Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 152 of 335
Found at i:44667071 original size:97 final size:96
Alignment explanation
Indices: 44666902--44667077 Score: 246
Period size: 97 Copynumber: 1.8 Consensus size: 96
44666892 GGTACGATGT
* * * *
44666902 CGATGCCATGTTCCAAACATGGTCTTACACTGACTCTCACATCTAAGTCAATGCCATGTACCAGA
1 CGATGCCATGTCCCAAACATGCTCTTACACTGACTCTCACATATAAGTCAATGCCATGTACCAAA
44666967 CAGGTCTTACACTGACTTCCACACATTAGGC
66 CAGGTCTTACACTGACTTCCACACATTAGGC
* ** * *
44666998 CGATGCCATGTCCCAAACA-GCTCTTACACTGGCTCTCACTTATATTTGTCGATGCCATGTCCCA
1 CGATGCCATGTCCCAAACATGCTCTTACACTGACTCTCAC--ATATAAGTCAATGCCATGTACCA
44667062 AACAGGTCTTACACTG
64 AACAGGTCTTACACTG
44667078 GCTCTCACTT
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
95 18 0.26
96 18 0.26
97 33 0.48
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (96 bp):
CGATGCCATGTCCCAAACATGCTCTTACACTGACTCTCACATATAAGTCAATGCCATGTACCAAA
CAGGTCTTACACTGACTTCCACACATTAGGC
Found at i:44667173 original size:147 final size:142
Alignment explanation
Indices: 44666899--44667223 Score: 375
Period size: 147 Copynumber: 2.2 Consensus size: 142
44666889 TAGGGTACGA
* *
44666899 TGTCGATGCCATGTTCCAAACATGGTCTTACACTGACTCTCACATCTAAGTCAATGCCATGTACC
1 TGTCGATGCCATGTCCCAAACA-GGTCTTACACTGACTCTCACATATAAGTCAATGCCATGTACC
*
44666964 AGACAGGTCTTACACTGACTTCCACACATTAGGCCGATGCCATGTCCCAAACAGCTCTTACACTG
65 AGACAGGACTTACACTGACTTCCACACATTAGGCCGATGCCATGTCCCAAACAGCTCTTACACTG
*
44667029 GCTCTCACTTATATT
130 GCTCTCA--TATATC
* ** * *
44667044 TGTCGATGCCATGTCCCAAACAGGTCTTACACTGGCTCTCACTTATATTTGTCGATGCCATGTCC
1 TGTCGATGCCATGTCCCAAACAGGTCTTACACTGACTCTCAC--ATATAAGTCAATGCCATGTAC
* * * * * *
44667109 CAGACAGGACTTACACT-AGCTTGCATATC-TTGAGGCCGATGCCGTGTCCCAGATAGGTCTTAC
64 CAGACAGGACTTACACTGA-CTTCCACA-CATT-AGGCCGATGCCATGTCCCAAACAGCTCTTAC
*
44667172 ACTGGCTCTCATCTATC
126 ACTGGCTCTCATATATC
* * *
44667189 GGTGCTGATGCCATGTCCCAGATAGGTCTTACACT
1 TGT-C-GATGCCATGTCCCAAACAGGTCTTACACT
44667224 AGCACACACA
Statistics
Matches: 154, Mismatches: 19, Indels: 12
0.83 0.10 0.06
Matches are distributed among these distances:
144 19 0.12
145 28 0.18
146 41 0.27
147 66 0.43
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.29
Consensus pattern (142 bp):
TGTCGATGCCATGTCCCAAACAGGTCTTACACTGACTCTCACATATAAGTCAATGCCATGTACCA
GACAGGACTTACACTGACTTCCACACATTAGGCCGATGCCATGTCCCAAACAGCTCTTACACTGG
CTCTCATATATC
Found at i:44669266 original size:20 final size:21
Alignment explanation
Indices: 44669241--44669282 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
44669231 AATATGCTGT
*
44669241 AAAATGAAAG-TTTTTGATAG
1 AAAATGAAAGATTATTGATAG
44669261 AAAATGAAAGATTATTGATAG
1 AAAATGAAAGATTATTGATAG
44669282 A
1 A
44669283 TAAACCACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.50, C:0.00, G:0.19, T:0.31
Consensus pattern (21 bp):
AAAATGAAAGATTATTGATAG
Found at i:44670066 original size:33 final size:33
Alignment explanation
Indices: 44669963--44670078 Score: 110
Period size: 33 Copynumber: 3.5 Consensus size: 33
44669953 ACCCAAAATG
* ** * * *
44669963 GTACAACTTGAAAAGGTTATGTACACTTTTTGT
1 GTACCACTTGAAAAGGAAAGGTATACTTTGTGT
** *
44669996 GTA-CACTTGAAAAGGTTAGGTATACTTTGTAT
1 GTACCACTTGAAAAGGAAAGGTATACTTTGTGT
*
44670028 ATACCA-TATGAAAAGGAAAGGTATACTTTGTGT
1 GTACCACT-TGAAAAGGAAAGGTATACTTTGTGT
*
44670061 GTACCACTTGGAAAGGAA
1 GTACCACTTGAAAAGGAA
44670079 TGCACACCTC
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
32 27 0.39
33 41 0.59
34 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.22, T:0.33
Consensus pattern (33 bp):
GTACCACTTGAAAAGGAAAGGTATACTTTGTGT
Found at i:44671043 original size:13 final size:13
Alignment explanation
Indices: 44671022--44671051 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
44671012 CAGAACTGCC
*
44671022 CACGGGCTGGCCA
1 CACGAGCTGGCCA
44671035 CACGAGCTGGCCA
1 CACGAGCTGGCCA
44671048 CACG
1 CACG
44671052 GGTGTGTGCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.20, C:0.40, G:0.33, T:0.07
Consensus pattern (13 bp):
CACGAGCTGGCCA
Found at i:44677618 original size:49 final size:48
Alignment explanation
Indices: 44677356--44677674 Score: 164
Period size: 49 Copynumber: 6.6 Consensus size: 48
44677346 TGCCGATGCC
* * * **
44677356 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCT-CAAATC-TAAGTTA
1 GATGCCATG-TCCCAACA-GGTCTTACACTAGCT-TGCATATCTTGAGGCA
* * * * *
44677405 -ATGTCATGTCCTAGACAGGTCTTACACT-GACTTCCATA-CGTCGAGGCT
1 GATGCCATGTCCCA-ACAGGTCTTACACTAG-CTTGCATATC-TTGAGGCA
* * *
44677453 GATGCCATGTCTCAGACAGGTCTTACACTGGCTCT-CACTTATC-T-ATGTC-
1 GATGCCATGTCCCA-ACAGGTCTTACACTAGCT-TGCA--TATCTTGA-GGCA
* * * *
44677502 GATGCCATGTCCCAGACAGGTCTTACACTA----GCACACCTTAAGCCA
1 GATGCCATGTCCCA-ACAGGTCTTACACTAGCTTGCATATCTTGAGGCA
*
44677547 -ATGCCATGTCCCAATCATGTCTTACACTAGCTTGCATATCTTGAGGCA
1 GATGCCATGTCCCAA-CAGGTCTTACACTAGCTTGCATATCTTGAGGCA
* * * * * * *
44677595 GATGCCGTGTCCCATACAGGTCTTACACTGGCTCT-CATCTATCGATGCT
1 GATGCCATGTCCCA-ACAGGTCTTACACTAGCT-TGCATATCTTGAGGCA
44677644 GATGCCATGTCCCAAACAGGTCTTACACTAG
1 GATGCCATGTCCC-AACAGGTCTTACACTAG
44677675 AACACACATC
Statistics
Matches: 212, Mismatches: 33, Indels: 50
0.72 0.11 0.17
Matches are distributed among these distances:
43 3 0.01
44 29 0.14
45 3 0.01
46 3 0.01
47 20 0.09
48 23 0.11
49 121 0.57
50 7 0.03
51 2 0.01
52 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.29
Consensus pattern (48 bp):
GATGCCATGTCCCAACAGGTCTTACACTAGCTTGCATATCTTGAGGCA
Found at i:44678725 original size:180 final size:178
Alignment explanation
Indices: 44678407--44678765 Score: 655
Period size: 180 Copynumber: 2.0 Consensus size: 178
44678397 ACCACCAAAA
* *
44678407 TCACTTACTTGCAAGGGTGAAGGGTTGCTAAAATTTCAAGCTTTCAAAACCCTTATTTTGCTAAA
1 TCACTTACTTGCAAGGGTGAAGAGTTGCTAAAATTTCAAGCTTCCAAAACCCTTATTTTGCTAAA
*
44678472 AATTGGTGGACAGGAGGAAAATGAAAGGTGATATCCTTTTCTCTTTATTTTATTTTATTTCAAGT
66 AATTGGTGGACAGAAGGAAAATGAAAGGTGATATCCTTTTCTCTTTATTTTATTTTATTTCAAGT
44678537 CAAATTAGTCACCAAATTTCAGCTAACCTTTGACCATTTCATTTTCTT
131 CAAATTAGTCACCAAATTTCAGCTAACCTTTGACCATTTCATTTTCTT
*
44678585 TCACTTACTTGCAAGGGTGAAGAGTTGCTGAAATTTCAAGCTTCCAAAACCCTTATTTTGCTAAA
1 TCACTTACTTGCAAGGGTGAAGAGTTGCTAAAATTTCAAGCTTCCAAAACCCTTATTTTGCTAAA
*
44678650 AATTTCGGTGGAGAGAAGGAAAATGAAAGGTGATATCCTTTTCTCTTTATTTTATTTTATTTCAA
66 AA-TT-GGTGGACAGAAGGAAAATGAAAGGTGATATCCTTTTCTCTTTATTTTATTTTATTTCAA
44678715 GTCAAATTAGTCACCAAATTTCAGCTAACCTTTGACCATTTCATTTTCTT
129 GTCAAATTAGTCACCAAATTTCAGCTAACCTTTGACCATTTCATTTTCTT
44678765 T
1 T
44678766 ATCTCTATGG
Statistics
Matches: 174, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
178 64 0.37
179 2 0.01
180 108 0.62
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (178 bp):
TCACTTACTTGCAAGGGTGAAGAGTTGCTAAAATTTCAAGCTTCCAAAACCCTTATTTTGCTAAA
AATTGGTGGACAGAAGGAAAATGAAAGGTGATATCCTTTTCTCTTTATTTTATTTTATTTCAAGT
CAAATTAGTCACCAAATTTCAGCTAACCTTTGACCATTTCATTTTCTT
Found at i:44683841 original size:10 final size:9
Alignment explanation
Indices: 44683805--44683925 Score: 74
Period size: 9 Copynumber: 13.4 Consensus size: 9
44683795 ATTTTATTTG
44683805 AAAATTA-A
1 AAAATTATA
44683813 AATAATTATA
1 AA-AATTATA
*
44683823 TAAATTTATA
1 -AAAATTATA
44683833 AAAACTTATA
1 AAAA-TTATA
*
44683843 AAAATTCTAAA
1 AAAA-T-TATA
*
44683854 AAAATTCTA
1 AAAATTATA
44683863 ATAAATTATA
1 A-AAATTATA
44683873 AAAA-TATA
1 AAAATTATA
*
44683881 AATATTA-A
1 AAAATTATA
44683889 AAAA--ATA
1 AAAATTATA
* *
44683896 TAAATTATT
1 AAAATTATA
*
44683905 AATA-TATA
1 AAAATTATA
*
44683913 TAAATTATA
1 AAAATTATA
44683922 AAAA
1 AAAA
44683926 AATCATTTAT
Statistics
Matches: 85, Mismatches: 17, Indels: 21
0.69 0.14 0.17
Matches are distributed among these distances:
6 1 0.01
7 4 0.05
8 18 0.21
9 27 0.32
10 26 0.31
11 9 0.11
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (9 bp):
AAAATTATA
Found at i:44683847 original size:20 final size:20
Alignment explanation
Indices: 44683810--44683899 Score: 68
Period size: 20 Copynumber: 4.7 Consensus size: 20
44683800 ATTTGAAAAT
*
44683810 TAAAATAATTATATAAATTTA
1 TAAAA-AATTATAAAAATTTA
*
44683831 TAAAAACTTATAAAAATTCTA
1 TAAAAAATTATAAAAATT-TA
*
44683852 -AAAAAATTCTAATAAA-TTA
1 TAAAAAATTATAA-AAATTTA
*
44683871 T-AAAAA-TATAAATA-TTA
1 TAAAAAATTATAAAAATTTA
44683888 -AAAAAA-TATAAA
1 TAAAAAATTATAAA
44683900 TTATTAATAT
Statistics
Matches: 59, Mismatches: 6, Indels: 12
0.77 0.08 0.16
Matches are distributed among these distances:
17 16 0.27
18 4 0.07
19 7 0.12
20 22 0.37
21 10 0.17
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (20 bp):
TAAAAAATTATAAAAATTTA
Found at i:44683847 original size:38 final size:35
Alignment explanation
Indices: 44683805--44683925 Score: 97
Period size: 32 Copynumber: 3.3 Consensus size: 35
44683795 ATTTTATTTG
44683805 AAAATTAAAATAATTATATAAATTTATAAAAACTTATA
1 AAAATTAAAA-AATTATATAAATTTATAAAAA--TATA
*
44683843 AAAATTCTAAAAAAATTCTAATAAA-TTATAAAAATATA
1 AAAA-T-T-AAAAAATTAT-ATAAATTTATAAAAATATA
* * *
44683881 AATATTAAAAAA--ATATAAA-TTATTAATATATA
1 AAAATTAAAAAATTATATAAATTTATAAAAATATA
*
44683913 TAAATTATAAAAA
1 AAAATTA-AAAAA
44683926 AATCATTTAT
Statistics
Matches: 71, Mismatches: 7, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
32 21 0.30
33 6 0.08
35 6 0.08
36 1 0.01
37 1 0.01
38 11 0.15
39 1 0.01
40 15 0.21
41 9 0.13
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (35 bp):
AAAATTAAAAAATTATATAAATTTATAAAAATATA
Found at i:44683893 original size:18 final size:18
Alignment explanation
Indices: 44683867--44683928 Score: 76
Period size: 17 Copynumber: 3.6 Consensus size: 18
44683857 ATTCTAATAA
*
44683867 ATTATAAAAATATAAA-T
1 ATTAAAAAAATATAAATT
44683884 ATTAAAAAAATATAAATT
1 ATTAAAAAAATATAAATT
* *
44683902 ATT-AATATATATAAATT
1 ATTAAAAAAATATAAATT
44683919 A-TAAAAAAAT
1 ATTAAAAAAAT
44683929 CATTTATTGA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
16 1 0.03
17 33 0.87
18 4 0.11
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
ATTAAAAAAATATAAATT
Found at i:44684390 original size:11 final size:10
Alignment explanation
Indices: 44684365--44684406 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
44684355 AATTTATTAG
*
44684365 AATTTCTATA
1 AATTTTTATA
44684375 AATTTTTATGA
1 AATTTTTAT-A
44684386 AATTTTTA-A
1 AATTTTTATA
44684395 TAATTTTTATA
1 -AATTTTTATA
44684406 A
1 A
44684407 GTTCATATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
9 1 0.04
10 17 0.61
11 10 0.36
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (10 bp):
AATTTTTATA
Found at i:44684390 original size:21 final size:21
Alignment explanation
Indices: 44684353--44684404 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
44684343 GATAAATTTG
44684353 ATAATTTATTA-G-AATTTCT-
1 ATAATTT-TTATGAAATTTCTA
*
44684372 ATAAATTTTTATGAAATTTTTA
1 AT-AATTTTTATGAAATTTCTA
44684394 ATAATTTTTAT
1 ATAATTTTTAT
44684405 AAGTTCATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
19 5 0.18
20 6 0.21
21 15 0.54
22 2 0.07
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (21 bp):
ATAATTTTTATGAAATTTCTA
Found at i:44684495 original size:22 final size:23
Alignment explanation
Indices: 44684443--44684496 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
44684433 AATATGTTTA
* *
44684443 ATATAA-AAAAACTTATAAACAT
1 ATATAATAAAAACCTATAAAAAT
* *
44684465 ATATTATAAAAACCTGTAAAAAT
1 ATATAATAAAAACCTATAAAAAT
44684488 -TATAATAAA
1 ATATAATAAA
44684497 TTATAAATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 13 0.50
23 13 0.50
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (23 bp):
ATATAATAAAAACCTATAAAAAT
Found at i:44690667 original size:22 final size:22
Alignment explanation
Indices: 44690620--44690667 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
44690610 GAAGCAAAGG
*
44690620 GACAAAGGCGTGCCAACAAGCC
1 GACAAAGGCGTGCCAACAAGCA
*
44690642 GACAAAGGCGTGCCAACAGGCA
1 GACAAAGGCGTGCCAACAAGCA
44690664 GACA
1 GACA
44690668 GGAATAAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.38, C:0.29, G:0.29, T:0.04
Consensus pattern (22 bp):
GACAAAGGCGTGCCAACAAGCA
Found at i:44695153 original size:17 final size:17
Alignment explanation
Indices: 44695131--44695174 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
44695121 GGTCATTTAG
44695131 AGGCCAGATGTTGGTTC
1 AGGCCAGATGTTGGTTC
44695148 AGGCCAGATGTTGGTTC
1 AGGCCAGATGTTGGTTC
44695165 AGGCCAGATG
1 AGGCCAGATG
44695175 CTGTGTGCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.20, C:0.18, G:0.36, T:0.25
Consensus pattern (17 bp):
AGGCCAGATGTTGGTTC
Found at i:44697414 original size:40 final size:40
Alignment explanation
Indices: 44697334--44697414 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
44697324 CAAGCACGTG
* * * * **
44697334 AAAATTAATACACTTATGTTATCCGGGTAAAGTATGTGCA
1 AAAATTAATACACATAAGTTACCCGGGTAAAATACATGCA
*
44697374 AAAATTCATACACATAAGTTACCCGGGTAAAATACATGCA
1 AAAATTAATACACATAAGTTACCCGGGTAAAATACATGCA
44697414 A
1 A
44697415 CAAGAGATGT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (40 bp):
AAAATTAATACACATAAGTTACCCGGGTAAAATACATGCA
Found at i:44701119 original size:3 final size:3
Alignment explanation
Indices: 44701111--44701151 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
44701101 GAAATGTTGA
* *
44701111 ATT ATT ATT ATT ATT ATT ATT ACT ACT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
44701152 AATATATGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:44702645 original size:34 final size:35
Alignment explanation
Indices: 44702539--44702681 Score: 164
Period size: 35 Copynumber: 4.1 Consensus size: 35
44702529 ATGCCTTAAT
*
44702539 TAAAGGCAACCTTAAAAAGGTTGGGATAGACCCGTC
1 TAAA-GCAACCTTAAAAAGGTTGGGATAGACACGTC
* * *
44702575 T-AAGACAATCTTAAAAAGGTTGGGATATACTCGTC
1 TAAAG-CAACCTTAAAAAGGTTGGGATAGACACGTC
* *
44702610 TAAAGCAACCTTAAAAA-GTTAGGATAGACAAGTC
1 TAAAGCAACCTTAAAAAGGTTGGGATAGACACGTC
* * * *
44702644 TAAGGCAACCTCAAAAAGTTTGGGATAGACACATC
1 TAAAGCAACCTTAAAAAGGTTGGGATAGACACGTC
44702679 TAA
1 TAA
44702682 TAGGGTAGAT
Statistics
Matches: 90, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
34 29 0.32
35 57 0.63
36 4 0.04
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (35 bp):
TAAAGCAACCTTAAAAAGGTTGGGATAGACACGTC
Found at i:44702646 original size:69 final size:71
Alignment explanation
Indices: 44702539--44702670 Score: 187
Period size: 69 Copynumber: 1.9 Consensus size: 71
44702529 ATGCCTTAAT
* ** * *
44702539 TAAAGGCAACCTTAAAAAGGTTGGGATAGACCCGTCTAAGACAATCTTAAAAAGGTTGGGATATA
1 TAAAGGCAACCTTAAAAAGGTTAGGATAGACAAGTCTAAGACAACCTCAAAAAGGTTGGGATATA
44702604 CTCGTC
66 CTCGTC
* *
44702610 TAAA-GCAACCTTAAAAA-GTTAGGATAGACAAGTCTAAGGCAACCTCAAAAAGTTTGGGATA
1 TAAAGGCAACCTTAAAAAGGTTAGGATAGACAAGTCTAAGACAACCTCAAAAAGGTTGGGATA
44702671 GACACATCTA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
69 37 0.69
70 13 0.24
71 4 0.07
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (71 bp):
TAAAGGCAACCTTAAAAAGGTTAGGATAGACAAGTCTAAGACAACCTCAAAAAGGTTGGGATATA
CTCGTC
Found at i:44704009 original size:7 final size:7
Alignment explanation
Indices: 44703997--44704031 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
44703987 ATCTTGTCTT
44703997 CCATCCC
1 CCATCCC
44704004 CCAT-CC
1 CCATCCC
44704010 CCAT-CC
1 CCATCCC
44704016 CCATCCC
1 CCATCCC
44704023 CCATCCC
1 CCATCCC
44704030 CC
1 CC
44704032 TAATCTCTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 12 0.44
7 15 0.56
ACGTcount: A:0.14, C:0.71, G:0.00, T:0.14
Consensus pattern (7 bp):
CCATCCC
Found at i:44704013 original size:6 final size:6
Alignment explanation
Indices: 44703997--44704030 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
44703987 ATCTTGTCTT
44703997 CCATCCC CCATCC CCATCC CCATCCC CCATCC CC
1 CCAT-CC CCATCC CCATCC CCAT-CC CCATCC CC
44704031 CTAATCTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 16 0.62
7 10 0.38
ACGTcount: A:0.15, C:0.71, G:0.00, T:0.15
Consensus pattern (6 bp):
CCATCC
Found at i:44704015 original size:13 final size:14
Alignment explanation
Indices: 44703997--44704031 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
44703987 ATCTTGTCTT
44703997 CCATCCCCCAT-CC
1 CCATCCCCCATCCC
44704010 CCAT-CCCCATCCC
1 CCATCCCCCATCCC
44704023 CCATCCCCC
1 CCATCCCCC
44704032 TAATCTCTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 6 0.30
13 10 0.50
14 4 0.20
ACGTcount: A:0.14, C:0.71, G:0.00, T:0.14
Consensus pattern (14 bp):
CCATCCCCCATCCC
Found at i:44705894 original size:8 final size:8
Alignment explanation
Indices: 44705877--44705922 Score: 56
Period size: 8 Copynumber: 5.6 Consensus size: 8
44705867 TTTAACAAAA
*
44705877 ATTTAAAT
1 ATTTATAT
44705885 ATTTATAT
1 ATTTATAT
*
44705893 ATATATAT
1 ATTTATAT
*
44705901 ATATATAT
1 ATTTATAT
44705909 ATATTATAT
1 AT-TTATAT
44705918 ATTTA
1 ATTTA
44705923 AGTTTATATT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
8 27 0.79
9 7 0.21
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (8 bp):
ATTTATAT
Found at i:44705937 original size:2 final size:2
Alignment explanation
Indices: 44705883--44705919 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
44705873 AAAAATTTAA
*
44705883 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
44705920 TTAAGTTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
AT
Found at i:44706212 original size:22 final size:22
Alignment explanation
Indices: 44706184--44706242 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 22
44706174 TAAAGTTATC
* **
44706184 ATGTCTCAAGACAAATGGGTGT
1 ATGTCTCAAGACAAAAGGGCAT
44706206 ATGTCTCAAGACAAAAGGGCAT
1 ATGTCTCAAGACAAAAGGGCAT
*
44706228 ATTTCTCAAGACAAA
1 ATGTCTCAAGACAAA
44706243 GTCTAATATC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (22 bp):
ATGTCTCAAGACAAAAGGGCAT
Found at i:44707806 original size:3 final size:3
Alignment explanation
Indices: 44707798--44708044 Score: 68
Period size: 3 Copynumber: 83.0 Consensus size: 3
44707788 TTGGACATGT
* *
44707798 TTA TTA TTA TT- TTA ATA ATA TTA TT- TT- TGTA TTCA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TT-A TTA TTA TTA
* * * * * *
44707842 TATG TTA CTA TTA TGT- TCA TTA TTT TTA CTT- TTA TTA TTC TTT TTA
1 T-TA TTA TTA TTA T-TA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
** * * * * *
44707888 TTA AGA TTA TT- TCTA CTA TTA TT- TTT TTA -TA CTA TAA TTA TTC
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
44707931 TTA TTA ATA -TA TTA TTT TTCC CTA TTA TTA TTA -TA TCA TTA TTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
44707975 TTC TTA TTGA TGTA TTA TTA TTT TTA TTT TCTA CT- TTA ATA TTA TTA
1 TTA TTA TT-A T-TA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
* * *
44708022 TT- GTA TTA TCA CTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA
44708045 CCATATCATT
Statistics
Matches: 174, Mismatches: 49, Indels: 42
0.66 0.18 0.16
Matches are distributed among these distances:
2 18 0.10
3 140 0.80
4 15 0.09
5 1 0.01
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:44707975 original size:17 final size:17
Alignment explanation
Indices: 44707953--44707996 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
44707943 TATTTTTCCC
44707953 TATTATTATTATATCAT-
1 TATTATTATTAT-TCATG
* *
44707970 TATTATTCTTATTGATG
1 TATTATTATTATTCATG
44707987 TATTATTATT
1 TATTATTATT
44707997 TTTATTTTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 3 0.13
17 20 0.87
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.61
Consensus pattern (17 bp):
TATTATTATTATTCATG
Found at i:44707981 original size:20 final size:20
Alignment explanation
Indices: 44707953--44708002 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
44707943 TATTTTTCCC
44707953 TATTATTATT-ATATCATTAT
1 TATTATTATTGATAT-ATTAT
* *
44707973 TATTCTTATTGATGTATTAT
1 TATTATTATTGATATATTAT
*
44707993 TATTTTTATT
1 TATTATTATT
44708003 TTCTACTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 23 0.88
21 3 0.12
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.64
Consensus pattern (20 bp):
TATTATTATTGATATATTAT
Found at i:44708250 original size:8 final size:8
Alignment explanation
Indices: 44708237--44708261 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
44708227 CTTTAGATTA
44708237 TTTGTTAT
1 TTTGTTAT
44708245 TTTGTTAT
1 TTTGTTAT
44708253 TTTGTTAT
1 TTTGTTAT
44708261 T
1 T
44708262 AATATTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (8 bp):
TTTGTTAT
Found at i:44718526 original size:3 final size:3
Alignment explanation
Indices: 44718520--44718545 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
44718510 CTAAAAAAAA
44718520 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
44718546 AGGGTCCTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:44722676 original size:2 final size:2
Alignment explanation
Indices: 44722669--44722708 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
44722659 TGACATTTTG
44722669 AT AT AT 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 AT AT AT
44722709 GTTTCTGAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44724151 original size:33 final size:32
Alignment explanation
Indices: 44724114--44724215 Score: 96
Period size: 33 Copynumber: 3.1 Consensus size: 32
44724104 TAACCAAATG
*
44724114 GTACAATTTGAAAAGGTTATGTACACCTTGTGT
1 GTAC-ATTTGAAAAGGTTAGGTACACCTTGTGT
* * *
44724147 GTACACTTGAAAAGGTTAGGTATACTTTGTGT
1 GTACATTTGAAAAGGTTAGGTACACCTTGTGT
* * ** * *
44724179 ATACCATATGAAAAGGAAAGGTATACTTTGTGT
1 GTA-CATTTGAAAAGGTTAGGTACACCTTGTGT
44724212 GTAC
1 GTAC
44724216 TACTTGGAAA
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
32 27 0.47
33 31 0.53
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (32 bp):
GTACATTTGAAAAGGTTAGGTACACCTTGTGT
Found at i:44724162 original size:32 final size:32
Alignment explanation
Indices: 44724121--44724227 Score: 117
Period size: 32 Copynumber: 3.2 Consensus size: 32
44724111 ATGGTACAAT
* * *
44724121 TTGAAAAGGTTATGTACACCTTGTGTGTACAC
1 TTGAAAAGGTTAGGTATACTTTGTGTGTACAC
*
44724153 TTGAAAAGGTTAGGTATACTTTGTGTATAC-C
1 TTGAAAAGGTTAGGTATACTTTGTGTGTACAC
**
44724184 ATATGAAAAGGAAAGGTATACTTTGTGTGTACTAC
1 -T-TGAAAAGGTTAGGTATACTTTGTGTGTAC-AC
44724219 TTGGAAAAG
1 TT-GAAAAG
44724228 AATGTACACC
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
31 1 0.02
32 27 0.43
33 27 0.43
34 7 0.11
35 1 0.02
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.34
Consensus pattern (32 bp):
TTGAAAAGGTTAGGTATACTTTGTGTGTACAC
Found at i:44730543 original size:16 final size:16
Alignment explanation
Indices: 44730517--44730564 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
44730507 TAGTACATTT
44730517 TAATT-ATTTATATAA
1 TAATTAATTTATATAA
*
44730532 TAATTAATTTATATTA
1 TAATTAATTTATATAA
44730548 T-ATATAATTT-TATAA
1 TAAT-TAATTTATATAA
44730563 TA
1 TA
44730565 TAATATAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
15 12 0.43
16 16 0.57
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TAATTAATTTATATAA
Found at i:44730843 original size:20 final size:20
Alignment explanation
Indices: 44730816--44730858 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
44730806 TATTGAGTAT
44730816 ATTAAAAATGCTTTAATTATA
1 ATTAAAAA-GCTTTAATTATA
* *
44730837 ATTAAAAAGTTTTTATTATA
1 ATTAAAAAGCTTTAATTATA
44730857 AT
1 AT
44730859 ATTTGAGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (20 bp):
ATTAAAAAGCTTTAATTATA
Found at i:44740459 original size:32 final size:32
Alignment explanation
Indices: 44740418--44740479 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
44740408 TGGGGTTCGT
*
44740418 GGGTCCGTAACTGAACGACTTCGGCCCAATGG
1 GGGTCCGTAACTGAACGACTTCGACCCAATGG
44740450 GGGTCCGTAACTGAACGACTTCGACCCAAT
1 GGGTCCGTAACTGAACGACTTCGACCCAAT
44740480 AGAGTTGAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.24, C:0.29, G:0.27, T:0.19
Consensus pattern (32 bp):
GGGTCCGTAACTGAACGACTTCGACCCAATGG
Found at i:44752124 original size:41 final size:41
Alignment explanation
Indices: 44752064--44752145 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
44752054 TATATAGGAC
*
44752064 TTAAATTAAAGTTTAGAAGACAATTGATTCAAACTTTTTTT
1 TTAAATTAAAGTTTAGAAGACAATTAATTCAAACTTTTTTT
*
44752105 TTAAATTAAAGTTTGGAAGACAATTAATTCAAACTTTTTTT
1 TTAAATTAAAGTTTAGAAGACAATTAATTCAAACTTTTTTT
44752146 CCTTATTTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (41 bp):
TTAAATTAAAGTTTAGAAGACAATTAATTCAAACTTTTTTT
Found at i:44752238 original size:23 final size:23
Alignment explanation
Indices: 44752212--44752261 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
44752202 ATGCAATATA
*
44752212 TGAATTAAAAGCATTTATTATGT
1 TGAAGTAAAAGCATTTATTATGT
44752235 TGAAGTAAAAGCATTTATTATGT
1 TGAAGTAAAAGCATTTATTATGT
44752258 TGAA
1 TGAA
44752262 AATAAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.40, C:0.04, G:0.16, T:0.40
Consensus pattern (23 bp):
TGAAGTAAAAGCATTTATTATGT
Found at i:44761108 original size:1 final size:1
Alignment explanation
Indices: 44761102--44761131 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
44761092 GCGGCTACTT
44761102 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
44761132 GGAGTCGGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:44763348 original size:2 final size:2
Alignment explanation
Indices: 44763343--44763367 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
44763333 AGGGGGAAGG
44763343 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
44763368 GTGAGCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:44763733 original size:6 final size:6
Alignment explanation
Indices: 44763683--44763714 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
44763673 TATTTCCTTT
44763683 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TT
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TT
44763715 CATGTATATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (6 bp):
TTTTTG
Found at i:44766153 original size:18 final size:19
Alignment explanation
Indices: 44766127--44766164 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
44766117 TTTCTTCTCT
44766127 ATTTGCAATACTC-AGCCA
1 ATTTGCAATACTCTAGCCA
* *
44766145 ATTTTCAATTCTCTAGCCA
1 ATTTGCAATACTCTAGCCA
44766164 A
1 A
44766165 GCCGGGTCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.32, C:0.26, G:0.08, T:0.34
Consensus pattern (19 bp):
ATTTGCAATACTCTAGCCA
Found at i:44767978 original size:19 final size:19
Alignment explanation
Indices: 44767956--44768008 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
44767946 AAAGTGATTG
*
44767956 AAAAAGTGAAAAA-AATAGA
1 AAAAACTGAAAAATAA-AGA
44767975 AAAAACTGAAAAATAAAGA
1 AAAAACTGAAAAATAAAGA
* *
44767994 AAAAATTTAAAAATA
1 AAAAACTGAAAAATA
44768009 TTTTTTTGGG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 28 0.93
20 2 0.07
ACGTcount: A:0.74, C:0.02, G:0.09, T:0.15
Consensus pattern (19 bp):
AAAAACTGAAAAATAAAGA
Found at i:44782456 original size:15 final size:17
Alignment explanation
Indices: 44782431--44782465 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
44782421 TAAAATATAT
44782431 AAAGTAAAT-AAAAGAA
1 AAAGTAAATAAAAAGAA
44782447 AAAG-AAATAAAAAGAA
1 AAAGTAAATAAAAAGAA
44782463 AAA
1 AAA
44782466 AAGCAAGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.80, C:0.00, G:0.11, T:0.09
Consensus pattern (17 bp):
AAAGTAAATAAAAAGAA
Found at i:44783816 original size:2 final size:2
Alignment explanation
Indices: 44783811--44783836 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
44783801 TATGTGTGAT
44783811 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
44783837 AATGTTATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:44784541 original size:42 final size:42
Alignment explanation
Indices: 44784494--44784591 Score: 169
Period size: 42 Copynumber: 2.3 Consensus size: 42
44784484 ACGGGCAGAG
* *
44784494 ACACGGGCGTGTGTCTCAGCTGTGTGAGGCACACAGCCTAGC
1 ACACGGGCGTGTGTCTCAGCCGTGTAAGGCACACAGCCTAGC
44784536 ACACGGGCGTGTGTCTCAGCCGTGTAAGGCACACAGCCTAGC
1 ACACGGGCGTGTGTCTCAGCCGTGTAAGGCACACAGCCTAGC
*
44784578 ACACGGGCATGTGT
1 ACACGGGCGTGTGT
44784592 TTCGACCGTG
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.20, C:0.29, G:0.33, T:0.18
Consensus pattern (42 bp):
ACACGGGCGTGTGTCTCAGCCGTGTAAGGCACACAGCCTAGC
Found at i:44786821 original size:18 final size:18
Alignment explanation
Indices: 44786784--44786822 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
44786774 TTGGAAATCA
*
44786784 AAATTATTAAAAGATGAT
1 AAATTATTAAAAGATAAT
44786802 AAATTATTAAATAGA-AAT
1 AAATTATTAAA-AGATAAT
44786820 AAA
1 AAA
44786823 AATCATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (18 bp):
AAATTATTAAAAGATAAT
Found at i:44787537 original size:2 final size:2
Alignment explanation
Indices: 44787532--44787571 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
44787522 ATATAAATAT
*
44787532 CA CA CA CA CA CA CA CA CA CA CA CA CA CA TA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
44787572 TATATATATA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.47, G:0.00, T:0.03
Consensus pattern (2 bp):
CA
Found at i:44787638 original size:7 final size:7
Alignment explanation
Indices: 44787628--44787661 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
44787618 GATAATGTCC
44787628 GATAAAT
1 GATAAAT
44787635 GATAAAT
1 GATAAAT
44787642 GATAAAT
1 GATAAAT
44787649 GATAAAT
1 GATAAAT
44787656 GATAAA
1 GATAAA
44787662 ATGTTACTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (7 bp):
GATAAAT
Found at i:44790051 original size:40 final size:40
Alignment explanation
Indices: 44789992--44790160 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
44789982 CGGGACTTTA
* * *
44789992 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
44790032 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
44790072 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
44790112 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
44790152 CCCGGATAT
1 CCCGGATAT
44790161 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:44797250 original size:40 final size:40
Alignment explanation
Indices: 44797191--44797359 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
44797181 CGGGACTTTA
* * *
44797191 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
44797231 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
44797271 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
44797311 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
44797351 CCCGGATAT
1 CCCGGATAT
44797360 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:44800364 original size:2 final size:2
Alignment explanation
Indices: 44800357--44800387 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
44800347 CTTTAGCTAA
44800357 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
44800388 ACATACTAAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:44801055 original size:2 final size:2
Alignment explanation
Indices: 44801048--44801084 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
44801038 ATCAACCATG
44801048 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
44801085 CAAATACCGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:44801982 original size:43 final size:42
Alignment explanation
Indices: 44801915--44802134 Score: 187
Period size: 43 Copynumber: 5.1 Consensus size: 42
44801905 ATTTTGTACA
* * *
44801915 ATGCCAAC-GTCCCTGACGTGGTCTTACATGTAATCTCATACCG
1 ATGCC-ACTGTCCCAGAC-TGGTCTTACATGTAATCACATATCG
* * *
44801958 ATGCCACTGTCCCAGA-TAGAGTCTTACTTTTAAACACATATCG
1 ATGCCACTGTCCCAGACT-G-GTCTTACATGTAATCACATATCG
*
44802001 ATGCCAAC-GTCCCAGACGTGGTCTTACACGTAATCACATATCG
1 ATGCC-ACTGTCCCAGAC-TGGTCTTACATGTAATCACATATCG
* * * **
44802044 ATGCCAATGTCCTAGACATGGTCTTAGACATAATCACATATCG
1 ATGCCACTGTCCCAGAC-TGGTCTTACATGTAATCACATATCG
* * * *
44802087 ATGCCAAC-ATCCCAGACGTGGTCTTACACGAAATCACATATCA
1 ATGCC-ACTGTCCCAGAC-TGGTCTTACATGTAATCACATATCG
44802130 ATGCC
1 ATGCC
44802135 TCATATACAT
Statistics
Matches: 146, Mismatches: 23, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
41 1 0.01
42 4 0.03
43 136 0.93
44 4 0.03
45 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (42 bp):
ATGCCACTGTCCCAGACTGGTCTTACATGTAATCACATATCG
Found at i:44802068 original size:86 final size:86
Alignment explanation
Indices: 44801915--44802134 Score: 289
Period size: 86 Copynumber: 2.6 Consensus size: 86
44801905 ATTTTGTACA
* * * * * *
44801915 ATGCCAACGTCCCTGACGTGGTCTTACATGTAATCTCATACCGATGCCACTGTCCCAGATAGAGT
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGACAGAGT
***
44801980 CTTACTTTTAAACACATATCG
66 CTTACACATAAACACATATCG
*
44802001 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCGATGCCAATGTCCTAGACATG-G
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGACA-GAG
* *
44802065 TCTTAGACATAATCACATATCG
65 TCTTACACATAAACACATATCG
* * *
44802087 ATGCCAACATCCCAGACGTGGTCTTACACGAAATCACATATCAATGCC
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCGATGCC
44802135 TCATATACAT
Statistics
Matches: 118, Mismatches: 15, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
86 117 0.99
87 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (86 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGACAGAGT
CTTACACATAAACACATATCG
Found at i:44802910 original size:15 final size:15
Alignment explanation
Indices: 44802887--44802917 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
44802877 TCAAAAATTC
44802887 CAATACAAAACATAT
1 CAATACAAAACATAT
*
44802902 CAATCCAAAACATAT
1 CAATACAAAACATAT
44802917 C
1 C
44802918 TTTCATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (15 bp):
CAATACAAAACATAT
Found at i:44807596 original size:48 final size:47
Alignment explanation
Indices: 44807372--44807640 Score: 192
Period size: 48 Copynumber: 5.7 Consensus size: 47
44807362 GGTGTAATGT
* * * * * ** *
44807372 CGATGCCTTGTCCCAGGCATGGTCTTACACT-AGCTCATCCATCAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGA-CACCTCTATCGTGC
* * * * *** *
44807419 CGATGCCACGTCCCAGACATGGTTTTACA-TTACTATCAAAATCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGAC-ACCTCTATCG-TGC
* * *
44807467 CGACGCCATGTCCCAGACATGGTCTTACACT-AGCTCTCACATATCCGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGA-CAC-CTC-TAT-CGTGC
*
44807517 CGATGCTATGTCCCAGACATGGTCTTACACTGACACCTCTATACGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTAT-CGTGC
* *
44807565 CGATGCCATGTCCCAAACATGGTCTTACACTGACACATC--TCGTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATCGT-GC
* *
44807611 CGATG-CGTGTCCTAGACAT-GTCTTACACTG
1 CGATGCCATGTCCCAGACATGGTCTTACACTG
44807641 GCTTCCATCT
Statistics
Matches: 180, Mismatches: 32, Indels: 23
0.77 0.14 0.10
Matches are distributed among these distances:
44 11 0.06
45 14 0.08
46 10 0.06
47 29 0.16
48 72 0.40
49 6 0.03
50 35 0.19
51 3 0.02
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATCGTGC
Found at i:44807650 original size:46 final size:46
Alignment explanation
Indices: 44807473--44807777 Score: 209
Period size: 46 Copynumber: 6.5 Consensus size: 46
44807463 AGGCCGACGC
* * *
44807473 CATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTGCCGATG
1 CATGTCCCAGACATGGTCTTACACT-G-ACTC-CATCTACGTGCCGATG
*
44807522 CTATGTCCCAGACATGGTCTTACACTGACACC-TCTATACGTGCCGATG
1 C-ATGTCCCAGACATGGTCTTACACTGACTCCATC--TACGTGCCGATG
* *
44807570 CCATGTCCCAAACATGGTCTTACACTGAC-ACATCT-CGTAGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGACTCCATCTACGT-GCCGATG
* * * * *
44807616 CGTGTCCTAGACAT-GTCTTACACTGGCTTCCATCT-CGAGGCCAATG
1 CATGTCCCAGACATGGTCTTACACTGAC-TCCATCTACG-TGCCGATG
* * *
44807662 CATGTCCCAGACAT-GTCTTACACT-AGCTCTCGTCT-CAATGCCGA-C
1 CATGTCCCAGACATGGTCTTACACTGA-CTC-CATCTAC-GTGCCGATG
* * * * * *
44807707 CATGTCCAAGACATGGTCTTGCACTGGCTCTCAT-AATGTGGTCGATG
1 CATGTCCCAGACATGGTCTTACACTGACTC-CATCTACGT-GCCGATG
*
44807754 CATGTCCCAGACAT-GTCCTACACT
1 CATGTCCCAGACATGGTCTTACACT
44807778 AAATGACCCA
Statistics
Matches: 206, Mismatches: 33, Indels: 37
0.75 0.12 0.13
Matches are distributed among these distances:
44 12 0.06
45 30 0.15
46 81 0.39
47 15 0.07
48 41 0.20
49 3 0.01
50 24 0.12
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (46 bp):
CATGTCCCAGACATGGTCTTACACTGACTCCATCTACGTGCCGATG
Found at i:44807705 original size:92 final size:91
Alignment explanation
Indices: 44807462--44807778 Score: 270
Period size: 92 Copynumber: 3.4 Consensus size: 91
44807452 TATCAAAATC
* *
44807462 GAGGCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTGCCGATGCTATG
1 GAGGCCGATG-CATGTCCCAGACATGGTCTTACACTAGCTCT--CATCT-CGTGCCGATGC-ATG
* * *
44807527 TCCCAGACATGGTCTTACACTGACACC-TCT
61 TCCAAGACATGGTCTTACACTGGCTCCATCT
* * * * *
44807557 ATACGTGCCGATGCCATGTCCCAAACATGGTCTTACACT-G-ACACATCTCGTAGCCGATGCGTG
1 -GA-G-GCCGATG-CATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCGT-GCCGATGCATG
*
44807620 TCCTAGACAT-GTCTTACACTGGCTTCCATCT
61 TCCAAGACATGGTCTTACACTGGC-TCCATCT
* * * *
44807651 CGAGGCCAATGCATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAATGCCGA-CCATGTCC
1 -GAGGCCGATGCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTC-GTGCCGATGCATGTCC
* *
44807714 AAGACATGGTCTTGCACTGGCTCTCATAAT
64 AAGACATGGTCTTACACTGGCTC-CAT-CT
* * *
44807744 GTGGTCGATGCATGTCCCAGACAT-GTCCTACACTA
1 GAGGCCGATGCATGTCCCAGACATGGTCTTACACTA
44807779 AATGACCCAA
Statistics
Matches: 183, Mismatches: 27, Indels: 26
0.78 0.11 0.11
Matches are distributed among these distances:
90 10 0.05
91 28 0.15
92 75 0.41
93 19 0.10
94 16 0.09
96 2 0.01
97 2 0.01
98 31 0.17
ACGTcount: A:0.23, C:0.32, G:0.20, T:0.26
Consensus pattern (91 bp):
GAGGCCGATGCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCGTGCCGATGCATGTCCAA
GACATGGTCTTACACTGGCTCCATCT
Found at i:44815386 original size:46 final size:46
Alignment explanation
Indices: 44815297--44815457 Score: 156
Period size: 46 Copynumber: 3.5 Consensus size: 46
44815287 ATTCCTTGTC
* * *
44815297 CCAGACATGGTCTTACACTGAC--ACATCTTGTAG-CCGATGCATGT
1 CCAGACATGGTCTTACACTGGCTTACATCTCG-AGTCCGATACATGT
44815341 CCTAGACAT-GTCTTACACTGGCTTACATCTCGAGTCCGATACATGT
1 CC-AGACATGGTCTTACACTGGCTTACATCTCGAGTCCGATACATGT
* * *
44815387 CCAAGACAT-GTCTTACACTAGCTCT-CATCTC-AATGCCGATGCCATGT
1 CC-AGACATGGTCTTACACTGGCT-TACATCTCGAGT-CCGAT-ACATGT
44815434 CGCAGACATGGTCTTACACTGGCT
1 C-CAGACATGGTCTTACACTGGCT
44815458 CTCATAATTT
Statistics
Matches: 100, Mismatches: 8, Indels: 14
0.82 0.07 0.11
Matches are distributed among these distances:
44 14 0.14
45 10 0.10
46 49 0.49
47 13 0.13
48 14 0.14
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
CCAGACATGGTCTTACACTGGCTTACATCTCGAGTCCGATACATGT
Found at i:44815459 original size:48 final size:45
Alignment explanation
Indices: 44815328--44815499 Score: 168
Period size: 46 Copynumber: 3.7 Consensus size: 45
44815318 CACATCTTGT
* *
44815328 AGCCGATGCATGTCCTAGACATGTCTTACACTGGCT-TACATCTCG
1 AGCCGATGCATGTCCAAGACATGTCTTACACTGGCTCT-CATCTCA
* *
44815373 AGTCCGATACATGTCCAAGACATGTCTTACACTAGCTCTCATCTCA
1 AG-CCGATGCATGTCCAAGACATGTCTTACACTGGCTCTCATCTCA
* **
44815419 ATGCCGATGCCATGTCGC-AGACATGGTCTTACACTGGCTCTCATAATTT
1 A-GCCGATG-CATGTC-CAAGACAT-GTCTTACACTGGCTCTCAT-CTCA
* * * *
44815468 GGTCGGTGCATGTCCCAGACATGTCTTACACT
1 AGCCGATGCATGTCCAAGACATGTCTTACACT
44815500 AGCGCACAAA
Statistics
Matches: 107, Mismatches: 12, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
45 2 0.02
46 54 0.50
47 26 0.24
48 24 0.22
49 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.29
Consensus pattern (45 bp):
AGCCGATGCATGTCCAAGACATGTCTTACACTGGCTCTCATCTCA
Found at i:44817980 original size:5 final size:5
Alignment explanation
Indices: 44817952--44818029 Score: 95
Period size: 5 Copynumber: 15.6 Consensus size: 5
44817942 TATAACTTAC
* * * * *
44817952 CATAT CATAA CATAT CGTAT CATAC CATA- CAATAC CATAT CATAC CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT C-ATAT CATAT CATAT CATAT
44818002 CATAT CATAT CATAT CATAT CATAT CAT
1 CATAT CATAT CATAT CATAT CATAT CAT
44818030 GTCCTACACA
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
4 1 0.02
5 61 0.97
6 1 0.02
ACGTcount: A:0.41, C:0.24, G:0.01, T:0.33
Consensus pattern (5 bp):
CATAT
Found at i:44818587 original size:20 final size:19
Alignment explanation
Indices: 44818558--44818595 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
44818548 GTATAGAAAA
44818558 AGAAAAGGGAACAAAAGAG
1 AGAAAAGGGAACAAAAGAG
*
44818577 AGAACAAGGGAATAAAAGA
1 AGAA-AAGGGAACAAAAGA
44818596 TATGTGGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.63, C:0.05, G:0.29, T:0.03
Consensus pattern (19 bp):
AGAAAAGGGAACAAAAGAG
Found at i:44825169 original size:77 final size:77
Alignment explanation
Indices: 44825087--44825260 Score: 285
Period size: 77 Copynumber: 2.3 Consensus size: 77
44825077 CGACATACTG
* *
44825087 ATATCATGGCCTGAAGCCAAATCAGCCGATATTCATGGCCCAAAGCCAAATCGGTATAACTCGCA
1 ATATCATGGCCCGAAGCCAAATCAGCCGATATTCATGGCCCAAAGCCAAATAGGTATAACTCGCA
* *
44825152 TCCGAATTGCTA
66 CCCGAAGTGCTA
* * *
44825164 ATATCATGTCCCGAAGCCAAATCAGCCTATATTCATGGCCCAAAGCCAAATATGTATAACTCGCA
1 ATATCATGGCCCGAAGCCAAATCAGCCGATATTCATGGCCCAAAGCCAAATAGGTATAACTCGCA
44825229 CCCGAAGTGCTA
66 CCCGAAGTGCTA
44825241 ATATCATGGCCCGAAGCCAA
1 ATATCATGGCCCGAAGCCAA
44825261 CTCAATGTAT
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
77 89 1.00
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.21
Consensus pattern (77 bp):
ATATCATGGCCCGAAGCCAAATCAGCCGATATTCATGGCCCAAAGCCAAATAGGTATAACTCGCA
CCCGAAGTGCTA
Found at i:44831797 original size:17 final size:17
Alignment explanation
Indices: 44831775--44831808 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
44831765 TACAAAATGA
44831775 GAGATTTATCCCAAGCC
1 GAGATTTATCCCAAGCC
44831792 GAGATTTATCCCAAGCC
1 GAGATTTATCCCAAGCC
44831809 AACACATTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (17 bp):
GAGATTTATCCCAAGCC
Found at i:44844619 original size:72 final size:72
Alignment explanation
Indices: 44844536--44844669 Score: 196
Period size: 72 Copynumber: 1.9 Consensus size: 72
44844526 TTGATTATGA
* * * * *
44844536 ATGGATTGAGATCCAGCACGTGTTGTGGATTCTTTTAAGCTTGTGTGAGCAGCATCGAATAATCC
1 ATGGATTGAGATCCAGCACGTGATGCGAATTCTTTGAAGCTTGTATGAGCAGCATCGAATAATCC
44844601 TTTACCT
66 TTTACCT
* * *
44844608 ATGGCTTGAGATTCAGCACGTGATGCGAATTCTTTGAAGCTTGTATGAGCAGCATCGGATAA
1 ATGGATTGAGATCCAGCACGTGATGCGAATTCTTTGAAGCTTGTATGAGCAGCATCGAATAA
44844670 AGCTTGTATA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
72 54 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.32
Consensus pattern (72 bp):
ATGGATTGAGATCCAGCACGTGATGCGAATTCTTTGAAGCTTGTATGAGCAGCATCGAATAATCC
TTTACCT
Found at i:44846328 original size:18 final size:20
Alignment explanation
Indices: 44846296--44846346 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 20
44846286 GTTAATTTCA
*
44846296 ATTTTTTAATATTATTTAAT
1 ATTTTTTAATATTATGTAAT
44846316 ATTTTTT-AT-TTATGTAAT
1 ATTTTTTAATATTATGTAAT
*
44846334 -TTTAATTAATATT
1 ATTT-TTTAATATT
44846347 TTTTATACAG
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
17 3 0.12
18 10 0.38
19 4 0.15
20 9 0.35
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (20 bp):
ATTTTTTAATATTATGTAAT
Found at i:44847864 original size:18 final size:18
Alignment explanation
Indices: 44847841--44847876 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
44847831 TGCCAGGTGC
44847841 GTATCCTAGCCCTTATAT
1 GTATCCTAGCCCTTATAT
*
44847859 GTATCCTTGCCCTTATAT
1 GTATCCTAGCCCTTATAT
44847877 ATTTCCTTTT
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:0.28, G:0.11, T:0.42
Consensus pattern (18 bp):
GTATCCTAGCCCTTATAT
Found at i:44847883 original size:18 final size:18
Alignment explanation
Indices: 44847842--44847884 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
44847832 GCCAGGTGCG
* *
44847842 TATCCTAGCCCTTATATG
1 TATCCTTGCCCTTATATA
44847860 TATCCTTGCCCTTATATA
1 TATCCTTGCCCTTATATA
*
44847878 TTTCCTT
1 TATCCTT
44847885 TTCTCAGTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.07, T:0.47
Consensus pattern (18 bp):
TATCCTTGCCCTTATATA
Found at i:44850383 original size:35 final size:35
Alignment explanation
Indices: 44850343--44850411 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
44850333 AAGCACCGAG
44850343 AAAACCATTCTCACTAGAAAACTCCTTACAACTTA
1 AAAACCATTCTCACTAGAAAACTCCTTACAACTTA
* * *
44850378 AAAACCATTCTCACTGGAAAATTCCTTACTACTT
1 AAAACCATTCTCACTAGAAAACTCCTTACAACTT
44850412 TCAATTCACC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.39, C:0.28, G:0.04, T:0.29
Consensus pattern (35 bp):
AAAACCATTCTCACTAGAAAACTCCTTACAACTTA
Found at i:44851701 original size:28 final size:28
Alignment explanation
Indices: 44851648--44851702 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
44851638 ATTTTCAACC
* *
44851648 TATTTTTTCAGAACCATCTTTTCAAAAT
1 TATTTTTTCAGAACCATCTATACAAAAT
*
44851676 TATTTTTTCAGAATCTAT-TATACAAAA
1 TATTTTTTCAGAA-CCATCTATACAAAA
44851703 AGAGCGTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 20 0.87
29 3 0.13
ACGTcount: A:0.36, C:0.15, G:0.04, T:0.45
Consensus pattern (28 bp):
TATTTTTTCAGAACCATCTATACAAAAT
Found at i:44851800 original size:126 final size:126
Alignment explanation
Indices: 44851565--44851867 Score: 484
Period size: 126 Copynumber: 2.4 Consensus size: 126
44851555 AAGCAAGAGG
* *
44851565 TATTGTACAAAAAGAGCGTCCAGCTGAGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCTAC
1 TATTATACAAAAAGAGCGTCCAGCTGAGAGCTTTTTTTAGTACTTTTGCTGACAGTGCATCCTAC
** *
44851630 TTGAAGCGATTTTCAACCTATTTTTTCAGAACCATCTTTTCAAAATTAT-TTTTTCAGAATC
66 TTGAAGCGATTTTCAACCTATTTTTTCAGAACCATCTTCCCAAAAATATATTTTT-AGAATC
* *
44851691 TATTATACAAAAAGAGCGTTCAGCTAAGAGCTTTTTTTAGTACTTTTGCTGACAGTGCATCCTAC
1 TATTATACAAAAAGAGCGTCCAGCTGAGAGCTTTTTTTAGTACTTTTGCTGACAGTGCATCCTAC
44851756 TTGAAGC-ATTTTTCAACCTATTTTTTCAGAACCATCTTCCCAAAAATATATTTTTAGAATC
66 TTGAAGCGA-TTTTCAACCTATTTTTTCAGAACCATCTTCCCAAAAATATATTTTTAGAATC
* * *
44851817 TACTATATAAAAAGAGCGTCCAACTGAGAGCTTTTTTTAGTACTTTTGCTG
1 TATTATACAAAAAGAGCGTCCAGCTGAGAGCTTTTTTTAGTACTTTTGCTG
44851868 GCTGTACAAA
Statistics
Matches: 163, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
125 1 0.01
126 157 0.96
127 5 0.03
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (126 bp):
TATTATACAAAAAGAGCGTCCAGCTGAGAGCTTTTTTTAGTACTTTTGCTGACAGTGCATCCTAC
TTGAAGCGATTTTCAACCTATTTTTTCAGAACCATCTTCCCAAAAATATATTTTTAGAATC
Found at i:44854587 original size:13 final size:13
Alignment explanation
Indices: 44854569--44854593 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44854559 TAATTTATAT
44854569 GTGTGAAAATTTC
1 GTGTGAAAATTTC
44854582 GTGTGAAAATTT
1 GTGTGAAAATTT
44854594 TATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:44855543 original size:2 final size:2
Alignment explanation
Indices: 44855536--44855569 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
44855526 TATTCATGTG
44855536 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
44855570 CCTTTGTATT
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):
TA
Found at i:44855856 original size:43 final size:43
Alignment explanation
Indices: 44855723--44855877 Score: 167
Period size: 43 Copynumber: 3.6 Consensus size: 43
44855713 TGTTATCGTG
* * *
44855723 TAAGACCACGTTTGGGAAGTTGGCATTG-ACTTATGATTTACGTA
1 TAAGACCACGTCTGGGACGTTGGCATCGTA-TT-TGATTTACGTA
*
44855767 TAAGACCACGTCTGGGACGTTGGCATCGTATTTGATTT-CGTG
1 TAAGACCACGTCTGGGACGTTGGCATCGTATTTGATTTACGTA
* *
44855809 TAAGACC-CTGTTTGGGACAG-TGGCATCGATATTTG-TTTACATA
1 TAAGACCAC-GTCTGGGAC-GTTGGCATCG-TATTTGATTTACGTA
*
44855852 TAAGACCACGTCTAGGACGTTGGCAT
1 TAAGACCACGTCTGGGACGTTGGCAT
44855878 TGTGCAAGCT
Statistics
Matches: 95, Mismatches: 9, Indels: 15
0.80 0.08 0.13
Matches are distributed among these distances:
41 1 0.01
42 30 0.32
43 35 0.37
44 28 0.29
45 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (43 bp):
TAAGACCACGTCTGGGACGTTGGCATCGTATTTGATTTACGTA
Found at i:44855871 original size:85 final size:86
Alignment explanation
Indices: 44855718--44855877 Score: 229
Period size: 85 Copynumber: 1.9 Consensus size: 86
44855708 ATATGTGTTA
* * *
44855718 TCGTGTAAGACCACGTTTGGGAAGTTGGCATTGACTTATGATTTACGTATAAGACCACGTCTGGG
1 TCGTGTAAGACCACGTTTGGGAAGTTGGCATCGACTTATGATTTACATATAAGACCACGTCTAGG
44855783 ACGTTGGCATCGTATTTGATT
66 ACGTTGGCATCGTATTTGATT
*
44855804 TCGTGTAAGACC-CTGTTTGGGACAG-TGGCATCGA-TATTTG-TTTACATATAAGACCACGTCT
1 TCGTGTAAGACCAC-GTTTGGGA-AGTTGGCATCGACT-TATGATTTACATATAAGACCACGTCT
44855865 AGGACGTTGGCAT
63 AGGACGTTGGCAT
44855878 TGTGCAAGCT
Statistics
Matches: 67, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
85 34 0.51
86 31 0.46
87 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (86 bp):
TCGTGTAAGACCACGTTTGGGAAGTTGGCATCGACTTATGATTTACATATAAGACCACGTCTAGG
ACGTTGGCATCGTATTTGATT
Found at i:44869251 original size:18 final size:18
Alignment explanation
Indices: 44869230--44869505 Score: 88
Period size: 18 Copynumber: 15.3 Consensus size: 18
44869220 GAACAATTAT
* *
44869230 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAATCAA
*
44869248 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAA
* * * *
44869266 TTATTCAATAATAACCAG
1 TTATTCAGTAACAATCAA
* *
44869284 TTATTCAATATCGATCAATTAA
1 TTATTCAGTA---A-CAATCAA
* * *
44869306 TCGGTTATCCAGTAATAGTCAA
1 ----TTATTCAGTAACAATCAA
44869328 TTATTCAGTAA-AATCAGA
1 TTATTCAGTAACAATCA-A
*
44869346 -TATTCAGTAACAATTAA
1 TTATTCAGTAACAATCAA
* * *
44869363 GTTA-GCTGT--CATTC-A
1 -TTATTCAGTAACAATCAA
* *
44869378 -T--TCAGTGACAATCAG
1 TTATTCAGTAACAATCAA
*
44869393 TTATTCAGTAATAATCAA
1 TTATTCAGTAACAATCAA
* * * *
44869411 TTATTTAGTAATATTCAG
1 TTATTCAGTAACAATCAA
*
44869429 TTATTCAGTAACAGTCTAA
1 TTATTCAGTAACAATC-AA
* *
44869448 -TATCCAGTAACAGTCAA
1 TTATTCAGTAACAATCAA
* *
44869465 TTA-TCTGGTAACAGTCAA
1 TTATTC-AGTAACAATCAA
* * *
44869483 TTATTTAGTAATAATCAG
1 TTATTCAGTAACAATCAA
44869501 TTATT
1 TTATT
44869506 TTATACCTTT
Statistics
Matches: 190, Mismatches: 46, Indels: 44
0.68 0.16 0.16
Matches are distributed among these distances:
12 3 0.02
13 1 0.01
14 4 0.02
15 1 0.01
16 4 0.02
17 18 0.09
18 138 0.73
19 4 0.02
21 1 0.01
22 7 0.04
23 1 0.01
26 8 0.04
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (18 bp):
TTATTCAGTAACAATCAA
Found at i:44869270 original size:36 final size:36
Alignment explanation
Indices: 44869221--44869505 Score: 115
Period size: 36 Copynumber: 7.9 Consensus size: 36
44869211 TAACTCTTAG
* * * *
44869221 AACAATTATTTATTCAGTAACAGTCAGTTATTCGGT
1 AACAATCAATTATTCAGTAACAATCAGTTATTCAGT
* * * *
44869257 AACAATCAATTATTCAATAATAACCAGTTATTCAAT
1 AACAATCAATTATTCAGTAACAATCAGTTATTCAGT
* * * * *
44869293 ATCGATCAATTAATCGGTTATCCAGTAATAGTCAATTATTCAGT
1 A---A-CAATCAA----TTATTCAGTAACAATCAGTTATTCAGT
* * *
44869337 AA-AATCAGA-TATTCAGTAACAATTAAGTTA-GCTGT
1 AACAATCA-ATTATTCAGTAACAA-TCAGTTATTCAGT
* *
44869372 --C-AT---TCATTCAGTGACAATCAGTTATTCAGT
1 AACAATCAATTATTCAGTAACAATCAGTTATTCAGT
* * * *
44869402 AATAATCAATTATTTAGTAATATTCAGTTATTCAGT
1 AACAATCAATTATTCAGTAACAATCAGTTATTCAGT
* * * * *
44869438 AACAGTCTAA-TATCCAGTAACAGTCAATTA-TCTGGT
1 AACAATC-AATTATTCAGTAACAATCAGTTATTC-AGT
* * *
44869474 AACAGTCAATTATTTAGTAATAATCAGTTATT
1 AACAATCAATTATTCAGTAACAATCAGTTATT
44869506 TTATACCTTT
Statistics
Matches: 179, Mismatches: 47, Indels: 45
0.66 0.17 0.17
Matches are distributed among these distances:
29 6 0.03
30 14 0.08
33 4 0.02
35 17 0.09
36 100 0.56
37 3 0.02
39 5 0.03
40 7 0.04
41 1 0.01
44 22 0.12
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.36
Consensus pattern (36 bp):
AACAATCAATTATTCAGTAACAATCAGTTATTCAGT
Found at i:44869679 original size:53 final size:47
Alignment explanation
Indices: 44869623--44869712 Score: 153
Period size: 47 Copynumber: 1.9 Consensus size: 47
44869613 AGTAACAGTA
* * *
44869623 ACAGTAGCAGTATGGTACACAGAGTACCTCATTGGAACAAATCTGGG
1 ACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCTGGG
44869670 ACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATC
1 ACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATC
44869713 CGAAACAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (47 bp):
ACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCTGGG
Found at i:44869725 original size:47 final size:47
Alignment explanation
Indices: 44869630--44869728 Score: 144
Period size: 47 Copynumber: 2.1 Consensus size: 47
44869620 GTAACAGTAG
* * * ** *
44869630 CAGTATGGTACACAGAGTACCTCATTGGAACAAATCTGGGACAGTAA
1 CAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGAAACAATAA
44869677 CAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGAAACAATAA
1 CAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGAAACAATAA
44869724 CAGTA
1 CAGTA
44869729 ACGATAACAG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.18
Consensus pattern (47 bp):
CAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGAAACAATAA
Found at i:44869727 original size:53 final size:51
Alignment explanation
Indices: 44869616--44869730 Score: 121
Period size: 47 Copynumber: 2.3 Consensus size: 51
44869606 CCAGAACAGT
* * * *
44869616 AACAGTAACAGTAGCAGTATGGTACACAGAGTACCTCATTGGAACAAATCTG
1 AACA-TAACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCG
**
44869668 ----GGACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCG
1 AACATAACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCG
44869715 AAACAATAACAGTAAC
1 -AAC-ATAACAGTAAC
44869731 GATAACAGTA
Statistics
Matches: 49, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
47 41 0.84
53 8 0.16
ACGTcount: A:0.41, C:0.22, G:0.20, T:0.17
Consensus pattern (51 bp):
AACATAACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCG
Found at i:44869782 original size:45 final size:45
Alignment explanation
Indices: 44869720--44869830 Score: 161
Period size: 45 Copynumber: 2.5 Consensus size: 45
44869710 ATCCGAAACA
*
44869720 ATAACAGTAAC-GATAACAGTATTCAACACACAAAGTGCTGAATCG
1 ATAACAGTAACAG-TAACAGTATTCAACACACAAAGTGCCGAATCG
* * *
44869765 ATAACGGTAATAGTAACAGTATTCGACACACAAAGTGCCGAATCG
1 ATAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCG
*
44869810 GTAACAGTAACAGTAACAGTA
1 ATAACAGTAACAGTAACAGTA
44869831 ATAGTAGTCG
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
45 57 0.98
46 1 0.02
ACGTcount: A:0.43, C:0.19, G:0.18, T:0.20
Consensus pattern (45 bp):
ATAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCG
Found at i:44871388 original size:20 final size:18
Alignment explanation
Indices: 44871354--44871398 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
44871344 AAACTTTCAA
44871354 TTTTCCCTTTCTTCTTTC
1 TTTTCCCTTTCTTCTTTC
44871372 TTTTCTCCTTTCTTTCTTTC
1 TTTTC-CCTTTC-TTCTTTC
44871392 -TTTCCCT
1 TTTTCCCT
44871399 GCTTTTCGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.32
19 10 0.40
20 7 0.28
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTCCCTTTCTTCTTTC
Found at i:44878700 original size:7 final size:7
Alignment explanation
Indices: 44878681--44878709 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
44878671 ATGTGGTAAA
44878681 AAATAAT
1 AAATAAT
44878688 -AATAAT
1 AAATAAT
44878694 AAATAAT
1 AAATAAT
44878701 AAATAAT
1 AAATAAT
44878708 AA
1 AA
44878710 TTGTAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AAATAAT
Found at i:44879081 original size:20 final size:19
Alignment explanation
Indices: 44879042--44879094 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
44879032 TTTTGATGCA
44879042 TTTTATATTTTTTTACAAT
1 TTTTATATTTTTTTACAAT
44879061 TTTTATAATTTTTTT-CTAAT
1 TTTTAT-ATTTTTTTAC-AAT
*
44879081 TTTCAATATTTTTT
1 TTT-TATATTTTTT
44879095 ATTAAAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 7 0.23
20 21 0.70
21 2 0.07
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTATATTTTTTTACAAT
Found at i:44880192 original size:19 final size:18
Alignment explanation
Indices: 44880170--44880228 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 18
44880160 AAATCAATAA
*
44880170 AAAATATTAAATTTTAAT
1 AAAATATTAAATATTAAT
*
44880188 GAAAATATAAAAATATTAAT
1 -AAAATAT-TAAATATTAAT
* *
44880208 AAATTATTAAAAATT-AT
1 AAAATATTAAATATTAAT
44880225 AAAA
1 AAAA
44880229 ATTCAAAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
17 5 0.15
18 6 0.18
19 13 0.39
20 9 0.27
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.36
Consensus pattern (18 bp):
AAAATATTAAATATTAAT
Found at i:44880201 original size:20 final size:20
Alignment explanation
Indices: 44880170--44880222 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
44880160 AAATCAATAA
44880170 AAAATATT--AAATTTTAAT
1 AAAATATTAAAAATTTTAAT
*
44880188 GAAAATA-TAAAAATATTAAT
1 -AAAATATTAAAAATTTTAAT
*
44880208 AAATTATTAAAAATT
1 AAAATATTAAAAATT
44880223 ATAAAAATTC
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 1 0.04
19 11 0.39
20 16 0.57
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
AAAATATTAAAAATTTTAAT
Found at i:44880221 original size:10 final size:10
Alignment explanation
Indices: 44880195--44880231 Score: 51
Period size: 9 Copynumber: 3.8 Consensus size: 10
44880185 AATGAAAATA
44880195 TAAAAA-TAT
1 TAAAAATTAT
44880204 TAATAAATTAT
1 TAA-AAATTAT
44880215 TAAAAATTA-
1 TAAAAATTAT
44880224 TAAAAATT
1 TAAAAATT
44880232 CAAAAAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 11 0.42
10 9 0.35
11 6 0.23
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TAAAAATTAT
Found at i:44880230 original size:19 final size:18
Alignment explanation
Indices: 44880189--44880385 Score: 64
Period size: 19 Copynumber: 10.3 Consensus size: 18
44880179 AATTTTAATG
44880189 AAAA-TATAAAAA-TATTA
1 AAAATTATAAAAATTA-TA
44880206 ATAAATTATTAAAAATTATA
1 A-AAATTA-TAAAAATTATA
*
44880226 AAAATTCAAAAAAATTCATA
1 AAAATT-ATAAAAATT-ATA
* *
44880246 AAATTTTATAAAAATCGTAAAA
1 AAA-ATTATAAAAAT--T-ATA
44880268 AAAATCTAT-AAAATATATA
1 AAAAT-TATAAAAAT-TATA
* * * *
44880287 GAAA-TATAGAAATACAGA
1 AAAATTATAAAAAT-TATA
* *
44880305 AAAAATAT-AAAATTTTA
1 AAAATTATAAAAATTATA
* *
44880322 TAAAGTTGTAAGAAAATTATA
1 -AAAATTAT-A-AAAATTATA
* *
44880343 AAAAATATAAAGAAATAT-
1 AAAATTATAAA-AATTATA
*
44880361 AAAATTCGTAAAGAATTATA
1 AAAATT-ATAAA-AATTATA
44880381 AAAAT
1 AAAAT
44880386 GATCGTACTA
Statistics
Matches: 133, Mismatches: 28, Indels: 35
0.68 0.14 0.18
Matches are distributed among these distances:
17 5 0.04
18 29 0.22
19 38 0.29
20 34 0.26
21 18 0.14
22 9 0.07
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.29
Consensus pattern (18 bp):
AAAATTATAAAAATTATA
Found at i:44880267 original size:68 final size:66
Alignment explanation
Indices: 44880149--44880364 Score: 167
Period size: 68 Copynumber: 3.2 Consensus size: 66
44880139 TAAATATTTG
* * *
44880149 ATAAAAA-ATAAAAA-TCAATAAAAAATATTAAATTTTAATGAAAATAT-AAAAATAT-TAATAA
1 ATAAAAATATAAAAATTC-A-AAAAAATATAAAATTTT-ATAAAAATATAAAAAAAATCT-ATAA
*
44880210 ATTAT
62 AATAT
*
44880215 -TAAAAATTATAAAAATTCAAAAAAATTCATAAAATTTTATAAAAATCGTAAAAAAAATCTATAA
1 ATAAAAA-TATAAAAATTCAAAAAAA-T-ATAAAATTTTATAAAAAT-ATAAAAAAAATCTATAA
44880279 AATAT
62 AATAT
* * * ** * * *
44880284 ATAGAAATATAGAAATACAGAAAAAATATAAAATTTTATAAAGTTGT-AAGAAAAT-TATAAAAA
1 ATAAAAATATAAAAATTCA-AAAAAATATAAAATTTTATAAAAATATAAAAAAAATCTATAAAAT
44880347 AT
65 AT
44880349 ATAAAGAAATATAAAA
1 AT-AA-AAATATAAAA
44880365 TTCGTAAAGA
Statistics
Matches: 124, Mismatches: 14, Indels: 23
0.77 0.09 0.14
Matches are distributed among these distances:
65 17 0.14
66 14 0.11
67 27 0.22
68 28 0.23
69 26 0.21
70 12 0.10
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.29
Consensus pattern (66 bp):
ATAAAAATATAAAAATTCAAAAAAATATAAAATTTTATAAAAATATAAAAAAAATCTATAAAATA
T
Found at i:44880279 original size:32 final size:30
Alignment explanation
Indices: 44880221--44880281 Score: 79
Period size: 32 Copynumber: 2.0 Consensus size: 30
44880211 TTATTAAAAA
*
44880221 TTATAAAAATTCAAAAAAATTCATAAAATT
1 TTATAAAAATTAAAAAAAATTCATAAAATT
44880251 TTATAAAAATCGTAAAAAAAA-TCTATAAAAT
1 TTATAAAAAT--TAAAAAAAATTC-ATAAAAT
44880282 ATATAGAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 10 0.37
31 2 0.07
32 15 0.56
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.31
Consensus pattern (30 bp):
TTATAAAAATTAAAAAAAATTCATAAAATT
Found at i:44880280 original size:10 final size:9
Alignment explanation
Indices: 44880189--44880385 Score: 64
Period size: 10 Copynumber: 20.6 Consensus size: 9
44880179 AATTTTAATG
44880189 AAAA-TATA
1 AAAATTATA
44880197 AAAA-TATTA
1 AAAATTA-TA
44880206 ATAAATTATTA
1 A-AAATTA-TA
44880217 AAAATTATA
1 AAAATTATA
*
44880226 AAAATTCAAA
1 AAAATT-ATA
44880236 AAAATTCATA
1 AAAATT-ATA
*
44880246 AAATTTTATA
1 AAA-ATTATA
*
44880256 AAAATCGTAAAA
1 AAAAT--T-ATA
44880268 AAAATCTAT-
1 AAAAT-TATA
44880277 AAAATATATA
1 AAAAT-TATA
*
44880287 GAAA-TATA
1 AAAATTATA
* * *
44880295 GAAATACAGA
1 AAAAT-TATA
*
44880305 AAAAATAT-
1 AAAATTATA
*
44880313 AAAATTTTA
1 AAAATTATA
* *
44880322 TAAAGTTGTAA
1 -AAAATTAT-A
44880333 GAAAATTATA
1 -AAAATTATA
*
44880343 AAAAATATA
1 AAAATTATA
*
44880352 AAGAAATAT-
1 AA-AATTATA
*
44880361 AAAATTCGTA
1 AAAATT-ATA
44880371 AAGAATTATA
1 AA-AATTATA
44880381 AAAAT
1 AAAAT
44880386 GATCGTACTA
Statistics
Matches: 145, Mismatches: 26, Indels: 35
0.70 0.13 0.17
Matches are distributed among these distances:
8 23 0.16
9 37 0.26
10 57 0.39
11 21 0.14
12 7 0.05
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.29
Consensus pattern (9 bp):
AAAATTATA
Found at i:44880359 original size:67 final size:69
Alignment explanation
Indices: 44880226--44880365 Score: 171
Period size: 67 Copynumber: 2.1 Consensus size: 69
44880216 AAAAATTATA
* * * *
44880226 AAAATTCA-AAAAAATTCATAAAATTTTATAAAAATCGTAAAAAAAATCTATAAAATATATAGAA
1 AAAATACAGAAAAAATTCATAAAATTTTATAAAAATCGTAAAAAAAATATAAAAAATATAAAGAA
44880290 ATAT
66 ATAT
* * * *
44880294 AGAAATACAGAAAAAA-T-ATAAAATTTTAT-AAAGTTGTAAGAAAATTATAAAAAATATAAAGA
1 A-AAATACAGAAAAAATTCATAAAATTTTATAAAAATCGTAAAAAAAATATAAAAAATATAAAGA
44880356 AATAT
65 AATAT
44880361 AAAAT
1 AAAAT
44880366 TCGTAAAGAA
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
66 4 0.06
67 32 0.52
68 13 0.21
69 7 0.11
70 6 0.10
ACGTcount: A:0.63, C:0.04, G:0.06, T:0.28
Consensus pattern (69 bp):
AAAATACAGAAAAAATTCATAAAATTTTATAAAAATCGTAAAAAAAATATAAAAAATATAAAGAA
ATAT
Found at i:44880381 original size:67 final size:68
Alignment explanation
Indices: 44880235--44880383 Score: 169
Period size: 67 Copynumber: 2.2 Consensus size: 68
44880225 AAAAATTCAA
* * *
44880235 AAAAATTCATAAAATTTTATAAAAATCGTAAAAAAAATCTATAAAATATATAGAAATATAGAAAT
1 AAAAATT-ATAAAATTTTATAAAAATCGTAAAAAAAATATAAAAAATATAAAGAAATATAGAAAT
44880300 ACAG
65 ACAG
* * * * * *
44880304 AAAAAATATAAAATTTTAT-AAAGTTGTAAGAAAATTATAAAAAATATAAAGAAATATA-AAATT
1 AAAAATTATAAAATTTTATAAAAATCGTAAAAAAAATATAAAAAATATAAAGAAATATAGAAATA
44880367 C-G
66 CAG
44880369 TAAAGAATTATAAAA
1 -AAA-AATTATAAAA
44880384 ATGATCGTAC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
65 1 0.01
66 8 0.12
67 41 0.60
68 12 0.18
69 6 0.09
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.28
Consensus pattern (68 bp):
AAAAATTATAAAATTTTATAAAAATCGTAAAAAAAATATAAAAAATATAAAGAAATATAGAAATA
CAG
Found at i:44880634 original size:19 final size:19
Alignment explanation
Indices: 44880576--44880635 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 19
44880566 TTTATAATTT
* *
44880576 TTTTTATGATTTGTATAAA
1 TTTTTACGATTTTTATAAA
* * *
44880595 ATTTTACAATACTTTAT-AA
1 TTTTTACGAT-TTTTATAAA
44880614 TTTTTACGATTTTTATAAA
1 TTTTTACGATTTTTATAAA
44880633 TTT
1 TTT
44880636 GTTTCTAATT
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
18 5 0.16
19 22 0.71
20 4 0.13
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (19 bp):
TTTTTACGATTTTTATAAA
Found at i:44880682 original size:21 final size:22
Alignment explanation
Indices: 44880658--44880710 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
44880648 TTAATAAATT
44880658 TTAAATTTTTTATATTT-TTTA
1 TTAAATTTTTTATATTTATTTA
* *
44880679 TTAAA-ATTTTATTTTTATTTA
1 TTAAATTTTTTATATTTATTTA
*
44880700 TTATATTTTTT
1 TTAAATTTTTT
44880711 GCCACATGTC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 9 0.35
21 13 0.50
22 4 0.15
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (22 bp):
TTAAATTTTTTATATTTATTTA
Found at i:44880686 original size:29 final size:30
Alignment explanation
Indices: 44880629--44880689 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
44880619 ACGATTTTTA
*
44880629 TAAATTTGTTTCTAATTTTTTAATAAATTT
1 TAAATTTGTTTATAATTTTTTAATAAATTT
*
44880659 TAAATTT-TTTAT-ATTTTTTATTAAAATTT
1 TAAATTTGTTTATAATTTTTTAAT-AAATTT
44880688 TA
1 TA
44880690 TTTTTATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 9 0.32
29 12 0.43
30 7 0.25
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (30 bp):
TAAATTTGTTTATAATTTTTTAATAAATTT
Found at i:44880940 original size:89 final size:87
Alignment explanation
Indices: 44880813--44881086 Score: 275
Period size: 91 Copynumber: 3.1 Consensus size: 87
44880803 GTCAAATAGC
*
44880813 CTTTTTAATGCA-TTTTACAA-TTCAAGTACCTAATTGAGTGTAAAAAAAAATCAAGGGCTTAAT
1 CTTTTTAATGCATTTTTA-AAGTTCAAGTACC-AATTGAGTG-AAAAAAAAAACAAGGGCTTAAT
44880876 TGCTTTATTTGAAAAAGTTTGAGGG
63 TGCTTTATTTGAAAAAGTTTGAGGG
* * * * *
44880901 CCTTTTAATGTATTTTTTAAAGTTCAAGTACCAATTGAGTAAAAAAAAAAAGCAGGGGCCTAATT
1 CTTTTTAATGCA-TTTTTAAAGTTCAAGTACCAATTGAGTGAAAAAAAAAA-CAAGGGCTTAATT
* ****
44880966 -TTTTATTTTTTTTTTAAGTTTGAGGG
64 GCTTTA---TTTGAAAAAGTTTGAGGG
* * * *
44880992 CATTTTTTATGCATTTTGAAAGTTCAAATACCCAATTGAGTGAAAAAAAAAACAAGAGCTTAATT
1 C-TTTTTAATGCATTTTTAAAGTTCAAGTA-CCAATTGAGTGAAAAAAAAAACAAGGGCTTAATT
* * *
44881057 GCTTTTTTTGAGAAAGCTTGAGGG
64 GCTTTATTTGAAAAAGTTTGAGGG
44881081 CTTTTT
1 CTTTTT
44881087 TACACCCTTA
Statistics
Matches: 149, Mismatches: 27, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
88 28 0.19
89 35 0.23
90 15 0.10
91 40 0.27
92 31 0.21
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (87 bp):
CTTTTTAATGCATTTTTAAAGTTCAAGTACCAATTGAGTGAAAAAAAAAACAAGGGCTTAATTGC
TTTATTTGAAAAAGTTTGAGGG
Found at i:44881056 original size:91 final size:87
Alignment explanation
Indices: 44880813--44881086 Score: 275
Period size: 89 Copynumber: 3.1 Consensus size: 87
44880803 GTCAAATAGC
* *
44880813 CTTTTTAATGCATTTTACAA-TTCAAGTACCTAATTGAGTGTAAAAAAAAATCAAGGGCTTAATT
1 CTTTTTAATGCATTTTA-AAGTTCAAGTACCCAATTGAGTG-AAAAAAAAAACAAGGGCTTAATT
44880877 GCTTTATTTGAAAAAGTTTGAGGG
64 GCTTTATTTGAAAAAGTTTGAGGG
* * * * *
44880901 CCTTTTAATGTATTTTTTAAAGTTCAAGTA-CCAATTGAGTAAAAAAAAAAAGCAGGGGCCTAAT
1 CTTTTTAATGCA--TTTTAAAGTTCAAGTACCCAATTGAGTGAAAAAAAAAA-CAAGGGCTTAAT
* ****
44880965 T-TTTTATTTTTTTTTTAAGTTTGAGGG
63 TGCTTTA---TTTGAAAAAGTTTGAGGG
* * *
44880992 CATTTTTTATGCATTTTGAAAGTTCAAATACCCAATTGAGTGAAAAAAAAAACAAGAGCTTAATT
1 C-TTTTTAATGCATTTT-AAAGTTCAAGTACCCAATTGAGTGAAAAAAAAAACAAGGGCTTAATT
* * *
44881057 GCTTTTTTTGAGAAAGCTTGAGGG
64 GCTTTATTTGAAAAAGTTTGAGGG
44881081 CTTTTT
1 CTTTTT
44881087 TACACCCTTA
Statistics
Matches: 148, Mismatches: 27, Indels: 22
0.75 0.14 0.11
Matches are distributed among these distances:
88 28 0.19
89 36 0.24
90 17 0.11
91 36 0.24
92 31 0.21
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (87 bp):
CTTTTTAATGCATTTTAAAGTTCAAGTACCCAATTGAGTGAAAAAAAAAACAAGGGCTTAATTGC
TTTATTTGAAAAAGTTTGAGGG
Found at i:44887123 original size:58 final size:58
Alignment explanation
Indices: 44887028--44887140 Score: 172
Period size: 58 Copynumber: 1.9 Consensus size: 58
44887018 CTTGGCTTCA
** * * *
44887028 ATAGATACCTTGTTCCTTTCTGAAAGGTTAGCCTTGACAAGTGAAATGGTAAGGCTGG
1 ATAGATACCTTGTTCCTTTCCAAAAGGCTAGCATTGACAAATGAAATGGTAAGGCTGG
*
44887086 ATAGATCCCTTGTTCCTTTCCAAAAGGCTAGCATTGACAAATGAAATGGTAAGGC
1 ATAGATACCTTGTTCCTTTCCAAAAGGCTAGCATTGACAAATGAAATGGTAAGGC
44887141 AGAAATTGTT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
58 49 1.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (58 bp):
ATAGATACCTTGTTCCTTTCCAAAAGGCTAGCATTGACAAATGAAATGGTAAGGCTGG
Found at i:44895244 original size:20 final size:18
Alignment explanation
Indices: 44895229--44895265 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
44895219 TCAATATCAG
44895229 TCAAT-ATTTT-TCAATA
1 TCAATCATTTTATCAATA
44895245 TCAATCATTTTATCAATA
1 TCAATCATTTTATCAATA
44895263 TCA
1 TCA
44895266 TTCAGTAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.26
17 5 0.26
18 9 0.47
ACGTcount: A:0.38, C:0.16, G:0.00, T:0.46
Consensus pattern (18 bp):
TCAATCATTTTATCAATA
Found at i:44895306 original size:36 final size:36
Alignment explanation
Indices: 44895263--44895340 Score: 120
Period size: 36 Copynumber: 2.2 Consensus size: 36
44895253 TTTATCAATA
*
44895263 TCATTCAGTAACAATCAATTATTCAGTAGCAATCAG
1 TCATTCAGTAACAATCAATTATTCAGTAACAATCAG
* * *
44895299 TTATTCAGTAATAATCAATTATTCAGTAACAGTCAG
1 TCATTCAGTAACAATCAATTATTCAGTAACAATCAG
44895335 TCATTC
1 TCATTC
44895341 GGTGCCTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (36 bp):
TCATTCAGTAACAATCAATTATTCAGTAACAATCAG
Found at i:44895340 original size:18 final size:18
Alignment explanation
Indices: 44895265--44895329 Score: 103
Period size: 18 Copynumber: 3.6 Consensus size: 18
44895255 TATCAATATC
44895265 ATTCAGTAACAATCAATT
1 ATTCAGTAACAATCAATT
* *
44895283 ATTCAGTAGCAATCAGTT
1 ATTCAGTAACAATCAATT
*
44895301 ATTCAGTAATAATCAATT
1 ATTCAGTAACAATCAATT
44895319 ATTCAGTAACA
1 ATTCAGTAACA
44895330 GTCAGTCATT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.34
Consensus pattern (18 bp):
ATTCAGTAACAATCAATT
Found at i:44895587 original size:44 final size:44
Alignment explanation
Indices: 44895497--44895588 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
44895487 CCGAAGTAAC
* * *
44895497 AGTAACAGTACGACACACATGGTGCCTCATCGACTCGAAGTTGA
1 AGTAACAATACGACACACATAGTGCCTCATCGACTCGAAGTCGA
**
44895541 AGTAACAATACGACACTTATAGTGCCTCATCGACTC-AAGGTCGA
1 AGTAACAATACGACACACATAGTGCCTCATCGACTCGAA-GTCGA
44895585 AGTA
1 AGTA
44895589 TCCCTGAACA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
43 2 0.05
44 40 0.95
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.22
Consensus pattern (44 bp):
AGTAACAATACGACACACATAGTGCCTCATCGACTCGAAGTCGA
Found at i:44896246 original size:13 final size:12
Alignment explanation
Indices: 44896220--44896260 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
44896210 AATCCCTAGT
*
44896220 TTTTCCTTTTTC
1 TTTTCTTTTTTC
44896232 TTTTCTTTTTCTC
1 TTTTCTTTTT-TC
44896245 TTTTCTTTCTTTC
1 TTTTCTTT-TTTC
44896258 TTT
1 TTT
44896261 CCCGTTTGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 9 0.35
13 15 0.58
14 2 0.08
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTCTTTTTTC
Found at i:44896316 original size:2 final size:2
Alignment explanation
Indices: 44896309--44896361 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
44896299 TTCTTTTCTT
44896309 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
44896351 TA TA TA TA TA T
1 TA TA TA TA TA T
44896362 TAGTTAATAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:44896398 original size:12 final size:13
Alignment explanation
Indices: 44896309--44896409 Score: 59
Period size: 16 Copynumber: 7.4 Consensus size: 13
44896299 TTCTTTTCTT
44896309 TATATATATATATATA
1 TATAT-TATA-ATA-A
44896325 TATATATATATATATA
1 TATAT-TATA-ATA-A
44896341 TATATATATATATATA
1 TATAT-TATA-ATA-A
44896357 TATATTAGT--TAA
1 TATATTA-TAATAA
*
44896369 TA-ATAATAATAA
1 TATATTATAATAA
44896381 TATATTATAATAA
1 TATATTATAATAA
*
44896394 T-TATTATGATAA
1 TATATTATAATAA
44896406 -ATAT
1 TATAT
44896410 CTATTTAAAT
Statistics
Matches: 77, Mismatches: 3, Indels: 14
0.82 0.03 0.15
Matches are distributed among these distances:
10 1 0.01
11 3 0.04
12 21 0.27
13 12 0.16
15 2 0.03
16 38 0.49
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (13 bp):
TATATTATAATAA
Found at i:44896968 original size:9 final size:9
Alignment explanation
Indices: 44896951--44897014 Score: 64
Period size: 9 Copynumber: 7.3 Consensus size: 9
44896941 TTAGTTTATT
44896951 TATAA-TAA
1 TATAATTAA
44896959 TATAATTAA
1 TATAATTAA
44896968 TATAATTAA
1 TATAATTAA
*
44896977 TATAATTCA
1 TATAATTAA
*
44896986 -A-AATATGA
1 TATAAT-TAA
44896994 TATAA-TAA
1 TATAATTAA
44897002 TATAATTTAA
1 TATAA-TTAA
44897012 TAT
1 TAT
44897015 TTAACCAACA
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
7 3 0.06
8 15 0.32
9 21 0.45
10 8 0.17
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (9 bp):
TATAATTAA
Found at i:44900429 original size:19 final size:19
Alignment explanation
Indices: 44900397--44900451 Score: 74
Period size: 19 Copynumber: 2.9 Consensus size: 19
44900387 ATGCGTCAAG
* * *
44900397 ATGCACTTTGTGTGCTAGT
1 ATGCACTATATGTGCCAGT
*
44900416 ATGCATTATATGTGCCAGT
1 ATGCACTATATGTGCCAGT
44900435 ATGCACTATATGTGCCA
1 ATGCACTATATGTGCCA
44900452 ATTTTCCCTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (19 bp):
ATGCACTATATGTGCCAGT
Found at i:44906908 original size:174 final size:172
Alignment explanation
Indices: 44906583--44906925 Score: 544
Period size: 174 Copynumber: 2.0 Consensus size: 172
44906573 CAAATGGGCT
* * * *
44906583 ATTTGCCCATTAGCCCTCTAACTCTAACTTATTTTCTAATTCTACTAAAATTCCTTATTTATTAT
1 ATTTGCCCATTAGCCCTCAAACTCTAACTCATTTCCTAATTCTACTAAAATTCCCTATTTATTAT
*
44906648 TTTATCAAATTGAAACCCTAACTTTCTCTATTTATACCCTAGTTTTCTATCAAAATTCTCTATTT
66 TTTATCAAATTGAAACCCTAACTCTCTCTATTTATACCCTAGTTTTCTATCAAAATTCTCTATTT
44906713 CAAAACTCTTTTAATCCCTTAAGTTCTGCTGAAAAATAACTC
131 CAAAACTCTTTTAATCCCTTAAGTTCTGCTGAAAAATAACTC
* * * *
44906755 ATTTGGCCATTAGTCCTCAAATTCTCTAAGTCATTTCCTAATTCTACTAAAATTCCCTATTTGTT
1 ATTTGCCCATTAGCCCTCAAA--CTCTAACTCATTTCCTAATTCTACTAAAATTCCCTATTTATT
* *
44906820 ATTTTATCAAATTGAAACCCTAACTCTCTCTATTTATAACCC-AGTTTTCTCTTAAAATTCTCTA
64 ATTTTATCAAATTGAAACCCTAACTCTCTCTATTTAT-ACCCTAGTTTTCTATCAAAATTCTCTA
*
44906884 TTTCAAAACTCTTTTAATCCCTTAAGTTTTGCTGAAAAATAA
128 TTTCAAAACTCTTTTAATCCCTTAAGTTCTGCTGAAAAATAA
44906926 TCTTTAAAGT
Statistics
Matches: 156, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
172 18 0.12
174 134 0.86
175 4 0.03
ACGTcount: A:0.30, C:0.22, G:0.05, T:0.43
Consensus pattern (172 bp):
ATTTGCCCATTAGCCCTCAAACTCTAACTCATTTCCTAATTCTACTAAAATTCCCTATTTATTAT
TTTATCAAATTGAAACCCTAACTCTCTCTATTTATACCCTAGTTTTCTATCAAAATTCTCTATTT
CAAAACTCTTTTAATCCCTTAAGTTCTGCTGAAAAATAACTC
Found at i:44909053 original size:8 final size:8
Alignment explanation
Indices: 44909042--44909075 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
44909032 TATATAGATG
*
44909042 TACATATA
1 TACAAATA
44909050 TACAAATA
1 TACAAATA
44909058 TACAAATA
1 TACAAATA
*
44909066 TACAGATA
1 TACAAATA
44909074 TA
1 TA
44909076 ATATATGCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.56, C:0.12, G:0.03, T:0.29
Consensus pattern (8 bp):
TACAAATA
Found at i:44909061 original size:16 final size:16
Alignment explanation
Indices: 44909042--44909081 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
44909032 TATATAGATG
44909042 TACATATATACAAATA
1 TACATATATACAAATA
* *
44909058 TACAAATATACAGATA
1 TACATATATACAAATA
44909074 TA-ATATAT
1 TACATATAT
44909082 GCTTATACAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.55, C:0.10, G:0.03, T:0.33
Consensus pattern (16 bp):
TACATATATACAAATA
Found at i:44913240 original size:13 final size:14
Alignment explanation
Indices: 44913202--44913243 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
44913192 TATGTGAATA
44913202 ATATTATTTAAAATT
1 ATATTA-TTAAAATT
*
44913217 ATAATTTTTAAAATT
1 AT-ATTATTAAAATT
44913232 -TATTATTAAAAT
1 ATATTATTAAAAT
44913244 AAAATTGAAC
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 10 0.42
16 3 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
ATATTATTAAAATT
Found at i:44913278 original size:16 final size:19
Alignment explanation
Indices: 44913259--44913308 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 19
44913249 TGAACTATTA
44913259 AATAATTTATTAA-A-AT-
1 AATAATTTATTAATATATC
44913275 AATAAATTATATTAATTATATC
1 AAT-AATT-TATTAA-TATATC
44913297 AATAATTTATTA
1 AATAATTTATTA
44913309 TATGAATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
16 3 0.11
17 4 0.14
18 6 0.21
20 6 0.21
21 6 0.21
22 3 0.11
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
AATAATTTATTAATATATC
Found at i:44914314 original size:17 final size:16
Alignment explanation
Indices: 44914283--44914326 Score: 63
Period size: 16 Copynumber: 2.7 Consensus size: 16
44914273 TTCCTCTTCA
44914283 TCCTCTATTTC-TTTTC
1 TCCTCT-TTTCTTTTTC
44914299 TCCCTCTTTTCTTTTTC
1 T-CCTCTTTTCTTTTTC
44914316 TCCTCTTTTCT
1 TCCTCTTTTCT
44914327 CTCATAAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 15 0.58
17 11 0.42
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.64
Consensus pattern (16 bp):
TCCTCTTTTCTTTTTC
Found at i:44915362 original size:43 final size:42
Alignment explanation
Indices: 44915311--44915557 Score: 250
Period size: 43 Copynumber: 5.9 Consensus size: 42
44915301 GAAGAGTGAC
* *
44915311 ATTTTATCTGCAAATATGTTGTGCATCCACAGCCCAGTGGCA
1 ATTTTATCTACAAATATGTTGTGCATCCACAACCCAGTGGCA
* * * *
44915353 GATTTTATCTACAACA-ATGTTGTGCACCCACAGCCCACTGACA
1 -ATTTTATCTACAA-ATATGTTGTGCATCCACAACCCAGTGGCA
* * * * ** *
44915396 GTTTTTATCTTCAAATATGTTGTGTATCCACAACTCAACGACA
1 -ATTTTATCTACAAATATGTTGTGCATCCACAACCCAGTGGCA
* *
44915439 ATTTTTTTCTGCAAATATGTTGTGCATCCACAACCCAGTGGCA
1 A-TTTTATCTACAAATATGTTGTGCATCCACAACCCAGTGGCA
**
44915482 A-TTTATCTACAAATATAATGTGCATCCACAACCCAGTGGTC-
1 ATTTTATCTACAAATATGTTGTGCATCCACAACCCAGTGG-CA
* *
44915523 A-TTTATCTATAAATATGTTGTGCATCCACAGCCCA
1 ATTTTATCTACAAATATGTTGTGCATCCACAACCCA
44915558 ATGGTGGTTT
Statistics
Matches: 172, Mismatches: 28, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
41 65 0.38
42 2 0.01
43 104 0.60
44 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (42 bp):
ATTTTATCTACAAATATGTTGTGCATCCACAACCCAGTGGCA
Found at i:44918516 original size:65 final size:65
Alignment explanation
Indices: 44918411--44918541 Score: 253
Period size: 65 Copynumber: 2.0 Consensus size: 65
44918401 TTCCCATATG
*
44918411 TATTCTCGATGAGCTACCAGGGTTACCTCCAAACCGTGAGGTTTAATTCAAAATTGAGTTGTTGC
1 TATTCTCGATGAGCTACCAGGGTTACCTCCAAACCATGAGGTTTAATTCAAAATTGAGTTGTTGC
44918476 TATTCTCGATGAGCTACCAGGGTTACCTCCAAACCATGAGGTTTAATTCAAAATTGAGTTGTTGC
1 TATTCTCGATGAGCTACCAGGGTTACCTCCAAACCATGAGGTTTAATTCAAAATTGAGTTGTTGC
44918541 T
1 T
44918542 GGAAACTACT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.33
Consensus pattern (65 bp):
TATTCTCGATGAGCTACCAGGGTTACCTCCAAACCATGAGGTTTAATTCAAAATTGAGTTGTTGC
Found at i:44926385 original size:18 final size:18
Alignment explanation
Indices: 44926362--44926399 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
44926352 TTCATACAAA
44926362 TTCCAGTTTAAACTAAAT
1 TTCCAGTTTAAACTAAAT
44926380 TTCCAGTTTAAACTAAAT
1 TTCCAGTTTAAACTAAAT
44926398 TT
1 TT
44926400 AACTCCCTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.16, G:0.05, T:0.42
Consensus pattern (18 bp):
TTCCAGTTTAAACTAAAT
Found at i:44933981 original size:25 final size:23
Alignment explanation
Indices: 44933953--44933998 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
44933943 ACTTTAATTA
44933953 ATATAATATATAAAATAAATTTAAC
1 ATATAATATAT-AAAT-AATTTAAC
*
44933978 ATATAATTTATAAATAATTTA
1 ATATAATATATAAATAATTTA
44933999 CTAATGCCGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 4 0.20
25 10 0.50
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (23 bp):
ATATAATATATAAATAATTTAAC
Done.