Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold197
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: 1875808
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 64134 characters in sequence are not A, C, G, or T
File 3 of 6
Found at i:587111 original size:28 final size:28
Alignment explanation
Indices: 587080--587163 Score: 86
Period size: 28 Copynumber: 3.1 Consensus size: 28
587070 ATAAACAAAC
587080 AAATAAATAAATAGGTAATTAATTATTT
1 AAATAAATAAATAGGTAATTAATTATTT
* *** *
587108 AAATTAATTTTTAGGTAATTAATT-GTT
1 AAATAAATAAATAGGTAATTAATTATTT
*
587135 ---TAAATAGATAGGTAATTAATTATTT
1 AAATAAATAAATAGGTAATTAATTATTT
587160 AAAT
1 AAAT
587164 GAATGATACA
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
24 17 0.40
25 2 0.05
27 2 0.05
28 21 0.50
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (28 bp):
AAATAAATAAATAGGTAATTAATTATTT
Found at i:589826 original size:9 final size:9
Alignment explanation
Indices: 589812--590063 Score: 224
Period size: 9 Copynumber: 28.9 Consensus size: 9
589802 ATAATACATT
589812 TAACTTACA
1 TAACTTACA
589821 TAACTTACA
1 TAACTTACA
589830 TAACTTACA
1 TAACTTACA
589839 TAA--TACA
1 TAACTTACA
*
589846 AAACTTACA
1 TAACTTACA
*
589855 TAACTTAAA
1 TAACTTACA
*
589864 TATCTTACA
1 TAACTTACA
*
589873 CAACTTACA
1 TAACTTACA
*
589882 TAACGTACA
1 TAACTTACA
589891 TAA--TACA
1 TAACTTACA
589898 TTTAACTTACA
1 --TAACTTACA
*
589909 TAAATTACA
1 TAACTTACA
589918 TAACTTACA
1 TAACTTACA
*
589927 TAGTACATA-A
1 TA--ACTTACA
589937 TAACTTAC-
1 TAACTTACA
589945 -AACTTACA
1 TAACTTACA
*
589953 TAACATACA
1 TAACTTACA
* **
589962 TTACTTTGA
1 TAACTTACA
589971 TAACTTACA
1 TAACTTACA
589980 TAACTTACA
1 TAACTTACA
589989 TAA--TACA
1 TAACTTACA
*
589996 CAACTTACA
1 TAACTTACA
* *
590005 TAGCTTACT
1 TAACTTACA
590014 TAA--TACA
1 TAACTTACA
590021 TAACTTACA
1 TAACTTACA
590030 TAACTT--A
1 TAACTTACA
*
590037 TACACGTACA
1 TA-ACTTACA
590047 TAACTTACA
1 TAACTTACA
*
590056 TAATTTAC
1 TAACTTAC
590064 TTATCTATGA
Statistics
Matches: 195, Mismatches: 30, Indels: 36
0.75 0.11 0.14
Matches are distributed among these distances:
7 32 0.16
8 7 0.04
9 142 0.73
10 6 0.03
11 8 0.04
ACGTcount: A:0.45, C:0.20, G:0.02, T:0.33
Consensus pattern (9 bp):
TAACTTACA
Found at i:589861 original size:43 final size:43
Alignment explanation
Indices: 589812--590059 Score: 224
Period size: 43 Copynumber: 5.7 Consensus size: 43
589802 ATAATACATT
*
589812 TAACTTACATAACTTACATAACTTACATAATACAAAACTTACA
1 TAACTTACATAACTTACATAACTTACATAATACATAACTTACA
* * *
589855 TAACTTAAATATCTTACACAACTTACATAACGTACATAA--TACA
1 TAACTTACATAACTTACATAACTTACATAA--TACATAACTTACA
* *
589898 TTTAACTTACATAAATTACATAACTTACATAGTACATAATAACTTAC-
1 --TAACTTACATAACTTACATAACTTACATAATAC---ATAACTTACA
* * **
589945 -AACTTACATAACATACATTACTTTGATAACTTACATAACTTACA
1 TAACTTACATAACTTACATAACTTACATAA--TACATAACTTACA
* * *
589989 TAA--TACACAACTTACATAGCTTACTTAATACATAACTTACA
1 TAACTTACATAACTTACATAACTTACATAATACATAACTTACA
*
590030 TAACTT--ATACACGTACATAACTTACATAAT
1 TAACTTACATA-ACTTACATAACTTACATAAT
590060 TTACTTATCT
Statistics
Matches: 163, Mismatches: 26, Indels: 33
0.73 0.12 0.15
Matches are distributed among these distances:
41 18 0.11
42 17 0.10
43 62 0.38
44 23 0.14
45 33 0.20
46 7 0.04
48 3 0.02
ACGTcount: A:0.45, C:0.20, G:0.02, T:0.33
Consensus pattern (43 bp):
TAACTTACATAACTTACATAACTTACATAATACATAACTTACA
Found at i:590005 original size:71 final size:68
Alignment explanation
Indices: 589872--590059 Score: 163
Period size: 71 Copynumber: 2.7 Consensus size: 68
589862 AATATCTTAC
* * *
589872 ACAACTTACATAACGTACATAATACATT-TAACTTACATAAATTACATAACTTACATAGTACATA
1 ACAACTTACATAACATACAT--TAC-TTATAACTTACATAACTTACATAA--TACAAAGTACATA
589936 -ATAACTT
61 GATAACTT
*
589943 ACAACTTACATAACATACATTACTTTGATAACTTACATAACTTACATAATACACAACTTACATAG
1 ACAACTTACATAACATACATTAC-TT-ATAACTTACATAACTTACATAATACA-AA-GTACATAG
* *
590008 CTTACTT
62 ATAACTT
* * *
590015 --AA--TACATAACTTACATAACTTATACACGTACATAACTTACATAAT
1 ACAACTTACATAACATACATTACTTATA-ACTTACATAACTTACATAAT
590060 TTACTTATCT
Statistics
Matches: 101, Mismatches: 10, Indels: 16
0.80 0.08 0.13
Matches are distributed among these distances:
66 3 0.03
67 21 0.21
68 15 0.15
69 9 0.09
70 3 0.03
71 45 0.45
72 5 0.05
ACGTcount: A:0.45, C:0.20, G:0.03, T:0.32
Consensus pattern (68 bp):
ACAACTTACATAACATACATTACTTATAACTTACATAACTTACATAATACAAAGTACATAGATAA
CTT
Found at i:595419 original size:21 final size:21
Alignment explanation
Indices: 595335--595424 Score: 110
Period size: 21 Copynumber: 4.3 Consensus size: 21
595325 CTACAACTTA
* *
595335 AAGCAGAGGC-AGCAACGAGGG
1 AAGCAGAGGCTA-CAGCGAGAG
*
595356 AAGCAGAGGCTACAGCGAGGG
1 AAGCAGAGGCTACAGCGAGAG
*
595377 AAGCAGAGGCTACAGTGAGAG
1 AAGCAGAGGCTACAGCGAGAG
* *
595398 AAGCAGAGGCTGCAGCGCGAG
1 AAGCAGAGGCTACAGCGAGAG
595419 AAGCAG
1 AAGCAG
595425 CGAAAGAAGC
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
21 61 0.98
22 1 0.02
ACGTcount: A:0.36, C:0.19, G:0.41, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCTACAGCGAGAG
Found at i:595938 original size:42 final size:41
Alignment explanation
Indices: 595874--596157 Score: 329
Period size: 42 Copynumber: 6.8 Consensus size: 41
595864 TGAAAGCGTC
* *
595874 GCTAAAGAACATAATCTATAGCGGCGTTTTTTACTAAGCGCT
1 GCTAAAGAACATGATCTTTAGCGGCGTTTTTT-CTAAGCGCT
* * *
595916 GCTAAAGAATATGATCTTTAGCGGTGTTTTTCTTTAAGCGCT
1 GCTAAAGAACATGATCTTTAGCGGCGTTTTT-TCTAAGCGCT
* * *
595958 GCTAAAGAACATGATCTTTAGTGGCGTTTTTT-TGAAAGTGCC
1 GCTAAAGAACATGATCTTTAGCGGCGTTTTTTCT--AAGCGCT
* * * *
596000 ACTAAAGAACATGATATTTAGCGGCGTCTTTTTTTTAAGCGCA
1 GCTAAAGAACATGATCTTTAGCGGCG--TTTTTTCTAAGCGCT
* * *
596043 GCTAAAGAACATGATCTTTAGTGGCATTTTTTCGAAGCGCT
1 GCTAAAGAACATGATCTTTAGCGGCGTTTTTTCTAAGCGCT
* * *
596084 GCTAAAGAACATGATTTTTAGCGGC-TTTTTTCGAAGCGCC
1 GCTAAAGAACATGATCTTTAGCGGCGTTTTTTCTAAGCGCT
*
596124 GCTAAAGAACATGACCTTTAGCGGCGTTTTTTCT
1 GCTAAAGAACATGATCTTTAGCGGCGTTTTTTCT
596158 GTAAACGCTG
Statistics
Matches: 207, Mismatches: 28, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
40 38 0.18
41 43 0.21
42 91 0.44
43 28 0.14
44 6 0.03
45 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (41 bp):
GCTAAAGAACATGATCTTTAGCGGCGTTTTTTCTAAGCGCT
Found at i:596096 original size:126 final size:124
Alignment explanation
Indices: 595875--596155 Score: 366
Period size: 126 Copynumber: 2.2 Consensus size: 124
595865 GAAAGCGTCG
* * * *
595875 CTAAAGAACATAATCTATAGCGGCGTTTTTTACTAAGCGCTGCTAAAGAATATGATCTTTAGCGG
1 CTAAAGAACATGATCTTTAGCGGCGTTTTTTACTAAGCGCAGCTAAAGAACATGATCTTTAGCGG
** ** * * *
595940 TGTTTTTCTTTAAGCGCTGCTAAAGAACATGATCTTTAGTGGCGTTTTTTTGAAAGTGCCA
66 CATTTTTCTCGAAGCGCTGCTAAAGAACATGATCTTTAGCGGC-TTTTTTCG-AAGCGCCA
* ** *
596001 CTAAAGAACATGATATTTAGCGGCGTCTTTTTTTTAAGCGCAGCTAAAGAACATGATCTTTAGTG
1 CTAAAGAACATGATCTTTAGCGGCGT-TTTTTACTAAGCGCAGCTAAAGAACATGATCTTTAGCG
* *
596066 GCATTTTT-TCGAAGCGCTGCTAAAGAACATGATTTTTAGCGGCTTTTTTCGAAGCGCCG
65 GCATTTTTCTCGAAGCGCTGCTAAAGAACATGATCTTTAGCGGCTTTTTTCGAAGCGCCA
*
596125 CTAAAGAACATGACCTTTAGCGGCGTTTTTT
1 CTAAAGAACATGATCTTTAGCGGCGTTTTTT
596156 CTGTAAACGC
Statistics
Matches: 135, Mismatches: 19, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
123 5 0.04
124 30 0.22
125 7 0.05
126 54 0.40
127 39 0.29
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (124 bp):
CTAAAGAACATGATCTTTAGCGGCGTTTTTTACTAAGCGCAGCTAAAGAACATGATCTTTAGCGG
CATTTTTCTCGAAGCGCTGCTAAAGAACATGATCTTTAGCGGCTTTTTTCGAAGCGCCA
Found at i:596964 original size:30 final size:28
Alignment explanation
Indices: 596923--596998 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 28
596913 TATTAACAGT
*
596923 TGGATCTAAATTTTAAAATTTGAAAAATAAA
1 TGGA-CTAAATTTTAAAA-AT-AAAAATAAA
596954 -GAGACTAAATTTCTAAAAATAAAAATAAA
1 TG-GACTAAATTT-TAAAAATAAAAATAAA
*
596983 TGGACTAAAATTTAAA
1 TGGACTAAATTTTAAA
596999 TTTACAAAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
28 4 0.10
29 18 0.45
30 11 0.28
31 7 0.17
ACGTcount: A:0.55, C:0.05, G:0.09, T:0.30
Consensus pattern (28 bp):
TGGACTAAATTTTAAAAATAAAAATAAA
Found at i:600295 original size:26 final size:26
Alignment explanation
Indices: 600257--600306 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
600247 TTGGATAAAA
*
600257 AGGGGTCGTTAAGTGCAGATTCCCTG
1 AGGGGTCGCTAAGTGCAGATTCCCTG
* *
600283 AGGGGTTGCTAAGTGCTGATTCCC
1 AGGGGTCGCTAAGTGCAGATTCCC
600307 AGAATTATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.18, C:0.20, G:0.34, T:0.28
Consensus pattern (26 bp):
AGGGGTCGCTAAGTGCAGATTCCCTG
Found at i:600333 original size:42 final size:41
Alignment explanation
Indices: 600286--600469 Score: 192
Period size: 42 Copynumber: 4.4 Consensus size: 41
600276 TTCCCTGAGG
* * * *
600286 GGTTGCTAAGTGCTGATTCCCAGAATTATTGATTCTAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATCACTGATT-TAAAGGT
* *
600328 GGTTGCTAAGTGCTGATTCCCCGTATCACTAAATATAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATCACT-GATTTAAAGGT
* * **
600370 GGTTGCTAAGTGCTAATTCCACTGTATCTTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGTATCACTGATT-T-AAAGGT
*
600413 GGTTGCTATGTGCTGATTCCCCGTATCACTGAATTT-AAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATCACTG-ATTTAAAGGT
*
600454 GATTGCTAAGTGCTGA
1 GGTTGCTAAGTGCTGA
600470 ATCCACTGAG
Statistics
Matches: 117, Mismatches: 19, Indels: 13
0.79 0.13 0.09
Matches are distributed among these distances:
40 4 0.03
41 14 0.12
42 63 0.54
43 31 0.26
44 5 0.04
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.35
Consensus pattern (41 bp):
GGTTGCTAAGTGCTGATTCCCCGTATCACTGATTTAAAGGT
Found at i:600428 original size:85 final size:84
Alignment explanation
Indices: 600286--600478 Score: 250
Period size: 84 Copynumber: 2.3 Consensus size: 84
600276 TTCCCTGAGG
* *
600286 GGTTGCTAAGTGCTGATTCC-CAGAATTATTGATTCTAAAGGTGGTTGCTAAGTGCTGATTCCCC
1 GGTTGCTAAGTGCTAATTCCACTGAATTATTGATTCTAAAGGTGGTTGCTAAGTGCTGATTCCCC
600350 GTATCACTAAATATAAAGGT
66 GTATCACTAAAT-TAAAGGT
* * *
600370 GGTTGCTAAGTGCTAATTCCACTGTATCT-TTGATTGTGAAAGG-GGTTGCTATGTGCTGATTCC
1 GGTTGCTAAGTGCTAATTCCACTGAAT-TATTGATTCT-AAAGGTGGTTGCTAAGTGCTGATTCC
* *
600433 CCGTATCACTGAATTTAAGGT
64 CCGTATCACTAAATTAAAGGT
*
600454 GATTGCTAAGTGCTGAA-TCCACTGA
1 GGTTGCTAAGTGCT-AATTCCACTGA
600479 GTAACGGATA
Statistics
Matches: 96, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
84 45 0.47
85 45 0.47
86 6 0.06
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (84 bp):
GGTTGCTAAGTGCTAATTCCACTGAATTATTGATTCTAAAGGTGGTTGCTAAGTGCTGATTCCCC
GTATCACTAAATTAAAGGT
Found at i:600461 original size:84 final size:85
Alignment explanation
Indices: 600288--600478 Score: 248
Period size: 85 Copynumber: 2.3 Consensus size: 85
600278 CCCTGAGGGG
* *
600288 TTGCTAAGTGCTGATTCC-CAGAATTATTGATTCTAAAGGTGGTTGCTAAGTGCTGATTCCCCGT
1 TTGCTAAGTGCTAATTCCACTGAATTATTGATTCTAAAGGTGGTTGCTAAGTGCTGATTCCCCGT
*
600352 ATCACTAAATATAAAGGTGG
66 ATCACTAAATATAAAGGTGA
* * *
600372 TTGCTAAGTGCTAATTCCACTGTATCT-TTGATTGTGAAAGG-GGTTGCTATGTGCTGATTCCCC
1 TTGCTAAGTGCTAATTCCACTGAAT-TATTGATTCT-AAAGGTGGTTGCTAAGTGCTGATTCCCC
* *
600435 GTATCACTGAAT-TTAAGGTGA
64 GTATCACTAAATATAAAGGTGA
600456 TTGCTAAGTGCTGAA-TCCACTGA
1 TTGCTAAGTGCT-AATTCCACTGA
600479 GTAACGGATA
Statistics
Matches: 94, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
84 43 0.46
85 45 0.48
86 6 0.06
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (85 bp):
TTGCTAAGTGCTAATTCCACTGAATTATTGATTCTAAAGGTGGTTGCTAAGTGCTGATTCCCCGT
ATCACTAAATATAAAGGTGA
Found at i:602861 original size:124 final size:124
Alignment explanation
Indices: 602716--602963 Score: 329
Period size: 124 Copynumber: 2.0 Consensus size: 124
602706 CAACAATTTG
* * *
602716 ACAATGTATAACCATTCACGAATCAAGATCGACAATATATAATCATACACAAATCAAATTCGGCA
1 ACAATGTACAACCATTCACGAATCAAGATCGACAATATATAATCAAACACAAATCAAATTCAGCA
* * *
602781 TCCTATATTCATAAACAATTCACTATCAACAATATATAACCAAGTATGAA-TTAATTTCA
66 TCCTATATACATAAACAATTCAATATCAACAATATATAACCAAGTA-CAATTTAATTTCA
* * * * * * *
602840 ACAATGTACAACCCTGT-ACGAATCAAGTTCGATATTGTATAATCAAATACAAATCTAATTCAGC
1 ACAATGTACAACCAT-TCACGAATCAAGATCGACAATATATAATCAAACACAAATCAAATTCAGC
* *
602904 ATCCTATATACATAAACAATTCAATATCGACAATATATAACCATGTACAATTTAATTTCA
65 ATCCTATATACATAAACAATTCAATATCAACAATATATAACCAAGTACAATTTAATTTCA
602964 GCAAGGTAAA
Statistics
Matches: 107, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
123 2 0.02
124 104 0.97
125 1 0.01
ACGTcount: A:0.44, C:0.20, G:0.07, T:0.29
Consensus pattern (124 bp):
ACAATGTACAACCATTCACGAATCAAGATCGACAATATATAATCAAACACAAATCAAATTCAGCA
TCCTATATACATAAACAATTCAATATCAACAATATATAACCAAGTACAATTTAATTTCA
Found at i:608982 original size:27 final size:26
Alignment explanation
Indices: 608951--609028 Score: 68
Period size: 27 Copynumber: 2.8 Consensus size: 26
608941 ATCTAAATAT
608951 TTTTTATAAATTTAAATCATTTTTAAA
1 TTTTTA-AAATTTAAATCATTTTTAAA
* **
608978 TTTTTAATGATTTTCA-CAATTTTTAAA
1 TTTTTAA-AATTTAAATC-ATTTTTAAA
*
609005 TTTTTACAAAATTTAAATAATTTT
1 TTTTT--AAAATTTAAATCATTTT
609029 GCAACTTTTA
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
26 2 0.05
27 25 0.64
28 10 0.26
29 2 0.05
ACGTcount: A:0.38, C:0.05, G:0.01, T:0.55
Consensus pattern (26 bp):
TTTTTAAAATTTAAATCATTTTTAAA
Found at i:608983 original size:19 final size:17
Alignment explanation
Indices: 608944--609075 Score: 79
Period size: 19 Copynumber: 7.3 Consensus size: 17
608934 TCACAAAATC
*
608944 TAAATATTTTTTATAAATT
1 TAAATA-TTTTTA-AATTT
608963 TAAATCATTTTTAAATTT
1 TAAAT-ATTTTTAAATTT
* *
608981 TTAATGATTTTCACAATTTT
1 TAAAT-ATTTTTA-AA-TTT
* *
609001 TAAAT-TTTTACAAAATT
1 TAAATATTTT-TAAATTT
* *
609018 TAAATAATTTTGCAACTTT
1 TAAAT-ATTTT-TAAATTT
*
609037 TAAATATTTTTATATTT
1 TAAATATTTTTAAATTT
*
609054 T-AATAAATTTTAAATTT
1 TAAAT-ATTTTTAAATTT
609071 TAAAT
1 TAAAT
609076 TAATATCTTT
Statistics
Matches: 91, Mismatches: 14, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
16 3 0.03
17 23 0.25
18 28 0.31
19 29 0.32
20 8 0.09
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.54
Consensus pattern (17 bp):
TAAATATTTTTAAATTT
Found at i:609056 original size:17 final size:18
Alignment explanation
Indices: 609016--609112 Score: 56
Period size: 17 Copynumber: 5.2 Consensus size: 18
609006 TTTTACAAAA
*
609016 TTTAAAT-AATTTTGCAACT
1 TTTAAATAAATTTT--AAAT
* *
609035 TTTAAAT-ATTTTTATAT
1 TTTAAATAAATTTTAAAT
609052 TTT-AATAAATTTTAAAT
1 TTTAAATAAATTTTAAAT
609069 TTTAAATTAATATCTTTACAATT
1 TTTAAA-TAA-AT-TTTA-AA-T
* * *
609092 TTTATATATATTTTATAT
1 TTTAAATAAATTTTAAAT
609110 TTT
1 TTT
609113 TACAATTTTT
Statistics
Matches: 63, Mismatches: 8, Indels: 15
0.73 0.09 0.17
Matches are distributed among these distances:
16 3 0.05
17 16 0.25
18 6 0.10
19 16 0.25
20 6 0.10
21 6 0.10
22 4 0.06
23 6 0.10
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.58
Consensus pattern (18 bp):
TTTAAATAAATTTTAAAT
Found at i:609056 original size:36 final size:36
Alignment explanation
Indices: 608961--609075 Score: 96
Period size: 36 Copynumber: 3.2 Consensus size: 36
608951 TTTTTATAAA
* *
608961 TTTAAATCATTTTTAAATTTTTAATGATTTTCACAATT
1 TTTAAAT-ATTTTTAAA-TTTTAATAATTTTCACAACT
* * *
608999 TTTAAAT-TTTTACAAAATTTAAATAATTTT-GCAACT
1 TTTAAATATTTT--TAAATTTTAATAATTTTCACAACT
*
609035 TTTAAATATTTTTATATTTTAATAAATTTT-A-AA-T
1 TTTAAATATTTTTAAATTTTAAT-AATTTTCACAACT
609069 TTTAAAT
1 TTTAAAT
609076 TAATATCTTT
Statistics
Matches: 64, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
34 8 0.12
35 10 0.16
36 21 0.33
37 15 0.23
38 10 0.16
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (36 bp):
TTTAAATATTTTTAAATTTTAATAATTTTCACAACT
Found at i:609114 original size:28 final size:27
Alignment explanation
Indices: 609078--609130 Score: 88
Period size: 28 Copynumber: 1.9 Consensus size: 27
609068 TTTTAAATTA
609078 ATATCTTTACAATTTTTATATATATTTT
1 ATATCTTTACAATTTTTATA-ATATTTT
*
609106 ATATTTTTACAATTTTTATAATATT
1 ATATCTTTACAATTTTTATAATATT
609131 ATTAATTCNN
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (27 bp):
ATATCTTTACAATTTTTATAATATTTT
Found at i:614258 original size:49 final size:49
Alignment explanation
Indices: 614169--614294 Score: 117
Period size: 49 Copynumber: 2.6 Consensus size: 49
614159 GCAAGTCAAA
* * * * * * *
614169 CTCCCAGTTCACGGTGCTTATACGGTCATGGGTTAAAGTATAACTAGGG
1 CTCCTAGTTGACGGTGGTTATGCGATCACGGGTTAAAGTATAACTAGAG
** *
614218 CTCCTAGTTGACGGTGGTTATGCGATCACGGGTTGGAGTATAACTCGAG
1 CTCCTAGTTGACGGTGGTTATGCGATCACGGGTTAAAGTATAACTAGAG
** * **
614267 AGCCTAGTTGTCAATGGTTATGCGATCA
1 CTCCTAGTTGACGGTGGTTATGCGATCA
614295 TGAGTTCAAG
Statistics
Matches: 62, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
49 62 1.00
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (49 bp):
CTCCTAGTTGACGGTGGTTATGCGATCACGGGTTAAAGTATAACTAGAG
Found at i:619338 original size:20 final size:20
Alignment explanation
Indices: 619313--619350 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
619303 GTTTGACTAG
*
619313 TTAAAAGAATTTTTACTTTA
1 TTAAAAGAATTTTAACTTTA
*
619333 TTAAAATAATTTTAACTT
1 TTAAAAGAATTTTAACTT
619351 GATTTTAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (20 bp):
TTAAAAGAATTTTAACTTTA
Found at i:622697 original size:26 final size:25
Alignment explanation
Indices: 622643--622711 Score: 68
Period size: 26 Copynumber: 2.7 Consensus size: 25
622633 TCATCCCAAT
*
622643 TTTACCCTAGTAAAATTTTGAAGAT
1 TTTACCCTAGTAAAATTTTGAAGAA
* *
622668 TTTACCCATGGTATAATTTTGACA-AA
1 TTTACCC-TAGTAAAATTTTGA-AGAA
*
622694 TTTACCCTCGATAAAATT
1 TTTACCCTAG-TAAAATT
622712 GTGACGATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
25 9 0.25
26 26 0.72
27 1 0.03
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (25 bp):
TTTACCCTAGTAAAATTTTGAAGAA
Found at i:622716 original size:26 final size:26
Alignment explanation
Indices: 622682--622737 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
622672 CCCATGGTAT
*
622682 AATTTTGACAAATTTA-CCCTCGATAA
1 AATTGTGACAAATTTATCCC-CGATAA
* *
622708 AATTGTGACGATTTTATCCCCGATAA
1 AATTGTGACAAATTTATCCCCGATAA
622734 AATT
1 AATT
622738 TAGAGAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 23 0.88
27 3 0.12
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.36
Consensus pattern (26 bp):
AATTGTGACAAATTTATCCCCGATAA
Found at i:630081 original size:25 final size:25
Alignment explanation
Indices: 630047--630097 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
630037 GAAGTGGCTT
*
630047 TGGAAAATTAACACCCGCAAAGAGC
1 TGGAAAATTAACACCCACAAAGAGC
630072 TGGAAAATTAACACCCACAAAGAGC
1 TGGAAAATTAACACCCACAAAGAGC
630097 T
1 T
630098 AAGTTAAAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.45, C:0.24, G:0.18, T:0.14
Consensus pattern (25 bp):
TGGAAAATTAACACCCACAAAGAGC
Found at i:631134 original size:7 final size:7
Alignment explanation
Indices: 631122--631173 Score: 59
Period size: 7 Copynumber: 7.3 Consensus size: 7
631112 GGGAGAACAA
631122 TTCATGT
1 TTCATGT
631129 TTCATGT
1 TTCATGT
*
631136 TTCATATT
1 TTCAT-GT
631144 TTCATGT
1 TTCATGT
**
631151 TTCATAC
1 TTCATGT
*
631158 TGCATGT
1 TTCATGT
631165 TTCATGT
1 TTCATGT
631172 TT
1 TT
631174 TCTTCTGTAC
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
7 30 0.83
8 6 0.17
ACGTcount: A:0.17, C:0.15, G:0.12, T:0.56
Consensus pattern (7 bp):
TTCATGT
Found at i:631148 original size:15 final size:15
Alignment explanation
Indices: 631128--631175 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
631118 ACAATTCATG
631128 TTTCATGTTTCATAT
1 TTTCATGTTTCATAT
631143 TTTCATGTTTCATA-
1 TTTCATGTTTCATAT
* * *
631157 CTGCATGTTTCATGT
1 TTTCATGTTTCATAT
631172 TTTC
1 TTTC
631176 TTCTGTACAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 11 0.41
15 16 0.59
ACGTcount: A:0.17, C:0.17, G:0.10, T:0.56
Consensus pattern (15 bp):
TTTCATGTTTCATAT
Found at i:631272 original size:7 final size:7
Alignment explanation
Indices: 631229--631253 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
631219 CATTATACTG
631229 CATGTTT
1 CATGTTT
631236 CATGTTT
1 CATGTTT
631243 CATGTTT
1 CATGTTT
631250 CATG
1 CATG
631254 CAATACTGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (7 bp):
CATGTTT
Found at i:634124 original size:37 final size:37
Alignment explanation
Indices: 634083--634265 Score: 312
Period size: 37 Copynumber: 4.9 Consensus size: 37
634073 TGTTAATTTC
**
634083 AAGACTTACATAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
634120 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
*
634157 AAGACTTATGTAATGTTTTTAGTTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
*
634194 AAGACTTATGTAATTTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
* *
634231 AAGACTTATGTAATTTTTTTAATTATATAGTGATT
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATT
634266 TAAATCGGTT
Statistics
Matches: 140, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 140 1.00
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.47
Consensus pattern (37 bp):
AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
Found at i:634130 original size:20 final size:20
Alignment explanation
Indices: 634105--634242 Score: 96
Period size: 20 Copynumber: 7.3 Consensus size: 20
634095 ATGTTTTTAA
634105 TTATGTAGTGATTCAAAGAC
1 TTATGTAGTGATTCAAAGAC
* ***
634125 TTATGTAATG-TTTTTA-A-
1 TTATGTAGTGATTCAAAGAC
634142 TTATGTAGTGATTCAAAGAC
1 TTATGTAGTGATTCAAAGAC
* ***
634162 TTATGTAATG-TTTTTAG--
1 TTATGTAGTGATTCAAAGAC
634179 TTATGTAGTGATTCAAAGAC
1 TTATGTAGTGATTCAAAGAC
* * ***
634199 TTATGTAAT-TTTTTTA-A-
1 TTATGTAGTGATTCAAAGAC
634216 TTATGTAGTGATTCAAAGAC
1 TTATGTAGTGATTCAAAGAC
634236 TTATGTA
1 TTATGTA
634243 ATTTTTTTAA
Statistics
Matches: 83, Mismatches: 26, Indels: 18
0.65 0.20 0.14
Matches are distributed among these distances:
17 26 0.31
18 12 0.14
19 12 0.14
20 33 0.40
ACGTcount: A:0.32, C:0.06, G:0.17, T:0.46
Consensus pattern (20 bp):
TTATGTAGTGATTCAAAGAC
Found at i:634147 original size:17 final size:17
Alignment explanation
Indices: 634093--634222 Score: 53
Period size: 17 Copynumber: 7.1 Consensus size: 17
634083 AAGACTTACA
634093 TAATGTTTTTAATTATG
1 TAATGTTTTTAATTATG
* ***
634110 TAGTGATTCAAAGACTTATG
1 TAATG-TTTTTA-A-TTATG
634130 TAATGTTTTTAATTATG
1 TAATGTTTTTAATTATG
* ***
634147 TAGTGATTCAAAGACTTATG
1 TAATG-TTTTTA-A-TTATG
*
634167 TAATGTTTTTAGTTATG
1 TAATGTTTTTAATTATG
* ***
634184 TAGTGATTCAAAGACTTATG
1 TAATG-TTTTTA-A-TTATG
*
634204 TAATTTTTTTAATTATG
1 TAATGTTTTTAATTATG
634221 TA
1 TA
634223 GTGATTCAAA
Statistics
Matches: 77, Mismatches: 27, Indels: 18
0.63 0.22 0.15
Matches are distributed among these distances:
17 29 0.38
18 11 0.14
19 11 0.14
20 26 0.34
ACGTcount: A:0.32, C:0.05, G:0.15, T:0.48
Consensus pattern (17 bp):
TAATGTTTTTAATTATG
Found at i:634279 original size:9 final size:9
Alignment explanation
Indices: 634265--634401 Score: 170
Period size: 9 Copynumber: 15.4 Consensus size: 9
634255 ATATAGTGAT
634265 TTAAATCGG
1 TTAAATCGG
*
634274 TTAAATAGG
1 TTAAATCGG
634283 TTAAATCGG
1 TTAAATCGG
*
634292 TTAAATCGA
1 TTAAATCGG
* *
634301 TTAAGTCAG
1 TTAAATCGG
*
634310 TTAAATCAG
1 TTAAATCGG
634319 TT-AATCGG
1 TTAAATCGG
*
634327 TTAAATAGG
1 TTAAATCGG
*
634336 TTAAAACGG
1 TTAAATCGG
634345 TTAAATCGG
1 TTAAATCGG
*
634354 TTAAGTCGG
1 TTAAATCGG
634363 TTAAATCGG
1 TTAAATCGG
634372 TT-AATCGG
1 TTAAATCGG
*
634380 TTAAATAGG
1 TTAAATCGG
*
634389 TTAAATCGA
1 TTAAATCGG
634398 TTAA
1 TTAA
634402 TTTTAACAAA
Statistics
Matches: 109, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
8 15 0.14
9 94 0.86
ACGTcount: A:0.37, C:0.09, G:0.20, T:0.34
Consensus pattern (9 bp):
TTAAATCGG
Found at i:634348 original size:53 final size:53
Alignment explanation
Indices: 634268--634393 Score: 216
Period size: 53 Copynumber: 2.4 Consensus size: 53
634258 TAGTGATTTA
*
634268 AATCGGTTAAATAGGTTAAATCGGTTAAATCGATTAAGTCAGTTAAATCAGTT
1 AATCGGTTAAATAGGTTAAAACGGTTAAATCGATTAAGTCAGTTAAATCAGTT
* * *
634321 AATCGGTTAAATAGGTTAAAACGGTTAAATCGGTTAAGTCGGTTAAATCGGTT
1 AATCGGTTAAATAGGTTAAAACGGTTAAATCGATTAAGTCAGTTAAATCAGTT
634374 AATCGGTTAAATAGGTTAAA
1 AATCGGTTAAATAGGTTAAA
634394 TCGATTAATT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 69 1.00
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.33
Consensus pattern (53 bp):
AATCGGTTAAATAGGTTAAAACGGTTAAATCGATTAAGTCAGTTAAATCAGTT
Found at i:634511 original size:36 final size:31
Alignment explanation
Indices: 634433--634503 Score: 133
Period size: 31 Copynumber: 2.3 Consensus size: 31
634423 ATTTTCGGTT
*
634433 AATTCTGTTAATCGACCGGTTTAACCGAAAA
1 AATTCGGTTAATCGACCGGTTTAACCGAAAA
634464 AATTCGGTTAATCGACCGGTTTAACCGAAAA
1 AATTCGGTTAATCGACCGGTTTAACCGAAAA
634495 AATTCGGTT
1 AATTCGGTT
634504 CGGTTAATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (31 bp):
AATTCGGTTAATCGACCGGTTTAACCGAAAA
Found at i:637190 original size:22 final size:23
Alignment explanation
Indices: 637147--637192 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
637137 TGGAAGGGGA
**
637147 TCATTCTTAGATTTTTTTTTATT
1 TCATTCTTAGATTTTTACTTATT
637170 TCATTCTTAG-TTTTTACTTATT
1 TCATTCTTAGATTTTTACTTATT
637192 T
1 T
637193 TACATGATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.17, C:0.11, G:0.04, T:0.67
Consensus pattern (23 bp):
TCATTCTTAGATTTTTACTTATT
Found at i:640843 original size:32 final size:32
Alignment explanation
Indices: 640801--640870 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
640791 TAGTTAAGAC
* *
640801 TTTGAGCAAACTTTATTTTTGCTT-TTT-ATTCT
1 TTTGAACAAAC-TTATCTTTG-TTCTTTCATTCT
*
640833 TTTGAACAAACTTATCTTTGTTCTTTCATTTT
1 TTTGAACAAACTTATCTTTGTTCTTTCATTCT
640865 TTTGAA
1 TTTGAA
640871 TAATGTAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 2 0.06
31 11 0.33
32 20 0.61
ACGTcount: A:0.21, C:0.13, G:0.09, T:0.57
Consensus pattern (32 bp):
TTTGAACAAACTTATCTTTGTTCTTTCATTCT
Found at i:679644 original size:3 final size:3
Alignment explanation
Indices: 679632--679692 Score: 115
Period size: 3 Copynumber: 20.7 Consensus size: 3
679622 TTAACTACGC
679632 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
679679 ATA ATA ATA ATA AT
1 ATA ATA ATA ATA AT
679693 CTAAAGCCAT
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.04
3 55 0.96
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:683213 original size:73 final size:72
Alignment explanation
Indices: 683080--683219 Score: 244
Period size: 72 Copynumber: 1.9 Consensus size: 72
683070 TCTCGAATTT
* *
683080 AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATTTTTCTTAATTCCTGAGATCGTTTAAAAC
1 AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATTCTTCTTAATTCCCGAGATCGTTTAAAAC
683145 TTAAGAA
66 TTAAGAA
*
683152 AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGGGATCGTTTAAAA
1 AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGAT-TCTTCTTAATTCCCGAGATCGTTTAAAA
683217 CTT
65 CTT
683220 GAGTTTGAAA
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
72 36 0.56
73 28 0.44
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.29
Consensus pattern (72 bp):
AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATTCTTCTTAATTCCCGAGATCGTTTAAAAC
TTAAGAA
Found at i:683778 original size:22 final size:22
Alignment explanation
Indices: 683751--683808 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 22
683741 ATAAGTATGT
683751 ATATATGTATATAAGTTATAAAA
1 ATATATGTATATAA-TTATAAAA
683774 A-ATATGTACCTAT-ATTATAAAA
1 ATATATGTA--TATAATTATAAAA
*
683796 ATGTATGTATATA
1 ATATATGTATATA
683809 TATTTGTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
21 3 0.10
22 16 0.53
23 8 0.27
24 3 0.10
ACGTcount: A:0.48, C:0.03, G:0.09, T:0.40
Consensus pattern (22 bp):
ATATATGTATATAATTATAAAA
Found at i:684625 original size:5 final size:5
Alignment explanation
Indices: 684615--684639 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
684605 GTCGGGTAAG
684615 TTTTC TTTTC TTTTC TTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC
684640 GTATGTATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:685623 original size:45 final size:45
Alignment explanation
Indices: 685375--685631 Score: 179
Period size: 45 Copynumber: 5.7 Consensus size: 45
685365 TCCTCAACCA
*
685375 GCTCTACTGCAACTTCA-GGAGATAAGGTTGGTTATCTTCAATTT
1 GCTCCACTGCAACTTCAGGGAGATAAGGTTGGTTATCTTCAATTT
** * * ** *
685419 GCTCCACTGCAACTTCAATGAGATAAGGTTTGATATGATCTA-TT
1 GCTCCACTGCAACTTCAGGGAGATAAGGTTGGTTATCTTCAATTT
* * * *
685463 -CT--ACTGCAACTTTAGAGAGAT-AGGATCTGTAACTTATAGCTTCAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGG-T-TG---GTTAT--CTTCAATTT
** * * * ***
685511 ATTCCACTGCAACTTCGGGGAGATAAGATTGG-TATCCTCAACCG
1 GCTCCACTGCAACTTCAGGGAGATAAGGTTGGTTATCTTCAATTT
* *
685555 GCTCCACTACAACTTC-GGAGAGATAAGGTTGGTTATCTTCAGTTT
1 GCTCCACTGCAACTTCAGG-GAGATAAGGTTGGTTATCTTCAATTT
*
685600 GCTCCACTGCAACTTCAGGGAGATAAAGTTGG
1 GCTCCACTGCAACTTCAGGGAGATAAGGTTGG
685632 ATATGGTGGA
Statistics
Matches: 160, Mismatches: 37, Indels: 31
0.70 0.16 0.14
Matches are distributed among these distances:
40 3 0.02
41 17 0.11
42 1 0.01
43 4 0.03
44 49 0.31
45 55 0.34
46 5 0.03
47 3 0.02
48 1 0.01
49 1 0.01
50 2 0.01
51 17 0.11
52 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (45 bp):
GCTCCACTGCAACTTCAGGGAGATAAGGTTGGTTATCTTCAATTT
Found at i:685903 original size:44 final size:44
Alignment explanation
Indices: 685840--686042 Score: 133
Period size: 45 Copynumber: 4.6 Consensus size: 44
685830 GATCTACTTT
** * * * *
685840 ACTGCAACTTCAAAGAGATAAGATTCA-TCATTTTAATCCGCTCC
1 ACTGCAACTTCAGGGAGATAAGATT-AGTAACTTCAATCCACTCC
* * *
685884 ACTGCAACTTCAGGGAGATAGGACTAGTAACTTCAATCTACTCC
1 ACTGCAACTTCAGGGAGATAAGATTAGTAACTTCAATCCACTCC
* * * * * * *
685928 ACTGGAACTTCAGGGAGATAAGATTGATTTTA-GTCAGTCTACTCT
1 ACTGCAACTTCAGGGAGATAAGATT-A-GTAACTTCAATCCACTCC
* ** * *
685973 TCTGCAACTTCAGGGAGATAAGACTT-GTTGGCTTTAATCTACTCC
1 ACTGCAACTTCAGGGAGATAAGA-TTAG-TAACTTCAATCCACTCC
* *
686018 ATTGCAACTTTAGGGAGATAAGATT
1 ACTGCAACTTCAGGGAGATAAGATT
686043 TGTCATCTTC
Statistics
Matches: 124, Mismatches: 29, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
43 1 0.01
44 58 0.47
45 61 0.49
46 4 0.03
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.31
Consensus pattern (44 bp):
ACTGCAACTTCAGGGAGATAAGATTAGTAACTTCAATCCACTCC
Found at i:686014 original size:45 final size:45
Alignment explanation
Indices: 685885--686045 Score: 143
Period size: 45 Copynumber: 3.6 Consensus size: 45
685875 ATCCGCTCCA
* *
685885 CTGCAACTTCAGGGAGATAGGACTAG-TAACTTCAATCTACTCCA-
1 CTGCAACTTCAGGGAGATAAGACTTGTTAACTTCAATCTACT-CAT
* * * * *
685929 CTGGAACTTCAGGGAGATAAGA-TTGATTTTA-GTCAGTCTACTCTT
1 CTGCAACTTCAGGGAGATAAGACTTG--TTAACTTCAATCTACTCAT
** *
685974 CTGCAACTTCAGGGAGATAAGACTTGTTGGCTTTAATCTACTCCAT
1 CTGCAACTTCAGGGAGATAAGACTTGTTAACTTCAATCTACT-CAT
* *
686020 -TGCAACTTTAGGGAGATAAGATTTGT
1 CTGCAACTTCAGGGAGATAAGACTTGT
686046 CATCTTCGGT
Statistics
Matches: 94, Mismatches: 16, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
43 2 0.02
44 23 0.24
45 62 0.66
46 7 0.07
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.32
Consensus pattern (45 bp):
CTGCAACTTCAGGGAGATAAGACTTGTTAACTTCAATCTACTCAT
Found at i:701384 original size:43 final size:44
Alignment explanation
Indices: 701332--701445 Score: 110
Period size: 43 Copynumber: 2.6 Consensus size: 44
701322 TTACAAGTCT
*
701332 TATCTCCCTAAGCAGTAGTGGAGCAGACA-GAAGAA-ACCA-ATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGA-ATGAA-AACAACAGATCC
** * * * *
701375 TATCTCCCTAAAGTTGCAGTGAAGC-GAATTAAAACAATAGATCC
1 TATCTCCCT-AAGCAGTAGTGGAGCAGAATGAAAACAACAGATCC
701419 TATCTCCCTAAGCAGTAGTGGAGCAGA
1 TATCTCCCTAAGCAGTAGTGGAGCAGA
701446 TCGTATCGGG
Statistics
Matches: 55, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
42 3 0.05
43 26 0.47
44 26 0.47
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (44 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGAATGAAAACAACAGATCC
Found at i:706308 original size:8 final size:8
Alignment explanation
Indices: 706295--706323 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
706285 CACTAGAGAC
706295 CAGTGTTA
1 CAGTGTTA
706303 CAGTGTTA
1 CAGTGTTA
706311 CAGTGTTA
1 CAGTGTTA
706319 CAGTG
1 CAGTG
706324 AGTCCCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:713770 original size:34 final size:35
Alignment explanation
Indices: 713704--713770 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
713694 CAAGCAGCAG
* *
713704 AAAATATTTTCCAGTAAATTATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
713739 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
713771 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:714031 original size:27 final size:25
Alignment explanation
Indices: 713996--714045 Score: 73
Period size: 27 Copynumber: 1.9 Consensus size: 25
713986 ATTTGAATTT
*
713996 AAATTAATTTTAGAATATAAGAAATAA
1 AAATAAATTTT-GAATATAA-AAATAA
714023 AAATAAATTTTGAATATAAAAAT
1 AAATAAATTTTGAATATAAAAAT
714046 TTAACAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 4 0.18
26 8 0.36
27 10 0.45
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (25 bp):
AAATAAATTTTGAATATAAAAATAA
Found at i:728667 original size:12 final size:12
Alignment explanation
Indices: 728650--728675 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
728640 AATAACTTGA
728650 TATTGTATCTGC
1 TATTGTATCTGC
728662 TATTGTATCTGC
1 TATTGTATCTGC
728674 TA
1 TA
728676 GGAGGGATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.50
Consensus pattern (12 bp):
TATTGTATCTGC
Found at i:732745 original size:7 final size:7
Alignment explanation
Indices: 732733--732761 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
732723 TAATTCATCG
732733 AACATTT
1 AACATTT
732740 AACATTT
1 AACATTT
732747 AACATTT
1 AACATTT
732754 AACATTT
1 AACATTT
732761 A
1 A
732762 CTAATGTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (7 bp):
AACATTT
Found at i:736511 original size:21 final size:20
Alignment explanation
Indices: 736485--736527 Score: 77
Period size: 21 Copynumber: 2.1 Consensus size: 20
736475 ACAACGGTGT
736485 TAGCTAAATAATGGAAACTTC
1 TAGCTAAATAATGGAAA-TTC
736506 TAGCTAAATAATGGAAATTC
1 TAGCTAAATAATGGAAATTC
736526 TA
1 TA
736528 AAGCTTCAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (20 bp):
TAGCTAAATAATGGAAATTC
Found at i:743292 original size:20 final size:18
Alignment explanation
Indices: 743252--743299 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 18
743242 GACTTAGGTA
*
743252 TAATTTATATTAAATTAGT
1 TAATTTA-ATTAAAATAGT
743271 TAATTTAATTATAAATATGT
1 TAATTTAATTA-AAATA-GT
743291 TAATATTAA
1 TAAT-TTAA
743300 GTGTAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 4 0.16
19 11 0.44
20 6 0.24
21 4 0.16
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (18 bp):
TAATTTAATTAAAATAGT
Found at i:744902 original size:19 final size:19
Alignment explanation
Indices: 744854--744900 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
744844 TATTTCTGCA
* *
744854 AAAATTAATTTTAATCAAGT
1 AAAATTAA-ATTAATCAAAT
744874 AAAATTAAATTAATCAAAT
1 AAAATTAAATTAATCAAAT
744893 -AAATTAAA
1 AAAATTAAA
744901 ATAAATATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 8 0.32
19 9 0.36
20 8 0.32
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (19 bp):
AAAATTAAATTAATCAAAT
Found at i:745406 original size:60 final size:64
Alignment explanation
Indices: 745341--745463 Score: 182
Period size: 60 Copynumber: 2.0 Consensus size: 64
745331 TCTAGATATT
*
745341 AATATGAGATATTAAATTAAATTAAA-T-A-TTTA-ATAGATAGTATTTTATTAATTTAATTTG
1 AATATGAGATATTAAATTAAATTAAATTAAGTTTATATAGATAATATTTTATTAATTTAATTTG
*
745401 AATATGAGATATTAAATTAAATTAAATTAAATGTTTATCTAGATAATATTTTATTAATTTAAT
1 AATATGAGATATTAAATTAAATTAAATT-AA-GTTTATATAGATAATATTTTATTAATTTAAT
745464 ATCAATGTGA
Statistics
Matches: 55, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
60 26 0.47
61 1 0.02
63 1 0.02
65 4 0.07
66 23 0.42
ACGTcount: A:0.46, C:0.01, G:0.07, T:0.46
Consensus pattern (64 bp):
AATATGAGATATTAAATTAAATTAAATTAAGTTTATATAGATAATATTTTATTAATTTAATTTG
Found at i:746013 original size:24 final size:24
Alignment explanation
Indices: 745979--746038 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
745969 TGCACAAATG
* *
745979 AATGTGACACTTC-GATGCAATTGAA
1 AATGTGGCACTTCAG-TGCAA-TCAA
746004 AA-GTGGCACTTCAGTGCAATCAA
1 AATGTGGCACTTCAGTGCAATCAA
746027 AATGTGGCACTT
1 AATGTGGCACTT
746039 TTGGTGCAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 5 0.16
24 23 0.74
25 3 0.10
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (24 bp):
AATGTGGCACTTCAGTGCAATCAA
Found at i:753668 original size:21 final size:22
Alignment explanation
Indices: 753642--753682 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
753632 ACAAAAAATA
*
753642 TGTTATTTT-TTGTTGTTTTAG
1 TGTTATTTTCTTATTGTTTTAG
753663 TGTTATTTTCTTATTGTTTT
1 TGTTATTTTCTTATTGTTTT
753683 CTACCTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.10, C:0.02, G:0.15, T:0.73
Consensus pattern (22 bp):
TGTTATTTTCTTATTGTTTTAG
Found at i:754818 original size:51 final size:50
Alignment explanation
Indices: 754717--754821 Score: 129
Period size: 51 Copynumber: 2.1 Consensus size: 50
754707 CATTATTTTG
* * * * **
754717 TAATTAAAATAGATAAATGAGTAAACTAAATACAAAAATACATAGGTAAA
1 TAATTAAAATAGATAAAGGAATAAACAAAATACAAAAATACACAAATAAA
* *
754767 TAATTAAAAATAGATAAAGGAATAAACAAAATACAATATTACACAAATAAA
1 TAATT-AAAATAGATAAAGGAATAAACAAAATACAAAAATACACAAATAAA
754818 TAAT
1 TAAT
754822 GGCAGAGATA
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
50 5 0.11
51 41 0.89
ACGTcount: A:0.62, C:0.07, G:0.08, T:0.24
Consensus pattern (50 bp):
TAATTAAAATAGATAAAGGAATAAACAAAATACAAAAATACACAAATAAA
Found at i:758833 original size:34 final size:34
Alignment explanation
Indices: 758786--758852 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
758776 TAAACTTTTC
* * *
758786 TTTTCAAGGTTGAG-AGATTCACGTTGTTTATTTA
1 TTTTCAAGATTGAGCA-ATTCACCTAGTTTATTTA
*
758820 TTTTCATGATTGAGCAATTCACCTAGTTTATTT
1 TTTTCAAGATTGAGCAATTCACCTAGTTTATTT
758853 CTCTATTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 27 0.96
35 1 0.04
ACGTcount: A:0.24, C:0.12, G:0.16, T:0.48
Consensus pattern (34 bp):
TTTTCAAGATTGAGCAATTCACCTAGTTTATTTA
Found at i:772910 original size:25 final size:25
Alignment explanation
Indices: 772876--772960 Score: 62
Period size: 25 Copynumber: 3.4 Consensus size: 25
772866 AGTTTATGTG
*
772876 AAGCTTTTGTAGCGAGTCACCTGTA
1 AAGCCTTTGTAGCGAGTCACCTGTA
* * * ** **
772901 AAGCCTTTGTGGCGATTTATTTGGG
1 AAGCCTTTGTAGCGAGTCACCTGTA
* * * *
772926 AAGCCTTTATAACGAGTCTCCTATA
1 AAGCCTTTGTAGCGAGTCACCTGTA
772951 AAGCCTTTGT
1 AAGCCTTTGT
772961 GGTGATTTAT
Statistics
Matches: 40, Mismatches: 20, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (25 bp):
AAGCCTTTGTAGCGAGTCACCTGTA
Found at i:772942 original size:50 final size:49
Alignment explanation
Indices: 772875--773060 Score: 237
Period size: 50 Copynumber: 3.7 Consensus size: 49
772865 AAGTTTATGT
* * *
772875 GAAGCTTTTGTAGCGAGTCACCTGTAAAGCCTTTGTGGCGATTTATTTGG
1 GAAGCCTTTGTGGCGAGTC-CCTATAAAGCCTTTGTGGCGATTTATTTGG
* ** *
772925 GAAGCCTTTATAACGAGTCTCCTATAAAGCCTTTGTGGTGATTTATTTGG
1 GAAGCCTTTGTGGCGAGTC-CCTATAAAGCCTTTGTGGCGATTTATTTGG
* * *
772975 GAAGCCTCTGTGGCAAGTCCCCTATAAAGCCTTTGTGGCGATCTATTTGG
1 GAAGCCTTTGTGGCGAGT-CCCTATAAAGCCTTTGTGGCGATTTATTTGG
* *
773025 GAAACCTTTGTGGCGAGTCGCTATAAAGCCTTTGTG
1 GAAGCCTTTGTGGCGAGTCCCTATAAAGCCTTTGTG
773061 ACAGGGACTT
Statistics
Matches: 118, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
49 17 0.14
50 100 0.85
51 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.34
Consensus pattern (49 bp):
GAAGCCTTTGTGGCGAGTCCCTATAAAGCCTTTGTGGCGATTTATTTGG
Found at i:775722 original size:16 final size:16
Alignment explanation
Indices: 775698--775728 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
775688 CGCTGTATAA
*
775698 GAATGGAGGCGTAATG
1 GAATAGAGGCGTAATG
775714 GAATAGAGGCGTAAT
1 GAATAGAGGCGTAAT
775729 AGTATTCTTG
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:0.35, C:0.06, G:0.39, T:0.19
Consensus pattern (16 bp):
GAATAGAGGCGTAATG
Found at i:775937 original size:15 final size:15
Alignment explanation
Indices: 775909--775949 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
775899 TTAAAATATA
775909 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
775924 TATTAAATATATTAT
1 AATTAAATATATTAT
775939 AATTAAA-ATAT
1 AATTAAATATAT
775950 CATGAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 7 0.30
15 16 0.70
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:776138 original size:47 final size:46
Alignment explanation
Indices: 776084--776236 Score: 138
Period size: 47 Copynumber: 3.3 Consensus size: 46
776074 GATTTAATAA
776084 AATTTAAAATAATTATAACTAATAAATTTTCTTATATGAATTTGTAT
1 AATTTAAAATAATTATAA-TAATAAATTTTCTTATATGAATTTGTAT
* * * *
776131 AATTTAAAATAATTAT--TATTAAATATAAT-TTA-AT-AATAATATAT
1 AATTTAAAATAATTATAATAATAAAT-T-TTCTTATATGAAT-TTGTAT
* * * *
776175 GATTTCATAA-AATTCTTGATAATAAATTTTCTTATATGAATTTGTAT
1 AATTT-AAAATAATT-ATAATAATAAATTTTCTTATATGAATTTGTAT
776222 AATTTAAAATAATTA
1 AATTTAAAATAATTA
776237 ATATTAAATA
Statistics
Matches: 81, Mismatches: 14, Indels: 23
0.69 0.12 0.19
Matches are distributed among these distances:
43 3 0.04
44 21 0.26
45 9 0.11
46 8 0.10
47 37 0.46
48 3 0.04
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (46 bp):
AATTTAAAATAATTATAATAATAAATTTTCTTATATGAATTTGTAT
Found at i:776330 original size:25 final size:25
Alignment explanation
Indices: 776302--776356 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
776292 AATTCCTTCA
776302 AGTATGTTTTCAAATCAAAATTAAG
1 AGTATGTTTTCAAATCAAAATTAAG
776327 AGTATGTTTTCAAATCAAAATTAAG
1 AGTATGTTTTCAAATCAAAATTAAG
776352 AGTAT
1 AGTAT
776357 ATCTATTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (25 bp):
AGTATGTTTTCAAATCAAAATTAAG
Found at i:785807 original size:20 final size:20
Alignment explanation
Indices: 785782--785846 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
785772 AAGAATACCG
785782 ACGTTTATGATAAATCCTCA
1 ACGTTTATGATAAATCCTCA
* * *
785802 ACG-TT-TGA-ATATTACTCG
1 ACGTTTATGATA-AATCCTCA
785820 ACGTTTATGATAAATCCTCA
1 ACGTTTATGATAAATCCTCA
*
785840 ATGTTTA
1 ACGTTTA
785847 AATAAGAGGA
Statistics
Matches: 34, Mismatches: 7, Indels: 8
0.69 0.14 0.16
Matches are distributed among these distances:
17 1 0.03
18 11 0.32
19 4 0.12
20 17 0.50
21 1 0.03
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.38
Consensus pattern (20 bp):
ACGTTTATGATAAATCCTCA
Found at i:794580 original size:87 final size:88
Alignment explanation
Indices: 794485--794659 Score: 343
Period size: 87 Copynumber: 2.0 Consensus size: 88
794475 AACATAAAGG
794485 GGAAAATAGTTCAAATTTATGTGAAAATAATTTAAATAATTTCTCCGAAAAGCAATATAATTTAA
1 GGAAAATAGTTCAAATTTATGTGAAAATAATTTAAATAATTTCTCCGAAAAGCAATATAATTTAA
794550 ATTTATATGC-AATAATTAAAAT
66 ATTTATATGCAAATAATTAAAAT
794572 GGAAAATAGTTCAAATTTATGTGAAAATAATTTAAATAATTTCTCCGAAAAGCAATATAATTTAA
1 GGAAAATAGTTCAAATTTATGTGAAAATAATTTAAATAATTTCTCCGAAAAGCAATATAATTTAA
794637 ATTTATATGCAAATAATTAAAAT
66 ATTTATATGCAAATAATTAAAAT
794660 TTATTATTTT
Statistics
Matches: 87, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
87 75 0.86
88 12 0.14
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.35
Consensus pattern (88 bp):
GGAAAATAGTTCAAATTTATGTGAAAATAATTTAAATAATTTCTCCGAAAAGCAATATAATTTAA
ATTTATATGCAAATAATTAAAAT
Found at i:794652 original size:21 final size:22
Alignment explanation
Indices: 794623--794663 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
794613 TCTCCGAAAA
*
794623 GCAATATAATTTAAATTTATAT
1 GCAATATAATTAAAATTTATAT
794645 GCAA-ATAATTAAAATTTAT
1 GCAATATAATTAAAATTTAT
794664 TATTTTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (22 bp):
GCAATATAATTAAAATTTATAT
Found at i:797137 original size:27 final size:26
Alignment explanation
Indices: 797110--797247 Score: 125
Period size: 27 Copynumber: 5.1 Consensus size: 26
797100 ATTCATCACA
*
797110 AAAGTTTTTCTTTCATATTTCGTTAC
1 AAAGTTTTTCTTTCATATTTCGCTAC
* *
797136 AACGATTTTTCTTTCATGTTTCGCTAC
1 AAAG-TTTTTCTTTCATATTTCGCTAC
* *
797163 AAAGTATTTTCTTTCATGA-TTGGCCAC
1 AAAGT-TTTTCTTTCAT-ATTTCGCTAC
* * * *
797190 AAAGAATTTTCTTTTATATTTTGCCAC
1 AAAG-TTTTTCTTTCATATTTCGCTAC
797217 AAAGGTTTTTCTTTCATGATTATCGCTAC
1 AAA-GTTTTTCTTTCAT-ATT-TCGCTAC
797246 AA
1 AA
797248 GGCCATTCGC
Statistics
Matches: 90, Mismatches: 14, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
26 5 0.06
27 74 0.82
28 4 0.04
29 7 0.08
ACGTcount: A:0.25, C:0.17, G:0.11, T:0.46
Consensus pattern (26 bp):
AAAGTTTTTCTTTCATATTTCGCTAC
Found at i:798995 original size:9 final size:9
Alignment explanation
Indices: 798981--799008 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
798971 GTAGGTAGAA
798981 GAAGAGGAT
1 GAAGAGGAT
798990 GAAGAGGAT
1 GAAGAGGAT
798999 GAAGAGGAT
1 GAAGAGGAT
799008 G
1 G
799009 TAGAAAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.46, T:0.11
Consensus pattern (9 bp):
GAAGAGGAT
Found at i:799216 original size:20 final size:21
Alignment explanation
Indices: 799180--799223 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
799170 AGATCTACCC
799180 AATAAAAGAAGGAGAGAGAAG
1 AATAAAAGAAGGAGAGAGAAG
*
799201 AATAAAA-AAGGGGAGAGAAG
1 AATAAAAGAAGGAGAGAGAAG
799221 AAT
1 AAT
799224 CAGCGTGAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.61, C:0.00, G:0.32, T:0.07
Consensus pattern (21 bp):
AATAAAAGAAGGAGAGAGAAG
Found at i:806685 original size:87 final size:87
Alignment explanation
Indices: 806539--806714 Score: 343
Period size: 87 Copynumber: 2.0 Consensus size: 87
806529 GTCTTAAGAT
*
806539 TGGGTCGAAGCAAAATAGTCATTTGGTGCCTTTTGTCTCAAGACAACCCCAATTGTCTCGAGACA
1 TGGGTCGAAGCAAAATAGTCATTTGGTGCCTCTTGTCTCAAGACAACCCCAATTGTCTCGAGACA
806604 ATTTGTTGATTATCTCGAGACA
66 ATTTGTTGATTATCTCGAGACA
806626 TGGGTCGAAGCAAAATAGTCATTTGGTGCCTCTTGTCTCAAGACAACCCCAATTGTCTCGAGACA
1 TGGGTCGAAGCAAAATAGTCATTTGGTGCCTCTTGTCTCAAGACAACCCCAATTGTCTCGAGACA
806691 ATTTGTTGATTATCTCGAGACA
66 ATTTGTTGATTATCTCGAGACA
806713 TG
1 TG
806715 AGACAACATG
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 88 1.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (87 bp):
TGGGTCGAAGCAAAATAGTCATTTGGTGCCTCTTGTCTCAAGACAACCCCAATTGTCTCGAGACA
ATTTGTTGATTATCTCGAGACA
Found at i:807476 original size:2 final size:2
Alignment explanation
Indices: 807469--807509 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
807459 ACAGAGCATT
807469 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
807510 TAACTTTGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:808002 original size:27 final size:27
Alignment explanation
Indices: 807951--808002 Score: 79
Period size: 26 Copynumber: 1.9 Consensus size: 27
807941 GTTAATAAAA
*
807951 TTCTCTTTGAGTTTTCTTTTTAAGAAT
1 TTCTCTTTGAGTTTTCTTTTGAAGAAT
807978 TTCTC-TTGAGTTTTCTTTTAGAAGA
1 TTCTCTTTGAGTTTTCTTTT-GAAGA
808003 GTTTTAACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.19, C:0.12, G:0.13, T:0.56
Consensus pattern (27 bp):
TTCTCTTTGAGTTTTCTTTTGAAGAAT
Found at i:821531 original size:919 final size:919
Alignment explanation
Indices: 819753--821593 Score: 3664
Period size: 919 Copynumber: 2.0 Consensus size: 919
819743 TTGAAGTACT
819753 TAATTGAATGAAATTATCTATTTAGATCAAGATAAACAAAAATCGGGCTTAAATCAAGGAAAGGC
1 TAATTGAATGAAATTATCTATTTAGATCAAGATAAACAAAAATCGGGCTTAAATCAAGGAAAGGC
819818 GAAAGCTTCGAATTAGTTTCAAATTCTACTTCTACAACTATAGTTATCGAGGTACGTTCGTACGA
66 GAAAGCTTCGAATTAGTTTCAAATTCTACTTCTACAACTATAGTTATCGAGGTACGTTCGTACGA
819883 ATTATAATCATATTAATGATATCCAAATTGATTATTTACTATATTATGTTAATATAAACAGACTT
131 ATTATAATCATATTAATGATATCCAAATTGATTATTTACTATATTATGTTAATATAAACAGACTT
819948 GAAAATGCTTATGAATCAATTTTTTGAGTAATGGAAGGATAACGAATCCCGTTTGAACCTTAAGA
196 GAAAATGCTTATGAATCAATTTTTTGAGTAATGGAAGGATAACGAATCCCGTTTGAACCTTAAGA
820013 ATCCTTAGGATACGAATGACATGTCATTAGGGATTTCATGTTTCGGGTGCTGGTCTTGAATGTCC
261 ATCCTTAGGATACGAATGACATGTCATTAGGGATTTCATGTTTCGGGTGCTGGTCTTGAATGTCC
820078 TACCGGTGCCTGAGGTCCTGTATTTGTTGCGGATTCTCCACAGCTTGTATGAGCAGCATCATGTA
326 TACCGGTGCCTGAGGTCCTGTATTTGTTGCGGATTCTCCACAGCTTGTATGAGCAGCATCATGTA
820143 GCTAACATTCTGACCTACAGCTCGTGTGAGCATACCCATTTCAAAGCTCGTGTGAGCACTATTGA
391 GCTAACATTCTGACCTACAGCTCGTGTGAGCATACCCATTTCAAAGCTCGTGTGAGCACTATTGA
820208 AAAGGAAAGGTGACAGTTATATGGAAAGACACACTATGTGTGAGCATTCCTGAGTTTCCGATGTA
456 AAAGGAAAGGTGACAGTTATATGGAAAGACACACTATGTGTGAGCATTCCTGAGTTTCCGATGTA
820273 ATTCTAGATGGTTCAACATGTAAGTAAAGCAAATGAAATGGTTCATGATCTTATGAAAAGGTTGA
521 ATTCTAGATGGTTCAACATGTAAGTAAAGCAAATGAAATGGTTCATGATCTTATGAAAAGGTTGA
820338 TGAGTTAAATGATGTATATTATGAAATCTATTTATGATATAATTGAACACATATGTATCATGGAT
586 TGAGTTAAATGATGTATATTATGAAATCTATTTATGATATAATTGAACACATATGTATCATGGAT
820403 GAACTTACTAACTTGTGAGTTTGATGGTGTTTGTATAGGATTTTACTAAGCTTATGGTCTTGGTA
651 GAACTTACTAACTTGTGAGTTTGATGGTGTTTGTATAGGATTTTACTAAGCTTATGGTCTTGGTA
820468 ATGATATTATGCATATTCTATAAATTGTTCTAATGAAATGGTAAGTTATATTTGAGTTTATACGA
716 ATGATATTATGCATATTCTATAAATTGTTCTAATGAAATGGTAAGTTATATTTGAGTTTATACGA
*
820533 GCTTACTAAGCATTAGTTTCTTACGTAGTTAGTTTCCTTTGTTTTATAGATTATCAGAAGAGAGG
781 GCTTACTAAGCATTAGTTTCTTACGTAGTTACTTTCCTTTGTTTTATAGATTATCAGAAGAGAGG
820598 AGGTTTTGTCAAGAGAGTGAAACAAGGAGCGAAAAAGGGGATGTGGCTCACAGCATAAGGCAAGT
846 AGGTTTTGTCAAGAGAGTGAAACAAGGAGCGAAAAAGGGGATGTGGCTCACAGCATAAGGCAAGT
820663 TTGACTTGG
911 TTGACTTGG
820672 TAATTGAATGAAATTATCTATTTAGATCAAGATAAACAAAAATCGGGCTTAAATCAAGGAAAGGC
1 TAATTGAATGAAATTATCTATTTAGATCAAGATAAACAAAAATCGGGCTTAAATCAAGGAAAGGC
820737 GAAAGCTTCGAATTAGTTTCAAATTCTACTTCTACAACTATAGTTATCGAGGTACGTTCGTACGA
66 GAAAGCTTCGAATTAGTTTCAAATTCTACTTCTACAACTATAGTTATCGAGGTACGTTCGTACGA
*
820802 ATTATAATCATATTAATGATATCCAAATTGATTGTTTACTATATTATGTTAATATAAACAGACTT
131 ATTATAATCATATTAATGATATCCAAATTGATTATTTACTATATTATGTTAATATAAACAGACTT
820867 GAAAATGCTTATGAATCAATTTTTTGAGTAATGGAAGGATAACGAATCCCGTTTGAACCTTAAGA
196 GAAAATGCTTATGAATCAATTTTTTGAGTAATGGAAGGATAACGAATCCCGTTTGAACCTTAAGA
820932 ATCCTTAGGATACGAATGACATGTCATTAGGGATTTCATGTTTCGGGTGCTGGTCTTGAATGTCC
261 ATCCTTAGGATACGAATGACATGTCATTAGGGATTTCATGTTTCGGGTGCTGGTCTTGAATGTCC
820997 TACCGGTGCCTGAGGTCCTGTATTTGTTGCGGATTCTCCACAGCTTGTATGAGCAGCATCATGTA
326 TACCGGTGCCTGAGGTCCTGTATTTGTTGCGGATTCTCCACAGCTTGTATGAGCAGCATCATGTA
821062 GCTAACATTCTGACCTACAGCTCGTGTGAGCATACCCATTTCAAAGCTCGTGTGAGCACTATTGA
391 GCTAACATTCTGACCTACAGCTCGTGTGAGCATACCCATTTCAAAGCTCGTGTGAGCACTATTGA
821127 AAAGGAAAGGTGACAGTTATATGGAAAGACACACTATGTGTGAGCATTCCTGAGTTTCCGATGTA
456 AAAGGAAAGGTGACAGTTATATGGAAAGACACACTATGTGTGAGCATTCCTGAGTTTCCGATGTA
821192 ATTCTAGATGGTTCAACATGTAAGTAAAGCAAATGAAATGGTTCATGATCTTATGAAAAGGTTGA
521 ATTCTAGATGGTTCAACATGTAAGTAAAGCAAATGAAATGGTTCATGATCTTATGAAAAGGTTGA
821257 TGAGTTAAATGATGTATATTATGAAATCTATTTATGATATAATTGAACACATATGTATCATGGAT
586 TGAGTTAAATGATGTATATTATGAAATCTATTTATGATATAATTGAACACATATGTATCATGGAT
821322 GAACTTACTAACTTGTGAGTTTGATGGTGTTTGTATAGGATTTTACTAAGCTTATGGTCTTGGTA
651 GAACTTACTAACTTGTGAGTTTGATGGTGTTTGTATAGGATTTTACTAAGCTTATGGTCTTGGTA
821387 ATGATATTATGCATATTCTATAAATTGTTCTAATGAAATGGTAAGTTATATTTGAGTTTATACGA
716 ATGATATTATGCATATTCTATAAATTGTTCTAATGAAATGGTAAGTTATATTTGAGTTTATACGA
821452 GCTTACTAAGCATTAGTTTCTTACGTAGTTACTTTCCTTTGTTTTATAGATTATCAGAAGAGAGG
781 GCTTACTAAGCATTAGTTTCTTACGTAGTTACTTTCCTTTGTTTTATAGATTATCAGAAGAGAGG
821517 AGGTTTTGTCAAGAGAGTGAAACAAGGAGCGAAAAAGGGGATGTGGCTCACAGCATAAGGCAAGT
846 AGGTTTTGTCAAGAGAGTGAAACAAGGAGCGAAAAAGGGGATGTGGCTCACAGCATAAGGCAAGT
821582 TTGACTTGG
911 TTGACTTGG
821591 TAA
1 TAA
821594 AGTAGGAAAG
Statistics
Matches: 920, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
919 920 1.00
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (919 bp):
TAATTGAATGAAATTATCTATTTAGATCAAGATAAACAAAAATCGGGCTTAAATCAAGGAAAGGC
GAAAGCTTCGAATTAGTTTCAAATTCTACTTCTACAACTATAGTTATCGAGGTACGTTCGTACGA
ATTATAATCATATTAATGATATCCAAATTGATTATTTACTATATTATGTTAATATAAACAGACTT
GAAAATGCTTATGAATCAATTTTTTGAGTAATGGAAGGATAACGAATCCCGTTTGAACCTTAAGA
ATCCTTAGGATACGAATGACATGTCATTAGGGATTTCATGTTTCGGGTGCTGGTCTTGAATGTCC
TACCGGTGCCTGAGGTCCTGTATTTGTTGCGGATTCTCCACAGCTTGTATGAGCAGCATCATGTA
GCTAACATTCTGACCTACAGCTCGTGTGAGCATACCCATTTCAAAGCTCGTGTGAGCACTATTGA
AAAGGAAAGGTGACAGTTATATGGAAAGACACACTATGTGTGAGCATTCCTGAGTTTCCGATGTA
ATTCTAGATGGTTCAACATGTAAGTAAAGCAAATGAAATGGTTCATGATCTTATGAAAAGGTTGA
TGAGTTAAATGATGTATATTATGAAATCTATTTATGATATAATTGAACACATATGTATCATGGAT
GAACTTACTAACTTGTGAGTTTGATGGTGTTTGTATAGGATTTTACTAAGCTTATGGTCTTGGTA
ATGATATTATGCATATTCTATAAATTGTTCTAATGAAATGGTAAGTTATATTTGAGTTTATACGA
GCTTACTAAGCATTAGTTTCTTACGTAGTTACTTTCCTTTGTTTTATAGATTATCAGAAGAGAGG
AGGTTTTGTCAAGAGAGTGAAACAAGGAGCGAAAAAGGGGATGTGGCTCACAGCATAAGGCAAGT
TTGACTTGG
Found at i:821889 original size:22 final size:22
Alignment explanation
Indices: 821863--821904 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
821853 ACCATACCAA
*
821863 AGAGCACCGAAGTGTTAAACAG
1 AGAGCACAGAAGTGTTAAACAG
821885 AGAGCACAGAAGTGTTAAAC
1 AGAGCACAGAAGTGTTAAAC
821905 CCGTACAAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.17, G:0.26, T:0.14
Consensus pattern (22 bp):
AGAGCACAGAAGTGTTAAACAG
Found at i:825288 original size:17 final size:16
Alignment explanation
Indices: 825268--825305 Score: 67
Period size: 17 Copynumber: 2.3 Consensus size: 16
825258 TCAATTCTTT
825268 CTTTCATTTTCTTTCGC
1 CTTTCATTTTCTTTC-C
825285 CTTTCATTTTCTTTCC
1 CTTTCATTTTCTTTCC
825301 CTTTC
1 CTTTC
825306 CTTTGTAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.05, C:0.32, G:0.03, T:0.61
Consensus pattern (16 bp):
CTTTCATTTTCTTTCC
Found at i:847520 original size:49 final size:51
Alignment explanation
Indices: 847449--847587 Score: 212
Period size: 51 Copynumber: 2.8 Consensus size: 51
847439 TGAAAGTGAA
*
847449 AGTGATGGTCACGTGTGTAGTACTATGTGCAGG-TACTACGTGTA-C-CAG
1 AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGCAG
* * *
847497 AGTGATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAT
1 AGTGAT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGCAG
847549 AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
1 AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
847588 TTTTAACCAG
Statistics
Matches: 82, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
48 6 0.07
49 25 0.30
50 11 0.13
51 33 0.40
52 7 0.09
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (51 bp):
AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGCAG
Found at i:851503 original size:31 final size:32
Alignment explanation
Indices: 851448--851518 Score: 81
Period size: 31 Copynumber: 2.2 Consensus size: 32
851438 TTAGCTTAAG
*
851448 CTCAAGCTCAAATATTTTTGGATTTGAATAAA
1 CTCAAGCTCAAATATTTTTAGATTTGAATAAA
* * * *
851480 CTCAAGCTC-CATTTTTTTAGATTTGGATAAT
1 CTCAAGCTCAAATATTTTTAGATTTGAATAAA
*
851511 TTCAAGCT
1 CTCAAGCT
851519 TAAAATATCT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
31 24 0.73
32 9 0.27
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (32 bp):
CTCAAGCTCAAATATTTTTAGATTTGAATAAA
Found at i:871998 original size:22 final size:21
Alignment explanation
Indices: 871973--872013 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
871963 AGTCTAATTT
871973 AATAAATATAAATTTAAATAGC
1 AATAAATATAAA-TTAAATAGC
*
871995 AATAAATTTAAATTAAATA
1 AATAAATATAAATTAAATA
872014 CCAACCAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (21 bp):
AATAAATATAAATTAAATAGC
Found at i:872023 original size:21 final size:22
Alignment explanation
Indices: 871976--872023 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
871966 CTAATTTAAT
* * *
871976 AAATATAAATTTAAATAGCAAT
1 AAATTTAAATTTAAATACCAAC
871998 AAATTTAAA-TTAAATACCAAC
1 AAATTTAAATTTAAATACCAAC
*
872019 CAATT
1 AAATT
872024 ATATTAGGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.31
Consensus pattern (22 bp):
AAATTTAAATTTAAATACCAAC
Found at i:872905 original size:56 final size:56
Alignment explanation
Indices: 872845--872974 Score: 199
Period size: 56 Copynumber: 2.3 Consensus size: 56
872835 ATGTTAACTT
* *
872845 TTAGCAATTTGATTCCTAATTGGATGTTATAGGATATTATTA-TGAGATATGATCTC
1 TTAGCAATTTGATTCCTAATGGGATATTATAGGATATTATTACTG-GATATGATCTC
* * *
872901 TTAGCAATTTGATTCCTAATGGGATATTATAGGATATTATTACTGGGTATTATCTT
1 TTAGCAATTTGATTCCTAATGGGATATTATAGGATATTATTACTGGATATGATCTC
872957 TTAGCAATTTGATTCCTA
1 TTAGCAATTTGATTCCTA
872975 CTGTGACACC
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
56 66 0.97
57 2 0.03
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (56 bp):
TTAGCAATTTGATTCCTAATGGGATATTATAGGATATTATTACTGGATATGATCTC
Found at i:881037 original size:31 final size:29
Alignment explanation
Indices: 880958--881039 Score: 92
Period size: 29 Copynumber: 2.8 Consensus size: 29
880948 ATAATAAAAC
* * * *
880958 ACATTTTGATAATTCAAGTACTACATTAA
1 ACATTTTCAAAATACAAGTACAACATTAA
* *
880987 ACATTTTCTAAATACAAGTACAACGTTAA
1 ACATTTTCAAAATACAAGTACAACATTAA
881016 ACATTTTACAAAAGTACAAGTACA
1 ACATTTT-CAAAA-TACAAGTACA
881040 CCATAATAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 30 0.68
30 4 0.09
31 10 0.23
ACGTcount: A:0.45, C:0.16, G:0.07, T:0.32
Consensus pattern (29 bp):
ACATTTTCAAAATACAAGTACAACATTAA
Found at i:881311 original size:4 final size:4
Alignment explanation
Indices: 881297--881336 Score: 71
Period size: 4 Copynumber: 9.8 Consensus size: 4
881287 TGAGTTGTCA
881297 AATT AAATT AATT AATT AATT AATT AATT AATT AATT AAT
1 AATT -AATT AATT AATT AATT AATT AATT AATT AATT AAT
881337 CGTGAGTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 31 0.89
5 4 0.11
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (4 bp):
AATT
Found at i:881544 original size:17 final size:17
Alignment explanation
Indices: 881513--881555 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
881503 AAATTTAAAC
881513 ATTTT-ATTGAAATGAT
1 ATTTTAATTGAAATGAT
*
881529 ATTTTAATTGAGATGAT
1 ATTTTAATTGAAATGAT
*
881546 -TTTTATTTGA
1 ATTTTAATTGA
881556 TAACTTATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (17 bp):
ATTTTAATTGAAATGAT
Found at i:881555 original size:16 final size:16
Alignment explanation
Indices: 881513--881552 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
881503 AAATTTAAAC
881513 ATTTTATTGAAATGAT
1 ATTTTATTGAAATGAT
*
881529 ATTTTAATTGAGATGAT
1 ATTTT-ATTGAAATGAT
881546 -TTTTATT
1 ATTTTATT
881553 TGATAACTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 3 0.14
16 9 0.41
17 10 0.45
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (16 bp):
ATTTTATTGAAATGAT
Found at i:888698 original size:17 final size:17
Alignment explanation
Indices: 888676--888732 Score: 73
Period size: 17 Copynumber: 3.4 Consensus size: 17
888666 TTCCTAGGTT
888676 TTTATTTAGTTATAGTC
1 TTTATTTAGTTATAGTC
*
888693 TTTA-TT-GTTATTTAGTT
1 TTTATTTAGTTA--TAGTC
888710 TTTATTTAGTTATAGTC
1 TTTATTTAGTTATAGTC
888727 TTTATT
1 TTTATT
888733 GTTATTTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
15 4 0.12
16 2 0.06
17 22 0.65
18 2 0.06
19 4 0.12
ACGTcount: A:0.21, C:0.04, G:0.11, T:0.65
Consensus pattern (17 bp):
TTTATTTAGTTATAGTC
Found at i:888716 original size:34 final size:34
Alignment explanation
Indices: 888673--888740 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
888663 CTTTTCCTAG
888673 GTTTTTATTTAGTTATAGTCTTTATTGTTATTTA
1 GTTTTTATTTAGTTATAGTCTTTATTGTTATTTA
888707 GTTTTTATTTAGTTATAGTCTTTATTGTTATTTA
1 GTTTTTATTTAGTTATAGTCTTTATTGTTATTTA
888741 TTTAGTTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.21, C:0.03, G:0.12, T:0.65
Consensus pattern (34 bp):
GTTTTTATTTAGTTATAGTCTTTATTGTTATTTA
Found at i:888741 original size:19 final size:18
Alignment explanation
Indices: 888685--888738 Score: 69
Period size: 17 Copynumber: 3.1 Consensus size: 18
888675 TTTTATTTAG
888685 TTATAGTCTTTATTGTTA
1 TTATAGTCTTTATTGTTA
*
888703 TT-TAGTTTTTA-T-TTA
1 TTATAGTCTTTATTGTTA
888718 GTTATAGTCTTTATTGTTA
1 -TTATAGTCTTTATTGTTA
888737 TT
1 TT
888739 TATTTAGTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
15 3 0.10
16 3 0.10
17 16 0.53
18 5 0.17
19 3 0.10
ACGTcount: A:0.20, C:0.04, G:0.11, T:0.65
Consensus pattern (18 bp):
TTATAGTCTTTATTGTTA
Found at i:893816 original size:16 final size:16
Alignment explanation
Indices: 893795--893825 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
893785 AATTTTAATT
*
893795 AATTAATTAATTTTCC
1 AATTAAATAATTTTCC
893811 AATTAAATAATTTTC
1 AATTAAATAATTTTC
893826 TCAACCCGAT
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:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (16 bp):
AATTAAATAATTTTCC
Found at i:893816 original size:20 final size:18
Alignment explanation
Indices: 893781--893822 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 18
893771 AAACATCATA
*
893781 AATTAATTTTAATTAATT
1 AATTAATTTTAATTAAAT
893799 AATTAATTTTCCAATTAAAT
1 AATTAATTTT--AATTAAAT
893819 AATT
1 AATT
893823 TTCTCAACCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.48
20 11 0.52
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (18 bp):
AATTAATTTTAATTAAAT
Found at i:909893 original size:16 final size:16
Alignment explanation
Indices: 909872--909915 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
909862 ATTCCAATGA
*
909872 TATCCTTTTCATTTGG
1 TATCCTTTTCAATTGG
909888 TATCCTTTTCAATTGG
1 TATCCTTTTCAATTGG
*
909904 CATCCTTTTCAA
1 TATCCTTTTCAA
909916 CCTTTTCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.18, C:0.23, G:0.09, T:0.50
Consensus pattern (16 bp):
TATCCTTTTCAATTGG
Found at i:915708 original size:37 final size:37
Alignment explanation
Indices: 915662--915737 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
915652 ATGAGGACGA
* *
915662 AGCCGATGAAAACAGCCAGTGTCTTTAATTTAGATGC
1 AGCCAATGAAAACAACCAGTGTCTTTAATTTAGATGC
915699 AGCCAATGAAAACAACCAGTGTCTTTAATTTAGATGC
1 AGCCAATGAAAACAACCAGTGTCTTTAATTTAGATGC
915736 AG
1 AG
915738 TTACCATGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (37 bp):
AGCCAATGAAAACAACCAGTGTCTTTAATTTAGATGC
Found at i:916795 original size:37 final size:37
Alignment explanation
Indices: 916749--916824 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
916739 ATGAGGACGA
* *
916749 AGCCGATGAAAACAGCCAGTGTCTTTAATTTAGATGC
1 AGCCAATGAAAACAACCAGTGTCTTTAATTTAGATGC
916786 AGCCAATGAAAACAACCAGTGTCTTTAATTTAGATGC
1 AGCCAATGAAAACAACCAGTGTCTTTAATTTAGATGC
916823 AG
1 AG
916825 TTACCATGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (37 bp):
AGCCAATGAAAACAACCAGTGTCTTTAATTTAGATGC
Found at i:921025 original size:5 final size:5
Alignment explanation
Indices: 921015--921111 Score: 72
Period size: 5 Copynumber: 18.0 Consensus size: 5
921005 TTTGCCTTCA
*
921015 TTTAT TTTAT TTTAT TCTAT TTTA- TTTAT TTAGTAT TTTAT TAATTATT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TT--TAT TTTAT T--TTA-T
* *
921064 TTTAT TTTA- TTTAT TTTAT TATTAT GCTTCAT TTGATT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT T-TTAT --TTTAT TTTA-T TTTAT TTTAT
921112 CTTCTTTATG
Statistics
Matches: 76, Mismatches: 5, Indels: 22
0.74 0.05 0.21
Matches are distributed among these distances:
4 8 0.11
5 43 0.57
6 11 0.14
7 11 0.14
8 3 0.04
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.71
Consensus pattern (5 bp):
TTTAT
Found at i:921074 original size:34 final size:31
Alignment explanation
Indices: 921017--921079 Score: 90
Period size: 34 Copynumber: 1.9 Consensus size: 31
921007 TGCCTTCATT
921017 TATTTTATTTTATTCTATTTTATTTATTTAG
1 TATTTTATTTTATTCTATTTTATTTATTTAG
*
921048 TATTTTATTAATTATTTTTATTTTATTTATTT
1 TATTTTATT--TTA-TTCTATTTTATTTATTT
921080 TATTATTATG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 9 0.32
33 3 0.11
34 16 0.57
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (31 bp):
TATTTTATTTTATTCTATTTTATTTATTTAG
Found at i:921097 original size:22 final size:20
Alignment explanation
Indices: 921010--921120 Score: 65
Period size: 18 Copynumber: 5.5 Consensus size: 20
921000 CACTGTTTGC
921010 CTTCATTTATTTTATTTTA-
1 CTTCATTTATTTTATTTTAT
921029 -TTCTATTT-TATTTATTTAGTAT
1 CTTC-ATTTAT-TTTATTT--TAT
* * *
921051 -TTTATTAATTAT-TTTTAT
1 CTTCATTTATTTTATTTTAT
*
921069 -TTTATTTATTTTATTATTAT
1 CTTCATTTATTTTATT-TTAT
921089 GCTTCATTTGATTTTTATTTTAT
1 -CTTCATTT-A-TTTTATTTTAT
921112 CTTC-TTTAT
1 CTTCATTTAT
921121 GATATTTAGT
Statistics
Matches: 74, Mismatches: 6, Indels: 24
0.71 0.06 0.23
Matches are distributed among these distances:
18 17 0.23
19 14 0.19
20 8 0.11
21 10 0.14
22 13 0.18
23 5 0.07
24 7 0.09
ACGTcount: A:0.22, C:0.06, G:0.03, T:0.69
Consensus pattern (20 bp):
CTTCATTTATTTTATTTTAT
Found at i:921128 original size:23 final size:24
Alignment explanation
Indices: 921078--921128 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
921068 TTTTATTTAT
*
921078 TTTATTATTATGCTTCATTTGATT
1 TTTATTATTATGCTTCATTTGATA
*
921102 TTTATT-TTAT-CTTCTTTATGATA
1 TTTATTATTATGCTTCATT-TGATA
921125 TTTA
1 TTTA
921129 GTCATTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 6 0.25
23 12 0.50
24 6 0.25
ACGTcount: A:0.22, C:0.08, G:0.06, T:0.65
Consensus pattern (24 bp):
TTTATTATTATGCTTCATTTGATA
Found at i:927850 original size:21 final size:20
Alignment explanation
Indices: 927813--927851 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
927803 TTGCAGTTTG
* *
927813 AAAATTTTCATTTTTTTCCT
1 AAAAATTTCATTGTTTTCCT
927833 AAAAATTTCATATGTTTTC
1 AAAAATTTCAT-TGTTTTC
927852 GATTTAGCCC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.31, C:0.13, G:0.03, T:0.54
Consensus pattern (20 bp):
AAAAATTTCATTGTTTTCCT
Found at i:931155 original size:30 final size:30
Alignment explanation
Indices: 931116--931183 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 30
931106 TAGATCACAA
* *
931116 GACCATGTACAGAGATCGTGTGTAGTACAC
1 GACCGTGTACAGAGACCGTGTGTAGTACAC
*
931146 GACCGTGTACAGATACCGTGTGTAGTACAC
1 GACCGTGTACAGAGACCGTGTGTAGTACAC
*
931176 GGCCGTGT
1 GACCGTGT
931184 GACAACCCGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (30 bp):
GACCGTGTACAGAGACCGTGTGTAGTACAC
Found at i:931752 original size:23 final size:21
Alignment explanation
Indices: 931709--931752 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
931699 TTTACCATCC
*
931709 TTTAATTTAATTTACCATTTA
1 TTTAATTTAATTAACCATTTA
*
931730 TTTAATTACTAATTAACCTTTTA
1 TTTAATT--TAATTAACCATTTA
931753 AAATAATTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 7 0.37
23 12 0.63
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTAATTTAATTAACCATTTA
Found at i:934446 original size:9 final size:9
Alignment explanation
Indices: 934410--934452 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
934400 TTTAATTGAG
934410 AAATTAATT
1 AAATTAATT
* *
934419 TAGTTAATT
1 AAATTAATT
*
934428 AGATTAATT
1 AAATTAATT
934437 AAATTAATT
1 AAATTAATT
934446 -AATTAAT
1 AAATTAAT
934453 ATTTACTTTG
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
8 7 0.25
9 21 0.75
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (9 bp):
AAATTAATT
Found at i:936087 original size:16 final size:18
Alignment explanation
Indices: 936044--936089 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
936034 TTTTTAGTGT
*
936044 TTATATATATTATATTATG
1 TTATATTTA-TATATTATG
*
936063 TTATTTTTATATATTATG
1 TTATATTTATATATTATG
936081 -TA-ATTTATA
1 TTATATTTATA
936090 AAACATAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 6 0.25
17 2 0.08
18 9 0.38
19 7 0.29
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (18 bp):
TTATATTTATATATTATG
Found at i:936193 original size:22 final size:22
Alignment explanation
Indices: 936162--936218 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
936152 CTATATATAC
*
936162 AAATT-TTAAAAATGAAAATAT
1 AAATTATTAAAAATGAAAATAA
* * *
936183 AAATTATTAAATATTAAATTAA
1 AAATTATTAAAAATGAAAATAA
936205 AAATTATTTAAAAA
1 AAATTA-TTAAAAA
936219 ATAATATGGG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
21 5 0.17
22 18 0.62
23 6 0.21
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (22 bp):
AAATTATTAAAAATGAAAATAA
Found at i:937056 original size:25 final size:23
Alignment explanation
Indices: 937025--937081 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 23
937015 ATATAATTGA
*
937025 TAAATATTTTATATTTAAAATTTAT
1 TAAATATTTT-CATTTAAAATTT-T
* *
937050 TTAATATCATTCATTTAAAATTTT
1 TAAATAT-TTTCATTTAAAATTTT
937074 TAAATATT
1 TAAATATT
937082 AAAGTAAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
24 7 0.27
25 17 0.65
26 2 0.08
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (23 bp):
TAAATATTTTCATTTAAAATTTT
Found at i:943803 original size:42 final size:42
Alignment explanation
Indices: 943754--943836 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
943744 AAAGGTTGAA
** * * *
943754 CAGAAGCTCATCAGAGCTGAATGGAAACTCATAAGGGTTAAT
1 CAGAAGCTCAAAAGAACTGAACGGAAACCCATAAGGGTTAAT
*
943796 CAGAAGCTCAAAAGAACTGAACGGAAACCCATAATGGTTAA
1 CAGAAGCTCAAAAGAACTGAACGGAAACCCATAAGGGTTAA
943837 ACGGAAACTC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (42 bp):
CAGAAGCTCAAAAGAACTGAACGGAAACCCATAAGGGTTAAT
Found at i:943841 original size:21 final size:21
Alignment explanation
Indices: 943815--943859 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
943805 AAAAGAACTG
943815 AACGGAAACCCATAATG-GTTA
1 AACGGAAACCCAT-ATGAGTTA
*
943836 AACGGAAACTCATATGAGTTA
1 AACGGAAACCCATATGAGTTA
943857 AAC
1 AAC
943860 AGAAGCTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.44, C:0.18, G:0.18, T:0.20
Consensus pattern (21 bp):
AACGGAAACCCATATGAGTTA
Found at i:944399 original size:17 final size:18
Alignment explanation
Indices: 944367--944408 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
944357 AGTTACTCTA
*
944367 TCAAATCAACTAATTTTTC
1 TCAAAT-AACTAATTTATC
944386 TCAAATAA-TAATTTATC
1 TCAAATAACTAATTTATC
944403 -CAAATA
1 TCAAATA
944409 TTCTAGGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 6 0.27
17 8 0.36
18 2 0.09
19 6 0.27
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.38
Consensus pattern (18 bp):
TCAAATAACTAATTTATC
Found at i:949070 original size:18 final size:18
Alignment explanation
Indices: 949056--949090 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
949046 GTGAATAACC
949056 AAAAA-AAATTGAATAAA
1 AAAAAGAAATTGAATAAA
*
949073 AAAAAGAAATTGTATAAA
1 AAAAAGAAATTGAATAAA
949091 TGAAATAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.20
Consensus pattern (18 bp):
AAAAAGAAATTGAATAAA
Found at i:950893 original size:22 final size:21
Alignment explanation
Indices: 950868--950908 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
950858 TGATATAACA
950868 ATTTTTAATGAATA-AGTATACT
1 ATTTTT-AT-AATATAGTATACT
950890 ATTTTTATAATATAGTATA
1 ATTTTTATAATATAGTATA
950909 TGTTTATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 8 0.44
22 6 0.33
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (21 bp):
ATTTTTATAATATAGTATACT
Found at i:952965 original size:295 final size:297
Alignment explanation
Indices: 952435--953027 Score: 1172
Period size: 295 Copynumber: 2.0 Consensus size: 297
952425 AGATGTTACA
952435 AATATAATAATGGGTAAACAACATTGTCATCTAATTATTAAAAATTTTATTTTAGATACTCAAAA
1 AATATAATAATGGGTAAACAACATTGTCATCTAATTATTAAAAATTTTATTTTAGATACTCAAAA
952500 AAAAATTTGTAATATGAGCACCCACGTTACATAGTTTAGTCATTTTGGTCACTTCCGTTAAAATC
66 AAAAATTTGTAATATGAGCACCCACGTTACATAGTTTAGTCATTTTGGTCACTTCCGTTAAAATC
952565 AGAAACAACAAGCTGACGTGGAAGTTAAAAGATCGATATAATAACAAATTTAGCTATCAACTTTA
131 AGAAACAACAAGCTGACGTGGAAGTTAAAAGATCGATATAATAACAAATTTAGCTATCAACTTTA
952630 ACATAATATATCGGTTTAGTCATAATTTTAAAAAAAAATTAACCCTCAAAATTTATAAATATTCT
196 ACATAATATATCGGTTTAGTCATAATTTTAAAAAAAAATTAACCCTCAAAATTTATAAATATTCT
952695 CAATTTGATCCTAATTCTAAAAAA-T-AAAGAAATAT
261 CAATTTGATCCTAATTCTAAAAAATTCAAAGAAATAT
952730 AATATAATAATGGGTAAACAACATTGTCATCTAATTATTAAAAATTTTATTTTAGATACTCAAAA
1 AATATAATAATGGGTAAACAACATTGTCATCTAATTATTAAAAATTTTATTTTAGATACTCAAAA
952795 AAAAATTTGTAATATGAGCACCCACGTTACATAGTTTAGTCATTTTGGTCACTTCCGTTAAAATC
66 AAAAATTTGTAATATGAGCACCCACGTTACATAGTTTAGTCATTTTGGTCACTTCCGTTAAAATC
952860 AGAAACAACAAGCTGACGTGGAAGTTAAAAGATCGATATAATAACAAATTTAGCTATCAACTTTA
131 AGAAACAACAAGCTGACGTGGAAGTTAAAAGATCGATATAATAACAAATTTAGCTATCAACTTTA
952925 ACATAATATATCGGTTTAGTCATAATTTTAAAAAAAAATTAACCCTCAAAATTTATAAATATTCT
196 ACATAATATATCGGTTTAGTCATAATTTTAAAAAAAAATTAACCCTCAAAATTTATAAATATTCT
952990 CAATTTGATCCTAATTCTAAAAAATTCAAAGAAATAT
261 CAATTTGATCCTAATTCTAAAAAATTCAAAGAAATAT
953027 A
1 A
953028 TAAAAATAAA
Statistics
Matches: 296, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
295 284 0.96
296 1 0.00
297 11 0.04
ACGTcount: A:0.44, C:0.13, G:0.10, T:0.33
Consensus pattern (297 bp):
AATATAATAATGGGTAAACAACATTGTCATCTAATTATTAAAAATTTTATTTTAGATACTCAAAA
AAAAATTTGTAATATGAGCACCCACGTTACATAGTTTAGTCATTTTGGTCACTTCCGTTAAAATC
AGAAACAACAAGCTGACGTGGAAGTTAAAAGATCGATATAATAACAAATTTAGCTATCAACTTTA
ACATAATATATCGGTTTAGTCATAATTTTAAAAAAAAATTAACCCTCAAAATTTATAAATATTCT
CAATTTGATCCTAATTCTAAAAAATTCAAAGAAATAT
Found at i:957356 original size:25 final size:25
Alignment explanation
Indices: 957327--957374 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
957317 TTTTGTGGTG
*
957327 AATTCTCTGAGAAGACTTTTTGGAA
1 AATTCTCTGAAAAGACTTTTTGGAA
*
957352 AATTCTCTGAAAAGCCTTTTTGG
1 AATTCTCTGAAAAGACTTTTTGG
957375 CGTACTATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.38
Consensus pattern (25 bp):
AATTCTCTGAAAAGACTTTTTGGAA
Found at i:962378 original size:10 final size:9
Alignment explanation
Indices: 962353--962377 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
962343 CAAATTATTA
962353 TTTTTTTCT
1 TTTTTTTCT
962362 TTTTTTTCT
1 TTTTTTTCT
962371 TTTTTTT
1 TTTTTTT
962378 TTACTTTAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:982819 original size:20 final size:20
Alignment explanation
Indices: 982795--982890 Score: 111
Period size: 20 Copynumber: 4.8 Consensus size: 20
982785 ATAATAACAA
*
982795 AGGCACCGAAGTGCAATTAG
1 AGGCACCGAAGTGCAATCAG
* ** *
982815 GGGCATTGAAGTGGAATCAG
1 AGGCACCGAAGTGCAATCAG
** *
982835 AGGCATAGAACTGCAATCAG
1 AGGCACCGAAGTGCAATCAG
*
982855 AGGCACCGAAGTGCAAACAG
1 AGGCACCGAAGTGCAATCAG
982875 AGGCACCGAAGTGCAA
1 AGGCACCGAAGTGCAA
982891 ATCCATACAA
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 63 1.00
ACGTcount: A:0.36, C:0.20, G:0.31, T:0.12
Consensus pattern (20 bp):
AGGCACCGAAGTGCAATCAG
Found at i:983076 original size:28 final size:27
Alignment explanation
Indices: 983006--983078 Score: 69
Period size: 28 Copynumber: 2.6 Consensus size: 27
982996 GGTACTTCCA
983006 CAATATCCTCAATTCAACCGTAAATCT
1 CAATATCCTCAATTCAACCGTAAATCT
* *
983033 CACTCA-CCTTACATTCAACCGTAAA-CAAT
1 CAAT-ATCCTCA-ATTCAACCGTAAATC--T
*
983062 TAATATCCTCAATTCAA
1 CAATATCCTCAATTCAA
983079 TATTAATAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
27 8 0.22
28 21 0.58
29 7 0.19
ACGTcount: A:0.38, C:0.30, G:0.03, T:0.29
Consensus pattern (27 bp):
CAATATCCTCAATTCAACCGTAAATCT
Found at i:983368 original size:28 final size:30
Alignment explanation
Indices: 983332--983388 Score: 73
Period size: 28 Copynumber: 1.9 Consensus size: 30
983322 TGACTTATAA
*
983332 TTTATACTTT-ATCAATTT-TCCCTAAACT
1 TTTACACTTTGATCAATTTATCCCTAAACT
*
983360 TTTACACTTTGTTCAATTTAATCCCTAAA
1 TTTACACTTTGATCAATTT-ATCCCTAAA
983389 ACTGAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 9 0.38
29 7 0.29
31 8 0.33
ACGTcount: A:0.30, C:0.21, G:0.02, T:0.47
Consensus pattern (30 bp):
TTTACACTTTGATCAATTTATCCCTAAACT
Found at i:985891 original size:37 final size:37
Alignment explanation
Indices: 985810--985900 Score: 112
Period size: 37 Copynumber: 2.4 Consensus size: 37
985800 GCCACTCCGA
* * *
985810 CCACCCTGCACACCACTTATAGGCTATGATAAGCCTAT
1 CCACCCTACACACCAC-TATAGGCCATGATAAGCCCAT
* *
985848 CAACCCTACACACCAC-ATAGGACCATGATAGGCCCAT
1 CCACCCTACACACCACTATAGG-CCATGATAAGCCCAT
985885 CCACCCTACACACCAC
1 CCACCCTACACACCAC
985901 GCAATGGGTC
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
36 5 0.11
37 27 0.59
38 14 0.30
ACGTcount: A:0.32, C:0.41, G:0.11, T:0.16
Consensus pattern (37 bp):
CCACCCTACACACCACTATAGGCCATGATAAGCCCAT
Found at i:1000503 original size:12 final size:13
Alignment explanation
Indices: 1000486--1000539 Score: 53
Period size: 12 Copynumber: 4.2 Consensus size: 13
1000476 TTTTAATAAG
1000486 ATTTAATCTTAA-
1 ATTTAATCTTAAT
1000498 ATTTAATC-TAAT
1 ATTTAATCTTAAT
1000510 ATTT-ATCTTGATAT
1 ATTTAATCTT-A-AT
1000524 ATATTAAT-TTAAT
1 AT-TTAATCTTAAT
1000537 ATT
1 ATT
1000540 AAAGTGATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
11 6 0.17
12 14 0.39
13 5 0.14
14 5 0.14
15 4 0.11
16 2 0.06
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.54
Consensus pattern (13 bp):
ATTTAATCTTAAT
Found at i:1007961 original size:7 final size:7
Alignment explanation
Indices: 1007949--1007982 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
1007939 CAAATATTAC
1007949 ATTTTTT
1 ATTTTTT
1007956 ATTTTTT
1 ATTTTTT
1007963 ATTTTTT
1 ATTTTTT
1007970 ATTTTTT
1 ATTTTTT
1007977 ATTTTT
1 ATTTTT
1007983 ACTTCAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
ATTTTTT
Found at i:1008224 original size:2 final size:2
Alignment explanation
Indices: 1008217--1008243 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1008207 CATTTGCTTC
1008217 CA CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA C
1008244 TATAATCAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:1009087 original size:23 final size:24
Alignment explanation
Indices: 1009045--1009092 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 24
1009035 GGATATATTT
1009045 TAAAGTTATTTAAGTAGATAAATC
1 TAAAGTTATTTAAGTAGATAAATC
*
1009069 TAAATTTATTT-AGTAGATAAATC
1 TAAAGTTATTTAAGTAGATAAATC
1009092 T
1 T
1009093 TAGAATAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.44, C:0.04, G:0.10, T:0.42
Consensus pattern (24 bp):
TAAAGTTATTTAAGTAGATAAATC
Found at i:1009164 original size:41 final size:42
Alignment explanation
Indices: 1009119--1009211 Score: 138
Period size: 42 Copynumber: 2.2 Consensus size: 42
1009109 AAATATTCTA
*
1009119 AGAA-TATTTTATTTTATC-TTTTAGTAGTTTATTAGAATAAG
1 AGAATTATTTT-TCTTATCTTTTTAGTAGTTTATTAGAATAAG
1009160 AGAATTATTTTTCTTATCTTTTTAGTAGTTTATTAGAATAA-
1 AGAATTATTTTTCTTATCTTTTTAGTAGTTTATTAGAATAAG
1009201 ATGAATTATTT
1 A-GAATTATTT
1009212 AAATTCAGTT
Statistics
Matches: 48, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
41 11 0.23
42 37 0.77
ACGTcount: A:0.33, C:0.03, G:0.11, T:0.53
Consensus pattern (42 bp):
AGAATTATTTTTCTTATCTTTTTAGTAGTTTATTAGAATAAG
Found at i:1012900 original size:19 final size:19
Alignment explanation
Indices: 1012876--1012916 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
1012866 TATTTTAAAG
1012876 TTATTTAAGTAGATAAATC
1 TTATTTAAGTAGATAAATC
*
1012895 TTATTTAGGTAGATAAATC
1 TTATTTAAGTAGATAAATC
1012914 TTA
1 TTA
1012917 GAATAAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.44
Consensus pattern (19 bp):
TTATTTAAGTAGATAAATC
Found at i:1014056 original size:3 final size:3
Alignment explanation
Indices: 1014048--1014113 Score: 107
Period size: 3 Copynumber: 22.3 Consensus size: 3
1014038 GGAATGCAGA
*
1014048 ATT ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT ATT ATT ACT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
1014095 ATT ATT ATT ATA ATT ATT A
1 ATT ATT ATT ATT ATT ATT A
1014114 AATAAACCAA
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
2 2 0.03
3 56 0.97
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Done.