Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 352 of 427
Found at i:102477117 original size:10 final size:9
Alignment explanation
Indices: 102477078--102477191 Score: 58
Period size: 9 Copynumber: 12.6 Consensus size: 9
102477068 ACATGTGGCG
102477078 AAAAATTAT
1 AAAAATTAT
102477087 AAAAA--AT
1 AAAAATTAT
*
102477094 AAAAATCAAT
1 AAAAAT-TAT
*
102477104 AAAACTTAT
1 AAAAATTAT
102477113 AAAAATTATT
1 AAAAATTA-T
**
102477123 AAACTTTAAT
1 AAAAATT-AT
102477133 AAAAA-TATT
1 AAAAATTA-T
102477142 AAAAA-TA-
1 AAAAATTAT
*
102477149 AAAAATTAGAA
1 AAAAATT--AT
*
102477160 AAAAAATAT
1 AAAAATTAT
* *
102477169 ATAAATCAT
1 AAAAATTAT
*
102477178 AAAAAATAT
1 AAAAATTAT
102477187 AAAAA
1 AAAAA
102477192 AAATGTATTT
Statistics
Matches: 80, Mismatches: 15, Indels: 20
0.70 0.13 0.17
Matches are distributed among these distances:
7 12 0.15
8 2 0.03
9 41 0.51
10 18 0.22
11 7 0.09
ACGTcount: A:0.69, C:0.04, G:0.01, T:0.26
Consensus pattern (9 bp):
AAAAATTAT
Found at i:102477125 original size:19 final size:21
Alignment explanation
Indices: 102477091--102477145 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 21
102477081 AATTATAAAA
* *
102477091 AATAAAAATCAATAAAAC-TT
1 AATAAAAATTATTAAAACTTT
102477111 -ATAAAAATTATT-AAACTTT
1 AATAAAAATTATTAAAACTTT
102477130 AATAAAAA-TATTAAAA
1 AATAAAAATTATTAAAA
102477146 ATAAAAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
18 4 0.13
19 16 0.53
20 10 0.33
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (21 bp):
AATAAAAATTATTAAAACTTT
Found at i:102477195 original size:29 final size:28
Alignment explanation
Indices: 102477133--102477195 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 28
102477123 AAACTTTAAT
102477133 AAAAATATTAAAAATAAAAAATTAGAAA
1 AAAAATATTAAAAATAAAAAATTAGAAA
* *
102477161 AAAAATATATAAATCATAAAAAA-TATAAA
1 AAAAATAT-TAAA-AATAAAAAATTAGAAA
102477190 AAAAAT
1 AAAAAT
102477196 GTATTTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
28 8 0.26
29 15 0.48
30 8 0.26
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.22
Consensus pattern (28 bp):
AAAAATATTAAAAATAAAAAATTAGAAA
Found at i:102477588 original size:8 final size:8
Alignment explanation
Indices: 102477561--102477644 Score: 53
Period size: 8 Copynumber: 9.6 Consensus size: 8
102477551 TCTTTTACAG
102477561 TTTTTATAA
1 TTTTTAT-A
102477570 TTTTTAAATA
1 TTTTT--ATA
102477580 TTTTTATA
1 TTTTTATA
102477588 TTTTTATTAAA
1 TTTTTA-T--A
* *
102477599 ATTTAATAA
1 TTTTTAT-A
*
102477608 TTTTTATT
1 TTTTTATA
*
102477616 TTTTTTTA
1 TTTTTATA
102477624 TTTTTAT-
1 TTTTTATA
102477631 TTTTTATTA
1 TTTTTA-TA
102477640 TTTTT
1 TTTTT
102477645 GTCACATGTC
Statistics
Matches: 60, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
7 6 0.10
8 22 0.37
9 18 0.30
10 7 0.12
11 7 0.12
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (8 bp):
TTTTTATA
Found at i:102477602 original size:20 final size:21
Alignment explanation
Indices: 102477561--102477615 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 21
102477551 TCTTTTACAG
*
102477561 TTTTTATAATTTTTA--AATA
1 TTTTTATAATTTTTATTAAAA
102477580 TTTTTAT-ATTTTTATTAAAA
1 TTTTTATAATTTTTATTAAAA
*
102477600 -TTTAATAATTTTTATT
1 TTTTTATAATTTTTATT
102477616 TTTTTTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 7 0.23
19 12 0.39
20 12 0.39
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTTATAATTTTTATTAAAA
Found at i:102477628 original size:16 final size:16
Alignment explanation
Indices: 102477607--102477644 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
102477597 AAATTTAATA
*
102477607 ATTTTTATTTTTTTTT
1 ATTTTTATTTTTTATT
102477623 ATTTTTATTTTTTATT
1 ATTTTTATTTTTTATT
102477639 ATTTTT
1 ATTTTT
102477645 GTCACATGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (16 bp):
ATTTTTATTTTTTATT
Found at i:102477909 original size:90 final size:91
Alignment explanation
Indices: 102477741--102477934 Score: 243
Period size: 90 Copynumber: 2.1 Consensus size: 91
102477731 TTAACGATCA
* * ** * * *
102477741 AAGGGTCTTTTTGATGCATTTTGACAGTTCAAGTATTCAATTGAGTGCAAAAAAAAAGTAGGGGC
1 AAGGG-CTTTTTTATGCATTTTGAAAGTTCAAGTACCCAATGGAGTGAAAAAAAAAAGTAGAGGC
* *
102477806 TTAATTGCTTTTTTTTGAAAGAG-TTT
65 TTAATTACTTTTTTTTGAAAAAGTTTT
*
102477832 GAGGGCTTTTTTATGCATTTTGAAAGTTCAAGTACCCAATGGAGTGAAAAAAAAAAG-AGCAAGG
1 AAGGGCTTTTTTATGCATTTTGAAAGTTCAAGTACCCAATGGAGTGAAAAAAAAAAGTAG--AGG
102477896 CTTAATTAC-TTTTTTTGAAAAAGTTTT
64 CTTAATTACTTTTTTTTGAAAAAGTTTT
102477923 AAGGG-TTTTTTA
1 AAGGGCTTTTTTA
102477935 CACCCTTAAG
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
89 2 0.02
90 66 0.74
91 21 0.24
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (91 bp):
AAGGGCTTTTTTATGCATTTTGAAAGTTCAAGTACCCAATGGAGTGAAAAAAAAAAGTAGAGGCT
TAATTACTTTTTTTTGAAAAAGTTTT
Found at i:102481626 original size:22 final size:22
Alignment explanation
Indices: 102481579--102481626 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
102481569 AAATTATATT
* * *
102481579 ATTATATCATATTTTAAATTAT
1 ATTATATCATATTATAAAATAA
*
102481601 ATTATATTATATTATAAAATAA
1 ATTATATCATATTATAAAATAA
102481623 ATTA
1 ATTA
102481627 AGATTTTGAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
ATTATATCATATTATAAAATAA
Found at i:102482285 original size:12 final size:11
Alignment explanation
Indices: 102482265--102482316 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
102482255 GTTAAGATTA
*
102482265 AAATTGAAATT
1 AAATAGAAATT
102482276 AAAGTAGAAATT
1 AAA-TAGAAATT
*
102482288 GAATAGAAATT
1 AAATAGAAATT
*
102482299 GAATAAGAAATTT
1 AAAT-AGAAA-TT
102482312 AAATA
1 AAATA
102482317 TTAAATGTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
11 15 0.43
12 15 0.43
13 5 0.14
ACGTcount: A:0.58, C:0.00, G:0.13, T:0.29
Consensus pattern (11 bp):
AAATAGAAATT
Found at i:102482296 original size:11 final size:11
Alignment explanation
Indices: 102482270--102482310 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
102482260 GATTAAAATT
*
102482270 GAAATTAAAGTA
1 GAAATTGAA-TA
102482282 GAAATTGAATA
1 GAAATTGAATA
102482293 GAAATTGAATAA
1 GAAATTGAAT-A
102482305 GAAATT
1 GAAATT
102482311 TAAATATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 12 0.44
12 15 0.56
ACGTcount: A:0.56, C:0.00, G:0.17, T:0.27
Consensus pattern (11 bp):
GAAATTGAATA
Found at i:102483044 original size:43 final size:44
Alignment explanation
Indices: 102482996--102483086 Score: 132
Period size: 43 Copynumber: 2.1 Consensus size: 44
102482986 TGTTTAGGGA
*
102482996 TACTTCGACCTT-AAGTCGATGAGGCACTATAAGTGTCGTACTG-
1 TACTTCGA-CTTCAAGTCGATGAGGCACCATAAGTGTCGTACTGC
**
102483039 TACTTCGACTTCAAGTCGATGAGGCACCATGTGTGTCGTACTGC
1 TACTTCGACTTCAAGTCGATGAGGCACCATAAGTGTCGTACTGC
102483083 TACT
1 TACT
102483087 GTTACTTCGG
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
42 3 0.07
43 36 0.84
44 4 0.09
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (44 bp):
TACTTCGACTTCAAGTCGATGAGGCACCATAAGTGTCGTACTGC
Found at i:102483262 original size:18 final size:18
Alignment explanation
Indices: 102483239--102483318 Score: 124
Period size: 18 Copynumber: 4.4 Consensus size: 18
102483229 TGAATAAAGG
102483239 TACTGAATAACTGATTGT
1 TACTGAATAACTGATTGT
*
102483257 TACTGAATAATTGATTGT
1 TACTGAATAACTGATTGT
*
102483275 TACTGAATAACTGATTGC
1 TACTGAATAACTGATTGT
* *
102483293 TACTGAAAAATTGATTGT
1 TACTGAATAACTGATTGT
102483311 TACTGAAT
1 TACTGAAT
102483319 GATATTGATA
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 55 1.00
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (18 bp):
TACTGAATAACTGATTGT
Found at i:102483279 original size:36 final size:36
Alignment explanation
Indices: 102483239--102483318 Score: 142
Period size: 36 Copynumber: 2.2 Consensus size: 36
102483229 TGAATAAAGG
* *
102483239 TACTGAATAACTGATTGTTACTGAATAATTGATTGT
1 TACTGAATAACTGATTGCTACTGAAAAATTGATTGT
102483275 TACTGAATAACTGATTGCTACTGAAAAATTGATTGT
1 TACTGAATAACTGATTGCTACTGAAAAATTGATTGT
102483311 TACTGAAT
1 TACTGAAT
102483319 GATATTGATA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (36 bp):
TACTGAATAACTGATTGCTACTGAAAAATTGATTGT
Found at i:102483345 original size:28 final size:28
Alignment explanation
Indices: 102483300--102483354 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 28
102483290 TGCTACTGAA
** **
102483300 AAATTGATTGTTACTGAATGATATTGAT
1 AAATTGATTAATACTGAAAAATATTGAT
*
102483328 AAATTGATTAATATTGAAAAATATTGA
1 AAATTGATTAATACTGAAAAATATTGA
102483355 CTGATATTGA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.44, C:0.02, G:0.15, T:0.40
Consensus pattern (28 bp):
AAATTGATTAATACTGAAAAATATTGAT
Found at i:102485197 original size:49 final size:49
Alignment explanation
Indices: 102485131--102485326 Score: 189
Period size: 50 Copynumber: 3.9 Consensus size: 49
102485121 TAGCCAAAGC
* * *
102485131 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * *
102485180 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* * * * * * *
102485230 CATTTGATACGCGTAGTAGCCTGCACTTAGTACTACACACGTGATCATAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCA-A-T
* * *
102485281 T-TTTGGGTACGA-ATAGTAGCCTACACTTAGTACTACACATGCGACC
1 TATCT-GGTAC-ACATAGTAGCCTGCACTTAGTACTACACACGCGACC
102485327 TCACAATAGA
Statistics
Matches: 122, Mismatches: 20, Indels: 8
0.81 0.13 0.05
Matches are distributed among these distances:
49 42 0.34
50 47 0.39
51 33 0.27
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:102485319 original size:101 final size:99
Alignment explanation
Indices: 102485138--102485319 Score: 242
Period size: 99 Copynumber: 1.8 Consensus size: 99
102485128 AGCTATCTGG
* * *
102485138 TACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCTGGTACACGTAGTAGCCTG
1 TACGCATAGTAGCCTGCACATAGTACTACACACGCGACCAATTATCTGGTACACATAGTAGCCTA
102485203 CACTTAGTACTACACACGTGACCTAACCATTTGA
66 CACTTAGTACTACACACGTGACCTAACCATTTGA
* * * * *
102485237 TACGCGTAGTAGCCTGCACTTAGTACTACACACGTGATCATAGTT-TTTGGGTACGA-ATAGTAG
1 TACGCATAGTAGCCTGCACATAGTACTACACACGCGACCA-A-TTATCT-GGTAC-ACATAGTAG
102485300 CCTACACTTAGTACTACACA
62 CCTACACTTAGTACTACACA
102485320 TGCGACCTCA
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
99 35 0.49
100 3 0.04
101 32 0.45
102 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (99 bp):
TACGCATAGTAGCCTGCACATAGTACTACACACGCGACCAATTATCTGGTACACATAGTAGCCTA
CACTTAGTACTACACACGTGACCTAACCATTTGA
Found at i:102485327 original size:101 final size:99
Alignment explanation
Indices: 102485138--102485327 Score: 240
Period size: 101 Copynumber: 1.9 Consensus size: 99
102485128 AGCTATCTGG
* * *
102485138 TACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCTGGTACACGTAGTAGCCTG
1 TACGCATAGTAGCCTGCACATAGTACTACACACGCGACCAATTATCTGGTACACATAGTAGCCTA
*
102485203 CACTTAGTACTACACACGTGACCTAACCATTTGA
66 CACTTAGTACTACACACGCGACCTAACCATTTGA
* * * * *
102485237 TACGCGTAGTAGCCTGCACTTAGTACTACACACGTGATCATAGTT-TTTGGGTACGA-ATAGTAG
1 TACGCATAGTAGCCTGCACATAGTACTACACACGCGACCA-A-TTATCT-GGTAC-ACATAGTAG
*
102485300 CCTACACTTAGTACTACACATGCGACCT
62 CCTACACTTAGTACTACACACGCGACCT
102485328 CACAATAGAT
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
99 35 0.45
100 3 0.04
101 38 0.49
102 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (99 bp):
TACGCATAGTAGCCTGCACATAGTACTACACACGCGACCAATTATCTGGTACACATAGTAGCCTA
CACTTAGTACTACACACGCGACCTAACCATTTGA
Found at i:102488860 original size:6 final size:6
Alignment explanation
Indices: 102488849--102488897 Score: 80
Period size: 6 Copynumber: 8.2 Consensus size: 6
102488839 AAAACTTTTA
* *
102488849 CTGACC CTGACC CTGCCC CTGCCC CTGACC CTGACC CTGACC CTGACC
1 CTGACC CTGACC CTGACC CTGACC CTGACC CTGACC CTGACC CTGACC
102488897 C
1 C
102488898 GAGTGAATAG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.12, C:0.55, G:0.16, T:0.16
Consensus pattern (6 bp):
CTGACC
Found at i:102492280 original size:6 final size:5
Alignment explanation
Indices: 102492231--102492273 Score: 50
Period size: 5 Copynumber: 8.2 Consensus size: 5
102492221 TCGATTTGTA
* *
102492231 TCTTCT TCTTCT TCTTT TCTCT TCGTT TCTTT TCTTT TCTTT T
1 TCTT-T TCTT-T TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT T
102492274 TCATTTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
5 23 0.70
6 10 0.30
ACGTcount: A:0.00, C:0.26, G:0.02, T:0.72
Consensus pattern (5 bp):
TCTTT
Found at i:102494478 original size:23 final size:24
Alignment explanation
Indices: 102494448--102494492 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
102494438 TCTTCTTCTT
102494448 TTTTTG-A-ATTTTATAATTTTTTA
1 TTTTTGAATATTTTAT-ATTTTTTA
102494471 TTTTTGAATATTTTATATTTTT
1 TTTTTGAATATTTTATATTTTT
102494493 AAATTATTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (24 bp):
TTTTTGAATATTTTATATTTTTTA
Found at i:102494493 original size:23 final size:23
Alignment explanation
Indices: 102494448--102494492 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 23
102494438 TCTTCTTCTT
102494448 TTTTTGAATTTTATAATTTTTTA
1 TTTTTGAATTTTATAATTTTTTA
102494471 TTTTTGAATATTT-TATATTTTT
1 TTTTTGAAT-TTTATA-ATTTTT
102494493 AAATTATTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (23 bp):
TTTTTGAATTTTATAATTTTTTA
Found at i:102495535 original size:28 final size:30
Alignment explanation
Indices: 102495472--102495528 Score: 91
Period size: 28 Copynumber: 2.0 Consensus size: 30
102495462 TTTAAGATCT
*
102495472 AAAATTACATAATTCAAAATAATTCCAACG
1 AAAATTACATAATTCAAAATAACTCCAACG
102495502 AAAATT-CAT-ATTCAAAATAACTCCAAC
1 AAAATTACATAATTCAAAATAACTCCAAC
102495529 TCAAATTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 17 0.65
29 3 0.12
30 6 0.23
ACGTcount: A:0.53, C:0.19, G:0.02, T:0.26
Consensus pattern (30 bp):
AAAATTACATAATTCAAAATAACTCCAACG
Found at i:102498101 original size:15 final size:14
Alignment explanation
Indices: 102498042--102498124 Score: 57
Period size: 14 Copynumber: 5.7 Consensus size: 14
102498032 ATCTTTAATG
102498042 TAATATTT-ATATTA
1 TAATATTTAAT-TTA
102498056 TGAA-ATTT-ATTTCA
1 T-AATATTTAATTT-A
* *
102498070 -AATATATAATATA
1 TAATATTTAATTTA
102498083 TAATATTTAACTTTA
1 TAATATTTAA-TTTA
102498098 TAATGATTATAATTTAA
1 TAAT-ATT-TAATTT-A
102498115 TAATATTTAA
1 TAATATTTAA
102498125 AATATAAATT
Statistics
Matches: 56, Mismatches: 4, Indels: 17
0.73 0.05 0.22
Matches are distributed among these distances:
12 2 0.04
13 6 0.11
14 19 0.34
15 12 0.21
16 9 0.16
17 8 0.14
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (14 bp):
TAATATTTAATTTA
Found at i:102500961 original size:25 final size:25
Alignment explanation
Indices: 102500933--102500984 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
102500923 ATATTTATAG
102500933 ATCTGCCCTTACTTTTTCTAGCACC
1 ATCTGCCCTTACTTTTTCTAGCACC
102500958 ATCTGCCCTTACTTTTTCTAGCACC
1 ATCTGCCCTTACTTTTTCTAGCACC
102500983 AT
1 AT
102500985 GGAATCTCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.17, C:0.35, G:0.08, T:0.40
Consensus pattern (25 bp):
ATCTGCCCTTACTTTTTCTAGCACC
Found at i:102503812 original size:40 final size:40
Alignment explanation
Indices: 102503736--102503814 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
102503726 ATTTAAAGTT
* * *
102503736 ATAGTTTCTTATCAATGAATGTCTTAATGGTGTAAAAATA
1 ATAGTTTCTTAACAATGAATGTCTTAATGATATAAAAATA
*
102503776 ATAGTTTCTTAACAATTAATG-CTTGAATGATATAAAAAT
1 ATAGTTTCTTAACAATGAATGTCTT-AATGATATAAAAAT
102503815 CATTTTATTC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.09
40 31 0.91
ACGTcount: A:0.41, C:0.08, G:0.13, T:0.39
Consensus pattern (40 bp):
ATAGTTTCTTAACAATGAATGTCTTAATGATATAAAAATA
Found at i:102517318 original size:20 final size:21
Alignment explanation
Indices: 102517295--102517351 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 21
102517285 TTGTGTCTGC
102517295 TAAATAAT-TATTTATATTTT
1 TAAATAATCTATTTATATTTT
*
102517315 TAAAT-ATCTATTT-TAATTT
1 TAAATAATCTATTTATATTTT
*
102517334 T-AATAATGTATTTA-ATTT
1 TAAATAATCTATTTATATTT
102517352 GTGAAAATAG
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
18 3 0.10
19 18 0.58
20 10 0.32
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (21 bp):
TAAATAATCTATTTATATTTT
Found at i:102520940 original size:13 final size:13
Alignment explanation
Indices: 102520891--102520941 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 13
102520881 AGTTTGACAA
102520891 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
102520904 TGTTTTTAAAAAG
1 TGCTTTTGAAAAG
* * *
102520917 AGCTATGGAAAAG
1 TGCTTTTGAAAAG
102520930 TGCTTTTGAAAA
1 TGCTTTTGAAAA
102520942 ATTGGTTTAA
Statistics
Matches: 28, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.37, C:0.06, G:0.22, T:0.35
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:102524783 original size:9 final size:9
Alignment explanation
Indices: 102524771--102524803 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
102524761 GAATTATTCG
102524771 AATCGAGTT
1 AATCGAGTT
102524780 AATCGAGTT
1 AATCGAGTT
*
102524789 AATCGAATT
1 AATCGAGTT
102524798 AATCGA
1 AATCGA
102524804 ATCAACTCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (9 bp):
AATCGAGTT
Found at i:102524804 original size:9 final size:9
Alignment explanation
Indices: 102524771--102524816 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
102524761 GAATTATTCG
*
102524771 AATCGAGTT
1 AATCGAATT
*
102524780 AATCGAGTT
1 AATCGAATT
102524789 AATCGAATT
1 AATCGAATT
*
102524798 AATCGAATC
1 AATCGAATT
102524807 AACTCGAATT
1 AA-TCGAATT
102524817 TTTTTCGAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
9 27 0.82
10 6 0.18
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (9 bp):
AATCGAATT
Found at i:102526390 original size:5 final size:5
Alignment explanation
Indices: 102526380--102526410 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
102526370 CTCAAAAATT
102526380 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA T
102526411 CGAATGCTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:102534634 original size:20 final size:18
Alignment explanation
Indices: 102534587--102534635 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
102534577 CAAGATAAAA
102534587 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
102534604 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
102534624 ATTAAATTAATA
1 ATTAAATTAATA
102534636 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:102534692 original size:68 final size:71
Alignment explanation
Indices: 102534541--102534694 Score: 156
Period size: 68 Copynumber: 2.2 Consensus size: 71
102534531 TTAAATTTAA
* * * *
102534541 TATT-AAATATTATTAAATTAATAGAATATTTATTTACAAGATAAAAATTAAATTAAATTTAATA
1 TATTAAAATAATATTAAATTAATAAAATATCTATTTA-AAGATAAAAATTAAATTAAATTAAATA
102534605 TTAAGAT
65 TTAAGAT
* * *** **
102534612 AATCACTTTAATATTAAATTAATAAAATA-CTA-TT-AAGATAAGTATTAAATTAAATTAAATAT
1 TATTAAAATAATATTAAATTAATAAAATATCTATTTAAAGATAAAAATTAAATTAAATTAAATAT
102534674 TAA-AT
66 TAAGAT
102534679 CTATTAAAATAATATT
1 -TATTAAAATAATATT
102534695 TTTTTGGAAT
Statistics
Matches: 65, Mismatches: 16, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
67 2 0.03
68 38 0.58
70 2 0.03
71 4 0.06
72 19 0.29
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (71 bp):
TATTAAAATAATATTAAATTAATAAAATATCTATTTAAAGATAAAAATTAAATTAAATTAAATAT
TAAGAT
Found at i:102534857 original size:20 final size:21
Alignment explanation
Indices: 102534832--102534872 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
102534822 TGCAGCTGTT
*
102534832 GGTTTGGT-TGGGCCAATGAC
1 GGTTTGGTCTAGGCCAATGAC
102534852 GGTTTGGTCTAGGCCAATGAC
1 GGTTTGGTCTAGGCCAATGAC
102534873 TGTCCGACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.17, C:0.17, G:0.37, T:0.29
Consensus pattern (21 bp):
GGTTTGGTCTAGGCCAATGAC
Found at i:102548837 original size:21 final size:21
Alignment explanation
Indices: 102548812--102548880 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
102548802 TATAATGATT
102548812 ATTATTATGGTTTTATATTAA
1 ATTATTATGGTTTTATATTAA
**
102548833 ATTATTATAATTATTA-ATT-A
1 ATTATTATGGTT-TTATATTAA
* *
102548853 A-CATTATGGTTTTATATTAG
1 ATTATTATGGTTTTATATTAA
102548873 ATTATTAT
1 ATTATTAT
102548881 TATTATTAGC
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
18 3 0.08
19 10 0.27
20 3 0.08
21 18 0.49
22 3 0.08
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.55
Consensus pattern (21 bp):
ATTATTATGGTTTTATATTAA
Found at i:102548894 original size:18 final size:18
Alignment explanation
Indices: 102548836--102548900 Score: 62
Period size: 18 Copynumber: 3.6 Consensus size: 18
102548826 ATATTAAATT
* *
102548836 ATTATAATTATTAATTAAC
1 ATTATTATTATT-ATTAGC
*
102548855 ATTATGGTTTTA-TATTAG-
1 ATTAT--TATTATTATTAGC
102548873 ATTATTATTATTATTAGC
1 ATTATTATTATTATTAGC
102548891 ATTATTATTA
1 ATTATTATTA
102548901 AATAAATTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
16 4 0.11
17 6 0.16
18 15 0.39
19 9 0.24
20 1 0.03
21 3 0.08
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.54
Consensus pattern (18 bp):
ATTATTATTATTATTAGC
Found at i:102552426 original size:2 final size:2
Alignment explanation
Indices: 102552419--102552453 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
102552409 ATGACATTTA
*
102552419 AT AT AT AT AT AT AT AT AT AA AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
102552454 GAGAGAGAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:102553852 original size:130 final size:129
Alignment explanation
Indices: 102553648--102554061 Score: 436
Period size: 130 Copynumber: 3.1 Consensus size: 129
102553638 AATGTTGCCC
* ** * * ** * *
102553648 TCGTTTTAAATAATTTTTAGGAGACATGAATGAAATTTTGAAAGGATATTTGATCATTTTAAGCA
1 TCGTTTTAAAGAATTTTTAAAAGACATGAATG-AATCTTGAAGGGATATTCAATTATTTTGAGCA
* * *
102553713 ACCGAGAAATTGCAACCCAGCACGTTAGGGCACAATTCTGCGAATTGCCAAATATCACACATCAC
65 AACGCGAAATTGCAACCCAACACGTTAGGGCACAATTCTGCGAATTGCCAAATATCA-A-ATCAC
102553778 CT
128 CT
* ** *
102553780 TCGTTTTAAAGAATTTTTAAAAGGCATGGGTG-ATCTTGAAGGGATATTCAATTATTTTGAGTAA
1 TCGTTTTAAAGAATTTTTAAAAGACATGAATGAATCTTGAAGGGATATTCAATTATTTTGAGCAA
* * * * **
102553844 ACGCGAAATTGCAACCCAACACGTTAGGGCACTATTCCGCCAATTGCCAAATATCGAATTTCGTC
66 ACGCGAAATTGCAACCCAACACGTTAGGGCACAATTCTGCGAATTGCCAAATATC-AA-ATCACC
102553909 T
129 T
* * * **
102553910 TCGTTTTAGAGAAAATTTTTAAAAGACATGAATGAAATTTTGAAGTGATATTCGGTTATTTTGAG
1 TCGTTTTA-A-AGAATTTTTAAAAGACATGAATG-AATCTTGAAGGGATATTCAATTATTTTGAG
* * *
102553975 CAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCT-CGAATTCCCAAATATCAAATCT
63 CAAACGCGAAATTGCAACCCAACACGTTAGGGCACAATT-CTGCGAATTGCCAAATATCAAATCA
102554039 CGTCT
127 C--CT
*
102554044 TCGTTTTGAAGAATTTTT
1 TCGTTTTAAAGAATTTTT
102554062 GAATGAATGA
Statistics
Matches: 233, Mismatches: 41, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
130 87 0.37
131 2 0.01
132 55 0.24
133 3 0.01
134 85 0.36
135 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (129 bp):
TCGTTTTAAAGAATTTTTAAAAGACATGAATGAATCTTGAAGGGATATTCAATTATTTTGAGCAA
ACGCGAAATTGCAACCCAACACGTTAGGGCACAATTCTGCGAATTGCCAAATATCAAATCACCT
Found at i:102553991 original size:134 final size:130
Alignment explanation
Indices: 102553648--102554061 Score: 472
Period size: 134 Copynumber: 3.1 Consensus size: 130
102553638 AATGTTGCCC
* ** * * *
102553648 TCGTTTTAAATAATTTTTAGGAGACATGAATGAAATTTTGAAAGGATATTTGATCATTTTAAGCA
1 TCGTTTTAAAAAATTTTTAAAAGACATGAATGAAATTTTG-AAGGATATTCGATTATTTTGAGCA
* * * * * **
102553713 ACCGAGAAATTGCAACCCAGCACGTTAGGGCACAATTCTGCGAATTGCCAAATATCACACATCAC
65 AACGCGAAATTGCAACCCAACACGTTAGGGCACAATTCCGCGAATTGCCAAATATCA-ATATCGT
102553778 CT
129 CT
* * ** * * *
102553780 TCGTTTTAAAGAATTTTTAAAAGGCATGGGTG--ATCTTGAAGGGATATTCAATTATTTTGAGTA
1 TCGTTTTAAAAAATTTTTAAAAGACATGAATGAAATTTTGAA-GGATATTCGATTATTTTGAGCA
* * *
102553843 AACGCGAAATTGCAACCCAACACGTTAGGGCACTATTCCGCCAATTGCCAAATATCGAATTTCGT
65 AACGCGAAATTGCAACCCAACACGTTAGGGCACAATTCCGCGAATTGCCAAATATC-AATATCGT
102553908 CT
129 CT
*
102553910 TCGTTTTAGAGAAAATTTTTAAAAGACATGAATGAAATTTTGAAGTGATATTCGGTTATTTTGAG
1 TCGTTTTA-A-AAAATTTTTAAAAGACATGAATGAAATTTTGAAG-GATATTCGATTATTTTGAG
* * * *
102553975 CAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCTCGAATTCCCAAATATCAAATCTC
63 CAAACGCGAAATTGCAACCCAACACGTTAGGGCACAATTCCGCGAATTGCCAAATATC-AATATC
102554040 GTCT
127 GTCT
* *
102554044 TCGTTTTGAAGAATTTTT
1 TCGTTTTAAAAAATTTTT
102554062 GAATGAATGA
Statistics
Matches: 237, Mismatches: 38, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
129 2 0.01
130 85 0.36
131 2 0.01
132 53 0.22
133 2 0.01
134 93 0.39
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (130 bp):
TCGTTTTAAAAAATTTTTAAAAGACATGAATGAAATTTTGAAGGATATTCGATTATTTTGAGCAA
ACGCGAAATTGCAACCCAACACGTTAGGGCACAATTCCGCGAATTGCCAAATATCAATATCGTCT
Found at i:102555161 original size:2 final size:2
Alignment explanation
Indices: 102555113--102555149 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
102555103 TTAAAAGAAA
102555113 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
102555150 GTTACATATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:102562533 original size:58 final size:57
Alignment explanation
Indices: 102562454--102562562 Score: 157
Period size: 58 Copynumber: 1.9 Consensus size: 57
102562444 ATTTTTCTAA
102562454 TATTATATATTATGATCTTTATT-AATTCATATTTTAATAATAATTATATTAAGAATGT
1 TATTATATATTATGATCTTTATTAAATT-ATA-TTTAATAATAATTATATTAAGAATGT
* * * *
102562512 TATTATATATTTTTATTTTTATTAAATTATATTTAATAATAATTTTATTAA
1 TATTATATATTATGATCTTTATTAAATTATATTTAATAATAATTATATTAA
102562563 AATTTAATAA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
57 19 0.41
58 23 0.50
59 4 0.09
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (57 bp):
TATTATATATTATGATCTTTATTAAATTATATTTAATAATAATTATATTAAGAATGT
Found at i:102568476 original size:26 final size:26
Alignment explanation
Indices: 102568447--102568556 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
102568437 TGATACAAAT
102568447 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
102568473 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
102568499 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
102568525 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
102568551 TGATAA
1 TGATAA
102568557 GAATTCATGT
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:102570312 original size:21 final size:21
Alignment explanation
Indices: 102570286--102570333 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
102570276 ATTCCCCACA
102570286 TGGAGTGTA-TGGCTGGTAGGG
1 TGGAGTGTAGTGGCTGGT-GGG
*
102570307 TGGAGTGTAGTGGTTGGTGGG
1 TGGAGTGTAGTGGCTGGTGGG
*
102570328 TTGAGT
1 TGGAGT
102570334 AGTCTCCCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.12, C:0.02, G:0.52, T:0.33
Consensus pattern (21 bp):
TGGAGTGTAGTGGCTGGTGGG
Found at i:102570584 original size:136 final size:136
Alignment explanation
Indices: 102570340--102570624 Score: 552
Period size: 136 Copynumber: 2.1 Consensus size: 136
102570330 GAGTAGTCTC
102570340 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
102570405 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
102570470 CTGTTA
131 CTGTTA
102570476 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
102570541 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
102570606 CTGTTA
131 CTGTTA
**
102570612 CCTGAATGGGCTT
1 CCCAAATGGGCTT
102570625 AGGCCCAATG
Statistics
Matches: 147, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
136 147 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:102571863 original size:12 final size:12
Alignment explanation
Indices: 102571846--102571888 Score: 86
Period size: 12 Copynumber: 3.6 Consensus size: 12
102571836 ACTCGGGGAA
102571846 GAGGCCGTGGTC
1 GAGGCCGTGGTC
102571858 GAGGCCGTGGTC
1 GAGGCCGTGGTC
102571870 GAGGCCGTGGTC
1 GAGGCCGTGGTC
102571882 GAGGCCG
1 GAGGCCG
102571889 AGGTAGTACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.09, C:0.26, G:0.51, T:0.14
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:102576790 original size:26 final size:26
Alignment explanation
Indices: 102576761--102576870 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
102576751 TGATACAAAT
102576761 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
102576787 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
102576813 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
102576839 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
102576865 TGATAA
1 TGATAA
102576871 GAATTCATGT
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:102578895 original size:136 final size:136
Alignment explanation
Indices: 102578651--102578935 Score: 552
Period size: 136 Copynumber: 2.1 Consensus size: 136
102578641 GAGTAGTCTC
102578651 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
102578716 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
102578781 CTGTTA
131 CTGTTA
102578787 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
102578852 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
102578917 CTGTTA
131 CTGTTA
**
102578923 CCTGAATGGGCTT
1 CCCAAATGGGCTT
102578936 AGGCCCAATG
Statistics
Matches: 147, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
136 147 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:102581825 original size:2 final size:2
Alignment explanation
Indices: 102581818--102581862 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
102581808 TGTTTTAAGT
*
102581818 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA GA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
102581860 TA T
1 TA T
102581863 TTATGTTATT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:102582567 original size:21 final size:21
Alignment explanation
Indices: 102582541--102582586 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
102582531 TGAGCGTATA
*
102582541 CCTTGGTCACGCGGCCATGTC
1 CCTTGGTCACACGGCCATGTC
* *
102582562 CCTTGGTCACATGGCCCTGTC
1 CCTTGGTCACACGGCCATGTC
102582583 CCTT
1 CCTT
102582587 AGCCACACAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.09, C:0.39, G:0.24, T:0.28
Consensus pattern (21 bp):
CCTTGGTCACACGGCCATGTC
Found at i:102582593 original size:21 final size:21
Alignment explanation
Indices: 102582553--102582593 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
102582543 TTGGTCACGC
* *
102582553 GGCCATGTCCCTTGGTCACAT
1 GGCCATGTCCCTTAGCCACAT
*
102582574 GGCCCTGTCCCTTAGCCACA
1 GGCCATGTCCCTTAGCCACA
102582594 CAGGCGTGTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.39, G:0.22, T:0.24
Consensus pattern (21 bp):
GGCCATGTCCCTTAGCCACAT
Found at i:102582711 original size:19 final size:20
Alignment explanation
Indices: 102582687--102582729 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
102582677 ATATGGGTGT
* *
102582687 GTGTA-GCTTTCACATGGGC
1 GTGTAGGCTTCCACATGGCC
102582706 GTGTAGGCTTCCACATGGCC
1 GTGTAGGCTTCCACATGGCC
102582726 GTGT
1 GTGT
102582730 GGCCCTGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.14, C:0.23, G:0.33, T:0.30
Consensus pattern (20 bp):
GTGTAGGCTTCCACATGGCC
Found at i:102586224 original size:13 final size:15
Alignment explanation
Indices: 102586205--102586237 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
102586195 GTACAAGTAT
102586205 GTATGAA-GAACTCA
1 GTATGAATGAACTCA
102586219 -TATGAATGAACTCA
1 GTATGAATGAACTCA
102586233 GTATG
1 GTATG
102586238 TGATAAACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 6 0.35
14 7 0.41
15 4 0.24
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.27
Consensus pattern (15 bp):
GTATGAATGAACTCA
Found at i:102590873 original size:52 final size:52
Alignment explanation
Indices: 102590710--102590861 Score: 304
Period size: 52 Copynumber: 2.9 Consensus size: 52
102590700 AGTCTTTCAT
102590710 AAGAAAATATAAGCAAATAACAGTTACATATCATAATTAAGTCAATTATCAC
1 AAGAAAATATAAGCAAATAACAGTTACATATCATAATTAAGTCAATTATCAC
102590762 AAGAAAATATAAGCAAATAACAGTTACATATCATAATTAAGTCAATTATCAC
1 AAGAAAATATAAGCAAATAACAGTTACATATCATAATTAAGTCAATTATCAC
102590814 AAGAAAATATAAGCAAATAACAGTTACATATCATAATTAAGTCAATTA
1 AAGAAAATATAAGCAAATAACAGTTACATATCATAATTAAGTCAATTA
102590862 ACCAATAAAA
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 100 1.00
ACGTcount: A:0.53, C:0.12, G:0.08, T:0.27
Consensus pattern (52 bp):
AAGAAAATATAAGCAAATAACAGTTACATATCATAATTAAGTCAATTATCAC
Found at i:102593589 original size:9 final size:10
Alignment explanation
Indices: 102593560--102593595 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
102593550 AAATTTTTAT
102593560 TTAAAAATTA
1 TTAAAAATTA
*
102593570 TTAAGAATTA
1 TTAAAAATTA
102593580 -TAAAAATTA
1 TTAAAAATTA
102593589 TTAAAAA
1 TTAAAAA
102593596 ATTAAAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
9 8 0.35
10 15 0.65
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (10 bp):
TTAAAAATTA
Found at i:102597039 original size:265 final size:266
Alignment explanation
Indices: 102596561--102597281 Score: 1043
Period size: 265 Copynumber: 2.7 Consensus size: 266
102596551 ACAAATTCAA
* *
102596561 ATAGCGAACAAGAGATATGCAAATTCTACATAATTCTCATGATTATATCTATAAATTTACAAATC
1 ATAGGGAACAAGAAATATGCAAATTCTACATAATTCTCATGATTATATCTATAAATTTACAAATC
*
102596626 ATCCTCAGCCATTGAAACTAACAATCACTTGTATGCTTTTTCATAAGCCATCTCCTTCCCTTCAG
66 AGCCTCAGCCATTGAAACTAACAATCACTTGTATGCTTTTTCATAAGCCATCTCCTTCCCTTCAG
*
102596691 CAGTCCATTAAATAAGAATAGACCATAAACGTCAAGCCTAGTATGCATTTATAGAATTTAAGCAG
131 CAGTCCATTAAATAAGAACAGACCATAAACGTCAAGCCTAGTATGCATTTATAGAATTTAAGCAG
*
102596756 AAATTACAATGCAGCAATTCTCAGAATAACGATTTCACTTAATTCCCC-CCCCCCCCCCC-GACA
196 AAATTACAATGCAGCAATTCTCAGAACAACGATTTCACTT-ATTCCCCTCCCCCCCCCCCGGACA
102596819 AACTCTT
260 AACTCTT
102596826 ATAGGGAACAAGAAATATGCAAATTCTACATAATTCTCATGATTATATCTATAAATTTACAAATC
1 ATAGGGAACAAGAAATATGCAAATTCTACATAATTCTCATGATTATATCTATAAATTTACAAATC
*
102596891 AGCCTCAGCCATTGAAACTAATAATCACTTGTATGCTTTTTCATAAGCCATCTCCTTCCCTTCAG
66 AGCCTCAGCCATTGAAACTAACAATCACTTGTATGCTTTTTCATAAGCCATCTCCTTCCCTTCAG
*
102596956 CAGTCCTTTAAATAAGAACAGACCATAAACGTCAAGCCTAGTATGCATTTATAGAATTTAAGCAG
131 CAGTCCATTAAATAAGAACAGACCATAAACGTCAAGCCTAGTATGCATTTATAGAATTTAAGCAG
102597021 AAATTACAATGCAGCAATTCTCAGAACAACGATTTCACTTATTCCCCTCCCCCCCCCCCGGACAA
196 AAATTACAATGCAGCAATTCTCAGAACAACGATTTCACTTATTCCCCTCCCCCCCCCCCGGACAA
102597086 ACTCTT
261 ACTCTT
* * * *
102597092 ATAGGGAACAAGAAATATGCAAAATGC-ACATCATTCTCATTATTATATCTTCTAAA--TAC---
1 ATAGGGAACAAGAAATATGC-AAATTCTACATAATTCTCATGATTATATC-TATAAATTTACAAA
* * * * * * * * * ** *
102597151 T-ATCCTCTGTCACT-AAAGCTAACAATCACTT-AATGCCTCTTCAGCAA-CCATATAGTTCCTT
64 TCAGCCTCAGCCATTGAAA-CTAACAATCACTTGTATGCTTTTTCA-TAAGCCATCTCCTTCCCT
* * * ** * *
102597212 TCAGCAGTCTATTAAATAAGAACAGACCATAAACTTCGATTCTAGTATCCATTTCTAGAATTTAA
127 TCAGCAGTCCATTAAATAAGAACAGACCATAAACGTCAAGCCTAGTATGCATTTATAGAATTTAA
102597277 GCAGA
192 GCAGA
102597282 TTTGCTAAAT
Statistics
Matches: 418, Mismatches: 32, Indels: 17
0.90 0.07 0.04
Matches are distributed among these distances:
260 84 0.20
261 23 0.06
262 1 0.00
264 7 0.02
265 242 0.58
266 51 0.12
267 10 0.02
ACGTcount: A:0.36, C:0.24, G:0.11, T:0.30
Consensus pattern (266 bp):
ATAGGGAACAAGAAATATGCAAATTCTACATAATTCTCATGATTATATCTATAAATTTACAAATC
AGCCTCAGCCATTGAAACTAACAATCACTTGTATGCTTTTTCATAAGCCATCTCCTTCCCTTCAG
CAGTCCATTAAATAAGAACAGACCATAAACGTCAAGCCTAGTATGCATTTATAGAATTTAAGCAG
AAATTACAATGCAGCAATTCTCAGAACAACGATTTCACTTATTCCCCTCCCCCCCCCCCGGACAA
ACTCTT
Found at i:102597982 original size:18 final size:18
Alignment explanation
Indices: 102597941--102597982 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
102597931 CTTCGGAAGC
* *
102597941 TTCTTCTTCTCCTTCGGA
1 TTCTTCTTCGCCTTCAGA
*
102597959 TGCTTCTTCGCCTTCAGA
1 TTCTTCTTCGCCTTCAGA
102597977 TTCTTC
1 TTCTTC
102597983 GTCTTCTTCC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.07, C:0.33, G:0.12, T:0.48
Consensus pattern (18 bp):
TTCTTCTTCGCCTTCAGA
Found at i:102601977 original size:12 final size:11
Alignment explanation
Indices: 102601939--102601991 Score: 60
Period size: 9 Copynumber: 5.1 Consensus size: 11
102601929 AATTTAGCCC
*
102601939 TATATATTTAT
1 TATATATATAT
102601950 TAT-TAT-TAT
1 TATATATATAT
102601959 TAT-TATATA-
1 TATATATATAT
102601968 TATATATATAT
1 TATATATATAT
102601979 ATATATATATAT
1 -TATATATATAT
102601991 T
1 T
102601992 TCATATATTG
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
9 12 0.32
10 11 0.29
11 4 0.11
12 11 0.29
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
TATATATATAT
Found at i:102601999 original size:2 final size:2
Alignment explanation
Indices: 102601939--102601990 Score: 60
Period size: 2 Copynumber: 28.5 Consensus size: 2
102601929 AATTTAGCCC
*
102601939 TA TA TA TT TA T- TA T- TA T- TA T- TA T- TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
102601976 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
102601991 TTCATATATT
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
1 5 0.12
2 38 0.88
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (2 bp):
TA
Found at i:102602082 original size:23 final size:22
Alignment explanation
Indices: 102602030--102602090 Score: 54
Period size: 23 Copynumber: 2.7 Consensus size: 22
102602020 AACCTTGCTT
*
102602030 TTTA-TATTATATATTGTAAGA
1 TTTATTATTATATATTATAAGA
* *
102602051 TTATTTTATTATATATTAATAATA
1 TT-TATTATTATATATT-ATAAGA
102602075 TTTATTATCTAT-TATT
1 TTTATTAT-TATATATT
102602091 CTTCACAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
21 2 0.06
22 1 0.03
23 20 0.62
24 9 0.28
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (22 bp):
TTTATTATTATATATTATAAGA
Found at i:102602126 original size:16 final size:16
Alignment explanation
Indices: 102602105--102602144 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
102602095 ACAAATTATT
102602105 ATTATTATTTTACATC
1 ATTATTATTTTACATC
* * *
102602121 ATTATTTTTTTATATT
1 ATTATTATTTTACATC
102602137 ATTATTAT
1 ATTATTAT
102602145 ATTTTTACTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTATTATTTTACATC
Found at i:102602176 original size:38 final size:35
Alignment explanation
Indices: 102602098--102602197 Score: 87
Period size: 35 Copynumber: 2.7 Consensus size: 35
102602088 ATTCTTCACA
102602098 AATTATTATTAT-TATTTTACATCATTATTTTTTT
1 AATTATTATTATATATTTTACATCATTATTTTTTT
* *
102602132 ATATTATTATTATAT-TTTTACTTGTATTATATATTTATT
1 A-ATTATTATTATATATTTTACAT-CATTAT-T-TTT-TT
102602171 AATTATTTATATATATCATTTTTACAT
1 AATTA-TTAT-TATAT-A-TTTTACAT
102602198 ATATACTTTC
Statistics
Matches: 52, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
34 1 0.02
35 18 0.35
36 6 0.12
37 1 0.02
38 7 0.13
39 7 0.13
40 5 0.10
43 7 0.13
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (35 bp):
AATTATTATTATATATTTTACATCATTATTTTTTT
Found at i:102602291 original size:17 final size:18
Alignment explanation
Indices: 102602269--102602311 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
102602259 TGTTATAACA
102602269 TTTATTATATTT-TTATT
1 TTTATTATATTTCTTATT
102602286 TTTATTCTATATTTCTTATT
1 TTTA-T-TATATTTCTTATT
*
102602306 ATTATT
1 TTTATT
102602312 TTTATATATG
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
17 4 0.18
18 2 0.09
19 8 0.36
20 8 0.36
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATTATATTTCTTATT
Found at i:102602310 original size:20 final size:19
Alignment explanation
Indices: 102602274--102602311 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
102602264 TAACATTTAT
*
102602274 TATATTTTTATTTTTATTC
1 TATATTTTTATTATTATTC
102602293 TATATTTCTTATTATTATT
1 TATATTT-TTATTATTATT
102602312 TTTATATATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (19 bp):
TATATTTTTATTATTATTC
Found at i:102602821 original size:29 final size:31
Alignment explanation
Indices: 102602788--102602868 Score: 85
Period size: 33 Copynumber: 2.5 Consensus size: 31
102602778 GTACATTGAT
*
102602788 ATTAT-ATTACT-CTTTTTTGTATGTCATGC
1 ATTATAATTACTACTTTTTTGTATATCATGC
*
102602817 ATTATTTAATTATTACTTTTTTGTATATCATGC
1 ATTA--TAATTACTACTTTTTTGTATATCATGC
*
102602850 ATTATTTAATTATTACTTT
1 ATTA--TAATTACTACTTT
102602869 GTATGTTTGT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
29 4 0.09
31 1 0.02
32 5 0.11
33 36 0.78
ACGTcount: A:0.26, C:0.10, G:0.06, T:0.58
Consensus pattern (31 bp):
ATTATAATTACTACTTTTTTGTATATCATGC
Found at i:102602838 original size:33 final size:33
Alignment explanation
Indices: 102602799--102602868 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
102602789 TTATATTACT
*
102602799 CTTTTTTGTATGTCATGCATTATTTAATTATTA
1 CTTTTTTGTATATCATGCATTATTTAATTATTA
102602832 CTTTTTTGTATATCATGCATTATTTAATTATTA
1 CTTTTTTGTATATCATGCATTATTTAATTATTA
102602865 CTTT
1 CTTT
102602869 GTATGTTTGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.24, C:0.10, G:0.07, T:0.59
Consensus pattern (33 bp):
CTTTTTTGTATATCATGCATTATTTAATTATTA
Found at i:102602952 original size:2 final size:2
Alignment explanation
Indices: 102602945--102602979 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
102602935 TAATATTTGC
102602945 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
102602980 TTTTATATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:102604038 original size:84 final size:85
Alignment explanation
Indices: 102603897--102604088 Score: 228
Period size: 84 Copynumber: 2.3 Consensus size: 85
102603887 AGCACAGCAT
* * * *
102603897 TGCATCATCGGATAAATTGAAGGAAATATATTGGCACACATAGTGCATCATCAGATAAA-CCAAA
1 TGCATCATCGGATAAATCGAAGGAAATATACTGACACACATAATGCATCATCAGATAAATCCAAA
* * *
102603961 GTAGTTATATCG-GCGCATAG
66 -CAGTTATATCGAACACATAG
* * *
102603981 TGCATCATCGAATAAATCGAAGGATGA-ATACTGACACACATAATGCATCATCAGATAAATCTAA
1 TGCATCATCGGATAAATCGAAGGA-AATATACTGACACACATAATGCATCATCAGATAAATCCAA
*
102604045 ACAGTTATATTGACACACATAG
65 ACAGTTATATCGA-ACACATAG
*
102604067 TGCATCATTGGATAAATCGAAG
1 TGCATCATCGGATAAATCGAAG
102604089 CAGTTATACT
Statistics
Matches: 91, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
84 60 0.66
85 5 0.05
86 26 0.29
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.25
Consensus pattern (85 bp):
TGCATCATCGGATAAATCGAAGGAAATATACTGACACACATAATGCATCATCAGATAAATCCAAA
CAGTTATATCGAACACATAG
Found at i:102604093 original size:43 final size:43
Alignment explanation
Indices: 102603897--102604105 Score: 181
Period size: 43 Copynumber: 4.9 Consensus size: 43
102603887 AGCACAGCAT
* * ** *
102603897 TGCATCATCGGATAAATTGAAGGAAATATATTGGCACACATAG
1 TGCATCATCGGATAAATCGAAGCAGTTATATTGACACACATAG
* * * * * * *
102603940 TGCATCATCAGATAAACCAAAGTAGTTATATCG--GCGCATAG
1 TGCATCATCGGATAAATCGAAGCAGTTATATTGACACACATAG
* * * * *
102603981 TGCATCATCGAATAAATCGAAGGA-TGAATACTGACACACATAA
1 TGCATCATCGGATAAATCGAAGCAGT-TATATTGACACACATAG
* * *
102604024 TGCATCATCAGATAAATCTAAACAGTTATATTGACACACATAG
1 TGCATCATCGGATAAATCGAAGCAGTTATATTGACACACATAG
* * *
102604067 TGCATCATTGGATAAATCGAAGCAGTTATACTAACACAC
1 TGCATCATCGGATAAATCGAAGCAGTTATATTGACACAC
102604106 GCCATTGGAT
Statistics
Matches: 127, Mismatches: 35, Indels: 8
0.75 0.21 0.05
Matches are distributed among these distances:
40 1 0.01
41 29 0.23
43 96 0.76
44 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.25
Consensus pattern (43 bp):
TGCATCATCGGATAAATCGAAGCAGTTATATTGACACACATAG
Found at i:102613238 original size:101 final size:101
Alignment explanation
Indices: 102613063--102613265 Score: 334
Period size: 101 Copynumber: 2.0 Consensus size: 101
102613053 GACTTCACTT
* * * * *
102613063 CCTCTTCGTCCACTCCGTAGCACTTGCTTCAGTCTGTCTCATTTGTCATGGTATTCATTTCACAC
1 CCTCTTCGTCCACTCCATAGCACTTGCTTCAGTCTGTCCCACTTGTAATGGTATTCATTCCACAC
102613128 ATAATCCAATATGAGCAAAAATCGTTTCCCAACAAA
66 ATAATCCAATATGAGCAAAAATCGTTTCCCAACAAA
**
102613164 CCTCTTCGTCCACTCCATAGCGGTTGCTTCAGTCTGTCCCACTTGTAATGGTATTCATTCCACAC
1 CCTCTTCGTCCACTCCATAGCACTTGCTTCAGTCTGTCCCACTTGTAATGGTATTCATTCCACAC
*
102613229 ATAATCCAATATGAGCAAAAATCGTTTTCCAACAAA
66 ATAATCCAATATGAGCAAAAATCGTTTCCCAACAAA
102613265 C
1 C
102613266 TTTTCTGCTA
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
101 94 1.00
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (101 bp):
CCTCTTCGTCCACTCCATAGCACTTGCTTCAGTCTGTCCCACTTGTAATGGTATTCATTCCACAC
ATAATCCAATATGAGCAAAAATCGTTTCCCAACAAA
Found at i:102619292 original size:13 final size:13
Alignment explanation
Indices: 102619259--102619292 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
102619249 TAAAAGTGAC
*
102619259 TATTTTTATAGTT
1 TATTTTTTTAGTT
*
102619272 TATTTTTTTATTT
1 TATTTTTTTAGTT
102619285 TATTTTTT
1 TATTTTTT
102619293 GTTTTAGGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (13 bp):
TATTTTTTTAGTT
Found at i:102623098 original size:8 final size:8
Alignment explanation
Indices: 102623082--102623152 Score: 133
Period size: 8 Copynumber: 8.9 Consensus size: 8
102623072 ATTTAAGTAA
*
102623082 ATATCATT
1 ATATTATT
102623090 ATATTATT
1 ATATTATT
102623098 ATATTATT
1 ATATTATT
102623106 ATATTATT
1 ATATTATT
102623114 ATATTATT
1 ATATTATT
102623122 ATATTATT
1 ATATTATT
102623130 ATATTATT
1 ATATTATT
102623138 ATATTATT
1 ATATTATT
102623146 ATATTAT
1 ATATTAT
102623153 ATTAATTAAA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
8 62 1.00
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (8 bp):
ATATTATT
Found at i:102623237 original size:23 final size:23
Alignment explanation
Indices: 102623211--102623258 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
102623201 GGTAATAATA
102623211 ATGTAAATGTGTAATAAATACAT
1 ATGTAAATGTGTAATAAATACAT
* * * *
102623234 ATGTACATTTGTAATACATATAT
1 ATGTAAATGTGTAATAAATACAT
102623257 AT
1 AT
102623259 TTATTTATTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (23 bp):
ATGTAAATGTGTAATAAATACAT
Found at i:102623403 original size:27 final size:27
Alignment explanation
Indices: 102623342--102623404 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 27
102623332 AGAAACAAAA
102623342 AAAGGAAAAAAAGGAAGAACAGAATAG
1 AAAGGAAAAAAAGGAAGAACAGAATAG
* *
102623369 AAACGAAAAAACAGGGGAGAA-AGAA-AG
1 AAAGGAAAAAA-A-GGAAGAACAGAATAG
*
102623396 GAAGGAAAA
1 AAAGGAAAA
102623405 GGGAAAGAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
27 19 0.63
28 5 0.17
29 6 0.20
ACGTcount: A:0.65, C:0.05, G:0.29, T:0.02
Consensus pattern (27 bp):
AAAGGAAAAAAAGGAAGAACAGAATAG
Found at i:102624382 original size:40 final size:39
Alignment explanation
Indices: 102624280--102624357 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 39
102624270 AGCCTTCTCG
102624280 AGAAT-TA-AAAGTGAATAGGATTTATTCCTGATTCACT
1 AGAATATATAAAGTGAATAGGATTTATTCCTGATTCACT
* *
102624317 AGAAATATATAAAGTGGATAGGATTTGTTCCTGATTCACT
1 AG-AATATATAAAGTGAATAGGATTTATTCCTGATTCACT
102624357 A
1 A
102624358 TGGTAACTCA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
37 2 0.06
38 3 0.08
39 2 0.06
40 29 0.81
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (39 bp):
AGAATATATAAAGTGAATAGGATTTATTCCTGATTCACT
Found at i:102626622 original size:52 final size:51
Alignment explanation
Indices: 102626565--102626696 Score: 167
Period size: 50 Copynumber: 2.6 Consensus size: 51
102626555 ATGAACAAAT
* *
102626565 GAGTTACTTAATACATGACTTAATTTAATGATGCAAACTTTAACTAACATGG
1 GAGTTACATAATACATGACTTAATTTAATGATGCAAAC-TTAACTAACATGA
* * * *
102626617 GAGTTACATAATTCATGTCATAATTT-ATGATGCAAACTTAACTTACATGA
1 GAGTTACATAATACATGACTTAATTTAATGATGCAAACTTAACTAACATGA
* * *
102626667 GAGTTACATAATGCATGACTTTATTAAATG
1 GAGTTACATAATACATGACTTAATTTAATG
102626697 CAGAATACAT
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
50 32 0.47
51 14 0.21
52 22 0.32
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.36
Consensus pattern (51 bp):
GAGTTACATAATACATGACTTAATTTAATGATGCAAACTTAACTAACATGA
Found at i:102636816 original size:21 final size:21
Alignment explanation
Indices: 102636782--102636830 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
102636772 TGAGTGCAAA
102636782 ATTAAAA-AATTAAAAAAATT
1 ATTAAAATAATTAAAAAAATT
* *
102636802 ATTAAAATTATTAAAAATATT
1 ATTAAAATAATTAAAAAAATT
102636823 A-TAAAATA
1 ATTAAAATA
102636831 TATAATTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 13 0.52
21 12 0.48
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
ATTAAAATAATTAAAAAAATT
Found at i:102639496 original size:2 final size:2
Alignment explanation
Indices: 102639489--102639521 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
102639479 TTTTAAGCCT
102639489 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
102639522 TACTACTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:102660585 original size:35 final size:37
Alignment explanation
Indices: 102660510--102660578 Score: 90
Period size: 36 Copynumber: 1.9 Consensus size: 37
102660500 TTAAATATAT
* **
102660510 AAATTTCAAAATGTTTATCGAAATTTTTTAAAAAACA
1 AAATTTCAAAATATTTATCGAAATTTTAAAAAAAACA
102660547 AAATTT-AAAATATTTATCG-AA-TTTAAAAAAAA
1 AAATTTCAAAATATTTATCGAAATTTTAAAAAAAA
102660579 GTAAAATGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
34 9 0.31
35 2 0.07
36 12 0.41
37 6 0.21
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.36
Consensus pattern (37 bp):
AAATTTCAAAATATTTATCGAAATTTTAAAAAAAACA
Found at i:102661791 original size:3 final size:3
Alignment explanation
Indices: 102661783--102661905 Score: 81
Period size: 3 Copynumber: 41.0 Consensus size: 3
102661773 TTAATTTTTG
* * * * *
102661783 TTA TTA TTA GTA TTA TTA TTA ATA TTA TTT TTA TTT TTA TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
102661831 TTT TCTA TT- TTT TCTA TTA TTA TTA TTG TTA TTT TCTA CT- TTA TTA
1 TTA T-TA TTA TTA T-TA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
* * *
102661877 TTA TTA TT- GTA TTA TCA CTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
102661906 CCATATCATT
Statistics
Matches: 89, Mismatches: 25, Indels: 12
0.71 0.20 0.10
Matches are distributed among these distances:
2 4 0.04
3 80 0.90
4 5 0.06
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:102662318 original size:16 final size:17
Alignment explanation
Indices: 102662283--102662321 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
102662273 TTTATTTCAT
102662283 TTTATTTATCATCGGCC
1 TTTATTTATCATCGGCC
102662300 TTTATTTATTC-TC-GCC
1 TTTATTTA-TCATCGGCC
102662316 TTTATT
1 TTTATT
102662322 AATATCATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 9 0.43
17 10 0.48
18 2 0.10
ACGTcount: A:0.15, C:0.21, G:0.08, T:0.56
Consensus pattern (17 bp):
TTTATTTATCATCGGCC
Found at i:102665828 original size:19 final size:19
Alignment explanation
Indices: 102665804--102665850 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
102665794 ACTTTTTAGT
*
102665804 TTTGCATT-CATCTCATGCA
1 TTTGCATTACATCACAT-CA
102665823 TTTGCATTACATCACATCA
1 TTTGCATTACATCACATCA
*
102665842 TGTGCATTA
1 TTTGCATTA
102665851 AATTTCACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.26, C:0.23, G:0.11, T:0.40
Consensus pattern (19 bp):
TTTGCATTACATCACATCA
Found at i:102668308 original size:45 final size:49
Alignment explanation
Indices: 102668183--102668309 Score: 127
Period size: 53 Copynumber: 2.6 Consensus size: 49
102668173 GATATATGCT
*
102668183 TTCGTATAAGACCATAGCCGGGCTATGGCATCAGTACAATGTGATTATGTGA
1 TTCGTATAAGACCATAGCAGGGCTATGGCATCAGT--AA-GTGATTATGTGA
*** * *
102668235 TTCTGTATAAGACCATATTTGGGATATGGCATCTGT-A-TGA-TATGTGA
1 TTC-GTATAAGACCATAGCAGGGCTATGGCATCAGTAAGTGATTATGTGA
*
102668282 -TCGTATAAGACCATGGCAGGGCTATGGC
1 TTCGTATAAGACCATAGCAGGGCTATGGC
102668310 TTCGGTGTGC
Statistics
Matches: 64, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
45 21 0.33
46 2 0.03
47 7 0.11
48 3 0.05
50 1 0.02
52 3 0.05
53 27 0.42
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.31
Consensus pattern (49 bp):
TTCGTATAAGACCATAGCAGGGCTATGGCATCAGTAAGTGATTATGTGA
Found at i:102668855 original size:17 final size:21
Alignment explanation
Indices: 102668813--102668855 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
102668803 GATTGGAAAA
102668813 TGAAATATACTTGTTTTGGCT
1 TGAAATATACTTGTTTTGGCT
102668834 TGAAATA-A-TTG-TTTGG-T
1 TGAAATATACTTGTTTTGGCT
102668851 TGAAA
1 TGAAA
102668856 ATTTTTAGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.27
18 5 0.23
19 3 0.14
20 1 0.05
21 7 0.32
ACGTcount: A:0.30, C:0.05, G:0.21, T:0.44
Consensus pattern (21 bp):
TGAAATATACTTGTTTTGGCT
Found at i:102668857 original size:18 final size:20
Alignment explanation
Indices: 102668813--102668857 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 20
102668803 GATTGGAAAA
*
102668813 TGAAATATACTTGTTTTGGCT
1 TGAAA-ATAATTGTTTTGGCT
102668834 TG-AAATAATTG-TTTGG-T
1 TGAAAATAATTGTTTTGGCT
102668851 TGAAAAT
1 TGAAAAT
102668858 TTTTAGGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
17 3 0.14
18 9 0.41
19 6 0.27
20 2 0.09
21 2 0.09
ACGTcount: A:0.31, C:0.04, G:0.20, T:0.44
Consensus pattern (20 bp):
TGAAAATAATTGTTTTGGCT
Found at i:102670944 original size:23 final size:24
Alignment explanation
Indices: 102670877--102670991 Score: 83
Period size: 21 Copynumber: 5.2 Consensus size: 24
102670867 TAAGGAAAAA
*
102670877 AGTAAT-AAT-GAAA-ATAATATT
1 AGTAATAAATAGAAATATAATAAT
102670898 AGTATATAAATAGAAATA-AA-AAT
1 AGTA-ATAAATAGAAATATAATAAT
102670921 A-TAATAAATAGAAATATAATAAT
1 AGTAATAAATAGAAATATAATAAT
* * *
102670944 AGT-AGAAATATAAATA-GATAA-
1 AGTAATAAATAGAAATATAATAAT
102670965 A-TAA-AAATTAGATAA-ATAATAAT
1 AGTAATAAA-TAGA-AATATAATAAT
102670988 AGTA
1 AGTA
102670992 TTAGAATAAC
Statistics
Matches: 75, Mismatches: 6, Indels: 23
0.72 0.06 0.22
Matches are distributed among these distances:
20 4 0.05
21 23 0.31
22 16 0.21
23 22 0.29
24 9 0.12
25 1 0.01
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.29
Consensus pattern (24 bp):
AGTAATAAATAGAAATATAATAAT
Found at i:102670959 original size:44 final size:44
Alignment explanation
Indices: 102670905--102670991 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
102670895 ATTAGTATAT
102670905 AAATAGAAATA-A-AAATATAATAAATAGA-AATATAATAATAGTAG
1 AAATAGAAATAGATAAATA-AA-AAATAGATAA-ATAATAATAGTAG
* *
102670949 AAATATAAATAGATAAATAAAAATTAGATAAATAATAATAGTA
1 AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTA
102670992 TTAGAATAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
44 28 0.74
45 5 0.13
46 5 0.13
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (44 bp):
AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTAG
Found at i:102670976 original size:15 final size:14
Alignment explanation
Indices: 102670903--102671031 Score: 70
Period size: 15 Copynumber: 8.9 Consensus size: 14
102670893 ATATTAGTAT
*
102670903 ATAAATAGAAATA-
1 ATAAATAAAAATAG
*
102670916 AAAATATAATAAATAG
1 ATAA-ATAA-AAATAG
*
102670932 A-AATATAATAATAG
1 ATAA-ATAAAAATAG
* *
102670946 TAGAAATATAAATAG
1 -ATAAATAAAAATAG
102670961 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
*
102670976 ATAAATAATAATAG
1 ATAAATAAAAATAG
*
102670990 TATTAGAATAACAA-A-
1 -A-TA-AATAAAAATAG
*
102671005 ATAAATATAAATAG
1 ATAAATAAAAATAG
102671019 A-AACATAAAAATA
1 ATAA-ATAAAAATA
102671032 ATAGCAATAA
Statistics
Matches: 92, Mismatches: 12, Indels: 23
0.72 0.09 0.18
Matches are distributed among these distances:
12 6 0.07
13 8 0.09
14 30 0.33
15 35 0.38
16 6 0.07
17 7 0.08
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.26
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:102670981 original size:29 final size:28
Alignment explanation
Indices: 102670924--102671031 Score: 73
Period size: 29 Copynumber: 3.8 Consensus size: 28
102670914 TAAAAATATA
* * *
102670924 ATAAATAGAAATATAATAATAGTAGAAAT
1 ATAAATAGAAACATAAAAATAG-ATAAAT
102670953 ATAAATAGATAA-ATAAAAATTAGATAAAT
1 ATAAATAGA-AACATAAAAA-TAGATAAAT
*
102670982 A-ATAATAGTATTAGA-ATAACAA-A-ATAAAT
1 ATA-AATAG-A--A-ACATAAAAATAGATAAAT
102671011 ATAAATAGAAACATAAAAATA
1 ATAAATAGAAACATAAAAATA
102671032 ATAGCAATAA
Statistics
Matches: 66, Mismatches: 4, Indels: 20
0.73 0.04 0.22
Matches are distributed among these distances:
25 1 0.02
26 7 0.11
27 1 0.02
28 2 0.03
29 38 0.58
30 8 0.12
31 2 0.03
32 7 0.11
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (28 bp):
ATAAATAGAAACATAAAAATAGATAAAT
Found at i:102674213 original size:35 final size:35
Alignment explanation
Indices: 102674172--102674240 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
102674162 GTGAAATAGG
102674172 CTCATGTTTAAACGTCTTTATTTTTAATAAAAATA
1 CTCATGTTTAAACGTCTTTATTTTTAATAAAAATA
102674207 CTCATGTTTAAACGTCTTTATTTTTAATAAAAAT
1 CTCATGTTTAAACGTCTTTATTTTTAATAAAAAT
102674241 GTACTTTTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.46
Consensus pattern (35 bp):
CTCATGTTTAAACGTCTTTATTTTTAATAAAAATA
Found at i:102677033 original size:118 final size:118
Alignment explanation
Indices: 102676826--102677072 Score: 440
Period size: 118 Copynumber: 2.1 Consensus size: 118
102676816 AGACCAATTG
102676826 TGTAATTAAACCTTCCTTAGAGGGTAATTATACCATATACTTATATTATGGACATTTATCGACAT
1 TGTAATTAAACCTTCCTTAGAGGGTAATTATACCATATACTTATATTATGGACATTTATCGACAT
*
102676891 GAGTTAGTAATTTTATAAGTTATATTAAAGGGAAATTTAGTGAAAAGTTAGAA
66 GAGTTAGTAATTTTATAAGTTATATTAAAGGGAAATTTAGTAAAAAGTTAGAA
* *
102676944 TGTAATTAAACCTTCCTTAGATGGTAATTATACCATATACTTATATTATGGACATTTATGGACAT
1 TGTAATTAAACCTTCCTTAGAGGGTAATTATACCATATACTTATATTATGGACATTTATCGACAT
* *
102677009 GATTTAGTAATTTTATAAGTTATATTAAAGGGTAATTTAGTAAAAAGTTAGAA
66 GAGTTAGTAATTTTATAAGTTATATTAAAGGGAAATTTAGTAAAAAGTTAGAA
102677062 TGTAAGTTAAA
1 TGTAA-TTAAA
102677073 TTAAGGAAAA
Statistics
Matches: 123, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
118 118 0.96
119 5 0.04
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (118 bp):
TGTAATTAAACCTTCCTTAGAGGGTAATTATACCATATACTTATATTATGGACATTTATCGACAT
GAGTTAGTAATTTTATAAGTTATATTAAAGGGAAATTTAGTAAAAAGTTAGAA
Found at i:102680516 original size:39 final size:39
Alignment explanation
Indices: 102680462--102680570 Score: 157
Period size: 39 Copynumber: 2.8 Consensus size: 39
102680452 ACTCAGTGAT
*
102680462 GAATTATATCCGGACTTAAGGTCCGCAGGCTATATGCTG
1 GAATTATGTCCGGACTTAAGGTCCGCAGGCTATATGCTG
*
102680501 GAATTATGTCCGGACTTAAGGTCTGCAGGCTATATGCTG
1 GAATTATGTCCGGACTTAAGGTCCGCAGGCTATATGCTG
* * *
102680540 GAATTACGTCCGGGC-TAAAGTCTCGCAGGCT
1 GAATTATGTCCGGACTTAAGGTC-CGCAGGCT
102680571 TCGAGCTGGT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
38 6 0.10
39 57 0.90
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (39 bp):
GAATTATGTCCGGACTTAAGGTCCGCAGGCTATATGCTG
Found at i:102687192 original size:12 final size:12
Alignment explanation
Indices: 102687177--102687219 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
102687167 TTAAAAAATA
102687177 AATTAATTTTTT
1 AATTAATTTTTT
**
102687189 AATTAAAATTTT
1 AATTAATTTTTT
*
102687201 AATTTATTTTTAT
1 AATTAATTTTT-T
102687214 AATTAA
1 AATTAA
102687220 GTGATGACAT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
12 18 0.75
13 6 0.25
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
AATTAATTTTTT
Found at i:102687192 original size:24 final size:25
Alignment explanation
Indices: 102687165--102687219 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
102687155 TTATATGTTA
102687165 AATTAAAAAATAAATTAATTTTT-T
1 AATTAAAAAATAAATTAATTTTTAT
** * *
102687189 AATTAAAATTTTAATTTATTTTTAT
1 AATTAAAAAATAAATTAATTTTTAT
102687214 AATTAA
1 AATTAA
102687220 GTGATGACAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 19 0.73
25 7 0.27
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
AATTAAAAAATAAATTAATTTTTAT
Found at i:102687350 original size:29 final size:29
Alignment explanation
Indices: 102687309--102687382 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
102687299 TTTTCTATTT
* *
102687309 AATTCTAAAAATTATTTAAAAAT-TTTAA
1 AATTATAATAATTATTTAAAAATATTTAA
102687337 GAATTATAATAATT-TATTAAAAATATTTAA
1 -AATTATAATAATTAT-TTAAAAATATTTAA
* *
102687367 AATCATAATAAATATT
1 AATTATAATAATTATT
102687383 CAAATATAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
28 1 0.03
29 31 0.82
30 6 0.16
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (29 bp):
AATTATAATAATTATTTAAAAATATTTAA
Found at i:102688713 original size:4 final size:4
Alignment explanation
Indices: 102688704--102688953 Score: 356
Period size: 4 Copynumber: 62.5 Consensus size: 4
102688694 TATCTAAACA
102688704 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * *
102688752 ATGT ATGT ATGC ATGT ATGC ATGT ATGC ATGT ATGC ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
102688800 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGC ATGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * *
102688848 ATGC ATGC ATGC ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*** * * *
102688896 ACAC ATAT ATGT ATGT ATGT ATGT ATGT ATGT ACGT ATGT ACGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
102688944 ACGT ATGT AT
1 ATGT ATGT AT
102688954 TATTTATTTA
Statistics
Matches: 224, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 224 1.00
ACGTcount: A:0.26, C:0.06, G:0.24, T:0.44
Consensus pattern (4 bp):
ATGT
Found at i:102689040 original size:23 final size:23
Alignment explanation
Indices: 102689014--102689067 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
102689004 GTTCAATTAT
**
102689014 ATGTTCGTTTAATGTT-CGTGAAC
1 ATGTTCGTTTAA-GTTAAATGAAC
102689037 ATGTTCGTTTAAGTTAAATGAAC
1 ATGTTCGTTTAAGTTAAATGAAC
102689060 ATGTTCGT
1 ATGTTCGT
102689068 GATCATTAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 3 0.11
23 25 0.89
ACGTcount: A:0.26, C:0.11, G:0.20, T:0.43
Consensus pattern (23 bp):
ATGTTCGTTTAAGTTAAATGAAC
Found at i:102689471 original size:30 final size:28
Alignment explanation
Indices: 102689405--102689471 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 28
102689395 CATACAGTTG
102689405 AAATTTAGTTTCCCTAATTTTATTTTAA
1 AAATTTAGTTTCCCTAATTTTATTTTAA
*
102689433 AGAATTTAG-TTCCTCTACTTCTTAATTTTAA
1 A-AATTTAGTTTCC-CTAATT-TT-ATTTTAA
102689464 AAATTTAG
1 AAATTTAG
102689472 GGCCAATTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
28 5 0.15
29 12 0.35
30 9 0.26
31 8 0.24
ACGTcount: A:0.33, C:0.12, G:0.06, T:0.49
Consensus pattern (28 bp):
AAATTTAGTTTCCCTAATTTTATTTTAA
Found at i:102690422 original size:10 final size:10
Alignment explanation
Indices: 102690407--102690466 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
102690397 AAATTTTAGG
102690407 ATTTAT-TTT
1 ATTTATCTTT
102690416 CATTTATCTTT
1 -ATTTATCTTT
102690427 ATTTATCTTT
1 ATTTATCTTT
*
102690437 AATTATCTTT
1 ATTTATCTTT
102690447 ATTTAT-TTGT
1 ATTTATCTT-T
102690457 ATTTATCTTT
1 ATTTATCTTT
102690467 TAGAATTTCA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:102691944 original size:21 final size:21
Alignment explanation
Indices: 102691920--102691959 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
102691910 CATTTACCTA
102691920 GAAACCTGTTCAACATGTCCT
1 GAAACCTGTTCAACATGTCCT
102691941 GAAACCTGTTCAACATGTC
1 GAAACCTGTTCAACATGTC
102691960 ATTTTTGTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (21 bp):
GAAACCTGTTCAACATGTCCT
Found at i:102692369 original size:2 final size:2
Alignment explanation
Indices: 102692357--102692386 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
102692347 TTGTTCCATC
*
102692357 AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
102692387 GTGTGTGTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:102692391 original size:2 final size:2
Alignment explanation
Indices: 102692386--102692422 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
102692376 TATATATATA
102692386 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
102692423 ATCAAGAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:102699797 original size:51 final size:51
Alignment explanation
Indices: 102699711--102699829 Score: 132
Period size: 51 Copynumber: 2.3 Consensus size: 51
102699701 AACGAGAACA
* * * * *
102699711 CCAACACAAAAAAAAATTGCATTAACAACATTGGTGCTGGCA-ACAAGAAAG
1 CCAACACCAAAAAAAATTGCAATAAAAAAACTGGTGCTGG-ATACAAGAAAG
* * **
102699762 CCAACACCAAAAAAAATTTCAATAAAAAAACTGGTGCTGGATTCGGGAAAG
1 CCAACACCAAAAAAAATTGCAATAAAAAAACTGGTGCTGGATACAAGAAAG
102699813 CCAACACCAAATAAAAA
1 CCAACACCAAA-AAAAA
102699830 ATATTTTTTA
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
50 1 0.02
51 51 0.89
52 5 0.09
ACGTcount: A:0.50, C:0.20, G:0.14, T:0.15
Consensus pattern (51 bp):
CCAACACCAAAAAAAATTGCAATAAAAAAACTGGTGCTGGATACAAGAAAG
Found at i:102701584 original size:15 final size:15
Alignment explanation
Indices: 102701564--102701595 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
102701554 ATGGACGAGA
102701564 TTGTTCGAAATACCT
1 TTGTTCGAAATACCT
*
102701579 TTGTTCGGAATACCT
1 TTGTTCGAAATACCT
102701594 TT
1 TT
102701596 TGGATATGAT
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:0.22, C:0.19, G:0.16, T:0.44
Consensus pattern (15 bp):
TTGTTCGAAATACCT
Found at i:102703777 original size:30 final size:30
Alignment explanation
Indices: 102703743--102703801 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
102703733 TGTTAAGCTA
102703743 TATGTATGGAACTTGAATGCCATATTTGGT
1 TATGTATGGAACTTGAATGCCATATTTGGT
* *
102703773 TATGTATGGCACTTGAATGGCATATTTGG
1 TATGTATGGAACTTGAATGCCATATTTGG
102703802 GGTATGAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.25, C:0.10, G:0.25, T:0.39
Consensus pattern (30 bp):
TATGTATGGAACTTGAATGCCATATTTGGT
Found at i:102706426 original size:11 final size:11
Alignment explanation
Indices: 102706331--102706437 Score: 65
Period size: 12 Copynumber: 9.1 Consensus size: 11
102706321 AAAAAAAAAT
102706331 TATATAATAAA
1 TATATAATAAA
*
102706342 -ATGTAATATAAA
1 TATAT-A-ATAAA
*
102706354 TATATAAGAAA
1 TATATAATAAA
102706365 TATAATAGATATAA
1 TAT-ATA-ATA-AA
*
102706379 TATAAAATAACA
1 TATATAATAA-A
* * *
102706391 TGTAAAACAATA
1 TATATAATAA-A
102706403 TATATATATAAA
1 TATATA-ATAAA
102706415 TA-ATTAATAAA
1 TATA-TAATAAA
102706426 TATATAATAAA
1 TATATAATAAA
102706437 T
1 T
102706438 GTGAGAATAT
Statistics
Matches: 75, Mismatches: 11, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
10 3 0.04
11 25 0.33
12 32 0.43
13 10 0.13
14 5 0.07
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.34
Consensus pattern (11 bp):
TATATAATAAA
Found at i:102706428 original size:47 final size:47
Alignment explanation
Indices: 102706352--102706471 Score: 120
Period size: 48 Copynumber: 2.4 Consensus size: 47
102706342 ATGTAATATA
102706352 AATATATAAGAAATATAATAGATATAATATAAAATAACATGT-A-AA-ACAAT
1 AATATAT-A-AAA-ATAATA-ATA-AATATAAAATAA-ATGTGAGAATACAAT
* * *
102706402 ATATATATATAAATAATTAATAAATATATAATAAATGTGAGAATATAAT
1 A-ATATATAAAAATAA-TAATAAATATAAAATAAATGTGAGAATACAAT
102706451 AATATATAAAAATAATAATAA
1 AATATATAAAAATAATAATAA
102706472 TTTGAGGAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
46 4 0.07
47 18 0.30
48 22 0.36
49 9 0.15
50 2 0.03
51 6 0.10
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.32
Consensus pattern (47 bp):
AATATATAAAAATAATAATAAATATAAAATAAATGTGAGAATACAAT
Found at i:102706460 original size:35 final size:35
Alignment explanation
Indices: 102706423--102706501 Score: 90
Period size: 33 Copynumber: 2.3 Consensus size: 35
102706413 AATAATTAAT
102706423 AAATATATAATAAATGTGAGAATATAATAATATATAA
1 AAATA-ATAAT-AATGTGAGAATATAATAATATATAA
* *
102706460 AAATAATAATAATTTGAGGA-A-AATAATATATAA
1 AAATAATAATAATGTGAGAATATAATAATATATAA
* *
102706493 TAGTAATAA
1 AAATAATAA
102706502 AAATAACACT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
33 19 0.50
34 1 0.03
35 8 0.21
36 5 0.13
37 5 0.13
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.32
Consensus pattern (35 bp):
AAATAATAATAATGTGAGAATATAATAATATATAA
Found at i:102706486 original size:36 final size:36
Alignment explanation
Indices: 102706423--102706491 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
102706413 AATAATTAAT
*
102706423 AAATATATAATAAATGTGAGAATATAATAATATATAA
1 AAATATATAATAAATGTGAGAAAATAAT-ATATATAA
*
102706460 AAATA-ATAAT-AATTTGAGGAAAATAATATATA
1 AAATATATAATAAATGTGA-GAAAATAATATATA
102706492 ATAGTAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 11 0.38
36 13 0.45
37 5 0.17
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.32
Consensus pattern (36 bp):
AAATATATAATAAATGTGAGAAAATAATATATATAA
Found at i:102710294 original size:22 final size:23
Alignment explanation
Indices: 102710250--102710297 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
102710240 TATCGGGGTA
*
102710250 AAAATAAAAAAAAATTAAGAATT
1 AAAATAAAAAAAAATTAAAAATT
* *
102710273 AAAATAGAAAATAA-TAAAAATT
1 AAAATAAAAAAAAATTAAAAATT
102710295 AAA
1 AAA
102710298 GTAATGTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (23 bp):
AAAATAAAAAAAAATTAAAAATT
Found at i:102717456 original size:209 final size:208
Alignment explanation
Indices: 102717097--102717492 Score: 575
Period size: 209 Copynumber: 1.9 Consensus size: 208
102717087 CGTTCGAAGA
* * * *
102717097 TCCATCATCCGTCTTATTTTCGTTTTCTTCCAATCAATATTTTTATTTTCATCTCACCCCCAATA
1 TCCATCATCCATCTTATTTTCATTTTCTTCCAATCAATAATTGTATTTTCATCTCACCCCCAATA
* * * *
102717162 TTTATTTTTTGATTTTATGTTTTGTTTTTCTGTTTATTTCTATTATTTCTAATCTGTTTTGTTTT
66 TTTATTTTTTGATTTTATGTTTTGTTTTTCTCTTTATTTCCATTATTTCTAATCTATTTTGTTTC
* *
102717227 TTCTTTCAGGTCAAATCCAAATCTTTCACGAGTCAAACAACTTGAATATGATCTTCTGCTACCCT
131 TTCTTTCAAGTCAAATCCAAATCTTTCACGAGTCAAACAACTTGAATACGATCTTCTGCTACCCT
102717292 ATTAGACTATCTT
196 ATTAGACTATCTT
*
102717305 TCCATCATCCATCTTATTTTCATTTTCTTCCATTCAA-AATTGT-TTTTCATCTCA-CCCCAATA
1 TCCATCATCCATCTTATTTTCATTTTCTTCCAATCAATAATTGTATTTTCATCTCACCCCCAATA
102717367 TTTATTATTTTCTTGATTTTATGTTTTGTTTTTCTCTTTATTTCCATTATTTCTAAT-TCATTTT
66 --T-TTATTTT-TTGATTTTATGTTTTGTTTTTCTCTTTATTTCCATTATTTCTAATCT-ATTTT
* * ** *
102717431 GTTTCTTCTTTTAAGTCAGATCCAAATCTTTCTTGAGTCGAACAACTTGAATACGATCTTCT
126 GTTTCTTCTTTCAAGTCAAATCCAAATCTTTCACGAGTCAAACAACTTGAATACGATCTTCT
102717493 TCCACTGCCC
Statistics
Matches: 167, Mismatches: 16, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
205 8 0.05
206 11 0.07
207 5 0.03
208 42 0.25
209 101 0.60
ACGTcount: A:0.22, C:0.20, G:0.07, T:0.51
Consensus pattern (208 bp):
TCCATCATCCATCTTATTTTCATTTTCTTCCAATCAATAATTGTATTTTCATCTCACCCCCAATA
TTTATTTTTTGATTTTATGTTTTGTTTTTCTCTTTATTTCCATTATTTCTAATCTATTTTGTTTC
TTCTTTCAAGTCAAATCCAAATCTTTCACGAGTCAAACAACTTGAATACGATCTTCTGCTACCCT
ATTAGACTATCTT
Found at i:102720874 original size:1 final size:1
Alignment explanation
Indices: 102720870--102720901 Score: 64
Period size: 1 Copynumber: 32.0 Consensus size: 1
102720860 AGTTCTTTGC
102720870 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
102720902 CCAAAGCAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:102722294 original size:19 final size:19
Alignment explanation
Indices: 102722267--102722315 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
102722257 CCAACAACAG
*
102722267 CAATTTGAAGTGACTACAT
1 CAATCTGAAGTGACTACAT
102722286 CAATCTGAAGTGACTACAT
1 CAATCTGAAGTGACTACAT
102722305 CAATCTGAAGT
1 CAATCTGAAGT
102722316 TGACACGAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (19 bp):
CAATCTGAAGTGACTACAT
Found at i:102725455 original size:27 final size:28
Alignment explanation
Indices: 102725406--102725462 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 28
102725396 CTCTAATATT
* *
102725406 TATTAAAAGTATAGTTTTATATTATGTA
1 TATTAAAAGTAGAGCTTTATATTATGTA
* *
102725434 TATT-AAAGTAGAGCTTTCTATTATTTA
1 TATTAAAAGTAGAGCTTTATATTATGTA
102725461 TA
1 TA
102725463 CTTTTTATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 21 0.84
28 4 0.16
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.49
Consensus pattern (28 bp):
TATTAAAAGTAGAGCTTTATATTATGTA
Found at i:102728737 original size:20 final size:18
Alignment explanation
Indices: 102728701--102728745 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
102728691 AAACCTTAAA
102728701 TTTTCCCTTTCTTCTTTC
1 TTTTCCCTTTCTTCTTTC
102728719 TTTTCTCCTTTCTTTCTTTC
1 TTTTC-CCTTTC-TTCTTTC
102728739 -TTTCCCT
1 TTTTCCCT
102728746 GCTTTTCGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.32
19 10 0.40
20 7 0.28
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTCCCTTTCTTCTTTC
Found at i:102733343 original size:2 final size:2
Alignment explanation
Indices: 102733336--102733365 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
102733326 ATTTTATTTA
102733336 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
102733366 GAAAGGAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:102735252 original size:46 final size:46
Alignment explanation
Indices: 102735201--102735478 Score: 378
Period size: 46 Copynumber: 6.0 Consensus size: 46
102735191 GTGTGCTCTC
** * *
102735201 TGATATGAAATGTGTAAGACTATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
**
102735247 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
102735293 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
*** * * *
102735339 TGACGGGAAATTAATAAGACCATAGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
102735385 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * * *
102735431 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
102735477 TG
1 TG
102735479 TCAAAGATAA
Statistics
Matches: 209, Mismatches: 22, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.00
46 208 1.00
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:102735780 original size:16 final size:17
Alignment explanation
Indices: 102735759--102735791 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
102735749 ATGATGGAGC
102735759 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
102735775 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
102735792 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:102738678 original size:5 final size:5
Alignment explanation
Indices: 102738655--102738701 Score: 53
Period size: 5 Copynumber: 9.8 Consensus size: 5
102738645 TCTAAATTAC
* * *
102738655 ATAAT AT-AT A-AAA ATAAT ATAAT ATAAT ATAAT ATAAA ATATT ATAA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAA
102738702 ACTTAAAAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
4 5 0.15
5 29 0.85
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (5 bp):
ATAAT
Found at i:102739993 original size:44 final size:44
Alignment explanation
Indices: 102739927--102740019 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 44
102739917 TATTAATGCA
* * *
102739927 ATATTTGGTACTACAAATTTAGTTTAAAGCTCCAAAAGAGCTAAT
1 ATATTGGGTACTACAAAATTAGTTGAAAGCTCC-AAAGAGCTAAT
* *
102739972 -TATTGGGTAGTACAAAATTAGTTGAAAGCTCCAAAGAGTTAAT
1 ATATTGGGTACTACAAAATTAGTTGAAAGCTCCAAAGAGCTAAT
102740015 ATATT
1 ATATT
102740020 AATATTTAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
43 10 0.24
44 32 0.76
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.33
Consensus pattern (44 bp):
ATATTGGGTACTACAAAATTAGTTGAAAGCTCCAAAGAGCTAAT
Found at i:102741065 original size:2 final size:2
Alignment explanation
Indices: 102741053--102741110 Score: 67
Period size: 2 Copynumber: 32.5 Consensus size: 2
102741043 TTAAGTATTA
102741053 AT AT AT A- AT AT AT -T AT AT -T AT -T AT AT -T AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
102741089 -T AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
102741111 AAACATATGA
Statistics
Matches: 49, Mismatches: 0, Indels: 14
0.78 0.00 0.22
Matches are distributed among these distances:
1 7 0.14
2 42 0.86
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:102742322 original size:22 final size:22
Alignment explanation
Indices: 102742296--102742352 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
102742286 TTGCACGTTA
102742296 AGTGCTCTCTGTTTAGCACATCT
1 AGTGCTCTCTGTTTAGCAC-TCT
* *
102742319 -GTGCTCTCTGTATAGCACTTT
1 AGTGCTCTCTGTTTAGCACTCT
102742340 AGTGCTCTCTGTT
1 AGTGCTCTCTGTT
102742353 CGTTTGTGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 2 0.07
22 28 0.93
ACGTcount: A:0.14, C:0.25, G:0.19, T:0.42
Consensus pattern (22 bp):
AGTGCTCTCTGTTTAGCACTCT
Done.