Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 391 of 444
Found at i:113442693 original size:94 final size:93
Alignment explanation
Indices: 113442544--113442755 Score: 329
Period size: 94 Copynumber: 2.3 Consensus size: 93
113442534 TATGTGTGCT
*
113442544 AGTGTAAGACATGTCTGAGACATGCATCAGCCACATTACGAGAGCTAGTGTAAGACATGTCTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCAG-CACATTACGAGAGCTAGTGTAAGACATGTCTGGG
*
113442609 ACATGTATCGGCCTCGAGATATACAAGCC
65 ACATGCATCGGCCTCGAGATATACAAGCC
113442638 AGTGTAAGACATGTCTGGGACATGCATC-G-ACATTGAGACGAGAGCTAGTGTAAGACATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCACATT---ACGAGAGCTAGTGTAAGACATGTCTG
*
113442701 GGACATGCATCGGCCTCGAGATATACAAGCT
63 GGACATGCATCGGCCTCGAGATATACAAGCC
* *
113442732 AGTGTAAGACCTGTTTGGGACATG
1 AGTGTAAGACATGTCTGGGACATG
113442756 GCGTTAGCTT
Statistics
Matches: 110, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
91 5 0.05
93 1 0.01
94 104 0.95
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCACATTACGAGAGCTAGTGTAAGACATGTCTGGGA
CATGCATCGGCCTCGAGATATACAAGCC
Found at i:113442832 original size:49 final size:48
Alignment explanation
Indices: 113442775--113442905 Score: 165
Period size: 49 Copynumber: 2.7 Consensus size: 48
113442765 TGTTGTGTGT
* * *
113442775 TAGTGTAAGACCTTTCTGGGATATGGTATCGACAC-CGATAGATGAGAG
1 TAGTGTAAGACCTGTCTGGGATATGGCATCGAC-CTCGATAGATGAAAG
* * * *
113442823 CTAGTGTAAGACCTGTCTAGGACATGGCATTGACCTCGATATATGAAAG
1 -TAGTGTAAGACCTGTCTGGGATATGGCATCGACCTCGATAGATGAAAG
113442872 TCAGTGTAAGACCTGTCTGGGATATGGCATCGAC
1 T-AGTGTAAGACCTGTCTGGGATATGGCATCGAC
113442906 TTTGATGTGC
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
48 2 0.03
49 68 0.97
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (48 bp):
TAGTGTAAGACCTGTCTGGGATATGGCATCGACCTCGATAGATGAAAG
Found at i:113447553 original size:21 final size:22
Alignment explanation
Indices: 113447516--113447564 Score: 73
Period size: 21 Copynumber: 2.2 Consensus size: 22
113447506 ACTGCCAGAG
*
113447516 CTAAATTTATGAACCCTCAAACC
1 CTAAATTTA-GAACCCTAAAACC
113447539 CTAAATTTA-AACCCTAAAACC
1 CTAAATTTAGAACCCTAAAACC
113447560 CTAAA
1 CTAAA
113447565 CCATAAAATC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 16 0.64
23 9 0.36
ACGTcount: A:0.45, C:0.29, G:0.02, T:0.24
Consensus pattern (22 bp):
CTAAATTTAGAACCCTAAAACC
Found at i:113447565 original size:7 final size:7
Alignment explanation
Indices: 113447527--113447625 Score: 56
Period size: 7 Copynumber: 13.6 Consensus size: 7
113447517 TAAATTTATG
113447527 AACCCTCA
1 AACCCT-A
113447535 AACCCTA
1 AACCCTA
**
113447542 AA-TTTA
1 AACCCTA
113447548 AACCCTAA
1 AACCCT-A
113447556 AACCCTA
1 AACCCTA
*
113447563 AACCATAA
1 AACCCT-A
* *
113447571 AATCATA
1 AACCCTA
*
113447578 AATCCTA
1 AACCCTA
*
113447585 AACCTTA
1 AACCCTA
**
113447592 AACATTAA
1 AACCCT-A
*
113447600 AACCTCAA
1 AACC-CTA
113447608 AACCCTA
1 AACCCTA
113447615 AACCCTA
1 AACCCTA
113447622 AACC
1 AACC
113447626 ACAGTTGATG
Statistics
Matches: 72, Mismatches: 14, Indels: 11
0.74 0.14 0.11
Matches are distributed among these distances:
6 4 0.06
7 40 0.56
8 28 0.39
ACGTcount: A:0.48, C:0.32, G:0.00, T:0.19
Consensus pattern (7 bp):
AACCCTA
Found at i:113447566 original size:15 final size:15
Alignment explanation
Indices: 113447546--113447625 Score: 65
Period size: 15 Copynumber: 5.4 Consensus size: 15
113447536 ACCCTAAATT
113447546 TAAACCCTAAAACCC
1 TAAACCCTAAAACCC
* * *
113447561 TAAACCATAAAATCA
1 TAAACCCTAAAACCC
* *
113447576 TAAATCCT-AAACCT
1 TAAACCCTAAAACCC
**
113447590 TAAACATTAAAACCTC
1 TAAACCCTAAAACC-C
*
113447606 AAAACCCT-AAACCC
1 TAAACCCTAAAACCC
113447620 TAAACC
1 TAAACC
113447626 ACAGTTGATG
Statistics
Matches: 48, Mismatches: 15, Indels: 5
0.71 0.22 0.07
Matches are distributed among these distances:
14 15 0.31
15 28 0.58
16 5 0.10
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (15 bp):
TAAACCCTAAAACCC
Found at i:113456668 original size:16 final size:16
Alignment explanation
Indices: 113456643--113456678 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
113456633 TATATATTAT
* *
113456643 AATATTATTTAATAAA
1 AATATCATTTAAAAAA
113456659 AATATCATTTAAAAAA
1 AATATCATTTAAAAAA
113456675 AATA
1 AATA
113456679 ATGAAACCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (16 bp):
AATATCATTTAAAAAA
Found at i:113459807 original size:43 final size:43
Alignment explanation
Indices: 113459754--113459861 Score: 103
Period size: 43 Copynumber: 2.5 Consensus size: 43
113459744 GGGAGGTCAA
* * * *
113459754 ACGCCTGTGTGGAGAGGGACACACG-GCTGTGTGGCTGAGGCAT
1 ACGCCCGTGTGGAGAGGGACACACGATC-GGGTGACTGAGGCAT
* *
113459797 ACGCCCGTGTGAAGAGAGG-CACACGATCGGGTGATTGAGGCAT
1 ACGCCCGTGTGGAGAG-GGACACACGATCGGGTGACTGAGGCAT
* *
113459840 ATGCCCGTGTGGACCAGGGACA
1 ACGCCCGTGTGGA-GAGGGACA
113459862 TGGCCATGGG
Statistics
Matches: 52, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
43 45 0.87
44 7 0.13
ACGTcount: A:0.22, C:0.22, G:0.39, T:0.17
Consensus pattern (43 bp):
ACGCCCGTGTGGAGAGGGACACACGATCGGGTGACTGAGGCAT
Found at i:113461085 original size:44 final size:44
Alignment explanation
Indices: 113460941--113461104 Score: 226
Period size: 44 Copynumber: 3.8 Consensus size: 44
113460931 TTCATCCATT
* * *
113460941 GGCATT-TCGCCTGCTAGGCTCGAA-GCCTGATATCATTTCACC
1 GGCATTATAGCCTGCTAGGCTCAAAGGCCCGATATCATTTCACC
* * *
113460983 GGCATTATAGCCTACTAGGCTCGAAGGCCCGAATAGT-ATCTCACC
1 GGCATTATAGCCTGCTAGGCTCAAAGGCCCG-ATA-TCATTTCACC
*
113461028 GACATTATAGCCTGCTAGGCTCAAAGGCCCGATATCATTTCACC
1 GGCATTATAGCCTGCTAGGCTCAAAGGCCCGATATCATTTCACC
113461072 GGCATTATAGCCTGCTAGGCTCAAAGGCCCGAT
1 GGCATTATAGCCTGCTAGGCTCAAAGGCCCGAT
113461105 TAATACCGTA
Statistics
Matches: 108, Mismatches: 9, Indels: 8
0.86 0.07 0.06
Matches are distributed among these distances:
42 6 0.06
43 17 0.16
44 46 0.43
45 38 0.35
46 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.24
Consensus pattern (44 bp):
GGCATTATAGCCTGCTAGGCTCAAAGGCCCGATATCATTTCACC
Found at i:113474363 original size:11 final size:11
Alignment explanation
Indices: 113474347--113474389 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
113474337 TAGAATATAT
113474347 CCCATACCTTG
1 CCCATACCTTG
*
113474358 CCCATACCTTT
1 CCCATACCTTG
*
113474369 CCCATACC-TA
1 CCCATACCTTG
113474379 CCCATACCTTG
1 CCCATACCTTG
113474390 GAAAGGTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.21, C:0.47, G:0.05, T:0.28
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:113474374 original size:22 final size:21
Alignment explanation
Indices: 113474346--113474388 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
113474336 TTAGAATATA
*
113474346 TCCCATACCTTGCCCATACCTT
1 TCCCATACC-TACCCATACCTT
113474368 TCCCATACCTACCCATACCTT
1 TCCCATACCTACCCATACCTT
113474389 GGAAAGGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.21, C:0.47, G:0.02, T:0.30
Consensus pattern (21 bp):
TCCCATACCTACCCATACCTT
Found at i:113479012 original size:11 final size:11
Alignment explanation
Indices: 113478996--113479038 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
113478986 TAGAATATAT
113478996 CCCATACCTTG
1 CCCATACCTTG
*
113479007 CCCATACCTTT
1 CCCATACCTTG
*
113479018 CCCATACC-TA
1 CCCATACCTTG
113479028 CCCATACCTTG
1 CCCATACCTTG
113479039 GAAAGGTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.21, C:0.47, G:0.05, T:0.28
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:113479023 original size:22 final size:21
Alignment explanation
Indices: 113478995--113479037 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
113478985 TTAGAATATA
*
113478995 TCCCATACCTTGCCCATACCTT
1 TCCCATACC-TACCCATACCTT
113479017 TCCCATACCTACCCATACCTT
1 TCCCATACCTACCCATACCTT
113479038 GGAAAGGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.21, C:0.47, G:0.02, T:0.30
Consensus pattern (21 bp):
TCCCATACCTACCCATACCTT
Found at i:113479762 original size:14 final size:14
Alignment explanation
Indices: 113479740--113479792 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
113479730 TCGAAAAGGT
*
113479740 AGAAAATAGAAGAG
1 AGAAGATAGAAGAG
*
113479754 AGAAGATAGAATAG
1 AGAAGATAGAAGAG
*
113479768 AGAAGGATTGAGAGAG
1 AGAA-GATAGA-AGAG
*
113479784 AAAAGATAG
1 AGAAGATAG
113479793 GAATGATGAC
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
14 16 0.52
15 9 0.29
16 6 0.19
ACGTcount: A:0.57, C:0.00, G:0.32, T:0.11
Consensus pattern (14 bp):
AGAAGATAGAAGAG
Found at i:113481925 original size:40 final size:40
Alignment explanation
Indices: 113481880--113482047 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
113481870 CGGAATATAA
113481880 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
113481920 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
113481960 CCGGATGTAGCCACTAGCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
113482000 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
113482040 CCGGATAT
1 CCGGATAT
113482048 CATTCAATTT
Statistics
Matches: 101, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
39 1 0.01
40 99 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:113489937 original size:40 final size:40
Alignment explanation
Indices: 113489892--113490059 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
113489882 CGGAATATAA
113489892 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
113489932 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
113489972 CCGGATGTAGCCACTAGCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
113490012 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
113490052 CCGGATAT
1 CCGGATAT
113490060 CATTCAATTT
Statistics
Matches: 101, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
39 1 0.01
40 99 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:113492197 original size:3 final size:3
Alignment explanation
Indices: 113492189--113492227 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
113492179 ATAGATACAT
113492189 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
113492228 AAGAATTTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:113495985 original size:13 final size:13
Alignment explanation
Indices: 113495969--113496021 Score: 72
Period size: 13 Copynumber: 4.1 Consensus size: 13
113495959 TTTAAACCAA
113495969 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
113495982 ACTTTTCTACAGC
1 ACTTTTCAAAAGC
113495995 ACTTTTCAGAAA-C
1 ACTTTTCA-AAAGC
113496008 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
113496021 A
1 A
113496022 TTGCCAAACT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
12 3 0.09
13 29 0.85
14 2 0.06
ACGTcount: A:0.36, C:0.25, G:0.08, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:113497973 original size:30 final size:30
Alignment explanation
Indices: 113497925--113498060 Score: 164
Period size: 30 Copynumber: 4.5 Consensus size: 30
113497915 TGGTTGACAC
* *
113497925 ATCCCTTTCCATAATTCGATAGCTAAAGCT
1 ATCCCTTTTCATAATTCGATAGCCAAAGCT
* * *
113497955 ATCCTTTTTCATGATTCGATATCCAAAGCT
1 ATCCCTTTTCATAATTCGATAGCCAAAGCT
* * *
113497985 ATCCATTTTCGTAATTCGATAGCCGAAGCT
1 ATCCCTTTTCATAATTCGATAGCCAAAGCT
*** *
113498015 ATCCCTTTTCATAATTCGATAGTTGAAGTT
1 ATCCCTTTTCATAATTCGATAGCCAAAGCT
113498045 ATCCCTTTTCATAATT
1 ATCCCTTTTCATAATT
113498061 TTGATGGTCA
Statistics
Matches: 91, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 91 1.00
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.39
Consensus pattern (30 bp):
ATCCCTTTTCATAATTCGATAGCCAAAGCT
Found at i:113498103 original size:29 final size:30
Alignment explanation
Indices: 113498045--113498117 Score: 112
Period size: 29 Copynumber: 2.4 Consensus size: 30
113498035 AGTTGAAGTT
*
113498045 ATCCCTTTTCATAATTTTGATGGTCATCACC
1 ATCCCTTTTCAT-ATGTTGATGGTCATCACC
*
113498076 ATCCCTTTTCAT-TGTTGATGGTCGTCACC
1 ATCCCTTTTCATATGTTGATGGTCATCACC
113498105 ATCCCTTTTCATA
1 ATCCCTTTTCATA
113498118 GTTTGATAGC
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
29 27 0.69
31 12 0.31
ACGTcount: A:0.19, C:0.27, G:0.11, T:0.42
Consensus pattern (30 bp):
ATCCCTTTTCATATGTTGATGGTCATCACC
Found at i:113500644 original size:12 final size:12
Alignment explanation
Indices: 113500627--113500655 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
113500617 CAATATCACC
113500627 AATCAATTTCAT
1 AATCAATTTCAT
113500639 AATCAATTTCAT
1 AATCAATTTCAT
113500651 -ATCAA
1 AATCAA
113500656 AGCATACCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.38
Consensus pattern (12 bp):
AATCAATTTCAT
Found at i:113501464 original size:43 final size:42
Alignment explanation
Indices: 113501393--113501562 Score: 175
Period size: 43 Copynumber: 4.0 Consensus size: 42
113501383 TCGTAAACTC
* * **
113501393 ATACAATGCCAATGTCCCAGAC-GTGGTCTTACATGTTATCAA
1 ATACGATGCCAATGTCCCAGACAG-GGTCTTACACGAAATCAA
* * *
113501435 ATATCGATGCCATTATCCCAGACAGGGTCTTACACGAAATCAT
1 ATA-CGATGCCAATGTCCCAGACAGGGTCTTACACGAAATCAA
*
113501478 ATACGATGCCAATGTCCCAGACATGGTCTTACACGTAAATCTCAA
1 ATACGATGCCAATGTCCCAGACAGGGTCTTACACG-AAA--TCAA
* *
113501523 AT-CGATGCCAAAGTCCCAAAC-GTGGTCTTACACGAAATCA
1 ATACGATGCCAATGTCCCAGACAG-GGTCTTACACGAAATCA
113501563 CATATCGGAA
Statistics
Matches: 108, Mismatches: 14, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
41 3 0.03
42 32 0.30
43 39 0.36
44 29 0.27
45 5 0.05
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (42 bp):
ATACGATGCCAATGTCCCAGACAGGGTCTTACACGAAATCAA
Found at i:113501557 original size:86 final size:85
Alignment explanation
Indices: 113501393--113501562 Score: 220
Period size: 86 Copynumber: 2.0 Consensus size: 85
113501383 TCGTAAACTC
* * * * *
113501393 ATACAATGCCAATGTCCCAGACGTGGTCTTACATGTTATCAAATATCGATGCCATTATCCCAGAC
1 ATACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCATAATCCCAAAC
113501458 AGGGTCTTACACGAAATCAT
66 AGGGTCTTACACGAAATCAT
* *
113501478 ATACGATGCCAATGTCCCAGACATGGTCTTACACGTAAATCTCAA-ATCGATGCCA-AAGTCCCA
1 ATACAATGCCAATGTCCCAGACATGGTCTTACACGT-AATC-AAATATCGATGCCATAA-TCCCA
113501541 AAC-GTGGTCTTACACGAAATCA
63 AACAG-GGTCTTACACGAAATCA
113501563 CATATCGGAA
Statistics
Matches: 74, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
85 35 0.47
86 37 0.50
87 2 0.03
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (85 bp):
ATACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCATAATCCCAAAC
AGGGTCTTACACGAAATCAT
Found at i:113502306 original size:20 final size:18
Alignment explanation
Indices: 113502269--113502311 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
113502259 TCAAAGCAAC
113502269 AATCA-CAAAAACGTAAA
1 AATCATCAAAAACGTAAA
113502286 AATCATCAAAAACGATCAAA
1 AATCATCAAAAACG-T-AAA
113502306 AATCAT
1 AATCAT
113502312 ATTTTAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.22
18 8 0.35
19 1 0.04
20 9 0.39
ACGTcount: A:0.60, C:0.19, G:0.05, T:0.16
Consensus pattern (18 bp):
AATCATCAAAAACGTAAA
Found at i:113505521 original size:18 final size:19
Alignment explanation
Indices: 113505486--113505523 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
113505476 TGCAAATGAA
*
113505486 TCATTTCTCATTTTCATTT
1 TCATTTCTCATTTCCATTT
113505505 TCATTTC-CATTTCCATTT
1 TCATTTCTCATTTCCATTT
113505523 T
1 T
113505524 GAGAAAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.61
Consensus pattern (19 bp):
TCATTTCTCATTTCCATTT
Found at i:113509844 original size:101 final size:101
Alignment explanation
Indices: 113509669--113509866 Score: 396
Period size: 101 Copynumber: 2.0 Consensus size: 101
113509659 AAGTTGTACA
113509669 TAAGTAAGGTAGCTTTATCGTTATTATGTGTTGAATGATTTATTTTGCATAATATGGTTGAATAT
1 TAAGTAAGGTAGCTTTATCGTTATTATGTGTTGAATGATTTATTTTGCATAATATGGTTGAATAT
113509734 GATTATGAATAATGTATGATGAAATTAATGCGGACG
66 GATTATGAATAATGTATGATGAAATTAATGCGGACG
113509770 TAAGTAAGGTAGCTTTATCGTTATTATGTGTTGAATGATTTATTTTGCATAATATGGTTGAATAT
1 TAAGTAAGGTAGCTTTATCGTTATTATGTGTTGAATGATTTATTTTGCATAATATGGTTGAATAT
113509835 GATTATGAATAATGTATGATGAAATTAATGCG
66 GATTATGAATAATGTATGATGAAATTAATGCG
113509867 ATAAATTCCC
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
101 97 1.00
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.41
Consensus pattern (101 bp):
TAAGTAAGGTAGCTTTATCGTTATTATGTGTTGAATGATTTATTTTGCATAATATGGTTGAATAT
GATTATGAATAATGTATGATGAAATTAATGCGGACG
Found at i:113509985 original size:48 final size:48
Alignment explanation
Indices: 113509924--113510348 Score: 403
Period size: 48 Copynumber: 8.9 Consensus size: 48
113509914 ACATTTGGGT
* * * *
113509924 GATATGTGTGCCAGTGTAAGACCATGTTTGGGACATGACATCGGCCAC
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
* * * * * *
113509972 AATATGAGAGCCAGTGTAGGACCATGTTTGGAACATGGCATCGGCGAT
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
* * *
113510020 GTTGTGAGAGCCA---AAAGACCATGTCTGGGACATGGCATCGGCCAC
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
* * * ** *
113510065 GATATGAGAGCCAGTGTAAGACTATGTTTGGAACATGGCATCGGTGAT
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
* * * * *
113510113 GTTGTGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATC-GACATT
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-C
* * * *
113510161 GATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCAC
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
* * *
113510209 -ATTATGAGAGCTAGTGTAAGACCATGTCTGAGACATGGCATCGG-CATT
1 GA-TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-C
** * * * *
113510257 GGGATGTGAGCTAGTGTAAGACCATGTCTGGGACTTGGCATCGGCCTC
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
** * * *
113510305 GACGTGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGG
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG
113510349 TAATTCACCC
Statistics
Matches: 307, Mismatches: 61, Indels: 18
0.80 0.16 0.05
Matches are distributed among these distances:
45 37 0.12
47 5 0.02
48 261 0.85
49 4 0.01
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (48 bp):
GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
Found at i:113510608 original size:26 final size:26
Alignment explanation
Indices: 113510572--113510625 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
113510562 TGGGACGATA
113510572 TTAAAATCTTTGGTTTATTGAAATCT
1 TTAAAATCTTTGGTTTATTGAAATCT
113510598 TTAAAATCTTTGGTTTATTGAAATCT
1 TTAAAATCTTTGGTTTATTGAAATCT
113510624 TT
1 TT
113510626 GGTTTATACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.30, C:0.07, G:0.11, T:0.52
Consensus pattern (26 bp):
TTAAAATCTTTGGTTTATTGAAATCT
Found at i:113512697 original size:40 final size:40
Alignment explanation
Indices: 113512652--113512790 Score: 129
Period size: 40 Copynumber: 3.5 Consensus size: 40
113512642 TTGTCTGCAA
* *
113512652 TACTAGCAGTTTATCTGCATTATTGGTGGCTTGTCCACAT
1 TACTAGCAGTTTATCTGCAATACTGGTGGCTTGTCCACAT
* ** * *
113512692 TACTAGTAACTTGTCTGCAATACTGGTGGCTTGTCCAGAT
1 TACTAGCAGTTTATCTGCAATACTGGTGGCTTGTCCACAT
* * * * *
113512732 TACTGGTA-TCTTGTCTACAATACTGATGGCTTGTCCACAT
1 TACTAGCAGT-TTATCTGCAATACTGGTGGCTTGTCCACAT
*
113512772 TTCT-GACAGTTTATCTGCA
1 TACTAG-CAGTTTATCTGCA
113512791 TTAATGATTG
Statistics
Matches: 80, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
39 1 0.01
40 78 0.98
41 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.38
Consensus pattern (40 bp):
TACTAGCAGTTTATCTGCAATACTGGTGGCTTGTCCACAT
Found at i:113512724 original size:20 final size:20
Alignment explanation
Indices: 113512602--113512766 Score: 68
Period size: 20 Copynumber: 8.2 Consensus size: 20
113512592 TACTAATAGG
* * *
113512602 TTGTCTGTAATTCTGGTTGC
1 TTGTCTGCAATACTGGTGGC
**
113512622 TTGTCTAG-AATACTAGCAGG-
1 TTGTCT-GCAATACT-GGTGGC
* ** *
113512642 TTGTCTGCAATACTAGCAGT
1 TTGTCTGCAATACTGGTGGC
* * *
113512662 TTATCTGCATTATTGGTGGC
1 TTGTCTGCAATACTGGTGGC
** * * **
113512682 TTGTCCACATTACTAGTAAC
1 TTGTCTGCAATACTGGTGGC
113512702 TTGTCTGCAATACTGGTGGC
1 TTGTCTGCAATACTGGTGGC
**
113512722 TTGTC--CAGATTACTGGTATC
1 TTGTCTGCA-A-TACTGGTGGC
* *
113512742 TTGTCTACAATACTGATGGC
1 TTGTCTGCAATACTGGTGGC
113512762 TTGTC
1 TTGTC
113512767 CACATTTCTG
Statistics
Matches: 104, Mismatches: 33, Indels: 16
0.68 0.22 0.10
Matches are distributed among these distances:
18 2 0.02
19 3 0.03
20 93 0.89
21 4 0.04
22 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.39
Consensus pattern (20 bp):
TTGTCTGCAATACTGGTGGC
Found at i:113513641 original size:186 final size:186
Alignment explanation
Indices: 113513314--113513717 Score: 559
Period size: 186 Copynumber: 2.2 Consensus size: 186
113513304 TACTTTTCTC
* * * **
113513314 CAAAACTTTCACTCCCCTCCCATCCCACCCCTATCTACCCCAAACCTATTTCCCCCCATTTTTTT
1 CAAAACTTTTACTCCCCTCCCATCCCACCCCTATCTACCCCAAACCCA-TACCCCAAATTTTTTT
* *
113513379 AAAAAATATTTTCCCTCCAAAATTTTACTCTCCCCATTTACTTTCCCCAAAATTTTACTCCTCTA
65 AAAAAATATTTTCCCTCAAAAATTTTACTCTCCCCATTTACTTTCCCCAAAATTTTACTCCCCTA
* * *
113513444 AATACCCTC-AAATTTTTT-TTATTCCCCCCAAAACTTTTACTCCCTCCTACTTTCCCCT
130 AAAACCCTCAAAATTTTTTATT-TCCCCCCCAAAA-TTTTACTCCCTCCT-CCTTCCCCT
*
113513502 CAAAACTTTTACTCCCCTCCCATCCCACCCCTATCTACCCCACACCCA-ACCTCCAAATTTTTTT
1 CAAAACTTTTACTCCCCTCCCATCCCACCCCTATCTACCCCAAACCCATACC-CCAAATTTTTTT
*** * *
113513566 -TTGAATACTTTT-CCTGAAAAATTTTACTC-CCCCATTTATTTTTCCCCAAAATTTTACTCCCC
65 AAAAAATA-TTTTCCCTCAAAAATTTTACTCTCCCCATTTA-CTTTCCCCAAAATTTTACTCCCC
113513628 TAAAAACCCTCAAAATTTTTTATTTCCCCCCCAAAATTTTACTCCCTCCTCCTTCCCCT
128 TAAAAACCCTCAAAATTTTTTATTTCCCCCCCAAAATTTTACTCCCTCCTCCTTCCCCT
113513687 CAAAACTTTTACTCCCCTCCCATCCCACCCC
1 CAAAACTTTTACTCCCCTCCCATCCCACCCC
113513718 CATATTTCTG
Statistics
Matches: 195, Mismatches: 16, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
185 48 0.25
186 66 0.34
187 34 0.17
188 47 0.24
ACGTcount: A:0.25, C:0.40, G:0.00, T:0.35
Consensus pattern (186 bp):
CAAAACTTTTACTCCCCTCCCATCCCACCCCTATCTACCCCAAACCCATACCCCAAATTTTTTTA
AAAAATATTTTCCCTCAAAAATTTTACTCTCCCCATTTACTTTCCCCAAAATTTTACTCCCCTAA
AAACCCTCAAAATTTTTTATTTCCCCCCCAAAATTTTACTCCCTCCTCCTTCCCCT
Found at i:113519889 original size:26 final size:26
Alignment explanation
Indices: 113519860--113519941 Score: 128
Period size: 26 Copynumber: 3.2 Consensus size: 26
113519850 TGGTACAAAT
* *
113519860 TGATAATGGGTTAGGCAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
113519886 TGATAATGGATTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
* *
113519912 CGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
113519938 TGAT
1 TGAT
113519942 GGCCATTTCA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.32, C:0.10, G:0.24, T:0.34
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:113524447 original size:39 final size:39
Alignment explanation
Indices: 113524365--113524454 Score: 119
Period size: 39 Copynumber: 2.3 Consensus size: 39
113524355 CGTTTTTATG
* *
113524365 AAAAATGCTGCTAAAGATCGAGCATTAGCGCGCTTTGTA
1 AAAAATGCCGCTAAAGATCGAGCATTAGCGCACTTTGTA
*
113524404 AAAAATGCCGCTAAAGATCGAGCATTAGTGGCACTTT-TCA
1 AAAAATGCCGCTAAAGATCGAGCATTAG-CGCACTTTGT-A
*
113524444 AAAAACGCCGC
1 AAAAATGCCGC
113524455 AAAAAAGTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
39 28 0.62
40 17 0.38
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (39 bp):
AAAAATGCCGCTAAAGATCGAGCATTAGCGCACTTTGTA
Found at i:113524523 original size:40 final size:40
Alignment explanation
Indices: 113524479--113524590 Score: 143
Period size: 40 Copynumber: 2.8 Consensus size: 40
113524469 AAACGACGGC
* * * *
113524479 ATTAGCGGCGCTTTTTGAAAAATGCCACAACAGGTCGAGA
1 ATTAGCGGCGCTTTTTGAAAAACGCCACAAAAGATCAAGA
* *
113524519 ATTAGCGGCGCTTTTTGAAAAACGCCGCAAAAGATCAAGC
1 ATTAGCGGCGCTTTTTGAAAAACGCCACAAAAGATCAAGA
* * *
113524559 ATTAGCGGCTCTTTTCGAAAAACGCCGCAAAA
1 ATTAGCGGCGCTTTTTGAAAAACGCCACAAAA
113524591 AAATTTTATT
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.21
Consensus pattern (40 bp):
ATTAGCGGCGCTTTTTGAAAAACGCCACAAAAGATCAAGA
Found at i:113524619 original size:14 final size:14
Alignment explanation
Indices: 113524600--113524631 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
113524590 AAAATTTTAT
*
113524600 TTTATGATTTAGGG
1 TTTATGATTTAAGG
113524614 TTTATGATTTAAGG
1 TTTATGATTTAAGG
113524628 TTTA
1 TTTA
113524632 ATGTCTATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.22, T:0.53
Consensus pattern (14 bp):
TTTATGATTTAAGG
Found at i:113524729 original size:28 final size:28
Alignment explanation
Indices: 113524686--113524743 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
113524676 TATTTTGTGA
*
113524686 TTAGAGTTTTGAGTTTAGGGTGTATGGT
1 TTAGAGTTTGGAGTTTAGGGTGTATGGT
* * * *
113524714 TTAGAGTTTGGGGTTTGGGGTTTATTGT
1 TTAGAGTTTGGAGTTTAGGGTGTATGGT
113524742 TT
1 TT
113524744 TATAGTTAGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.14, C:0.00, G:0.36, T:0.50
Consensus pattern (28 bp):
TTAGAGTTTGGAGTTTAGGGTGTATGGT
Found at i:113524947 original size:21 final size:21
Alignment explanation
Indices: 113524921--113524967 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
113524911 TTAGGGTGTA
*
113524921 GGTTTATGGTCTAGGATTTAG
1 GGTTTATAGTCTAGGATTTAG
* * *
113524942 GGTTTATAGTTTATGATTTGG
1 GGTTTATAGTCTAGGATTTAG
113524963 GGTTT
1 GGTTT
113524968 GGGGTTTAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.17, C:0.02, G:0.32, T:0.49
Consensus pattern (21 bp):
GGTTTATAGTCTAGGATTTAG
Found at i:113525056 original size:15 final size:15
Alignment explanation
Indices: 113525036--113525067 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
113525026 TGGATTTTTT
*
113525036 ATAATATAAATCTAA
1 ATAATATAAATATAA
113525051 ATAATATAAATATAA
1 ATAATATAAATATAA
113525066 AT
1 AT
113525068 TATTATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (15 bp):
ATAATATAAATATAA
Found at i:113525614 original size:8 final size:8
Alignment explanation
Indices: 113525603--113525657 Score: 55
Period size: 8 Copynumber: 7.2 Consensus size: 8
113525593 AAAATCTTAA
113525603 AAAAAATT
1 AAAAAATT
113525611 --AAAATT
1 AAAAAATT
*
113525617 TAAAAATT
1 AAAAAATT
113525625 -AAAAATT
1 AAAAAATT
113525632 AAAAAA-T
1 AAAAAATT
113525639 AAAAAACTT
1 AAAAAA-TT
*
113525648 AAAAATTT
1 AAAAAATT
113525656 AA
1 AA
113525658 TATTTAATAT
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
6 6 0.15
7 14 0.34
8 15 0.37
9 6 0.15
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (8 bp):
AAAAAATT
Found at i:113525629 original size:15 final size:15
Alignment explanation
Indices: 113525604--113525664 Score: 70
Period size: 15 Copynumber: 4.1 Consensus size: 15
113525594 AAATCTTAAA
113525604 AAAAATT-AAAATTT
1 AAAAATTAAAAATTT
*
113525618 AAAAATTAAAAATTA
1 AAAAATTAAAAATTT
* *
113525633 AAAAATAAAAAACTT
1 AAAAATTAAAAATTT
* *
113525648 AAAAATTTAATATTT
1 AAAAATTAAAAATTT
113525663 AA
1 AA
113525665 TATTTAATAT
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
14 7 0.18
15 31 0.82
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (15 bp):
AAAAATTAAAAATTT
Found at i:113537161 original size:30 final size:30
Alignment explanation
Indices: 113537127--113537187 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
113537117 TCCTTAACTC
113537127 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
113537157 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
113537187 A
1 A
113537188 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:113541954 original size:17 final size:18
Alignment explanation
Indices: 113541912--113541951 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
113541902 TCACTATCAT
*
113541912 TAATAATTTTTGTGACGA
1 TAATAATTTTTGTCACGA
*
113541930 T-ATAATTTTTGTCACTA
1 TAATAATTTTTGTCACGA
113541947 TAATA
1 TAATA
113541952 TTTACATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.35, C:0.07, G:0.10, T:0.47
Consensus pattern (18 bp):
TAATAATTTTTGTCACGA
Found at i:113543599 original size:18 final size:18
Alignment explanation
Indices: 113543563--113543601 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
113543553 GCTTCTCACA
*
113543563 TTTTTTTCATTTTTGTAT
1 TTTTTTTCATTTTTATAT
113543581 TTTTTTCTCA-TTTTATAT
1 TTTTTT-TCATTTTTATAT
113543599 TTT
1 TTT
113543602 GAAAGCCTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.13, C:0.08, G:0.03, T:0.77
Consensus pattern (18 bp):
TTTTTTTCATTTTTATAT
Found at i:113547268 original size:25 final size:25
Alignment explanation
Indices: 113547240--113547287 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
113547230 GGGCCAAACA
*
113547240 GAATATGCCATAAAGGCAACATATG
1 GAATATGCCACAAAGGCAACATATG
*
113547265 GAATATGCCACAAAGGTAACATA
1 GAATATGCCACAAAGGCAACATA
113547288 CAAAGTCATG
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:0.46, C:0.17, G:0.19, T:0.19
Consensus pattern (25 bp):
GAATATGCCACAAAGGCAACATATG
Found at i:113549103 original size:40 final size:40
Alignment explanation
Indices: 113549033--113549208 Score: 212
Period size: 40 Copynumber: 4.4 Consensus size: 40
113549023 ACTCGATATC
* * * *
113549033 TCACACACTAAGTGTCGTA-CTAGCCGAAGCTATCTC-AA
1 TCACACACTAAGTGCCATATATAGCCGAAGCTATATCGAA
* * *
113549071 GTCGCACACTAAGTGCCATATATAGCCGAAGCTATGTTGAA
1 -TCACACACTAAGTGCCATATATAGCCGAAGCTATATCGAA
* **
113549112 TCACACACTAAGTGCCATATATAGCTGAAGCTATATCTTA
1 TCACACACTAAGTGCCATATATAGCCGAAGCTATATCGAA
* * *
113549152 TCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCGTA
1 TCACACACTAAGTGCCATATATAGCCGAAGCTATATCGAA
113549192 TCACACACTAAGTGCCA
1 TCACACACTAAGTGCCA
113549209 CAAATAACCG
Statistics
Matches: 118, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
39 16 0.14
40 100 0.85
41 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (40 bp):
TCACACACTAAGTGCCATATATAGCCGAAGCTATATCGAA
Found at i:113549165 original size:80 final size:79
Alignment explanation
Indices: 113549033--113549208 Score: 255
Period size: 80 Copynumber: 2.2 Consensus size: 79
113549023 ACTCGATATC
* * * *
113549033 TCACACACTAAGTGTCGTACTAGCCGAAGCTATCTCAAGTCGCACACTAAGTGCCATATATAGCC
1 TCACACACTAAGTGCCATAATAGCCGAAGCTATATCAAGTCGCACACTAAGTGCCATATATAGCC
*
113549098 GAAGCTATGTTGAA
66 GAAGCTATGTCGAA
* *
113549112 TCACACACTAAGTGCCATATATAGCTGAAGCTATATCTTA-TCGCACACTAAGTGCCATATATAG
1 TCACACACTAAGTGCCATA-ATAGCCGAAGCTATATC-AAGTCGCACACTAAGTGCCATATATAG
*
113549176 CCGAAGCTATGTCGTA
64 CCGAAGCTATGTCGAA
113549192 TCACACACTAAGTGCCA
1 TCACACACTAAGTGCCA
113549209 CAAATAACCG
Statistics
Matches: 87, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
79 17 0.20
80 69 0.79
81 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (79 bp):
TCACACACTAAGTGCCATAATAGCCGAAGCTATATCAAGTCGCACACTAAGTGCCATATATAGCC
GAAGCTATGTCGAA
Found at i:113550030 original size:13 final size:14
Alignment explanation
Indices: 113550006--113550034 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
113549996 ATTTGCTAAT
113550006 TTACTAAATTAACC
1 TTACTAAATTAACC
113550020 TTACT-AATTAACC
1 TTACTAAATTAACC
113550033 TT
1 TT
113550035 TAAAACAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (14 bp):
TTACTAAATTAACC
Found at i:113553948 original size:20 final size:20
Alignment explanation
Indices: 113553923--113553963 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
113553913 TCGAATTCAC
113553923 CAATTCTAATGGAAAATCAT
1 CAATTCTAATGGAAAATCAT
113553943 CAATTCTAATGGAAAATCAT
1 CAATTCTAATGGAAAATCAT
113553963 C
1 C
113553964 CATAAAATGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.17, G:0.10, T:0.29
Consensus pattern (20 bp):
CAATTCTAATGGAAAATCAT
Found at i:113557613 original size:13 final size:13
Alignment explanation
Indices: 113557595--113557619 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
113557585 TGTGGGTTCA
113557595 CACGACCGTGTCG
1 CACGACCGTGTCG
113557608 CACGACCGTGTC
1 CACGACCGTGTC
113557620 TAGCTTCGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.40, G:0.28, T:0.16
Consensus pattern (13 bp):
CACGACCGTGTCG
Found at i:113566132 original size:28 final size:28
Alignment explanation
Indices: 113566091--113566146 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
113566081 ATGTCGTTGA
* *
113566091 ATACTCAATGTCTCACACACCAAGTGTC
1 ATACTCAATATCTCAAACACCAAGTGTC
* *
113566119 ATACTCGATATCTCAAACACTAAGTGTC
1 ATACTCAATATCTCAAACACCAAGTGTC
113566147 GTACCAGCCG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.34, C:0.29, G:0.11, T:0.27
Consensus pattern (28 bp):
ATACTCAATATCTCAAACACCAAGTGTC
Found at i:113566201 original size:40 final size:40
Alignment explanation
Indices: 113566156--113566306 Score: 171
Period size: 40 Copynumber: 3.8 Consensus size: 40
113566146 CGTACCAGCC
* *
113566156 GAAGCTATCTC-AAGTCTCACATTAAGTGCCATATATAGCA
1 GAAGCTATATCGAA-TCGCACATTAAGTGCCATATATAGCA
* *
113566196 GAAGCTATGTCGAATCGCACACTT-AGTGCCATATATAGCT
1 GAAGCTATATCGAATCGCACA-TTAAGTGCCATATATAGCA
* *
113566236 GAAGCTATATCGTATCGCACATTAAGTGCCATATATAGCC
1 GAAGCTATATCGAATCGCACATTAAGTGCCATATATAGCA
* * ** *
113566276 GAAGCTATGTCGTATTACACACTAAGTGCCA
1 GAAGCTATATCGAATCGCACATTAAGTGCCA
113566307 CAAACAACCG
Statistics
Matches: 98, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
39 2 0.02
40 92 0.94
41 4 0.04
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (40 bp):
GAAGCTATATCGAATCGCACATTAAGTGCCATATATAGCA
Found at i:113567131 original size:13 final size:14
Alignment explanation
Indices: 113567113--113567141 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
113567103 CTAATTTACT
113567113 AAATTAACC-TTAA
1 AAATTAACCTTTAA
113567126 AAATTAACCTTTAA
1 AAATTAACCTTTAA
113567140 AA
1 AA
113567142 CAATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (14 bp):
AAATTAACCTTTAA
Found at i:113570711 original size:18 final size:19
Alignment explanation
Indices: 113570675--113570713 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
113570665 GGTTTCTTCA
*
113570675 TTTTTCATTAAGGAGAATT
1 TTTTTCATTAAGGAAAATT
*
113570694 TTTTTCATTAA-TAAAATT
1 TTTTTCATTAAGGAAAATT
113570712 TT
1 TT
113570714 CAACTTTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.33, C:0.05, G:0.08, T:0.54
Consensus pattern (19 bp):
TTTTTCATTAAGGAAAATT
Found at i:113581914 original size:13 final size:13
Alignment explanation
Indices: 113581896--113581925 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
113581886 TGTTAAATGA
113581896 ACACGGGCTAGAC
1 ACACGGGCTAGAC
113581909 ACACGGGCTAGAC
1 ACACGGGCTAGAC
113581922 ACAC
1 ACAC
113581926 AGGCGTGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.33, G:0.27, T:0.07
Consensus pattern (13 bp):
ACACGGGCTAGAC
Found at i:113582846 original size:16 final size:16
Alignment explanation
Indices: 113582819--113582878 Score: 68
Period size: 17 Copynumber: 3.7 Consensus size: 16
113582809 TTAATTTAAG
113582819 TTATTT-ATTTATATT
1 TTATTTAATTTATATT
*
113582834 TTCTTTAATTTATATT
1 TTATTTAATTTATATT
*
113582850 TTATTTTATTTTATTATT
1 TTA-TTTAATTTA-TATT
*
113582868 TTATTTTATTT
1 TTATTTAATTT
113582879 TTTTGATTCC
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
15 5 0.14
16 11 0.30
17 14 0.38
18 7 0.19
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (16 bp):
TTATTTAATTTATATT
Found at i:113582854 original size:5 final size:5
Alignment explanation
Indices: 113582822--113582879 Score: 66
Period size: 5 Copynumber: 11.6 Consensus size: 5
113582812 ATTTAAGTTA
* *
113582822 TTTAT TTATAT TTTCT TTAAT TTATAT TTTAT TTTAT TTTA- -TTAT TTTAT
1 TTTAT TT-TAT TTTAT TTTAT TT-TAT TTTAT TTTAT TTTAT TTTAT TTTAT
113582872 TTTAT TTT
1 TTTAT TTT
113582880 TTTGATTCCT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
3 3 0.07
5 33 0.73
6 9 0.20
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:113582869 original size:18 final size:17
Alignment explanation
Indices: 113582822--113582879 Score: 75
Period size: 18 Copynumber: 3.5 Consensus size: 17
113582812 ATTTAAGTTA
*
113582822 TTTA-TTTATATTTT-C
1 TTTATTTTATATTTTAT
*
113582837 TTTAATTTATATTTTAT
1 TTTATTTTATATTTTAT
113582854 TTTATTTTATTATTTTAT
1 TTTATTTTA-TATTTTAT
113582872 TTTATTTT
1 TTTATTTT
113582880 TTTGATTCCT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
15 4 0.11
16 10 0.26
17 8 0.21
18 16 0.42
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTATTTTATATTTTAT
Found at i:113585172 original size:17 final size:17
Alignment explanation
Indices: 113585150--113585210 Score: 68
Period size: 17 Copynumber: 3.4 Consensus size: 17
113585140 CATAACATTA
113585150 AAAATATATATAATAAT
1 AAAATATATATAATAAT
*
113585167 AAAATATACATAATTATAT
1 AAAATATATATAA-TA-AT
* *
113585186 AATATATATATTATAAT
1 AAAATATATATAATAAT
113585203 AATAATAT
1 AA-AATAT
113585211 GAAAAAGAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
17 16 0.44
18 8 0.22
19 12 0.33
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (17 bp):
AAAATATATATAATAAT
Found at i:113587439 original size:68 final size:71
Alignment explanation
Indices: 113587298--113587493 Score: 179
Period size: 68 Copynumber: 2.7 Consensus size: 71
113587288 AATTAAAAGC
* * * * ***
113587298 AGAAATTAAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTG-AAAAGTAGATTTCGA
1 AGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT-CTTTGAAAAAGTAAAAAACGA
113587362 AAAACG-
65 AAAACGA
*
113587368 A-AAATT-AAAGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAAATTAAAAAACAGA
1 AGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAAAGTAAAAAAC-GA
*
113587431 AATTGAA-AA
65 AA---AACGA
* *
113587440 TAGAAATTAAAAAGACTCAACTCACCTCTCGCAATATGAATTGA-CTTTTGAAAA
1 -AGAAATT-AAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATC-TTTGAAAA
113587494 TAGAATTGAA
Statistics
Matches: 104, Mismatches: 11, Indels: 16
0.79 0.08 0.12
Matches are distributed among these distances:
67 4 0.04
68 41 0.39
69 9 0.09
70 1 0.01
72 2 0.02
73 1 0.01
74 5 0.05
75 1 0.01
76 40 0.38
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.26
Consensus pattern (71 bp):
AGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAAAGTAAAAAACGAA
AAACGA
Found at i:113587686 original size:71 final size:71
Alignment explanation
Indices: 113587455--113587703 Score: 311
Period size: 71 Copynumber: 3.5 Consensus size: 71
113587445 ATTAAAAAGA
* * * *
113587455 CTCAACTCACCTCTCGCAATATGAATTGACTTTTGAAAATAGAATTGAAAATACCTTAGCGTGCC
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATAGAATTGAAATTACCTCAGCGTGCC
* *
113587520 GCAAGG
66 TCGAGG
* * * *
113587526 CTCAACTCACCTCTCGTAATATGAGTTGATTTTAGATTTAATAGGAATTGAAATTACCTCAGTGT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA--AAATA-GAATTGAAATTACCTCAGCGT
113587591 GCCTCGAGG
63 GCCTCGAGG
* * * *
113587600 TTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACATA-AATTGAAATTACCTCAACGTGT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA-ATAGAATTGAAATTACCTCAGCGTGC
*
113587664 CTTGAGG
65 CTCGAGG
*
113587671 CTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTT
113587704 CTTGGAAAAC
Statistics
Matches: 152, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
71 87 0.57
72 1 0.01
73 7 0.05
74 57 0.38
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.32
Consensus pattern (71 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATAGAATTGAAATTACCTCAGCGTGCC
TCGAGG
Found at i:113587835 original size:160 final size:160
Alignment explanation
Indices: 113587571--113588752 Score: 2271
Period size: 160 Copynumber: 7.4 Consensus size: 160
113587561 ATTTAATAGG
* * *
113587571 AATTGAAATTACCTCAGTGTG-CCTCGAGGTTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AATTGAAAATACCTCAGCGTGCCCT-GAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
113587635 AAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA
65 AAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA
113587700 TTTTCTTGGAAAACATGAATTAAAAAGCAGA
130 TTTTCTTGGAAAACATGAATTAAAAAGCAGA
113587731 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
*
113587796 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGCTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
113587861 TTTCTTGGAAAACATGAATTAAAAAGCAGA
131 TTTCTTGGAAAACATGAATTAAAAAGCAGA
113587891 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
113587956 AACAT-AATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
113588020 TTTCTTGGAAAACATGAATTAAAAAGCAGA
131 TTTCTTGGAAAACATGAATTAAAAAGCAGA
113588050 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
113588115 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
113588180 TTTCTTGGAAAACATGAATTAAAAAGCAGA
131 TTTCTTGGAAAACATGAATTAAAAAGCAGA
113588210 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
113588275 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
113588340 TTTCTTGGAAAACATGAATTAAAAAGCAGA
131 TTTCTTGGAAAACATGAATTAAAAAGCAGA
113588370 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
113588435 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
113588500 TTTCTTGGAAAACATGAATTAAAAAGCAGA
131 TTTCTTGGAAAACATGAATTAAAAAGCAGA
*
113588530 AATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
113588595 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
113588660 TTTCTTGGAAAACATGAATTAAAAAGCAGA
131 TTTCTTGGAAAACATGAATTAAAAAGCAGA
* *
113588690 AATTGAAAATACCTCAGCGTACCCTGAGGCTC-ACTCACTTCTCGCAATATGGGTTGATTTTTG
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
113588753 GAAAAAACAA
Statistics
Matches: 1011, Mismatches: 9, Indels: 5
0.99 0.01 0.00
Matches are distributed among these distances:
159 188 0.19
160 820 0.81
161 3 0.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (160 bp):
AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
TTTCTTGGAAAACATGAATTAAAAAGCAGA
Found at i:113587846 original size:71 final size:71
Alignment explanation
Indices: 113587730--113587863 Score: 207
Period size: 71 Copynumber: 1.9 Consensus size: 71
113587720 TAAAAAGCAG
* *
113587730 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGCTGATTTTTG
113587795 AAACAT
66 AAACAT
* * *
113587801 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA-TCTCTCGCAATATGAGCTGATTTT
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACT-TCTCGCAATATGAGCTGATTTT
113587864 CTTGGAAAAC
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
70 1 0.02
71 56 0.98
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.31
Consensus pattern (71 bp):
AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGCTGATTTTTG
AAACAT
Found at i:113588005 original size:70 final size:70
Alignment explanation
Indices: 113587891--113588022 Score: 210
Period size: 70 Copynumber: 1.9 Consensus size: 70
113587881 AAAAAGCAGA
* * *
113587891 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGA
113587956 AACAT
66 AACAT
* * *
113587961 AATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 AATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
113588023 CTTGGAAAAC
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
70 56 1.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (70 bp):
AATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGA
AACAT
Found at i:113588165 original size:71 final size:71
Alignment explanation
Indices: 113588049--113588182 Score: 214
Period size: 71 Copynumber: 1.9 Consensus size: 71
113588039 TAAAAAGCAG
* * *
113588049 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
113588114 AAACAT
66 AAACAT
* * *
113588120 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
113588183 CTTGGAAAAC
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 57 1.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (71 bp):
AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
AAACAT
Found at i:113588325 original size:71 final size:71
Alignment explanation
Indices: 113588209--113588342 Score: 214
Period size: 71 Copynumber: 1.9 Consensus size: 71
113588199 TAAAAAGCAG
* * *
113588209 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
113588274 AAACAT
66 AAACAT
* * *
113588280 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
113588343 CTTGGAAAAC
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 57 1.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (71 bp):
AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
AAACAT
Found at i:113588485 original size:71 final size:71
Alignment explanation
Indices: 113588369--113588502 Score: 214
Period size: 71 Copynumber: 1.9 Consensus size: 71
113588359 TAAAAAGCAG
* * *
113588369 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
113588434 AAACAT
66 AAACAT
* * *
113588440 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
113588503 CTTGGAAAAC
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 57 1.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (71 bp):
AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
AAACAT
Found at i:113588645 original size:71 final size:71
Alignment explanation
Indices: 113588529--113588662 Score: 223
Period size: 71 Copynumber: 1.9 Consensus size: 71
113588519 TAAAAAGCAG
* * *
113588529 AAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
113588594 AAACAT
66 AAACAT
* *
113588600 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 AAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
113588663 CTTGGAAAAC
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
71 58 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.31
Consensus pattern (71 bp):
AAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
AAACAT
Found at i:113588728 original size:479 final size:479
Alignment explanation
Indices: 113587571--113588752 Score: 2276
Period size: 479 Copynumber: 2.5 Consensus size: 479
113587561 ATTTAATAGG
* * * *
113587571 AATTGAAATTACCTCAGTGTGCCTCGAGGTTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
113587636 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
113587701 TTTCTTGGAAAACATGAATTAAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAAC
131 TTTCTTGGAAAACATGAATTAAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAAC
113587766 TCACTTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGG
196 TCACTTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGG
*
113587831 CTCAACTCATCTCTCGCAATATGAGCTGATTTTCTTGGAAAACATGAATTAAAAAGCAGAAATTG
261 CTCAACTCACCTCTCGCAATATGAGCTGATTTTCTTGGAAAACATGAATTAAAAAGCAGAAATTG
113587896 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACAT
326 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACAT
113587961 AATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTCTT
391 AATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTCTT
113588026 GGAAAACATGAATTAAAAAGCAGA
456 GGAAAACATGAATTAAAAAGCAGA
*
113588050 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
113588115 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
113588180 TTTCTTGGAAAACATGAATTAAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAAC
131 TTTCTTGGAAAACATGAATTAAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAAC
113588245 TCACTTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGG
196 TCACTTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGG
113588310 CTCAACTCACCTCTCGCAATATGAGCTGATTTTCTTGGAAAACATGAATTAAAAAGCAGAAATTG
261 CTCAACTCACCTCTCGCAATATGAGCTGATTTTCTTGGAAAACATGAATTAAAAAGCAGAAATTG
113588375 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACAT
326 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACAT
113588440 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTCT
391 -AATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTCT
113588505 TGGAAAACATGAATTAAAAAGCAGA
455 TGGAAAACATGAATTAAAAAGCAGA
113588530 AATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
113588595 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
*
113588660 TTTCTTGGAAAACATGAATTAAAAAGCAGAAATTGAAAATACCTCAGCGTACCCTGAGGCTC-AC
131 TTTCTTGGAAAACATGAATTAAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAAC
*
113588724 TCACTTCTCGCAATATGGGTTGATTTTTG
196 TCACTTCTCGCAATATGAGTTGATTTTTG
113588753 GAAAAAACAA
Statistics
Matches: 693, Mismatches: 9, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
479 414 0.60
480 279 0.40
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (479 bp):
AATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
TTTCTTGGAAAACATGAATTAAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAAC
TCACTTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGG
CTCAACTCACCTCTCGCAATATGAGCTGATTTTCTTGGAAAACATGAATTAAAAAGCAGAAATTG
AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACAT
AATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTCTT
GGAAAACATGAATTAAAAAGCAGA
Found at i:113593992 original size:40 final size:39
Alignment explanation
Indices: 113593906--113594042 Score: 179
Period size: 40 Copynumber: 3.5 Consensus size: 39
113593896 GGACTAAGAT
* * *
113593906 CCGAAGGCGTTCGTGCGAGTTAATAAATCGGGTTAAG-C
1 CCGAAGGCATTCGTGCGAGTTACTAAACCGGGTTAAGTC
*
113593944 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-CCGGGTTAAGTC
*
113593984 CCGAAGGCATTCGTGCGAGTTACTATAACCGGGTT-TGTC
1 CCGAAGGCATTCGTGCGAGTTACTA-AACCGGGTTAAGTC
* *
113594023 CCGAAGGCATTTGAGCGAGT
1 CCGAAGGCATTCGTGCGAGT
113594043 CGTTATATCC
Statistics
Matches: 88, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
38 24 0.27
39 30 0.34
40 32 0.36
41 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGTTACTAAACCGGGTTAAGTC
Found at i:113594066 original size:78 final size:78
Alignment explanation
Indices: 113593905--113594068 Score: 188
Period size: 78 Copynumber: 2.1 Consensus size: 78
113593895 CGGACTAAGA
* * * *
113593905 TCCGAAGGCGTTCGTGCGAGTTAATAAATCGGGTTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 TCCGAAGGCATTCGTGCGAGTTAATAAACCGGGTTAAGCCCGAAGGCATTTGAGCGAGTCACTAA
*
113593970 ACCCGGGTTAAGT
66 ACCCGGGTTAAAT
* * * **
113593983 CCCGAAGGCATTCGTGCGAGTTACTATAACCGGGTT-TGTCCCGAAGGCATTTGAGCGAGTCGTT
1 TCCGAAGGCATTCGTGCGAGTTAATA-AACCGGGTTAAG-CCCGAAGGCATTTGAGCGAGTCACT
* *
113594047 ATATCC-GGTTAAAT
64 AAACCCGGGTTAAAT
113594061 TCCGAAGG
1 TCCGAAGG
113594069 TACGTGATTC
Statistics
Matches: 71, Mismatches: 13, Indels: 4
0.81 0.15 0.05
Matches are distributed among these distances:
78 38 0.54
79 33 0.46
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (78 bp):
TCCGAAGGCATTCGTGCGAGTTAATAAACCGGGTTAAGCCCGAAGGCATTTGAGCGAGTCACTAA
ACCCGGGTTAAAT
Found at i:113608145 original size:3 final size:3
Alignment explanation
Indices: 113608137--113608179 Score: 77
Period size: 3 Copynumber: 14.0 Consensus size: 3
113608127 ACAATTTAAT
113608137 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
113608180 ATTTACTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:113622662 original size:24 final size:24
Alignment explanation
Indices: 113622635--113622681 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
113622625 ATATGTTGAC
113622635 ATTCAAATCAGCACACATAGTGCT
1 ATTCAAATCAGCACACATAGTGCT
* *
113622659 ATTCAACTCCGCACACATAGTGC
1 ATTCAAATCAGCACACATAGTGC
113622682 CATACTACAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.30, G:0.13, T:0.23
Consensus pattern (24 bp):
ATTCAAATCAGCACACATAGTGCT
Found at i:113622715 original size:24 final size:24
Alignment explanation
Indices: 113622645--113622707 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
113622635 ATTCAAATCA
* * * *
113622645 GCACACATAGTGCTATTCAACTCC
1 GCACACATAGTGCCATACTACACC
113622669 GCACACATAGTGCCATACTACACC
1 GCACACATAGTGCCATACTACACC
113622693 GCACACATAGTGCCA
1 GCACACATAGTGCCA
113622708 ATGTACACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.32, C:0.35, G:0.14, T:0.19
Consensus pattern (24 bp):
GCACACATAGTGCCATACTACACC
Found at i:113630567 original size:24 final size:24
Alignment explanation
Indices: 113630540--113630586 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
113630530 ATATGTTGAC
113630540 ATTCAAATCAGCACACATAGTGCT
1 ATTCAAATCAGCACACATAGTGCT
* *
113630564 ATTCAACTCCGCACACATAGTGC
1 ATTCAAATCAGCACACATAGTGC
113630587 CATACTACAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.30, G:0.13, T:0.23
Consensus pattern (24 bp):
ATTCAAATCAGCACACATAGTGCT
Found at i:113630620 original size:24 final size:24
Alignment explanation
Indices: 113630550--113630612 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
113630540 ATTCAAATCA
* * * *
113630550 GCACACATAGTGCTATTCAACTCC
1 GCACACATAGTGCCATACTACACC
113630574 GCACACATAGTGCCATACTACACC
1 GCACACATAGTGCCATACTACACC
113630598 GCACACATAGTGCCA
1 GCACACATAGTGCCA
113630613 ATGTACACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.32, C:0.35, G:0.14, T:0.19
Consensus pattern (24 bp):
GCACACATAGTGCCATACTACACC
Found at i:113633182 original size:23 final size:25
Alignment explanation
Indices: 113633126--113633184 Score: 72
Period size: 23 Copynumber: 2.5 Consensus size: 25
113633116 GTAATTAGGT
113633126 TTAGAATTAAAAAATTAAGAATAAA
1 TTAGAATTAAAAAATTAAGAATAAA
**
113633151 TTA-AA-TAAAATGTTAA-AAT-AA
1 TTAGAATTAAAAAATTAAGAATAAA
113633172 TTAGAATTAAAAA
1 TTAGAATTAAAAA
113633185 TTTTAGGTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
21 5 0.17
22 5 0.17
23 14 0.48
24 2 0.07
25 3 0.10
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.31
Consensus pattern (25 bp):
TTAGAATTAAAAAATTAAGAATAAA
Found at i:113639142 original size:23 final size:23
Alignment explanation
Indices: 113639114--113639159 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
113639104 AACATTGTTG
113639114 GGTAAGCCACAGTTCCATCGTTT
1 GGTAAGCCACAGTTCCATCGTTT
113639137 GGTAAGCCACAGTTCCATCGTTT
1 GGTAAGCCACAGTTCCATCGTTT
113639160 TTCCCTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (23 bp):
GGTAAGCCACAGTTCCATCGTTT
Found at i:113640266 original size:26 final size:27
Alignment explanation
Indices: 113640236--113640287 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
113640226 TGGAGGAAGT
113640236 TACTG-TACTGGTGGCTTTGCCACATA
1 TACTGTTACTGGTGGCTTTGCCACATA
*
113640262 TACTGTTACTGGTGGTTTTGCCACAT
1 TACTGTTACTGGTGGCTTTGCCACAT
113640288 TTATTAATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.38
Consensus pattern (27 bp):
TACTGTTACTGGTGGCTTTGCCACATA
Found at i:113640298 original size:27 final size:27
Alignment explanation
Indices: 113640241--113640298 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
113640231 GAAGTTACTG
**
113640241 TACTGGTGGCTTTGCCACATATACTGT
1 TACTGGTGGCTTTGCCACATATACTAA
* * *
113640268 TACTGGTGGTTTTGCCACATTTATTAA
1 TACTGGTGGCTTTGCCACATATACTAA
113640295 TACT
1 TACT
113640299 AGCAGCTTTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (27 bp):
TACTGGTGGCTTTGCCACATATACTAA
Found at i:113640329 original size:26 final size:26
Alignment explanation
Indices: 113640290--113640364 Score: 78
Period size: 26 Copynumber: 2.9 Consensus size: 26
113640280 TGCCACATTT
*
113640290 ATTAATACTAGCAGCTTTGCTGCGAA
1 ATTAATACTGGCAGCTTTGCTGCGAA
* * **
113640316 ATTACTACTGGCAGCTTTGCAGCGTT
1 ATTAATACTGGCAGCTTTGCTGCGAA
* * *
113640342 ATCATTATTGGCAGCTTTGCTGC
1 ATTAATACTGGCAGCTTTGCTGC
113640365 CATATTAGTG
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (26 bp):
ATTAATACTGGCAGCTTTGCTGCGAA
Found at i:113644390 original size:40 final size:40
Alignment explanation
Indices: 113644282--113644491 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
113644272 CGGGATTTAA
* * * * *
113644282 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
113644322 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
113644362 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
113644402 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
113644442 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
113644482 CCGGATATAT
1 CCGGATATAT
113644492 TTCAATGTTC
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:113652521 original size:40 final size:40
Alignment explanation
Indices: 113652413--113652622 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
113652403 CGGGATTTAA
* * * * *
113652413 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
113652453 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
113652493 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
113652533 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
113652573 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
113652613 CCGGATATAT
1 CCGGATATAT
113652623 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:113661095 original size:13 final size:13
Alignment explanation
Indices: 113661077--113661102 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
113661067 GGTTTTCTCC
113661077 AAAATGAAAATGA
1 AAAATGAAAATGA
113661090 AAAATGAAAATGA
1 AAAATGAAAATGA
113661103 CTTGGAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
AAAATGAAAATGA
Found at i:113665659 original size:141 final size:141
Alignment explanation
Indices: 113665343--113665669 Score: 478
Period size: 141 Copynumber: 2.3 Consensus size: 141
113665333 ATTTTATGAC
* * * * * *
113665343 ATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTAT
1 ATGAACGTGAACTTACATATGTGTGAGAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCAT
*
113665408 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATACGTGATAAGGCCGAA
66 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATACGTGATAAGGCAGAA
113665473 TGGCCAATGTG
131 TGGCCAATGTG
* * *
113665484 ATGAATGTGAACTTGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCAT
1 ATGAACGTGAACTTACATATGTGTGAGAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCAT
* *
113665549 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGTAGAA
66 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATACGTGATAAGGCAGAA
113665614 TGGCCAATGTG
131 TGGCCAATGTG
* * * *
113665625 ATGAACGTGGAAGTGTATATATGTG-GCGAA-GCCGAATGGCTAATG
1 ATGAACGT-GAACT-TACATATGTGTGAGAAGGCCGAATGGCCAATG
113665670 CGAAATGTGT
Statistics
Matches: 171, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
141 156 0.91
142 7 0.04
143 8 0.05
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (141 bp):
ATGAACGTGAACTTACATATGTGTGAGAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCAT
ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATACGTGATAAGGCAGAA
TGGCCAATGTG
Found at i:113665664 original size:47 final size:47
Alignment explanation
Indices: 113665343--113665629 Score: 520
Period size: 47 Copynumber: 6.1 Consensus size: 47
113665333 ATTTTATGAC
113665343 ATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTG
*
113665390 ATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTG
*
113665437 ATGAATGTGAACATGCATATACGTGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTG
* *
113665484 ATGAATGTGAACTTGCATATGTGTGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTG
113665531 ATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTG
**
113665578 ATGAATGTGAACATGCATATATGTGATAAGGTAGAATGGCCAATGTG
1 ATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTG
113665625 ATGAA
1 ATGAA
113665630 CGTGGAAGTG
Statistics
Matches: 230, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 230 1.00
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (47 bp):
ATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTG
Found at i:113665703 original size:46 final size:46
Alignment explanation
Indices: 113665653--113665779 Score: 211
Period size: 46 Copynumber: 2.8 Consensus size: 46
113665643 ATATGTGGCG
113665653 AAGCCGAATGGCTAATGCGAAATGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAATGTGTATGAGATGGATATGAGGTA
*
113665699 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAATGTGTATGAGATGGATATGAGGTA
* *
113665745 AAGCCGAATGGCTAATG-TAAGATATGTATGAGATG
1 AAGCCGAATGGCTAATGCGAA-ATGTGTATGAGATG
113665780 TGTATATATA
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
45 2 0.03
46 74 0.97
ACGTcount: A:0.35, C:0.09, G:0.31, T:0.24
Consensus pattern (46 bp):
AAGCCGAATGGCTAATGCGAAATGTGTATGAGATGGATATGAGGTA
Found at i:113674362 original size:30 final size:30
Alignment explanation
Indices: 113674326--113674389 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
113674316 AATGCAAGTG
113674326 AAGAAGTCATGGGAATTGATATGTGTATAT
1 AAGAAGTCATGGGAATTGATATGTGTATAT
113674356 AAGAAGTCATGGGAATTGATATGTGTATAT
1 AAGAAGTCATGGGAATTGATATGTGTATAT
113674386 AAGA
1 AAGA
113674390 TTGGCATGTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.39, C:0.03, G:0.27, T:0.31
Consensus pattern (30 bp):
AAGAAGTCATGGGAATTGATATGTGTATAT
Found at i:113688871 original size:25 final size:24
Alignment explanation
Indices: 113688841--113688916 Score: 67
Period size: 25 Copynumber: 3.4 Consensus size: 24
113688831 TAATTTCTCA
113688841 AAAATTTAATTAATATAAAATATT
1 AAAATTTAATTAATATAAAATATT
* *
113688865 AATAATTCAATAAAT-TGAAAA-ATT
1 AA-AATTTAATTAATAT-AAAATATT
113688889 -AAA-TT-ATTAA-ATAAAAT-TT
1 AAAATTTAATTAATATAAAATATT
113688908 AAAATTTAA
1 AAAATTTAA
113688917 GAGAAAAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 16
0.67 0.07 0.26
Matches are distributed among these distances:
19 6 0.15
20 8 0.20
21 3 0.07
22 3 0.07
23 1 0.02
24 6 0.15
25 14 0.34
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (24 bp):
AAAATTTAATTAATATAAAATATT
Found at i:113689792 original size:29 final size:30
Alignment explanation
Indices: 113689733--113689793 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
113689723 GCCTTTTGAA
* * *
113689733 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGGCAACCAAATTTT
113689763 AATATTTACAAAAAGA-GCAACCAAATTTT
1 AATATTTACAAAAAGAGGCAACCAAATTTT
113689792 AA
1 AA
113689794 AAATAGTTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 12 0.43
30 16 0.57
ACGTcount: A:0.49, C:0.11, G:0.08, T:0.31
Consensus pattern (30 bp):
AATATTTACAAAAAGAGGCAACCAAATTTT
Found at i:113694784 original size:49 final size:49
Alignment explanation
Indices: 113694712--113694810 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
113694702 AGAAGATAGT
*
113694712 TATAATCAGTTTGTAATTTGATATTTTCTTGTCTAAATGTTATTGAATG
1 TATAATCAGTTTGTAATTTGATATTTGCTTGTCTAAATGTTATTGAATG
113694761 TATAATCAGTTTGTAATTTGATATTTGCTTGTCTAAATGTTATTGAATG
1 TATAATCAGTTTGTAATTTGATATTTGCTTGTCTAAATGTTATTGAATG
113694810 T
1 T
113694811 GATGAATTGA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.28, C:0.06, G:0.15, T:0.51
Consensus pattern (49 bp):
TATAATCAGTTTGTAATTTGATATTTGCTTGTCTAAATGTTATTGAATG
Found at i:113696199 original size:44 final size:45
Alignment explanation
Indices: 113696130--113696334 Score: 155
Period size: 46 Copynumber: 4.4 Consensus size: 45
113696120 ATGTCGTTGC
* * * *
113696130 CATGTCCCAGATAGGGTCTTACACTGAC-ACATCTCGTA-GCTGATG
1 CATGTCCCAGACA-TGTCTTACACTGACTACATCACG-AGGCCGATG
* *
113696175 CATGTCCCAGACATGTCTTACACTGGCTTACGTCACGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGAC-TACATCACGAGGCCGATG
* * * * * *
113696221 CATGTCCCAGACATGTCTTACACT-AGCTCTCGTCTCAATGCCAATG
1 CATGTCCCAGACATGTCTTACACTGA-CT-ACATCACGAGGCCGATG
* * * * * *
113696267 CCATGTCCCAGACATGTTCTTACAATGGCTCTCATAATGTGGCCGATG
1 -CATGTCCCAGACATG-TCTTACACTGACT-ACATCACGAGGCCGATG
113696315 CATGTCCCAGACATGTCTTA
1 CATGTCCCAGACATGTCTTA
113696335 TACTAGCAGT
Statistics
Matches: 130, Mismatches: 22, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
44 12 0.09
45 14 0.11
46 54 0.42
47 30 0.23
48 20 0.15
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGACTACATCACGAGGCCGATG
Found at i:113696227 original size:46 final size:46
Alignment explanation
Indices: 113696171--113696334 Score: 204
Period size: 46 Copynumber: 3.5 Consensus size: 46
113696161 TCTCGTAGCT
113696171 GATGCATGTCCCAGACATGTCTTACACTGGCT-TACGTCACGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCT-CGTCACGAGGCC
* * * *
113696217 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCGTCACGAGGCC
* * * * * *
113696263 AATGCCATGTCCCAGACATGTTCTTACAATGGCTCTCATAATGTGGCC
1 GATG-CATGTCCCAGACATG-TCTTACACTGGCTCTCGTCACGAGGCC
113696311 GATGCATGTCCCAGACATGTCTTA
1 GATGCATGTCCCAGACATGTCTTA
113696335 TACTAGCAGT
Statistics
Matches: 100, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
46 48 0.48
47 31 0.31
48 21 0.21
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCGTCACGAGGCC
Found at i:113703732 original size:46 final size:46
Alignment explanation
Indices: 113703682--113703855 Score: 152
Period size: 46 Copynumber: 3.7 Consensus size: 46
113703672 ACATCTCGTA
*
113703682 GCCGATGCATGTCCTAAACATGTCTTACACTAGCT-TACGTCACCAG
1 GCCGATGCATGTCCTAAACATGTCTTACACTAGCTCT-CGTCACAAG
* * * * *
113703728 GCCGATGCATGTCCCAGACATGTCTTACAGTAGCTCTCGTCTCAAT
1 GCCGATGCATGTCCTAAACATGTCTTACACTAGCTCTCGTCACAAG
* * * * * ***
113703774 GTCGATGCCATGTCCTACACATGGTCTTACACTGGCTCTCATAATGTG
1 GCCGATG-CATGTCCTAAACAT-GTCTTACACTAGCTCTCGTCACAAG
* * * *
113703822 GTCAATGCATGTCCCAGACATGTCTTACACTAGC
1 GCCGATGCATGTCCTAAACATGTCTTACACTAGC
113703856 ATGCAAATGA
Statistics
Matches: 103, Mismatches: 22, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
46 56 0.54
47 25 0.24
48 22 0.21
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCTAAACATGTCTTACACTAGCTCTCGTCACAAG
Found at i:113706149 original size:13 final size:13
Alignment explanation
Indices: 113706131--113706156 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
113706121 CATACATCTT
113706131 TTAAATGTAGCAG
1 TTAAATGTAGCAG
113706144 TTAAATGTAGCAG
1 TTAAATGTAGCAG
113706157 GTGCATTACG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (13 bp):
TTAAATGTAGCAG
Found at i:113709674 original size:41 final size:41
Alignment explanation
Indices: 113709625--113709705 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 41
113709615 TGTGAGAAGA
*
113709625 ATTATTTATGAATGCTATATAAAACACTTTGGTGAAGAAAG
1 ATTATTTATAAATGCTATATAAAACACTTTGGTGAAGAAAG
*
113709666 ATTATTTATAAATGCTATTTAAAACACTTTGGTGAAGAAA
1 ATTATTTATAAATGCTATATAAAACACTTTGGTGAAGAAA
113709706 AATATTTTGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.42, C:0.07, G:0.15, T:0.36
Consensus pattern (41 bp):
ATTATTTATAAATGCTATATAAAACACTTTGGTGAAGAAAG
Found at i:113715615 original size:70 final size:70
Alignment explanation
Indices: 113715504--113715676 Score: 238
Period size: 70 Copynumber: 2.5 Consensus size: 70
113715494 TTGTCGCCTG
* ** * * *
113715504 GTGTCGCGACACCACAGGACCAGTGTCCCAACATTGCATTTTGATTTTGAATTCTTTGGCTTTGA
1 GTGTTGCGACACCACA-TCCCAGTGTCGCAACACTGCATTTTGATTTTGAATTCTTTGGCTTTAA
113715569 AGTTCA
65 AGTTCA
* * *
113715575 GTGTTGCGATACCACATCCCAGTGTCGCGACACTGTATTTTGATTTTGAATTCTTTGGCTTTAAA
1 GTGTTGCGACACCACATCCCAGTGTCGCAACACTGCATTTTGATTTTGAATTCTTTGGCTTTAAA
*
113715640 GTTCG
66 GTTCA
*
113715645 GTGTTGCGACACCACATCCTAGTGTCGCAACA
1 GTGTTGCGACACCACATCCCAGTGTCGCAACA
113715677 TTGCCATCAT
Statistics
Matches: 89, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
70 75 0.84
71 14 0.16
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.34
Consensus pattern (70 bp):
GTGTTGCGACACCACATCCCAGTGTCGCAACACTGCATTTTGATTTTGAATTCTTTGGCTTTAAA
GTTCA
Found at i:113719825 original size:38 final size:38
Alignment explanation
Indices: 113719774--113719857 Score: 114
Period size: 38 Copynumber: 2.2 Consensus size: 38
113719764 ATTTGATGTG
* * * * *
113719774 TATCCGGGTTAAATCTCGCAGGCTTCGTGTTGGTATTA
1 TATCCGGGATAAATCCCGCAGGCCTAGTGCTGGTATTA
113719812 TATCCGGGATAAATCCCGCAGGCCTAGTGCTGGTATTA
1 TATCCGGGATAAATCCCGCAGGCCTAGTGCTGGTATTA
*
113719850 TATTCGGG
1 TATCCGGG
113719858 CCTTTGTGCC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.32
Consensus pattern (38 bp):
TATCCGGGATAAATCCCGCAGGCCTAGTGCTGGTATTA
Found at i:113720099 original size:43 final size:43
Alignment explanation
Indices: 113719850--113720090 Score: 401
Period size: 43 Copynumber: 5.6 Consensus size: 43
113719840 GCTGGTATTA
* *
113719850 TATTCGGGCCTTTGTGCCTAGCAGGCTTCGTGCCGGTGATATG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
113719893 TATTCGGGCATTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
113719936 TATTCGGGCCTTTGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
113719979 TATTCAGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGCGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
113720022 TATTCGGGCCTTCGTGCCTAGTAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
113720065 TATTTGGGACTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
113720091 GTAATGCCGA
Statistics
Matches: 184, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 184 1.00
ACGTcount: A:0.11, C:0.24, G:0.34, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:113720530 original size:43 final size:44
Alignment explanation
Indices: 113720420--113720546 Score: 134
Period size: 45 Copynumber: 2.9 Consensus size: 44
113720410 TTGATTTGAT
* * * * * *
113720420 TATTCGAGCCTTTGAGCTTAGTAGACTATAATGCCAGTGAGATAC
1 TATTCGGGCC-TTGAGCCTAGCAGGCTATAATGCCGGTGAAATAC
*
113720465 TATTCGGGCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGA-
1 TATTCGGGCCTT-GAGCCTAGCAGGCTATAATGCCGGTGAAAT-AC
*
113720510 TA-TCGGGCCTTGAGCCTAGCAGGCGA-AATGCCGGTGA
1 TATTCGGGCCTTGAGCCTAGCAGGCTATAATGCCGGTGA
113720547 TTTGAGAAAA
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
42 11 0.15
43 14 0.20
44 10 0.14
45 35 0.49
46 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (44 bp):
TATTCGGGCCTTGAGCCTAGCAGGCTATAATGCCGGTGAAATAC
Found at i:113722864 original size:24 final size:24
Alignment explanation
Indices: 113722837--113722897 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
113722827 ACCAAATTCA
* * *
113722837 CACACATAGTGCTA-ATTAAGCTCG
1 CACACATAGTGCCATACTAAAC-CG
113722861 CACACATAGTGCCATACTAAACCG
1 CACACATAGTGCCATACTAAACCG
113722885 CACACATAGTGCC
1 CACACATAGTGCC
113722898 TGAAATTTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 28 0.85
25 5 0.15
ACGTcount: A:0.34, C:0.31, G:0.15, T:0.20
Consensus pattern (24 bp):
CACACATAGTGCCATACTAAACCG
Found at i:113722948 original size:24 final size:24
Alignment explanation
Indices: 113722921--113722970 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
113722911 CATGCATCGA
*
113722921 CATTCAAATCTGCACACATAGTGC
1 CATTCAAATCCGCACACATAGTGC
* *
113722945 CATTGAATTCCGCACACATAGTGC
1 CATTCAAATCCGCACACATAGTGC
113722969 CA
1 CA
113722971 ATGTTAACTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (24 bp):
CATTCAAATCCGCACACATAGTGC
Found at i:113723048 original size:94 final size:94
Alignment explanation
Indices: 113722926--113723301 Score: 689
Period size: 94 Copynumber: 4.0 Consensus size: 94
113722916 ATCGACATTC
* * *
113722926 AAATCTGCACACATAGTGCCATTGAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
113722991 GGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
*
113723020 AAATCTGCACACAAAGTGACATTTAATTCTGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
113723085 GGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
113723114 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
113723179 GGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
* *
113723208 AAATCTGCACACAAAGTGACATTTAATTCCTCACACATAGTGCCAATGTTAACTCATTATAATAT
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
*
113723273 GGCAACTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
113723302 GGGTCACATT
Statistics
Matches: 274, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
94 274 1.00
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (94 bp):
AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
GGCAATTTACTTAATTCAAATAGCATATA
Found at i:113728062 original size:19 final size:19
Alignment explanation
Indices: 113728038--113728102 Score: 76
Period size: 19 Copynumber: 3.2 Consensus size: 19
113728028 AGTTACAAAA
113728038 AAAATTCAAAATATTTTTT
1 AAAATTCAAAATATTTTTT
* *
113728057 AAAATTCAAAATATTTATA
1 AAAATTCAAAATATTTTTT
113728076 AAAATTCCAAAATTTATATTTTT
1 AAAATT-CAAAA--TAT-TTTTT
113728099 AAAA
1 AAAA
113728103 AAAATTAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
19 23 0.61
20 5 0.13
22 3 0.08
23 7 0.18
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAATTCAAAATATTTTTT
Found at i:113728090 original size:18 final size:19
Alignment explanation
Indices: 113728037--113728093 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 19
113728027 AAGTTACAAA
*
113728037 AAAAATTCAAAATATTTTT
1 AAAAATTCAAAATATTTAT
*
113728056 TAAAATTCAAAATATTTAT
1 AAAAATTCAAAATATTTAT
*
113728075 AAAAATTCCAAA-ATTTAT
1 AAAAATTCAAAATATTTAT
113728093 A
1 A
113728094 TTTTTAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 7 0.21
19 27 0.79
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:113728124 original size:20 final size:20
Alignment explanation
Indices: 113728095--113728162 Score: 54
Period size: 20 Copynumber: 3.5 Consensus size: 20
113728085 AAATTTATAT
*
113728095 TTTTAAAAAAAATTAAAAAA
1 TTTTAGAAAAAATTAAAAAA
*
113728115 TTTTAG-AAAAATCTAAAGAA
1 TTTTAGAAAAAAT-TAAAAAA
* *
113728135 -TATATGAAGAAATT-AAAAA
1 TTTTA-GAAAAAATTAAAAAA
113728154 TTTT-GAAAA
1 TTTTAGAAAA
113728163 TTTTCCAACA
Statistics
Matches: 37, Mismatches: 7, Indels: 10
0.69 0.13 0.19
Matches are distributed among these distances:
18 4 0.11
19 13 0.35
20 15 0.41
21 5 0.14
ACGTcount: A:0.60, C:0.01, G:0.07, T:0.31
Consensus pattern (20 bp):
TTTTAGAAAAAATTAAAAAA
Found at i:113729865 original size:37 final size:37
Alignment explanation
Indices: 113729785--113729865 Score: 101
Period size: 37 Copynumber: 2.2 Consensus size: 37
113729775 TGTATATTAT
*
113729785 AGCACTTTGGTGCATACTATATTGGAGTGTAGGTTGA
1 AGCACTTTGGTGCATACTATATTGGAATGTAGGTTGA
* * * *
113729822 AACACTTTGGTGCAT-TTCATTTTGGAATGTAGGTTGG
1 AGCACTTTGGTGCATACT-ATATTGGAATGTAGGTTGA
113729859 AGCACTT
1 AGCACTT
113729866 CGATTTTGGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
36 1 0.03
37 36 0.97
ACGTcount: A:0.23, C:0.12, G:0.27, T:0.37
Consensus pattern (37 bp):
AGCACTTTGGTGCATACTATATTGGAATGTAGGTTGA
Found at i:113732124 original size:21 final size:19
Alignment explanation
Indices: 113732091--113732129 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
113732081 TTTCTTTATT
*
113732091 TTTTTTTCTTTCTTCCTTG
1 TTTTTTTCTTTCTCCCTTG
113732110 TTTTTTTCATCTTCTCCCTT
1 TTTTTTTC-T-TTCTCCCTT
113732130 CTAACCTAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 1 0.06
21 8 0.47
ACGTcount: A:0.03, C:0.26, G:0.03, T:0.69
Consensus pattern (19 bp):
TTTTTTTCTTTCTCCCTTG
Found at i:113733151 original size:18 final size:18
Alignment explanation
Indices: 113733125--113733159 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
113733115 TTCTAGATAA
*
113733125 GTTTGGAAACTATAAAAG
1 GTTTAGAAACTATAAAAG
*
113733143 GTTTAGAAATTATAAAA
1 GTTTAGAAACTATAAAA
113733160 AAAATATTGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.03, G:0.17, T:0.31
Consensus pattern (18 bp):
GTTTAGAAACTATAAAAG
Found at i:113735919 original size:23 final size:24
Alignment explanation
Indices: 113735887--113735937 Score: 79
Period size: 23 Copynumber: 2.2 Consensus size: 24
113735877 ACTCATTTAG
113735887 AAAATCT-AAAAATTATAAATATAA
1 AAAATCTAAAAAATTA-AAATATAA
113735911 AAAAT-TAAAAAATTAAAATATAA
1 AAAATCTAAAAAATTAAAATATAA
113735934 AAAA
1 AAAA
113735938 GTTGTAACGC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
23 13 0.50
24 13 0.50
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (24 bp):
AAAATCTAAAAAATTAAAATATAA
Found at i:113744619 original size:16 final size:15
Alignment explanation
Indices: 113744598--113744644 Score: 53
Period size: 16 Copynumber: 3.2 Consensus size: 15
113744588 ACAACTTTCA
113744598 TATTTTCTTTATCCTT
1 TATTTTCTTTAT-CTT
*
113744614 TATTTTCTTCATCTT
1 TATTTTCTTTATCTT
*
113744629 T-TTTTTTTTAT-TT
1 TATTTTCTTTATCTT
113744642 TAT
1 TAT
113744645 AACACGTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 3 0.11
14 9 0.33
15 4 0.15
16 11 0.41
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (15 bp):
TATTTTCTTTATCTT
Found at i:113748504 original size:27 final size:26
Alignment explanation
Indices: 113748472--113748534 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 26
113748462 AAGTATATTC
113748472 TTTATTACTTTAATAT-TTTCTTTGTTT
1 TTTATTACTTT--TATCTTTCTTTGTTT
113748499 TTTATT-CTATTTATCTTTCTTTGTTT
1 TTTATTACT-TTTATCTTTCTTTGTTT
* *
113748525 TATAATACTT
1 TTTATTACTT
113748535 ATTAATTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
25 3 0.10
26 18 0.58
27 10 0.32
ACGTcount: A:0.19, C:0.10, G:0.03, T:0.68
Consensus pattern (26 bp):
TTTATTACTTTTATCTTTCTTTGTTT
Found at i:113761967 original size:39 final size:40
Alignment explanation
Indices: 113761846--113761984 Score: 174
Period size: 40 Copynumber: 3.5 Consensus size: 40
113761836 GGATATAACG
* * *
113761846 ACTCGCTCAAATGCCTTCGGGAC-AAACCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCAGGTT-TAGTA
* *
113761886 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCAGGTTTAGTA
* *
113761926 ACTCGCACAAATGCCTTCGGG-CTTAACCCAGATTTATTA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCAGGTTTAGTA
* *
113761965 ACTCGCACGAACGCCTTCGG
1 ACTCGCACAAATGCCTTCGG
113761985 ATCTTAGTCC
Statistics
Matches: 88, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
39 33 0.38
40 46 0.52
41 9 0.10
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAACCCAGGTTTAGTA
Found at i:113767126 original size:43 final size:43
Alignment explanation
Indices: 113767078--113767193 Score: 153
Period size: 43 Copynumber: 2.7 Consensus size: 43
113767068 GACATTGGCA
* * *
113767078 TGTAAGTCCATGTCTGGGACATTGGCATTG-TATTGAGATTACG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTATTCA-ATTACG
*
113767121 TGTAAGACCATGTCTGGGACATTGGCATCGTTATTCAATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTATTCAATTACG
* **
113767164 TGTAAGACCCTGTCTGGGACGGTGGCATCG
1 TGTAAGACCATGTCTGGGACATTGGCATCG
113767194 ATATGTGATA
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
43 60 0.92
44 5 0.08
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTTATTCAATTACG
Found at i:113767211 original size:43 final size:42
Alignment explanation
Indices: 113767076--113767217 Score: 142
Period size: 43 Copynumber: 3.3 Consensus size: 42
113767066 AGGACATTGG
* * *
113767076 CATGTAAGTCCATGTCTGGGACATTGGCATTGTATTGAGATTA
1 CATGTAAGACCATGTCTGGGACATTGGCATCGTA-TGTGATTA
* * *
113767119 CGTGTAAGACCATGTCTGGGACATTGGCATCGTTAT-TCAATTT
1 CATGTAAGACCATGTCTGGGACATTGGCATCG-TATGT-GATTA
* * ** *
113767162 CGTGTAAGACCCTGTCTGGGACGGTGGCATCGATATGTGATAA
1 CATGTAAGACCATGTCTGGGACATTGGCATCG-TATGTGATTA
113767205 CATGTAAGACCAT
1 CATGTAAGACCAT
113767218 ATCTAGGATA
Statistics
Matches: 81, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
43 78 0.96
44 3 0.04
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (42 bp):
CATGTAAGACCATGTCTGGGACATTGGCATCGTATGTGATTA
Found at i:113769583 original size:38 final size:39
Alignment explanation
Indices: 113769454--113769592 Score: 135
Period size: 39 Copynumber: 3.6 Consensus size: 39
113769444 AGGCGGATAA
113769454 GCTCTTATGAGC-T-TATGTTGGCA-ATTTTCGAGTGGACT
1 GCTCTTATGAGCTTCTAT-TTGGCATA-TTTCGAGTGGACT
* * * * * *
113769492 AGCTCTTATGAGCTTCT-TTTCGCGTGTTTTGGGTGGACCA
1 -GCTCTTATGAGCTTCTATTTGGCATATTTCGAGTGGA-CT
*
113769532 GCTCTTATGAGCTTCTATTTGGCATATTTCGATTGGA-T
1 GCTCTTATGAGCTTCTATTTGGCATATTTCGAGTGGACT
*
113769570 GCTCTTATGAGCTTCTGTTTGGC
1 GCTCTTATGAGCTTCTATTTGGC
113769593 GTGTTTCAGT
Statistics
Matches: 81, Mismatches: 14, Indels: 11
0.76 0.13 0.10
Matches are distributed among these distances:
38 22 0.27
39 41 0.51
40 17 0.21
41 1 0.01
ACGTcount: A:0.15, C:0.18, G:0.25, T:0.42
Consensus pattern (39 bp):
GCTCTTATGAGCTTCTATTTGGCATATTTCGAGTGGACT
Found at i:113769595 original size:78 final size:78
Alignment explanation
Indices: 113769453--113769617 Score: 212
Period size: 78 Copynumber: 2.1 Consensus size: 78
113769443 CAGGCGGATA
113769453 AGCTCTTATGAGCTTATGTTGGCAATTTTCGAGTGGACTAGCTCTTATGAGCTTCTTTTCGCGTG
1 AGCTCTTATGAGCTTATGTTGGCAATTTTCGAGTGGACTAGCTCTTATGAGCTTCTTTTCGCGTG
**
113769518 TTTTGGGTGGACC
66 TTTCAGGTGGACC
* *
113769531 AGCTCTTATGAGCTTCTAT-TTGGC-ATATTTCGATTGGA-T-GCTCTTATGAGCTTCTGTTTGG
1 AGCTCTTATGAGC-T-TATGTTGGCAAT-TTTCGAGTGGACTAGCTCTTATGAGCTTCT-TTTCG
* *
113769592 CGTGTTTCAGTTGGATC
62 CGTGTTTCAGGTGGACC
113769609 AGCTCTTAT
1 AGCTCTTAT
113769618 AAAATTCTGT
Statistics
Matches: 77, Mismatches: 6, Indels: 8
0.85 0.07 0.09
Matches are distributed among these distances:
77 16 0.21
78 42 0.55
79 16 0.21
80 3 0.04
ACGTcount: A:0.16, C:0.18, G:0.25, T:0.42
Consensus pattern (78 bp):
AGCTCTTATGAGCTTATGTTGGCAATTTTCGAGTGGACTAGCTCTTATGAGCTTCTTTTCGCGTG
TTTCAGGTGGACC
Found at i:113771153 original size:63 final size:63
Alignment explanation
Indices: 113771054--113771176 Score: 194
Period size: 63 Copynumber: 2.0 Consensus size: 63
113771044 CATTTTGAGG
*
113771054 CAAATGTAAGCATGAATGCTTGGTTGTGATTGAGGTGTCGAAAT-GACAAATTGGTTGAATGAA
1 CAAATGTAAGCATGAATGCTTGGTTGTGATTGAGGTGCCGAAATGGA-AAATTGGTTGAATGAA
* * *
113771117 CAAATGTAAGTATGAATGCTTGGTTGTGATTGAGGTGCCTAAATGGAATATTGGTTGAAT
1 CAAATGTAAGCATGAATGCTTGGTTGTGATTGAGGTGCCGAAATGGAAAATTGGTTGAAT
113771177 AGATTTATAG
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
63 53 0.96
64 2 0.04
ACGTcount: A:0.32, C:0.07, G:0.28, T:0.33
Consensus pattern (63 bp):
CAAATGTAAGCATGAATGCTTGGTTGTGATTGAGGTGCCGAAATGGAAAATTGGTTGAATGAA
Found at i:113775653 original size:28 final size:29
Alignment explanation
Indices: 113775617--113775681 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 29
113775607 TAAATGATTT
* *
113775617 TTGACAAAAATGTCAAGT-AGGGATTAAA
1 TTGAGAAAAATGTAAAGTGAGGGATTAAA
* * *
113775645 TTGAGAAAAGTGTAAATTGAGGGGTTAAA
1 TTGAGAAAAATGTAAAGTGAGGGATTAAA
*
113775674 TTGTGAAA
1 TTGAGAAA
113775682 TAAATAAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 14 0.47
29 16 0.53
ACGTcount: A:0.43, C:0.03, G:0.26, T:0.28
Consensus pattern (29 bp):
TTGAGAAAAATGTAAAGTGAGGGATTAAA
Found at i:113787997 original size:43 final size:43
Alignment explanation
Indices: 113787910--113788003 Score: 127
Period size: 43 Copynumber: 2.2 Consensus size: 43
113787900 GTGATTACAC
* * *
113787910 GTAAGACTATGTCTGGGACATTGGCATTGTATTGTGAATACGT
1 GTAAGACCATGTCTGGGACATTGGCATCGTATTGCGAATACGT
* *
113787953 GTAAGACCATGTCTGGGACATTGGCATCGTTATT-CGATTTCGT
1 GTAAGACCATGTCTGGGACATTGGCATCG-TATTGCGAATACGT
113787996 GTAAGACC
1 GTAAGACC
113788004 CTATCTTGGA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
43 41 0.91
44 4 0.09
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (43 bp):
GTAAGACCATGTCTGGGACATTGGCATCGTATTGCGAATACGT
Found at i:113792983 original size:2 final size:2
Alignment explanation
Indices: 113792976--113793007 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
113792966 TTGTTTTCTT
113792976 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
113793008 GAGAGAGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:113795630 original size:21 final size:22
Alignment explanation
Indices: 113795588--113795634 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
113795578 ATAAAATTTG
*
113795588 CAATTTTTAATTAATAACTTTTA
1 CAATTTTT-ATTAAGAACTTTTA
*
113795611 CAATTTTT-TTAAGAATTTTTA
1 CAATTTTTATTAAGAACTTTTA
113795632 CAA
1 CAA
113795635 AGTATTTAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 14 0.64
23 8 0.36
ACGTcount: A:0.38, C:0.09, G:0.02, T:0.51
Consensus pattern (22 bp):
CAATTTTTATTAAGAACTTTTA
Done.