Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 324 of 378
Found at i:98505611 original size:53 final size:54
Alignment explanation
Indices: 98505483--98505625 Score: 261
Period size: 54 Copynumber: 2.7 Consensus size: 54
98505473 GTGACGAAGT
98505483 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
98505537 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGT-GCAGAGC
1 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* *
98505590 CACCAGATCAGATATTTGTGGCATAGCCACCAGAAC
1 CACCAGATCAGATAATCGTGGCATAGCCACCAGAAC
98505626 GCTTCCTCCA
Statistics
Matches: 87, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
53 41 0.47
54 46 0.53
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:98505745 original size:24 final size:25
Alignment explanation
Indices: 98505718--98505771 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 25
98505708 TTTCAGTCAA
*
98505718 AATTAAC-CCTAGGGGTATAACGGT
1 AATTAACACCTAGGGGTATAACAGT
**
98505742 AATTTTGCACCTAGGGGTATAACAGT
1 AA-TTAACACCTAGGGGTATAACAGT
98505768 AATT
1 AATT
98505772 TTCCATACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 2 0.08
25 5 0.20
26 18 0.72
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (25 bp):
AATTAACACCTAGGGGTATAACAGT
Found at i:98507308 original size:25 final size:26
Alignment explanation
Indices: 98507214--98507322 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
98507204 CATGAAATTC
98507214 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
98507240 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
98507266 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
98507292 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
98507317 TTATCA
1 TTATCA
98507323 ATTTGTACCA
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
25 23 0.28
26 58 0.72
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:98511300 original size:27 final size:27
Alignment explanation
Indices: 98511262--98511379 Score: 175
Period size: 27 Copynumber: 4.3 Consensus size: 27
98511252 GTGACGAAGT
98511262 CACCAGATACAGATA-ATCGTGGCAGAGC
1 CACCAGA-ACAGATATAT-GTGGCAGAGC
98511290 CACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAACAGATATATGTGGCAGAGC
*
98511317 CACCAGATCAGATATATGTGGCAGAGC
1 CACCAGAACAGATATATGTGGCAGAGC
* * *
98511344 CACCAGATCAGATATTTGTGGCATAGC
1 CACCAGAACAGATATATGTGGCAGAGC
98511371 CACCAGAAC
1 CACCAGAAC
98511380 GCTTCCTCCA
Statistics
Matches: 85, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
27 76 0.89
28 9 0.11
ACGTcount: A:0.35, C:0.25, G:0.24, T:0.17
Consensus pattern (27 bp):
CACCAGAACAGATATATGTGGCAGAGC
Found at i:98513029 original size:26 final size:26
Alignment explanation
Indices: 98512993--98513100 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
98512983 CATGAAATTC
98512993 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
98513019 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
98513045 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
98513071 TTATCAT--AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
98513095 TTATCA
1 TTATCA
98513101 ATTTGTACCA
Statistics
Matches: 80, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
24 23 0.29
26 57 0.71
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:98515141 original size:25 final size:26
Alignment explanation
Indices: 98515104--98515155 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
98515094 TCAAACATGC
98515104 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* * *
98515130 ATTTCGGT-AATTTATCTCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
98515155 A
1 A
98515156 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:98516672 original size:26 final size:25
Alignment explanation
Indices: 98516636--98516765 Score: 196
Period size: 26 Copynumber: 5.2 Consensus size: 25
98516626 CATGAAATTC
98516636 TTATCATGAAACATTTACCTAACCCA
1 TTATCATG-AACATTTACCTAACCCA
98516662 TTATCATGAAACATTTACCTAA--CA
1 TTATCATG-AACATTTACCTAACCCA
98516686 TTATCAT-AACATTTACCTAACCCA
1 TTATCATGAACATTTACCTAACCCA
98516710 TTATCATGAACATTTACCTAA-CCA
1 TTATCATGAACATTTACCTAACCCA
*
98516734 TTATCATGGAACATTTACCTAACCTA
1 TTATCAT-GAACATTTACCTAACCCA
98516760 TTATCA
1 TTATCA
98516766 ATTTGTATCA
Statistics
Matches: 98, Mismatches: 1, Indels: 10
0.90 0.01 0.09
Matches are distributed among these distances:
22 13 0.13
24 28 0.29
25 27 0.28
26 30 0.31
ACGTcount: A:0.38, C:0.25, G:0.04, T:0.34
Consensus pattern (25 bp):
TTATCATGAACATTTACCTAACCCA
Found at i:98516709 original size:48 final size:49
Alignment explanation
Indices: 98516636--98516765 Score: 210
Period size: 48 Copynumber: 2.6 Consensus size: 49
98516626 CATGAAATTC
98516636 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAA-CA
1 TTATCATG-AACATTTACCTAACCCATTATCATG-AACATTTACCTAACCA
98516686 TTATCAT-AACATTTACCTAACCCATTATCATGAACATTTACCTAACCA
1 TTATCATGAACATTTACCTAACCCATTATCATGAACATTTACCTAACCA
*
98516734 TTATCATGGAACATTTACCTAACCTATTATCA
1 TTATCAT-GAACATTTACCTAACCCATTATCA
98516766 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 1, Indels: 6
0.92 0.01 0.07
Matches are distributed among these distances:
47 13 0.17
48 34 0.45
50 29 0.38
ACGTcount: A:0.38, C:0.25, G:0.04, T:0.34
Consensus pattern (49 bp):
TTATCATGAACATTTACCTAACCCATTATCATGAACATTTACCTAACCA
Found at i:98520081 original size:18 final size:18
Alignment explanation
Indices: 98520053--98520099 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
98520043 ATTAAGTCAT
98520053 TTTTAGGAAAAGTGATTAA
1 TTTT-GGAAAAGTGATTAA
98520072 TTTTGGAAAAGTGATTAA
1 TTTTGGAAAAGTGATTAA
98520090 TTTTGGAAAA
1 TTTTGGAAAA
98520100 TACTTTCATT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.40, C:0.00, G:0.21, T:0.38
Consensus pattern (18 bp):
TTTTGGAAAAGTGATTAA
Found at i:98520915 original size:25 final size:26
Alignment explanation
Indices: 98520878--98520926 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
98520868 TCAAACATGC
98520878 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* * *
98520904 ATTTCGGT-AATTTATCTCTAGGG
1 ATTTAGGTCAATTTAACCCTAGGG
98520927 TAAAACTGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 13 0.65
26 7 0.35
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.39
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:98522486 original size:23 final size:24
Alignment explanation
Indices: 98522408--98522534 Score: 197
Period size: 23 Copynumber: 5.2 Consensus size: 24
98522398 CATGAAATTC
98522408 TTATCATGAAACATTTACCTAACCCA
1 TTATCATG-AACATTTACCTAA-CCA
98522434 TTATCATGAAACATTTACCTAA-CA
1 TTATCATG-AACATTTACCTAACCA
98522458 TTATCAT-AACATTTACCTAACCA
1 TTATCATGAACATTTACCTAACCA
98522481 TTATCATGAA-ATTTACCTAACCA
1 TTATCATGAACATTTACCTAACCA
98522504 TTATCATGAACATTTACCTAACCTA
1 TTATCATGAACATTTACCTAACC-A
98522529 TTATCA
1 TTATCA
98522535 ATTTGTATCA
Statistics
Matches: 97, Mismatches: 0, Indels: 9
0.92 0.00 0.08
Matches are distributed among these distances:
22 13 0.13
23 32 0.33
24 23 0.24
25 7 0.07
26 22 0.23
ACGTcount: A:0.39, C:0.24, G:0.03, T:0.35
Consensus pattern (24 bp):
TTATCATGAACATTTACCTAACCA
Found at i:98522516 original size:47 final size:48
Alignment explanation
Indices: 98522408--98522534 Score: 197
Period size: 47 Copynumber: 2.6 Consensus size: 48
98522398 CATGAAATTC
98522408 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACA
1 TTATCATG-AACATTTACCTAA-CCATTATCATGAAACATTTACCTAACA
98522458 TTATCAT-AACATTTACCTAACCATTATCATG-AA-ATTTACCTAACCA
1 TTATCATGAACATTTACCTAACCATTATCATGAAACATTTACCTAA-CA
98522504 TTATCATGAACATTTACCTAACCTATTATCA
1 TTATCATGAACATTTACCTAACC-ATTATCA
98522535 ATTTGTATCA
Statistics
Matches: 74, Mismatches: 0, Indels: 8
0.90 0.00 0.10
Matches are distributed among these distances:
45 10 0.14
46 11 0.15
47 26 0.35
48 20 0.27
50 7 0.09
ACGTcount: A:0.39, C:0.24, G:0.03, T:0.35
Consensus pattern (48 bp):
TTATCATGAACATTTACCTAACCATTATCATGAAACATTTACCTAACA
Found at i:98523168 original size:39 final size:39
Alignment explanation
Indices: 98523114--98523196 Score: 139
Period size: 39 Copynumber: 2.1 Consensus size: 39
98523104 ATAGAGAGAT
* *
98523114 TATTTACACAACTTCCAAAATAACGATTGTGCCATTTTC
1 TATTTACAAAACTTCCAAAATAACAATTGTGCCATTTTC
*
98523153 TATTTACAAAACTTCCAGAATAACAATTGTGCCATTTTC
1 TATTTACAAAACTTCCAAAATAACAATTGTGCCATTTTC
98523192 TATTT
1 TATTT
98523197 GAGAAGAGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.34, C:0.20, G:0.07, T:0.39
Consensus pattern (39 bp):
TATTTACAAAACTTCCAAAATAACAATTGTGCCATTTTC
Found at i:98524727 original size:18 final size:19
Alignment explanation
Indices: 98524706--98524757 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
98524696 TAAAATAATC
98524706 TTAAAAAACTAAAAAT-TA
1 TTAAAAAACTAAAAATATA
*
98524724 TTAAAAATCTTAAAAATATA
1 TTAAAAAAC-TAAAAATATA
*
98524744 TAAAAAATACTAAA
1 TTAAAAA-ACTAAA
98524758 TGATAATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 8 0.29
19 7 0.25
20 12 0.43
21 1 0.04
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (19 bp):
TTAAAAAACTAAAAATATA
Found at i:98524730 original size:19 final size:18
Alignment explanation
Indices: 98524707--98524750 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
98524697 AAAATAATCT
98524707 TAAAAAACTAAAAAT-TA
1 TAAAAAACTAAAAATATA
*
98524724 TTAAAAATCTTAAAAATATA
1 -TAAAAAAC-TAAAAATATA
98524744 TAAAAAA
1 TAAAAAA
98524751 TACTAAATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 7 0.32
19 13 0.59
20 2 0.09
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (18 bp):
TAAAAAACTAAAAATATA
Found at i:98524779 original size:21 final size:22
Alignment explanation
Indices: 98524746--98524787 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
98524736 AAAATATATA
* *
98524746 AAAAATACTAAATGATAATTTT
1 AAAAATACAAAATGAAAATTTT
98524768 AAAAAT-CAAAATGAAAATTT
1 AAAAATACAAAATGAAAATTT
98524788 GAGGACTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.31
Consensus pattern (22 bp):
AAAAATACAAAATGAAAATTTT
Found at i:98531269 original size:17 final size:17
Alignment explanation
Indices: 98531230--98531269 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
98531220 ACATCTTCTC
98531230 TTCTTTCT-TTTT-TTA
1 TTCTTTCTCTTTTATTA
98531245 TTCTTTCTCTTTTATT-
1 TTCTTTCTCTTTTATTA
98531261 TTCTATTCT
1 TTCT-TTCT
98531270 AATTGTATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 8 0.36
16 8 0.36
17 6 0.27
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.75
Consensus pattern (17 bp):
TTCTTTCTCTTTTATTA
Found at i:98539068 original size:25 final size:26
Alignment explanation
Indices: 98539031--98539082 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
98539021 TCCAACATGC
98539031 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* * *
98539057 ATTTCGGT-AATTTATCTCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
98539082 A
1 A
98539083 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:98549820 original size:14 final size:14
Alignment explanation
Indices: 98549801--98549830 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
98549791 GATTTTATTC
98549801 AACAATAGATCCAT
1 AACAATAGATCCAT
98549815 AACAATAGATCCAT
1 AACAATAGATCCAT
98549829 AA
1 AA
98549831 TTTTATTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.20, G:0.07, T:0.20
Consensus pattern (14 bp):
AACAATAGATCCAT
Found at i:98550991 original size:25 final size:25
Alignment explanation
Indices: 98550963--98551032 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
98550953 CTCTTTTAAT
*
98550963 AACTGGGGTAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
98550988 AACTGGGGCAAAGCCCTATTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
98551013 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
98551033 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:98551502 original size:136 final size:136
Alignment explanation
Indices: 98551253--98551522 Score: 396
Period size: 136 Copynumber: 2.0 Consensus size: 136
98551243 TACCCCAAAA
* ** *
98551253 GGGTATCTCGGTAATTCTACCTTACAAGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCAG
1 GGGTATCTCGGTAATTCTACCCTACAAGGGTATTCCAGTAATTCTACCCTACAGGGGTATTTCAA
* * *
98551318 TAATTCTACCCTACAGGGGTATTTCAGTAATTTTACCCCATAGGGGTATTTCAATAATTCTACCC
66 TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCCACAGAGGTATTTCAATAATTCTACCC
98551383 TACAAT
131 TACAAT
* * *
98551389 GGGTATTTCGGTATTTCTACCCTACAAGGGTATTCCGGTAATTCTACCCTACAGGGGTATTTCAA
1 GGGTATCTCGGTAATTCTACCCTACAAGGGTATTCCAGTAATTCTACCCTACAGGGGTATTTCAA
** ** **
98551454 TAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCTTACAGAGGTATTTCGGTAATTCTACCC
66 TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCCACAGAGGTATTTCAATAATTCTACCC
98551519 TACA
131 TACA
98551523 GGAGTATTTT
Statistics
Matches: 118, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
136 118 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (136 bp):
GGGTATCTCGGTAATTCTACCCTACAAGGGTATTCCAGTAATTCTACCCTACAGGGGTATTTCAA
TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCCACAGAGGTATTTCAATAATTCTACCC
TACAAT
Found at i:98551539 original size:27 final size:27
Alignment explanation
Indices: 98551253--98551531 Score: 351
Period size: 27 Copynumber: 10.3 Consensus size: 27
98551243 TACCCCAAAA
* * * *
98551253 GGGTATCTCGGTAATTCTACCTTACAA
1 GGGTATTTCAGTAATTCTACCCTACAG
*
98551280 GGGTATTTTAGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
98551307 GGGTATTTCAGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* * *
98551334 GGGTATTTCAGTAATTTTACCCCATAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
98551361 GGGTATTTCAATAATTCTACCCTACAAT
1 GGGTATTTCAGTAATTCTACCCTAC-AG
* * *
98551389 GGGTATTTCGGTATTTCTACCCTACAA
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
98551416 GGGTATTCCGGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
*
98551443 GGGTATTTCAATAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
** *
98551470 GGGTATTTTGGTAATTCTACCTTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
98551497 AGGTATTTCGGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
*
98551524 GAGTATTT
1 GGGTATTT
98551532 TAATAATTTT
Statistics
Matches: 218, Mismatches: 33, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
27 195 0.89
28 23 0.11
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.35
Consensus pattern (27 bp):
GGGTATTTCAGTAATTCTACCCTACAG
Found at i:98551565 original size:27 final size:27
Alignment explanation
Indices: 98551535--98551636 Score: 114
Period size: 27 Copynumber: 3.8 Consensus size: 27
98551525 AGTATTTTAA
* * *
98551535 TAATTTTGTCAATTGAGGGTAAAACGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
****
98551562 TAATTCTGTAAATCGAGGGTACTTTGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
* **
98551589 TAATTTTACAAATCGAGGGTAAAACGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
98551616 TAATTCTGTAAATCGAGGGTA
1 TAATTCTGTAAATCGAGGGTA
98551637 CTTTGGTAAT
Statistics
Matches: 58, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.33, C:0.10, G:0.25, T:0.32
Consensus pattern (27 bp):
TAATTCTGTAAATCGAGGGTAAAACGG
Found at i:98551644 original size:27 final size:27
Alignment explanation
Indices: 98551560--98551843 Score: 218
Period size: 27 Copynumber: 10.5 Consensus size: 27
98551550 AGGGTAAAAC
* *
98551560 GGTAATTCTGTAAATCGAGGGTACTTT
1 GGTAATTTTGTAAATCGAGGGTATTTT
** ****
98551587 GGTAATTTTACAAATCGAGGGTAAAAC
1 GGTAATTTTGTAAATCGAGGGTATTTT
* *
98551614 GGTAATTCTGTAAATCGAGGGTACTTT
1 GGTAATTTTGTAAATCGAGGGTATTTT
** *
98551641 GGTAATTTTACAAATCGAGGGTATTTC
1 GGTAATTTTGTAAATCGAGGGTATTTT
*
98551668 AGTAATTTT-TCAAA-CTGAGGGTATTTT
1 GGTAATTTTGT-AAATC-GAGGGTATTTT
** *
98551695 GGTAATTTTACAAA-CCAGGGGTATTTT
1 GGTAATTTTGTAAATCGA-GGGTATTTT
* *
98551722 GGTAATTTTGTAAACCAAGGGTATTTT
1 GGTAATTTTGTAAATCGAGGGTATTTT
* ** *
98551749 TGTAATTTTACAAATCGGGGGTATTTT
1 GGTAATTTTGTAAATCGAGGGTATTTT
* *
98551776 GGTAACTTTGTAAA-CTAAGGGTATTTT
1 GGTAATTTTGTAAATC-GAGGGTATTTT
** *
98551803 GGTAATTTTACAAA-CCAGGGGTATTTT
1 GGTAATTTTGTAAATCGA-GGGTATTTT
* *
98551830 GGTGATTTGGTAAA
1 GGTAATTTTGTAAA
98551844 CTAAAGTATT
Statistics
Matches: 202, Mismatches: 48, Indels: 14
0.77 0.18 0.05
Matches are distributed among these distances:
26 4 0.02
27 196 0.97
28 2 0.01
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.38
Consensus pattern (27 bp):
GGTAATTTTGTAAATCGAGGGTATTTT
Found at i:98551772 original size:81 final size:79
Alignment explanation
Indices: 98551577--98551829 Score: 249
Period size: 81 Copynumber: 3.1 Consensus size: 79
98551567 CTGTAAATCG
* * **** * * *
98551577 AGGGTACTTTGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTACTTTG
1 AGGGTATTTTAGTAATTTTACAAATCGAGGGTATTTTGGTAATT-T-TAAAACCAGGGTATTTTG
* *
98551642 GTAATTTTACAAATCG
64 GTAATTTTACAAACCA
* *
98551658 AGGGTATTTCAGTAATTTTTCAAA-CTGAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTT
1 AGGGTATTTTAGTAATTTTACAAATC-GAGGGTATTTTGGTAATTTTA-AAACCA-GGGTATTTT
**
98551722 GGTAATTTTGTAAACCA
63 GGTAATTTTACAAACCA
* * *
98551739 AGGGTATTTTTGTAATTTTACAAATCGGGGGTATTTTGGTAACTTTGT-AAACTAAGGGTATTTT
1 AGGGTATTTTAGTAATTTTACAAATCGAGGGTATTTTGGTAA-TTT-TAAAAC-CAGGGTATTTT
98551803 GGTAATTTTACAAACCA
63 GGTAATTTTACAAACCA
*
98551820 GGGGTATTTT
1 AGGGTATTTT
98551830 GGTGATTTGG
Statistics
Matches: 142, Mismatches: 23, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
79 2 0.01
80 6 0.04
81 128 0.90
82 5 0.04
83 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.38
Consensus pattern (79 bp):
AGGGTATTTTAGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTAAAACCAGGGTATTTTGGT
AATTTTACAAACCA
Found at i:98551817 original size:108 final size:108
Alignment explanation
Indices: 98551577--98551844 Score: 342
Period size: 108 Copynumber: 2.5 Consensus size: 108
98551567 CTGTAAATCG
* * **** * * *
98551577 AGGGTACTTTGGTAATTTTACAAATC-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTACTTT
1 AGGGTATTTTGGTAATTTTACAAACCAG-GGGTATTTTGGTAATTTTGTAAACCAAGGGTACTTT
* *
98551641 GGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTTCAAACTG
65 GGTAATTTTACAAATCGAGGGTATTTCAGTAATTTGTCAAACTA
* *
98551685 AGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTT
1 AGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTACTTTG
* **
98551750 GTAATTTTACAAATCGGGGGTATTTTGGTAACTTTGT-AAACTA
66 GTAATTTTACAAATCGAGGGTATTTCAGTAA-TTTGTCAAACTA
* *
98551793 AGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTGATTTGGTAAAC
1 AGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAAC
98551845 TAAAGTATTC
Statistics
Matches: 140, Mismatches: 18, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
108 135 0.96
109 5 0.04
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.38
Consensus pattern (108 bp):
AGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTACTTTG
GTAATTTTACAAATCGAGGGTATTTCAGTAATTTGTCAAACTA
Found at i:98551824 original size:54 final size:53
Alignment explanation
Indices: 98551560--98551847 Score: 287
Period size: 54 Copynumber: 5.3 Consensus size: 53
98551550 AGGGTAAAAC
* * * ****
98551560 GGTAATTCTGTAAA-TCGAGGGTACTTTGGTAATTTTACAAATC-GAGGGTAAAAC
1 GGTAATT-TGTAAACT-AAGGGTATTTTGGTAATTTTACAAACCAG-GGGTATTTT
* * * *
98551614 GGTAATTCTGTAAA-TCGAGGGTACTTTGGTAATTTTACAAATC-GAGGGTATTTC
1 GGTAATT-TGTAAACT-AAGGGTATTTTGGTAATTTTACAAACCAG-GGGTATTTT
* * *
98551668 AGTAATTTTTCAAACTGAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTT
1 GGTAATTTGT-AAACTAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTT
* * * *
98551722 GGTAATTTTGTAAACCAAGGGTATTTTTGTAATTTTACAAATCGGGGGTATTTT
1 GGTAA-TTTGTAAACTAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTT
98551776 GGTAACTTTGTAAACTAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTT
1 GGTAA-TTTGTAAACTAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTT
*
98551830 GGTGATTTGGTAAACTAA
1 GGTAATTT-GTAAACTAA
98551848 AGTATTCTAA
Statistics
Matches: 208, Mismatches: 21, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
53 5 0.02
54 197 0.95
55 6 0.03
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.38
Consensus pattern (53 bp):
GGTAATTTGTAAACTAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTT
Found at i:98552748 original size:25 final size:25
Alignment explanation
Indices: 98552718--98552770 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
98552708 GAGCTTTAAC
*
98552718 TGTCCTAACATATTGTCCCAACTGT
1 TGTCCTAACATATTATCCCAACTGT
* * *
98552743 TGTCCTAACTTGTTATCCCAAGTGT
1 TGTCCTAACATATTATCCCAACTGT
98552768 TGT
1 TGT
98552771 TTGAGTAAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.40
Consensus pattern (25 bp):
TGTCCTAACATATTATCCCAACTGT
Found at i:98552796 original size:62 final size:60
Alignment explanation
Indices: 98552724--98552847 Score: 133
Period size: 62 Copynumber: 2.0 Consensus size: 60
98552714 TAACTGTCCT
* *
98552724 AACATATTGTCCCA-ACTGTTGTCCTAACTTGTTATCCCAAGTGTTGTTTGAGTAAGGAATGA
1 AACATATTGTCCCATACT-TT-T-CTAACTTGTTACCCCAAGTGTTGTTCGAGTAAGGAATGA
* * * * *
98552786 AACATGTTGTCTCATGTACTTTTCTAACTTGTTGCCCCAATTGTTGTTCGATTAAGGAATGA
1 AACATATTGTCCCA--TACTTTTCTAACTTGTTACCCCAAGTGTTGTTCGAGTAAGGAATGA
98552848 GACAATCACA
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
62 46 0.88
63 1 0.02
64 2 0.04
65 3 0.06
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.38
Consensus pattern (60 bp):
AACATATTGTCCCATACTTTTCTAACTTGTTACCCCAAGTGTTGTTCGAGTAAGGAATGA
Found at i:98553219 original size:23 final size:23
Alignment explanation
Indices: 98553193--98553242 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
98553183 AAAGTATATT
*
98553193 TAAAA-AATTCAAAACATAAATTA
1 TAAAATAATTAAAAAC-TAAATTA
*
98553216 TAAAATAATTAAAAACTAATTTA
1 TAAAATAATTAAAAACTAAATTA
98553239 TAAA
1 TAAA
98553243 GTAAAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 15 0.62
24 9 0.38
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (23 bp):
TAAAATAATTAAAAACTAAATTA
Found at i:98556526 original size:161 final size:162
Alignment explanation
Indices: 98556243--98556565 Score: 513
Period size: 161 Copynumber: 2.0 Consensus size: 162
98556233 AGTCAATAAG
* * *
98556243 TGTTTATACAAGCTTAAAATATCAAAACGGCTGAAAGATTATGAAAATCTTTTGTAGACACTTAT
1 TGTTGATACAAACTTAAAATATCAAAACGGCTGAAAGATTATGAAAATATTTTGTAGACACTTAT
* * *
98556308 TTTATGTTTAATTGAATTTACTGAAATTAAATCGAGTATAATATTGTGAATTTATATTTTTATGT
66 TTTATGTTTAATTGAATTTACTGAAATTAAATCAAGTATAATATTGTGAAATTATATTTATATGT
** *
98556373 TTGAAATTTGTGG-TTTAGATAAGAAAGTAAA
131 TTGAAAAATGTGGTTTTAGACAAGAAAGTAAA
** *
98556404 TGTTGATACAAACTTAAAATATTGAAACGGTTGAAAGATTATGAAAATATTTTGTAGACACTTAT
1 TGTTGATACAAACTTAAAATATCAAAACGGCTGAAAGATTATGAAAATATTTTGTAGACACTTAT
*
98556469 TTTATGTTTAATTGAATTTATTGAAATTAAATCAAGTATAATATTGTGAAATTATATTTATATGT
66 TTTATGTTTAATTGAATTTACTGAAATTAAATCAAGTATAATATTGTGAAATTATATTTATATGT
*
98556534 TTGAAAAATGTGGTTTTAGACAAGTAAGTAAA
131 TTGAAAAATGTGGTTTTAGACAAGAAAGTAAA
98556566 GTTTAACTGT
Statistics
Matches: 147, Mismatches: 14, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
161 131 0.89
162 16 0.11
ACGTcount: A:0.39, C:0.05, G:0.15, T:0.41
Consensus pattern (162 bp):
TGTTGATACAAACTTAAAATATCAAAACGGCTGAAAGATTATGAAAATATTTTGTAGACACTTAT
TTTATGTTTAATTGAATTTACTGAAATTAAATCAAGTATAATATTGTGAAATTATATTTATATGT
TTGAAAAATGTGGTTTTAGACAAGAAAGTAAA
Found at i:98558512 original size:21 final size:21
Alignment explanation
Indices: 98558488--98558547 Score: 50
Period size: 21 Copynumber: 2.9 Consensus size: 21
98558478 TGGCTTTCCG
98558488 TTTAGCTCTTTTGAGCTTCTA
1 TTTAGCTCTTTTGAGCTTCTA
* * *
98558509 TTTAAC-CTTTATGGGTTTCTA
1 TTTAGCTCTTT-TGAGCTTCTA
* * *
98558530 TTCAGCTCCTATGAGCTT
1 TTTAGCTCTTTTGAGCTT
98558548 TTGTTCAACT
Statistics
Matches: 28, Mismatches: 9, Indels: 4
0.68 0.22 0.10
Matches are distributed among these distances:
20 4 0.14
21 22 0.79
22 2 0.07
ACGTcount: A:0.17, C:0.20, G:0.15, T:0.48
Consensus pattern (21 bp):
TTTAGCTCTTTTGAGCTTCTA
Found at i:98559053 original size:2 final size:2
Alignment explanation
Indices: 98559048--98559115 Score: 136
Period size: 2 Copynumber: 34.0 Consensus size: 2
98559038 TATATGTATA
98559048 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
98559090 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
98559116 CGTTTGTAAG
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:98563747 original size:2 final size:2
Alignment explanation
Indices: 98563742--98563776 Score: 61
Period size: 2 Copynumber: 17.0 Consensus size: 2
98563732 AAATTGTAAT
98563742 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
98563777 GCAATTCGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:98565805 original size:41 final size:41
Alignment explanation
Indices: 98565742--98565967 Score: 258
Period size: 41 Copynumber: 5.5 Consensus size: 41
98565732 TACTGGCGTT
* * * ** * *
98565742 TTTTGTTAAAACTCCACT-AAAAACAGATAAATAGCGGCGT
1 TTTTGGTAAAACGCCGCTAAAAAACAGAGCATTAGCGGCGC
* * *
98565782 TTTTGGTAAAACGTCGCTAAAAAACAAAGCATTAGCGGTGC
1 TTTTGGTAAAACGCCGCTAAAAAACAGAGCATTAGCGGCGC
** *
98565823 TTTTGGTAAAACGCCGCTAAAAGCCAGAGCAGTAGCGGCGC
1 TTTTGGTAAAACGCCGCTAAAAAACAGAGCATTAGCGGCGC
* ** *
98565864 TTTTGGTAAAACGCCGTTAAAAGCCGGAGCATTAGCGGCGC
1 TTTTGGTAAAACGCCGCTAAAAAACAGAGCATTAGCGGCGC
*
98565905 TTTTGGTAAAACGCCGCT-AAAAGCAGGAGCATTAGCGGCGC
1 TTTTGGTAAAACGCCGCTAAAAAACA-GAGCATTAGCGGCGC
*
98565946 TTTTTGTAAAACGCCGCTAAAA
1 TTTTGGTAAAACGCCGCTAAAA
98565968 GTCATATAAC
Statistics
Matches: 159, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
40 18 0.11
41 138 0.87
42 3 0.02
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (41 bp):
TTTTGGTAAAACGCCGCTAAAAAACAGAGCATTAGCGGCGC
Found at i:98565968 original size:41 final size:40
Alignment explanation
Indices: 98565773--98565968 Score: 275
Period size: 41 Copynumber: 4.8 Consensus size: 40
98565763 AACAGATAAA
* * * *
98565773 TAGCGGCGTTTTTGGTAAAACGTCGCTAAAAAACAAAGCAT
1 TAGCGGCGCTTTTGGTAAAACGCCGCT-AAAAGCAGAGCAT
* *
98565814 TAGCGGTGCTTTTGGTAAAACGCCGCTAAAAGCCAGAGCAG
1 TAGCGGCGCTTTTGGTAAAACGCCGCTAAAAG-CAGAGCAT
* *
98565855 TAGCGGCGCTTTTGGTAAAACGCCGTTAAAAGCCGGAGCAT
1 TAGCGGCGCTTTTGGTAAAACGCCGCTAAAAG-CAGAGCAT
98565896 TAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGCAGGAGCAT
1 TAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGCA-GAGCAT
*
98565937 TAGCGGCGCTTTTTGTAAAACGCCGCTAAAAG
1 TAGCGGCGCTTTTGGTAAAACGCCGCTAAAAG
98565969 TCATATAACC
Statistics
Matches: 140, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
40 5 0.04
41 135 0.96
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (40 bp):
TAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGCAGAGCAT
Found at i:98566329 original size:21 final size:20
Alignment explanation
Indices: 98566292--98566334 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
98566282 ATTATAGTTT
98566292 AGGGTTTACGTTATATGGTTA
1 AGGGTTTACGTT-TATGGTTA
*
98566313 AGGGTTTAATGTTTATGAGTTA
1 AGGGTTT-ACGTTTATG-GTTA
98566335 CTATTTTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.26, C:0.02, G:0.28, T:0.44
Consensus pattern (20 bp):
AGGGTTTACGTTTATGGTTA
Found at i:98566422 original size:14 final size:14
Alignment explanation
Indices: 98566371--98566428 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
98566361 TAAGTGTGGT
98566371 TTAAGGGTT-GGGG
1 TTAAGGGTTAGGGG
* *
98566384 TTTAAGGTTTAGGTG
1 -TTAAGGGTTAGGGG
98566399 -TAAGGGGTTAGGGG
1 TTAA-GGGTTAGGGG
*
98566413 TTAAGGGTTAAGGG
1 TTAAGGGTTAGGGG
98566427 TT
1 TT
98566429 CATGATTCAG
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
13 3 0.08
14 27 0.75
15 6 0.17
ACGTcount: A:0.21, C:0.00, G:0.45, T:0.34
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:98566759 original size:25 final size:25
Alignment explanation
Indices: 98566696--98566759 Score: 60
Period size: 25 Copynumber: 2.6 Consensus size: 25
98566686 AACATCATTT
*
98566696 TATATTTATATATTGCATACATAAA
1 TATATTTATATATTGCATACAAAAA
* *
98566721 TAT-TTATATTTATT-CAATATAAAAA
1 TATATT-TATATATTGC-ATACAAAAA
*
98566746 TATATTTATGTATT
1 TATATTTATATATT
98566760 TATTTTTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
24 3 0.09
25 27 0.84
26 2 0.06
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (25 bp):
TATATTTATATATTGCATACAAAAA
Found at i:98567002 original size:41 final size:42
Alignment explanation
Indices: 98566957--98567044 Score: 126
Period size: 42 Copynumber: 2.1 Consensus size: 42
98566947 AATTAAAATT
*
98566957 AAAATTGAGCAATAGTGGC-GTTTTTAG-GTAAAACGCCGCAA
1 AAAATTAAGCAATAGTGGCAGTTTTTAGTG-AAAACGCCGCAA
* *
98566998 AAAATTAAGCTATAGTGGCATTTTTTAGTGAAAACGCCGCAA
1 AAAATTAAGCAATAGTGGCAGTTTTTAGTGAAAACGCCGCAA
98567040 AAAAT
1 AAAAT
98567045 CTAAAAATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
41 17 0.40
42 24 0.57
43 1 0.02
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (42 bp):
AAAATTAAGCAATAGTGGCAGTTTTTAGTGAAAACGCCGCAA
Found at i:98571836 original size:21 final size:21
Alignment explanation
Indices: 98571810--98571856 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
98571800 TCAACTTAGA
*
98571810 GCGGAGGCAGTAGCGAGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
98571831 GCGGAGGCAGCAGCGAGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
98571852 GCGGA
1 GCGGA
98571857 ACAGAACAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.23, C:0.17, G:0.57, T:0.02
Consensus pattern (21 bp):
GCGGAGGCAGCAGCGAGGGAG
Found at i:98572200 original size:43 final size:43
Alignment explanation
Indices: 98572153--98572421 Score: 319
Period size: 43 Copynumber: 6.3 Consensus size: 43
98572143 GGGCAAATTC
* *
98572153 GCGGCATTTTTTAAAAAAGCGCCGCAAAACGTCCTGGTCTTTA
1 GCGGCATTTTTTAAAAAAGCGCCGCAAAAGGTCCCGGTCTTTA
* *
98572196 GCGGCGTTTTTTAAAAAAGCGCCGCTAAAA-TTCCCGGTCTTTA
1 GCGGCATTTTTTAAAAAAGCGCCGC-AAAAGGTCCCGGTCTTTA
** *
98572239 GCGGTGTTTTTTAAAAAAGCGCCGCGAAAGGTCCCGGTCTTTA
1 GCGGCATTTTTTAAAAAAGCGCCGCAAAAGGTCCCGGTCTTTA
*
98572282 GCGGCATTTTTTAAAAAAGCGCCGCGAAAGGTCCCGGTCTTTA
1 GCGGCATTTTTTAAAAAAGCGCCGCAAAAGGTCCCGGTCTTTA
* * * * * *
98572325 GTGGC-GTTTTTATAAAAGTGCCGCTAAAGGTCCTGGTCTTTA
1 GCGGCATTTTTTAAAAAAGCGCCGCAAAAGGTCCCGGTCTTTA
** * **
98572367 GCGGTGTTTTTTAAAAAAGCGCAGCTAAAA-GTCGTGGTCTTTA
1 GCGGCATTTTTTAAAAAAGCGCCGC-AAAAGGTCCCGGTCTTTA
*
98572410 GCGACATTTTTT
1 GCGGCATTTTTT
98572422 TCGAAAAAAC
Statistics
Matches: 197, Mismatches: 25, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
42 38 0.19
43 152 0.77
44 7 0.04
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (43 bp):
GCGGCATTTTTTAAAAAAGCGCCGCAAAAGGTCCCGGTCTTTA
Found at i:98572278 original size:86 final size:86
Alignment explanation
Indices: 98572153--98572421 Score: 360
Period size: 86 Copynumber: 3.1 Consensus size: 86
98572143 GGGCAAATTC
* *
98572153 GCGGCATTTTTTAAAAAAGCGCCGCAAAACGTCCTGGTCTTTAGCGGCGTTTTTTAAAAAAGCGC
1 GCGGCGTTTTTTAAAAAAGCGCCGCAAAAGGTCCTGGTCTTTAGCGGCGTTTTTTAAAAAAGCGC
*
98572218 CGCTAAAATTCCCGGTCTTTA
66 CGCTAAAAGTCCCGGTCTTTA
* * * *
98572239 GCGGTGTTTTTTAAAAAAGCGCCGCGAAAGGTCCCGGTCTTTAGCGGCATTTTTTAAAAAAGCGC
1 GCGGCGTTTTTTAAAAAAGCGCCGCAAAAGGTCCTGGTCTTTAGCGGCGTTTTTTAAAAAAGCGC
* *
98572304 CGCGAAAGGTCCCGGTCTTTA
66 CGCTAAAAGTCCCGGTCTTTA
* * * * *
98572325 GTGGCG-TTTTTATAAAAGTGCCGCTAAAGGTCCTGGTCTTTAGCGGTGTTTTTTAAAAAAGCGC
1 GCGGCGTTTTTTAAAAAAGCGCCGCAAAAGGTCCTGGTCTTTAGCGGCGTTTTTTAAAAAAGCGC
* **
98572389 AGCTAAAAGTCGTGGTCTTTA
66 CGCTAAAAGTCCCGGTCTTTA
* *
98572410 GCGACATTTTTT
1 GCGGCGTTTTTT
98572422 TCGAAAAAAC
Statistics
Matches: 157, Mismatches: 25, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
85 71 0.45
86 86 0.55
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (86 bp):
GCGGCGTTTTTTAAAAAAGCGCCGCAAAAGGTCCTGGTCTTTAGCGGCGTTTTTTAAAAAAGCGC
CGCTAAAAGTCCCGGTCTTTA
Found at i:98584754 original size:24 final size:24
Alignment explanation
Indices: 98584727--98584773 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
98584717 AATTATGAAT
98584727 TTGGGTTTTAAATATTAACGGGTA
1 TTGGGTTTTAAATATTAACGGGTA
* *
98584751 TTGGGTTTTAAATTTTAATGGGT
1 TTGGGTTTTAAATATTAACGGGT
98584774 CTAGACTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.02, G:0.26, T:0.47
Consensus pattern (24 bp):
TTGGGTTTTAAATATTAACGGGTA
Found at i:98597887 original size:23 final size:23
Alignment explanation
Indices: 98597832--98597889 Score: 107
Period size: 23 Copynumber: 2.5 Consensus size: 23
98597822 CATTTATGTC
*
98597832 AAATTTCATACTAACAGATTAGT
1 AAATTTCATGCTAACAGATTAGT
98597855 AAATTTCATGCTAACAGATTAGT
1 AAATTTCATGCTAACAGATTAGT
98597878 AAATTTCATGCT
1 AAATTTCATGCT
98597890 TTAAGCCTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.36
Consensus pattern (23 bp):
AAATTTCATGCTAACAGATTAGT
Found at i:98603760 original size:2 final size:2
Alignment explanation
Indices: 98603753--98603793 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
98603743 AGTAACATCA
98603753 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
98603794 GTTTTCTTAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:98612503 original size:124 final size:124
Alignment explanation
Indices: 98612283--98612530 Score: 451
Period size: 124 Copynumber: 2.0 Consensus size: 124
98612273 ACTTTGGAAG
* *
98612283 AACAGGAACATTTTCATCTTCCAAGATATTAATTGGACGGTTTATGAGATCATTAAAACCTCCCT
1 AACAGGAACATTTTCATCTTCCAAGATATCAATTGGACGGCTTATGAGATCATTAAAACCTCCCT
98612348 CAGCTGGGCTCAACATTTTGAATTAACTCTGGGTGCAGCCGGTTCCACTGTAACTTGTT
66 CAGCTGGGCTCAACATTTTGAATTAACTCTGGGTGCAGCCGGTTCCACTGTAACTTGTT
*
98612407 AACAGGAACCTTTTCATCTTCCAAGATATCAATTGGACGGCTTATGAGATCATTAAAACCTCCCT
1 AACAGGAACATTTTCATCTTCCAAGATATCAATTGGACGGCTTATGAGATCATTAAAACCTCCCT
* *
98612472 CAGCTGGGCTTAACATTTTGAATTGACTCTGGGTGCAGCCGGTTCCACTGTAACTTGTT
66 CAGCTGGGCTCAACATTTTGAATTAACTCTGGGTGCAGCCGGTTCCACTGTAACTTGTT
98612531 CTGAAACTTC
Statistics
Matches: 119, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
124 119 1.00
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.32
Consensus pattern (124 bp):
AACAGGAACATTTTCATCTTCCAAGATATCAATTGGACGGCTTATGAGATCATTAAAACCTCCCT
CAGCTGGGCTCAACATTTTGAATTAACTCTGGGTGCAGCCGGTTCCACTGTAACTTGTT
Found at i:98613590 original size:19 final size:19
Alignment explanation
Indices: 98613568--98613622 Score: 53
Period size: 18 Copynumber: 3.0 Consensus size: 19
98613558 AAACATAAAT
98613568 TAAAATTAAAAAATATATA
1 TAAAATTAAAAAATATATA
* *
98613587 T-AAATT-CAAAATTTAT-
1 TAAAATTAAAAAATATATA
*
98613603 TAAAAATTATAAAATATATA
1 T-AAAATTAAAAAATATATA
98613623 AAATACTCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
16 1 0.04
17 8 0.29
18 10 0.36
19 9 0.32
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (19 bp):
TAAAATTAAAAAATATATA
Found at i:98613591 original size:18 final size:17
Alignment explanation
Indices: 98613568--98613644 Score: 59
Period size: 19 Copynumber: 4.3 Consensus size: 17
98613558 AAACATAAAT
98613568 TAAAATTAAAAAATATA
1 TAAAATTAAAAAATATA
* *
98613585 TATAAATT-CAAAATTTA
1 TA-AAATTAAAAAATATA
*
98613602 TTAAAAATTATAAAATATA
1 -T-AAAATTAAAAAATATA
98613621 TAAAATACTCAAAAAAT-TA
1 TAAAAT--T-AAAAAATATA
98613640 TAAAA
1 TAAAA
98613645 GAAATATATT
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
17 14 0.29
18 12 0.25
19 16 0.33
20 6 0.12
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (17 bp):
TAAAATTAAAAAATATA
Found at i:98614336 original size:18 final size:18
Alignment explanation
Indices: 98614313--98614353 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
98614303 GTTAACGCCT
98614313 ATTTTTAAT-AATTTTTAA
1 ATTTTT-ATGAATTTTTAA
*
98614331 ATTTTTATGTATTTTTAA
1 ATTTTTATGAATTTTTAA
98614349 ATTTT
1 ATTTT
98614354 AATCTAGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (18 bp):
ATTTTTATGAATTTTTAA
Found at i:98616366 original size:13 final size:13
Alignment explanation
Indices: 98616348--98616372 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
98616338 CAAAAGTGAC
98616348 TATTTTAATAATT
1 TATTTTAATAATT
98616361 TATTTTAATAAT
1 TATTTTAATAAT
98616373 AATAATACTA
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TATTTTAATAATT
Found at i:98616684 original size:31 final size:32
Alignment explanation
Indices: 98616646--98616708 Score: 94
Period size: 31 Copynumber: 2.0 Consensus size: 32
98616636 ATTTTCAAAA
98616646 AAAATAAAA-AATAAAAAATATTTT-AAAAATG
1 AAAATAAAATAA-AAAAAATATTTTCAAAAATG
*
98616677 AAAATAAAATAAAAAGAATATTTTCAAAAATG
1 AAAATAAAATAAAAAAAATATTTTCAAAAATG
98616709 GGGAGCCTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 20 0.69
32 9 0.31
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.25
Consensus pattern (32 bp):
AAAATAAAATAAAAAAAATATTTTCAAAAATG
Found at i:98617027 original size:21 final size:21
Alignment explanation
Indices: 98617002--98617053 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
98616992 TTTTAAAATT
98617002 AATAAAAATTTAATTTAATCC
1 AATAAAAATTTAATTTAATCC
98617023 AATAAAAATTTAATTTAATCC
1 AATAAAAATTTAATTTAATCC
**
98617044 TTTAAAAATT
1 AATAAAAATT
98617054 ATATAAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (21 bp):
AATAAAAATTTAATTTAATCC
Found at i:98617069 original size:15 final size:18
Alignment explanation
Indices: 98617048--98617089 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 18
98617038 TAATCCTTTA
98617048 AAAATTATAT-AAATA-T
1 AAAATTATATAAAATAGT
98617064 -AAATTAT-TAAAATAGT
1 AAAATTATATAAAATAGT
98617080 AAAATTATAT
1 AAAATTATAT
98617090 CTTTACTATC
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
14 1 0.05
15 12 0.55
16 1 0.05
17 7 0.32
18 1 0.05
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (18 bp):
AAAATTATATAAAATAGT
Found at i:98632026 original size:13 final size:14
Alignment explanation
Indices: 98631998--98632026 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
98631988 AAATCTGTAT
98631998 TTTTAAAATATATA
1 TTTTAAAATATATA
98632012 TTTTAAAAT-TATA
1 TTTTAAAATATATA
98632025 TT
1 TT
98632027 ATTTAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TTTTAAAATATATA
Found at i:98638078 original size:3 final size:3
Alignment explanation
Indices: 98638042--98638132 Score: 71
Period size: 3 Copynumber: 30.7 Consensus size: 3
98638032 TTTATCCCTG
* * *
98638042 TTA TCA TTA TTA TCA TTA TT- TTA TCTA CTTA TTA TTA TTA TGA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA -TTA TTA TTA TTA TTA TTA
* * * * *
98638087 TGA TTA TTA ATA TTA TTA ATA TTA TTA TTA TAA TTA -CA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
98638133 GTTACAATAT
Statistics
Matches: 67, Mismatches: 16, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
2 4 0.06
3 58 0.87
4 4 0.06
5 1 0.01
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:98641433 original size:46 final size:44
Alignment explanation
Indices: 98641329--98641436 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
98641319 TGTCTTTGAC
** * * *
98641329 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
98641373 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
98641419 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
98641437 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:98647372 original size:46 final size:44
Alignment explanation
Indices: 98647268--98647375 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
98647258 TGTCTTTGAC
** * * *
98647268 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
98647312 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
98647358 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
98647376 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:98651270 original size:25 final size:23
Alignment explanation
Indices: 98651231--98651353 Score: 88
Period size: 23 Copynumber: 5.2 Consensus size: 23
98651221 GCCATGATCG
*
98651231 GTAAGCTCCTCTTGAGCTGATGAACA
1 GTAAGCT-CTATTGAGCTGA--AACA
*
98651257 GTAAGCTCTATTGAGCTGAAACG
1 GTAAGCTCTATTGAGCTGAAACA
*
98651280 GTAAGCTCTATTGAACT-AAACA
1 GTAAGCTCTATTGAGCTGAAACA
** * * *
98651302 ACAAGCTC-ATACGAGCTAAAACG
1 GTAAGCTCTAT-TGAGCTGAAACA
* * *
98651325 GTAAGCTCCAATAAGCTGTAAACA
1 GTAAGCTCTATTGAGCTG-AAACA
98651349 GTAAG
1 GTAAG
98651354 TTCTTACGAG
Statistics
Matches: 77, Mismatches: 16, Indels: 10
0.75 0.16 0.10
Matches are distributed among these distances:
21 2 0.03
22 14 0.18
23 33 0.43
24 10 0.13
25 11 0.14
26 7 0.09
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (23 bp):
GTAAGCTCTATTGAGCTGAAACA
Found at i:98654766 original size:23 final size:23
Alignment explanation
Indices: 98654739--98654788 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
98654729 TGTCAAAAAG
98654739 AGAAATAAGGGAAAAAC-AACGTC
1 AGAAA-AAGGGAAAAACTAACGTC
** *
98654762 AGAAAATTGGAGAAACTAACGTC
1 AGAAAAAGGGAAAAACTAACGTC
98654785 AGAA
1 AGAA
98654789 GGAATTTGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.54, C:0.12, G:0.22, T:0.12
Consensus pattern (23 bp):
AGAAAAAGGGAAAAACTAACGTC
Found at i:98655907 original size:21 final size:21
Alignment explanation
Indices: 98655879--98655934 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
98655869 AACAGCGGTG
*
98655879 GCGGTGAGATTAGTTACTATA
1 GCGGTGAGATTAGATACTATA
* * *
98655900 GTGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTATA
*
98655921 GCAGTGAGATTAGA
1 GCGGTGAGATTAGA
98655935 AACAGCGGTG
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.29, C:0.07, G:0.34, T:0.30
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTATA
Found at i:98661601 original size:21 final size:20
Alignment explanation
Indices: 98661577--98661638 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 20
98661567 TTTTGATACA
98661577 TTTTATAATTTTTTCATGATT
1 TTTTATAATTTTTTCAT-ATT
*
98661598 TTTTATAAACTTTTTTTTATATT
1 TTTTAT-AA--TTTTTTCATATT
**
98661621 TTTTACGATTTTTTCATA
1 TTTTATAATTTTTTCATA
98661639 AAATAATATT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
20 9 0.26
21 6 0.18
22 3 0.09
23 8 0.24
24 8 0.24
ACGTcount: A:0.24, C:0.06, G:0.03, T:0.66
Consensus pattern (20 bp):
TTTTATAATTTTTTCATATT
Found at i:98662472 original size:6 final size:6
Alignment explanation
Indices: 98662461--98662489 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
98662451 TTTTCCTTTC
98662461 AACCCA AACCCA AACCCA AACCCA AACCC
1 AACCCA AACCCA AACCCA AACCCA AACCC
98662490 TAACTCGCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (6 bp):
AACCCA
Found at i:98665991 original size:22 final size:24
Alignment explanation
Indices: 98665939--98665992 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 24
98665929 TTTTTGATGA
98665939 TTAAATTATTGTTATTAAATATGCT
1 TTAAATTATTGTTATT-AATATGCT
*
98665964 TGAAATTATTG-TATT-ATAT-CTT
1 TTAAATTATTGTTATTAATATGC-T
98665986 TTAAATT
1 TTAAATT
98665993 GAATTTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 1 0.04
22 11 0.42
24 4 0.15
25 10 0.38
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (24 bp):
TTAAATTATTGTTATTAATATGCT
Found at i:98673524 original size:21 final size:21
Alignment explanation
Indices: 98673498--98673543 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
98673488 CTTTTATTTA
*
98673498 TATATTATTCAT-TATATTATT
1 TATATTA-TCATACATATTATT
*
98673519 TATATTATCATACATTTTATT
1 TATATTATCATACATATTATT
98673540 TATA
1 TATA
98673544 AATTTAGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.59
Consensus pattern (21 bp):
TATATTATCATACATATTATT
Found at i:98673539 original size:24 final size:23
Alignment explanation
Indices: 98673491--98673539 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
98673481 TATATAACTT
* *
98673491 TTATTTATATATTATTCATTATA
1 TTATTTATATATCATACATTATA
*
98673514 TTATTTATATTATCATACATTTTA
1 TTATTTATA-TATCATACATTATA
98673538 TT
1 TT
98673540 TATAAATTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (23 bp):
TTATTTATATATCATACATTATA
Found at i:98679504 original size:134 final size:134
Alignment explanation
Indices: 98679300--98679542 Score: 378
Period size: 134 Copynumber: 1.8 Consensus size: 134
98679290 TTGGAATACA
* * *
98679300 TCAAACAGATCGATGATTTATGATCACGATTGGAATTATTAAAGCTTGCTGATTTATGATCACAA
1 TCAAACAGATCGATGATTTACGATCACGACTGGAATTATTAAAACTTGCTGATTTATGATCACAA
*
98679365 CTTAAGTTCAGTGATTTACGATCATAAATAGTTCATTTTGAGTTTGCTAATTTACGATCGCAACT
66 CTTAAGTTCAATGATTTACGATCATAAATAGTTCATTTTGAGTTTGCTAATTTACGATCGCAACT
98679430 CCAT
131 CCAT
* * * * * *
98679434 TCAAACAGTTCGTTGATTTACGATCCCGACTGGTATTATTAAAACTTGTTGATTTATTATCACAA
1 TCAAACAGATCGATGATTTACGATCACGACTGGAATTATTAAAACTTGCTGATTTATGATCACAA
* *
98679499 CTTAAGTTCAATGATTTATGATCATGAATAGTTCATTTTGAGTT
66 CTTAAGTTCAATGATTTACGATCATAAATAGTTCATTTTGAGTT
98679543 CGTTGATTTA
Statistics
Matches: 97, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
134 97 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (134 bp):
TCAAACAGATCGATGATTTACGATCACGACTGGAATTATTAAAACTTGCTGATTTATGATCACAA
CTTAAGTTCAATGATTTACGATCATAAATAGTTCATTTTGAGTTTGCTAATTTACGATCGCAACT
CCAT
Found at i:98679613 original size:99 final size:99
Alignment explanation
Indices: 98679440--98679651 Score: 271
Period size: 99 Copynumber: 2.1 Consensus size: 99
98679430 CCATTCAAAC
* * * * **
98679440 AGTTCGTTGATTTACGATCCCGACTGGTATTATTAAAACTTGTTGATTTATTATCACAACTTAAG
1 AGTTCGTTGATTTACAATCACAACTGGTATTATTAAAACTTGCTGATTTACAATCACAACTTAAG
* * * *
98679505 TTCAATGATTTATGATCATGAATAGTTCATTTTG
66 TTCAATGATTTACGATCATGAACAATTCATTTTA
* * * *
98679539 AGTTCGTTGATTTACAATCACAACTGGTATTATTAAAGCTTGCTGATTTGCAATCATAGCTTAAG
1 AGTTCGTTGATTTACAATCACAACTGGTATTATTAAAACTTGCTGATTTACAATCACAACTTAAG
*
98679604 TTCATTGATTTACGATCATGAACAATTCATTTTA
66 TTCAATGATTTACGATCATGAACAATTCATTTTA
**
98679638 AGTTCACTGATTTA
1 AGTTCGTTGATTTA
98679652 TGGTCGCAAC
Statistics
Matches: 96, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
99 96 1.00
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (99 bp):
AGTTCGTTGATTTACAATCACAACTGGTATTATTAAAACTTGCTGATTTACAATCACAACTTAAG
TTCAATGATTTACGATCATGAACAATTCATTTTA
Found at i:98679708 original size:134 final size:134
Alignment explanation
Indices: 98679546--98680130 Score: 692
Period size: 134 Copynumber: 4.4 Consensus size: 134
98679536 TTGAGTTCGT
* * * * *
98679546 TGATTTACAATCACAACTGGTATTATTAAAGCTTGCTGATTTGCAATCATAGCTTAAGTTCATTG
1 TGATTTACGATCACAACTGGTATTATTAAAGCTTGTTGATTTACGATCACAGCTTAAGTTCATTG
* * ***
98679611 ATTTACGATCATGAACAATTCATTTTAAGTTCACTGATTTATGGTCGCAACTCTATTCAAACAGT
66 ATTTACGATCATGAACAATTTATTTTGAGTTCACTGATTTACAATCGCAACTCTATTCAAACAGT
98679676 TCAC
131 TCAC
* * * *
98679680 TGATTTACGAACACGATTGGTATTATTAAAGCTTGTTTATTTACGATCACAGCTTAAGTTCATTG
1 TGATTTACGATCACAACTGGTATTATTAAAGCTTGTTGATTTACGATCACAGCTTAAGTTCATTG
* * * * *
98679745 ATTTACGATCATGAACAATTTATTTTTAGTTCGTCT-ATTTACGATC-CAAACTCCATTCAAATA
66 ATTTACGATCATGAACAATTTATTTTGAGTTC-ACTGATTTACAATCGC-AACTCTATTCAAACA
*
98679808 GTTTAC
129 GTTCAC
* * **
98679814 TGATTTACGATCACAATTGGTATTATTAAAACTTGTTGATTTACGATCACAATTTAAGTTCATTG
1 TGATTTACGATCACAACTGGTATTATTAAAGCTTGTTGATTTACGATCACAGCTTAAGTTCATTG
* * * * * * *
98679879 ATTTACGATTATGAACAGTTTATTTTGAGTTCGCTGATTTGCAATTGCAACTTTATTCAAAAAGT
66 ATTTACGATCATGAACAATTTATTTTGAGTTCACTGATTTACAATCGCAACTCTATTCAAACAGT
*
98679944 TCGC
131 TCAC
* ** * **
98679948 TGATTTATGATCACGGCTGGTATTACTAAAGCTT-TCTGATTTACGATCACAGCTTAAGTTTGTT
1 TGATTTACGATCACAACTGGTATTATTAAAGCTTGT-TGATTTACGATCACAGCTTAAGTTCATT
* * * * *
98680012 GATTTACAATCATGAACAATTTATTTTGAGTTTACTGGTTTACAATCACAAC-CTCATTCAAACG
65 GATTTACGATCATGAACAATTTATTTTGAGTTCACTGATTTACAATCGCAACTCT-ATTCAAACA
98680076 GTTCAC
129 GTTCAC
* * *
98680082 TGATTTATGATTACAACTGGTATTATTAAAGCTTGTTGATTTACAATCA
1 TGATTTACGATCACAACTGGTATTATTAAAGCTTGTTGATTTACGATCA
98680131 TGAACAGTTT
Statistics
Matches: 381, Mismatches: 63, Indels: 14
0.83 0.14 0.03
Matches are distributed among these distances:
133 5 0.01
134 372 0.98
135 4 0.01
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (134 bp):
TGATTTACGATCACAACTGGTATTATTAAAGCTTGTTGATTTACGATCACAGCTTAAGTTCATTG
ATTTACGATCATGAACAATTTATTTTGAGTTCACTGATTTACAATCGCAACTCTATTCAAACAGT
TCAC
Found at i:98679738 original size:233 final size:233
Alignment explanation
Indices: 98679334--98679786 Score: 602
Period size: 233 Copynumber: 1.9 Consensus size: 233
98679324 CACGATTGGA
** * *
98679334 ATTATTAAAGCTTGCTGATTTATGATCACAACTTAAGTTCAGTGATTTACGATCATAAATAGTTC
1 ATTATTAAAGCTTGCTGATTTACAATCACAACTTAAGTTCAGTGATTTACGATCATAAACAATTC
* ** ** * *
98679399 ATTTTGAGTTTGCTAATTTACGATCGCAACTCCATTCAAACAGTTCGTTGATTTACGATCCCGAC
66 ATTTTAAGTTCACTAATTTACGATCGCAACTCCATTCAAACAGTTCACTGATTTACGAACACGAC
** * *
98679464 TGGTATTATTAAAACTTGTTGATTTATTATCACAACTTAAGTTCAATGATTTATGATCATGAATA
131 TGGTATTATTAAAACTTGTTGATTTACGATCACAACTTAAGTTCAATGATTTACGATCATGAACA
*
98679529 GTTCATTTTGAGTTCGT-TGATTTACAATCACAACTGGT
196 ATTCATTTTGAGTTCGTCT-ATTTACAATCACAACTGGT
* * * * *
98679567 ATTATTAAAGCTTGCTGATTTGCAATCATAGCTTAAGTTCATTGATTTACGATCATGAACAATTC
1 ATTATTAAAGCTTGCTGATTTACAATCACAACTTAAGTTCAGTGATTTACGATCATAAACAATTC
* * * * *
98679632 ATTTTAAGTTCACTGATTTATGGTCGCAACTCTATTCAAACAGTTCACTGATTTACGAACACGAT
66 ATTTTAAGTTCACTAATTTACGATCGCAACTCCATTCAAACAGTTCACTGATTTACGAACACGAC
* * * *
98679697 TGGTATTATTAAAGCTTGTTTATTTACGATCACAGCTTAAGTTCATTGATTTACGATCATGAACA
131 TGGTATTATTAAAACTTGTTGATTTACGATCACAACTTAAGTTCAATGATTTACGATCATGAACA
* *
98679762 ATTTATTTTTAGTTCGTCTATTTAC
196 ATTCATTTTGAGTTCGTCTATTTAC
98679787 GATCCAAACT
Statistics
Matches: 187, Mismatches: 32, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
233 186 0.99
234 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (233 bp):
ATTATTAAAGCTTGCTGATTTACAATCACAACTTAAGTTCAGTGATTTACGATCATAAACAATTC
ATTTTAAGTTCACTAATTTACGATCGCAACTCCATTCAAACAGTTCACTGATTTACGAACACGAC
TGGTATTATTAAAACTTGTTGATTTACGATCACAACTTAAGTTCAATGATTTACGATCATGAACA
ATTCATTTTGAGTTCGTCTATTTACAATCACAACTGGT
Found at i:98686075 original size:16 final size:16
Alignment explanation
Indices: 98686044--98686086 Score: 50
Period size: 20 Copynumber: 2.4 Consensus size: 16
98686034 TTTATTAATT
98686044 TAATATTAAACTAATTATC
1 TAATATTAAA-T--TTATC
98686063 TTAATATTAAATTTATC
1 -TAATATTAAATTTATC
98686080 TAATATT
1 TAATATT
98686087 TATCTTGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 7 0.30
17 5 0.22
19 1 0.04
20 10 0.43
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (16 bp):
TAATATTAAATTTATC
Found at i:98689663 original size:2 final size:2
Alignment explanation
Indices: 98689656--98689684 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
98689646 CCAATTTCCT
98689656 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
98689685 GGGTGGTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:98694163 original size:5 final size:5
Alignment explanation
Indices: 98694153--98694188 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
98694143 CGTGTCTCAG
*
98694153 AATTT AATTT AATTT AATTT ATAATT AATTT AATTT
1 AATTT AATTT AATTT AATTT A-ATTT AATTT AATTT
98694189 TTACAATGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 24 0.86
6 4 0.14
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
AATTT
Found at i:98694453 original size:7 final size:7
Alignment explanation
Indices: 98694441--98694465 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
98694431 ATCAATTGTT
98694441 TAAAAAA
1 TAAAAAA
98694448 TAAAAAA
1 TAAAAAA
98694455 TAAAAAA
1 TAAAAAA
98694462 TAAA
1 TAAA
98694466 TTCAACCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAAAAA
Found at i:98695135 original size:15 final size:15
Alignment explanation
Indices: 98695107--98695144 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
98695097 TTCATTCGAA
98695107 AATTAAAA--AAATT
1 AATTAAAATTAAATT
98695120 AATTAAAATTAAATT
1 AATTAAAATTAAATT
*
98695135 AACTAAAATT
1 AATTAAAATT
98695145 GAGTTAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 8 0.36
15 14 0.64
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (15 bp):
AATTAAAATTAAATT
Found at i:98697123 original size:84 final size:84
Alignment explanation
Indices: 98696978--98697287 Score: 309
Period size: 84 Copynumber: 3.7 Consensus size: 84
98696968 TCATTGTAAC
* * * * * * * * *
98696978 AGGCTTAGTAGTGGTAAGAAGCAAACTGGTTGCAAGAATCTGAGTGGTTGCATGCTAGTTTAGGG
1 AGGCTTAGTAGTGGTAGGAAGCAAATTGGTTGTAGGAGTTTGAGTGGTTGCTTGTTGGTTTAGGG
98697043 CCTTAATTATTGATGCATG
66 CCTTAATTATTGATGCATG
* * * *
98697062 AGGCTTAGTAGTGGCAGGAAACAAATTGGTTGTAGGAGTTTGGGTGGTTGCTTTTTGGTTTAGGG
1 AGGCTTAGTAGTGGTAGGAAGCAAATTGGTTGTAGGAGTTTGAGTGGTTGCTTGTTGGTTTAGGG
* *
98697127 CCTT-AGTAGTTGATGCAAG
66 CCTTAATTA-TTGATGCATG
* * * ** * * *
98697146 AAGCTTAATAGTGGTAGGATGCTGATTGGTTGTAGGAGTTTGAGTGATTGCTTGCTGGTTTAAGG
1 AGGCTTAGTAGTGGTAGGAAGCAAATTGGTTGTAGGAGTTTGAGTGGTTGCTTGTTGGTTTAGGG
* * * *
98697211 CCTCAATTGTTGCTACATG
66 CCTTAATTATTGATGCATG
* * * *
98697230 AGGCTTAGTGGTGGTA-GAAGGCAAATTGGATGTAAGAATTTGAGTGGTTGCTTGTTGG
1 AGGCTTAGTAGTGGTAGGAA-GCAAATTGGTTGTAGGAGTTTGAGTGGTTGCTTGTTGG
98697288 CTGGTTTAAG
Statistics
Matches: 179, Mismatches: 44, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
83 5 0.03
84 172 0.96
85 2 0.01
ACGTcount: A:0.24, C:0.09, G:0.33, T:0.34
Consensus pattern (84 bp):
AGGCTTAGTAGTGGTAGGAAGCAAATTGGTTGTAGGAGTTTGAGTGGTTGCTTGTTGGTTTAGGG
CCTTAATTATTGATGCATG
Found at i:98700355 original size:19 final size:20
Alignment explanation
Indices: 98700331--98700370 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
98700321 TAATTAATAT
*
98700331 ATGTATTTTATT-TTACCAC
1 ATGTATTTCATTATTACCAC
98700350 ATGTATTTCATTATTACCAC
1 ATGTATTTCATTATTACCAC
98700370 A
1 A
98700371 CACTTGTCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.30, C:0.17, G:0.05, T:0.47
Consensus pattern (20 bp):
ATGTATTTCATTATTACCAC
Found at i:98706168 original size:22 final size:22
Alignment explanation
Indices: 98706143--98706184 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
98706133 GTTACAAACC
* *
98706143 CTTATTGTAAGCTTAAATAATA
1 CTTACTGTAAACTTAAATAATA
98706165 CTTACTGTAAACTTAAATAA
1 CTTACTGTAAACTTAAATAA
98706185 AGGTAAAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.38
Consensus pattern (22 bp):
CTTACTGTAAACTTAAATAATA
Found at i:98706252 original size:39 final size:38
Alignment explanation
Indices: 98706209--98706284 Score: 109
Period size: 39 Copynumber: 2.0 Consensus size: 38
98706199 CTCTATCTTG
* *
98706209 AAAATTTATGTAAA-AGTCTTAAAGATTGAATTTCAAAAA
1 AAAATTTAAGTAAATA-TCTTAAAAATTGAA-TTCAAAAA
98706248 AAAATTTAAGTAAATATCTTAAAAATTGAATTCAAAA
1 AAAATTTAAGTAAATATCTTAAAAATTGAATTCAAAA
98706285 CTAATTATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
38 7 0.21
39 26 0.76
40 1 0.03
ACGTcount: A:0.54, C:0.05, G:0.08, T:0.33
Consensus pattern (38 bp):
AAAATTTAAGTAAATATCTTAAAAATTGAATTCAAAAA
Found at i:98707872 original size:37 final size:37
Alignment explanation
Indices: 98707822--98707937 Score: 151
Period size: 37 Copynumber: 3.1 Consensus size: 37
98707812 TTACAAAACT
* * *
98707822 TTTGCAGAGAATCTTCACTATTAATCTCCGTCTTTTC
1 TTTGCAGAGAATCTTTACTATTGATCTCCATCTTTTC
* * * *
98707859 TTTGTATATAATCTTTACTATTGATCTCCATCTTTTA
1 TTTGCAGAGAATCTTTACTATTGATCTCCATCTTTTC
* *
98707896 TTTGCAGAGAATCTTTACTGTTGATCTCCATTTTTTC
1 TTTGCAGAGAATCTTTACTATTGATCTCCATCTTTTC
98707933 TTTGC
1 TTTGC
98707938 TTGTCTTGGC
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.21, C:0.20, G:0.10, T:0.49
Consensus pattern (37 bp):
TTTGCAGAGAATCTTTACTATTGATCTCCATCTTTTC
Found at i:98708019 original size:37 final size:37
Alignment explanation
Indices: 98707947--98708025 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 37
98707937 CTTGTCTTGG
*
98707947 CTTTGCAAGGAACCACCCCAGTTCATTTCTATCTTTA
1 CTTTGCAAGGAACCACCCCAGTTCATCTCTATCTTTA
* * * *
98707984 CTTTGCAAGGAATCACCCCTA-TTTATCTCTGTCTTTG
1 CTTTGCAAGGAACCACCCC-AGTTCATCTCTATCTTTA
98708021 CTTTG
1 CTTTG
98708026 TTGCAAAACA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
37 35 0.97
38 1 0.03
ACGTcount: A:0.20, C:0.28, G:0.13, T:0.39
Consensus pattern (37 bp):
CTTTGCAAGGAACCACCCCAGTTCATCTCTATCTTTA
Found at i:98709506 original size:19 final size:20
Alignment explanation
Indices: 98709482--98709522 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
98709472 TTGAAATTTA
* *
98709482 TTTAAT-ATTTTTTATAAAT
1 TTTAATGATATTTTACAAAT
98709501 TTTAATGATATTTTACAAAT
1 TTTAATGATATTTTACAAAT
98709521 TT
1 TT
98709523 ATAAAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (20 bp):
TTTAATGATATTTTACAAAT
Found at i:98709523 original size:19 final size:18
Alignment explanation
Indices: 98709481--98709523 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
98709471 TTTGAAATTT
* *
98709481 ATTTAATATTTTTTATAA
1 ATTTAATATATTTTACAA
98709499 ATTTTAATGATATTTTACAA
1 A-TTTAAT-ATATTTTACAA
98709519 ATTTA
1 ATTTA
98709524 TAAAAAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 10 0.48
20 10 0.48
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (18 bp):
ATTTAATATATTTTACAA
Found at i:98709546 original size:25 final size:23
Alignment explanation
Indices: 98709518--98709571 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
98709508 ATATTTTACA
98709518 AATTTATAAAAAATTAATTTTTTAT
1 AATTT-TAAAAAA-TAATTTTTTAT
* *
98709543 AATTTTTAAAAATAATTTTTTTT
1 AATTTTAAAAAATAATTTTTTAT
98709566 AATTTT
1 AATTTT
98709572 TTTTAATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 16 0.59
24 6 0.22
25 5 0.19
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
AATTTTAAAAAATAATTTTTTAT
Found at i:98709573 original size:9 final size:10
Alignment explanation
Indices: 98709555--98709582 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
98709545 TTTTTAAAAA
98709555 TAATTTTTTT
1 TAATTTTTTT
98709565 TAATTTTTTT
1 TAATTTTTTT
98709575 TAATTTTT
1 TAATTTTT
98709583 AAAAAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (10 bp):
TAATTTTTTT
Found at i:98709573 original size:24 final size:24
Alignment explanation
Indices: 98709526--98709572 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
98709516 CAAATTTATA
98709526 AAAAATTAATTTTTTATAATTTTT
1 AAAAATTAATTTTTTATAATTTTT
*
98709550 AAAAA-TAATTTTTTTTAATTTTT
1 AAAAATTAATTTTTTATAATTTTT
98709573 TTTAATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
AAAAATTAATTTTTTATAATTTTT
Found at i:98714718 original size:9 final size:9
Alignment explanation
Indices: 98714704--98714740 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
98714694 TATAGTTTGA
98714704 TATTCGAAT
1 TATTCGAAT
98714713 TATTCGAAT
1 TATTCGAAT
*
98714722 TATTCGAGT
1 TATTCGAAT
98714731 TATTCGAAT
1 TATTCGAAT
98714740 T
1 T
98714741 TGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:98715600 original size:13 final size:13
Alignment explanation
Indices: 98715584--98715653 Score: 54
Period size: 13 Copynumber: 5.2 Consensus size: 13
98715574 TCATACAACA
98715584 ATTTCATGTAATC
1 ATTTCATGTAATC
* *
98715597 ATTTCATATAACC
1 ATTTCATGTAATC
*
98715610 ATTTCATCTAAAT-
1 ATTTCATGT-AATC
*
98715623 ATTTCATTTACA-C
1 ATTTCATGTA-ATC
98715636 ATTTAACATGTAATC
1 ATTT--CATGTAATC
98715651 ATT
1 ATT
98715654 CTGTATATCA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
12 1 0.02
13 32 0.71
14 3 0.07
15 9 0.20
ACGTcount: A:0.36, C:0.17, G:0.03, T:0.44
Consensus pattern (13 bp):
ATTTCATGTAATC
Found at i:98715613 original size:26 final size:26
Alignment explanation
Indices: 98715574--98715653 Score: 74
Period size: 26 Copynumber: 3.0 Consensus size: 26
98715564 TATAACCAAA
* *
98715574 TCATACAACAATTTCATGTAATCATT
1 TCATATAACCATTTCATGTAATCATT
*
98715600 TCATATAACCATTTCATCTAAAT-ATT
1 TCATATAACCATTTCATGT-AATCATT
*
98715626 TCAT-TTACACATTTAACATGTAATCATT
1 TCATATAAC-CATTT--CATGTAATCATT
98715654 CTGTATATCA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
25 3 0.07
26 28 0.64
27 6 0.14
28 7 0.16
ACGTcount: A:0.38, C:0.19, G:0.03, T:0.41
Consensus pattern (26 bp):
TCATATAACCATTTCATGTAATCATT
Found at i:98716985 original size:19 final size:19
Alignment explanation
Indices: 98716948--98716990 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
98716938 ATGCTTTTCG
* * *
98716948 TTTATGTTTTCTTTTTTTT
1 TTTAAGTTTTATTTATTTT
98716967 TTTAAGTTTTATTTATTTT
1 TTTAAGTTTTATTTATTTT
*
98716986 ATTAA
1 TTTAA
98716991 CCTTAATTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.19, C:0.02, G:0.05, T:0.74
Consensus pattern (19 bp):
TTTAAGTTTTATTTATTTT
Found at i:98721560 original size:20 final size:20
Alignment explanation
Indices: 98721524--98721563 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
98721514 ATAAATTTTT
*
98721524 GTAATTTTTATACTTTTTAA
1 GTAATTTTAATACTTTTTAA
98721544 GTAATTTTAATGA-TTTTTAA
1 GTAATTTTAAT-ACTTTTTAA
98721564 TTTTAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.33, C:0.03, G:0.07, T:0.57
Consensus pattern (20 bp):
GTAATTTTAATACTTTTTAA
Found at i:98721590 original size:29 final size:29
Alignment explanation
Indices: 98721510--98721590 Score: 69
Period size: 29 Copynumber: 2.8 Consensus size: 29
98721500 AAAAATTATC
* *
98721510 AAAAATAAATTTTTGTAATTTTTATACTTTT
1 AAAAATAAA-TTTTATAATTTTT-TAATTTT
* * *
98721541 -TAAGT-AATTTTAATGA-TTTTTAATTTT
1 AAAAATAAATTTT-ATAATTTTTTAATTTT
98721568 AAAAATAAATTTTATAATTTTTT
1 AAAAATAAATTTTATAATTTTTT
98721591 TTAAAATTTT
Statistics
Matches: 38, Mismatches: 8, Indels: 10
0.68 0.14 0.18
Matches are distributed among these distances:
27 6 0.16
28 14 0.37
29 15 0.39
30 3 0.08
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.56
Consensus pattern (29 bp):
AAAAATAAATTTTATAATTTTTTAATTTT
Found at i:98724561 original size:32 final size:32
Alignment explanation
Indices: 98724497--98724564 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 32
98724487 TATTCAAGCA
* * *
98724497 ATATTACTTGAATAGTTATATTTATTTAAAAG
1 ATATTAATTGAATAGTTATAGTCATTTAAAAG
*
98724529 ATATTAATTGAATAGTTAT-GTCACTTTTAAAG
1 ATATTAATTGAATAGTTATAGTCA-TTTAAAAG
98724561 ATAT
1 ATAT
98724565 GATTATTCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 2 0.06
32 29 0.94
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.46
Consensus pattern (32 bp):
ATATTAATTGAATAGTTATAGTCATTTAAAAG
Found at i:98727477 original size:19 final size:19
Alignment explanation
Indices: 98727439--98727555 Score: 175
Period size: 19 Copynumber: 6.2 Consensus size: 19
98727429 AGATTACAAG
*
98727439 ATCATATCTTCAACATTGCAT
1 ATCATATC-T-AAGATTGCAT
*
98727460 ATCATATTTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
98727479 ATCATATCTAAGATT--AT
1 ATCATATCTAAGATTGCAT
*
98727496 ATCATATCTAAGATTGTAT
1 ATCATATCTAAGATTGCAT
98727515 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
98727534 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
98727553 ATC
1 ATC
98727556 CTTAAAGATT
Statistics
Matches: 90, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
17 17 0.19
19 65 0.72
20 1 0.01
21 7 0.08
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.39
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:98727527 original size:55 final size:57
Alignment explanation
Indices: 98727439--98727548 Score: 179
Period size: 55 Copynumber: 2.0 Consensus size: 57
98727429 AGATTACAAG
*
98727439 ATCATATCTTCAACATTGCATATCATATTTAAGATTGCATATCATATCTAAGATTAT
1 ATCATATCTTCAACATTGCATATCATATCTAAGATTGCATATCATATCTAAGATTAT
* *
98727496 ATCATATC-T-AAGATTGTATATCATATCTAAGATTGCATATCATATCTAAGATT
1 ATCATATCTTCAACATTGCATATCATATCTAAGATTGCATATCATATCTAAGATT
98727549 GCATATCCTT
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
55 41 0.82
56 1 0.02
57 8 0.16
ACGTcount: A:0.37, C:0.15, G:0.08, T:0.40
Consensus pattern (57 bp):
ATCATATCTTCAACATTGCATATCATATCTAAGATTGCATATCATATCTAAGATTAT
Found at i:98727564 original size:36 final size:38
Alignment explanation
Indices: 98727439--98727555 Score: 175
Period size: 36 Copynumber: 3.1 Consensus size: 38
98727429 AGATTACAAG
* *
98727439 ATCATATCTTCAACATTGCATATCATATTTAAGATTGCAT
1 ATCATATC-T-AAGATTGCATATCATATCTAAGATTGCAT
*
98727479 ATCATATCTAAGATT--ATATCATATCTAAGATTGTAT
1 ATCATATCTAAGATTGCATATCATATCTAAGATTGCAT
98727515 ATCATATCTAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCATATCATATCTAAGATTGCAT
98727553 ATC
1 ATC
98727556 CTTAAAGATT
Statistics
Matches: 71, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
36 34 0.48
38 28 0.39
39 1 0.01
40 8 0.11
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.39
Consensus pattern (38 bp):
ATCATATCTAAGATTGCATATCATATCTAAGATTGCAT
Found at i:98727963 original size:45 final size:45
Alignment explanation
Indices: 98727908--98728018 Score: 150
Period size: 45 Copynumber: 2.5 Consensus size: 45
98727898 GGAAGGCGAT
* * *
98727908 ATCTGGTATCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAAAGATGCCAA
* * *
98727953 ATCTGTTATCTCCGATTTACTCCCCGTCTAATACAAAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAAAGATGCCAA
* *
98727998 ATCTGTCATCTTGGATCTGCT
1 ATCTGTTATCTTCGATCTGCT
98728019 TCGATGTAAA
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 55 1.00
ACGTcount: A:0.24, C:0.27, G:0.15, T:0.33
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAAAGATGCCAA
Found at i:98728214 original size:46 final size:46
Alignment explanation
Indices: 98728141--98728356 Score: 178
Period size: 44 Copynumber: 4.8 Consensus size: 46
98728131 CATGCTGAAA
* * * *
98728141 TCTTCAATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATG
1 TCTTCGATCTG-TTCCCTGTAAACACAGGAATGCCAGATCTGCTATG
* * *
98728188 TCTTCGATCTGTTCCCTGTAAACACAGGGATGCCAAATCTACTA--
1 TCTTCGATCTGTTCCCTGTAAACACAGGAATGCCAGATCTGCTATG
* * * **
98728232 TCTTC-AACTTGTTCCCTATAAACACA-GAGATGCCATG-T-T--AAAA
1 TCTTCGATC-TGTTCCCTGTAAACACAGGA-ATGCCA-GATCTGCTATG
* ** * *
98728275 TCTTTGATCTGCTTCGTTGTAAGCACAGGAATGTCAGATCTGCTATG
1 TCTTCGATCTG-TTCCCTGTAAACACAGGAATGCCAGATCTGCTATG
98728322 TCTTCGATCTGTTCCCTGTAAACACAGGAATGCCA
1 TCTTCGATCTGTTCCCTGTAAACACAGGAATGCCA
98728357 AATCATCTTG
Statistics
Matches: 130, Mismatches: 27, Indels: 25
0.71 0.15 0.14
Matches are distributed among these distances:
41 1 0.01
43 11 0.08
44 47 0.36
45 3 0.02
46 47 0.36
47 21 0.16
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (46 bp):
TCTTCGATCTGTTCCCTGTAAACACAGGAATGCCAGATCTGCTATG
Found at i:98728247 original size:44 final size:44
Alignment explanation
Indices: 98728082--98728360 Score: 165
Period size: 44 Copynumber: 6.2 Consensus size: 44
98728072 CGAATATGGA
*
98728082 GATGCCAAATCTACTATCTTCAA-CTTGTTCTCTATAAACACAGG
1 GATGCCAAATCTACTATCTTCAATC-TGTTCCCTATAAACACAGG
* * * *
98728126 GATGCC--ATGCTGA-AATCTTCAATCTGCTTCACTGTAAGCACAGG
1 GATGCCAAAT-CT-ACTATCTTCAATCTG-TTCCCTATAAACACAGG
* * * * * *
98728170 AATGTCAGATCTGCTATGTCTTCGATCTGTTCCCTGTAAACACAGG
1 GATGCCAAATCTACTA--TCTTCAATCTGTTCCCTATAAACACAGG
*
98728216 GATGCCAAATCTACTATCTTCAA-CTTGTTCCCTATAAACACAGA
1 GATGCCAAATCTACTATCTTCAATC-TGTTCCCTATAAACACAGG
** ** ** ** * *
98728260 GATGCCATGT-TAAAATCTTTGATCTGCTTCGTTGTAAGCACAGG
1 GATGCCAAATCTACTATCTTCAATCTG-TTCCCTATAAACACAGG
* * * * * *
98728304 AATGTCAGATCTGCTATGTCTTCGATCTGTTCCCTGTAAACACAGG
1 GATGCCAAATCTACTA--TCTTCAATCTGTTCCCTATAAACACAGG
*
98728350 AATGCCAAATC
1 GATGCCAAATC
98728361 ATCTTGGATC
Statistics
Matches: 178, Mismatches: 42, Indels: 28
0.72 0.17 0.11
Matches are distributed among these distances:
42 2 0.01
43 23 0.13
44 76 0.43
45 5 0.03
46 52 0.29
47 20 0.11
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (44 bp):
GATGCCAAATCTACTATCTTCAATCTGTTCCCTATAAACACAGG
Found at i:98728255 original size:134 final size:134
Alignment explanation
Indices: 98728082--98728360 Score: 477
Period size: 134 Copynumber: 2.1 Consensus size: 134
98728072 CGAATATGGA
* * *
98728082 GATGCCAAATCTACTATCTTCAACTTGTTCTCTATAAACACAGGGATGCCATGCTGAAATCTTCA
1 GATGCCAAATCTACTATCTTCAACTTGTTCCCTATAAACACAGAGATGCCATGCTAAAATCTTCA
98728147 ATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATGTCTTCGATCTGTTCCCTGTAAACA
66 ATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATGTCTTCGATCTGTTCCCTGTAAACA
98728212 CAGG
131 CAGG
* **
98728216 GATGCCAAATCTACTATCTTCAACTTGTTCCCTATAAACACAGAGATGCCATGTTAAAATCTTTG
1 GATGCCAAATCTACTATCTTCAACTTGTTCCCTATAAACACAGAGATGCCATGCTAAAATCTTCA
**
98728281 ATCTGCTTCGTTGTAAGCACAGGAATGTCAGATCTGCTATGTCTTCGATCTGTTCCCTGTAAACA
66 ATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATGTCTTCGATCTGTTCCCTGTAAACA
98728346 CAGG
131 CAGG
*
98728350 AATGCCAAATC
1 GATGCCAAATC
98728361 ATCTTGGATC
Statistics
Matches: 136, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
134 136 1.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (134 bp):
GATGCCAAATCTACTATCTTCAACTTGTTCCCTATAAACACAGAGATGCCATGCTAAAATCTTCA
ATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATGTCTTCGATCTGTTCCCTGTAAACA
CAGG
Found at i:98728480 original size:44 final size:44
Alignment explanation
Indices: 98728413--98728759 Score: 253
Period size: 44 Copynumber: 7.9 Consensus size: 44
98728403 GTTGTTCTTT
* * * *
98728413 TCTTCGATATGCTCTTTGACAATACAAAGACGCCAAATCT-TCTA
1 TCTTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTAT-TA
*
98728457 TCTTCGATCTGCGCTCTGCCAATACAGAGACGCCAAATCTATTA
1 TCTTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTATTA
* * * * *
98728501 TCTTCGATCTCCTCTCTGCCAATATAGAGATGTCAAATCTGTTA
1 TCTTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTATTA
*
98728545 TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATC----A
1 TCTTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTATTA
* ** * * * *
98728585 TCTTAGA-CTTGCT-TC-AACATAAACACGTGGAAGCCAAATC-AGCTATG
1 TCTTCGATC-TGCTCTCTGCCA-ATACA-G-AGACGCCAAATCTA--T-TA
* * * * * *
98728632 TCTTCGACCTGCTCTCCGCCGAATACAAAGATGCCAAATCTGTCA
1 TCTTCGATCTGCTCTCTGCC-AATACAGAGACGCCAAATCTATTA
* * * * **
98728677 TCTTTGATCTACTCCCTGCCAATATAGAGACGCCAAATCTGGTA
1 TCTTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTATTA
* * *
98728721 TCTTCGATCTGCTCCCTGACAATACAGAGATGCCAAATC
1 TCTTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATC
98728760 ATCTTGGATC
Statistics
Matches: 241, Mismatches: 46, Indels: 32
0.76 0.14 0.10
Matches are distributed among these distances:
38 2 0.01
39 7 0.03
40 12 0.05
41 10 0.04
44 164 0.68
45 16 0.07
46 1 0.00
47 20 0.08
48 3 0.01
49 5 0.02
50 1 0.00
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.29
Consensus pattern (44 bp):
TCTTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTATTA
Found at i:98729738 original size:9 final size:9
Alignment explanation
Indices: 98729720--98729761 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
98729710 GGCCTCTCCA
98729720 TTTTTT-TC
1 TTTTTTCTC
98729728 TTTTTTCTC
1 TTTTTTCTC
* *
98729737 TTTTTTTTAT
1 TTTTTTCT-C
98729747 TTTTTTCTC
1 TTTTTTCTC
98729756 TTTTTT
1 TTTTTT
98729762 TTTTTGAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
8 6 0.21
9 15 0.54
10 7 0.25
ACGTcount: A:0.02, C:0.12, G:0.00, T:0.86
Consensus pattern (9 bp):
TTTTTTCTC
Found at i:98729742 original size:19 final size:18
Alignment explanation
Indices: 98729720--98729766 Score: 76
Period size: 19 Copynumber: 2.6 Consensus size: 18
98729710 GGCCTCTCCA
*
98729720 TTTTTTTCTTTTTTCTCT
1 TTTTTTTTTTTTTTCTCT
98729738 TTTTTTTATTTTTTTCTCT
1 TTTTTTT-TTTTTTTCTCT
98729757 TTTTTTTTTT
1 TTTTTTTTTT
98729767 GAAATAGAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 10 0.37
19 17 0.63
ACGTcount: A:0.02, C:0.11, G:0.00, T:0.87
Consensus pattern (18 bp):
TTTTTTTTTTTTTTCTCT
Found at i:98734955 original size:22 final size:21
Alignment explanation
Indices: 98734925--98734971 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
98734915 TACAAATTAA
98734925 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
98734947 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
98734968 ATCT
1 ATCT
98734972 AAGATTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:98734977 original size:19 final size:19
Alignment explanation
Indices: 98734942--98735039 Score: 146
Period size: 19 Copynumber: 5.2 Consensus size: 19
98734932 AGATTACAAG
98734942 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
*
98734963 ATCATATCTAAGATTGTAT
1 ATCATATCTAAGATTGCAT
98734982 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
98734999 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
*
98735018 ATCATATATAAGATTGCAT
1 ATCATATCTAAGATTGCAT
98735037 ATC
1 ATC
98735040 CTTAAATATT
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
17 17 0.23
19 47 0.64
20 1 0.01
21 8 0.11
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:98735006 original size:36 final size:37
Alignment explanation
Indices: 98734942--98735039 Score: 135
Period size: 36 Copynumber: 2.6 Consensus size: 37
98734932 AGATTACAAG
*
98734942 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGTAT
1 ATCATATC-T-AAGATTG-ATATCATATCTAAGATTGCAT
98734982 ATCATATCTAAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
*
98735018 ATCATATATAAGATTGCATATC
1 ATCATATCTAAGATTG-ATATC
98735040 CTTAAATATT
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
36 34 0.63
38 11 0.20
39 1 0.02
40 8 0.15
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (37 bp):
ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
Found at i:98735020 original size:14 final size:15
Alignment explanation
Indices: 98734964--98735020 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
98734954 AGATTGCATA
98734964 TCATATCTAAGATTG
1 TCATATCTAAGATTG
98734979 TATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
98734998 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
98735015 -CATATC
1 TCATATC
98735021 ATATATAAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.16
17 17 0.45
19 15 0.39
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:98736022 original size:26 final size:26
Alignment explanation
Indices: 98735993--98736049 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
98735983 ATCCTCTCTC
*
98735993 GAGCCATATAAT-AGGAAGTTCACAAA
1 GAGCCAT-TAATCAGGAAGCTCACAAA
* *
98736019 GAGCTATTAATCGGGAAGCTCACAAA
1 GAGCCATTAATCAGGAAGCTCACAAA
98736045 GAGCC
1 GAGCC
98736050 TATCAAGAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 4 0.15
26 22 0.85
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.18
Consensus pattern (26 bp):
GAGCCATTAATCAGGAAGCTCACAAA
Found at i:98736127 original size:26 final size:26
Alignment explanation
Indices: 98736098--98736158 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
98736088 ATAAGAGTCA
* *
98736098 TAATCAGGAAGTTTACAAAGAACTTT
1 TAATCAGGAAGCTTACAAAGAACCTT
* *
98736124 TAATCAGGAAGCTTACGAAGAGCCTT
1 TAATCAGGAAGCTTACAAAGAACCTT
*
98736150 TAATTAGGA
1 TAATCAGGA
98736159 GCTCTGGATA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (26 bp):
TAATCAGGAAGCTTACAAAGAACCTT
Found at i:98738723 original size:21 final size:20
Alignment explanation
Indices: 98738699--98738749 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 20
98738689 TTTATTTCTA
98738699 TTAATTTAAAATTTTT-TAATT
1 TTAATTTAAAATTTTTGT--TT
*
98738720 TTAATTTTAATATTTTTGTTT
1 TTAA-TTTAAAATTTTTGTTT
98738741 TTAATTTAA
1 TTAATTTAA
98738750 TTTTTACATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 5 0.19
21 10 0.37
22 11 0.41
23 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (20 bp):
TTAATTTAAAATTTTTGTTT
Found at i:98738767 original size:26 final size:27
Alignment explanation
Indices: 98738711--98738768 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 27
98738701 AATTTAAAAT
* * **
98738711 TTTTTAATTTTAATTTTAATATTTTTG
1 TTTTTAATTTTAATTTTAACATTCTAA
*
98738738 TTTTTAA-TTTAATTTTTACATTCTAA
1 TTTTTAATTTTAATTTTAACATTCTAA
98738764 TTTTT
1 TTTTT
98738769 TGTTTGTTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 19 0.73
27 7 0.27
ACGTcount: A:0.26, C:0.03, G:0.02, T:0.69
Consensus pattern (27 bp):
TTTTTAATTTTAATTTTAACATTCTAA
Found at i:98741618 original size:23 final size:23
Alignment explanation
Indices: 98741583--98741634 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
98741573 ATTATTACTT
98741583 AAAAAATTCAAAAAAT-TTTGAAA
1 AAAAAATTCAAAAAATATTT-AAA
* *
98741606 GAAAAATTGAAAAAATATTTAAA
1 AAAAAATTCAAAAAATATTTAAA
98741629 AAAAAA
1 AAAAAA
98741635 GGTGATCCAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 22 0.88
24 3 0.12
ACGTcount: A:0.69, C:0.02, G:0.06, T:0.23
Consensus pattern (23 bp):
AAAAAATTCAAAAAATATTTAAA
Found at i:98741894 original size:32 final size:32
Alignment explanation
Indices: 98741828--98741896 Score: 93
Period size: 32 Copynumber: 2.2 Consensus size: 32
98741818 CTTTTTTATC
* * *
98741828 ACACATGGTCTAAGTGATTCCACATGACCTAT
1 ACACATAGTCTAAGTGATTCCACACGACCGAT
* *
98741860 ACACATAGTCTGAGTGATTCCACACGATCGAT
1 ACACATAGTCTAAGTGATTCCACACGACCGAT
98741892 ACACA
1 ACACA
98741897 CGGTCGTGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (32 bp):
ACACATAGTCTAAGTGATTCCACACGACCGAT
Found at i:98743071 original size:29 final size:30
Alignment explanation
Indices: 98743011--98743072 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 30
98743001 TTTTATTTTA
*
98743011 TTGTTAATTTTCTTATTATTTTAAAGGTAT
1 TTGTTAATTTTCTTATTATTTTAAAGGCAT
98743041 TTGTTAATTTT-TTATTATTTTAGAA-GCAT
1 TTGTTAATTTTCTTATTATTTTA-AAGGCAT
98743070 TTG
1 TTG
98743073 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 17 0.57
30 13 0.43
ACGTcount: A:0.26, C:0.03, G:0.11, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAAAGGCAT
Found at i:98750980 original size:50 final size:50
Alignment explanation
Indices: 98750917--98751027 Score: 145
Period size: 50 Copynumber: 2.2 Consensus size: 50
98750907 TACTTTAAGG
* *
98750917 ACTTCT-CCTGAAATAAATCAAGTTAGTAGCCAAAGTTCAGCAT-CTCCTAT
1 ACTTCTACC-GAAATAAATCAAGTTAGTAGCCAAAGTTCAACATCCT-CTAC
* * *
98750967 ACTTCTACCGAAATAAGTCAAGTTAGTAGCCAAGGTTTAACATCCTCTAC
1 ACTTCTACCGAAATAAATCAAGTTAGTAGCCAAAGTTCAACATCCTCTAC
98751017 ACTTCTACCGA
1 ACTTCTACCGA
98751028 TACTCTTATG
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
50 50 0.93
51 4 0.07
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (50 bp):
ACTTCTACCGAAATAAATCAAGTTAGTAGCCAAAGTTCAACATCCTCTAC
Found at i:98757260 original size:15 final size:15
Alignment explanation
Indices: 98757240--98757268 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
98757230 GTCTTGTATT
98757240 GTAAGAAGGTGTTTG
1 GTAAGAAGGTGTTTG
98757255 GTAAGAAGGTGTTT
1 GTAAGAAGGTGTTT
98757269 TGTTTTTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.38, T:0.34
Consensus pattern (15 bp):
GTAAGAAGGTGTTTG
Found at i:98758080 original size:43 final size:43
Alignment explanation
Indices: 98758019--98758108 Score: 180
Period size: 43 Copynumber: 2.1 Consensus size: 43
98758009 AAAGTTTTCA
98758019 ATATTTTATCATTAAGTTAACATAGATGGATGTGAAGATATAT
1 ATATTTTATCATTAAGTTAACATAGATGGATGTGAAGATATAT
98758062 ATATTTTATCATTAAGTTAACATAGATGGATGTGAAGATATAT
1 ATATTTTATCATTAAGTTAACATAGATGGATGTGAAGATATAT
98758105 ATAT
1 ATAT
98758109 AAGATTTTAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.40, C:0.04, G:0.16, T:0.40
Consensus pattern (43 bp):
ATATTTTATCATTAAGTTAACATAGATGGATGTGAAGATATAT
Found at i:98758260 original size:16 final size:16
Alignment explanation
Indices: 98758241--98758274 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
98758231 AATCTCTCTA
98758241 TTTCTTTGT-TCTTTAT
1 TTTCTTT-TATCTTTAT
98758257 TTTCTTTTATCTTTAT
1 TTTCTTTTATCTTTAT
98758273 TT
1 TT
98758275 CATAATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 1 0.06
16 16 0.94
ACGTcount: A:0.09, C:0.12, G:0.03, T:0.76
Consensus pattern (16 bp):
TTTCTTTTATCTTTAT
Found at i:98758947 original size:27 final size:27
Alignment explanation
Indices: 98758917--98758971 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
98758907 ATCTAAATTA
98758917 CACAATTTCTTCACTTAGTATCTTGAT
1 CACAATTTCTTCACTTAGTATCTTGAT
98758944 CACAATTTCTTCACTTAGTATCTTGAT
1 CACAATTTCTTCACTTAGTATCTTGAT
98758971 C
1 C
98758972 CGTAGAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.24, G:0.07, T:0.44
Consensus pattern (27 bp):
CACAATTTCTTCACTTAGTATCTTGAT
Found at i:98762038 original size:43 final size:45
Alignment explanation
Indices: 98761990--98762089 Score: 143
Period size: 43 Copynumber: 2.3 Consensus size: 45
98761980 TAAAAAACAT
* *
98761990 AATAAAATAAAAT-AAAAGATATAAATTCAGAAAATAAA-AGATA
1 AATAAAATAAAATAAAAAGATATAAATCCAGAAAATAAATAAATA
*
98762033 AAT-AAATAAAATAAAAATATATAAATCCAGAAAATAAATAAATA
1 AATAAAATAAAATAAAAAGATATAAATCCAGAAAATAAATAAATA
98762077 AATAAAAATAAAA
1 AAT-AAAATAAAA
98762090 ATAGGGCTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
42 9 0.18
43 26 0.52
44 7 0.14
46 8 0.16
ACGTcount: A:0.72, C:0.03, G:0.04, T:0.21
Consensus pattern (45 bp):
AATAAAATAAAATAAAAAGATATAAATCCAGAAAATAAATAAATA
Done.