Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr5
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: 39371879
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2227820 characters in sequence are not A, C, G, or T
File 95 of 103
Found at i:34926432 original size:19 final size:20
Alignment explanation
Indices: 34926412--34926447 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 20
34926402 TTAATTCATA
34926412 AAAAATGA-A-TTAAAATTT
1 AAAAATGATATTTAAAATTT
34926430 AAAAATGATATTTAAAAT
1 AAAAATGATATTTAAAAT
34926448 AATTAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.50
19 1 0.06
20 7 0.44
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (20 bp):
AAAAATGATATTTAAAATTT
Found at i:34932165 original size:59 final size:59
Alignment explanation
Indices: 34932089--34932209 Score: 199
Period size: 59 Copynumber: 2.1 Consensus size: 59
34932079 ACTGATATCT
*
34932089 TTGTCTATGAGCTAACTTAATGTAACAGCTGTAGTT-TCTCCAAAGAGTGGATCAGAAGC
1 TTGTCTATGAGCTAACTTAATGTAACAGCTGTAGTTCTC-CCAAAGAGTGGATCAGAAAC
* *
34932148 TTGTCTATGAGCTAACTTCATGTGACAGCTGTAGTTCTCCCAAAGAGTGGATCAGAAAC
1 TTGTCTATGAGCTAACTTAATGTAACAGCTGTAGTTCTCCCAAAGAGTGGATCAGAAAC
34932207 TTG
1 TTG
34932210 AAGCAGATTG
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
59 56 0.97
60 2 0.03
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (59 bp):
TTGTCTATGAGCTAACTTAATGTAACAGCTGTAGTTCTCCCAAAGAGTGGATCAGAAAC
Found at i:34933325 original size:2 final size:2
Alignment explanation
Indices: 34933307--34933345 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
34933297 TTAAATTGGA
*
34933307 AT AT A- AT AT AT AC 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 AT AT AT AT AT
34933346 GTATGCATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:34934521 original size:29 final size:29
Alignment explanation
Indices: 34934470--34934543 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
34934460 GTATTAAAAT
*
34934470 ATAATAAAATATTTTTAAATATGACGTGCA
1 ATAATAATAT-TTTTTAAATATGACGTGCA
* * * *
34934500 ATAATAATATTTTTTCATTATGGCGTGTA
1 ATAATAATATTTTTTAAATATGACGTGCA
*
34934529 ACAATAATATTTTTT
1 ATAATAATATTTTTT
34934544 TTCAACATGG
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
29 29 0.76
30 9 0.24
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.45
Consensus pattern (29 bp):
ATAATAATATTTTTTAAATATGACGTGCA
Found at i:34934559 original size:31 final size:32
Alignment explanation
Indices: 34934498--34934560 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
34934488 ATATGACGTG
**
34934498 CAATAATAATATTTTTTCATTATGGCGTGTAA
1 CAATAATAATATTTTTTCAACATGGCGTGTAA
* *
34934530 CAATAAT-ATTTTTTTTCAACATGGTGTGTAA
1 CAATAATAATATTTTTTCAACATGGCGTGTAA
34934561 TAACATTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
31 20 0.74
32 7 0.26
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (32 bp):
CAATAATAATATTTTTTCAACATGGCGTGTAA
Found at i:34934649 original size:20 final size:22
Alignment explanation
Indices: 34934624--34934668 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
34934614 CAGTATTTTT
*
34934624 TTTAA-CATAACGTGTAATA-A
1 TTTAACCATAACGTATAATATA
*
34934644 TTTAACCATGACGTATAATATA
1 TTTAACCATAACGTATAATATA
34934666 TTT
1 TTT
34934669 TTGTACATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 12 0.57
22 4 0.19
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (22 bp):
TTTAACCATAACGTATAATATA
Found at i:34946385 original size:17 final size:18
Alignment explanation
Indices: 34946358--34946391 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
34946348 TCACCTAATG
*
34946358 AAACTAGTTAAATCTCTA
1 AAACTAGTTAAAACTCTA
34946376 AAAC-AGTTAAAACTCT
1 AAACTAGTTAAAACTCT
34946392 GGAGGGTATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.47, C:0.18, G:0.06, T:0.29
Consensus pattern (18 bp):
AAACTAGTTAAAACTCTA
Found at i:34952852 original size:10 final size:10
Alignment explanation
Indices: 34952833--34952866 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
34952823 ACAACCTAGA
34952833 CAAACC-TAC
1 CAAACCGTAC
34952842 CAAACCGTAC
1 CAAACCGTAC
34952852 CAAACCGTAC
1 CAAACCGTAC
34952862 CAAAC
1 CAAAC
34952867 ATAAGCAGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 6 0.25
10 18 0.75
ACGTcount: A:0.44, C:0.41, G:0.06, T:0.09
Consensus pattern (10 bp):
CAAACCGTAC
Found at i:34953282 original size:1 final size:1
Alignment explanation
Indices: 34953276--34953305 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
34953266 GCAAACCACC
34953276 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
34953306 CAAATAGGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:34956218 original size:18 final size:17
Alignment explanation
Indices: 34956191--34956231 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
34956181 TGAGGTGTTG
34956191 TTTTTTTATTTCTTTAC
1 TTTTTTTATTTCTTTAC
* *
34956208 TTTTTTGTATTTTTTTTC
1 TTTTTT-TATTTCTTTAC
34956226 TTTTTT
1 TTTTTT
34956232 CTTGTCCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.07, C:0.07, G:0.02, T:0.83
Consensus pattern (17 bp):
TTTTTTTATTTCTTTAC
Found at i:34960874 original size:12 final size:12
Alignment explanation
Indices: 34960844--34960885 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
34960834 GTTTAAGTAC
*
34960844 TATTTCTTCTTTT
1 TATTT-TTCATTT
*
34960857 TCTTTTT-ATTT
1 TATTTTTCATTT
34960868 TATTTTTCATTT
1 TATTTTTCATTT
34960880 TATTTT
1 TATTTT
34960886 CTATCGTTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
11 9 0.36
12 12 0.48
13 4 0.16
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.79
Consensus pattern (12 bp):
TATTTTTCATTT
Found at i:34960875 original size:17 final size:17
Alignment explanation
Indices: 34960853--34960885 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
34960843 CTATTTCTTC
*
34960853 TTTTTCTTTTTATTTTA
1 TTTTTCATTTTATTTTA
34960870 TTTTTCATTTTATTTT
1 TTTTTCATTTTATTTT
34960886 CTATCGTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTCATTTTATTTTA
Found at i:34964496 original size:117 final size:120
Alignment explanation
Indices: 34964323--34964550 Score: 327
Period size: 117 Copynumber: 1.9 Consensus size: 120
34964313 ATATTTAAGG
* * *
34964323 TGTTTAACTCTAAAAGTTCATGTTTTAGTGAAATACAAAAATAGAAATCAAATTACACGCTATGT
1 TGTTTAACTCTAAAAGTTCATGTTTTAATGAAATACAAAAATAGAAACCAAATTACACGCCATGT
*
34964388 TCA-AAACA-ATGTTGTTACATGTCATGTT-AAAAAAAAGTTGTTACATACTAGT
66 TCATAAAAATATGTTGTTACATGTCATGTTGAAAAAAAAGTTGTTACATACTAGT
* * * * * *
34964440 TGTTTAACTTTAAGAGTTTATGTTTTAATGAAATACAAATATAGAGACCAAGTTACACGCCATGT
1 TGTTTAACTCTAAAAGTTCATGTTTTAATGAAATACAAAAATAGAAACCAAATTACACGCCATGT
* *
34964505 TGATAAAAATATGTTGTTACGTGTCATGTTGAAAAAAAAGTTGTTA
66 TCATAAAAATATGTTGTTACATGTCATGTTGAAAAAAAAGTTGTTA
34964551 TATTCTGTGT
Statistics
Matches: 96, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
117 58 0.60
118 4 0.04
119 19 0.20
120 15 0.16
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (120 bp):
TGTTTAACTCTAAAAGTTCATGTTTTAATGAAATACAAAAATAGAAACCAAATTACACGCCATGT
TCATAAAAATATGTTGTTACATGTCATGTTGAAAAAAAAGTTGTTACATACTAGT
Found at i:34964614 original size:127 final size:122
Alignment explanation
Indices: 34964164--34964640 Score: 369
Period size: 124 Copynumber: 3.9 Consensus size: 122
34964154 CAAAGGCACG
* * * * * * *
34964164 TGTTGAAAAAAATGTTGTTATACGTC-AGTTTAAGGTATTTAACTCTAA-ACGTTTATATTTGAG
1 TGTTGAAAAAAAAGTTGTTACA-TTCTTGTTTAA-GTGTTTAACTCTAAGA-GTTTATGTTTTA-
* * ** *** * * * * **
34964227 TGAAATACAAAGATAGAAATTAAGTTACAAATCATATT-AAAAAAATATTTTTATATACCA
62 TGAAATACAAAAATAGAGACCAAGTTACACGCCATGTTGAAAAAAATGTTGTTACATGTCA
* * * * * *
34964287 TGTTGAAAAAAAAATTATTACACTTCATATTTAAGGTGTTTAACTCTAAAAGTTCATGTTTTAGT
1 TGTTGAAAAAAAAGTTGTTACA-TTCTTGTTTAA-GTGTTTAACTCTAAGAGTTTATGTTTTA-T
* * * * * *
34964352 GAAATACAAAAATAGAAATCAAATTACACGCTATGTTCAAAACAATGTTGTTACATGTCA
63 GAAATACAAAAATAGAGACCAAGTTACACGCCATGTTGAAAAAAATGTTGTTACATGTCA
* * *
34964412 TGTT-AAAAAAAAGTTGTTACATACTAG--T---TGTTTAACTTTAAGAGTTTATGTTTTAATGA
1 TGTTGAAAAAAAAGTTGTTACATTCTTGTTTAAGTGTTTAACTCTAAGAGTTTATGTTTT-ATGA
* *
34964471 AATACAAATATAGAGACCAAGTTACACGCCATGTTGATAAAAATATGTTGTTACGTGTCA
65 AATACAAAAATAGAGACCAAGTTACACGCCATGTTGA-AAAAA-ATGTTGTTACATGTCA
* * *
34964531 TGTTGAAAAAAAAGTTGTTATATTCTGTGTTTAAAGTGTTTAACTCTAAGAGTTTGTGTCCTTAT
1 TGTTGAAAAAAAAGTTGTTACATTCT-TGTTT-AAGTGTTTAACTCTAAGAGTTTATGT-TTTAT
* * * **
34964596 GCAATACAAAGATAGAGACTAAGTTACACATCATGTTGAAAAAAA
63 GAAATACAAAAATAGAGACCAAGTTACACGCCATGTTGAAAAAAA
34964641 AATTGTAATA
Statistics
Matches: 286, Mismatches: 53, Indels: 28
0.78 0.14 0.08
Matches are distributed among these distances:
117 57 0.20
118 5 0.02
119 19 0.07
120 19 0.07
121 2 0.01
123 24 0.08
124 74 0.26
125 22 0.08
126 5 0.02
127 57 0.20
128 2 0.01
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.35
Consensus pattern (122 bp):
TGTTGAAAAAAAAGTTGTTACATTCTTGTTTAAGTGTTTAACTCTAAGAGTTTATGTTTTATGAA
ATACAAAAATAGAGACCAAGTTACACGCCATGTTGAAAAAAATGTTGTTACATGTCA
Found at i:34964709 original size:98 final size:98
Alignment explanation
Indices: 34964528--34964719 Score: 240
Period size: 98 Copynumber: 2.0 Consensus size: 98
34964518 TTGTTACGTG
* * * ** * * *
34964528 TCATGTTGAAAAAAAAGTTGTTATATTCTGTGTTTAAAGTGTTTAACTCTAAGAGTTTGTGTCCT
1 TCATGTTGAAAAAAAAATTGTAATATGCCATGTTTAAAGTGTTTAACTCCAAGAGTTTATATCCT
* ** * *
34964593 TATGCAATACAAAGATAGAGACTAAGTTACACA
66 AATAAAATACAAAGATAGAAACCAAGTTACACA
*
34964626 TCATGTTGAAAAAAAAATTGTAATATGCCATGTTTAAAGTGTTTAACTCCAAGAGTTTATATTCT
1 TCATGTTGAAAAAAAAATTGTAATATGCCATGTTTAAAGTGTTTAACTCCAAGAGTTTATATCCT
* *
34964691 AATAAAATGCAAATATAGAAACCAAGTTA
66 AATAAAATACAAAGATAGAAACCAAGTTA
34964720 AACGCCATAT
Statistics
Matches: 78, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
98 78 1.00
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (98 bp):
TCATGTTGAAAAAAAAATTGTAATATGCCATGTTTAAAGTGTTTAACTCCAAGAGTTTATATCCT
AATAAAATACAAAGATAGAAACCAAGTTACACA
Found at i:34964943 original size:71 final size:71
Alignment explanation
Indices: 34964807--34964944 Score: 179
Period size: 71 Copynumber: 1.9 Consensus size: 71
34964797 TTGTTACACG
* * *
34964807 TCATATTTAAAGTATTTAAATCTAAGAGTTTGTGTCATAGTGAAATACAAATATAGAAACCAAGT
1 TCATATTTAAAGTATTTAAATCTAAGAGTTTATGTCATAGTGAAATACAAAGATAGAAACAAAGT
34964872 TAAACA
66 TAAACA
* * * * * *
34964878 TCATATTT-AAGATATTTAACTCTAAGTGTTTATGTCCTAGTGAAATACATAGATAGAGATAAAG
1 TCATATTTAAAG-TATTTAAATCTAAGAGTTTATGTCATAGTGAAATACAAAGATAGAAACAAAG
34964942 TTA
65 TTA
34964945 CATGCTATAT
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
70 3 0.05
71 54 0.95
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.35
Consensus pattern (71 bp):
TCATATTTAAAGTATTTAAATCTAAGAGTTTATGTCATAGTGAAATACAAAGATAGAAACAAAGT
TAAACA
Found at i:34970235 original size:24 final size:26
Alignment explanation
Indices: 34970190--34970253 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 26
34970180 TTAATATTAA
34970190 TATTTTAATAATTTAAACATAT-TT-TT
1 TATTTTAAT-A-TTAAACATATATTATT
*
34970216 TATTTTAATATTAAAGATATATTATT
1 TATTTTAATATTAAACATATATTATT
34970242 TA--TTAATATTAA
1 TATTTTAATATTAA
34970254 TCGAGTTGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
24 19 0.54
25 3 0.09
26 13 0.37
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (26 bp):
TATTTTAATATTAAACATATATTATT
Found at i:34970237 original size:26 final size:25
Alignment explanation
Indices: 34970190--34970253 Score: 69
Period size: 26 Copynumber: 2.6 Consensus size: 25
34970180 TTAATATTAA
* *
34970190 TATTTTAATAATTTAAACATATTTTT
1 TATTTTAAT-ATTAAAACATATTATT
*
34970216 TATTTTAATATTAAAGATATATTATT
1 TATTTTAATATTAAA-ACATATTATT
34970242 TA--TTAATATTAA
1 TATTTTAATATTAA
34970254 TCGAGTTGAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 10 0.29
25 5 0.15
26 19 0.56
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (25 bp):
TATTTTAATATTAAAACATATTATT
Found at i:34973726 original size:22 final size:22
Alignment explanation
Indices: 34973694--34973751 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
34973684 CAAAAATTCC
34973694 AAAA-TTTATATATTTTATTTT-
1 AAAATTTTATATATTTT-TTTTA
34973715 AAAATTTTATAT-TTATTTTTTA
1 AAAATTTTATATATT-TTTTTTA
34973737 AAAATTTTATA-ATTT
1 AAAATTTTATATATTT
34973752 CAACTTTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
21 11 0.33
22 22 0.67
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
AAAATTTTATATATTTTTTTTA
Found at i:34974964 original size:27 final size:26
Alignment explanation
Indices: 34974934--34974984 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
34974924 TATTAATGTT
34974934 TTATTTATAATTTAAA-TATTATTATAA
1 TTATTTAT-ATTTAAATTATT-TTATAA
*
34974961 TTATTTATTTTTAAATTATTTTAT
1 TTATTTATATTTAAATTATTTTAT
34974985 TTTTAAACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (26 bp):
TTATTTATATTTAAATTATTTTATAA
Found at i:34974979 original size:15 final size:16
Alignment explanation
Indices: 34974959--34974991 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
34974949 ATATTATTAT
34974959 AATTA-TTTATTTTTA
1 AATTATTTTATTTTTA
34974974 AATTATTTTATTTTTA
1 AATTATTTTATTTTTA
34974990 AA
1 AA
34974992 CATTAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
AATTATTTTATTTTTA
Found at i:34975101 original size:130 final size:129
Alignment explanation
Indices: 34974941--34975205 Score: 316
Period size: 130 Copynumber: 2.0 Consensus size: 129
34974931 GTTTTATTTA
* * *
34974941 TAATTTAAATATTATTATAATTATTTATTTTTAAATTATTTTATTTTTAAACATTAATAATGTAT
1 TAATTTAAATATTATCATAATTATTTATTTTTAAATTATTTCATTCTTAAACATTAATAATGTAT
* ** **
34975006 AATTTATTTAAAATA-TTAAAATTTGATCGTTTAAATATTAATATTTTATTTATATTTTAATCAT
66 AATTTATTTAAAATATTTAAAATAT-ATAATTTAAATATTAATATTTTATTTATAAATTAATCAT
* * *** * * *
34975070 TAATATTAAATGTTATCATGATTATTTATTTTTGTTTTATTTCATTCTTAAATATTAGTAATTTA
1 TAAT-TTAAATATTATCATAATTATTTATTTTTAAATTATTTCATTCTTAAACATTAATAATGTA
* ** * *
34975135 TATTTTATTTGTAATATTTATAATATATAATTTAAATATTAATATTTTATTTATAAATTAATTAT
65 TAATTTATTTAAAATATTTAAAATATATAATTTAAATATTAATATTTTATTTATAAATTAATCAT
34975200 TAATTT
1 TAATTT
34975206 TTTAAATATA
Statistics
Matches: 113, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
129 6 0.05
130 100 0.88
131 7 0.06
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.56
Consensus pattern (129 bp):
TAATTTAAATATTATCATAATTATTTATTTTTAAATTATTTCATTCTTAAACATTAATAATGTAT
AATTTATTTAAAATATTTAAAATATATAATTTAAATATTAATATTTTATTTATAAATTAATCAT
Found at i:34975179 original size:19 final size:19
Alignment explanation
Indices: 34975155--34975205 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
34975145 GTAATATTTA
34975155 TAATATATAATTTA-AATAT
1 TAATATATAATTTATAA-AT
* *
34975174 TAATATTTTATTTATAAAT
1 TAATATATAATTTATAAAT
34975193 TAAT-TATTAATTT
1 TAATATA-TAATTT
34975206 TTTAAATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 1 0.04
19 23 0.88
20 2 0.08
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TAATATATAATTTATAAAT
Found at i:34975200 original size:26 final size:26
Alignment explanation
Indices: 34975146--34975217 Score: 81
Period size: 26 Copynumber: 2.7 Consensus size: 26
34975136 ATTTTATTTG
*
34975146 TAATATTTATAATATATAATTTAAATAT
1 TAATATTT-T-ATATATAAATTAAATAT
* *
34975174 TAATATTTTATTTATAAATTAATTAT
1 TAATATTTTATATATAAATTAAATAT
* *
34975200 TAATTTTTTAAATATAAA
1 TAATATTTTATATATAAA
34975218 AATATTTTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
26 29 0.76
27 1 0.03
28 8 0.21
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
TAATATTTTATATATAAATTAAATAT
Found at i:34976376 original size:83 final size:84
Alignment explanation
Indices: 34976234--34976397 Score: 239
Period size: 83 Copynumber: 2.0 Consensus size: 84
34976224 ATCTGCTACA
34976234 ATTTCAGTTCTCACTTCTTTTCCTTTTTTTTTATTTCATTCATTTATCAATAACCAAAAA-AAAA
1 ATTTCAGTTCTCACTTCTTTT-CTTTTTTTTTATTTCATTCATTTATCAATAACCAAAAAGAAAA
34976298 AA-AAAGAA-GTTTTACTAAG
65 AAGAAA-AAGGTTTTACTAAG
*
34976317 ATTTCAGTT-TCACTCTCTCTTT-TTTTTTTTTAATTTCATTCATTTATCAATAACTAAAAAGAA
1 ATTTCAGTTCTCACT-TCT-TTTCTTTTTTTTT-ATTTCATTCATTTATCAATAACCAAAAAGAA
34976380 AAAAGAAAAAGGTTTTAC
63 AAAAGAAAAAGGTTTTAC
34976398 AAATTGAAGG
Statistics
Matches: 74, Mismatches: 1, Indels: 10
0.87 0.01 0.12
Matches are distributed among these distances:
82 14 0.19
83 39 0.53
84 11 0.15
85 10 0.14
ACGTcount: A:0.36, C:0.15, G:0.05, T:0.44
Consensus pattern (84 bp):
ATTTCAGTTCTCACTTCTTTTCTTTTTTTTTATTTCATTCATTTATCAATAACCAAAAAGAAAAA
AGAAAAAGGTTTTACTAAG
Found at i:34985478 original size:31 final size:31
Alignment explanation
Indices: 34985428--34985528 Score: 121
Period size: 31 Copynumber: 3.3 Consensus size: 31
34985418 TCATAAAGAC
* * *
34985428 TAAATTAAATAAAAATATAGAATACATTAAT
1 TAAATTAAACAAAATTATAGAATACAATAAT
* * * *
34985459 TATATTGAACAAAATTATAGAGTACAATGAT
1 TAAATTAAACAAAATTATAGAATACAATAAT
* *
34985490 TAAATTAAACAAAATTATAGAATACAATGAC
1 TAAATTAAACAAAATTATAGAATACAATAAT
34985521 TAAATTAA
1 TAAATTAA
34985529 TTGTTGAAGT
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 59 1.00
ACGTcount: A:0.56, C:0.06, G:0.07, T:0.31
Consensus pattern (31 bp):
TAAATTAAACAAAATTATAGAATACAATAAT
Found at i:34986549 original size:18 final size:20
Alignment explanation
Indices: 34986513--34986551 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
34986503 TAATATTAAA
*
34986513 ATTAATATATAATATTATTT
1 ATTAATATATAATAATATTT
34986533 ATTAATATA-AA-AATATTT
1 ATTAATATATAATAATATTT
34986551 A
1 A
34986552 ATTGAGCTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 2 0.11
20 9 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
ATTAATATATAATAATATTT
Found at i:34993279 original size:37 final size:37
Alignment explanation
Indices: 34993229--34993306 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
34993219 GGTAGAAGGC
34993229 TTCTGTTGTAGTCCATGAGAAAAAGGGTTTTAAGGTT
1 TTCTGTTGTAGTCCATGAGAAAAAGGGTTTTAAGGTT
34993266 TTCTGTTGTAGTCCATGAGAAAAAGGGTTTTAAGGTT
1 TTCTGTTGTAGTCCATGAGAAAAAGGGTTTTAAGGTT
34993303 TTCT
1 TTCT
34993307 TGGGTTGTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.26, C:0.09, G:0.26, T:0.40
Consensus pattern (37 bp):
TTCTGTTGTAGTCCATGAGAAAAAGGGTTTTAAGGTT
Found at i:35002404 original size:24 final size:24
Alignment explanation
Indices: 35002377--35002422 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
35002367 AATTAATATA
*
35002377 ATAAATTAATA-ATTTATTAAATTT
1 ATAAAATAATATATTT-TTAAATTT
35002401 ATAAAATAATATATTTTTAAAT
1 ATAAAATAATATATTTTTAAAT
35002423 ACATATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
ATAAAATAATATATTTTTAAATTT
Found at i:35002416 original size:16 final size:16
Alignment explanation
Indices: 35002397--35002434 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
35002387 AATTTATTAA
35002397 ATTTATAAAATA-ATAT
1 ATTT-TAAAATACATAT
*
35002413 ATTTTTAAATACATAT
1 ATTTTAAAATACATAT
35002429 ATTTTA
1 ATTTTA
35002435 CTTTATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTTTAAAATACATAT
Found at i:35019312 original size:23 final size:24
Alignment explanation
Indices: 35019272--35019318 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
35019262 CTGAAAGCGA
* * *
35019272 AGGAGGGAGAATGTTCGA-TGCTT
1 AGGACGGAGAAGGATCGACTGCTT
35019295 AGGACGGAGAAGGATCGACTGCTT
1 AGGACGGAGAAGGATCGACTGCTT
35019319 GCACTCAAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.28, C:0.13, G:0.38, T:0.21
Consensus pattern (24 bp):
AGGACGGAGAAGGATCGACTGCTT
Found at i:35022780 original size:12 final size:11
Alignment explanation
Indices: 35022749--35022778 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
35022739 TAACAAAAAG
35022749 AATTTTTTAAA
1 AATTTTTTAAA
35022760 AATTTTTTAAA
1 AATTTTTTAAA
*
35022771 AGTTTTTT
1 AATTTTTT
35022779 TAGAGTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (11 bp):
AATTTTTTAAA
Found at i:35024694 original size:21 final size:22
Alignment explanation
Indices: 35024654--35024696 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
35024644 AAAAGAAGAG
* *
35024654 TTAAAACTTAATATTTTATATT
1 TTAAAACTTAAAATTATATATT
35024676 TTAAAA-TTAAAATTATATATT
1 TTAAAACTTAAAATTATATATT
35024697 AATTATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
TTAAAACTTAAAATTATATATT
Found at i:35024725 original size:14 final size:15
Alignment explanation
Indices: 35024708--35024744 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
35024698 ATTATAAAAA
35024708 TTAATATTTAAA-TT
1 TTAATATTTAAATTT
*
35024722 TTAAT-TATAAATTT
1 TTAATATTTAAATTT
35024736 TTAATATTT
1 TTAATATTT
35024745 TCATAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
13 5 0.26
14 12 0.63
15 2 0.11
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTAATATTTAAATTT
Found at i:35024769 original size:12 final size:12
Alignment explanation
Indices: 35024752--35024776 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35024742 TTTTCATAAT
35024752 TTAAAAATAAAA
1 TTAAAAATAAAA
35024764 TTAAAAATAAAA
1 TTAAAAATAAAA
35024776 T
1 T
35024777 AATTATATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
TTAAAAATAAAA
Found at i:35026682 original size:81 final size:81
Alignment explanation
Indices: 35026547--35026700 Score: 281
Period size: 81 Copynumber: 1.9 Consensus size: 81
35026537 AGGTTTTAAT
* *
35026547 TTATTATAATGAGTGCATTTAAGAAGTTAATAAAACAATGAAATGCTATTAAGTTAAACTATAGT
1 TTATTATAATGAGTGCATTTAAAAAGTTAATAAAACAATGAAATACTATTAAGTTAAACTATAGT
*
35026612 TCTATTTATATCTCTC
66 TCCATTTATATCTCTC
35026628 TTATTATAATGAGTGCATTTAAAAAGTTAATAAAACAATGAAATACTATTAAGTTAAACTATAGT
1 TTATTATAATGAGTGCATTTAAAAAGTTAATAAAACAATGAAATACTATTAAGTTAAACTATAGT
35026693 TCCATTTA
66 TCCATTTA
35026701 CATAGTTCCA
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
81 70 1.00
ACGTcount: A:0.42, C:0.09, G:0.10, T:0.38
Consensus pattern (81 bp):
TTATTATAATGAGTGCATTTAAAAAGTTAATAAAACAATGAAATACTATTAAGTTAAACTATAGT
TCCATTTATATCTCTC
Found at i:35026707 original size:14 final size:14
Alignment explanation
Indices: 35026688--35026714 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
35026678 AAGTTAAACT
35026688 ATAGTTCCATTTAC
1 ATAGTTCCATTTAC
35026702 ATAGTTCCATTTA
1 ATAGTTCCATTTA
35026715 TGAAATTCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.19, G:0.07, T:0.44
Consensus pattern (14 bp):
ATAGTTCCATTTAC
Found at i:35032470 original size:40 final size:40
Alignment explanation
Indices: 35032400--35032477 Score: 95
Period size: 40 Copynumber: 1.9 Consensus size: 40
35032390 CTGGTGGAGA
*
35032400 TGGCGGCAGTTGCAACGGTGACAGCCGTAAGTAGGGTCGT
1 TGGCGGCAGTTGCAACGGTGACAGCCGTAAGTAAGGTCGT
* * * *
35032440 TGGCGGGAGTTGCGATGGTGACCA-CGGTAAGTAAGGTC
1 TGGCGGCAGTTGCAACGGTGA-CAGCCGTAAGTAAGGTC
35032478 ATGGGTCATT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
40 30 0.94
41 2 0.06
ACGTcount: A:0.21, C:0.18, G:0.41, T:0.21
Consensus pattern (40 bp):
TGGCGGCAGTTGCAACGGTGACAGCCGTAAGTAAGGTCGT
Found at i:35037844 original size:21 final size:22
Alignment explanation
Indices: 35037815--35037857 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
35037805 ACTATTTATT
*
35037815 ATTATAATATTTAGT-TTTTAA
1 ATTAAAATATTTAGTATTTTAA
*
35037836 ATTAAAATATTTATTATTTTAA
1 ATTAAAATATTTAGTATTTTAA
35037858 TAATTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
ATTAAAATATTTAGTATTTTAA
Found at i:35038000 original size:16 final size:16
Alignment explanation
Indices: 35037963--35038000 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
35037953 CCTTTTATTA
35037963 AAATAAAATACTTTTAG
1 AAAT-AAATACTTTTAG
*
35037980 -GATAAATACTTTTAG
1 AAATAAATACTTTTAG
35037995 AAATAA
1 AAATAA
35038001 TTTAAAACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 3
0.78 0.09 0.13
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.53, C:0.05, G:0.08, T:0.34
Consensus pattern (16 bp):
AAATAAATACTTTTAG
Found at i:35041121 original size:22 final size:22
Alignment explanation
Indices: 35041096--35041237 Score: 95
Period size: 22 Copynumber: 6.6 Consensus size: 22
35041086 TGAAAAACTA
*
35041096 AATATTATATATTATAAAATA-T
1 AATATTATAAATTA-AAAATATT
* *
35041118 AATATTTTAAATTAAAATTATT
1 AATATTATAAATTAAAAATATT
* *
35041140 AATATT-TGAATTATAATAACATTT
1 AATATTATAAATTA-AA-AATA-TT
35041164 AA-ATTATAAA-T-AAAATATT
1 AATATTATAAATTAAAAATATT
* * * *
35041183 AATATTTTAAAATGATAATGATT
1 AATATTATAAATTAAAAAT-ATT
35041206 AA-ATTATAAA-T-AAAATATT
1 AATATTATAAATTAAAAATATT
35041225 AATATT-TAAATTA
1 AATATTATAAATTA
35041238 TTTATTATTA
Statistics
Matches: 96, Mismatches: 12, Indels: 25
0.72 0.09 0.19
Matches are distributed among these distances:
19 13 0.14
20 18 0.19
21 15 0.16
22 32 0.33
23 11 0.11
24 7 0.07
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.44
Consensus pattern (22 bp):
AATATTATAAATTAAAAATATT
Found at i:35041254 original size:42 final size:41
Alignment explanation
Indices: 35041125--35041254 Score: 127
Period size: 42 Copynumber: 3.0 Consensus size: 41
35041115 TATAATATTT
* * *
35041125 TAAATTAAAATTATTAATATTTGAATTATAATAACATTTAAATTA
1 TAAA-TAAAA-TATTAATATTTAAATTAT-TTATCA-TTAAATTA
* * *
35041170 TAAATAAAATATTAATATTTTAAAATGA-TAATGATTAAATTA
1 TAAATAAAATATTAATA-TTT-AAATTATTTATCATTAAATTA
*
35041212 TAAATAAAATATTAATATTTAAATTATTTATTATTAACATTA
1 TAAATAAAATATTAATATTTAAATTATTTATCATTAA-ATTA
35041254 T
1 T
35041255 TATAAAAAAG
Statistics
Matches: 72, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
40 5 0.07
41 11 0.15
42 30 0.42
43 10 0.14
44 8 0.11
45 8 0.11
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (41 bp):
TAAATAAAATATTAATATTTAAATTATTTATCATTAAATTA
Found at i:35046268 original size:29 final size:28
Alignment explanation
Indices: 35046236--35046305 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 28
35046226 CTCGTATACT
*
35046236 TATTCATGTACAGCTTATTCTCTTGTACC
1 TATTC-TGTACAGCTTATTCTCTCGTACC
* *
35046265 TATTCTCATACAGCTTCTTCTCTCGTACC
1 TATTCT-GTACAGCTTATTCTCTCGTACC
35046294 TATTCTTGTACA
1 TATTC-TGTACA
35046306 CCTCTTTTCT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
28 1 0.03
29 33 0.94
30 1 0.03
ACGTcount: A:0.20, C:0.27, G:0.09, T:0.44
Consensus pattern (28 bp):
TATTCTGTACAGCTTATTCTCTCGTACC
Found at i:35046543 original size:13 final size:13
Alignment explanation
Indices: 35046525--35046549 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35046515 ACTTGAGAGC
35046525 TTCTCTCTCTAAA
1 TTCTCTCTCTAAA
35046538 TTCTCTCTCTAA
1 TTCTCTCTCTAA
35046550 TTATCTTGTA
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:0.20, C:0.32, G:0.00, T:0.48
Consensus pattern (13 bp):
TTCTCTCTCTAAA
Found at i:35057705 original size:97 final size:95
Alignment explanation
Indices: 35057604--35057796 Score: 307
Period size: 97 Copynumber: 2.0 Consensus size: 95
35057594 TTTTTAAATG
*
35057604 TTCCAAATTGTTATTTCTCTTTTTTCAAAAACTTATTATTCTTAATTCTTTTTTATT-TCAATTT
1 TTCCAAATTGTTATTTCTCTTTTTTCAAAAACTTAATATTCTTAATTCTTTTTTATTGT-AA-TT
35057668 TTTTTCATGATTTTTTGTCCTATTTGATTTTTT
64 TTTTTCATGATTTTTT-TCCTATTTGATTTTTT
* * *
35057701 TTCCAAATTGTTATTTTTGTTTTTTCAAAAATTTAATATTCTTAATTCTTTTTTATTGTAATTTT
1 TTCCAAATTGTTATTTCTCTTTTTTCAAAAACTTAATATTCTTAATTCTTTTTTATTGTAATTTT
*
35057766 TTTCATGATTTTTTTCTTATTTGATTTTTT
66 TTTCATGATTTTTTTCCTATTTGATTTTTT
35057796 T
1 T
35057797 AATTCAAGAA
Statistics
Matches: 90, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
95 16 0.18
96 18 0.20
97 55 0.61
98 1 0.01
ACGTcount: A:0.21, C:0.10, G:0.05, T:0.64
Consensus pattern (95 bp):
TTCCAAATTGTTATTTCTCTTTTTTCAAAAACTTAATATTCTTAATTCTTTTTTATTGTAATTTT
TTTCATGATTTTTTTCCTATTTGATTTTTT
Found at i:35068326 original size:334 final size:334
Alignment explanation
Indices: 35067710--35068385 Score: 1061
Period size: 334 Copynumber: 2.0 Consensus size: 334
35067700 TCAACAGTGG
*
35067710 CGGCGGCGATGGAGGCAAGGGTGGAGGATTTGATGGCTTTTACGGTAAAAAAACTAACATAAACT
1 CGGCGGCGATGGAGGCAAGGGTGGAGGATTTGATGGCGTTTACGGTAAAAAAACTAACATAAACT
* *
35067775 GGAAAAAAAATATATGCTTTCAAAACCAGACCGGTTAAACTGATTGGATCGAACACAGGTCACTT
66 GGAAAAAAAATAAATGCTTTCAAAACCAGACCGGTTAAACTGATTGGATCGAAAACAGGTCACTT
* *
35067840 GTTTGAGCCGGAACTTATCATTAAACCGGTTGTGGTCAAAACTCAGAACTCCATTAAAATTGGCT
131 GTTTGAGCCGGAACTTATCATCAAACCGGTTGTGGTCAAAACCCAGAACTCCATTAAAATTGGCT
** * *
35067905 AATGGTTTATGGTTGTTGTTGGTGCAGAACGGGGTATTAACTATCTTGAAAACGCTCAGAATCTT
196 AATGGTTTATGGTTGTACTTGGTGCAGAACGGGCTATTAACGATCTTGAAAACGCTCAGAATCTT
* *
35067970 AACGAGAAAGCCGTGTTAGCAACTGTTAAAGGAACAAACAGCGACGGGAATGATAACAGCCACGG
261 AACGAGAAAGCCGTGATAGCAACTGCTAAAGGAACAAACAGCGACGGGAATGATAACAGCCACGG
35068035 TGGTGGAAA
326 TGGTGGAAA
* * * * *
35068044 TGGCGGCGATGGCGGCAAGGGTGGAGGGTTTGATGGCGTTTACGGTAAAAAAAACTAATATAACC
1 CGGCGGCGATGGAGGCAAGGGTGGAGGATTTGATGGCGTTTACGGT-AAAAAAACTAACATAAAC
* * *
35068109 TGGAAACAAAATAAATGTTTTCAAAACCAGACCGGTTGAACTGATTGGAT-GAAAACAGGTCACT
65 TGGAAAAAAAATAAATGCTTTCAAAACCAGACCGGTTAAACTGATTGGATCGAAAACAGGTCACT
*
35068173 TGTTTGAGCC-GACCTTATCATCAAACCGGTTGTGGTCAAAACCCAGAACTCCATTAAAATTGGC
130 TGTTTGAGCCGGAACTTATCATCAAACCGGTTGTGGTCAAAACCCAGAACTCCATTAAAATTGGC
* *
35068237 TAATGGTTTTATGGTTGTACTTGGTGCAGGA-GGGCCTATTAACGATCTTGAAAACGCTCAGATT
195 TAATGG-TTTATGGTTGTACTTGGTGCAGAACGGG-CTATTAACGATCTTGAAAACGCTCAGAAT
* * * * *
35068301 CTTGATGAGGAAGCCGTGATAGCAACTGCTAAAGGAACAAACAGCGACGGGAATGGTAGCAGCCA
258 CTTAACGAGAAAGCCGTGATAGCAACTGCTAAAGGAACAAACAGCGACGGGAATGATAACAGCCA
35068366 CGGTGGTGGAAA
323 CGGTGGTGGAAA
35068378 CGGCGGCG
1 CGGCGGCG
35068386 GTTACGGTGT
Statistics
Matches: 311, Mismatches: 28, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
333 60 0.19
334 189 0.61
335 62 0.20
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (334 bp):
CGGCGGCGATGGAGGCAAGGGTGGAGGATTTGATGGCGTTTACGGTAAAAAAACTAACATAAACT
GGAAAAAAAATAAATGCTTTCAAAACCAGACCGGTTAAACTGATTGGATCGAAAACAGGTCACTT
GTTTGAGCCGGAACTTATCATCAAACCGGTTGTGGTCAAAACCCAGAACTCCATTAAAATTGGCT
AATGGTTTATGGTTGTACTTGGTGCAGAACGGGCTATTAACGATCTTGAAAACGCTCAGAATCTT
AACGAGAAAGCCGTGATAGCAACTGCTAAAGGAACAAACAGCGACGGGAATGATAACAGCCACGG
TGGTGGAAA
Found at i:35077527 original size:23 final size:24
Alignment explanation
Indices: 35077501--35077553 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
35077491 ATTACTATTA
35077501 TATATACACTA-AAATA-TTTTTAG
1 TATATACA-TATAAATATTTTTTAG
* *
35077524 TATATATATATATATATTTTTTAG
1 TATATACATATAAATATTTTTTAG
35077548 TATATA
1 TATATA
35077554 TATACTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 2 0.08
23 11 0.42
24 13 0.50
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.51
Consensus pattern (24 bp):
TATATACATATAAATATTTTTTAG
Found at i:35077641 original size:2 final size:2
Alignment explanation
Indices: 35077630--35077666 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
35077620 AATTATTAAC
35077630 TA TA -A 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 TA TA TA
35077667 NNNNNNNNNN
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:35079906 original size:33 final size:32
Alignment explanation
Indices: 35079867--35079928 Score: 115
Period size: 33 Copynumber: 1.9 Consensus size: 32
35079857 TCGAATCTGG
35079867 TTTTCTGTATCATGAGGTGATTCTGGTTTTCTT
1 TTTTCTGTATCATGAGGTGATTCT-GTTTTCTT
35079900 TTTTCTGTATCATGAGGTGATTCTGTTTT
1 TTTTCTGTATCATGAGGTGATTCTGTTTT
35079929 GATTGCTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 5 0.17
33 24 0.83
ACGTcount: A:0.13, C:0.11, G:0.21, T:0.55
Consensus pattern (32 bp):
TTTTCTGTATCATGAGGTGATTCTGTTTTCTT
Found at i:35085803 original size:39 final size:39
Alignment explanation
Indices: 35085734--35085814 Score: 117
Period size: 39 Copynumber: 2.1 Consensus size: 39
35085724 TCCCTCTCCC
** *
35085734 TCTCTATCAAGTTCTTCGAACTGGTGTTAGAAACATTGA
1 TCTCTATCAAGTTCTTCGAACCAGTCTTAGAAACATTGA
* *
35085773 TCTCTATCAAGTTCTTCGAACCAGTCTTAGAACCTTTGA
1 TCTCTATCAAGTTCTTCGAACCAGTCTTAGAAACATTGA
35085812 TCT
1 TCT
35085815 TTCAATCTCT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (39 bp):
TCTCTATCAAGTTCTTCGAACCAGTCTTAGAAACATTGA
Found at i:35088958 original size:2 final size:2
Alignment explanation
Indices: 35088939--35089003 Score: 89
Period size: 2 Copynumber: 33.0 Consensus size: 2
35088929 TAATAAAGTA
* *
35088939 AT AT AT AC AT AT AA AT AT AT AT -T 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 AT AT AT AT AT AT
35088980 AT AT AT AT AGT -T AT AT AT AT AT AT
1 AT AT AT AT A-T AT AT AT AT AT AT AT
35089004 TCTCAGCGTG
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
1 2 0.04
2 53 0.95
3 1 0.02
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:35096673 original size:13 final size:13
Alignment explanation
Indices: 35096657--35096681 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35096647 GTTTGGTAAA
35096657 TTTTTTTTATAAG
1 TTTTTTTTATAAG
35096670 TTTTTTTTATAA
1 TTTTTTTTATAA
35096682 ATTATAATTT
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:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (13 bp):
TTTTTTTTATAAG
Found at i:35096701 original size:18 final size:20
Alignment explanation
Indices: 35096663--35096704 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
35096653 TAAATTTTTT
*
35096663 TTATAAGTTTTTTTTATAAA
1 TTATAAGTTTTTGTTATAAA
35096683 TTATAA-TTTTTGTTA-AAA
1 TTATAAGTTTTTGTTATAAA
35096701 TTAT
1 TTAT
35096705 CATAAAAGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.33
19 8 0.38
20 6 0.29
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (20 bp):
TTATAAGTTTTTGTTATAAA
Found at i:35100787 original size:18 final size:17
Alignment explanation
Indices: 35100755--35100789 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
35100745 TTATATTAGC
*
35100755 AAAATTTTATATATTTT
1 AAAATTTTAAATATTTT
35100772 AAAATTTTAAATTATTTT
1 AAAATTTTAAA-TATTTT
35100790 GTGTTGAGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
AAAATTTTAAATATTTT
Found at i:35109459 original size:26 final size:26
Alignment explanation
Indices: 35109430--35109484 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
35109420 TGGAAATGAT
35109430 AGCCGGTTCCCTATGGCTTATTGTGC
1 AGCCGGTTCCCTATGGCTTATTGTGC
35109456 AGCCGGTTCCCTATGGCTTATTGTGC
1 AGCCGGTTCCCTATGGCTTATTGTGC
35109482 AGC
1 AGC
35109485 AAAATCTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.13, C:0.27, G:0.27, T:0.33
Consensus pattern (26 bp):
AGCCGGTTCCCTATGGCTTATTGTGC
Found at i:35111356 original size:22 final size:22
Alignment explanation
Indices: 35111328--35111399 Score: 74
Period size: 22 Copynumber: 3.3 Consensus size: 22
35111318 TGTCTACTGC
*
35111328 TGATTTGCTGTTGATTTATGAG
1 TGATTTGCTGTTGATTTGTGAG
* *
35111350 TGATTTGGTGTTGTTTTGTGAG
1 TGATTTGCTGTTGATTTGTGAG
* * *
35111372 AGATTT-CTCGTTGGTTTGTGAT
1 TGATTTGCT-GTTGATTTGTGAG
35111394 TGATTT
1 TGATTT
35111400 ATTATTGGTT
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
21 1 0.02
22 40 0.98
ACGTcount: A:0.14, C:0.04, G:0.29, T:0.53
Consensus pattern (22 bp):
TGATTTGCTGTTGATTTGTGAG
Found at i:35118528 original size:78 final size:77
Alignment explanation
Indices: 35118433--35118576 Score: 216
Period size: 78 Copynumber: 1.9 Consensus size: 77
35118423 ATGTATGATT
* * * *
35118433 TTGATTGGCGGATCTTTTTCTTCTATACATCGATCACCATTGCACCACCTTCCCGAACTCTCTCT
1 TTGATTGGCAGATCTTTTTCTTCCATACATCGATCACAATTGCACCACCTACCC-AACTCTCTCT
35118498 CTCTCTCTCTCTC
65 CTCTCTCTCTCTC
* * *
35118511 TTGATTGGCATATCTTTTTCTTCCATACATCGATCACAATTGCACCCCCTACCCATCTCTCTCTC
1 TTGATTGGCAGATCTTTTTCTTCCATACATCGATCACAATTGCACCACCTACCCAACTCTCTCTC
35118576 T
66 T
35118577 GTCTGTTCGA
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
77 11 0.19
78 48 0.81
ACGTcount: A:0.17, C:0.35, G:0.09, T:0.38
Consensus pattern (77 bp):
TTGATTGGCAGATCTTTTTCTTCCATACATCGATCACAATTGCACCACCTACCCAACTCTCTCTC
TCTCTCTCTCTC
Found at i:35121934 original size:5 final size:5
Alignment explanation
Indices: 35121924--35121949 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
35121914 CAAATCTCAA
35121924 TCTTT TCTTT TCTTT TCTTT TCTTT T
1 TCTTT TCTTT TCTTT TCTTT TCTTT T
35121950 GGTTTCCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TCTTT
Found at i:35124142 original size:53 final size:53
Alignment explanation
Indices: 35124068--35124168 Score: 175
Period size: 53 Copynumber: 1.9 Consensus size: 53
35124058 TACGTGCTCT
*
35124068 TTTTTCTTCTGAGTACCAATTCAAACTCAATTACTTGTGTAAAAAGTTTTTTG
1 TTTTTCTTCTGAGCACCAATTCAAACTCAATTACTTGTGTAAAAAGTTTTTTG
* *
35124121 TTTTTCTTCTGAGCACCAATTCAAGCTCAGTTACTTGTGTAAAAAGTT
1 TTTTTCTTCTGAGCACCAATTCAAACTCAATTACTTGTGTAAAAAGTT
35124169 GGCATGCTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 45 1.00
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.43
Consensus pattern (53 bp):
TTTTTCTTCTGAGCACCAATTCAAACTCAATTACTTGTGTAAAAAGTTTTTTG
Found at i:35128894 original size:18 final size:18
Alignment explanation
Indices: 35128871--35128906 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
35128861 GTCTTCCCTA
35128871 AATATTTCTTAACTCATT
1 AATATTTCTTAACTCATT
*
35128889 AATATTTCTTAGCTCATT
1 AATATTTCTTAACTCATT
35128907 GTTTTTCTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.17, G:0.03, T:0.50
Consensus pattern (18 bp):
AATATTTCTTAACTCATT
Found at i:35154183 original size:30 final size:31
Alignment explanation
Indices: 35154147--35154214 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
35154137 TTCAATCAAT
35154147 TTTTTATA-TTTTTATTTTAAATCAAATAAA
1 TTTTTATATTTTTTATTTTAAATCAAATAAA
* *
35154177 TTTTTATATTTTTTATTTTGAGTCAAATAAA
1 TTTTTATATTTTTTATTTTAAATCAAATAAA
*
35154208 TCTTTAT
1 TTTTTAT
35154215 GAGTAATAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 8 0.24
31 26 0.76
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.59
Consensus pattern (31 bp):
TTTTTATATTTTTTATTTTAAATCAAATAAA
Found at i:35154513 original size:21 final size:21
Alignment explanation
Indices: 35154487--35154530 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
35154477 AAGTTTATTT
35154487 AATTTAAACTAAAAAT-ATAAA
1 AATTT-AACTAAAAATAATAAA
*
35154508 AATTTAATTAAAAATAATAAA
1 AATTTAACTAAAAATAATAAA
35154529 AA
1 AA
35154531 ATAATAACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (21 bp):
AATTTAACTAAAAATAATAAA
Found at i:35154535 original size:20 final size:20
Alignment explanation
Indices: 35154496--35154535 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
35154486 TAATTTAAAC
*
35154496 TAAAAATATAAAAATTTAAT
1 TAAAAATATAAAAATATAAT
35154516 TAAAAATAATAAAAA-ATAAT
1 TAAAAAT-ATAAAAATATAAT
35154536 AACTTATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
TAAAAATATAAAAATATAAT
Found at i:35160390 original size:24 final size:24
Alignment explanation
Indices: 35160354--35160403 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
35160344 ACTTTATTCT
*
35160354 TAGAGTTGACTTTGAA-AAGAGGAG
1 TAGAGTTGACTTTAAATAAGA-GAG
**
35160378 TAGAGTTTCCTTTAAATAAGAGAG
1 TAGAGTTGACTTTAAATAAGAGAG
35160402 TA
1 TA
35160404 AAGAGTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.38, C:0.06, G:0.26, T:0.30
Consensus pattern (24 bp):
TAGAGTTGACTTTAAATAAGAGAG
Found at i:35176725 original size:29 final size:29
Alignment explanation
Indices: 35176693--35176771 Score: 79
Period size: 29 Copynumber: 2.7 Consensus size: 29
35176683 TTATTTTAAA
* *
35176693 ATATTTAAATAAATTTTTATTTTTTTATT
1 ATATTTAAATAAATTTTTATATTTTCATT
*
35176722 ATATTT-AATCAATTTTTTATATTTTCATT
1 ATATTTAAAT-AAATTTTTATATTTTCATT
* * *
35176751 TTGAATCAAATAAATTTTTAT
1 AT-ATTTAAATAAATTTTTAT
35176772 GACTAGTGAT
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
28 3 0.08
29 23 0.57
30 11 0.28
31 3 0.08
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.59
Consensus pattern (29 bp):
ATATTTAAATAAATTTTTATATTTTCATT
Found at i:35176746 original size:28 final size:29
Alignment explanation
Indices: 35176668--35176746 Score: 72
Period size: 28 Copynumber: 2.7 Consensus size: 29
35176658 ACACATACTC
*
35176668 AAATAAATCTTTAAATTATTTTAAAATATTT
1 AAATAAAT-TTT-TATTATTTTAAAATATTT
* **
35176699 AAATAAATTTTTATTTTTTTATTATATTT
1 AAATAAATTTTTATTATTTTAAAATATTT
*
35176728 -AATCAATTTTT-TATATTTT
1 AAATAAATTTTTAT-TATTTT
35176747 CATTTTGAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
27 1 0.02
28 15 0.37
29 14 0.34
30 3 0.07
31 8 0.20
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (29 bp):
AAATAAATTTTTATTATTTTAAAATATTT
Found at i:35183721 original size:22 final size:22
Alignment explanation
Indices: 35183696--35183740 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
35183686 AATATAATAA
*
35183696 AAAATAATTTTAAAATTTT-TTT
1 AAAATAA-TTCAAAATTTTATTT
35183718 AAAATAATTCAAAATTTTATTT
1 AAAATAATTCAAAATTTTATTT
35183740 A
1 A
35183741 GGTATTAGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
AAAATAATTCAAAATTTTATTT
Found at i:35189625 original size:45 final size:45
Alignment explanation
Indices: 35189540--35189625 Score: 104
Period size: 45 Copynumber: 1.9 Consensus size: 45
35189530 AGCAAAATCC
**
35189540 TAATCAAGGTTAATTAGTGATTTAAGCCTGTGGTGCGCACGCTTT
1 TAATCAAGGTTAATTAGTGATTTAAGCCTGTGGCACGCACGCTTT
* *
35189585 TAATC-AGAGTTAATTAGTGA-TTAATGCGTGTGGCATGCACG
1 TAATCAAG-GTTAATTAGTGATTTAA-GCCTGTGGCACGCACG
35189626 GGTTATCTCT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
44 6 0.17
45 29 0.83
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.34
Consensus pattern (45 bp):
TAATCAAGGTTAATTAGTGATTTAAGCCTGTGGCACGCACGCTTT
Found at i:35196468 original size:20 final size:21
Alignment explanation
Indices: 35196440--35196480 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
35196430 TTCGAGAGTG
35196440 GAATAAAGCTCTC-TTGCTTT
1 GAATAAAGCTCTCTTTGCTTT
* *
35196460 GAATCAAGCTTTCTTTGCTTT
1 GAATAAAGCTCTCTTTGCTTT
35196481 TCTAAGCCCG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.22, C:0.20, G:0.15, T:0.44
Consensus pattern (21 bp):
GAATAAAGCTCTCTTTGCTTT
Found at i:35201196 original size:18 final size:18
Alignment explanation
Indices: 35201173--35201213 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
35201163 TTTTTTCTTT
35201173 TTTTTTCTCTC-CATNTTC
1 TTTTTTCTCTCTCAT-TTC
*
35201191 TTTTTTTTCTCTCATTTC
1 TTTTTTCTCTCTCATTTC
35201209 TTTTT
1 TTTTT
35201214 ATACTGTACG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 18 0.86
19 3 0.14
ACGTcount: A:0.05, C:0.22, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTTTCTCTCTCATTTC
Found at i:35201196 original size:20 final size:18
Alignment explanation
Indices: 35201166--35201213 Score: 69
Period size: 20 Copynumber: 2.5 Consensus size: 18
35201156 TTCATTTTTT
35201166 TTTCTTTTTTTTTCTCTCCA
1 TTTC-TTTTTTTTCTCT-CA
35201186 TNTTCTTTTTTTTCTCTCA
1 T-TTCTTTTTTTTCTCTCA
35201205 TTTCTTTTT
1 TTTCTTTTT
35201214 ATACTGTACG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 8 0.30
19 3 0.11
20 13 0.48
21 3 0.11
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTCTTTTTTTTCTCTCA
Found at i:35219644 original size:1 final size:1
Alignment explanation
Indices: 35219638--35219667 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
35219628 AGGGCCACTC
35219638 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
35219668 AATTTTGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:35219974 original size:2 final size:2
Alignment explanation
Indices: 35219967--35220019 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
35219957 TCTACATAAA
35219967 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
35220009 AG AG AG AG AG A
1 AG AG AG AG AG A
35220020 CCCAGACCAC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:35221142 original size:57 final size:58
Alignment explanation
Indices: 35221029--35221145 Score: 218
Period size: 57 Copynumber: 2.0 Consensus size: 58
35221019 AAGATTCTAT
35221029 GATTGGATTCACTGTGTTGCATACATAAAAAATCTTCAAATGGGAGTGAATATCAAGG
1 GATTGGATTCACTGTGTTGCATACATAAAAAATCTTCAAATGGGAGTGAATATCAAGG
*
35221087 GATTGGATTCTCTGTGTTGCATACAT-AAAAATCTTCAAATGGGAGTGAATATCAAGG
1 GATTGGATTCACTGTGTTGCATACATAAAAAATCTTCAAATGGGAGTGAATATCAAGG
35221144 GA
1 GA
35221146 AATTTTGTTA
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
57 33 0.57
58 25 0.43
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (58 bp):
GATTGGATTCACTGTGTTGCATACATAAAAAATCTTCAAATGGGAGTGAATATCAAGG
Found at i:35230169 original size:17 final size:17
Alignment explanation
Indices: 35230149--35230181 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
35230139 TTTTTGATAA
35230149 AATAA-AACTTCTTATTG
1 AATAATAAC-TCTTATTG
35230166 AATAATAACTCTTATT
1 AATAATAACTCTTATT
35230182 TTATTATTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.42, C:0.12, G:0.03, T:0.42
Consensus pattern (17 bp):
AATAATAACTCTTATTG
Found at i:35230440 original size:29 final size:29
Alignment explanation
Indices: 35230323--35230492 Score: 159
Period size: 29 Copynumber: 5.9 Consensus size: 29
35230313 TTAAGACAAC
* *
35230323 TCTTGTCTTTAATTAAGACAAAAATATTTT
1 TCTTGTCTTAAATTAAGACAAACATA-TTT
* * *
35230353 ATCTTGT-TTAAATTGAGACAAATATGTTT
1 -TCTTGTCTTAAATTAAGACAAACATATTT
* * * *
35230382 TCTTGT-TTAGATTAAGATAAAAAAATTTT
1 TCTTGTCTTAAATTAAGACAAACATA-TTT
*
35230411 TGTTGTCTTAAATTAAGACAAACATATTT
1 TCTTGTCTTAAATTAAGACAAACATATTT
*
35230440 TCTTGTC-TAAATTAAGACTAAACATGTTT
1 TCTTGTCTTAAATTAAGAC-AAACATATTT
* *
35230469 TATTGTC-TAAATTAAGAGAAACAT
1 TCTTGTCTTAAATTAAGACAAACAT
35230493 GTTAAAGCTG
Statistics
Matches: 117, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
28 36 0.31
29 45 0.38
30 30 0.26
31 6 0.05
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (29 bp):
TCTTGTCTTAAATTAAGACAAACATATTT
Found at i:35242746 original size:31 final size:33
Alignment explanation
Indices: 35242709--35242793 Score: 115
Period size: 31 Copynumber: 2.7 Consensus size: 33
35242699 TTAATACTCA
**
35242709 AAAGATAAAATTATAAA-ATTTATTAAAAAA-T
1 AAAGATAAAATTATAAATATTTAAAAAAAAACT
35242740 AAAGATAAAATTATAAATATTTAAAAAAAAACT
1 AAAGATAAAATTATAAATATTTAAAAAAAAACT
*
35242773 AAA-A-AAAATTATAAATGTTTA
1 AAAGATAAAATTATAAATATTTA
35242794 TAACTTTTGG
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
31 33 0.67
32 12 0.24
33 4 0.08
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.31
Consensus pattern (33 bp):
AAAGATAAAATTATAAATATTTAAAAAAAAACT
Found at i:35244443 original size:27 final size:26
Alignment explanation
Indices: 35244394--35244447 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 26
35244384 TGTTAACCTT
*
35244394 AAAATATTAAAATATATTAATTAATTA
1 AAAATATTAAAATATAATAATT-ATTA
35244421 AAAATATTAAAATATGAAT-ATTATTA
1 AAAATATTAAAATAT-AATAATTATTA
35244447 A
1 A
35244448 TTATTAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 5 0.20
27 18 0.72
28 2 0.08
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (26 bp):
AAAATATTAAAATATAATAATTATTA
Found at i:35244452 original size:7 final size:7
Alignment explanation
Indices: 35244440--35244506 Score: 66
Period size: 7 Copynumber: 9.3 Consensus size: 7
35244430 AAATATGAAT
35244440 ATTATTA
1 ATTATTA
35244447 ATTATTA
1 ATTATTA
35244454 ATTATCATTA
1 A-T-T-ATTA
35244464 ATTATTA
1 ATTATTA
35244471 ATTATT-
1 ATTATTA
35244477 ATTAATTA
1 ATT-ATTA
35244485 ATTATT-
1 ATTATTA
*
35244491 ATTAATA
1 ATTATTA
*
35244498 AATATTA
1 ATTATTA
35244505 AT
1 AT
35244507 AATTTAGGTG
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
6 8 0.16
7 30 0.60
8 5 0.10
9 2 0.04
10 5 0.10
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (7 bp):
ATTATTA
Found at i:35244463 original size:10 final size:11
Alignment explanation
Indices: 35244440--35244496 Score: 66
Period size: 10 Copynumber: 5.2 Consensus size: 11
35244430 AAATATGAAT
35244440 ATTATTAATT-
1 ATTATTAATTA
35244450 ATTAATTATCATTA
1 ATT-ATTA--ATTA
35244464 ATTATTAATT-
1 ATTATTAATTA
35244474 ATTATTAATTA
1 ATTATTAATTA
35244485 ATTATT-ATTA
1 ATTATTAATTA
35244495 AT
1 AT
35244497 AAATATTAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
10 19 0.45
11 13 0.31
13 7 0.17
14 3 0.07
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (11 bp):
ATTATTAATTA
Found at i:35244463 original size:17 final size:17
Alignment explanation
Indices: 35244439--35244506 Score: 93
Period size: 17 Copynumber: 4.0 Consensus size: 17
35244429 AAAATATGAA
35244439 TATTATTAATTATTAAT
1 TATTATTAATTATTAAT
*
35244456 TATCATTAATTATTAAT
1 TATTATTAATTATTAAT
35244473 TATTATTAATTAATT-AT
1 TATTATTAATT-ATTAAT
* *
35244490 TATTAATAAATATTAAT
1 TATTATTAATTATTAAT
35244507 AATTTAGGTG
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
16 3 0.07
17 39 0.87
18 3 0.07
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (17 bp):
TATTATTAATTATTAAT
Found at i:35247777 original size:23 final size:23
Alignment explanation
Indices: 35247745--35247789 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
35247735 AAATGAAATA
35247745 AAAAACAGAACAGTAAAGAGTAG
1 AAAAACAGAACAGTAAAGAGTAG
*
35247768 AAAAATAGAACAGTAAAGAGTA
1 AAAAACAGAACAGTAAAGAGTA
35247790 ACCAAACATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.62, C:0.07, G:0.20, T:0.11
Consensus pattern (23 bp):
AAAAACAGAACAGTAAAGAGTAG
Found at i:35254836 original size:7 final size:7
Alignment explanation
Indices: 35254824--35254853 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
35254814 AGAGTAAATT
35254824 TGATAAA
1 TGATAAA
35254831 TGATAAA
1 TGATAAA
35254838 TGATAAA
1 TGATAAA
35254845 TGATAAA
1 TGATAAA
35254852 TG
1 TG
35254854 TATTCTCCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.30
Consensus pattern (7 bp):
TGATAAA
Found at i:35258105 original size:8 final size:8
Alignment explanation
Indices: 35258092--35258139 Score: 51
Period size: 8 Copynumber: 5.6 Consensus size: 8
35258082 CACCTATTTT
35258092 AAAAAATA
1 AAAAAATA
35258100 AAAAAATA
1 AAAAAATA
*
35258108 ATAATAATGA
1 A-AAAAAT-A
*
35258118 AATATAATA
1 AA-AAAATA
35258127 AAAAAATA
1 AAAAAATA
35258135 AAAAA
1 AAAAA
35258140 TAAGAAATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
8 19 0.54
9 9 0.26
10 7 0.20
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (8 bp):
AAAAAATA
Found at i:35258132 original size:27 final size:27
Alignment explanation
Indices: 35258096--35258148 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
35258086 TATTTTAAAA
*
35258096 AATAAAAAAAT-AATAATAATGAAATAT
1 AATAAAAAAATAAAAAATAA-GAAATAT
35258123 AATAAAAAAATAAAAAATAAGAAATA
1 AATAAAAAAATAAAAAATAAGAAATA
35258149 AATTTTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 17 0.71
28 7 0.29
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (27 bp):
AATAAAAAAATAAAAAATAAGAAATAT
Found at i:35258170 original size:31 final size:30
Alignment explanation
Indices: 35258087--35258170 Score: 82
Period size: 31 Copynumber: 2.7 Consensus size: 30
35258077 GTAGACACCT
*
35258087 ATTTTAAAAAATAAAAAAATAATAATAATGAA
1 ATTTTAAAAAA-AAAAAAA-AATAAAAATGAA
*
35258119 A-TATAATAAAAAAATAAAAAATAAGAAAT-AA
1 ATTTTAA-AAAAAAA-AAAAAATAA-AAATGAA
35258150 ATTTTAAAAAAAAAAGAAAAA
1 ATTTTAAAAAAAAAA-AAAAA
35258171 GAACAGGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
30 1 0.02
31 27 0.61
32 16 0.36
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.23
Consensus pattern (30 bp):
ATTTTAAAAAAAAAAAAAAATAAAAATGAA
Found at i:35259111 original size:2 final size:2
Alignment explanation
Indices: 35259104--35259144 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
35259094 TGGGAGAATA
35259104 AT AT AT AT AT AT AT AT AT AT A- 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 AT AT AT AT AT AT
35259145 GAATATGACT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:35265699 original size:48 final size:48
Alignment explanation
Indices: 35265647--35265834 Score: 175
Period size: 48 Copynumber: 3.8 Consensus size: 48
35265637 CTGTTTATTT
*
35265647 GGCATTAGGTG-CTTGAATATTTGTTGAGCATTGCGTGAGTTCTTTATA
1 GGCATTACGTGAC-TGAATATTTGTTGAGCATTGCGTGAGTTCTTTATA
* * *
35265695 GGCATTACGTGACTGAATATATGTTGAGCGTTGCGTGAGAGTTAATACATTACT-
1 GGCATTACGTGACTGAATATTTGTTGAGCATTGCGT--GAG-T--T-CTTTA-TA
** * * * *
35265749 GAATATTACCTGATTGAATATTTGTTGAACATTGCGTGAGTTTTTTATA
1 G-GCATTACGTGACTGAATATTTGTTGAGCATTGCGTGAGTTCTTTATA
*
35265798 GGCATTACGTGACTGAATATTTGTT-AGCGTTGCGTGA
1 GGCATTACGTGACTGAATATTTGTTGAGCATTGCGTGA
35265835 CAGGCGTTAC
Statistics
Matches: 111, Mismatches: 19, Indels: 21
0.74 0.13 0.14
Matches are distributed among these distances:
47 10 0.09
48 52 0.47
49 5 0.05
50 4 0.04
51 1 0.01
52 1 0.01
53 4 0.04
54 5 0.05
55 29 0.26
ACGTcount: A:0.25, C:0.11, G:0.25, T:0.39
Consensus pattern (48 bp):
GGCATTACGTGACTGAATATTTGTTGAGCATTGCGTGAGTTCTTTATA
Found at i:35265861 original size:15 final size:15
Alignment explanation
Indices: 35265841--35265872 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
35265831 GTGACAGGCG
*
35265841 TTACGTGACTTAATA
1 TTACGTGACTGAATA
35265856 TTACGTGACTGAATA
1 TTACGTGACTGAATA
35265871 TT
1 TT
35265873 TGTTGAGCGT
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:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (15 bp):
TTACGTGACTGAATA
Found at i:35265886 original size:102 final size:103
Alignment explanation
Indices: 35265660--35265889 Score: 327
Period size: 103 Copynumber: 2.2 Consensus size: 103
35265650 ATTAGGTGCT
35265660 TGAATATTTGTTGAGCATTGCGTGAGTTCTTTATAGGCATTACGTGACTGAATATATGTTGAGCG
1 TGAATATTTGTTGAGCATTGCGTGAGTTCTTTATAGGCATTACGTGACTGAATATATGTTGAGCG
* ** * *
35265725 TTGCGTGAGAGTTAATACATTACTGAATATTACCTGAT
66 TTGCGTGACAGGCAATACATGACTGAATATTACCTGAC
* * *
35265763 TGAATATTTGTTGAACATTGCGTGAGTTTTTTATAGGCATTACGTGACTGAATATTTGTT-AGCG
1 TGAATATTTGTTGAGCATTGCGTGAGTTCTTTATAGGCATTACGTGACTGAATATATGTTGAGCG
** * * *
35265827 TTGCGTGACAGGCGTTACGTGACTTAATATTACGTGAC
66 TTGCGTGACAGGCAATACATGACTGAATATTACCTGAC
*
35265865 TGAATATTTGTTGAGCGTTGCGTGA
1 TGAATATTTGTTGAGCATTGCGTGA
35265890 CCTATTTGCA
Statistics
Matches: 112, Mismatches: 15, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
102 55 0.49
103 57 0.51
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.38
Consensus pattern (103 bp):
TGAATATTTGTTGAGCATTGCGTGAGTTCTTTATAGGCATTACGTGACTGAATATATGTTGAGCG
TTGCGTGACAGGCAATACATGACTGAATATTACCTGAC
Found at i:35265903 original size:102 final size:103
Alignment explanation
Indices: 35265660--35265913 Score: 321
Period size: 102 Copynumber: 2.5 Consensus size: 103
35265650 ATTAGGTGCT
*
35265660 TGAATATTTGTTGAGCATTGCGTGAGTTCTTTATAGGCATTACGTGACTGAATATATGTTGAGCG
1 TGAATATTTGTTGAGCATTGCGTGAGTTATTTATAGGCATTACGTGACTGAATATATGTTGAGCG
* ** * *
35265725 TTGCGTGAGAGTTAATACATTACTGAATATTACCTGAT
66 TTGCGTGACAGGCAATACATGACTGAATATTACCTGAC
* * *
35265763 TGAATATTTGTTGAACATTGCGTGAGTTTTTTATAGGCATTACGTGACTGAATATTTGTT-AGCG
1 TGAATATTTGTTGAGCATTGCGTGAGTTATTTATAGGCATTACGTGACTGAATATATGTTGAGCG
** * * *
35265827 TTGCGTGACAGGCGTTACGTGACTTAATATTACGTGAC
66 TTGCGTGACAGGCAATACATGACTGAATATTACCTGAC
* ** ** *
35265865 TGAATATTTGTTGAGCGTTGCGTGACCTATTTGCAGGCATTGCGTGACT
1 TGAATATTTGTTGAGCATTGCGTGAGTTATTTATAGGCATTACGTGACT
35265914 TTAGCTACCT
Statistics
Matches: 130, Mismatches: 21, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
102 73 0.56
103 57 0.44
ACGTcount: A:0.24, C:0.13, G:0.25, T:0.38
Consensus pattern (103 bp):
TGAATATTTGTTGAGCATTGCGTGAGTTATTTATAGGCATTACGTGACTGAATATATGTTGAGCG
TTGCGTGACAGGCAATACATGACTGAATATTACCTGAC
Found at i:35266509 original size:30 final size:30
Alignment explanation
Indices: 35266473--35266533 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
35266463 AGAGGTGCCT
*
35266473 TTGAGTGTGGGGGACCAATTGCACATATTC
1 TTGAGTGTGAGGGACCAATTGCACATATTC
* *
35266503 TTGAGTGTGAGGGACTAGTTGCACATATTC
1 TTGAGTGTGAGGGACCAATTGCACATATTC
35266533 T
1 T
35266534 AGCAGGAGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.33
Consensus pattern (30 bp):
TTGAGTGTGAGGGACCAATTGCACATATTC
Found at i:35267941 original size:29 final size:29
Alignment explanation
Indices: 35267908--35267974 Score: 125
Period size: 29 Copynumber: 2.3 Consensus size: 29
35267898 ACTAACATTA
35267908 AATCACGCAATTCTAAGAACAACTAATCG
1 AATCACGCAATTCTAAGAACAACTAATCG
*
35267937 AATCACACAATTCTAAGAACAACTAATCG
1 AATCACGCAATTCTAAGAACAACTAATCG
35267966 AATCACGCA
1 AATCACGCA
35267975 CACACTAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.46, C:0.25, G:0.09, T:0.19
Consensus pattern (29 bp):
AATCACGCAATTCTAAGAACAACTAATCG
Found at i:35269933 original size:35 final size:34
Alignment explanation
Indices: 35269863--35269933 Score: 79
Period size: 35 Copynumber: 2.1 Consensus size: 34
35269853 AACTAAACTA
* *
35269863 ATTTTTTATATATATTAATATATATAAATATAAT
1 ATTTTTTATATATATTAATAAATATAAATAAAAT
** * *
35269897 ATTTTTTATATATTATTTTTAAATTTATATAAAAT
1 ATTTTTTATATA-TATTAATAAATATAAATAAAAT
35269932 AT
1 AT
35269934 AATATGCATT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
34 12 0.40
35 18 0.60
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (34 bp):
ATTTTTTATATATATTAATAAATATAAATAAAAT
Found at i:35272223 original size:29 final size:27
Alignment explanation
Indices: 35272199--35272337 Score: 154
Period size: 29 Copynumber: 4.9 Consensus size: 27
35272189 TGACAACTTT
* *
35272199 AACAAGTTTGTCCTAATTTAGACAATA
1 AACATGTTTGTCTTAATTTAGACAATA
*
35272226 AACCATGTTATGTCTTAATTTAGACAAGAA
1 AA-CATGTT-TGTCTTAATTTAGACAA-TA
*
35272256 AACATGTTTGTCTTAATTTAGACAAAA
1 AACATGTTTGTCTTAATTTAGACAATA
*
35272283 AATCATGTTTGGTCTTAATTTAGACAAGA
1 AA-CATGTTT-GTCTTAATTTAGACAATA
*
35272312 AA-ATATGTTGTCTTAATTTAAGACAA
1 AACATGT-TTGTCTTAATTT-AGACAA
35272338 GAAAAATATT
Statistics
Matches: 100, Mismatches: 5, Indels: 13
0.85 0.04 0.11
Matches are distributed among these distances:
27 19 0.19
28 37 0.37
29 41 0.41
30 3 0.03
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.36
Consensus pattern (27 bp):
AACATGTTTGTCTTAATTTAGACAATA
Found at i:35272274 original size:57 final size:56
Alignment explanation
Indices: 35272199--35272395 Score: 216
Period size: 57 Copynumber: 3.4 Consensus size: 56
35272189 TGACAACTTT
* * * *
35272199 AACAAGTTTGTCCTAATTTAGACAATAAACCATGTTATGTCTTAATTTAGACAAGAA
1 AACATGTTTGTCTTAATTTAGACAAAAAAACATGTT-TGTCTTAATTTAGACAAGAA
*
35272256 AACATGTTTGTCTTAATTTAGACAAAAAATCATGTTTGGTCTTAATTTAGACAAGAA
1 AACATGTTTGTCTTAATTTAGACAAAAAAACATGTTT-GTCTTAATTTAGACAAGAA
* * * * *
35272313 AATATG-TTGTCTTAATTTAAGACAAGAAAAATATTTTTTGTCTTAATCTAGACAAAAA
1 AACATGTTTGTCTTAATTT-AGACAA-AAAAACA-TGTTTGTCTTAATTTAGACAAGAA
* * * *
35272371 AATATATTTATCTCAATTTAGACAA
1 AACATGTTTGTCTTAATTTAGACAA
35272396 GATAAAATCT
Statistics
Matches: 122, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
56 13 0.11
57 62 0.51
58 33 0.27
59 14 0.11
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37
Consensus pattern (56 bp):
AACATGTTTGTCTTAATTTAGACAAAAAAACATGTTTGTCTTAATTTAGACAAGAA
Found at i:35272276 original size:28 final size:28
Alignment explanation
Indices: 35272199--35272397 Score: 213
Period size: 28 Copynumber: 7.0 Consensus size: 28
35272189 TGACAACTTT
* * *
35272199 AACAAGTTTGTCCTAATTTAGACAATAA
1 AACATGTTTGTCTTAATTTAGACAAGAA
*
35272227 ACCATGTTATGTCTTAATTTAGACAAGAA
1 AACATGTT-TGTCTTAATTTAGACAAGAA
35272256 AACATGTTTGTCTTAATTTAGACAA-AA
1 AACATGTTTGTCTTAATTTAGACAAGAA
35272283 AATCATGTTTGGTCTTAATTTAGACAAGAA
1 AA-CATGTTT-GTCTTAATTTAGACAAGAA
*
35272313 AATATG-TTGTCTTAATTTAAGACAAGAAA
1 AACATGTTTGTCTTAATTT-AGACAAG-AA
* * * *
35272342 AATATTTTTTGTCTTAATCTAGACAAAAA
1 AACA-TGTTTGTCTTAATTTAGACAAGAA
* * * *
35272371 AATATATTTATCTCAATTTAGACAAGA
1 AACATGTTTGTCTTAATTTAGACAAGA
35272398 TAAAATCTTT
Statistics
Matches: 149, Mismatches: 14, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
27 14 0.09
28 57 0.38
29 56 0.38
30 11 0.07
31 11 0.07
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (28 bp):
AACATGTTTGTCTTAATTTAGACAAGAA
Found at i:35272373 original size:58 final size:57
Alignment explanation
Indices: 35272236--35272428 Score: 212
Period size: 58 Copynumber: 3.3 Consensus size: 57
35272226 AACCATGTTA
* *
35272236 TGTCTTAATTTAGACAAGAAAACATGTTTGTCTTAATTTAGAC-A-AAAAATCATGTTT
1 TGTCTTAATTTAGACAAGAAAATATG-TTGTCTTAATTTAGACAAGAAAAAT-ATTTTT
*
35272293 GGTCTTAATTTAGACAAGAAAATATGTTGTCTTAATTTAAGACAAGAAAAATATTTTT
1 TGTCTTAATTTAGACAAGAAAATATGTTGTCTTAATTT-AGACAAGAAAAATATTTTT
* * * * * *
35272351 TGTCTTAATCTAGACAAAAAAATATATTTATCTCAATTTAGACAAGATAAAAT-CTTTT
1 TGTCTTAATTTAGACAAGAAAATAT-GTTGTCTTAATTTAGACAAGA-AAAATATTTTT
* *
35272409 TATCTTAATTAAAGACAAGA
1 TGTCTTAATT-TAGACAAGA
35272429 GTTGTCTTAA
Statistics
Matches: 116, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
56 12 0.10
57 28 0.24
58 48 0.41
59 28 0.24
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.37
Consensus pattern (57 bp):
TGTCTTAATTTAGACAAGAAAATATGTTGTCTTAATTTAGACAAGAAAAATATTTTT
Found at i:35272411 original size:30 final size:29
Alignment explanation
Indices: 35272238--35272428 Score: 169
Period size: 28 Copynumber: 6.6 Consensus size: 29
35272228 CCATGTTATG
* * *
35272238 TCTTAATTTAGACAAG-AAAACATGTTTG
1 TCTTAATTTAGACAAGAAAAATATTTTTA
**
35272266 TCTTAATTTAGAC-A-AAAAATCATGTTTGG
1 TCTTAATTTAGACAAGAAAAAT-AT-TTTTA
* *
35272295 TCTTAATTTAGACAAG-AAAATA-TGTTG
1 TCTTAATTTAGACAAGAAAAATATTTTTA
*
35272322 TCTTAATTTAAGACAAGAAAAATATTTTTTG
1 TCTTAATTT-AGACAAGAAAAATA-TTTTTA
* *
35272353 TCTTAATCTAGACAA-AAAAATATATTTA
1 TCTTAATTTAGACAAGAAAAATATTTTTA
* *
35272381 TCTCAATTTAGACAAGATAAAATCTTTTTA
1 TCTTAATTTAGACAAGA-AAAATATTTTTA
*
35272411 TCTTAATTAAAGACAAGA
1 TCTTAATT-TAGACAAGA
35272429 GTTGTCTTAA
Statistics
Matches: 136, Mismatches: 15, Indels: 21
0.79 0.09 0.12
Matches are distributed among these distances:
27 17 0.12
28 39 0.29
29 31 0.23
30 29 0.21
31 20 0.15
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.37
Consensus pattern (29 bp):
TCTTAATTTAGACAAGAAAAATATTTTTA
Found at i:35273839 original size:131 final size:130
Alignment explanation
Indices: 35273603--35273866 Score: 316
Period size: 131 Copynumber: 2.0 Consensus size: 130
35273593 AGAACTCATA
* * **
35273603 AATCTCTCAACTACTCTTGAAGGAATTTTAGAATGCAGTAGAATGGAGTTTTTGTAAACCCATAA
1 AATCTCTCAACTACTCTTAAAGGAATTTTAAAATGCAGTAGAATAAAGTTTTTGTAAA-CCATAA
* * * *
35273668 TGCTTAGAATGATCTTTTGAGAAAAACGAGATTAGGAGAATTTTTGAAGCCAGGATACATGAGAT
65 TGCTTAAAATGATCTTTTGAGAAAAACGAGATTAGAAGAATTTCTGAAGCCAGGATACAGGAGAT
35273733 G
130 G
* * **
35273734 AATCTCTCGACTGCTCTTAAAGGAATTTTAAAATGTTGTAGAATAAAGTTTTTGTAAA-CATGAA
1 AATCTCTCAACTACTCTTAAAGGAATTTTAAAATGCAGTAGAATAAAGTTTTTGTAAACCAT--A
* * * ** *
35273798 ATGCTTAAAATGATTTTTTGATAAAGA-GTAGATTAGAAGAATTTCTGAAGTTAGGATAGAGGAG
64 ATGCTTAAAATGATCTTTTGAGAAAAACG-AGATTAGAAGAATTTCTGAAGCCAGGATACAGGAG
35273862 ATG
128 ATG
35273865 AA
1 AA
35273867 AAGTGCTTTT
Statistics
Matches: 112, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
129 3 0.03
130 1 0.01
131 108 0.96
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.32
Consensus pattern (130 bp):
AATCTCTCAACTACTCTTAAAGGAATTTTAAAATGCAGTAGAATAAAGTTTTTGTAAACCATAAT
GCTTAAAATGATCTTTTGAGAAAAACGAGATTAGAAGAATTTCTGAAGCCAGGATACAGGAGATG
Found at i:35280784 original size:13 final size:13
Alignment explanation
Indices: 35280766--35280790 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35280756 AGAGAAATTG
35280766 TGATTTTATAAAA
1 TGATTTTATAAAA
35280779 TGATTTTATAAA
1 TGATTTTATAAA
35280791 TTTTCTGAAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:35282006 original size:15 final size:15
Alignment explanation
Indices: 35281988--35282036 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
35281978 TTTAAAGATC
*
35281988 AAAGGTTTTGATTTT
1 AAAGCTTTTGATTTT
*
35282003 AAAGCTTTGGATTTT
1 AAAGCTTTTGATTTT
* *
35282018 AAAGTTTTTGGTTTT
1 AAAGCTTTTGATTTT
35282033 AAAG
1 AAAG
35282037 TTGTTTTAAG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.29, C:0.02, G:0.20, T:0.49
Consensus pattern (15 bp):
AAAGCTTTTGATTTT
Found at i:35282083 original size:5 final size:5
Alignment explanation
Indices: 35282073--35282124 Score: 63
Period size: 5 Copynumber: 10.8 Consensus size: 5
35282063 TGCGTGGTCC
* * *
35282073 AAGTT AAGTT AAATT AAGTT -AGTC AAGTT AAGTT AAGTT -AGTC AAGTT
1 AAGTT AAGTT AAGTT AAGTT AAGTT AAGTT AAGTT AAGTT AAGTT AAGTT
35282121 AAGT
1 AAGT
35282125 CAGGTTAGGT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
4 6 0.15
5 33 0.85
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.37
Consensus pattern (5 bp):
AAGTT
Found at i:35282123 original size:19 final size:19
Alignment explanation
Indices: 35282078--35282124 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
35282068 GGTCCAAGTT
*
35282078 AAGTTAAATTAAGTTAGTC
1 AAGTTAAGTTAAGTTAGTC
35282097 AAGTTAAGTTAAGTTAGTC
1 AAGTTAAGTTAAGTTAGTC
35282116 AAGTTAAGT
1 AAGTTAAGT
35282125 CAGGTTAGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.36
Consensus pattern (19 bp):
AAGTTAAGTTAAGTTAGTC
Found at i:35282131 original size:19 final size:19
Alignment explanation
Indices: 35282078--35282132 Score: 74
Period size: 19 Copynumber: 2.9 Consensus size: 19
35282068 GGTCCAAGTT
* *
35282078 AAGTTAAATTAAGTTAGTC
1 AAGTTAAGTCAAGTTAGTC
*
35282097 AAGTTAAGTTAAGTTAGTC
1 AAGTTAAGTCAAGTTAGTC
*
35282116 AAGTTAAGTCAGGTTAG
1 AAGTTAAGTCAAGTTAG
35282133 GTAGAATAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.38, C:0.05, G:0.22, T:0.35
Consensus pattern (19 bp):
AAGTTAAGTCAAGTTAGTC
Found at i:35282131 original size:24 final size:22
Alignment explanation
Indices: 35282072--35282124 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 22
35282062 CTGCGTGGTC
*
35282072 CAAGTTAAGTTAAATTAAGTTAGT
1 CAAGTTAAG-T-AGTTAAGTTAGT
35282096 CAAGTT-A--AGTTAAGTTAGT
1 CAAGTTAAGTAGTTAAGTTAGT
35282115 CAAGTTAAGT
1 CAAGTTAAGT
35282125 CAGGTTAGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
19 17 0.68
20 1 0.04
23 1 0.04
24 6 0.24
ACGTcount: A:0.40, C:0.06, G:0.19, T:0.36
Consensus pattern (22 bp):
CAAGTTAAGTAGTTAAGTTAGT
Found at i:35287079 original size:13 final size:13
Alignment explanation
Indices: 35287061--35287085 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35287051 AGAGAAATTG
35287061 TGATTTTATAAAA
1 TGATTTTATAAAA
35287074 TGATTTTATAAA
1 TGATTTTATAAA
35287086 TTTTTTGAAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:35289616 original size:21 final size:21
Alignment explanation
Indices: 35289552--35289626 Score: 105
Period size: 21 Copynumber: 3.6 Consensus size: 21
35289542 CAGAGAAGGC
*
35289552 TTAATTGGTTAAAGCCTGCTT
1 TTAATCGGTTAAAGCCTGCTT
* *
35289573 TAAATCGATTAAAGCCTGCTT
1 TTAATCGGTTAAAGCCTGCTT
*
35289594 TTAATCGGTTAAAGCCTACTT
1 TTAATCGGTTAAAGCCTGCTT
*
35289615 TTAACCGGTTAA
1 TTAATCGGTTAA
35289627 TGAAGCATTG
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.37
Consensus pattern (21 bp):
TTAATCGGTTAAAGCCTGCTT
Found at i:35291647 original size:41 final size:41
Alignment explanation
Indices: 35291599--35291720 Score: 192
Period size: 41 Copynumber: 3.0 Consensus size: 41
35291589 ATGATTTAAG
35291599 GACTAATCAGATCAAGGCAATGATCTTTGGCAGATTTCATT
1 GACTAATCAGATCAAGGCAATGATCTTTGGCAGATTTCATT
*
35291640 GACTAATCAGATCAAGGCAATGATCTTT-GCGAAATTTCATT
1 GACTAATCAGATCAAGGCAATGATCTTTGGC-AGATTTCATT
* * *
35291681 AACCAATCAGATCAAGGCAATGATCTTTGGGAGATTTCAT
1 GACTAATCAGATCAAGGCAATGATCTTTGGCAGATTTCAT
35291721 GCTTGACAAT
Statistics
Matches: 74, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
40 2 0.03
41 71 0.96
42 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (41 bp):
GACTAATCAGATCAAGGCAATGATCTTTGGCAGATTTCATT
Found at i:35294939 original size:505 final size:503
Alignment explanation
Indices: 35293975--35294982 Score: 1840
Period size: 505 Copynumber: 2.0 Consensus size: 503
35293965 GTGTATAGAA
35293975 TAATCATTCAAATTAGATTTTCCATTTTCTGTACCACCAAAAATTATCATTATTAATTGTAGATC
1 TAATCATTCAAATTAGATTTTCCATTTTCTGTACCACCAAAAATTATCATTATTAATTGTAGATC
35294040 AGTCTAATTAGTCAAAAAATTTTTATGAAAAATAATTAAGGATGAGAACTTACTAAACCATAACC
66 AGTCTAATTAGTCAAAAAATTTTTATGAAAAATAATTAAGGATGAGAACTTACTAAACCATAACC
35294105 AACTTGTATACAAATTCCAATTGAATCGAAAATTTAAAAAAAAAAAGAGAGAATTTGGTATTTAC
131 AACTTGTATACAAATTCCAATTGAATCGAAAATTTAAAAAAAAAAAGAGAGAATTTGGTATTTAC
35294170 AATATTATTTTTAACATATGAGAAAAATATAGGTCATACGTAACAAATACACCTAATTTCTAGAA
196 AATATTATTTTTAACATATGAGAAAAATATAGGTCATACGTAACAAATACACCTAATTTCTAGAA
35294235 TGTTAGTTTTAAAATTATTATAGCTTTAATTATGACAAAATGATCAAATTTGCTTGAATATTATT
261 TGTTAGTTTTAAAATTATTATAGCTTTAATTATGACAAAATGATCAAATTTGCTTGAATATTATT
35294300 TGAGTGATCCTTAACGAGTTCTTGAAATGATTTAACTCACATACATTTGTTCTTACATAGTTACA
326 TGAGTGATCCTTAACGAGTTCTTGAAATGATTTAACTCACATACATTTGTTCTTACATAGTTACA
* ** *
35294365 AGCTTGACTTTTAAAGTTATTGAACTATATCTATAAGTTCGTATGACTTAGTTGTATGAGTACTT
391 AGCTTGACTCTTAAAGTTATTGAACTATATCTATAAGTTC-TATGACTTAAATGTATAAGTACTT
*
35294430 ATGATTCCCATTCATTAAAATCTGATTTAAAGATT-AAAGAAAAATCTTT
455 ATGATTCCCATTCATTAAAATCTAATTTAAAGATTAAAAG-AAAATCTTT
35294479 NTAATCATTCAAATTAGATTTTCCATTTTCTGTACCACCAAAAATTATCATTATTAATTGTAGAT
1 -TAATCATTCAAATTAGATTTTCCATTTTCTGTACCACCAAAAATTATCATTATTAATTGTAGAT
35294544 CAGTCTAATTAGTCAAAAAATTTTTATGAAAAATAATTAAGGATGAGAACTTACTAAACCATAAC
65 CAGTCTAATTAGTCAAAAAATTTTTATGAAAAATAATTAAGGATGAGAACTTACTAAACCATAAC
35294609 CAACTTGTATACAAATTCCAATTGAATCGAAAATTTAAAAAAAAAAAGAGAGAATTTGGTATTTA
130 CAACTTGTATACAAATTCCAATTGAATCGAAAATTTAAAAAAAAAAAGAGAGAATTTGGTATTTA
35294674 CAATATTATTTTTAACATATGAGAAAAATATAGGTCATACGTAACAAATACACCTAATTTCTAGA
195 CAATATTATTTTTAACATATGAGAAAAATATAGGTCATACGTAACAAATACACCTAATTTCTAGA
*
35294739 ATGTTAGTTTTAAAATTATTATAGTTTTAATTATGACAAAATGATCAAATTTGCTTGAATATTAT
260 ATGTTAGTTTTAAAATTATTATAGCTTTAATTATGACAAAATGATCAAATTTGCTTGAATATTAT
**
35294804 TTGAGTGATCCTTAACGAGTTCTTGAAATGATTTAACTCTTATACATTTGTTCTTACATAGTTAC
325 TTGAGTGATCCTTAACGAGTTCTTGAAATGATTTAACTCACATACATTTGTTCTTACATAGTTAC
* **
35294869 AAGCTTGACTCTTAAAGTTATTGAACTATATCTATAAGCTT-TAATGGCTTAAATGTATAAGTGT
390 AAGCTTGACTCTTAAAGTTATTGAACTATATCTATAAG-TTCT-ATGACTTAAATGTATAAGTAC
* *
35294933 TTATGATTCTCATTCATTAAAGTCTAATTTAAAGATTAAAAGAAAATCTT
453 TTATGATTCCCATTCATTAAAATCTAATTTAAAGATTAAAAGAAAATCTT
35294983 GATGCACTCA
Statistics
Matches: 487, Mismatches: 13, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
504 1 0.00
505 480 0.99
506 6 0.01
ACGTcount: A:0.40, C:0.12, G:0.11, T:0.37
Consensus pattern (503 bp):
TAATCATTCAAATTAGATTTTCCATTTTCTGTACCACCAAAAATTATCATTATTAATTGTAGATC
AGTCTAATTAGTCAAAAAATTTTTATGAAAAATAATTAAGGATGAGAACTTACTAAACCATAACC
AACTTGTATACAAATTCCAATTGAATCGAAAATTTAAAAAAAAAAAGAGAGAATTTGGTATTTAC
AATATTATTTTTAACATATGAGAAAAATATAGGTCATACGTAACAAATACACCTAATTTCTAGAA
TGTTAGTTTTAAAATTATTATAGCTTTAATTATGACAAAATGATCAAATTTGCTTGAATATTATT
TGAGTGATCCTTAACGAGTTCTTGAAATGATTTAACTCACATACATTTGTTCTTACATAGTTACA
AGCTTGACTCTTAAAGTTATTGAACTATATCTATAAGTTCTATGACTTAAATGTATAAGTACTTA
TGATTCCCATTCATTAAAATCTAATTTAAAGATTAAAAGAAAATCTTT
Found at i:35297913 original size:41 final size:41
Alignment explanation
Indices: 35297850--35297940 Score: 130
Period size: 41 Copynumber: 2.2 Consensus size: 41
35297840 TAGAAGTTAT
* *
35297850 AGGGAA-GATTTGAAAGATGATTTAAGGACTAATCAGATCA
1 AGGGAATGATTTGAAAGACGATTTAAGGACCAATCAGATCA
* *
35297890 AGGGAATGATTTGAGAGACGATTTAAGTACCAATCAGATCA
1 AGGGAATGATTTGAAAGACGATTTAAGGACCAATCAGATCA
*
35297931 AGGGACTGAT
1 AGGGAATGAT
35297941 CTTTGGCAGA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 6 0.13
41 39 0.87
ACGTcount: A:0.40, C:0.10, G:0.26, T:0.24
Consensus pattern (41 bp):
AGGGAATGATTTGAAAGACGATTTAAGGACCAATCAGATCA
Found at i:35309921 original size:7 final size:7
Alignment explanation
Indices: 35309909--35309935 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
35309899 GATTTAATTT
35309909 TAAAAAA
1 TAAAAAA
35309916 TAAAAAA
1 TAAAAAA
35309923 TAAAAAA
1 TAAAAAA
35309930 TAAAAA
1 TAAAAA
35309936 GATTTTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:35321694 original size:2 final size:2
Alignment explanation
Indices: 35321687--35321732 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
35321677 TTTATGTATC
35321687 AT AT AT AT AT AT 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 AT AT AT AT AT AT
35321729 AT AT
1 AT AT
35321733 GTATTAAGTC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:35327551 original size:17 final size:17
Alignment explanation
Indices: 35327526--35327560 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
35327516 ATAATGATTC
35327526 TTTAGCATATGATCATA
1 TTTAGCATATGATCATA
*
35327543 TTTATCATATGATCATA
1 TTTAGCATATGATCATA
35327560 T
1 T
35327561 GATCATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.46
Consensus pattern (17 bp):
TTTAGCATATGATCATA
Found at i:35327557 original size:8 final size:8
Alignment explanation
Indices: 35327531--35327568 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
35327521 GATTCTTTAG
35327531 CATATGAT
1 CATATGAT
*
35327539 CATATTTAT
1 CATA-TGAT
35327548 CATATGAT
1 CATATGAT
35327556 CATATGAT
1 CATATGAT
35327564 CATAT
1 CATAT
35327569 TATGACCAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
8 20 0.74
9 7 0.26
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (8 bp):
CATATGAT
Found at i:35328815 original size:19 final size:17
Alignment explanation
Indices: 35328776--35328823 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
35328766 ATATTTCTTA
35328776 AAAATAA-AAAAAAAAG
1 AAAATAATAAAAAAAAG
*
35328792 AAAATAATAAAAATAAG
1 AAAATAATAAAAAAAAG
*
35328809 AATA-AATAAATAAAA
1 AAAATAATAAA-AAAA
35328824 TATTAAAACT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 13 0.48
17 14 0.52
ACGTcount: A:0.81, C:0.00, G:0.04, T:0.15
Consensus pattern (17 bp):
AAAATAATAAAAAAAAG
Found at i:35328824 original size:19 final size:17
Alignment explanation
Indices: 35328776--35328825 Score: 50
Period size: 19 Copynumber: 2.9 Consensus size: 17
35328766 ATATTTCTTA
*
35328776 AAAATAAA-AAAAAAAG
1 AAAATAAATAAAATAAG
35328792 AAAAT-AATAAAAATAAG
1 AAAATAAAT-AAAATAAG
35328809 AATAAATAAATAAAATA
1 -A-AAATAAATAAAATA
35328826 TTAAAACTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 2 0.07
16 5 0.18
17 7 0.25
18 1 0.04
19 10 0.36
20 3 0.11
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (17 bp):
AAAATAAATAAAATAAG
Found at i:35329446 original size:16 final size:16
Alignment explanation
Indices: 35329427--35329460 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
35329417 TTAATAATTT
* *
35329427 AATAATTAAATAAATA
1 AATAATAAAAAAAATA
35329443 AATAATAAAAAAAATA
1 AATAATAAAAAAAATA
35329459 AA
1 AA
35329461 AGAGAGTAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AATAATAAAAAAAATA
Found at i:35334776 original size:2 final size:2
Alignment explanation
Indices: 35334769--35334825 Score: 98
Period size: 2 Copynumber: 28.5 Consensus size: 2
35334759 TCACATAACC
35334769 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT ACT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT
35334811 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
35334826 NTTTTTCTTT
Statistics
Matches: 53, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.02
2 50 0.94
3 2 0.04
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:35335158 original size:15 final size:15
Alignment explanation
Indices: 35335140--35335169 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
35335130 TAAAAAAAGA
35335140 AAAAAAATTTAAAAT
1 AAAAAAATTTAAAAT
*
35335155 AAAAAATTTTAAAAT
1 AAAAAAATTTAAAAT
35335170 TTTAATTATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AAAAAAATTTAAAAT
Done.