Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004722.1 Hibiscus syriacus cultivar Beakdansim tig00010648_pilon, whole genome shotgun sequence
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: 131449
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:3107 original size:21 final size:21
Alignment explanation
Indices: 2993--3135 Score: 154
Period size: 21 Copynumber: 6.8 Consensus size: 21
2983 TTGTACCAAG
*
2993 GACGAGAAGAGCATTCATCAA
1 GACGAGAAGACCATTCATCAA
*
3014 GACGAGAATG-TCATTCATCAA
1 GACGAGAA-GACCATTCATCAA
3035 GACGAGAATG-CCATTCATCAA
1 GACGAGAA-GACCATTCATCAA
*
3056 GACGAGAAGGCCATTCATCAA
1 GACGAGAAGACCATTCATCAA
*
3077 GACGAGAAGACCTTTCAT-AA
1 GACGAGAAGACCATTCATCAA
3097 CGACGAGAAGACC-TTCAT-AA
1 -GACGAGAAGACCATTCATCAA
3117 CGAC-ATGAAGACCACTTCA
1 -GACGA-GAAGACCA-TTCA
3136 CATTGGAGGT
Statistics
Matches: 112, Mismatches: 4, Indels: 11
0.88 0.03 0.09
Matches are distributed among these distances:
19 1 0.01
20 21 0.19
21 85 0.76
22 5 0.04
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.17
Consensus pattern (21 bp):
GACGAGAAGACCATTCATCAA
Found at i:8039 original size:36 final size:36
Alignment explanation
Indices: 7884--8038 Score: 231
Period size: 36 Copynumber: 4.3 Consensus size: 36
7874 AGTCAATCCT
7884 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
1 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
* * *
7920 AAGCCTTCACCGGAAAATAGTGAAGCAATCAATCTG
1 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
7956 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCAT-
1 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATC-TG
* * *
7992 AAGTCTTCACCAGAGAGTAGTGAAGCAAACCATCTG
1 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
*
8028 AAGTCTTCACC
1 AAGCCTTCACC
8039 AAAAAGTAGT
Statistics
Matches: 108, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
35 1 0.01
36 106 0.98
37 1 0.01
ACGTcount: A:0.37, C:0.25, G:0.20, T:0.19
Consensus pattern (36 bp):
AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
Found at i:8047 original size:36 final size:36
Alignment explanation
Indices: 7884--8072 Score: 195
Period size: 36 Copynumber: 5.2 Consensus size: 36
7874 AGTCAATCCT
* *
7884 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
1 AAGCCTTCACCGAAAAATAGTGAAGCAAACCATCTG
* * *
7920 AAGCCTTCACCGGAAAATAGTGAAGCAATCAATCTG
1 AAGCCTTCACCGAAAAATAGTGAAGCAAACCATCTG
* *
7956 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCAT-
1 AAGCCTTCACCGAAAAATAGTGAAGCAAACCATC-TG
* * *
7992 AAGTCTTCACC-AGAGAGTAGTGAAGCAAACCATCTG
1 AAGCCTTCACCGA-AAAATAGTGAAGCAAACCATCTG
* * * *
8028 AAGTCTTCACC-AAAAAGTAGTGAAGCAGATCCATTTT
1 AAGCCTTCACCGAAAAA-TAGTGAAGCA-AACCATCTG
8065 AAGCCTTC
1 AAGCCTTC
8073 TCAGAAGAGT
Statistics
Matches: 133, Mismatches: 15, Indels: 9
0.85 0.10 0.06
Matches are distributed among these distances:
35 3 0.02
36 116 0.87
37 14 0.11
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (36 bp):
AAGCCTTCACCGAAAAATAGTGAAGCAAACCATCTG
Found at i:8523 original size:51 final size:51
Alignment explanation
Indices: 8452--8747 Score: 315
Period size: 51 Copynumber: 5.6 Consensus size: 51
8442 TGAAGATATA
* *
8452 CGAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTAAAGATGTT
1 CGAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTAAAGATGTT
* *
8503 CGAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATG-T
1 CGAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTT-AA-AGATGTT
* * *
8555 CTGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATCTT
1 C-GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTAAAGATGTT
* * * *
8607 CGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAGCCCGTTTTCAGAAGATCATT
1 CGAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCG-TTT-A-AAGAT-GTT
* * * **
8662 CGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAACCTGTAAGAAGAAGATGTT
1 CGAGTTCCATACTCCCT-AAAGAAAGAGGGAGCGAACCCGT--TTA-AAGATGTT
* * *
8717 CGAGTTCCATAATCCCTAGAGAAATAGGGAG
1 CGAGTTCCATACTCCCTAAAGAAAGAGGGAG
8748 TAGACGCAAT
Statistics
Matches: 209, Mismatches: 25, Indels: 19
0.83 0.10 0.08
Matches are distributed among these distances:
51 78 0.37
52 10 0.05
53 43 0.21
54 17 0.08
55 35 0.17
56 26 0.12
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (51 bp):
CGAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTAAAGATGTT
Found at i:8638 original size:104 final size:105
Alignment explanation
Indices: 8443--8740 Score: 334
Period size: 104 Copynumber: 2.8 Consensus size: 105
8433 TGAAGCAAAT
* * *
8443 GAAGAT-ATACGAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTAAAGATGTTCGAG
1 GAAGATCATTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTAAAGATCTTCGAG
*
8507 TTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCG-TTT-
66 TTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTTA
* * * *
8545 GAAGA-GATGTCTGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATCTTCG
1 GAAGATCAT-TC-GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTAAAGATCTTCG
* * * *
8609 AGTTCTATACTCCCTGAAGAAAGAGGGAGCGAGCCCGTTTTCA
64 AGTTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTT-A
* * ** *
8652 GAAGATCATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAACCTGTAAGAAGAAGATGTT
1 GAAGATCATTCGAGTTCTATACTCCCT-AAAGAAAGAGGGAGCGAACCCGT--TTA-AAGATCTT
* *
8717 CGAGTTCCATAATCCCTAGAGAAA
62 CGAGTTCCATACTCCCTAAAGAAA
8741 TAGGGAGTAG
Statistics
Matches: 161, Mismatches: 24, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
102 7 0.04
103 1 0.01
104 79 0.49
105 3 0.02
106 14 0.09
107 28 0.17
108 2 0.01
110 27 0.17
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.22
Consensus pattern (105 bp):
GAAGATCATTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTAAAGATCTTCGAG
TTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTTA
Found at i:8818 original size:53 final size:55
Alignment explanation
Indices: 8736--8971 Score: 273
Period size: 55 Copynumber: 4.4 Consensus size: 55
8726 TAATCCCTAG
* * * * * *
8736 AGAAATAGGGAGTAGACGCAATTGATGAAGATTG-T-GGGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * *
8789 AGATATAGGGGGGAGACACGATAGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * *
8844 AGAAATAGGGGGCAGACGCGATTGATGAAGATTG-T-GAGTCTTATACTCTCTGG
1 AGAAATAGGGGGCAGACACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * * *
8897 AGAAATAGGGAGTAGACCCGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGA
1 AGAAATAGGGGGCAGACACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * *
8952 AGGAATAAGGAGCAGACACG
1 AGAAATAGGGGGCAGACACG
8972 TTTTCAAAAG
Statistics
Matches: 155, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
53 74 0.48
54 3 0.02
55 78 0.50
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.26
Consensus pattern (55 bp):
AGAAATAGGGGGCAGACACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
Found at i:8850 original size:108 final size:108
Alignment explanation
Indices: 8736--8968 Score: 349
Period size: 108 Copynumber: 2.2 Consensus size: 108
8726 TAATCCCTAG
* * * *
8736 AGAAATAGGGAGTAGACGCAATTGATGAAGATTGTGGGTCTTATACTCTCTGAAGATATAGGGGG
1 AGAAATAGGGAGCAGACGCAATTGATGAAGATTGTGAGTCTTATACTCTCTGAAGAAATAGGGAG
*
8801 GAGACACGATAGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
66 GAGACACGATAGTTGAAGATTGTTCGAGTCTCATACTCTCTGA
* * *
8844 AGAAATAGGGGGCAGACGCGATTGATGAAGATTGTGAGTCTTATACTCTCTGGAGAAATAGGGAG
1 AGAAATAGGGAGCAGACGCAATTGATGAAGATTGTGAGTCTTATACTCTCTGAAGAAATAGGGAG
* * *
8909 TAGACCCGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGA
66 GAGACACGATAGTTGAAGATTGTTCGAGTCTCATACTCTCTGA
* *
8952 AGGAATAAGGAGCAGAC
1 AGAAATAGGGAGCAGAC
8969 ACGTTTTCAA
Statistics
Matches: 111, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
108 111 1.00
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.27
Consensus pattern (108 bp):
AGAAATAGGGAGCAGACGCAATTGATGAAGATTGTGAGTCTTATACTCTCTGAAGAAATAGGGAG
GAGACACGATAGTTGAAGATTGTTCGAGTCTCATACTCTCTGA
Found at i:8983 original size:55 final size:54
Alignment explanation
Indices: 8605--9018 Score: 212
Period size: 55 Copynumber: 7.6 Consensus size: 54
8595 TTTGAAGATC
* * * **
8605 TTCGAGT-TCTATACTCCCTGAAGAAAGAGGGAGC-GAGCCCGTTTTCAGAAGATCA
1 TTCGAGTCTC-ATACTCTCTGAAGAAATAGGGAGCAGA-CACGTTTT-AGAAGATTG
* * * * *
8660 TTCGAGT-TCTATACT-TCCTGAAAGAAAGAGGGAGC-GA-ACCTGTAAGAAGAAGATG
1 TTCGAGTCTC-ATACTCT-CTG-AAGAAATAGGGAGCAGACACGTTTTAGAAG-A-TTG
* * * * ** *
8715 TTCGAGT-TCCATAATCCCT-AGAGAAATAGGGAGTAGACGCAATTGATGAAGATTG
1 TTCGAGTCT-CATACTCTCTGA-AGAAATAGGGAGCAGACACGTTTTA-GAAGATTG
* * * * * *
8770 -T-GGGTCTTATACTCTCTGAAGATATAGGGGGGAGACACGATAGTT-GAAGATTG
1 TTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACG-T-TTTAGAAGATTG
* * * * *
8823 TTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGATTG
1 TTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGTTTTA-GAAGATTG
* * * *
8878 -T-GAGTCTTATACTCTCTGGAGAAATAGGGAGTAGACCCGATTGTT-GAAGATTG
1 TTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACG-TT-TTAGAAGATTG
* * *
8931 TTCGAGTCTCATACTCTCTGAAGGAATAAGGAGCAGACACGTTTTCAAAAGATT-
1 TTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGTTTT-AGAAGATTG
* * *
8985 TTCAAGT-TCTATACTCCCTGAAGAAAGAGGGAGC
1 TTCGAGTCTC-ATACTCTCTGAAGAAATAGGGAGC
9019 GAACCCGTAG
Statistics
Matches: 279, Mismatches: 55, Indels: 51
0.72 0.14 0.13
Matches are distributed among these distances:
53 86 0.31
54 50 0.18
55 118 0.42
56 21 0.08
57 4 0.01
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (54 bp):
TTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGTTTTAGAAGATTG
Found at i:8983 original size:108 final size:108
Alignment explanation
Indices: 8736--9017 Score: 298
Period size: 108 Copynumber: 2.6 Consensus size: 108
8726 TAATCCCTAG
* * * * * * * * *
8736 AGAAATAGGGAGTAGACGCAATTGATGAAGATTGTGGGTCTTATACTCTCTGAAGATATAGGGGG
1 AGAAATAAGGAGCAGACACGATTCATAAAGATTGTGAGTCTTATACTCTCTGAAGAAATAGGGAG
*
8801 GAGACACGATAGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
66 GAGACACGATAGTTGAAGATTGTTCGAGTCTCATACTCTCTGA
* * * * * *
8844 AGAAATAGGGGGCAGACGCGATTGATGAAGATTGTGAGTCTTATACTCTCTGGAGAAATAGGGAG
1 AGAAATAAGGAGCAGACACGATTCATAAAGATTGTGAGTCTTATACTCTCTGAAGAAATAGGGAG
* * *
8909 TAGACCCGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGA
66 GAGACACGATAGTTGAAGATTGTTCGAGTCTCATACTCTCTGA
* * * * * *
8952 AGGAATAAGGAGCAGACACGTTTTCA-AAAGATTTTCAAGT-TCTATACTCCCTGAAGAAAGAGG
1 AGAAATAAGGAGCAGACACG-ATTCATAAAGATTGT-GAGTCT-TATACTCTCTGAAGAAATAGG
9015 GAG
63 GAG
9018 CGAACCCGTA
Statistics
Matches: 148, Mismatches: 23, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
108 121 0.82
109 27 0.18
ACGTcount: A:0.32, C:0.14, G:0.28, T:0.27
Consensus pattern (108 bp):
AGAAATAAGGAGCAGACACGATTCATAAAGATTGTGAGTCTTATACTCTCTGAAGAAATAGGGAG
GAGACACGATAGTTGAAGATTGTTCGAGTCTCATACTCTCTGA
Found at i:13316 original size:149 final size:149
Alignment explanation
Indices: 13033--13462 Score: 763
Period size: 149 Copynumber: 2.9 Consensus size: 149
13023 CTTCATAGTA
* * * *
13033 TAAAA-AATCATTATTGTCCTTAAGACGACTCATGTTCAAGTATCAATAACTACATTAAGGTGAT
1 TAAAAGAATCGTTATTGTCCTTAAGAAGACACATGTTCAAGTACCAATAACTACATTAAGGTGAT
13097 TGAGCGTTAATTATCAAATGATTAAAAATATTCTTTTGATTTTTGTTTAGTCGGTAGAGACATCA
66 TGAGCGTTAATTATCAAATGATTAAAAATATTCTTTTGATTTTTGTTTAGTCGGTAGAGACATCA
13162 ATCAACTTGTCTCAGTGAT
131 ATCAACTTGTCTCAGTGAT
* *
13181 TAAAAGAATCGTTGTTGTCCTTAAGAAGACACATGTTAAAGTACCAATAACTACATTAAGGTGAT
1 TAAAAGAATCGTTATTGTCCTTAAGAAGACACATGTTCAAGTACCAATAACTACATTAAGGTGAT
* * *
13246 TGAGCGTTAATTATCAAATGATTTAAAATATTCTTTTGATTTTTGTTTGGTCGGTAGAGACTTCA
66 TGAGCGTTAATTATCAAATGATTAAAAATATTCTTTTGATTTTTGTTTAGTCGGTAGAGACATCA
13311 ATCAACTTGTCTCAGTGAT
131 ATCAACTTGTCTCAGTGAT
*
13330 TAAAAGAATCGTCATTGTCCTTAAGAAGACACATGTTCAAGTACCAATAACTACATTAAGGTGAT
1 TAAAAGAATCGTTATTGTCCTTAAGAAGACACATGTTCAAGTACCAATAACTACATTAAGGTGAT
13395 TGAGCGTTAATTATCAAATGATTAAAAATATTCTTTTGATTTTTGTTTAGTCGGTAGAGACATCA
66 TGAGCGTTAATTATCAAATGATTAAAAATATTCTTTTGATTTTTGTTTAGTCGGTAGAGACATCA
13460 ATC
131 ATC
13463 TTAAAATTGG
Statistics
Matches: 266, Mismatches: 15, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
148 5 0.02
149 261 0.98
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.36
Consensus pattern (149 bp):
TAAAAGAATCGTTATTGTCCTTAAGAAGACACATGTTCAAGTACCAATAACTACATTAAGGTGAT
TGAGCGTTAATTATCAAATGATTAAAAATATTCTTTTGATTTTTGTTTAGTCGGTAGAGACATCA
ATCAACTTGTCTCAGTGAT
Found at i:13607 original size:23 final size:23
Alignment explanation
Indices: 13581--13635 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
13571 GTTTTTGTCC
*
13581 TTGTGACACACTTTTCTTTACTT
1 TTGTGACACACTTTTCTCTACTT
**
13604 TTGTGACATGCTTTTCTCTACTT
1 TTGTGACACACTTTTCTCTACTT
13627 TTGTGACAC
1 TTGTGACAC
13636 GTTTCACATG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.16, C:0.22, G:0.13, T:0.49
Consensus pattern (23 bp):
TTGTGACACACTTTTCTCTACTT
Found at i:14918 original size:22 final size:22
Alignment explanation
Indices: 14890--14943 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
14880 TTTTTAGTGA
14890 CAAGCTAAAATGTTACTTTGTC
1 CAAGCTAAAATGTTACTTTGTC
14912 CAAGCTAAAATGTTACTTTGTC
1 CAAGCTAAAATGTTACTTTGTC
*
14934 CAAACTAAAA
1 CAAGCTAAAA
14944 AATTATGTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (22 bp):
CAAGCTAAAATGTTACTTTGTC
Found at i:16059 original size:2 final size:2
Alignment explanation
Indices: 16015--16039 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16005 AATTCATAAA
16015 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 A
16040 ACAAAATTGA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17937 original size:3 final size:3
Alignment explanation
Indices: 17929--17970 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
17919 AGATGAGGGG
* * *
17929 ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA ATG ATC ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
17971 GGGTTTCCAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:25793 original size:56 final size:55
Alignment explanation
Indices: 25627--25803 Score: 196
Period size: 56 Copynumber: 3.1 Consensus size: 55
25617 TTTGATTGAG
* * *
25627 ATGATGTT-TTCAAATAAACTTTCAAAGAAGCTAAGTCTAATTTTCAGAGGTTTCTTGAC
1 ATGAT-TTCTTCAAATGAA-TTTTAAAGAAGCTAAGTCTAATTTTCAGA-GTTTCTT--T
* *
25686 ATGATGTCTTCAAATGAATTTTAAAGAAACTAAGTTCT-ATTTTCAGAAGTTTCTTT
1 ATGATTTCTTCAAATGAATTTTAAAGAAGCTAAG-TCTAATTTTCAG-AGTTTCTTT
* * *
25742 ATGATTTCTTCAAATGATTTTTTAAAGAAGCTAAGTCTAATTTTTAGAGTTTTTTT
1 ATGATTTCTTCAAATGA-ATTTTAAAGAAGCTAAGTCTAATTTTCAGAGTTTCTTT
25798 ATGATT
1 ATGATT
25804 ACTCAGTCAA
Statistics
Matches: 103, Mismatches: 10, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
56 33 0.32
57 22 0.21
58 30 0.29
59 18 0.17
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.44
Consensus pattern (55 bp):
ATGATTTCTTCAAATGAATTTTAAAGAAGCTAAGTCTAATTTTCAGAGTTTCTTT
Found at i:26574 original size:20 final size:20
Alignment explanation
Indices: 26512--26574 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
26502 CAAAAGAATG
*
26512 GTTCATAATGGGAAGAACTCA
1 GTTCATAATGAGAAGAACT-A
**
26533 -TTC--AATGAGAAAGAAGAA
1 GTTCATAATGAG-AAGAACTA
*
26551 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTA
26571 GTTC
1 GTTC
26575 GAAACTCGGC
Statistics
Matches: 32, Mismatches: 6, Indels: 9
0.68 0.13 0.19
Matches are distributed among these distances:
18 6 0.19
19 8 0.25
20 12 0.38
21 6 0.19
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.25
Consensus pattern (20 bp):
GTTCATAATGAGAAGAACTA
Found at i:26599 original size:116 final size:115
Alignment explanation
Indices: 26394--26837 Score: 453
Period size: 116 Copynumber: 3.8 Consensus size: 115
26384 TTCGAGGAAG
*** * * * *
26394 GGTTCGTAATGAGAAGAGA-TTGTCCAACGAGGAATAAAAAGTTCATTTATGAGAAGAACTTGTT
1 GGTTCGTAATGAGAAGA-ACTCACCCAATGAGGAAGAAGAAGTTCA-TAATGAGAAGAACTTGTT
* * ** * *
26458 CGAAAATCGGCATTTCCGTCACACAAGGAGATATATCAATATTTCAAAAGAAT
64 CGAAACTCGACACATCCGTCACACAAGGAGATA-ATCAAAATTTCAGAAGAAT
* * ** *
26511 GGTTCATAATGGGAAGAACTCATTCAATGAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCG
1 GGTTCGTAATGAGAAGAACTCACCCAATGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCG
* * * * *
26576 AAACTCGGCACATCCGTCACACAAGGGGATGAATTAACATTTCAGAAGAAA
66 AAACTCGACACATCCGTCACACAAGGAGAT-AATCAAAATTTCAGAAGAAT
* * * *
26627 GGTTTGTAATGAGAAAAACTCACCCAATGAGGAAGAA-AGAGTTCATAATGAGAAGAATTTTTTC
1 GGTTCGTAATGAGAAGAACTCACCCAATGAGGAAGAAGA-AGTTCATAATGAGAAGAACTTGTTC
* * * * * * *
26691 GGAACTCAACAGATCAGTCATACAAGGAGATGGATCAACAATTT-TGAAGAAT
65 GAAACTCGACACATCCGTCACACAAGGAGAT-AATCAA-AATTTCAGAAGAAT
* * *
26743 GCTTCGTAATGAGAAGAACTCAGCCAATGAGGAAGAAGAATTTCATAATGAGAAGAACTTGTTCG
1 GGTTCGTAATGAGAAGAACTCACCCAATGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCG
* *
26808 AAACTCGACACATCCGTCACAAAAGAAGAT
66 AAACTCGACACATCCGTCACACAAGGAGAT
26838 TGTAATGAGA
Statistics
Matches: 269, Mismatches: 53, Indels: 11
0.81 0.16 0.03
Matches are distributed among these distances:
115 1 0.00
116 228 0.85
117 40 0.15
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.23
Consensus pattern (115 bp):
GGTTCGTAATGAGAAGAACTCACCCAATGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCG
AAACTCGACACATCCGTCACACAAGGAGATAATCAAAATTTCAGAAGAAT
Found at i:26849 original size:91 final size:91
Alignment explanation
Indices: 26748--26916 Score: 284
Period size: 91 Copynumber: 1.9 Consensus size: 91
26738 AGAATGCTTC
* * * *
26748 GTAATGAGAAGAACTCAGCCAATGAGGAAGAAGAATTTCATAATGAGAAGAACTTGTTCGAAACT
1 GTAATGAGAAGAACTCACCCAATGAGAAAGAAGAAATTCATAATGAAAAGAACTTGTTCGAAACT
26813 CGACACATCCGTCACAAAAGAAGATT
66 CGACACATCCGTCACAAAAGAAGATT
*
26839 GTAATGAGAAGAACTCACCCAATGAGAAAGAAGAAATTCATAATGAAAAGAACTTGTTCGGAACT
1 GTAATGAGAAGAACTCACCCAATGAGAAAGAAGAAATTCATAATGAAAAGAACTTGTTCGAAACT
*
26904 CGACACATTCGTC
66 CGACACATCCGTC
26917 GCGCAAAGAG
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
91 72 1.00
ACGTcount: A:0.43, C:0.17, G:0.20, T:0.20
Consensus pattern (91 bp):
GTAATGAGAAGAACTCACCCAATGAGAAAGAAGAAATTCATAATGAAAAGAACTTGTTCGAAACT
CGACACATCCGTCACAAAAGAAGATT
Found at i:26985 original size:207 final size:207
Alignment explanation
Indices: 26630--27029 Score: 554
Period size: 207 Copynumber: 1.9 Consensus size: 207
26620 GAAGAAAGGT
* * * * *
26630 TTGTAATGAGAAAAACTCACCCAATGAGGAAGAAAGAGTTCATAATGAGAAGAATTTTTTCGGAA
1 TTGTAATGAGAAAAACTCACCCAATGAGAAAGAAAGAATTCATAATGAAAAGAACTTGTTCGGAA
* * * * * * *
26695 CTCAACAGATCAGTCATACAAGGAGATGGATCAACAATTTTGAAGAATGCTTCGTAATGAGAAGA
66 CTCAACACATCAGTCACACAAAGAGATGGATCAACAATTCTGAAGAAGGCTTCATAACGAGAAGA
* *
26760 ACTCAGCCAATGAGGAAGAAGAATTTCATAATGAGAAGAACTTGTTCGAAACTCGACACATCCGT
131 ACTCACCCAATGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCGAAACTCGACACATCCGT
26825 CACAAAAGAAGA
196 CACAAAAGAAGA
*
26837 TTGTAATGAGAAGAACTCACCCAATGAGAAAG-AAGAAATTCATAATGAAAAGAACTTGTTCGGA
1 TTGTAATGAGAAAAACTCACCCAATGAGAAAGAAAG-AATTCATAATGAAAAGAACTTGTTCGGA
* * * * *
26901 ACTCGACACATTC-GTCGCGCAAAGAGATGGATCAA-AGTCTCTGAAGAAGGGTTCATAACGAGA
65 ACTCAACACA-TCAGTCACACAAAGAGATGGATCAACAAT-TCTGAAGAAGGCTTCATAACGAGA
* *
26964 AGAACTCACCCAATGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCGGAACTCGACACATC
128 AGAACTCACCCAATGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCGAAACTCGACACATC
27029 C
193 C
27030 ATCATACAAG
Statistics
Matches: 168, Mismatches: 22, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
206 5 0.03
207 161 0.96
208 2 0.01
ACGTcount: A:0.41, C:0.17, G:0.21, T:0.21
Consensus pattern (207 bp):
TTGTAATGAGAAAAACTCACCCAATGAGAAAGAAAGAATTCATAATGAAAAGAACTTGTTCGGAA
CTCAACACATCAGTCACACAAAGAGATGGATCAACAATTCTGAAGAAGGCTTCATAACGAGAAGA
ACTCACCCAATGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCGAAACTCGACACATCCGT
CACAAAAGAAGA
Found at i:27064 original size:116 final size:116
Alignment explanation
Indices: 26827--27087 Score: 303
Period size: 116 Copynumber: 2.3 Consensus size: 116
26817 ACATCCGTCA
* *
26827 CAAAAGAAGA-TT-GTAATGAGAAGAACTCACCCAATGAGAAAGAAGAAATTCATAATGAAAAGA
1 CAAAAGAAGAGTTCATAACGAGAAGAACTCACCCAATGAGAAAGAAGAAATTCATAATGAAAAGA
* * * * * *
26890 ACTTGTTCGGAACTCGACACATTCGTCGCGCAAAGAGATGGATCAAAGTCT
66 ACTTGTTCGGAACTCGACACATCCATCACACAAAGAGATAGACCAAAGTCT
** * * * *
26941 CTGAAGAAGGGTTCATAACGAGAAGAACTCACCCAATGAGGAAGAAGAAGTTCATAATGAGAAGA
1 CAAAAGAAGAGTTCATAACGAGAAGAACTCACCCAATGAGAAAGAAGAAATTCATAATGAAAAGA
* * * * *
27006 ATTTGTTCGGAACTCGACACATCCATCATACAAGGAGATATACCAACA-TTT
66 ACTTGTTCGGAACTCGACACATCCATCACACAAAGAGATAGACCAA-AGTCT
* *
27057 CAAAAGAAGAGTTCATAATGAGAATAACTCA
1 CAAAAGAAGAGTTCATAACGAGAAGAACTCA
27088 TACGACGAAG
Statistics
Matches: 120, Mismatches: 24, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
114 7 0.06
115 2 0.02
116 110 0.92
117 1 0.01
ACGTcount: A:0.43, C:0.17, G:0.20, T:0.20
Consensus pattern (116 bp):
CAAAAGAAGAGTTCATAACGAGAAGAACTCACCCAATGAGAAAGAAGAAATTCATAATGAAAAGA
ACTTGTTCGGAACTCGACACATCCATCACACAAAGAGATAGACCAAAGTCT
Found at i:27323 original size:139 final size:138
Alignment explanation
Indices: 27063--27364 Score: 378
Period size: 139 Copynumber: 2.2 Consensus size: 138
27053 ATTTCAAAAG
* *
27063 AAGAGTTCATAATGAGAATAACTCATACGACGAAGGGTTCATAATGAGAAGAACTCGTCCAACAA
1 AAGAGTTCATAATGAGAAGAACTCATACGACGAAGGGTTCATAATGAGAAGAACTCATCCAACAA
* * * * * **
27128 TAGATAATAACTTCGTAATGAGAAGAGCTTGTTCAACCTGGAATCGTTCATTACACAAGGAGGTG
66 GAGAGAATAACTTCGTAATGAGAAGAACTTGTTCAACCTGGAATCGATCATTACACAAAGAAATG
*
27193 GATAAATA
131 GATAAACA
*
27201 AAGAGTTCATAATGAGAAGAACTTAT-CTGACGAAGGGGTTCATAATGAGAAGAACTCATCCAAC
1 AAGAGTTCATAATGAGAAGAACTCATAC-GACGAA-GGGTTCATAATGAGAAGAACTCATCCAAC
* * *
27265 GAG-GAAGAATAAGTTCGTAATGAGAAGAACTTGTTCAACCTGGGATC-ATC-TGTCACACAAAG
64 AAGAG-AGAATAACTTCGTAATGAGAAGAACTTGTTCAACCTGGAATCGATCAT-T-ACACAAAG
* *
27327 AAATGGATTAACG
126 AAATGGATAAACA
*
27340 AAGAGTTTATAATGAGAAGAACTCA
1 AAGAGTTCATAATGAGAAGAACTCA
27365 CAAAAAATAA
Statistics
Matches: 141, Mismatches: 18, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
137 2 0.01
138 34 0.24
139 105 0.74
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.23
Consensus pattern (138 bp):
AAGAGTTCATAATGAGAAGAACTCATACGACGAAGGGTTCATAATGAGAAGAACTCATCCAACAA
GAGAGAATAACTTCGTAATGAGAAGAACTTGTTCAACCTGGAATCGATCATTACACAAAGAAATG
GATAAACA
Found at i:35445 original size:2 final size:2
Alignment explanation
Indices: 35438--35462 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
35428 GTTTATTATG
35438 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 T
35463 GCTCATCAAT
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:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:35890 original size:2 final size:2
Alignment explanation
Indices: 35883--35910 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
35873 AGCCTATGTA
35883 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
35911 GCTCATCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36194 original size:20 final size:21
Alignment explanation
Indices: 36169--36226 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
36159 GGATTTATTA
36169 TTATGGATTT-AAGTTTGTTG
1 TTATGGATTTAAAGTTTGTTG
36189 TTATGGATTTAAAGTTTGTTG
1 TTATGGATTTAAAGTTTGTTG
* *
36210 TTATGGATGTCAAGTTT
1 TTATGGATTTAAAGTTT
36227 ATTGGATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
20 10 0.29
21 25 0.71
ACGTcount: A:0.22, C:0.02, G:0.24, T:0.52
Consensus pattern (21 bp):
TTATGGATTTAAAGTTTGTTG
Found at i:36647 original size:37 final size:37
Alignment explanation
Indices: 36606--36715 Score: 161
Period size: 37 Copynumber: 3.0 Consensus size: 37
36596 AACATAACAT
36606 TAGAGTTCTACTAAGATTCAAACTCCTAAAAATAGGA
1 TAGAGTTCTACTAAGATTCAAACTCCTAAAAATAGGA
* * *
36643 TAGAGTTTTACTAGGATTC-AACTTCT-AAAATAGGA
1 TAGAGTTCTACTAAGATTCAAACTCCTAAAAATAGGA
* *
36678 TAAAGTTCTACTATGATTCAAACTCCTAAAAATAGGA
1 TAGAGTTCTACTAAGATTCAAACTCCTAAAAATAGGA
36715 T
1 T
36716 CCAAGCATTA
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
35 25 0.39
36 12 0.19
37 27 0.42
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.31
Consensus pattern (37 bp):
TAGAGTTCTACTAAGATTCAAACTCCTAAAAATAGGA
Found at i:36690 original size:35 final size:37
Alignment explanation
Indices: 36609--36715 Score: 155
Period size: 35 Copynumber: 2.9 Consensus size: 37
36599 ATAACATTAG
*
36609 AGTTCTACTAAGATTCAAACTCCTAAAAATAGGATAG
1 AGTTCTACTAAGATTCAAACTCCTAAAAATAGGATAA
* * *
36646 AGTTTTACTAGGATTC-AACTTCT-AAAATAGGATAA
1 AGTTCTACTAAGATTCAAACTCCTAAAAATAGGATAA
*
36681 AGTTCTACTATGATTCAAACTCCTAAAAATAGGAT
1 AGTTCTACTAAGATTCAAACTCCTAAAAATAGGAT
36716 CCAAGCATTA
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
35 25 0.41
36 12 0.20
37 24 0.39
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (37 bp):
AGTTCTACTAAGATTCAAACTCCTAAAAATAGGATAA
Found at i:37322 original size:33 final size:33
Alignment explanation
Indices: 37262--37340 Score: 99
Period size: 35 Copynumber: 2.4 Consensus size: 33
37252 TATATATATA
*
37262 ATATATATATATGTTTTTTTATCTGTTTTATTCAT
1 ATATATATATATGATTTTTTA-CTGTTTTATT-AT
*
37297 TTATATATATACT-ATTTTTTA-TGTTTTATTAT
1 ATATATATATA-TGATTTTTTACTGTTTTATTAT
37329 ATATATATATAT
1 ATATATATATAT
37341 ATATATATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
31 1 0.03
32 12 0.30
33 9 0.22
35 17 0.43
36 1 0.03
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (33 bp):
ATATATATATATGATTTTTTACTGTTTTATTAT
Found at i:37390 original size:46 final size:46
Alignment explanation
Indices: 37340--37434 Score: 124
Period size: 46 Copynumber: 2.1 Consensus size: 46
37330 TATATATATA
37340 TATATATATTTTT-TACCTTTTTTATT-A-TTTTATTATTTGTTTTATT
1 TATATATATTTTTCT-CCTTTTTT-TTAATTTTTATTATTT-TTTTATT
* *
37386 TATATATATTTTTCTTCTTTTTTTTAATTTTTTTTATTTTTTTATT
1 TATATATATTTTTCTCCTTTTTTTTAATTTTTATTATTTTTTTATT
37432 TAT
1 TAT
37435 TTTACTCACT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
45 2 0.05
46 31 0.70
47 11 0.25
ACGTcount: A:0.20, C:0.04, G:0.01, T:0.75
Consensus pattern (46 bp):
TATATATATTTTTCTCCTTTTTTTTAATTTTTATTATTTTTTTATT
Found at i:37437 original size:9 final size:8
Alignment explanation
Indices: 37358--37438 Score: 54
Period size: 9 Copynumber: 9.0 Consensus size: 8
37348 TTTTTTACCT
37358 TTTTTATTA
1 TTTTT-TTA
*
37367 TTTTATTA
1 TTTTTTTA
37375 TTTGTTTTA
1 TTT-TTTTA
*
37384 TTTATATATA
1 TTT-T-TTTA
*
37394 TTTTTCTTCT
1 TTTTT-TT-A
37404 TTTTTTTAA
1 TTTTTTT-A
37413 TTTTTTTTA
1 -TTTTTTTA
37422 TTTTTTTA
1 TTTTTTTA
37430 TTTATTTTA
1 TTT-TTTTA
37439 CTCACTATTT
Statistics
Matches: 58, Mismatches: 8, Indels: 12
0.74 0.10 0.15
Matches are distributed among these distances:
8 18 0.31
9 22 0.38
10 18 0.31
ACGTcount: A:0.19, C:0.02, G:0.01, T:0.78
Consensus pattern (8 bp):
TTTTTTTA
Found at i:37511 original size:31 final size:32
Alignment explanation
Indices: 37458--37526 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 32
37448 TTATCTTTGC
* *
37458 TTTCTTTATCTTATCTTTTATTTAATTTGTTT-
1 TTTCTTTATCTTATATTTTATTT-ATTTATTTA
*
37490 TTTCTTTATTTTA-ATTTTATTTATTTATTTA
1 TTTCTTTATCTTATATTTTATTTATTTATTTA
37521 TTTCTT
1 TTTCTT
37527 ACCTTTTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 7 0.21
31 14 0.42
32 12 0.36
ACGTcount: A:0.17, C:0.07, G:0.01, T:0.74
Consensus pattern (32 bp):
TTTCTTTATCTTATATTTTATTTATTTATTTA
Found at i:41386 original size:95 final size:92
Alignment explanation
Indices: 41271--41514 Score: 287
Period size: 95 Copynumber: 2.7 Consensus size: 92
41261 TATAATATTA
*
41271 TATATATACAATAAATCTTGAGTCGTGCCTCTAGAGCAATTGGTTAAACGCCTCGGCTTTATGGA
1 TATATATACAATAAAGCTTGAGTCGT-CCTCTAGAGCAATTGGTTAAACGCCTCGGCTTTATGGA
* *
41336 TAATATTCAGCTAGCCTGATAAAGGTAAT
65 TAAGATTCAGCTAACCTGATAAAGGT-AT
*
41365 TATACTATACAATAAAGCTTGAG-CTGTCCCTCTA-AGGCAATTGGTTAAACGCC-CTAGCTTTA
1 TATA-TATACAATAAAGCTTGAGTC-GT-CCTCTAGA-GCAATTGGTTAAACGCCTC-GGCTTTA
*
41427 TGGATAAGATTCAGCTAACCTGATAAAGGTGT
61 TGGATAAGATTCAGCTAACCTGATAAAGGTAT
*
41459 T-TATAT---ATTAAG-TT--GTC--CCTCTAGAGCAATTGGTTAAACGCCTCGGCTTTATGGAT
1 TATATATACAATAAAGCTTGAGTCGTCCTCTAGAGCAATTGGTTAAACGCCTCGGCTTTATGGAT
41515 CCAGCTAGCC
Statistics
Matches: 135, Mismatches: 8, Indels: 25
0.80 0.05 0.15
Matches are distributed among these distances:
83 34 0.25
84 2 0.01
86 1 0.01
87 1 0.01
88 2 0.01
89 5 0.04
92 3 0.02
93 2 0.01
94 9 0.07
95 76 0.56
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.32
Consensus pattern (92 bp):
TATATATACAATAAAGCTTGAGTCGTCCTCTAGAGCAATTGGTTAAACGCCTCGGCTTTATGGAT
AAGATTCAGCTAACCTGATAAAGGTAT
Found at i:42877 original size:84 final size:83
Alignment explanation
Indices: 42615--44086 Score: 1358
Period size: 84 Copynumber: 17.9 Consensus size: 83
42605 ATTTTTTCTG
* * * * * *
42615 TTTGCAGCATAACTCAAGGCTAGAAGGGTTATTTGCCAACCAAAGACCTTTGAGTTCGACTATGC
1 TTTGCAGCATAACTTAAGGCGAGAAGGGTTATCTG-TAACCAAAGACCTTCGAGTTCGACTACGC
*
42680 TAAGCTCCAAGGCACATCA
65 TCAGCTCCAAGGCACATCA
* * * * *
42699 TTTGCAGCATAGCTTAAGTCGAGAAGGGATATCT-T--CCAAAGATCC-TCGAGTTCGATTACAC
1 TTTGCAGCATAACTTAAGGCGAGAAGGGTTATCTGTAACCAAAGA-CCTTCGAGTTCGACTACGC
* *
42760 TCAGCTTCGAGGGCACATCA
65 TCAGC-TCCAAGGCACATCA
* * * *
42780 TTTACATCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAAGACCTTCGAGTTCGACTACGC
1 TTTGCAGCATAACTTAAGGCGAGAAGGGTTATCTGTAACC-AAAGACCTTCGAGTTCGACTACGC
*
42845 TCAGCTCCAAGGCATATCA
65 TCAGCTCCAAGGCACATCA
* *** * * *
42864 TTTACAGCATAACTTAAGTAAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTTGACTATGC
1 TTTGCAGCATAACTTAAGGCGAGAAGGGTTATCTG-TAACCAAAGACCTTCGAGTTCGACTACGC
*
42929 TCAGCTCCAAGG--TA-CA
65 TCAGCTCCAAGGCACATCA
* * * * * *
42945 --TGCAACATAGCTTAAGTCGAGAAGGGCTATC--T-ACCAAAGACAC-TCGAGTTCGATTACAC
1 TTTGCAGCATAACTTAAGGCGAGAAGGGTTATCTGTAACCAAAGAC-CTTCGAGTTCGACTACGC
* *
43004 TCAGCTTCGAGGGCACATCA
65 TCAGC-TCCAAGGCACATCA
* * * * * * *
43024 TTTACAACATAACTCAAGGCTAGAACGATTATCTGTAACCAAAAGACCTTCGAGTTCCACTACGC
1 TTTGCAGCATAACTTAAGGCGAGAAGGGTTATCTGTAACC-AAAGACCTTCGAGTTCGACTACGC
* *
43089 CCAGCTCCAAGGCATATCA
65 TCAGCTCCAAGGCACATCA
** * * *
43108 TTTGCAGCATAACTTAAGTTGAGAAGGGTTATTTGCCAACCAAAGACCTTCAAGTTCGACTACGC
1 TTTGCAGCATAACTTAAGGCGAGAAGGGTTATCTG-TAACCAAAGACCTTCGAGTTCGACTACGC
43173 TCAGCTCCAAGGCACATCA
65 TCAGCTCCAAGGCACATCA
* * * *
43192 TTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTG---CCAAAGATCCTT-GAGTTCGATTACAC
1 TTTGCAGCATAACTTAAGGCGAGAAGGGTTATCTGTAACCAAAGA-CCTTCGAGTTCGACTACGC
* *
43253 TCAGCTTCGAGGGCACATCA
65 TCAGC-TCCAAGGCACATCA
* * * *
43273 TTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAAGACCTTCGAGTTCG---ACGC
1 TTTGCAGCATAACTTAAGGCGAGAAGGGTTATCTGTAACC-AAAGACCTTCGAGTTCGACTACGC
*
43335 TCAGCTCCAAGGCATATCA
65 TCAGCTCCAAGGCACATCA
** * * * *
43354 TTTGCAGCATAACTTAAGTAGAGAAGGGTTATCTGCCAACTAAAGACCTTTGAGTTTGACTACGC
1 TTTGCAGCATAACTTAAGGCGAGAAGGGTTATCTG-TAACCAAAGACCTTCGAGTTCGACTACGC
*
43419 TTAGCTCCAAGGCACATCA
65 TCAGCTCCAAGGCACATCA
* * * * *
43438 TTTGCAACATAGCTTAAGTCGAGAA-GG------G--ACCAAAGACAC-TCGAGTTCGATTACAC
1 TTTGCAGCATAACTTAAGGCGAGAAGGGTTATCTGTAACCAAAGAC-CTTCGAGTTCGACTACGC
* *
43493 TCAGCTTCGAGGGCACATCA
65 TCAGC-TCCAAGGCACATCA
* * * * *
43513 TTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAAGACCTTCGAGTTTGACTATGC
1 TTTGCAGCATAACTTAAGGCGAGAAGGGTTATCTGTAACC-AAAGACCTTCGAGTTCGACTACGC
*
43578 TCAGCTCCAAGGCATATCA
65 TCAGCTCCAAGGCACATCA
* * * * * * *
43597 TTTACAGTATAACTTAAGTCGAGAAGGGTTAT-TTTCCAACCAAAGACCTTAGAGTTCGATTACA
1 TTTGCAGCATAACTTAAGGCGAGAAGGGTTATCTGT--AACCAAAGACCTTCGAGTTCGACTACG
* *
43661 CTCAGCTTCGAGGGCACATCA
64 CTCAGC-TCCAAGGCACATCA
* * * *
43682 TTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGGAACCAAAAGACCTTCGAGTTCGACTACGC
1 TTTGCAGCATAACTTAAGGCGAGAAGGGTTATCTGTAACC-AAAGACCTTCGAGTTCGACTACGC
*
43747 TCAGCTCCAAGGCATATCA
65 TCAGCTCCAAGGCACATCA
* * *
43766 TTTGCAGCATAACTTAAGTCGAGAAGGGTTAT-TTTCCAACCAAAGACCTTCGAGTTCAACTACG
1 TTTGCAGCATAACTTAAGGCGAGAAGGGTTATCTGT--AACCAAAGACCTTCGAGTTCGACTACG
**
43830 CTCAGCTCCAAGGTGCATCA
64 CTCAGCTCCAAGGCACATCA
* * * * * *
43850 TTTGCAGCATAGCTTAAGTCGAGAAGGGATATCTG---CCAAAGACCCTCGAGTTCGATTACACT
1 TTTGCAGCATAACTTAAGGCGAGAAGGGTTATCTGTAACCAAAGACCTTCGAGTTCGACTACGCT
* *
43912 CAGCTTCGAGGGCACATCA
66 CAGC-TCCAAGGCACATCA
** * * * * *
43931 TTTATAGCATAACTCAAGGCAAAAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCCACTACGC
1 TTTGCAGCATAACTTAAGGCGAGAAGGGTTATCTGTAACC-AAAGACCTTCGAGTTCGACTACGC
*
43996 TCAGCTCCAAGGCATATCA
65 TCAGCTCCAAGGCACATCA
* * ** * * * * *
44015 TTTGCAACATAGCTTAAGTTGAGAAGGGTTATCTGCCAACCGAAGACCTTCAAGTTCGATTACAC
1 TTTGCAGCATAACTTAAGGCGAGAAGGGTTATCTG-TAACCAAAGACCTTCGAGTTCGACTACGC
44080 TCAGCTC
65 TCAGCTC
44087 AGAGGCAAAC
Statistics
Matches: 1121, Mismatches: 208, Indels: 118
0.77 0.14 0.08
Matches are distributed among these distances:
74 24 0.02
75 58 0.05
76 8 0.01
77 1 0.00
78 1 0.00
79 27 0.02
80 73 0.07
81 203 0.18
82 15 0.01
83 6 0.01
84 512 0.46
85 192 0.17
86 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (83 bp):
TTTGCAGCATAACTTAAGGCGAGAAGGGTTATCTGTAACCAAAGACCTTCGAGTTCGACTACGCT
CAGCTCCAAGGCACATCA
Found at i:43751 original size:169 final size:168
Alignment explanation
Indices: 42619--44086 Score: 1180
Period size: 165 Copynumber: 8.9 Consensus size: 168
42609 TTTCTGTTTG
* * * * * ** *
42619 CAGCATAACTCAAGGCTAGAAGGGTTATTTGCCAACCAAAGACCTTTGAGTTCGACTATGCTAAG
1 CAGCATAACTTAAGTCGAGAAGGGTTATTTTCCAACCAAAGACCTTCGAGTTCGACTACACTCAG
* * * * * * * * *
42684 C-TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGATATCT---TCCAAAGATCC-
66 CTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGGAACCAAAGA-CCT
* * * *
42744 TCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTA
130 TCGAGTTCGACTACACTCAGC-TCCAAGGCATATCATTTA
* * * * * *
42784 CATCATAACTCAAGGCTAGAAGGGTTATCTGT--AACCAAAAGACCTTCGAGTTCGACTACGCTC
1 CAGCATAACTTAAGTCGAGAAGGGTTAT-TTTCCAACC-AAAGACCTTCGAGTTCGACTACACTC
* * * * *** *
42847 AGC-TCCAAGGCATATCATTTACAGCATAACTTAAGTAAAGAAGGGTTATCTGCCAACCAAAGAC
64 AGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG-GAACCAAAGAC
* ** *
42911 CTTCGAGTTTGACTATGCTCAGCTCCAAGG--TA-CA--TG
128 CTTCGAGTTCGACTACACTCAGCTCCAAGGCATATCATTTA
* * * * *
42947 CAACATAGCTTAAGTCGAGAAGGGCTA---T-CTACCAAAGACAC-TCGAGTTCGATTACACTCA
1 CAGCATAACTTAAGTCGAGAAGGGTTATTTTCCAACCAAAGAC-CTTCGAGTTCGACTACACTCA
* * * *
43007 GCTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAACGATTATCTGTAACCAAAAGACC
65 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGGAACC-AAAGACC
* * * *
43072 TTCGAGTTCCACTACGCCCAGCTCCAAGGCATATCATTTG
129 TTCGAGTTCGACTACACTCAGCTCCAAGGCATATCATTTA
* * * *
43112 CAGCATAACTTAAGTTGAGAAGGGTTATTTGCCAACCAAAGACCTTCAAGTTCGACTACGCTCAG
1 CAGCATAACTTAAGTCGAGAAGGGTTATTTTCCAACCAAAGACCTTCGAGTTCGACTACACTCAG
* * * * * * *
43177 C-TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCT-G--CCAAAGATCCT
66 CTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGGAACCAAAGA-CCT
* * * *
43238 T-GAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTA
130 TCGAGTTCGACTACACTCAGC-TCCAAGGCATATCATTTA
* * * * * *
43277 CAGTATAACTCAAGGCTAGAAGGGTTATCTGT--AACCAAAAGACCTTCGAGTTCG---ACGCTC
1 CAGCATAACTTAAGTCGAGAAGGGTTAT-TTTCCAACC-AAAGACCTTCGAGTTCGACTACACTC
* * * * * *** * *
43337 AGC-TCCAAGGCATATCATTTGCAGCATAACTTAAGTAGAGAAGGGTTATCTGCCAACTAAAGAC
64 AGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG-GAACCAAAGAC
* * * * * *
43401 CTTTGAGTTTGACTACGCTTAGCTCCAAGGCACATCATTTG
128 CTTCGAGTTCGACTACACTCAGCTCCAAGGCATATCATTTA
* * *
43442 CAACATAGCTTAAGTCGAGAAGGG----------ACCAAAGACAC-TCGAGTTCGATTACACTCA
1 CAGCATAACTTAAGTCGAGAAGGGTTATTTTCCAACCAAAGAC-CTTCGAGTTCGACTACACTCA
*
43496 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAAGACC
65 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGGAACC-AAAGACC
* **
43561 TTCGAGTTTGACTATGCTCAGCTCCAAGGCATATCATTTA
129 TTCGAGTTCGACTACACTCAGCTCCAAGGCATATCATTTA
* * *
43601 CAGTATAACTTAAGTCGAGAAGGGTTATTTTCCAACCAAAGACCTTAGAGTTCGATTACACTCAG
1 CAGCATAACTTAAGTCGAGAAGGGTTATTTTCCAACCAAAGACCTTCGAGTTCGACTACACTCAG
43666 CTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGGAACCAAAAGACCT
66 CTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGGAACC-AAAGACCT
* *
43731 TCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTG
130 TCGAGTTCGACTACACTCAGCTCCAAGGCATATCATTTA
* *
43770 CAGCATAACTTAAGTCGAGAAGGGTTATTTTCCAACCAAAGACCTTCGAGTTCAACTACGCTCAG
1 CAGCATAACTTAAGTCGAGAAGGGTTATTTTCCAACCAAAGACCTTCGAGTTCGACTACACTCAG
* * * * * * * * *
43835 CTCCAAGGTG--CATCATTTGCAGCATAGCTTAAGTCGAGAAGGGATATCT-G--CCAAAGACCC
66 CTTCGAGG-GCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGGAACCAAAGACCT
* * * *
43895 TCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTA
130 TCGAGTTCGACTACACTCAGC-TCCAAGGCATATCATTTA
* * * * * * * *
43935 TAGCATAACTCAAGGCAAAAAGGGTTATCTGT-C-ACCAAAAGACCTTCGAGTTCCACTACGCTC
1 CAGCATAACTTAAGTCGAGAAGGGTTAT-TTTCCAACC-AAAGACCTTCGAGTTCGACTACACTC
* * * * * * * * * *
43998 AGC-TCCAAGGCATATCATTTGCAACATAGCTTAA-GTTGAGAAGGGTTATCTGCCAACCGAAGA
64 AGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCT-AGAAGGGTTATCTG-GAACCAAAGA
* *
44061 CCTTCAAGTTCGATTACACTCAGCTC
127 CCTTCGAGTTCGACTACACTCAGCTC
44087 AGAGGCAAAC
Statistics
Matches: 1082, Mismatches: 163, Indels: 113
0.80 0.12 0.08
Matches are distributed among these distances:
155 15 0.01
156 4 0.00
158 11 0.01
159 134 0.12
160 75 0.07
162 56 0.05
163 25 0.02
164 60 0.06
165 318 0.29
166 26 0.02
167 1 0.00
168 82 0.08
169 274 0.25
170 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (168 bp):
CAGCATAACTTAAGTCGAGAAGGGTTATTTTCCAACCAAAGACCTTCGAGTTCGACTACACTCAG
CTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGGAACCAAAGACCTT
CGAGTTCGACTACACTCAGCTCCAAGGCATATCATTTA
Found at i:43885 original size:658 final size:652
Alignment explanation
Indices: 42619--44085 Score: 1997
Period size: 658 Copynumber: 2.2 Consensus size: 652
42609 TTTCTGTTTG
* * * *
42619 CAGCATAACTCAAGGCTAGAAGGGTTATTTGCCAACC-AAAGACCTTTGAGTTCGACTATGCTAA
1 CAGCATAACTCAAGGCTAGAAGGGTTATCTG-TAACCAAAAGACCTTCGAGTTCGAC---GCTCA
* * * *
42683 GCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGATATCT-TC--CAAAGATCC-
62 GCTCCAAGGCATATCATTTGCAGCATAGCTTAAGTAGAGAAGGGTTATCTGCCAACAAAGA-CCT
* * * * *
42744 TCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACATCATAACTCAAGGCTAGAAGGGT
126 TCGAGTTCGACTACACTCAGCTTCCAAGGCACATCATTTACAACATAACTCAAGGCGAGAAGGG-
* *
42809 TATCTGTAACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTACAGCAT
190 ----TG-AACCAAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAGCAT
* *
42874 AACTTAAGTAAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTTGACTATGCTCAGCTCCAA
250 AACTCAAGGAAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTTGACTATGCTCAGCTCCAA
* * * *
42939 GGTACATGCAACATAGCTTAAGTCGAGAAGGGCTATCTACCAAAGACACTCGAGTTCGATTACAC
315 GGTACATACAACATAACTTAAGTCGAGAAGGGCTATCAACCAAAGACACTAGAGTTCGATTACAC
*
43004 TCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAACGATTATCTGTAACCAAAAG
380 TCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAACGATTATCTGGAACCAAAAG
*
43069 ACCTTCGAGTTCCACTACGCCCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTTGAGAAG
445 ACCTTCGAGTTCCACTACGCCCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAG
*
43134 GGTTATTTGCCAACCAAAGACCTTCAAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAG
510 GGTTATTTGCCAACCAAAGACCTTCAAGTTCAACTACGCTCAGCTCCAAGGCACATCATTTGCAG
* * *
43199 CATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGATCCTTGAGTTCGATTACACTCAGCTTCGAG
575 CATAGCTTAAGTCGAGAAGGGATATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAG
43264 GGCACATCATTTA
640 GGCACATCATTTA
*
43277 CAGTATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAAGACCTTCGAGTTCGACGCTCAGCTC
1 CAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAAGACCTTCGAGTTCGACGCTCAGCTC
* *
43342 CAAGGCATATCATTTGCAGCATAACTTAAGTAGAGAAGGGTTATCTGCCAACTAAAGACCTTTGA
66 CAAGGCATATCATTTGCAGCATAGCTTAAGTAGAGAAGGGTTATCTGCCAAC-AAAGACCTTCGA
* * * * * * *
43407 GTTTGACTACGCTTAGC-TCCAAGGCACATCATTTGCAACATAGCTTAAGTCGAGAA-GG-G-AC
130 GTTCGACTACACTCAGCTTCCAAGGCACATCATTTACAACATAACTCAAGGCGAGAAGGGTGAAC
* * *
43468 C-AAAGACAC-TCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAG
195 CAAAAGAC-CTTCGAGTTCGACTACACTCAGC-TCCAAGGCACATCATTTACAGCATAACTCAAG
** *
43531 GCTAGAAGGGTTATCTG-TAACCAAAAGACCTTCGAGTTTGACTATGCTCAGCTCCAAGGCATAT
258 GAAAGAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTTGACTATGCTCAGCTCCAAGG--TA-
** *
43595 CATTTACAGTATAACTTAAGTCGAGAAGGGTTATTTTCCAACCAAAGAC-CTTAGAGTTCGATTA
319 CA--TACAACATAACTTAAGTCGAGAAGGGCTA---T-CAACCAAAGACAC-TAGAGTTCGATTA
* * *
43659 CACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGGAACCAA
377 CACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAACGATTATCTGGAACCAA
* *
43724 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAG
442 AAGACCTTCGAGTTCCACTACGCCCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAG
* * **
43789 AAGGGTTATTTTCCAACCAAAGACCTTCGAGTTCAACTACGCTCAGCTCCAAGGTGCATCATTTG
507 AAGGGTTATTTGCCAACCAAAGACCTTCAAGTTCAACTACGCTCAGCTCCAAGGCACATCATTTG
43854 CAGCATAGCTTAAGTCGAGAAGGGATATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTC
572 CAGCATAGCTTAAGTCGAGAAGGGATATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTC
43919 GAGGGCACATCATTTA
637 GAGGGCACATCATTTA
* * * * *
43935 TAGCATAACTCAAGGCAAAAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCCACTACGCTCAG
1 CAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAAGACCTTCGAGTT---CGACGCTCAG
* * *
44000 CTCCAAGGCATATCATTTGCAACATAGCTTAAGTTGAGAAGGGTTATCTGCCAACCGAAGACCTT
63 CTCCAAGGCATATCATTTGCAGCATAGCTTAAGTAGAGAAGGGTTATCTGCCAA-CAAAGACCTT
* *
44065 CAAGTTCGATTACACTCAGCT
127 CGAGTTCGACTACACTCAGCT
44086 CAGAGGCAAA
Statistics
Matches: 714, Mismatches: 71, Indels: 44
0.86 0.09 0.05
Matches are distributed among these distances:
648 29 0.04
649 82 0.11
651 3 0.00
652 2 0.00
654 24 0.03
655 50 0.07
656 1 0.00
657 8 0.01
658 411 0.58
659 21 0.03
661 82 0.11
662 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (652 bp):
CAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAAGACCTTCGAGTTCGACGCTCAGCTC
CAAGGCATATCATTTGCAGCATAGCTTAAGTAGAGAAGGGTTATCTGCCAACAAAGACCTTCGAG
TTCGACTACACTCAGCTTCCAAGGCACATCATTTACAACATAACTCAAGGCGAGAAGGGTGAACC
AAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGAA
AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTTGACTATGCTCAGCTCCAAGGTACATACAA
CATAACTTAAGTCGAGAAGGGCTATCAACCAAAGACACTAGAGTTCGATTACACTCAGCTTCGAG
GGCACATCATTTACAACATAACTCAAGGCTAGAACGATTATCTGGAACCAAAAGACCTTCGAGTT
CCACTACGCCCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATTTGCC
AACCAAAGACCTTCAAGTTCAACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAG
TCGAGAAGGGATATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATT
TA
Found at i:45263 original size:2 final size:2
Alignment explanation
Indices: 45258--45303 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
45248 TTTAGATTAC
45258 AT 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 AT
45300 AT AT
1 AT AT
45304 GTTATTTTTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:45319 original size:9 final size:9
Alignment explanation
Indices: 45305--45472 Score: 55
Period size: 9 Copynumber: 17.9 Consensus size: 9
45295 TATATATATG
45305 TTATTTTTA
1 TTATTTTTA
45314 TTATTTGTT-
1 TTATTT-TTA
45323 TTATTAATTTA
1 TTATT--TTTA
45334 TATATATATTTA
1 T-TAT-T-TTTA
*
45346 CTATTTTT-
1 TTATTTTTA
*
45354 TATGTTTTTA
1 T-TATTTTTA
*
45364 TTTATTATATA
1 -TTATT-TTTA
* *
45375 TATATATATA
1 T-TATTTTTA
45385 TTATTTTTA
1 TTATTTTTA
*
45394 CT-TTTTTA
1 TTATTTTTA
45402 TTA-TTTTA
1 TTATTTTTA
45410 TTTATTTGTT-
1 -TTATTT-TTA
*
45420 TTATTTATA
1 TTATTTTTA
*
45429 -TATTTTTTC
1 TTA-TTTTTA
* *
45438 TTCTTTTTCT
1 TTATTTTT-A
45448 TTATTTTT-
1 TTATTTTTA
45456 TATATTTTTA
1 T-TATTTTTA
45466 -TATTTTT
1 TTATTTTT
45473 TTAATCATTA
Statistics
Matches: 122, Mismatches: 16, Indels: 43
0.67 0.09 0.24
Matches are distributed among these distances:
8 23 0.19
9 52 0.43
10 24 0.20
11 14 0.11
12 8 0.07
13 1 0.01
ACGTcount: A:0.23, C:0.03, G:0.02, T:0.72
Consensus pattern (9 bp):
TTATTTTTA
Found at i:45339 original size:41 final size:41
Alignment explanation
Indices: 45289--45393 Score: 135
Period size: 39 Copynumber: 2.6 Consensus size: 41
45279 TATATATATA
* *
45289 TATATATATATATATGTTATTTTTATTATTTGTTTTATTAAT
1 TATATATATATATATATTATTTTTATTATGT-TTTTATTAAT
* * *
45331 T-TATATATATATTTACTA-TTTT-TTATGTTTTTATTTAT
1 TATATATATATATATATTATTTTTATTATGTTTTTATTAAT
45369 TATATATATATATATATTATTTTTA
1 TATATATATATATATATTATTTTTA
45394 CTTTTTTATT
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
38 10 0.19
39 20 0.38
40 8 0.15
41 14 0.26
42 1 0.02
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (41 bp):
TATATATATATATATATTATTTTTATTATGTTTTTATTAAT
Found at i:45369 original size:4 final size:4
Alignment explanation
Indices: 45322--45568 Score: 59
Period size: 4 Copynumber: 60.8 Consensus size: 4
45312 TATTATTTGT
* * * *
45322 TTTA TTAA TTTA TATA TATA TTTA -CTA TTT- TTTA TGTT- TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA
* * * *
45368 TTATA TATA TATA TATA TTATT TTTA CTTT- TTTA -TTA TTTTA TTTA
1 TT-TA TTTA TTTA TTTA TT-TA TTTA -TTTA TTTA TTTA -TTTA TTTA
* * * * * *
45414 TTTGT TTTA TTTA TATA TTT- TTTC TTCTT TTTC TTTA TTT- TTTA TATTT
1 TTT-A TTTA TTTA TTTA TTTA TTTA TT-TA TTTA TTTA TTTA TTTA T-TTA
* * * * *
45463 TTATA TTTT TTTA ATCA -TTA TTTTA TCTT- TGT- TTTC TTTA TCTTA
1 TT-TA TTTA TTTA TTTA TTTA -TTTA T-TTA TTTA TTTA TTTA T-TTA
* * * *
45508 TCT- TTTA TTTAA TTTG TTT- TTTC TTCA TTTTAA TTTTA TTTA TTTA
1 TTTA TTTA TTT-A TTTA TTTA TTTA TTTA -TTT-A -TTTA TTTA TTTA
45554 TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTT
45569 CTTACATTTT
Statistics
Matches: 184, Mismatches: 33, Indels: 52
0.68 0.12 0.19
Matches are distributed among these distances:
3 29 0.16
4 108 0.59
5 42 0.23
6 5 0.03
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:45406 original size:41 final size:39
Alignment explanation
Indices: 45289--45407 Score: 125
Period size: 41 Copynumber: 2.9 Consensus size: 39
45279 TATATATATA
* *
45289 TATATATATATATATGTTATTTTTATTATTTGTTTTATTAAT
1 TATATATATATATATATTATTTTTA-T-TTT-TTTTATTTAT
* * *
45331 T-TATATATATATTTACTATTTTT-TATGTTTTTATTTAT
1 TATATATATATATATATTATTTTTAT-TTTTTTTATTTAT
45369 TATATATATATATATATTATTTTTACTTTTTTATTATTT
1 TATATATATATATATATTATTTTTA-TTTTTT-TTATTT
45408 TATTTATTTG
Statistics
Matches: 65, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
38 10 0.15
39 24 0.37
40 4 0.06
41 26 0.40
42 1 0.02
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (39 bp):
TATATATATATATATATTATTTTTATTTTTTTTATTTAT
Found at i:45429 original size:46 final size:45
Alignment explanation
Indices: 45329--45470 Score: 132
Period size: 46 Copynumber: 3.1 Consensus size: 45
45319 TGTTTTATTA
* *
45329 ATTTATATA-TATATTTACTATTTTTTATGT-TTTTATTTATTATATAT
1 ATTTATATATTATTTTTAC--TTTTTTAT-TATTTTATTTATT-TTTAT
* *
45376 ATATATATATTATTTTTACTTTTTTATTATTTTATTTATTTGTTTT
1 ATTTATATATTATTTTTACTTTTTTATTATTTTATTTATTT-TTAT
*
45422 ATTTATATATT-TTTTCTTCTTTTTCT-TTATTTT-TTATATTTTTAT
1 ATTTATATATTATTTT-TACTTTTT-TATTATTTTATT-TATTTTTAT
45467 ATTT
1 ATTT
45471 TTTTAATCAT
Statistics
Matches: 82, Mismatches: 7, Indels: 14
0.80 0.07 0.14
Matches are distributed among these distances:
45 15 0.18
46 50 0.61
47 9 0.11
48 8 0.10
ACGTcount: A:0.24, C:0.04, G:0.01, T:0.71
Consensus pattern (45 bp):
ATTTATATATTATTTTTACTTTTTTATTATTTTATTTATTTTTAT
Found at i:45436 original size:37 final size:37
Alignment explanation
Indices: 45395--45475 Score: 96
Period size: 37 Copynumber: 2.2 Consensus size: 37
45385 TTATTTTTAC
45395 TTTTTTAT-TATTTTATTTATTTGTTT-TATTTATATAT
1 TTTTTTATCT-TTTTATTTATTT-TTTATATTTATATAT
* *
45432 TTTTTCT-TCTTTTTCTTTATTTTTTATATTTTTATAT
1 TTTTT-TATCTTTTTATTTATTTTTTATATTTATATAT
45469 TTTTTTA
1 TTTTTTA
45476 ATCATTATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
36 4 0.11
37 32 0.84
38 2 0.05
ACGTcount: A:0.17, C:0.04, G:0.01, T:0.78
Consensus pattern (37 bp):
TTTTTTATCTTTTTATTTATTTTTTATATTTATATAT
Found at i:45488 original size:37 final size:40
Alignment explanation
Indices: 45401--45488 Score: 92
Period size: 38 Copynumber: 2.2 Consensus size: 40
45391 TTACTTTTTT
* * **
45401 ATTATTTTATTTATTTGTTTTATTTATATATTTTTTCTTC
1 ATTATTTTATTTATTTATATTATTTATATATTTTTTAATC
* *
45441 TTTTTCTTTATTT-TTTATATT-TTTATAT-TTTTTTAATC
1 ATTAT-TTTATTTATTTATATTATTTATATATTTTTTAATC
45479 ATTATTTTAT
1 ATTATTTTAT
45489 CTTTGTTTTC
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
37 5 0.13
38 11 0.28
39 7 0.18
40 9 0.23
41 7 0.18
ACGTcount: A:0.20, C:0.05, G:0.01, T:0.74
Consensus pattern (40 bp):
ATTATTTTATTTATTTATATTATTTATATATTTTTTAATC
Found at i:45498 original size:52 final size:56
Alignment explanation
Indices: 45390--45503 Score: 139
Period size: 52 Copynumber: 2.1 Consensus size: 56
45380 ATATATTATT
* * * *
45390 TTTACTTTTTTATTATTTTATTTATTTGTTTTATTTATATATTTTTTCTTCTTTTTC
1 TTTA-TTTTTTATTATTTTATATATTTGTTTTAATCATATATTTTATCTTCTTTTTC
45447 TTTATTTTTTA-TATTTT-TATATTT-TTTTAATCAT-TATTTTATCTT-TGTTTTC
1 TTTATTTTTTATTATTTTATATATTTGTTTTAATCATATATTTTATCTTCT-TTTTC
45499 TTTAT
1 TTTAT
45504 CTTATCTTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
51 1 0.02
52 20 0.38
53 8 0.15
54 6 0.12
55 6 0.12
56 7 0.13
57 4 0.08
ACGTcount: A:0.18, C:0.06, G:0.02, T:0.75
Consensus pattern (56 bp):
TTTATTTTTTATTATTTTATATATTTGTTTTAATCATATATTTTATCTTCTTTTTC
Found at i:46658 original size:25 final size:25
Alignment explanation
Indices: 46630--46677 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
46620 TGAACTTAAT
46630 TTAT-ATATATTAATTATTAATTTGA
1 TTATAATATA-TAATTATTAATTTGA
* *
46655 TTATAATTTATAATTATTTATTT
1 TTATAATATATAATTATTAATTT
46678 TAATAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (25 bp):
TTATAATATATAATTATTAATTTGA
Found at i:55807 original size:17 final size:18
Alignment explanation
Indices: 55776--55814 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
55766 AGAAAACGAT
55776 ACAACTAAAAAAATAAAA
1 ACAACTAAAAAAATAAAA
*
55794 ACAACT-AAATAATAAAA
1 ACAACTAAAAAAATAAAA
55811 ACAA
1 ACAA
55815 TTTGAACAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.74, C:0.13, G:0.00, T:0.13
Consensus pattern (18 bp):
ACAACTAAAAAAATAAAA
Found at i:55848 original size:26 final size:26
Alignment explanation
Indices: 55781--55858 Score: 72
Period size: 26 Copynumber: 3.0 Consensus size: 26
55771 ACGATACAAC
* *
55781 TAAAAAAATAA-AAACAACTAAATAA
1 TAAAAAATTAAGAAACAAATAAATAA
* *
55806 TAAAAACAATT-TG-AACAATTAAATAA
1 T-AAAA-AATTAAGAAACAAATAAATAA
55832 TAAAAAATTAAGAAACAAAATAAATAA
1 TAAAAAATTAAGAAAC-AAATAAATAA
55859 AAATTCTATA
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
24 4 0.10
25 6 0.14
26 20 0.48
27 12 0.29
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.21
Consensus pattern (26 bp):
TAAAAAATTAAGAAACAAATAAATAA
Found at i:55890 original size:19 final size:19
Alignment explanation
Indices: 55852--55890 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
55842 AGAAACAAAA
*
55852 TAAATAAAAATTCTATAAT
1 TAAATAAAAATTCTACAAT
55871 TAAATAAAAACTT-TACAAT
1 TAAATAAAAA-TTCTACAAT
55890 T
1 T
55891 GCTGGTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (19 bp):
TAAATAAAAATTCTACAAT
Found at i:56041 original size:3 final size:3
Alignment explanation
Indices: 56033--56072 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
56023 CTCCTCACTC
* * *
56033 TCA TCA TCA TCG TCA TCA TCA TCA TAA TCA TCA TAA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
56073 GAGTAGATAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.28, G:0.03, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:63107 original size:17 final size:17
Alignment explanation
Indices: 63074--63107 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
63064 TTGACTCGAA
*
63074 TGAACTCGAATTGAGTT
1 TGAACTCGAATTAAGTT
*
63091 TGAACTCGACTTAAGTT
1 TGAACTCGAATTAAGTT
63108 CTTAACGAGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (17 bp):
TGAACTCGAATTAAGTT
Found at i:68811 original size:2 final size:2
Alignment explanation
Indices: 68800--68881 Score: 157
Period size: 2 Copynumber: 41.5 Consensus size: 2
68790 TTTCAGGTAA
68800 TC TC -C TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
68841 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
68882 TTATTTTATT
Statistics
Matches: 79, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
1 1 0.01
2 78 0.99
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:69477 original size:11 final size:12
Alignment explanation
Indices: 69461--69502 Score: 52
Period size: 11 Copynumber: 3.6 Consensus size: 12
69451 TATCGGATGA
69461 TTAAAAT-GAAT
1 TTAAAATAGAAT
*
69472 TTAAAATATAAT
1 TTAAAATAGAAT
69484 CTTAAAATAGAA-
1 -TTAAAATAGAAT
69496 TTAAAAT
1 TTAAAAT
69503 GTAACCTTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 14 0.52
12 3 0.11
13 10 0.37
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (12 bp):
TTAAAATAGAAT
Found at i:69489 original size:24 final size:24
Alignment explanation
Indices: 69461--69511 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
69451 TATCGGATGA
*
69461 TTAAAAT-GAATTTAAAATATAATC
1 TTAAAATAGAA-TTAAAATATAACC
*
69485 TTAAAATAGAATTAAAATGTAACC
1 TTAAAATAGAATTAAAATATAACC
69509 TTA
1 TTA
69512 GATATAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 21 0.88
25 3 0.12
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (24 bp):
TTAAAATAGAATTAAAATATAACC
Found at i:71086 original size:24 final size:25
Alignment explanation
Indices: 71042--71095 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 25
71032 TTGACCCTAA
*
71042 ATTA-TTTTAGAATATAAAATATTT
1 ATTATTTTTAGAATATAAAATAATT
*
71066 TTTATTTTTA-AA-ATAATAATAATT
1 ATTATTTTTAGAATATAA-AATAATT
71090 ATTATT
1 ATTATT
71096 CTCTCTTCTC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 4 0.16
24 16 0.64
25 5 0.20
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (25 bp):
ATTATTTTTAGAATATAAAATAATT
Found at i:71463 original size:21 final size:22
Alignment explanation
Indices: 71437--71478 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
71427 CCAAAAATGT
*
71437 TAAAAACAT-TAATGTTTTAGA
1 TAAAAAAATATAATGTTTTAGA
71458 TAAAAAAATAATAATGTTTTA
1 TAAAAAAAT-ATAATGTTTTA
71479 ATTAATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
23 10 0.56
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.38
Consensus pattern (22 bp):
TAAAAAAATATAATGTTTTAGA
Found at i:72555 original size:54 final size:55
Alignment explanation
Indices: 72478--72590 Score: 156
Period size: 54 Copynumber: 2.1 Consensus size: 55
72468 TCTCTCTCAA
* * *
72478 TTTCTTTTTTCTCTTCTGCGTTTCATTCTCTGCTCCTCCTC-TCTCAATTTTTTC
1 TTTCCTTTTTCTCTTATGCGTTTCATTCTCTCCTCCTCCTCTTCTCAATTTTTTC
* * * *
72532 TTTCCTTTTTCTCTTATGTGTTTCATTCTCTCCTCCTCTTCTTTTTAATTTTTTC
1 TTTCCTTTTTCTCTTATGCGTTTCATTCTCTCCTCCTCCTCTTCTCAATTTTTTC
72587 TTTC
1 TTTC
72591 TTTCTCTTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
54 36 0.71
55 15 0.29
ACGTcount: A:0.06, C:0.28, G:0.04, T:0.61
Consensus pattern (55 bp):
TTTCCTTTTTCTCTTATGCGTTTCATTCTCTCCTCCTCCTCTTCTCAATTTTTTC
Found at i:74381 original size:92 final size:92
Alignment explanation
Indices: 74224--74407 Score: 341
Period size: 92 Copynumber: 2.0 Consensus size: 92
74214 TTAGCCTCTC
* *
74224 GGTTTATGTATATGATATTGAGTTCAGGTTTGTTGACAGGTGCCTCAAAAGCTTCTTTGAGCAAT
1 GGTTTATGTATATGATATTGAGTTCAGGTTTGTTGACAGGGGCCTCAAAAGCTTATTTGAGCAAT
74289 AATCTAATGACTGACAGATCAACATGA
66 AATCTAATGACTGACAGATCAACATGA
74316 GGTTTATGTATATGATATTGAGTTCAGGTTTGTTGACAGGGGCCTCAAAAGCTTATTTGAGCAAT
1 GGTTTATGTATATGATATTGAGTTCAGGTTTGTTGACAGGGGCCTCAAAAGCTTATTTGAGCAAT
*
74381 AATCTAATGACTGGCAGATCAACATGA
66 AATCTAATGACTGACAGATCAACATGA
74408 CGACTAATGA
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 89 1.00
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (92 bp):
GGTTTATGTATATGATATTGAGTTCAGGTTTGTTGACAGGGGCCTCAAAAGCTTATTTGAGCAAT
AATCTAATGACTGACAGATCAACATGA
Found at i:75479 original size:24 final size:25
Alignment explanation
Indices: 75411--75479 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
75401 CAATATACAA
* *
75411 TCGTAACTGCTTAAACTAAACACAG
1 TCGTAACTGCTAAAACTGAACACAG
**
75436 TCGTAACTGCTAAAACTGAACGTAG
1 TCGTAACTGCTAAAACTGAACACAG
75461 TCGTAACTGC-AAAACTGAA
1 TCGTAACTGCTAAAACTGAA
75480 TGCAACCTTG
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
24 9 0.22
25 31 0.77
ACGTcount: A:0.39, C:0.22, G:0.16, T:0.23
Consensus pattern (25 bp):
TCGTAACTGCTAAAACTGAACACAG
Found at i:76249 original size:21 final size:21
Alignment explanation
Indices: 76223--76275 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
76213 GTGGGAGCGT
76223 CTGGTGCATCGATGCATAAGG
1 CTGGTGCATCGATGCATAAGG
76244 CTGGTGCATCGATGCATAAGG
1 CTGGTGCATCGATGCATAAGG
*
76265 CTAGTGCATCG
1 CTGGTGCATCG
76276 GTACACTATG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.25
Consensus pattern (21 bp):
CTGGTGCATCGATGCATAAGG
Found at i:76408 original size:64 final size:64
Alignment explanation
Indices: 76340--76526 Score: 179
Period size: 64 Copynumber: 2.9 Consensus size: 64
76330 TACACTGATA
* *
76340 GTGCATCGATGCATAAATAT-ACTTCGATGTTTTGAA-AAAGCCTGG-GTGCATCGATGCATGGC
1 GTGCATCGATGCATAAA-ATCAATTCGATGTTTT-AATAAA-CATGGAGTGCATCGATGCATGG-
76402 T-T
62 TAT
* * *
76404 GTGCATCGGTGCATAAAATCAATTCGATGTTTTAATATATATGGAGTGCATCGATGCATGGTAT
1 GTGCATCGATGCATAAAATCAATTCGATGTTTTAATAAACATGGAGTGCATCGATGCATGGTAT
* * * * * *
76468 GTGCATCGATACACAAAAGCCATTCGATG-TTCAATTAAAACAAGG-GTGCATCGATGCAT
1 GTGCATCGATGCATAAAATCAATTCGATGTTTTAA-T-AAACATGGAGTGCATCGATGCAT
76527 TGATTCATGC
Statistics
Matches: 103, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
63 12 0.12
64 86 0.83
65 5 0.05
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (64 bp):
GTGCATCGATGCATAAAATCAATTCGATGTTTTAATAAACATGGAGTGCATCGATGCATGGTAT
Found at i:76919 original size:3 final size:3
Alignment explanation
Indices: 76907--76942 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
76897 CAAAAACATT
76907 TTA TTA -TA TTA TTTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
76943 ATGTATATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 26 0.84
4 3 0.10
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:76927 original size:15 final size:15
Alignment explanation
Indices: 76907--76955 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
76897 CAAAAACATT
76907 TTATTATATTATTTA
1 TTATTATATTATTTA
76922 TTATTATTATTA-TTA
1 TTATTA-TATTATTTA
*
76937 TTATTA-ATGTATATA
1 TTATTATAT-TATTTA
76952 TTAT
1 TTAT
76956 AATCATTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
13 2 0.07
14 2 0.07
15 21 0.70
16 5 0.17
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (15 bp):
TTATTATATTATTTA
Found at i:78652 original size:12 final size:11
Alignment explanation
Indices: 78635--78768 Score: 62
Period size: 11 Copynumber: 11.5 Consensus size: 11
78625 TTGGTCCTTC
78635 TATTTATTTATT
1 TATTTATTT-TT
78647 TATTTAATTTTT
1 TATTT-ATTTTT
78659 TA-TTATTTTTCT
1 TATTTA-TTTT-T
* *
78671 TTTTTACTAACTTT
1 TATTTA-T--TTTT
78685 TATTTATCTTTGT
1 TATTTAT-TTT-T
* * *
78698 TATCTGTTTTA
1 TATTTATTTTT
78709 T-TTTATTATTT
1 TATTTATT-TTT
78720 TA-TTATTTTAT
1 TATTTATTTT-T
78731 TA-TTATTTTT
1 TATTTATTTTT
*
78741 TTTTTATTTTT
1 TATTTATTTTT
78752 TCATATT-TTTTT
1 T-AT-TTATTTTT
78764 TATTT
1 TATTT
78769 TACAATATAA
Statistics
Matches: 95, Mismatches: 14, Indels: 28
0.69 0.10 0.20
Matches are distributed among these distances:
10 11 0.12
11 36 0.38
12 23 0.24
13 17 0.18
14 6 0.06
15 2 0.02
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.75
Consensus pattern (11 bp):
TATTTATTTTT
Found at i:78667 original size:8 final size:8
Alignment explanation
Indices: 78641--78770 Score: 63
Period size: 8 Copynumber: 15.5 Consensus size: 8
78631 CTTCTATTTA
78641 TTTATTTAT
1 TTTA-TTAT
*
78650 TTAATT-T
1 TTTATTAT
78657 TTTATTAT
1 TTTATTAT
*
78665 TTT-TCTTT
1 TTTAT-TAT
*
78673 TTTACTAACT
1 TTTA-TTA-T
78683 TTTATTTAT
1 TTTA-TTAT
*
78692 CTTTGTTAT
1 -TTTATTAT
78701 CTGTT-TTAT
1 -T-TTATTAT
78710 TTTATTAT
1 TTTATTAT
78718 TTTATTAT
1 TTTATTAT
78726 TTTATTAT
1 TTTATTAT
* *
78734 TATTTTTTT
1 T-TTATTAT
78743 TTTATT-T
1 TTTATTAT
78750 TTTCA-TATT
1 TTT-ATTA-T
*
78759 TTTTTTAT
1 TTTATTAT
78767 TTTA
1 TTTA
78771 CAATATAACA
Statistics
Matches: 95, Mismatches: 13, Indels: 27
0.70 0.10 0.20
Matches are distributed among these distances:
7 14 0.15
8 42 0.44
9 26 0.27
10 13 0.14
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.75
Consensus pattern (8 bp):
TTTATTAT
Found at i:78733 original size:11 final size:10
Alignment explanation
Indices: 78711--78769 Score: 59
Period size: 10 Copynumber: 5.7 Consensus size: 10
78701 CTGTTTTATT
78711 TTATTATTTTA
1 TTATT-TTTTA
78722 TTATTTTATTA
1 TTATTTT-TTA
*
78733 TTATTTTTTTT
1 TTA-TTTTTTA
78744 TTATTTTTTCA
1 TTATTTTTT-A
78755 -TATTTTTT-
1 TTATTTTTTA
78763 TTATTTT
1 TTATTTT
78770 ACAATATAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
9 6 0.14
10 16 0.38
11 16 0.38
12 4 0.10
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.80
Consensus pattern (10 bp):
TTATTTTTTA
Found at i:78747 original size:22 final size:22
Alignment explanation
Indices: 78704--78764 Score: 74
Period size: 21 Copynumber: 2.9 Consensus size: 22
78694 TTGTTATCTG
* *
78704 TTTTATT-TTATTATTTTATTA
1 TTTTATTATTATTTTTTTTTTA
78725 TTTTATTATTATTTTTTTTTTA
1 TTTTATTATTATTTTTTTTTTA
78747 TTTT-TTCA-TATTTTTTTT
1 TTTTATT-ATTATTTTTTTT
78765 ATTTTACAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
21 19 0.53
22 17 0.47
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (22 bp):
TTTTATTATTATTTTTTTTTTA
Found at i:78767 original size:33 final size:33
Alignment explanation
Indices: 78637--78769 Score: 86
Period size: 33 Copynumber: 4.1 Consensus size: 33
78627 GGTCCTTCTA
*
78637 TTTA-TTTATTTATTTAATT-TTTTATTATT-TT
1 TTTATTTTA-TTATTTTATTATTTTATTATTATT
* * *
78668 TCTT-TTTTACTAACTTTTATTTATCTTTGTTATCT-GT
1 T-TTATTTTA-TTA-TTTTA-TTAT-TTTATTAT-TATT
78705 TTTATTTTATTATTTTATTATTTTATTATTATT
1 TTTATTTTATTATTTTATTATTTTATTATTATT
*
78738 TTTTTTTTATT-TTTTCA-TATTTT-TT-TTATT
1 TTTATTTTATTATTTT-ATTATTTTATTATTATT
78768 TT
1 TT
78770 ACAATATAAC
Statistics
Matches: 83, Mismatches: 9, Indels: 21
0.73 0.08 0.19
Matches are distributed among these distances:
30 7 0.08
31 3 0.04
32 19 0.23
33 23 0.28
34 6 0.07
35 6 0.07
36 11 0.13
37 8 0.10
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.75
Consensus pattern (33 bp):
TTTATTTTATTATTTTATTATTTTATTATTATT
Found at i:83877 original size:145 final size:145
Alignment explanation
Indices: 83614--83903 Score: 517
Period size: 145 Copynumber: 2.0 Consensus size: 145
83604 GTTTACTTGC
83614 AAGGAATTGTAATGAGGGTTGAAGTAAGTTTGTTTTATATTTTCAAATCAAATTACATCTCCAAT
1 AAGGAATTGTAATGAGGGTTGAAGTAAGTTTGTTTTATATTTTCAAATCAAATTACATCTCCAAT
* * *
83679 ACAATGTTGTTTGTATGAACTCAGGAAACTAGAAGCACATTGCTAACAAGAAAATATTTAGGACA
66 ACAATGTTGTTTATATGAACTCAGGAAACTAGAAGCACATTACCAACAAGAAAATATTTAGGACA
*
83744 TGTATTGAGAAATGT
131 TATATTGAGAAATGT
* *
83759 AAGGAATTGTAATGAGGGTTGAAGTAAGTTTGTTTTATATTTTCGAATCAAATTACATCTTCAAT
1 AAGGAATTGTAATGAGGGTTGAAGTAAGTTTGTTTTATATTTTCAAATCAAATTACATCTCCAAT
*
83824 ACAATGTTGTTTATATGAATTCAGGAAACTAGAAGCACATTACCAACAAGAAAATATTTAGGACA
66 ACAATGTTGTTTATATGAACTCAGGAAACTAGAAGCACATTACCAACAAGAAAATATTTAGGACA
83889 TATATTGAGAAATGT
131 TATATTGAGAAATGT
83904 TTCTGATACA
Statistics
Matches: 138, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
145 138 1.00
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.33
Consensus pattern (145 bp):
AAGGAATTGTAATGAGGGTTGAAGTAAGTTTGTTTTATATTTTCAAATCAAATTACATCTCCAAT
ACAATGTTGTTTATATGAACTCAGGAAACTAGAAGCACATTACCAACAAGAAAATATTTAGGACA
TATATTGAGAAATGT
Found at i:98130 original size:15 final size:15
Alignment explanation
Indices: 98110--98140 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
98100 TAGCCTGGGA
98110 TTGCTTTACTTTCGT
1 TTGCTTTACTTTCGT
98125 TTGCTTTACTTTCGT
1 TTGCTTTACTTTCGT
98140 T
1 T
98141 GAATTTTTTG
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:0.06, C:0.19, G:0.13, T:0.61
Consensus pattern (15 bp):
TTGCTTTACTTTCGT
Found at i:105057 original size:20 final size:20
Alignment explanation
Indices: 105032--105069 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
105022 CACATGTTAA
105032 AGAATGCATCGATGCACTGT
1 AGAATGCATCGATGCACTGT
105052 AGAATGCATCGATGCACT
1 AGAATGCATCGATGCACT
105070 TCAAGGGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.24
Consensus pattern (20 bp):
AGAATGCATCGATGCACTGT
Found at i:107064 original size:22 final size:20
Alignment explanation
Indices: 107039--107081 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
107029 TTTTCTTTAA
107039 TTTAAAAAAAATTCACAATTTT
1 TTTAAAAAAAATT-A-AATTTT
*
107061 TTTATAAAAAATTAAATTTT
1 TTTAAAAAAAATTAAATTTT
107081 T
1 T
107082 CTACTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 1 0.05
22 12 0.60
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (20 bp):
TTTAAAAAAAATTAAATTTT
Found at i:108612 original size:28 final size:26
Alignment explanation
Indices: 108575--108639 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 26
108565 ATTTAAAATT
* *
108575 TAAAATAAATTTATTTTTTTAATATTTC
1 TAAAATAAA-TTAATTATTT-ATATTTC
*
108603 TAAATTAAATTAATTATTTATATTTC
1 TAAAATAAATTAATTATTTATATTTC
108629 TAAAGATAAAT
1 TAAA-ATAAAT
108640 ATAAAATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 11 0.34
27 13 0.41
28 8 0.25
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.51
Consensus pattern (26 bp):
TAAAATAAATTAATTATTTATATTTC
Found at i:108648 original size:27 final size:26
Alignment explanation
Indices: 108596--108648 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
108586 TATTTTTTTA
* *
108596 ATATTTCTAAATTAAATTAATTATTT
1 ATATTTCTAAAATAAATTAATAATTT
108622 ATATTTCTAAAGATAAATATAA-AATTT
1 ATATTTCTAAA-ATAAAT-TAATAATTT
108649 TAAAAATAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 11 0.48
27 9 0.39
28 3 0.13
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (26 bp):
ATATTTCTAAAATAAATTAATAATTT
Found at i:110348 original size:17 final size:18
Alignment explanation
Indices: 110307--110345 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
110297 ATTATATAAG
110307 TAAAATA-TTAAATAAAT
1 TAAAATACTTAAATAAAT
110324 TAAAATACTTAAATAAAT
1 TAAAATACTTAAATAAAT
110342 TAAA
1 TAAA
110346 TACAAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAAATACTTAAATAAAT
Found at i:110368 original size:23 final size:23
Alignment explanation
Indices: 110316--110368 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
110306 GTAAAATATT
*
110316 AAATAAATTAAAATACTTAAATA
1 AAATAAATCAAAATACTTAAATA
*
110339 AATTAAATACAAAATA-TTAAA-A
1 AAATAAAT-CAAAATACTTAAATA
110361 ATAATAAA
1 A-AATAAA
110369 ATATACCTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
22 2 0.08
23 17 0.68
24 6 0.24
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (23 bp):
AAATAAATCAAAATACTTAAATA
Found at i:110370 original size:24 final size:24
Alignment explanation
Indices: 110325--110371 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
110315 TAAATAAATT
* *
110325 AAAATACTTAAATAAATTAAATAC
1 AAAATACTTAAAAAAATAAAATAC
110349 AAAATA-TTAAAAATAATAAAATA
1 AAAATACTTAAAAA-AATAAAATA
110372 TACCTTAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (24 bp):
AAAATACTTAAAAAAATAAAATAC
Found at i:118141 original size:15 final size:15
Alignment explanation
Indices: 118121--118150 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
118111 ATGTGGTACC
*
118121 TTTTAACATCGAGAT
1 TTTTAACACCGAGAT
118136 TTTTAACACCGAGAT
1 TTTTAACACCGAGAT
118151 CACTTGATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (15 bp):
TTTTAACACCGAGAT
Found at i:126265 original size:13 final size:13
Alignment explanation
Indices: 126247--126284 Score: 58
Period size: 15 Copynumber: 2.8 Consensus size: 13
126237 AAAAACCGAA
126247 CCGAACCGAAAAC
1 CCGAACCGAAAAC
126260 CCGAACCGAAAAAAC
1 CCGAACCG--AAAAC
126275 CCGAACCGAA
1 CCGAACCGAA
126285 CCGAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 10 0.43
15 13 0.57
ACGTcount: A:0.47, C:0.37, G:0.16, T:0.00
Consensus pattern (13 bp):
CCGAACCGAAAAC
Found at i:127997 original size:18 final size:19
Alignment explanation
Indices: 127955--128003 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
127945 TGGTAAGAAA
127955 TTTTT-TTGCTTTCTATTG
1 TTTTTGTTGCTTTCTATTG
*
127973 TTGTTGTTG-TTTCTGATT-
1 TTTTTGTTGCTTTCT-ATTG
127991 TTTTTGTTGCTTT
1 TTTTTGTTGCTTT
128004 TTCGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 17 0.65
19 9 0.35
ACGTcount: A:0.04, C:0.08, G:0.16, T:0.71
Consensus pattern (19 bp):
TTTTTGTTGCTTTCTATTG
Done.