Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 3 of 313
Found at i:556810 original size:21 final size:21
Alignment explanation
Indices: 556786--556825 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
556776 GGACTAAACT
*
556786 GAAAACTTTGAAAAATTTTGG
1 GAAAACTTAGAAAAATTTTGG
*
556807 GAAAACTTAGAAAATTTTT
1 GAAAACTTAGAAAAATTTT
556826 CCCTGAAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.05, G:0.15, T:0.35
Consensus pattern (21 bp):
GAAAACTTAGAAAAATTTTGG
Found at i:558435 original size:40 final size:39
Alignment explanation
Indices: 558391--558495 Score: 122
Period size: 39 Copynumber: 2.6 Consensus size: 39
558381 AGTGACCATA
*
558391 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
558431 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
558469 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGACTAAG-CCCGAAGGCATTTG
558496 AACGAGTAGC
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.03
39 32 0.55
40 24 0.41
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:558452 original size:39 final size:40
Alignment explanation
Indices: 558351--558514 Score: 169
Period size: 40 Copynumber: 4.1 Consensus size: 40
558341 TTGAATGATG
* *
558351 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATA
*
558391 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA
*
558430 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
* * **
558470 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATA-CTATA
558510 TCCGG
1 TCCGG
558515 TTAAATTCCG
Statistics
Matches: 106, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
39 36 0.34
40 59 0.56
41 10 0.09
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
Found at i:558514 original size:79 final size:80
Alignment explanation
Indices: 558351--558501 Score: 191
Period size: 79 Copynumber: 1.9 Consensus size: 80
558341 TTGAATGATG
*
558351 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
558416 GTGCGAGATACTAAT
66 GAACGAGATACTAAT
* * * * *
558431 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
558493 TTGAACGAG
64 TTGAACGAG
558502 TAGCTATATC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.02
79 42 0.69
80 18 0.30
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGATACTAAT
Found at i:565566 original size:40 final size:39
Alignment explanation
Indices: 565522--565626 Score: 122
Period size: 39 Copynumber: 2.6 Consensus size: 39
565512 AGTGACCATA
*
565522 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
565562 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
565600 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGACTAAG-CCCGAAGGCATTTG
565627 AATGAGTAGC
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.03
39 32 0.55
40 24 0.41
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:565583 original size:39 final size:40
Alignment explanation
Indices: 565482--565626 Score: 165
Period size: 40 Copynumber: 3.6 Consensus size: 40
565472 TTGAATGATG
* *
565482 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATA
*
565522 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA
*
565561 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
* *
565601 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
565627 AATGAGTAGC
Statistics
Matches: 91, Mismatches: 7, Indels: 14
0.81 0.06 0.12
Matches are distributed among these distances:
39 34 0.37
40 46 0.51
41 10 0.11
42 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
Found at i:565645 original size:79 final size:80
Alignment explanation
Indices: 565482--565628 Score: 183
Period size: 79 Copynumber: 1.9 Consensus size: 80
565472 TTGAATGATG
*
565482 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
565547 GTGCGAGATACTAAT
66 GAACGAGATACTAAT
* * * * *
565562 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
565624 TTGAA
64 TTGAA
565629 TGAGTAGCTA
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
78 1 0.02
79 38 0.67
80 18 0.32
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGATACTAAT
Found at i:571515 original size:46 final size:46
Alignment explanation
Indices: 571465--571638 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 46
571455 GTTGAGCATT
*
571465 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTC
* * * *
571511 CGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTC
* * * *
571558 CGAACTCGTTGAGTTGAGTTCGATTTCACTCATGGATGCAAACGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTC
* * *
571604 CGAGCTCGTTGAGTTGATTCCGAGTTCGCTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
571639 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 58 0.56
47 27 0.26
48 3 0.03
50 6 0.06
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.30
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTC
Found at i:571626 original size:93 final size:93
Alignment explanation
Indices: 571460--571631 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
571450 GGATGGTTGA
* * * *
571460 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
571525 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
571553 GCATCCGAACTCGTTGAGTTGAGTTCGATTTCACTCATGGATGCAAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
*
571618 TGATTCCGAGTTCG
66 TGAGTCCGAGTTCG
571632 CTTATGGGCG
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:573758 original size:16 final size:16
Alignment explanation
Indices: 573734--573764 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
573724 GTAGACTGAC
573734 AAATCCTGAAAAGCCG
1 AAATCCTGAAAAGCCG
*
573750 AAATGCTGAAAAGCC
1 AAATCCTGAAAAGCC
573765 AGAAGTTTGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.23, G:0.19, T:0.13
Consensus pattern (16 bp):
AAATCCTGAAAAGCCG
Found at i:575303 original size:16 final size:17
Alignment explanation
Indices: 575271--575303 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
575261 TTTCAAGAAG
575271 GGTTTTCAATGAAAACAA
1 GGTTTTCAA-GAAAACAA
575289 GGTTTTCAA-AAAACA
1 GGTTTTCAAGAAAACA
575304 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.27
Consensus pattern (17 bp):
GGTTTTCAAGAAAACAA
Found at i:575899 original size:26 final size:26
Alignment explanation
Indices: 575858--575944 Score: 86
Period size: 26 Copynumber: 3.3 Consensus size: 26
575848 TCAGCCAATA
* * *
575858 TACCAATATCGTAGCAAAGCTGTTAG
1 TACCAGTATCGCAGCAAAGCTGCTAG
* * *
575884 TACCAGTAGT-GCAGCAAAGTTGCCAA
1 TACCAGTA-TCGCAGCAAAGCTGCTAG
*
575910 TAGCAGTATCGCAGCAAAGCTGCTAG
1 TACCAGTATCGCAGCAAAGCTGCTAG
*
575936 TATCAGTAT
1 TACCAGTAT
575945 ATATGTGGCC
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
25 1 0.02
26 46 0.96
27 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (26 bp):
TACCAGTATCGCAGCAAAGCTGCTAG
Found at i:605259 original size:18 final size:18
Alignment explanation
Indices: 605236--605271 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
605226 TCTCGGTACT
605236 CATAACGACCAATTAGAA
1 CATAACGACCAATTAGAA
605254 CATAACGACCAATTAGAA
1 CATAACGACCAATTAGAA
605272 GGTCTACAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.22, G:0.11, T:0.17
Consensus pattern (18 bp):
CATAACGACCAATTAGAA
Found at i:613099 original size:43 final size:43
Alignment explanation
Indices: 613025--613165 Score: 219
Period size: 43 Copynumber: 3.3 Consensus size: 43
613015 CTATTCGGGC
* *
613025 CTTCGAGCTTAGCAGGCTATAATGCCGGTGAGTTAATATCAGG
1 CTTCGAGCCTAGTAGGCTATAATGCCGGTGAGTTAATATCAGG
* ** *
613068 CTTCAAGCCTAGTAGGCTATAATGTTGGTGAGTTAATATCGGG
1 CTTCGAGCCTAGTAGGCTATAATGCCGGTGAGTTAATATCAGG
*
613111 CTTCGAGCCTAGTAGGCTATAATGCCGGTGAGTTACTATCAGG
1 CTTCGAGCCTAGTAGGCTATAATGCCGGTGAGTTAATATCAGG
613154 CTTCGAGCCTAG
1 CTTCGAGCCTAG
613166 CAGACGTAAT
Statistics
Matches: 87, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 87 1.00
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (43 bp):
CTTCGAGCCTAGTAGGCTATAATGCCGGTGAGTTAATATCAGG
Found at i:617801 original size:26 final size:26
Alignment explanation
Indices: 617756--617836 Score: 110
Period size: 26 Copynumber: 3.1 Consensus size: 26
617746 AACACACCAA
* *
617756 TATCGCAACAAAGCTACCAGTATCAG
1 TATCGCAGCAAAGCTGCCAGTATCAG
*
617782 TAGT-GCAGCAAAGCTGCCAGTAGCAG
1 TA-TCGCAGCAAAGCTGCCAGTATCAG
*
617808 TATCGCAGCAAAGCTGCTAGTATCAG
1 TATCGCAGCAAAGCTGCCAGTATCAG
617834 TAT
1 TAT
617837 ATAGGTGGCC
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
25 1 0.02
26 46 0.96
27 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.21
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTATCAG
Found at i:622853 original size:28 final size:28
Alignment explanation
Indices: 622811--622864 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
622801 GGAGGAAGCG
*
622811 TTCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGGTGGCCCTGCCACAAATATCTGT
*
622839 TTCTGGTGGCCCTGCCACAATTATCT
1 TTCTGGTGGCCCTGCCACAAATATCT
622865 ATATCTAGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.17, C:0.28, G:0.20, T:0.35
Consensus pattern (28 bp):
TTCTGGTGGCCCTGCCACAAATATCTGT
Found at i:626973 original size:47 final size:47
Alignment explanation
Indices: 626892--627191 Score: 406
Period size: 47 Copynumber: 6.4 Consensus size: 47
626882 AATGTGAAAG
*
626892 TGTATATGTGTGAATAGGGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTG-ATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
*
626940 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACG
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* *
626987 TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACG
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* * *
627034 TGTGTATGTGTGATAAAGCCGAATGGCCAATGTGATGAAAGTAAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
*
627081 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-A
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* * * * * * *
627127 GTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA-A
1 -TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
**
627174 GTGTATAAATGTGATAAG
1 -TGTATATGTGTGATAAG
627192 TCCCGAAGGG
Statistics
Matches: 232, Mismatches: 19, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
46 1 0.00
47 219 0.94
48 12 0.05
ACGTcount: A:0.32, C:0.10, G:0.32, T:0.26
Consensus pattern (47 bp):
TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
Found at i:627066 original size:24 final size:24
Alignment explanation
Indices: 626945--627067 Score: 60
Period size: 22 Copynumber: 5.2 Consensus size: 24
626935 GAACATGTAT
*
626945 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAAGCCGAATGGCCA
* * ***
626969 A--TGTGATGAAAG-TGAACGTGTGT
1 ATGTGTGAT-AAAGCCGAATG-GCCA
*
626992 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAAGCCGAATGGCCA
* * ***
627016 A--TGTGATGAAAG-TGAACGTGTGT
1 ATGTGTGAT-AAAGCCGAATG-GCCA
627039 ATGTGTGATAAAGCCGAATGGCCA
1 ATGTGTGATAAAGCCGAATGGCCA
627063 ATGTG
1 ATGTG
627068 ATGAAAGTAA
Statistics
Matches: 66, Mismatches: 23, Indels: 20
0.61 0.21 0.18
Matches are distributed among these distances:
22 20 0.30
23 10 0.15
24 16 0.24
25 20 0.30
ACGTcount: A:0.30, C:0.11, G:0.33, T:0.25
Consensus pattern (24 bp):
ATGTGTGATAAAGCCGAATGGCCA
Found at i:627187 original size:141 final size:141
Alignment explanation
Indices: 626882--627190 Score: 456
Period size: 141 Copynumber: 2.2 Consensus size: 141
626872 TAATTGAATA
** *
626882 AATGTGAAAGTGTATATGTGTGAATAGGGCCGAATGGCCAATGTGATGAAAGTGAACATGTATAT
1 AATGTGAAAGTGTATATGTGTG-ATAAAGCCGAATGGCCAATGTGATGAAAGTAAACATGTATAT
* * * *
626947 GTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACGTGTGTATGTGTGATAAGGCCGAATG
65 GTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAAAGTGTATATATGTGACAAGGCCGAATG
*
627012 GCCAATGTGATG
130 GCCAACGTGATG
* * *
627024 AAAGTGAACGTGTGTATGTGTGATAAAGCCGAATGGCCAATGTGATGAAAGTAAACATGTATATG
1 AATGTGAAAGTGTATATGTGTGATAAAGCCGAATGGCCAATGTGATGAAAGTAAACATGTATATG
* * *
627089 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGG
66 TGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAAAGTGTATATATGTGACAAGGCCGAATGG
627154 CCAACGTGATG
131 CCAACGTGATG
* **
627165 GATGTGAAAGTGTATAAATGTGATAA
1 AATGTGAAAGTGTATATGTGTGATAA
627191 GTCCCGAAGG
Statistics
Matches: 147, Mismatches: 20, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
141 128 0.87
142 19 0.13
ACGTcount: A:0.33, C:0.10, G:0.31, T:0.26
Consensus pattern (141 bp):
AATGTGAAAGTGTATATGTGTGATAAAGCCGAATGGCCAATGTGATGAAAGTAAACATGTATATG
TGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAAAGTGTATATATGTGACAAGGCCGAATGG
CCAACGTGATG
Found at i:633986 original size:43 final size:43
Alignment explanation
Indices: 633871--633987 Score: 162
Period size: 43 Copynumber: 2.7 Consensus size: 43
633861 TTATTTAAAA
* * *
633871 AAACGCCGCTAAAGGTCATGACCTTTAGCAGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGTCATGACCTTTAGCGGCACTTTCCCCAC
* * *
633914 AAACGCTGCTATAGGTCAAGACCTTTAGCGGCACTTTCCCCAC
1 AAACGCCGCTAAAGGTCATGACCTTTAGCGGCACTTTCCCCAC
* *
633957 AAACGCCGCTAGAGGTCTTGACCTTTAGCGG
1 AAACGCCGCTAAAGGTCATGACCTTTAGCGG
633988 AGCGTCTTTA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 64 1.00
ACGTcount: A:0.25, C:0.31, G:0.21, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCATGACCTTTAGCGGCACTTTCCCCAC
Found at i:635324 original size:138 final size:138
Alignment explanation
Indices: 635076--635347 Score: 465
Period size: 138 Copynumber: 2.0 Consensus size: 138
635066 TTTTAAAATT
635076 TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTAATATAAAACCTAAAAACAAT
1 TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTAATATAAAACCTAAAAACAAT
* * *
635141 TTAATGCCAATTTTTAAGGAAATTACATATGGTTCTAAAATTCAAAACAAGTACTCCTA-AAAGC
66 TTAATGCCAATTTTTAAAGAAATTACATATGATTCTAAAATTCAAAACAAGGACTCC-ACAAAGC
635205 ATCCAGACG
130 ATCCAGACG
* *
635214 TTAAATCAAATAAGTTGCATAATAACATCACAAAGAGAAATGTTATTATAAAACCTAAAAACAAT
1 TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTAATATAAAACCTAAAAACAAT
* *
635279 TTAATGCCAATTTTTAAAGAGATTACATATGATTCTAAAATTCAAAACAGGGACTCCACAAAGCA
66 TTAATGCCAATTTTTAAAGAAATTACATATGATTCTAAAATTCAAAACAAGGACTCCACAAAGCA
635344 TCCA
131 TCCA
635348 TACATTATTA
Statistics
Matches: 126, Mismatches: 7, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
137 1 0.01
138 125 0.99
ACGTcount: A:0.48, C:0.15, G:0.10, T:0.27
Consensus pattern (138 bp):
TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTAATATAAAACCTAAAAACAAT
TTAATGCCAATTTTTAAAGAAATTACATATGATTCTAAAATTCAAAACAAGGACTCCACAAAGCA
TCCAGACG
Found at i:644666 original size:22 final size:22
Alignment explanation
Indices: 644636--644678 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
644626 CATCGAAAAC
*
644636 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
644658 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
644679 AGCGCCGCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.21, G:0.28, T:0.42
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:644811 original size:43 final size:43
Alignment explanation
Indices: 644750--644995 Score: 296
Period size: 43 Copynumber: 5.7 Consensus size: 43
644740 GCGTCGCTAA
* *
644750 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC
* *
644793 CTTTAACGGCGCTTTTCCCACAAACGCCGCTATAGATCAGAAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC
* * *
644836 CTTTAGCGACACTTTTCCCACAAATGCCGCTATAGATCAGGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC
* * *
644879 CTTTAGCGGCACTTTT-ACACAAACGCCGCTATAGATCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC
*** * *
644921 CTTTAGCGGCGCTTTTTTTATAAACGCCGCTATAGATCATGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC
* * * ** *
644964 TTTTAGCGACGTTTTTTTCGCAAACGCCGCTA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTA
644996 AAAGTGCCAT
Statistics
Matches: 178, Mismatches: 24, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
42 38 0.21
43 140 0.79
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC
Found at i:644936 original size:85 final size:86
Alignment explanation
Indices: 644750--644971 Score: 295
Period size: 85 Copynumber: 2.6 Consensus size: 86
644740 GCGTCGCTAA
* * * * *
644750 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGACCTTTAACGGCGCTTTTCCCACA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGACCTTTAGCGGCACTTTTCACACA
644815 AACGCCGCTATAGATCAGAAC
66 AACGCCGCTATAGATCAGAAC
* * *
644836 CTTTAGCGACACTTTTCCCACAAATGCCGCTATAGATCAGGACCTTTAGCGGCACTTTT-ACACA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGACCTTTAGCGGCACTTTTCACACA
644900 AACGCCGCTATAGATCA-AGAC
66 AACGCCGCTATAGATCAGA-AC
*** * * *
644921 CTTTAGCGGCGCTTTTTTTATAAACGCCGCTATAGATCATGACTTTTAGCG
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGACCTTTAGCG
644972 ACGTTTTTTT
Statistics
Matches: 118, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
84 1 0.01
85 65 0.55
86 52 0.44
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (86 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGACCTTTAGCGGCACTTTTCACACA
AACGCCGCTATAGATCAGAAC
Found at i:649579 original size:21 final size:21
Alignment explanation
Indices: 649555--649595 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
649545 AACCCTAAAT
649555 CCCTAACTCTTAACCCCTAAC
1 CCCTAACTCTTAACCCCTAAC
*
649576 CCCTAACTCTTAATCCCTAA
1 CCCTAACTCTTAACCCCTAA
649596 ACCTTAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.44, G:0.00, T:0.27
Consensus pattern (21 bp):
CCCTAACTCTTAACCCCTAAC
Found at i:649832 original size:23 final size:24
Alignment explanation
Indices: 649793--649846 Score: 76
Period size: 22 Copynumber: 2.3 Consensus size: 24
649783 TATATGAAAT
*
649793 TATTTAATATATAAATTAAAAAAA
1 TATTTAATAAATAAATTAAAAAAA
649817 TATTTAA-AAATAAATT-AAAAAA
1 TATTTAATAAATAAATTAAAAAAA
*
649839 TAATTAAT
1 TATTTAAT
649847 CTAAACCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 12 0.44
23 8 0.30
24 7 0.26
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
TATTTAATAAATAAATTAAAAAAA
Found at i:649901 original size:22 final size:22
Alignment explanation
Indices: 649869--649938 Score: 70
Period size: 22 Copynumber: 3.1 Consensus size: 22
649859 CCCTAACTTG
649869 ACCCATGAACTCATAAACCCTAA
1 ACCCAT-AACTCATAAACCCTAA
* * *
649892 ATCCATAACTCTTAACCCCTAA
1 ACCCATAACTCATAAACCCTAA
* *
649914 ACCCCTAAC-CACTAAACCCTGA
1 ACCCATAACTCA-TAAACCCTAA
649936 ACC
1 ACC
649939 TTAAATCTCA
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
21 1 0.03
22 32 0.84
23 5 0.13
ACGTcount: A:0.39, C:0.40, G:0.03, T:0.19
Consensus pattern (22 bp):
ACCCATAACTCATAAACCCTAA
Found at i:649987 original size:15 final size:15
Alignment explanation
Indices: 649951--649991 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
649941 AAATCTCAAC
649951 CCTTAAA-CCATAAT
1 CCTTAAATCCATAAT
*
649965 CCCT-AATCCATAAT
1 CCTTAAATCCATAAT
649979 CCTTAAATCCATA
1 CCTTAAATCCATA
649992 CTCCATAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 2 0.09
14 13 0.57
15 8 0.35
ACGTcount: A:0.39, C:0.32, G:0.00, T:0.29
Consensus pattern (15 bp):
CCTTAAATCCATAAT
Found at i:650000 original size:15 final size:15
Alignment explanation
Indices: 649954--650000 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
649944 TCTCAACCCT
*
649954 TAAA-CCATAATCCC
1 TAAATCCATAATCCA
*
649968 T-AATCCATAATCCT
1 TAAATCCATAATCCA
*
649982 TAAATCCATACTCCA
1 TAAATCCATAATCCA
649997 TAAA
1 TAAA
650001 CCTTAAAACA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 2 0.07
14 11 0.39
15 15 0.54
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAATCCATAATCCA
Found at i:650284 original size:41 final size:40
Alignment explanation
Indices: 650224--650339 Score: 162
Period size: 41 Copynumber: 2.8 Consensus size: 40
650214 TAAAATGTTT
650224 TTAGCGGCGCTTTATCAAAAACGCCGCTAAAGCCCCTA-CCA
1 TTAGCGGCGCTTT-TCAAAAACGCCGCTAAAGCCCC-AGCCA
* *
650265 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCAGGCA
1 TTAGCGGCGCTTTT-CAAAAACGCCGCTAAAGCCCCAGCCA
*
650306 TTAGCGGCGCTTTTTGAAAAACGCCGCTAAAGCC
1 TTAGCGGCGC-TTTTCAAAAACGCCGCTAAAGCC
650340 ACGAAATGTT
Statistics
Matches: 68, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
40 2 0.03
41 62 0.91
42 4 0.06
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (40 bp):
TTAGCGGCGCTTTTCAAAAACGCCGCTAAAGCCCCAGCCA
Found at i:650424 original size:40 final size:40
Alignment explanation
Indices: 650374--650511 Score: 145
Period size: 40 Copynumber: 3.5 Consensus size: 40
650364 TGGGCTAAGG
*
650374 TTTTTTGCGGCGTTTTTTTGAAAAACGCCGCTAATGCTCA
1 TTTTTAGCGGCGTTTTTTTGAAAAACGCCGCTAATGCTCA
* *
650414 TTTTTAGCGGCATTTTTTT-AAAAACGCCACTAATGCTCAA
1 TTTTTAGCGGCGTTTTTTTGAAAAACGCCGCTAATGCTC-A
* * * *** *
650454 TCTTTAGTGGCGATTTCCAG-AAAACGCCGCTAATGCTTGA
1 TTTTTAGCGGCGTTTTTTTGAAAAACGCCGCTAATGC-TCA
*
650494 TTTTTACCGGCGTTTTTT
1 TTTTTAGCGGCGTTTTTT
650512 GTCCAAACGC
Statistics
Matches: 77, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
39 18 0.23
40 58 0.75
41 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.39
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTTTTGAAAAACGCCGCTAATGCTCA
Found at i:650430 original size:39 final size:39
Alignment explanation
Indices: 650387--650527 Score: 131
Period size: 40 Copynumber: 3.5 Consensus size: 39
650377 TTTGCGGCGT
650387 TTTTTTGAAAAACGCCGCTAATGCTCATTTTTAGCGGCA
1 TTTTTTGAAAAACGCCGCTAATGCTCATTTTTAGCGGCA
* * * *
650426 TTTTTTTAAAAACGCCACTAATGCTCAATCTTTAGTGGCGA
1 TTTTTTGAAAAACGCCGCTAATGCTC-ATTTTTAGCGGC-A
*** * * *
650467 TTTCCAG-AAAACGCCGCTAATGCTTGATTTTTACCGGCG
1 TTTTTTGAAAAACGCCGCTAATGC-TCATTTTTAGCGGCA
**
650506 TTTTTTGTCCAAACGCCGCTAA
1 TTTTTTG-AAAAACGCCGCTAA
650528 AAGTGCCGCT
Statistics
Matches: 79, Mismatches: 18, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
39 28 0.35
40 34 0.43
41 17 0.22
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.35
Consensus pattern (39 bp):
TTTTTTGAAAAACGCCGCTAATGCTCATTTTTAGCGGCA
Found at i:655663 original size:11 final size:11
Alignment explanation
Indices: 655643--655672 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
655633 GGACGAATTG
655643 GAAAACTAAAA
1 GAAAACTAAAA
*
655654 GAAAATTAAAA
1 GAAAACTAAAA
655665 GAAAACTA
1 GAAAACTA
655673 CAATTGAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.70, C:0.07, G:0.10, T:0.13
Consensus pattern (11 bp):
GAAAACTAAAA
Found at i:669472 original size:46 final size:46
Alignment explanation
Indices: 669422--669597 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
669412 TGGTTGAGCA
669422 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
669468 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
669513 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
669561 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
669598 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:669578 original size:93 final size:93
Alignment explanation
Indices: 669419--669590 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
669409 GGATGGTTGA
* *
669419 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
669484 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
669512 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
669577 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
669591 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:674218 original size:31 final size:31
Alignment explanation
Indices: 674173--674234 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
674163 CAAACTCCTG
*
674173 GGTTCACCCGTGTGGGCCCACACGCCTGTGT
1 GGTTCACCCGTGTGGGCCCACACGCCCGTGT
* *
674204 GGTTTACCCTTGTGGGCCCACACGCCCGTGT
1 GGTTCACCCGTGTGGGCCCACACGCCCGTGT
674235 CGCCCACATG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.10, C:0.35, G:0.31, T:0.24
Consensus pattern (31 bp):
GGTTCACCCGTGTGGGCCCACACGCCCGTGT
Found at i:679089 original size:46 final size:46
Alignment explanation
Indices: 679039--679943 Score: 1756
Period size: 46 Copynumber: 19.7 Consensus size: 46
679029 TTGAGCATCT
679039 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
679085 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
679131 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
679177 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
679223 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
679269 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
679315 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
679361 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
679407 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
679453 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
679499 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
679545 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
679591 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
679637 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
679683 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
679729 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
679775 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
*
679821 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
* * *
679867 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
* *
679913 GAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
679944 GCGGCGGGTT
Statistics
Matches: 852, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 852 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
Found at i:690007 original size:21 final size:21
Alignment explanation
Indices: 689965--690025 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
689955 TATCTGAGTG
*
689965 TGTTGATTGTAGTTCCAC-TGT
1 TGTTGATTGTAATTCC-CTTGT
689986 TGTTGATTGTAATTCCCTTGT
1 TGTTGATTGTAATTCCCTTGT
*
690007 T-TTGGATTATAATTTCCCT
1 TGTT-GATTGTAA-TTCCCT
690026 AAGTAGATGT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
20 3 0.09
21 26 0.74
22 6 0.17
ACGTcount: A:0.16, C:0.15, G:0.18, T:0.51
Consensus pattern (21 bp):
TGTTGATTGTAATTCCCTTGT
Found at i:692387 original size:35 final size:35
Alignment explanation
Indices: 692348--692418 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
692338 TGGAATTAAC
* *
692348 TCATGTAACGACATTAATTCAAATAGATAAAAAAA
1 TCATGTAACGACATTAATGCAAATAAATAAAAAAA
692383 TCATGTAACGACATTAATGCAAATAAATAAAAAAA
1 TCATGTAACGACATTAATGCAAATAAATAAAAAAA
692418 T
1 T
692419 TAAGGATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.55, C:0.11, G:0.08, T:0.25
Consensus pattern (35 bp):
TCATGTAACGACATTAATGCAAATAAATAAAAAAA
Found at i:694237 original size:49 final size:50
Alignment explanation
Indices: 694094--694381 Score: 167
Period size: 49 Copynumber: 5.9 Consensus size: 50
694084 TTCTTAACAT
*
694094 ATGAGGGGAAGGCTTTACG-AAAGATAATAAAATGG-CCTTGCTCCTAAACTC
1 ATGAGGGGAAGGC-TTACGAAAAG-TAATAATATGGTCC-TGCTCCTAAACTC
* **
694145 ATGA-GGGAAGGCTTAC-AAGAAGTAATAATATGCTTTTGCTCCTAAA-TGC
1 ATGAGGGGAAGGCTTACGAA-AAGTAATAATATGGTCCTGCTCCTAAACT-C
* * *
694194 ATGAGGGGAA-ACTTACGAAAAGTAATAATATGGTCCTGGTCCTAAACAC
1 ATGAGGGGAAGGCTTACGAAAAGTAATAATATGGTCCTGCTCCTAAACTC
* * * * ** *
694243 AT-TGGGG-ATGTTTATCG-AAAGTAATAATATGGCCCTATTTC-AAGACTC
1 ATGAGGGGAAGGCTTA-CGAAAAGTAATAATATGGTCCTGCTCCTAA-ACTC
* * * *
694291 TTTA-GGGAAGGCTTACGAGAAA-TGATAATATGG-CCTTGCTTCC-AAACAC
1 ATGAGGGGAAGGCTTACGA-AAAGTAATAATATGGTCC-TGC-TCCTAAACTC
* * * *
694340 AT-AGAGGGAA-CCTTACAAAAAGTAATAATATGATCCTTCTCC
1 ATGAG-GGGAAGGCTTACGAAAAGTAATAATATGGTCCTGCTCC
694382 CAAATACTTG
Statistics
Matches: 184, Mismatches: 33, Indels: 43
0.71 0.13 0.17
Matches are distributed among these distances:
47 3 0.02
48 46 0.25
49 99 0.54
50 32 0.17
51 4 0.02
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (50 bp):
ATGAGGGGAAGGCTTACGAAAAGTAATAATATGGTCCTGCTCCTAAACTC
Found at i:696538 original size:23 final size:23
Alignment explanation
Indices: 696509--696589 Score: 76
Period size: 23 Copynumber: 3.3 Consensus size: 23
696499 AAAGATAGTT
696509 TTTTCCACTTTAGGATACCTTAG
1 TTTTCCACTTTAGGATACCTTAG
*
696532 TTTTCCATCTTGAAGGACTCTACTCATT--
1 TTTTCCA-CTT-TAGGA---TAC-C-TTAG
696560 TTTTCCACTTTAGGATACCTTAG
1 TTTTCCACTTTAGGATACCTTAG
696583 TTTTCCA
1 TTTTCCA
696590 TCTTGAAGTA
Statistics
Matches: 47, Mismatches: 2, Indels: 18
0.70 0.03 0.27
Matches are distributed among these distances:
21 2 0.04
22 1 0.02
23 17 0.36
24 3 0.06
25 4 0.09
26 4 0.09
27 3 0.06
28 10 0.21
29 1 0.02
30 2 0.04
ACGTcount: A:0.21, C:0.23, G:0.11, T:0.44
Consensus pattern (23 bp):
TTTTCCACTTTAGGATACCTTAG
Found at i:696583 original size:51 final size:51
Alignment explanation
Indices: 696507--696603 Score: 185
Period size: 51 Copynumber: 1.9 Consensus size: 51
696497 GCAAAGATAG
696507 TTTTTTCCACTTTAGGATACCTTAGTTTTCCATCTTGAAGGACTCTACTCA
1 TTTTTTCCACTTTAGGATACCTTAGTTTTCCATCTTGAAGGACTCTACTCA
*
696558 TTTTTTCCACTTTAGGATACCTTAGTTTTCCATCTTGAAGTACTCT
1 TTTTTTCCACTTTAGGATACCTTAGTTTTCCATCTTGAAGGACTCT
696604 GGTCACATAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.21, C:0.23, G:0.11, T:0.45
Consensus pattern (51 bp):
TTTTTTCCACTTTAGGATACCTTAGTTTTCCATCTTGAAGGACTCTACTCA
Found at i:700660 original size:43 final size:43
Alignment explanation
Indices: 700583--700766 Score: 215
Period size: 43 Copynumber: 4.3 Consensus size: 43
700573 AGTTTGGAAT
** * * *
700583 TTCGCCAATGGGCGAATTGCATGAAGTCTACTATTATATAGTA
1 TTCGCCAATGGGAAAATTGTATAAAGTCTGCTATTATATAGTA
* * * *
700626 TTCGCCAATGAGAAAATTATATAAAGTTTTCTATTATATAGTA
1 TTCGCCAATGGGAAAATTGTATAAAGTCTGCTATTATATAGTA
*
700669 TTCACCAATGGGAAAATTGTATAAAGTCTGCTATTATATAGTA
1 TTCGCCAATGGGAAAATTGTATAAAGTCTGCTATTATATAGTA
* * * * * *
700712 TTGGCCAACGGGCAAATTGTATAAAGTCTGCTTTTGTATGGTA
1 TTCGCCAATGGGAAAATTGTATAAAGTCTGCTATTATATAGTA
*
700755 TTGGCCAATGGG
1 TTCGCCAATGGG
700767 TGAACTAAGT
Statistics
Matches: 120, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 120 1.00
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (43 bp):
TTCGCCAATGGGAAAATTGTATAAAGTCTGCTATTATATAGTA
Found at i:716063 original size:39 final size:39
Alignment explanation
Indices: 716006--716149 Score: 198
Period size: 39 Copynumber: 3.7 Consensus size: 39
715996 CCAACATAAT
* *
716006 TGCCTTCGGGACTTAGCCCGGATAGAACACCAGCACGAA
1 TGCCTTCGGGACTTAGCCCAGATATAACACCAGCACGAA
** * * *
716045 TATCTTCGGGATTTAGCCCAAATATAACACCAGCATGAA
1 TGCCTTCGGGACTTAGCCCAGATATAACACCAGCACGAA
*
716084 TGCCTTTGGGACTTAGCCCAGATATAACACCAGCACGAA
1 TGCCTTCGGGACTTAGCCCAGATATAACACCAGCACGAA
* *
716123 TGCCTTCGAGACTTAGCCCGGATATAA
1 TGCCTTCGGGACTTAGCCCAGATATAA
716150 ATCTCACACA
Statistics
Matches: 89, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 89 1.00
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.22
Consensus pattern (39 bp):
TGCCTTCGGGACTTAGCCCAGATATAACACCAGCACGAA
Found at i:719495 original size:40 final size:40
Alignment explanation
Indices: 719411--719635 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
719401 TTGAATGATG
* * * *
719411 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
719451 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
719491 TCCGGGCTAAG-CCCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
719530 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
719570 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
719611 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
719636 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 120 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:719657 original size:119 final size:119
Alignment explanation
Indices: 719411--719658 Score: 292
Period size: 119 Copynumber: 2.1 Consensus size: 119
719401 TTGAATGATG
* *
719411 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* * *
719476 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAA
* * * **
719530 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* *
719593 TTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAA
719650 TCC-GGTTAA
1 TCCGGGTTAA
719659 ATTCTGAAGG
Statistics
Matches: 111, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
118 4 0.04
119 74 0.67
120 33 0.30
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAA
Found at i:725375 original size:198 final size:198
Alignment explanation
Indices: 725037--725431 Score: 754
Period size: 198 Copynumber: 2.0 Consensus size: 198
725027 TTGGAATAGG
725037 GGATTCAGAAATTGCTATGACCCTGTTTCACTAAAATTCAAATATCTTGTAACATATAATTCCCT
1 GGATTCAGAAATTGCTATGACCCTGTTTCACTAAAATTCAAATATCTTGTAACATATAATTCCCT
725102 TACCTATTTCATTTGTTTCATGTGAAACTAGACATAATAAGCTTCAATTTGATATGTAGTCCATC
66 TACCTATTTCATTTGTTTCATGTGAAACTAGACATAATAAGCTTCAATTTGATATGTAGTCCATC
* * *
725167 ACCAAGTTCAATTTCTATGATTTTTTAGTAAATTTTTAAACTCGCGTTAGTGTTGCTGGAGTATT
131 ACCAAGTTCAATTTCTATGATTTTTTAGTAAATTTTTAAACTCGCATCAGTGTTGCTGCAGTATT
725232 CTA
196 CTA
725235 GGATTCAGAAATTGCTATGACCCTGTTTCACTAAAATTCAAATATCTTGTAACATATAATTCCCT
1 GGATTCAGAAATTGCTATGACCCTGTTTCACTAAAATTCAAATATCTTGTAACATATAATTCCCT
725300 TACCTATTTCATTTGTTTCATGTGAAACTAGACATAATAAGCTTCAATTTGATATGTAGTCCATC
66 TACCTATTTCATTTGTTTCATGTGAAACTAGACATAATAAGCTTCAATTTGATATGTAGTCCATC
*
725365 ACCAAGTTCAATTTCTATGATTTTTTAGTAAATTTTTAAACTCGCATCAGTGTTGTTGCAGTATT
131 ACCAAGTTCAATTTCTATGATTTTTTAGTAAATTTTTAAACTCGCATCAGTGTTGCTGCAGTATT
725430 CT
196 CT
725432 GTTTATGGCA
Statistics
Matches: 193, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
198 193 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (198 bp):
GGATTCAGAAATTGCTATGACCCTGTTTCACTAAAATTCAAATATCTTGTAACATATAATTCCCT
TACCTATTTCATTTGTTTCATGTGAAACTAGACATAATAAGCTTCAATTTGATATGTAGTCCATC
ACCAAGTTCAATTTCTATGATTTTTTAGTAAATTTTTAAACTCGCATCAGTGTTGCTGCAGTATT
CTA
Found at i:758610 original size:79 final size:79
Alignment explanation
Indices: 758514--758691 Score: 202
Period size: 79 Copynumber: 2.2 Consensus size: 79
758504 CGTTCAAACA
* * *
758514 CCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCCGGATTT
1 CCTTCGGGAC-TAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGATAT
*
758577 AGTAAC-TCGCACAAATG
63 AGTAACTTAGCACAAA-G
* ** *
758594 CCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGATATGG
1 CCTTCGGGAC-TAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAG
*
758658 TCACTTAGCACAAAG
65 TAACTTAGCACAAAG
758673 CCTTCGGGACTAGCCCGGA
1 CCTTCGGGACTAGCCCGGA
758692 CATCATTCAA
Statistics
Matches: 84, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
78 3 0.04
79 63 0.75
80 18 0.21
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (79 bp):
CCTTCGGGACTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGT
AACTTAGCACAAAG
Found at i:758625 original size:39 final size:40
Alignment explanation
Indices: 758514--758691 Score: 204
Period size: 40 Copynumber: 4.5 Consensus size: 40
758504 CGTTCAAACA
* *
758514 CCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATG
*
758554 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATG
* *
758594 CCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATG
* * * * *
758633 CCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-G
1 CCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACAAATG
758673 CCTTCGGGAC-TAGCCCGGA
1 CCTTCGGGACTTAGCCCGGA
758692 CATCATTCAA
Statistics
Matches: 119, Mismatches: 14, Indels: 11
0.83 0.10 0.08
Matches are distributed among these distances:
38 2 0.02
39 41 0.34
40 63 0.53
41 13 0.11
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATG
Found at i:762650 original size:16 final size:16
Alignment explanation
Indices: 762629--762663 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
762619 AGTTTAGATT
762629 TTTAAAAATAATAATA
1 TTTAAAAATAATAATA
762645 TTTAAAAATAATAATA
1 TTTAAAAATAATAATA
762661 TTT
1 TTT
762664 TTTAGTCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TTTAAAAATAATAATA
Found at i:762667 original size:19 final size:18
Alignment explanation
Indices: 762626--762665 Score: 66
Period size: 16 Copynumber: 2.3 Consensus size: 18
762616 GAAAGTTTAG
762626 ATTTTTAAAAATAATAAT
1 ATTTTTAAAAATAATAAT
762644 A--TTTAAAAATAATAAT
1 ATTTTTAAAAATAATAAT
762660 ATTTTT
1 ATTTTT
762666 TAGTCATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 16 0.80
18 4 0.20
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTTTTAAAAATAATAAT
Found at i:766453 original size:20 final size:20
Alignment explanation
Indices: 766428--766467 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
766418 TTATCCACAT
766428 TCAACAGATTCACCATGACC
1 TCAACAGATTCACCATGACC
766448 TCAACAGATTCACCATGACC
1 TCAACAGATTCACCATGACC
766468 AGTTAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.35, G:0.10, T:0.20
Consensus pattern (20 bp):
TCAACAGATTCACCATGACC
Found at i:769327 original size:137 final size:138
Alignment explanation
Indices: 769080--769352 Score: 316
Period size: 137 Copynumber: 2.0 Consensus size: 138
769070 CTATAAAATG
* * * * *
769080 GGTCTGCTTACACAAGCTGGCAGTTGAAATGTAAGCAACACAATACTGCTCACACAAGCTGATGA
1 GGTCTGCTCACACAAGCTGGCAATCGAAATGTAAGCAACACAATACCGCTCACACAAGCTGACGA
* ** * * * * * *
769145 GTATCTACAACTAATGTTAGACCTCAACCATAAGTAGGACATTCAGAACCAGCACCTGAAACATG
66 GTATCCACAAAAAATGTGAGAACTCAACCATAAGGAAGACATTCAGAACCAACACCTAAAACATG
769210 GTAACCTA
131 GTAACCTA
* * * *
769218 GGTCTGCTCACACAAGCTGTCAATCGGAATGT-AGCTACACAATGCCGCTCACACAAGCTGACGA
1 GGTCTGCTCACACAAGCTGGCAATCGAAATGTAAGCAACACAATACCGCTCACACAAGCTGACGA
* * * * *
769282 GTATCCATAAAAAATGTCGA-AACTCAGCCATCAGGAAGATATTCAGGACCAACACCTAAAACAT
66 GTATCCACAAAAAATGT-GAGAACTCAACCATAAGGAAGACATTCAGAACCAACACCTAAAACAT
769346 GGTAACC
130 GGTAACC
769353 CTAATGACAT
Statistics
Matches: 111, Mismatches: 23, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
137 83 0.75
138 28 0.25
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.20
Consensus pattern (138 bp):
GGTCTGCTCACACAAGCTGGCAATCGAAATGTAAGCAACACAATACCGCTCACACAAGCTGACGA
GTATCCACAAAAAATGTGAGAACTCAACCATAAGGAAGACATTCAGAACCAACACCTAAAACATG
GTAACCTA
Found at i:771485 original size:22 final size:22
Alignment explanation
Indices: 771460--771504 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
771450 GCATAAAGAC
*
771460 ATTATACAAAGAATATTAATGT
1 ATTATAAAAAGAATATTAATGT
771482 ATTATAAAAAGAATATTAATGT
1 ATTATAAAAAGAATATTAATGT
771504 A
1 A
771505 ATTCATGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.53, C:0.02, G:0.09, T:0.36
Consensus pattern (22 bp):
ATTATAAAAAGAATATTAATGT
Found at i:772693 original size:16 final size:16
Alignment explanation
Indices: 772672--772706 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
772662 ATCTTTTTTA
772672 TTCTTCCCCCTTTCTT
1 TTCTTCCCCCTTTCTT
*
772688 TTCTTCCCCTTTTCTT
1 TTCTTCCCCCTTTCTT
772704 TTC
1 TTC
772707 ATCATATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (16 bp):
TTCTTCCCCCTTTCTT
Found at i:774251 original size:3 final size:3
Alignment explanation
Indices: 774243--774347 Score: 56
Period size: 3 Copynumber: 35.3 Consensus size: 3
774233 ATACAAGTAA
* * * * *
774243 AAT AAT AAT AAT AAT -AT AAA AAT GAT AAT AAT GAT GAT AAT ACT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
774290 -AT AAA AAG AAT AGAT AA- AAT AGT AAT AAA AAT AGAT -AC AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT
*
774334 AAT AGT ATAT AAT A
1 AAT AAT A-AT AAT A
774348 TGGTGTTAAA
Statistics
Matches: 76, Mismatches: 19, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
2 7 0.09
3 62 0.82
4 7 0.09
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:774315 original size:26 final size:28
Alignment explanation
Indices: 774279--774345 Score: 72
Period size: 26 Copynumber: 2.5 Consensus size: 28
774269 AATAATGATG
* *
774279 ATAATACTAATATAAAA-AGAATA-GATA
1 ATAATAGTAATATAAAATAG-ATACAATA
774306 A-AATAGTAATA-AAAATAGATACAATA
1 ATAATAGTAATATAAAATAGATACAATA
774332 ATAATAGT-ATATAA
1 ATAATAGTAATATAA
774346 TATGGTGTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
25 7 0.21
26 18 0.53
27 9 0.26
ACGTcount: A:0.63, C:0.03, G:0.07, T:0.27
Consensus pattern (28 bp):
ATAATAGTAATATAAAATAGATACAATA
Found at i:774316 original size:32 final size:31
Alignment explanation
Indices: 774240--774322 Score: 80
Period size: 32 Copynumber: 2.6 Consensus size: 31
774230 ATAATACAAG
*
774240 TAAAATAATAATAATAATATAAAAATGATAA
1 TAAAATAGTAATAATAATATAAAAATGATAA
* *
774271 TAATGAT-GATAATACTAATATAAAAA-GAATAGA
1 TAA-AATAG-TAATAATAATATAAAAATG-ATA-A
*
774304 TAAAATAGTAATAAAAATA
1 TAAAATAGTAATAATAATA
774323 GATACAATAA
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
31 4 0.10
32 32 0.78
33 5 0.12
ACGTcount: A:0.64, C:0.01, G:0.07, T:0.28
Consensus pattern (31 bp):
TAAAATAGTAATAATAATATAAAAATGATAA
Found at i:774324 original size:21 final size:21
Alignment explanation
Indices: 774240--774337 Score: 74
Period size: 21 Copynumber: 4.6 Consensus size: 21
774230 ATAATACAAG
* *
774240 TAAAATAATAATAATAATATA
1 TAAAATAATAATAAAAATAGA
* **
774261 -AAAATGATAATAATGAT-GA
1 TAAAATAATAATAAAAATAGA
* *
774280 TAATACTAATATAAAAAGAATAGA
1 TAA-AATAATA-ATAAA-AATAGA
*
774304 TAAAATAGTAATAAAAATAGA
1 TAAAATAATAATAAAAATAGA
*
774325 TACAATAATAATA
1 TAAAATAATAATA
774338 GTATATAATA
Statistics
Matches: 59, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
19 1 0.02
20 17 0.29
21 22 0.37
22 7 0.12
23 7 0.12
24 5 0.08
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (21 bp):
TAAAATAATAATAAAAATAGA
Found at i:775208 original size:16 final size:16
Alignment explanation
Indices: 775187--775217 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
775177 ATTTGAATAG
*
775187 AAAAGAAAGAAGAAAT
1 AAAAGAAAAAAGAAAT
775203 AAAAGAAAAAAGAAA
1 AAAAGAAAAAAGAAA
775218 CAAATTCGGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (16 bp):
AAAAGAAAAAAGAAAT
Found at i:775623 original size:17 final size:17
Alignment explanation
Indices: 775593--775640 Score: 80
Period size: 17 Copynumber: 2.9 Consensus size: 17
775583 CTGATTTGTT
775593 TTGGGCTA-GGGTTTAG
1 TTGGGCTAGGGGTTTAG
*
775609 TTGGGTTAGGGGTTTAG
1 TTGGGCTAGGGGTTTAG
775626 TTGGGCTAGGGGTTT
1 TTGGGCTAGGGGTTT
775641 TGGTTAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 7 0.24
17 22 0.76
ACGTcount: A:0.10, C:0.04, G:0.46, T:0.40
Consensus pattern (17 bp):
TTGGGCTAGGGGTTTAG
Found at i:779440 original size:21 final size:21
Alignment explanation
Indices: 779415--779456 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
779405 TAATCATTTC
779415 TGTGTTTACATTTTTGAACAG
1 TGTGTTTACATTTTTGAACAG
779436 TGTGTTTACATTTTTGAACAG
1 TGTGTTTACATTTTTGAACAG
779457 GGTGATGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.10, G:0.19, T:0.48
Consensus pattern (21 bp):
TGTGTTTACATTTTTGAACAG
Found at i:779974 original size:29 final size:27
Alignment explanation
Indices: 779916--779975 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 27
779906 AATTGAAAAT
* * *
779916 TTTTAAAAATTTAAAAAATGATTTAAA
1 TTTTAAAAATTAAAAAAAAGACTTAAA
*
779943 TTTTAGAAAATTAAAAAAGAAGACTTATA
1 TTTTA-AAAATTAAAAAA-AAGACTTAAA
779972 TTTT
1 TTTT
779976 CAAATATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 5 0.19
28 11 0.41
29 11 0.41
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.40
Consensus pattern (27 bp):
TTTTAAAAATTAAAAAAAAGACTTAAA
Found at i:783483 original size:6 final size:6
Alignment explanation
Indices: 783472--783496 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
783462 CATTTCTAGG
783472 TCATTT TCATTT TCATTT TCATTT T
1 TCATTT TCATTT TCATTT TCATTT T
783497 GAAAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (6 bp):
TCATTT
Found at i:783485 original size:18 final size:18
Alignment explanation
Indices: 783442--783483 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
783432 AAAACATAGA
783442 TTCATTTCTAGGTCAGTT
1 TTCATTTCTAGGTCAGTT
783460 TTCATTTCTAGGTCA-TT
1 TTCATTTCTAGGTCAGTT
783477 TTCATTT
1 TTCATTT
783484 TCATTTTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.17, C:0.17, G:0.12, T:0.55
Consensus pattern (18 bp):
TTCATTTCTAGGTCAGTT
Found at i:790017 original size:31 final size:31
Alignment explanation
Indices: 789981--790046 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
789971 GCAATTATAC
* *
789981 ACATAAAATTTTAATTGTGATTCAAACGTAT
1 ACATAAAACTTTAATTGTGATTCAAACATAT
* *
790012 ACATAAAACTTTAATTTTGATTCAATCATAT
1 ACATAAAACTTTAATTGTGATTCAAACATAT
790043 ACAT
1 ACAT
790047 TTAAATAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.39
Consensus pattern (31 bp):
ACATAAAACTTTAATTGTGATTCAAACATAT
Found at i:794513 original size:11 final size:11
Alignment explanation
Indices: 794497--794526 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
794487 AGGGATTGCA
794497 ATAATTATGTG
1 ATAATTATGTG
794508 ATAATTATGTG
1 ATAATTATGTG
*
794519 ATATTTAT
1 ATAATTAT
794527 TCCATAAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (11 bp):
ATAATTATGTG
Found at i:804195 original size:46 final size:46
Alignment explanation
Indices: 804143--804234 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
804133 AAAATTATGG
*
804143 TCATACATTTCTAAATCTTTTGAGAAAAATATTATAATTATTTTGA
1 TCATACATTGCTAAATCTTTTGAGAAAAATATTATAATTATTTTGA
804189 TCATACATTGCTAAATCTTTTGAGAAAAATATTATAATTATTTTGA
1 TCATACATTGCTAAATCTTTTGAGAAAAATATTATAATTATTTTGA
804235 AAAATAATAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.39, C:0.09, G:0.08, T:0.45
Consensus pattern (46 bp):
TCATACATTGCTAAATCTTTTGAGAAAAATATTATAATTATTTTGA
Found at i:804232 original size:23 final size:23
Alignment explanation
Indices: 804160--804238 Score: 72
Period size: 23 Copynumber: 3.5 Consensus size: 23
804150 TTTCTAAATC
804160 TTTTGAGAAAAATATTATAATTA
1 TTTTGAGAAAAATATTATAATTA
* * * ** * *
804183 TTTTGATCATACAT-TGCTAAATC
1 TTTTGA-GAAAAATATTATAATTA
804206 TTTTGAGAAAAATATTATAATTA
1 TTTTGAGAAAAATATTATAATTA
804229 TTTTGA-AAAA
1 TTTTGAGAAAA
804239 TAATAATAAT
Statistics
Matches: 40, Mismatches: 14, Indels: 5
0.68 0.24 0.08
Matches are distributed among these distances:
22 8 0.20
23 28 0.70
24 4 0.10
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.43
Consensus pattern (23 bp):
TTTTGAGAAAAATATTATAATTA
Found at i:804258 original size:21 final size:21
Alignment explanation
Indices: 804212--804252 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
804202 AATCTTTTGA
*
804212 GAAAAATATTATAATTATTTT
1 GAAAAATATAATAATTATTTT
804233 GAAAAATAATAATAA-TATTT
1 GAAAAAT-ATAATAATTATTT
804253 ATAAAAGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (21 bp):
GAAAAATATAATAATTATTTT
Found at i:817481 original size:6 final size:6
Alignment explanation
Indices: 817470--817495 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
817460 ACACTGTAGG
817470 GTAACA GTAACA GTAACA GTAACA GT
1 GTAACA GTAACA GTAACA GTAACA GT
817496 CATAGTCAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.19
Consensus pattern (6 bp):
GTAACA
Found at i:818352 original size:17 final size:20
Alignment explanation
Indices: 818330--818371 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
818320 AAACCCTAAT
818330 TTTCCC-TTTT-CTT-TTTC
1 TTTCCCTTTTTCCTTCTTTC
818347 TTTCCCTTTTTCCTTCTTTC
1 TTTCCCTTTTTCCTTCTTTC
818367 TTTCC
1 TTTCC
818372 TTGCTAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.27
18 4 0.18
19 3 0.14
20 9 0.41
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTCCCTTTTTCCTTCTTTC
Found at i:830516 original size:63 final size:63
Alignment explanation
Indices: 830417--830542 Score: 225
Period size: 63 Copynumber: 2.0 Consensus size: 63
830407 CCGATCCCGA
* *
830417 CCGAGCGGTAGCTGATGATCTTGAGAGTGTAGCGCCTGCTCCCGCACAAGGGACAGCGCCGGC
1 CCGAGCGGTAGCTGATGATCTTGAGAGTGAAGCGCCTGCTCCCACACAAGGGACAGCGCCGGC
*
830480 CCGAGCGGTAGCTGATGATCTTGAGAGTGAAGCGCCTGCTCCCACACAAGGGACAGCTCCGGC
1 CCGAGCGGTAGCTGATGATCTTGAGAGTGAAGCGCCTGCTCCCACACAAGGGACAGCGCCGGC
830543 GGACTCTCAT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.21, C:0.30, G:0.33, T:0.16
Consensus pattern (63 bp):
CCGAGCGGTAGCTGATGATCTTGAGAGTGAAGCGCCTGCTCCCACACAAGGGACAGCGCCGGC
Found at i:831425 original size:56 final size:57
Alignment explanation
Indices: 831338--831456 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 57
831328 TTCGAGATGA
*
831338 TGTGGGCCGGTCTAGAGGCACTTCGGGCCTTTTTAGACGAGATCGTGATCGACCCTC
1 TGTGGGCCGGTCTAGAGGCACTTCGGGCCTTTTTAGACGAGATCGTGATCGACCCCC
831395 TGTGGG-CGGTCTAGAGGCACTTCGGGCCTTTTTAGACGAGATCGTGATCGACCCCC
1 TGTGGGCCGGTCTAGAGGCACTTCGGGCCTTTTTAGACGAGATCGTGATCGACCCCC
831451 TGTGGG
1 TGTGGG
831457 TACACGAGGC
Statistics
Matches: 61, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
56 55 0.90
57 6 0.10
ACGTcount: A:0.15, C:0.25, G:0.34, T:0.26
Consensus pattern (57 bp):
TGTGGGCCGGTCTAGAGGCACTTCGGGCCTTTTTAGACGAGATCGTGATCGACCCCC
Found at i:831736 original size:54 final size:54
Alignment explanation
Indices: 831654--831760 Score: 187
Period size: 54 Copynumber: 2.0 Consensus size: 54
831644 AAACCGGGTG
* *
831654 CTACCACTGCTCAAGGTAGACCATCTAGAAGTACGGGCAATGCTAGTGGTGGTA
1 CTACCACTACTCAAGGTAGACCATCTAGAAATACGGGCAATGCTAGTGGTGGTA
*
831708 CTACCACTACTCGAGGTAGACCATCTAGAAATACGGGCAATGCTAGTGGTGGT
1 CTACCACTACTCAAGGTAGACCATCTAGAAATACGGGCAATGCTAGTGGTGGT
831761 CAGAGAGGAT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.22
Consensus pattern (54 bp):
CTACCACTACTCAAGGTAGACCATCTAGAAATACGGGCAATGCTAGTGGTGGTA
Found at i:837319 original size:40 final size:40
Alignment explanation
Indices: 837264--837495 Score: 374
Period size: 40 Copynumber: 5.8 Consensus size: 40
837254 ATTTGAATAC
*
837264 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
837304 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGACATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG--ATAT
837346 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
* *
837386 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
* *
837426 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
* * *
837466 ACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
837496 TTGTGGTTAT
Statistics
Matches: 179, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
40 139 0.78
42 40 0.22
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
Found at i:837401 original size:82 final size:81
Alignment explanation
Indices: 837256--837495 Score: 392
Period size: 82 Copynumber: 3.0 Consensus size: 81
837246 GCATGAGCAT
* *
837256 TTGAATACATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCCG
1 TTGAATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCG
* *
837321 AAGGCATTTGTGCGAG
66 AAGGCAATTGTGCAAG
837337 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCC
1 TTGA-ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCC
837402 GAAGGCAATTGTGCAAG
65 GAAGGCAATTGTGCAAG
* * * *
837419 TTG-ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATACCCGGGTTAAGACCCG
1 TTGAATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCG
837483 AAGGCAATTGTGC
66 AAGGCAATTGTGC
837496 TTGTGGTTAT
Statistics
Matches: 150, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
80 70 0.47
81 4 0.03
82 76 0.51
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (81 bp):
TTGAATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCG
AAGGCAATTGTGCAAG
Found at i:851979 original size:53 final size:54
Alignment explanation
Indices: 851895--852009 Score: 151
Period size: 53 Copynumber: 2.1 Consensus size: 54
851885 TAGAATTAAG
* *
851895 AAAATACCCTTGGTTTATAAAATTACCAAAATACCACTGGTTTGTAAAATTACC
1 AAAATACCCTTAGTTTATAAAATTACCAAAATACCACTGGTTTATAAAATTACC
* * * * *
851949 AAAATACCC-TAGTTTGTAAAATTACCAAAATACCTCTGTTTTATGAAATTACT
1 AAAATACCCTTAGTTTATAAAATTACCAAAATACCACTGGTTTATAAAATTACC
*
852002 GAAATACC
1 AAAATACC
852010 ATCGACATGT
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
53 44 0.83
54 9 0.17
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (54 bp):
AAAATACCCTTAGTTTATAAAATTACCAAAATACCACTGGTTTATAAAATTACC
Found at i:851982 original size:80 final size:82
Alignment explanation
Indices: 851895--852066 Score: 190
Period size: 80 Copynumber: 2.1 Consensus size: 82
851885 TAGAATTAAG
***
851895 AAAATACCCT-TGGTTTATAAAATTACCAAAATACCA-CTGGTTTGTAAAATTACCAAAATACCC
1 AAAATACCCTCTGGTTTATAAAATTACCAAAATACCATC-GACATGTAAAATTACCAAAATACCC
*
851958 TAG-TTTGTAAAATTACC
65 TAGACTTGTAAAATTACC
* * ** ***
851975 AAAATA-CCTCTGTTTTATGAAATTACTGAAATACCATCGACATGTAAAATTATTGAAATACCCT
1 AAAATACCCTCTGGTTTATAAAATTACCAAAATACCATCGACATGTAAAATTACCAAAATACCCT
*
852039 CGACTTGTAAAATTACC
66 AGACTTGTAAAATTACC
*
852056 AAACTACCCTC
1 AAAATACCCTC
852067 GATTTACAGA
Statistics
Matches: 75, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
79 3 0.04
80 49 0.65
81 19 0.25
82 4 0.05
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (82 bp):
AAAATACCCTCTGGTTTATAAAATTACCAAAATACCATCGACATGTAAAATTACCAAAATACCCT
AGACTTGTAAAATTACC
Found at i:852063 original size:27 final size:27
Alignment explanation
Indices: 851895--852071 Score: 153
Period size: 27 Copynumber: 6.6 Consensus size: 27
851885 TAGAATTAAG
* * *
851895 AAAATACCCTTGGTTTATAAAATTACC
1 AAAATACCCTCGATTTGTAAAATTACC
*
851922 AAAATACCACT-GGTTTGTAAAATTACC
1 AAAATACC-CTCGATTTGTAAAATTACC
*
851949 AAAATACCCTAG-TTTGTAAAATTACC
1 AAAATACCCTCGATTTGTAAAATTACC
* * * *
851975 AAAATA-CCTCTGTTTTATGAAATTACT
1 AAAATACCCTC-GATTTGTAAAATTACC
* * ** **
852002 GAAATACCATCGACATGTAAAATTATT
1 AAAATACCCTCGATTTGTAAAATTACC
* *
852029 GAAATACCCTCGACTTGTAAAATTACC
1 AAAATACCCTCGATTTGTAAAATTACC
*
852056 AAACTACCCTCGATTT
1 AAAATACCCTCGATTT
852072 ACAGAATTAC
Statistics
Matches: 125, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
25 3 0.02
26 23 0.18
27 94 0.75
28 5 0.04
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
AAAATACCCTCGATTTGTAAAATTACC
Found at i:852094 original size:27 final size:27
Alignment explanation
Indices: 852060--852253 Score: 244
Period size: 27 Copynumber: 7.2 Consensus size: 27
852050 ATTACCAAAC
852060 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
**
852087 TATGCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
852114 TACCCTCGATTTAAAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
852141 TATCCTCAATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
852168 TACCCTCAATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
852195 TGCCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * **
852222 TACCCTCGATTTAAAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACTGTTT
852249 TACCC
1 TACCC
852254 CTAGGGTGTT
Statistics
Matches: 144, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 144 1.00
ACGTcount: A:0.30, C:0.20, G:0.08, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:852107 original size:54 final size:54
Alignment explanation
Indices: 852060--852250 Score: 274
Period size: 54 Copynumber: 3.5 Consensus size: 54
852050 ATTACCAAAC
* * *
852060 TACCCTCGATTTACAGAATTACTGTTTTATGCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTAAAGAATTACTATTTTATCCTCGATTTACAGAATTACTGTTT
* * *
852114 TACCCTCGATTTAAAAAATTACTATTTTATCCTCAATTTATAGAATTACTGTTT
1 TACCCTCGATTTAAAGAATTACTATTTTATCCTCGATTTACAGAATTACTGTTT
* * **
852168 TACCCTCAATTTATAGAATTACTATTTTGCCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTAAAGAATTACTATTTTATCCTCGATTTACAGAATTACTGTTT
* *
852222 TACCCTCGATTTAAAAAATTACCATTTTA
1 TACCCTCGATTTAAAGAATTACTATTTTA
852251 CCCCTAGGGT
Statistics
Matches: 119, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 119 1.00
ACGTcount: A:0.30, C:0.19, G:0.08, T:0.42
Consensus pattern (54 bp):
TACCCTCGATTTAAAGAATTACTATTTTATCCTCGATTTACAGAATTACTGTTT
Found at i:852107 original size:81 final size:81
Alignment explanation
Indices: 852022--852190 Score: 176
Period size: 81 Copynumber: 2.1 Consensus size: 81
852012 CGACATGTAA
* ** *
852022 AATTATTGAAATACCCTCGACTTGTAAAATTACCAAACTACCCTCGATTTACAGAATTACTGTTT
1 AATTACTGAAATACCCTCGACTTAAAAAATTACCAAACTACCCTCAATTTACAGAATTACTGTTT
** *
852087 TATGCTCGATTTACAG
66 TACCCTCAATTTACAG
*** * * *** * *
852103 AATTACTGTTTTACCCTCGATTTAAAAAATTACTATTTTATCCTCAATTTATAGAATTACTGTTT
1 AATTACTGAAATACCCTCGACTTAAAAAATTACCAAACTACCCTCAATTTACAGAATTACTGTTT
*
852168 TACCCTCAATTTATAG
66 TACCCTCAATTTACAG
852184 AATTACT
1 AATTACT
852191 ATTTTGCCCT
Statistics
Matches: 70, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
81 70 1.00
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.40
Consensus pattern (81 bp):
AATTACTGAAATACCCTCGACTTAAAAAATTACCAAACTACCCTCAATTTACAGAATTACTGTTT
TACCCTCAATTTACAG
Found at i:852725 original size:6 final size:6
Alignment explanation
Indices: 852686--852770 Score: 50
Period size: 6 Copynumber: 13.8 Consensus size: 6
852676 TTGCATTCAC
* * *
852686 ATTCTG ATAT-TG ATTCT- ATTACCTG ATACTG ATTCTG ATTGTA ATTCTG
1 ATTCTG AT-TCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
852735 -TCACATA ATTCTG ATTCTG ATTTTG ATTCTG ATTCT
1 AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG ATTCT
852771 AAATCTGATA
Statistics
Matches: 59, Mismatches: 12, Indels: 16
0.68 0.14 0.18
Matches are distributed among these distances:
5 5 0.08
6 46 0.78
7 5 0.08
8 3 0.05
ACGTcount: A:0.24, C:0.15, G:0.13, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:852765 original size:31 final size:31
Alignment explanation
Indices: 852686--852765 Score: 88
Period size: 31 Copynumber: 2.6 Consensus size: 31
852676 TTGCATTCAC
* * * * *
852686 ATTCTGATATTGATTCTATTACCTGATACTG
1 ATTCTGATTTTGATTCTGTCACATAATACTG
* * *
852717 ATTCTGATTGTAATTCTGTCACATAATTCTG
1 ATTCTGATTTTGATTCTGTCACATAATACTG
852748 ATTCTGATTTTGATTCTG
1 ATTCTGATTTTGATTCTG
852766 ATTCTAAATC
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.24, C:0.15, G:0.14, T:0.47
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTCACATAATACTG
Found at i:852890 original size:34 final size:34
Alignment explanation
Indices: 852799--852880 Score: 164
Period size: 34 Copynumber: 2.4 Consensus size: 34
852789 TATTCTGTAA
852799 TGGGCTAAGGCCCATCTGGTACTGTTTGTTATAG
1 TGGGCTAAGGCCCATCTGGTACTGTTTGTTATAG
852833 TGGGCTAAGGCCCATCTGGTACTGTTTGTTATAG
1 TGGGCTAAGGCCCATCTGGTACTGTTTGTTATAG
852867 TGGGCTAAGGCCCA
1 TGGGCTAAGGCCCA
852881 ATTGATACTG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 48 1.00
ACGTcount: A:0.18, C:0.20, G:0.30, T:0.32
Consensus pattern (34 bp):
TGGGCTAAGGCCCATCTGGTACTGTTTGTTATAG
Found at i:854729 original size:27 final size:27
Alignment explanation
Indices: 854674--854740 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
854664 CTCATATCTA
* * * *
854674 TAGGCTAGCATTACTGAACTACCCTTG
1 TAGGGTAGAATTACTGAAATACCCCTG
*
854701 TAGGGTAGAATTACTGAAATGCCCCTG
1 TAGGGTAGAATTACTGAAATACCCCTG
854728 TAGGGTAGAATTA
1 TAGGGTAGAATTA
854741 ACAAAATACC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (27 bp):
TAGGGTAGAATTACTGAAATACCCCTG
Found at i:854913 original size:27 final size:27
Alignment explanation
Indices: 854736--854920 Score: 169
Period size: 27 Copynumber: 6.9 Consensus size: 27
854726 TGTAGGGTAG
* * * *
854736 AATTAACAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTCGATTTGTAA
*
854763 AATTACCAAAATACCACT-GGTTTGTAA
1 AATTACCAAAATACC-CTCGATTTGTAA
*
854790 AATTACCAAAATACCACTAG-TTTGTAA
1 AATTACCAAAATACC-CTCGATTTGTAA
*
854817 AATTACCAAAATA-CCTCTGATTTGTGA
1 AATTACCAAAATACCCTC-GATTTGTAA
* ** * **
854844 AGTTACTGAAATACCATCGACCTGTAA
1 AATTACCAAAATACCCTCGATTTGTAA
** *
854871 AATTACTGAAATACCCTCGACTTGTAA
1 AATTACCAAAATACCCTCGATTTGTAA
*
854898 AATTACCAAACTACCCTCGATTT
1 AATTACCAAAATACCCTCGATTT
854921 ACAGAATTAC
Statistics
Matches: 135, Mismatches: 18, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
25 2 0.01
26 2 0.01
27 125 0.93
28 6 0.04
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCTCGATTTGTAA
Found at i:854928 original size:27 final size:26
Alignment explanation
Indices: 854882--854957 Score: 64
Period size: 27 Copynumber: 2.8 Consensus size: 26
854872 ATTACTGAAA
854882 TACCCTCGACTTGTA-AAATTACCAAAC
1 TACCCTCGA-TT-TACAAATTACCAAAC
*****
854909 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACA-AATTACCAAAC
854936 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTAC-AAATTAC
854958 TGTTTTACCC
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
25 2 0.05
26 3 0.07
27 35 0.85
28 1 0.02
ACGTcount: A:0.33, C:0.26, G:0.08, T:0.33
Consensus pattern (26 bp):
TACCCTCGATTTACAAATTACCAAAC
Found at i:854954 original size:81 final size:81
Alignment explanation
Indices: 854869--855039 Score: 191
Period size: 81 Copynumber: 2.1 Consensus size: 81
854859 ATCGACCTGT
** *
854869 AAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAACTAC-CCTCGATTTACAGAATTACTG
1 AAAATTACTGAAATACCCTCGACTTAAAAAATTA-CAAACTACTCCTCGATTTACAGAATTACTA
854933 TTTTACCCTCGATTTAC
65 TTTTACCCTCGATTTAC
*** * * ** * *
854950 AAAATTACTGTTTTACCCTCGATTTAAAAAATTACTATTTTCTCCTCGATTTATAGAATTACTAT
1 AAAATTACTGAAATACCCTCGACTTAAAAAATTACAAACTACTCCTCGATTTACAGAATTACTAT
* **
855015 TTTACTCTCGATTTGT
66 TTTACCCTCGATTTAC
855031 AAAATTACT
1 AAAATTACT
855040 ATTTTGCCCT
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
80 4 0.05
81 70 0.95
ACGTcount: A:0.33, C:0.20, G:0.08, T:0.39
Consensus pattern (81 bp):
AAAATTACTGAAATACCCTCGACTTAAAAAATTACAAACTACTCCTCGATTTACAGAATTACTAT
TTTACCCTCGATTTAC
Found at i:854958 original size:27 final size:27
Alignment explanation
Indices: 854909--855102 Score: 246
Period size: 27 Copynumber: 7.2 Consensus size: 27
854899 ATTACCAAAC
* *
854909 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
*
854936 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
*
854963 TACCCTCGATTTAAAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* *
854990 T-CTCCTCGATTTATAGAATTACTATTT
1 TAC-CCTCGATTTACAAAATTACTATTT
* **
855017 TACTCTCGATTTGTAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* * *
855044 TGCCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* *
855071 TACCCTCGATTTAAAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
855098 TACCC
1 TACCC
855103 CTAGGGTGTT
Statistics
Matches: 146, Mismatches: 19, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 144 0.99
28 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTATTT
Found at i:855578 original size:6 final size:6
Alignment explanation
Indices: 855561--855669 Score: 62
Period size: 6 Copynumber: 17.8 Consensus size: 6
855551 ATTCTATTAC
* * * *
855561 CTGATA CTGATT CTGATT CTAATT CTG-TCAC CTAATT CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGAT--T CTGATT CTGATT CTGATT
* * * * * *
855610 TTGATT CTAATT CTG-TCAC CTGATT CTGATT CTAATT CTCATT TTGATT
1 CTGATT CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT CTGATT
855659 CT-AGTT CTGAT
1 CTGA-TT CTGAT
855670 AATGTTTCTT
Statistics
Matches: 77, Mismatches: 18, Indels: 16
0.69 0.16 0.14
Matches are distributed among these distances:
5 3 0.04
6 66 0.86
7 6 0.08
8 2 0.03
ACGTcount: A:0.21, C:0.19, G:0.12, T:0.48
Consensus pattern (6 bp):
CTGATT
Found at i:855604 original size:19 final size:19
Alignment explanation
Indices: 855573--855642 Score: 72
Period size: 19 Copynumber: 3.7 Consensus size: 19
855563 GATACTGATT
855573 CTGATTCTAATTCTGTCAC
1 CTGATTCTAATTCTGTCAC
* * *
855592 CTAATTCTGATTCTG--ATT
1 CTGATTCTAATTCTGTCA-C
*
855610 TTGATTCTAATTCTGTCAC
1 CTGATTCTAATTCTGTCAC
*
855629 CTGATTCTGATTCT
1 CTGATTCTAATTCT
855643 AATTCTCATT
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
17 1 0.03
18 12 0.31
19 25 0.64
20 1 0.03
ACGTcount: A:0.20, C:0.21, G:0.11, T:0.47
Consensus pattern (19 bp):
CTGATTCTAATTCTGTCAC
Found at i:855615 original size:37 final size:37
Alignment explanation
Indices: 855561--855648 Score: 140
Period size: 37 Copynumber: 2.4 Consensus size: 37
855551 ATTCTATTAC
*
855561 CTGATACTGATTCTGATTCTAATTCTGTCACCTAATT
1 CTGATTCTGATTCTGATTCTAATTCTGTCACCTAATT
* *
855598 CTGATTCTGATTTTGATTCTAATTCTGTCACCTGATT
1 CTGATTCTGATTCTGATTCTAATTCTGTCACCTAATT
*
855635 CTGATTCTAATTCT
1 CTGATTCTGATTCT
855649 CATTTTGATT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.47
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTAATTCTGTCACCTAATT
Found at i:855654 original size:43 final size:37
Alignment explanation
Indices: 855574--855667 Score: 107
Period size: 43 Copynumber: 2.4 Consensus size: 37
855564 ATACTGATTC
* *
855574 TGATTCTAATTCTGTCACCTAATTCTGATTCTGATTT
1 TGATTCTAATTCTGTCACCTAATTCTAATTCTCATTT
855611 TGATTCTAATTCTGTCACCTGATTCTGATTCTAATTCTCATTT
1 TGATTCTAATTCTGTCACCT-A-----ATTCTAATTCTCATTT
*
855654 TGATTCTAGTTCTG
1 TGATTCTAATTCTG
855668 ATAATGTTTC
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
37 20 0.42
38 1 0.02
43 27 0.56
ACGTcount: A:0.20, C:0.19, G:0.12, T:0.49
Consensus pattern (37 bp):
TGATTCTAATTCTGTCACCTAATTCTAATTCTCATTT
Found at i:858511 original size:18 final size:18
Alignment explanation
Indices: 858488--858523 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
858478 TAAAATTTAA
858488 ATTGCAGTAAAAGTAAAT
1 ATTGCAGTAAAAGTAAAT
858506 ATTGCAGTAAAAGTAAAT
1 ATTGCAGTAAAAGTAAAT
858524 GGCTAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.06, G:0.17, T:0.28
Consensus pattern (18 bp):
ATTGCAGTAAAAGTAAAT
Found at i:860652 original size:52 final size:52
Alignment explanation
Indices: 860574--860737 Score: 328
Period size: 52 Copynumber: 3.2 Consensus size: 52
860564 GATTTGGAGG
860574 GTTCTAAGTGAATGCCGACGTGGGAAAATCTGGTTATTCACTCAGGTGGTAA
1 GTTCTAAGTGAATGCCGACGTGGGAAAATCTGGTTATTCACTCAGGTGGTAA
860626 GTTCTAAGTGAATGCCGACGTGGGAAAATCTGGTTATTCACTCAGGTGGTAA
1 GTTCTAAGTGAATGCCGACGTGGGAAAATCTGGTTATTCACTCAGGTGGTAA
860678 GTTCTAAGTGAATGCCGACGTGGGAAAATCTGGTTATTCACTCAGGTGGTAA
1 GTTCTAAGTGAATGCCGACGTGGGAAAATCTGGTTATTCACTCAGGTGGTAA
860730 GTTCTAAG
1 GTTCTAAG
860738 ATCTCCCCTA
Statistics
Matches: 112, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 112 1.00
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (52 bp):
GTTCTAAGTGAATGCCGACGTGGGAAAATCTGGTTATTCACTCAGGTGGTAA
Found at i:863755 original size:24 final size:24
Alignment explanation
Indices: 863632--863753 Score: 199
Period size: 24 Copynumber: 5.0 Consensus size: 24
863622 AAGGCTGTTA
*
863632 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
863656 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
863680 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
* *
863704 GGAGAGGATTTAGGAACTGATAAA
1 GGAGAGGATTTAGGAGCTGATAAG
*
863728 GGAGAAGATTTAGGAGCTGATCAAG
1 GGAGAGGATTTAGGAGCTGAT-AAG
863753 G
1 G
863754 AGCAGGAATT
Statistics
Matches: 91, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
24 88 0.97
25 3 0.03
ACGTcount: A:0.36, C:0.05, G:0.39, T:0.20
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:865444 original size:33 final size:34
Alignment explanation
Indices: 865367--865447 Score: 87
Period size: 33 Copynumber: 2.4 Consensus size: 34
865357 TATGGGCCAT
*
865367 ACTGTTATCTGAATAAGGGGCTAAGGCCGAGTTC
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
* * *
865401 AATGTAATCTGAA-AA-GGGCTCTA-GCCCAGTATC
1 ACTGTTATCTGAATAAGGGGCT-AAGGCCCAGT-TC
865434 ACTGTTATCTGAAT
1 ACTGTTATCTGAAT
865448 GGGCTTAGGC
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
32 11 0.29
33 16 0.42
34 11 0.29
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (34 bp):
ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
Found at i:875384 original size:83 final size:83
Alignment explanation
Indices: 875245--875405 Score: 295
Period size: 83 Copynumber: 1.9 Consensus size: 83
875235 CAAAATCCCG
* * *
875245 TTATTTTTGATACTTGAATCTGTTTTTAAGTTACTTTCACATTTTTCTTAGTTTTCATGTGATAG
1 TTATTTCTGATACTTGAATCTATTTTTAAGTTACTTTCACATTTTTCTTAGTTTTCATGAGATAG
875310 TTACTACTTAATCACCCA
66 TTACTACTTAATCACCCA
875328 TTATTTCTGATACTTGAATCTATTTTTAAGTTACTTTCACATTTTTCTTAGTTTTCATGAGATAG
1 TTATTTCTGATACTTGAATCTATTTTTAAGTTACTTTCACATTTTTCTTAGTTTTCATGAGATAG
875393 TTACTACTTAATC
66 TTACTACTTAATC
875406 GTACATACTA
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
83 75 1.00
ACGTcount: A:0.25, C:0.15, G:0.09, T:0.51
Consensus pattern (83 bp):
TTATTTCTGATACTTGAATCTATTTTTAAGTTACTTTCACATTTTTCTTAGTTTTCATGAGATAG
TTACTACTTAATCACCCA
Found at i:876054 original size:46 final size:48
Alignment explanation
Indices: 875950--876069 Score: 154
Period size: 48 Copynumber: 2.5 Consensus size: 48
875940 TGTCTTCGAC
** * *
875950 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
* * *
875998 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCCATATA-A-CTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
*
876044 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
876070 CTGTCCTGTC
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 27 0.43
47 1 0.02
48 35 0.56
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.35
Consensus pattern (48 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
Found at i:889292 original size:25 final size:25
Alignment explanation
Indices: 889254--889301 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
889244 TGTCTGAAAT
889254 GATCGATAACGGTACCCCGTGTACG
1 GATCGATAACGGTACCCCGTGTACG
*
889279 GATCGATAATGGTACCCCGTGTA
1 GATCGATAACGGTACCCCGTGTA
889302 GTCTGACTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (25 bp):
GATCGATAACGGTACCCCGTGTACG
Found at i:893549 original size:46 final size:49
Alignment explanation
Indices: 893443--893564 Score: 142
Period size: 50 Copynumber: 2.5 Consensus size: 49
893433 TGTCTTCGAC
** * *
893443 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCA-ATATATATATAAT
* * *
893493 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATA-A-CTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATATAAT
*
893539 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
893565 CTGTCCTGTC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 27 0.43
47 1 0.02
48 5 0.08
50 30 0.48
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (49 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATATAAT
Found at i:900613 original size:46 final size:46
Alignment explanation
Indices: 900556--900756 Score: 253
Period size: 46 Copynumber: 4.4 Consensus size: 46
900546 CACTGTAATA
* * * *
900556 TAGCCGAAGCTATCACTGTAATGTAGCTAAAGCTACCACTGTA-TTG
1 TAGCCAAAGCTACCACTGTAATGTAGCTGAAGCTACCACTG-AGATG
*
900602 TAGCCAAAGCTACCACTG-AGATGTAGCTGAAGCTACAACTGAGATG
1 TAGCCAAAGCTACCACTGTA-ATGTAGCTGAAGCTACCACTGAGATG
* * *
900648 TAGCCAAAGCTACCACTGTATTGTAGCCGAAGCTACCAATGAGATG
1 TAGCCAAAGCTACCACTGTAATGTAGCTGAAGCTACCACTGAGATG
* * * *
900694 TAGTCGAAGCTACCACTGTATTGTAGCTGAAGCTAGCACTGAGATG
1 TAGCCAAAGCTACCACTGTAATGTAGCTGAAGCTACCACTGAGATG
*
900740 CAGCCAAAGCTACCACT
1 TAGCCAAAGCTACCACT
900757 AAGATGTAGC
Statistics
Matches: 135, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
45 2 0.01
46 132 0.98
47 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (46 bp):
TAGCCAAAGCTACCACTGTAATGTAGCTGAAGCTACCACTGAGATG
Found at i:900649 original size:69 final size:70
Alignment explanation
Indices: 900556--900766 Score: 263
Period size: 69 Copynumber: 3.1 Consensus size: 70
900546 CACTGTAATA
900556 TAGC-CGAAGCTATC-ACTGTAATGTAGCTAAAGCTACCACTGTATTGTAGCCAAAGCTACCACT
1 TAGCTCGAAGCTA-CAACTGTAATGTAGCTAAAGCTACCACTGTATTGTAGCCAAAGCTACCACT
900619 GAGATG
65 GAGATG
* * *
900625 TAGCT-GAAGCTACAACTG-AGATGTAGCCAAAGCTACCACTGTATTGTAGCCGAAGCTACCAAT
1 TAGCTCGAAGCTACAACTGTA-ATGTAGCTAAAGCTACCACTGTATTGTAGCCAAAGCTACCACT
900688 GAGATG
65 GAGATG
* * * * * *
900694 TAG-TCGAAGCTACCACTGTATTGTAGCTGAAGCTAGCACTG-AGATGCAGCCAAAGCTACCACT
1 TAGCTCGAAGCTACAACTGTAATGTAGCTAAAGCTACCACTGTA-TTGTAGCCAAAGCTACCACT
*
900757 AAGATG
65 GAGATG
900763 TAGC
1 TAGC
900767 CTACAGATTC
Statistics
Matches: 122, Mismatches: 13, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
68 4 0.03
69 117 0.96
70 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (70 bp):
TAGCTCGAAGCTACAACTGTAATGTAGCTAAAGCTACCACTGTATTGTAGCCAAAGCTACCACTG
AGATG
Found at i:900761 original size:23 final size:23
Alignment explanation
Indices: 900556--900767 Score: 207
Period size: 23 Copynumber: 9.2 Consensus size: 23
900546 CACTGTAATA
*
900556 TAGCCGAAGCTATCACTGTA-ATG
1 TAGCCGAAGCTACCACTG-AGATG
** *
900579 TAGCTAAAGCTACCACTGTA-TTG
1 TAGCCGAAGCTACCACTG-AGATG
*
900602 TAGCCAAAGCTACCACTGAGATG
1 TAGCCGAAGCTACCACTGAGATG
* *
900625 TAGCTGAAGCTACAACTGAGATG
1 TAGCCGAAGCTACCACTGAGATG
* *
900648 TAGCCAAAGCTACCACTGTA-TTG
1 TAGCCGAAGCTACCACTG-AGATG
*
900671 TAGCCGAAGCTACCAATGAGATG
1 TAGCCGAAGCTACCACTGAGATG
* *
900694 TAGTCGAAGCTACCACTGTA-TTG
1 TAGCCGAAGCTACCACTG-AGATG
* *
900717 TAGCTGAAGCTAGCACTGAGATG
1 TAGCCGAAGCTACCACTGAGATG
* * *
900740 CAGCCAAAGCTACCACTAAGATG
1 TAGCCGAAGCTACCACTGAGATG
900763 TAGCC
1 TAGCC
900768 TACAGATTCT
Statistics
Matches: 155, Mismatches: 29, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
22 3 0.02
23 150 0.97
24 2 0.01
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (23 bp):
TAGCCGAAGCTACCACTGAGATG
Found at i:903400 original size:32 final size:32
Alignment explanation
Indices: 903364--903524 Score: 322
Period size: 32 Copynumber: 5.0 Consensus size: 32
903354 AAGTTTCAAG
903364 TAATGAAATCGGCTTTGACTAAAGTATTACAT
1 TAATGAAATCGGCTTTGACTAAAGTATTACAT
903396 TAATGAAATCGGCTTTGACTAAAGTATTACAT
1 TAATGAAATCGGCTTTGACTAAAGTATTACAT
903428 TAATGAAATCGGCTTTGACTAAAGTATTACAT
1 TAATGAAATCGGCTTTGACTAAAGTATTACAT
903460 TAATGAAATCGGCTTTGACTAAAGTATTACAT
1 TAATGAAATCGGCTTTGACTAAAGTATTACAT
903492 TAATGAAATCGGCTTTGACTAAAGTATTACAT
1 TAATGAAATCGGCTTTGACTAAAGTATTACAT
903524 T
1 T
903525 CACATAGCTA
Statistics
Matches: 129, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 129 1.00
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (32 bp):
TAATGAAATCGGCTTTGACTAAAGTATTACAT
Found at i:903978 original size:42 final size:40
Alignment explanation
Indices: 903806--904117 Score: 498
Period size: 40 Copynumber: 7.7 Consensus size: 40
903796 ATTACCACAA
* * * *
903806 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
903846 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
903886 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
903926 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATGTCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATA--TCAACTC
903968 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATGTCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATA--TCAACTC
904010 GCACAAATGCCTTCGGGTCTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGG--TCTTAGCCCGGATATATCAACTC
*
904052 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
904092 GCACAAATGCCTTCGGGTCTTAGCCC
1 GCACAAATGCCTTCGGGTCTTAGCCC
904118 AGATGTATTC
Statistics
Matches: 259, Mismatches: 9, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
40 154 0.59
42 89 0.34
44 16 0.06
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:904058 original size:166 final size:162
Alignment explanation
Indices: 903806--904117 Score: 543
Period size: 166 Copynumber: 1.9 Consensus size: 162
903796 ATTACCACAA
* * *
903806 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
*
903871 CGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAATGC
66 CGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAATGC
903936 CTTCGGGTCTTAGCCCGGATATATGTCAACTC
131 CTTCGGGTCTTAGCCCGGATATATGTCAACTC
*
903968 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATGTCAACTCGCACAAATGCCTTCGGGTCTCTT
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATA-G-CAACTCGCACAAATGCCTTCGGG--TCTT
904033 AGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAA
62 AGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAA
904098 ATGCCTTCGGGTCTTAGCCC
127 ATGCCTTCGGGTCTTAGCCC
904118 AGATGTATTC
Statistics
Matches: 141, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
162 30 0.21
163 1 0.01
164 22 0.16
166 88 0.62
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.26
Consensus pattern (162 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
CGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAATGC
CTTCGGGTCTTAGCCCGGATATATGTCAACTC
Found at i:907218 original size:27 final size:27
Alignment explanation
Indices: 907185--907237 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
907175 ATACCCGATT
*
907185 TGTAAAATCACCAAAATACCCTTGTAG
1 TGTAAAATCACCAAAATACCCCTGTAG
* **
907212 TGTAAAATTACCGTAATACCCCTGTA
1 TGTAAAATCACCAAAATACCCCTGTA
907238 TGGTAGAATG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.38, C:0.23, G:0.11, T:0.28
Consensus pattern (27 bp):
TGTAAAATCACCAAAATACCCCTGTAG
Found at i:907527 original size:22 final size:22
Alignment explanation
Indices: 907495--907558 Score: 92
Period size: 22 Copynumber: 2.9 Consensus size: 22
907485 GCCTTTAGCC
*
907495 GTCCTGCCTATGACGTTGAGTA
1 GTCCTGTCTATGACGTTGAGTA
*
907517 GTCCTGTCTATGACGTTGAGTT
1 GTCCTGTCTATGACGTTGAGTA
* *
907539 GTCCTGTCTACGGCGTTGAG
1 GTCCTGTCTATGACGTTGAG
907559 CCATCCTGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.14, C:0.22, G:0.30, T:0.34
Consensus pattern (22 bp):
GTCCTGTCTATGACGTTGAGTA
Found at i:914327 original size:40 final size:39
Alignment explanation
Indices: 914245--914427 Score: 190
Period size: 40 Copynumber: 4.6 Consensus size: 39
914235 GAATGATGTT
* * * * *
914245 CGGGCTAAGTCATGAAGGC-TTTGTGCTAAGTGACCATATC
1 CGGGCTAAGTC-CGAAGGCATTTGTGC-GAGTTACTAAATC
* * *
914285 CGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAATTC
1 CGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAATC
* *
914325 CGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATC
1 CGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAATC
*
914364 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-C
1 CGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AATC
*
914404 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGT-CCGAAGGCATTTG
914428 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
39 34 0.28
40 76 0.63
41 11 0.09
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
CGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAATC
Found at i:914449 original size:79 final size:79
Alignment explanation
Indices: 914296--914460 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
914286 GGACTAAGAT
* **
914296 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
914361 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
914375 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
914438 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
914454 CCGAAGG
1 CCGAAGG
914461 TACGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:922556 original size:79 final size:81
Alignment explanation
Indices: 922420--922602 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
922410 TCGAATGATG
* *
922420 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
922484 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
922499 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
922561 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
922579 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
922603 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:922618 original size:40 final size:40
Alignment explanation
Indices: 922421--922604 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
922411 CGAATGATGT
* * * *
922421 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
922461 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
922501 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
922539 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
922580 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
922605 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:922626 original size:79 final size:79
Alignment explanation
Indices: 922473--922637 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
922463 GGACTAAGAT
* **
922473 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
922538 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
922552 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
922615 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
922631 CCGAAGG
1 CCGAAGG
922638 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:929202 original size:29 final size:29
Alignment explanation
Indices: 929151--929248 Score: 101
Period size: 29 Copynumber: 3.4 Consensus size: 29
929141 TGCCCCACTT
* * *
929151 GGCCCAA-TCTCATTTATAAGGCCTATCA
1 GGCCCAATTCACATTCATATGGCCTATCA
*
929179 GGCCCAATTCACATTCATATGGCCCATCA
1 GGCCCAATTCACATTCATATGGCCTATCA
* * *
929208 AGCCCAATTCATATTCATATAGCCTAGT-A
1 GGCCCAATTCACATTCATATGGCCTA-TCA
*
929237 GGCCCAAATCAC
1 GGCCCAATTCAC
929249 CTTTATATTC
Statistics
Matches: 57, Mismatches: 11, Indels: 3
0.80 0.15 0.04
Matches are distributed among these distances:
28 7 0.12
29 49 0.86
30 1 0.02
ACGTcount: A:0.31, C:0.31, G:0.13, T:0.26
Consensus pattern (29 bp):
GGCCCAATTCACATTCATATGGCCTATCA
Found at i:933812 original size:35 final size:29
Alignment explanation
Indices: 933703--933795 Score: 118
Period size: 29 Copynumber: 3.2 Consensus size: 29
933693 TGCCCCACTT
*
933703 GGCCCAATCTCAT-TT-ATATGGCCTATCA
1 GGCCCAATC-CATATTCATATGGCCCATCA
* * *
933731 GGCCTAATTCACATTCATATGGCCCATCA
1 GGCCCAATCCATATTCATATGGCCCATCA
*
933760 GGCCCAATCCATATTCATATGGCCCATTA
1 GGCCCAATCCATATTCATATGGCCCATCA
933789 GGCCCAA
1 GGCCCAA
933796 ATCACCTTTA
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
27 2 0.04
28 9 0.16
29 44 0.80
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
GGCCCAATCCATATTCATATGGCCCATCA
Found at i:943114 original size:39 final size:41
Alignment explanation
Indices: 943019--943162 Score: 160
Period size: 39 Copynumber: 3.6 Consensus size: 41
943009 TTGAATGATG
*
943019 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA
*
943058 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAATA
*
943098 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
* *
943137 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
943163 AACGAGGAGC
Statistics
Matches: 91, Mismatches: 6, Indels: 15
0.81 0.05 0.13
Matches are distributed among these distances:
38 2 0.02
39 50 0.55
40 27 0.30
41 11 0.12
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
Found at i:943176 original size:40 final size:39
Alignment explanation
Indices: 943099--943181 Score: 96
Period size: 40 Copynumber: 2.1 Consensus size: 39
943089 GATACTAATT
** *
943099 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTATAA
* *
943138 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATAT
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTATAA
943178 CCGG
1 CCGG
943182 TTAAATTCCG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
39 10 0.27
40 27 0.73
ACGTcount: A:0.24, C:0.24, G:0.30, T:0.22
Consensus pattern (39 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTATAA
Done.