Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 224 of 295
Found at i:71597411 original size:5 final size:5
Alignment explanation
Indices: 71597401--71597438 Score: 58
Period size: 5 Copynumber: 7.4 Consensus size: 5
71597391 TTTTGTGAAA
*
71597401 AAAAT AAAAT AAAAT AAAAT AAAGAA AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAA-AT AAAAT AAAAT AA
71597439 CACACAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 26 0.87
6 4 0.13
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:71601823 original size:5 final size:5
Alignment explanation
Indices: 71601813--71601850 Score: 58
Period size: 5 Copynumber: 7.4 Consensus size: 5
71601803 ATTTGTGAAA
*
71601813 AAAAT AAAAT AAAAT AAAAT AAAGAA AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAA-AT AAAAT AAAAT AA
71601851 CACACAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 26 0.87
6 4 0.13
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:71607084 original size:219 final size:219
Alignment explanation
Indices: 71606705--71607139 Score: 870
Period size: 219 Copynumber: 2.0 Consensus size: 219
71606695 CCTTTTAATG
71606705 AACATGTAAAAAATTAGTCACTTGACTTACTCTTGGAAAACCAAAAAATTGAGTGAAAGTAACTC
1 AACATGTAAAAAATTAGTCACTTGACTTACTCTTGGAAAACCAAAAAATTGAGTGAAAGTAACTC
71606770 TTCACATTTTCCACACTTTATTATAAAAAATTTCTATTGGATTATTTTTATTTTAGACCATTAAA
66 TTCACATTTTCCACACTTTATTATAAAAAATTTCTATTGGATTATTTTTATTTTAGACCATTAAA
71606835 TGTATGTAAAAAAATTAAATCATTGAAAATATTAATTTTCAATTGATTTTAATTTTTCAACTACA
131 TGTATGTAAAAAAATTAAATCATTGAAAATATTAATTTTCAATTGATTTTAATTTTTCAACTACA
71606900 ATTCTTTACTTAAAAGAAGCTAAC
196 ATTCTTTACTTAAAAGAAGCTAAC
71606924 AACATGTAAAAAATTAGTCACTTGACTTACTCTTGGAAAACCAAAAAATTGAGTGAAAGTAACTC
1 AACATGTAAAAAATTAGTCACTTGACTTACTCTTGGAAAACCAAAAAATTGAGTGAAAGTAACTC
71606989 TTCACATTTTCCACACTTTATTATAAAAAATTTCTATTGGATTATTTTTATTTTAGACCATTAAA
66 TTCACATTTTCCACACTTTATTATAAAAAATTTCTATTGGATTATTTTTATTTTAGACCATTAAA
71607054 TGTATGTAAAAAAATTAAATCATTGAAAATATTAATTTTCAATTGATTTTAATTTTTCAACTACA
131 TGTATGTAAAAAAATTAAATCATTGAAAATATTAATTTTCAATTGATTTTAATTTTTCAACTACA
71607119 ATTCTTTACTTAAAAGAAGCT
196 ATTCTTTACTTAAAAGAAGCT
71607140 TTGTTCATGA
Statistics
Matches: 216, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
219 216 1.00
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.39
Consensus pattern (219 bp):
AACATGTAAAAAATTAGTCACTTGACTTACTCTTGGAAAACCAAAAAATTGAGTGAAAGTAACTC
TTCACATTTTCCACACTTTATTATAAAAAATTTCTATTGGATTATTTTTATTTTAGACCATTAAA
TGTATGTAAAAAAATTAAATCATTGAAAATATTAATTTTCAATTGATTTTAATTTTTCAACTACA
ATTCTTTACTTAAAAGAAGCTAAC
Found at i:71610200 original size:40 final size:40
Alignment explanation
Indices: 71610123--71610200 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
71610113 ATTATTGTTT
* *
71610123 AATGCACATACGTGCCCTTGTTTGTACTTCGATACCCTTG
1 AATGCACATACGTGCCCTTGTTTATACTTCGAAACCCTTG
* *
71610163 AATGCACATACGTGTCC-TGTTTATACTTTGGAAACCCT
1 AATGCACATACGTGCCCTTGTTTATAC-TTCGAAACCCT
71610201 AAATCAAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 8 0.24
40 25 0.76
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.35
Consensus pattern (40 bp):
AATGCACATACGTGCCCTTGTTTATACTTCGAAACCCTTG
Found at i:71615002 original size:13 final size:13
Alignment explanation
Indices: 71614984--71615008 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71614974 TCGAGCACAT
71614984 GCCCGTGTCCCTA
1 GCCCGTGTCCCTA
71614997 GCCCGTGTCCCT
1 GCCCGTGTCCCT
71615009 TACATGGCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.04, C:0.48, G:0.24, T:0.24
Consensus pattern (13 bp):
GCCCGTGTCCCTA
Found at i:71616450 original size:44 final size:44
Alignment explanation
Indices: 71616389--71616506 Score: 137
Period size: 45 Copynumber: 2.7 Consensus size: 44
71616379 CATCCATAAT
*
71616389 GAACTCGGACCAACTCAACGAGCTCGAATGCTCACATATATCAT
1 GAACTCGGACCAACTCAACGAGCTCGAATGCTCACATATATCAA
* * * * * *
71616433 GAATTTGGACCAACTCAACAAGTTCGGATTTCTCACATATATCAA
1 GAACTCGGACCAACTCAACGAGCTC-GAATGCTCACATATATCAA
** *
71616478 GAACTCAAACCAACTCAAAGAGCTCGAAT
1 GAACTCGGACCAACTCAACGAGCTCGAAT
71616507 TTCTAAATTC
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
44 24 0.41
45 34 0.59
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.22
Consensus pattern (44 bp):
GAACTCGGACCAACTCAACGAGCTCGAATGCTCACATATATCAA
Found at i:71621314 original size:42 final size:42
Alignment explanation
Indices: 71621267--71621520 Score: 396
Period size: 40 Copynumber: 6.2 Consensus size: 42
71621257 GCTCTCGATA
71621267 TAATATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
1 TAATATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
71621309 T-A-ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
1 TAATATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
*
71621349 T-A-ATATATATCCGAGTTAAATCCTC-CAGGCTTCGTGCTGG
1 TAATATATATATCCGGGTTAAATCC-CGCAGGCTTCGTGCTGG
71621389 T-A-ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
1 TAATATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
*
71621429 TAATATATATATTCGGGTTAAATCCCGCAGGCTTCGTGCTGG
1 TAATATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
* * *
71621471 TAATATATATATCTGGATTAAATCCCGCAGGCTTAGTGCTGG
1 TAATATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
*
71621513 TACTATAT
1 TAATATAT
71621521 CCGGACTTAG
Statistics
Matches: 200, Mismatches: 8, Indels: 8
0.93 0.04 0.04
Matches are distributed among these distances:
39 1 0.00
40 113 0.56
41 3 0.01
42 83 0.41
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.32
Consensus pattern (42 bp):
TAATATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
Found at i:71623578 original size:27 final size:27
Alignment explanation
Indices: 71623547--71623724 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
71623537 TAAATTGTAC
71623547 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
71623574 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
71623600 ATGCACTAAATGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
71623628 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
71623656 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
71623683 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
71623710 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
71623725 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:71623688 original size:82 final size:81
Alignment explanation
Indices: 71623548--71623703 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
71623538 AAATTGTACA
* *
71623548 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAATGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
71623613 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
** * *
71623629 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAAT
*
71623693 GTGCGAGTTGA
64 GTGCGAATTGA
71623704 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:71623715 original size:82 final size:81
Alignment explanation
Indices: 71623544--71623724 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
71623534 GATTAAATTG
* *
71623544 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
71623609 ATGTGCGAATTGACCA
66 ATGTGCGAATTGACCA
* * ** *
71623625 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* * **
71623689 AAGTGTGCGAGTTGATTA
64 AAATGTGCGAATTGACCA
* *
71623707 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
71623725 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
ATGTGCGAATTGACCA
Found at i:71632273 original size:40 final size:40
Alignment explanation
Indices: 71632229--71632470 Score: 367
Period size: 40 Copynumber: 6.0 Consensus size: 40
71632219 TCGATATAAT
71632229 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
1 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
71632269 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
1 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
* *
71632309 ATATATATCCAGGTTAAATCCCGCAGGCTTCATGCTGGTA
1 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
* *
71632349 ATATATATCCAGGTTAAATCCCGTAGGCTTCGTGCTGGTAA
1 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT-A
* *
71632390 TATATATATCCGGGTTAAATCCCGTAGGTTTCGTGCTGGTAA
1 -ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT-A
* **
71632432 TATATATATTCTTGTTAAATCCCGCAGGCTTCGTGCTGG
1 -ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
71632471 CACTATATCC
Statistics
Matches: 189, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
40 115 0.61
41 1 0.01
42 73 0.39
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.33
Consensus pattern (40 bp):
ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
Found at i:71636242 original size:14 final size:14
Alignment explanation
Indices: 71636223--71636249 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
71636213 TATGATGCAT
71636223 AAATGGTAAGTCTC
1 AAATGGTAAGTCTC
71636237 AAATGGTAAGTCT
1 AAATGGTAAGTCT
71636250 ATATTGAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.30
Consensus pattern (14 bp):
AAATGGTAAGTCTC
Found at i:71644597 original size:42 final size:42
Alignment explanation
Indices: 71644539--71644653 Score: 124
Period size: 44 Copynumber: 2.7 Consensus size: 42
71644529 TCGTTGACAC
* * *
71644539 TGTCCTAGACAAGGTCTTACACTAAATCAGATA-CGATGCCGA
1 TGTCCCAGACATGGTCTTACACTAAATCAGA-AGCGATGCCAA
*
71644581 TGTCCCAGACATGGTCTTACACGTAAAACAGAAGTCGATGCCAA
1 TGTCCCAGACATGGTCTTACAC-TAAATCAGAAG-CGATGCCAA
* * * *
71644625 CGTCCCAAACGTGGTCTTACACGAAATCA
1 TGTCCCAGACATGGTCTTACACTAAATCA
71644654 CATATCAGAT
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
42 21 0.34
43 13 0.21
44 27 0.44
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (42 bp):
TGTCCCAGACATGGTCTTACACTAAATCAGAAGCGATGCCAA
Found at i:71646861 original size:39 final size:38
Alignment explanation
Indices: 71646808--71646933 Score: 171
Period size: 39 Copynumber: 3.2 Consensus size: 38
71646798 GGACTTTAGC
* * * *
71646808 CCGGACATATTTCCAGCACGTTGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACC-TAAGT
*
71646847 CCGAATATAATTCCAGCACATAGCCTGCGGAGCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGA-CCTAAGT
*
71646886 TCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGA-CCTAAGT
71646925 CCGGATATA
1 CCGGATATA
71646934 CATCAGTGAA
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
39 75 0.97
40 2 0.03
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (38 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCTAAGT
Found at i:71646863 original size:78 final size:78
Alignment explanation
Indices: 71646774--71646933 Score: 171
Period size: 78 Copynumber: 2.1 Consensus size: 78
71646764 TTAAACCCGG
* * * * * *
71646774 TATAATACCAGCTCGA-AGCCTACGG-GACTTTAGCCCGGACATATTTCCAGCACGTTGCCTGCG
1 TATAATACCAGCAC-ATAGCCTACGGAG-CCTAAGCCCGGACATAATTCCAGCACATAGCCTGCG
*
71646837 GACCTTAAGTCCGAA
64 GACCCTAAGTCCGAA
* * ** *
71646852 TATAATTCCAGCACATAGCCTGCGGAGCCTAAGTTCGGATATAATTCCAGCACATAGCCTGCGGA
1 TATAATACCAGCACATAGCCTACGGAGCCTAAGCCCGGACATAATTCCAGCACATAGCCTGCGGA
*
71646917 CCCTAAGTCCGGA
66 CCCTAAGTCCGAA
71646930 TATA
1 TATA
71646934 CATCAGTGAA
Statistics
Matches: 67, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
77 1 0.01
78 65 0.97
79 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (78 bp):
TATAATACCAGCACATAGCCTACGGAGCCTAAGCCCGGACATAATTCCAGCACATAGCCTGCGGA
CCCTAAGTCCGAA
Found at i:71652896 original size:49 final size:49
Alignment explanation
Indices: 71652819--71652942 Score: 221
Period size: 49 Copynumber: 2.5 Consensus size: 49
71652809 CTGGTATGCA
* * *
71652819 TAGTGGCCTGCACTTAGTACTACACATGCGACCAATTATCGGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACG
71652868 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACG
71652917 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
71652943 CGTGACCTCA
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 72 1.00
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACG
Found at i:71656130 original size:4 final size:4
Alignment explanation
Indices: 71656114--71656147 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
71656104 TGCAACAATC
*
71656114 ATGT ATAT ATGT ATGT ATGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
71656148 TAAACTCGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:71661132 original size:93 final size:93
Alignment explanation
Indices: 71660968--71661138 Score: 227
Period size: 93 Copynumber: 1.8 Consensus size: 93
71660958 CGCCCATAAG
* * ** *
71660968 CGAACTCAGACTCAACTCAACGAGCTCAAGCGTTCGCATCCATAAGTGAGCTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCAAGCGTTCGCATCCATAAATGAACTCGGACAAAAATCA
*
71661033 ACGAGTTCGGATGCCTAGTTACATTTCA
66 AAGAGTTCGGATGCCTAGTTACATTTCA
* * * *
71661061 CGAACTCGGACTCAACTCAACGAGTTC-GGATGTTCGCATCCATAAATGAACTCGGACAAAAATC
1 CGAACTCAGACTCAACTCAACGAGCTCAAG-CGTTCGCATCCATAAATGAACTCGGACAAAAATC
*
71661125 AAAGAGTTTGGATG
65 AAAGAGTTCGGATG
71661139 TTCAAATATC
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
92 1 0.02
93 65 0.98
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCAAGCGTTCGCATCCATAAATGAACTCGGACAAAAATCA
AAGAGTTCGGATGCCTAGTTACATTTCA
Found at i:71663873 original size:27 final size:26
Alignment explanation
Indices: 71663810--71663877 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 26
71663800 ACACACATTA
*
71663810 GCTC-TTATGAGCATCTCGATTAAAG
1 GCTCTTTATGAGCTTCTCGATTAAAG
*
71663835 GCTCTTTGTGAGCTTCTCG-TTAAATTG
1 GCTCTTTATGAGCTTCTCGATTAAA--G
71663862 GCTCTTTATGAGCTTC
1 GCTCTTTATGAGCTTC
71663878 CCGTAATGCT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
25 9 0.24
26 12 0.32
27 16 0.43
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.40
Consensus pattern (26 bp):
GCTCTTTATGAGCTTCTCGATTAAAG
Found at i:71663958 original size:24 final size:24
Alignment explanation
Indices: 71663920--71663996 Score: 86
Period size: 24 Copynumber: 3.2 Consensus size: 24
71663910 CTATCCGGAG
*
71663920 CTTCCTGTTATGGTTCTTTATGAA
1 CTTCCTGATATGGTTCTTTATGAA
*
71663944 CTTCCTGATAAGGTTCTTTGA-GAA
1 CTTCCTGATATGGTTCTTT-ATGAA
* *
71663968 CTTCCCGATTATGGCTC-TTATGAA
1 CTTCCTGA-TATGGTTCTTTATGAA
71663992 CTTCC
1 CTTCC
71663997 CGTTATATAG
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
23 1 0.02
24 37 0.82
25 7 0.16
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.42
Consensus pattern (24 bp):
CTTCCTGATATGGTTCTTTATGAA
Found at i:71668454 original size:10 final size:11
Alignment explanation
Indices: 71668430--71668475 Score: 51
Period size: 10 Copynumber: 4.2 Consensus size: 11
71668420 GAAAAAGTGC
71668430 AGAGAAAACTA
1 AGAGAAAACTA
*
71668441 AGAGAAACCT-
1 AGAGAAAACTA
71668451 AGAGAAAACTA
1 AGAGAAAACTA
71668462 A-ATTGAAAACTA
1 AGA--GAAAACTA
71668474 AG
1 AG
71668476 CTAATGTGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
10 10 0.34
11 10 0.34
12 9 0.31
ACGTcount: A:0.59, C:0.11, G:0.17, T:0.13
Consensus pattern (11 bp):
AGAGAAAACTA
Found at i:71669639 original size:12 final size:13
Alignment explanation
Indices: 71669624--71669655 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
71669614 TATTTTTATT
71669624 AATAAAA-AATAA
1 AATAAAATAATAA
71669636 AATAAAATAA-AA
1 AATAAAATAATAA
71669648 AATAAAAT
1 AATAAAAT
71669656 TTAAAAGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 17 0.89
13 2 0.11
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (13 bp):
AATAAAATAATAA
Found at i:71672868 original size:20 final size:20
Alignment explanation
Indices: 71672843--71672880 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
71672833 GTAACATATA
71672843 TCATGAACTCAGACCACAAC
1 TCATGAACTCAGACCACAAC
* *
71672863 TCATGAGCTCAGATCACA
1 TCATGAACTCAGACCACA
71672881 TAGTTCCTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.32, G:0.13, T:0.18
Consensus pattern (20 bp):
TCATGAACTCAGACCACAAC
Found at i:71674795 original size:24 final size:23
Alignment explanation
Indices: 71674762--71674815 Score: 81
Period size: 24 Copynumber: 2.3 Consensus size: 23
71674752 TGAATCGGAA
*
71674762 AAAGTCGAAATACCGAAAAGCTG
1 AAAGTTGAAATACCGAAAAGCTG
*
71674785 AGAAGTTGAAATGCCGAAAAGCTG
1 A-AAGTTGAAATACCGAAAAGCTG
71674809 AAAGTTG
1 AAAGTTG
71674816 GGATACGGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 7 0.25
24 21 0.75
ACGTcount: A:0.44, C:0.13, G:0.26, T:0.17
Consensus pattern (23 bp):
AAAGTTGAAATACCGAAAAGCTG
Found at i:71675072 original size:29 final size:29
Alignment explanation
Indices: 71675033--71675141 Score: 94
Period size: 29 Copynumber: 3.8 Consensus size: 29
71675023 ATATAATATG
* *
71675033 ATTTGGGCCTAATGGGCCATATGAATGTGA
1 ATTT-GGCCTAATGGGCCATATGAATATAA
* *
71675063 ATTTGGCCTAGTGGGCCATAAGAATATAA
1 ATTTGGCCTAATGGGCCATATGAATATAA
* * * * *
71675092 ACTGGGCCAAATGGGCCATTTGAATA-AG
1 ATTTGGCCTAATGGGCCATATGAATATAA
* * *
71675120 ATTGGGCCTAGTGGCCCATATG
1 ATTTGGCCTAATGGGCCATATG
71675142 CATGTATGTA
Statistics
Matches: 63, Mismatches: 16, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
28 18 0.29
29 41 0.65
30 4 0.06
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (29 bp):
ATTTGGCCTAATGGGCCATATGAATATAA
Found at i:71676208 original size:17 final size:18
Alignment explanation
Indices: 71676175--71676208 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
71676165 ATTTTAAGAA
71676175 GGTTTTCAATGAAAACAT
1 GGTTTTCAATGAAAACAT
*
71676193 GGTTTTCGAT-AAAACA
1 GGTTTTCAATGAAAACA
71676209 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAT
Found at i:71684042 original size:37 final size:37
Alignment explanation
Indices: 71683980--71684124 Score: 254
Period size: 37 Copynumber: 3.9 Consensus size: 37
71683970 TAGCTCGAAT
* *
71683980 AATCCCCACACGTAGTTATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
*
71684017 AATCTCCACACGTAGTCATCAGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
*
71684054 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
71684091 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
71684125 ATATATTTCC
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
Found at i:71684316 original size:48 final size:48
Alignment explanation
Indices: 71684256--71684553 Score: 479
Period size: 48 Copynumber: 6.2 Consensus size: 48
71684246 CGGCCACAAT
*
71684256 ATATACACATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
*
71684304 ATATACATATCTCATACATATTTCACATTAGCCATTCGGATTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* **
71684352 ATATATATATCTCATACATATTTCATGTTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
*
71684400 ATATACATATCTCATACATATTTCACATTAGCCATTCGACTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* * * *
71684448 ATATATATATCTCATACATATTTCATATTAGCCATTGGGCTTTACCAT
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
*
71684496 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* *
71684544 ACATATATAT
1 ATATACATAT
71684554 ATTTATCTTG
Statistics
Matches: 228, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 228 1.00
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.37
Consensus pattern (48 bp):
ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
Found at i:71688177 original size:6 final size:6
Alignment explanation
Indices: 71688154--71688269 Score: 85
Period size: 6 Copynumber: 18.8 Consensus size: 6
71688144 TATCAAAACT
* * * *
71688154 AGAATC AAAATG AGAATC AGAATC AGAATC AGGTGAT- AGAATC AGAATA
1 AGAATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
* * * *
71688203 AGAATA AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGTATC AGGTAAT-
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC A-G-AATC
71688253 AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAAT
71688270 GTGAATACAA
Statistics
Matches: 87, Mismatches: 14, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
5 6 0.07
6 70 0.80
7 6 0.07
8 5 0.06
ACGTcount: A:0.49, C:0.10, G:0.21, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:71688194 original size:37 final size:37
Alignment explanation
Indices: 71688153--71688260 Score: 128
Period size: 37 Copynumber: 2.9 Consensus size: 37
71688143 TTATCAAAAC
* *
71688153 TAGAATCAAAATGAGAATCAGAATCAGAATCAGGTGA
1 TAGAATCAGAATAAGAATCAGAATCAGAATCAGGTGA
* *
71688190 TAGAATCAGAATAAGAATAAGAATCAGAATTAGGTGA
1 TAGAATCAGAATAAGAATCAGAATCAGAATCAGGTGA
* * *
71688227 CAGAATCAGAATCAGTATCAGGTAAT-AGAATCAG
1 TAGAATCAGAATAAGAATCA-G-AATCAGAATCAG
71688261 AATCAGAATG
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
37 49 0.82
38 8 0.13
39 3 0.05
ACGTcount: A:0.48, C:0.10, G:0.21, T:0.20
Consensus pattern (37 bp):
TAGAATCAGAATAAGAATCAGAATCAGAATCAGGTGA
Found at i:71688196 original size:19 final size:19
Alignment explanation
Indices: 71688172--71688241 Score: 81
Period size: 19 Copynumber: 3.7 Consensus size: 19
71688162 AATGAGAATC
71688172 AGAATCAGAATCAGGTGAT
1 AGAATCAGAATCAGGTGAT
* *
71688191 AGAATCAGAAT-AAG-AAT
1 AGAATCAGAATCAGGTGAT
* *
71688208 AAGAATCAGAATTAGGTGAC
1 -AGAATCAGAATCAGGTGAT
71688228 AGAATCAGAATCAG
1 AGAATCAGAATCAG
71688242 TATCAGGTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
17 2 0.05
18 13 0.31
19 26 0.62
20 1 0.02
ACGTcount: A:0.49, C:0.10, G:0.23, T:0.19
Consensus pattern (19 bp):
AGAATCAGAATCAGGTGAT
Found at i:71688207 original size:31 final size:31
Alignment explanation
Indices: 71688166--71688269 Score: 115
Period size: 31 Copynumber: 3.4 Consensus size: 31
71688156 AATCAAAATG
*
71688166 AGAATCAGAATCAGAATCAGGTGATAGAATC
1 AGAATCAGAATCAGAATCAGGTAATAGAATC
* * *
71688197 AGAATAAGAATAAGAATCA-G-AATTAG-GTGAC
1 AGAATCAGAATCAGAATCAGGTAA-TAGAAT--C
*
71688228 AGAATCAGAATCAGTATCAGGTAATAGAATC
1 AGAATCAGAATCAGAATCAGGTAATAGAATC
71688259 AGAATCAGAAT
1 AGAATCAGAAT
71688270 GTGAATACAA
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
29 2 0.03
30 4 0.07
31 46 0.78
32 4 0.07
33 3 0.05
ACGTcount: A:0.48, C:0.11, G:0.21, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTAATAGAATC
Found at i:71688231 original size:25 final size:25
Alignment explanation
Indices: 71688203--71688269 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 25
71688193 AATCAGAATA
* * *
71688203 AGAATAAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGGTAAC
* *
71688228 AGAATCAGAATCAGTATCAGGTAAT
1 AGAATCAGAATCAGAATCAGGTAAC
71688253 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
71688270 GTGAATACAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.48, C:0.10, G:0.21, T:0.21
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTAAC
Found at i:71688455 original size:27 final size:26
Alignment explanation
Indices: 71688387--71688501 Score: 99
Period size: 27 Copynumber: 4.3 Consensus size: 26
71688377 AGCATGGCTG
** *
71688387 CCAGAACAAATATTGTGATAGAG-TA
1 CCAGAACAAATATTGTGGCAGAGCCA
* *
71688412 CCAGATATAGATATTGTGGCAGAGCCA
1 CCAGA-ACAAATATTGTGGCAGAGCCA
*
71688439 CCAGAACAAATATTTGTGGCATAGCCA
1 CCAGAACAAATA-TTGTGGCAGAGCCA
*
71688466 CCAGAAACAGATATTTGTGGC-GTAGCCA
1 CCAG-AACAAATA-TTGTGGCAG-AGCCA
*
71688494 CTAGAACA
1 CCAGAACA
71688502 CTTCCTCCAT
Statistics
Matches: 74, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
25 5 0.07
26 19 0.26
27 27 0.36
28 23 0.31
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (26 bp):
CCAGAACAAATATTGTGGCAGAGCCA
Found at i:71688483 original size:28 final size:28
Alignment explanation
Indices: 71688411--71688499 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 28
71688401 GTGATAGAGT
* * *
71688411 ACCAGATATAGATA-TTGTGGCAGAGCC
1 ACCAGAAACAGATATTTGTGGCATAGCC
*
71688438 ACCAG-AACAAATATTTGTGGCATAGCC
1 ACCAGAAACAGATATTTGTGGCATAGCC
*
71688465 ACCAGAAACAGATATTTGTGGCGTAGCC
1 ACCAGAAACAGATATTTGTGGCATAGCC
*
71688493 ACTAGAA
1 ACCAGAA
71688500 CACTTCCTCC
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 5 0.09
27 22 0.42
28 26 0.49
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.21
Consensus pattern (28 bp):
ACCAGAAACAGATATTTGTGGCATAGCC
Found at i:71688750 original size:27 final size:26
Alignment explanation
Indices: 71688703--71688890 Score: 200
Period size: 27 Copynumber: 7.0 Consensus size: 26
71688693 GGGAAAATTG
* * *
71688703 GTAATTTTACCAC-ACAAGGGTATCTC
1 GTAATTCTACC-CTACAGGGGTATTTC
71688729 GTTAATTCTACCCTACAGGGGTATTTC
1 G-TAATTCTACCCTACAGGGGTATTTC
* *
71688756 GGTATTTCTACCCGAC-GAGGGTATTTC
1 -GTAATTCTACCCTACAG-GGGTATTTC
71688783 GGTAATTCTACCCTACAGGGGTATTTC
1 -GTAATTCTACCCTACAGGGGTATTTC
* * *
71688810 AGAAATTCTACCATACAGGGGTATTTTA
1 -GTAATTCTACCCTACAGGGGTA-TTTC
71688838 GTAATTCTACCCTACAGGGGTATTTC
1 GTAATTCTACCCTACAGGGGTATTTC
* *
71688864 AATAATTCTACCCTACAGAGGTATTTC
1 -GTAATTCTACCCTACAGGGGTATTTC
71688891 AATCATTTTG
Statistics
Matches: 139, Mismatches: 16, Indels: 13
0.83 0.10 0.08
Matches are distributed among these distances:
26 6 0.04
27 128 0.92
28 5 0.04
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.34
Consensus pattern (26 bp):
GTAATTCTACCCTACAGGGGTATTTC
Found at i:71688846 original size:81 final size:81
Alignment explanation
Indices: 71688732--71688891 Score: 232
Period size: 81 Copynumber: 2.0 Consensus size: 81
71688722 GTATCTCGTT
* * * **
71688732 AATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCGAC-GAGGGTATTTCGGTAATTCTACCC
1 AATTCTACCATACAGGGGTATTTCAGTAATTCTACCCGACAG-GGGTATTTCAATAATTCTACCC
*
71688796 TACAGGGGTATTTCAGA
65 TACAGAGGTATTTCAGA
* *
71688813 AATTCTACCATACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCT
1 AATTCTACCATACAGGGGTATTTCAGTAATTCTACCCGACAGGGGTATTTCAATAATTCTACCCT
71688878 ACAGAGGTATTTCA
66 ACAGAGGTATTTCA
71688892 ATCATTTTGT
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
81 69 0.99
82 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (81 bp):
AATTCTACCATACAGGGGTATTTCAGTAATTCTACCCGACAGGGGTATTTCAATAATTCTACCCT
ACAGAGGTATTTCAGA
Found at i:71688891 original size:27 final size:27
Alignment explanation
Indices: 71688731--71688893 Score: 204
Period size: 27 Copynumber: 6.0 Consensus size: 27
71688721 GGTATCTCGT
**
71688731 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCAA
* * **
71688758 TATTTCTACCCGAC-GAGGGTATTTCGG
1 TAATTCTACCCTACAG-GGGTATTTCAA
71688785 TAATTCTACCCTACAGGGGTATTTCAGA
1 TAATTCTACCCTACAGGGGTATTTCA-A
* * *
71688813 -AATTCTACCATACAGGGGTATTTTAG
1 TAATTCTACCCTACAGGGGTATTTCAA
71688839 TAATTCTACCCTACAGGGGTATTTCAA
1 TAATTCTACCCTACAGGGGTATTTCAA
*
71688866 TAATTCTACCCTACAGAGGTATTTCAA
1 TAATTCTACCCTACAGGGGTATTTCAA
71688893 T
1 T
71688894 CATTTTGTAA
Statistics
Matches: 119, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
26 1 0.01
27 117 0.98
28 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCAA
Found at i:71690687 original size:22 final size:20
Alignment explanation
Indices: 71690657--71690704 Score: 51
Period size: 22 Copynumber: 2.3 Consensus size: 20
71690647 TACACCACAC
* *
71690657 CAGAAGCATCAAAGATGCATAA
1 CAGAGGCATCAAAG-TG-AAAA
*
71690679 CAGAGGCATCGAAGTGAAAA
1 CAGAGGCATCAAAGTGAAAA
71690699 CAGAGG
1 CAGAGG
71690705 GACGGATGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 9 0.39
21 2 0.09
22 12 0.52
ACGTcount: A:0.46, C:0.17, G:0.27, T:0.10
Consensus pattern (20 bp):
CAGAGGCATCAAAGTGAAAA
Found at i:71691150 original size:17 final size:19
Alignment explanation
Indices: 71691130--71691166 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
71691120 TAGGGACTAC
71691130 TCCACAATT-TT-TCTTTT
1 TCCACAATTATTGTCTTTT
*
71691147 TCCACGATTATTGTCTTTT
1 TCCACAATTATTGTCTTTT
71691166 T
1 T
71691167 GATTCAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 8 0.47
18 2 0.12
19 7 0.41
ACGTcount: A:0.16, C:0.22, G:0.05, T:0.57
Consensus pattern (19 bp):
TCCACAATTATTGTCTTTT
Found at i:71698319 original size:54 final size:54
Alignment explanation
Indices: 71698142--71698330 Score: 177
Period size: 55 Copynumber: 3.5 Consensus size: 54
71698132 ATTGCTATGT
* ** * * * * * *
71698142 CTTGACATGGTCTTATGTGGTATCATTGTCTTAT-GAACTCACCAATGTCAAGC
1 CTTGGCATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATGCCATGC
** * * *
71698195 CTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTCATCAATACTATGT
1 CTTGGCATGGTCTTACATGATATCC-TTGCCTTATAG-AACTCATCAATGCCATGC
* * *
71698250 CTTGACATGGTCTTACATGATTTCCTTGCCTTATA-AGACTTATCAATGCCATGC
1 CTTGGCATGGTCTTACATGATATCCTTGCCTTATAGA-ACTCATCAATGCCATGC
71698304 CTTGGCATGGTCTTACATGATATCCTT
1 CTTGGCATGGTCTTACATGATATCCTT
71698331 ATCTTACCAA
Statistics
Matches: 109, Mismatches: 22, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
52 1 0.01
53 27 0.25
54 39 0.36
55 40 0.37
56 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.37
Consensus pattern (54 bp):
CTTGGCATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATGCCATGC
Found at i:71698364 original size:47 final size:47
Alignment explanation
Indices: 71698309--71698430 Score: 226
Period size: 47 Copynumber: 2.6 Consensus size: 47
71698299 CATGCCTTGG
* *
71698309 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
71698356 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
71698403 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
71698431 GTGCCAATGC
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:71702676 original size:133 final size:133
Alignment explanation
Indices: 71702438--71702886 Score: 682
Period size: 133 Copynumber: 3.4 Consensus size: 133
71702428 TTGTGACTTT
** * * * *
71702438 GATCTGCTAGACTGCAACTTCAGGGAAATAAGATCTACAATCTTCAGTCTACCCCACTACAACTT
1 GATCTGCTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACAACTT
* ** * *
71702503 TAGGGAAATAGGGCGGTGACTTAAATCTTCTTCACTGCAACTTCAGGAAGACAAGATTCGCCGTC
66 TAGGGAGATAGGATGGTGGCTTAAATCTACTTCACTGCAACTTCAGGAAGACAAGATTCGCCGTC
71702568 TTC
131 TTC
* ** *
71702571 GATCTGCTCCACTGTAACTTTGGGGAGACAAGATCTACAATATTCAGCCTACTCCACTACAACTT
1 GATCTGCTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACAACTT
* * *
71702636 TAGGCAGATAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACAAGATTCGCCGTT
66 TAGGGAGATAGGATGGTGGCTTAAATCTACTTCACTGCAACTTCAGGAAGACAAGATTCGCCGTC
71702701 TTC
131 TTC
* * *
71702704 GATCTGCTTCACTACAACTTCAGGGAGACAAGATCTACAATCTTCGGCCTACTCCACTACAACTT
1 GATCTGCTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACAACTT
*
71702769 TAGGGAGATAGGATGGTGGCTTAAATCTACTTCACTGCAACTTCAGGAAGACAAGATTCACCGTC
66 TAGGGAGATAGGATGGTGGCTTAAATCTACTTCACTGCAACTTCAGGAAGACAAGATTCGCCGTC
71702834 TTC
131 TTC
* *
71702837 GATCTACTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTTAGCCT
1 GATCTGCTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCT
71702887 GTTACCCTAC
Statistics
Matches: 283, Mismatches: 33, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
133 283 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (133 bp):
GATCTGCTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACAACTT
TAGGGAGATAGGATGGTGGCTTAAATCTACTTCACTGCAACTTCAGGAAGACAAGATTCGCCGTC
TTC
Found at i:71702710 original size:45 final size:45
Alignment explanation
Indices: 71702660--71702870 Score: 185
Period size: 45 Copynumber: 4.7 Consensus size: 45
71702650 GGTGGCTTAA
* * * *
71702660 ATCTGCTTCACTGCAACTTCAGGAAGACAAGATTCGCCGTTTTCG
1 ATCTACTTCACTGCAACTTCAGGGAGACAAGATTCACCGTCTTCG
* * **
71702705 ATCTGCTTCACTACAACTTCAGGGAGACAAGA-TCTACAATCTTCG
1 ATCTACTTCACTGCAACTTCAGGGAGACAAGATTC-ACCGTCTTCG
** * * * * * *** * **
71702750 GCCTACTCCACTACAACTTTAGGGAGATAGGA-T-GGTGGCTTAA
1 ATCTACTTCACTGCAACTTCAGGGAGACAAGATTCACCGTCTTCG
*
71702793 ATCTACTTCACTGCAACTTCAGGAAGACAAGATTCACCGTCTTCG
1 ATCTACTTCACTGCAACTTCAGGGAGACAAGATTCACCGTCTTCG
*
71702838 ATCTACTCCACTGCAACTTCAGGGAGACAAGAT
1 ATCTACTTCACTGCAACTTCAGGGAGACAAGAT
71702871 CTACAATCTT
Statistics
Matches: 127, Mismatches: 36, Indels: 6
0.75 0.21 0.04
Matches are distributed among these distances:
43 27 0.21
44 3 0.02
45 97 0.76
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (45 bp):
ATCTACTTCACTGCAACTTCAGGGAGACAAGATTCACCGTCTTCG
Found at i:71713846 original size:40 final size:40
Alignment explanation
Indices: 71713791--71713972 Score: 296
Period size: 40 Copynumber: 4.6 Consensus size: 40
71713781 TATTCGAATG
71713791 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
71713831 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
71713871 ATATCCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
71713911 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* *
71713951 ATATCC-GGCTAAATCCTGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
71713973 TACTTGGGTT
Statistics
Matches: 134, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 13 0.10
40 119 0.89
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:71730639 original size:24 final size:24
Alignment explanation
Indices: 71730602--71730647 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
71730592 AACTGCAAAG
*
71730602 GCTGAAAAGCCAAAAAGCCGAAAT
1 GCTGAAAAGCCAAAAAACCGAAAT
* *
71730626 GCTGAAAGGTCAAAAAACCGAA
1 GCTGAAAAGCCAAAAAACCGAA
71730648 GAGTGCATCG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.50, C:0.20, G:0.22, T:0.09
Consensus pattern (24 bp):
GCTGAAAAGCCAAAAAACCGAAAT
Found at i:71734929 original size:46 final size:45
Alignment explanation
Indices: 71734855--71735028 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 45
71734845 GTAACCCGCC
* *
71734855 CCTAAGTGAACTCGGACTCAACTGAACGAGCTCGGGCGTTCGCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
71734900 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * ** *
71734950 -CTCAA--GAACTCAGACTCAACTCAACAAGTTCGAACATTCGCAT
1 CCT-AAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
71734993 CCGTAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
71735029 ATGCTCAACC
Statistics
Matches: 105, Mismatches: 12, Indels: 23
0.75 0.09 0.16
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 4 0.04
45 3 0.03
46 56 0.53
47 25 0.24
48 2 0.02
49 4 0.04
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (45 bp):
CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:71736693 original size:35 final size:35
Alignment explanation
Indices: 71736645--71736724 Score: 124
Period size: 35 Copynumber: 2.3 Consensus size: 35
71736635 AACTGTTCAA
*
71736645 CACACCAGATGCTCATAAGATCCAGTACCATCCAG
1 CACACCAGATGCTCATAAGAGCCAGTACCATCCAG
* *
71736680 CACACCAGTTGCTCATAAGAGCCAGTACCATCGAG
1 CACACCAGATGCTCATAAGAGCCAGTACCATCCAG
*
71736715 CACACTAGAT
1 CACACCAGAT
71736725 AATACTGTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.34, C:0.33, G:0.16, T:0.17
Consensus pattern (35 bp):
CACACCAGATGCTCATAAGAGCCAGTACCATCCAG
Found at i:71742444 original size:21 final size:23
Alignment explanation
Indices: 71742404--71742445 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
71742394 TAGAAAAATT
*
71742404 TTGGTTTCTTATTGAATAAACCC
1 TTGGTTTCTTACTGAATAAACCC
71742427 TTGGTTTC-TACT-AATAAAC
1 TTGGTTTCTTACTGAATAAAC
71742446 TCTTAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 3 0.17
23 8 0.44
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.43
Consensus pattern (23 bp):
TTGGTTTCTTACTGAATAAACCC
Found at i:71751317 original size:26 final size:26
Alignment explanation
Indices: 71751281--71751332 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
71751271 GTAAAGGACT
71751281 AACACGGGGCTATGTTTGAATTTACG
1 AACACGGGGCTATGTTTGAATTTACG
71751307 AACACGGGGCTATGTTTGAATTTACG
1 AACACGGGGCTATGTTTGAATTTACG
71751333 TTGGCGTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (26 bp):
AACACGGGGCTATGTTTGAATTTACG
Found at i:71752173 original size:33 final size:32
Alignment explanation
Indices: 71752131--71752253 Score: 149
Period size: 33 Copynumber: 3.7 Consensus size: 32
71752121 GTTTGCATTT
71752131 CTGATACTGTACTGAAATGGGCTAACACCATCA
1 CTGATACTGTACTGAAATGGGCTAAC-CCATCA
71752164 CTGATACTGTACTGAAATGGGCTAACCCATCA
1 CTGATACTGTACTGAAATGGGCTAACCCATCA
* *
71752196 CTGATACTGTTACTGTATTGGGCTAAGGCCCA-CA
1 CTGATACTG-TACTGAAATGGGCTAA--CCCATCA
* * *
71752230 CTGATATTGCAACTAAAATGGGCT
1 CTGATACTG-TACTGAAATGGGCT
71752254 GAGGCCCAGA
Statistics
Matches: 79, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
32 15 0.19
33 40 0.51
34 20 0.25
35 4 0.05
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (32 bp):
CTGATACTGTACTGAAATGGGCTAACCCATCA
Found at i:71769437 original size:55 final size:53
Alignment explanation
Indices: 71769292--71769489 Score: 182
Period size: 54 Copynumber: 3.7 Consensus size: 53
71769282 AACTTGCCAT
*
71769292 TGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATGAACTCACCAT
1 TGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATGAACTCACCAA
* * * ** * ** * *
71769345 TGCCATGCCTTTG-CATGGTGTTAAATGGGATCTTTGCCTTATCGTAGTTTATCAA
1 TGCCATGTC-TTGACATGGTCTTACATGATATCCTTGCCTTAT-G-AACTCACCAA
* * * *
71769400 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAAAACTTACCAA
1 TGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAT-GAACTCACCAA
* * * *
71769454 TGCCATGCCTTGGCATGGTCTTACTTGGTATCCTTG
1 TGCCATGTCTTGACATGGTCTTACATGATATCCTTG
71769490 AACCCTAATG
Statistics
Matches: 112, Mismatches: 29, Indels: 7
0.76 0.20 0.05
Matches are distributed among these distances:
53 32 0.29
54 45 0.40
55 35 0.31
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.38
Consensus pattern (53 bp):
TGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATGAACTCACCAA
Found at i:71770687 original size:28 final size:28
Alignment explanation
Indices: 71770655--71770711 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
71770645 CAATTAAGTT
71770655 TGGGGGAGTGGAAACACAAAAATTTATA
1 TGGGGGAGTGGAAACACAAAAATTTATA
*
71770683 TGGGGGTGTGGAAACACAAAAATTTATA
1 TGGGGGAGTGGAAACACAAAAATTTATA
71770711 T
1 T
71770712 ACTTTTTCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.40, C:0.07, G:0.28, T:0.25
Consensus pattern (28 bp):
TGGGGGAGTGGAAACACAAAAATTTATA
Found at i:71775457 original size:13 final size:13
Alignment explanation
Indices: 71775439--71775493 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
71775429 CAAAAAAAAT
71775439 AATAATAAATAAA
1 AATAATAAATAAA
**
71775452 AATAATATTTAAA
1 AATAATAAATAAA
*
71775465 ATTAA-AAATAAA
1 AATAATAAATAAA
*
71775477 AATAACTAACTAAA
1 AATAA-TAAATAAA
71775491 AAT
1 AAT
71775494 GTCACTAAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
12 9 0.27
13 15 0.45
14 9 0.27
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (13 bp):
AATAATAAATAAA
Found at i:71782655 original size:17 final size:18
Alignment explanation
Indices: 71782615--71782656 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
71782605 TTGAATGAAT
71782615 AAATAAATAGATTATAAA
1 AAATAAATAGATTATAAA
*
71782633 ATATAAATA-ATTA-AAA
1 AAATAAATAGATTATAAA
71782649 CAAATAAA
1 -AAATAAA
71782657 ACTTTGTTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 3 0.14
17 10 0.48
18 8 0.38
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.26
Consensus pattern (18 bp):
AAATAAATAGATTATAAA
Found at i:71785122 original size:41 final size:42
Alignment explanation
Indices: 71785040--71785200 Score: 189
Period size: 41 Copynumber: 3.8 Consensus size: 42
71785030 AGGGTTACTA
*
71785040 AGACTACGTGTAAGACCATATCTGGGATATGGCATCAATATG
1 AGACTACGTGTAAGACCATATCTGGGATATGGCATCGATATG
*
71785082 AGACTACGTGCAAGACCAT-TCTGGGATATGGCATCGATATG
1 AGACTACGTGTAAGACCATATCTGGGATATGGCATCGATATG
* * * * * * * * *
71785123 AGACTTCGTGTAAAACTACAGCTTGGCTATTAGCATCGATACG
1 AGACTACGTGTAAGACCATATCTGGGATA-TGGCATCGATATG
* *
71785166 AGATTACATGTAAGACCATATCTGGGATATGGCAT
1 AGACTACGTGTAAGACCATATCTGGGATATGGCAT
71785201 TGGTACGGTA
Statistics
Matches: 95, Mismatches: 22, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
41 35 0.37
42 29 0.31
43 31 0.33
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.27
Consensus pattern (42 bp):
AGACTACGTGTAAGACCATATCTGGGATATGGCATCGATATG
Found at i:71789072 original size:50 final size:50
Alignment explanation
Indices: 71788992--71789137 Score: 197
Period size: 50 Copynumber: 2.9 Consensus size: 50
71788982 TGATGCTAGG
71788992 GAGACATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTC
1 GAGACATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-C
*
71789042 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACC
1 GAGACATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACC
* * * * * *
71789092 GATAGATGAGAAAC-AGTGTAAGACTATGTCAGGGACATGGCGTCGG
1 GAGACATGAG-AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG
71789138 TACCTTACCC
Statistics
Matches: 87, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
50 84 0.97
51 3 0.03
ACGTcount: A:0.29, C:0.18, G:0.33, T:0.20
Consensus pattern (50 bp):
GAGACATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACC
Found at i:71792027 original size:40 final size:40
Alignment explanation
Indices: 71791953--71792134 Score: 260
Period size: 40 Copynumber: 4.6 Consensus size: 40
71791943 AACCCAAGTA
* *
71791953 CCTTCGGGAATTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
71791992 CCTTCGGGTCTTAGCCCGAATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
71792032 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* * *
71792072 TCTTCGGGACTTAGCCCGGATATAGTCACTAGCAGAAAGG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
71792112 CCTTTGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
71792135 CATCCGAATA
Statistics
Matches: 129, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 12 0.09
40 116 0.90
41 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:71797266 original size:48 final size:50
Alignment explanation
Indices: 71797214--71797326 Score: 142
Period size: 50 Copynumber: 2.3 Consensus size: 50
71797204 TACCTATTTT
* * *
71797214 ATGGCCCGTAGCCAAATCAA-G-ATAACTTATC-CCCGAAGTGCCTATACC
1 ATGGCCCGAAGCCAAATCAAGGCATAAC-TAGCACCCGAAGTGCCAATACC
* * *
71797262 ATGGCCCGAAGCCAAATCAAGGCATAACTCGCACCCGAAGTGTCAATATC
1 ATGGCCCGAAGCCAAATCAAGGCATAACTAGCACCCGAAGTGCCAATACC
71797312 ATGGCCCGAAGCCAA
1 ATGGCCCGAAGCCAA
71797327 CTTAATACCC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
48 19 0.34
49 3 0.05
50 34 0.61
ACGTcount: A:0.33, C:0.31, G:0.19, T:0.17
Consensus pattern (50 bp):
ATGGCCCGAAGCCAAATCAAGGCATAACTAGCACCCGAAGTGCCAATACC
Found at i:71804695 original size:50 final size:49
Alignment explanation
Indices: 71804581--71804756 Score: 208
Period size: 50 Copynumber: 3.5 Consensus size: 49
71804571 CTGGTACGCA
* **
71804581 TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
* ** * * *
71804630 TAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTGATACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * *
71804680 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACG
71804731 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
71804757 TGCGACCTCA
Statistics
Matches: 106, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
49 29 0.27
50 43 0.41
51 34 0.32
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:71804764 original size:101 final size:99
Alignment explanation
Indices: 71804581--71804764 Score: 262
Period size: 101 Copynumber: 1.8 Consensus size: 99
71804571 CTGGTACGCA
*
71804581 TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACACGTAGTAGCCTACACTTA
1 TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACACATAGTAGCCTACACTTA
*
71804646 GTACTACACACGTGACCTAACCATCTGATACATG
66 GTACTACACACGCGACCTAACCATCTGATACATG
* * * * *
71804680 TAGTAGCCTGCACTTAGTACTACACACGTG-ATCGAAGTTATCGGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACA--TGCAACCAA-TTATCCGGTACACATAGTAGCCTACAC
*
71804744 TTAGTACTACACATGCGACCT
63 TTAGTACTACACACGCGACCT
71804765 CACAATAGAT
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
99 26 0.35
100 4 0.05
101 44 0.59
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACACATAGTAGCCTACACTTA
GTACTACACACGCGACCTAACCATCTGATACATG
Found at i:71807022 original size:49 final size:48
Alignment explanation
Indices: 71806952--71807073 Score: 158
Period size: 49 Copynumber: 2.5 Consensus size: 48
71806942 TTGCTGTGTT
* * *
71806952 TCAGTGTAAGACCGGTTTGGGACATGGCATCGACACC-GATAGATGAGAG
1 TCAGTGTAAGACCTGTCTGGGACATGGCATC--CACCAGATAGATGAAAG
*
71807001 -CTAGTGTAAGACCTGTCTGGGACATGGCATCCACCTAGATATATGAAAG
1 TC-AGTGTAAGACCTGTCTGGGACATGGCATCCACC-AGATAGATGAAAG
71807050 TCAGTGTAAGACCTGTCTGGGACA
1 TCAGTGTAAGACCTGTCTGGGACA
71807074 CGACATTGAG
Statistics
Matches: 65, Mismatches: 4, Indels: 8
0.84 0.05 0.10
Matches are distributed among these distances:
47 4 0.06
48 1 0.02
49 59 0.91
50 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (48 bp):
TCAGTGTAAGACCTGTCTGGGACATGGCATCCACCAGATAGATGAAAG
Found at i:71808648 original size:40 final size:39
Alignment explanation
Indices: 71808571--71808706 Score: 150
Period size: 40 Copynumber: 3.4 Consensus size: 39
71808561 AGACCAAGTA
* * *
71808571 CCTTCGGGATTTAG-CCGGATATAGCTACTCACTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TACTCGCACAAATG
*
71808610 CCTTTGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATG
* * *
71808650 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCAGAAATT
1 CCTTCGGGACTTAGCCCGGATA-TAGT-ACTCGCACAAATG
*
71808690 CCTTCAGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
71808707 AGTTACCATC
Statistics
Matches: 84, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 14 0.17
40 70 0.83
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATG
Found at i:71811348 original size:14 final size:14
Alignment explanation
Indices: 71811329--71811359 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
71811319 CTTGGCCGTG
71811329 TGCCCCAAAATTGT
1 TGCCCCAAAATTGT
71811343 TGCCCCAAAATTGT
1 TGCCCCAAAATTGT
71811357 TGC
1 TGC
71811360 TAACGTCAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (14 bp):
TGCCCCAAAATTGT
Found at i:71811589 original size:20 final size:21
Alignment explanation
Indices: 71811550--71811589 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
71811540 GTCAGCAGGG
*
71811550 CCACATGGGCGTGTTGCCCTT
1 CCACACGGGCGTGTTGCCCTT
71811571 CCACACGGGCGTG-TGCCCT
1 CCACACGGGCGTGTTGCCCT
71811590 GTTTCAAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.10, C:0.38, G:0.30, T:0.23
Consensus pattern (21 bp):
CCACACGGGCGTGTTGCCCTT
Found at i:71817193 original size:46 final size:45
Alignment explanation
Indices: 71817080--71817207 Score: 152
Period size: 45 Copynumber: 2.8 Consensus size: 45
71817070 CATTGGGTGG
* * * *
71817080 TATGTGAGATAGTGTAAGACATGTCTAGCACATGCATAGGCACAT
1 TATGAGAGCTAGTGTAAGACATGTCTAGGACATGCATACGCACAT
*
71817125 TATGAGAGCCAGTGTAAGACATGTCTAGGACATGCAT-CG-ACAT
1 TATGAGAGCTAGTGTAAGACATGTCTAGGACATGCATACGCACAT
* *
71817168 TGAGATGAGAGCTAGTGTAAGACATGTCTGGGATATGCAT
1 T---ATGAGAGCTAGTGTAAGACATGTCTAGGACATGCAT
71817208 TGGCCTCGGG
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
43 5 0.07
44 1 0.01
45 33 0.46
46 33 0.46
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.26
Consensus pattern (45 bp):
TATGAGAGCTAGTGTAAGACATGTCTAGGACATGCATACGCACAT
Found at i:71827366 original size:39 final size:39
Alignment explanation
Indices: 71827240--71827432 Score: 180
Period size: 39 Copynumber: 5.0 Consensus size: 39
71827230 ACTTGAAACC
** **
71827240 AATTACCAGCACA-AGCCTGCGGGAATTTAAACCCGG-TAT
1 AATT-CCAGCACATAGCCTGC-GGACCTTAAGTCCGGATAT
* * * * * *
71827279 AATACCAGCTCAAAGCCT-CGGGA-CTTTAGCCCGGACAT
1 AATTCCAGCACATAGCCTGC-GGACCTTAAGTCCGGATAT
* * *
71827317 ATTTCCAGCACGTAGCCTGCGGACCTTAAGTCCGGTTAT
1 AATTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATAT
*
71827356 AATTCTAGCACATAGCCTGCGGACCTTAAGTCCGGATAT
1 AATTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATAT
*
71827395 AATTCCAGCACATAGCCTGTGGA-CTCTAAGTCCGGATA
1 AATTCCAGCACATAGCCTGCGGACCT-TAAGTCCGGATA
71827433 AACATCACTG
Statistics
Matches: 128, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
37 8 0.06
38 32 0.25
39 88 0.69
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (39 bp):
AATTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATAT
Found at i:71843511 original size:46 final size:46
Alignment explanation
Indices: 71843461--71843635 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
71843451 TGGTTGAGCA
71843461 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
71843507 TCCGAACTCGTTGAGTTGAGTCCAAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
71843552 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
71843600 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG
71843636 AGCGGGTTAC
Statistics
Matches: 105, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.58
47 28 0.27
48 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:71843595 original size:93 final size:93
Alignment explanation
Indices: 71843458--71843628 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
71843448 GGATGGTTGA
* * *
71843458 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
71843523 TGAGTCCAAGTTCGTGAAATGTAACTAG
66 TGAGTCCAAGTTCGTGAAATGTAACTAG
*
71843551 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
*
71843616 TGAGTCCGAGTTC
66 TGAGTCCAAGTTC
71843629 ACTTATGAGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCAAGTTCGTGAAATGTAACTAG
Found at i:71851476 original size:22 final size:22
Alignment explanation
Indices: 71851450--71851492 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
71851440 ACAAAAGATG
71851450 ATAATTTTGCTTACATCTAGTA
1 ATAATTTTGCTTACATCTAGTA
71851472 ATAATTTTGCTTACATCTAGT
1 ATAATTTTGCTTACATCTAGT
71851493 TTCCCAATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.14, G:0.09, T:0.47
Consensus pattern (22 bp):
ATAATTTTGCTTACATCTAGTA
Found at i:71851686 original size:5 final size:5
Alignment explanation
Indices: 71851676--71851723 Score: 96
Period size: 5 Copynumber: 9.6 Consensus size: 5
71851666 ATTGTTTATA
71851676 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATA
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATA
71851724 ATTTTGATAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 43 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATATT
Found at i:71852804 original size:142 final size:142
Alignment explanation
Indices: 71852548--71852822 Score: 514
Period size: 142 Copynumber: 1.9 Consensus size: 142
71852538 AATGTAATCC
* *
71852548 ATGTTTTTGCTAGTTAATCATAAGACCCAAAGGCGACATGATTGATGGTGTGAGAATGATCGTAG
1 ATGTTTTTGCTAGTTAATCATAAGACCCAAAGGCAACATGATTGATGGTGTGAAAATGATCGTAG
*
71852613 CAATGGAAAAATGTTTTTCAAGGTTTTAATATAAGATGCATGCATCATACTGCATTCTTGATATG
66 CAATGGAAAAATGTTTTTCAAGGTTTTAATATAAGACGCATGCATCATACTGCATTCTTGATATG
71852678 TTGCTAGTTAAT
131 TTGCTAGTTAAT
*
71852690 ATGTTTTTTCTAGTTAATCATAAGACCCAAAGGCAACATGATTGATGGTGTGAAAATGATCGTAG
1 ATGTTTTTGCTAGTTAATCATAAGACCCAAAGGCAACATGATTGATGGTGTGAAAATGATCGTAG
71852755 CAATGGAAAAATGTTTTTCAAGGTTTTAATATAAGACGCATGCATCATACTGCATTCTTGATATG
66 CAATGGAAAAATGTTTTTCAAGGTTTTAATATAAGACGCATGCATCATACTGCATTCTTGATATG
71852820 TTG
131 TTG
71852823 TTAAAATGAA
Statistics
Matches: 129, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
142 129 1.00
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.35
Consensus pattern (142 bp):
ATGTTTTTGCTAGTTAATCATAAGACCCAAAGGCAACATGATTGATGGTGTGAAAATGATCGTAG
CAATGGAAAAATGTTTTTCAAGGTTTTAATATAAGACGCATGCATCATACTGCATTCTTGATATG
TTGCTAGTTAAT
Found at i:71853511 original size:18 final size:18
Alignment explanation
Indices: 71853488--71853522 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
71853478 CCCTCGTCCT
* *
71853488 CTAAGGGGAAGCAGAAAG
1 CTAAGGGAAAGAAGAAAG
71853506 CTAAGGGAAAGAAGAAA
1 CTAAGGGAAAGAAGAAA
71853523 TTGATTACGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.09, G:0.34, T:0.06
Consensus pattern (18 bp):
CTAAGGGAAAGAAGAAAG
Found at i:71854296 original size:20 final size:21
Alignment explanation
Indices: 71854255--71854299 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
71854245 CTTTTTGAAC
* *
71854255 TTTATTTAATATTTTTATAAA
1 TTTAGTTAATATTTTTACAAA
71854276 TTTAGTTAATA-TTTTACAAA
1 TTTAGTTAATATTTTTACAAA
71854296 TTTA
1 TTTA
71854300 TAAAAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (21 bp):
TTTAGTTAATATTTTTACAAA
Found at i:71855572 original size:7 final size:7
Alignment explanation
Indices: 71855560--71855597 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
71855550 TCTGCTACCC
71855560 AAAAAAG
1 AAAAAAG
71855567 AAAAAAG
1 AAAAAAG
71855574 AAAAAAG
1 AAAAAAG
71855581 AAAAAA-
1 AAAAAAG
*
71855587 AAACAAG
1 AAAAAAG
71855594 AAAA
1 AAAA
71855598 GAAGGATAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 5 0.18
7 23 0.82
ACGTcount: A:0.87, C:0.03, G:0.11, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:71855597 original size:18 final size:17
Alignment explanation
Indices: 71855567--71855600 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
71855557 CCCAAAAAAG
*
71855567 AAAAAAGAAAAAAGAAA
1 AAAAAACAAAAAAGAAA
71855584 AAAAAACAAGAAAAGAA
1 AAAAAACAA-AAAAGAA
71855601 GGATAAGCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.85, C:0.03, G:0.12, T:0.00
Consensus pattern (17 bp):
AAAAAACAAAAAAGAAA
Found at i:71855822 original size:16 final size:16
Alignment explanation
Indices: 71855801--71855833 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
71855791 TGACCAGAGA
71855801 GCATCACTATGAGAAG
1 GCATCACTATGAGAAG
71855817 GCATCACTATGAGAAG
1 GCATCACTATGAGAAG
71855833 G
1 G
71855834 TTTGATCTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.18
Consensus pattern (16 bp):
GCATCACTATGAGAAG
Found at i:71863277 original size:27 final size:27
Alignment explanation
Indices: 71863239--71863290 Score: 79
Period size: 26 Copynumber: 1.9 Consensus size: 27
71863229 TCTTTTTTAG
71863239 ATAAATATAAATAAGAAAGAAAAAGGTA
1 ATAAATATAAAT-AGAAAGAAAAAGGTA
*
71863267 ATAAA-ATAAATAGAAAGCAAAAGG
1 ATAAATATAAATAGAAAGAAAAAGG
71863291 CATGTAACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 12 0.52
27 6 0.26
28 5 0.22
ACGTcount: A:0.67, C:0.02, G:0.15, T:0.15
Consensus pattern (27 bp):
ATAAATATAAATAGAAAGAAAAAGGTA
Found at i:71865040 original size:14 final size:15
Alignment explanation
Indices: 71865016--71865049 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
71865006 GTAGAAGAGG
71865016 AGAAAACAAAGAAGA
1 AGAAAACAAAGAAGA
71865031 AGAAAA-AAAGAAGA
1 AGAAAACAAAGAAGA
71865045 AGAAA
1 AGAAA
71865050 GATTTGTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.76, C:0.03, G:0.21, T:0.00
Consensus pattern (15 bp):
AGAAAACAAAGAAGA
Found at i:71865321 original size:27 final size:27
Alignment explanation
Indices: 71865290--71865343 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
71865280 GAAATGTGTT
71865290 AGTTGACGATATGAAAGAAAGGATTAG
1 AGTTGACGATATGAAAGAAAGGATTAG
* *
71865317 AGTTGATGCTATGAAAGAAAGGATTAG
1 AGTTGACGATATGAAAGAAAGGATTAG
71865344 TGCAAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.43, C:0.04, G:0.30, T:0.24
Consensus pattern (27 bp):
AGTTGACGATATGAAAGAAAGGATTAG
Found at i:71870155 original size:70 final size:70
Alignment explanation
Indices: 71870059--71870288 Score: 374
Period size: 70 Copynumber: 3.3 Consensus size: 70
71870049 CCTCAACCTT
* * *
71870059 ATTTGTACAGCCAATAATTTACAGTATAACAG-AAGCATATTAATTAGCTAAGCACCATGAATTT
1 ATTTGGACAACCAATAATTTAAAGTATAACAGCAA-CATATTAATTAGCTAAGCACCATGAATTT
71870123 GTCCTA
65 GTCCTA
* *
71870129 ATTTGGACAACCAATAATTTAAAGTATAACAGCAACATATTAACTAGCTAAGCACCATGAATTTA
1 ATTTGGACAACCAATAATTTAAAGTATAACAGCAACATATTAATTAGCTAAGCACCATGAATTTG
71870194 TCCTA
66 TCCTA
* *
71870199 ATTTGGACAACCAATAATTTATAGTATAATAGCAACATATTAATTAGCTAAGCACCATGAATTTG
1 ATTTGGACAACCAATAATTTAAAGTATAACAGCAACATATTAATTAGCTAAGCACCATGAATTTG
71870264 TCCTA
66 TCCTA
71870269 ATTTGGACAACCAAT-ATTTA
1 ATTTGGACAACCAATAATTTA
71870289 CAATAGCATA
Statistics
Matches: 150, Mismatches: 9, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
69 5 0.03
70 143 0.95
71 2 0.01
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.31
Consensus pattern (70 bp):
ATTTGGACAACCAATAATTTAAAGTATAACAGCAACATATTAATTAGCTAAGCACCATGAATTTG
TCCTA
Found at i:71871684 original size:46 final size:46
Alignment explanation
Indices: 71871617--71871789 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
71871607 AGGTTGAGCA
71871617 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
71871663 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
71871708 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
71871756 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
71871790 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:71871730 original size:93 final size:93
Alignment explanation
Indices: 71871614--71871784 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
71871604 CACAGGTTGA
* *
71871614 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
71871679 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
71871707 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
71871772 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
71871785 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:71876200 original size:29 final size:28
Alignment explanation
Indices: 71876164--71876241 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
71876154 TCATGAGATT
71876164 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
71876194 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
71876221 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
71876242 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:71876594 original size:174 final size:174
Alignment explanation
Indices: 71876194--71876694 Score: 932
Period size: 174 Copynumber: 2.9 Consensus size: 174
71876184 AAATTGTACA
*
71876194 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
71876259 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCAA
71876324 -TTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
71876367 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTGAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
71876432 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCAA
71876497 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
71876541 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* * *
71876606 TGTGCGAACTCAATATATGTTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCAA
71876671 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
71876695 ACCTTGAGTT
Statistics
Matches: 318, Mismatches: 9, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
173 126 0.40
174 192 0.60
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:71878594 original size:16 final size:17
Alignment explanation
Indices: 71878575--71878611 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
71878565 ACTAAAAGGT
71878575 TAAACATG-TAAAATAA
1 TAAACATGTTAAAATAA
*
71878591 TAAACATGTTAATATAA
1 TAAACATGTTAAAATAA
71878608 TAAA
1 TAAA
71878612 ACATATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.30
Consensus pattern (17 bp):
TAAACATGTTAAAATAA
Found at i:71881001 original size:13 final size:13
Alignment explanation
Indices: 71880968--71880992 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71880958 GAATGACCAA
71880968 ATGTTTGGCTATG
1 ATGTTTGGCTATG
71880981 ATGTTTGGCTAT
1 ATGTTTGGCTAT
71880993 CTATGTTGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.08, G:0.28, T:0.48
Consensus pattern (13 bp):
ATGTTTGGCTATG
Found at i:71888231 original size:41 final size:44
Alignment explanation
Indices: 71888152--71888322 Score: 190
Period size: 41 Copynumber: 3.8 Consensus size: 44
71888142 AATGTGAAAG
71888152 TGTATATGTGTGAATAGGGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTG-AT--GGCCGAATGG-CAATGTGATGAAAGTGAACA
**
71888200 TGTATATGTGTGATGGCC-AAT-G-AATGTGATG-AAGTGAATGG
1 TGTATATGTGTGATGGCCGAATGGCAATGTGATGAAAGTGAA-CA
*
71888241 TGTATATGTGAT-AAGGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTG-TGATGGCCGAATGG-CAATGTGATGAAAGTGAACA
71888286 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 TGTATATGTGTGAT--GGCCGAATGG-CAATGTGATG
71888323 GAAATGATAT
Statistics
Matches: 107, Mismatches: 6, Indels: 21
0.80 0.04 0.16
Matches are distributed among these distances:
40 7 0.07
41 24 0.22
42 4 0.04
43 2 0.02
44 4 0.04
45 24 0.22
46 7 0.07
47 23 0.21
48 12 0.11
ACGTcount: A:0.32, C:0.09, G:0.32, T:0.27
Consensus pattern (44 bp):
TGTATATGTGTGATGGCCGAATGGCAATGTGATGAAAGTGAACA
Found at i:71888314 original size:47 final size:47
Alignment explanation
Indices: 71888152--71888598 Score: 418
Period size: 47 Copynumber: 9.4 Consensus size: 47
71888142 AATGTGAAAG
*
71888152 TGTATATGTGTGAATAGGGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTG-ATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
71888200 TGTATATGTGTGAT--GGCC-AAT-G--AATGTGATG-AAGTG-A-A
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* *
71888238 TGGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
1 T-GTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
*
71888286 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGGAAA-TG-ATA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGAT-GAAAGTGAACA
* * ** *
71888332 TGTGAAACGATGGTGTATGAAGTGGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACG
1 TGT-ATATG-T-GTG-AT-AA--GG-CCG--AA-------TGGCCAATGTGATGAAAGTGAACA
*
71888396 TGTGTATGTGTGATAA-GCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
*
71888442 TGTATATGTGTGATAA-GCCGAATGGCCAATGTGATGAAAGTAAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* * *
71888488 TGTATATGTGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAGCA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* * * * *
71888535 TGTGTATGTGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAA-A
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
**
71888581 GTGTATAAATGTGATAAG
1 -TGTATATGTGTGATAAG
71888599 TCCCGAAGGG
Statistics
Matches: 334, Mismatches: 33, Indels: 65
0.77 0.08 0.15
Matches are distributed among these distances:
38 2 0.01
39 12 0.04
40 5 0.01
41 13 0.04
42 3 0.01
43 2 0.01
44 3 0.01
45 13 0.04
46 94 0.28
47 119 0.36
48 19 0.06
49 3 0.01
50 2 0.01
51 2 0.01
53 4 0.01
54 1 0.00
55 1 0.00
56 3 0.01
59 2 0.01
60 2 0.01
61 3 0.01
62 5 0.01
63 17 0.05
64 4 0.01
ACGTcount: A:0.32, C:0.09, G:0.32, T:0.27
Consensus pattern (47 bp):
TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
Found at i:71888427 original size:23 final size:23
Alignment explanation
Indices: 71888356--71888474 Score: 70
Period size: 23 Copynumber: 5.1 Consensus size: 23
71888346 GTATGAAGTG
71888356 GTGTGATAAGGCCGAATGGCCAAT
1 GTGTGATAA-GCCGAATGGCCAAT
* * ***
71888380 GTGATGA-AAG-TGAACGTGTGTAT
1 GTG-TGATAAGCCGAATG-GCCAAT
71888403 GTGTGATAAGCCGAATGGCCAAT
1 GTGTGATAAGCCGAATGGCCAAT
* *
71888426 GTGATGA-AAG-TGAACAT-G-TATAT
1 GTG-TGATAAGCCG-A-ATGGCCA-AT
71888449 GTGTGATAAGCCGAATGGCCAAT
1 GTGTGATAAGCCGAATGGCCAAT
71888472 GTG
1 GTG
71888475 ATGAAAGTAA
Statistics
Matches: 69, Mismatches: 14, Indels: 25
0.64 0.13 0.23
Matches are distributed among these distances:
22 14 0.20
23 36 0.52
24 16 0.23
25 3 0.04
ACGTcount: A:0.31, C:0.12, G:0.32, T:0.25
Consensus pattern (23 bp):
GTGTGATAAGCCGAATGGCCAAT
Found at i:71888427 original size:46 final size:47
Alignment explanation
Indices: 71888356--71888598 Score: 339
Period size: 46 Copynumber: 5.2 Consensus size: 47
71888346 GTATGAAGTG
* *
71888356 GTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACGTGTGTAT
1 GTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTATAT
71888403 GTGTGATAA-GCCGAATGGCCAATGTGATGAAAGTGAACATGTATAT
1 GTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTATAT
*
71888449 GTGTGATAA-GCCGAATGGCCAATGTGATGAAAGTAAACATGTATAT
1 GTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTATAT
* * * *
71888495 GTGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAGCATGTGTAT
1 GTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTATAT
* * * * *
71888542 GTGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAA-AGTGTATAA
1 GTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA-TGTATAT
*
71888589 ATGTGATAAG
1 GTGTGATAAG
71888599 TCCCGAAGGG
Statistics
Matches: 177, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
46 90 0.51
47 87 0.49
ACGTcount: A:0.33, C:0.10, G:0.31, T:0.26
Consensus pattern (47 bp):
GTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTATAT
Found at i:71888509 original size:202 final size:197
Alignment explanation
Indices: 71888159--71888524 Score: 567
Period size: 202 Copynumber: 1.8 Consensus size: 197
71888149 AAGTGTATAT
* *
71888159 GTGTGAATAGGGCCGAATGGCCAATGTGATGAAAGTGAACATGTATATGTGTGATGGCCAATGAA
1 GTGTGAATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTATATGTGTGATAGCCAATGAA
* *
71888224 TGTGATGAAGTGAATGGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGT
66 TGTGATGAAGTGAATGGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAAAGTAAACATGT
71888289 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGGAAATGATATGTGAAACGATGGTGTATGAAG
131 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGGAAATGATATGTGAAACGATGGTGTATGAAG
71888354 TG
196 TG
* *
71888356 GTGTG-ATAAGGCCGAATGGCCAATGTGATGAAAGTGAACGTGTGTATGTGTGATAAGCCGAATG
1 GTGTGAATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTATATGTGTGAT-AGCC-AAT-
*
71888420 GCCAATGTGATGAAAGTGAACAT-GTATATGTGTGATAA-GCCGAATGGCCAATGTGATGAAAGT
63 G--AATGTGATG-AAGTG-A-ATGGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAAAGT
*
71888483 AAACATGTATATGTGTGATAAGGCCGAGTGGCCAATGTGATG
123 AAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
71888525 AATGTGAGCA
Statistics
Matches: 153, Mismatches: 8, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
196 46 0.30
197 8 0.05
198 3 0.02
199 1 0.01
201 9 0.06
202 70 0.46
203 14 0.09
204 2 0.01
ACGTcount: A:0.32, C:0.10, G:0.32, T:0.26
Consensus pattern (197 bp):
GTGTGAATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTATATGTGTGATAGCCAATGAA
TGTGATGAAGTGAATGGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAAAGTAAACATGT
ATATGTGTGATAAGGCCGAATGGCCAATGTGATGGAAATGATATGTGAAACGATGGTGTATGAAG
TG
Found at i:71890604 original size:40 final size:40
Alignment explanation
Indices: 71890547--71890968 Score: 656
Period size: 40 Copynumber: 10.6 Consensus size: 40
71890537 TCGAATGATG
* *
71890547 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATA
* * * * *
71890587 TCCGGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCGTGCTAGTGA-TATA
71890627 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
71890667 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
71890707 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
71890747 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
71890787 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
71890827 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
71890867 TCCGGGCTAAGT-CCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
71890906 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
71890946 TCCGTGCTAAATCCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAGAGCA
71890969 ATCATGCTGG
Statistics
Matches: 357, Mismatches: 20, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
39 39 0.11
40 298 0.83
41 20 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:71895265 original size:47 final size:47
Alignment explanation
Indices: 71895181--71895574 Score: 574
Period size: 47 Copynumber: 8.4 Consensus size: 47
71895171 AATGTGAAAG
* *
71895181 TGTATATGTGTGAATAGGGTCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTG-ATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
*
71895229 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACG
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* *
71895276 TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACG
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* *
71895323 TGTGTATGTGTGATAAGACCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* *
71895370 TGTATATGTGTGATAAAGCCGAATGGCCAATGTGATGAAAGTAAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
*
71895417 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* * * *
71895464 TGTGTATGTGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAGCA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* * * * *
71895511 TGTGTATGTGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAA-A
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
**
71895557 GTGTATAAATGTGATAAG
1 -TGTATATGTGTGATAAG
71895575 TCCCGAAGGG
Statistics
Matches: 320, Mismatches: 25, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
46 1 0.00
47 307 0.96
48 12 0.04
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.27
Consensus pattern (47 bp):
TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
Found at i:71912827 original size:32 final size:32
Alignment explanation
Indices: 71912786--71912847 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
71912776 CATCTATTTT
71912786 CATTGTTCAACTCTTTGACAACACGAAAAATC
1 CATTGTTCAACTCTTTGACAACACGAAAAATC
*
71912818 CATTGTTCAACTCTTTGACAACATGAAAAA
1 CATTGTTCAACTCTTTGACAACACGAAAAA
71912848 ACCAAAAGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.29
Consensus pattern (32 bp):
CATTGTTCAACTCTTTGACAACACGAAAAATC
Found at i:71920150 original size:13 final size:13
Alignment explanation
Indices: 71920132--71920159 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
71920122 TGAAAATTCG
71920132 TTAATGGTACATT
1 TTAATGGTACATT
71920145 TTAATGGTACATT
1 TTAATGGTACATT
71920158 TT
1 TT
71920160 CCCCTATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (13 bp):
TTAATGGTACATT
Found at i:71937757 original size:37 final size:37
Alignment explanation
Indices: 71937707--71937783 Score: 118
Period size: 37 Copynumber: 2.1 Consensus size: 37
71937697 TTATTACGAA
* * *
71937707 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
71937744 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
71937781 GTC
1 GTC
71937784 ATTAGAGCTC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.22
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:71937991 original size:47 final size:47
Alignment explanation
Indices: 71937904--71938198 Score: 401
Period size: 47 Copynumber: 6.2 Consensus size: 47
71937894 CCTTTCGGGA
* * * * * * * *
71937904 CTTATCACATTTATGCACTTTCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
71937951 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71937998 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
71938045 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
71938092 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
71938139 CTTATTACATATATACATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTA-T-CACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
71938190 CTTATCACA
1 CTTATCACA
71938199 CATGTAACAG
Statistics
Matches: 225, Mismatches: 19, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
47 176 0.78
48 1 0.00
49 8 0.04
50 1 0.00
51 39 0.17
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:71939800 original size:29 final size:28
Alignment explanation
Indices: 71939764--71939841 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
71939754 TCATGAGATT
71939764 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
71939794 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
71939821 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
71939842 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:71940059 original size:174 final size:174
Alignment explanation
Indices: 71939794--71940467 Score: 1253
Period size: 174 Copynumber: 3.9 Consensus size: 174
71939784 AAATTGTACA
71939794 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
*
71939859 TGTGCGAACTCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
71939924 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
*
71939968 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
71940033 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
71940098 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
*
71940142 GCACTAAGTGTGCAAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
71940207 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
71940272 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * *
71940316 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTATTAAGCTCTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
* * *
71940381 TGTGCGAACCC-A-ATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
71940444 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
71940468 ACCTTGAGTT
Statistics
Matches: 489, Mismatches: 11, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
172 72 0.15
173 1 0.00
174 416 0.85
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:71946756 original size:37 final size:37
Alignment explanation
Indices: 71946706--71946784 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
71946696 TTATTACGAA
* * *
71946706 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
71946743 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
71946780 GTCTT
1 GTCTT
71946785 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:71946990 original size:47 final size:47
Alignment explanation
Indices: 71946903--71947244 Score: 486
Period size: 47 Copynumber: 7.2 Consensus size: 47
71946893 CCTTTCGGGA
* * * * * * * *
71946903 CTTATCACATTTATGCACTTTCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
71946950 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
71946997 CTTATCACATATATACACTTTCACATTCATCGCATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71947044 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
71947091 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
71947138 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
71947185 CTTATTACATATATACATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTA-T-CACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
71947236 CTTATCACA
1 CTTATCACA
71947245 CATGTAACAG
Statistics
Matches: 270, Mismatches: 21, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
47 221 0.82
48 1 0.00
49 8 0.03
50 1 0.00
51 39 0.14
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:71948850 original size:29 final size:28
Alignment explanation
Indices: 71948814--71948891 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
71948804 TCATGAGATT
71948814 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
71948844 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
71948871 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
71948892 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:71949318 original size:173 final size:174
Alignment explanation
Indices: 71948844--71949518 Score: 1271
Period size: 174 Copynumber: 3.9 Consensus size: 174
71948834 AAATTGTACA
71948844 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
*
71948909 TGTGCGAACTCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
71948974 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
*
71949018 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
71949083 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
71949148 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
71949192 GCACTAAGTGTGCGAG-TTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
71949256 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
*
71949321 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAATTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
71949365 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
* * *
71949430 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
71949495 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
71949519 ACCTTGAGTT
Statistics
Matches: 491, Mismatches: 9, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
173 171 0.35
174 320 0.65
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:71949391 original size:29 final size:29
Alignment explanation
Indices: 71949340--71949407 Score: 102
Period size: 29 Copynumber: 2.3 Consensus size: 29
71949330 GCGGAAAAGG
71949340 TAAGTGTGCGAATTTGAAATGCATGGCAC
1 TAAGTGTGCGAATTTGAAATGCATGGCAC
* *
71949369 TAAGTGTGTGAGTTT-AAAGTGCATGGCAC
1 TAAGTGTGCGAATTTGAAA-TGCATGGCAC
71949398 TAAGTGTGCG
1 TAAGTGTGCG
71949408 TGGTTGATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
28 3 0.09
29 32 0.91
ACGTcount: A:0.28, C:0.12, G:0.31, T:0.29
Consensus pattern (29 bp):
TAAGTGTGCGAATTTGAAATGCATGGCAC
Found at i:71949500 original size:347 final size:348
Alignment explanation
Indices: 71948844--71949518 Score: 1289
Period size: 347 Copynumber: 1.9 Consensus size: 348
71948834 AAATTGTACA
71948844 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
*
71948909 TGTGCGAACTCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
71948974 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGGCACTAAGTGTGTGAGTTTAA
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGGCACTAAGTGTGTGAGTTTAA
71949039 AGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATT
196 AGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATT
* *
71949104 TTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGATTTTGGACAGCGGAAAAGGTA
261 TTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAATTTTGGACAGCGGAAAAGGTA
71949169 AGTGTGCGAACTTGAAATGCATG
326 AGTGTGCGAACTTGAAATGCATG
71949192 GCACTAAGTGTGCGAG-TTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
71949256 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
*
71949321 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAATTTGAAATGCATGGCACTAAGTGTGTGAGTTTAA
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGGCACTAAGTGTGTGAGTTTAA
*
71949386 AGTGCATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATT
196 AGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATT
*
71949451 TTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAAAAGGTA
261 TTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAATTTTGGACAGCGGAAAAGGTA
71949516 AGT
326 AGT
71949519 ACCTTGAGTT
Statistics
Matches: 321, Mismatches: 6, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
347 305 0.95
348 16 0.05
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (348 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGGCACTAAGTGTGTGAGTTTAA
AGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATT
TTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAATTTTGGACAGCGGAAAAGGTA
AGTGTGCGAACTTGAAATGCATG
Found at i:71951008 original size:47 final size:47
Alignment explanation
Indices: 71950939--71951192 Score: 373
Period size: 47 Copynumber: 5.3 Consensus size: 47
71950929 GGGTGTTACA
*
71950939 ACACATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTATC
1 ACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATC
*
71950986 ACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATT
1 ACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATC
* *
71951033 ACATATATACATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
1 ACACATATAC----ACTTTCACATTCATCACATCGGCTATTAGGCCTTATC
* ** *
71951084 ACATATACATACACTTTCACATTCATCACATCGGCCGTTAGGCCTTATT
1 ACACAT--ATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATC
*
71951133 ACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATC
1 ACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATC
71951180 ACACATATACACT
1 ACACATATACACT
71951193 CTCTTGGCTG
Statistics
Matches: 190, Mismatches: 11, Indels: 12
0.89 0.05 0.06
Matches are distributed among these distances:
47 104 0.55
49 41 0.22
51 41 0.22
53 4 0.02
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (47 bp):
ACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATC
Found at i:71954969 original size:42 final size:42
Alignment explanation
Indices: 71954911--71955022 Score: 116
Period size: 42 Copynumber: 2.6 Consensus size: 42
71954901 AGGAAACTCG
* * *
71954911 CACACTCAGTGCCAAATAAATAGCCGAAGTTGTATCAATCTCA
1 CACACTAAGTG-CAAATAAATAGCCGAAGCTATATCAATCTCA
* * * * * *
71954954 CACATTGAGTGCAAATATATAGCTGAAGCTATCTCGATCTCA
1 CACACTAAGTGCAAATAAATAGCCGAAGCTATATCAATCTCA
* *
71954996 CACACTAAGTGCACATAATTAGCCGAA
1 CACACTAAGTGCAAATAAATAGCCGAA
71955023 TCATCGTCGA
Statistics
Matches: 55, Mismatches: 14, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
42 46 0.84
43 9 0.16
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (42 bp):
CACACTAAGTGCAAATAAATAGCCGAAGCTATATCAATCTCA
Found at i:71956724 original size:16 final size:18
Alignment explanation
Indices: 71956703--71956735 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
71956693 CATACTAGCT
71956703 CCAAAAT-ATAG-TAGTA
1 CCAAAATGATAGATAGTA
71956719 CCAAAATGATAGATAGT
1 CCAAAATGATAGATAGT
71956736 GTGACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.24
Consensus pattern (18 bp):
CCAAAATGATAGATAGTA
Found at i:71957293 original size:41 final size:43
Alignment explanation
Indices: 71957219--71957370 Score: 136
Period size: 41 Copynumber: 3.6 Consensus size: 43
71957209 TTTATCAAAT
* * * *
71957219 CACCGGCATTTAGCCTACTAGGTTTTAAACCCGAAT-TCA-TC
1 CACCGGCATTTAGCCTGCTAGGCTTGAAGCCCGAATATCATTC
* * *
71957260 CACCGGCATTTCGCCTGCTAGGCTCGAAGCCCG-ATATCATTT
1 CACCGGCATTTAGCCTGCTAGGCTTGAAGCCCGAATATCATTC
*
71957302 CACTGGCATTATAGCCTGCTAGGCTTGAAGGCCCGAATAGT-A-TC
1 CACCGGCATT-TAGCCTGCTAGGCTTGAA-GCCCGAATA-TCATTC
*
71957346 TCACC-GCATTATAGCCTGGTAGGCT
1 -CACCGGCATT-TAGCCTGCTAGGCT
71957371 CAAAGGCCCA
Statistics
Matches: 91, Mismatches: 13, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
40 2 0.02
41 30 0.33
42 10 0.11
43 16 0.18
44 25 0.27
45 7 0.08
46 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (43 bp):
CACCGGCATTTAGCCTGCTAGGCTTGAAGCCCGAATATCATTC
Found at i:71957420 original size:45 final size:45
Alignment explanation
Indices: 71957260--71957432 Score: 212
Period size: 44 Copynumber: 3.9 Consensus size: 45
71957250 CGAATTCATC
* * *
71957260 CACCGGCATT-TCGCCTGCTAGGCTCGAA-GCCCG-ATA-TCATTT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATCT
* **
71957302 CACTGGCATTATAGCCTGCTAGGCTTGAAGGCCCGAATAGTATCT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCT
* *
71957347 CACC-GCATTATAGCCTGGTAGGCTCAAAGGCCCAAATAGTATCT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCT
* *
71957391 CACCGGCATCATAGCCTACTAGGCTCAAAGGCCCGAATAGTA
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
71957433 CCATACGATA
Statistics
Matches: 113, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
42 9 0.08
43 16 0.14
44 45 0.40
45 42 0.37
46 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (45 bp):
CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCT
Found at i:71967113 original size:15 final size:15
Alignment explanation
Indices: 71967093--71967123 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
71967083 ATTTATTACA
71967093 AATTTACTCTTTCAC
1 AATTTACTCTTTCAC
71967108 AATTTACTCTTTCAC
1 AATTTACTCTTTCAC
71967123 A
1 A
71967124 CATCTTTGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.29, C:0.26, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTTACTCTTTCAC
Found at i:71967711 original size:26 final size:26
Alignment explanation
Indices: 71967682--71967741 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
71967672 TCCCTTTGAA
* * *
71967682 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
71967708 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
*
71967736 CCATTC
1 TCATTC
71967742 TCAATATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 21 0.75
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:71967727 original size:28 final size:28
Alignment explanation
Indices: 71967696--71967758 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
71967686 TCGATATTTT
*
71967696 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
71967724 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
71967752 GTACACT
1 GCACACT
71967759 GAGTACTATA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.29, C:0.29, G:0.11, T:0.32
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:71972176 original size:30 final size:31
Alignment explanation
Indices: 71972152--71972209 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
71972142 AGCTCCTATC
*
71972152 AGCTCACTTGAGTTTATTTT-AGCTCATACG
1 AGCTCAATTGAGTTTATTTTCAGCTCATACG
* *
71972182 AGCTCAATTTAGTTTCTTTTCAGCTCAT
1 AGCTCAATTGAGTTTATTTTCAGCTCAT
71972210 TTCTTTTTCC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 17 0.71
31 7 0.29
ACGTcount: A:0.22, C:0.21, G:0.14, T:0.43
Consensus pattern (31 bp):
AGCTCAATTGAGTTTATTTTCAGCTCATACG
Found at i:71981630 original size:30 final size:28
Alignment explanation
Indices: 71981579--71981637 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 28
71981569 TAAAAGCTAC
71981579 ATGAATGCATGAAACATATAAAAATCAAA
1 ATGAATGCATGAAACATATAAAAAT-AAA
71981608 ATGAATGATCATGAAA-ATATAAAAATAAA
1 ATGAATG--CATGAAACATATAAAAATAAA
71981637 A
1 A
71981638 GGTTGGAGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.61, C:0.07, G:0.10, T:0.22
Consensus pattern (28 bp):
ATGAATGCATGAAACATATAAAAATAAA
Found at i:71987066 original size:24 final size:24
Alignment explanation
Indices: 71987020--71987068 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
71987010 CCACAAGGCT
**
71987020 TCATCCAACCTCACTGATCAATCC
1 TCATCCAACCTCACTGAAAAATCC
71987044 TCATCCAACCTCACTGAAAAATCC
1 TCATCCAACCTCACTGAAAAATCC
71987068 T
1 T
71987069 TATAGTTGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.39, G:0.04, T:0.24
Consensus pattern (24 bp):
TCATCCAACCTCACTGAAAAATCC
Found at i:71991376 original size:20 final size:17
Alignment explanation
Indices: 71991337--71991371 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
71991327 GTAAGTCATT
71991337 TTTGACTCGGTTTTTAA
1 TTTGACTCGGTTTTTAA
71991354 TTTGACTCGGTTTTTAA
1 TTTGACTCGGTTTTTAA
71991371 T
1 T
71991372 AATTTCTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.11, G:0.17, T:0.54
Consensus pattern (17 bp):
TTTGACTCGGTTTTTAA
Found at i:71993684 original size:16 final size:16
Alignment explanation
Indices: 71993663--71993694 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
71993653 ATTGTAACGC
71993663 CCCAAAAATCCCGAAA
1 CCCAAAAATCCCGAAA
71993679 CCCAAAAATCCCGAAA
1 CCCAAAAATCCCGAAA
71993695 TCATGAACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.38, G:0.06, T:0.06
Consensus pattern (16 bp):
CCCAAAAATCCCGAAA
Found at i:71994418 original size:63 final size:63
Alignment explanation
Indices: 71994351--71994478 Score: 238
Period size: 63 Copynumber: 2.0 Consensus size: 63
71994341 TGATCCATTG
*
71994351 TTAGTTAGCCGACTTCTTCTTGATTCCCTTGGTGCCAGATAAACCTTGTTCATCATACTAAGT
1 TTAGTTAGCCGACTTCTTCTTGATTCCATTGGTGCCAGATAAACCTTGTTCATCATACTAAGT
*
71994414 TTAGTTAGCCGATTTCTTCTTGATTCCATTGGTGCCAGATAAACCTTGTTCATCATACTAAGT
1 TTAGTTAGCCGACTTCTTCTTGATTCCATTGGTGCCAGATAAACCTTGTTCATCATACTAAGT
71994477 TT
1 TT
71994479 GGAAACCGAA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.40
Consensus pattern (63 bp):
TTAGTTAGCCGACTTCTTCTTGATTCCATTGGTGCCAGATAAACCTTGTTCATCATACTAAGT
Done.