Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 207 of 320
Found at i:69084164 original size:46 final size:46
Alignment explanation
Indices: 69084105--69084280 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
69084095 TGGTTGAGCA
*
69084105 TCCGAACTTGTTGAGTTGAGTCCGAGTTCCCTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCCCTTATGGATGCGAATG
* * *
69084151 TCCGAACTCGTTGAGTTGAGTCCGAGTT-CGTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCCCTTATGGATGCGAA-T--G
* *
69084196 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCCCTTATGGATGCGAATG
* * *
69084244 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCCCTTATGG
69084281 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 4 0.04
46 61 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCCCTTATGGATGCGAATG
Found at i:69084261 original size:93 final size:93
Alignment explanation
Indices: 69084102--69084273 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
69084092 GGATGGTTGA
* * * *
69084102 GCATCCGAACTTGTTGAGTTGAGTCCGAGTTCCCTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
69084167 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
69084195 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
69084260 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
69084274 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:69091721 original size:46 final size:46
Alignment explanation
Indices: 69091671--69091846 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
69091661 TGGTTGAGCA
69091671 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
69091717 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
69091762 CATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
69091810 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
69091847 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.57
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:69091832 original size:93 final size:93
Alignment explanation
Indices: 69091668--69091839 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
69091658 GGATGGTTGA
* *
69091668 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
69091733 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
69091761 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
69091826 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
69091840 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:69097989 original size:47 final size:47
Alignment explanation
Indices: 69097918--69098324 Score: 681
Period size: 47 Copynumber: 8.6 Consensus size: 47
69097908 CCCTTCGGGA
* * * * *
69097918 CTTATCACATTTATACACTTTCACATCCATCACGTTC-GCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCAC-ATCGGCCATTAGGC
*
69097965 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69098012 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
69098059 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69098108 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
69098155 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69098202 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69098249 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69098298 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
69098325 TATTCAAATA
Statistics
Matches: 342, Mismatches: 13, Indels: 10
0.94 0.04 0.03
Matches are distributed among these distances:
46 2 0.01
47 248 0.73
49 92 0.27
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:69098187 original size:143 final size:143
Alignment explanation
Indices: 69097918--69098324 Score: 696
Period size: 143 Copynumber: 2.9 Consensus size: 143
69097908 CCCTTCGGGA
* * * * *
69097918 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTCGCCACTCGGCCCTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
69097981 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
69098046 TCGGCCATTAGGC
131 TCGGCCATTAGGC
69098059 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
69098124 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
69098189 TCGGCTATTAGGC
131 TCGGCCATTAGGC
* *
69098202 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATAT
69098265 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
64 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
69098325 TATTCAAATA
Statistics
Matches: 254, Mismatches: 8, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
141 55 0.22
142 1 0.00
143 198 0.78
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:69098241 original size:190 final size:190
Alignment explanation
Indices: 69097918--69098324 Score: 717
Period size: 190 Copynumber: 2.1 Consensus size: 190
69097908 CCCTTCGGGA
* * * *
69097918 CTTATCACATTTATACACTTTCACATCCATCACGTTCGCCACTCGGCCCTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACGATCGCCACTAGGCCCTATCACATATATACAC
69097983 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
* *
69098048 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
131 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
69098108 CTTATCACATATATACACTTTCACATTCATCAC-ATCGGCCATTAGGCCTTATCACATATATACA
1 CTTATCACATATATACACTTTCACATTCATCACGATC-GCCACTAGGCCCTATCACATATATACA
*
69098172 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
65 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
69098237 CGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
130 CGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69098298 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
69098325 TATTCAAATA
Statistics
Matches: 207, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
189 2 0.01
190 205 0.99
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (190 bp):
CTTATCACATATATACACTTTCACATTCATCACGATCGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:69101606 original size:40 final size:40
Alignment explanation
Indices: 69101550--69101778 Score: 343
Period size: 40 Copynumber: 5.7 Consensus size: 40
69101540 GCTACTTGCT
*
69101550 CAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
69101590 CAAGTGCTTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
69101630 AAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
69101670 CAAATGCCTTCGGGACTTAGCTCGGGTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
69101710 CAAATGCCTTCGGGACTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
69101750 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
69101779 CACCCGAATA
Statistics
Matches: 169, Mismatches: 18, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 167 0.99
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:69119716 original size:49 final size:50
Alignment explanation
Indices: 69119636--69119868 Score: 272
Period size: 49 Copynumber: 4.7 Consensus size: 50
69119626 ATCTATTGTG
* *
69119636 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * * * *
69119686 -GGTCGCATGTGTAGTACTAAATGCGGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* * * * * * **
69119736 CGATCACGTGTGTAGTATTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
** *
69119786 AGGTCATGTGTGTAGTACAAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
69119836 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
69119869 TGCGTATAAG
Statistics
Matches: 149, Mismatches: 32, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
49 69 0.46
50 45 0.30
51 35 0.23
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:69122841 original size:40 final size:40
Alignment explanation
Indices: 69122757--69122981 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
69122747 TTGAATGATG
* * * *
69122757 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
69122797 TCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
69122837 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
69122876 TCCGGGTTAAGTCCCAAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
69122916 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
69122957 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
69122982 AACGAGGAGC
Statistics
Matches: 160, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
39 33 0.21
40 118 0.74
41 9 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:69122999 original size:80 final size:80
Alignment explanation
Indices: 69122831--69123014 Score: 205
Period size: 80 Copynumber: 2.3 Consensus size: 80
69122821 TGTGTGAGAT
* * *
69122831 ACTAATTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCAAAG
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCAAAG
** *
69122895 GCATTCGTGCGAGTT
66 GCATTCGAACGAGTG
* * *
69122910 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAA
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTAAGTCCCAAA
*
69122974 GGCATTTGAACGAG-G
65 GGCATTCGAACGAGTG
* * *
69122989 AGCTATATCC-GGTTAAATTCCGAAGG
1 A-CTAAATCCGGGTTAAGTCCCGAAGG
69123015 TACGTGATTT
Statistics
Matches: 89, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
79 30 0.34
80 57 0.64
81 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (80 bp):
ACTAAATCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCAAAG
GCATTCGAACGAGTG
Found at i:69130813 original size:39 final size:40
Alignment explanation
Indices: 69130712--69130936 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
69130702 TTGAATGATG
* * * *
69130712 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
69130752 TCCGGACTAAGAT-CCGAAGGCATTTGTCCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
69130792 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
69130831 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
69130871 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
69130912 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
69130937 AACGAGGAGC
Statistics
Matches: 162, Mismatches: 18, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
39 33 0.20
40 120 0.74
41 9 0.06
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:69134682 original size:46 final size:46
Alignment explanation
Indices: 69134615--69134789 Score: 190
Period size: 46 Copynumber: 3.8 Consensus size: 46
69134605 AACCCGCCCG
* * *
69134615 TAAGTGAACTCGGACGCAACTCAACGAGCTCGGGTGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTAGCATCCA
* * *
69134661 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG-TTAGCATCCA
*** * ** *
69134707 TCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGT-GAACTCGGACTCAACTCAACGAGCTCGGATGTTAGCATCCA
* *
69134754 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGATG
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG
69134790 CCCAAACATC
Statistics
Matches: 104, Mismatches: 22, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
46 69 0.66
47 35 0.34
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTAGCATCCA
Found at i:69134733 original size:93 final size:93
Alignment explanation
Indices: 69134620--69134791 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
69134610 GCCCGTAAGT
***
69134620 GAACTCGGACGCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACGCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
69134685 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CAAGCTCGGATGCCTAGTTACATCTCTC
* * *
69134713 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACGCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
69134778 CAAGTTCGGATGCC
66 CAAGCTCGGATGCC
69134792 CAAACATCCT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACGCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CAAGCTCGGATGCCTAGTTACATCTCTC
Found at i:69139498 original size:40 final size:42
Alignment explanation
Indices: 69139452--69139532 Score: 112
Period size: 40 Copynumber: 2.0 Consensus size: 42
69139442 CCAGGTTTTT
*
69139452 GGACACGGGCGATG-ACACGGGCGTGT-CTAAGCCGTGTGAG
1 GGACACGGGCGAGGAACACGGGCGTGTGCTAAGCCGTGTGAG
* **
69139492 GGACACGGGCTAGGAACACGGGCGTGTGCTTGGCCGTGTGA
1 GGACACGGGCGAGGAACACGGGCGTGTGCTAAGCCGTGTGA
69139533 AAACCCCTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 12 0.34
41 12 0.34
42 11 0.31
ACGTcount: A:0.19, C:0.22, G:0.43, T:0.16
Consensus pattern (42 bp):
GGACACGGGCGAGGAACACGGGCGTGTGCTAAGCCGTGTGAG
Found at i:69141975 original size:27 final size:27
Alignment explanation
Indices: 69141711--69141974 Score: 375
Period size: 27 Copynumber: 9.8 Consensus size: 27
69141701 ATTACCAAAG
*
69141711 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
69141738 TATCCTCGATTTACAGAGTTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
69141765 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
69141792 TACCCTCTATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
69141819 TACTCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
**
69141846 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
69141873 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
69141900 TACCCTCAATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
69141927 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
69141954 TACCCTCGATTTACAAAATTA
1 TACCCTCGATTTACAGAATTA
69141975 TTAAAATACT
Statistics
Matches: 211, Mismatches: 26, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 211 1.00
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:69142094 original size:27 final size:27
Alignment explanation
Indices: 69141995--69142108 Score: 126
Period size: 27 Copynumber: 4.3 Consensus size: 27
69141985 TTTGGTTTAC
* *
69141995 AAAATTACCAAAATACCC-TCGATCAGT
1 AAAATTACCAAAATACCCTTAGAT-TGT
* * *
69142022 AAAATTATC-AAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCTTAGATTGT
*
69142048 AAAATTACCAAAATACCCTTAGCTTGT
1 AAAATTACCAAAATACCCTTAGATTGT
69142075 AAAATTACCAAAATACCCTT-GATTTGT
1 AAAATTACCAAAATACCCTTAGA-TTGT
*
69142102 GAAATTA
1 AAAATTA
69142109 TTGAAATACT
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
26 19 0.25
27 56 0.75
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTAGATTGT
Found at i:69142142 original size:80 final size:80
Alignment explanation
Indices: 69141995--69142145 Score: 189
Period size: 80 Copynumber: 1.9 Consensus size: 80
69141985 TTTGGTTTAC
*
69141995 AAAATTACCAAAATACCCTCGATCAGTAAAATTATCAAATACCCCTAGTTTGTAAAATTACCAAA
1 AAAATTACCAAAATACCCTCGATCAGTAAAATTATCAAATACCCCGAGTTTGTAAAATTACCAAA
69142060 ATACCCTTAGCTTGT
66 ATACCCTTAGCTTGT
* ** * * * * *
69142075 AAAATTACCAAAATACCCTTGATTTGTGAAATTATTGAAATACTCTCGA-TTTTTAAAA-TACCG
1 AAAATTACCAAAATACCCTCGATCAGTAAAATTA-TCAAATAC-CCCGAGTTTGTAAAATTACCA
69142138 AAATACCC
64 AAATACCC
69142146 CTGTAGGGTA
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
80 42 0.70
81 15 0.25
82 3 0.05
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (80 bp):
AAAATTACCAAAATACCCTCGATCAGTAAAATTATCAAATACCCCGAGTTTGTAAAATTACCAAA
ATACCCTTAGCTTGT
Found at i:69142176 original size:27 final size:27
Alignment explanation
Indices: 69142133--69142271 Score: 179
Period size: 27 Copynumber: 5.1 Consensus size: 27
69142123 ATTTTTAAAA
69142133 TACCGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
**
69142160 TACTAAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* * *
69142187 TACCGAAATACCCTTGTAGGGTAAAAA
1 TACCGAAATACCCCTGTAGGGTAGAAT
* *
69142214 TACCGAAATACCCCTATAAGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* * * *
69142241 TACCGAGATACCCTTGTGGGGTAAAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
69142268 TACC
1 TACC
69142272 ATTTTGCCCC
Statistics
Matches: 94, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 94 1.00
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (27 bp):
TACCGAAATACCCCTGTAGGGTAGAAT
Found at i:69142198 original size:54 final size:54
Alignment explanation
Indices: 69142133--69142272 Score: 199
Period size: 54 Copynumber: 2.6 Consensus size: 54
69142123 ATTTTTAAAA
* * * * *
69142133 TACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCTTGTAGGGTAAAATTACCAAAATACCCCTATAAGGTAGAAT
* *
69142187 TACCGAAATACCCTTGTAGGGTAAAAATACCGAAATACCCCTATAAGGTAGAAT
1 TACCGAAATACCCTTGTAGGGTAAAATTACCAAAATACCCCTATAAGGTAGAAT
* *
69142241 TACCGAGATACCCTTGTGGGGTAAAATTACCA
1 TACCGAAATACCCTTGTAGGGTAAAATTACCA
69142273 TTTTGCCCCT
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 75 1.00
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (54 bp):
TACCGAAATACCCTTGTAGGGTAAAATTACCAAAATACCCCTATAAGGTAGAAT
Found at i:69142561 original size:24 final size:25
Alignment explanation
Indices: 69142476--69142569 Score: 145
Period size: 25 Copynumber: 3.8 Consensus size: 25
69142466 AGGAAGTGCT
* *
69142476 AAAAGGGTTTTGGCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
69142501 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
* *
69142526 AAAAGGGTTTTGCCCCAGTTTATC-
1 AAAAGGGCTTTGCCCCAGTTTACCG
69142550 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
69142570 ATTAAAAGAG
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
24 19 0.30
25 45 0.70
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.28
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:69142582 original size:24 final size:24
Alignment explanation
Indices: 69142476--69142582 Score: 126
Period size: 25 Copynumber: 4.4 Consensus size: 24
69142466 AGGAAGTGCT
* * *
69142476 AAAAGGGTTTTGGCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTATC
*
69142500 GAAAAGGGCTTTGCCCCAGTTTACC
1 -AAAAGGGCTTTGCCCCAGTTTATC
*
69142525 GAAAAGGGTTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTATC
*
69142550 AAAAGGGCTTTGCCCCAG-TTATT
1 AAAAGGGCTTTGCCCCAGTTTATC
69142573 AAAAGAGGCT
1 AAAAG-GGCT
69142583 AGGCCTCCAA
Statistics
Matches: 75, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
23 9 0.12
24 21 0.28
25 45 0.60
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:69146749 original size:40 final size:40
Alignment explanation
Indices: 69146684--69146777 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 40
69146674 AACTATGTTC
* *
69146684 GGCACTAAGTGTGCGGTTCGAAATAGCTTCGGCTACA-AA
1 GGCACTAAGTGTGCAGTTAGAAATAGCTTCGGCTACATAA
* * *
69146723 TGGCACTAAGTGTGCAAGTTAG-AATAGTTTCGGCTATATGA
1 -GGCACTAAGTGTGC-AGTTAGAAATAGCTTCGGCTACATAA
69146764 GGCACTAAGTGTGC
1 GGCACTAAGTGTGC
69146778 GATACTGAGA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
40 42 0.89
41 5 0.11
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.27
Consensus pattern (40 bp):
GGCACTAAGTGTGCAGTTAGAAATAGCTTCGGCTACATAA
Found at i:69149684 original size:48 final size:47
Alignment explanation
Indices: 69149583--69149807 Score: 174
Period size: 48 Copynumber: 4.7 Consensus size: 47
69149573 GAGGGTAATT
* * *
69149583 TGCCGATGCCATGTCCCAGACATGGTCTTACAC-GAGCTCTCGTCTCA-A
1 TGCCGATGCCATGTCCTAGACATGGTCTTACACTGA-CTCTC-AC-AATA
* *
69149631 TGCCGATGTCATGTCCTAGATATGGTCTTACACTGACTCTCACAATA
1 TGCCGATGCCATGTCCTAGACATGGTCTTACACTGACTCTCACAATA
* * * * *
69149678 TGGCCGATGCCATGTTCC-AAACATGGTCTTATACT-AGT-GCACATTCAA
1 T-GCCGATGCCATG-TCCTAGACATGGTCTTACACTGACTCTCACAAT--A
* * * *
69149726 TGCTGATGCCATGTCCTAGACATGATCTTACACTGGCTCTCACAACA
1 TGCCGATGCCATGTCCTAGACATGGTCTTACACTGACTCTCACAATA
* * *
69149773 TTACCGATGCCATATTCC-AAACATGGTCTTACACT
1 -TGCCGATGCCAT-GTCCTAGACATGGTCTTACACT
69149808 AGCTCTTATA
Statistics
Matches: 140, Mismatches: 26, Indels: 22
0.74 0.14 0.12
Matches are distributed among these distances:
46 9 0.06
47 31 0.22
48 88 0.63
49 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.29
Consensus pattern (47 bp):
TGCCGATGCCATGTCCTAGACATGGTCTTACACTGACTCTCACAATA
Found at i:69149756 original size:95 final size:96
Alignment explanation
Indices: 69149584--69149812 Score: 300
Period size: 95 Copynumber: 2.4 Consensus size: 96
69149574 AGGGTAATTT
* * * * * *
69149584 GCCGATGCCATGTCCCAGACATGGTCTTACACGAGCTCTCGTCTCAATGCCGATGTCATGTCCTA
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATCTCAATGCCGATGCCATGTCCTA
* * *
69149649 GATATGGTCTTACACTGACTCTCACAATATG
66 GACATGATCTTACACTGACTCTCACAACATG
* *
69149680 GCCGATGCCATGTTCCAAACATGGTCTTATACTAG-TGCACAT-TCAATGCTGATGCCATGTCCT
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCT-CACATCTCAATGCCGATGCCATGTCCT
* *
69149743 AGACATGATCTTACACTGGCTCTCACAACATT
65 AGACATGATCTTACACTGACTCTCACAACATG
* *
69149775 ACCGATGCCATATTCCAAACATGGTCTTACACTAGCTC
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTC
69149813 TTATATCGTG
Statistics
Matches: 115, Mismatches: 16, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
95 80 0.70
96 35 0.30
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.28
Consensus pattern (96 bp):
GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATCTCAATGCCGATGCCATGTCCTA
GACATGATCTTACACTGACTCTCACAACATG
Found at i:69150711 original size:28 final size:27
Alignment explanation
Indices: 69150658--69150711 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 27
69150648 ACAGGGGTTT
69150658 TCACACGACCTGACACAAGCCCTGTCCC
1 TCACACGACCTGACAC-AGCCCTGTCCC
*
69150686 TCACACGGCCATGACAC-GCCCGTGTC
1 TCACACGACC-TGACACAGCCC-TGTC
69150712 TTAGCCCGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 4 0.17
28 13 0.57
29 6 0.26
ACGTcount: A:0.22, C:0.44, G:0.19, T:0.15
Consensus pattern (27 bp):
TCACACGACCTGACACAGCCCTGTCCC
Found at i:69151798 original size:49 final size:47
Alignment explanation
Indices: 69151683--69152043 Score: 193
Period size: 46 Copynumber: 7.7 Consensus size: 47
69151673 GGTATAATGT
* ** *
69151683 CGATGCCATGTCCCAGACATAGTCTTACACTGGCTCATCGATCAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAACTCATCGATCAAGG
*
69151730 CGATGCCATGTCCCGGACATGGTCTTACACTAACT-ATCGAAATCAAGG
1 CGATGCCATGTCCCAGACATGGTCTTACACTAACTCATCG--ATCAAGG
* *
69151778 CTGATGCCATGTCCTAGACATGGTCTTACACTAGCTC-TC-A-CATATCCGTG
1 C-GATGCCATGTCCCAGACATGGTCTTACACTAACTCATCGATCA-A---G-G
* * * * *
69151828 TCGATGCCATGTCCCAGACATGGTCTTACGCTGACACATC--TCGTAGC
1 -CGATGCCATGTCCCAGACATGGTCTTACACTAACTCATCGATC-AAGG
* * ** *
69151875 CGATG-CATGTCCCATATAT-GTCTTACACTGGCTTGCATC--TCGAGG
1 CGATGCCATGTCCCAGACATGGTCTTACACTAAC-T-CATCGATCAAGG
* * * *
69151920 TCGATG-CATGTCTCAGACAT-GTCTTA-ATCTAGCTC-TCGTCTCAATGT
1 -CGATGCCATGTCCCAGACATGGTCTTACA-CTAACTCATCG-ATCAA-GG
* *
69151967 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTC-TC-AT-AATGTGG
1 CGATGCCATGTCCCAGACATGGTCTTACACTAACTCATCGATCAA---GG
*
69152014 CCGATG-CATGTCCTAGACAT-GTCTTACACT
1 -CGATGCCATGTCCCAGACATGGTCTTACACT
69152044 GGCACACAAA
Statistics
Matches: 253, Mismatches: 34, Indels: 55
0.74 0.10 0.16
Matches are distributed among these distances:
43 2 0.01
44 12 0.05
45 20 0.08
46 62 0.25
47 58 0.23
48 28 0.11
49 35 0.14
50 31 0.12
51 5 0.02
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAACTCATCGATCAAGG
Found at i:69156759 original size:40 final size:40
Alignment explanation
Indices: 69156694--69156917 Score: 245
Period size: 40 Copynumber: 5.5 Consensus size: 40
69156684 TATTCGGATG
* *
69156694 ATATACGGGGTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
69156734 ATATCCAGGCTAAGTCCCGAAGGCATTTGTACGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
69156777 ATA-CCTGGGCTAAGTCTCGAAGGCATTTGTGCTAGTGACT
1 ATATCC-GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * * *
69156817 ATATCTGGGCTAAGTCCCGAAGGAATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
69156857 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
69156897 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
69156918 ATACTTGGGT
Statistics
Matches: 155, Mismatches: 24, Indels: 11
0.82 0.13 0.06
Matches are distributed among these distances:
39 13 0.08
40 106 0.68
41 2 0.01
42 2 0.01
43 32 0.21
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:69163202 original size:39 final size:40
Alignment explanation
Indices: 69163157--69163328 Score: 213
Period size: 40 Copynumber: 4.3 Consensus size: 40
69163147 GCTCCTCGTT
* * *
69163157 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
69163197 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
69163236 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * * *
69163276 CAAAGGCCTTCGGGGCTTAACTCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
69163316 CAAATGCCTTCGG
1 CAAATGCCTTCGG
69163329 ATCTTAGTCC
Statistics
Matches: 118, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.30
40 79 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:69163257 original size:40 final size:39
Alignment explanation
Indices: 69163159--69163381 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
69163149 TCCTCGTTCA
* * * *
69163159 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
69163198 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
69163237 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * * *
69163277 AAAGGCCTTCGGGGCTTAACTCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
69163317 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
69163358 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
69163382 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
39 40 0.26
40 103 0.66
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:69163390 original size:41 final size:41
Alignment explanation
Indices: 69163313--69163390 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
69163303 TTTGTATCTC
* * *
69163313 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
69163354 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
69163391 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:69171141 original size:39 final size:40
Alignment explanation
Indices: 69171096--69171267 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
69171086 GCTCCTCGTT
* * *
69171096 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
69171136 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
69171175 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
69171215 CAAAGGCCTTCGGGTCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
69171255 CAAATGCCTTCGG
1 CAAATGCCTTCGG
69171268 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:69171196 original size:40 final size:39
Alignment explanation
Indices: 69171098--69171320 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
69171088 TCCTCGTTCA
* * * *
69171098 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
69171137 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
69171176 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
69171216 AAAGGCCTTCGGGTCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
69171256 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
69171297 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
69171321 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:69171280 original size:80 final size:79
Alignment explanation
Indices: 69171096--69171320 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
69171086 GCTCCTCGTT
* * * * *
69171096 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
69171160 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
69171175 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGTCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
69171240 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
69171255 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
69171319 GA
63 GA
69171321 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:69171329 original size:41 final size:41
Alignment explanation
Indices: 69171252--69171329 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
69171242 TTTGTATCTC
* * *
69171252 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
69171293 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
69171330 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:69174655 original size:25 final size:21
Alignment explanation
Indices: 69174594--69174649 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
69174584 AAGCAGACAG
*
69174594 GGGC-ACACGCTCGTATGGAT
1 GGGCAACACGCCCGTATGGAT
69174614 GGGCAACACGCCCGTATGGAT
1 GGGCAACACGCCCGTATGGAT
69174635 GGGCAACACGCCCGT
1 GGGCAACACGCCCGT
69174650 GTGTATTCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 4 0.12
21 30 0.88
ACGTcount: A:0.21, C:0.30, G:0.34, T:0.14
Consensus pattern (21 bp):
GGGCAACACGCCCGTATGGAT
Found at i:69175891 original size:48 final size:48
Alignment explanation
Indices: 69175818--69176151 Score: 221
Period size: 48 Copynumber: 6.9 Consensus size: 48
69175808 AGGGTATTTG
* *
69175818 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTTAAGT
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAGT
* * * * * * *
69175866 CTGATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCGTCTCAATT
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAGT
* * *
69175914 CCGATGCCATGTCCCAGACATGGTTTTACACTGGCTCTCATA--ATGT
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAGT
* * * * *
69175960 GGCCAATGCCATTGTCCGAGACATAGTCTTCCACTAG-TGCACATATCAA-T
1 --CCGATGCCA-TGTCCCAGACATGGTCTTACACTGGCT-CACATATCAAGT
* ** * * * *
69176010 GCTGATGCCATGTCCCAGACATAATCTTACACTGGCTCTCACAAC-ATT
1 -CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAGT
* * * * * **
69176058 GCTGATGCCATGTTCCAAACATGGTCTTACATTGGCTCTCATATCGTGGT
1 -CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATC-AAGT
* * * ** * *
69176108 -TGACGCCATGTCCCAAACATTATCTTACACTAGCGCACATATCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCA
69176152 CCCAAATGTC
Statistics
Matches: 225, Mismatches: 51, Indels: 21
0.76 0.17 0.07
Matches are distributed among these distances:
46 2 0.01
47 1 0.00
48 185 0.82
49 34 0.15
50 2 0.01
51 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.29
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAGT
Found at i:69176066 original size:97 final size:97
Alignment explanation
Indices: 69175816--69176102 Score: 282
Period size: 97 Copynumber: 3.0 Consensus size: 97
69175806 AGAGGGTATT
69175816 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGG--CTCAC-ATGTTAAGTCTGATGCCA-TG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAATGTT--G-CTGATGCCATTG
* * * * *
69175877 TCCTAGACATGGTCTTACACTAGCTCTCGTCTCAA
63 TCCGAGACATAGTCTTACACTAGCTCACATATCAA
* * * * **
69175912 TTCCGATGCCATGTCCCAGACATGGTTTTACACTGGCTCTCATAATGTGGCCAATGCCATTGTCC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAATGTTGCTGATGCCATTGTCC
*
69175977 GAGACATAGTCTTCCACTAG-TGCACATATCAA
66 GAGACATAGTCTTACACTAGCT-CACATATCAA
* ** **
69176009 TGCTGATGCCATGTCCCAGACATAATCTTACACTGGCTCTCACAACATTGCTGATGCCA-TGTTC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAATGTTGCTGATGCCATTG-TC
* * * * *
69176073 C-AAACATGGTCTTACATTGGCTCTCATATC
65 CGAGACATAGTCTTACACTAGCTCACATATC
69176103 GTGGTTGACG
Statistics
Matches: 155, Mismatches: 29, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
96 65 0.42
97 82 0.53
98 4 0.03
99 4 0.03
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.30
Consensus pattern (97 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAATGTTGCTGATGCCATTGTCC
GAGACATAGTCTTACACTAGCTCACATATCAA
Found at i:69176116 original size:145 final size:144
Alignment explanation
Indices: 69175823--69176151 Score: 335
Period size: 145 Copynumber: 2.3 Consensus size: 144
69175813 ATTTGCCGAT
* ** * * * * *
69175823 GCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTTAA-GTCTGATGCCATGTCCTAGACAT
1 GCCATGTCCCAAACATTATCTTACACTAGCGCACATATCAATG-CTGATGCCATGTCCCAGACAT
** * * * *
69175887 GGTCTTACACTAGCTCTCGTCTCAATTCCGATGCCATGTCCCAGACATGGTTTTACACTGGCTCT
65 AATCTTACACTAGCTCTCGACACAATTCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCT
*
69175952 CATAATGTGGCCAAT
130 CATAATGTGGCCAAC
* * * *
69175967 GCCATTGTCCGAGACA-TAGTCTTCCACTAGTGCACATATCAATGCTGATGCCATGTCCCAGACA
1 GCCA-TGTCCCAAACATTA-TCTTACACTAGCGCACATATCAATGCTGATGCCATGTCCCAGACA
* * * *
69176031 TAATCTTACACTGGCTCTC-ACA-ACATTGCTGATGCCATGTTCCAAACATGGTCTTACATTGGC
64 TAATCTTACACTAGCTCTCGACACA-ATT-CCGATGCCATGTCCCAAACATGGTCTTACACTGGC
***
69176094 TCTCAT-ATCGTGGTTGAC
127 TCTCATAAT-GTGGCCAAC
69176112 GCCATGTCCCAAACATTATCTTACACTAGCGCACATATCA
1 GCCATGTCCCAAACATTATCTTACACTAGCGCACATATCA
69176152 CCCAAATGTC
Statistics
Matches: 150, Mismatches: 28, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
143 1 0.01
144 39 0.26
145 109 0.73
146 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.29
Consensus pattern (144 bp):
GCCATGTCCCAAACATTATCTTACACTAGCGCACATATCAATGCTGATGCCATGTCCCAGACATA
ATCTTACACTAGCTCTCGACACAATTCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTC
ATAATGTGGCCAAC
Found at i:69182975 original size:21 final size:22
Alignment explanation
Indices: 69182951--69182998 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
69182941 TTTCCAATAC
*
69182951 CAAATCAGAGTCGAATCAAT-T
1 CAAATCACAGTCGAATCAATGT
* *
69182972 CAAATCACTGTCGAATCATTGT
1 CAAATCACAGTCGAATCAATGT
69182994 CAAAT
1 CAAAT
69182999 AATGGTCGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.27
Consensus pattern (22 bp):
CAAATCACAGTCGAATCAATGT
Found at i:69183006 original size:22 final size:21
Alignment explanation
Indices: 69182951--69183016 Score: 57
Period size: 21 Copynumber: 3.1 Consensus size: 21
69182941 TTTCCAATAC
69182951 CAAATCAGA-GTCGAATCAATT
1 CAAATCA-ATGTCGAATCAATT
* *
69182972 CAAATCACTGTCGAATCATTGT
1 CAAATCAATGTCGAATCAAT-T
69182994 CAAAT-AATGGTCGAA-CAAGTT
1 CAAATCAAT-GTCGAATCAA-TT
69183015 CA
1 CA
69183017 TAGTCTAGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
21 24 0.65
22 13 0.35
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (21 bp):
CAAATCAATGTCGAATCAATT
Found at i:69203358 original size:25 final size:25
Alignment explanation
Indices: 69203328--69203390 Score: 99
Period size: 25 Copynumber: 2.5 Consensus size: 25
69203318 CTATATTGTC
* *
69203328 ACGAGCTATGAATCGGTATGCTCTT
1 ACGAGCTATAAATCGGTATGCTATT
*
69203353 ATGAGCTATAAATCGGTATGCTATT
1 ACGAGCTATAAATCGGTATGCTATT
69203378 ACGAGCTATAAAT
1 ACGAGCTATAAAT
69203391 TAATAACCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.32
Consensus pattern (25 bp):
ACGAGCTATAAATCGGTATGCTATT
Found at i:69204992 original size:35 final size:35
Alignment explanation
Indices: 69204953--69205046 Score: 145
Period size: 35 Copynumber: 2.7 Consensus size: 35
69204943 TGATTCTCAA
69204953 GTTAAGCATGCCATTATACTGATTCTAATTAACAT
1 GTTAAGCATGCCATTATACTGATTCTAATTAACAT
* * *
69204988 GTTAAGCATGCCAATATACTGATTCTTATTCACAT
1 GTTAAGCATGCCATTATACTGATTCTAATTAACAT
69205023 GTTAAGCATGCCACTT-TACTGATT
1 GTTAAGCATGCCA-TTATACTGATT
69205047 TTGATTCGTA
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
35 53 0.98
36 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (35 bp):
GTTAAGCATGCCATTATACTGATTCTAATTAACAT
Found at i:69205060 original size:35 final size:34
Alignment explanation
Indices: 69204953--69205072 Score: 134
Period size: 35 Copynumber: 3.4 Consensus size: 34
69204943 TGATTCTCAA
* *
69204953 GTTAAGCATGCCA-TTATACTGATTCTAATTAACAT
1 GTTAAGCATGCCACTT-TACTGATT-TTATTCACAT
* *
69204988 GTTAAGCATGCCAATATACTGATTCTTATTCACAT
1 GTTAAGCATGCCACTTTACTGATT-TTATTCACAT
**
69205023 GTTAAGCATGCCACTTTACTGATTTTGATTCGTAT
1 GTTAAGCATGCCACTTTACTGATTTT-ATTCACAT
*
69205058 GTTAAGCATGTCACT
1 GTTAAGCATGCCACT
69205073 ATATTGATAC
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
34 2 0.03
35 72 0.96
36 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.38
Consensus pattern (34 bp):
GTTAAGCATGCCACTTTACTGATTTTATTCACAT
Found at i:69207643 original size:16 final size:15
Alignment explanation
Indices: 69207606--69207646 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
69207596 CACTTAATTC
69207606 CTTTCTTCTT-TTTTT
1 CTTTCTT-TTCTTTTT
69207621 CTTTCTTTTCTTTTT
1 CTTTCTTTTCTTTTT
69207636 CTTATCTTTTC
1 CTT-TCTTTTC
69207647 CATTAAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 2 0.08
15 15 0.62
16 7 0.29
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (15 bp):
CTTTCTTTTCTTTTT
Found at i:69207643 original size:20 final size:20
Alignment explanation
Indices: 69207607--69207644 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
69207597 ACTTAATTCC
*
69207607 TTTCTTCTTTTTTTCTTTCT
1 TTTCTTCTTTTTATCTTTCT
69207627 TTTCTT-TTTCTTATCTTT
1 TTTCTTCTTT-TTATCTTT
69207645 TCCATTAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTCTTCTTTTTATCTTTCT
Found at i:69208873 original size:19 final size:20
Alignment explanation
Indices: 69208834--69208876 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
69208824 GATGAACAAG
*
69208834 ATTGTTTTCCTAAAATATGC
1 ATTGTTTTACTAAAATATGC
*
69208854 ATTGTTTTAC-AAATTATGC
1 ATTGTTTTACTAAAATATGC
69208873 ATTG
1 ATTG
69208877 AATGATCATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.47
Consensus pattern (20 bp):
ATTGTTTTACTAAAATATGC
Found at i:69215222 original size:45 final size:45
Alignment explanation
Indices: 69215132--69215222 Score: 114
Period size: 45 Copynumber: 2.0 Consensus size: 45
69215122 CCAAAACATG
* *
69215132 TGTCACATATATCAGAAACTCAGACCACAACTTAATGAGTACAGA
1 TGTCACATATATCAGAAACACAGACCACAACTTAATAAGTACAGA
* *
69215177 TGTCACATATATCATG-AACACATACCACAA-TTCAATAAGTTCAGA
1 TGTCACATATATCA-GAAACACAGACCACAACTT-AATAAGTACAGA
69215222 T
1 T
69215223 TACATAATTC
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
44 2 0.05
45 37 0.93
46 1 0.03
ACGTcount: A:0.42, C:0.22, G:0.11, T:0.25
Consensus pattern (45 bp):
TGTCACATATATCAGAAACACAGACCACAACTTAATAAGTACAGA
Found at i:69218508 original size:29 final size:28
Alignment explanation
Indices: 69218450--69218510 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 28
69218440 TGTGAGCATG
*
69218450 CATATAAGGTGATTTGGGCCTAACGAGC
1 CATATAAGGTGATTTGGGCCTAAAGAGC
69218478 CATATAAAGGTGATTTGGGCCTAATAG-GC
1 CATAT-AAGGTGATTTGGGCCTAA-AGAGC
69218507 CATA
1 CATA
69218511 CGAATATGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 5 0.17
29 24 0.80
30 1 0.03
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.26
Consensus pattern (28 bp):
CATATAAGGTGATTTGGGCCTAAAGAGC
Found at i:69218564 original size:30 final size:29
Alignment explanation
Indices: 69218492--69218567 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
69218482 TAAAGGTGAT
* *
69218492 TTGGGCCTAATAGGCCATACGAATATGAA
1 TTGGGCCTGATGGGCCATACGAATATGAA
* *
69218521 TTGGGCCTGATGGGCCATATGAATGTGAA
1 TTGGGCCTGATGGGCCATACGAATATGAA
*
69218550 TTGAGGCTTGATGGGCCA
1 TTG-GGCCTGATGGGCCA
69218568 AGTGGGCCAT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 28 0.68
30 13 0.32
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TTGGGCCTGATGGGCCATACGAATATGAA
Found at i:69227292 original size:42 final size:42
Alignment explanation
Indices: 69227182--69227293 Score: 107
Period size: 42 Copynumber: 2.7 Consensus size: 42
69227172 AGTCATACCA
* **** * *
69227182 ATGCCATATCCCAGATATAGTCTTACATGGGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACAAAATCTCACAACG
* * * * *
69227224 ATGCCATGTCCCAAACACGGTATTACACAAAATCTCACAACG
1 ATGCCATATCCCAGATATGGTCTTACACAAAATCTCACAACG
*
69227266 ATGCCATATCCCGGATATGGTCTTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
69227294 GTAAACTTAT
Statistics
Matches: 52, Mismatches: 18, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACAAAATCTCACAACG
Found at i:69228406 original size:15 final size:15
Alignment explanation
Indices: 69228386--69228415 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
69228376 AATCATTTCG
69228386 TGAAGATGTAGACCA
1 TGAAGATGTAGACCA
69228401 TGAAGATGTAGACCA
1 TGAAGATGTAGACCA
69228416 CGAATACATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.27, T:0.20
Consensus pattern (15 bp):
TGAAGATGTAGACCA
Found at i:69230230 original size:39 final size:39
Alignment explanation
Indices: 69230172--69230395 Score: 315
Period size: 39 Copynumber: 5.7 Consensus size: 39
69230162 TTCCAACACA
* *
69230172 AATGCCTTCGAGACTTAGCTCAGATATAACACCAGCACG
1 AATGCCTTCGGGACTTAGCCCAGATATAACACCAGCACG
* * *
69230211 AATACCTTCTGGACTTAGCTCTA-ATATAACACCAGCACG
1 AATGCCTTCGGGACTTAGC-CCAGATATAACACCAGCACG
* * *
69230250 AATGCCTTCGGGGCTTAGCCCAGACATAACACTAGCACG
1 AATGCCTTCGGGACTTAGCCCAGATATAACACCAGCACG
*
69230289 AATGCCTTCGGGACTTAGCCCAGACATAACACCAGCACG
1 AATGCCTTCGGGACTTAGCCCAGATATAACACCAGCACG
* *
69230328 AATGCCTTTGGGACTTAGCCCGGATATAACACCAGCACG
1 AATGCCTTCGGGACTTAGCCCAGATATAACACCAGCACG
* *
69230367 AATACCTTCGGGACTTAGCCCGGATATAA
1 AATGCCTTCGGGACTTAGCCCAGATATAA
69230396 ATCTCACACA
Statistics
Matches: 165, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
38 2 0.01
39 162 0.98
40 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.21
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCAGATATAACACCAGCACG
Found at i:69238107 original size:39 final size:38
Alignment explanation
Indices: 69238049--69238272 Score: 286
Period size: 39 Copynumber: 5.7 Consensus size: 38
69238039 TTCCAACACA
69238049 AATGCCTTCGGGACTTAGCTCGAATATAACACCAGCACG
1 AATGCCTTCGGGACTTAGC-CGAATATAACACCAGCACG
* *
69238088 AATACCTTCGGGACTTAGCTCGAATATAACACTAGCACG
1 AATGCCTTCGGGACTTAGC-CGAATATAACACCAGCACG
* * * *
69238127 AATGCCTTCGAGACTTAGCCCACACATAATACCAGCACG
1 AATGCCTTCGGGACTTAGCCGA-ATATAACACCAGCACG
* *
69238166 AATGCCTTCGGGACTTAGCCTGGACATAACACCAGCACG
1 AATGCCTTCGGGACTTAGCC-GAATATAACACCAGCACG
* * *
69238205 ATTGCCTTCAGGACTTAGCCCAGATATAACACCAGCACG
1 AATGCCTTCGGGACTTAGCCGA-ATATAACACCAGCACG
*
69238244 AATGCCTTCGGGACTTAGCCCGGATATAA
1 AATGCCTTCGGGACTTAG-CCGAATATAA
69238273 ATCTCACACA
Statistics
Matches: 160, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
38 2 0.01
39 156 0.98
40 2 0.01
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.21
Consensus pattern (38 bp):
AATGCCTTCGGGACTTAGCCGAATATAACACCAGCACG
Found at i:69238200 original size:117 final size:117
Alignment explanation
Indices: 69238049--69238264 Score: 328
Period size: 117 Copynumber: 1.8 Consensus size: 117
69238039 TTCCAACACA
* * *
69238049 AATGCCTTCGGGACTTAGCTCGAATATAACACCAGCACGAATACCTTCGGGACTTAGCTC-GAAT
1 AATGCCTTCGGGACTTAGCTCGAACATAACACCAGCACGAATACCTTCAGGACTTAGCCCAG-AT
*
69238113 ATAACACTAGCACGAATGCCTTCGAGACTTAGCCCACACATAATACCAGCACG
65 ATAACACCAGCACGAATGCCTTCGAGACTTAGCCCACACATAATACCAGCACG
* * *
69238166 AATGCCTTCGGGACTTAGC-CTGGACATAACACCAGCACGATTGCCTTCAGGACTTAGCCCAGAT
1 AATGCCTTCGGGACTTAGCTC-GAACATAACACCAGCACGAATACCTTCAGGACTTAGCCCAGAT
*
69238230 ATAACACCAGCACGAATGCCTTCGGGACTTAGCCC
65 ATAACACCAGCACGAATGCCTTCGAGACTTAGCCC
69238265 GGATATAAAT
Statistics
Matches: 89, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
116 1 0.01
117 87 0.98
118 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.20
Consensus pattern (117 bp):
AATGCCTTCGGGACTTAGCTCGAACATAACACCAGCACGAATACCTTCAGGACTTAGCCCAGATA
TAACACCAGCACGAATGCCTTCGAGACTTAGCCCACACATAATACCAGCACG
Found at i:69246308 original size:20 final size:20
Alignment explanation
Indices: 69246283--69246321 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
69246273 AGATTTTCGT
*
69246283 AATTTTTGAGAATTTGGTAA
1 AATTTTTGAAAATTTGGTAA
*
69246303 AATTTTTTAAAATTTGGTA
1 AATTTTTGAAAATTTGGTA
69246322 TTTGGTTGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
AATTTTTGAAAATTTGGTAA
Found at i:69248190 original size:10 final size:10
Alignment explanation
Indices: 69248169--69248215 Score: 69
Period size: 10 Copynumber: 4.7 Consensus size: 10
69248159 CATGAGATTT
69248169 TGATAT-ACA
1 TGATATGACA
69248178 TGATATGACA
1 TGATATGACA
69248188 TGATATGACA
1 TGATATGACA
*
69248198 TGATCTGCACA
1 TGATATG-ACA
69248209 TGATATG
1 TGATATG
69248216 TTATGAGATG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
9 6 0.18
10 19 0.56
11 9 0.26
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (10 bp):
TGATATGACA
Found at i:69248221 original size:21 final size:21
Alignment explanation
Indices: 69248169--69248235 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
69248159 CATGAGATTT
69248169 TGATAT-ACATGATATG-ACA
1 TGATATGACATGATATGCACA
*
69248188 TGATATGACATGATCTGCACA
1 TGATATGACATGATATGCACA
** *
69248209 TGATATGTTATGAGATGCACA
1 TGATATGACATGATATGCACA
*
69248230 AGATAT
1 TGATAT
69248236 ATTCATTATA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
19 6 0.15
20 9 0.22
21 25 0.62
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.31
Consensus pattern (21 bp):
TGATATGACATGATATGCACA
Found at i:69248317 original size:25 final size:24
Alignment explanation
Indices: 69248283--69248352 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 24
69248273 AGGAAGTGCA
*
69248283 AAAAGGGCTTTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTAACC
*
69248307 GAAAAGGGCTTTGCCCCAGTTAATC
1 -AAAAGGGCTTTGCCCCAGTTAACC
69248332 AATAAGGGCTTTGCCCCAGTT
1 AA-AAGGGCTTTGCCCCAGTT
69248353 CTTAAAAGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
24 2 0.05
25 40 0.95
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTAACC
Found at i:69250418 original size:23 final size:24
Alignment explanation
Indices: 69250392--69250447 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
69250382 AGTTAGTAAT
69250392 AAAGAAATGGA-GAAAA-AAAAGA
1 AAAGAAATGGATGAAAACAAAAGA
*
69250414 GAAAGAAAAGGATGAAAACAAAAGA
1 -AAAGAAATGGATGAAAACAAAAGA
*
69250439 AAAAAAATG
1 AAAGAAATG
69250448 TGTCCATCCT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 10 0.36
24 12 0.43
25 6 0.21
ACGTcount: A:0.71, C:0.02, G:0.21, T:0.05
Consensus pattern (24 bp):
AAAGAAATGGATGAAAACAAAAGA
Found at i:69268606 original size:14 final size:13
Alignment explanation
Indices: 69268587--69268620 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
69268577 ATTTGACTTA
69268587 TTCTTAATTATGTG
1 TTCTTAATTAT-TG
69268601 TTCTTAATTATTG
1 TTCTTAATTATTG
69268614 TT-TTAAT
1 TTCTTAAT
69268621 ATTCCAGGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 5 0.25
13 4 0.20
14 11 0.55
ACGTcount: A:0.24, C:0.06, G:0.09, T:0.62
Consensus pattern (13 bp):
TTCTTAATTATTG
Found at i:69268847 original size:128 final size:128
Alignment explanation
Indices: 69268619--69268875 Score: 496
Period size: 128 Copynumber: 2.0 Consensus size: 128
69268609 TATTGTTTTA
*
69268619 ATATTCCAGGATATTGCTTCAAGTTAATACTCTTATTCAGAGGAGGAATAGACCCTGTCTAAGAG
1 ATATTCCAGGATATTGATTCAAGTTAATACTCTTATTCAGAGGAGGAATAGACCCTGTCTAAGAG
69268684 TAAATTTGTCATAATTAAGCGCAGTTGAGTGCAAGACTAGAGATAGGGTGATAAGATTTTACC
66 TAAATTTGTCATAATTAAGCGCAGTTGAGTGCAAGACTAGAGATAGGGTGATAAGATTTTACC
*
69268747 ATATTCCAGGATATTGATTCAAGTTAATACTCTTATTCAGAGGAGGAATAGACCTTGTCTAAGAG
1 ATATTCCAGGATATTGATTCAAGTTAATACTCTTATTCAGAGGAGGAATAGACCCTGTCTAAGAG
69268812 TAAATTTGTCATAATTAAGCGCAGTTGAGTGCAAGACTAGAGATAGGGTGATAAGATTTTACC
66 TAAATTTGTCATAATTAAGCGCAGTTGAGTGCAAGACTAGAGATAGGGTGATAAGATTTTACC
69268875 A
1 A
69268876 GATTAGGGTG
Statistics
Matches: 127, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
128 127 1.00
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.31
Consensus pattern (128 bp):
ATATTCCAGGATATTGATTCAAGTTAATACTCTTATTCAGAGGAGGAATAGACCCTGTCTAAGAG
TAAATTTGTCATAATTAAGCGCAGTTGAGTGCAAGACTAGAGATAGGGTGATAAGATTTTACC
Found at i:69269802 original size:53 final size:54
Alignment explanation
Indices: 69269734--69269940 Score: 224
Period size: 53 Copynumber: 3.9 Consensus size: 54
69269724 TTTCCTTTTT
* * * *
69269734 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* * *
69269787 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATA
* * * * *
69269841 GTAACTCATCAATGTCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* * *
69269896 GAACTTATCC-ATGCCAGGCCTTGACATGGTCTTACAT-ATATCCTT
1 GAACTCA-CCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
69269941 ATCTTACCAA
Statistics
Matches: 128, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
52 2 0.02
53 50 0.39
54 30 0.23
55 44 0.34
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
Found at i:69269871 original size:55 final size:53
Alignment explanation
Indices: 69269745--69269932 Score: 216
Period size: 55 Copynumber: 3.5 Consensus size: 53
69269735 AACTTACCAT
* * *
69269745 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCATCAA
* * *
69269798 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AACTCATCAA
* * * * * *
69269853 TGTCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCCA
1 TGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAACTCATCAA
*
69269907 TGCCAGGCCTTGACATGGTCTTACAT
1 TGCCATGCCTTGACATGGTCTTACAT
69269933 ATATCCTTAT
Statistics
Matches: 113, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
52 2 0.02
53 34 0.30
54 32 0.28
55 43 0.38
56 2 0.02
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAACTCATCAA
Found at i:69277850 original size:40 final size:40
Alignment explanation
Indices: 69277795--69278019 Score: 290
Period size: 40 Copynumber: 5.6 Consensus size: 40
69277785 TATTCGGATG
69277795 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
69277835 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
69277878 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * *
69277918 ATTTCCGGGCTAAGACCCGAAGGCATGTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * *
69277958 ATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGCG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
69277998 ATATCC-GGCTAAATCCCAAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
69278020 TACTTGGTTT
Statistics
Matches: 162, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 13 0.08
40 111 0.69
41 1 0.01
43 37 0.23
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:69277938 original size:83 final size:80
Alignment explanation
Indices: 69277799--69277989 Score: 283
Period size: 83 Copynumber: 2.4 Consensus size: 80
69277789 CGGATGATAT
* * *
69277799 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATGTG
*
69277864 TGCGAGTAGTTGCTATAC
66 TGC--G-AGTTACTATAC
* *
69277882 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATTTCCGGGCTAAGACCCGAAGGCATGTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATGTG
*
69277947 TGCGAGTTACTATAT
66 TGCGAGTTACTATAC
*
69277962 CCGGGTTAAGTCCCGAAGGCATTTGTGC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC
69277990 GAGTTGCGAT
Statistics
Matches: 100, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
80 36 0.36
81 1 0.01
83 63 0.63
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATGTG
TGCGAGTTACTATAC
Found at i:69279628 original size:22 final size:19
Alignment explanation
Indices: 69279582--69279632 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 19
69279572 CGAGTTTGGG
*
69279582 ACACGGGCGTGTCCCTAGC
1 ACACGGGCGTGTCCCTACC
69279601 ACACGGGCGTGTCCCTATACCC
1 ACACGGGCGTGTCCC--TA-CC
69279623 ACACGGGCGT
1 ACACGGGCGT
69279633 ATGAACCCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 15 0.54
21 2 0.07
22 11 0.39
ACGTcount: A:0.18, C:0.37, G:0.29, T:0.16
Consensus pattern (19 bp):
ACACGGGCGTGTCCCTACC
Found at i:69283674 original size:40 final size:40
Alignment explanation
Indices: 69283629--69283828 Score: 260
Period size: 40 Copynumber: 5.0 Consensus size: 40
69283619 CGAGATTTAA
* * *
69283629 CCGGATATAGCT-ACTCGCTCGAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
69283669 CCGGATGTAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
69283709 CCGGATATAGTAACTCACACAAATGCCTTCGGGGCTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
**
69283749 CCGGATATAGTAACAAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
69283789 CCGGA-ACTAGTCACTAGCGCAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
69283829 TCGGTTATCA
Statistics
Matches: 142, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 140 0.99
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.21
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:69291906 original size:30 final size:30
Alignment explanation
Indices: 69291872--69291932 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
69291862 TCTTTAACTC
69291872 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
69291902 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
69291932 A
1 A
69291933 GGCTTAGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:69294316 original size:55 final size:53
Alignment explanation
Indices: 69294191--69294379 Score: 179
Period size: 55 Copynumber: 3.5 Consensus size: 53
69294181 AACTTACCAT
* *
69294191 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCC-TTA-TGAACTCACCAA
1 TGCCATGTCTTGACATGGTCTTACATGGTA-CCTTGCCTTTAGT-AACTCATCAA
* * * * *
69294244 TTCTATG-CGTTCACATGGTCTTACATGGGACCTTTCCCTTTCAGTAACTCATCAA
1 TGCCATGTC-TTGACATGGTCTTACATGGTACC-TTGCCTTT-AGTAACTCATCAA
* * *
69294299 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAG-AACTTATCAA
1 TGCCATGTCTTGACATGGTCTTACATG-GTACCTTGCCTT-TAGTAACTCATCAA
* *
69294353 TGCCATGCCTTGGCATGGTCTTACATG
1 TGCCATGTCTTGACATGGTCTTACATG
69294380 ATCTCCTTAT
Statistics
Matches: 111, Mismatches: 17, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
52 3 0.03
53 27 0.24
54 36 0.32
55 40 0.36
56 5 0.05
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.36
Consensus pattern (53 bp):
TGCCATGTCTTGACATGGTCTTACATGGTACCTTGCCTTTAGTAACTCATCAA
Found at i:69294370 original size:54 final size:54
Alignment explanation
Indices: 69294180--69294387 Score: 197
Period size: 54 Copynumber: 3.9 Consensus size: 54
69294170 TTTTCTTTTT
* * * * *
69294180 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * * * ** *
69294233 GAACTCACCAATTCTATGCGTTCACATGGTCTTACATGGGA-CCTTTCCCTT-TCA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTAT-A
* * *
69294287 GTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * * *
69294342 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATCTCCTT
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
69294388 ATCTTACCAA
Statistics
Matches: 125, Mismatches: 24, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
52 3 0.02
53 38 0.30
54 42 0.34
55 39 0.31
56 3 0.02
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.36
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
Found at i:69294646 original size:44 final size:44
Alignment explanation
Indices: 69294580--69294663 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
69294570 TCCTTAACTG
* * *
69294580 TCAATTCCTCCTTAAATGCCATGTTATGAA-CATGGACTTTTCCA
1 TCAATTCCTCCTTAAATACCATGGTA-CAACCATGGACTTTTCCA
* *
69294624 TCAATTCTTCCTTAATTACCATGGTACAACCATGGACTTT
1 TCAATTCCTCCTTAAATACCATGGTACAACCATGGACTTT
69294664 GAGATATTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 2 0.06
44 32 0.94
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.37
Consensus pattern (44 bp):
TCAATTCCTCCTTAAATACCATGGTACAACCATGGACTTTTCCA
Found at i:69300944 original size:55 final size:53
Alignment explanation
Indices: 69300831--69301019 Score: 229
Period size: 55 Copynumber: 3.5 Consensus size: 53
69300821 AACTTACCAT
*
69300831 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGTCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCATCAA
* * * *
69300884 TGCCATG-CATTGGCATGGTCTTACATGGGACCTTTCCCTTTTAGTAACTCATCAA
1 TGCCATGTC-TTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AACTCATCAA
* * *
69300939 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGTCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAACTCATCAA
* *
69300993 TGCCATGCCTTGGCATGGTCTTACATG
1 TGCCATGTCTTGACATGGTCTTACATG
69301020 ATATCCTTAT
Statistics
Matches: 116, Mismatches: 14, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
52 3 0.03
53 33 0.28
54 35 0.30
55 42 0.36
56 3 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (53 bp):
TGCCATGTCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAACTCATCAA
Found at i:69301010 original size:54 final size:54
Alignment explanation
Indices: 69300820--69301027 Score: 240
Period size: 53 Copynumber: 3.9 Consensus size: 54
69300810 TTTCCTTTTT
* * * *
69300820 GAACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * ** * *
69300873 GAACTCACCAATGCCATGCATTGGCATGGTCTTACATGGGA-CCTTTCCCTTTTA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATA
* * *
69300927 GTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * *
69300982 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
69301028 ATCTTACCTA
Statistics
Matches: 130, Mismatches: 21, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
52 2 0.02
53 42 0.32
54 42 0.32
55 42 0.32
56 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
Found at i:69302822 original size:28 final size:28
Alignment explanation
Indices: 69302757--69302907 Score: 214
Period size: 28 Copynumber: 5.4 Consensus size: 28
69302747 GAAATTGGCG
* * * *
69302757 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
69302786 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
69302814 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
69302842 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
69302870 CTAAGTGTGCAAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
69302897 CTGAGTGTGCG
1 CTAAGTGTGCG
69302908 GACTTAATAT
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.20
28 75 0.66
29 15 0.13
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:69307123 original size:40 final size:40
Alignment explanation
Indices: 69307023--69307287 Score: 286
Period size: 40 Copynumber: 6.7 Consensus size: 40
69307013 GCTCCTCGTT
* * * *
69307023 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
69307063 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
69307102 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
69307142 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
69307182 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
69307222 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
69307263 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
69307288 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 143 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:69307247 original size:80 final size:80
Alignment explanation
Indices: 69306990--69307287 Score: 263
Period size: 80 Copynumber: 3.7 Consensus size: 80
69306980 AAATCACGTA
* ** * * *
69306990 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
69307052 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * *
69307068 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
69307131 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
69307148 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
69307212 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
69307228 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
69307288 CAGCATTCAA
Statistics
Matches: 182, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.07
79 50 0.27
80 106 0.58
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:69307296 original size:41 final size:41
Alignment explanation
Indices: 69307219--69307296 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
69307209 TTTGTATCTC
* * *
69307219 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
69307260 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
69307297 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:69314694 original size:40 final size:40
Alignment explanation
Indices: 69314596--69314858 Score: 255
Period size: 40 Copynumber: 6.6 Consensus size: 40
69314586 TCCTCGTTCA
* * * * *
69314596 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
69314635 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
69314675 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
69314715 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
69314755 AAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTTGCACA
1 AATGCCTTCGGGACTTAACCCGG-ATTTAATAACTCGCACG
** * * * *
69314795 AATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
69314835 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
69314859 CAGCATTCAA
Statistics
Matches: 194, Mismatches: 24, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 143 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:69314818 original size:80 final size:80
Alignment explanation
Indices: 69314561--69314858 Score: 254
Period size: 80 Copynumber: 3.7 Consensus size: 80
69314551 AAATCACGTA
* ** * * *
69314561 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
69314623 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * *
69314639 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
69314702 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
69314719 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* * *
69314783 -GTATCTTGCACAAATG
64 AATAACTCGCACAAATG
** * * *
69314799 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
69314859 CAGCATTCAA
Statistics
Matches: 181, Mismatches: 27, Indels: 22
0.79 0.12 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.07
79 50 0.28
80 105 0.58
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:69314818 original size:120 final size:119
Alignment explanation
Indices: 69314596--69314858 Score: 289
Period size: 120 Copynumber: 2.2 Consensus size: 119
69314586 TCCTCGTTCA
* * *
69314596 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
69314661 TAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAACAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
69314714 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
** * * ** * *
69314779 ATTT-GTATCTTGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAACAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
69314835 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
69314859 CAGCATTCAA
Statistics
Matches: 119, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
119 37 0.31
120 73 0.61
121 9 0.08
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAACAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:69314867 original size:41 final size:41
Alignment explanation
Indices: 69314790--69314867 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
69314780 TTTGTATCTT
* * *
69314790 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
69314831 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
69314868 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:69321476 original size:47 final size:47
Alignment explanation
Indices: 69321394--69321987 Score: 963
Period size: 47 Copynumber: 12.6 Consensus size: 47
69321384 TTAAACCCAT
*
69321394 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
69321443 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
69321490 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
69321537 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
69321584 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
69321631 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
69321678 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
69321725 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
69321772 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
** *
69321821 ATGTGAAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
** *
69321868 ATGTGAAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
69321915 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAATGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
69321962 ATGTGAAAGTGCATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
69321988 TCCCGAAGGG
Statistics
Matches: 516, Mismatches: 27, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
47 461 0.89
49 55 0.11
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:69322162 original size:37 final size:37
Alignment explanation
Indices: 69322108--69322183 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
69322098 GAGTTCTAAG
* * *
69322108 GACCCGATGACTACGTGTGGGGATTTTGTCCGGGTAA
1 GACCCGATAACTACGTGTGGAGATTATGTCCGGGTAA
*
69322145 GACCCGATAACTTCGTGTGGAGATTATGTCCGGGTAA
1 GACCCGATAACTACGTGTGGAGATTATGTCCGGGTAA
69322182 GA
1 GA
69322184 TTTCGTAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.26
Consensus pattern (37 bp):
GACCCGATAACTACGTGTGGAGATTATGTCCGGGTAA
Found at i:69326179 original size:27 final size:28
Alignment explanation
Indices: 69326069--69326218 Score: 205
Period size: 28 Copynumber: 5.4 Consensus size: 28
69326059 GAGATTGGCG
* * * *
69326069 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
69326098 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
69326126 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
69326154 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
69326181 CTAAGTGTGCAAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
69326208 CTGAGTGTGCG
1 CTAAGTGTGCG
69326219 GACTTAATAT
Statistics
Matches: 112, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 48 0.43
28 49 0.44
29 15 0.13
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:69326186 original size:55 final size:55
Alignment explanation
Indices: 69326094--69326218 Score: 198
Period size: 55 Copynumber: 2.3 Consensus size: 55
69326084 TAAATTGTAC
* * *
69326094 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCAAG-TTGATTATAT
69326150 AGCACTAAGTGTGCGAG-TTGATTATATAGCACTAAGTGTGCAAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCAAGTTGATTATAT
*
69326204 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
69326219 GACTTAATAT
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
54 23 0.35
55 25 0.38
56 17 0.26
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCAAGTTGATTATAT
Found at i:69326231 original size:27 final size:27
Alignment explanation
Indices: 69326094--69326218 Score: 196
Period size: 27 Copynumber: 4.6 Consensus size: 27
69326084 TAAATTGTAC
*
69326094 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGATTATAT
*
69326122 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGATTATAT
69326150 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATTATAT
*
69326177 AGCACTAAGTGTGCAAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATTATAT
*
69326204 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
69326219 GACTTAATAT
Statistics
Matches: 93, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
27 48 0.52
28 45 0.48
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTATAT
Found at i:69330469 original size:42 final size:41
Alignment explanation
Indices: 69330348--69330469 Score: 156
Period size: 43 Copynumber: 2.9 Consensus size: 41
69330338 TACCATGCCA
* *
69330348 ATGCCATATCCCAGATATGGTCTTACATGGGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACA-CGAATCTCATATCG
* *
69330390 ATGCCAATAGT-CTAGCTATGGTCTTACACGAAGTCTCATATCG
1 ATGCC-ATA-TCCCAGATATGGTCTTACACGAA-TCTCATATCG
69330433 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACACG-AATCTCA
69330470 AATAACCCTA
Statistics
Matches: 69, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
41 1 0.01
42 32 0.46
43 35 0.51
44 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACACGAATCTCATATCG
Found at i:69345244 original size:47 final size:44
Alignment explanation
Indices: 69345128--69345305 Score: 166
Period size: 47 Copynumber: 3.9 Consensus size: 44
69345118 ACATAGGGAA
*
69345128 TAATGCCGATGCCATGTCCCAGACATGGTCTTACACTAACACATCTCG
1 TAATGCCGATG-CATGTCCCAGACATGGTCTTACACT-A-GC-TCTCG
69345176 T-A-GCCGATGCATGTCCCAGACAT-GTCTTACACTAGCTCTCG
1 TAATGCCGATGCATGTCCCAGACATGGTCTTACACTAGCTCTCG
* * * * *
69345217 TTTCAATGTCGATGCCATGTCCCAGACATGGTCTTGCAGTGGCTCTCA
1 --T-AATGCCGATG-CATGTCCCAGACATGGTCTTACACTAGCTCTCG
*
69345265 TAATGTGGCTGATGCATGTCCCAGACAT-GTCTTACACTAGC
1 TAA--T-GCCGATGCATGTCCCAGACATGGTCTTACACTAGC
69345306 ACACAAATAA
Statistics
Matches: 109, Mismatches: 11, Indels: 22
0.77 0.08 0.15
Matches are distributed among these distances:
41 5 0.05
42 1 0.01
43 2 0.02
44 10 0.09
45 17 0.16
46 24 0.22
47 30 0.28
48 20 0.18
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (44 bp):
TAATGCCGATGCATGTCCCAGACATGGTCTTACACTAGCTCTCG
Found at i:69346937 original size:25 final size:25
Alignment explanation
Indices: 69346903--69346952 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
69346893 CTTCCACAGG
69346903 GATACTTTCAAAAACTCTGTATCCC
1 GATACTTTCAAAAACTCTGTATCCC
69346928 GATACTTTCAAAAACTCTGTATCCC
1 GATACTTTCAAAAACTCTGTATCCC
69346953 TGACTAGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (25 bp):
GATACTTTCAAAAACTCTGTATCCC
Found at i:69352378 original size:49 final size:47
Alignment explanation
Indices: 69352262--69352383 Score: 129
Period size: 49 Copynumber: 2.6 Consensus size: 47
69352252 AATGCCGATG
* * * **
69352262 CCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTCGATG
1 CCATGTCCCAGACATGGTCTTACACTGACTCATCAATCAAGCCGACC
* * * *
69352309 CCATGTCCCAAACATAGTCTTACACTGACT-ATCGAAATTGAGGCCGACC
1 CCATGTCCCAGACATGGTCTTACACTGACTCATC--AA-TCAAGCCGACC
69352358 CCATGTCCCAGACATGGTCTTACACT
1 CCATGTCCCAGACATGGTCTTACACT
69352384 AGCTCTCATA
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
46 3 0.05
47 27 0.44
48 1 0.02
49 30 0.49
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.25
Consensus pattern (47 bp):
CCATGTCCCAGACATGGTCTTACACTGACTCATCAATCAAGCCGACC
Found at i:69354983 original size:42 final size:43
Alignment explanation
Indices: 69354874--69354989 Score: 162
Period size: 43 Copynumber: 2.7 Consensus size: 43
69354864 AAGCTCATCA
* * * *
69354874 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATGG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATGG
* * *
69354917 ATACCACTGTCCCAGACAGGGTCTTACACGAAATCAAATAT-G
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATGG
69354959 ATGCCAATGTCCCAGACATGGTCTTACACGA
1 ATGCCAATGTCCCAGACATGGTCTTACACGA
69354990 TAACACATAT
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
42 29 0.46
43 34 0.54
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATGG
Found at i:69360456 original size:5 final size:5
Alignment explanation
Indices: 69360446--69360474 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
69360436 AATGGTTCTT
69360446 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
69360475 TTTACCTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTC
Found at i:69367971 original size:6 final size:6
Alignment explanation
Indices: 69367961--69367994 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
69367951 TGCTATTCTT
* *
69367961 CTCTCT CTCTCT CTCTCC CTCTCC CTCTCC CTCT
1 CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC CTCT
69367995 TTATATTCCG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (6 bp):
CTCTCC
Found at i:69372036 original size:18 final size:17
Alignment explanation
Indices: 69372009--69372045 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
69371999 AGGCTGTGCA
69372009 TTCTTCTTCTTTTCTTCT
1 TTCTTCTTCTTTT-TTCT
*
69372027 TTCTTTTTCTTTTTTCT
1 TTCTTCTTCTTTTTTCT
69372044 TT
1 TT
69372046 TTACTATACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (17 bp):
TTCTTCTTCTTTTTTCT
Found at i:69375626 original size:19 final size:20
Alignment explanation
Indices: 69375604--69375647 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
69375594 AGTCACAATG
69375604 CTTTTGTCTT-T-GTTCTGTA
1 CTTTTGTCTTGTCGTTCT-TA
69375623 CTTTT-TCTTGTCGTTCTTA
1 CTTTTGTCTTGTCGTTCTTA
69375642 CTTTTG
1 CTTTTG
69375648 ATTTTTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 4 0.18
19 13 0.59
20 5 0.23
ACGTcount: A:0.05, C:0.18, G:0.14, T:0.64
Consensus pattern (20 bp):
CTTTTGTCTTGTCGTTCTTA
Found at i:69381569 original size:14 final size:14
Alignment explanation
Indices: 69381543--69381572 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
69381533 GTATTCGACC
69381543 AAGGGAAGAAAAAT
1 AAGGGAAGAAAAAT
69381557 AAGGAGAAGAAAAAT
1 AAGG-GAAGAAAAAT
69381572 A
1 A
69381573 TTTCTTCACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.67, C:0.00, G:0.27, T:0.07
Consensus pattern (14 bp):
AAGGGAAGAAAAAT
Found at i:69385164 original size:27 final size:27
Alignment explanation
Indices: 69385112--69385233 Score: 149
Period size: 27 Copynumber: 4.6 Consensus size: 27
69385102 TGATTTACAA
*
69385112 AATTATTGAAATACCC-TGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
69385138 AATTACTGAAATACTCC-TGTAGGGTAG
1 AATTACTGAAATAC-CCTTGTAGGGTAG
**
69385165 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* * *
69385192 AAATACAGAAATACCCTTGTAGCGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* *
69385219 AATTACCGAGATACC
1 AATTACTGAAATACC
69385234 TGTGACATCC
Statistics
Matches: 84, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
26 15 0.18
27 69 0.82
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGTAGGGTAG
Found at i:69387742 original size:47 final size:47
Alignment explanation
Indices: 69387684--69388166 Score: 750
Period size: 47 Copynumber: 10.3 Consensus size: 47
69387674 ACAAGATATG
*
69387684 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
69387731 TATATGAGATAAGACCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
69387778 TATATGTGATAAAGCCTAATGGCCAATGTGATGAATTTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
69387825 TATATGTGATAAGTCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
69387872 TATATGAGATAAGACCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
69387919 TATATGTGATAAAGCCTAATGGCCAACGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
69387966 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
69388013 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* * * * *
69388060 TATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAGGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
69388107 TATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
69388154 TAAATGTGATAAG
1 TATATGTGATAAG
69388167 TCCCGAAGGG
Statistics
Matches: 395, Mismatches: 41, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 395 1.00
ACGTcount: A:0.35, C:0.09, G:0.28, T:0.28
Consensus pattern (47 bp):
TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:69387784 original size:25 final size:25
Alignment explanation
Indices: 69387756--69387877 Score: 71
Period size: 25 Copynumber: 5.1 Consensus size: 25
69387746 CTAATGGCCG
69387756 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ***
69387781 ATGTGAT-AAAGCCTAA-TGGCCA-
1 ATGTGATGAATGTGAAAGTGTATAT
*
69387803 ATGTGATGAATTTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
***
69387828 ATGTGAT-AA-GTCCG-AA-TGGCCA-
1 ATGTGATGAATGT--GAAAGTGTATAT
69387850 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
69387875 ATG
1 ATG
69387878 AGATAAGACC
Statistics
Matches: 65, Mismatches: 22, Indels: 20
0.61 0.21 0.19
Matches are distributed among these distances:
22 15 0.23
23 15 0.23
24 17 0.26
25 18 0.28
ACGTcount: A:0.35, C:0.07, G:0.26, T:0.32
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:69390090 original size:22 final size:22
Alignment explanation
Indices: 69390030--69390090 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
69390020 GCCAATTATT
*
69390030 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTTTGTGCCAAC
69390052 CT-ATATATGGCTTTGTGCCAAC
1 CTGAT-TATGGCTTTGTGCCAAC
*
69390074 CTGATTATGGCTGTGTG
1 CTGATTATGGCTTTGTG
69390091 TGTCATTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.18, C:0.21, G:0.25, T:0.36
Consensus pattern (22 bp):
CTGATTATGGCTTTGTGCCAAC
Found at i:69390369 original size:6 final size:6
Alignment explanation
Indices: 69390358--69390470 Score: 54
Period size: 6 Copynumber: 18.5 Consensus size: 6
69390348 ATTGCATTTA
* * * *
69390358 GATTCT GATTCT GATTCT GTTATCT -ATACT AATTCT GATTCT G-TCACCT
1 GATTCT GATTCT GATTCT GAT-TCT GATTCT GATTCT GATTCT GAT--TCT
* * * * * *
69390407 AATTCT AATTCT GATTCT G-TCACCT GATTCT GATTCT GATCCT CATTTT
1 GATTCT GATTCT GATTCT GAT--TCT GATTCT GATTCT GATTCT GATTCT
69390456 GATTCT -AGTTCT GAT
1 GATTCT GA-TTCT GAT
69390471 AATGTTTCTT
Statistics
Matches: 80, Mismatches: 17, Indels: 20
0.68 0.15 0.17
Matches are distributed among these distances:
5 5 0.06
6 64 0.80
7 9 0.11
8 2 0.03
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.47
Consensus pattern (6 bp):
GATTCT
Found at i:69390420 original size:25 final size:24
Alignment explanation
Indices: 69390359--69390446 Score: 113
Period size: 25 Copynumber: 3.6 Consensus size: 24
69390349 TTGCATTTAG
* * *
69390359 ATTCTGATTCTGATTCTGTTATCT
1 ATTCTAATTCTGATTCTGTCACCT
*
69390383 ATACTAATTCTGATTCTGTCACCT
1 ATTCTAATTCTGATTCTGTCACCT
69390407 AATTCTAATTCTGATTCTGTCACCT
1 -ATTCTAATTCTGATTCTGTCACCT
*
69390432 GATTCTGATTCTGAT
1 -ATTCTAATTCTGAT
69390447 CCTCATTTTG
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
24 20 0.36
25 36 0.64
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.47
Consensus pattern (24 bp):
ATTCTAATTCTGATTCTGTCACCT
Found at i:69396871 original size:28 final size:27
Alignment explanation
Indices: 69396839--69396898 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 27
69396829 TAGAAATAGT
69396839 ATCAGGTGGGCCTTAA-CCCAATAACAGA
1 ATCAGGTGGGCC-TAAGCCCAA-AACAGA
*
69396867 ATCAGGTGGGCCTAAGCCCAACACAGA
1 ATCAGGTGGGCCTAAGCCCAAAACAGA
69396894 ATCAG
1 ATCAG
69396899 TATCAGATGC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 13 0.43
28 17 0.57
ACGTcount: A:0.35, C:0.27, G:0.23, T:0.15
Consensus pattern (27 bp):
ATCAGGTGGGCCTAAGCCCAAAACAGA
Found at i:69397067 original size:22 final size:22
Alignment explanation
Indices: 69397039--69397081 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
69397029 TACTAAGTCA
69397039 ACAGAACGACTCAAA-ACCGTAG
1 ACAGAACGACT-AAAGACCGTAG
*
69397061 ACAGAACGGCTAAAGACCGTA
1 ACAGAACGACTAAAGACCGTA
69397082 AATATCGTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.44, C:0.26, G:0.21, T:0.09
Consensus pattern (22 bp):
ACAGAACGACTAAAGACCGTAG
Found at i:69397345 original size:27 final size:27
Alignment explanation
Indices: 69397315--69397379 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
69397305 GGGCATAAGC
*
69397315 GTCATTCTAC-CATACAGGGGTATTACG
1 GTCATTCTACAC-TACAAGGGTATTACG
* *
69397342 GTCATTTTACACTACAAGGGTATTTCG
1 GTCATTCTACACTACAAGGGTATTACG
* *
69397369 GTGATTTTACA
1 GTCATTCTACA
69397380 AACCAGGGTC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.35
Consensus pattern (27 bp):
GTCATTCTACACTACAAGGGTATTACG
Found at i:69403702 original size:56 final size:54
Alignment explanation
Indices: 69403583--69403739 Score: 163
Period size: 56 Copynumber: 2.8 Consensus size: 54
69403573 CATGACATAG
* * * *
69403583 CACGCCTCTCAATAGGGCTACATATGAGCACCCAGACCTAGCATGCATCACATTAC
1 CACGCCTCTCAACAGGGCTACATA--AGCTCCCAGACCTAGCATGTACCACATTAC
* *
69403639 CACGCCTCTCAACAAGGCTACATAAGCTCCCAGACCTAGCGTGTACCACATAATTA-
1 CACGCCTCTCAACAGGGCTACATAAGCTCCCAGACCTAGCATGTACCAC---ATTAC
* * * * *
69403695 CATGCCTCTCAACGGGGCTACACAAGCTCTCGGACCTAGCATGTA
1 CACGCCTCTCAACAGGGCTACATAAGCTCCCAGACCTAGCATGTA
69403740 TCATGTCATC
Statistics
Matches: 85, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
54 21 0.25
56 60 0.71
57 4 0.05
ACGTcount: A:0.29, C:0.34, G:0.17, T:0.20
Consensus pattern (54 bp):
CACGCCTCTCAACAGGGCTACATAAGCTCCCAGACCTAGCATGTACCACATTAC
Found at i:69419830 original size:15 final size:15
Alignment explanation
Indices: 69419798--69419826 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
69419788 TATTTTTATG
69419798 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
69419813 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
69419827 ATTTCCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:69425865 original size:16 final size:16
Alignment explanation
Indices: 69425844--69425875 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
69425834 AATTAAGGAC
*
69425844 TAAAATGTTAAAATAT
1 TAAAATGTGAAAATAT
69425860 TAAAATGTGAAAATAT
1 TAAAATGTGAAAATAT
69425876 GAGGGCTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.34
Consensus pattern (16 bp):
TAAAATGTGAAAATAT
Found at i:69426386 original size:43 final size:43
Alignment explanation
Indices: 69426238--69426388 Score: 148
Period size: 42 Copynumber: 3.5 Consensus size: 43
69426228 ATAGGATTCT
* * * *
69426238 GATATGTGATTTCGTGTAAGACCATGTCTGGGA-TGTTGGCATC
1 GATATTTGATTACATGTAAGACCATGTCTGGGACAG-TGGCATC
* * *
69426281 GAT-TTGAGATTTACATGTAAAACCATGTCTGGGACA-TCGACATC
1 GATATT-TGA-TTACATGTAAGACCATGTCTGGGACAGT-GGCATC
* * *
69426325 -ATATTTGTTTTCTTGTAAGACCATGTCTGGGACAGTGGCATC
1 GATATTTGATTACATGTAAGACCATGTCTGGGACAGTGGCATC
69426367 GATATTTGATTACATGTAAGAC
1 GATATTTGATTACATGTAAGAC
69426389 TACGTCTAGG
Statistics
Matches: 85, Mismatches: 16, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
42 29 0.34
43 28 0.33
44 28 0.33
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.34
Consensus pattern (43 bp):
GATATTTGATTACATGTAAGACCATGTCTGGGACAGTGGCATC
Found at i:69428708 original size:27 final size:27
Alignment explanation
Indices: 69428678--69428855 Score: 128
Period size: 27 Copynumber: 6.6 Consensus size: 27
69428668 ATATTGAGCC
* *
69428678 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
69428705 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
69428732 AGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
69428760 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
69428787 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
69428814 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
69428841 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
69428856 GTACAATTTA
Statistics
Matches: 119, Mismatches: 27, Indels: 10
0.76 0.17 0.06
Matches are distributed among these distances:
26 2 0.02
27 95 0.80
28 22 0.18
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:69428792 original size:55 final size:54
Alignment explanation
Indices: 69428678--69428855 Score: 155
Period size: 54 Copynumber: 3.3 Consensus size: 54
69428668 ATATTGAGCC
* * * * *
69428678 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * * ** *
69428732 AGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
69428787 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
69428841 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
69428856 GTACAATTTA
Statistics
Matches: 98, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
53 1 0.01
54 54 0.55
55 43 0.44
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:69445172 original size:18 final size:20
Alignment explanation
Indices: 69445145--69445196 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
69445135 AGGGTCCCTA
69445145 ATAGTGCATTTGAGCCCCCG
1 ATAGTGCATTTGAGCCCCCG
*
69445165 A-A-TGCATTCTGGTGCCCCCG
1 ATAGTGCATT-T-GAGCCCCCG
69445185 ATAGTGCATTTG
1 ATAGTGCATTTG
69445197 TTCCCTTGAC
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
18 6 0.22
19 2 0.07
20 11 0.41
21 2 0.07
22 6 0.22
ACGTcount: A:0.19, C:0.27, G:0.25, T:0.29
Consensus pattern (20 bp):
ATAGTGCATTTGAGCCCCCG
Found at i:69445239 original size:20 final size:19
Alignment explanation
Indices: 69445216--69445267 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 19
69445206 CTGCACTCGG
69445216 GTGCCCCTGATTGCACACTC
1 GTGCCCCTGATTGCACAC-C
* * * *
69445236 GTGCTCTTGACTGCACTCC
1 GTGCCCCTGATTGCACACC
69445255 GATGCCCCTGATT
1 G-TGCCCCTGATT
69445268 ACACTTTGGT
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.13, C:0.37, G:0.21, T:0.29
Consensus pattern (19 bp):
GTGCCCCTGATTGCACACC
Found at i:69450936 original size:31 final size:32
Alignment explanation
Indices: 69450874--69450936 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
69450864 TAATTTTTAA
* *
69450874 TTGATGAGTTTGGCATGTATATGTCATCTTGG
1 TTGATGAGTTTGGCATGTAAATGTCACCTTGG
*
69450906 TTGATGA-TATTGGCATG-AAATGTCGCCTTGG
1 TTGATGAGT-TTGGCATGTAAATGTCACCTTGG
69450937 ATTTGAGGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 12 0.44
32 15 0.56
ACGTcount: A:0.21, C:0.11, G:0.29, T:0.40
Consensus pattern (32 bp):
TTGATGAGTTTGGCATGTAAATGTCACCTTGG
Found at i:69453270 original size:42 final size:42
Alignment explanation
Indices: 69453210--69453324 Score: 144
Period size: 43 Copynumber: 2.7 Consensus size: 42
69453200 TATGTGGTTT
*
69453210 CGTGTAAGACCACGTCTGGGACGTTGGCATCG-TATTTGATTT
1 CGTGTAAGACC-CGTCTGGGACGTTGGCATCGATATTTGATTA
*
69453252 TGTGTAAGACCCTGTCTGGGACAG-TGGCATCGATATTTGATTA
1 CGTGTAAGACCC-GTCTGGGAC-GTTGGCATCGATATTTGATTA
* *
69453295 CATGTAAGACTGCGTCTGGGACGTTGGCAT
1 CGTGTAAGAC-CCGTCTGGGACGTTGGCAT
69453325 TGTACGAGTT
Statistics
Matches: 63, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
41 1 0.02
42 28 0.44
43 33 0.52
44 1 0.02
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (42 bp):
CGTGTAAGACCCGTCTGGGACGTTGGCATCGATATTTGATTA
Found at i:69456355 original size:27 final size:27
Alignment explanation
Indices: 69456216--69456392 Score: 99
Period size: 27 Copynumber: 6.5 Consensus size: 27
69456206 AAATTGTACA
* *
69456216 GCACTAAGTGTGCGATTCT-ACTT-TGTT
1 GCACTAAGTGTGCGATT-TGA-TTACGTG
** * *
69456243 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGATTTGATTACG-TG
* ** * *
69456270 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGATTTGATTACGTG
* * * *
69456297 GCACTAAGTGTGCGGGTTTGACTATGTA
1 GCACTAAGTGTGC-GATTTGATTACGTG
*
69456325 GCACTAAGTGTGCTATTTGATTACGTG
1 GCACTAAGTGTGCGATTTGATTACGTG
* * ** *
69456352 GCACTAAATGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGATTTGATTACGTG
*
69456379 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
69456393 GGCTCAATAT
Statistics
Matches: 120, Mismatches: 25, Indels: 10
0.77 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 95 0.79
28 23 0.19
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGATTACGTG
Found at i:69472779 original size:40 final size:40
Alignment explanation
Indices: 69472711--69472957 Score: 318
Period size: 40 Copynumber: 6.2 Consensus size: 40
69472701 CGGAATTTAG
* * * *
69472711 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * * * *
69472751 CCGGGT-ATAGCAACTCGCAAAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
* * *
69472791 CCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
69472831 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
*
69472871 CCGGATAAAATCACTAGCATAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* *
69472911 CCGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
69472951 CCGGATA
1 CCGGATA
69472958 TCATTCAAAT
Statistics
Matches: 186, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 2 0.01
40 180 0.97
41 4 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:69476074 original size:15 final size:15
Alignment explanation
Indices: 69476054--69476109 Score: 76
Period size: 15 Copynumber: 3.7 Consensus size: 15
69476044 TGATATTGTT
*
69476054 TCTTGGATTTCTGTA
1 TCTTGGATTTCTTTA
*
69476069 TCTTGGATTTCTTTG
1 TCTTGGATTTCTTTA
*
69476084 TCTTGGACTTCTTTA
1 TCTTGGATTTCTTTA
*
69476099 TCTTGGTTTTC
1 TCTTGGATTTC
69476110 ATGTCATCTC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.09, C:0.16, G:0.18, T:0.57
Consensus pattern (15 bp):
TCTTGGATTTCTTTA
Found at i:69480157 original size:39 final size:40
Alignment explanation
Indices: 69480040--69480224 Score: 173
Period size: 40 Copynumber: 4.7 Consensus size: 40
69480030 GCTACTCGTT
* * *
69480040 CAAATGCCTTCGGGACATAACCCAG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAAT-TAGTAACTCGCA
* * *
69480080 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCG
1 CAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCA
* *
69480120 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCA
** * * *
69480159 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGAAT-TAGTAAC-TCGCA
*
69480200 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
69480225 CATCATTCAA
Statistics
Matches: 123, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
38 2 0.02
39 34 0.28
40 74 0.60
41 13 0.11
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCA
Done.