Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 333 of 356
Found at i:107113555 original size:30 final size:28
Alignment explanation
Indices: 107113500--107113574 Score: 78
Period size: 30 Copynumber: 2.6 Consensus size: 28
107113490 AATAAAAAAT
* *
107113500 TTTAAAATATATTAAATCACCAAATACA
1 TTTAAAATATATTAAAACAACAAATACA
* *
107113528 TTTAAAATAAATATTAAAACAAGAAATAAA
1 TTTAAAAT--ATATTAAAACAACAAATACA
**
107113558 TAAAAAATATATTAAAA
1 TTTAAAATATATTAAAA
107113575 AAATTCTTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
28 17 0.44
30 22 0.56
ACGTcount: A:0.63, C:0.07, G:0.01, T:0.29
Consensus pattern (28 bp):
TTTAAAATATATTAAAACAACAAATACA
Found at i:107113573 original size:40 final size:40
Alignment explanation
Indices: 107113529--107113615 Score: 95
Period size: 40 Copynumber: 2.2 Consensus size: 40
107113519 CCAAATACAT
*
107113529 TTAAAATAAA-TATTAAAACAAGAAATAAATAAAAAATATA
1 TTAAAA-AAATTATTAAAACAAGAAACAAATAAAAAATATA
* * * * *
107113569 TTAAAAAAATTCTTAAAATAATACACAAATTAAAAATATA
1 TTAAAAAAATTATTAAAACAAGAAACAAATAAAAAATATA
*
107113609 ATAAAAA
1 TTAAAAA
107113616 TTGATTATAT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
39 3 0.08
40 36 0.92
ACGTcount: A:0.68, C:0.05, G:0.01, T:0.26
Consensus pattern (40 bp):
TTAAAAAAATTATTAAAACAAGAAACAAATAAAAAATATA
Found at i:107113658 original size:23 final size:23
Alignment explanation
Indices: 107113630--107113674 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
107113620 TTATATTAAA
*
107113630 ATTAAAATTAAAATATAAATATG
1 ATTAAAAATAAAATATAAATATG
*
107113653 ATTAAAAATAAAATATATATAT
1 ATTAAAAATAAAATATAAATAT
107113675 TTAGTATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (23 bp):
ATTAAAAATAAAATATAAATATG
Found at i:107114444 original size:23 final size:23
Alignment explanation
Indices: 107114418--107114463 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
107114408 AATTTTCTGT
107114418 AATAA-TACTAAATTAATTTTAAA
1 AATAATTA-TAAATTAATTTTAAA
*
107114441 AATAATTATAATTTAATTTTAAA
1 AATAATTATAAATTAATTTTAAA
107114464 TTATTAGTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 19 0.90
24 2 0.10
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
AATAATTATAAATTAATTTTAAA
Found at i:107118044 original size:25 final size:25
Alignment explanation
Indices: 107118010--107118060 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
107118000 ATTATTCCTC
107118010 TAAATTGTATGAAAGTGACAAACTT
1 TAAATTGTATGAAAGTGACAAACTT
107118035 TAAATTGTATGAAAGTGACAAACTT
1 TAAATTGTATGAAAGTGACAAACTT
107118060 T
1 T
107118061 GGAAAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.33
Consensus pattern (25 bp):
TAAATTGTATGAAAGTGACAAACTT
Found at i:107127673 original size:6 final size:6
Alignment explanation
Indices: 107127664--107127691 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
107127654 CTAAATTAAT
107127664 AAAATA AAAATA AAAATA AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAA
107127692 AACTAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:107151115 original size:38 final size:38
Alignment explanation
Indices: 107151054--107151248 Score: 214
Period size: 38 Copynumber: 5.0 Consensus size: 38
107151044 ATTTGATGTG
* *
107151054 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCT-TCATGCTGGTATTA
107151094 TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTATTA
* * * *
107151132 TATCCAGGTTAAATCACGTAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTATTA
*
107151170 TATCCGGGTTAAATCCCGCAGGCCT-AGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCA-TGCTGGTATTA
* * * * *
107151208 TATCTGAGTTTAAAGTCCCGTAGGCTTCGTGCTGGTGTTA
1 TATCCG-GGTTAAA-TCCCGCAGGCTTCATGCTGGTATTA
107151248 T
1 T
107151249 GTTTGGGTTT
Statistics
Matches: 133, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
37 1 0.01
38 92 0.69
39 11 0.08
40 29 0.22
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTATTA
Found at i:107151164 original size:76 final size:78
Alignment explanation
Indices: 107151083--107151242 Score: 245
Period size: 76 Copynumber: 2.1 Consensus size: 78
107151073 GCAGGCTATA
*
107151083 TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCA-TGCTGGTATTATATC-CAGGTTAAA-
1 TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCCT-AGTGCTGGTATTATATCTCAGGTTAAAG
107151145 TCACGTAGGCTTCG
65 TCACGTAGGCTTCG
* * *
107151159 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTATATCTGAGTTTAAAGT
1 TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTATATCTCAGGTTAAAGT
*
107151224 CCCGTAGGCTTCG
66 CACGTAGGCTTCG
107151237 TGCTGG
1 TGCTGG
107151243 TGTTATGTTT
Statistics
Matches: 76, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
75 1 0.01
76 49 0.64
77 7 0.09
78 19 0.25
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.33
Consensus pattern (78 bp):
TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTATATCTCAGGTTAAAGT
CACGTAGGCTTCG
Found at i:107153693 original size:15 final size:15
Alignment explanation
Indices: 107153660--107153699 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 15
107153650 CTAATTTAAC
107153660 ATAAAATCAAAGTAAA
1 ATAAAAT-AAAGTAAA
107153676 ATAAAATAAA-TAAAA
1 ATAAAATAAAGT-AAA
107153691 ATAAAATAA
1 ATAAAATAA
107153700 TATTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 1 0.04
15 15 0.65
16 7 0.30
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.20
Consensus pattern (15 bp):
ATAAAATAAAGTAAA
Found at i:107159554 original size:27 final size:27
Alignment explanation
Indices: 107159506--107159661 Score: 178
Period size: 27 Copynumber: 5.8 Consensus size: 27
107159496 GCGAGGCTGC
* *
107159506 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
107159533 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
107159559 CAGATATATGTGGCAGAGCCACCAAAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
107159586 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
107159613 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
107159640 CAGATAATTGTGGCATAGCCAC
1 CAGAT-ATTGTGGCAGAGCCAC
107159662 TAGGACGCTT
Statistics
Matches: 112, Mismatches: 9, Indels: 16
0.82 0.07 0.12
Matches are distributed among these distances:
26 10 0.09
27 97 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:107159606 original size:54 final size:54
Alignment explanation
Indices: 107159524--107159661 Score: 233
Period size: 54 Copynumber: 2.6 Consensus size: 54
107159514 GTGACGAAGT
*
107159524 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* *
107159578 CACCAAATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
107159632 CACCAGATCAGATAATTGTGGCATAGCCAC
1 CACCAGATCAGATAATTGTGGCATAGCCAC
107159662 TAGGACGCTT
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 5 0.06
54 73 0.94
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:107161316 original size:26 final size:26
Alignment explanation
Indices: 107161286--107161393 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
107161276 TGAAATTCCC
107161286 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
107161312 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
107161338 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
107161364 ATCATAGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
107161390 ATCA
1 ATCA
107161394 ATTTGAATCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:107165090 original size:24 final size:24
Alignment explanation
Indices: 107165075--107165142 Score: 127
Period size: 24 Copynumber: 2.8 Consensus size: 24
107165065 AAGGTCTGAC
107165075 GAGCTAAAAACAGTAAGCTCCAAT
1 GAGCTAAAAACAGTAAGCTCCAAT
*
107165099 GAGCTGAAAACAGTAAGCTCCAAT
1 GAGCTAAAAACAGTAAGCTCCAAT
107165123 GAGCTAAAAACAGTAAGCTC
1 GAGCTAAAAACAGTAAGCTC
107165143 TTAAGAGATG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.44, C:0.21, G:0.19, T:0.16
Consensus pattern (24 bp):
GAGCTAAAAACAGTAAGCTCCAAT
Found at i:107169100 original size:20 final size:20
Alignment explanation
Indices: 107169043--107169100 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 20
107169033 ATTTTCAATG
*
107169043 TGATGCCAATATTTCTAACA
1 TGATACCAATATTTCTAACA
* *
107169063 T-ATAGCGAA-ATTTTTAACA
1 TGATA-CCAATATTTCTAACA
107169082 TGATACCAATATTTCTAAC
1 TGATACCAATATTTCTAAC
107169101 GGCATCTCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (20 bp):
TGATACCAATATTTCTAACA
Found at i:107169154 original size:19 final size:19
Alignment explanation
Indices: 107169124--107169160 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
107169114 ATATTTTGCC
107169124 AAATTTTCTAACAAGTATCA
1 AAATTTTCTAACAA-TATCA
107169144 AAATTTT-TAACAATATC
1 AAATTTTCTAACAATATC
107169161 TCATTAGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 6 0.35
20 7 0.41
ACGTcount: A:0.46, C:0.14, G:0.03, T:0.38
Consensus pattern (19 bp):
AAATTTTCTAACAATATCA
Found at i:107169573 original size:60 final size:60
Alignment explanation
Indices: 107169496--107169609 Score: 165
Period size: 60 Copynumber: 1.9 Consensus size: 60
107169486 ACCAATTACC
* * * * *
107169496 ATACCAAAATATCTAATAATATATTTTTAGAAATTTCAGTATTTGATTAAAAATTTTGAT
1 ATACCAAAACATCTAATAAAATATTTTTAAAAATTTCAATATTTAATTAAAAATTTTGAT
* *
107169556 ATACCAAAACATTTAATAAAATATTTTTAAAAATTTTAATATTTAATTAAAAAT
1 ATACCAAAACATCTAATAAAATATTTTTAAAAATTTCAATATTTAATTAAAAAT
107169610 ATTAGTATGA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
60 47 1.00
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.42
Consensus pattern (60 bp):
ATACCAAAACATCTAATAAAATATTTTTAAAAATTTCAATATTTAATTAAAAATTTTGAT
Found at i:107174749 original size:2 final size:2
Alignment explanation
Indices: 107174742--107174776 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
107174732 ATGCTATGTG
* *
107174742 TA TA TA TA TA TA TG TA TA TA TA TA TG TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
107174777 CCAAGTTCCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (2 bp):
TA
Found at i:107174761 original size:12 final size:12
Alignment explanation
Indices: 107174744--107174776 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
107174734 GCTATGTGTA
107174744 TATATATATATG
1 TATATATATATG
107174756 TATATATATATG
1 TATATATATATG
107174768 TATATATAT
1 TATATATAT
107174777 CCAAGTTCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (12 bp):
TATATATATATG
Found at i:107175950 original size:18 final size:19
Alignment explanation
Indices: 107175909--107175952 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
107175899 TTCTTTTATG
*
107175909 AATAAAATAATTCTGTAAA
1 AATAAAATAATTATGTAAA
*
107175928 AATAAATTAATTATG-AAA
1 AATAAAATAATTATGTAAA
*
107175946 TATAAAA
1 AATAAAA
107175953 GTTTTATTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (19 bp):
AATAAAATAATTATGTAAA
Found at i:107176617 original size:15 final size:15
Alignment explanation
Indices: 107176597--107176631 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
107176587 GATCACTGTG
107176597 AAGACATGTTTAGCA
1 AAGACATGTTTAGCA
107176612 AAGACATGTTTAGCA
1 AAGACATGTTTAGCA
107176627 AAGAC
1 AAGAC
107176632 TAGGATTAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.23
Consensus pattern (15 bp):
AAGACATGTTTAGCA
Found at i:107180901 original size:3 final size:3
Alignment explanation
Indices: 107180893--107180932 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
107180883 TTCATCCTTT
107180893 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
107180933 CTGAAACTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:107180990 original size:16 final size:17
Alignment explanation
Indices: 107180967--107181011 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
107180957 AATGCTTCAA
* *
107180967 TCTCTCCTTTCCCTTTC
1 TCTCTCCTTCCCCTCTC
107180984 T-TCTCCTTCCCCTCTC
1 TCTCTCCTTCCCCTCTC
*
107181000 TCTCTCCCTCCC
1 TCTCTCCTTCCC
107181012 TTCCATAACC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (17 bp):
TCTCTCCTTCCCCTCTC
Found at i:107182068 original size:45 final size:45
Alignment explanation
Indices: 107182004--107182093 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
107181994 AAATGACGTA
107182004 GGCTTCATGTGGGACAATAAGAATATCTTTAAATCTGTTTGATGT
1 GGCTTCATGTGGGACAATAAGAATATCTTTAAATCTGTTTGATGT
107182049 GGCTTCATGTGGGACAATAAGAATATCTTTAAATCTGTTTGATGT
1 GGCTTCATGTGGGACAATAAGAATATCTTTAAATCTGTTTGATGT
107182094 ACCTTTTGAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.38
Consensus pattern (45 bp):
GGCTTCATGTGGGACAATAAGAATATCTTTAAATCTGTTTGATGT
Found at i:107184966 original size:11 final size:10
Alignment explanation
Indices: 107184939--107184971 Score: 50
Period size: 11 Copynumber: 3.3 Consensus size: 10
107184929 TATTTGAATT
107184939 TAATTT-AAA
1 TAATTTAAAA
107184948 TAATTTAAAA
1 TAATTTAAAA
107184958 TATATTTAAAA
1 TA-ATTTAAAA
107184969 TAA
1 TAA
107184972 AAAATTAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 6 0.27
10 6 0.27
11 10 0.45
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
TAATTTAAAA
Found at i:107185617 original size:40 final size:39
Alignment explanation
Indices: 107185546--107185681 Score: 135
Period size: 35 Copynumber: 3.7 Consensus size: 39
107185536 CATGGCAAAG
*
107185546 TGTGAAATATAGGTATGGTA--TC--ATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATTTCAAATCCATACTGAGT
*
107185581 TGTGAAATGTAGGTATGATATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATT-TCAAATCCATACTGAGT
** * * *
107185621 TAAGAAACGTAGGTATGGCATTTC----CCATACCGAGT
1 TGTGAAATGTAGGTATGGTATTTCAAATCCATACTGAGT
*
107185656 TGTAAAATGTAGGTATGGTATTTCAA
1 TGTGAAATGTAGGTATGGTATTTCAA
107185682 TGAGGAAAAC
Statistics
Matches: 81, Mismatches: 13, Indels: 12
0.76 0.12 0.11
Matches are distributed among these distances:
35 47 0.58
38 2 0.02
39 2 0.02
40 30 0.37
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (39 bp):
TGTGAAATGTAGGTATGGTATTTCAAATCCATACTGAGT
Found at i:107193239 original size:40 final size:38
Alignment explanation
Indices: 107193119--107193250 Score: 150
Period size: 35 Copynumber: 3.6 Consensus size: 38
107193109 TCCTCATTGA
* *
107193119 AATACCATACCTACATTTTACAACTCGGTATGG--GA-
1 AATACCATACCTACATTTCACAACTCAGTATGGATGAT
* * **
107193154 AATGCCATACCTACGTTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGA--TGAT
107193194 AATACCATACCTACATTTCACAACTCAGTATGGATG--
1 AATACCATACCTACATTTCACAACTCAGTATGGATGAT
107193230 -ATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
107193251 CTTTGCCATG
Statistics
Matches: 82, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
35 48 0.59
38 2 0.02
39 2 0.02
40 30 0.37
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.31
Consensus pattern (38 bp):
AATACCATACCTACATTTCACAACTCAGTATGGATGAT
Found at i:107194287 original size:18 final size:18
Alignment explanation
Indices: 107194264--107194414 Score: 90
Period size: 18 Copynumber: 7.9 Consensus size: 18
107194254 GAACAATTAT
* *
107194264 TTATTTAGTAATAATCAG
1 TTATTCAGTAATAATCAA
** *
107194282 TTATTTGGTAACAATCAA
1 TTATTCAGTAATAATCAA
*
107194300 TTATTCAATAATAATCAA
1 TTATTCAGTAATAATCAA
107194318 TTATTCAGT-ATCAATCAA
1 TTATTCAGTAAT-AATCAA
*
107194336 TTGATCGGTTATCCAGTAACAATCAA
1 TT-A-----T-T-CAGTAATAATCAA
*
107194362 TTATTCAGTAAAAATCAGA
1 TTATTCAGTAATAATCA-A
* * *
107194381 -TATACAGTAACAATTAAA
1 TTATTCAGTAATAA-TCAA
107194399 TTATTCAGTAATAATC
1 TTATTCAGTAATAATC
107194415 GATCTTTTCA
Statistics
Matches: 104, Mismatches: 16, Indels: 26
0.71 0.11 0.18
Matches are distributed among these distances:
17 2 0.02
18 69 0.66
19 16 0.15
20 1 0.01
24 1 0.01
25 2 0.02
26 12 0.12
27 1 0.01
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAATAATCAA
Found at i:107194594 original size:53 final size:53
Alignment explanation
Indices: 107194533--107194657 Score: 196
Period size: 53 Copynumber: 2.4 Consensus size: 53
107194523 CCGGAACAGT
* * *
107194533 AACAGTAACAGTAGCTGTACGGTACACAGAGTACCTCATCGGAATAAATCCGA
1 AACAGTAACAGTAACAGTACGGTACACAGAGTACCTCATCAGAATAAATCCGA
* *
107194586 AACAGTAACAGTAACAGTACGGTGCACAGAGTACCTCATCAGAATAAATTCGA
1 AACAGTAACAGTAACAGTACGGTACACAGAGTACCTCATCAGAATAAATCCGA
*
107194639 AACAGTAACGGTAACAGTA
1 AACAGTAACAGTAACAGTA
107194658 ACAATATCTG
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 66 1.00
ACGTcount: A:0.41, C:0.21, G:0.20, T:0.18
Consensus pattern (53 bp):
AACAGTAACAGTAACAGTACGGTACACAGAGTACCTCATCAGAATAAATCCGA
Found at i:107199417 original size:31 final size:30
Alignment explanation
Indices: 107199382--107199441 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
107199372 TATTATCTTT
107199382 ATTAAAAAATAAATT-AGTTAGTTTATGTTAG
1 ATTAAAAAATAAATTGA-TTA-TTTATGTTAG
* *
107199413 ATTAAAGAGTAAATTGATTATTTATGTTA
1 ATTAAAAAATAAATTGATTATTTATGTTA
107199442 AATATTTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 9 0.35
31 16 0.62
32 1 0.04
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.43
Consensus pattern (30 bp):
ATTAAAAAATAAATTGATTATTTATGTTAG
Found at i:107200964 original size:24 final size:22
Alignment explanation
Indices: 107200923--107200966 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
107200913 TGACATGCTT
107200923 AATTTTTTAATTTAACTCGAAC
1 AATTTTTTAATTTAACTCGAAC
*
107200945 AATTTTATTAGATTTGACTCGA
1 AATTTT-TTA-ATTTAACTCGA
107200967 CTTAAATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 3 0.16
24 10 0.53
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.45
Consensus pattern (22 bp):
AATTTTTTAATTTAACTCGAAC
Found at i:107202509 original size:22 final size:21
Alignment explanation
Indices: 107202483--107202527 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
107202473 CCTTTGAAGT
107202483 AATTAA-TATAAATTATTTATAA
1 AATTAATTATAAA-TATTT-TAA
*
107202505 AATTAATTATACATATTTTAA
1 AATTAATTATAAATATTTTAA
107202526 AA
1 AA
107202528 AAATAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 5 0.24
22 11 0.52
23 5 0.24
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
AATTAATTATAAATATTTTAA
Found at i:107206214 original size:18 final size:17
Alignment explanation
Indices: 107206186--107206220 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
107206176 ATTATTAAGA
*
107206186 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
107206203 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
107206221 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:107206358 original size:18 final size:17
Alignment explanation
Indices: 107206330--107206364 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
107206320 ATTATTAACC
*
107206330 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
107206347 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
107206365 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:107206575 original size:44 final size:45
Alignment explanation
Indices: 107206526--107206620 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
107206516 TTACACCTCT
* *
107206526 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
107206570 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
107206615 ATTACA
1 ATTACA
107206621 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:107206620 original size:16 final size:16
Alignment explanation
Indices: 107206599--107206631 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
107206589 TTGATTTGCT
*
107206599 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
107206615 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
107206631 A
1 A
107206632 ATCCAATACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:107206641 original size:21 final size:21
Alignment explanation
Indices: 107206612--107206654 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
107206602 ACACCTCTAT
*
107206612 TCCATTACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
107206633 TCCAATACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
107206654 T
1 T
107206655 ACAGCGAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (21 bp):
TCCAATACACCTCTAATCCAA
Found at i:107215664 original size:24 final size:24
Alignment explanation
Indices: 107215634--107215683 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
107215624 CATTATTTTC
* *
107215634 AATTAATTAAATAAATAAAATTAA
1 AATTAATTAAACAAATAAAATAAA
* *
107215658 AATTAATTGAACATATAAAATAAA
1 AATTAATTAAACAAATAAAATAAA
107215682 AA
1 AA
107215684 AATCATATCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AATTAATTAAACAAATAAAATAAA
Found at i:107216959 original size:52 final size:52
Alignment explanation
Indices: 107216881--107216986 Score: 194
Period size: 52 Copynumber: 2.0 Consensus size: 52
107216871 TTCTTTTACA
**
107216881 TTTAAACATAATTTTTAAATATTATATATATTTCACGGGCCGCAAATTAAAG
1 TTTAAACATAATTTTTAAATATTATATATATGCCACGGGCCGCAAATTAAAG
107216933 TTTAAACATAATTTTTAAATATTATATATATGCCACGGGCCGCAAATTAAAG
1 TTTAAACATAATTTTTAAATATTATATATATGCCACGGGCCGCAAATTAAAG
107216985 TT
1 TT
107216987 CATGATTAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (52 bp):
TTTAAACATAATTTTTAAATATTATATATATGCCACGGGCCGCAAATTAAAG
Found at i:107218428 original size:21 final size:21
Alignment explanation
Indices: 107218378--107218428 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 21
107218368 TATTATATTT
*
107218378 ATTAATTTAAAGAATAAATAG
1 ATTAATTTTAAGAATAAATAG
* *
107218399 ATTCA-TTTAATAATAGAAT-G
1 ATTAATTTTAAGAATA-AATAG
107218419 ATTAATTTTA
1 ATTAATTTTA
107218429 TACGTTAACC
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.49, C:0.02, G:0.08, T:0.41
Consensus pattern (21 bp):
ATTAATTTTAAGAATAAATAG
Found at i:107221031 original size:46 final size:46
Alignment explanation
Indices: 107220962--107221052 Score: 146
Period size: 46 Copynumber: 2.0 Consensus size: 46
107220952 TCACATACGC
*
107220962 TATTTTATCAATCTAACTCAAAAAATTTTAATATTTATAAAAATAT
1 TATTTTATCAATCTAACTCAAAAAAATTTAATATTTATAAAAATAT
* * *
107221008 TATTTTATCAATTTGACTTAAAAAAATTTAATATTTATAAAAATA
1 TATTTTATCAATCTAACTCAAAAAAATTTAATATTTATAAAAATA
107221053 ACCCTGGTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.48, C:0.07, G:0.01, T:0.44
Consensus pattern (46 bp):
TATTTTATCAATCTAACTCAAAAAAATTTAATATTTATAAAAATAT
Found at i:107222697 original size:21 final size:22
Alignment explanation
Indices: 107222671--107222726 Score: 80
Period size: 21 Copynumber: 2.6 Consensus size: 22
107222661 TATCATTGTT
*
107222671 TCTAATCTCACCGCTACAGT-A
1 TCTAATCTCACCGCTACAATAA
107222692 TCTAATCTCACCGCTACAATAA
1 TCTAATCTCACCGCTACAATAA
*
107222714 T-TAATCCCACCGC
1 TCTAATCTCACCGC
107222727 CACCGCTGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.30, C:0.36, G:0.07, T:0.27
Consensus pattern (22 bp):
TCTAATCTCACCGCTACAATAA
Found at i:107228377 original size:23 final size:24
Alignment explanation
Indices: 107228351--107228402 Score: 65
Period size: 22 Copynumber: 2.2 Consensus size: 24
107228341 AATAATTTTC
107228351 AAAAATT-CAAAATGTT-TA-TTAA
1 AAAAATTCCAAAAT-TTATATTTAA
107228373 AAAAATTCCAAAATTTATATTTTAA
1 AAAAATTCCAAAATTTATA-TTTAA
107228398 AAAAA
1 AAAAA
107228403 ATTTATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 9 0.35
23 8 0.31
25 9 0.35
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.35
Consensus pattern (24 bp):
AAAAATTCCAAAATTTATATTTAA
Found at i:107234281 original size:20 final size:19
Alignment explanation
Indices: 107234244--107234280 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
107234234 GTTTTTCAAA
**
107234244 TTATTTTTTATTTCAAAAT
1 TTATTTTTTATAACAAAAT
107234263 TTATTTTTTATAACAAAA
1 TTATTTTTTATAACAAAA
107234281 AGTTACATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (19 bp):
TTATTTTTTATAACAAAAT
Found at i:107246178 original size:18 final size:18
Alignment explanation
Indices: 107246157--107246457 Score: 153
Period size: 18 Copynumber: 16.3 Consensus size: 18
107246147 GAACAATTAT
107246157 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAG
* * *
107246175 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAG
* * **
107246193 TTATTCAATAATAACCAG
1 TTATTCAGTAACAGTCAG
*
107246211 TTATTCAGTATCGATCAATTGATCGG
1 TTATTCAGTA---A-C-A--G-TCAG
* *
107246237 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* *
107246255 TTATTCAATAA-AATCAG
1 TTATTCAGTAACAGTCAG
* * *
107246272 ATATTCAGTAACAATTAAG
1 TTATTCAGTAAC-AGTCAG
*
107246291 TTATTCAATAACAGTCA-
1 TTATTCAGTAACAGTCAG
* *
107246308 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAGTCAG
* *
107246327 TTATTCAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAG
* * *
107246345 TTATTCAGCAATATTCAG
1 TTATTCAGTAACAGTCAG
* * *
107246363 TTATTCAGTAATATTTAG
1 TTATTCAGTAACAGTCAG
107246381 TTATTCAGTAACAGTCTA-
1 TTATTCAGTAACAGTC-AG
* * * *
107246399 ATATCCAGTAACAATCAA
1 TTATTCAGTAACAGTCAG
* * *
107246417 TTATCCGGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
107246435 TTATTCAGTAATCA-TCAG
1 TTATTCAGTAA-CAGTCAG
107246453 TTATT
1 TTATT
107246458 TTATACCTTT
Statistics
Matches: 213, Mismatches: 53, Indels: 34
0.71 0.18 0.11
Matches are distributed among these distances:
17 16 0.08
18 161 0.76
19 20 0.09
21 2 0.01
22 1 0.00
23 2 0.01
26 11 0.05
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAG
Found at i:107246197 original size:36 final size:36
Alignment explanation
Indices: 107246142--107246445 Score: 186
Period size: 36 Copynumber: 8.2 Consensus size: 36
107246132 GTTCATTAAC
* *
107246142 ATTCAG-AACAATTATTTATTCAGTAACAGTCAGTT
1 ATTCAGTAACAATCAATTATTCAGTAACAGTCAGTT
* * * **
107246177 ATTCGGTAACAATCAATTATTCAATAATAACCAGTT
1 ATTCAGTAACAATCAATTATTCAGTAACAGTCAGTT
* * *
107246213 ATTCAGTATCGATCAATTGATCGGTTATCCAGTAACAGTCAATT
1 ATTCAGTAACAATCAATT-A-----T-T-CAGTAACAGTCAGTT
* * *
107246257 ATTCAATAA-AATCAGA-TATTCAGTAACAATTAAGTT
1 ATTCAGTAACAATCA-ATTATTCAGTAAC-AGTCAGTT
* * * *
107246293 ATTCAATAACAGTC-ATTCATTCAGTGACAATCAGTT
1 ATTCAGTAACAATCAATT-ATTCAGTAACAGTCAGTT
** * * *
107246329 ATTCAGTAATGATCAATTATTCAGCAATATTCAGTT
1 ATTCAGTAACAATCAATTATTCAGTAACAGTCAGTT
* * * * *
107246365 ATTCAGTAATATTTAGTTATTCAGTAACAGTCTA-AT
1 ATTCAGTAACAATCAATTATTCAGTAACAGTC-AGTT
* * * *
107246401 ATCCAGTAACAATCAATTATCCGGTAACAGTCAATT
1 ATTCAGTAACAATCAATTATTCAGTAACAGTCAGTT
107246437 ATTCAGTAA
1 ATTCAGTAA
107246446 TCATCAGTTA
Statistics
Matches: 202, Mismatches: 50, Indels: 33
0.71 0.18 0.12
Matches are distributed among these distances:
35 14 0.07
36 144 0.71
37 18 0.09
42 2 0.01
43 6 0.03
44 18 0.09
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (36 bp):
ATTCAGTAACAATCAATTATTCAGTAACAGTCAGTT
Found at i:107246278 original size:17 final size:19
Alignment explanation
Indices: 107246256--107246303 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
107246246 AACAGTCAAT
*
107246256 TATTCAATAA-AA-TCAGA
1 TATTCAATAACAATTAAGA
* *
107246273 TATTCAGTAACAATTAAGT
1 TATTCAATAACAATTAAGA
107246292 TATTCAATAACA
1 TATTCAATAACA
107246304 GTCATTCATT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 9 0.36
18 2 0.08
19 14 0.56
ACGTcount: A:0.48, C:0.12, G:0.06, T:0.33
Consensus pattern (19 bp):
TATTCAATAACAATTAAGA
Found at i:107246294 original size:54 final size:55
Alignment explanation
Indices: 107246157--107246420 Score: 180
Period size: 54 Copynumber: 4.7 Consensus size: 55
107246147 GAACAATTAT
* * * *
107246157 TTATTCAGTAAC-AGTCAGTTATTCGGTAACAATCAATTATTCAATAATAACCAG
1 TTATTCAGTAACAATTAAGTTATTCAGTAACAATCAATTATTCAATAATAATCAG
* * *
107246211 TTATTCAGTATCGATCAATTGATCGGTTATCCAGTAACAGTCAATTATTCAATAA-AATCAG
1 TTATTCAGTA---A-CAATT-A--AGTTATTCAGTAACAATCAATTATTCAATAATAATCAG
* * * * * *
107246272 ATATTCAGTAACAATTAAGTTATTCAATAACAGTC-ATTCATTCAGTGACAATCAG
1 TTATTCAGTAACAATTAAGTTATTCAGTAACAATCAATT-ATTCAATAATAATCAG
** * * * * * * * *
107246327 TTATTCAGTAATGATCAA-TTATTCAGCAATATTCAGTTATTCAGTAATATTTAG
1 TTATTCAGTAACAATTAAGTTATTCAGTAACAATCAATTATTCAATAATAATCAG
* *
107246381 TTATTCAGTAACAGTCTAA--TATCCAGTAACAATCAATTAT
1 TTATTCAGTAACAAT-TAAGTTATTCAGTAACAATCAATTAT
107246421 CCGGTAACAG
Statistics
Matches: 163, Mismatches: 35, Indels: 24
0.73 0.16 0.11
Matches are distributed among these distances:
53 3 0.02
54 84 0.52
55 24 0.15
56 1 0.01
57 6 0.04
58 2 0.01
59 2 0.01
61 14 0.09
62 27 0.17
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.36
Consensus pattern (55 bp):
TTATTCAGTAACAATTAAGTTATTCAGTAACAATCAATTATTCAATAATAATCAG
Found at i:107246413 original size:90 final size:90
Alignment explanation
Indices: 107246237--107246457 Score: 259
Period size: 90 Copynumber: 2.4 Consensus size: 90
107246227 AATTGATCGG
* * *
107246237 TTATCCAGTAACAGTCAATTATTCAATAAAATCAGATATTCAGTAACAATTAAGTTATTCAATAA
1 TTATCCAGTAACAGTCAATTATTCAGTAATATCAGTTATTCAGTAACAATTAAGTTATTCAATAA
* * * *
107246302 CAGTCATTCATTCAGTGACAATCAG
66 CAGTCAATCATCCAGTAACAATCAA
* * * * * *
107246327 TTATTCAGTAA-TGATCAATTATTCAGCAATATTCAGTTATTCAGTAA-TATTTAGTTATTCAGT
1 TTATCCAGTAACAG-TCAATTATTCAGTAATA-TCAGTTATTCAGTAACAATTAAGTTATTCAAT
107246390 AACAGTCTAAT-ATCCAGTAACAATCAA
64 AACAGTC-AATCATCCAGTAACAATCAA
*
107246417 TTATCCGGTAACAGTCAATTATTCAGTAATCATCAGTTATT
1 TTATCCAGTAACAGTCAATTATTCAGTAAT-ATCAGTTATT
107246458 TTATACCTTT
Statistics
Matches: 109, Mismatches: 17, Indels: 10
0.80 0.12 0.07
Matches are distributed among these distances:
89 1 0.01
90 90 0.83
91 18 0.17
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (90 bp):
TTATCCAGTAACAGTCAATTATTCAGTAATATCAGTTATTCAGTAACAATTAAGTTATTCAATAA
CAGTCAATCATCCAGTAACAATCAA
Found at i:107246729 original size:51 final size:45
Alignment explanation
Indices: 107246615--107246723 Score: 164
Period size: 45 Copynumber: 2.4 Consensus size: 45
107246605 ACAAATCCGG
* *
107246615 AACAGTAACAGTAACAGTATTCAACACACAAAGTGATGAATCGAT
1 AACAGTAACAGTAACAGTATTCGACACACAAAGTGACGAATCGAT
* * *
107246660 AACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATTGGT
1 AACAGTAACAGTAACAGTATTCGACACACAAAGTGACGAATCGAT
*
107246705 AACAGTAACGGTAACAGTA
1 AACAGTAACAGTAACAGTA
107246724 ACAGTAGTCG
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 58 1.00
ACGTcount: A:0.44, C:0.18, G:0.18, T:0.19
Consensus pattern (45 bp):
AACAGTAACAGTAACAGTATTCGACACACAAAGTGACGAATCGAT
Found at i:107246856 original size:16 final size:16
Alignment explanation
Indices: 107246835--107246872 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
107246825 AATAGGTTAT
107246835 TTAATTCACT-TTTCAA
1 TTAATTCA-TATTTCAA
*
107246851 TTAATTCATATTTTAA
1 TTAATTCATATTTCAA
107246867 TTAATT
1 TTAATT
107246873 AACTATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 1 0.05
16 19 0.95
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.55
Consensus pattern (16 bp):
TTAATTCATATTTCAA
Found at i:107250757 original size:20 final size:21
Alignment explanation
Indices: 107250734--107250777 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
107250724 TATTTTTTTG
107250734 TTATTTTTA-AT-ATAAAATAT
1 TTATTTTTACATCATAAAA-AT
107250754 TTATTTTTACATCATAAAAAT
1 TTATTTTTACATCATAAAAAT
107250775 TTA
1 TTA
107250778 AAGTTAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 9 0.41
21 7 0.32
22 6 0.27
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (21 bp):
TTATTTTTACATCATAAAAAT
Found at i:107252600 original size:49 final size:49
Alignment explanation
Indices: 107252536--107252773 Score: 246
Period size: 49 Copynumber: 4.8 Consensus size: 49
107252526 TAGCCAAAGC
* *
107252536 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * *
107252585 TATCCGGTACACATAGTAGGCTGCACTTAGTACTGCACACAT--AACCTAAC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACT--ACACATGCGACC-AAT
* * * * * * *
107252635 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-T
** * * *
107252686 TATTGGGCACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* *
107252735 AATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACA
107252774 CATGACCTCA
Statistics
Matches: 150, Mismatches: 32, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
48 5 0.03
49 67 0.45
50 37 0.25
51 41 0.27
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (49 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:107252772 original size:100 final size:98
Alignment explanation
Indices: 107252549--107252774 Score: 269
Period size: 100 Copynumber: 2.3 Consensus size: 98
107252539 CTGGTACGCA
* *
107252549 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACATAGTAGGCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGCACACATAGTAGGCTGCACTTA
* *
107252614 GTACTGCACACATAACCTAACCATCTGATACACG
66 GTACT-CACACATAACCTAACAATCCGATACACG
* * ** *
107252648 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATTGGGCACGCATAGTA-GCTTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGGCACACATAGTAGGC-TGCAC
* * *
107252712 TTAGTACT-ACACATGCGACC-AATAATCCGGTACACG
63 TTAGTACTCACACAT--AACCTAACAATCCGATACACG
107252748 TAGTAGCCTGCACTTAGTACTACACAC
1 TAGTAGCCTGCACTTAGTACTACACAC
107252775 ATGACCTCAC
Statistics
Matches: 110, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
99 35 0.32
100 44 0.40
101 31 0.28
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGCACACATAGTAGGCTGCACTTA
GTACTCACACATAACCTAACAATCCGATACACG
Found at i:107253770 original size:22 final size:22
Alignment explanation
Indices: 107253744--107253785 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
107253734 ATACAGAAAA
*
107253744 ATAAA-AGGAAAATAAAAAATAG
1 ATAAATAGCAAAA-AAAAAATAG
107253766 ATAAATAGCAAAAAAAAAAT
1 ATAAATAGCAAAAAAAAAAT
107253786 TTACCTTCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.74, C:0.02, G:0.10, T:0.14
Consensus pattern (22 bp):
ATAAATAGCAAAAAAAAAATAG
Found at i:107254378 original size:18 final size:17
Alignment explanation
Indices: 107254343--107254400 Score: 57
Period size: 16 Copynumber: 3.5 Consensus size: 17
107254333 ATTAAATTTG
107254343 TAATATTAAT-TTTATT
1 TAATATTAATATTTATT
*
107254359 TAATATTAATATTATGTT
1 TAATATTAATATT-TATT
* *
107254377 TACTATTATTATTT-TT
1 TAATATTAATATTTATT
*
107254393 AAATATTA
1 TAATATTA
107254401 GTGTACTTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
16 18 0.51
17 3 0.09
18 14 0.40
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (17 bp):
TAATATTAATATTTATT
Found at i:107254433 original size:17 final size:16
Alignment explanation
Indices: 107254410--107254458 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
107254400 AGTGTACTTT
107254410 GTATGTATATATTATTA
1 GTATGTATATATT-TTA
*
107254427 TTATGTATAT-TTTTA
1 GTATGTATATATTTTA
*
107254442 GTACGTATATATATTTA
1 GTATGTATATAT-TTTA
107254459 TGAAGTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 11 0.41
16 3 0.11
17 13 0.48
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (16 bp):
GTATGTATATATTTTA
Found at i:107254551 original size:18 final size:17
Alignment explanation
Indices: 107254530--107254563 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
107254520 TAATACTATA
*
107254530 TTATATATATACATTTTT
1 TTATATACATAC-TTTTT
107254548 TTATATACATACTTTT
1 TTATATACATACTTTT
107254564 AATATTATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (17 bp):
TTATATACATACTTTTT
Found at i:107257253 original size:50 final size:53
Alignment explanation
Indices: 107257197--107257294 Score: 132
Period size: 53 Copynumber: 1.9 Consensus size: 53
107257187 TTATTTCATG
*
107257197 TTGTTTT-AAG-CTTTT-TTATTTTTAA-TCAATGTTTATAATTAATAAATATA
1 TTGTTTTCAAGTCTTTTATTATTTTTAATTC-ATCTTTATAATTAATAAATATA
* *
107257247 TTGTTTTCAAGTTTTTTATTATTTTTAATTCATCTTTTTAATTAATAA
1 TTGTTTTCAAGTCTTTTATTATTTTTAATTCATCTTTATAATTAATAA
107257295 CTCTTTTATT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
50 7 0.17
51 3 0.07
52 4 0.10
53 25 0.61
54 2 0.05
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (53 bp):
TTGTTTTCAAGTCTTTTATTATTTTTAATTCATCTTTATAATTAATAAATATA
Found at i:107259719 original size:20 final size:20
Alignment explanation
Indices: 107259690--107259744 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
107259680 AAATTGAATT
*
107259690 TCTTACAAAATTATTAAATC
1 TCTTATAAAATTATTAAATC
* *
107259710 TCTTATAAAACTACTAAATC
1 TCTTATAAAATTATTAAATC
* *
107259730 TATCATAAAATTATT
1 TCTTATAAAATTATT
107259745 GAATATTTAC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.40
Consensus pattern (20 bp):
TCTTATAAAATTATTAAATC
Found at i:107260778 original size:21 final size:21
Alignment explanation
Indices: 107260732--107260778 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
107260722 AGTATCATTT
*
107260732 TATATTTATATACTACATAAA
1 TATAATTATATACTACATAAA
* *
107260753 AATAATTATATA-TAGATCAAA
1 TATAATTATATACTACAT-AAA
107260774 TATAA
1 TATAA
107260779 AAATAAATTA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.38
Consensus pattern (21 bp):
TATAATTATATACTACATAAA
Found at i:107260909 original size:29 final size:30
Alignment explanation
Indices: 107260829--107260913 Score: 84
Period size: 29 Copynumber: 2.8 Consensus size: 30
107260819 GAATCAAAGC
* *
107260829 TAAAGTTTATTGCATACATTTGA-GCCACAAT
1 TAAAGTTTA-TGCATACAATT-ACACCACAAT
* * *
107260860 CAAAGTTTTATGTATATAATTACACCA-AAT
1 TAAAG-TTTATGCATACAATTACACCACAAT
107260890 TAAAGTTTATGCATACAATTACAC
1 TAAAGTTTATGCATACAATTACAC
107260914 ATTAAACGAG
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
29 17 0.39
30 8 0.18
31 15 0.34
32 4 0.09
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.35
Consensus pattern (30 bp):
TAAAGTTTATGCATACAATTACACCACAAT
Found at i:107262802 original size:25 final size:26
Alignment explanation
Indices: 107262737--107262803 Score: 66
Period size: 25 Copynumber: 2.6 Consensus size: 26
107262727 TTGTTTCTAT
*
107262737 TATTATATATTTTTTTAATACCATATG
1 TATTAT-TATTGTTTTAATACCATATG
* * *
107262764 TATTATTGTCGTTTT-ATACTAT-TG
1 TATTATTATTGTTTTAATACCATATG
107262788 CTATTATTATTGTTTT
1 -TATTATTATTGTTTT
107262804 CGTCATCATT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
24 2 0.06
25 19 0.58
26 6 0.18
27 6 0.18
ACGTcount: A:0.25, C:0.07, G:0.07, T:0.60
Consensus pattern (26 bp):
TATTATTATTGTTTTAATACCATATG
Found at i:107269989 original size:41 final size:41
Alignment explanation
Indices: 107269823--107269978 Score: 276
Period size: 41 Copynumber: 3.8 Consensus size: 41
107269813 TTTATCGTTA
* *
107269823 GTGACATAATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
107269864 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
107269905 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
* *
107269946 GTGACACATTTCGGACTATAAGTCTAGTAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
107269979 AAGAGCCGGT
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 111 1.00
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:107270247 original size:33 final size:32
Alignment explanation
Indices: 107270192--107270254 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 32
107270182 GATAGATATG
107270192 TATATATATATGTTGCATTCGGCATAGGTGGA
1 TATATATATATGTTGCATTCGGCATAGGTGGA
* *
107270224 TATATTTATGTGTATGCATTCGGCATAGGTG
1 TATATATATATGT-TGCATTCGGCATAGGTG
107270255 AAAATAAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 11 0.39
33 17 0.61
ACGTcount: A:0.25, C:0.10, G:0.25, T:0.40
Consensus pattern (32 bp):
TATATATATATGTTGCATTCGGCATAGGTGGA
Found at i:107270271 original size:33 final size:33
Alignment explanation
Indices: 107270198--107270271 Score: 87
Period size: 33 Copynumber: 2.3 Consensus size: 33
107270188 TATGTATATA
* * **
107270198 TATATGT-TGCATTCGGCATAGGTGGATATATT
1 TATATGTATGCATTCGGCATAGGTGAAAATAAG
*
107270230 TATGTGTATGCATTCGGCATAGGTGAAAATAAG
1 TATATGTATGCATTCGGCATAGGTGAAAATAAG
*
107270263 TGTATGTAT
1 TATATGTAT
107270272 CTATGCATTC
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
32 6 0.18
33 28 0.82
ACGTcount: A:0.28, C:0.08, G:0.26, T:0.38
Consensus pattern (33 bp):
TATATGTATGCATTCGGCATAGGTGAAAATAAG
Found at i:107277151 original size:41 final size:41
Alignment explanation
Indices: 107276985--107277140 Score: 285
Period size: 41 Copynumber: 3.8 Consensus size: 41
107276975 TTTATCGTTA
* *
107276985 GTGACATAATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
107277026 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
107277067 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
107277108 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
107277141 AAGAGCCGGT
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 112 1.00
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:107277413 original size:33 final size:32
Alignment explanation
Indices: 107277357--107277420 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
107277347 AGATATGTAT
107277357 ATATATATATATGTTGCATTCGGCATAGGTGG
1 ATATATATATATGTTGCATTCGGCATAGGTGG
* *
107277389 ATATATTTATGTGTATGCATTCGGCATAGGTG
1 ATATATATATATGT-TGCATTCGGCATAGGTG
107277421 AAAATAAGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.27, C:0.09, G:0.25, T:0.39
Consensus pattern (32 bp):
ATATATATATATGTTGCATTCGGCATAGGTGG
Found at i:107277437 original size:33 final size:33
Alignment explanation
Indices: 107277364--107277437 Score: 87
Period size: 33 Copynumber: 2.3 Consensus size: 33
107277354 TATATATATA
* * **
107277364 TATATGT-TGCATTCGGCATAGGTGGATATATT
1 TATATGTATGCATTCGGCATAGGTGAAAATAAG
*
107277396 TATGTGTATGCATTCGGCATAGGTGAAAATAAG
1 TATATGTATGCATTCGGCATAGGTGAAAATAAG
*
107277429 TGTATGTAT
1 TATATGTAT
107277438 CTATGCATTC
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
32 6 0.18
33 28 0.82
ACGTcount: A:0.28, C:0.08, G:0.26, T:0.38
Consensus pattern (33 bp):
TATATGTATGCATTCGGCATAGGTGAAAATAAG
Found at i:107288980 original size:15 final size:15
Alignment explanation
Indices: 107288968--107288997 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
107288958 AAACAATTGT
107288968 TTTAAAATAAATTAA
1 TTTAAAATAAATTAA
*
107288983 TTTAAATTAAATTAA
1 TTTAAAATAAATTAA
107288998 AAATATATAA
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:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TTTAAAATAAATTAA
Found at i:107289453 original size:16 final size:16
Alignment explanation
Indices: 107289422--107289456 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
107289412 GTATTAAATT
107289422 TATATATATATTAAAA
1 TATATATATATTAAAA
107289438 TATA-ATATATTAAAA
1 TATATATATATTAAAA
107289453 -ATAT
1 TATAT
107289457 TAAAATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 3 0.17
15 11 0.61
16 4 0.22
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TATATATATATTAAAA
Found at i:107290992 original size:13 final size:13
Alignment explanation
Indices: 107290974--107290998 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
107290964 CCATACTAGT
107290974 TTATATATATATA
1 TTATATATATATA
107290987 TTATATATATAT
1 TTATATATATAT
107290999 GTAATATACA
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:0.00, T:0.56
Consensus pattern (13 bp):
TTATATATATATA
Found at i:107292728 original size:46 final size:45
Alignment explanation
Indices: 107292655--107292904 Score: 266
Period size: 46 Copynumber: 5.6 Consensus size: 45
107292645 TGATGTCATA
* * *
107292655 GTATCTTTCAACTATGGTTTTACTCATTTTCTGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCTATCATGTTGCCATG
* * *
107292701 GTATCTTTCAACCATGGTCTTATTCATTTTCTCGTCATGTTGCCATA
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCT-ATCATGTTGCCATG
107292748 GTATCTTTCAACCATGGTCTTACTCA--T-T-TCATG-T--CA-G
1 GTATCTTTCAACCATGGTCTTACTCATTTCTATCATGTTGCCATG
* *
107292785 GT-TGCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATG
1 GTAT-CTTTCAACCATGGTCTTACTCATTTC-TATCATGTTGCCATG
* *
107292831 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTC-TATCATGTTGCCATG
* * *
107292877 GTATCTTTCATCCATGATCTTACACATT
1 GTATCTTTCAACCATGGTCTTACTCATT
107292905 CCATATCAGA
Statistics
Matches: 180, Mismatches: 12, Indels: 24
0.83 0.06 0.11
Matches are distributed among these distances:
36 1 0.01
37 23 0.13
38 2 0.01
39 1 0.01
40 1 0.01
41 6 0.03
42 4 0.02
43 2 0.01
44 1 0.01
45 2 0.01
46 98 0.54
47 39 0.22
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.42
Consensus pattern (45 bp):
GTATCTTTCAACCATGGTCTTACTCATTTCTATCATGTTGCCATG
Found at i:107292794 original size:37 final size:37
Alignment explanation
Indices: 107292752--107292872 Score: 125
Period size: 37 Copynumber: 3.0 Consensus size: 37
107292742 GCCATAGTAT
* *
107292752 CTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTG
1 CTTTCAACCATGGTCTTACTCATTTCATATCACGTTG
*
107292789 CTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGG
1 CTTTCAACCATGGTCTTACTCATTTCATATCACG-T----T-G
*
107292832 TATCTTTCAACCATGGTCTTACACATTTCATATCACGTTG
1 ---CTTTCAACCATGGTCTTACTCATTTCATATCACGTTG
107292872 C
1 C
107292873 CATGGTATCT
Statistics
Matches: 70, Mismatches: 5, Indels: 18
0.75 0.05 0.19
Matches are distributed among these distances:
37 32 0.46
38 1 0.01
40 1 0.01
41 1 0.01
42 1 0.01
43 1 0.01
45 1 0.01
46 32 0.46
ACGTcount: A:0.21, C:0.26, G:0.13, T:0.40
Consensus pattern (37 bp):
CTTTCAACCATGGTCTTACTCATTTCATATCACGTTG
Found at i:107292847 original size:83 final size:84
Alignment explanation
Indices: 107292705--107292872 Score: 259
Period size: 83 Copynumber: 2.0 Consensus size: 84
107292695 GCCATGGTAT
* *
107292705 CTTTCAACCATGGTCTTATTCATTTTCTCGTCATGTTGCCATAGTATCTTTCAACCATGGTCTTA
1 CTTTCAACCATGGTCTTATTCATTTTCTCATCACGTTGCCATAGTATCTTTCAACCATGGTCTTA
* * *
107292770 CTCATTTCATGTCAGGTTG
66 CACATTTCATATCACGTTG
*
107292789 CTTTCAACCATGGTCTTATTCA-TTTCAT-ATCACGTTGCCATGGTATCTTTCAACCATGGTCTT
1 CTTTCAACCATGGTCTTATTCATTTTC-TCATCACGTTGCCATAGTATCTTTCAACCATGGTCTT
107292852 ACACATTTCATATCACGTTG
65 ACACATTTCATATCACGTTG
107292872 C
1 C
107292873 CATGGTATCT
Statistics
Matches: 77, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
83 54 0.70
84 23 0.30
ACGTcount: A:0.21, C:0.25, G:0.13, T:0.41
Consensus pattern (84 bp):
CTTTCAACCATGGTCTTATTCATTTTCTCATCACGTTGCCATAGTATCTTTCAACCATGGTCTTA
CACATTTCATATCACGTTG
Found at i:107293304 original size:20 final size:20
Alignment explanation
Indices: 107293279--107293333 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
107293269 TGTGGTTCAA
*
107293279 CTCATTCGAGCTCAAGTTAG
1 CTCATTCGAGCTCAAGTCAG
*
107293299 CTCATTCGTGCTCAAGTCAG
1 CTCATTCGAGCTCAAGTCAG
*
107293319 CTCATTCAAGCTCAA
1 CTCATTCGAGCTCAA
107293334 TTTAACTCGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
CTCATTCGAGCTCAAGTCAG
Found at i:107293716 original size:45 final size:45
Alignment explanation
Indices: 107293669--107293859 Score: 292
Period size: 45 Copynumber: 4.2 Consensus size: 45
107293659 CGGCATGAAA
* *
107293669 TTAAGGAAGCATTTGACCAACATCATGCATAATTTATGGAACAAA
1 TTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAACAAT
* *
107293714 TTAAGGAAGCACTTGACCAACATCATGCATAATTCATGGAAGAAT
1 TTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAACAAT
* *
107293759 TTGAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAAT
1 TTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAACAAT
* * *
107293804 TTAAGGAAGCATTTGGCCAACATCATGCATAATTTAAGGAACAAT
1 TTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAACAAT
*
107293849 TTGAGGAAGCA
1 TTAAGGAAGCA
107293860 CCATGGCCGA
Statistics
Matches: 134, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 134 1.00
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.26
Consensus pattern (45 bp):
TTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAACAAT
Found at i:107301291 original size:22 final size:23
Alignment explanation
Indices: 107301266--107301310 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
107301256 GTTTATTTTC
107301266 TTAATTTAT-TAAATAATATATT
1 TTAATTTATATAAATAATATATT
* *
107301288 TTAATTTATATAATTGATATATT
1 TTAATTTATATAAATAATATATT
107301311 ATTCGGATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
TTAATTTATATAAATAATATATT
Found at i:107313019 original size:24 final size:24
Alignment explanation
Indices: 107312992--107313038 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
107312982 CTCCATTTTT
*
107312992 ATATCCATTTCTCTATTTTATTTC
1 ATATCCATTTATCTATTTTATTTC
***
107313016 ATATTGTTTTATCTATTTTATTT
1 ATATCCATTTATCTATTTTATTT
107313039 TTCATATTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.21, C:0.13, G:0.02, T:0.64
Consensus pattern (24 bp):
ATATCCATTTATCTATTTTATTTC
Found at i:107313411 original size:28 final size:28
Alignment explanation
Indices: 107313380--107313434 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
107313370 TTTAGATAAT
107313380 TTTATTTTCCAAATCAACCATATCTCTA
1 TTTATTTTCCAAATCAACCATATCTCTA
* *
107313408 TTTATTTTTCAAATCAACCATTTCTCT
1 TTTATTTTCCAAATCAACCATATCTCT
107313435 TCTTTCTCCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.47
Consensus pattern (28 bp):
TTTATTTTCCAAATCAACCATATCTCTA
Found at i:107313559 original size:29 final size:28
Alignment explanation
Indices: 107313443--107313566 Score: 96
Period size: 29 Copynumber: 4.5 Consensus size: 28
107313433 CTTCTTTCTC
* *
107313443 CCCTATTTTATTTTCCATATCAACCATTT
1 CCCTATTTTATTTTTCATAT-AACCGTTT
*
107313472 CTCTA-TTTATTTTTCATAT----GTTT
1 CCCTATTTTATTTTTCATATAACCGTTT
* *****
107313495 CCCTATTTTATTTTTCTTATTGTTTTTT
1 CCCTATTTTATTTTTCATATAACCGTTT
107313523 CCCGTATTTTATTTTTCATATCAACCGTTT
1 CCC-TATTTTATTTTTCATAT-AACCGTTT
*
107313553 CTCTATTTTATTTT
1 CCCTATTTTATTTT
107313567 CCACATTCTT
Statistics
Matches: 75, Mismatches: 13, Indels: 14
0.74 0.13 0.14
Matches are distributed among these distances:
23 7 0.09
24 13 0.17
28 19 0.25
29 31 0.41
30 5 0.07
ACGTcount: A:0.18, C:0.19, G:0.03, T:0.60
Consensus pattern (28 bp):
CCCTATTTTATTTTTCATATAACCGTTT
Found at i:107322538 original size:22 final size:23
Alignment explanation
Indices: 107322513--107322572 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
107322503 TGGACTGAAT
107322513 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
107322535 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
107322557 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
107322573 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:107322540 original size:4 final size:4
Alignment explanation
Indices: 107322522--107322555 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
107322512 TATAAAAATT
107322522 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
107322556 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:107323960 original size:23 final size:22
Alignment explanation
Indices: 107323909--107323960 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
107323899 CCTCGTCTTT
*
107323909 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
107323931 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
107323954 TTCTTTT
1 TTCTTTT
107323961 TCAAATTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:107323975 original size:18 final size:18
Alignment explanation
Indices: 107323954--107323992 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
107323944 TTTCTTCAAC
* *
107323954 TTCTTTTTCAAATTTCTT
1 TTCTGTTTCAAATTCCTT
*
107323972 TTCTGTTTCACATTCCTT
1 TTCTGTTTCAAATTCCTT
107323990 TTC
1 TTC
107323993 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCTGTTTCAAATTCCTT
Found at i:107326342 original size:22 final size:23
Alignment explanation
Indices: 107326317--107326376 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
107326307 TGGACTGAAT
107326317 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
107326339 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
107326361 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
107326377 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:107326344 original size:4 final size:4
Alignment explanation
Indices: 107326326--107326359 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
107326316 TATAAAAATT
107326326 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
107326360 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:107330526 original size:45 final size:45
Alignment explanation
Indices: 107330430--107330527 Score: 108
Period size: 45 Copynumber: 2.2 Consensus size: 45
107330420 TGGTGGCTAA
* ** * *
107330430 GATCTGCTCCATAGCCGATACATGGAGATAATACTCGCCATTTTT
1 GATCTGCTCCATAGCCGATACATGGAGATAAGACTCGAAATCTTC
* *
107330475 TATCTGCTCCATAGTCGATACATGGAGATAAGA-TCTGAAATCTTC
1 GATCTGCTCCATAGCCGATACATGGAGATAAGACTC-GAAATCTTC
*
107330520 GGTCTGCT
1 GATCTGCT
107330528 TCCTACAACT
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
44 2 0.05
45 41 0.95
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (45 bp):
GATCTGCTCCATAGCCGATACATGGAGATAAGACTCGAAATCTTC
Found at i:107330569 original size:176 final size:176
Alignment explanation
Indices: 107330230--107331165 Score: 1428
Period size: 176 Copynumber: 5.3 Consensus size: 176
107330220 CTCCGCTACC
* * *
107330230 TCAGAGAGATAAGGTCT-GT-GCTAAAATCTACTTCATAGCCGATACATGAAGATAAGACTCGCC
1 TCAGAGAGATAAGG-CTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCC
* *
107330293 ATTTTTGATCTGCTCCATAGTCGATACATGGAGATAAGATCTGAAATCTTCGGTCTGCTTCCCGC
65 ATTTTTGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGAAATCTTCGGTCTGCTTCCTGC
* *
107330358 AACTTCAGAAAGATAAGACCTGTATCTTTAACCTGCTCTCTGTAACT
130 AACTTCAGAAAGATAAGACCTGTATCTTCAACCTGCTCTCTGCAACT
* * *
107330405 TCAGAGAGATAAGCCTGGTGGCTAAGATCTGCTCCATAGCCGATACATGGAGATAATACTCGCCA
1 TCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCA
* * *
107330470 TTTTTTATCTGCTCCATAGTCGATACATGGAGATAAGATCTGAAATCTTCGGTCTGCTTCCTACA
66 TTTTTGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGAAATCTTCGGTCTGCTTCCTGCA
*
107330535 ACTTCAGAAAGATAAGACCTATATCTTCAACCTGCTCTCTGCAACT
131 ACTTCAGAAAGATAAGACCTGTATCTTCAACCTGCTCTCTGCAACT
* *
107330581 TCAGAGAGATAAGGCTGGTGACCAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCA
1 TCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCA
* * * * * * * *
107330646 CTTTCGATTTGATCCATAGCCGATACATGGAGATAAGATCAGTAATCTTCGATCTGCTTGCTGCA
66 TTTTTGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGAAATCTTCGGTCTGCTTCCTGCA
107330711 ACTTCAGAAAGATAAGACCTGTATCTTCAACCTGCTCTCTGCAACT
131 ACTTCAGAAAGATAAGACCTGTATCTTCAACCTGCTCTCTGCAACT
* * * *
107330757 TCAGAGAGATAAGACTAGTGGCTAAAATATGCTGCATAGCCGATACATGGAGATAAGACTCGCCA
1 TCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCA
107330822 TTTTTGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGAAATCTTCGGTCTGCTTCCTGCA
66 TTTTTGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGAAATCTTCGGTCTGCTTCCTGCA
107330887 ACTTCAGAAAGATAAGACCTGTATCTTCAACCTGCTCTCTGCAACT
131 ACTTCAGAAAGATAAGACCTGTATCTTCAACCTGCTCTCTGCAACT
* * * * *
107330933 TCAGAGAGATAAGGTTGGTGACCAAAATCTGCTCCATAACCGATACATAGAGATAAGACTCG-CA
1 TCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCA
* * * * * * *
107330997 CTTTCGATCTGCTCTATAACCGATACATGGAGATAAGATCAGTAATCTTCGATCTGCTTCCTGCA
66 TTTTTGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGAAATCTTCGGTCTGCTTCCTGCA
* *
107331062 ACTTCAGAAAGATAAGACCTGTATCTTCAACTTGCTCTCTGTAACT
131 ACTTCAGAAAGATAAGACCTGTATCTTCAACCTGCTCTCTGCAACT
* * * *
107331108 TCAGAGAGATAAAGCTGGTGGTTAAAACCTGCTGCATAGCCGATACATGGAGATAAGA
1 TCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGA
107331166 TCTGTAATCT
Statistics
Matches: 689, Mismatches: 70, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
174 2 0.00
175 168 0.24
176 519 0.75
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (176 bp):
TCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCA
TTTTTGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGAAATCTTCGGTCTGCTTCCTGCA
ACTTCAGAAAGATAAGACCTGTATCTTCAACCTGCTCTCTGCAACT
Found at i:107330746 original size:43 final size:44
Alignment explanation
Indices: 107330676--107330771 Score: 124
Period size: 43 Copynumber: 2.2 Consensus size: 44
107330666 CGATACATGG
* * *
107330676 AGATAAGATCAGTAATCTTCGATCTGCT-TGCTGCAACTTCAGAA
1 AGATAAGACCAGTAATCTTCAACCTGCTCT-CTGCAACTTCAGAA
* *
107330720 AGATAAGACCTGT-ATCTTCAACCTGCTCTCTGCAACTTCAGAG
1 AGATAAGACCAGTAATCTTCAACCTGCTCTCTGCAACTTCAGAA
107330763 AGATAAGAC
1 AGATAAGAC
107330772 TAGTGGCTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
43 34 0.74
44 12 0.26
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (44 bp):
AGATAAGACCAGTAATCTTCAACCTGCTCTCTGCAACTTCAGAA
Found at i:107330878 original size:45 final size:45
Alignment explanation
Indices: 107330786--107330879 Score: 118
Period size: 45 Copynumber: 2.1 Consensus size: 45
107330776 GGCTAAAATA
* ** * *
107330786 TGCTGCATAGCCGATACATGGAGATAAGACTCGCCATTTTTGATC
1 TGCTCCATAGCCGATACATGGAGATAAGACTCGAAATCTTCGATC
*
107330831 TGCTCCATAGCCGATACATGGAGATAAGA-TCTGAAATCTTCGGTC
1 TGCTCCATAGCCGATACATGGAGATAAGACTC-GAAATCTTCGATC
107330876 TGCT
1 TGCT
107330880 TCCTGCAACT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 2 0.05
45 40 0.95
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (45 bp):
TGCTCCATAGCCGATACATGGAGATAAGACTCGAAATCTTCGATC
Found at i:107332919 original size:90 final size:88
Alignment explanation
Indices: 107332765--107332968 Score: 218
Period size: 90 Copynumber: 2.3 Consensus size: 88
107332755 TGCAAAAAGT
* ** * *
107332765 CCTCAAACTTTTTCAAAAAAAGTAATTAAG--CC--TTTTTTTTTGCACTCATTTGGATACTTAA
1 CCTCAAAC-TTTTAAAAAAAAACAATTAAGTCCCTATTTTTTTTTGAACTCAATTGGATACTTAA
* * *
107332826 ACTTTCAAAATGGATTAAAAAGGC
65 ACTTTCAAAATGCATAAAAAAGAC
* * * *
107332850 CTTCAAGCCTTTTAAAAAAAAACAATTAAGTCCCTATTTTTGTTTTGAACTCAATTGGGTACTTG
1 CCTCAA-ACTTTTAAAAAAAAACAATTAAGTCCCTATTTTT-TTTTGAACTCAATTGGATACTTA
107332915 AACTTTCAAAATGCATAAAAAAGAC
64 AACTTTCAAAATGCATAAAAAAGAC
* **
107332940 CCTCAAATTTTTTCAAAAAAACAATTAAG
1 CCTCAAACTTTTAAAAAAAAACAATTAAG
107332969 CCCATGCTTT
Statistics
Matches: 96, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
85 23 0.24
86 1 0.01
87 2 0.02
89 24 0.25
90 46 0.48
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (88 bp):
CCTCAAACTTTTAAAAAAAAACAATTAAGTCCCTATTTTTTTTTGAACTCAATTGGATACTTAAA
CTTTCAAAATGCATAAAAAAGAC
Found at i:107333100 original size:37 final size:36
Alignment explanation
Indices: 107332984--107333101 Score: 103
Period size: 38 Copynumber: 3.2 Consensus size: 36
107332974 GCTTTTATTA
* * * *
107332984 AAAATTATAAAAAATTATAAAATCAATAAATGTTAT
1 AAAATTATAAAATATTATAAAATAAAAAAATCTTAT
* * * * *
107333020 AAATATTATTAAATTTTAATAAAAAAATAAAAATCGTAA
1 AAA-ATTATAAAATATT-ATAAAATAA-AAAAATCTTAT
107333059 AAAATTATAAAATATATATAAATATAAAAAAAT-TTAT
1 AAAATTATAAAATAT-TATAAA-ATAAAAAAATCTTAT
107333096 AAAATT
1 AAAATT
107333102 TTATAAATTC
Statistics
Matches: 63, Mismatches: 14, Indels: 9
0.73 0.16 0.10
Matches are distributed among these distances:
36 3 0.05
37 18 0.29
38 28 0.44
39 14 0.22
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (36 bp):
AAAATTATAAAATATTATAAAATAAAAAAATCTTAT
Found at i:107333124 original size:29 final size:28
Alignment explanation
Indices: 107333050--107333125 Score: 84
Period size: 28 Copynumber: 2.6 Consensus size: 28
107333040 AAAAAAATAA
107333050 AAATCGTAAAAAATTATAAAATATATAT
1 AAATCGTAAAAAATTATAAAATATATAT
* *
107333078 AAAT-ATAAAAAAATTTATAAAAT-TTTAT
1 AAATCGT-AAAAAA-TTATAAAATATATAT
107333106 AAATTCGTAAGAAAATTATA
1 AAA-TCGTAA-AAAATTATA
107333126 GAAAATGTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
27 1 0.03
28 17 0.43
29 17 0.43
30 5 0.12
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (28 bp):
AAATCGTAAAAAATTATAAAATATATAT
Found at i:107333379 original size:36 final size:35
Alignment explanation
Indices: 107333302--107333380 Score: 97
Period size: 35 Copynumber: 2.2 Consensus size: 35
107333292 TAGTGGTCGT
* * *
107333302 TAATTTTTTATGATTTTTATAAAATTTTACATTTT
1 TAATTTTTTACGATTTTTATAAAATTCTACATTTC
*
107333337 TTATTTTTTACGATTTTTATAAAAAATTCTA-ATTTC
1 TAATTTTTTACGATTTTTAT--AAAATTCTACATTTC
107333373 TAATTTTT
1 TAATTTTT
107333381 AATAAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
35 18 0.49
36 11 0.30
37 8 0.22
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.61
Consensus pattern (35 bp):
TAATTTTTTACGATTTTTATAAAATTCTACATTTC
Found at i:107333581 original size:88 final size:88
Alignment explanation
Indices: 107333476--107333661 Score: 288
Period size: 89 Copynumber: 2.1 Consensus size: 88
107333466 ATAAGAACAG
107333476 GGGCTTAATTG-TTTTTTTGAA-AAATTTTGAGGGCC-TTTTTGATGCATTTTGAAAGTTCAAGT
1 GGGCTTAATTGCTTTTTTTGAAGAAA-TTT-AGGGCCTTTTTTGATGCATTTTGAAAGTTCAAGT
*
107333538 ACCCAATTGAGTGGAAAAAAAAGCAA
64 ACCCAATTGAGTGCAAAAAAAAG-AA
*
107333564 GGGCTTAATTGCTTTTTTTGAAGAAATTTAGGGCCTTTTTTGATGCATTTTGAAAGTTCAAGTGC
1 GGGCTTAATTGCTTTTTTTGAAGAAATTTAGGGCCTTTTTTGATGCATTTTGAAAGTTCAAGTAC
* *
107333629 TCAATTGAGTGCAAAAAAAAGAG
66 CCAATTGAGTGCAAAAAAAAGAA
107333652 GGGCTTAATT
1 GGGCTTAATT
107333662 ATTTTGCTTT
Statistics
Matches: 91, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
88 28 0.31
89 60 0.66
90 3 0.03
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.36
Consensus pattern (88 bp):
GGGCTTAATTGCTTTTTTTGAAGAAATTTAGGGCCTTTTTTGATGCATTTTGAAAGTTCAAGTAC
CCAATTGAGTGCAAAAAAAAGAA
Found at i:107335538 original size:111 final size:112
Alignment explanation
Indices: 107335324--107335538 Score: 245
Period size: 111 Copynumber: 1.9 Consensus size: 112
107335314 CTAATTGAAA
* * * * * **
107335324 TTAGATGATGATGAAATTAAATTGGTTAGCTATAAAACTTAAAGTGTTTGTTTCACATTAGAATT
1 TTAGATAATAATGAAATTAAATTGGTTAACTATAAAACGTAAAGTGTTTGCTTCACATTAGAACA
* * * *
107335389 CTCCATCTAGGGTGGAAGAGTACAACTAGGGTGTAACCATGAAAGCG
66 CTCCATCCAGGGTGGAAGACTACAACTAGAGTGGAACCATGAAAGCG
* * **
107335436 TTAGATAATAATGAAATTAAATTGGTTAACTATAAAA-GTCATGTGTTTGCTTCATGTTAGAACA
1 TTAGATAATAATGAAATTAAATTGGTTAACTATAAAACGTAAAGTGTTTGCTTCACATTAGAACA
** *
107335500 CTCTGTCCAGGTTGGAACG-CTACAACTAGAGTGGAACCA
66 CTCCATCCAGGGTGGAA-GACTACAACTAGAGTGGAACCA
107335539 AGTTTTCATG
Statistics
Matches: 84, Mismatches: 18, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
111 49 0.58
112 35 0.42
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (112 bp):
TTAGATAATAATGAAATTAAATTGGTTAACTATAAAACGTAAAGTGTTTGCTTCACATTAGAACA
CTCCATCCAGGGTGGAAGACTACAACTAGAGTGGAACCATGAAAGCG
Found at i:107342125 original size:21 final size:21
Alignment explanation
Indices: 107342099--107342138 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
107342089 CTATTTGTAT
107342099 TTTTCA-TTATTATTACTATTA
1 TTTTCACTT-TTATTACTATTA
107342120 TTTTCACTTTTATTACTAT
1 TTTTCACTTTTATTACTAT
107342139 CACTATCATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.25, C:0.12, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTTCACTTTTATTACTATTA
Found at i:107356205 original size:16 final size:16
Alignment explanation
Indices: 107356172--107356205 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
107356162 AAACTCTGTT
* *
107356172 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
107356188 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
107356204 AA
1 AA
107356206 TACAAAGTGG
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:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:107359035 original size:21 final size:21
Alignment explanation
Indices: 107359009--107359049 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
107358999 AGACGAGCAA
* *
107359009 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
107359030 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
107359050 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:107360988 original size:16 final size:16
Alignment explanation
Indices: 107360955--107360988 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
107360945 GGAGATTGTT
* *
107360955 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
107360971 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
107360987 AA
1 AA
107360989 TACAAAGTGG
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:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:107379514 original size:31 final size:32
Alignment explanation
Indices: 107379443--107379515 Score: 87
Period size: 31 Copynumber: 2.3 Consensus size: 32
107379433 AAATTTTCAA
107379443 TTTAATCACT-ATCGTTTTAGATCGTTTCTAT
1 TTTAATCACTCATCGTTTTAGATCGTTTCTAT
** * *
107379474 TTTGGTCACTCAT-GTTTTAGATCGTTTTTGT
1 TTTAATCACTCATCGTTTTAGATCGTTTCTAT
*
107379505 TTTACTCACTC
1 TTTAATCACTC
107379516 TTTATTAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
31 33 0.94
32 2 0.06
ACGTcount: A:0.18, C:0.18, G:0.12, T:0.52
Consensus pattern (32 bp):
TTTAATCACTCATCGTTTTAGATCGTTTCTAT
Found at i:107379956 original size:25 final size:23
Alignment explanation
Indices: 107379914--107379964 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 23
107379904 GCCATAATCT
*
107379914 ATTTTTTATAAAAATATAAT-AAA
1 ATTTTTTAAAAAAATAT-ATGAAA
107379937 ATTTTTTAAAAGAAACTATATGAAA
1 ATTTTTTAAAA-AAA-TATATGAAA
107379962 ATT
1 ATT
107379965 ATATTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 10 0.42
24 5 0.21
25 9 0.38
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (23 bp):
ATTTTTTAAAAAAATATATGAAA
Found at i:107381636 original size:26 final size:29
Alignment explanation
Indices: 107381601--107381668 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 29
107381591 TTGGGTTCTT
*
107381601 TATTACTTATATTATCATTA-TTATCATT-
1 TATTA-TTATATTATCACTATTTATCATTG
*
107381629 T-TTATTAT-TGTATCACTATTTATTATTG
1 TATTATTATAT-TATCACTATTTATCATTG
107381657 TATTATTATATT
1 TATTATTATATT
107381669 CATTTTCTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
25 1 0.03
26 11 0.33
27 10 0.30
28 2 0.06
29 8 0.24
30 1 0.03
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.60
Consensus pattern (29 bp):
TATTATTATATTATCACTATTTATCATTG
Found at i:107382801 original size:27 final size:26
Alignment explanation
Indices: 107382755--107382806 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
107382745 TTGTTAAAGG
* *
107382755 TGATTTTTTTAGTTTCTTTCTTTTTT
1 TGATTTTGTTAGTTTCTTTCATTTTT
*
107382781 TGATTTTGTTATTATTCTTTCATTTT
1 TGATTTTGTTAGT-TTCTTTCATTTT
107382807 CTTCTTGCGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 11 0.50
27 11 0.50
ACGTcount: A:0.12, C:0.08, G:0.08, T:0.73
Consensus pattern (26 bp):
TGATTTTGTTAGTTTCTTTCATTTTT
Found at i:107383692 original size:25 final size:22
Alignment explanation
Indices: 107383638--107383692 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
107383628 TATTATTTTA
* *
107383638 TGTAAATATTTTCTAAATTTAT
1 TGTATATATTTTCTAAAATTAT
*
107383660 TGTGTATATTTTCTTTAAAATTAT
1 TGTATATATTTTC--TAAAATTAT
107383684 TCGTATATA
1 T-GTATATA
107383693 GCTTGGCTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 11 0.42
24 9 0.35
25 6 0.23
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (22 bp):
TGTATATATTTTCTAAAATTAT
Found at i:107386070 original size:266 final size:266
Alignment explanation
Indices: 107385596--107386127 Score: 983
Period size: 266 Copynumber: 2.0 Consensus size: 266
107385586 CGTGATAAGA
107385596 GAAGGATGATAGTTTAATGGAGGACCACACAACCATTGCTCCGTGGCCCGAGAATTTAATGTGAC
1 GAAGGATGATAGTTTAATGGAGGACCACACAACCATTGCTCCGTGGCCCGAGAATTTAATGTGAC
* *
107385661 AAGGATTATTTGAGAGCCGCTGAACTTTCTTAAAAGAGAAGCCAACGAGCACCATGAGGTTTAGT
66 AAGGATTATTCGAGAGCCGCTGAACTTTCTTAAAAGAGAAGCCAACGAGAACCATGAGGTTTAGT
*
107385726 GAGCAACGAGTCACGGCCCGGATTGAGTAAAAAGGAGATATAAGATACATCCCTTTTGAAGAGTT
131 AAGCAACGAGTCACGGCCCGGATTGAGTAAAAAGGAGATATAAGATACATCCCTTTTGAAGAGTT
*
107385791 CGTGAGACTTATCTTAACGCTCGAATGAAGAAAATGATAGAATGTCTCCGCATATGAGGGCAAAG
196 CGTGAGACTTATCTTAACGCTCGAACGAAGAAAATGATAGAATGTCTCCGCATATGAGGGCAAAG
107385856 CCGTAT
261 CCGTAT
107385862 GAAGGATGATAGTTTAATGGAGGACCACACAACCATTGCTCCGTGGCCCGAGAATTTAATGTGAC
1 GAAGGATGATAGTTTAATGGAGGACCACACAACCATTGCTCCGTGGCCCGAGAATTTAATGTGAC
107385927 AAGGATTATTCGAGAGCCGCTGAACTTTCTTAAAAGAGAAGCCAACGAGAACCATGAGGTTTAGT
66 AAGGATTATTCGAGAGCCGCTGAACTTTCTTAAAAGAGAAGCCAACGAGAACCATGAGGTTTAGT
*
107385992 AAGCAACGAGTCACGGCCCGGATTGAGTAAAAAGGAGATATAAGATACGTCCCTTTTGAAGAGTT
131 AAGCAACGAGTCACGGCCCGGATTGAGTAAAAAGGAGATATAAGATACATCCCTTTTGAAGAGTT
* * *
107386057 CGTGAGACTTATCTTAACGCTCGAACGAAGAAAATGATCGAATTTCTTCGCATATGAGGGCAAAG
196 CGTGAGACTTATCTTAACGCTCGAACGAAGAAAATGATAGAATGTCTCCGCATATGAGGGCAAAG
*
107386122 TCGTAT
261 CCGTAT
107386128 ATGTATCCGC
Statistics
Matches: 257, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
266 257 1.00
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.23
Consensus pattern (266 bp):
GAAGGATGATAGTTTAATGGAGGACCACACAACCATTGCTCCGTGGCCCGAGAATTTAATGTGAC
AAGGATTATTCGAGAGCCGCTGAACTTTCTTAAAAGAGAAGCCAACGAGAACCATGAGGTTTAGT
AAGCAACGAGTCACGGCCCGGATTGAGTAAAAAGGAGATATAAGATACATCCCTTTTGAAGAGTT
CGTGAGACTTATCTTAACGCTCGAACGAAGAAAATGATAGAATGTCTCCGCATATGAGGGCAAAG
CCGTAT
Found at i:107406371 original size:167 final size:173
Alignment explanation
Indices: 107406165--107406494 Score: 413
Period size: 182 Copynumber: 1.9 Consensus size: 173
107406155 ACTGAATTTC
* * *
107406165 CTTACTAGTGTCTACTTGTATCCTTAAATTGCTTTTGGA-T-T-TTC-TTTT-GTATGTTGATCC
1 CTTACTAGTGTCTACTTGTATCCTTAAATTGATTTTGGATTCTCTTCTTTTTGGTAGGCTGATCC
*
107406225 TTAATGTTGGGAGAT-TCATTCAATTCAAGAAGTGACTTGATTATATGATTATTCATCT-TAGAA
66 TTAATGTTGGGAGATGTCATTCAATTCAAGAAGTGACTTGACTATATGATTATTCAT-TATAGAA
*
107406288 CGATCCTTGACATTGCTGATTAGTCGTCATTTATGTCAAGTTTA
130 CGATCATTGACATTGCTGATTAGTCGTCATTTATGTCAAGTTTA
* *
107406332 CTTACTAGTGTCTACTTGTATCCTTGATTTGATTTTGGATTTTTTTTCTCCTTCTTTTTTTGGTA
1 CTTACTAGTGTCTACTTGTATCCTTAAATTGATTTTGGA------TTCT-CTTC--TTTTTGGTA
* *
107406397 GGCTGATCCTTAATGTTGGTAGATGTCATTCAATTCAAGTAGTGACTTGACTATATGATTATTCA
57 GGCTGATCCTTAATGTTGGGAGATGTCATTCAATTCAAGAAGTGACTTGACTATATGATTATTCA
* **
107406462 TTATAGAATGATCATTGGTATTGCTGATTAGTC
122 TTATAGAACGATCATTGACATTGCTGATTAGTC
107406495 AGTGGTTGTA
Statistics
Matches: 135, Mismatches: 12, Indels: 17
0.82 0.07 0.10
Matches are distributed among these distances:
167 36 0.27
174 1 0.01
175 1 0.01
177 3 0.02
180 4 0.03
181 25 0.19
182 65 0.48
ACGTcount: A:0.23, C:0.14, G:0.17, T:0.46
Consensus pattern (173 bp):
CTTACTAGTGTCTACTTGTATCCTTAAATTGATTTTGGATTCTCTTCTTTTTGGTAGGCTGATCC
TTAATGTTGGGAGATGTCATTCAATTCAAGAAGTGACTTGACTATATGATTATTCATTATAGAAC
GATCATTGACATTGCTGATTAGTCGTCATTTATGTCAAGTTTA
Found at i:107408655 original size:29 final size:29
Alignment explanation
Indices: 107408623--107408745 Score: 105
Period size: 29 Copynumber: 4.4 Consensus size: 29
107408613 AAGAATGTGG
107408623 AAAATAAAATAGAGAAACGGTTGATATGA
1 AAAATAAAATAGAGAAACGGTTGATATGA
* ***** *
107408652 AAAATAAAATACGGGAAA-AAACAATAAGA
1 AAAATAAAATA-GAGAAACGGTTGATATGA
*
107408681 AAAATAAAATAGGGAAAC-----ATATGA
1 AAAATAAAATAGAGAAACGGTTGATATGA
* *
107408705 AAAATAAAATAGAGAAATGGTTGATATGG
1 AAAATAAAATAGAGAAACGGTTGATATGA
107408734 AAAATAAAATAG
1 AAAATAAAATAG
107408746 GGGAGAAAGA
Statistics
Matches: 76, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
24 21 0.28
28 6 0.08
29 44 0.58
30 5 0.07
ACGTcount: A:0.61, C:0.03, G:0.18, T:0.18
Consensus pattern (29 bp):
AAAATAAAATAGAGAAACGGTTGATATGA
Found at i:107408706 original size:24 final size:25
Alignment explanation
Indices: 107408646--107408721 Score: 91
Period size: 24 Copynumber: 2.9 Consensus size: 25
107408636 GAAACGGTTG
107408646 ATATGAAAAATAAAATACGGGAAAAAACA
1 ATATGAAAAATAAAATA-GGG---AAACA
*
107408675 ATAAGAAAAATAAAATAGGGAAAC-
1 ATATGAAAAATAAAATAGGGAAACA
*
107408699 ATATGAAAAATAAAATAGAGAAA
1 ATATGAAAAATAAAATAGGGAAA
107408722 TGGTTGATAT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
24 21 0.48
25 4 0.09
28 3 0.07
29 16 0.36
ACGTcount: A:0.67, C:0.04, G:0.14, T:0.14
Consensus pattern (25 bp):
ATATGAAAAATAAAATAGGGAAACA
Found at i:107408798 original size:29 final size:29
Alignment explanation
Indices: 107408756--107408813 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
107408746 GGGAGAAAGA
107408756 AGAGAAATGGTTGATTTGAAAAATAAAAT
1 AGAGAAATGGTTGATTTGAAAAATAAAAT
* *
107408785 AGAGATATGGTTGATTTGGAAAATAAAAT
1 AGAGAAATGGTTGATTTGAAAAATAAAAT
107408814 TATCTAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.22, T:0.29
Consensus pattern (29 bp):
AGAGAAATGGTTGATTTGAAAAATAAAAT
Found at i:107432721 original size:22 final size:23
Alignment explanation
Indices: 107432696--107432747 Score: 70
Period size: 26 Copynumber: 2.2 Consensus size: 23
107432686 TTAGACGGGG
107432696 AGAT-CCTATACAAAAGAAGGAA
1 AGATACCTATACAAAAGAAGGAA
107432718 AGATCAAGCCTATACAAAAGAAGGAA
1 AGAT--A-CCTATACAAAAGAAGGAA
107432744 AGAT
1 AGAT
107432748 TAAGTACTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
22 4 0.15
26 22 0.85
ACGTcount: A:0.54, C:0.13, G:0.19, T:0.13
Consensus pattern (23 bp):
AGATACCTATACAAAAGAAGGAA
Found at i:107434245 original size:44 final size:43
Alignment explanation
Indices: 107434196--107434701 Score: 205
Period size: 44 Copynumber: 11.6 Consensus size: 43
107434186 ATTTACAGAT
*
107434196 CTTAACCTCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGC
1 CTTAACC-CCTAAGCAGTAGGGAAACAGATCGAAGATGAAGGGC
* * * * **
107434240 CTTAACCCCTAAGCAGTAGGGTAACAG-GCTGAAAATTACA-GAT
1 CTTAACCCCTAAGCAGTAGGGAAACAGATC-GAAGATGA-AGGGC
* *
107434283 CTTAACCCCCTAAGTAGTAGGGAAATAGATCGAAGATGAAGGGC
1 CTTAA-CCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGGGC
* * * * **
107434327 CTTAACCCCTAAGCAGTAGGGTAACAG-GCTGAAAATTACA-GAT
1 CTTAACCCCTAAGCAGTAGGGAAACAGATC-GAAGATGA-AGGGC
** * * * *
107434370 CTTGTCTCCCTAAACAGTAGTGG-AGCAGATTGAAGACGAAGGGC
1 CTTAAC-CCCTAAGCAGTAG-GGAAACAGATCGAAGATGAAGGGC
* * * * * ***
107434414 CTTAAACCCCTAAACAGTA-GGATAATAG-GCTGAA-TTTACA-AAT
1 CTT-AACCCCTAAGCAGTAGGGA-AACAGATC-GAAGATGA-AGGGC
* *
107434457 CTTAACCCCCTAAGTAGTA-GGAAACAGATCGAAGACGAAGGGC
1 CTTAA-CCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGGGC
* * * * * * **
107434500 CTTAACCCCTAAGCAATAGGGTAACAG-GCTAAAAATTACA-GAT
1 CTTAACCCCTAAGCAGTAGGGAAACAGATC-GAAGATGA-AGGGC
** * * *
107434543 CTTGTCTCCCTAAGCAGTAGGGAAACAGATCAAAGGTGACGGGC
1 CTTAAC-CCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGGGC
* * * * * **
107434587 CTTAAACCCCTAAGCAGTAGGGTAACAG-GCTAA-ATTTACGGAT
1 CTT-AACCCCTAAGCAGTAGGGAAACAGATCGAAGA-TGAAGGGC
* * ** *
107434630 CTTAACCCCCTATGCAGTAGGGAAACAGATTGAAGGCGATA-GAC
1 CTTAA-CCCCTAAGCAGTAGGGAAACAGATCGAAGATGA-AGGGC
*
107434674 CTTAAACCCCTAAGCAGTAGGGTAACAG
1 CTT-AACCCCTAAGCAGTAGGGAAACAG
107434702 GTTGAATTAC
Statistics
Matches: 331, Mismatches: 98, Indels: 66
0.67 0.20 0.13
Matches are distributed among these distances:
42 28 0.08
43 134 0.40
44 161 0.49
45 8 0.02
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.19
Consensus pattern (43 bp):
CTTAACCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGGGC
Found at i:107434334 original size:87 final size:88
Alignment explanation
Indices: 107434188--107434718 Score: 686
Period size: 87 Copynumber: 6.1 Consensus size: 88
107434178 ATCGGTGAAT
*
107434188 TTACAGATCTTAACCTCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTT-AACCCCTAA
1 TTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAAACCCCTAA
107434252 GCAGTAGGGTAACAGGCTGAAAA
66 GCAGTAGGGTAACAGGCTGAAAA
* * *
107434275 TTACAGATCTTAACCCCCTAAGTAGTAGGGAAATAGATCGAAGATGAAGGGCCTT-AACCCCTAA
1 TTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAAACCCCTAA
107434339 GCAGTAGGGTAACAGGCTGAAAA
66 GCAGTAGGGTAACAGGCTGAAAA
** * * * *
107434362 TTACAGATCTTGTCTCCCTAAACAGTAGTGG-AGCAGATTGAAGACGAAGGGCCTTAAACCCCTA
1 TTACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCGAAGACGAAGGGCCTTAAACCCCTA
* * * *
107434426 AACAGTAGGATAATAGGCTG-AAT
65 AGCAGTAGGGTAACAGGCTGAAAA
* *
107434449 TTACAAATCTTAACCCCCTAAGTAGTA-GGAAACAGATCGAAGACGAAGGGCCTT-AACCCCTAA
1 TTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAAACCCCTAA
* *
107434512 GCAATAGGGTAACAGGCTAAAAA
66 GCAGTAGGGTAACAGGCTGAAAA
** * * ** *
107434535 TTACAGATCTTGTCTCCCTAAGCAGTAGGGAAACAGATCAAAGGTGACGGGCCTTAAACCCCTAA
1 TTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAAACCCCTAA
*
107434600 GCAGTAGGGTAACAGGCT-AAAT
66 GCAGTAGGGTAACAGGCTGAAAA
* * * * *
107434622 TTACGGATCTTAACCCCCTATGCAGTAGGGAAACAGATTGAAGGCGATA-GACCTTAAACCCCTA
1 TTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGA-AGGGCCTTAAACCCCTA
*
107434686 AGCAGTAGGGTAACAGGTTG--AA
65 AGCAGTAGGGTAACAGGCTGAAAA
107434708 TTACAGATCTT
1 TTACAGATCTT
107434719 GTCTCCTTAT
Statistics
Matches: 381, Mismatches: 55, Indels: 17
0.84 0.12 0.04
Matches are distributed among these distances:
85 25 0.07
86 57 0.15
87 246 0.65
88 53 0.14
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (88 bp):
TTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAAACCCCTAA
GCAGTAGGGTAACAGGCTGAAAA
Found at i:107434537 original size:173 final size:173
Alignment explanation
Indices: 107434204--107434724 Score: 737
Period size: 173 Copynumber: 3.0 Consensus size: 173
107434194 ATCTTAACCT
107434204 CCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTT-AACCCCTAAGCAGTAGGGTAACAGG
1 CCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGG
* * *
107434268 CTGAAAATTACAGATCTTAACCCCCTAAGTAGTAGGGAAATAGATCGAAGATGAAGGGCCTTAAC
66 CTG-AATTTACAGATCTTAACCCCCTAAGTAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAAC
107434333 CCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTGTCTC
130 CCCTAAGCAGTAGGGTAACAGGCT-AAAATTACAGATCTTGTCTC
* * * * * *
107434378 CCTAAACAGTAGTGG-AGCAGATTGAAGACGAAGGGCCTTAAACCCCTAAACAGTAGGATAATAG
1 CCTAAGCAGTAG-GGAAACAGATCGAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAG
*
107434442 GCTGAATTTACAAATCTTAACCCCCTAAGTAGTA-GGAAACAGATCGAAGACGAAGGGCCTTAAC
65 GCTGAATTTACAGATCTTAACCCCCTAAGTAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAAC
*
107434506 CCCTAAGCAATAGGGTAACAGGCTAAAAATTACAGATCTTGTCTC
130 CCCTAAGCAGTAGGGTAACAGGCT-AAAATTACAGATCTTGTCTC
* ** *
107434551 CCTAAGCAGTAGGGAAACAGATCAAAGGTGACGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGG
1 CCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGG
* * * * * * *
107434616 CTAAATTTACGGATCTTAACCCCCTATGCAGTAGGGAAACAGATTGAAGGCGATA-GACCTTAAA
66 CTGAATTTACAGATCTTAACCCCCTAAGTAGTAGGGAAACAGATCGAAGACGA-AGGGCCTT-AA
**
107434680 CCCCTAAGCAGTAGGGTAACAGG-TTGAATTACAGATCTTGTCTC
129 CCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAGATCTTGTCTC
107434724 C
1 C
107434725 TTATGTAGTA
Statistics
Matches: 308, Mismatches: 33, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
172 2 0.01
173 170 0.55
174 84 0.27
175 52 0.17
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (173 bp):
CCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGG
CTGAATTTACAGATCTTAACCCCCTAAGTAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAACC
CCTAAGCAGTAGGGTAACAGGCTAAAATTACAGATCTTGTCTC
Found at i:107434661 original size:260 final size:261
Alignment explanation
Indices: 107434183--107434718 Score: 767
Period size: 260 Copynumber: 2.1 Consensus size: 261
107434173 CCAAGATCGG
*
107434183 TGAATTTACAGATCTTAACCTCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAACCC
1 TGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAACCC
* * * *
107434248 CTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTAACCCCCTAAGTAGTAGGGAAATAGAT
66 CTAAGCAATAGGGTAACAGGCTAAAAATTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGAT
* ** *
107434313 CGAAGATGAAGGGCCTTAACCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTGTCTC
131 CAAAGATGAAGGGCCTTAACCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTAACCC
* * *
107434378 CCTAAACAGTAGTGGAGCAGATTGAAGACGA-AGGGCCTTAAACCCCTAAACAGTAGGATAATAG
196 CCTAAACAGTAGTGGAACAGATTGAAGACGATA-GACCTTAAACCCCTAAACAGTAGGATAACAG
107434442 GC
260 GC
* *
107434444 TGAATTTACAAATCTTAACCCCCTAAGTAGTA-GGAAACAGATCGAAGACGAAGGGCCTTAACCC
1 TGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAACCC
** *
107434508 CTAAGCAATAGGGTAACAGGCTAAAAATTACAGATCTTGTCTCCCTAAGCAGTAGGGAAACAGAT
66 CTAAGCAATAGGGTAACAGGCTAAAAATTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGAT
* * * *
107434573 CAAAGGTGACGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCT-AAATTTACGGATCTTAACC
131 CAAAGATGAAGGGCCTT-AACCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTAACC
** * * *
107434637 CCCTATGCAGTAG-GGAAACAGATTGAAGGCGATAGACCTTAAACCCCTAAGCAGTAGGGTAACA
195 CCCTAAACAGTAGTGG-AACAGATTGAAGACGATAGACCTTAAACCCCTAAACAGTAGGATAACA
*
107434701 GGT
259 GGC
107434704 TGAA-TTACAGATCTT
1 TGAATTTACAGATCTT
107434719 GTCTCCTTAT
Statistics
Matches: 244, Mismatches: 28, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
259 12 0.05
260 175 0.72
261 57 0.23
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.21
Consensus pattern (261 bp):
TGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAACCC
CTAAGCAATAGGGTAACAGGCTAAAAATTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGAT
CAAAGATGAAGGGCCTTAACCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTAACCC
CCTAAACAGTAGTGGAACAGATTGAAGACGATAGACCTTAAACCCCTAAACAGTAGGATAACAGG
C
Found at i:107434963 original size:88 final size:88
Alignment explanation
Indices: 107434788--107434956 Score: 223
Period size: 88 Copynumber: 1.9 Consensus size: 88
107434778 GGCTAGAATC
* * * * *
107434788 TACAAATCTCTTCTCCTTGAAGTGGCACTGGAGAGGCTCAAAGCCACCATTCGTATCTCCTTGAA
1 TACAAATCTCTTCTCCTTGAAATAGCACTAGAGAGGCTCAAAGCCACAATTCGTAGCTCCTTGAA
*
107434853 GTTCTAGCGGAGTAGATCGAAGT
66 GTTCTAGCGGAATAGATCGAAGT
* * ** *
107434876 TACAAATTTCTTCTTCC-TGAAATAGCACTAGAGAGGTTTGAAGCCACAATTCGTAGCTCTTTGA
1 TACAAATCTCTTC-TCCTTGAAATAGCACTAGAGAGGCTCAAAGCCACAATTCGTAGCTCCTTGA
107434940 AGTTCTAGCGGAATAGA
65 AGTTCTAGCGGAATAGA
107434957 GTGAAGTCAC
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
88 66 0.96
89 3 0.04
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (88 bp):
TACAAATCTCTTCTCCTTGAAATAGCACTAGAGAGGCTCAAAGCCACAATTCGTAGCTCCTTGAA
GTTCTAGCGGAATAGATCGAAGT
Found at i:107440389 original size:3 final size:3
Alignment explanation
Indices: 107440375--107440594 Score: 76
Period size: 3 Copynumber: 73.0 Consensus size: 3
107440365 ACAACACAAA
* * * ** *
107440375 AAT AAC AAT AAT AAT GAA- AAC GAT AAT AAT AAT AAT AAT GTT GAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* ** ** * *
107440420 AAT AAT AAT AGT GGT GGT AA- AAC AAT AAT ATT AAT AAT AAT AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * *
107440466 AAGT AGT AAT AAG AGT ATT AAT ATT TAT ATT AAT AAT AAT GAT AAT
1 AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * **
107440512 AGT AAT AGT AAT AA- AAGT GAA- AAT AAT AGT AAT AAT AAT GGT AAAT
1 AAT AAT AAT AAT AAT AA-T -AAT AAT AAT AAT AAT AAT AAT AAT -AAT
*
107440558 ACA- AAT AAT AAT AAC AAT AAT ACA- AAT AAT AAGT AAT
1 A-AT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AA-T AAT
107440595 CTAAAGTTTA
Statistics
Matches: 159, Mismatches: 43, Indels: 30
0.69 0.19 0.13
Matches are distributed among these distances:
2 12 0.08
3 136 0.86
4 9 0.06
5 2 0.01
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:107440765 original size:3 final size:3
Alignment explanation
Indices: 107440759--107441071 Score: 90
Period size: 3 Copynumber: 105.3 Consensus size: 3
107440749 AAAGGAAAAT
* * * * *
107440759 ATA ATA ACA ATA ATA GTA A-A AGA TATA ATA A-C ATA ATA AT- ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA
* * * * * ** * *
107440802 ATA GTA ATA GTA ACA AT- ATA ACA ATA ATA GTA ACG ATA GTA ATA AAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
107440849 ATA AT- ATA TTAA ATA ATA GTA ATA AAA ATA GTG CTA ATA GTA ATA
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*** * *
107440894 ATA GGG ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATAA ATA AGA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
* * * * * * *
107440940 ATA CTA AT- CTA TTA AGTT ACA ATGA A-A ATA ATA ATA ATG ATG AT-
1 ATA ATA ATA ATA ATA A-TA ATA AT-A ATA ATA ATA ATA ATA ATA ATA
* * * *
107440984 ATA TTAA ATA ATA ATA GTA A-A ATA ATA AGTA ACA ATA ATA A-A GT-
1 ATA AT-A ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA
* * * * * *
107441028 ATA ATA ATA GTG ATG AGA ATA ATA ACA AGTG ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA A
107441072 CAGTAACAAT
Statistics
Matches: 216, Mismatches: 75, Indels: 38
0.66 0.23 0.12
Matches are distributed among these distances:
2 18 0.08
3 181 0.84
4 17 0.08
ACGTcount: A:0.58, C:0.04, G:0.10, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:107440768 original size:22 final size:24
Alignment explanation
Indices: 107440743--107440791 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
107440733 ATAAGTAAAT
*
107440743 ACAAAAAAAG-GAAA-ATATAATA
1 ACAAAAAAAGTAAAAGATATAATA
* *
107440765 ACAATAATAGTAAAAGATATAATA
1 ACAAAAAAAGTAAAAGATATAATA
107440789 ACA
1 ACA
107440792 TAATAATATG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 8 0.36
23 3 0.14
24 11 0.50
ACGTcount: A:0.67, C:0.06, G:0.08, T:0.18
Consensus pattern (24 bp):
ACAAAAAAAGTAAAAGATATAATA
Found at i:107440829 original size:20 final size:20
Alignment explanation
Indices: 107440762--107440835 Score: 64
Period size: 20 Copynumber: 3.9 Consensus size: 20
107440752 GGAAAATATA
*
107440762 ATAACAATAATAGTAA-AAG
1 ATAACAATAATAGTAACAAT
* * *
107440781 AT-ATAATAACA-TAATAAT
1 ATAACAATAATAGTAACAAT
* * *
107440799 ATGATAGTAATAGTAACAAT
1 ATAACAATAATAGTAACAAT
107440819 ATAACAATAATAGTAAC
1 ATAACAATAATAGTAAC
107440836 GATAGTAATA
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
17 3 0.07
18 11 0.26
19 9 0.21
20 20 0.47
ACGTcount: A:0.58, C:0.07, G:0.08, T:0.27
Consensus pattern (20 bp):
ATAACAATAATAGTAACAAT
Done.