Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 288 of 325
Found at i:88706029 original size:37 final size:37
Alignment explanation
Indices: 88705943--88706036 Score: 116
Period size: 37 Copynumber: 2.5 Consensus size: 37
88705933 TATCAGAACT
** * *
88705943 AGAATCAAAAAGAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAAAATCAGGCGAC
* *
88705980 AGAATCAAAATCAGAATTAGAATCAAAATTAGGCGAC
1 AGAATCAAAATCAGAATCAGAATCAAAATCAGGCGAC
* *
88706017 AGAATCAGAATCAGTATCAG
1 AGAATCAAAATCAGAATCAG
88706037 GTAACAGAAT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.50, C:0.14, G:0.19, T:0.17
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAGAATCAAAATCAGGCGAC
Found at i:88706051 original size:31 final size:31
Alignment explanation
Indices: 88705955--88706054 Score: 89
Period size: 31 Copynumber: 3.2 Consensus size: 31
88705945 AATCAAAAAG
*
88705955 AGAATCAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
* * * * *
88705986 AAAATCAGAATTAGAATCA--AAATTAGGCGA-C
1 AGAATCAGAATCAGAATCAGGTAA-CA-G-AATC
*
88706017 AGAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
88706048 AGAATCA
1 AGAATCA
88706055 AAATGTGAAT
Statistics
Matches: 51, Mismatches: 12, Indels: 12
0.68 0.16 0.16
Matches are distributed among these distances:
29 1 0.02
30 2 0.04
31 44 0.86
32 2 0.04
33 2 0.04
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.18
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTAACAGAATC
Found at i:88706919 original size:27 final size:27
Alignment explanation
Indices: 88706889--88706995 Score: 115
Period size: 27 Copynumber: 4.0 Consensus size: 27
88706879 GGGGTAAAAT
* * *
88706889 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
88706916 GGTAATTCTATCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
88706943 GGTATTTCTACCCTACAAGAGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** *
88706970 AATAATTCTACCCTACAGGGGTATTT
1 GGTAATTCTACCCTACAAGGGTATTT
88706996 TAATAATTTA
Statistics
Matches: 64, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 64 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:88706937 original size:54 final size:54
Alignment explanation
Indices: 88706878--88706992 Score: 133
Period size: 54 Copynumber: 2.1 Consensus size: 54
88706868 TTAACACCCT
* ** *
88706878 AGGGGTAAAATGGTAATTT-TACCCCACAAGGGTATCTCGGTAATTCTATCCTAC
1 AGGGGTAAAATGGT-ATTTCTACCCCACAAGAGTATCTCAATAATTCTACCCTAC
*** * *
88706932 AGGGGTATTTTGGTATTTCTACCCTACAAGAGTATTTCAATAATTCTACCCTAC
1 AGGGGTAAAATGGTATTTCTACCCCACAAGAGTATCTCAATAATTCTACCCTAC
88706986 AGGGGTA
1 AGGGGTA
88706993 TTTTAATAAT
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
53 4 0.08
54 47 0.92
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (54 bp):
AGGGGTAAAATGGTATTTCTACCCCACAAGAGTATCTCAATAATTCTACCCTAC
Found at i:88707052 original size:27 final size:26
Alignment explanation
Indices: 88706987--88707057 Score: 70
Period size: 27 Copynumber: 2.7 Consensus size: 26
88706977 CTACCCTACA
**
88706987 GGGGTATTTTAATAATTTATAAATCG
1 GGGGTATTTTGGTAATTTATAAATCG
* *** *
88707013 AGGGTAAAATGGTAATTCTATAAATTG
1 GGGGTATTTTGGTAATT-TATAAATCG
88707040 GGGGTATTTTGGTAATTT
1 GGGGTATTTTGGTAATTT
88707058 TACAAGTCAA
Statistics
Matches: 33, Mismatches: 11, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
26 12 0.36
27 21 0.64
ACGTcount: A:0.32, C:0.03, G:0.24, T:0.41
Consensus pattern (26 bp):
GGGGTATTTTGGTAATTTATAAATCG
Found at i:88716982 original size:21 final size:20
Alignment explanation
Indices: 88716939--88716995 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
88716929 AAATATAAAA
*
88716939 TTTGATTTTTTTATAAATAT
1 TTTGATTTTTTTAAAAATAT
*
88716959 TTTGATTTTTTGAAAAATATT
1 TTTGATTTTTTTAAAAATA-T
*
88716980 TTTAATTTTTTTAAAA
1 TTTGATTTTTTTAAAA
88716996 TTTTTGTTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 17 0.53
21 15 0.47
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.61
Consensus pattern (20 bp):
TTTGATTTTTTTAAAAATAT
Found at i:88724960 original size:52 final size:52
Alignment explanation
Indices: 88724882--88724985 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
88724872 AAATGAAAGA
88724882 CAAAACCCCGGACACTGGCCAATATTTTAACATCTAGGGGTGAAGACAAGGG
1 CAAAACCCCGGACACTGGCCAATATTTTAACATCTAGGGGTGAAGACAAGGG
88724934 CAAAACCCCGGACACTGGCCAATATTTTAACATCTAGGGGTGAAGACAAGGG
1 CAAAACCCCGGACACTGGCCAATATTTTAACATCTAGGGGTGAAGACAAGGG
88724986 TCCCTCCTCC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (52 bp):
CAAAACCCCGGACACTGGCCAATATTTTAACATCTAGGGGTGAAGACAAGGG
Found at i:88726541 original size:2 final size:2
Alignment explanation
Indices: 88726534--88726566 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
88726524 TTTATAAGTT
*
88726534 TA TA TA TA TA TA TA TA TA TA TA T- TC TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
88726567 CATACATTGC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:88760174 original size:16 final size:17
Alignment explanation
Indices: 88760153--88760194 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
88760143 GGTTCATTGG
88760153 AATGGAATAAGA-CTAT
1 AATGGAATAAGATCTAT
*
88760169 AATGGAAT-AGATCTGT
1 AATGGAATAAGATCTAT
88760185 AATGGAATAA
1 AATGGAATAA
88760195 AGCTGTAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 3 0.13
16 19 0.83
17 1 0.04
ACGTcount: A:0.48, C:0.05, G:0.21, T:0.26
Consensus pattern (17 bp):
AATGGAATAAGATCTAT
Found at i:88760200 original size:16 final size:16
Alignment explanation
Indices: 88760153--88760203 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
88760143 GGTTCATTGG
*
88760153 AATGGAAT-AAGACTAT
1 AATGGAATAAAG-CTGT
* *
88760169 AATGGAATAGATCTGT
1 AATGGAATAAAGCTGT
88760185 AATGGAATAAAGCTGT
1 AATGGAATAAAGCTGT
88760201 AAT
1 AAT
88760204 CAATCATTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
16 28 0.97
17 1 0.03
ACGTcount: A:0.45, C:0.06, G:0.22, T:0.27
Consensus pattern (16 bp):
AATGGAATAAAGCTGT
Found at i:88761195 original size:10 final size:10
Alignment explanation
Indices: 88761180--88761234 Score: 51
Period size: 10 Copynumber: 5.4 Consensus size: 10
88761170 TTATACATAT
88761180 ATATTTATAA
1 ATATTTATAA
88761190 ATATTTATAA
1 ATATTTATAA
*
88761200 ATA-TTAAATA
1 ATATTTATA-A
88761210 ATAATTT-TAA
1 AT-ATTTATAA
*
88761220 ATATATTTTAA
1 ATAT-TTATAA
88761231 ATAT
1 ATAT
88761235 AAATTATTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
9 6 0.16
10 21 0.55
11 9 0.24
12 2 0.05
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (10 bp):
ATATTTATAA
Found at i:88761213 original size:24 final size:25
Alignment explanation
Indices: 88761185--88761254 Score: 60
Period size: 24 Copynumber: 2.8 Consensus size: 25
88761175 CATATATATT
88761185 TATAAATATTTATAA-ATA-TTAAA
1 TATAAATATTTATAATATATTTAAA
88761208 TA-ATAAT-TTTA-AATATATTTTAAA
1 TATA-AATATTTATAATATA-TTTAAA
88761232 TATAAATTATTTATCAATTATAT
1 TATAAA-TATTTAT-AA-TATAT
88761255 AAAACACTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 15
0.71 0.00 0.29
Matches are distributed among these distances:
21 2 0.05
22 8 0.22
23 5 0.14
24 9 0.24
25 2 0.05
26 4 0.11
28 3 0.08
29 4 0.11
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (25 bp):
TATAAATATTTATAATATATTTAAA
Found at i:88766097 original size:19 final size:19
Alignment explanation
Indices: 88766073--88766150 Score: 62
Period size: 19 Copynumber: 4.4 Consensus size: 19
88766063 AATCATATCT
88766073 TCTAAGATTACATATCTTA
1 TCTAAGATTACATATCTTA
**
88766092 TCTAAGA-TATGTAATCTTA
1 TCTAAGATTACAT-ATCTTA
*
88766111 --TAA-AAT-CATATCTTA
1 TCTAAGATTACATATCTTA
*
88766126 --TAAGATTACATATCATA
1 TCTAAGATTACATATCTTA
88766143 TCTAAGAT
1 TCTAAGAT
88766151 CTCTAACATT
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
15 9 0.19
16 4 0.09
17 12 0.26
18 3 0.06
19 19 0.40
ACGTcount: A:0.41, C:0.13, G:0.06, T:0.40
Consensus pattern (19 bp):
TCTAAGATTACATATCTTA
Found at i:88766113 original size:51 final size:51
Alignment explanation
Indices: 88766058--88766175 Score: 184
Period size: 51 Copynumber: 2.3 Consensus size: 51
88766048 TCTCTAAGAA
* * *
88766058 TATAAAATCATATCTTCTAAGATTACATATCTTATCTAAGATATGTAATC-T
1 TATAAAATCATATCTTATAAGATTACATATCATATCTAAGATATCTAA-CAT
*
88766109 TATAAAATCATATCTTATAAGATTACATATCATATCTAAGATCTCTAACAT
1 TATAAAATCATATCTTATAAGATTACATATCATATCTAAGATATCTAACAT
88766160 TATAAAATCATATCTT
1 TATAAAATCATATCTT
88766176 TTAATATCAT
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
50 1 0.02
51 61 0.98
ACGTcount: A:0.42, C:0.14, G:0.04, T:0.40
Consensus pattern (51 bp):
TATAAAATCATATCTTATAAGATTACATATCATATCTAAGATATCTAACAT
Found at i:88771298 original size:19 final size:19
Alignment explanation
Indices: 88771274--88771351 Score: 62
Period size: 19 Copynumber: 4.4 Consensus size: 19
88771264 AATCATATCT
88771274 TCTAAGATTACATATCTTA
1 TCTAAGATTACATATCTTA
**
88771293 TCTAAGA-TATGTAATCTTA
1 TCTAAGATTACAT-ATCTTA
*
88771312 --TAA-AATA-ATATCTTA
1 TCTAAGATTACATATCTTA
*
88771327 --TAAGATTACATATCATA
1 TCTAAGATTACATATCTTA
88771344 TCTAAGAT
1 TCTAAGAT
88771352 CTCTAAGATT
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
15 9 0.19
16 5 0.10
17 12 0.25
18 3 0.06
19 19 0.40
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.40
Consensus pattern (19 bp):
TCTAAGATTACATATCTTA
Found at i:88771314 original size:51 final size:51
Alignment explanation
Indices: 88771251--88771382 Score: 183
Period size: 51 Copynumber: 2.6 Consensus size: 51
88771241 CAATCAAATC
* * *
88771251 TCTAAGAATATAAAATCATATCTTCTAAGATTACATATCTTATCTAAGATA
1 TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
* ** * *
88771302 TGTAATCTTATAAAATAATATCTTATAAGATTACATATCATATCTAAGATC
1 TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
*
88771353 TCTAAGATTATAAAATCATATCTTTTAAGA
1 TCTAAGATTATAAAATCATATCTTATAAGA
88771383 CCATGTTTCC
Statistics
Matches: 68, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 68 1.00
ACGTcount: A:0.43, C:0.12, G:0.06, T:0.39
Consensus pattern (51 bp):
TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
Found at i:88773728 original size:27 final size:26
Alignment explanation
Indices: 88773684--88773742 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 26
88773674 AATTTATCTA
88773684 AAAAATAAATTTTATTAT-TGAAAAATT
1 AAAAATAAATTTTATTATAT-AAAAA-T
*
88773711 AAAAATAACGTTTT-TTATATAAAAAT
1 AAAAATAA-ATTTTATTATATAAAAAT
88773737 AAAAAT
1 AAAAAT
88773743 TTATTTATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 7 0.24
27 17 0.59
28 5 0.17
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (26 bp):
AAAAATAAATTTTATTATATAAAAAT
Found at i:88774511 original size:28 final size:28
Alignment explanation
Indices: 88774480--88774600 Score: 111
Period size: 28 Copynumber: 4.3 Consensus size: 28
88774470 TCTTTATATT
* *
88774480 TTTTATAATTTGTTACGACTTTATAAAA
1 TTTTATAATTTTTTACGAATTTATAAAA
* * * *
88774508 TTTTATAATTTTTTTCTATATTTCTATATA
1 TTTTATAATTTTTTACGA-ATTTATA-AAA
*
88774538 TTTTATAATTTTTTACGATTTTATAAAA
1 TTTTATAATTTTTTACGAATTTATAAAA
* * * *
88774566 TTTTATATTTTTTTGCG-ATTTTTATAA
1 TTTTATAATTTTTTACGAATTTATAAAA
88774593 TTTT-TAAT
1 TTTTATAAT
88774601 AAAATTTTTA
Statistics
Matches: 74, Mismatches: 17, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
26 3 0.04
27 11 0.15
28 32 0.43
29 10 0.14
30 18 0.24
ACGTcount: A:0.30, C:0.05, G:0.04, T:0.61
Consensus pattern (28 bp):
TTTTATAATTTTTTACGAATTTATAAAA
Found at i:88774554 original size:58 final size:58
Alignment explanation
Indices: 88774464--88774579 Score: 180
Period size: 58 Copynumber: 2.0 Consensus size: 58
88774454 TTACGAATTT
*
88774464 TATATTTCTTTATATTTTTTATAATTTGTTACGACTTTATAAAATTTTATAATTTTTTTC
1 TATATTTC-TTATATATTTTATAATTTGTTACGACTTTATAAAATTTTAT-ATTTTTTTC
* *
88774524 TATATTTC-TATATATTTTATAATTTTTTACGATTTTATAAAATTTTATATTTTTTT
1 TATATTTCTTATATATTTTATAATTTGTTACGACTTTATAAAATTTTATATTTTTTT
88774580 GCGATTTTTA
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
57 8 0.15
58 37 0.70
60 8 0.15
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (58 bp):
TATATTTCTTATATATTTTATAATTTGTTACGACTTTATAAAATTTTATATTTTTTTC
Found at i:88774609 original size:58 final size:58
Alignment explanation
Indices: 88774465--88774610 Score: 165
Period size: 58 Copynumber: 2.5 Consensus size: 58
88774455 TACGAATTTT
* * *
88774465 ATATTTCTTTATATTTTTTATAATTTGTTACGACTTTATAAAATTTTATAATTTTTTTCT
1 ATATTTCTATATATTTTATA-AATTT-TTACGACTTTATAAAATTTTATAATTTTTTTCG
* *
88774525 ATATTTCTATATATTTTATAATTTTTTACGATTTTATAAAATTTTAT-ATTTTTTTGCG
1 ATATTTCTATATATTTTATAAATTTTTACGACTTTATAAAATTTTATAATTTTTTT-CG
88774583 AT-TTT-TATA-ATTTTTAATAAAATTTTTA
1 ATATTTCTATATA-TTTT-AT-AAATTTTTA
88774611 ATATTTTTTA
Statistics
Matches: 76, Mismatches: 6, Indels: 10
0.83 0.07 0.11
Matches are distributed among these distances:
55 1 0.01
56 8 0.11
57 13 0.17
58 32 0.42
59 4 0.05
60 18 0.24
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (58 bp):
ATATTTCTATATATTTTATAAATTTTTACGACTTTATAAAATTTTATAATTTTTTTCG
Found at i:88774656 original size:15 final size:16
Alignment explanation
Indices: 88774616--88774666 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
88774606 TTTTAATATT
88774616 TTTTATTTTTATATAA
1 TTTTATTTTTATATAA
* *
88774632 ATATATTTTT-TATAAA
1 TTTTATTTTTATAT-AA
*
88774648 TTTTATTTTT-TATCA
1 TTTTATTTTTATATAA
88774663 TTTT
1 TTTT
88774667 TGTCACATGT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
15 8 0.28
16 21 0.72
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTATTTTTATATAA
Found at i:88774667 original size:16 final size:16
Alignment explanation
Indices: 88774616--88774660 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
88774606 TTTTAATATT
88774616 TTTTATTTTTATATAAA
1 TTTTATTTTT-TATAAA
*
88774633 -TATATTTTTTATAAA
1 TTTTATTTTTTATAAA
88774648 TTTTATTTTTTAT
1 TTTTATTTTTTAT
88774661 CATTTTTGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 6 0.24
16 19 0.76
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTATTTTTTATAAA
Found at i:88775115 original size:21 final size:22
Alignment explanation
Indices: 88775091--88775139 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
88775081 GACCATGAAA
88775091 TTTATTTATTTTTAAATTT-TT
1 TTTATTTATTTTTAAATTTATT
** **
88775112 TTTACATATTTTTATTTTTATT
1 TTTATTTATTTTTAAATTTATT
88775134 TTTATT
1 TTTATT
88775140 ATGAACCCAA
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTATTTATTTTTAAATTTATT
Found at i:88782018 original size:18 final size:20
Alignment explanation
Indices: 88781982--88782019 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
88781972 TCAAGTCCGT
*
88781982 CTAACATAGAGGAGTCCTTG
1 CTAACATAGAGGAGACCTTG
88782002 CTAACA-AG-GGAGACCTTG
1 CTAACATAGAGGAGACCTTG
88782020 ATAAGATAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
19 2 0.12
20 6 0.35
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (20 bp):
CTAACATAGAGGAGACCTTG
Found at i:88786977 original size:29 final size:29
Alignment explanation
Indices: 88786944--88787002 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
88786934 TAAGCATGTC
88786944 TTAGTTATGATTAACTTCTTTTATAGATG
1 TTAGTTATGATTAACTTCTTTTATAGATG
88786973 TTAGTTATGATTAACTTCTTTTATAGATG
1 TTAGTTATGATTAACTTCTTTTATAGATG
88787002 T
1 T
88787003 CTTGCATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.27, C:0.07, G:0.14, T:0.53
Consensus pattern (29 bp):
TTAGTTATGATTAACTTCTTTTATAGATG
Found at i:88791354 original size:100 final size:100
Alignment explanation
Indices: 88791181--88791381 Score: 384
Period size: 100 Copynumber: 2.0 Consensus size: 100
88791171 AGAATAACCC
*
88791181 TATCACCGAAATGGAGAATCTACAAGAAGAAAAAAAGAAAGACATTGCAATGCAAGAAATCCATA
1 TATCACCGAAATGGAGAATCTACAAGAAGAAAAAAAGAAAGACATTGCAAAGCAAGAAATCCATA
88791246 AGAACAAAACAACAAAACATTTTTCTTGAAGTACA
66 AGAACAAAACAACAAAACATTTTTCTTGAAGTACA
*
88791281 TATCACCGAAATGGAGAATCTACAAGAAGAAAAAAAGAAAGACATTTCAAAGCAAGAAATCCATA
1 TATCACCGAAATGGAGAATCTACAAGAAGAAAAAAAGAAAGACATTGCAAAGCAAGAAATCCATA
88791346 AGAACAAAACAACAAAACATTTTTCTTGAAGTACA
66 AGAACAAAACAACAAAACATTTTTCTTGAAGTACA
88791381 T
1 T
88791382 GCGTCCAGCA
Statistics
Matches: 99, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 99 1.00
ACGTcount: A:0.52, C:0.16, G:0.13, T:0.18
Consensus pattern (100 bp):
TATCACCGAAATGGAGAATCTACAAGAAGAAAAAAAGAAAGACATTGCAAAGCAAGAAATCCATA
AGAACAAAACAACAAAACATTTTTCTTGAAGTACA
Found at i:88794257 original size:28 final size:28
Alignment explanation
Indices: 88794224--88794303 Score: 106
Period size: 29 Copynumber: 2.8 Consensus size: 28
88794214 GTACTTTTAT
88794224 AAAATGTTTAATGTGGTACCCTACTTTG
1 AAAATGTTTAATGTGGTACCCTACTTTG
** ** *
88794252 AAAATGTCCAATGTGGTACTTATATTTTG
1 AAAATGTTTAATGTGGTAC-CCTACTTTG
88794281 AAAATGTTTAATGTGGTACCCTA
1 AAAATGTTTAATGTGGTACCCTA
88794304 ACTATCAATC
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
28 19 0.45
29 23 0.55
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.39
Consensus pattern (28 bp):
AAAATGTTTAATGTGGTACCCTACTTTG
Found at i:88794959 original size:62 final size:62
Alignment explanation
Indices: 88794857--88795017 Score: 209
Period size: 62 Copynumber: 2.6 Consensus size: 62
88794847 CAAAGTATAA
* * * *
88794857 GTACCACATTAGACAATTTATGAAAGTACAAGGACTAAATAATACACAAATTGATAGTTCAG
1 GTACCACATTGGACATTTTATGAAAGTACAAAGACTAAATAATACACAAATTAATAGTTCAG
* *
88794919 GTACCACATTGGACATTTTATGAAAGTACAAATAGC-AAATAATACACAAATTAATAGTTTAG
1 GTACCACATTGGACATTTTATGAAAGTACAAAGA-CTAAATAATACACAAATTAATAGTTCAG
* * * *
88794981 GTATCAAATTGAACATTTTATAAAAGTACAAA-ACTAA
1 GTACCACATTGGACATTTTATGAAAGTACAAAGACTAA
88795018 TCACTAACAC
Statistics
Matches: 87, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
60 1 0.01
61 3 0.03
62 82 0.94
63 1 0.01
ACGTcount: A:0.47, C:0.13, G:0.12, T:0.28
Consensus pattern (62 bp):
GTACCACATTGGACATTTTATGAAAGTACAAAGACTAAATAATACACAAATTAATAGTTCAG
Found at i:88800566 original size:20 final size:20
Alignment explanation
Indices: 88800524--88800585 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 20
88800514 TCCAAGTCAG
* *
88800524 ATAAAAAAATTAAAAT-A-A
1 ATAAATAAATAAAAATAATA
88800542 ATAAATAAATAAAAATAATA
1 ATAAATAAATAAAAATAATA
88800562 ATAAATCAAATATAAGAATAATA
1 ATAAAT-AAATA-AA-AATAATA
88800585 A
1 A
88800586 GGAAGCGAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
18 14 0.38
19 1 0.03
20 7 0.19
21 5 0.14
22 2 0.05
23 8 0.22
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.24
Consensus pattern (20 bp):
ATAAATAAATAAAAATAATA
Found at i:88800576 original size:17 final size:16
Alignment explanation
Indices: 88800536--88800582 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
88800526 AAAAAAATTA
88800536 AAATA-AATAAATAAAT
1 AAATATAAT-AATAAAT
*
88800552 AAAAATAATAATAAAT
1 AAATATAATAATAAAT
*
88800568 CAAATATAAGAATAA
1 -AAATATAATAATAA
88800583 TAAGGAAGCG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 11 0.42
17 15 0.58
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.23
Consensus pattern (16 bp):
AAATATAATAATAAAT
Found at i:88800576 original size:23 final size:23
Alignment explanation
Indices: 88800524--88800585 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 23
88800514 TCCAAGTCAG
88800524 ATAA-AAAAATTAA-AATAAATAA
1 ATAATAAAAA-TAATAATAAATAA
88800546 ATAAATAAAAATAATAATAAATCAA
1 AT-AATAAAAATAATAATAAAT-AA
*
88800571 AT-ATAAGAATAATAA
1 ATAATAAAAATAATAA
88800586 GGAAGCGAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
22 2 0.06
23 17 0.49
24 12 0.34
25 4 0.11
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.24
Consensus pattern (23 bp):
ATAATAAAAATAATAATAAATAA
Found at i:88803467 original size:27 final size:25
Alignment explanation
Indices: 88803407--88803492 Score: 124
Period size: 25 Copynumber: 3.5 Consensus size: 25
88803397 GAAATTTCAA
88803407 CACTATGTGTGCAAAAACTACATGG
1 CACTATGTGTGCAAAAACTACATGG
88803432 CACTATGTGTGCAAAAACTACATGG
1 CACTATGTGTGCAAAAACTACATGG
*
88803457 CACTATGTGTGCGAGGAAAC-AC--GG
1 CACTATGTGTGC-A-AAAACTACATGG
88803481 CACTATGTGTGC
1 CACTATGTGTGC
88803493 GAATGAGTAA
Statistics
Matches: 58, Mismatches: 1, Indels: 5
0.91 0.02 0.08
Matches are distributed among these distances:
24 14 0.24
25 37 0.64
26 3 0.05
27 4 0.07
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.23
Consensus pattern (25 bp):
CACTATGTGTGCAAAAACTACATGG
Found at i:88805725 original size:46 final size:45
Alignment explanation
Indices: 88805672--88805795 Score: 168
Period size: 41 Copynumber: 2.8 Consensus size: 45
88805662 TATTTGGGCA
*
88805672 TCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTT-AGTCCGAGTTCACTTATGGATGCGAACG
88805718 TCCGAACTCGTT--G--AGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTAGTCCGAGTTCACTTATGGATGCGAACG
*
88805759 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCC-GAACTCGTTGAGTT-AGTCCGAGTTCACTTATGG
88805796 GCGGGTTACA
Statistics
Matches: 70, Mismatches: 2, Indels: 12
0.83 0.02 0.14
Matches are distributed among these distances:
40 2 0.03
41 35 0.50
43 1 0.01
44 1 0.01
46 31 0.44
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:88810608 original size:51 final size:51
Alignment explanation
Indices: 88810545--88810664 Score: 159
Period size: 51 Copynumber: 2.4 Consensus size: 51
88810535 AACTAAGTTA
* *
88810545 TCCGGATAAAATATGAAGCTCTTGTTAAAGCTAGAGCAAAAAAATAATTAT
1 TCCGGATGAAATATGAAGCTCTTGTTAAAGCTAGAGCAAAAAAATAATAAT
* * * * **
88810596 TCCGGATGAAATATGATGCTCTTGTTGAAGTTAGAGCAACAAGGTAATAAT
1 TCCGGATGAAATATGAAGCTCTTGTTAAAGCTAGAGCAAAAAAATAATAAT
*
88810647 TCCGGATGAAGTATGAAG
1 TCCGGATGAAATATGAAG
88810665 TAAGTTTGAG
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.28
Consensus pattern (51 bp):
TCCGGATGAAATATGAAGCTCTTGTTAAAGCTAGAGCAAAAAAATAATAAT
Found at i:88816624 original size:44 final size:45
Alignment explanation
Indices: 88816561--88816648 Score: 119
Period size: 44 Copynumber: 2.0 Consensus size: 45
88816551 AGATGAAACT
88816561 TGCCACTGAGCTGTGGGTGCA-ATGCAAAATATCACAAATAAAATC
1 TGCCACTGAGCTGTGGGTGCACA-GCAAAATATCACAAATAAAATC
* *
88816606 TGCCACT-AGGCT-TGGGTGCACAGCAAAATATCATAGATAAAAT
1 TGCCACTGA-GCTGTGGGTGCACAGCAAAATATCACAAATAAAAT
88816649 ATATCACTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
44 28 0.72
45 11 0.28
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.23
Consensus pattern (45 bp):
TGCCACTGAGCTGTGGGTGCACAGCAAAATATCACAAATAAAATC
Found at i:88816908 original size:34 final size:34
Alignment explanation
Indices: 88816859--88816944 Score: 100
Period size: 34 Copynumber: 2.5 Consensus size: 34
88816849 TTAATATGAT
* *
88816859 ACAATTTAATTATGCTTTTAACAGGACAATACAGTA
1 ACAA-TTAA-TATGCTTATAACAAGACAATACAGTA
**
88816895 ACAATTAATATGCTTATAACAATTCAATACAGTA
1 ACAATTAATATGCTTATAACAAGACAATACAGTA
* *
88816929 GCAAATAATATGCTTA
1 ACAATTAATATGCTTA
88816945 AAATAGATCA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
34 36 0.82
35 4 0.09
36 4 0.09
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.33
Consensus pattern (34 bp):
ACAATTAATATGCTTATAACAAGACAATACAGTA
Found at i:88817937 original size:15 final size:16
Alignment explanation
Indices: 88817905--88817939 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
88817895 TGGTGTAAAG
88817905 AAAAGAGAATGAAAATA
1 AAAAGAGAAT-AAAATA
88817922 AAAAGAGAAT-AAATA
1 AAAAGAGAATAAAATA
88817937 AAA
1 AAA
88817940 GGATGAAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.44
17 10 0.56
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.11
Consensus pattern (16 bp):
AAAAGAGAATAAAATA
Found at i:88824073 original size:14 final size:14
Alignment explanation
Indices: 88824054--88824080 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
88824044 AATCACCCCA
88824054 ATTTTATTTTACTT
1 ATTTTATTTTACTT
88824068 ATTTTATTTTACT
1 ATTTTATTTTACT
88824081 AATTAATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.70
Consensus pattern (14 bp):
ATTTTATTTTACTT
Found at i:88824135 original size:8 final size:8
Alignment explanation
Indices: 88824110--88824175 Score: 57
Period size: 7 Copynumber: 8.1 Consensus size: 8
88824100 TATCTAATAC
88824110 TTATACTTT
1 TTATA-TTT
* *
88824119 TAATTTTT
1 TTATATTT
88824127 TTATATTT
1 TTATATTT
88824135 TTATA-TT
1 TTATATTT
88824142 TTAT-TTT
1 TTATATTT
88824149 TTATATACTT
1 TTATAT--TT
88824159 TTATTATTT
1 TTA-TATTT
88824168 TTAT-TTT
1 TTATATTT
88824175 T
1 T
88824176 ATTTAGCTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
7 16 0.33
8 16 0.33
9 8 0.17
10 5 0.10
11 3 0.06
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (8 bp):
TTATATTT
Found at i:88824200 original size:8 final size:8
Alignment explanation
Indices: 88824116--88824204 Score: 54
Period size: 8 Copynumber: 10.5 Consensus size: 8
88824106 ATACTTATAC
*
88824116 TTTTAATT
1 TTTTTATT
*
88824124 TTTTTATA
1 TTTTTATT
88824132 TTTTTA-T
1 TTTTTATT
*
88824139 ATTTTATT
1 TTTTTATT
*
88824147 TTTTATATA
1 TTTT-TATT
*
88824156 CTTTTATT
1 TTTTTATT
88824164 ATTTTTATTT
1 -TTTTTA-TT
*
88824174 TTATTTAGCTA
1 TT-TTTA--TT
*
88824185 TTTCTATT
1 TTTTTATT
88824193 TTTTTATT
1 TTTTTATT
88824201 TTTT
1 TTTT
88824205 CTTTCGTATT
Statistics
Matches: 61, Mismatches: 14, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
7 5 0.08
8 31 0.51
9 13 0.21
10 9 0.15
11 3 0.05
ACGTcount: A:0.20, C:0.03, G:0.01, T:0.75
Consensus pattern (8 bp):
TTTTTATT
Found at i:88824200 original size:14 final size:14
Alignment explanation
Indices: 88824124--88824203 Score: 70
Period size: 14 Copynumber: 5.4 Consensus size: 14
88824114 ACTTTTAATT
*
88824124 TTTTTATATTTTTA
1 TTTTTATTTTTTTA
88824138 TATTTTATTTTTTATA
1 T-TTTTATTTTTT-TA
88824154 TACTTTTATTATTTTTA
1 T--TTTTATT-TTTTTA
***
88824171 TTTTTATTTAGCTA
1 TTTTTATTTTTTTA
*
88824185 TTTCTATTTTTTTA
1 TTTTTATTTTTTTA
88824199 TTTTT
1 TTTTT
88824204 TCTTTCGTAT
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
14 18 0.35
15 17 0.33
16 3 0.06
17 10 0.19
18 4 0.08
ACGTcount: A:0.20, C:0.04, G:0.01, T:0.75
Consensus pattern (14 bp):
TTTTTATTTTTTTA
Found at i:88825199 original size:22 final size:22
Alignment explanation
Indices: 88825153--88825199 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
88825143 TATTAGATAT
**
88825153 TAAATAGATATTTATTATTTTA
1 TAAATAGATATTTATTATTAAA
88825175 TAAA-AGATATTTATTAATTAAA
1 TAAATAGATATTTATT-ATTAAA
88825197 TAA
1 TAA
88825200 TTATATTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (22 bp):
TAAATAGATATTTATTATTAAA
Found at i:88825473 original size:20 final size:21
Alignment explanation
Indices: 88825428--88825467 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
88825418 GCAGGGGAAG
88825428 GAAAGAAAGAAAAAGAGAAAA
1 GAAAGAAAGAAAAAGAGAAAA
88825449 GAAAG-AAGAAAAAG-GAAAA
1 GAAAGAAAGAAAAAGAGAAAA
88825468 TTAAAGGTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.26
20 9 0.47
21 5 0.26
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (21 bp):
GAAAGAAAGAAAAAGAGAAAA
Found at i:88827114 original size:23 final size:23
Alignment explanation
Indices: 88827075--88827120 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
88827065 GCTCCCCGTT
* *
88827075 TTATAGTTCTTGTGAGCTTCCCG
1 TTATAGCTCTTGTGAGCGTCCCG
88827098 TTATAGCTCTTCG-GAGCGTCCCG
1 TTATAGCTCTT-GTGAGCGTCCCG
88827121 ATAGGTTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.13, C:0.26, G:0.24, T:0.37
Consensus pattern (23 bp):
TTATAGCTCTTGTGAGCGTCCCG
Found at i:88827216 original size:23 final size:23
Alignment explanation
Indices: 88827184--88827228 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
88827174 CGAAATACAG
*
88827184 CTCTTCGTGAGCTTCCCGATAGA
1 CTCTTCGTGAGCCTCCCGATAGA
*
88827207 CTCTTTGTGAGCCTCCCGATAG
1 CTCTTCGTGAGCCTCCCGATAG
88827229 TGCTCGCTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.16, C:0.31, G:0.22, T:0.31
Consensus pattern (23 bp):
CTCTTCGTGAGCCTCCCGATAGA
Found at i:88827687 original size:46 final size:46
Alignment explanation
Indices: 88827635--88827816 Score: 249
Period size: 46 Copynumber: 4.0 Consensus size: 46
88827625 GCTCTCTGAA
* * * *
88827635 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
88827681 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
88827727 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
88827773 A-GAAAACGAGTAAGACCATAGTTGAAAGATACTATGGCATCATG
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
88827817 TCGAAGATAA
Statistics
Matches: 124, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.01
46 123 0.99
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:88828942 original size:36 final size:36
Alignment explanation
Indices: 88828895--88828967 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
88828885 TTTTAGAGCA
88828895 TACACTTTTCTTGCTTACTCTATTATTGGTTATGAG
1 TACACTTTTCTTGCTTACTCTATTATTGGTTATGAG
88828931 TACACTTTTCTTGCTTACTCTATTATTGGTTATGAG
1 TACACTTTTCTTGCTTACTCTATTATTGGTTATGAG
88828967 T
1 T
88828968 GTATCAATAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.19, C:0.16, G:0.14, T:0.51
Consensus pattern (36 bp):
TACACTTTTCTTGCTTACTCTATTATTGGTTATGAG
Found at i:88830204 original size:30 final size:30
Alignment explanation
Indices: 88830168--88830225 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
88830158 CCTGAGCATT
*
88830168 TCCACACGGGCTGGCCACACGCCCATGTGA
1 TCCACACGGGCTAGCCACACGCCCATGTGA
*
88830198 TCCACACGGGCTAGCCACACGCCTATGT
1 TCCACACGGGCTAGCCACACGCCCATGT
88830226 ACCCGTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.21, C:0.40, G:0.24, T:0.16
Consensus pattern (30 bp):
TCCACACGGGCTAGCCACACGCCCATGTGA
Found at i:88832834 original size:20 final size:21
Alignment explanation
Indices: 88832799--88832837 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
88832789 ATGGTATATA
88832799 TAATTAACTAGTTAATCAACT
1 TAATTAACTAGTTAATCAACT
*
88832820 TAATTAA-TTGTTAATCAA
1 TAATTAACTAGTTAATCAA
88832838 ATGGATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (21 bp):
TAATTAACTAGTTAATCAACT
Found at i:88844690 original size:45 final size:46
Alignment explanation
Indices: 88844622--88844712 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 46
88844612 GAACTTAGAG
* *
88844622 AACTAAGTTGGGTATCACTACCATGAATTCGTCAACCATTAGGCTT
1 AACTAAGTTGGGTATCACCACCATGAATTCCTCAACCATTAGGCTT
* *
88844668 AACTACGTT-GGTATCACCACCATGAATTCCTCAACCATTGGGCTT
1 AACTAAGTTGGGTATCACCACCATGAATTCCTCAACCATTAGGCTT
88844713 TAAGACTTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
45 33 0.80
46 8 0.20
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (46 bp):
AACTAAGTTGGGTATCACCACCATGAATTCCTCAACCATTAGGCTT
Found at i:88845605 original size:46 final size:46
Alignment explanation
Indices: 88845543--88845947 Score: 566
Period size: 46 Copynumber: 8.8 Consensus size: 46
88845533 TTTGAGATGA
* * * * *
88845543 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATATCATGT
* * * *
88845589 TTCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCATGT
*
88845635 TGCCATGGTATCTTTCAACCACGGTCTTATTCATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCATGT
*
88845681 TGCCATGGTATCTTTCAACCGTGGTCTTATTCATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCATGT
* * *
88845727 TGCCATGGTATCTTTCAACCGTGGTCTTATTCATTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCATGT
*
88845773 TGCCATGGTATCTTTCAACCATGGTTTTATTCATTTTC-TATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATATCATGT
** **
88845819 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATAA
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCATGT
*
88845865 TGCCATGGTATCTTTCAACCATGGTCTCA--CATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCATGT
**
88845909 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCAT
88845948 TTCAGAAAGC
Statistics
Matches: 325, Mismatches: 29, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
44 41 0.13
45 8 0.02
46 272 0.84
47 4 0.01
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCATGT
Found at i:88849657 original size:26 final size:26
Alignment explanation
Indices: 88849623--88849708 Score: 75
Period size: 26 Copynumber: 3.3 Consensus size: 26
88849613 ATCCACTCAT
* *
88849623 GGTCCTCTGGCTAACTCAAACTCAAA
1 GGTCCTCTGACCAACTCAAACTCAAA
* *
88849649 GGTCTTCTGACCAACTCAAGCTC-AA
1 GGTCCTCTGACCAACTCAAACTCAAA
* * * *
88849674 TGACCTTCGGACCCACTCAAACTCAAA
1 GGTCC-TCTGACCAACTCAAACTCAAA
*
88849701 GGACCTCT
1 GGTCCTCT
88849709 AACCCATCTT
Statistics
Matches: 46, Mismatches: 12, Indels: 4
0.74 0.19 0.06
Matches are distributed among these distances:
25 4 0.09
26 36 0.78
27 6 0.13
ACGTcount: A:0.29, C:0.34, G:0.15, T:0.22
Consensus pattern (26 bp):
GGTCCTCTGACCAACTCAAACTCAAA
Found at i:88849713 original size:26 final size:26
Alignment explanation
Indices: 88849636--88849714 Score: 79
Period size: 26 Copynumber: 3.0 Consensus size: 26
88849626 CCTCTGGCTA
* * *
88849636 ACTCAAACTCAAAGGTCTTCTGACCA
1 ACTCAAACTCAAAGGACCTCTGACCC
* * *
88849662 ACTCAAGCTC-AATGACCTTCGGACCC
1 ACTCAAACTCAAAGGACC-TCTGACCC
*
88849688 ACTCAAACTCAAAGGACCTCTAACCC
1 ACTCAAACTCAAAGGACCTCTGACCC
88849714 A
1 A
88849715 TCTTGACTCA
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
25 4 0.10
26 31 0.76
27 6 0.15
ACGTcount: A:0.34, C:0.35, G:0.11, T:0.19
Consensus pattern (26 bp):
ACTCAAACTCAAAGGACCTCTGACCC
Found at i:88850757 original size:19 final size:19
Alignment explanation
Indices: 88850735--88850772 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
88850725 AAGCTAATAA
88850735 AAATCTAGTTAAAT-AATTG
1 AAAT-TAGTTAAATGAATTG
*
88850754 AAATTTGTTAAATGAATTG
1 AAATTAGTTAAATGAATTG
88850773 TACAAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.45, C:0.03, G:0.13, T:0.39
Consensus pattern (19 bp):
AAATTAGTTAAATGAATTG
Found at i:88852727 original size:28 final size:28
Alignment explanation
Indices: 88852695--88852749 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
88852685 TTACCTAAAT
88852695 AATATAAAAA-ATAATTAATTACGAAAAA
1 AATATAAAAACATAA-TAATTACGAAAAA
88852723 AATATAAAAACATAATAATTACGAAAA
1 AATATAAAAACATAATAATTACGAAAA
88852750 TAAGTATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 22 0.85
29 4 0.15
ACGTcount: A:0.67, C:0.05, G:0.04, T:0.24
Consensus pattern (28 bp):
AATATAAAAACATAATAATTACGAAAAA
Found at i:88853659 original size:27 final size:28
Alignment explanation
Indices: 88853607--88853659 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
88853597 CAAATGACTA
*
88853607 TTTTTGTAATTATTCTATTTTCTATACC
1 TTTTTGTAATTAATCTATTTTCTATACC
88853635 TTTTTCGTAATTAAT-TATTTT-TATA
1 TTTTT-GTAATTAATCTATTTTCTATA
88853660 TTATTTGGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 4 0.17
28 11 0.48
29 8 0.35
ACGTcount: A:0.25, C:0.09, G:0.04, T:0.62
Consensus pattern (28 bp):
TTTTTGTAATTAATCTATTTTCTATACC
Found at i:88855184 original size:42 final size:42
Alignment explanation
Indices: 88855108--88855208 Score: 105
Period size: 42 Copynumber: 2.4 Consensus size: 42
88855098 CTCGATTTGA
*** *
88855108 GATTTACGTGTAAGACTATGTCTGGGACATAGGCATC-ATATCT
1 GATTT-CGTGTAAGACTATGTCTAAAACAGAGGCATCGATA-CT
*
88855151 GATTTCGTGTAAGACTTTGTCTAAAACAGAGGCATCGATACT
1 GATTTCGTGTAAGACTATGTCTAAAACAGAGGCATCGATACT
* *
88855193 GAATTACATGTAAGAC
1 G-ATTTCGTGTAAGAC
88855209 CACGTCTGGG
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
42 29 0.59
43 20 0.41
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.31
Consensus pattern (42 bp):
GATTTCGTGTAAGACTATGTCTAAAACAGAGGCATCGATACT
Found at i:88862780 original size:43 final size:42
Alignment explanation
Indices: 88862668--88862780 Score: 113
Period size: 42 Copynumber: 2.7 Consensus size: 42
88862658 GAGATTTATG
* * * *
88862668 TGTAAGACCATGTCTGGGACATAGGCATCGTATCTGATTTCG
1 TGTAAGACCACGTCTGGGACATAGGCATCGTATCTAATTACA
* *
88862710 TGTAAGACC-CTATCTGGGACAGAGGCATCG-ATACTAAATTACA
1 TGTAAGACCAC-GTCTGGGACATAGGCATCGTAT-CT-AATTACA
* *
88862753 TGTAAGACCACGTCCGGGACATCGGCAT
1 TGTAAGACCACGTCTGGGACATAGGCAT
88862781 TGTGCCTGTT
Statistics
Matches: 57, Mismatches: 10, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
41 2 0.04
42 28 0.49
43 26 0.46
44 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACATAGGCATCGTATCTAATTACA
Found at i:88867886 original size:3 final size:3
Alignment explanation
Indices: 88867873--88867976 Score: 63
Period size: 3 Copynumber: 34.0 Consensus size: 3
88867863 ATTCTGCTTT
* * *
88867873 TTA TTA TTTA TTA TTA TTA -TG TTA TTTA TTG TTA TTA TTA -TA TTT
1 TTA TTA -TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
* * *
88867918 TTGCA -TA TATA ATA TT- TATA TTA TTA CTA TTA TTA ATA TTA TTA TTA
1 TT--A TTA T-TA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
88867965 TTA TCA TTA TTA
1 TTA TTA TTA TTA
88867977 GTATATTTCT
Statistics
Matches: 77, Mismatches: 14, Indels: 20
0.69 0.13 0.18
Matches are distributed among these distances:
2 5 0.06
3 62 0.81
4 10 0.13
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:88868203 original size:25 final size:24
Alignment explanation
Indices: 88868175--88868236 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 24
88868165 TGTTTATATA
88868175 TATTATTATGTATATATTTTAACAC
1 TATTATTATGTATATATTTT-ACAC
* *
88868200 TATTAGTTA--TATATCTTTTATAC
1 TATTA-TTATGTATATATTTTACAC
88868223 TATT-TTATGTATAT
1 TATTATTATGTATAT
88868237 TTCTAATATC
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
21 3 0.09
23 12 0.38
24 9 0.28
25 5 0.16
26 3 0.09
ACGTcount: A:0.32, C:0.06, G:0.05, T:0.56
Consensus pattern (24 bp):
TATTATTATGTATATATTTTACAC
Found at i:88868254 original size:19 final size:19
Alignment explanation
Indices: 88868230--88868267 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
88868220 TACTATTTTA
*
88868230 TGTATATTTCTAATATCAT
1 TGTATATTTCTAACATCAT
88868249 TGTATATTTCTAACATCAT
1 TGTATATTTCTAACATCAT
88868268 CATTATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.13, G:0.05, T:0.50
Consensus pattern (19 bp):
TGTATATTTCTAACATCAT
Found at i:88868700 original size:26 final size:28
Alignment explanation
Indices: 88868652--88868707 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 28
88868642 ATTATACCTA
*
88868652 TTATTTTCACTATTATCACGTAT-TATT
1 TTATTTTCAATATTATCACGTATATATT
* *
88868679 TTATTTT-AATATTATTATGTATATATT
1 TTATTTTCAATATTATCACGTATATATT
88868706 TT
1 TT
88868708 TCATATATGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 12 0.48
27 13 0.52
ACGTcount: A:0.29, C:0.07, G:0.04, T:0.61
Consensus pattern (28 bp):
TTATTTTCAATATTATCACGTATATATT
Found at i:88875028 original size:27 final size:27
Alignment explanation
Indices: 88874908--88875048 Score: 146
Period size: 27 Copynumber: 5.2 Consensus size: 27
88874898 GTGACGAAGT
*
88874908 CACCAGATACAAATAT-TGTGGCAGAGC
1 CACCAGAT-CAGATATATGTGGCAGAGC
* *
88874935 CACCAGAACAGATATATGTGACAGAGC
1 CACCAGATCAGATATATGTGGCAGAGC
* *
88874962 CACCAGATCAAATA-ATTGTGGCATAGC
1 CACCAGATCAGATATA-TGTGGCAGAGC
88874989 CACCAGGA-CAGATATATGTGGCAGAGC
1 CACCA-GATCAGATATATGTGGCAGAGC
* * *
88875016 CACCAGATTAGATA-ATTGTGGTATAGC
1 CACCAGATCAGATATA-TGTGGCAGAGC
88875043 CACCAG
1 CACCAG
88875049 GACACTTCCT
Statistics
Matches: 96, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
26 10 0.10
27 83 0.86
28 3 0.03
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (27 bp):
CACCAGATCAGATATATGTGGCAGAGC
Found at i:88875049 original size:54 final size:54
Alignment explanation
Indices: 88874890--88875052 Score: 224
Period size: 54 Copynumber: 3.0 Consensus size: 54
88874880 GCGAGGCTGC
* * *
88874890 CAGATAT-TGTGAC-GAAGTCACCAGATACAAAT-ATTGTGGCAGAGCCACCAGAA
1 CAGATATATGTGACAG-AGCCACCAGAT-CAAATAATTGTGGCATAGCCACCAGGA
88874943 CAGATATATGTGACAGAGCCACCAGATCAAATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGACAGAGCCACCAGATCAAATAATTGTGGCATAGCCACCAGGA
* * * *
88874997 CAGATATATGTGGCAGAGCCACCAGATTAGATAATTGTGGTATAGCCACCAGGA
1 CAGATATATGTGACAGAGCCACCAGATCAAATAATTGTGGCATAGCCACCAGGA
88875051 CA
1 CA
88875053 CTTCCTCCAT
Statistics
Matches: 100, Mismatches: 7, Indels: 5
0.89 0.06 0.04
Matches are distributed among these distances:
53 12 0.12
54 87 0.87
55 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (54 bp):
CAGATATATGTGACAGAGCCACCAGATCAAATAATTGTGGCATAGCCACCAGGA
Found at i:88876673 original size:26 final size:26
Alignment explanation
Indices: 88876642--88876749 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
88876632 TGAAATGCCC
*
88876642 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
88876668 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
88876694 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
88876720 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
88876746 ATCA
1 ATCA
88876750 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:88885487 original size:27 final size:27
Alignment explanation
Indices: 88885447--88885622 Score: 226
Period size: 27 Copynumber: 6.4 Consensus size: 27
88885437 AGGAAGCGTC
*
88885447 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
88885474 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
88885501 CTGGTGGCTCTGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
88885528 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
88885555 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAAATATCTG-AT
* *
88885583 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAAATATCTG-AT
*
88885611 CTGGTGACTCTG
1 CTGGTGGCTCTG
88885623 TCATATTATC
Statistics
Matches: 132, Mismatches: 16, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
27 92 0.70
28 40 0.30
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAAATATCTGAT
Found at i:88885529 original size:54 final size:54
Alignment explanation
Indices: 88885447--88885640 Score: 284
Period size: 54 Copynumber: 3.6 Consensus size: 54
88885437 AGGAAGCGTC
* * *
88885447 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
88885501 CTGGTGGCTCTGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
88885555 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGGCTCTGCCACGAT-TATCTGTAT
1 CTGGTGGCTCTGCCACGATTATCTG-ATCTGGTGGCTCTGCCAC-ATATATCTGT-T
* * * *
88885611 CTGGTGACTCTGTCA-TATTATCTGTTCTGG
1 CTGGTGGCTCTGCCACGATTATCTGATCTGG
88885641 CAGCCATGCT
Statistics
Matches: 130, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
54 81 0.62
55 33 0.25
56 16 0.12
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTCTGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:88885655 original size:109 final size:108
Alignment explanation
Indices: 88885447--88885662 Score: 276
Period size: 109 Copynumber: 2.0 Consensus size: 108
88885437 AGGAAGCGTC
*
88885447 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCT
1 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGACTCT
**
88885512 GCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
66 GCCACGATTATCTGATCTGGCAGCTCTGCCACATATATCTGTT
* * *
88885555 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGGCTCTGCCACGAT-TATCTGTATCTGGTGAC
1 CTGGTGGCTATGCCACAAATATCTG-ATCTGGTGGCTCTGCCAC-ATATATCTGT-TCTGGTGAC
* * * * *
88885619 TCTGTCA-TATTATCTGTTCTGGCAGC-CATGCTACATATTTCTGT
63 TCTGCCACGATTATCTGATCTGGCAGCTC-TGCCACATATATCTGT
88885663 GGTATGTAGC
Statistics
Matches: 93, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
108 23 0.25
109 54 0.58
110 16 0.17
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.36
Consensus pattern (108 bp):
CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGACTCT
GCCACGATTATCTGATCTGGCAGCTCTGCCACATATATCTGTT
Found at i:88885662 original size:82 final size:81
Alignment explanation
Indices: 88885447--88885662 Score: 258
Period size: 82 Copynumber: 2.7 Consensus size: 81
88885437 AGGAAGCGTC
* * * * **
88885447 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCT
1 CTGGTGACTCTGCCACATATATCTGTTCTGGCAGCTCTGCCACATATATCTGTTCTGGTGGCTCT
88885512 GCCACGATTATCTGAT
66 GCCACGATTATCTGAT
* **
88885528 CTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGAT-TATCTGTATCTGGTGGCT
1 CTGGTGACTCTGCCACATATATCTGTTCTGGCAGCTCTGCCAC-ATATATCTGT-TCTGGTGGCT
88885592 CTGCCACGATTATCTGTAT
64 CTGCCACGATTATCTG-AT
* * * *
88885611 CTGGTGACTCTGTCATAT-TATCTGTTCTGGCAGC-CATGCTACATATTTCTGT
1 CTGGTGACTCTGCCACATATATCTGTTCTGGCAGCTC-TGCCACATATATCTGT
88885663 GGTATGTAGC
Statistics
Matches: 120, Mismatches: 10, Indels: 9
0.86 0.07 0.06
Matches are distributed among these distances:
81 50 0.42
82 53 0.44
83 17 0.14
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.36
Consensus pattern (81 bp):
CTGGTGACTCTGCCACATATATCTGTTCTGGCAGCTCTGCCACATATATCTGTTCTGGTGGCTCT
GCCACGATTATCTGAT
Found at i:88892548 original size:27 final size:27
Alignment explanation
Indices: 88892510--88892651 Score: 189
Period size: 27 Copynumber: 5.3 Consensus size: 27
88892500 TGGAGGAAGC
* *
88892510 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCACAATTATCT
*
88892537 GTTCTGGTGGCTCTGCCACGATTATCT
1 GTTCTGGTGGCTCTGCCACAATTATCT
*
88892564 GATCTGGTGGCTCTGCCAC-ATATATCT
1 GTTCTGGTGGCTCTGCCACAAT-TATCT
*
88892591 GTTCTGGTGGCTCTGCCACGATTATCT
1 GTTCTGGTGGCTCTGCCACAATTATCT
* *
88892618 GTATCTGGTGACTCTGTCAC-ATTATCT
1 GT-TCTGGTGGCTCTGCCACAATTATCT
88892645 GTTCTGG
1 GTTCTGG
88892652 CAGCAATGCT
Statistics
Matches: 105, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
26 7 0.07
27 81 0.77
28 17 0.16
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.37
Consensus pattern (27 bp):
GTTCTGGTGGCTCTGCCACAATTATCT
Found at i:88892594 original size:54 final size:55
Alignment explanation
Indices: 88892512--88892651 Score: 230
Period size: 54 Copynumber: 2.6 Consensus size: 55
88892502 GAGGAAGCGT
* *
88892512 TCTGGTGGCTATGCCACAAATATCTGTTCTGGTGGCTCTGCCACGATTATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
88892566 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
* *
88892621 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
88892652 CAGCAATGCT
Statistics
Matches: 81, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
54 63 0.78
55 18 0.22
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
Found at i:88893905 original size:26 final size:26
Alignment explanation
Indices: 88893876--88893957 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
88893866 TGGTACAAAT
*
88893876 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
88893902 TGATAATGGATTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
88893928 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
88893954 TGAT
1 TGAT
88893958 GGGCATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:88895624 original size:52 final size:54
Alignment explanation
Indices: 88895544--88895685 Score: 236
Period size: 52 Copynumber: 2.7 Consensus size: 54
88895534 TGGAGGAAGC
88895544 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
88895598 -TCCTGGTGG-TATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
88895650 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
88895686 ACTTCGTCAC
Statistics
Matches: 83, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
52 43 0.52
53 23 0.28
54 17 0.20
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.35
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:88895696 original size:27 final size:27
Alignment explanation
Indices: 88895547--88895703 Score: 175
Period size: 27 Copynumber: 5.9 Consensus size: 27
88895537 AGGAAGCGTC
*
88895547 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
*
88895574 CTGGTGGCTCTGCCACATATATCT-T-C
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
*
88895600 CTGGTGG-TATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
88895626 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
88895653 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
88895680 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
88895704 GCAGCCTCGC
Statistics
Matches: 113, Mismatches: 7, Indels: 20
0.81 0.05 0.14
Matches are distributed among these distances:
24 1 0.01
25 13 0.12
26 23 0.20
27 74 0.65
28 2 0.02
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:88901415 original size:27 final size:27
Alignment explanation
Indices: 88901375--88901533 Score: 175
Period size: 27 Copynumber: 5.9 Consensus size: 27
88901365 AGGAAGCGTC
*
88901375 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
88901402 CTGGTGGCTCTGCCAC-ATATATCT-TT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
88901428 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
*
88901456 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
88901483 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * * *
88901510 ATGGTGACTTTGTCACAA-TATCTG
1 CTGGTGGCTCTGCCACAATTATCTG
88901534 GTAGCCTCGC
Statistics
Matches: 114, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
26 11 0.10
27 99 0.87
28 4 0.04
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:88901455 original size:54 final size:55
Alignment explanation
Indices: 88901373--88901533 Score: 240
Period size: 54 Copynumber: 3.0 Consensus size: 55
88901363 GGAGGAAGCG
88901373 TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT-T
1 TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGT
88901427 TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGT
1 TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGT
* * * * *
88901482 T-CTGGTGGCTCTGCCACAA-TATCTGTATATGGTGACTTTGTCACA-ATATCTG
1 TCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTGGCTCTGCCACATATATCTG
88901534 GTAGCCTCGC
Statistics
Matches: 100, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
53 13 0.13
54 85 0.85
55 2 0.02
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.35
Consensus pattern (55 bp):
TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGT
Found at i:88901515 original size:81 final size:80
Alignment explanation
Indices: 88901375--88901533 Score: 207
Period size: 81 Copynumber: 2.0 Consensus size: 80
88901365 AGGAAGCGTC
* *
88901375 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTTTCCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTTTCATGGTGACTAT
88901440 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* *
88901456 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTAT-ATGGTGAC
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCT-T-TCATGGTGAC
* *
88901518 TTTGTCACAATATCTG
63 TATGCCACAATATCTG
88901534 GTAGCCTCGC
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
80 14 0.20
81 54 0.78
82 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.35
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTTTCATGGTGACTAT
GCCACAATATCTGAT
Found at i:88906815 original size:43 final size:44
Alignment explanation
Indices: 88906760--88906843 Score: 143
Period size: 43 Copynumber: 1.9 Consensus size: 44
88906750 TCCTAAAAAA
*
88906760 AAAAAGAGATCAAGGTGAAAACCCGAAAAGGGCATCTTGATAAT
1 AAAAAGAGATCAAGGTGAAAACCCGAAAAAGGCATCTTGATAAT
*
88906804 AAAAAG-GATCAAGGTGAAAACCCGAAAAAGGCGTCTTGAT
1 AAAAAGAGATCAAGGTGAAAACCCGAAAAAGGCATCTTGAT
88906844 TAACACAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 32 0.84
44 6 0.16
ACGTcount: A:0.46, C:0.14, G:0.24, T:0.15
Consensus pattern (44 bp):
AAAAAGAGATCAAGGTGAAAACCCGAAAAAGGCATCTTGATAAT
Found at i:88906868 original size:44 final size:43
Alignment explanation
Indices: 88906760--88906854 Score: 118
Period size: 43 Copynumber: 2.1 Consensus size: 43
88906750 TCCTAAAAAA
* * *
88906760 AAAAAGAGATCAAGGTGAAAACCCGAAAAGGGCATCTTGATAAT
1 AAAAAG-GATCAAGATGAAAACCCGAAAAAGGCATCTTGATAAC
* *
88906804 AAAAAGGATCAAGGTGAAAACCCGAAAAAGGCGTCTTGATTAAC
1 AAAAAGGATCAAGATGAAAACCCGAAAAAGGCATCTTGA-TAAC
88906848 ACAAAAG
1 A-AAAAG
88906855 ATTAGAATGA
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
43 31 0.67
44 10 0.22
45 5 0.11
ACGTcount: A:0.48, C:0.15, G:0.22, T:0.15
Consensus pattern (43 bp):
AAAAAGGATCAAGATGAAAACCCGAAAAAGGCATCTTGATAAC
Found at i:88907795 original size:14 final size:14
Alignment explanation
Indices: 88907776--88907810 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
88907766 TGCTGAGCTG
*
88907776 TTTTCAATTTCTGT
1 TTTTCAATTTATGT
88907790 TTTTCAATTTATGT
1 TTTTCAATTTATGT
88907804 TTTTCAA
1 TTTTCAA
88907811 AAATCAATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.20, C:0.11, G:0.06, T:0.63
Consensus pattern (14 bp):
TTTTCAATTTATGT
Found at i:88907898 original size:74 final size:75
Alignment explanation
Indices: 88907790--88908104 Score: 451
Period size: 73 Copynumber: 4.2 Consensus size: 75
88907780 CAATTTCTGT
* ** *
88907790 TTTTCAATTTATGTTTTTCAAAAATCAATCAACTCATATTGTAAAAGGTGAGTTGAGCCTCAGGT
1 TTTTCAATTTCTGTTTTTCAAAAA--AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT
88907855 CACGCTGAGGTA
64 CACGCTGAGGTA
* *
88907867 TTTTTAATTCCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCA
*
88907931 CGCTAAGGTA
66 CGCTGAGGTA
* *
88907941 TTTTCAATTTCTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCA
88908004 CGCTGAGGTA
66 CGCTGAGGTA
* * *
88908014 TTTTGAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--A
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCA
*
88908077 TGCTGAGGTA
66 CGCTGAGGTA
*
88908087 TTTTCAATTTCTATTTTT
1 TTTTCAATTTCTGTTTTT
88908105 TTTTCAATTT
Statistics
Matches: 216, Mismatches: 20, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
73 93 0.43
74 63 0.29
75 40 0.19
76 4 0.02
77 16 0.07
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (75 bp):
TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCA
CGCTGAGGTA
Found at i:88908110 original size:18 final size:18
Alignment explanation
Indices: 88908087--88908122 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
88908077 TGCTGAGGTA
*
88908087 TTTTCAATTTCTATTTTT
1 TTTTCAATTTATATTTTT
88908105 TTTTCAATTTATATTTTT
1 TTTTCAATTTATATTTTT
88908123 CAAAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTCAATTTATATTTTT
Found at i:88908211 original size:14 final size:13
Alignment explanation
Indices: 88908185--88908220 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
88908175 TGCTGAGGTA
88908185 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
88908198 TTTTGCAAATTCTG
1 TTTT-CAAAATCTG
88908212 TTTTCAAAA
1 TTTTCAAAA
88908221 ATCAACTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.14, G:0.08, T:0.47
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:88908245 original size:88 final size:87
Alignment explanation
Indices: 88908129--88908339 Score: 239
Period size: 88 Copynumber: 2.4 Consensus size: 87
88908119 TTTTCAAAAA
* * *
88908129 AAAAATCAACTCATATTGAGA-GAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTATTTTCAAA
1 AAAAATCAACTCATATTGCGAGGA-GTGAGTTGAGCCTCGGCTCACATGCTGAGCTATTTTCAAA
*
88908193 ATCTGTTTTGCAAAT-TCTGT-TTT
65 ATCTATTTT--AAATATCTGTATTT
* * *
88908216 CAAAAATCAACTCATATTGCGAGGAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
1 -AAAAATCAACTCATATTGCGAGGAGTGAGTTGAGCCTCGGCTCACATGCTGAGCTATTTTCAAA
* *
88908281 TTCTATTTTTAATATCTGTATTT
65 ATCTATTTTAAATATCTGTATTT
* * * *
88908304 AAAGAGTCAATTCATATTGCGAGAAATGAGTTGAGC
1 AAA-AATCAACTCATATTGCGAGGAGTGAGTTGAGC
88908340 TCAAGATCAC
Statistics
Matches: 106, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
86 3 0.03
87 8 0.08
88 93 0.88
89 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (87 bp):
AAAAATCAACTCATATTGCGAGGAGTGAGTTGAGCCTCGGCTCACATGCTGAGCTATTTTCAAAA
TCTATTTTAAATATCTGTATTT
Found at i:88909968 original size:18 final size:18
Alignment explanation
Indices: 88909947--88909981 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
88909937 CTGTTTTTTA
*
88909947 TTATTTATTATTATTATG
1 TTATTTACTATTATTATG
*
88909965 TTATTTACTGTTATTAT
1 TTATTTACTATTATTAT
88909982 TATATTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.66
Consensus pattern (18 bp):
TTATTTACTATTATTATG
Found at i:88910104 original size:18 final size:18
Alignment explanation
Indices: 88910081--88910119 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
88910071 GTTTCAATTA
88910081 ATACTTACGTATATATAT
1 ATACTTACGTATATATAT
* * *
88910099 ATACTTTCTTATATATTT
1 ATACTTACGTATATATAT
88910117 ATA
1 ATA
88910120 GTTTTTTTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.36, C:0.10, G:0.03, T:0.51
Consensus pattern (18 bp):
ATACTTACGTATATATAT
Found at i:88910263 original size:25 final size:24
Alignment explanation
Indices: 88910235--88910296 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 24
88910225 TGTTTATATA
88910235 TATTATTATGTATATATTTTAACAC
1 TATTATTATGTATATATTTT-ACAC
* *
88910260 TATTAGTTA--TATATCTTTTATAC
1 TATTA-TTATGTATATATTTTACAC
88910283 TATT-TTATGTATAT
1 TATTATTATGTATAT
88910297 TTCTAATATC
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
21 3 0.09
23 12 0.38
24 9 0.28
25 5 0.16
26 3 0.09
ACGTcount: A:0.32, C:0.06, G:0.05, T:0.56
Consensus pattern (24 bp):
TATTATTATGTATATATTTTACAC
Found at i:88910314 original size:19 final size:19
Alignment explanation
Indices: 88910290--88910327 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
88910280 TACTATTTTA
*
88910290 TGTATATTTCTAATATCAT
1 TGTATATTTCTAACATCAT
88910309 TGTATATTTCTAACATCAT
1 TGTATATTTCTAACATCAT
88910328 CATTATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.13, G:0.05, T:0.50
Consensus pattern (19 bp):
TGTATATTTCTAACATCAT
Found at i:88914801 original size:2 final size:2
Alignment explanation
Indices: 88914796--88914830 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
88914786 AATCAATTTC
* *
88914796 TA TA TA TA CA TT 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 TA TA T
88914831 TTAAATGTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:88914813 original size:12 final size:12
Alignment explanation
Indices: 88914796--88914833 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
88914786 AATCAATTTC
*
88914796 TATATATACATT
1 TATATATATATT
*
88914808 TATATATATATA
1 TATATATATATT
88914820 TATATATATATT
1 TATATATATATT
88914832 TA
1 TA
88914834 AATGTCATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (12 bp):
TATATATATATT
Found at i:88914813 original size:14 final size:14
Alignment explanation
Indices: 88914791--88914830 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
88914781 ATATGAATCA
*
88914791 ATTTCTATATATAC
1 ATTTATATATATAC
*
88914805 ATTTATATATATAT
1 ATTTATATATATAC
*
88914819 ATATATATATAT
1 ATTTATATATAT
88914831 TTAAATGTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (14 bp):
ATTTATATATATAC
Found at i:88926188 original size:42 final size:42
Alignment explanation
Indices: 88926058--88926257 Score: 252
Period size: 42 Copynumber: 4.8 Consensus size: 42
88926048 TACCATACCA
* * **
88926058 ATGCCATATCCAAGATATGGTCTTACATGGGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCG
*
88926100 ATGCCA-ATTGCCCA-ACTA----ATTACACG-AAGTCTCATATCG
1 ATGCCATA-T-CCCAGA-TATGGTCTTACACGTAA-TCTCATATCG
*
88926139 ATGCCATATCCCAGATATGGTCTTACCCGTAATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCG
88926181 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCG
*
88926223 ATGCCATATCCCAGATATGGTCTTACACTTAATCT
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCT
88926258 TAATAACCCT
Statistics
Matches: 139, Mismatches: 8, Indels: 22
0.82 0.05 0.13
Matches are distributed among these distances:
38 7 0.05
39 24 0.17
40 1 0.01
41 1 0.01
42 99 0.71
43 7 0.05
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCG
Found at i:88932070 original size:50 final size:50
Alignment explanation
Indices: 88931937--88932125 Score: 209
Period size: 50 Copynumber: 3.8 Consensus size: 50
88931927 TAGACAAGGC
* * * * *
88931937 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACGCATGCGACC-AAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAAT
* * * *
88931986 TATCCGGTACATGTAGTAGGCTGCACTTAGTACTACACACGTGACCAAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAAT
* * * * *
88932036 CATTTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAAAT
* * *
88932087 TATCTGGTACACATAGTAGCCTGCACTTAATACTGCACA
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
88932126 TGCGACCTCA
Statistics
Matches: 114, Mismatches: 24, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
49 38 0.33
50 40 0.35
51 36 0.32
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.26
Consensus pattern (50 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAAT
Found at i:88932409 original size:27 final size:27
Alignment explanation
Indices: 88932379--88932432 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
88932369 TCATACAACC
* *
88932379 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
88932406 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
88932433 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:88937098 original size:5 final size:5
Alignment explanation
Indices: 88937088--88937124 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
88937078 CTGTGTGTTC
88937088 TTTAT TTTA- TTT-T TTTATT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTA-T TTTAT TTTAT TTTAT TTT
88937125 TCACAAAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
4 6 0.21
5 18 0.62
6 5 0.17
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (5 bp):
TTTAT
Found at i:88941507 original size:15 final size:15
Alignment explanation
Indices: 88941487--88941517 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
88941477 CTCTGCCCGT
88941487 GATTTTTTCCCGAAA
1 GATTTTTTCCCGAAA
88941502 GATTTTTTCCCGAAA
1 GATTTTTTCCCGAAA
88941517 G
1 G
88941518 GGTTTCCACG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (15 bp):
GATTTTTTCCCGAAA
Found at i:88959314 original size:9 final size:9
Alignment explanation
Indices: 88959290--88959342 Score: 70
Period size: 9 Copynumber: 5.8 Consensus size: 9
88959280 AAGCATTAAC
*
88959290 AAACACAATA
1 AAACAC-ATT
88959300 AAACACATT
1 AAACACATT
88959309 AAACACATT
1 AAACACATT
88959318 AAACACATT
1 AAACACATT
* *
88959327 AAATACTTT
1 AAACACATT
88959336 AAACACA
1 AAACACA
88959343 AGAAACTTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
9 32 0.84
10 6 0.16
ACGTcount: A:0.58, C:0.21, G:0.00, T:0.21
Consensus pattern (9 bp):
AAACACATT
Found at i:88959431 original size:34 final size:34
Alignment explanation
Indices: 88959393--88959479 Score: 86
Period size: 34 Copynumber: 2.6 Consensus size: 34
88959383 TAACAATAAA
*
88959393 TTATTCCAGCAATTAAATTAACTAAGAT-AAGTAT
1 TTATTCCAGCAACTAAATTAACTAAGATGAA-TAT
* * * *
88959427 TTATTCTAACAACTCAATTAACTAAGTTGAATAT
1 TTATTCCAGCAACTAAATTAACTAAGATGAATAT
* * *
88959461 TGATTCCAGTAACTTAATT
1 TTATTCCAGCAACTAAATT
88959480 TGATAACTAA
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
34 40 0.95
35 2 0.05
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.38
Consensus pattern (34 bp):
TTATTCCAGCAACTAAATTAACTAAGATGAATAT
Found at i:88960810 original size:13 final size:13
Alignment explanation
Indices: 88960789--88960820 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
88960779 ACAACCCTTA
*
88960789 TAATAATCGTAAT
1 TAATTATCGTAAT
88960802 TAATTATCGTAAT
1 TAATTATCGTAAT
88960815 TAATTA
1 TAATTA
88960821 ATTTATCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (13 bp):
TAATTATCGTAAT
Found at i:88961621 original size:6 final size:6
Alignment explanation
Indices: 88961610--88961648 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
88961600 TGATAATAAA
* *
88961610 TTTTAT TTTTAT TTTTAT TTTTAT TAATTAT TTATAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT T-TTTAT TTTTAT TT
88961649 AGTTATATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
6 24 0.83
7 5 0.17
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTAT
Found at i:88961806 original size:22 final size:22
Alignment explanation
Indices: 88961781--88961824 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
88961771 TAGTTATATA
88961781 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
88961803 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
88961825 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:88961860 original size:13 final size:14
Alignment explanation
Indices: 88961844--88961885 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
88961834 TTTAAATTTT
88961844 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
88961857 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
88961872 ATTTTAAATAATAT
1 ATTTT-AATAATAT
88961886 TATTCACACA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:88961870 original size:16 final size:16
Alignment explanation
Indices: 88961848--88961884 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
88961838 AATTTTATTT
88961848 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
88961865 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
88961880 TAATA
1 TAATA
88961885 TTATTCACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:88961961 original size:34 final size:32
Alignment explanation
Indices: 88961905--88961970 Score: 96
Period size: 34 Copynumber: 2.0 Consensus size: 32
88961895 ATTATTAAAA
* *
88961905 ATATTCAATATTAATATTTTAATAATAAATAT
1 ATATTCAATATAAATATATTAATAATAAATAT
88961937 ATATTACAATTATAAATATATTAATAATAAATAT
1 ATATT-CAA-TATAAATATATTAATAATAAATAT
88961971 TTTGTAGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 5 0.17
33 3 0.10
34 22 0.73
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (32 bp):
ATATTCAATATAAATATATTAATAATAAATAT
Found at i:88961966 original size:15 final size:15
Alignment explanation
Indices: 88961917--88961970 Score: 54
Period size: 17 Copynumber: 3.3 Consensus size: 15
88961907 ATTCAATATT
*
88961917 AATATTTTAATAATAA
1 AATATATTAATAAT-A
*
88961933 ATATATATTACAATTATA
1 A-ATATATT--AATAATA
88961951 AATATATTAATAATA
1 AATATATTAATAATA
88961966 AATAT
1 AATAT
88961971 TTTGTAGTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
15 11 0.34
16 1 0.03
17 13 0.41
18 2 0.06
19 5 0.16
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (15 bp):
AATATATTAATAATA
Found at i:88978365 original size:44 final size:45
Alignment explanation
Indices: 88978294--88978423 Score: 158
Period size: 44 Copynumber: 2.9 Consensus size: 45
88978284 GTCATCATGA
* *
88978294 CGAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGCCA-
1 CGAATCTTATCTCCCTGAAGTTACAGTGAAGCAGATTGAAGACAG
* * * *
88978338 C-AAGTCTTATCTCCCTGAAGTTCCAGTGGAGCAGATTAAAGATAG
1 CGAA-TCTTATCTCCCTGAAGTTACAGTGAAGCAGATTGAAGACAG
*
88978383 CGAATCTTATTTCCCTGAAGTTACAGTGGAA-CAGATTGAAG
1 CGAATCTTATCTCCCTGAAGTTACAGT-GAAGCAGATTGAAG
88978424 TTACAAATGA
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
43 2 0.03
44 36 0.49
45 31 0.42
46 4 0.05
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (45 bp):
CGAATCTTATCTCCCTGAAGTTACAGTGAAGCAGATTGAAGACAG
Found at i:88980347 original size:2 final size:2
Alignment explanation
Indices: 88980340--88980412 Score: 83
Period size: 2 Copynumber: 36.5 Consensus size: 2
88980330 ATTATAATTT
* * * ** * *
88980340 TA TA TA TA TA TA TA TA TA TA TA TA TA TT TG TT TA CC TA AA TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
88980382 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
88980413 CTTATTTTTA
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (2 bp):
TA
Found at i:88984405 original size:2 final size:2
Alignment explanation
Indices: 88984398--88984431 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
88984388 ATACATGTAC
88984398 AT AT AT 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 AT AT AT
88984432 CCGCGTGATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:88986199 original size:39 final size:39
Alignment explanation
Indices: 88986145--88986224 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
88986135 CAACAGATAA
88986145 CAAAATCCCTCTACTTGAACTACTTGGTCAGGTTTAGTG
1 CAAAATCCCTCTACTTGAACTACTTGGTCAGGTTTAGTG
88986184 CAAAATCCCTCTACTTGAACTACTTGGTCAGGTTTAGTG
1 CAAAATCCCTCTACTTGAACTACTTGGTCAGGTTTAGTG
88986223 CA
1 CA
88986225 TGGGAGGTCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (39 bp):
CAAAATCCCTCTACTTGAACTACTTGGTCAGGTTTAGTG
Found at i:88987278 original size:16 final size:16
Alignment explanation
Indices: 88987257--88987303 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
88987247 GAAAAATTAT
88987257 ATTTTCTATTATTCTA
1 ATTTTCTATTATTCTA
*
88987273 ATTTTCTATCACTT-TA
1 ATTTTCTATTA-TTCTA
* *
88987289 ATTTTTTATTTTTCT
1 ATTTTCTATTATTCT
88987304 TTTTTATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 2 0.08
16 21 0.84
17 2 0.08
ACGTcount: A:0.21, C:0.13, G:0.00, T:0.66
Consensus pattern (16 bp):
ATTTTCTATTATTCTA
Found at i:88987308 original size:13 final size:13
Alignment explanation
Indices: 88987290--88987315 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
88987280 ATCACTTTAA
88987290 TTTTTTATTTTTC
1 TTTTTTATTTTTC
88987303 TTTTTTATTTTTC
1 TTTTTTATTTTTC
88987316 ACTTTACCGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTTATTTTTC
Found at i:88987567 original size:19 final size:20
Alignment explanation
Indices: 88987537--88987582 Score: 67
Period size: 19 Copynumber: 2.3 Consensus size: 20
88987527 AAATTCGAGG
*
88987537 TTTAAGATTTAGGGTTCGA-A
1 TTTAA-ATTTAGGGTTCAAGA
88987557 TTTAAATTTAGGGTTCAAGA
1 TTTAAATTTAGGGTTCAAGA
88987577 TTTAAA
1 TTTAAA
88987583 GTTTGGGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.35, C:0.04, G:0.20, T:0.41
Consensus pattern (20 bp):
TTTAAATTTAGGGTTCAAGA
Found at i:88988283 original size:168 final size:167
Alignment explanation
Indices: 88987997--88988316 Score: 387
Period size: 168 Copynumber: 1.9 Consensus size: 167
88987987 TATTTAAAAA
* ** *
88987997 AAATTCTTTTTTTAAAAAAAATTAAACAATAGCGAAAACAAATCCAACTATTGGTTCGCACATCA
1 AAATTATTTTTTTAAAAAAAATTAAACAATAGAAAAAACAAATCCAACTATCGGTTCGCACATCA
* *
88988062 ACCGATACAACTCTTTATTCTACATAGATACCTCGACCGACCGAATTTTGAATTAACTTTATTTT
66 ACAGATACAACTCTTTATTCTACATAGATACCTCGACCAACCGAATTTTGAATTAACTTTATTTT
* * *
88988127 TTAGAATGTTTTATTATCTTTTTTAATTAAATTGAAT
131 GTAGAATGTATTATTATATTTTTTAATTAAATTGAAT
* * * * * *
88988164 AAATTATTATTTTTAAAAAAATTTAAACAATAGAAAAAATC-AATTCAATTGTCGGTTTGCACGT
1 AAATTATT-TTTTTAAAAAAAATTAAACAATAGAAAAAA-CAAATCCAACTATCGGTTCGCACAT
* * * **
88988228 CAACAGATCCAAC-CTTTTATTCTGGAC-TAG-TATCTCGACCAACCGATTTTTGAATTATTTTT
64 CAACAGATACAACTC-TTTATTCT--ACATAGATACCTCGACCAACCGAATTTTGAATTAACTTT
88988290 ATTTTGTAGAATGTATTATTATATTTT
126 ATTTTGTAGAATGTATTATTATATTTT
88988317 ATTCTTTATA
Statistics
Matches: 128, Mismatches: 20, Indels: 9
0.82 0.13 0.06
Matches are distributed among these distances:
167 8 0.06
168 114 0.89
169 4 0.03
170 2 0.02
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (167 bp):
AAATTATTTTTTTAAAAAAAATTAAACAATAGAAAAAACAAATCCAACTATCGGTTCGCACATCA
ACAGATACAACTCTTTATTCTACATAGATACCTCGACCAACCGAATTTTGAATTAACTTTATTTT
GTAGAATGTATTATTATATTTTTTAATTAAATTGAAT
Found at i:88988409 original size:16 final size:18
Alignment explanation
Indices: 88988370--88988410 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
88988360 TAATTTAATA
*
88988370 ATTTTTTATATTTTCTAT
1 ATTTTTTATATGTTCTAT
*
88988388 AATTTTTAT-TGTTCT-T
1 ATTTTTTATATGTTCTAT
88988404 ATTTTTT
1 ATTTTTT
88988411 TGAATATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
16 7 0.35
17 5 0.25
18 8 0.40
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (18 bp):
ATTTTTTATATGTTCTAT
Found at i:88988536 original size:18 final size:18
Alignment explanation
Indices: 88988513--88988547 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
88988503 AAATTTATAG
* *
88988513 TTTATATTTTTTTGAATT
1 TTTATATATTTTGGAATT
88988531 TTTATATATTTTGGAAT
1 TTTATATATTTTGGAAT
88988548 AATTATGTAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.66
Consensus pattern (18 bp):
TTTATATATTTTGGAATT
Found at i:88988608 original size:14 final size:14
Alignment explanation
Indices: 88988589--88988615 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
88988579 TATTCTAAAA
88988589 AATTTCAATTTTTG
1 AATTTCAATTTTTG
88988603 AATTTCAATTTTT
1 AATTTCAATTTTT
88988616 TTATAATTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.59
Consensus pattern (14 bp):
AATTTCAATTTTTG
Found at i:88989165 original size:8 final size:8
Alignment explanation
Indices: 88989152--88989194 Score: 77
Period size: 8 Copynumber: 5.4 Consensus size: 8
88989142 CGAAGGAAAG
*
88989152 AAAATTAA
1 AAAATTGA
88989160 AAAATTGA
1 AAAATTGA
88989168 AAAATTGA
1 AAAATTGA
88989176 AAAATTGA
1 AAAATTGA
88989184 AAAATTGA
1 AAAATTGA
88989192 AAA
1 AAA
88989195 GGTGGAAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 34 1.00
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.23
Consensus pattern (8 bp):
AAAATTGA
Found at i:88989203 original size:16 final size:16
Alignment explanation
Indices: 88989152--88989205 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
88989142 CGAAGGAAAG
* *
88989152 AAAATTAAAAAATTGA
1 AAAATTGAAAAAGTGA
*
88989168 AAAATTGAAAAATTGA
1 AAAATTGAAAAAGTGA
* *
88989184 AAAATTGAAAAGGTGG
1 AAAATTGAAAAAGTGA
88989200 AAAATT
1 AAAATT
88989206 AGAAGGATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.61, C:0.00, G:0.15, T:0.24
Consensus pattern (16 bp):
AAAATTGAAAAAGTGA
Found at i:88989203 original size:24 final size:24
Alignment explanation
Indices: 88989151--88989206 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
88989141 ACGAAGGAAA
*
88989151 GAAAATTAAAAAATTGAAAAATTG
1 GAAAATTAAAAAATTGAAAAAGTG
* * *
88989175 AAAAATTGAAAAATTGAAAAGGTG
1 GAAAATTAAAAAATTGAAAAAGTG
88989199 GAAAATTA
1 GAAAATTA
88989207 GAAGGATGAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.61, C:0.00, G:0.16, T:0.23
Consensus pattern (24 bp):
GAAAATTAAAAAATTGAAAAAGTG
Found at i:88989219 original size:16 final size:16
Alignment explanation
Indices: 88989165--88989220 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 16
88989155 ATTAAAAAAT
**
88989165 TGAAAAATTGAAAAAT
1 TGAAAAATTGAAAAGG
88989181 TGAAAAATTGAAAAGG
1 TGAAAAATTGAAAAGG
* *
88989197 TGGAAAATT-AGAAGG
1 TGAAAAATTGAAAAGG
88989212 ATGAAAAAT
1 -TGAAAAAT
88989221 ATAAATTTTC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
15 5 0.15
16 29 0.85
ACGTcount: A:0.57, C:0.00, G:0.21, T:0.21
Consensus pattern (16 bp):
TGAAAAATTGAAAAGG
Done.