Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 86 of 362
Found at i:27127023 original size:26 final size:26
Alignment explanation
Indices: 27126994--27127074 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
27126984 TTGGTCGCAT
27126994 GTGTAGTACTAAGTGCAGGCTACTAC
1 GTGTAGTACTAAGTGCAGGCTACTAC
* * *
27127020 GTGTA-T-C-AAATGGTTAGG-TCAC-AT
1 GTGTAGTACTAAGT-G-CAGGCT-ACTAC
*
27127044 GTGTAGTACTAAGTACAGGCTACTAC
1 GTGTAGTACTAAGTGCAGGCTACTAC
27127070 GTGTA
1 GTGTA
27127075 CCAGATAATT
Statistics
Matches: 40, Mismatches: 7, Indels: 16
0.63 0.11 0.25
Matches are distributed among these distances:
23 3 0.08
24 9 0.22
25 12 0.30
26 13 0.32
27 3 0.08
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (26 bp):
GTGTAGTACTAAGTGCAGGCTACTAC
Found at i:27127107 original size:99 final size:99
Alignment explanation
Indices: 27126936--27127280 Score: 431
Period size: 99 Copynumber: 3.5 Consensus size: 99
27126926 AGCTATTGTG
*
27126936 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGT
* * **
27127001 ACTAAGTGCAGGCTACTACGTGTATCAAATGGTT
66 ACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
27127035 AGGTCACATGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATAATTGGTCGCATGTTTAGT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGT
* * * *
27127100 ACTAAGTGCAGGTTACTATGCGTACCTGATAACTT
66 ACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * * * ** * *
27127135 CGATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAAATGGTTAGGTCACGTGTGTAG
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCGCATGTGTAG
* *
27127200 TACTAAGTGCAGGCTATTACGTGTACCGGATAATT
65 TACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
27127235 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
27127281 GCTTCGGCTA
Statistics
Matches: 207, Mismatches: 37, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
99 123 0.59
100 45 0.22
101 39 0.19
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (99 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGT
ACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:27127221 original size:150 final size:150
Alignment explanation
Indices: 27126944--27127286 Score: 546
Period size: 150 Copynumber: 2.3 Consensus size: 150
27126934 TGAGGTCACG
* * * *
27126944 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT-GGTCGCATGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGATCACATGTGTAGTACTAAG
27127007 TGCAGGCTACTACGTGTATCAAATGGTTAGGTCACATGTGTAGTACTAAGTACAGGCTACTACGT
66 TGCAGGCTACTACGTGTATCAAATGGTTAGGTCACATGTGTAGTACTAAGTACAGGCTACTACGT
27127072 GTACCAGATAATTGGTCGCA
131 GTACCAGATAATTGGTCGCA
* * * *
27127092 TGTTTAGTACTAAGTGCAGGTTACTATGCGTACCTGATAACTTCGATCACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGATCACATGTGTAGTACTAAG
* * * *
27127157 TGTAGGCTACTACGTGTATCAAATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTATTACGT
66 TGCAGGCTACTACGTGTATCAAATGGTTAGGTCACATGTGTAGTACTAAGTACAGGCTACTACGT
*
27127222 GTACCGGATAATTGGTCGCA
131 GTACCAGATAATTGGTCGCA
*
27127242 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGCTTCG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCG
27127287 GCTACAAGTG
Statistics
Matches: 176, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
148 35 0.20
149 2 0.01
150 139 0.79
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (150 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGATCACATGTGTAGTACTAAG
TGCAGGCTACTACGTGTATCAAATGGTTAGGTCACATGTGTAGTACTAAGTACAGGCTACTACGT
GTACCAGATAATTGGTCGCA
Found at i:27129287 original size:29 final size:29
Alignment explanation
Indices: 27129252--27129308 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
27129242 CTGGCACAAA
27129252 GGCATGTGTGGCCATTTCGAAGGGCACAG
1 GGCATGTGTGGCCATTTCGAAGGGCACAG
*
27129281 GGCATGTGTTGCCATTTCGAAGGGCACA
1 GGCATGTGTGGCCATTTCGAAGGGCACA
27129309 CAAGCTAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.21, C:0.21, G:0.35, T:0.23
Consensus pattern (29 bp):
GGCATGTGTGGCCATTTCGAAGGGCACAG
Found at i:27137977 original size:15 final size:15
Alignment explanation
Indices: 27137959--27137992 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
27137949 AAACCCCGAA
27137959 AACCTGAAAACAAAG
1 AACCTGAAAACAAAG
27137974 AACCTGAAAACAAAG
1 AACCTGAAAACAAAG
27137989 AACC
1 AACC
27137993 CTCAAAACGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.59, C:0.24, G:0.12, T:0.06
Consensus pattern (15 bp):
AACCTGAAAACAAAG
Found at i:27142389 original size:25 final size:25
Alignment explanation
Indices: 27142327--27142375 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
27142317 AAGGCATGAG
27142327 AACAAATTATATACATAAAGATGTA
1 AACAAATTATATACATAAAGATGTA
27142352 AACAAATTATATACATAAAGATGT
1 AACAAATTATATACATAAAGATGT
27142376 TTTAAATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.55, C:0.08, G:0.08, T:0.29
Consensus pattern (25 bp):
AACAAATTATATACATAAAGATGTA
Found at i:27143255 original size:7 final size:7
Alignment explanation
Indices: 27143243--27143273 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
27143233 TAGAGTTCAG
27143243 GGTCCAA
1 GGTCCAA
27143250 GGTCCAA
1 GGTCCAA
27143257 GGTCCAA
1 GGTCCAA
27143264 GGTCCAA
1 GGTCCAA
27143271 GGT
1 GGT
27143274 TTAGGGTCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.26, C:0.26, G:0.32, T:0.16
Consensus pattern (7 bp):
GGTCCAA
Found at i:27143273 original size:48 final size:48
Alignment explanation
Indices: 27143183--27143278 Score: 129
Period size: 48 Copynumber: 2.0 Consensus size: 48
27143173 TGAACCATGA
* * **
27143183 TCTAGGGTTCAAGGTCCAAGGCCCATGGTCCAAGGTGTAAGGTCTAGG
1 TCTAGAGTTCAAGGTCCAAGGCCCAAGGTCCAAGGTCCAAGGTCTAGG
* * *
27143231 TCTAGAGTTCAGGGTCCAAGGTCCAAGGTCCAAGGTCCAAGGTTTAGG
1 TCTAGAGTTCAAGGTCCAAGGCCCAAGGTCCAAGGTCCAAGGTCTAGG
27143279 GTCCATAGTA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.23
Consensus pattern (48 bp):
TCTAGAGTTCAAGGTCCAAGGCCCAAGGTCCAAGGTCCAAGGTCTAGG
Found at i:27143283 original size:21 final size:21
Alignment explanation
Indices: 27143192--27143273 Score: 69
Period size: 21 Copynumber: 4.0 Consensus size: 21
27143182 ATCTAGGGTT
* *
27143192 CAAGGTCCAAGGCCCATGGTC
1 CAAGGTCCAAGGTCCAAGGTC
** *
27143213 CAAGGTGTAAGGT-CTAGGT-
1 CAAGGTCCAAGGTCCAAGGTC
* * *
27143232 CTAGAGTTCAGGGTCCAAGGTC
1 CAAG-GTCCAAGGTCCAAGGTC
27143254 CAAGGTCCAAGGTCCAAGGT
1 CAAGGTCCAAGGTCCAAGGT
27143274 TTAGGGTCCA
Statistics
Matches: 45, Mismatches: 13, Indels: 6
0.70 0.20 0.09
Matches are distributed among these distances:
19 3 0.07
20 10 0.22
21 29 0.64
22 3 0.07
ACGTcount: A:0.26, C:0.23, G:0.32, T:0.20
Consensus pattern (21 bp):
CAAGGTCCAAGGTCCAAGGTC
Found at i:27143318 original size:14 final size:14
Alignment explanation
Indices: 27143188--27143329 Score: 69
Period size: 14 Copynumber: 10.2 Consensus size: 14
27143178 CATGATCTAG
27143188 GGTTCAAGGTCCAA
1 GGTTCAAGGTCCAA
** *
27143202 GGCCCATGGTCCAA
1 GGTTCAAGGTCCAA
*
27143216 GGTGT-AAGGT-CTA
1 GGT-TCAAGGTCCAA
* * *
27143229 GG-TCTAGAGTTCAG
1 GGTTCAAG-GTCCAA
*
27143243 GGTCCAAGGTCCAA
1 GGTTCAAGGTCCAA
*
27143257 GGTCCAAGGTCCAA
1 GGTTCAAGGTCCAA
* *
27143271 GGTTTAGGGTCCATA
1 GGTTCAAGGTCCA-A
* *
27143286 -GTACAAGAT-CAA
1 GGTTCAAGGTCCAA
27143298 GGATTCAAGGTCCAA
1 GG-TTCAAGGTCCAA
* * *
27143313 TGTTCAGGGTTCAA
1 GGTTCAAGGTCCAA
27143327 GGT
1 GGT
27143330 CTAGAGTTGA
Statistics
Matches: 92, Mismatches: 27, Indels: 18
0.67 0.20 0.13
Matches are distributed among these distances:
11 1 0.01
12 3 0.03
13 9 0.10
14 71 0.77
15 8 0.09
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (14 bp):
GGTTCAAGGTCCAA
Found at i:27143958 original size:24 final size:25
Alignment explanation
Indices: 27143910--27143966 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 25
27143900 TAATATTAAA
27143910 ATATAAAATTAAATATTATATAATT
1 ATATAAAATTAAATATTATATAATT
*
27143935 ATATAATATT-AATATTCATA-AATT
1 ATATAAAATTAAATATT-ATATAATT
*
27143959 ATACAAAA
1 ATATAAAA
27143967 CTTATCATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 16 0.57
25 12 0.43
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (25 bp):
ATATAAAATTAAATATTATATAATT
Found at i:27148065 original size:26 final size:26
Alignment explanation
Indices: 27148036--27148089 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
27148026 ACGAGAAGGA
*
27148036 AGATGGGCCAACTAATGTGGACCGAC
1 AGATAGGCCAACTAATGTGGACCGAC
27148062 AGATAGGCCAACTAATGTGGACCGAC
1 AGATAGGCCAACTAATGTGGACCGAC
27148088 AG
1 AG
27148090 TTTGTGAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.33, C:0.22, G:0.30, T:0.15
Consensus pattern (26 bp):
AGATAGGCCAACTAATGTGGACCGAC
Found at i:27149101 original size:30 final size:30
Alignment explanation
Indices: 27149067--27149127 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
27149057 TTCTCGAGCC
27149067 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
* * * * *
27149097 TAGGGGCAAAATTGTAATTTTGCCAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
27149127 T
1 T
27149128 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAAATATGCAAAAGTT
Found at i:27158438 original size:50 final size:51
Alignment explanation
Indices: 27158374--27158510 Score: 199
Period size: 50 Copynumber: 2.7 Consensus size: 51
27158364 GATCATAGCA
* * *
27158374 ACAAATGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAAGACAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCAGATCAAAGACAAATG
*
27158425 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCAGATCAAGGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCAGATCAAAGACAAATG
*
27158475 ACAAGTGGA-AAGTGATAGCTTCGGCTAC-CTGATCAG
1 ACAAGT-GATAAGTGATAGCTTCGGCTACACTTATCAG
27158511 TGAAAAGTGG
Statistics
Matches: 79, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
50 53 0.67
51 24 0.30
52 2 0.03
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.24
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCAGATCAAAGACAAATG
Found at i:27158525 original size:31 final size:31
Alignment explanation
Indices: 27158478--27158626 Score: 226
Period size: 31 Copynumber: 4.8 Consensus size: 31
27158468 ACAAATGACA
* *
27158478 AGTGGAAAGTGATAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
27158509 AGTGAAAAGTGGTAGCTTCTGCTACTTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
27158540 AGTGAAAAGTGGTAGCTCCGACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
27158571 AGTGAAAAATGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
27158602 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
27158627 AAGTGACAAG
Statistics
Matches: 105, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 105 1.00
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:27158712 original size:47 final size:47
Alignment explanation
Indices: 27158643--27158766 Score: 169
Period size: 47 Copynumber: 2.7 Consensus size: 47
27158633 CAAGTGATTT
* *
27158643 CTGTATAAGACCATATCTGGGATATGGCATCAGTGTGATATATGCTA
1 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
* *
27158690 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
* * * *
27158737 C-GTGTAAGACCATAGCTGGGCTATGACATC
1 CTGTATAAGACCATATCTGGGATATGGCATC
27158767 GATATATAAA
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
46 25 0.36
47 44 0.64
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (47 bp):
CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
Found at i:27158799 original size:42 final size:43
Alignment explanation
Indices: 27158738--27158852 Score: 144
Period size: 42 Copynumber: 2.7 Consensus size: 43
27158728 TATGTGATTC
* * *
27158738 GTGTAAGACCATAGCTGGGCTATGACATCGA-TATATAAATAT
1 GTGTAAGACCATAGTTGGGCTATGGCATCGATTATATAAAGAT
* *
27158780 GTGTAAGACCATAGTTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGTTGGGCTATGGCATCGATTATATAAAGAT
* **
27158822 GTGTAAGAACATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGTTGGGCTATGGCATCGA
27158853 GAAAACGAAG
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
41 1 0.02
42 61 0.97
43 1 0.02
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCATAGTTGGGCTATGGCATCGATTATATAAAGAT
Found at i:27163191 original size:43 final size:42
Alignment explanation
Indices: 27163144--27163244 Score: 130
Period size: 42 Copynumber: 2.4 Consensus size: 42
27163134 CCTAGACGTG
* * * *
27163144 GTCTTACATGCAATCAAATATCTATGCCACTATCCCAGACAGA
1 GTCTTACATGAAATCAAATA-CGATGCCAATATCACAGACAGA
* *
27163187 GTCTTACATGAAATCAAATACGATGCCAATGTCACAGACATA
1 GTCTTACATGAAATCAAATACGATGCCAATATCACAGACAGA
27163229 GTCTTACATGTAAATC
1 GTCTTACATG-AAATC
27163245 TCAAATCGAA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
42 27 0.53
43 24 0.47
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.27
Consensus pattern (42 bp):
GTCTTACATGAAATCAAATACGATGCCAATATCACAGACAGA
Found at i:27163226 original size:42 final size:41
Alignment explanation
Indices: 27163119--27163244 Score: 128
Period size: 43 Copynumber: 3.0 Consensus size: 41
27163109 CGAAAAGCTC
* *
27163119 ATACAATGCCAATGTCCTAGAC-GTGGTCTTACATGCAATCAA
1 ATACAATGCCAATGTCC-AGACAG-AGTCTTACATGAAATCAA
* * *
27163161 ATATCTATGCCACTATCCCAGACAGAGTCTTACATGAAATCAA
1 ATA-CAATGCCAATGT-CCAGACAGAGTCTTACATGAAATCAA
* *
27163204 ATACGATGCCAATGTCACAGACATAGTCTTACATGTAAATC
1 ATACAATGCCAATGTC-CAGACAGAGTCTTACATG-AAATC
27163245 TCAAATCGAA
Statistics
Matches: 70, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
41 1 0.01
42 29 0.41
43 37 0.53
44 3 0.04
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (41 bp):
ATACAATGCCAATGTCCAGACAGAGTCTTACATGAAATCAA
Found at i:27163280 original size:44 final size:42
Alignment explanation
Indices: 27163144--27163263 Score: 109
Period size: 42 Copynumber: 2.8 Consensus size: 42
27163134 CCTAGACGTG
* * * * * *
27163144 GTCTTACATGCAATCAAATATCTATGCC-ACTATCCCAGACAGA
1 GTCTTACATGAAATCAAATA-CGAAGCCAAC-GTCACAGACATA
* *
27163187 GTCTTACATGAAATCAAATACGATGCCAATGTCACAGACATA
1 GTCTTACATGAAATCAAATACGAAGCCAACGTCACAGACATA
27163229 GTCTTACATGTAAATCTCAAAT-CGAAGCCAACGTC
1 GTCTTACATG-AAA--TCAAATACGAAGCCAACGTC
27163264 TTAGACGTGG
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
42 25 0.38
43 23 0.35
44 11 0.17
45 6 0.09
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.25
Consensus pattern (42 bp):
GTCTTACATGAAATCAAATACGAAGCCAACGTCACAGACATA
Found at i:27164996 original size:61 final size:61
Alignment explanation
Indices: 27164853--27164984 Score: 237
Period size: 61 Copynumber: 2.2 Consensus size: 61
27164843 TAGTACAGCA
* *
27164853 TGGTGTGTAGGGATGGGTGGGTCGATTTTATCCCTACATAGTGTGTAGGGTTGGACGGCGT
1 TGGTGTGTAAGGATGGGTGGGTCGATTTTATCCCTACATAGTGTGTAGGGTTGGACGGAGT
*
27164914 TGGTGTGTAAGGATGGGTGGGTCGATTTTATCCCTACATGGTGTGTAGGGTTGGACGGAGT
1 TGGTGTGTAAGGATGGGTGGGTCGATTTTATCCCTACATAGTGTGTAGGGTTGGACGGAGT
27164975 TGGTGTGTAA
1 TGGTGTGTAA
27164985 AGGCTGGTGG
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
61 68 1.00
ACGTcount: A:0.16, C:0.10, G:0.41, T:0.33
Consensus pattern (61 bp):
TGGTGTGTAAGGATGGGTGGGTCGATTTTATCCCTACATAGTGTGTAGGGTTGGACGGAGT
Found at i:27188250 original size:38 final size:37
Alignment explanation
Indices: 27188216--27188363 Score: 165
Period size: 38 Copynumber: 3.9 Consensus size: 37
27188206 GCAGGCTATA
*
27188216 TGCTGGAATTATATCTAGGTTAAATCCCGTAGGCTTCG
1 TGCTGGAATTATATCT-GGTTAAATCCCGCAGGCTTCG
*
27188254 TGCTGGTAA-TATATCCGGGTTAAATCCCGCAGGCTTCG
1 TGCTGG-AATTATAT-CTGGTTAAATCCCGCAGGCTTCG
* * *
27188292 TGCTGGTATTATATCCTGGTTAAATCCCGC-GGCCTGG
1 TGCTGGAATTATAT-CTGGTTAAATCCCGCAGGCTTCG
*
27188329 TGCTGGTATTATATCTGAGCTTAAAGTCCCGCAGG
1 TGCTGGAATTATATCTG-G-TTAAA-TCCCGCAGG
27188364 TTTTTGTGCT
Statistics
Matches: 97, Mismatches: 6, Indels: 12
0.84 0.05 0.10
Matches are distributed among these distances:
36 3 0.03
37 21 0.22
38 62 0.64
39 9 0.09
40 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.32
Consensus pattern (37 bp):
TGCTGGAATTATATCTGGTTAAATCCCGCAGGCTTCG
Found at i:27188296 original size:76 final size:77
Alignment explanation
Indices: 27188187--27188363 Score: 200
Period size: 76 Copynumber: 2.3 Consensus size: 77
27188177 ATTTGATGTG
* * * *
27188187 TATCCGGGCTTAAAGACCTGCAGGCTAT-ATGCTGGAATTATAT-CTAGGTTAAATCCCGTAGGC
1 TATCCGAGCTTAAAGTCCCGCAGGCT-TCGTGCTGGAATTATATCCT-GGTTAAATCCCG-AGGC
*
27188250 TTCGTGCTGGTAATA
63 CTCGTGCTGGTAATA
* * * *
27188265 TATCCG-GGTTAAA-TCCCGCAGGCTTCGTGCTGGTATTATATCCTGGTTAAATCCCGCGGCCTG
1 TATCCGAGCTTAAAGTCCCGCAGGCTTCGTGCTGGAATTATATCCTGGTTAAATCCCGAGGCCTC
*
27188328 GTGCTGGTATTA
66 GTGCTGGTAATA
*
27188340 TATCTGAGCTTAAAGTCCCGCAGG
1 TATCCGAGCTTAAAGTCCCGCAGG
27188364 TTTTTGTGCT
Statistics
Matches: 84, Mismatches: 11, Indels: 9
0.81 0.11 0.09
Matches are distributed among these distances:
75 21 0.25
76 40 0.48
77 17 0.20
78 6 0.07
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (77 bp):
TATCCGAGCTTAAAGTCCCGCAGGCTTCGTGCTGGAATTATATCCTGGTTAAATCCCGAGGCCTC
GTGCTGGTAATA
Found at i:27197278 original size:40 final size:40
Alignment explanation
Indices: 27197214--27197424 Score: 286
Period size: 40 Copynumber: 5.3 Consensus size: 40
27197204 CCTTTAGGAT
* *
27197214 TTAG-CCGGATATAG-CAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGAC
*
27197253 TTAGCCCGGATATAGTCACTAGCACAAAAGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGAC
* *
27197293 TTAGCCTGGATATAG-CAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGAC
* * * *
27197333 TTAGCCCGGGTATAGTCAATAGCACAACTACCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGAC
*
27197373 TTAGCCCGGATATAGTCACTAGCAC-CATGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGAC
27197412 TTAGCCCGGATAT
1 TTAGCCCGGATAT
27197425 CATCCGAATA
Statistics
Matches: 151, Mismatches: 17, Indels: 8
0.86 0.10 0.05
Matches are distributed among these distances:
39 29 0.19
40 120 0.79
41 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGAC
Found at i:27200024 original size:38 final size:38
Alignment explanation
Indices: 27199977--27200149 Score: 188
Period size: 38 Copynumber: 4.5 Consensus size: 38
27199967 GGCTTAAAGA
*
27199977 CCCGCAGGCTAT-ATGCTGGAATTATATCCGGGTTAAAT
1 CCCGCAGGCT-TCGTGCTGGAATTATATCCGGGTTAAAT
*
27200015 CCCGTAGGCTTCGTGCTGGTAA-TATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGG-AATTATATCCGGGTTAAAT
* *
27200053 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAACT
1 CCCGCAGGCTTCGTGCTGGAATTATATCCGGGTTAAAT
* * * * * *
27200091 CCCGTAGGCCTAGTGCTGGTATTATATCTGAGCTTAAAGT
1 CCCGCAGGCTTCGTGCTGGAATTATATCCG-GGTTAAA-T
* *
27200131 CCCGCAGGTTTTGTGCTGG
1 CCCGCAGGCTTCGTGCTGG
27200150 TGACTAGATT
Statistics
Matches: 115, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
37 2 0.02
38 90 0.78
39 7 0.06
40 16 0.14
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.31
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGAATTATATCCGGGTTAAAT
Found at i:27200071 original size:76 final size:77
Alignment explanation
Indices: 27199968--27200149 Score: 233
Period size: 76 Copynumber: 2.4 Consensus size: 77
27199958 GTGTATCTGG
* * * *
27199968 GCTTAAAGACCCGCAGGCTATATGCTGGAATTATATCCGGGTTAAATCCCGTAGGCTTCGTGCTG
1 GCTTAAAGTCCCGCAGGCT-TGTGCTGGAATTATATCCGGGTTAAATCCCGTAGGCCTAGTGCTG
27200033 GTAATATATCCG-
65 GTAATATATCCGA
* * *
27200045 GGTTAAA-TCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAACTCCCGTAGGCCTAGTGCTG
1 GCTTAAAGTCCCGCAGGCTT-GTGCTGGAATTATATCCGGGTTAAATCCCGTAGGCCTAGTGCTG
* *
27200109 GTATTATATCTGA
65 GTAATATATCCGA
*
27200122 GCTTAAAGTCCCGCAGGTTTTGTGCTGG
1 GCTTAAAGTCCCGCAGG-CTTGTGCTGG
27200150 TGACTAGATT
Statistics
Matches: 90, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
75 1 0.01
76 59 0.66
77 12 0.13
78 16 0.18
79 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (77 bp):
GCTTAAAGTCCCGCAGGCTTGTGCTGGAATTATATCCGGGTTAAATCCCGTAGGCCTAGTGCTGG
TAATATATCCGA
Found at i:27201872 original size:47 final size:47
Alignment explanation
Indices: 27201801--27202158 Score: 554
Period size: 47 Copynumber: 7.6 Consensus size: 47
27201791 CCCTTCGGGA
* * * * *
27201801 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
27201848 CCTATCACATATATACACTCTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
27201895 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
27201942 CTTATCACATATATACACTTTCACATTCATCACATCGACTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
27201989 CTTATCACATATATACACTTTCACATTCATCATATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
27202036 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
27202083 CTTATCAAATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATC--ACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
27202132 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
27202159 TATTCAAATA
Statistics
Matches: 288, Mismatches: 21, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
47 243 0.84
49 45 0.16
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:27201880 original size:25 final size:24
Alignment explanation
Indices: 27201851--27201929 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 24
27201841 ACTCGGCCCT
27201851 ATCACATATATACACTCTCACATTC
1 ATCACATATATACACT-TCACATTC
*** * *
27201876 ATCACAT-TGGCCA-TTCGGCCTT-
1 ATCACATATATACACTTC-ACATTC
27201898 ATCACATATATACACTTTCACATTC
1 ATCACATATATACAC-TTCACATTC
27201923 ATCACAT
1 ATCACAT
27201930 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 9 0.23
23 7 0.18
24 6 0.15
25 17 0.44
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.33
Consensus pattern (24 bp):
ATCACATATATACACTTCACATTC
Found at i:27207548 original size:14 final size:14
Alignment explanation
Indices: 27207529--27207567 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
27207519 CATTAGGTAA
27207529 ATAATATAAATGTT
1 ATAATATAAATGTT
27207543 ATAATATAACAT-TT
1 ATAATATAA-ATGTT
27207557 ATAATA-AAATG
1 ATAATATAAATG
27207568 ATGTTCATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 2 0.09
13 2 0.09
14 17 0.74
15 2 0.09
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (14 bp):
ATAATATAAATGTT
Found at i:27211612 original size:30 final size:30
Alignment explanation
Indices: 27211578--27211638 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
27211568 TCCTTAACTC
27211578 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
27211608 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
27211638 A
1 A
27211639 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:27215042 original size:38 final size:39
Alignment explanation
Indices: 27214990--27215070 Score: 101
Period size: 39 Copynumber: 2.1 Consensus size: 39
27214980 GTCTGAACTA
* * * * *
27214990 AAAACATGTGTTAAAGATGT-CTGAACTAAGACATATTT
1 AAAACATATATTAAAGATATCCTAAACTAAGACATAATT
*
27215028 AAAACATATATTAAAGATATCCTAAACTATGACATAATT
1 AAAACATATATTAAAGATATCCTAAACTAAGACATAATT
27215067 AAAA
1 AAAA
27215071 ACCCTTATGT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
38 17 0.47
39 19 0.53
ACGTcount: A:0.49, C:0.11, G:0.10, T:0.30
Consensus pattern (39 bp):
AAAACATATATTAAAGATATCCTAAACTAAGACATAATT
Found at i:27215453 original size:25 final size:25
Alignment explanation
Indices: 27215399--27215453 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
27215389 CGCGTCAGTG
27215399 TTGGCCATGTGTTTTGGTTGTTGAA
1 TTGGCCATGTGTTTTGGTTGTTGAA
* * * *
27215424 ATGGCTATTTGTTTTGGCTT-TTGAT
1 TTGGCCATGTGTTTTGG-TTGTTGAA
27215449 TTGGC
1 TTGGC
27215454 ACTTTGATAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
25 22 0.92
26 2 0.08
ACGTcount: A:0.11, C:0.09, G:0.29, T:0.51
Consensus pattern (25 bp):
TTGGCCATGTGTTTTGGTTGTTGAA
Found at i:27225770 original size:25 final size:24
Alignment explanation
Indices: 27225707--27225774 Score: 91
Period size: 24 Copynumber: 2.8 Consensus size: 24
27225697 ATTCCAAGCC
*
27225707 ACAGTTCATGAGAGCATACCGATT
1 ACAGCTCATGAGAGCATACCGATT
**
27225731 ACAGCTTGTGAGAGCATACCGATTT
1 ACAGCTCATGAGAGCATACCGA-TT
*
27225756 ACAGCTCATGTGAGCATAC
1 ACAGCTCATGAGAGCATAC
27225775 ATGTACAGGA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
24 19 0.51
25 18 0.49
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (24 bp):
ACAGCTCATGAGAGCATACCGATT
Found at i:27226593 original size:30 final size:30
Alignment explanation
Indices: 27226557--27226619 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
27226547 TAAGTTATTC
27226557 AATAGCTTGAATTTATGCAATCTGGATTGT
1 AATAGCTTGAATTTATGCAATCTGGATTGT
27226587 AATAGCTTGAATTTATGCAATCTGGATTGT
1 AATAGCTTGAATTTATGCAATCTGGATTGT
27226617 AAT
1 AAT
27226620 TTAGTTTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.40
Consensus pattern (30 bp):
AATAGCTTGAATTTATGCAATCTGGATTGT
Found at i:27237902 original size:40 final size:40
Alignment explanation
Indices: 27237824--27238004 Score: 249
Period size: 40 Copynumber: 4.5 Consensus size: 40
27237814 ACCCAAGTAT
* * *
27237824 CTTCGAGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
27237863 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
27237903 CTTCGGGACTTAGCCCGGATATAGTCATTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
27237943 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
27237983 CTTCGGGACTTAGCCTGGATAT
1 CTTCGGGACTTAGCCCGGATAT
27238005 TATCCGAATA
Statistics
Matches: 126, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 10 0.08
40 115 0.91
41 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:27247528 original size:69 final size:68
Alignment explanation
Indices: 27247388--27247528 Score: 178
Period size: 69 Copynumber: 2.0 Consensus size: 68
27247378 TTGAATTGCC
* **
27247388 TAAAACCCTAAATTCTTTTTCTTTAACAATAAAAAGACGATGAAGAAAGGAAAAAATTGGGAAAA
1 TAAAACCCTAAATTCTTTTTCTTTAACAATAAAAAGACAATGAAGAAAGGAAAAAATCAGGAAAA
27247453 CCAT
66 -CAT
* * *
27247457 TAAAACCCTAAA-TCTTTTTCTTCTAACAGTGAAGAGACAATGAGAGAAAGGAAAAAATCAGGAA
1 TAAAACCCTAAATTCTTTTTCTT-TAACAATAAAAAGACAATGA-AGAAAGGAAAAAATCAGGAA
27247521 GAA-AT
64 -AACAT
27247526 TAA
1 TAA
27247529 TTAACCCAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
68 10 0.16
69 33 0.52
70 18 0.29
71 2 0.03
ACGTcount: A:0.49, C:0.13, G:0.15, T:0.23
Consensus pattern (68 bp):
TAAAACCCTAAATTCTTTTTCTTTAACAATAAAAAGACAATGAAGAAAGGAAAAAATCAGGAAAA
CAT
Found at i:27249447 original size:29 final size:29
Alignment explanation
Indices: 27249414--27249470 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
27249404 AAATTGATTT
* *
27249414 TCAA-GCCTAAGGGTAAAATGGTCATTTTG
1 TCAAGGCCT-AGGGCAAAATGGTAATTTTG
*
27249443 TCAAGGTCTAGGGCAAAATGGTAATTTT
1 TCAAGGCCTAGGGCAAAATGGTAATTTT
27249471 AACAAAGAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 21 0.88
30 3 0.12
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.32
Consensus pattern (29 bp):
TCAAGGCCTAGGGCAAAATGGTAATTTTG
Found at i:27250002 original size:47 final size:45
Alignment explanation
Indices: 27249823--27250019 Score: 179
Period size: 46 Copynumber: 4.2 Consensus size: 45
27249813 TGTGAGAGCT
* * *
27249823 AGTGTAAGACCATGTCTGGGACATTGCATCGGCATTGAGACTAGT-GCT
1 AGTGTAAGACCATGTCTGGGACA-TGCATCGAC-TCGAGA-TA-TAGCC
27249871 AGTGTAAGA-CATGTCTGGGACATGCATCGACCTCGAGACGTA-AGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGA-CTCGAGA--TATAGCC
* * *
27249917 AGTGTAAGA-CATGTCT-GGAGCATGCGTCGGCTACGAGATAATAGTC
1 AGTGTAAGACCATGTCTGGGA-CATGCATCGACT-CGAGAT-ATAGCC
* *
27249963 AGTGTAAGACCATGTCTGGGACATGGCTTCGACTTGAGATATAAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGACTCGAGATAT-AGCC
27250010 AGTGTAAGAC
1 AGTGTAAGAC
27250020 TGTGTTTGGG
Statistics
Matches: 127, Mismatches: 11, Indels: 23
0.79 0.07 0.14
Matches are distributed among these distances:
44 1 0.01
45 6 0.05
46 57 0.45
47 44 0.35
48 19 0.15
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGACTCGAGATATAGCC
Found at i:27265890 original size:47 final size:48
Alignment explanation
Indices: 27265817--27265985 Score: 183
Period size: 46 Copynumber: 3.6 Consensus size: 48
27265807 CAATTGTTAG
* * *
27265817 AGCTAGTGTAAGACCATGTCTAGGACATGACATCGGCATTGAGACGAGT
1 AGCTAGTGTAAGACCATGTCTGGGACATG-CGTCGGCATCGAGACGAGT
27265866 A-CTAGTGTAAGA-CATGTCTGGGACATGCGTCGGCCA-CGAGAC--GT
1 AGCTAGTGTAAGACCATGTCTGGGACATGCGTCGG-CATCGAGACGAGT
* * *
27265910 AAGCCAGTGTAAGA-CATGTCTGGGACATGCGTCGAC-TACGAGATGA-T
1 -AGCTAGTGTAAGACCATGTCTGGGACATGCGTCGGCAT-CGAGACGAGT
*
27265957 AGTTAGTGTAAGACCATGTCTGGGACATG
1 AGCTAGTGTAAGACCATGTCTGGGACATG
27265986 GCTTTGACTT
Statistics
Matches: 104, Mismatches: 8, Indels: 18
0.80 0.06 0.14
Matches are distributed among these distances:
44 2 0.02
45 2 0.02
46 56 0.54
47 32 0.31
48 11 0.11
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.22
Consensus pattern (48 bp):
AGCTAGTGTAAGACCATGTCTGGGACATGCGTCGGCATCGAGACGAGT
Found at i:27266000 original size:47 final size:47
Alignment explanation
Indices: 27265869--27266028 Score: 184
Period size: 46 Copynumber: 3.4 Consensus size: 47
27265859 GACGAGTACT
* * **
27265869 AGTGTAAGA-CATGTCTGGGACATGCGTCGGCCACGAGACGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCGTCGACTACGAGATATAAGCC
**
27265915 AGTGTAAGA-CATGTCTGGGACATGCGTCGACTACGAGATGAT-AGTT
1 AGTGTAAGACCATGTCTGGGACATGCGTCGACTACGAGAT-ATAAGCC
* * *
27265961 AGTGTAAGACCATGTCTGGGACATGGCTTTGACT-TGAGATATAAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCGTCGACTACGAGATATAAGCC
*
27266008 AGTGTAAGACCGTGTCTGGGA
1 AGTGTAAGACCATGTCTGGGA
27266029 TATGACATCG
Statistics
Matches: 98, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
46 49 0.50
47 42 0.43
48 7 0.07
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGCGTCGACTACGAGATATAAGCC
Found at i:27269592 original size:14 final size:15
Alignment explanation
Indices: 27269575--27269603 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
27269565 AAGTATGGTA
27269575 AAATA-TTAAAAAAT
1 AAATATTTAAAAAAT
27269589 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
27269604 TACTAATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:27270604 original size:25 final size:28
Alignment explanation
Indices: 27270552--27270607 Score: 73
Period size: 25 Copynumber: 2.1 Consensus size: 28
27270542 TAAATTTTCA
* *
27270552 AAAAAATTAGTCTATTTTTATAATATTT
1 AAAAAATGAGTCTATTTTTATAAAATTT
27270580 AAAAAATGA-TCT-TTTTTA-AAAATTT
1 AAAAAATGAGTCTATTTTTATAAAATTT
27270605 AAA
1 AAA
27270608 CCTGAGCTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 9 0.35
26 6 0.23
27 3 0.12
28 8 0.31
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.45
Consensus pattern (28 bp):
AAAAAATGAGTCTATTTTTATAAAATTT
Found at i:27272114 original size:16 final size:15
Alignment explanation
Indices: 27272083--27272126 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 15
27272073 GGCATGTCAC
27272083 ATTAAAAAAATTTTAAA
1 ATTAAAAAAA--TTAAA
27272100 ATATAAAAAAATTAAA
1 AT-TAAAAAAATTAAA
*
27272116 ATTAATAAAAT
1 ATTAAAAAAAT
27272127 CATATATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 8 0.32
16 7 0.28
17 2 0.08
18 8 0.32
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
ATTAAAAAAATTAAA
Found at i:27272123 original size:18 final size:17
Alignment explanation
Indices: 27272085--27272126 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
27272075 CATGTCACAT
27272085 TAAAAAAATTTTAAAATA
1 TAAAAAAA-TTTAAAATA
27272103 TAAAAAAA-TTAAAAT-
1 TAAAAAAATTTAAAATA
*
27272118 TAATAAAAT
1 TAAAAAAAT
27272127 CATATATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 7 0.32
16 7 0.32
18 8 0.36
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
TAAAAAAATTTAAAATA
Found at i:27278283 original size:14 final size:15
Alignment explanation
Indices: 27278266--27278294 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
27278256 GCACAAAAAT
27278266 TTCACACAT-ATAAA
1 TTCACACATAATAAA
27278280 TTCACACATAATAAA
1 TTCACACATAATAAA
27278295 CATAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:27281993 original size:63 final size:63
Alignment explanation
Indices: 27281912--27282035 Score: 194
Period size: 63 Copynumber: 2.0 Consensus size: 63
27281902 ACATCCTTAA
* *
27281912 TTGTTTACTTGTTTAGTTAAATATTATTCATATAATCTTTTTCATAATTGCCATTGCATTTAG
1 TTGTTTACTTGTTCAGTTAAATATTATTCATATAATCATTTTCATAATTGCCATTGCATTTAG
* * * *
27281975 TTGTTTACTTGTTCAGTTACATCTTATTCATATACTCATTTTCTTAATTGCCATTGCATTT
1 TTGTTTACTTGTTCAGTTAAATATTATTCATATAATCATTTTCATAATTGCCATTGCATTT
27282036 TTACTCTTGC
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
63 55 1.00
ACGTcount: A:0.24, C:0.15, G:0.09, T:0.52
Consensus pattern (63 bp):
TTGTTTACTTGTTCAGTTAAATATTATTCATATAATCATTTTCATAATTGCCATTGCATTTAG
Found at i:27282515 original size:18 final size:18
Alignment explanation
Indices: 27282489--27282531 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
27282479 AAAAGCTGTT
*
27282489 TTTACATATATTAATAAA
1 TTTATATATATTAATAAA
27282507 TTTATATATATTAATAAA
1 TTTATATATATTAATAAA
27282525 TTTATAT
1 TTTATAT
27282532 TTTAAATTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTATATATATTAATAAA
Found at i:27282593 original size:14 final size:14
Alignment explanation
Indices: 27282574--27282641 Score: 52
Period size: 14 Copynumber: 4.9 Consensus size: 14
27282564 TATTTATAAA
*
27282574 TAAATAAATCAAAT
1 TAAATATATCAAAT
*
27282588 TAAATATATAATAAT
1 TAAATATATCA-AAT
*
27282603 ACTTAAT-TAT-AAA-
1 --TAAATATATCAAAT
*
27282616 TAAATAAATCAAAT
1 TAAATATATCAAAT
27282630 TAAATATATCAA
1 TAAATATATCAA
27282642 TCAAATGGTT
Statistics
Matches: 42, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
11 4 0.10
12 2 0.05
13 3 0.07
14 22 0.52
15 4 0.10
16 3 0.07
17 4 0.10
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (14 bp):
TAAATATATCAAAT
Found at i:27282593 original size:18 final size:18
Alignment explanation
Indices: 27282570--27282647 Score: 66
Period size: 18 Copynumber: 4.0 Consensus size: 18
27282560 GATTTATTTA
27282570 TAAATAAATAAATCAAAT
1 TAAATAAATAAATCAAAT
* *
27282588 TAAATATATAATAATACTTAATT
1 T-AA-ATA-AATAA-A-TCAAAT
27282611 ATAAATAAATAAATCAAAT
1 -TAAATAAATAAATCAAAT
* *
27282630 TAAATATATCAATCAAAT
1 TAAATAAATAAATCAAAT
27282648 GGTTTAATTG
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
18 17 0.35
19 6 0.12
20 4 0.08
21 10 0.21
22 4 0.08
23 6 0.12
24 1 0.02
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAATAAATAAATCAAAT
Found at i:27285159 original size:6 final size:6
Alignment explanation
Indices: 27285148--27285195 Score: 87
Period size: 6 Copynumber: 8.0 Consensus size: 6
27285138 AAGGATGGGA
*
27285148 GAAGGG GAAGGG GAAAGG GAAGGG GAAGGG GAAGGG GAAGGG GAAGGG
1 GAAGGG GAAGGG GAAGGG GAAGGG GAAGGG GAAGGG GAAGGG GAAGGG
27285196 AAGATTGGTG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (6 bp):
GAAGGG
Found at i:27294311 original size:19 final size:19
Alignment explanation
Indices: 27294287--27294324 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
27294277 CTCAACTTGC
*
27294287 CTTTTCTACCGAATATCAA
1 CTTTTCCACCGAATATCAA
*
27294306 CTTTTCCACCGAATCTCAA
1 CTTTTCCACCGAATATCAA
27294325 AACCTTCTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.32, G:0.05, T:0.34
Consensus pattern (19 bp):
CTTTTCCACCGAATATCAA
Found at i:27299132 original size:35 final size:35
Alignment explanation
Indices: 27299093--27299190 Score: 124
Period size: 35 Copynumber: 2.8 Consensus size: 35
27299083 TATATGATCG
* *
27299093 AATATACAAGCTCAATATAACATCACATGAAGTCA
1 AATATACAAGTTCAATATAACATCACATGAAGCCA
* ** **
27299128 AATATTCAAGTTTGATATAACATCACATGTGGCCA
1 AATATACAAGTTCAATATAACATCACATGAAGCCA
*
27299163 AATATACAAGTTCAATATATCATCACAT
1 AATATACAAGTTCAATATAACATCACAT
27299191 ATGTACATAC
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 52 1.00
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (35 bp):
AATATACAAGTTCAATATAACATCACATGAAGCCA
Found at i:27303748 original size:43 final size:43
Alignment explanation
Indices: 27303700--27303783 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 43
27303690 ATCACATGTA
*
27303700 TCGCATCCATTATCAACTTGGACCACTCAACGAGCTCGGATGC
1 TCGCATCCATAATCAACTTGGACCACTCAACGAGCTCGGATGC
*
27303743 TCGCATCCATAATGAACTTGGACCACTCAACGAGCTCGGAT
1 TCGCATCCATAATCAACTTGGACCACTCAACGAGCTCGGAT
27303784 TCCACATATA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (43 bp):
TCGCATCCATAATCAACTTGGACCACTCAACGAGCTCGGATGC
Found at i:27304398 original size:8 final size:8
Alignment explanation
Indices: 27304385--27304410 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
27304375 TATTACTACT
27304385 CACTTTTA
1 CACTTTTA
27304393 CACTTTTA
1 CACTTTTA
27304401 CACTTTTA
1 CACTTTTA
27304409 CA
1 CA
27304411 AACAAGTCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.46
Consensus pattern (8 bp):
CACTTTTA
Found at i:27305167 original size:21 final size:22
Alignment explanation
Indices: 27305122--27305173 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
27305112 AAGGTATAAG
* *
27305122 TTATGTGGTAGTTTATCTACGA
1 TTATGTGGTAGTTTATCGACAA
*
27305144 TTATGTGGTCG-TTATCGACAA
1 TTATGTGGTAGTTTATCGACAA
*
27305165 TTATTTGGT
1 TTATGTGGT
27305174 GGCTTGTCCA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 16 0.62
22 10 0.38
ACGTcount: A:0.21, C:0.10, G:0.23, T:0.46
Consensus pattern (22 bp):
TTATGTGGTAGTTTATCGACAA
Found at i:27309544 original size:39 final size:39
Alignment explanation
Indices: 27309476--27309756 Score: 445
Period size: 39 Copynumber: 7.2 Consensus size: 39
27309466 CCCGAAATTT
* *
27309476 TATTACCAGCACAAAGCCTGCGGGACTTTAGCCCGGATA
1 TATTTCCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATA
*
27309515 TATTTCCAGCACAAAGCCTGTGGGTCTTTAGCCCGGATA
1 TATTTCCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATA
* * * *
27309554 CATTTCCAGCACGAAGCCTGCGAGTCTTTGGCCCGGATA
1 TATTTCCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATA
*
27309593 TATTTCCAGCACAAAGCCTGCGGGACTTTAGCCCGGATA
1 TATTTCCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATA
*
27309632 CATTTCCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATA
1 TATTTCCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATA
* * *
27309671 CATTTCCAGCACGAAGCCTGCGGGTCTTTGGCCCGGATA
1 TATTTCCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATA
*
27309710 TATTTCCAGCACAAAGCTTGCGGGTCTTTAGCCCGGATA
1 TATTTCCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATA
27309749 TATTTCCA
1 TATTTCCA
27309757 TACACATTTC
Statistics
Matches: 221, Mismatches: 21, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 221 1.00
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
TATTTCCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATA
Found at i:27309687 original size:117 final size:117
Alignment explanation
Indices: 27309476--27309756 Score: 508
Period size: 117 Copynumber: 2.4 Consensus size: 117
27309466 CCCGAAATTT
* *
27309476 TATTACCAGCACAAAGCCTGCGGGACTTTAGCCCGGATATATTTCCAGCACAAAGCCTGTGGGTC
1 TATTTCCAGCACAAAGCCTGCGGGACTTTAGCCCGGATATATTTCCAGCACAAAGCCTGCGGGTC
27309541 TTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGAGTCTTTGGCCCGGATA
66 TTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGAGTCTTTGGCCCGGATA
*
27309593 TATTTCCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACAAAGCCTGCGGGTC
1 TATTTCCAGCACAAAGCCTGCGGGACTTTAGCCCGGATATATTTCCAGCACAAAGCCTGCGGGTC
*
27309658 TTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGTCTTTGGCCCGGATA
66 TTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGAGTCTTTGGCCCGGATA
* *
27309710 TATTTCCAGCACAAAGCTTGCGGGTCTTTAGCCCGGATATATTTCCA
1 TATTTCCAGCACAAAGCCTGCGGGACTTTAGCCCGGATATATTTCCA
27309757 TACACATTTC
Statistics
Matches: 157, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
117 157 1.00
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (117 bp):
TATTTCCAGCACAAAGCCTGCGGGACTTTAGCCCGGATATATTTCCAGCACAAAGCCTGCGGGTC
TTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGAGTCTTTGGCCCGGATA
Found at i:27318918 original size:11 final size:11
Alignment explanation
Indices: 27318902--27318926 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
27318892 ATTTGTTTGA
27318902 TGTTTATTTTT
1 TGTTTATTTTT
27318913 TGTTTATTTTT
1 TGTTTATTTTT
27318924 TGT
1 TGT
27318927 GTGTTTTTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.00, G:0.12, T:0.80
Consensus pattern (11 bp):
TGTTTATTTTT
Found at i:27325724 original size:31 final size:30
Alignment explanation
Indices: 27325689--27325754 Score: 96
Period size: 31 Copynumber: 2.2 Consensus size: 30
27325679 TCCCAGACGT
* *
27325689 GGTCTTACATGTAATCAAATATCGATGCCAA
1 GGTCTTACATGAAATCAAATA-CGACGCCAA
27325720 GGTCTTACATGAAATCAAATACGACGCCAA
1 GGTCTTACATGAAATCAAATACGACGCCAA
*
27325750 CGTCT
1 GGTCT
27325755 CAGACGTGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 12 0.38
31 20 0.62
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.26
Consensus pattern (30 bp):
GGTCTTACATGAAATCAAATACGACGCCAA
Found at i:27325803 original size:44 final size:44
Alignment explanation
Indices: 27325720--27325860 Score: 198
Period size: 44 Copynumber: 3.2 Consensus size: 44
27325710 TCGATGCCAA
* * *
27325720 GGTCTTACATG-AAATCA-AA-TACGACGCCAACGTCTCAGACGT
1 GGTCTTACACGTAAATCATAAGT-CGATGCCAACGTCCCAGACGT
*
27325762 GGTCTTACACGTAAATCATAAGTCGATGCCAACATCCCAGACGT
1 GGTCTTACACGTAAATCATAAGTCGATGCCAACGTCCCAGACGT
* *
27325806 GGTCTTACATGTAAATCATAAGTCGATTCCAACGTCCCAGACGT
1 GGTCTTACACGTAAATCATAAGTCGATGCCAACGTCCCAGACGT
27325850 GGTCTTACACG
1 GGTCTTACACG
27325861 ATAACACATA
Statistics
Matches: 88, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
42 10 0.11
43 6 0.07
44 71 0.81
45 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.24
Consensus pattern (44 bp):
GGTCTTACACGTAAATCATAAGTCGATGCCAACGTCCCAGACGT
Found at i:27329249 original size:42 final size:42
Alignment explanation
Indices: 27329201--27329310 Score: 141
Period size: 43 Copynumber: 2.6 Consensus size: 42
27329191 TTTGAGATTA
*
27329201 CATGTAAGACCATATCTGGGATATGACATCGATATGAGA-CTT
1 CATGTAAGACCATATCTGGGATATGACATCGATATGAGATC-C
* * * * *
27329243 CGTGTAAGACCATAGCTAGGCTATTGGCATCGATATGAGATCC
1 CATGTAAGACCATATCTGGGATA-TGACATCGATATGAGATCC
27329286 CATGTAAGACCATATCTGGGATATG
1 CATGTAAGACCATATCTGGGATATG
27329311 GCATTGGTAT
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
42 21 0.38
43 34 0.61
44 1 0.02
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (42 bp):
CATGTAAGACCATATCTGGGATATGACATCGATATGAGATCC
Found at i:27334014 original size:34 final size:34
Alignment explanation
Indices: 27333943--27334014 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
27333933 GCATTTCTGT
* * *
27333943 TACTGTTACTGTAATAGGCTAAGGCCTACACTGA
1 TACTATTACTGTAATAGGCTAAGCCCTACACTAA
* *
27333977 TACTATTACTGTAATGGGCTATTGCCCTA-ACTAA
1 TACTATTACTGTAATAGGCTA-AGCCCTACACTAA
27334011 TACT
1 TACT
27334015 GGATTGTCAC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
34 27 0.84
35 5 0.16
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (34 bp):
TACTATTACTGTAATAGGCTAAGCCCTACACTAA
Found at i:27338990 original size:100 final size:100
Alignment explanation
Indices: 27338886--27339072 Score: 277
Period size: 100 Copynumber: 1.9 Consensus size: 100
27338876 ATGAAGGTAT
* * * * *
27338886 GCACAAATGTGATATTATATTTGAAT-TTGTATATTCAGCCATATAAGTAAATACTTATGTAATG
1 GCACAAATGTGATATTAAATTTG-ATCTTGCATATTCAGCCATATAAGTAAACACATATGTAATA
27338950 TTAAATTTGATCTTGCATATTCGACAATATAGATAA
65 TTAAATTTGATCTTGCATATTCGACAATATAGATAA
* * *
27338986 GCACATATGTGATATTAAATTTGATCTTGCATATTCAGCCATATAAGTAAGCACATATGTGATAT
1 GCACAAATGTGATATTAAATTTGATCTTGCATATTCAGCCATATAAGTAAACACATATGTAATAT
*
27339051 TAAATTTGATCTTGTATATTCG
66 TAAATTTGATCTTGCATATTCG
27339073 GCCAAATAAG
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
99 2 0.03
100 75 0.97
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (100 bp):
GCACAAATGTGATATTAAATTTGATCTTGCATATTCAGCCATATAAGTAAACACATATGTAATAT
TAAATTTGATCTTGCATATTCGACAATATAGATAA
Found at i:27339082 original size:50 final size:50
Alignment explanation
Indices: 27338811--27339083 Score: 241
Period size: 50 Copynumber: 5.5 Consensus size: 50
27338801 GCTAAATGAC
* * * * * **
27338811 CTTGTATATTCGGCCACATAGGTATGTACATATGTGATGTTGTATTTGAT
1 CTTGTATATTCGGCCAAATAAGTAAGCACATATGTGATATTAAATTTGAT
* * * * * *
27338861 TTTGAATATTAGGCC--ATGAAGGTATGCACAAATGTGATATTATATTTGAAT
1 CTTGTATATTCGGCCAAAT-AA-GTAAGCACATATGTGATATTAAATTTG-AT
* * ** * * *
27338912 -TTGTATATTCAGCCATATAAGTAAATACTTATGTAATGTTAAATTTGAT
1 CTTGTATATTCGGCCAAATAAGTAAGCACATATGTGATATTAAATTTGAT
* *
27338961 CTTGCATATTC-GAC-AATATAGATAAGCACATATGTGATATTAAATTTGAT
1 CTTGTATATTCGGCCAAATA-AG-TAAGCACATATGTGATATTAAATTTGAT
* * *
27339011 CTTGCATATTCAGCCATATAAGTAAGCACATATGTGATATTAAATTTGAT
1 CTTGTATATTCGGCCAAATAAGTAAGCACATATGTGATATTAAATTTGAT
27339061 CTTGTATATTCGGCCAAATAAGT
1 CTTGTATATTCGGCCAAATAAGT
27339084 GATGTTGGTA
Statistics
Matches: 181, Mismatches: 32, Indels: 20
0.78 0.14 0.09
Matches are distributed among these distances:
48 5 0.03
49 7 0.04
50 156 0.86
51 8 0.04
52 5 0.03
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.38
Consensus pattern (50 bp):
CTTGTATATTCGGCCAAATAAGTAAGCACATATGTGATATTAAATTTGAT
Found at i:27346524 original size:50 final size:50
Alignment explanation
Indices: 27346415--27346627 Score: 223
Period size: 50 Copynumber: 4.3 Consensus size: 50
27346405 GCTAAATGAC
* * * * * ** *
27346415 CTTGTATATTCGACCACATAGGTATGTACATATGTGATGTTGTATTGGAT
1 CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTAAATTTGAT
** * * * *
27346465 CTTAAATATTCAGCCATGA-AGGTATGCACAAATGTGATATTATATTTGAAT
1 CTTGTATATTCGGCCAT-ATAGGTAAGCACATATGTGATATTAAATTTG-AT
* *
27346516 -TTGTATATTCGGCCATATAAGTAAGGACATATGTGATATTAAATTTGAT
1 CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTAAATTTGAT
* * *
27346565 CTTGCATATTTGGCCATATTGGTAAGCACATATGTGATATTAAATTTGAT
1 CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTAAATTTGAT
27346615 CTTGTATATTCGG
1 CTTGTATATTCGG
27346628 TAAAATGAGT
Statistics
Matches: 134, Mismatches: 25, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
49 3 0.02
50 128 0.96
51 3 0.02
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (50 bp):
CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTAAATTTGAT
Found at i:27361325 original size:25 final size:27
Alignment explanation
Indices: 27361268--27361325 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 27
27361258 TTTTCTCTTA
*
27361268 AATTTTAATTTTATTCAATTAATTAAT
1 AATTTTAATTTCATTCAATTAATTAAT
** *
27361295 TTTTTTAA-TTCATTGAATT-ATTAAT
1 AATTTTAATTTCATTCAATTAATTAAT
27361320 AATTTT
1 AATTTT
27361326 TATTAAATCT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
25 10 0.40
26 9 0.36
27 6 0.24
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (27 bp):
AATTTTAATTTCATTCAATTAATTAAT
Found at i:27361325 original size:26 final size:27
Alignment explanation
Indices: 27361270--27361327 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
27361260 TTCTCTTAAA
* *
27361270 TTTTAATTTTATTCAATTAATTAATTT
1 TTTTAATTTCATTCAATTAATTAATAT
*
27361297 TTTTAA-TTCATTGAATT-ATTAATAAT
1 TTTTAATTTCATTCAATTAATTAAT-AT
27361323 TTTTA
1 TTTTA
27361328 TTAAATCTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 6 0.22
26 15 0.56
27 6 0.22
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.60
Consensus pattern (27 bp):
TTTTAATTTCATTCAATTAATTAATAT
Found at i:27365493 original size:44 final size:44
Alignment explanation
Indices: 27365444--27365533 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
27365434 ACTTGAGGAT
27365444 ATGTTGTGTTGTTGCATTGTTGAGTTTGAAGGTAGCTAGGAGAA
1 ATGTTGTGTTGTTGCATTGTTGAGTTTGAAGGTAGCTAGGAGAA
27365488 ATGTTGTGTTGTTGCATTGTTGAGTTTGAAGGTAGCTAGGAGAA
1 ATGTTGTGTTGTTGCATTGTTGAGTTTGAAGGTAGCTAGGAGAA
27365532 AT
1 AT
27365534 ATCTATCGTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.23, C:0.04, G:0.33, T:0.39
Consensus pattern (44 bp):
ATGTTGTGTTGTTGCATTGTTGAGTTTGAAGGTAGCTAGGAGAA
Found at i:27370902 original size:43 final size:43
Alignment explanation
Indices: 27370851--27371018 Score: 196
Period size: 43 Copynumber: 3.9 Consensus size: 43
27370841 TAGAATTCCA
*
27370851 ATATGTGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCG
1 ATATGTGATTTCATGTAAGACCACGTCTGGGACATTGGCATCG
* * * * *
27370894 ATTTGTGATTTACGTGTAAGACCATGTCTGGGACATCGGCGTCG
1 ATATGTGATTT-CATGTAAGACCACGTCTGGGACATTGGCATCG
* * * *
27370938 -TATATGAGTTCATGTAAGACC-CTGTCTAGGACAGTGGCATCG
1 ATATGTGATTTCATGTAAGACCAC-GTCTGGGACATTGGCATCG
* *
27370980 ATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGC
1 ATATGTGATTTCATGTAAGACCACGTCTGGGACATTGGC
27371019 GTTGTACGAG
Statistics
Matches: 102, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
42 25 0.25
43 47 0.46
44 30 0.29
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (43 bp):
ATATGTGATTTCATGTAAGACCACGTCTGGGACATTGGCATCG
Found at i:27379318 original size:27 final size:27
Alignment explanation
Indices: 27379270--27379428 Score: 166
Period size: 27 Copynumber: 5.9 Consensus size: 27
27379260 GCGAGGCTGC
* *
27379270 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
27379297 TAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
27379323 TAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
27379350 CAGATTATTGTGGCATAGCCACCAG-GA
1 CAGA-TATTGTGGCAGAGCCACCAGATA
*
27379377 CAGATATATGTGGCAAAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
27379404 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
27379429 GACGCTTCCT
Statistics
Matches: 115, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
26 11 0.10
27 98 0.85
28 6 0.05
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:27379429 original size:54 final size:53
Alignment explanation
Indices: 27379270--27379431 Score: 218
Period size: 54 Copynumber: 3.0 Consensus size: 53
27379260 GCGAGGCTGC
* * * * * *
27379270 CAGATAT-TGTGACGAAGTCACCAGATATAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATATGTGGCAAAGCCACCAGAT-CAGATATTGTGGCATAGCCACCAGGA
* *
27379323 TAGATATATGTGGCAGAGCCACCAGATCAGATTATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGGCAAAGCCACCAGATCAGA-TATTGTGGCATAGCCACCAGGA
27379377 CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGGCAAAGCCACCAGATCAGAT-ATTGTGGCATAGCCACCAGGA
27379431 C
1 C
27379432 GCTTCCTCCA
Statistics
Matches: 96, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
53 10 0.10
54 86 0.90
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (53 bp):
CAGATATATGTGGCAAAGCCACCAGATCAGATATTGTGGCATAGCCACCAGGA
Found at i:27381056 original size:26 final size:26
Alignment explanation
Indices: 27381025--27381158 Score: 232
Period size: 26 Copynumber: 5.2 Consensus size: 26
27381015 TGAAATGCCC
27381025 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
27381051 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
27381077 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
27381103 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
27381129 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
27381155 ATCA
1 ATCA
27381159 ATTTGTACCA
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 103 1.00
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:27387404 original size:27 final size:27
Alignment explanation
Indices: 27387356--27387514 Score: 157
Period size: 27 Copynumber: 5.9 Consensus size: 27
27387346 GCGAGGCTAC
* *
27387356 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
27387383 TAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
* * *
27387409 TAGATATATGTGGCAGAGCTACAAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
27387436 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
27387463 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
27387490 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
27387515 GACGCTTCCT
Statistics
Matches: 111, Mismatches: 13, Indels: 16
0.79 0.09 0.11
Matches are distributed among these distances:
26 10 0.09
27 96 0.86
28 5 0.05
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:27387515 original size:54 final size:54
Alignment explanation
Indices: 27387374--27387517 Score: 218
Period size: 54 Copynumber: 2.7 Consensus size: 54
27387364 GTGACGAAGT
* * * *
27387374 CACCAGATATAGAT-ATTGTGGCAGAGCCACCAGAATAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
* *
27387428 TACAAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
27387482 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
27387518 GCTTCCTCCA
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
53 4 0.05
54 77 0.95
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:27389115 original size:26 final size:26
Alignment explanation
Indices: 27389084--27389217 Score: 223
Period size: 26 Copynumber: 5.2 Consensus size: 26
27389074 TGAAATGCCC
27389084 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
27389110 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
27389136 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* * *
27389162 ATCACGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
27389188 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
27389214 ATCA
1 ATCA
27389218 ATTTGTACCA
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 101 1.00
ACGTcount: A:0.37, C:0.25, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:27394493 original size:14 final size:14
Alignment explanation
Indices: 27394474--27394503 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
27394464 TATGGTAGCC
27394474 AGGTATGGTGAGTA
1 AGGTATGGTGAGTA
27394488 AGGTATGGTGAGTA
1 AGGTATGGTGAGTA
27394502 AG
1 AG
27394504 ACCGTGGATG
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:0.30, C:0.00, G:0.43, T:0.27
Consensus pattern (14 bp):
AGGTATGGTGAGTA
Found at i:27396510 original size:17 final size:19
Alignment explanation
Indices: 27396488--27396524 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
27396478 ACTCGATATA
27396488 GCCCGAT-AAATGG-AAAT
1 GCCCGATAAAATGGTAAAT
27396505 GCCCGATAAAATGGTAAAT
1 GCCCGATAAAATGGTAAAT
27396524 G
1 G
27396525 AATAAAATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 6 0.33
19 5 0.28
ACGTcount: A:0.41, C:0.16, G:0.24, T:0.19
Consensus pattern (19 bp):
GCCCGATAAAATGGTAAAT
Found at i:27398538 original size:28 final size:28
Alignment explanation
Indices: 27398498--27398561 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 28
27398488 TGGGAAGTAG
* *
27398498 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAACGAGA
* *
27398526 TTGGGCCTGATGGGCCATGTGAGCGAGA
1 TTGGGCCTGATGGGCCATATGAACGAGA
27398554 TTGGGCCT
1 TTGGGCCT
27398562 AAAGGGGCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.17, C:0.17, G:0.39, T:0.27
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAACGAGA
Found at i:27399069 original size:27 final size:27
Alignment explanation
Indices: 27398877--27399056 Score: 247
Period size: 27 Copynumber: 6.7 Consensus size: 27
27398867 TAATAAAGAG
* *
27398877 AAATTATCGAAACAACCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
27398904 AAATTATCGAAATACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
*
27398931 AAATTACCGAAATACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* **
27398958 AAATTATTGAAATACCCTTAATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* *
27398985 AAATTACCGAAACACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
*
27399012 AAATTA-CTGAAACACCC-CAGATTTGTA
1 AAATTATC-GAAATACCCTC-GATTTGTA
27399039 AAATTATCGAAATACCCT
1 AAATTATCGAAATACCCT
27399057 TGTAGTGTAA
Statistics
Matches: 136, Mismatches: 13, Indels: 7
0.87 0.08 0.04
Matches are distributed among these distances:
26 2 0.01
27 133 0.98
28 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTATCGAAATACCCTCGATTTGTA
Found at i:27399083 original size:54 final size:55
Alignment explanation
Indices: 27398877--27399082 Score: 251
Period size: 54 Copynumber: 3.8 Consensus size: 55
27398867 TAATAAAGAG
* * *
27398877 AAATTATCGAAACAACCTCGATTTGTAAAATTA-TCGAAATACCCTC-GATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACT-GAAATACCCTCAGATTTGTA
* *
27398931 AAATTACCGAAATACCCTCGATTTGTAAAATTATTGAAATACCCTTA-ATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCAGATTTGTA
* *
27398985 AAATTACCGAAACACCCTCGATTTGTAAAATTACTGAAACACCC-CAGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCAGATTTGTA
* * * * *
27399039 AAATTATCGAAATACCCTTG-TAGTGTAAAATGACTGACATACCC
1 AAATTACCGAAATACCCTCGAT-TTGTAAAATTACTGAAATACCC
27399083 CTATAGGGTA
Statistics
Matches: 133, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
53 2 0.02
54 130 0.98
55 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (55 bp):
AAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCAGATTTGTA
Found at i:27402290 original size:26 final size:26
Alignment explanation
Indices: 27402242--27402445 Score: 203
Period size: 27 Copynumber: 7.7 Consensus size: 26
27402232 TAATAAAGAG
* *
27402242 AAATTACCGAAACACCCTTGATTTGTA
1 AAATTA-CGAAATACCCTCGATTTGTA
* *
27402269 AAATTACCAAATACCCCCGATTTGTA
1 AAATTACGAAATACCCTCGATTTGTA
* *
27402295 AAATTATCGAAATACCCTC-AATTGTG
1 AAATTA-CGAAATACCCTCGATTTGTA
27402321 AAATTATCGAAATACCCTCGATTTGTA
1 AAATTA-CGAAATACCCTCGATTTGTA
* * *
27402348 AAACTACCGAAGTACCCTCAATTTGTA
1 AAATTA-CGAAATACCCTCGATTTGTA
** * * *
27402375 AAATTATTACACACCTTCGATTTGTA
1 AAATTACGAAATACCCTCGATTTGTA
* *
27402401 AAATTACTGAAACACCTTCGATTTGTA
1 AAATTAC-GAAATACCCTCGATTTGTA
27402428 AAATTATCGAAATACCCT
1 AAATTA-CGAAATACCCT
27402446 TGTAGTGTAG
Statistics
Matches: 146, Mismatches: 27, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
26 65 0.45
27 80 0.55
28 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.31
Consensus pattern (26 bp):
AAATTACGAAATACCCTCGATTTGTA
Found at i:27402334 original size:53 final size:52
Alignment explanation
Indices: 27402264--27402445 Score: 197
Period size: 53 Copynumber: 3.4 Consensus size: 52
27402254 CACCCTTGAT
* *
27402264 TTGTAAAATTA-CCAAATACCCCCGATTTGTAAAATTATCGAAATACCCTCAA
1 TTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTA-CGAAATACCCTCAA
* * *
27402316 TTGTGAAATTATCGAAATACCCTCGATTTGTAAAACTACCGAAGTACCCTCAA
1 TTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTA-CGAAATACCCTCAA
* * * * * * *
27402369 TTTGTAAAATTAT-TACACACCTTCGATTTGTAAAATTACTGAAACACCTTCGAT
1 -TTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTAC-GAAATACCCTC-AA
27402423 TTGTAAAATTATCGAAATACCCT
1 TTGTAAAATTATCGAAATACCCT
27402446 TGTAGTGTAG
Statistics
Matches: 105, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
52 11 0.10
53 76 0.72
54 18 0.17
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.32
Consensus pattern (52 bp):
TTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTACGAAATACCCTCAA
Found at i:27417259 original size:37 final size:37
Alignment explanation
Indices: 27417186--27417259 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
27417176 ACAACCAGAG
*
27417186 TTAGAAGAGATTCATGATGTGTTTCACGTATGGATAC
1 TTAGAAGAGATTCATGATGTGTTTCACGTATCGATAC
* *
27417223 TTAGAAGAGATTCATGATGTGTTTTATGTATCGATAC
1 TTAGAAGAGATTCATGATGTGTTTCACGTATCGATAC
27417260 GTCAACGATA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.38
Consensus pattern (37 bp):
TTAGAAGAGATTCATGATGTGTTTCACGTATCGATAC
Found at i:27417826 original size:41 final size:41
Alignment explanation
Indices: 27417769--27417851 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
27417759 TTTATGATTG
27417769 TAAGGTCCTTATGAGGTTATTTGACCATTGAAGGAATTAAA
1 TAAGGTCCTTATGAGGTTATTTGACCATTGAAGGAATTAAA
27417810 TAAGGTCCTTATGAGGTTATTTGACCATTGAAGGAATTAAA
1 TAAGGTCCTTATGAGGTTATTTGACCATTGAAGGAATTAAA
27417851 T
1 T
27417852 GACATAAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.35
Consensus pattern (41 bp):
TAAGGTCCTTATGAGGTTATTTGACCATTGAAGGAATTAAA
Found at i:27420267 original size:39 final size:40
Alignment explanation
Indices: 27420222--27420446 Score: 224
Period size: 40 Copynumber: 5.7 Consensus size: 40
27420212 GCTCCTCGTT
* * * *
27420222 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
27420262 C-AATGCCTTCGGGACTTAACCCGGATTTAATGACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
27420301 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
27420341 CAAAGGCCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
27420381 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
27420422 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
27420447 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
39 37 0.24
40 104 0.67
41 14 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:27420315 original size:40 final size:38
Alignment explanation
Indices: 27420189--27420446 Score: 200
Period size: 40 Copynumber: 6.5 Consensus size: 38
27420179 AAATCACATA
* * *
27420189 CCTTCGGGATTTAA-CCGGATATAGCTCCTCGTTCA-AATG
1 CCTTCGGGACTTAACCCGGATTTAG-TACTCG--CACAATG
* * * *
27420228 CCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATG
1 CCTTCGGGACTTAACCCGGATTTAGT-ACTCGCACAATG
*
27420267 CCTTCGGGACTTAACCCGGATTTAATGACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAGT-ACTCGCAC-AATG
*
27420307 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATTTAGTA-CTCGCAC-AATG
* *
27420347 CCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCACAAATG
1 CCTTCGGGACTTAACCCGG-ATTTAGTA-CTCGCAC-AATG
** * * * *
27420387 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAG
1 CCTTCGGGA-CTTAACCCGGATTTAGT-AC-TCGCACAATG
*
27420427 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
27420447 CAGCATTCAA
Statistics
Matches: 180, Mismatches: 28, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
38 2 0.01
39 50 0.28
40 116 0.64
41 12 0.07
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (38 bp):
CCTTCGGGACTTAACCCGGATTTAGTACTCGCACAATG
Found at i:27420455 original size:41 final size:41
Alignment explanation
Indices: 27420378--27420455 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
27420368 CTTGTATCTC
* * *
27420378 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
27420419 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
27420456 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:27427917 original size:40 final size:39
Alignment explanation
Indices: 27427757--27428013 Score: 236
Period size: 40 Copynumber: 6.5 Consensus size: 39
27427747 AAATCACGTA
* * * **
27427757 CCTTCGGGATTTAA-CCGGATATAGCTCCTCGTTCAAATG
1 CCTTCGGGACTTAACCCGGATTTAG-TACTCGCACAAATG
* * * *
27427796 CCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATG
1 CCTTCGGGACTTAACCCGGATTTAGT-ACTCGCACAAATG
* *
27427835 CCTTCGGGACTTAACCCGGATTTAATACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAGTACTCGCACAAATG
*
27427874 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATTTAGTA-CTCGCACAAATG
*
27427914 CCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCACAAATG
1 CCTTCGGGACTTAACCCGG-ATTTAGTA-CTCGCACAAATG
** * * *
27427954 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAA-G
1 CCTTCGGGA-CTTAACCCGGATTTAGT-AC-TCGCACAAATG
*
27427994 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
27428014 CAGCATTCAA
Statistics
Matches: 182, Mismatches: 26, Indels: 19
0.80 0.11 0.08
Matches are distributed among these distances:
38 7 0.04
39 73 0.40
40 86 0.47
41 16 0.09
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (39 bp):
CCTTCGGGACTTAACCCGGATTTAGTACTCGCACAAATG
Found at i:27428022 original size:41 final size:41
Alignment explanation
Indices: 27427945--27428022 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
27427935 TTTGTATCTC
* * *
27427945 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
27427986 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
27428023 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:27533841 original size:27 final size:27
Alignment explanation
Indices: 27533811--27533988 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
27533801 ATATTAAGTC
* * *
27533811 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
27533838 CGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
27533866 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
** * *
27533893 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
27533920 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
27533947 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
27533974 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
27533989 GTACAATTTA
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 105 0.80
28 26 0.20
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:27533895 original size:55 final size:54
Alignment explanation
Indices: 27533811--27533988 Score: 232
Period size: 54 Copynumber: 3.3 Consensus size: 54
27533801 ATATTAAGTC
* * *
27533811 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAA-T
* * * *
27533866 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
* ** *
27533920 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
27533974 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
27533989 GTACAATTTA
Statistics
Matches: 107, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
53 1 0.01
54 60 0.56
55 46 0.43
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:27533977 original size:81 final size:82
Alignment explanation
Indices: 27533832--27533987 Score: 235
Period size: 81 Copynumber: 1.9 Consensus size: 82
27533822 TGCTATATAA
* *
27533832 TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCTACATAGTCAACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
27533897 CACTTAGTGCCGCATGG
66 CACTTAGTGCCGCATGG
* * **
27533914 TCAATTCGCACACTTAGTG-CATCATATTC-ATTTCGCACACTTAGTGCAACATAGTCAAATCGC
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGC
27533977 ACACTTAGTGC
65 ACACTTAGTGC
27533988 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 43 0.64
82 24 0.36
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (82 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
CACTTAGTGCCGCATGG
Found at i:27559232 original size:7 final size:7
Alignment explanation
Indices: 27559220--27559249 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
27559210 AGTCTAATAC
27559220 ATATAAT
1 ATATAAT
27559227 ATATAAT
1 ATATAAT
27559234 ATATAAT
1 ATATAAT
27559241 ATATAAT
1 ATATAAT
27559248 AT
1 AT
27559250 TATTTATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
ATATAAT
Found at i:27560318 original size:27 final size:28
Alignment explanation
Indices: 27560278--27560340 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 28
27560268 ATTACTCGTG
27560278 AATTTTTATAATAT-TAATTTTATTATA-
1 AATTTTTATAATATCTAATTTT-TTATAT
* * *
27560305 AGTTTTTATCATATCTGATTTTTTATAT
1 AATTTTTATAATATCTAATTTTTTATAT
27560333 AATTTTTA
1 AATTTTTA
27560341 AAATTATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 17 0.57
28 13 0.43
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.60
Consensus pattern (28 bp):
AATTTTTATAATATCTAATTTTTTATAT
Found at i:27565241 original size:65 final size:65
Alignment explanation
Indices: 27565167--27565297 Score: 262
Period size: 65 Copynumber: 2.0 Consensus size: 65
27565157 AGTCCCATGC
27565167 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
1 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
27565232 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
1 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
27565297 A
1 A
27565298 ACCCTAGGGG
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.24
Consensus pattern (65 bp):
ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
Found at i:27567595 original size:68 final size:66
Alignment explanation
Indices: 27567448--27567633 Score: 191
Period size: 68 Copynumber: 2.8 Consensus size: 66
27567438 ATATAGTTCG
* * *
27567448 GCTCTCTTGTACACATGGTGAACACTCAGTACCACCCATATGACCTAGC--CA-ATTTATCTCAT
1 GCTCTCTTGTACACATGGTGTACACTCAGTACCACCCATGTGACCTAGCTACATATATATCTCAT
27567510 A
66 A
** * *
27567511 GCTCTCTTGT-CTACATGGTGTACACAGAGTATCACCCATGTGACCTAGCTACATCATAATGTCT
1 GCTCTCTTGTAC-ACATGGTGTACACTCAGTACCACCCATGTGACCTAGCTACAT-AT-ATATCT
**
27567575 TGTA
63 CATA
* * * **
27567579 GCTCTCTTGTACACATGATGTGCACTCAGCACCATACATGTGACCTAGCTACATA
1 GCTCTCTTGTACACATGGTGTACACTCAGTACCACCCATGTGACCTAGCTACATA
27567634 CTATCTGTAT
Statistics
Matches: 99, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
62 1 0.01
63 42 0.42
65 2 0.02
67 3 0.03
68 50 0.51
69 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.30
Consensus pattern (66 bp):
GCTCTCTTGTACACATGGTGTACACTCAGTACCACCCATGTGACCTAGCTACATATATATCTCAT
A
Found at i:27586411 original size:13 final size:13
Alignment explanation
Indices: 27586395--27586419 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27586385 TTTTTCAGGT
27586395 CATTTTTATTTTC
1 CATTTTTATTTTC
27586408 CATTTTTATTTT
1 CATTTTTATTTT
27586420 GGAGAAAACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (13 bp):
CATTTTTATTTTC
Found at i:27586470 original size:51 final size:52
Alignment explanation
Indices: 27586403--27586515 Score: 156
Period size: 51 Copynumber: 2.2 Consensus size: 52
27586393 GTCATTTTTA
* *
27586403 TTTTCCATTTTTATTTTGGAGAAAACAACATTCATTTCCAAATGATTCC-AT
1 TTTTCCATTTTCATTTTGGAGAAAACAACAATCATTTCCAAATGATTCCTAT
* * * *
27586454 TTTTCTATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGTTTCCTAT
1 TTTTCCATTTTCATTTTGGAGAAAACAACAATCATTTCCAAATGATTCCTAT
*
27586506 TTCTCCATTT
1 TTTTCCATTT
27586516 CTATTCATTT
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
51 43 0.81
52 10 0.19
ACGTcount: A:0.28, C:0.19, G:0.07, T:0.46
Consensus pattern (52 bp):
TTTTCCATTTTCATTTTGGAGAAAACAACAATCATTTCCAAATGATTCCTAT
Found at i:27588147 original size:79 final size:82
Alignment explanation
Indices: 27588036--27588220 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
27588026 GCTACTCGTT
* *
27588036 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
27588099 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
27588116 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
27588179 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
27588196 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
27588221 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:27588220 original size:40 final size:40
Alignment explanation
Indices: 27588017--27588220 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
27588007 CGGAATTTAA
** *
27588017 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
27588057 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
27588097 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
27588136 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
27588176 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
27588216 CCGGA
1 CCGGA
27588221 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:27596908 original size:44 final size:44
Alignment explanation
Indices: 27596845--27596932 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
27596835 ACTCGGTCTA
*
27596845 CACTTAACCTTTTCACCTAAAATGAATTTTCTTTATCTAATTAG
1 CACTTAACCTTTTCACCTAAAATGAATTTTCTTCATCTAATTAG
27596889 CACTTAACCTTTTCACCTAAAATGAATTTTCTTCATCTAATTAG
1 CACTTAACCTTTTCACCTAAAATGAATTTTCTTCATCTAATTAG
27596933 TCATCTATGC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.42
Consensus pattern (44 bp):
CACTTAACCTTTTCACCTAAAATGAATTTTCTTCATCTAATTAG
Found at i:27602869 original size:39 final size:39
Alignment explanation
Indices: 27602811--27602887 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
27602801 ATGCAGAACA
*
27602811 CATATTAATGATGTGCAAACTATGACATAATTAAAGACT
1 CATATTAATGATGTGCAAACTATGACATAAGTAAAGACT
*
27602850 CATATTAATGATGTTCAAACTATGACATAAGTAAAGAC
1 CATATTAATGATGTGCAAACTATGACATAAGTAAAGAC
27602888 ACAAACTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.30
Consensus pattern (39 bp):
CATATTAATGATGTGCAAACTATGACATAAGTAAAGACT
Found at i:27602905 original size:9 final size:9
Alignment explanation
Indices: 27602891--27602916 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
27602881 TAAAGACACA
27602891 AACTAAAAT
1 AACTAAAAT
27602900 AACTAAAAT
1 AACTAAAAT
27602909 AACTAAAA
1 AACTAAAA
27602917 ATAAATGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.69, C:0.12, G:0.00, T:0.19
Consensus pattern (9 bp):
AACTAAAAT
Found at i:27604546 original size:21 final size:21
Alignment explanation
Indices: 27604522--27604561 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
27604512 TTGCTCTCAA
*
27604522 TCTCTTTTTGTTTTCTTTCGT
1 TCTCTTTTTCTTTTCTTTCGT
*
27604543 TCTCTTTTTCTTTTTTTTC
1 TCTCTTTTTCTTTTCTTTC
27604562 TTTCATTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.00, C:0.20, G:0.05, T:0.75
Consensus pattern (21 bp):
TCTCTTTTTCTTTTCTTTCGT
Found at i:27604554 original size:6 final size:6
Alignment explanation
Indices: 27604545--27604600 Score: 51
Period size: 6 Copynumber: 9.2 Consensus size: 6
27604535 TCTTTCGTTC
* * * *
27604545 TCTTTT TCTTTT TTTTCTT TCATTCT T-TTTT TCTTTT TATATT TCTTTT
1 TCTTTT TCTTTT TCTT-TT TC-TTTT TCTTTT TCTTTT TCTTTT TCTTTT
27604594 TCTTTT T
1 TCTTTT T
27604601 AACATACTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
5 4 0.10
6 28 0.72
7 5 0.13
8 2 0.05
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.80
Consensus pattern (6 bp):
TCTTTT
Found at i:27604570 original size:25 final size:25
Alignment explanation
Indices: 27604527--27604582 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
27604517 CTCAATCTCT
*
27604527 TTTTGTTTTCTTTCGTTCTCTTTTTC
1 TTTT-TTTTCTTTCATTCTCTTTTTC
*
27604553 TTTTTTTTCTTTCATTCTTTTTTTC
1 TTTTTTTTCTTTCATTCTCTTTTTC
27604578 TTTTT
1 TTTTT
27604583 ATATTTCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
25 24 0.86
26 4 0.14
ACGTcount: A:0.02, C:0.16, G:0.04, T:0.79
Consensus pattern (25 bp):
TTTTTTTTCTTTCATTCTCTTTTTC
Found at i:27604599 original size:25 final size:24
Alignment explanation
Indices: 27604524--27604600 Score: 77
Period size: 25 Copynumber: 3.0 Consensus size: 24
27604514 GCTCTCAATC
27604524 TCTTTTTGTTTTCTTTCGTTCTCTTTT
1 TCTTTTT-TTTTCTTTC-TTCT-TTTT
27604551 TC-TTTTTTTTCTTTCATTCTTTTTT
1 TCTTTTTTTTTCTTTC-TTC-TTTTT
27604576 TCTTTTTATATTTCTTT-TTCTTTTT
1 TCTTTTT-T-TTTCTTTCTTCTTTTT
27604601 AACATACTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
25 23 0.51
26 12 0.27
27 3 0.07
28 7 0.16
ACGTcount: A:0.04, C:0.16, G:0.03, T:0.78
Consensus pattern (24 bp):
TCTTTTTTTTTCTTTCTTCTTTTT
Found at i:27607210 original size:39 final size:39
Alignment explanation
Indices: 27607152--27607228 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
27607142 ATGTAGAACA
27607152 CATATTAATGATGTACAAACTATGACATAATTAAAGACT
1 CATATTAATGATGTACAAACTATGACATAATTAAAGACT
*
27607191 CATATTAATGATGTTCAAACTATGACATAATTAAAGAC
1 CATATTAATGATGTACAAACTATGACATAATTAAAGAC
27607229 ACAAACTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.31
Consensus pattern (39 bp):
CATATTAATGATGTACAAACTATGACATAATTAAAGACT
Found at i:27612986 original size:20 final size:20
Alignment explanation
Indices: 27612961--27613001 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
27612951 TTCCTGCATC
27612961 TAACCATTTGATCACTTTCT
1 TAACCATTTGATCACTTTCT
*
27612981 TAACCATTTGATGACTTTCT
1 TAACCATTTGATCACTTTCT
27613001 T
1 T
27613002 TCTCACAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.22, G:0.07, T:0.46
Consensus pattern (20 bp):
TAACCATTTGATCACTTTCT
Found at i:27613499 original size:54 final size:54
Alignment explanation
Indices: 27613417--27613528 Score: 224
Period size: 54 Copynumber: 2.1 Consensus size: 54
27613407 TTCTTCATCC
27613417 TCCAAAGGGTCAAGATCTAAGGCTTTCTCCAATAGATCTTTTTCAAAATTGGTT
1 TCCAAAGGGTCAAGATCTAAGGCTTTCTCCAATAGATCTTTTTCAAAATTGGTT
27613471 TCCAAAGGGTCAAGATCTAAGGCTTTCTCCAATAGATCTTTTTCAAAATTGGTT
1 TCCAAAGGGTCAAGATCTAAGGCTTTCTCCAATAGATCTTTTTCAAAATTGGTT
27613525 TCCA
1 TCCA
27613529 TAGAAACCAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 58 1.00
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (54 bp):
TCCAAAGGGTCAAGATCTAAGGCTTTCTCCAATAGATCTTTTTCAAAATTGGTT
Found at i:27617466 original size:28 final size:29
Alignment explanation
Indices: 27617424--27617538 Score: 128
Period size: 29 Copynumber: 4.0 Consensus size: 29
27617414 TACCTGTATT
* *
27617424 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* * *
27617452 TGGCACATTAGGCCCAAATTACCTAT-ATA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
*
27617481 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
27617510 TGGCCCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
27617538 T
1 T
27617539 TCATGCTCAC
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
28 26 0.36
29 46 0.63
30 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:27617487 original size:57 final size:58
Alignment explanation
Indices: 27617414--27617525 Score: 154
Period size: 58 Copynumber: 1.9 Consensus size: 58
27617404 CAATTTCACA
* * *
27617414 TACCTGTATTTGGCCCATTAAGCCC-AATCATATTCATATGGCACATTAGGCCCAAAT
1 TACCTATATATGGCCCATTAAGCCCAAATCACATTCATATGGCACATTAGGCCCAAAT
* * * *
27617471 TACCTATATATGGCCCATTAGGCCCAAATCACATTTATATGGCCCGTTAGGCCCA
1 TACCTATATATGGCCCATTAAGCCCAAATCACATTCATATGGCACATTAGGCCCA
27617526 GTCACATTCA
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 22 0.47
58 25 0.53
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.29
Consensus pattern (58 bp):
TACCTATATATGGCCCATTAAGCCCAAATCACATTCATATGGCACATTAGGCCCAAAT
Found at i:27617762 original size:8 final size:8
Alignment explanation
Indices: 27617749--27617800 Score: 68
Period size: 8 Copynumber: 6.5 Consensus size: 8
27617739 GTAGCCAAAC
*
27617749 TTTCGGCT
1 TTTCGGCA
27617757 TTTCGGCA
1 TTTCGGCA
** *
27617765 TTTCTACT
1 TTTCGGCA
27617773 TTTCGGCA
1 TTTCGGCA
27617781 TTTCGGCA
1 TTTCGGCA
27617789 TTTCGGCA
1 TTTCGGCA
27617797 TTTC
1 TTTC
27617801 AGCTTTTGCC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 37 1.00
ACGTcount: A:0.10, C:0.25, G:0.19, T:0.46
Consensus pattern (8 bp):
TTTCGGCA
Found at i:27622790 original size:23 final size:23
Alignment explanation
Indices: 27622764--27622814 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
27622754 CAATAGTATT
*
27622764 CCTATGTTTGGTGTTTTAGAGTA
1 CCTATGTTTGGTGTTGTAGAGTA
27622787 CCTATGTTTGGTGTTGTAGAGTA
1 CCTATGTTTGGTGTTGTAGAGTA
27622810 CCTAT
1 CCTAT
27622815 CCATGCATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.18, C:0.12, G:0.25, T:0.45
Consensus pattern (23 bp):
CCTATGTTTGGTGTTGTAGAGTA
Found at i:27624525 original size:30 final size:30
Alignment explanation
Indices: 27624468--27624526 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
27624458 TTTTTAGGCC
**
27624468 TAAGGGTAAAATCATAATTTTTGCAAAGTT
1 TAAGGGTAAAATCATAATTTTACCAAAGTT
*
27624498 TAAGGGTAAAA-CGATCATTTTACCAAAGT
1 TAAGGGTAAAATC-ATAATTTTACCAAAGT
27624527 ATGAGTCTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.32
Consensus pattern (30 bp):
TAAGGGTAAAATCATAATTTTACCAAAGTT
Found at i:27631049 original size:38 final size:37
Alignment explanation
Indices: 27630987--27631093 Score: 126
Period size: 37 Copynumber: 2.9 Consensus size: 37
27630977 GTGTATATTC
* *
27630987 TTTTAATAGATATCATGTATATATTTTTATATATTAT-
1 TTTTAATATATATTATGTATATATTTTTA-ATATTATA
*
27631024 TTTTAACTTTATATTATGTATATATTTTTAATATTATA
1 TTTTAA-TATATATTATGTATATATTTTTAATATTATA
* * * *
27631062 TTTTTATATATATTAGGTACATATTTTCAATA
1 TTTTAATATATATTATGTATATATTTTTAATA
27631094 CTATTAATGC
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
37 35 0.58
38 25 0.42
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.57
Consensus pattern (37 bp):
TTTTAATATATATTATGTATATATTTTTAATATTATA
Found at i:27631054 original size:25 final size:24
Alignment explanation
Indices: 27631016--27631072 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
27631006 TATATTTTTA
27631016 TATATTATTTTTAACT-TTATATTATG
1 TATA-TATTTTTAA-TATTATATT-TG
*
27631042 TATATATTTTTAATATTATATTTT
1 TATATATTTTTAATATTATATTTG
27631066 TATATAT
1 TATATAT
27631073 ATTAGGTACA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 9 0.31
25 16 0.55
26 4 0.14
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (24 bp):
TATATATTTTTAATATTATATTTG
Found at i:27631063 original size:14 final size:12
Alignment explanation
Indices: 27631004--27631075 Score: 65
Period size: 13 Copynumber: 5.7 Consensus size: 12
27630994 AGATATCATG
27631004 TATATATTTTTA
1 TATATATTTTTA
27631016 TATATTATTTTTAA
1 TATA-TATTTTT-A
* *
27631030 CTTTATATTATGTA
1 -TATATATT-TTTA
*
27631044 TATAT-TTTTAA
1 TATATATTTTTA
27631055 TATTATATTTTTA
1 TA-TATATTTTTA
27631068 TATATATT
1 TATATATT
27631076 AGGTACATAT
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
11 4 0.08
12 15 0.31
13 18 0.38
14 6 0.12
15 5 0.10
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (12 bp):
TATATATTTTTA
Found at i:27635922 original size:23 final size:23
Alignment explanation
Indices: 27635896--27636205 Score: 349
Period size: 23 Copynumber: 13.5 Consensus size: 23
27635886 CAAAGTGCCA
* *
27635896 CACTGTAATATAGCCGAAGCTAT
1 CACTGTAATGTAGCCGAAGCTAC
* *
27635919 CACTGTAACGTAGCCGAAGCTAT
1 CACTGTAATGTAGCCGAAGCTAC
* *
27635942 CACTGTAACGTAGCCAAAGCTAC
1 CACTGTAATGTAGCCGAAGCTAC
* **
27635965 CACTGTATTGTAGCAAAAGCTAC
1 CACTGTAATGTAGCCGAAGCTAC
*
27635988 CACT-AAGATGTAGCCGAAGCTAC
1 CACTGTA-ATGTAGCCGAAGCTAC
* *
27636011 CACTGCATTGTAGCCGAAGCTAC
1 CACTGTAATGTAGCCGAAGCTAC
27636034 CACTG-AGATGTAGCCGAAGCTAC
1 CACTGTA-ATGTAGCCGAAGCTAC
* *
27636057 CATTGTATTGTAGCCGAAGCTAC
1 CACTGTAATGTAGCCGAAGCTAC
27636080 CACTG-AGATGTAGCCGAAGCTAC
1 CACTGTA-ATGTAGCCGAAGCTAC
* * *
27636103 CACTATATTGTAGCAGAAGCTAC
1 CACTGTAATGTAGCCGAAGCTAC
*
27636126 CACTGTATTGTAGCCGAAGCTAC
1 CACTGTAATGTAGCCGAAGCTAC
*
27636149 CACTG-AGATGTAGCCAAAGCTAC
1 CACTGTA-ATGTAGCCGAAGCTAC
* * *
27636172 CACTATATTGTAGTCGAAGCTAC
1 CACTGTAATGTAGCCGAAGCTAC
*
27636195 CACTGAAATGT
1 CACTGTAATGT
27636206 TGCCTATATA
Statistics
Matches: 247, Mismatches: 32, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
22 4 0.02
23 239 0.97
24 4 0.02
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.23
Consensus pattern (23 bp):
CACTGTAATGTAGCCGAAGCTAC
Found at i:27637615 original size:18 final size:19
Alignment explanation
Indices: 27637567--27637625 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 19
27637557 ATATAATATA
* *
27637567 ATATATAATAACAAAAATT
1 ATATATAAGAATAAAAATT
* *
27637586 -TATAAAAGAATAATAATT
1 ATATATAAGAATAAAAATT
*
27637604 ATATATAA-AATAAAAAAT
1 ATATATAAGAATAAAAATT
27637622 ATAT
1 ATAT
27637626 TGGTTTAGAA
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
18 26 0.81
19 6 0.19
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (19 bp):
ATATATAAGAATAAAAATT
Done.