, Indels: 14
0.73 0.19 0.08
Matches are distributed among these distances:
2 7 0.05
3 119 0.91
4 5 0.04
ACGTcount: A:0.30, C:0.06, G:0.05, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:96235821 original size:19 final size:19
Alignment explanation
Indices: 96235799--96235838 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
96235789 CTTTATTATT
96235799 TTTAATATTAATATTAATA
1 TTTAATATTAATATTAATA
* * *
96235818 TTTATTATTACTATTATTA
1 TTTAATATTAATATTAATA
96235837 TT
1 TT
96235839 ATTAGTATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTAATATTAATATTAATA
Found at i:96241651 original size:3 final size:3
Alignment explanation
Indices: 96241643--96241675 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
96241633 GTTTTCCAAA
96241643 AAG AAG AAG AAG AAG AAG AAG AA- AAG AA- AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
96241676 AGAAAAAGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.14
3 24 0.86
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:96242087 original size:53 final size:53
Alignment explanation
Indices: 96242007--96242110 Score: 154
Period size: 53 Copynumber: 2.0 Consensus size: 53
96241997 GCTCCCAATC
* * * *
96242007 AATTTCCTTTTTATTGTATTTGCTATCTTTGATTAACTTGTTTATTTCGAGTT
1 AATTTCCTTCTTATTGCATTTGCTATCTTTGATTAACTTATTCATTTCGAGTT
* *
96242060 AATTTTCTTCTTATTGCATTTGCTATCTTTGATTAATTTATTCATTTCGAG
1 AATTTCCTTCTTATTGCATTTGCTATCTTTGATTAACTTATTCATTTCGAG
96242111 CTATATTCCC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 45 1.00
ACGTcount: A:0.20, C:0.12, G:0.11, T:0.57
Consensus pattern (53 bp):
AATTTCCTTCTTATTGCATTTGCTATCTTTGATTAACTTATTCATTTCGAGTT
Found at i:96242677 original size:46 final size:46
Alignment explanation
Indices: 96242540--96242688 Score: 138
Period size: 46 Copynumber: 3.2 Consensus size: 46
96242530 CGATCAAATT
** * * * *
96242540 GATTGAAGAAACCACAAATCTTATACCCCTGAATTGCAGTGGGATG
1 GATTGAAGAAAATACAAATCATATACCCTTGAGTTGCAGAGGGATG
* * * *
96242586 GATTAAAGAAAATACAAATCATATACCCTTGAGCTGTA-ATAGGATG
1 GATTGAAGAAAATACAAATCATATACCCTTGAGTTGCAGA-GGGATG
*** * *
96242632 GATTGAAGATGGTACAGATCCTATACCCTTGAGTTGCAGAGGGATG
1 GATTGAAGAAAATACAAATCATATACCCTTGAGTTGCAGAGGGATG
*
96242678 GATGGAAGAAA
1 GATTGAAGAAA
96242689 CCATAAATTT
Statistics
Matches: 79, Mismatches: 22, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
46 78 0.99
47 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (46 bp):
GATTGAAGAAAATACAAATCATATACCCTTGAGTTGCAGAGGGATG
Found at i:96243237 original size:44 final size:42
Alignment explanation
Indices: 96243127--96244091 Score: 225
Period size: 44 Copynumber: 21.6 Consensus size: 42
96243117 GAGCTATAAT
** * *
96243127 TACAGATCTTATCTCTTTGAAGTTGCAGTAGAGCA-GATAAAA
1 TACA-ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAA
* * *
96243169 AAAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAA
1 TACAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAA
* **
96243211 CCACAAGTCTTATCTCCCTGAAGTTGCAGTAGAGC-GACTGAAGA
1 -TACAA-TCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAA-A
* * * * *
96243255 TAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTGAAGCTATAA
1 TA-C-AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTT---G--A-AA
* * * * *
96243305 TTACAAATATTATCTCTCTGAAGTTGTAGTAGAGCA-GATCAAA
1 -TAC-AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAA
* *
96243348 -ACAATCTTTATCTCTCTGAAGTTGCAGTAGAGCGGGTTGAAA
1 TACAATC-TTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAA
* * * * ** *
96243390 TTACAAGTCTTACCTCCCTAAAGTTGCAGTGGAGTAGACTAAAGA
1 -TACAA-TCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAA-A
* * * * * * **
96243435 TAGCGAATCTTATTTTCCTAAAGTTGTAGTGGAACAAATTGAAGCTATAA
1 TA-C-AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTT---G--A-AA
** * * * *
96243485 TTACAGATCTTATCTCTATGAAGTTGTAGTAGAGTA-GATCAAA
1 -TACA-ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAA
* * * * * * * *
96243528 -ACAAACCTTATTTTCATGAAGTTGCAGTGGAGTAAGTTGAATC
1 TAC-AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAA-A
* **
96243571 TACAAGTCTTATCTCCCTAAAGTTGCAGTAGAGC-GACTGAAGA
1 TACAA-TCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAA-A
* * * * *
96243614 TAGCGAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTGAAGCTATAA
1 TA-C-AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTT---G--A-AA
* * * * *
96243664 TTACAGATCTTATCTCTCTGAAGTCGCGGTAGAGCA-GATCAAA
1 -TACA-ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAA
* * * **
96243707 -ACAATTATTATCTCTCTGAAGTTGCAGTAGTGTGGGTTGAAA
1 TACAA-TCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAA
* * * * *
96243749 TTACAAGTCTTATCTCCTTAAAGTTACAGTAGAGCAGATTGACTA
1 -TACAA-TCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGA-AA
* * * * * *
96243794 TAGCGAATCTTATTTCTCTAAAGTTGCAGTGGAACAGATTGAAGCTATAAA
1 TA-C-AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTT---G----AAA
* * * *
96243845 TTACAGATCTTATCTCTCTGAAATTGCAGTAGAGCAGATCATG--G
1 -TACA-ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGGT--TGAAA
* *
96243889 TA-AACCTTATCTCCCTGAAGTTGCAGT-GAAGTAGGTT-AAA
1 TACAATCTTATCTCCCTGAAGTTGCAGTAG-AGCAGGTTGAAA
* * * * * *
96243929 GTTCAAGTTTTATCTCCCTGAAGTTTCAGTGGAGCAGATTGAAGT
1 -TACAA-TCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAA-A
* *
96243974 TATCATGGTGGATCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATGAAAA
1 TA-CA------ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTG-AAA
* * * * * *
96244023 CCACAAACCTTATCTCCTTAAAGTTGTAGTGGAGCAGGTT-AAA
1 -TAC-AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAA
* * * *
96244066 AAAAATCTTATCCCCCTAAAGTTGCA
1 TACAATCTTATCTCCCTGAAGTTGCA
96244092 ATGGGGCATA
Statistics
Matches: 676, Mismatches: 163, Indels: 169
0.67 0.16 0.17
Matches are distributed among these distances:
39 1 0.00
40 5 0.01
41 152 0.22
42 26 0.04
43 54 0.08
44 196 0.29
45 72 0.11
46 4 0.01
48 3 0.00
49 8 0.01
50 111 0.16
51 40 0.06
52 3 0.00
53 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.30
Consensus pattern (42 bp):
TACAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAA
Found at i:96243369 original size:179 final size:179
Alignment explanation
Indices: 96243033--96244017 Score: 1175
Period size: 179 Copynumber: 5.5 Consensus size: 179
96243023 AGGTGAATCC
* * * * * * * *
96243033 ACAAGTCTTATTTCTCTAAAGTTGTAGTGGAGAAGACTGAAGATAGCGAAACTTATTTCCTTGAA
1 ACAAGTCTTATCTCCCTAAAGTTGCAGTAGAG-CGACTGAAGATAGCGAATCTTATTTCCCTAAA
* * * *
96243098 GTTGCAGTAGAATAGATTGGAGCTATAATTACAGATCTTATCTCTTTGAAGTTGCAGTAGAGCAG
65 GTTGCAGTGGAACAGATTGAAGCTATAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAG
* * * * *
96243163 ATAAAAAAAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAACC
130 ATCAAAACAAACCTTATCTCTCTGAAGTTGCAGTAGAGTAGGTTGAAACT
*
96243213 ACAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCGACTGAAGATAGCGAATCTTATTTCCCTAAAG
1 ACAAGTCTTATCTCCCTAAAGTTGCAGTAGAGCGACTGAAGATAGCGAATCTTATTTCCCTAAAG
* * *
96243278 TTGCAGTGGAACAGATTGAAGCTATAATTACAAATATTATCTCTCTGAAGTTGTAGTAGAGCAGA
66 TTGCAGTGGAACAGATTGAAGCTATAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA
* * ** *
96243343 TCAAAACAATCTTTATCTCTCTGAAGTTGCAGTAGAGCGGGTTGAAATT
131 TCAAAACAAACCTTATCTCTCTGAAGTTGCAGTAGAGTAGGTTGAAACT
* * * * *
96243392 ACAAGTCTTACCTCCCTAAAGTTGCAGTGGAGTAGACTAAAGATAGCGAATCTTATTTTCCTAAA
1 ACAAGTCTTATCTCCCTAAAGTTGCAGTAGAG-CGACTGAAGATAGCGAATCTTATTTCCCTAAA
* * * * *
96243457 GTTGTAGTGGAACAAATTGAAGCTATAATTACAGATCTTATCTCTATGAAGTTGTAGTAGAGTAG
65 GTTGCAGTGGAACAGATTGAAGCTATAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAG
* * * *
96243522 ATCAAAACAAACCTTAT-TTTCATGAAGTTGCAGTGGAGTAAGTTGAATCT
130 ATCAAAACAAACCTTATCTCTC-TGAAGTTGCAGTAGAGTAGGTTGAAACT
*
96243572 ACAAGTCTTATCTCCCTAAAGTTGCAGTAGAGCGACTGAAGATAGCGAATCTTATTTCCCTGAAG
1 ACAAGTCTTATCTCCCTAAAGTTGCAGTAGAGCGACTGAAGATAGCGAATCTTATTTCCCTAAAG
* * *
96243637 TTGTAGTGGAACAGATTGAAGCTATAATTACAGATCTTATCTCTCTGAAGTCGCGGTAGAGCAGA
66 TTGCAGTGGAACAGATTGAAGCTATAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA
*** * * *
96243702 TCAAAACAATTATTATCTCTCTGAAGTTGCAGTAGTGTGGGTTGAAATT
131 TCAAAACAAACCTTATCTCTCTGAAGTTGCAGTAGAGTAGGTTGAAACT
* * * ** *
96243751 ACAAGTCTTATCTCCTTAAAGTTACAGTAGAGCAGATTGACTATAGCGAATCTTATTTCTCTAAA
1 ACAAGTCTTATCTCCCTAAAGTTGCAGTAGAGC-GACTGAAGATAGCGAATCTTATTTCCCTAAA
*
96243816 GTTGCAGTGGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTCTGAAATTGCAGTAGAGCA
65 GTTGCAGTGGAACAGATTGAAGCTAT-AATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCA
**** * *
96243881 GATCATGGTAAACCTTATCTCCCTGAAGTTGCAGT-GAAGTAGGTT-AAAGT
129 GATCAAAACAAACCTTATCTCTCTGAAGTTGCAGTAG-AGTAGGTTGAAACT
* * * * * * * * *
96243931 TCAAGTTTTATCTCCCTGAAGTTTCAGTGGAGCAGATTGAAGTTATCATGGTGGATCTTATCTCC
1 ACAAGTCTTATCTCCCTAAAGTTGCAGTAGAGC-GACTGAAG--AT-A--GCGAATCTTATTTCC
* *
96243996 CTGAAGTTGCAGTGGAGCAGAT
60 CTAAAGTTGCAGTGGAACAGAT
96244018 GAAAACCACA
Statistics
Matches: 691, Mismatches: 103, Indels: 17
0.85 0.13 0.02
Matches are distributed among these distances:
179 314 0.45
180 275 0.40
181 68 0.10
182 2 0.00
183 1 0.00
185 31 0.04
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (179 bp):
ACAAGTCTTATCTCCCTAAAGTTGCAGTAGAGCGACTGAAGATAGCGAATCTTATTTCCCTAAAG
TTGCAGTGGAACAGATTGAAGCTATAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA
TCAAAACAAACCTTATCTCTCTGAAGTTGCAGTAGAGTAGGTTGAAACT
Found at i:96243421 original size:135 final size:137
Alignment explanation
Indices: 96243176--96243422 Score: 326
Period size: 135 Copynumber: 1.8 Consensus size: 137
96243166 AAAAAAAACC
* *
96243176 TTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAACCACAAGTCTTATCTCCCTGAAGTTGCAGT
1 TTATCTCCCTGAAGTTGCAGTAGAGCAGGATCAAA-CACAAGTCTTATCTCCCTGAAGTTGCAGT
**
96243241 AGAGCGACTGAAGATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTGAAGCTATAAT
65 AGAGCGACTGAAGATAGCGAATCTTACCTCCCTAAAGTTGCAGTGGAACAGATTGAAGCTATAAT
96243306 TACAAATA
130 TACAAATA
* * *
96243314 TTATCTCTCTGAAGTTGTAGTAGAGCA-GATCAAA-ACAA-TCTTTATCTCTCTGAAGTTGCAGT
1 TTATCTCCCTGAAGTTGCAGTAGAGCAGGATCAAACACAAGTC-TTATCTCCCTGAAGTTGCAGT
**
96243376 AGAGCGGGTTGAA-ATTA-C-AAGTCTTACCTCCCTAAAGTTGCAGTGGA
65 AGAGC-GACTGAAGA-TAGCGAA-TCTTACCTCCCTAAAGTTGCAGTGGA
96243423 GTAGACTAAA
Statistics
Matches: 96, Mismatches: 9, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
134 4 0.04
135 55 0.57
136 7 0.07
137 5 0.05
138 25 0.26
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (137 bp):
TTATCTCCCTGAAGTTGCAGTAGAGCAGGATCAAACACAAGTCTTATCTCCCTGAAGTTGCAGTA
GAGCGACTGAAGATAGCGAATCTTACCTCCCTAAAGTTGCAGTGGAACAGATTGAAGCTATAATT
ACAAATA
Found at i:96243698 original size:359 final size:358
Alignment explanation
Indices: 96243033--96244017 Score: 1310
Period size: 359 Copynumber: 2.7 Consensus size: 358
96243023 AGGTGAATCC
* * * * *
96243033 ACAAGTCTTATTTCTCTAAAGTTGTAGTGGAGAAGACTGAAGATAGCGAAACTTATTTCCTTGAA
1 ACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGAAGACTGAAGATAGCGAATCTTATTTCC-TAAA
* * * *
96243098 GTTGCAGTAGAATAGATTGGAGCTATAATTACAGATCTTATCTCTTTGAAGTTGCAGTAGAGCAG
65 GTTGCAGTGGAACAGATTGAAGCTATAATTACAGATCTTATCTCTATGAAGTTGCAGTAGAGCAG
* * * * *
96243163 ATAAAAAAAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAACCACAAGTCTTATCTCC
130 ATCAAAAAAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGAATCTACAAGTCTTATCTCC
*
96243228 CTGAAGTTGCAGTAGAGCGACTGAAGATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAACAGA
195 CTGAAGTTGCAGTAGAGCGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGA
* *
96243293 TTGAAGCTATAATTACAAATATTATCTCTCTGAAGTTGTAGTAGAGCAGATCAAAACAATCT-TT
260 TTGAAGCTATAATTACAAATATTATCTCTCTGAAGTCGCAGTAGAGCAGATCAAAACAAT-TATT
96243357 ATCTCTCTGAAGTTGCAGTAGAGCGGGTTGAAATT
324 ATCTCTCTGAAGTTGCAGTAGAGCGGGTTGAAATT
* * *
96243392 ACAAGTCTTACCTCCCTAAAGTTGCAGTGGAGTAGACTAAAGATAGCGAATCTTATTTTCCTAAA
1 ACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGAAGACTGAAGATAGCGAATCTTA-TTTCCTAAA
* * * *
96243457 GTTGTAGTGGAACAAATTGAAGCTATAATTACAGATCTTATCTCTATGAAGTTGTAGTAGAGTAG
65 GTTGCAGTGGAACAGATTGAAGCTATAATTACAGATCTTATCTCTATGAAGTTGCAGTAGAGCAG
* * * * *
96243522 ATCAAAACAAACCTTATTTTCATGAAGTTGCAGTGGAGTAAGTTGAATCTACAAGTCTTATCTCC
130 ATCAAAAAAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGAATCTACAAGTCTTATCTCC
* *
96243587 CTAAAGTTGCAGTAGAGCGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGTAGTGGAACAGA
195 CTGAAGTTGCAGTAGAGCGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGA
* * *
96243652 TTGAAGCTATAATTACAGATCTTATCTCTCTGAAGTCGCGGTAGAGCAGATCAAAACAATTATTA
260 TTGAAGCTATAATTACAAATATTATCTCTCTGAAGTCGCAGTAGAGCAGATCAAAACAATTATTA
* *
96243717 TCTCTCTGAAGTTGCAGTAGTGTGGGTTGAAATT
325 TCTCTCTGAAGTTGCAGTAGAGCGGGTTGAAATT
* * * * * **
96243751 ACAAGTCTTATCTCCTTAAAGTTACAGTAGAGCAGATTGACTATAGCGAATCTTATTTCTCTAAA
1 ACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGAAGACTGAAGATAGCGAATCTTATTTC-CTAAA
* *
96243816 GTTGCAGTGGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTCTGAAATTGCAGTAGAGCA
65 GTTGCAGTGGAACAGATTGAAGCTAT-AATTACAGATCTTATCTCTATGAAGTTGCAGTAGAGCA
**** * * *
96243881 GATCATGGTAAACCTTATCTCCCTGAAGTTGCAGTGAAGTAGGTTAAAGT-T-CAAGTTTTATCT
129 GATCAAAAAAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGAA-TCTACAAGTCTTATCT
* * * * * *
96243944 CCCTGAAGTTTCAGTGGAGCAGATTGAAGTTATCATGGTGGATCTTATCTCCCTGAAGTTGCAGT
193 CCCTGAAGTTGCAGTAGAGC-GACTGAAG--AT-A--GCGAATCTTATTTCCCTGAAGTTGCAGT
*
96244009 GGAGCAGAT
252 GGAACAGAT
96244018 GAAAACCACA
Statistics
Matches: 544, Mismatches: 71, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
358 5 0.01
359 418 0.77
360 85 0.16
361 1 0.00
362 2 0.00
363 1 0.00
365 32 0.06
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (358 bp):
ACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGAAGACTGAAGATAGCGAATCTTATTTCCTAAAG
TTGCAGTGGAACAGATTGAAGCTATAATTACAGATCTTATCTCTATGAAGTTGCAGTAGAGCAGA
TCAAAAAAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGAATCTACAAGTCTTATCTCCC
TGAAGTTGCAGTAGAGCGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGAT
TGAAGCTATAATTACAAATATTATCTCTCTGAAGTCGCAGTAGAGCAGATCAAAACAATTATTAT
CTCTCTGAAGTTGCAGTAGAGCGGGTTGAAATT
Found at i:96243974 original size:43 final size:48
Alignment explanation
Indices: 96243894--96244017 Score: 141
Period size: 43 Copynumber: 2.6 Consensus size: 48
96243884 CATGGTAAAC
* * *
96243894 CTTATCTCCCTGAAGTTGCAGTGAAGTAGGTTAAAG-T-TCA-AGT-T
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTATCATAGTGT
* * *
96243938 -TTATCTCCCTGAAGTTTCAGTGGAGCAGATTGAAGTTATCATGGTGGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTATCATAGT-G-T
96243987 CTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
96244018 GAAAACCACA
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
43 30 0.45
44 1 0.02
45 3 0.05
46 2 0.03
49 1 0.02
50 29 0.44
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (48 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTATCATAGTGT
Found at i:96245505 original size:13 final size:12
Alignment explanation
Indices: 96245486--96245517 Score: 55
Period size: 13 Copynumber: 2.6 Consensus size: 12
96245476 GGTTGTTTAT
96245486 TAACTAATTAAC
1 TAACTAATTAAC
96245498 TAAACTAATTAAC
1 T-AACTAATTAAC
96245511 TAACTAA
1 TAACTAA
96245518 ACTAAAGCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (12 bp):
TAACTAATTAAC
Found at i:96250142 original size:17 final size:17
Alignment explanation
Indices: 96250120--96250154 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
96250110 AGAGGGGAAA
96250120 GTAAGGATTGATGTAGG
1 GTAAGGATTGATGTAGG
96250137 GTAAGGATTGATGTAGG
1 GTAAGGATTGATGTAGG
96250154 G
1 G
96250155 GGAGTGGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.43, T:0.29
Consensus pattern (17 bp):
GTAAGGATTGATGTAGG
Found at i:96253934 original size:13 final size:12
Alignment explanation
Indices: 96253915--96253946 Score: 55
Period size: 13 Copynumber: 2.6 Consensus size: 12
96253905 GGTTGTTTAT
96253915 TAACTAATTAAC
1 TAACTAATTAAC
96253927 TAAACTAATTAAC
1 T-AACTAATTAAC
96253940 TAACTAA
1 TAACTAA
96253947 ACTAAAGCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (12 bp):
TAACTAATTAAC
Found at i:96255581 original size:3 final size:3
Alignment explanation
Indices: 96255575--96255603 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
96255565 ATTTTACTAT
96255575 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
96255604 TATTATTATT
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:96255610 original size:3 final size:3
Alignment explanation
Indices: 96255604--96255820 Score: 209
Period size: 3 Copynumber: 72.0 Consensus size: 3
96255594 AATAATAATA
96255604 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * * *
96255652 TAT TAC TAC TAT CAT TAT TAT TTT TAG TAG TAG TAT TAT TAT CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * ** * * * *
96255700 TCT TTT TAT TAT TGT CCT TAC TAT TGT TAT TCTT TAT TAT TAT TAA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT
* ** *
96255746 TAT TAT TAT TAT TAT TAT TAT TAT TAG TAT TAT TAT TAT TGC CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
96255794 TTT TAT TAT TAC TAT TAT AAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
96255821 ATTTCTCTTT
Statistics
Matches: 173, Mismatches: 40, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
3 171 0.99
4 2 0.01
ACGTcount: A:0.30, C:0.06, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:96255888 original size:33 final size:32
Alignment explanation
Indices: 96255828--96255895 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 32
96255818 TATATTTCTC
**
96255828 TTTTAAAATTTATTTACTTATTATTATTATTA
1 TTTTAAAATACATTTACTTATTATTATTATTA
* *
96255860 TTTTAAAATACATTTATGTTATTCTTATTATTA
1 TTTTAAAATACATTTA-CTTATTATTATTATTA
96255893 TTT
1 TTT
96255896 GTTTATTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 14 0.45
33 17 0.55
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.62
Consensus pattern (32 bp):
TTTTAAAATACATTTACTTATTATTATTATTA
Found at i:96259257 original size:18 final size:18
Alignment explanation
Indices: 96259231--96259270 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
96259221 TTTATTTATT
*
96259231 TATTGAATGATTAGGGGA
1 TATTAAATGATTAGGGGA
96259249 TATTAAATGATTAGGGGA
1 TATTAAATGATTAGGGGA
96259267 TATT
1 TATT
96259271 GATTTTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.28, T:0.38
Consensus pattern (18 bp):
TATTAAATGATTAGGGGA
Found at i:96262959 original size:2 final size:2
Alignment explanation
Indices: 96262952--96262982 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
96262942 TGTATAGATT
96262952 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
96262983 CATTCATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:96263711 original size:48 final size:49
Alignment explanation
Indices: 96263639--96263748 Score: 116
Period size: 48 Copynumber: 2.3 Consensus size: 49
96263629 TGCTACACCG
* ** *
96263639 CACACATAGTGCC-TTGAAGATTCACTCATGTATTGACATTCAAATCAA
1 CACACATAGTGCCATTGAAGATTCACACACATAGTGACATTCAAATCAA
* * * **
96263687 CACACATAGTGCCATTTAA-TTTCACACACATAGTGCCATTCAAATCCG
1 CACACATAGTGCCATTGAAGATTCACACACATAGTGACATTCAAATCAA
*
96263735 CACACTTAGTGCCA
1 CACACATAGTGCCA
96263749 ATGTTGACCC
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
48 47 0.92
49 4 0.08
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (49 bp):
CACACATAGTGCCATTGAAGATTCACACACATAGTGACATTCAAATCAA
Found at i:96263738 original size:24 final size:24
Alignment explanation
Indices: 96263589--96263748 Score: 90
Period size: 24 Copynumber: 6.7 Consensus size: 24
96263579 CAACCGATTT
* ** * *
96263589 CGCACACATAGTGCTAAACAAGTT
1 CGCACACATAGTGCCATTCAAATC
* *
96263613 CGCACACATAGTGCCATGCTACA-C
1 CGCACACATAGTGCCATTC-AAATC
* *
96263637 CGCACACATAGTGCC-TTGAAGATT
1 CGCACACATAGTGCCATTCAA-ATC
* * ** * *
96263661 CACTCATGTATTGACATTCAAATC
1 CGCACACATAGTGCCATTCAAATC
** * * *
96263685 AACACACATAGTGCCATTTAATTT
1 CGCACACATAGTGCCATTCAAATC
*
96263709 CACACACATAGTGCCATTCAAATC
1 CGCACACATAGTGCCATTCAAATC
*
96263733 CGCACACTTAGTGCCA
1 CGCACACATAGTGCCA
96263749 ATGTTGACCC
Statistics
Matches: 99, Mismatches: 33, Indels: 8
0.71 0.24 0.06
Matches are distributed among these distances:
22 1 0.01
23 2 0.02
24 91 0.92
25 5 0.05
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (24 bp):
CGCACACATAGTGCCATTCAAATC
Found at i:96268575 original size:3 final size:3
Alignment explanation
Indices: 96268562--96268655 Score: 72
Period size: 3 Copynumber: 31.3 Consensus size: 3
96268552 GAGGGCATAT
**
96268562 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GGA ATA ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A ATA ATA ATA
* *
96268609 ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A-A ATA
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
96268652 ATA A
1 ATA A
96268656 AACAAAGCTC
Statistics
Matches: 73, Mismatches: 9, Indels: 18
0.73 0.09 0.18
Matches are distributed among these distances:
2 10 0.14
3 53 0.73
4 9 0.12
5 1 0.01
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:96268656 original size:8 final size:8
Alignment explanation
Indices: 96268602--96268657 Score: 60
Period size: 8 Copynumber: 6.9 Consensus size: 8
96268592 ATACATGAGG
96268602 AATAATAAT
1 AATAA-AAT
*
96268611 AATAATAT
1 AATAAAAT
*
96268619 AA-ATAAT
1 AATAAAAT
*
96268626 AGTAAAAAT
1 AAT-AAAAT
96268635 AATAAAAT
1 AATAAAAT
96268643 AATAAAAT
1 AATAAAAT
96268651 AATAAAA
1 AATAAAA
96268658 CAAAGCTCTC
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
7 4 0.10
8 24 0.62
9 11 0.28
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (8 bp):
AATAAAAT
Found at i:96268987 original size:25 final size:25
Alignment explanation
Indices: 96268955--96269003 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
96268945 AAAAACTAGC
*
96268955 CTTTCC-AAGAAACAAAAATAACCTT
1 CTTTCCAAAAAAACAAAAA-AACCTT
96268980 CTTTCCAAAAAAACAAAAAAACCT
1 CTTTCCAAAAAAACAAAAAAACCT
96269004 CCTCCAAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.53, C:0.24, G:0.02, T:0.20
Consensus pattern (25 bp):
CTTTCCAAAAAAACAAAAAAACCTT
Found at i:96269014 original size:20 final size:23
Alignment explanation
Indices: 96268989--96269035 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
96268979 TCTTTCCAAA
96268989 AAAACAAA-AA-AA-CCTCCTCC
1 AAAACAAAGAACAATCCTCCTCC
*
96269009 AAAACAAAGAACAATCCTTCTCC
1 AAAACAAAGAACAATCCTCCTCC
96269032 AAAA
1 AAAA
96269036 AACCAAAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 8 0.35
21 2 0.09
22 2 0.09
23 11 0.48
ACGTcount: A:0.55, C:0.30, G:0.02, T:0.13
Consensus pattern (23 bp):
AAAACAAAGAACAATCCTCCTCC
Found at i:96271294 original size:5 final size:5
Alignment explanation
Indices: 96271284--96271309 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
96271274 ATTTATTATA
96271284 AAATT AAATT AAATT AAATT AAATT A
1 AAATT AAATT AAATT AAATT AAATT A
96271310 TGATATATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AAATT
Found at i:96272758 original size:3 final size:3
Alignment explanation
Indices: 96272624--96272738 Score: 115
Period size: 3 Copynumber: 37.7 Consensus size: 3
96272614 TTGTTAAACA
* * * * * * *
96272624 TAT TTT TAT TAT TGT ATAT TAT TAAA TAT TAT AAG TAT AAT TAT T-G
1 TAT TAT TAT TAT TAT -TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT
*
96272670 TAT GAT TAT TAAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
96272716 TAT TAT TAT TAT TAT TGT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
96272739 AAGATATAAG
Statistics
Matches: 90, Mismatches: 18, Indels: 8
0.78 0.16 0.07
Matches are distributed among these distances:
2 1 0.01
3 82 0.91
4 7 0.08
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:96275151 original size:40 final size:40
Alignment explanation
Indices: 96275085--96275235 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
96275075 AAATTGAATG
* * *
96275085 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
96275124 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
96275164 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
96275204 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
96275236 ACATGGTTAT
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 16 0.17
40 75 0.81
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:96275249 original size:40 final size:40
Alignment explanation
Indices: 96275122--96275251 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
96275112 ATGCTGGAAA
* * *
96275122 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * **
96275162 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* *
96275202 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
96275242 TTATATCCGG
1 TTATATCCGG
96275252 TTATATTCCG
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
39 1 0.01
40 74 0.99
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:96283171 original size:40 final size:39
Alignment explanation
Indices: 96283105--96283255 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
96283095 AAATTGAATG
* * *
96283105 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GGTAATT
* * ***
96283144 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GGTAATT
*
96283184 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCG-GTAATT
* *
96283224 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
96283256 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
39 16 0.17
40 74 0.80
41 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGGTAATT
Found at i:96283269 original size:40 final size:39
Alignment explanation
Indices: 96283142--96283271 Score: 161
Period size: 40 Copynumber: 3.3 Consensus size: 39
96283132 ATGCTGGAAA
* *
96283142 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-TGG
* * * **
96283182 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATGG
*
96283222 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA-ATGG
96283262 TTATATCCGG
1 TTATATCCGG
96283272 TTATATTATG
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
39 1 0.01
40 72 0.97
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATGG
Found at i:96287480 original size:118 final size:118
Alignment explanation
Indices: 96287272--96287518 Score: 442
Period size: 118 Copynumber: 2.1 Consensus size: 118
96287262 GCCTATTTAT
* *
96287272 TGTATTAATTACAACAAAATTAAATTTTCCCCTTTTTTAAGATGTTGACTCTAATTTTTTGGACT
1 TGTATTAATTACAACAAAATTAAATTTTCCCATTTTTTAAGATGTTGACTCTAATTTCTTGGACT
*
96287337 AAATTGATTACACTAATTAATTTAAGATGTTGAAAATGAAGATATTTGGAAAA
66 AAATTGATTACACTAATTAATTTAAGATGTTGAAAAAGAAGATATTTGGAAAA
96287390 TGTATTAATTACAACAAAA-TAAATTTTTCCCATTTTTTAAGATGTTGACTCTAATTTCTTGGAC
1 TGTATTAATTACAACAAAATTAAA-TTTTCCCATTTTTTAAGATGTTGACTCTAATTTCTTGGAC
96287454 TAAATTGATTACACTAATTAATTTAAGATGTTGAAAAAGAAGATATTTGGAAAA
65 TAAATTGATTACACTAATTAATTTAAGATGTTGAAAAAGAAGATATTTGGAAAA
*
96287508 TGTACTAATTA
1 TGTATTAATTA
96287519 ATTTTTTGGA
Statistics
Matches: 124, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
117 4 0.03
118 120 0.97
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.40
Consensus pattern (118 bp):
TGTATTAATTACAACAAAATTAAATTTTCCCATTTTTTAAGATGTTGACTCTAATTTCTTGGACT
AAATTGATTACACTAATTAATTTAAGATGTTGAAAAAGAAGATATTTGGAAAA
Found at i:96288345 original size:29 final size:29
Alignment explanation
Indices: 96288312--96288370 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
96288302 GGGCGCTGAA
96288312 ATAGTAAGGTAGTTTCAGTGCATATTTTT
1 ATAGTAAGGTAGTTTCAGTGCATATTTTT
*
96288341 ATAGTAGGGTAGTTTCAGTGCATATTTTT
1 ATAGTAAGGTAGTTTCAGTGCATATTTTT
96288370 A
1 A
96288371 CTCTTTTACC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.27, C:0.07, G:0.22, T:0.44
Consensus pattern (29 bp):
ATAGTAAGGTAGTTTCAGTGCATATTTTT
Found at i:96297334 original size:16 final size:16
Alignment explanation
Indices: 96297309--96297339 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
96297299 GTAAATCCTG
*
96297309 AAATGTCGAAAAGCCA
1 AAATGCCGAAAAGCCA
96297325 AAATGCCGAAAAGCC
1 AAATGCCGAAAAGCC
96297340 GAAAGTCTGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.23, G:0.19, T:0.10
Consensus pattern (16 bp):
AAATGCCGAAAAGCCA
Found at i:96297602 original size:29 final size:30
Alignment explanation
Indices: 96297560--96297650 Score: 120
Period size: 29 Copynumber: 3.2 Consensus size: 30
96297550 ACATGGCTTG
*
96297560 GAAT-TGATTCGGGCC-AGATGGGCCATAT
1 GAATGTGATTTGGGCCTAGATGGGCCATAT
96297588 GAATGTGATTTGGGCCTA-ATGGGCCATAT
1 GAATGTGATTTGGGCCTAGATGGGCCATAT
*
96297617 GAATGAGA-TTGGGCCTAG-TGGGCCATAT
1 GAATGTGATTTGGGCCTAGATGGGCCATAT
*
96297645 GCATGT
1 GAATGT
96297651 ATGTAGACTT
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
28 27 0.48
29 28 0.50
30 1 0.02
ACGTcount: A:0.24, C:0.15, G:0.33, T:0.27
Consensus pattern (30 bp):
GAATGTGATTTGGGCCTAGATGGGCCATAT
Found at i:96301942 original size:87 final size:87
Alignment explanation
Indices: 96301783--96301943 Score: 252
Period size: 87 Copynumber: 1.9 Consensus size: 87
96301773 AGATGATTTT
*
96301783 TTACTCTTAATGAATTCATAGCCTAAAATTTGGGTGGTCCTATTGAGATGGACTTGATAAATTCA
1 TTACTCTTAATGAATTCATAGCCTAAAATTTGGGTGGTCCTATTAAGATGGACTTGATAAATTCA
96301848 CCGACTTAAGAGGTTGAGTTTA
66 CCGACTTAAGAGGTTGAGTTTA
* * * * *
96301870 TTACTCTTAATGAGTTCATATCCTAGAGTTTGGGTGGTCCTATTAAGATGGACTT-ATGAATTCA
1 TTACTCTTAATGAATTCATAGCCTAAAATTTGGGTGGTCCTATTAAGATGGACTTGATAAATTCA
96301934 CCGAACTTAA
66 CCG-ACTTAA
96301944 ATTTGAGAGG
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
86 11 0.16
87 56 0.84
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (87 bp):
TTACTCTTAATGAATTCATAGCCTAAAATTTGGGTGGTCCTATTAAGATGGACTTGATAAATTCA
CCGACTTAAGAGGTTGAGTTTA
Found at i:96303121 original size:12 final size:13
Alignment explanation
Indices: 96303036--96303125 Score: 67
Period size: 12 Copynumber: 6.6 Consensus size: 13
96303026 ATATATTTGG
96303036 TAATAATAATATA
1 TAATAATAATATA
* *
96303049 AAATAATAATATG
1 TAATAATAATATA
*
96303062 TACATAAAAATATA
1 TA-ATAATAATATA
*
96303076 CATATATATATATGCATA
1 TA-ATA-ATA-AT--ATA
*
96303094 TAATAA-AATATG
1 TAATAATAATATA
96303106 TAATAATAATA-A
1 TAATAATAATATA
96303118 TAATAATA
1 TAATAATA
96303126 TCTACAATAA
Statistics
Matches: 60, Mismatches: 11, Indels: 13
0.71 0.13 0.15
Matches are distributed among these distances:
12 16 0.27
13 16 0.27
14 15 0.25
15 3 0.05
16 3 0.05
17 3 0.05
18 4 0.07
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.34
Consensus pattern (13 bp):
TAATAATAATATA
Found at i:96303221 original size:17 final size:17
Alignment explanation
Indices: 96303199--96303259 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 17
96303189 ACAATAATAT
96303199 AAAATA-ATGATATGTAC
1 AAAATATAT-ATATGTAC
96303216 AAAATATATATATGTAC
1 AAAATATATATATGTAC
*
96303233 ATAATATAGT-TA--TA-
1 AAAATATA-TATATGTAC
96303247 AAAATATATATAT
1 AAAATATATATAT
96303260 TAAATTCGGA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
13 1 0.03
14 9 0.24
15 2 0.05
17 23 0.61
18 3 0.08
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.36
Consensus pattern (17 bp):
AAAATATATATATGTAC
Found at i:96304038 original size:16 final size:14
Alignment explanation
Indices: 96304019--96304055 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 14
96304009 TTGTTGTTTT
96304019 TTTTTTTGCTGGAAAA
1 TTTTTTTGCT-G-AAA
96304035 TTTTTTTGCTGAAA
1 TTTTTTTGCTGAAA
96304049 TTTTTTT
1 TTTTTTT
96304056 TTTGCTCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 10 0.48
15 1 0.05
16 10 0.48
ACGTcount: A:0.19, C:0.05, G:0.14, T:0.62
Consensus pattern (14 bp):
TTTTTTTGCTGAAA
Found at i:96304056 original size:15 final size:16
Alignment explanation
Indices: 96304018--96304056 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
96304008 TTTGTTGTTT
96304018 TTTTTTTTGCTGGAAA
1 TTTTTTTTGCTGGAAA
*
96304034 ATTTTTTTGCT-GAAA
1 TTTTTTTTGCTGGAAA
96304049 TTTTTTTT
1 TTTTTTTT
96304057 TTGCTCTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.18, C:0.05, G:0.13, T:0.64
Consensus pattern (16 bp):
TTTTTTTTGCTGGAAA
Found at i:96304056 original size:16 final size:17
Alignment explanation
Indices: 96304017--96304057 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
96304007 TTTTGTTGTT
96304017 TTTTTTTTTGCTGGAAA
1 TTTTTTTTTGCTGGAAA
*
96304034 -ATTTTTTTGCT-GAAA
1 TTTTTTTTTGCTGGAAA
96304049 TTTTTTTTT
1 TTTTTTTTT
96304058 TGCTCTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.17, C:0.05, G:0.12, T:0.66
Consensus pattern (17 bp):
TTTTTTTTTGCTGGAAA
Found at i:96304340 original size:30 final size:30
Alignment explanation
Indices: 96304285--96304399 Score: 119
Period size: 30 Copynumber: 3.9 Consensus size: 30
96304275 GTAATTTTTA
* * *
96304285 GAAAATTT-AGGGTTAAAATGTAATTTAAG
1 GAAAGTTTAAGGGTCAAAATGAAATTTAAG
* ** * *
96304314 GAAAGTTTAGGGGTTTAAGTGAAATTTAAA
1 GAAAGTTTAAGGGTCAAAATGAAATTTAAG
96304344 GAAA-TTTAAGGGTCAAAATGAAATTT-AG
1 GAAAGTTTAAGGGTCAAAATGAAATTTAAG
*
96304372 GAAAAGTTTAAGGGTCAAAATGCAATTT
1 G-AAAGTTTAAGGGTCAAAATGAAATTT
96304400 TTATTTTTTA
Statistics
Matches: 71, Mismatches: 12, Indels: 5
0.81 0.14 0.06
Matches are distributed among these distances:
28 2 0.03
29 28 0.39
30 41 0.58
ACGTcount: A:0.43, C:0.03, G:0.23, T:0.31
Consensus pattern (30 bp):
GAAAGTTTAAGGGTCAAAATGAAATTTAAG
Found at i:96304399 original size:59 final size:58
Alignment explanation
Indices: 96304287--96304399 Score: 138
Period size: 59 Copynumber: 1.9 Consensus size: 58
96304277 AATTTTTAGA
* * * ** *
96304287 AAATTTAGGGTTAAAATGTAATTTAAGGAAAGTTTAGGGGTTTAAGTGAAATTTAAAG
1 AAATTTAGGGTCAAAATGAAATTTAAGGAAAGTTTAAGGGTCAAAATGAAATTTAAAG
*
96304345 AAATTTAAGGGTCAAAATGAAATTT-AGGAAAAGTTTAAGGGTCAAAATGCAATTT
1 AAATTT-AGGGTCAAAATGAAATTTAAGG-AAAGTTTAAGGGTCAAAATGAAATTT
96304400 TTATTTTTTA
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
58 9 0.20
59 37 0.80
ACGTcount: A:0.43, C:0.03, G:0.22, T:0.32
Consensus pattern (58 bp):
AAATTTAGGGTCAAAATGAAATTTAAGGAAAGTTTAAGGGTCAAAATGAAATTTAAAG
Found at i:96304972 original size:87 final size:87
Alignment explanation
Indices: 96304733--96305227 Score: 569
Period size: 87 Copynumber: 5.7 Consensus size: 87
96304723 AGTTGATTTT
** * * **
96304733 AAAAGACAGAAATTGAAAATACCTCAATGTGTCTTGAGCCTCAACTCATTTCTCGCAATATGAGT
1 AAAA-ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
****
96304798 TGACTTTTTTTTTTAA-A-AAA---
65 TGA--TTTTTGAAAAACATAAATTG
* * * * *
96304818 AAAAACAGGAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGTAATATGAATT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
96304883 GATTTTTGAAAAACATAAATTG
66 GATTTTTGAAAAACATAAATTG
* * * * * *
96304905 AAAAACCGAAATCGAAAATACCTCAACGTGTCTTGAGGCTCAATTCACATCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
96304970 GATTTTTGAAAAATATAGATTGG
66 GATTTTTGAAAAACATAAATT-G
*
96304993 AAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTTGCAATATGAGT
1 -AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
96305058 TGA--TTT-AAAAACAGT-CATT-
65 TGATTTTTGAAAAACA-TAAATTG
* * *
96305077 AAGAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
96305142 GATTTTTGCAAAATATAAATTG
66 GATTTTTGAAAAACATAAATTG
* * *
96305164 AAAAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTTAACTCACCTCTCGCAATATGAGT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
96305228 CGGCTTTTTT
Statistics
Matches: 347, Mismatches: 50, Indels: 24
0.82 0.12 0.06
Matches are distributed among these distances:
82 7 0.02
83 64 0.18
84 55 0.16
85 8 0.02
86 17 0.05
87 135 0.39
88 1 0.00
89 60 0.17
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.28
Consensus pattern (87 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGAAAAACATAAATTG
Found at i:96305173 original size:14 final size:14
Alignment explanation
Indices: 96305151--96305180 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
96305141 TGATTTTTGC
*
96305151 AAAATATAAATTGA
1 AAAACATAAATTGA
96305165 AAAACATAAATTGA
1 AAAACATAAATTGA
96305179 AA
1 AA
96305181 TTACCTCAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.03, G:0.07, T:0.23
Consensus pattern (14 bp):
AAAACATAAATTGA
Found at i:96305329 original size:259 final size:252
Alignment explanation
Indices: 96304821--96305308 Score: 635
Period size: 259 Copynumber: 1.9 Consensus size: 252
96304811 TAAAAAAAAA
* * * *
96304821 AACAGGAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGTAATATGAATTGAT
1 AACAGAAATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAATTGAT
* * *
96304886 TTTTGAAAAACATAAATTGAAAAACCGAAATCGAAAATACCTCAACGTGTCTTGAGGCTCAATTC
66 TTTTGAAAAACATAAATTGAAAAACAGAAATCGAAAATACCTCAACGTGTCCTGAGGCTCAACTC
*
96304951 ACATCTCGCAATATGAGTTGATTTTTGAAAAATATAGATTGGAAAAAACAGAAATTGAAAATACC
131 ACATCTCGCAATATGAGTGGATTTTT-----ATAT--ATTGGAAAAAACAGAAATTGAAAATACC
* * *
96305016 TCAGCGTGTCCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTAAAAACAGTCATTAAG
189 TCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAAAAACAGTCATTAAG
*
96305080 AACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGAT
1 AACAGAAATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAATTGAT
* * * * * * *
96305145 TTTTGCAAAATATAAATTGAAAAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTTAACTC
66 TTTTGAAAAACATAAATTGAAAAACAGAAATCGAAAATACCTCAACGTGTCCTGAGGCTCAACTC
* * * * *
96305210 ACCTCTCGCAATATGAGTCGGCTTTTT-T-T-TT-G-ACAAACAGTAATTGAAAATACCTCGGCG
131 ACATCTCGCAATATGAGT-GGATTTTTATATATTGGAAAAAACAGAAATTGAAAATACCTCAGCG
* *
96305270 TGCCCCGAGGCTCAACTCACTTCTCGTAATATGAGTTGA
195 TGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
96305309 ATTTTGAAAA
Statistics
Matches: 202, Mismatches: 26, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
248 59 0.29
249 1 0.00
250 2 0.01
253 1 0.00
254 1 0.00
259 132 0.65
260 6 0.03
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (252 bp):
AACAGAAATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAATTGAT
TTTTGAAAAACATAAATTGAAAAACAGAAATCGAAAATACCTCAACGTGTCCTGAGGCTCAACTC
ACATCTCGCAATATGAGTGGATTTTTATATATTGGAAAAAACAGAAATTGAAAATACCTCAGCGT
GCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAAAAACAGTCATTAAG
Found at i:96313635 original size:4 final size:4
Alignment explanation
Indices: 96313589--96313616 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
96313579 TGGGATATGC
96313589 AATG AATG AATG AATG AATG AATG AATG
1 AATG AATG AATG AATG AATG AATG AATG
96313617 CATAAATGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (4 bp):
AATG
Found at i:96319153 original size:47 final size:46
Alignment explanation
Indices: 96319036--96319208 Score: 198
Period size: 45 Copynumber: 3.8 Consensus size: 46
96319026 GGATGGTTGA
96319036 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTA-GGATGCGAAT
* *
96319083 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GT-GAGATG-TAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAG-GATGCGAA-T
*
96319126 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TA-GGATGCGAAT
*
96319176 GC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
96319209 TAGGGGGGTT
Statistics
Matches: 109, Mismatches: 6, Indels: 24
0.78 0.04 0.17
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 1 0.01
45 31 0.28
46 29 0.27
47 30 0.28
48 2 0.02
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAGGATGCGAAT
Found at i:96319205 original size:93 final size:92
Alignment explanation
Indices: 96319036--96319205 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 92
96319026 GGATGGTTGA
* *
96319036 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAACGCCCGAACTCGTTGAGTT
96319101 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
*
96319128 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAACGCCCGAACTCGTTGAGT
96319193 TGAGTCCGAGTTC
65 TGAGTCCGAGTTC
96319206 ACTTAGGGGG
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 34 0.46
93 40 0.54
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:96326634 original size:46 final size:46
Alignment explanation
Indices: 96326584--96326756 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
96326574 TGGTTGAGCA
96326584 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
96326630 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
96326675 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
96326723 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
96326757 GGGGCGGGTT
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:96326740 original size:93 final size:93
Alignment explanation
Indices: 96326581--96326751 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
96326571 GGATGGTTGA
* *
96326581 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
96326646 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
96326674 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
96326739 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
96326752 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:96332098 original size:37 final size:37
Alignment explanation
Indices: 96332048--96332130 Score: 157
Period size: 37 Copynumber: 2.2 Consensus size: 37
96332038 TTATCACGAA
96332048 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
96332085 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
96332122 GTCTCACCC
1 GTCTTACCC
96332131 AGAACATATT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.23, C:0.35, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:96332282 original size:49 final size:49
Alignment explanation
Indices: 96332225--96332462 Score: 435
Period size: 49 Copynumber: 4.9 Consensus size: 49
96332215 CACACATATA
* *
96332225 TTTCACATTAATCACATCGGCCATTAGGCCTTATCACATATACATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
96332274 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
96332323 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
96332370 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
*
96332419 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
96332463 CATCTCATAC
Statistics
Matches: 184, Mismatches: 3, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
47 47 0.26
49 137 0.74
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.33
Consensus pattern (49 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
Found at i:96332404 original size:96 final size:96
Alignment explanation
Indices: 96332225--96332464 Score: 444
Period size: 96 Copynumber: 2.5 Consensus size: 96
96332215 CACACATATA
*
96332225 TTTCACATTAATCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT--ATACACTTTCACATTCATCACA
96332290 TCGGCCATTAGGCCTTATCACATATATATACAC
64 TCGGCCATTAGGCCTTATCACATATATATACAC
96332323 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
96332388 GGCCATTAGGCCTTATCACATATATATACAC
66 GGCCATTAGGCCTTATCACATATATATACAC
*
96332419 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
96332465 TCTCATACAT
Statistics
Matches: 140, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
96 100 0.71
98 40 0.29
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.33
Consensus pattern (96 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATATACAC
Found at i:96336968 original size:16 final size:18
Alignment explanation
Indices: 96336947--96336985 Score: 64
Period size: 16 Copynumber: 2.3 Consensus size: 18
96336937 TCTAAGATAT
96336947 TACATAACATA-TAA-AA
1 TACATAACATAGTAATAA
96336963 TACATAACATAGTAATAA
1 TACATAACATAGTAATAA
96336981 TACAT
1 TACAT
96336986 TAATTCTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 11 0.52
17 3 0.14
18 7 0.33
ACGTcount: A:0.56, C:0.13, G:0.03, T:0.28
Consensus pattern (18 bp):
TACATAACATAGTAATAA
Found at i:96337128 original size:17 final size:17
Alignment explanation
Indices: 96337108--96337165 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
96337098 ATATTCAATG
96337108 ATATAATATATAAAAAT
1 ATATAATATATAAAAAT
*
96337125 ATAT--T-TATAAGAAT
1 ATATAATATATAAAAAT
96337139 A-ATAATTATATAAAAAT
1 ATATAA-TATATAAAAAT
*
96337156 ATAAAATATA
1 ATATAATATA
96337166 ATGGTTTAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
13 2 0.06
14 9 0.27
15 1 0.03
16 1 0.03
17 17 0.52
18 3 0.09
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (17 bp):
ATATAATATATAAAAAT
Found at i:96337488 original size:7 final size:7
Alignment explanation
Indices: 96337461--96337580 Score: 64
Period size: 7 Copynumber: 17.9 Consensus size: 7
96337451 GTAAAATGAC
96337461 ATAATAAT
1 ATAAT-AT
96337469 ATAA-A-
1 ATAATAT
96337474 ATAA-AT
1 ATAATAT
96337480 ATAATAT
1 ATAATAT
96337487 ATAATAT
1 ATAATAT
96337494 A-AA-AGT
1 ATAATA-T
96337500 AT-ATAT
1 ATAATAT
*
96337506 GTGAA-A-
1 AT-AATAT
96337512 ATAATAT
1 ATAATAT
96337519 ATAATAT
1 ATAATAT
*
96337526 AT-ATAA
1 ATAATAT
96337532 ATAATAT
1 ATAATAT
96337539 GACTAATAT
1 -A-TAATAT
*
96337548 ACAA-A-
1 ATAATAT
96337553 ATAATTAT
1 ATAA-TAT
96337561 ATAATAT
1 ATAATAT
*
96337568 ACAATAT
1 ATAATAT
*
96337575 AAAATA
1 ATAATA
96337581 AATATAAAGC
Statistics
Matches: 89, Mismatches: 8, Indels: 31
0.70 0.06 0.24
Matches are distributed among these distances:
5 11 0.12
6 20 0.22
7 41 0.46
8 11 0.12
9 6 0.07
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (7 bp):
ATAATAT
Found at i:96337525 original size:20 final size:19
Alignment explanation
Indices: 96337461--96337586 Score: 105
Period size: 20 Copynumber: 6.4 Consensus size: 19
96337451 GTAAAATGAC
96337461 ATAATAATATAAAATAA-AT
1 ATAAT-ATATAAAATAATAT
* *
96337480 ATAATATATAATATAAAAGT
1 ATAATATATAAAATAATA-T
*
96337500 AT-ATATGTGAAAATAATAT
1 ATAATATAT-AAAATAATAT
96337519 ATAATATATATAAATAATAT
1 ATAATATATA-AAATAATAT
*
96337539 GACTAATATACAAAATAATTAT
1 -A-TAATATATAAAATAA-TAT
* * *
96337561 ATAATATACAATATAAAAT
1 ATAATATATAAAATAATAT
96337580 A-AATATA
1 ATAATATA
96337587 AAGCAAAAAA
Statistics
Matches: 91, Mismatches: 8, Indels: 17
0.78 0.07 0.15
Matches are distributed among these distances:
18 16 0.18
19 18 0.20
20 38 0.42
21 8 0.09
22 11 0.12
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.34
Consensus pattern (19 bp):
ATAATATATAAAATAATAT
Found at i:96340461 original size:15 final size:16
Alignment explanation
Indices: 96340437--96340466 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
96340427 GCCTCTCCGT
96340437 TTTTTGTTTTTTTTGG
1 TTTTTGTTTTTTTTGG
96340453 TTTTT-TTTTTTTTG
1 TTTTTGTTTTTTTTG
96340467 AAATCTCAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (16 bp):
TTTTTGTTTTTTTTGG
Found at i:96347433 original size:24 final size:24
Alignment explanation
Indices: 96347406--96347465 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
96347396 TGGCCAACTG
* *
96347406 CTCTTGCAATTGGTGTTGCATGTC
1 CTCTTGCAATTGGTCTTGCATATC
*
96347430 CTCTTGCAATTGGTCTTGCATATT
1 CTCTTGCAATTGGTCTTGCATATC
*
96347454 CTTTTGCAATTG
1 CTCTTGCAATTG
96347466 TTTGAACCTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.15, C:0.20, G:0.20, T:0.45
Consensus pattern (24 bp):
CTCTTGCAATTGGTCTTGCATATC
Found at i:96351399 original size:17 final size:17
Alignment explanation
Indices: 96351379--96351436 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 17
96351369 ATATTCAATG
96351379 ATATAATATATAAAAAT
1 ATATAATATATAAAAAT
* *
96351396 ATAT--T-TACAAGAAT
1 ATATAATATATAAAAAT
96351410 A-ATAATTATATAAAAAT
1 ATATAA-TATATAAAAAT
*
96351427 ATAAAATATA
1 ATATAATATA
96351437 ATGGTTTAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 10
0.67 0.11 0.22
Matches are distributed among these distances:
13 2 0.06
14 8 0.26
15 1 0.03
16 1 0.03
17 16 0.52
18 3 0.10
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (17 bp):
ATATAATATATAAAAAT
Found at i:96351761 original size:13 final size:13
Alignment explanation
Indices: 96351732--96351842 Score: 65
Period size: 13 Copynumber: 8.3 Consensus size: 13
96351722 GTAAAATGAC
96351732 ATAATAATATAAA-
1 ATAAT-ATATAAAT
96351745 ATAA-ATATAATAT
1 ATAATATATAA-AT
96351758 ATAATATA-AAAGT
1 ATAATATATAAA-T
*
96351771 AT-ATATGTGAAA-
1 ATAATATAT-AAAT
96351783 ATAATATAT-AAT
1 ATAATATATAAAT
*
96351795 ATATATAAATAATAT
1 ATA-ATATATAA-AT
96351810 GAGTAATATATAAA-
1 -A-TAATATATAAAT
96351824 ATAATTATATAATAT
1 ATAA-TATATAA-AT
96351839 ATAA
1 ATAA
96351843 AATAAAACTA
Statistics
Matches: 78, Mismatches: 4, Indels: 30
0.70 0.04 0.27
Matches are distributed among these distances:
11 8 0.10
12 14 0.18
13 31 0.40
14 8 0.10
15 7 0.09
16 8 0.10
17 2 0.03
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (13 bp):
ATAATATATAAAT
Found at i:96351796 original size:20 final size:19
Alignment explanation
Indices: 96351732--96351847 Score: 128
Period size: 20 Copynumber: 5.8 Consensus size: 19
96351722 GTAAAATGAC
96351732 ATAATAATATAAAATAA-AT
1 ATAAT-ATATAAAATAATAT
* *
96351751 ATAATATATAATATAAAAGT
1 ATAATATATAAAATAATA-T
*
96351771 AT-ATATGTGAAAATAATAT
1 ATAATATAT-AAAATAATAT
96351790 ATAATATATATAAATAATAT
1 ATAATATATA-AAATAATAT
96351810 GAGTAATATATAAAATAATTAT
1 -A-TAATATATAAAATAA-TAT
96351832 ATAATATATAAAATAA
1 ATAATATATAAAATAA
96351848 AACTAAAAAT
Statistics
Matches: 84, Mismatches: 5, Indels: 15
0.81 0.05 0.14
Matches are distributed among these distances:
18 10 0.12
19 15 0.18
20 39 0.46
21 8 0.10
22 12 0.14
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.35
Consensus pattern (19 bp):
ATAATATATAAAATAATAT
Found at i:96351800 original size:9 final size:9
Alignment explanation
Indices: 96351786--96351846 Score: 50
Period size: 9 Copynumber: 6.1 Consensus size: 9
96351776 TGTGAAAATA
96351786 ATATATAAT
1 ATATATAAT
96351795 ATATATAAAT
1 ATATAT-AAT
96351805 AATATGAGTAAT
1 -ATAT-A-TAAT
*
96351817 ATATAAAAT
1 ATATATAAT
96351826 AATTATATAAT
1 -A-TATATAAT
*
96351837 ATATAAAAT
1 ATATATAAT
96351846 A
1 A
96351847 AAACTAAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
9 17 0.40
10 6 0.14
11 15 0.35
12 4 0.09
13 1 0.02
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (9 bp):
ATATATAAT
Found at i:96355349 original size:31 final size:31
Alignment explanation
Indices: 96355311--96355372 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
96355301 AGATATTTTT
96355311 GGATGATTCACCTATGGAAAATTAGAAAAAA
1 GGATGATTCACCTATGGAAAATTAGAAAAAA
*
96355342 GGATGATTCATCTATGGAAAATTAGAAAAAA
1 GGATGATTCACCTATGGAAAATTAGAAAAAA
96355373 TGCTAAGGAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.48, C:0.08, G:0.19, T:0.24
Consensus pattern (31 bp):
GGATGATTCACCTATGGAAAATTAGAAAAAA
Found at i:96358613 original size:43 final size:43
Alignment explanation
Indices: 96358530--96358677 Score: 210
Period size: 43 Copynumber: 3.5 Consensus size: 43
96358520 ACTGAGATTA
* * * *
96358530 CGTGTAAGACCATATCTGGGATA-TGTCATCGATATGAGACTT
1 CGTGTAAGACCATAGCTGGGCTATTGCCATCGATACGAGACTT
*
96358572 CGTGTAAGACCATAGCTAGGCTATTGCCATCGATACGAGACTT
1 CGTGTAAGACCATAGCTGGGCTATTGCCATCGATACGAGACTT
96358615 CGTGTAAGACCATAGCTGGGCTATTGCCATCGATACGAGA-TT
1 CGTGTAAGACCATAGCTGGGCTATTGCCATCGATACGAGACTT
* *
96358657 ACATGTAAGACCATATCTGGG
1 -CGTGTAAGACCATAGCTGGG
96358678 TATAGCATTG
Statistics
Matches: 96, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
42 22 0.23
43 74 0.77
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.27
Consensus pattern (43 bp):
CGTGTAAGACCATAGCTGGGCTATTGCCATCGATACGAGACTT
Found at i:96361278 original size:28 final size:29
Alignment explanation
Indices: 96361246--96361308 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
96361236 TACTTGTATC
* *
96361246 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAAGCCCAAAACACATTCATA
* *
96361274 TGGCCCATTAGGCCCAAAACACATTTATA
1 TGGCCCATTAAGCCCAAAACACATTCATA
96361303 TGGCCC
1 TGGCCC
96361309 GTTAGGCCTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 14 0.47
29 16 0.53
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (29 bp):
TGGCCCATTAAGCCCAAAACACATTCATA
Found at i:96368022 original size:46 final size:46
Alignment explanation
Indices: 96367955--96368176 Score: 274
Period size: 46 Copynumber: 4.8 Consensus size: 46
96367945 CGTAACCCGC
* * * *
96367955 CCATAAGCGAAATCGGACTCAACTCAACGAGCTCGGGCATTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
*
96368001 CCATAAGTGAACTCAGACTCAACTCAACGAGCTT-GGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGA---C-A-TTCACAT
* * *
96368051 -C-TCA-TGAACTGGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
*
96368094 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
96368140 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
96368177 TGCCCAAATA
Statistics
Matches: 154, Mismatches: 11, Indels: 22
0.82 0.06 0.12
Matches are distributed among these distances:
42 2 0.01
43 4 0.03
44 2 0.01
45 2 0.01
46 107 0.69
47 26 0.17
48 2 0.01
49 2 0.01
50 5 0.03
51 2 0.01
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
Found at i:96370653 original size:15 final size:15
Alignment explanation
Indices: 96370578--96370644 Score: 61
Period size: 15 Copynumber: 4.5 Consensus size: 15
96370568 CAAGAAAATC
96370578 GAATAAAGAAATCCAA
1 GAATAAA-AAATCCAA
*
96370594 G-ATAGAAAAA-CCCA
1 GAATA-AAAAATCCAA
96370608 GAATAAATAAATCC-A
1 GAATAAA-AAATCCAA
96370623 GAATAAAAAGATCCAA
1 GAATAAAAA-ATCCAA
96370639 G-ATAAA
1 GAATAAA
96370645 GAAACCCAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
14 8 0.18
15 29 0.66
16 7 0.16
ACGTcount: A:0.61, C:0.13, G:0.12, T:0.13
Consensus pattern (15 bp):
GAATAAAAAATCCAA
Found at i:96379804 original size:8 final size:8
Alignment explanation
Indices: 96379791--96379826 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
96379781 GGCTGCAAAC
96379791 GGGCCAAT
1 GGGCCAAT
96379799 GGGCCAA-
1 GGGCCAAT
96379806 GGGCCAAT
1 GGGCCAAT
*
96379814 GGGCCAAC
1 GGGCCAAT
96379822 GGGCC
1 GGGCC
96379827 CACTTTGGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
7 7 0.27
8 19 0.73
ACGTcount: A:0.22, C:0.31, G:0.42, T:0.06
Consensus pattern (8 bp):
GGGCCAAT
Found at i:96379811 original size:15 final size:16
Alignment explanation
Indices: 96379788--96379826 Score: 71
Period size: 15 Copynumber: 2.5 Consensus size: 16
96379778 ATGGGCTGCA
96379788 AACGGGCCAATGGGCC
1 AACGGGCCAATGGGCC
96379804 AA-GGGCCAATGGGCC
1 AACGGGCCAATGGGCC
96379819 AACGGGCC
1 AACGGGCC
96379827 CACTTTGGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 15 0.68
16 7 0.32
ACGTcount: A:0.26, C:0.31, G:0.38, T:0.05
Consensus pattern (16 bp):
AACGGGCCAATGGGCC
Found at i:96380125 original size:27 final size:26
Alignment explanation
Indices: 96380081--96380132 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
96380071 CTCGCTGCAA
*
96380081 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
96380108 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
96380133 GCAGCCTCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:96380172 original size:2 final size:2
Alignment explanation
Indices: 96380165--96380192 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
96380155 GCTTCACCAC
96380165 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
96380193 CTGTTCTAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:96382177 original size:43 final size:43
Alignment explanation
Indices: 96382115--96382281 Score: 151
Period size: 43 Copynumber: 3.9 Consensus size: 43
96382105 TACAACACCA
* *
96382115 ATGTCCCAGACGTGGTCTTACATGTAATTACATATCGATGCT-
1 ATGTCCCAGACATGGTCTTACACGTAATTACATATCGATGCTG
* *
96382157 ACTGTCCTAGACATGGTCTTACACG-AACT-CATATACGATGCTG
1 A-TGTCCCAGACATGGTCTTACACGTAATTACATAT-CGATGCTG
* * **
96382200 ATGTCCCAGACATGGTCTTAACACGTAAATCACAAATCGATGCCA
1 ATGTCCCAGACATGGTCTT-ACACGT-AATTACATATCGATGCTG
* * ** * *
96382245 ACGTTCCAGATGTGGTCTTACACGAAATCACATATCG
1 ATGTCCCAGACATGGTCTTACACGTAATTACATATCG
96382282 GAATCCTATG
Statistics
Matches: 102, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
41 5 0.05
42 28 0.27
43 37 0.36
44 5 0.05
45 23 0.23
46 4 0.04
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.28
Consensus pattern (43 bp):
ATGTCCCAGACATGGTCTTACACGTAATTACATATCGATGCTG
Found at i:96382211 original size:42 final size:42
Alignment explanation
Indices: 96382115--96382242 Score: 143
Period size: 42 Copynumber: 3.0 Consensus size: 42
96382105 TACAACACCA
* * *
96382115 ATGTCCCAGACGTGGTCTTACATGTAATTACATATCGATGCT
1 ATGTCCCAGACATGGTCTTACACGTAACTACATATCGATGCT
*
96382157 ACTGTCCTAGACATGGTCTTACACG-AACT-CATATACGATGCT
1 A-TGTCCCAGACATGGTCTTACACGTAACTACATAT-CGATGCT
* *
96382199 GATGTCCCAGACATGGTCTTAACACGTAAATCACAAATCGATGC
1 -ATGTCCCAGACATGGTCTT-ACACGTAACT-ACATATCGATGC
96382243 CAACGTTCCA
Statistics
Matches: 72, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
41 5 0.07
42 28 0.39
43 26 0.36
44 3 0.04
45 6 0.08
46 4 0.06
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (42 bp):
ATGTCCCAGACATGGTCTTACACGTAACTACATATCGATGCT
Found at i:96383841 original size:40 final size:40
Alignment explanation
Indices: 96383796--96383925 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
96383786 CGGAATACAA
96383796 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
96383836 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
96383876 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
96383916 CCGGATATAA
1 CCGGATATAA
96383926 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:96383940 original size:40 final size:40
Alignment explanation
Indices: 96383796--96383963 Score: 153
Period size: 40 Copynumber: 4.2 Consensus size: 40
96383786 CGGAATACAA
* **
96383796 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
96383836 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
96383876 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
96383916 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
96383956 CCGGATAT
1 CCGGATAT
96383964 CATTCAATTT
Statistics
Matches: 104, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 2 0.02
40 102 0.98
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:96391879 original size:40 final size:40
Alignment explanation
Indices: 96391834--96391963 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
96391824 CGGAATACAA
96391834 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
96391874 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
96391914 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
96391954 CCGGATATAA
1 CCGGATATAA
96391964 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:96391978 original size:40 final size:40
Alignment explanation
Indices: 96391834--96392000 Score: 153
Period size: 40 Copynumber: 4.2 Consensus size: 40
96391824 CGGAATACAA
* **
96391834 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
96391874 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
96391914 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * *
96391954 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
96391993 CCGGATAT
1 CCGGATAT
96392001 CATTCAATTT
Statistics
Matches: 104, Mismatches: 20, Indels: 7
0.79 0.15 0.05
Matches are distributed among these distances:
39 15 0.14
40 89 0.86
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:96397017 original size:27 final size:27
Alignment explanation
Indices: 96396887--96397017 Score: 172
Period size: 27 Copynumber: 4.9 Consensus size: 27
96396877 ATTACCAAAG
* * *
96396887 TACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
96396914 TACCCTCAACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
96396941 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
96396968 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
96396995 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACT
96397018 AAAATACCCT
Statistics
Matches: 92, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 92 1.00
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:96397025 original size:27 final size:27
Alignment explanation
Indices: 96396968--96397269 Score: 109
Period size: 27 Copynumber: 11.1 Consensus size: 27
96396958 ATTACTGTTT
* * ****
96396968 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTAAAA
96396995 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* * ** *
96397022 TACCCTAG-TCTGTAAAATTGCTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* * ** *
96397048 TACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* ** *
96397075 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* *
96397102 TA-CCTCTAGTTTGA-AAAATTACCAAAA
1 TACCCTCGA-TTT-ACAAAATTACTAAAA
* *** *
96397129 TACCACTAG-TTTGTGAAATTA-TCGAAA
1 TACC-CTCGATTTACAAAATTACT-AAAA
* ** *
96397156 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
*
96397183 TACCC-CTGATTTACAAATTTAC-AGAAA
1 TACCCTC-GATTTACAAAATTACTA-AAA
* *
96397210 TACCTTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTCGA-TTTAC--AAAATTACTA-AAA
* * * *
96397239 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
96397266 TACC
1 TACC
96397270 TTTGGTTTGT
Statistics
Matches: 216, Mismatches: 41, Indels: 36
0.74 0.14 0.12
Matches are distributed among these distances:
26 30 0.14
27 157 0.73
28 8 0.04
29 21 0.10
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTAAAA
Found at i:96397045 original size:26 final size:26
Alignment explanation
Indices: 96397009--96397187 Score: 214
Period size: 27 Copynumber: 6.7 Consensus size: 26
96396999 CTCGATTTAC
* *
96397009 AAAATTACTAAAATACCCTAGTCTGT
1 AAAATTACCAAAATACCCTAGTTTGT
* * *
96397035 AAAATTGCTAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCC-TAGTTTGT
*
96397062 AAAATTACCAAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCT-AGTTTGT
*
96397089 AAAATTACCAAAATACCTCTAGTTTGA
1 AAAATTACCAAAATACC-CTAGTTTGT
96397116 AAAATTACCAAAATACCACTAGTTTGT
1 AAAATTACCAAAATACC-CTAGTTTGT
* * * *
96397143 GAAATTATCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCT-AGTTTGT
96397170 AAAATTACCAAAATACCC
1 AAAATTACCAAAATACCC
96397188 CTGATTTACA
Statistics
Matches: 131, Mismatches: 18, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
26 20 0.15
27 109 0.83
28 2 0.02
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (26 bp):
AAAATTACCAAAATACCCTAGTTTGT
Found at i:96397148 original size:81 final size:80
Alignment explanation
Indices: 96396995--96397187 Score: 253
Period size: 81 Copynumber: 2.4 Consensus size: 80
96396985 ATTACTGTTT
* ** * * * * *
96396995 TACCCTCGATTTACAAAATTACTAAAATACCCTAGTCTGTAAAATTGCTAAAATACCCTTGGTTT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTAGTCTGAAAAATTACCAAAATACCCTTAGTTT
96397060 GTAAAATTACCAAAA
66 GTAAAATTACCAAAA
*
96397075 TACCCTCAATTTGTAAAATTACCAAAATACCTCTAGTTTGAAAAATTACCAAAATACCAC-TAGT
1 TACCCTCAATTTGTAAAATTACCAAAATACC-CTAGTCTGAAAAATTACCAAAATACC-CTTAGT
* * *
96397139 TTGTGAAATTATCGAAA
64 TTGTAAAATTACCAAAA
96397156 TACCCTCAATTTGTAAAATTACCAAAATACCC
1 TACCCTCAATTTGTAAAATTACCAAAATACCC
96397188 CTGATTTACA
Statistics
Matches: 99, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
80 28 0.28
81 70 0.71
82 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.31
Consensus pattern (80 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCTAGTCTGAAAAATTACCAAAATACCCTTAGTTT
GTAAAATTACCAAAA
Found at i:96397210 original size:54 final size:54
Alignment explanation
Indices: 96397057--96397213 Score: 146
Period size: 54 Copynumber: 2.9 Consensus size: 54
96397047 ATACCCTTGG
* *
96397057 TTTGTAAAATTACCAAAATACCCTCAATTTGTA-AAATTACCA-AAATA-CCTCTAG
1 TTTGTAAAATTACCAAAATACCC-CTA-TT-TACAAATTACCAGAAATACCCTCTAA
* * ** *
96397111 TTTGAAAAATTACCAAAATACCACTAGTTTGTGAAATTATC-GAAATACCCTC-AA
1 TTTGTAAAATTACCAAAATACCCCTA-TTT-ACAAATTACCAGAAATACCCTCTAA
96397165 TTTGTAAAATTACCAAAATACCCCTGATTTACAAATTTA-CAGAAATACC
1 TTTGTAAAATTACCAAAATACCCCT-ATTTACAAA-TTACCAGAAATACC
96397214 TTTGACTTTC
Statistics
Matches: 85, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
52 1 0.01
53 8 0.09
54 71 0.84
55 5 0.06
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.31
Consensus pattern (54 bp):
TTTGTAAAATTACCAAAATACCCCTATTTACAAATTACCAGAAATACCCTCTAA
Found at i:96397361 original size:27 final size:27
Alignment explanation
Indices: 96397331--96397422 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
96397321 ACCCTTATTA
*
96397331 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
96397358 GGTAAAGTGACCGTAAAGCCCTTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
96397385 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
96397412 GGTAAAATGAC
1 GGTAAAATGAC
96397423 GAATATGCCC
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 57 0.98
28 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.21
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:96398689 original size:20 final size:20
Alignment explanation
Indices: 96398664--96398767 Score: 181
Period size: 20 Copynumber: 5.2 Consensus size: 20
96398654 TAAACAGGAT
96398664 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
96398684 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
96398704 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
96398724 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
*
96398744 ATGTATGATATGCACATGAG
1 ATGTATGATATGCACATGAC
96398764 ATGT
1 ATGT
96398768 TCATAAATGC
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 80 1.00
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:96398705 original size:40 final size:40
Alignment explanation
Indices: 96398661--96398767 Score: 205
Period size: 40 Copynumber: 2.7 Consensus size: 40
96398651 TGATAAACAG
96398661 GATATGTATGATATGCACATGACATGTATGATATGCACAT
1 GATATGTATGATATGCACATGACATGTATGATATGCACAT
96398701 GATATGTATGATATGCACATGACATGTATGATATGCACAT
1 GATATGTATGATATGCACATGACATGTATGATATGCACAT
*
96398741 GATATGTATGATATGCACATGAGATGT
1 GATATGTATGATATGCACATGACATGT
96398768 TCATAAATGC
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 66 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (40 bp):
GATATGTATGATATGCACATGACATGTATGATATGCACAT
Found at i:96399049 original size:25 final size:23
Alignment explanation
Indices: 96398814--96399028 Score: 322
Period size: 23 Copynumber: 9.1 Consensus size: 23
96398804 AGGAAGTGCA
96398814 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
96398837 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
96398860 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
96398883 AAATGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
96398906 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT--T
96398931 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT--T
* *
96398956 GAAGAGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
96398979 AAAGGGCTTATGCCCCAATTATAA
1 AAAGGGCTTATGCCCCAGTTAT-T
* *
96399003 AAAAGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
96399026 AAA
1 AAA
96399029 AGAGGCTAGG
Statistics
Matches: 177, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
23 112 0.63
24 19 0.11
25 46 0.26
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:96399279 original size:31 final size:31
Alignment explanation
Indices: 96399244--96399307 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
96399234 ATTTACAGTT
* *
96399244 AAAGGCTTTGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAAAATGA
**
96399275 AAAGGCTTCGGCCCAGTGTTATGAAAAATGA
1 AAAGGCTTCGGCCCAGTAATATGAAAAATGA
96399306 AA
1 AA
96399308 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAAAATGA
Found at i:96400265 original size:21 final size:21
Alignment explanation
Indices: 96400236--96400287 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
96400226 CCTGTAGCAT
*
96400236 GGGCATGTCCCAGGGTCATAC
1 GGGCATGTCCCAGGGTCACAC
* *
96400257 GGGCGTGTCCTAGGGTCACAC
1 GGGCATGTCCCAGGGTCACAC
96400278 GGGCATGTCC
1 GGGCATGTCC
96400288 ATTGGACCAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.15, C:0.29, G:0.37, T:0.19
Consensus pattern (21 bp):
GGGCATGTCCCAGGGTCACAC
Found at i:96403690 original size:46 final size:47
Alignment explanation
Indices: 96403598--96403720 Score: 153
Period size: 46 Copynumber: 2.6 Consensus size: 47
96403588 CTCGTAGCCA
* *
96403598 ATGCATGTCCCAGACATGTTTTACACT-GGCTTACATCTCGAGGCCG
1 ATGCATGTCCCAGACATGTCTTACACTAGGCTTACATCTCAAGGCCG
* *
96403644 ATGCATGTCCCAGACATGTCTTACACTAGG-TGT-CGTCTCAATGCCG
1 ATGCATGTCCCAGACATGTCTTACACTAGGCT-TACATCTCAAGGCCG
*
96403690 ATGCCATGTCTCAGACATGGTCTTACACTAG
1 ATG-CATGTCCCAGACAT-GTCTTACACTAG
96403721 CTCTCATAAT
Statistics
Matches: 68, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
46 40 0.59
47 16 0.24
48 12 0.18
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (47 bp):
ATGCATGTCCCAGACATGTCTTACACTAGGCTTACATCTCAAGGCCG
Found at i:96405247 original size:11 final size:11
Alignment explanation
Indices: 96405231--96405256 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
96405221 TAAAGCCCAC
96405231 ATCACAATAAT
1 ATCACAATAAT
96405242 ATCACAATAAT
1 ATCACAATAAT
96405253 ATCA
1 ATCA
96405257 TACATGCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (11 bp):
ATCACAATAAT
Found at i:96405810 original size:41 final size:41
Alignment explanation
Indices: 96405745--96405863 Score: 159
Period size: 41 Copynumber: 2.9 Consensus size: 41
96405735 TAAAAGCCAC
** *
96405745 CGGTGGATCCACGATCAACT-AGCAACCATGCAATCTTTAAT
1 CGGTGGATCCACGATC-GTTAAGCAACCATGCAATCCTTAAT
96405786 CGGTGGATCCACGATCGTTAAGCAACCATGCAATCCTTAAT
1 CGGTGGATCCACGATCGTTAAGCAACCATGCAATCCTTAAT
* * * *
96405827 CGGTGGATCTACGGTCGTCAAGCAACCATGCGATCCT
1 CGGTGGATCCACGATCGTTAAGCAACCATGCAATCCT
96405864 CAATTTCTTC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
40 1 0.01
41 69 0.99
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
CGGTGGATCCACGATCGTTAAGCAACCATGCAATCCTTAAT
Found at i:96406332 original size:81 final size:81
Alignment explanation
Indices: 96406182--96406332 Score: 214
Period size: 81 Copynumber: 1.9 Consensus size: 81
96406172 AAAGTCAAAG
* *** * *
96406182 GTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATCGAGGGGTTTTCGATG
1 GTATTTCAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAATCCAGGGGTTTTCGATA
96406247 ATTTTACAGGGCGAGA
66 ATTTTACAGGGCGAGA
* *
96406263 GTATTTCAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAA-CCAGGGGTATTTTGGT
1 GTATTTCAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAATCCAGGGGT-TTTCGAT
96406327 AATTTT
65 AATTTT
96406333 CTAATCGAGG
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
80 7 0.11
81 54 0.89
ACGTcount: A:0.27, C:0.09, G:0.23, T:0.40
Consensus pattern (81 bp):
GTATTTCAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAATCCAGGGGTTTTCGATA
ATTTTACAGGGCGAGA
Found at i:96406381 original size:27 final size:27
Alignment explanation
Indices: 96406118--96406383 Score: 142
Period size: 27 Copynumber: 9.9 Consensus size: 27
96406108 GTAAATCTAC
* *
96406118 AAACCAAGGGTATTTCGATAATTTTGT
1 AAACCAAGGGTATTTCGGTAATTTTAT
* **
96406145 AAACCAATGGTATTTCTATAATTTT-T
1 AAACCAAGGGTATTTCGGTAATTTTAT
* * * *
96406171 GAAAGTCAAAGGTATTTCTGTAATTTTGT
1 -AAA-CCAAGGGTATTTCGGTAATTTTAT
* * * *
96406200 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCGGTAATTTTAT
* * * * *
96406227 AAATCGAGGGGT-TTTCGATGATTTTAC
1 AAA-CCAAGGGTATTTCGGTAATTTTAT
*** * * * * *
96406254 AGGGCGAGAGTATTTCAGTAATTTCAC
1 AAACCAAGGGTATTTCGGTAATTTTAT
* * * *
96406281 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCGGTAATTTTAT
* * *
96406308 AAACCAGGGGTATTTTGGTAATTTTCT
1 AAACCAAGGGTATTTCGGTAATTTTAT
* * * *
96406335 -AATCGAGGGTATTTTGGTAATTTTGT
1 AAACCAAGGGTATTTCGGTAATTTTAT
*
96406361 AAACCAAGGGTATTTCAGTAATT
1 AAACCAAGGGTATTTCGGTAATT
96406384 CTACCTTACA
Statistics
Matches: 186, Mismatches: 47, Indels: 12
0.76 0.19 0.05
Matches are distributed among these distances:
26 26 0.14
27 131 0.70
28 28 0.15
29 1 0.01
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (27 bp):
AAACCAAGGGTATTTCGGTAATTTTAT
Found at i:96406486 original size:80 final size:81
Alignment explanation
Indices: 96406377--96406528 Score: 236
Period size: 80 Copynumber: 1.9 Consensus size: 81
96406367 AGGGTATTTC
* *
96406377 AGTAATTCTACCTTACAAGGGCATCTCAGTAATTCTACCTTACAGGGGCATCTCAGTAATTCTAT
1 AGTAATTCTACCTTACAAGGGCATCTCAGTAATTCTACCTTACAGGGGCATCTCAGTAATACTAG
96406442 CCTACAGGGGCATCTT
66 CCTACAGGGGCATCTT
* * *
96406458 AGTAATTCTATCC-TAC-AGGGCATTTCAGTAATTCTATCTTACAGGGGCATTTCAGTAATACTA
1 AGTAATTCTA-CCTTACAAGGGCATCTCAGTAATTCTACCTTACAGGGGCATCTCAGTAATACTA
96406521 GCCTACAG
65 GCCTACAG
96406529 ATATGAGATT
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
80 50 0.77
81 13 0.20
82 2 0.03
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (81 bp):
AGTAATTCTACCTTACAAGGGCATCTCAGTAATTCTACCTTACAGGGGCATCTCAGTAATACTAG
CCTACAGGGGCATCTT
Found at i:96406501 original size:53 final size:52
Alignment explanation
Indices: 96406367--96406528 Score: 209
Period size: 53 Copynumber: 3.0 Consensus size: 52
96406357 TTGTAAACCA
* * * *
96406367 AGGGTATTTCAGTAATTCTACCTTACAAGGGCATCTCAGTAATTCTACCTTAC
1 AGGGCATTTCAGTAATTCTATCTTACAGGGGCATCTTAGTAATTCTACC-TAC
* *
96406420 AGGGGCATCTCAGTAATTCTATCCTACAGGGGCATCTTAGTAATTCTATCCTAC
1 A-GGGCATTTCAGTAATTCTATCTTACAGGGGCATCTTAGTAATTCTA-CCTAC
*
96406474 AGGGCATTTCAGTAATTCTATCTTACAGGGGCAT-TTCAGTAATACTAGCCTAC
1 AGGGCATTTCAGTAATTCTATCTTACAGGGGCATCTT-AGTAATTCTA-CCTAC
96406527 AG
1 AG
96406529 ATATGAGATT
Statistics
Matches: 96, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
52 2 0.02
53 48 0.50
54 44 0.46
55 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (52 bp):
AGGGCATTTCAGTAATTCTATCTTACAGGGGCATCTTAGTAATTCTACCTAC
Found at i:96406527 original size:27 final size:27
Alignment explanation
Indices: 96406372--96406528 Score: 205
Period size: 27 Copynumber: 5.9 Consensus size: 27
96406362 AACCAAGGGT
*
96406372 ATTTCAGTAATTCTA-CCTTACAAGGGC
1 ATTTCAGTAATTCTATCC-TACAGGGGC
*
96406399 ATCTCAGTAATTCTA-CCTTACAGGGGC
1 ATTTCAGTAATTCTATCC-TACAGGGGC
*
96406426 ATCTCAGTAATTCTATCCTACAGGGGC
1 ATTTCAGTAATTCTATCCTACAGGGGC
96406453 ATCTT-AGTAATTCTATCCTACA-GGGC
1 AT-TTCAGTAATTCTATCCTACAGGGGC
*
96406479 ATTTCAGTAATTCTATCTTACAGGGGC
1 ATTTCAGTAATTCTATCCTACAGGGGC
* *
96406506 ATTTCAGTAATACTAGCCTACAG
1 ATTTCAGTAATTCTATCCTACAG
96406529 ATATGAGATT
Statistics
Matches: 119, Mismatches: 7, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
25 2 0.02
26 22 0.18
27 92 0.77
28 3 0.03
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (27 bp):
ATTTCAGTAATTCTATCCTACAGGGGC
Found at i:96411183 original size:40 final size:40
Alignment explanation
Indices: 96411138--96411305 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
96411128 CGGAATATAA
96411138 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
96411178 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
96411218 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
96411258 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
96411298 CCGGATAT
1 CCGGATAT
96411306 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 101 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:96411288 original size:80 final size:80
Alignment explanation
Indices: 96411154--96411303 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
96411144 ATAATCACGT
*
96411154 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
96411218 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
96411234 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
96411297 CCCGGAT
64 CCCGGAT
96411304 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:96413693 original size:2 final size:2
Alignment explanation
Indices: 96413688--96413718 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
96413678 GTGATTCTTT
96413688 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
96413719 TTGCCGTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:96419007 original size:46 final size:46
Alignment explanation
Indices: 96418849--96419021 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 46
96418839 GGTTGAGCAT
96418849 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG-
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGC
* ** * * * *
96418894 TCG-ACTCGTTGAGTTGAGTCAAAGTTC-GTGA--GATGTAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATGC
*
96418938 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGC
* *
96418986 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
96419022 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 17, Indels: 17
0.75 0.12 0.12
Matches are distributed among these distances:
41 6 0.06
43 4 0.04
44 22 0.22
45 2 0.02
46 36 0.35
47 22 0.22
48 5 0.05
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGC
Found at i:96426439 original size:46 final size:46
Alignment explanation
Indices: 96426389--96426564 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
96426379 TGGTTGAGCA
*
96426389 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
96426435 TCCGAACTCACTGAGTTGAGTACGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
96426480 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
96426528 GCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGG
96426565 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 59 0.57
47 26 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:96426545 original size:93 final size:93
Alignment explanation
Indices: 96426386--96426557 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
96426376 GGATGGTTGA
* *
96426386 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCACTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGGCCGAACTCACTGAGT
96426451 TGAGTACGAGTTCGTGAGATGTAACTAG
66 TGAGTACGAGTTCGTGAGATGTAACTAG
* *
96426479 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGGCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGGCCGAACTCACTGAGT
*
96426544 TGAGTCCGAGTTCG
66 TGAGTACGAGTTCG
96426558 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGGCCGAACTCACTGAGT
TGAGTACGAGTTCGTGAGATGTAACTAG
Found at i:96428540 original size:40 final size:40
Alignment explanation
Indices: 96428452--96428541 Score: 121
Period size: 40 Copynumber: 2.2 Consensus size: 40
96428442 ATGCTGGAAA
*
96428452 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGG
* *
96428492 CTACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTA-GTGG
96428532 TTATATCCGG
1 TTATATCCGG
96428542 TTGTATTCCG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
39 4 0.09
40 39 0.91
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGG
Found at i:96432736 original size:42 final size:43
Alignment explanation
Indices: 96432644--96432743 Score: 152
Period size: 42 Copynumber: 2.4 Consensus size: 43
96432634 TTAGGGTTAC
*
96432644 TAAGACTATGTGTAAGACCATATCTGGGATATGGCATCAGTAT
1 TAAGACTTTGTGTAAGACCATATCTGGGATATGGCATCAGTAT
*
96432687 GAA-ACTTTGTGTAAGACCATATCTGGGATATGGCATC-G-ATT
1 TAAGACTTTGTGTAAGACCATATCTGGGATATGGCATCAGTA-T
96432728 TAAGACTTTGTGTAAG
1 TAAGACTTTGTGTAAG
96432744 CCCGTAGCTT
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
40 1 0.02
41 4 0.08
42 45 0.87
43 2 0.04
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (43 bp):
TAAGACTTTGTGTAAGACCATATCTGGGATATGGCATCAGTAT
Found at i:96434150 original size:13 final size:13
Alignment explanation
Indices: 96434132--96434163 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
96434122 AACACATGGG
96434132 CGTGTGATCCGGT
1 CGTGTGATCCGGT
96434145 CGTGTGATCCGGT
1 CGTGTGATCCGGT
96434158 CGTGTG
1 CGTGTG
96434164 TCCCCTGCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.06, C:0.22, G:0.41, T:0.31
Consensus pattern (13 bp):
CGTGTGATCCGGT
Found at i:96436519 original size:47 final size:45
Alignment explanation
Indices: 96436398--96436655 Score: 176
Period size: 47 Copynumber: 5.5 Consensus size: 45
96436388 GGAATTGACG
* *
96436398 GTTAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAA
1 GTTAAGGATACCATGTAAGACCATGTCAAGACATGGCATCGGCAA
** * *
96436443 GGCAAGGATCCCGTGTAAGACCATGTCAAGACATGGCATCGGCAA
1 GTTAAGGATACCATGTAAGACCATGTCAAGACATGGCATCGGCAA
** ** * *
96436488 TGATTAAGGACT-CCATGTAAGACCACATCAAGATGTGGTATTGGCACTAA
1 -G-TTAAGGA-TACCATGTAAGACCATGTCAAGACATGGCATCGG--C-AA
** *** *
96436538 GACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGCAA
1 GTTAAGGATACCATGTAAGACCATGTCAAG-ACATGGCA-TCGGCAA
** *** * *
96436585 GACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAA
1 GTTAAGGATACCATGTAAGACCATGTCAAG-ACATGGCA-TCGGCAA
* *
96436632 GATAAGGATATCATGTAAGACCAT
1 GTTAAGGATACCATGTAAGACCAT
96436656 TAATAGTGCA
Statistics
Matches: 176, Mismatches: 28, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
45 39 0.22
46 1 0.01
47 101 0.57
48 22 0.12
49 7 0.04
50 6 0.03
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.23
Consensus pattern (45 bp):
GTTAAGGATACCATGTAAGACCATGTCAAGACATGGCATCGGCAA
Found at i:96436784 original size:31 final size:31
Alignment explanation
Indices: 96436705--96436789 Score: 120
Period size: 30 Copynumber: 2.8 Consensus size: 31
96436695 ACCGTTTACA
96436705 GTAAAGGCTTCGGCCCAGTGATATGAATAAT
1 GTAAAGGCTTCGGCCCAGTGATATGAATAAT
** * *
96436736 G-AAACCCTTCGGGCCAGTGGTATGAATAAT
1 GTAAAGGCTTCGGCCCAGTGATATGAATAAT
96436766 GTAAAGGCTTCGGCCCAGT-ATATG
1 GTAAAGGCTTCGGCCCAGTGATATG
96436790 CTGAGATTGA
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
30 30 0.67
31 15 0.33
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (31 bp):
GTAAAGGCTTCGGCCCAGTGATATGAATAAT
Found at i:96442073 original size:120 final size:119
Alignment explanation
Indices: 96441860--96442197 Score: 459
Period size: 120 Copynumber: 2.8 Consensus size: 119
96441850 CGGATGATAA
* * * * *
96441860 CCGGGCTAATTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCCTGAAGGCATTT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCAACT-ACTATA-TCCGGGCTAAGTCCCGAAGGCATTT
* * **
96441924 GTGCGAGTTACTA-ATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
64 GTGCGAGTTACTATA-TCCGGGTTAAGTCCCGAAGGCATTTGTGCAAACTACTATAT
*
96441980 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCCGGGCTAAGTCCCAAAGGCATTTG
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-AACTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
96442045 TGCGAGTTACTATATCCGGGTTAAGTCCCGAAGGCATTTGTGCAAACTACTATAT
65 TGCGAGTTACTATATCCGGGTTAAGTCCCGAAGGCATTTGTGCAAACTACTATAT
*
96442100 CCGGGTTAAGTCCCGAAGGCATTTGTGCAAACTACTATATCTGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-AACTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
* ** *
96442165 AGCGAGTGGCTATATCC-AGTTGAAG-CCCGAAGG
65 TGCGAGTTACTATATCCGGGTT-AAGTCCCGAAGG
96442198 TACTTGGTTT
Statistics
Matches: 197, Mismatches: 17, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
119 11 0.06
120 182 0.92
121 4 0.02
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (119 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCAACTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
GCGAGTTACTATATCCGGGTTAAGTCCCGAAGGCATTTGTGCAAACTACTATAT
Found at i:96442178 original size:40 final size:39
Alignment explanation
Indices: 96441860--96442181 Score: 405
Period size: 40 Copynumber: 8.1 Consensus size: 39
96441850 CGGATGATAA
* *
96441860 CCGGGCTAATTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATA-T
*
96441900 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATA-T
96441940 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
* *
96441980 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTATAT
*
96442020 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
* * *
96442060 CCGGGTTAAGTCCCGAAGGCATTTGTGCAAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTACTATAT
* * *
96442100 CCGGGTTAAGTCCCGAAGGCATTTGTGCAAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTACTATAT
* * *
96442140 CTGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATAT
96442180 CC
1 CC
96442182 AGTTGAAGCC
Statistics
Matches: 256, Mismatches: 20, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
39 3 0.01
40 249 0.97
41 4 0.02
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAT
Found at i:96447228 original size:47 final size:47
Alignment explanation
Indices: 96447177--96447298 Score: 210
Period size: 47 Copynumber: 2.6 Consensus size: 47
96447167 GGCATTGCAC
96447177 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGA-ATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACAT-GACATTTGG
96447224 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGG
* *
96447271 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
96447299 CCAAGGCATG
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
46 2 0.03
47 70 0.97
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGG
Found at i:96447341 original size:54 final size:54
Alignment explanation
Indices: 96447277--96447484 Score: 242
Period size: 54 Copynumber: 3.9 Consensus size: 54
96447267 TTGGTAAGAT
*
96447277 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * *
96447331 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTTCTATAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATAAG-TTCTATAAGGC
** * *
96447386 AAAGG-TCGCATGTAAGACCATGCCAAGGCATGGCATT-AGTGAGTTC-ATAAGGC
1 -AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGA-TAAGTTCTATAAGGC
* * * * * *
96447439 AAGGATACCACGTAAGACCATGTCAAGACATGACAATGGTAAGTTC
1 AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC
96447485 AAAAAGGAAA
Statistics
Matches: 131, Mismatches: 18, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
52 4 0.03
53 38 0.29
54 43 0.33
55 42 0.32
56 4 0.03
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.23
Consensus pattern (54 bp):
AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
Done.