Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009247.1 Hibiscus syriacus cultivar Beakdansim tig00112888_pilon, whole genome shotgun sequence
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: 1479039
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 8
Found at i:237003 original size:110 final size:111
Alignment explanation
Indices: 236858--237129 Score: 422
Period size: 110 Copynumber: 2.5 Consensus size: 111
236848 ATGGCACCGA
*
236858 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACATTGTGTGCAA
1 GTGTGCAAAAA-CTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACATTGTGTGCAA
*
236923 AACTAAGAAATTCATACTAAGTGTATGAATTTTCGTAT-GAGCACTTT
65 AACTAAGAAATTCATACTAAGTGTATAAATTTTCGTATAGA-CACTTT
* *
236970 GTGTG-AAAAACTAAGAAATTCATACTAAGTGTATGAATTTGCGTATGGGCACTTTGTGTGCAAA
1 GTGTGCAAAAACTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACATTGTGTGCAAA
*
237034 ACTAAGAAATTCATACTAAGTGTATAAATTTTTGTATAGACACTTT
66 ACTAAGAAATTCATACTAAGTGTATAAATTTTCGTATAGACACTTT
* * ** *
237080 GTGTGCAAAAACTACGAAATCCATACTAAGTGTAAAAATTTCTGTATGGG
1 GTGTGCAAAAACTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGG
237130 AAATATATGT
Statistics
Matches: 147, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
110 97 0.66
111 45 0.31
112 5 0.03
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (111 bp):
GTGTGCAAAAACTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACATTGTGTGCAAA
ACTAAGAAATTCATACTAAGTGTATAAATTTTCGTATAGACACTTT
Found at i:237417 original size:68 final size:67
Alignment explanation
Indices: 237343--237529 Score: 248
Period size: 67 Copynumber: 2.8 Consensus size: 67
237333 GGATTAATAG
* * * *
237343 CCTAACTATGCATTTGACAGAAATGTGACAATTATGACAGTTAGATGAAAGGCTAAATGCCTTTG
1 CCTAACTGTGCATTTGACAGAAATGTGTCAATTAT-CCAGTTAGATGAAAGGCTAAATACCTTTG
237408 AGA
65 AGA
* * * * ** *
237411 CCTAACTGTGCATTTGATAGAAAGGTGTCGATTATCCAGTTAGATAAAAGATTAAGTACCTTTGA
1 CCTAACTGTGCATTTGACAGAAATGTGTCAATTATCCAGTTAGATGAAAGGCTAAATACCTTTGA
*
237476 GG
66 GA
237478 CCTAACTGTGCATTTGACAGAAATGTGTCAATTATTCCAGTTAGATGAAAGG
1 CCTAACTGTGCATTTGACAGAAATGTGTCAATTA-TCCAGTTAGATGAAAGG
237530 GAGGGTTAGT
Statistics
Matches: 101, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
67 56 0.55
68 45 0.45
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.30
Consensus pattern (67 bp):
CCTAACTGTGCATTTGACAGAAATGTGTCAATTATCCAGTTAGATGAAAGGCTAAATACCTTTGA
GA
Found at i:237680 original size:81 final size:81
Alignment explanation
Indices: 237540--238339 Score: 1050
Period size: 81 Copynumber: 9.9 Consensus size: 81
237530 GAGGGTTAGT
* * * * * *
237540 TGTGTATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTGAATACAGTTGAGTAAA
1 TGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACCGTTGAGTAAA
* *
237605 AGACTAATTGCCTAGT
66 AGACTAATGGCCTAGC
* * *
237621 TGTGCATTTGGCAGAAAGGTGTCAATTACGCCAGTTAGATGAACAGTTAAATATCGTTGAGTAAA
1 TGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACCGTTGAGTAAA
237686 AGACTAATGGCCTAGC
66 AGACTAATGGCCTAGC
* * * *
237702 TGTGCATTTGGCAGAAATGTGTCAATTATGCTAGTTAGATAAACGGTTAAATACCATTGAGTAAA
1 TGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACCGTTGAGTAAA
237767 AGACTAATGGCCTAGC
66 AGACTAATGGCCTAGC
* * * * *
237783 TGTGCATTTTGTAGAAATGTGTCAATTATGCCAGTTAGATGAATAGTTAAATACTGTTGTGT-AA
1 TGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACCGTTGAGTAAA
* *
237847 AGATTAATGGCCTAGA
66 AGACTAATGGCCTAGC
* * *
237863 TGTGTATTTGGCAAAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAA
1 TGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACCGTTGAGTAAA
*
237928 AGACTAACGGCCTAGC
66 AGACTAATGGCCTAGC
** * * * * *
237944 AATGTATTTGGCATAAAGGTGCCAATTATGCCAGTTAGATGAAC-GATTAAATACCGATGAGTAA
1 TGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACAG-TTAAATACCGTTGAGTAA
238008 AAGACTAATGGCCTAGC
65 AAGACTAATGGCCTAGC
* * * *
238025 TGTGCGTTTGGCAGAAATGTGTCAATTATGCCAGTTATATGAATAGTTAAATATCGTTGAGTAAA
1 TGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACCGTTGAGTAAA
*
238090 AGACTAATGGCCTAGT
66 AGACTAATGGCCTAGC
* **
238106 TGTGCATTTGGCATAAATGTGTCAATTATGATAGTTAGATGAACAGTTAAATACCGTTGAGTAAA
1 TGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACCGTTGAGTAAA
*
238171 AGACTAACGGCCTAGC
66 AGACTAATGGCCTAGC
* * * * * *
238187 TGTACATTTGGTAGGAATGTGTCAATTATGCCAGTTAGATGCACGGTTAAATATCGTTGAGTAAA
1 TGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACCGTTGAGTAAA
* *
238252 AGATTAATGGTCTAGC
66 AGACTAATGGCCTAGC
* * * * *
238268 TGTGCATTTGGCAGGAAA-GTGTCAATTATGCAAGTTAGATGAA-AGGCTAAATGCCTTTGGGTA
1 TGTGCATTTGGCA-GAAATGTGTCAATTATGCCAGTTAGATGAACA-GTTAAATACCGTTGAGTA
238331 AAAGACTAA
64 AAAGACTAA
238340 AGGAATTATC
Statistics
Matches: 624, Mismatches: 90, Indels: 10
0.86 0.12 0.01
Matches are distributed among these distances:
80 71 0.11
81 549 0.88
82 4 0.01
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (81 bp):
TGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACCGTTGAGTAAA
AGACTAATGGCCTAGC
Found at i:238446 original size:45 final size:45
Alignment explanation
Indices: 238382--238597 Score: 290
Period size: 45 Copynumber: 4.8 Consensus size: 45
238372 CATATGTGGT
* *
238382 ATGAAAGGACGCCATAAATGAAATGTATAATAGTGTATAAAAGGA
1 ATGAAAGGATGCCATAAATGAAATGTATAATAGTGTATAAAAGGC
238427 ATGAATA-GATGCCATAAATGAAATGTATAATAGTGTATAAAAGGC
1 ATGAA-AGGATGCCATAAATGAAATGTATAATAGTGTATAAAAGGC
* * *
238472 ATGAAAGGGTGCCATAAATGAAATGTATAATAATGTATATAAGGC
1 ATGAAAGGATGCCATAAATGAAATGTATAATAGTGTATAAAAGGC
* * * **
238517 ATGAAATGATGCCATAAATAAAAGGTATAATAGAATATAAAAGGC
1 ATGAAAGGATGCCATAAATGAAATGTATAATAGTGTATAAAAGGC
* * *
238562 ATGAAAGAATACCATAAATGAAAATGCATAATAGTG
1 ATGAAAGGATGCCATAAATG-AAATGTATAATAGTG
238598 CATTATAAGT
Statistics
Matches: 147, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
44 1 0.01
45 134 0.91
46 12 0.08
ACGTcount: A:0.49, C:0.07, G:0.20, T:0.24
Consensus pattern (45 bp):
ATGAAAGGATGCCATAAATGAAATGTATAATAGTGTATAAAAGGC
Found at i:238570 original size:19 final size:19
Alignment explanation
Indices: 238534--238572 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
238524 GATGCCATAA
*
238534 ATAAAAGGTATAATAGAAT
1 ATAAAAGGCATAATAGAAT
238553 ATAAAAGGCATGAA-AGAAT
1 ATAAAAGGCAT-AATAGAAT
238572 A
1 A
238573 CCATAAATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.59, C:0.03, G:0.18, T:0.21
Consensus pattern (19 bp):
ATAAAAGGCATAATAGAAT
Found at i:238659 original size:135 final size:135
Alignment explanation
Indices: 238382--238643 Score: 296
Period size: 135 Copynumber: 1.9 Consensus size: 135
238372 CATATGTGGT
* * * * ** *
238382 ATGAAAGGACGCCATAAATGAAATGTATAATAGTGTATAAAAGGAATGAATAGATGCCATAAATG
1 ATGAAATGATGCCATAAATAAAAGGTATAATAGAATATAAAAGGAATGAATAGATACCATAAATG
* * * ** *
238447 AAATGTATAATAGTGTATAAAAGGCATGAAAGGGTGCCATAAATGAAATGTATAATAATGTATAT
66 AAATGCATAATAGTGCATAAAAGGCATGAAAGGATGCCATAAATGAAATAAAGAATAATGTATAT
238512 AAGGC
131 AAGGC
*
238517 ATGAAATGATGCCATAAATAAAAGGTATAATAGAATATAAAAGGCATGAA-AGAATACCATAAAT
1 ATGAAATGATGCCATAAATAAAAGGTATAATAGAATATAAAAGGAATGAATAG-ATACCATAAAT
* * * *
238581 GAAAATGCATAATAGTGCATTATAA-GTATGAATGGATGCTC-TCAATGAAAATAAAGAATAATG
65 G-AAATGCATAATAGTGCA-TAAAAGGCATGAAAGGATGC-CATAAATG-AAATAAAGAATAATG
238644 ACTAAAGAGA
Statistics
Matches: 104, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
134 2 0.02
135 54 0.52
136 31 0.30
137 17 0.16
ACGTcount: A:0.48, C:0.07, G:0.19, T:0.25
Consensus pattern (135 bp):
ATGAAATGATGCCATAAATAAAAGGTATAATAGAATATAAAAGGAATGAATAGATACCATAAATG
AAATGCATAATAGTGCATAAAAGGCATGAAAGGATGCCATAAATGAAATAAAGAATAATGTATAT
AAGGC
Found at i:239285 original size:46 final size:46
Alignment explanation
Indices: 239212--239319 Score: 164
Period size: 46 Copynumber: 2.3 Consensus size: 46
239202 TGGGTGTTAC
*
239212 ATGCTTTTTCATTTATGGCATCATTTCATGCCGATAATGC-CTCGTT
1 ATGCTTTTTCATTTATGGCATCATTTCATGCCAATAATGCAC-CGTT
* * *
239258 ATGCATTTTCATTTATGGTATCCTTTCATGCCAATAATGCACCGTT
1 ATGCTTTTTCATTTATGGCATCATTTCATGCCAATAATGCACCGTT
239304 ATGCTTTTTCATTTAT
1 ATGCTTTTTCATTTAT
239320 TCATTCATTT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
46 55 0.98
47 1 0.02
ACGTcount: A:0.21, C:0.20, G:0.13, T:0.45
Consensus pattern (46 bp):
ATGCTTTTTCATTTATGGCATCATTTCATGCCAATAATGCACCGTT
Found at i:241056 original size:44 final size:44
Alignment explanation
Indices: 240993--241082 Score: 162
Period size: 44 Copynumber: 2.0 Consensus size: 44
240983 TGTTGAGCAC
240993 ATTGGGTTTTGGAAATTCGTCAAGCTTCAAAATAATCTAACACA
1 ATTGGGTTTTGGAAATTCGTCAAGCTTCAAAATAATCTAACACA
* *
241037 ATTGGGTTTTGGAAATTCGTCAAGCTTCAAGATAATCTCACACA
1 ATTGGGTTTTGGAAATTCGTCAAGCTTCAAAATAATCTAACACA
241081 AT
1 AT
241083 ACTTTAAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (44 bp):
ATTGGGTTTTGGAAATTCGTCAAGCTTCAAAATAATCTAACACA
Found at i:242090 original size:20 final size:20
Alignment explanation
Indices: 242065--242157 Score: 125
Period size: 20 Copynumber: 4.6 Consensus size: 20
242055 TAGTTGAAAA
242065 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* * *
242085 TCGCGTTGCGATAGTCTACA-G
1 TCGCGTTGCGAT--TTTCCATT
242106 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
*
242126 TCGCGTTGCGATTTTCCGTT
1 TCGCGTTGCGATTTTCCATT
242146 TCGCGTTGCGAT
1 TCGCGTTGCGAT
242158 AGTCTACAGT
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
19 4 0.06
20 43 0.68
21 12 0.19
22 4 0.06
ACGTcount: A:0.11, C:0.25, G:0.25, T:0.40
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:242110 original size:41 final size:41
Alignment explanation
Indices: 242043--242137 Score: 156
Period size: 41 Copynumber: 2.3 Consensus size: 41
242033 CTATCGCAAA
242043 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAT
1 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAT
* *
242084 TTCGCGTTGCGATAGTCT-ACAGTCGCGTTGCGATTTTCCAT
1 TTCGCGTTGCGATAGT-TGAAAATCGCGTTGCGATTTTCCAT
242125 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
242138 TTTCCGTTTC
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
41 50 0.98
42 1 0.02
ACGTcount: A:0.16, C:0.22, G:0.25, T:0.37
Consensus pattern (41 bp):
TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAT
Found at i:242140 original size:61 final size:62
Alignment explanation
Indices: 242065--242185 Score: 217
Period size: 61 Copynumber: 2.0 Consensus size: 62
242055 TAGTTGAAAA
242065 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTCG-CGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTCGTCGTTGCGATTTTCCATT
* *
242126 TCGCGTTGCGATTTTCCGTTTCGCGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCA
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTCGTCGTTGCGATTTTCCA
242186 AATTCGTTGC
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
61 42 0.74
62 15 0.26
ACGTcount: A:0.12, C:0.24, G:0.24, T:0.40
Consensus pattern (62 bp):
TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTCGTCGTTGCGATTTTCCATT
Found at i:242288 original size:6 final size:6
Alignment explanation
Indices: 242280--242382 Score: 197
Period size: 6 Copynumber: 17.2 Consensus size: 6
242270 GACACGTACT
*
242280 ACCACT ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
242328 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
242376 ACCACG A
1 ACCACG A
242383 GACGAGACGG
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
6 96 1.00
ACGTcount: A:0.34, C:0.50, G:0.16, T:0.01
Consensus pattern (6 bp):
ACCACG
Found at i:242885 original size:6 final size:6
Alignment explanation
Indices: 242874--242912 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
242864 TCTCGGCTCG
242874 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
242913 AATGCGTGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.00, C:0.15, G:0.51, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:243017 original size:20 final size:20
Alignment explanation
Indices: 242992--243105 Score: 113
Period size: 20 Copynumber: 5.6 Consensus size: 20
242982 TTTTTTAACT
*
242992 ATCGCAACGTGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
* **
243012 ATCGCAACGCG-ACTGTAGACT
1 ATCGCAACGCGAAATG--GAAA
243033 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
** ** *
243053 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
243074 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
243094 ATCGCAACGCGA
1 ATCGCAACGCGA
243106 CTGTAAACTA
Statistics
Matches: 73, Mismatches: 17, Indels: 8
0.74 0.17 0.08
Matches are distributed among these distances:
19 3 0.04
20 39 0.53
21 28 0.38
22 3 0.04
ACGTcount: A:0.38, C:0.24, G:0.23, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:243038 original size:21 final size:21
Alignment explanation
Indices: 243012--243127 Score: 80
Period size: 21 Copynumber: 5.6 Consensus size: 21
243002 GAAATGGAAA
*
243012 ATCGCAACGCGACTGTAGACT
1 ATCGCAACGCGAATGTAGACT
**
243033 ATCGCAACGCGAAATG--GAAA
1 ATCGCAACGCG-AATGTAGACT
* *
243053 ATCGCAACGCGATTTTCA-ACT
1 ATCGCAACGCGAATGT-AGACT
**
243074 ATCGCAACGCGAAATG--GAAA
1 ATCGCAACGCG-AATGTAGACT
* *
243094 ATCGCAACGCGACTGTAAACT
1 ATCGCAACGCGAATGTAGACT
*
243115 ATCGCAATGCGAA
1 ATCGCAACGCGAA
243128 ATGCAACACG
Statistics
Matches: 70, Mismatches: 17, Indels: 16
0.68 0.17 0.16
Matches are distributed among these distances:
19 5 0.07
20 25 0.36
21 35 0.50
22 5 0.07
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAATGTAGACT
Found at i:243047 original size:41 final size:40
Alignment explanation
Indices: 242987--243130 Score: 225
Period size: 41 Copynumber: 3.5 Consensus size: 40
242977 ATCTTTTTTT
*
242987 TAACTATCGCAACGTGAAATGGAAAATCGCAACGCGACTG
1 TAACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTG
* *
243027 TAGACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTT
1 TA-ACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTG
243068 TCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTG
1 T-AACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTG
*
243109 TAAACTATCGCAATGCGAAATG
1 T-AACTATCGCAACGCGAAATG
243131 CAACACGAAT
Statistics
Matches: 95, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
40 2 0.02
41 92 0.97
42 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.18
Consensus pattern (40 bp):
TAACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTG
Found at i:243220 original size:41 final size:41
Alignment explanation
Indices: 243170--243272 Score: 170
Period size: 41 Copynumber: 2.5 Consensus size: 41
243160 GTTGCGATTT
*
243170 CAACTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTC
1 CAACTATCGCAACGCGAAATGGAAAAACGCAACGCGATCTC
* *
243211 CAACTATCGCAACGCGAAATGGAAAAACGCAACGCGATTTT
1 CAACTATCGCAACGCGAAATGGAAAAACGCAACGCGATCTC
*
243252 CAACTATCGCAATGCGAAATG
1 CAACTATCGCAACGCGAAATG
243273 CAACGTGAAT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.38, C:0.26, G:0.19, T:0.17
Consensus pattern (41 bp):
CAACTATCGCAACGCGAAATGGAAAAACGCAACGCGATCTC
Found at i:243276 original size:21 final size:21
Alignment explanation
Indices: 242988--243276 Score: 109
Period size: 20 Copynumber: 14.1 Consensus size: 21
242978 TCTTTTTTTT
* *
242988 AACTATCGCAACGTGAAATGG
1 AACTATCGCAACGCGAAATGC
* * *
243009 AA-AATCGCAACGCG-ACTGT
1 AACTATCGCAACGCGAAATGC
*
243028 AGACTATCGCAACGCGAAATGG
1 A-ACTATCGCAACGCGAAATGC
* ** *
243050 AA-AATCGCAACGCGATTTTC
1 AACTATCGCAACGCGAAATGC
*
243070 AACTATCGCAACGCGAAATGG
1 AACTATCGCAACGCGAAATGC
* * *
243091 AA-AATCGCAACGCG-ACTGTA
1 AACTATCGCAACGCGAAATG-C
*
243111 AACTATCGCAATGCGAAATGC
1 AACTATCGCAACGCGAAATGC
* * *
243132 AAC-A-CG-AATTTGTGATTATG-
1 AACTATCGCAA--CGCGA-AATGC
* * *** * *
243152 GA-GATCGCGTTGCG-ATTTC
1 AACTATCGCAACGCGAAATGC
*
243171 AACTATCGCAACGCGAAATGG
1 AACTATCGCAACGCGAAATGC
* ** *
243192 AA-AATCGCAACGCGATCTCC
1 AACTATCGCAACGCGAAATGC
*
243212 AACTATCGCAACGCGAAATGG
1 AACTATCGCAACGCGAAATGC
* * ** *
243233 AA-AAACGCAACGCGATTTTC
1 AACTATCGCAACGCGAAATGC
*
243253 AACTATCGCAATGCGAAATGC
1 AACTATCGCAACGCGAAATGC
243274 AAC
1 AAC
243277 GTGAATTTGC
Statistics
Matches: 187, Mismatches: 63, Indels: 36
0.65 0.22 0.13
Matches are distributed among these distances:
18 3 0.02
19 10 0.05
20 86 0.46
21 81 0.43
22 7 0.04
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.19
Consensus pattern (21 bp):
AACTATCGCAACGCGAAATGC
Found at i:243296 original size:142 final size:142
Alignment explanation
Indices: 243030--243299 Score: 443
Period size: 142 Copynumber: 1.9 Consensus size: 142
243020 GCGACTGTAG
* *
243030 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTCCAACTATCGCAACGCGAAATGGAAAA
* *
243095 TCGCAACGCGACTGTAAACTATCGCAATGCGAAATGCAACACGAATTTGTGATTATGGAGATCGC
66 ACGCAACGCGACTGTAAACTATCGCAATGCGAAATGCAACACGAATTTGCGATTATGGAGATCGC
243160 GTTGCGATTTCA
131 GTTGCGATTTCA
243172 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTCCAACTATCGCAACGCGAAATGGAAAA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTCCAACTATCGCAACGCGAAATGGAAAA
* * * **
243237 ACGCAACGCGATTTTCAACTATCGCAATGCGAAATGCAACGTGAATTTGCGA-TAGTGGAGATC
66 ACGCAACGCGACTGTAAACTATCGCAATGCGAAATGCAACACGAATTTGCGATTA-TGGAGATC
243300 ACAATGCGAA
Statistics
Matches: 118, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
141 2 0.02
142 116 0.98
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (142 bp):
ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTCCAACTATCGCAACGCGAAATGGAAAA
ACGCAACGCGACTGTAAACTATCGCAATGCGAAATGCAACACGAATTTGCGATTATGGAGATCGC
GTTGCGATTTCA
Found at i:261499 original size:2 final size:2
Alignment explanation
Indices: 261492--261518 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
261482 CAAACCAAAT
261492 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 T
261519 GAATCAAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:277883 original size:21 final size:20
Alignment explanation
Indices: 277859--277924 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 20
277849 AGATTCAATC
*
277859 AGAACATAAAGAGAAAAAAAA
1 AGAAAATAAA-AGAAAAAAAA
277880 AGAAAATAAAA-ACAGAAAAAA
1 AGAAAATAAAAGA-A-AAAAAA
**
277901 AGGAAAATTGAAGAAAAAAAA
1 A-GAAAATAAAAGAAAAAAAA
277922 AGA
1 AGA
277925 CAAGATGCAT
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
19 1 0.03
20 4 0.11
21 23 0.61
22 9 0.24
23 1 0.03
ACGTcount: A:0.76, C:0.03, G:0.15, T:0.06
Consensus pattern (20 bp):
AGAAAATAAAAGAAAAAAAA
Found at i:278103 original size:69 final size:69
Alignment explanation
Indices: 277980--278117 Score: 213
Period size: 69 Copynumber: 2.0 Consensus size: 69
277970 GATTCAAACT
* * *
277980 ATGAGATTGATCAAGCACAATCATTTCCGAATCACTGAACCACTTCACTCGAAGATCATAGAGCA
1 ATGAGATCGATCAAGCACAATCATTTCCGAATCACTGAACCACTCCACTAGAAGATCATAGAGCA
278045 TCAA
66 TCAA
* * * *
278049 ATGAGATCGATCAAGCACAATCATTTCTGAATTACTGAATCACTCCACTAGAAGATCATGGAGCA
1 ATGAGATCGATCAAGCACAATCATTTCCGAATCACTGAACCACTCCACTAGAAGATCATAGAGCA
278114 TCAA
66 TCAA
278118 GAGAGAGACA
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 62 1.00
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.24
Consensus pattern (69 bp):
ATGAGATCGATCAAGCACAATCATTTCCGAATCACTGAACCACTCCACTAGAAGATCATAGAGCA
TCAA
Found at i:279122 original size:32 final size:33
Alignment explanation
Indices: 279048--279161 Score: 117
Period size: 32 Copynumber: 3.5 Consensus size: 33
279038 TGAGGGCATC
279048 TTTGAAGATTCAACATCAAATGTTGGGCCATTTT
1 TTTG-AGATTCAACATCAAATGTTGGGCCATTTT
* * *
279082 TTTTAGATTTAACAT-AAAGTGTTGGGGCA-TTT
1 TTTGAGATTCAACATCAAA-TGTTGGGCCATTTT
* * *
279114 TTTGAGATTCAACATCAAATATTGGGACATCTT
1 TTTGAGATTCAACATCAAATGTTGGGCCATTTT
**
279147 TGGGA-ATTCAACATC
1 TTTGAGATTCAACATC
279162 CTGATGCAAA
Statistics
Matches: 67, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
32 37 0.55
33 27 0.40
34 3 0.04
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (33 bp):
TTTGAGATTCAACATCAAATGTTGGGCCATTTT
Found at i:280387 original size:24 final size:24
Alignment explanation
Indices: 280360--280409 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
280350 TGGTGGTTGA
*
280360 TTTAATGGT-TGTTTGAACTTTATT
1 TTTAATGGTATATTT-AACTTTATT
*
280384 TTTAATGGTATATTTAAGTTTATT
1 TTTAATGGTATATTTAACTTTATT
280408 TT
1 TT
280410 GGTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.24, C:0.02, G:0.14, T:0.60
Consensus pattern (24 bp):
TTTAATGGTATATTTAACTTTATT
Found at i:287284 original size:20 final size:22
Alignment explanation
Indices: 287246--287289 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
287236 TAACTTTTTC
*
287246 TTTTCTCTTTCTTTATTAA-TT
1 TTTTCTCTTTCATTATTAACTT
287267 TTTTCTCTTTCATT-TTAACTT
1 TTTTCTCTTTCATTATTAACTT
287288 TT
1 TT
287290 ACTTTTTCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTTCTCTTTCATTATTAACTT
Found at i:291755 original size:106 final size:106
Alignment explanation
Indices: 291634--291936 Score: 435
Period size: 106 Copynumber: 2.9 Consensus size: 106
291624 ATATCGTGCC
* * *
291634 ACTTGAGACAACACAAGTTCAACTCCACAACGAAGGGACGTCTGGTTGTCAACAAATAATTTCCC
1 ACTTGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCC
291699 AATTTCAGAGCCAATTTCAACTTCACAGCGAATGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAATGATATTGG
*
291740 ACTTGAGACAACACAAGTTCAACTTCACAACGAAGGGACAACTGGTTGTCAACAAACAATTTCCC
1 ACTTGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCC
**
291805 AATTTTGGAGCCAATTTCAACTTCACAGCGAATGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAATGATATTGG
* ** ** * * **
291846 ACTTGAGACAGCACAACCTCAACTTCACAGTGAAGGGGCGACTGGCTGTCAACAAACAATTTCTT
1 ACTTGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCC
* * * *
291911 AGTTCCAGAGCTAATTTTAACTTCAC
66 AATTTCAGAGCCAATTTCAACTTCAC
291937 GGAGTTTCCA
Statistics
Matches: 175, Mismatches: 22, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
106 175 1.00
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (106 bp):
ACTTGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAATGATATTGG
Found at i:292360 original size:87 final size:87
Alignment explanation
Indices: 292166--292343 Score: 295
Period size: 87 Copynumber: 2.1 Consensus size: 87
292156 AACAGTTTCT
*
292166 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTATCTCGATTGAGATAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGATTGAGATAGTTTCC
* *
292231 CTTGAAACGAAATTTTGTCTCC
66 CTTAAAACAAAATTTTGTCTCC
* *
292253 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTG-GGTAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGATTGAGATAGTTTCC
*
292317 CTTAAAACAAAATTTTGTCTCT
66 CTTAAAACAAAATTTTGTCTCC
292339 CTTGA
1 CTTGA
292344 GACAGTTTCT
Statistics
Matches: 85, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
86 33 0.39
87 52 0.61
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.37
Consensus pattern (87 bp):
CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGATTGAGATAGTTTCC
CTTAAAACAAAATTTTGTCTCC
Found at i:292363 original size:101 final size:102
Alignment explanation
Indices: 292253--292491 Score: 338
Period size: 102 Copynumber: 2.4 Consensus size: 102
292243 TTTTGTCTCC
**
292253 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTG-GGTAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGAGACAGTTTCC
* *
292317 C-TTAAAACAAAATTTTGTCTCTCTTGAGACAGTTTCT
66 CATGAAAA-AAAATTTTGTCTCCCTTGAGACAGTTTCT
* * * *
292354 CTTGAAACATAAACATTGAAAACATTTCCTTTGAAATTAATTTTTTCTCTCTTGAGACAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGAGACAGTTTCC
* *
292419 CATGAAAAATAATTTTGTCTCCCTTGAGATAGTTTCT
66 CATGAAAAAAAATTTTGTCTCCCTTGAGACAGTTTCT
* * *
292456 CTCGAAACATAAACCTTGAAAACGTTTCCCTTGAAA
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAA
292492 CACAAAATAT
Statistics
Matches: 122, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
101 50 0.41
102 67 0.55
103 5 0.04
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (102 bp):
CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGAGACAGTTTCC
CATGAAAAAAAATTTTGTCTCCCTTGAGACAGTTTCT
Found at i:292604 original size:36 final size:36
Alignment explanation
Indices: 292532--292743 Score: 192
Period size: 36 Copynumber: 6.0 Consensus size: 36
292522 ACGAGTTTTT
*
292532 AGACAGTTTCCCTTGAAACAAAATCTTGTCTCTCTTG
1 AGACAGTTTCCCTTGAAAC-AAATTTTGTCTCTCTTG
292569 AGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTG
1 AGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTG
*
292605 AGACAGTTTCCCTTGAAACAAA------ATCT-TTG
1 AGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTG
* * * * *
292634 A-ATATATTTTCCTTAAAACAAATTTTGTCTCCCTTG
1 AGACA-GTTTCCCTTGAAACAAATTTTGTCTCTCTTG
* * * *
292670 AGATAGTTT-CTTTTAGAACTAAGTTTTGTCTCTCTTG
1 AGACAGTTTCCCTTGA-AAC-AAATTTTGTCTCTCTTG
* *
292707 AGACAG-TTCCTTTTGAAACAAATTTTGTCCCTCTTG
1 AGACAGTTTCC-CTTGAAACAAATTTTGTCTCTCTTG
292743 A
1 A
292744 AACACAAAAA
Statistics
Matches: 145, Mismatches: 17, Indels: 27
0.77 0.09 0.14
Matches are distributed among these distances:
28 2 0.01
29 18 0.12
30 3 0.02
35 6 0.04
36 66 0.46
37 46 0.32
38 4 0.03
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (36 bp):
AGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTG
Found at i:292705 original size:102 final size:102
Alignment explanation
Indices: 292542--292728 Score: 254
Period size: 102 Copynumber: 1.8 Consensus size: 102
292532 AGACAGTTTC
* *
292542 CCTTGAAACAAAATCTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAG
1 CCTTAAAACAAAATCTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAG
292607 ACAGTTTCC-CTTGAAACAAAATCTTTGAATATATTTT
66 ACAG-TTCCTCTTGAAACAAAATCTTTGAATATATTTT
* * * * *
292644 CCTTAAAAC-AAATTTTGTCTCCCTTGAGATAGTTT-CTTTTAGAACTAAGTTTTGTCTCTCTTG
1 CCTTAAAACAAAATCTTGTCTCCCTTGAGACAGTTTCCCTTGA-AAC-AAATTTTGTCTCTCTTG
*
292707 AGACAGTTCCTTTTGAAACAAA
64 AGACAGTTCCTCTTGAAACAAA
292729 TTTTGTCCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
100 4 0.05
101 30 0.41
102 40 0.54
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (102 bp):
CCTTAAAACAAAATCTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAG
ACAGTTCCTCTTGAAACAAAATCTTTGAATATATTTT
Found at i:292707 original size:37 final size:36
Alignment explanation
Indices: 292649--292743 Score: 120
Period size: 37 Copynumber: 2.6 Consensus size: 36
292639 ATTTTCCTTA
* * *
292649 AAACAAATTTTGTCTCCCTTGAGATAGTTTCTTTT-
1 AAACAAATTTTGTCTCTCTTGAGACAGTTCCTTTTG
*
292684 AGAACTAAGTTTTGTCTCTCTTGAGACAGTTCCTTTTG
1 A-AAC-AAATTTTGTCTCTCTTGAGACAGTTCCTTTTG
*
292722 AAACAAATTTTGTCCCTCTTGA
1 AAACAAATTTTGTCTCTCTTGA
292744 AACACAAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
35 1 0.02
36 19 0.37
37 30 0.59
38 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.42
Consensus pattern (36 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTCCTTTTG
Found at i:292810 original size:39 final size:35
Alignment explanation
Indices: 292737--292822 Score: 118
Period size: 39 Copynumber: 2.3 Consensus size: 35
292727 AATTTTGTCC
*
292737 CTCTTGAAACACAAAAAAAAACCTCAAAATTGTTT
1 CTCTTGAAACACAAAAAAAAACCTCAAAAATGTTT
*
292772 CTCTTGAAACACACACACAAAAAACCTTTAAAAATGTTT
1 CTCTTGAAACACA-A-A-AAAAAACC-TCAAAAATGTTT
292811 CTCTTGAAACAC
1 CTCTTGAAACAC
292823 CAAACCCTCA
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
35 13 0.29
36 1 0.02
37 1 0.02
38 8 0.18
39 22 0.49
ACGTcount: A:0.45, C:0.23, G:0.06, T:0.26
Consensus pattern (35 bp):
CTCTTGAAACACAAAAAAAAACCTCAAAAATGTTT
Found at i:292978 original size:78 final size:79
Alignment explanation
Indices: 292835--292979 Score: 204
Period size: 78 Copynumber: 1.8 Consensus size: 79
292825 AACCCTCAAG
* * * **
292835 TTCGATTACACTCAGCTTCAAGGGCACATCATTTACAGCATAACTTAAGGCTAGAAGGGTTATCT
1 TTCGATTACACTCAGCTTCAAGGGCACATCATTTACAACATAACTCAAGGCAAGAAGGGACATCT
292900 GTCACCAAAAGACC
66 GTCACCAAAAGACC
**
292914 TTCGATTATGCTCAGC-TCTAA-GGCACATCATTTACAACATAACTCAAGGCAAGAAGGGACATC
1 TTCGATTACACTCAGCTTC-AAGGGCACATCATTTACAACATAACTCAAGGCAAGAAGGGACATC
292977 TGT
65 TGT
292980 TAATAAAATT
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
78 42 0.72
79 16 0.28
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (79 bp):
TTCGATTACACTCAGCTTCAAGGGCACATCATTTACAACATAACTCAAGGCAAGAAGGGACATCT
GTCACCAAAAGACC
Found at i:293973 original size:22 final size:24
Alignment explanation
Indices: 293947--293997 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
293937 TCTTTTTTAC
*
293947 TTTAG-TATATAT-TTTTATTGTT
1 TTTAGATATATATATATTATTGTT
*
293969 TTTAGATTATATATATATTATTTTT
1 TTTAGA-TATATATATATTATTGTT
293994 TTTA
1 TTTA
293998 TTATCAGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 5 0.21
24 7 0.29
25 12 0.50
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (24 bp):
TTTAGATATATATATATTATTGTT
Found at i:294043 original size:7 final size:7
Alignment explanation
Indices: 294031--294204 Score: 155
Period size: 7 Copynumber: 24.9 Consensus size: 7
294021 ATATATATGC
294031 TATTTTT
1 TATTTTT
294038 TATTTTT
1 TATTTTT
294045 TATTTATTT
1 TA-TT-TTT
*
294054 TATATATATA
1 TAT-T-T-TT
* *
294064 TACTTAT
1 TATTTTT
294071 TA-TTTT
1 TATTTTT
*
294077 TACTTTT
1 TATTTTT
*
294084 TA-TTAT
1 TATTTTT
294090 TATTTTAT
1 TATTTT-T
*
294098 T-TATTT
1 TATTTTT
*
294104 TA-TTTA
1 TATTTTT
294110 TATTTTT
1 TATTTTT
294117 T-TCTTTT
1 TAT-TTTT
*
294124 TTTTTTT
1 TATTTTT
294131 TATTTTT
1 TATTTTT
294138 TA-TTTT
1 TATTTTT
294144 TATTTTT
1 TATTTTT
294151 TATTTTT
1 TATTTTT
294158 TATTTTT
1 TATTTTT
294165 TATTTTT
1 TATTTTT
*
294172 TAATTTT
1 TATTTTT
294179 TATTTTT
1 TATTTTT
294186 TATTTTT
1 TATTTTT
294193 TA-TTTT
1 TATTTTT
294199 TATTTT
1 TATTTT
294205 ACTTACTATT
Statistics
Matches: 140, Mismatches: 14, Indels: 26
0.78 0.08 0.14
Matches are distributed among these distances:
6 29 0.21
7 92 0.66
8 7 0.05
9 9 0.06
10 3 0.02
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (7 bp):
TATTTTT
Found at i:294086 original size:13 final size:13
Alignment explanation
Indices: 294034--294204 Score: 152
Period size: 13 Copynumber: 12.8 Consensus size: 13
294024 TATATGCTAT
294034 TTTTTATTTTTTA
1 TTTTTATTTTTTA
294047 --TTTATTTTATATA
1 TTTTTATTTT-T-TA
* * * *
294060 TATATACTTATTA
1 TTTTTATTTTTTA
*
294073 TTTTTACTTTTTA
1 TTTTTATTTTTTA
*
294086 TTATTATTTTATT-
1 TTTTTATTTT-TTA
294099 TATTTTATTTATATT-
1 T-TTTTATTT-T-TTA
* *
294114 TTTTTCTTTTTTT
1 TTTTTATTTTTTA
294127 TTTTTATTTTTTA
1 TTTTTATTTTTTA
294140 TTTTTATTTTTTA
1 TTTTTATTTTTTA
294153 TTTTTTATTTTTTA
1 -TTTTTATTTTTTA
*
294167 TTTTTTAATTTTTA
1 -TTTTTATTTTTTA
294181 TTTTTTATTTTTTA
1 -TTTTTATTTTTTA
294195 TTTTTATTTT
1 TTTTTATTTT
294205 ACTTACTATT
Statistics
Matches: 135, Mismatches: 14, Indels: 18
0.81 0.08 0.11
Matches are distributed among these distances:
11 8 0.06
12 3 0.02
13 58 0.43
14 56 0.41
15 10 0.07
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:294090 original size:38 final size:36
Alignment explanation
Indices: 294005--294090 Score: 102
Period size: 38 Copynumber: 2.3 Consensus size: 36
293995 TTATTATCAG
* *
294005 TTTTATTAATTTATATATATATATGCTATTTTTTATT
1 TTTTATTATTTTATATATATATAT-CTATTTTTTACT
294042 TTTTATTTATTTTATATATATATA-CTTATTATTTTTACT
1 TTTTA-TTATTTTATATATATATATC-TA-T-TTTTTACT
294081 TTTTATTATT
1 TTTTATTATT
294091 ATTTTATTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
36 1 0.02
37 7 0.16
38 23 0.53
39 12 0.28
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.67
Consensus pattern (36 bp):
TTTTATTATTTTATATATATATATCTATTTTTTACT
Found at i:294108 original size:14 final size:14
Alignment explanation
Indices: 294082--294290 Score: 73
Period size: 14 Copynumber: 14.5 Consensus size: 14
294072 ATTTTTACTT
294082 TTTATTATTATTTTA
1 TTTATT-TTATTTTA
294097 TTTATTTTATTTATA
1 TTTATTTTATTT-TA
*
294112 TTT-TTTTCTTTT-
1 TTTATTTTATTTTA
*
294124 TTTTTTTTA-TTT-
1 TTTATTTTATTTTA
294136 TTTATTTT-TATTT-
1 TTTATTTTAT-TTTA
*
294149 TTTATTTT-TTATTT
1 TTTATTTTATT-TTA
294163 TTTATTTT-TTAATT-
1 TTTATTTTATT--TTA
*
294177 TTTATTTT-TTATTT
1 TTTATTTTATT-TTA
294191 TTTATTTTTATTTTA
1 TTTA-TTTTATTTTA
*
294206 CTTACTATTTTATCTTTG
1 -TT--TATTTTAT-TTTA
*
294224 TTT-TCTTTATCTTA
1 TTTAT-TTTATTTTA
* * *
294238 TCTTTTATTTAATTTG
1 T-TTAT-TTTATTTTA
*
294254 TTTTTTCTTCATTTTAA
1 TTTATT-TT-ATTTT-A
*
294271 TTTAATTTA-TTTA
1 TTTATTTTATTTTA
294284 TTTATTT
1 TTTATTT
294291 CTTACCTTTT
Statistics
Matches: 158, Mismatches: 16, Indels: 42
0.73 0.07 0.19
Matches are distributed among these distances:
12 14 0.09
13 29 0.18
14 45 0.28
15 35 0.22
16 18 0.11
17 12 0.08
18 5 0.03
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.77
Consensus pattern (14 bp):
TTTATTTTATTTTA
Found at i:294118 original size:1 final size:1
Alignment explanation
Indices: 294112--294204 Score: 69
Period size: 1 Copynumber: 93.0 Consensus size: 1
294102 TTTATTTATA
* * * * * * * **
294112 TTTTTTTCTTTTTTTTTTTTATTTTTTATTTTTATTTTTTATTTTTTATTTTTTATTTTTTAATT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * *
294177 TTTATTTTTTATTTTTTATTTTTATTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
294205 ACTTACTATT
Statistics
Matches: 68, Mismatches: 24, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 68 1.00
ACGTcount: A:0.13, C:0.01, G:0.00, T:0.86
Consensus pattern (1 bp):
T
Found at i:301046 original size:15 final size:15
Alignment explanation
Indices: 301022--301055 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
301012 CCGTAGGACC
*
301022 ACTACATCCCGAAGG
1 ACTACATCCCGAAGA
*
301037 ACTACGTCCCGAAGA
1 ACTACATCCCGAAGA
301052 ACTA
1 ACTA
301056 TTATACCCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.32, G:0.18, T:0.15
Consensus pattern (15 bp):
ACTACATCCCGAAGA
Found at i:301182 original size:29 final size:29
Alignment explanation
Indices: 301140--301220 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
301130 TTTCATATAT
301140 TCATGTA-CTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
301168 TCATGTAGCTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
*
301197 TCATGTAGTTCATGTCATGTTCTC
1 TCATGTAGCTCATGTCAT-TTCTC
301221 ATATCATATC
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
28 7 0.14
29 38 0.76
30 5 0.10
ACGTcount: A:0.17, C:0.21, G:0.16, T:0.46
Consensus pattern (29 bp):
TCATGTAGCTCATGTCATTTCTCTTGTGA
Found at i:301676 original size:45 final size:45
Alignment explanation
Indices: 301610--301714 Score: 124
Period size: 45 Copynumber: 2.3 Consensus size: 45
301600 GCACTACTTG
* * **
301610 TGCATCGGTGCA-TAAAATGCATTTGATGTTT-TATTATTAATGGAA
1 TGCATCGATGCACT-AAATGCATTAGATGTTTATATT-TTAAAAGAA
* *
301655 TGCATCGATGCACTAATTGCATTAGATGTTTATATTTTAAAAGAG
1 TGCATCGATGCACTAAATGCATTAGATGTTTATATTTTAAAAGAA
301700 TGCATCGATGCACTA
1 TGCATCGATGCACTA
301715 CCTGTGCATC
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
45 47 0.90
46 5 0.10
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.37
Consensus pattern (45 bp):
TGCATCGATGCACTAAATGCATTAGATGTTTATATTTTAAAAGAA
Found at i:301723 original size:19 final size:19
Alignment explanation
Indices: 301699--301746 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
301689 TTTTAAAAGA
301699 GTGCATCGATGCACTACCT
1 GTGCATCGATGCACTACCT
301718 GTGCATCGATGCACTACCT
1 GTGCATCGATGCACTACCT
301737 GTGCATCGAT
1 GTGCATCGAT
301747 ACACCTTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (19 bp):
GTGCATCGATGCACTACCT
Found at i:301837 original size:21 final size:21
Alignment explanation
Indices: 301784--301839 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
301774 ACCTTGATGA
*
301784 ATCGATGCACTATGAATATGC
1 ATCGATGCACTCTGAATATGC
*
301805 ATCGATGCACTCTGAATATTC
1 ATCGATGCACTCTGAATATGC
301826 ATCGATGCACTCTG
1 ATCGATGCACTCTG
301840 CCCAGAATCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (21 bp):
ATCGATGCACTCTGAATATGC
Found at i:311116 original size:25 final size:25
Alignment explanation
Indices: 311087--311134 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
311077 GTACTAGTTA
*
311087 TGAAAATGAGATG-TAAAAATGAATG
1 TGAAAATGA-AAGATAAAAATGAATG
*
311112 TGAAAGTGAAAGATAAAAATGAA
1 TGAAAATGAAAGATAAAAATGAA
311135 ATATGAAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 18 0.90
ACGTcount: A:0.56, C:0.00, G:0.23, T:0.21
Consensus pattern (25 bp):
TGAAAATGAAAGATAAAAATGAATG
Found at i:313306 original size:34 final size:34
Alignment explanation
Indices: 313212--313313 Score: 108
Period size: 34 Copynumber: 3.1 Consensus size: 34
313202 CTTTATGAAT
*
313212 ATTCCGATAATTCTATTCCCGAATGTAATGTTAC
1 ATTCCGATAATTCTATTCCCGAATGTAATATTAC
* * *
313246 ATTCCCAATAA-TGT-GT--C--ATGTAATATTAC
1 ATT-CCGATAATTCTATTCCCGAATGTAATATTAC
*
313275 ATTCCGATAATTCTATTCCCGAATGTAATATTAT
1 ATTCCGATAATTCTATTCCCGAATGTAATATTAC
313309 ATTCC
1 ATTCC
313314 ATGAACCAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 14
0.71 0.11 0.19
Matches are distributed among these distances:
28 6 0.11
29 16 0.30
30 1 0.02
31 1 0.02
32 1 0.02
33 1 0.02
34 21 0.40
35 6 0.11
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.39
Consensus pattern (34 bp):
ATTCCGATAATTCTATTCCCGAATGTAATATTAC
Found at i:317106 original size:400 final size:400
Alignment explanation
Indices: 316007--320021 Score: 7724
Period size: 400 Copynumber: 10.0 Consensus size: 400
315997 AATGGTGGAG
* *
316007 TACTAAAATGAAACAAAATTTAAACTTTTAGTATAGTTTTGAAAAAATTGAAAGTTTAGGCACTA
1 TACTAAAATGAAACAAAAATTAAACTTTTAGTATAGTTTTGAAAAAATTAAAAGTTTAGGCACTA
* * *
316072 AAACGGAACAAAACTAATGATTTAGGTACTAAAGTGTAATTTACCCAAAAAAACAATTCAATCAC
66 AAACGGATCAAAACTAATAATTTAGGTACTAAAGTGTAATTTACCCAAAAAATCAATTCAATCAC
* *
316137 TTAATTTACCCCTATACATTGTTTACAATAGAAATAGCTAAAGATGTACATTATAATTTCTTCTT
131 TTAATTTACCCCTATACATTGTTTACAACATAAATAGCTAAAGATGTACATTATAATTTCTTCTT
316202 TGACTTCGTTTAACCACATAGAAAACTAAATTAAGTATTCACCATAAATTCCAGAACCAAATGAA
196 TGACTTCGTTTAACCACATAGAAAACTAAATTAAGTATTCACCATAAATTCCAGAACCAAATGAA
* *
316267 TTTAAAATTTATACCCTTCTTAAATCATTAATTGCATAAACTCAGACTTGTATTTCTATGCAAGT
261 TTTAAAATTTATACCCTTCTTAAATCATTAATTGTATAAACTCAGACTTGTATTTCTACGCAAGT
316332 GTTATCTCTTTATTTTAAATAAAAAATATTTTATTTTTCATTTTCTACAAGAATAAATACGATAA
326 GTTATCTCTTTATTTTAAATAAAAAATATTTTATTTTTCATTTTCTACAAGAATAAATACGATAA
316397 TAACTCATGT
391 TAACTCATGT
* *
316407 TACTAAAATGAAACAAAAATTAAACTTTTAGTATAATTTTGAAAAAAATTGAAAGTTTAGGCACT
1 TACTAAAATGAAACAAAAATTAAACTTTTAGTATAGTTTTG-AAAAAATTAAAAGTTTAGGCACT
316472 AAAACGGATCAAAACTAATAATTTAGGTACTAAAGTGTAATTTACCCAAAAAAAATCAATTCAAT
65 AAAACGGATCAAAACTAATAATTTAGGTACTAAAGTGTAATTTACCC--AAAAAATCAATTCAAT
* *
316537 CACTTAATTTACCCCTATACATTGTTTACAATAGAAATAGCTAAAGATGTACATTATAATTTCTT
128 CACTTAATTTACCCCTATACATTGTTTACAACATAAATAGCTAAAGATGTACATTATAATTTCTT
* *
316602 CTTTGACTTCGTTTAACCACATAGAAAACTAAATTAAGTATCCACCATAAATTCCAGAACCAAAC
193 CTTTGACTTCGTTTAACCACATAGAAAACTAAATTAAGTATTCACCATAAATTCCAGAACCAAAT
316667 GAATTTAAAATTTATACCCTTCTTAAATCATTAATTGTATAAACTCAGACTTGTATTTCTACGCA
258 GAATTTAAAATTTATACCCTTCTTAAATCATTAATTGTATAAACTCAGACTTGTATTTCTACGCA
316732 AGTGTTATCTCTTTATTTTAAATAAAAAATATTTTATTTTTCATTTTCTACAAGAATAAATACGA
323 AGTGTTATCTCTTTATTTTAAATAAAAAATATTTTATTTTTCATTTTCTACAAGAATAAATACGA
316797 TAATAACTCATGT
388 TAATAACTCATGT
316810 TACTAAAATGAAACAAAAATTAAACTTTTAGTATAGTTTTGAAAAAATTAAAAGTTTAGGCACTA
1 TACTAAAATGAAACAAAAATTAAACTTTTAGTATAGTTTTGAAAAAATTAAAAGTTTAGGCACTA
316875 AAACGGATCAAAACTAATAATTTAGGTACTAAAGTGTAATTTACCCAAAAAATCAATTCAATCAC
66 AAACGGATCAAAACTAATAATTTAGGTACTAAAGTGTAATTTACCCAAAAAATCAATTCAATCAC
316940 TTAATTTACCCCTATACATTGTTTACAACATAAATAGCTAAAGATGTACATTATAATTTCTTCTT
131 TTAATTTACCCCTATACATTGTTTACAACATAAATAGCTAAAGATGTACATTATAATTTCTTCTT
317005 TGACTTCGTTTAACCACATAGAAAACTAAATTAAGTATTCACCATAAATTCCAGAACCAAATGAA
196 TGACTTCGTTTAACCACATAGAAAACTAAATTAAGTATTCACCATAAATTCCAGAACCAAATGAA
317070 TTTAAAATTTATACCCTTCTTAAATCATTAATTGTATAAACTCAGACTTGTATTTCTACGCAAGT
261 TTTAAAATTTATACCCTTCTTAAATCATTAATTGTATAAACTCAGACTTGTATTTCTACGCAAGT
317135 GTTATCTCTTTATTTTAAATAAAAAATATTTTATTTTTCATTTTCTACAAGAATAAATACGATAA
326 GTTATCTCTTTATTTTAAATAAAAAATATTTTATTTTTCATTTTCTACAAGAATAAATACGATAA
317200 TAACTCATGT
391 TAACTCATGT
317210 TACTAAAATGAAACAAAAATTAAACTTTTAGTATAGTTTTGAAAAAATTAAAAGTTTAGGCACTA
1 TACTAAAATGAAACAAAAATTAAACTTTTAGTATAGTTTTGAAAAAATTAAAAGTTTAGGCACTA
317275 AAACGGATCAAAACTAATAATTTAGGTACTAAAGTGTAATTTACCCAAAAAATCAATTCAATCAC
66 AAACGGATCAAAACTAATAATTTAGGTACTAAAGTGTAATTTACCCAAAAAATCAATTCAATCAC
317340 TTAATTTACCCCTATACATTGTTTACAACATAAATAGCTAAAGATGTACATTATAATTTCTTCTT
131 TTAATTTACCCCTATACATTGTTTACAACATAAATAGCTAAAGATGTACATTATAATTTCTTCTT
* *
317405 TGACTTCGTTTAACCACATAGAAAACTAAATCAAGTATTCATCATAAATTCCAGAACCAAATGAA
196 TGACTTCGTTTAACCACATAGAAAACTAAATTAAGTATTCACCATAAATTCCAGAACCAAATGAA
317470 TTTAAAATTTATACCCTTCTTAAATCATTAATTGTATAAACTCAGACTTGTATTTCTACGCAAGT
261 TTTAAAATTTATACCCTTCTTAAATCATTAATTGTATAAACTCAGACTTGTATTTCTACGCAAGT
317535 GTTATCTCTTTATTTTAAATAAAAAATATTTTATTTTTCATTTTCTACAAGAATAAATACGATAA
326 GTTATCTCTTTATTTTAAATAAAAAATATTTTATTTTTCATTTTCTACAAGAATAAATACGATAA
317600 TAACTCATGT
391 TAACTCATGT
317610 TACTAAAATGAAACAAAAATTAAACTTTTAGTATAGTTTTGAAAAAATTAAAAGTTTAGGCACTA
1 TACTAAAATGAAACAAAAATTAAACTTTTAGTATAGTTTTGAAAAAATTAAAAGTTTAGGCACTA
*
317675 AAACGGATCAAAACTAATAATTTAGGTACTAAAGTGTAATTTACCCAAAAAATCAATTCAAACAC
66 AAACGGATCAAAACTAATAATTTAGGTACTAAAGTGTAATTTACCCAAAAAATCAATTCAATCAC
317740 TTAATTTACCCCTATACATTGTTTACAACATAAATAGCTAAAGATGTACATTATAATTTCTTCTT
131 TTAATTTACCCCTATACATTGTTTACAACATAAATAGCTAAAGATGTACATTATAATTTCTTCTT
* *
317805 TGACTTCGTTTAACCACATAGAAAACTAAATTAAGTATCCACCATAAATTCCAGAACCAAACGAA
196 TGACTTCGTTTAACCACATAGAAAACTAAATTAAGTATTCACCATAAATTCCAGAACCAAATGAA
317870 TTTAAAATTTATACCCTTCTTAAATCATTAATTGTATAAACTCAGACTTGTATTTCTACGCAAGT
261 TTTAAAATTTATACCCTTCTTAAATCATTAATTGTATAAACTCAGACTTGTATTTCTACGCAAGT
317935 GTTATCTCTTTATTTTAAATAAAAAATATTTTATTTTTCATTTTCTACAAGAATAAATACGATAA
326 GTTATCTCTTTATTTTAAATAAAAAATATTTTATTTTTCATTTTCTACAAGAATAAATACGATAA
318000 TAACTCATGT
391 TAACTCATGT
318010 TACTAAAATGAAACAAAAATTAAACTTTTAGTATAGTTTTGAAAAAATTAAAAGTTTAGGCACTA
1 TACTAAAATGAAACAAAAATTAAACTTTTAGTATAGTTTTGAAAAAATTAAAAGTTTAGGCACTA
318075 AAACGGATCAAAACTAATAATTTAGGTACTAAAGTGTAATTTACCCAAAAAATCAATTCAATCAC
66 AAACGGATCAAAACTAATAATTTAGGTACTAAAGTGTAATTTACCCAAAAAATCAATTCAATCAC
318140 TTAATTTACCCCTATACATTGTTTACAACATAAATAGCTAAAGATGTACATTATAATTTCTTCTT
131 TTAATTTACCCCTATACATTGTTTACAACATAAATAGCTAAAGATGTACATTATAATTTCTTCTT
318205 TGACTTCGTTTAACCACATAGAAAACTAAATTAAGTATTCACCATAAATTCCAGAACCAAATGAA
196 TGACTTCGTTTAACCACATAGAAAACTAAATTAAGTATTCACCATAAATTCCAGAACCAAATGAA
318270 TTTAAAATTTATACCCTTCTTAAATCATTAATTGTATAAACTCAGACTTGTATTTCTACGCAAGT
261 TTTAAAATTTATACCCTTCTTAAATCATTAATTGTATAAACTCAGACTTGTATTTCTACGCAAGT
318335 GTTATCTCTTTATTTTAAATAAAAAATATTTTATTTTTCATTTTCTACAAGAATAAATACGATAA
326 GTTATCTCTTTATTTTAAATAAAAAATATTTTATTTTTCATTTTCTACAAGAATAAATACGATAA
318400 TAACTCATGT
391 TAACTCATGT
318410 TACTAAAATGAAACAAAAATTAAACTTTTAGTATAGTTTTGAAAAAATTAAAAGTTTAGGCACTA
1 TACTAAAATGAAACAAAAATTAAACTTTTAGTATAGTTTTGAAAAAATTAAAAGTTTAGGCACTA
318475 AAACGGATCAAAACTAATAATTTAGGTACTAAAGTGTAATTTACCCAAAAAAATCAATTCAATCA
66 AAACGGATCAAAACTAATAATTTAGGTACTAAAGTGTAATTTACCC-AAAAAATCAATTCAATCA
318540 CTTAATTTACCCCTATACATTGTTTACAACATAAATAGCTAAAGATGTACATTATAATTTCTTCT
130 CTTAATTTACCCCTATACATTGTTTACAACATAAATAGCTAAAGATGTACATTATAATTTCTTCT
* *
318605 TTGACTTCGTTTAACCACATAGAAAACTAAATCAAGTATTCATCATAAATTCCAGAACCAAATGA
195 TTGACTTCGTTTAACCACATAGAAAACTAAATTAAGTATTCACCATAAATTCCAGAACCAAATGA
318670 ATTTAAAATTTATACCCTTCTTAAATCATTAATTGTATAAACTCAGACTTGTATTTCTACGCAAG
260 ATTTAAAATTTATACCCTTCTTAAATCATTAATTGTATAAACTCAGACTTGTATTTCTACGCAAG
318735 TGTTATCTCTTTATTTTAAATAAAAAATATTTTATTTTTCATTTTCTACAAGAATAAATACGATA
325 TGTTATCTCTTTATTTTAAATAAAAAATATTTTATTTTTCATTTTCTACAAGAATAAATACGATA
318800 ATAACTCATGT
390 ATAACTCATGT
318811 TACTAAAATGAAACAAAAATTAAACTTTTAGTATAGTTTTGAAAAAATTAAAAGTTTAGGCACTA
1 TACTAAAATGAAACAAAAATTAAACTTTTAGTATAGTTTTGAAAAAATTAAAAGTTTAGGCACTA
*
318876 AAACGGATCAAAACTAATAATTTAGGTACTAAAGTGTAATTTACCCAAAAAATCAATTCAAACAC
66 AAACGGATCAAAACTAATAATTTAGGTACTAAAGTGTAATTTACCCAAAAAATCAATTCAATCAC
318941 TTAATTTACCCCTATACATTGTTTACAACATAAATAGCTAAAGATGTACATTATAATTTCTTCTT
131 TTAATTTACCCCTATACATTGTTTACAACATAAATAGCTAAAGATGTACATTATAATTTCTTCTT
* *
319006 TGACTTCGTTTAACCACATAGAAAACTAAATTAAGTATCCACCATAAATTCCAGAACCAAACGAA
196 TGACTTCGTTTAACCACATAGAAAACTAAATTAAGTATTCACCATAAATTCCAGAACCAAATGAA
319071 TTTAAAATTTATACCCTTCTTAAATCATTAATTGTATAAACTCAGACTTGTATTTCTACGCAAGT
261 TTTAAAATTTATACCCTTCTTAAATCATTAATTGTATAAACTCAGACTTGTATTTCTACGCAAGT
319136 GTTATCTCTTTATTTTAAATAAAAAATATTTTATTTTTCATTTTCTACAAGAATAAATACGATAA
326 GTTATCTCTTTATTTTAAATAAAAAATATTTTATTTTTCATTTTCTACAAGAATAAATACGATAA
319201 TAACTCATGT
391 TAACTCATGT
319211 TACTAAAATGAAACAAAAATTAAACTTTTAGTATAGTTTTGAAAAAATTAAAAGTTTAGGCACTA
1 TACTAAAATGAAACAAAAATTAAACTTTTAGTATAGTTTTGAAAAAATTAAAAGTTTAGGCACTA
*
319276 AAACGGATCAAAACTAATAATTTAGGTACTAAAGTGTAATTTACCCAAAAAATCAATTCAAACAC
66 AAACGGATCAAAACTAATAATTTAGGTACTAAAGTGTAATTTACCCAAAAAATCAATTCAATCAC
319341 TTAATTTACCCCTATACATTGTTTACAACATAAATAGCTAAAGATGTACATTATAATTTCTTCTT
131 TTAATTTACCCCTATACATTGTTTACAACATAAATAGCTAAAGATGTACATTATAATTTCTTCTT
319406 TGACTTCGTTTAACCACATAGAAAACTAAATTAAGTATTCACCATAAATTCCAGAACCAAATGAA
196 TGACTTCGTTTAACCACATAGAAAACTAAATTAAGTATTCACCATAAATTCCAGAACCAAATGAA
319471 TTTAAAATTTATACCCTTCTTAAATCATTAATTGTATAAACTCAGACTTGTATTTCTACGCAAGT
261 TTTAAAATTTATACCCTTCTTAAATCATTAATTGTATAAACTCAGACTTGTATTTCTACGCAAGT
319536 GTTATCTCTTTATTTTAAATAAAAAATATTTTATTTTTCATTTTCTACAAGAATAAATACGATAA
326 GTTATCTCTTTATTTTAAATAAAAAATATTTTATTTTTCATTTTCTACAAGAATAAATACGATAA
319601 TAACTCATGT
391 TAACTCATGT
319611 TACTAAAATGAAACAAAAATTAAACTTTTAGTATAGTTTTGAAAAAATTAAAAGTTTAGGCACTA
1 TACTAAAATGAAACAAAAATTAAACTTTTAGTATAGTTTTGAAAAAATTAAAAGTTTAGGCACTA
*
319676 AAACGGATCAAAACTAATAATTTATGTACTAAAGTGTAATTTACCCAAAAAATCAATTCAATCAC
66 AAACGGATCAAAACTAATAATTTAGGTACTAAAGTGTAATTTACCCAAAAAATCAATTCAATCAC
319741 TTAATTTACCCCTATACATTGTTTACAACATAAATAGCTAAAGATGTACATTATAATTTCTTCTT
131 TTAATTTACCCCTATACATTGTTTACAACATAAATAGCTAAAGATGTACATTATAATTTCTTCTT
* *
319806 TGACTTCGTTTAACCACATAGAAAACTAAATCAAGTATTCATCATAAATTCCAGAACCAAATGAA
196 TGACTTCGTTTAACCACATAGAAAACTAAATTAAGTATTCACCATAAATTCCAGAACCAAATGAA
319871 TTTAAAATTTATACCCTTCTTAAATCATTAATTGTATAAACTCAGACTTGTATTTCTACGCAAGT
261 TTTAAAATTTATACCCTTCTTAAATCATTAATTGTATAAACTCAGACTTGTATTTCTACGCAAGT
*
319936 GTTATCTCTTTATTTTAAATAAAACATATTTTATTTTTCATTTTCTACAAGAATAAATACGATAA
326 GTTATCTCTTTATTTTAAATAAAAAATATTTTATTTTTCATTTTCTACAAGAATAAATACGATAA
320001 TAACTCATGT
391 TAACTCATGT
320011 TACTAAAATGA
1 TACTAAAATGA
320022 CCCTAATTTA
Statistics
Matches: 3572, Mismatches: 39, Indels: 8
0.99 0.01 0.00
Matches are distributed among these distances:
400 2713 0.76
401 466 0.13
402 69 0.02
403 324 0.09
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (400 bp):
TACTAAAATGAAACAAAAATTAAACTTTTAGTATAGTTTTGAAAAAATTAAAAGTTTAGGCACTA
AAACGGATCAAAACTAATAATTTAGGTACTAAAGTGTAATTTACCCAAAAAATCAATTCAATCAC
TTAATTTACCCCTATACATTGTTTACAACATAAATAGCTAAAGATGTACATTATAATTTCTTCTT
TGACTTCGTTTAACCACATAGAAAACTAAATTAAGTATTCACCATAAATTCCAGAACCAAATGAA
TTTAAAATTTATACCCTTCTTAAATCATTAATTGTATAAACTCAGACTTGTATTTCTACGCAAGT
GTTATCTCTTTATTTTAAATAAAAAATATTTTATTTTTCATTTTCTACAAGAATAAATACGATAA
TAACTCATGT
Found at i:320621 original size:19 final size:19
Alignment explanation
Indices: 320597--320655 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
320587 TATATATAAT
*
320597 ATTAATAAATTTAATTTAA
1 ATTAATATATTTAATTTAA
* *
320616 ATTAATATATAT-ATATAA
1 ATTAATATATTTAATTTAA
*
320634 TATTTATATATTTAATTTAA
1 -ATTAATATATTTAATTTAA
320654 AT
1 AT
320656 ATATATACTC
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
18 5 0.16
19 22 0.69
20 5 0.16
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTAATATATTTAATTTAA
Found at i:320634 original size:38 final size:36
Alignment explanation
Indices: 320583--320662 Score: 124
Period size: 38 Copynumber: 2.2 Consensus size: 36
320573 ATAATTATTT
320583 TATATATATATAATATTAATAAATTTAATTTAAATTAA
1 TATATATATATAATATTAATAAATTTAATTTAAA-T-A
* *
320621 TATATATATATAATATTTATATATTTAATTTAAATA
1 TATATATATATAATATTAATAAATTTAATTTAAATA
320657 TATATA
1 TATATA
320663 CTCGGCCCGA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
36 7 0.17
37 1 0.03
38 32 0.80
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (36 bp):
TATATATATATAATATTAATAAATTTAATTTAAATA
Found at i:320635 original size:32 final size:34
Alignment explanation
Indices: 320586--320662 Score: 90
Period size: 32 Copynumber: 2.3 Consensus size: 34
320576 ATTATTTTAT
320586 ATATATATAATATTAATAAATT-TA-ATTTAAATTA
1 ATATATAT-ATATTAAT-AATTATATATTTAAATTA
* *
320620 ATATATATATA-TAATATTTATATATTTAATTTA
1 ATATATATATATTAATAATTATATATTTAAATTA
320653 A-ATATATATA
1 ATATATATATA
320663 CTCGGCCCGA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
31 3 0.08
32 15 0.38
33 13 0.33
34 8 0.21
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (34 bp):
ATATATATATATTAATAATTATATATTTAAATTA
Found at i:320643 original size:15 final size:15
Alignment explanation
Indices: 320581--320662 Score: 54
Period size: 13 Copynumber: 5.9 Consensus size: 15
320571 AAATAATTAT
320581 TTTATATATATATAA
1 TTTATATATATATAA
* *
320596 TATTA-ATAAATTTAA
1 T-TTATATATATATAA
*
320611 TTTAAAT-TA-AT-A
1 TTTATATATATATAA
*
320623 TATATATATA-AT-A
1 TTTATATATATATAA
320636 TTTATATAT-T-TAA
1 TTTATATATATATAA
*
320649 TTTAAATATATATA
1 TTTATATATATATA
320663 CTCGGCCCGA
Statistics
Matches: 52, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
12 7 0.13
13 23 0.44
14 5 0.10
15 14 0.27
16 3 0.06
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TTTATATATATATAA
Found at i:321068 original size:2 final size:2
Alignment explanation
Indices: 321056--321097 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
321046 ACACTTTTTC
321056 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
321097 A
1 A
321098 AAGATAAATC
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:330196 original size:32 final size:32
Alignment explanation
Indices: 330160--330232 Score: 101
Period size: 32 Copynumber: 2.3 Consensus size: 32
330150 CTTTTGCTCC
* *
330160 ACCCACATCTGAGTCGAAAGCTACTGAAATTA
1 ACCCACATCTGAGCCGAAAACTACTGAAATTA
* *
330192 ACCCACAGCTGAGCCGAAAATTACTGAAATTA
1 ACCCACATCTGAGCCGAAAACTACTGAAATTA
*
330224 ATCCACATC
1 ACCCACATC
330233 AACCACCATT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.38, C:0.27, G:0.14, T:0.21
Consensus pattern (32 bp):
ACCCACATCTGAGCCGAAAACTACTGAAATTA
Found at i:331612 original size:2 final size:2
Alignment explanation
Indices: 331605--331631 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
331595 ATGCTATTAC
331605 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 T
331632 TTAATTAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:334402 original size:20 final size:20
Alignment explanation
Indices: 334377--334421 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
334367 TCCGCACTAG
334377 AACTCCACTAATGCAGCACT
1 AACTCCACTAATGCAGCACT
334397 AACTCCACTAATGCAGCACT
1 AACTCCACTAATGCAGCACT
334417 AACTC
1 AACTC
334422 TATCATGCTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.36, C:0.36, G:0.09, T:0.20
Consensus pattern (20 bp):
AACTCCACTAATGCAGCACT
Found at i:340046 original size:16 final size:14
Alignment explanation
Indices: 340007--340051 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 14
339997 ATTAACATAA
*
340007 TTATATATTTAGTTT
1 TTAT-TATTTAATTT
340022 TTATTATTTATATTT
1 TTATTATTTA-ATTT
340037 TTATTAATTTAATTT
1 TTATT-ATTTAATTT
340052 CAATTTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
14 6 0.22
15 16 0.59
16 5 0.19
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (14 bp):
TTATTATTTAATTT
Found at i:341289 original size:34 final size:34
Alignment explanation
Indices: 341250--341315 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
341240 AAGACTTTGG
* *
341250 CTGACGAAGAGCTT-ACAGTTTCCGTAGGTCCTAT
1 CTGACGAAG-GCTTGAAAGTTTCCGAAGGTCCTAT
* *
341284 CTGACGGAGGCTTGAAAGTTTTCGAAGGTCCT
1 CTGACGAAGGCTTGAAAGTTTCCGAAGGTCCT
341316 CTCCGGGAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 4 0.15
34 23 0.85
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (34 bp):
CTGACGAAGGCTTGAAAGTTTCCGAAGGTCCTAT
Found at i:347013 original size:21 final size:21
Alignment explanation
Indices: 346984--347023 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
346974 ATAAATGTTA
* *
346984 AAAATATTAATAATTTAATTT
1 AAAACATTAAAAATTTAATTT
347005 AAAACATTAAAAATTTAAT
1 AAAACATTAAAAATTTAAT
347024 ATATTTTTCT
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:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (21 bp):
AAAACATTAAAAATTTAATTT
Found at i:348942 original size:12 final size:13
Alignment explanation
Indices: 348921--348954 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
348911 ACAATTTGAT
348921 AAAA-AAAAAAC-
1 AAAACAAAAAACA
348932 AAAACAAAAAACA
1 AAAACAAAAAACA
348945 AAAACAAAAA
1 AAAACAAAAA
348955 TCATAGTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 4 0.19
12 7 0.33
13 10 0.48
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAACAAAAAACA
Found at i:354280 original size:6 final size:6
Alignment explanation
Indices: 354269--354363 Score: 190
Period size: 6 Copynumber: 15.8 Consensus size: 6
354259 AAAGTACTAT
354269 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
354317 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATA
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATA
354364 TACAACAACT
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 89 1.00
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.34
Consensus pattern (6 bp):
ATATAC
Found at i:362323 original size:17 final size:18
Alignment explanation
Indices: 362286--362324 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
362276 TTTTCAATCG
362286 AAAATATATAAAAATACTT
1 AAAATATATAAAAATA-TT
*
362305 AAAATATATAATAAT-TT
1 AAAATATATAAAAATATT
362322 AAA
1 AAA
362325 TTGTTTAGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
19 14 0.74
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAATATATAAAAATATT
Found at i:363234 original size:5 final size:5
Alignment explanation
Indices: 363216--363279 Score: 62
Period size: 5 Copynumber: 12.8 Consensus size: 5
363206 ATTCATGACA
* *
363216 AAAAT AAAATT AAAAT AAAA- AAACT AAAAT AAAAT -AAA- GAAAT AAAAT
1 AAAAT AAAA-T AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
363264 AAAAAT AAAAAT AAAA
1 -AAAAT -AAAAT AAAA
363280 AACCCTAAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
4 9 0.18
5 26 0.51
6 16 0.31
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:363248 original size:19 final size:18
Alignment explanation
Indices: 363215--363279 Score: 87
Period size: 19 Copynumber: 3.6 Consensus size: 18
363205 AATTCATGAC
363215 AAAAATAAAATTAAAATAA
1 AAAAATAAAA-TAAAATAA
363234 AAAAACTAAAATAAAATAA
1 AAAAA-TAAAATAAAATAA
* *
363253 AGAAATAAAATAAAA-AT
1 AAAAATAAAATAAAATAA
363270 AAAAATAAAA
1 AAAAATAAAA
363280 AACCCTAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
17 10 0.24
18 10 0.24
19 17 0.40
20 5 0.12
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.17
Consensus pattern (18 bp):
AAAAATAAAATAAAATAA
Found at i:363258 original size:13 final size:12
Alignment explanation
Indices: 363215--363281 Score: 66
Period size: 13 Copynumber: 5.4 Consensus size: 12
363205 AATTCATGAC
363215 AAAAATAAAAT-
1 AAAAATAAAATA
* *
363226 TAAAATAAAAAA
1 AAAAATAAAATA
363238 ACTAAAATAAAATA
1 A--AAAATAAAATA
363252 AAGAAATAAAAT-
1 AA-AAATAAAATA
363264 AAAAATAAAAATA
1 AAAAAT-AAAATA
363277 AAAAA
1 AAAAA
363282 CCCTAAATTA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
11 13 0.28
12 8 0.17
13 14 0.30
14 11 0.24
ACGTcount: A:0.81, C:0.01, G:0.01, T:0.16
Consensus pattern (12 bp):
AAAAATAAAATA
Found at i:363280 original size:6 final size:6
Alignment explanation
Indices: 363215--363280 Score: 57
Period size: 6 Copynumber: 10.8 Consensus size: 6
363205 AATTCATGAC
* *
363215 AAAAAT -AAAAT TAAAAT AAAAAA ACTAAAAT -AAAAT AAAGAA- ATAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT A--AAAAT AAAAAT AAA-AAT A-AAAAT
363264 AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAA
363281 ACCCTAAATT
Statistics
Matches: 50, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
5 10 0.20
6 31 0.62
7 5 0.10
8 4 0.08
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:363281 original size:19 final size:17
Alignment explanation
Indices: 363215--363279 Score: 78
Period size: 18 Copynumber: 3.6 Consensus size: 17
363205 AATTCATGAC
363215 AAAAATAAAATTAAAATAA
1 AAAAATAAAA-TAAAAT-A
363234 AAAAACTAAAATAAAATA
1 AAAAA-TAAAATAAAATA
363252 AAGAAATAAAATAAAA-A
1 AA-AAATAAAATAAAATA
363269 TAAAAATAAAA
1 -AAAAATAAAA
363280 AACCCTAAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
17 9 0.21
18 15 0.35
19 14 0.33
20 5 0.12
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.17
Consensus pattern (17 bp):
AAAAATAAAATAAAATA
Found at i:363381 original size:13 final size:13
Alignment explanation
Indices: 363360--363392 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
363350 AACTAAGAAC
363360 AAAAAAACAAAAG
1 AAAAAAACAAAAG
*
363373 AAAACAACAAAAG
1 AAAAAAACAAAAG
363386 AAAAAAA
1 AAAAAAA
363393 TAGATAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.85, C:0.09, G:0.06, T:0.00
Consensus pattern (13 bp):
AAAAAAACAAAAG
Found at i:365848 original size:22 final size:21
Alignment explanation
Indices: 365822--365862 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
365812 TGGTGACTCT
*
365822 TGATTCTAGAATCTTGAATTTC
1 TGATTCCAG-ATCTTGAATTTC
*
365844 TGATTCCCGATCTTGAATT
1 TGATTCCAGATCTTGAATT
365863 CTTCAAATGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.24, C:0.17, G:0.15, T:0.44
Consensus pattern (21 bp):
TGATTCCAGATCTTGAATTTC
Found at i:366487 original size:10 final size:9
Alignment explanation
Indices: 366459--366519 Score: 52
Period size: 10 Copynumber: 6.4 Consensus size: 9
366449 ACCCACCTTA
366459 TTTTCTTTT
1 TTTTCTTTT
366468 CTTTTC-TTT
1 -TTTTCTTTT
*
366477 TTTTCTATT
1 TTTTCTTTT
*
366486 TTCTCTCTTT
1 TTTTCT-TTT
*
366496 TTCTCTGTTCT
1 TTTTCT-TT-T
366507 TTTTCTTTT
1 TTTTCTTTT
366516 TTTT
1 TTTT
366520 AAATTTAGGG
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
8 5 0.12
9 15 0.35
10 17 0.40
11 6 0.14
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.79
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:366513 original size:19 final size:18
Alignment explanation
Indices: 366469--366516 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
366459 TTTTCTTTTC
*
366469 TTTTCTTTTTTTCTATTT
1 TTTTCTTTTTCTCTATTT
* *
366487 TCTCTCTTTTTCTCTGTTCT
1 T-TTTCTTTTTCTCTATT-T
366507 TTTTCTTTTT
1 TTTTCTTTTT
366517 TTTAAATTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 21 0.88
20 2 0.08
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.77
Consensus pattern (18 bp):
TTTTCTTTTTCTCTATTT
Found at i:368673 original size:20 final size:19
Alignment explanation
Indices: 368648--368701 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 19
368638 GCGAAATAAA
368648 AATCGCAATGCGATCTCCAG
1 AATCGCAATGCGATC-CCAG
*
368668 AATCGCAAAT-CAGTTCCCAG
1 AATCGC-AATGC-GATCCCAG
368688 AATCGCAATGCGAT
1 AATCGCAATGCGAT
368702 AGTACAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
19 5 0.17
20 18 0.62
21 6 0.21
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (19 bp):
AATCGCAATGCGATCCCAG
Found at i:368755 original size:20 final size:20
Alignment explanation
Indices: 368730--368779 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
368720 GATTTTCCAT
*
368730 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACAT-ATA
368750 AATCGCAACGCGAACATATA
1 AATCGCAACGCGAACATATA
368770 AATCGCAACG
1 AATCGCAACG
368780 AGATTCTGAC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.44, C:0.24, G:0.18, T:0.14
Consensus pattern (20 bp):
AATCGCAACGCGAACATATA
Found at i:368835 original size:20 final size:20
Alignment explanation
Indices: 368791--368881 Score: 110
Period size: 20 Copynumber: 4.5 Consensus size: 20
368781 GATTCTGACT
* *
368791 ATCGCAATGAGTATCCGTAAA
1 ATCGCAACGCGTATCCGT-AA
368812 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* * *
368832 ATCGCAACGAGAATACGTAA
1 ATCGCAACGCGTATCCGTAA
*
368852 ATTGCAACGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
*
368872 ATAGCAACGC
1 ATCGCAACGC
368882 AATTTTTAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
20 44 0.73
21 16 0.27
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGTATCCGTAA
Found at i:368867 original size:40 final size:41
Alignment explanation
Indices: 368791--368880 Score: 128
Period size: 40 Copynumber: 2.2 Consensus size: 41
368781 GATTCTGACT
* * *
368791 ATCGCAATGAGTATCCGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
*
368832 ATCGCAACGAGAATACGT-AAATTGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
*
368872 ATAGCAACG
1 ATCGCAACG
368881 CAATTTTTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 29 0.66
41 15 0.34
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (41 bp):
ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
Found at i:369158 original size:27 final size:27
Alignment explanation
Indices: 369101--369154 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
369091 CATCTCCGGC
***
369101 GAAATCCCTCACAACCATTCACGGTCT
1 GAAATCCCTCACAACCATTCACGAAAT
*
369128 GAAATCCCTCACAATCATTCA-GAAAT
1 GAAATCCCTCACAACCATTCACGAAAT
369154 G
1 G
369155 GAAAATCAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 3 0.13
27 20 0.87
ACGTcount: A:0.35, C:0.31, G:0.11, T:0.22
Consensus pattern (27 bp):
GAAATCCCTCACAACCATTCACGAAAT
Found at i:369505 original size:21 final size:21
Alignment explanation
Indices: 369459--369518 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
369449 CGTAACATGA
*
369459 AAATGAAAACCGCAAC-A-CG
1 AAATGAAAATCGCAACGAGCG
**
369478 AAAATGACTATCGCAACGAGCG
1 -AAATGAAAATCGCAACGAGCG
369500 AAATGAAAATCGCAACGAG
1 AAATGAAAATCGCAACGAG
369519 AGAATCGTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
20 13 0.39
21 18 0.55
22 2 0.06
ACGTcount: A:0.48, C:0.22, G:0.20, T:0.10
Consensus pattern (21 bp):
AAATGAAAATCGCAACGAGCG
Found at i:369539 original size:33 final size:33
Alignment explanation
Indices: 369487--369577 Score: 119
Period size: 33 Copynumber: 2.7 Consensus size: 33
369477 GAAAATGACT
369487 ATCGCAACGAGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAAC--GCGAAATGAAAATCGCAACGAGAGA
* * *
369522 ATCGTAACGCGAAATGAAAATCACAACGAGATA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
**
369555 ATCGCAACGCGAAACCAAAATCG
1 ATCGCAACGCGAAATGAAAATCG
369578 TATTGCGATT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
33 42 0.86
35 7 0.14
ACGTcount: A:0.46, C:0.22, G:0.21, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:369622 original size:33 final size:33
Alignment explanation
Indices: 369580--369706 Score: 182
Period size: 33 Copynumber: 3.8 Consensus size: 33
369570 CAAAATCGTA
*
369580 TTGCGATTTTCATTTCGCGTTGCGATTGTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* **
369613 TTGCGATTTTAATTTTACGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
369646 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* **
369679 TTGAGATAGTCATTTCCGCGTTGCGATT
1 TTGCGATTTTCATTT-CGCGTTGCGATT
369707 TTCATTCTCT
Statistics
Matches: 83, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
33 71 0.86
34 12 0.14
ACGTcount: A:0.13, C:0.20, G:0.22, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:369649 original size:14 final size:14
Alignment explanation
Indices: 369630--369681 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
369620 TTTAATTTTA
369630 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
369644 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
369663 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
369677 CGTTG
1 CGTTG
369682 AGATAGTCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
14 15 0.48
16 3 0.10
17 3 0.10
19 10 0.32
ACGTcount: A:0.08, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:369711 original size:20 final size:20
Alignment explanation
Indices: 369644--369734 Score: 63
Period size: 20 Copynumber: 4.9 Consensus size: 20
369634 GCGATTCTCT
369644 CGTTGCGATTTTCATTT-CG
1 CGTTGCGATTTTCATTTCCG
*
369663 CGTTGCGA--TTC---T-CT
1 CGTTGCGATTTTCATTTCCG
* **
369677 CGTTGAGATAGTCATTTCCG
1 CGTTGCGATTTTCATTTCCG
*
369697 CGTTGCGATTTTCA-TTCTCT
1 CGTTGCGATTTTCATTTC-CG
*
369717 CGTTGCAATTTTCATTTC
1 CGTTGCGATTTTCATTTC
369735 AACCAAAAGA
Statistics
Matches: 55, Mismatches: 9, Indels: 14
0.71 0.12 0.18
Matches are distributed among these distances:
14 9 0.16
16 2 0.04
17 3 0.05
19 12 0.22
20 26 0.47
21 3 0.05
ACGTcount: A:0.13, C:0.23, G:0.19, T:0.45
Consensus pattern (20 bp):
CGTTGCGATTTTCATTTCCG
Found at i:373193 original size:14 final size:14
Alignment explanation
Indices: 373174--373209 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
373164 ATTGTTTAAT
373174 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
373188 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
373202 TGATTTGT
1 TGATTTGT
373210 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:373363 original size:33 final size:33
Alignment explanation
Indices: 373316--373395 Score: 115
Period size: 33 Copynumber: 2.4 Consensus size: 33
373306 AAAAATGACT
* * *
373316 ATCGCAATGTGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
373349 ATCGCAATGCGAAATTAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
373382 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
373396 CTAAATTCGC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.46, C:0.20, G:0.20, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:373447 original size:33 final size:33
Alignment explanation
Indices: 373405--373603 Score: 299
Period size: 33 Copynumber: 5.8 Consensus size: 33
373395 ACTAAATTCG
373405 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
*
373438 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
* * *
373471 CATTGCGATTTTCATTTCGCATTGTGATAGTCATTTCCG
1 CGTTGCGATTTTCATTTCGCATTGCGAT--TC----CCT
373510 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
*
373543 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
373576 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
373604 AGTCATTTCC
Statistics
Matches: 151, Mismatches: 9, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
33 120 0.79
35 2 0.01
37 2 0.01
39 27 0.18
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
Found at i:373528 original size:105 final size:105
Alignment explanation
Indices: 373403--373628 Score: 434
Period size: 105 Copynumber: 2.2 Consensus size: 105
373393 AAACTAAATT
373403 CGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGATTC
1 CGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGATTC
*
373468 TCTCATTGCGATTTTCATTTCGCATTGTGATAGTCATTTC
66 TCTCATTGCGATTTTCATTTCGCATTGCGATAGTCATTTC
373508 CGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGATTC
1 CGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGATTC
*
373573 TCTCGTTGCGATTTTCATTTCGCATTGCGATAGTCATTTC
66 TCTCATTGCGATTTTCATTTCGCATTGCGATAGTCATTTC
373613 CGCGTTGCGATTTTCA
1 CGCGTTGCGATTTTCA
373629 CGTTGCGATT
Statistics
Matches: 119, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
105 119 1.00
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (105 bp):
CGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGATTC
TCTCATTGCGATTTTCATTTCGCATTGCGATAGTCATTTC
Found at i:373531 original size:72 final size:67
Alignment explanation
Indices: 373407--373603 Score: 299
Period size: 72 Copynumber: 2.9 Consensus size: 67
373397 TAAATTCGCG
*
373407 TTGCGATTTTCATTTCGCATTGCGATTC-CCTCGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 TTGCGATTTTCATTTCGCATTGCGATTCTCCTCGTTGCGATTTTCATTTCGCATTGCGATTCCCT
373471 CA
66 CA
* *
373473 TTGCGATTTTCATTTCGCATTGTGATAGTCATTTCCGCGTTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT--TC---TCCTCGTTGCGATTTTCATTTCGCATTGCGAT
*
373538 TCCCTCG
61 TCCCTCA
373545 TTGCGATTTTCATTTCGCATTGCGATTCT-CTCGTTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGATTCTCCTCGTTGCGATTTTCATTTCGCATTGCGAT
373604 AGTCATTTCC
Statistics
Matches: 119, Mismatches: 6, Indels: 12
0.87 0.04 0.09
Matches are distributed among these distances:
66 54 0.45
67 1 0.01
68 2 0.02
70 2 0.02
72 60 0.50
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (67 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCCTCGTTGCGATTTTCATTTCGCATTGCGATTCCCT
CA
Found at i:373591 original size:86 final size:87
Alignment explanation
Indices: 373496--373692 Score: 290
Period size: 86 Copynumber: 2.3 Consensus size: 87
373486 TTCGCATTGT
** *
373496 GATAGTCATTTCCGCGTTGCGATTTTCATTT-CGCATTGCGATTCCCTCGTTGCGATTTTCATTT
1 GATAGTCATTTCCGCGTTGCGATAGTCATTTCCGCATTGCGATTCCCACGTTGCGATTTTCATTT
373560 CGCATTGCGATTCTCTCGTTGC
66 CGCATTGCGATTCTCTCGTTGC
** * * **
373582 GATTTTCATTT-CGCATTGCGATAGTCATTTCCGCGTTGCGATTTTCACGTTGCGATTTTCATTT
1 GATAGTCATTTCCGCGTTGCGATAGTCATTTCCGCATTGCGATTCCCACGTTGCGATTTTCATTT
373646 CGCATTGCGATTCTCTCGTTGC
66 CGCATTGCGATTCTCTCGTTGC
*
373668 GATAGTAATTTCCGCGTTGCGATAG
1 GATAGTCATTTCCGCGTTGCGATAG
373693 ACGTTAAGAT
Statistics
Matches: 96, Mismatches: 13, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
85 16 0.17
86 68 0.71
87 12 0.12
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.41
Consensus pattern (87 bp):
GATAGTCATTTCCGCGTTGCGATAGTCATTTCCGCATTGCGATTCCCACGTTGCGATTTTCATTT
CGCATTGCGATTCTCTCGTTGC
Found at i:373619 original size:72 final size:67
Alignment explanation
Indices: 373403--373628 Score: 285
Period size: 72 Copynumber: 3.2 Consensus size: 67
373393 AAACTAAATT
*
373403 CGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGATTC
1 CGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTC
373468 T-
66 TC
* * * *
373469 CTCATTGCGATTTTCATTTCGCATTGTGATAGTCATTTCCGCGTTGCGATTTTCATTTCGCATTG
1 CGCGTTGCGATTTTCATTTCGCATTGCGAT--TC---T-CTCGTTGCGATTTTCATTTCGCATTG
373534 CGATTC-C
60 CGATTCTC
*
373541 CTCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATAG
1 CGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGAT--
373606 TCATTTC
64 TC---TC
373613 CGCGTTGCGATTTTCA
1 CGCGTTGCGATTTTCA
373629 CGTTGCGATT
Statistics
Matches: 138, Mismatches: 9, Indels: 20
0.83 0.05 0.12
Matches are distributed among these distances:
66 56 0.41
67 1 0.01
68 4 0.03
70 2 0.01
72 75 0.54
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (67 bp):
CGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTC
TC
Found at i:373632 original size:14 final size:14
Alignment explanation
Indices: 373615--373642 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
373605 GTCATTTCCG
373615 CGTTGCGATTTTCA
1 CGTTGCGATTTTCA
373629 CGTTGCGATTTTCA
1 CGTTGCGATTTTCA
373643 TTTCGCATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTTTCA
Found at i:373666 original size:33 final size:34
Alignment explanation
Indices: 373597--373690 Score: 118
Period size: 33 Copynumber: 2.8 Consensus size: 34
373587 TCATTTCGCA
* *
373597 TTGCGATAGTCATTTCCGCGTTGCGATTTTCACG
1 TTGCGATAGTCATTTCCGCATTGCGATTCTCACG
** *
373631 TTGCGATTTTCATTT-CGCATTGCGATTCTCTCG
1 TTGCGATAGTCATTTCCGCATTGCGATTCTCACG
* *
373664 TTGCGATAGTAATTTCCGCGTTGCGAT
1 TTGCGATAGTCATTTCCGCATTGCGAT
373691 AGACGTTAAG
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
33 27 0.54
34 23 0.46
ACGTcount: A:0.15, C:0.22, G:0.22, T:0.40
Consensus pattern (34 bp):
TTGCGATAGTCATTTCCGCATTGCGATTCTCACG
Found at i:373736 original size:20 final size:20
Alignment explanation
Indices: 373663--373736 Score: 53
Period size: 20 Copynumber: 3.6 Consensus size: 20
373653 CGATTCTCTC
* *
373663 GTTGCGATAGTAATTTCCGC
1 GTTGCGATAGTCATTTCCGT
* * **
373683 GTTGCGATAGAC-GTTAAGAT
1 GTTGCGATAGTCATTTCCG-T
373703 GATTGCGA-ACGTCATTTCCGT
1 G-TTGCGATA-GTCATTTCCGT
373724 GTTGCGATAGTCA
1 GTTGCGATAGTCA
373737 AATGAATGCC
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
19 3 0.08
20 22 0.56
21 11 0.28
22 3 0.08
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (20 bp):
GTTGCGATAGTCATTTCCGT
Found at i:376000 original size:14 final size:14
Alignment explanation
Indices: 375981--376007 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
375971 TCCCATGGCA
375981 TTTTCTTTGGGGAC
1 TTTTCTTTGGGGAC
375995 TTTTCTTTGGGGA
1 TTTTCTTTGGGGA
376008 TTTCTTCTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.11, G:0.30, T:0.52
Consensus pattern (14 bp):
TTTTCTTTGGGGAC
Found at i:376241 original size:24 final size:24
Alignment explanation
Indices: 376207--376260 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
376197 CTGAAAAATC
376207 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
376231 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
376255 ATCAAA
1 ATCAAA
376261 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:376274 original size:24 final size:24
Alignment explanation
Indices: 376207--376274 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
376197 CTGAAAAATC
* * *
376207 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
376231 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
376255 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
376275 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:377135 original size:20 final size:19
Alignment explanation
Indices: 377114--377333 Score: 88
Period size: 20 Copynumber: 10.9 Consensus size: 19
377104 GCGATAGTCA
377114 GAATCTCGTTGCGATTTAC
1 GAATCTCGTTGCGATTTAC
* * * *
377133 AGATTCACATTGCGATTTAT
1 -GAATCTCGTTGCGATTTAC
** *
377153 GTGTTCACGTTGCGATTTAC
1 G-AATCTCGTTGCGATTTAC
* *
377173 GTAT-TCGCATTGCGATTTAT
1 GAATCTCG--TTGCGATTTAC
*
377193 GTATTCTCGTTGCGATTTAC
1 G-AATCTCGTTGCGATTTAC
377213 -AGATACGT-GTTGCGATTTAC
1 GA-AT-C-TCGTTGCGATTTAC
* *
377233 GGATACGCGTTGCGATTTTAC
1 GAAT-CTCGTTGCGA-TTTAC
* *
377254 GTATTGTCGTTGCGATTTAC
1 G-AATCTCGTTGCGATTTAC
* * *
377274 GGATACGCATTGCGATTTTAC
1 GAAT-CTCGTTGCGA-TTTAC
* *
377295 GGATACTCGTTGCGATAGT-C
1 GAAT-CTCGTTGCGAT-TTAC
*
377315 AGAATCGCGTTGCGATTTA
1 -GAATCTCGTTGCGATTTA
377334 TATGTTCGCG
Statistics
Matches: 151, Mismatches: 32, Indels: 34
0.70 0.15 0.16
Matches are distributed among these distances:
18 3 0.02
19 5 0.03
20 101 0.67
21 38 0.25
22 4 0.03
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.38
Consensus pattern (19 bp):
GAATCTCGTTGCGATTTAC
Found at i:377206 original size:60 final size:60
Alignment explanation
Indices: 377161--377310 Score: 185
Period size: 61 Copynumber: 2.5 Consensus size: 60
377151 ATGTGTTCAC
* * *
377161 GTTGCGATTTACGTATTCGCATTGCGA-TTTATGTATTCTCGTTGCGATTTACAGATACG
1 GTTGCGATTTACGGATACGCATTGCGATTTTACGTATTCTCGTTGCGATTTACAGATACG
* * *
377220 TGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACG
1 -GTTGCGATTTACGGATACGCATTGCGATTTTACGTATTCTCGTTGCGATTTACAGATACG
* * *
377281 CATTGCGATTTTACGGATACTCGTTGCGAT
1 -GTTGCGA-TTTACGGATACGCATTGCGAT
377311 AGTCAGAATC
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
60 24 0.30
61 35 0.44
62 20 0.25
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.39
Consensus pattern (60 bp):
GTTGCGATTTACGGATACGCATTGCGATTTTACGTATTCTCGTTGCGATTTACAGATACG
Found at i:377226 original size:40 final size:40
Alignment explanation
Indices: 377117--377250 Score: 162
Period size: 40 Copynumber: 3.4 Consensus size: 40
377107 ATAGTCAGAA
* *
377117 TCTCGTTGCGATTTACAGATTCACATTGCGATTTATGTGT
1 TCTCGTTGCGATTTACAGATTCGCATTGCGATTTATGTAT
*
377157 TCACGTTGCGATTTAC-GTATTCGCATTGCGATTTATGTAT
1 TCTCGTTGCGATTTACAG-ATTCGCATTGCGATTTATGTAT
* ** * *
377197 TCTCGTTGCGATTTACAGATACGTGTTGCGATTTACGGAT
1 TCTCGTTGCGATTTACAGATTCGCATTGCGATTTATGTAT
* *
377237 ACGCGTTGCGATTT
1 TCTCGTTGCGATTT
377251 TACGTATTGT
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
39 1 0.01
40 79 0.98
41 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.22, T:0.40
Consensus pattern (40 bp):
TCTCGTTGCGATTTACAGATTCGCATTGCGATTTATGTAT
Found at i:377266 original size:41 final size:40
Alignment explanation
Indices: 377160--377310 Score: 146
Period size: 41 Copynumber: 3.7 Consensus size: 40
377150 TATGTGTTCA
* * * * *
377160 CGTTGCGATTTACGTATTCG-CATTGCGATTTATGTATTCT
1 CGTTGCGATTTACGTATT-GTCGTTGCGATTTACGGATACG
*
377200 CGTTGCGATTTACAG-ATACGT-GTTGCGATTTACGGATACG
1 CGTTGCGATTTAC-GTAT-TGTCGTTGCGATTTACGGATACG
377240 CGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACG
1 CGTTGCGA-TTTACGTATTGTCGTTGCGATTTACGGATACG
* * **
377281 CATTGCGATTTTACGGATACTCGTTGCGAT
1 CGTTGCGA-TTTACGTATTGTCGTTGCGAT
377311 AGTCAGAATC
Statistics
Matches: 94, Mismatches: 11, Indels: 11
0.81 0.09 0.09
Matches are distributed among these distances:
40 41 0.44
41 53 0.56
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.38
Consensus pattern (40 bp):
CGTTGCGATTTACGTATTGTCGTTGCGATTTACGGATACG
Found at i:377326 original size:61 final size:61
Alignment explanation
Indices: 377199--377333 Score: 166
Period size: 61 Copynumber: 2.2 Consensus size: 61
377189 TTATGTATTC
** * * * *
377199 TCGTTGCGATTTACAGATACGTGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTG
1 TCGTTGCGATTTACAGATACGCATTGCGATTTACGGATACGCGTTGCGATGTCACGAATCG
* *
377260 TCGTTGCGATTTACGGATACGCATTGCGATTTTACGGATACTCGTTGCGATAGTCA-GAATCG
1 TCGTTGCGATTTACAGATACGCATTGCGA-TTTACGGATACGCGTTGCGAT-GTCACGAATCG
377322 -CGTTGCGATTTA
1 TCGTTGCGATTTA
377334 TATGTTCGCG
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
61 38 0.59
62 24 0.38
63 2 0.03
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.36
Consensus pattern (61 bp):
TCGTTGCGATTTACAGATACGCATTGCGATTTACGGATACGCGTTGCGATGTCACGAATCG
Found at i:377328 original size:41 final size:41
Alignment explanation
Indices: 377200--377332 Score: 130
Period size: 41 Copynumber: 3.3 Consensus size: 41
377190 TATGTATTCT
* * *
377200 CGTTGCGA-TTTACAGATACGT-GTTGCGATTTACGGATACG
1 CGTTGCGATTTTACGGATAC-TCGTTGCGATTCACGAATACG
* ** * *
377240 CGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACG
1 CGTTGCGATTTTACGGATACTCGTTGCGATTCACGAATACG
*
377281 CATTGCGATTTTACGGATACTCGTTGCGATAGTCA-GAAT-CG
1 CGTTGCGATTTTACGGATACTCGTTGCGAT--TCACGAATACG
377322 CGTTGCGATTT
1 CGTTGCGATTT
377333 ATATGTTCGC
Statistics
Matches: 78, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
40 9 0.12
41 64 0.82
42 3 0.04
43 2 0.03
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.35
Consensus pattern (41 bp):
CGTTGCGATTTTACGGATACTCGTTGCGATTCACGAATACG
Found at i:377342 original size:20 final size:20
Alignment explanation
Indices: 377319--377371 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 20
377309 ATAGTCAGAA
377319 TCGCGTTGCGATTT-ATATGT
1 TCGCGTTGCGATTTCATAT-T
377339 TCGCGTTGCGATTTTCATATT
1 TCGCGTTGCGA-TTTCATATT
377360 T-GCGTTGCGATT
1 TCGCGTTGCGATT
377372 CTGGAAAATC
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.06
20 20 0.65
21 5 0.16
22 4 0.13
ACGTcount: A:0.13, C:0.17, G:0.25, T:0.45
Consensus pattern (20 bp):
TCGCGTTGCGATTTCATATT
Found at i:377470 original size:20 final size:19
Alignment explanation
Indices: 377421--377474 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
377411 ATTCTTCATA
377421 ATCGCGTTGCGATTCTGGG
1 ATCGCGTTGCGATTCTGGG
* **
377440 AACTGATTTGCGATTCTGGAG
1 ATC-GCGTTGCGATTCTGG-G
377461 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
377475 TTTATTTCGC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.17, C:0.19, G:0.31, T:0.33
Consensus pattern (19 bp):
ATCGCGTTGCGATTCTGGG
Found at i:379218 original size:15 final size:14
Alignment explanation
Indices: 379181--379220 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
379171 GAAATGAAGA
379181 AAATAAAAAAAATG
1 AAATAAAAAAAATG
* *
379195 AATTCAAAAGAAATG
1 AAAT-AAAAAAAATG
379210 AAATAAAAAAA
1 AAATAAAAAAA
379221 TTGTTTGCCA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.75, C:0.03, G:0.07, T:0.15
Consensus pattern (14 bp):
AAATAAAAAAAATG
Found at i:386293 original size:8 final size:8
Alignment explanation
Indices: 386282--386372 Score: 58
Period size: 8 Copynumber: 10.6 Consensus size: 8
386272 ACGAAAACCT
386282 AAAAAT-A
1 AAAAATAA
386289 AAAAATAA
1 AAAAATAA
*
386297 ACAAATAA
1 AAAAATAA
*
386305 ACAAATAA
1 AAAAATAA
*
386313 ACAAATAA
1 AAAAATAA
386321 ATAAAATAA
1 A-AAAATAA
*
386330 TATAAATAA
1 -AAAAATAA
386339 TAATAAATAA
1 -AA-AAATAA
**
386349 TTAAATAA
1 AAAAATAA
386357 ATGAAAATAA
1 A--AAAATAA
386367 GAAAAA
1 -AAAAA
386373 GGACTAAATT
Statistics
Matches: 69, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
7 6 0.09
8 31 0.45
9 18 0.26
10 13 0.19
11 1 0.01
ACGTcount: A:0.75, C:0.03, G:0.02, T:0.20
Consensus pattern (8 bp):
AAAAATAA
Found at i:386324 original size:4 final size:4
Alignment explanation
Indices: 386284--386358 Score: 75
Period size: 4 Copynumber: 19.0 Consensus size: 4
386274 GAAAACCTAA
* * *
386284 AAAT AAA- AAAT AAAC AAAT AAAC AAAT AAAC AAAT AAAT AAAAT AATAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AA-AT
*
386333 AAAT -AAT -AAT AAAT AATT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT
386359 GAAAATAAGA
Statistics
Matches: 59, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
3 9 0.15
4 42 0.71
5 8 0.14
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:386344 original size:10 final size:9
Alignment explanation
Indices: 386315--386356 Score: 52
Period size: 9 Copynumber: 4.7 Consensus size: 9
386305 ACAAATAAAC
386315 AAATAA-AT
1 AAATAATAT
386323 AAAATAATAT
1 -AAATAATAT
386333 AAATAATAAT
1 AAATAAT-AT
386343 AAATAAT-T
1 AAATAATAT
386351 AAATAA
1 AAATAA
386357 ATGAAAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
8 7 0.23
9 13 0.42
10 11 0.35
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (9 bp):
AAATAATAT
Found at i:388988 original size:2 final size:2
Alignment explanation
Indices: 388978--389013 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
388968 TTTTTAGTAT
388978 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
389014 TTCATTTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:389238 original size:18 final size:18
Alignment explanation
Indices: 389194--389243 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
389184 TTATTCTTCT
*
389194 TTTC-ATTTATTTTATTA
1 TTTCTATTTGTTTTATTA
*
389211 TTTTTATTTGTTTTATTTA
1 TTTCTATTTGTTTTA-TTA
389230 TTTCT-TTTGTTTTA
1 TTTCTATTTGTTTTA
389244 GTTTTGGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 3 0.11
18 18 0.64
19 7 0.25
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.76
Consensus pattern (18 bp):
TTTCTATTTGTTTTATTA
Found at i:392454 original size:397 final size:398
Alignment explanation
Indices: 391718--392512 Score: 1186
Period size: 397 Copynumber: 2.0 Consensus size: 398
391708 TCAAGCATGT
* * *
391718 CCCTTCCGAGCTGGAAATAACAAAGGAAGAATTTGAAGCTGTAAAGAATGAGTTGAAACAAAGGG
1 CCCTTCCGAGCTAGAAATAACAAAGAAAGAATTTGAAGCTGTAAAGAATGAGCTGAAACAAAGGG
* *
391783 TAAGGAAACTTGAGGCTGAAAGATACCAGTGGAAACTGGATGCCGATACATAGAAATATAGGGCA
66 TAAGGAAACTTGAGGCCGAAAGATACCAGTGGAAACTGGATGCCGATACATAGAAAGATAGGGCA
* **
391848 GACAAGTTAGAGAAAGAACAGAAGAAAACTTGTTTTGAGCTTGAAGACTTGAGAAAATTGTATCG
131 GACAAGTTAGAGAAAGAACAGAAGAAAACTTGTTTTGAGCTTGAAGACTTAAGAAAAGGGTATCG
* * * *
391913 AGAACAAGTCCAGAGAAATTCTAATCTGAAAATGACTTTTGAGTACTGGAAAGGTGAAACCAGCA
196 AGAACAAGTCCAGAGAAATTCTAATATGAAAAAGACTTCTGAGTACTGGAAAGGCGAAACCAGCA
* * *
391978 GCCTGAAAAGAAAATTTGAAGGGCTTAATGAAAGAGAGACTTTGAAAGAATATCTGAAGACTACT
261 GCCTGAAAAGAAAATTTGAAAGGCATAATGAAAGAGAGACTTTGAAAGAATAACTGAAGACTACT
* *
392043 CAGAGGCGTTTGATAGACA-ATCATCATCAGAACAAGCA-TTTGAGAATCCAGGTAGCTGATTTG
326 CAGAGGCATTTGATAGACAGA-CAGCATCAGAACAAG-AGTTTGAGAATCCAGGTAGCTGATTTG
392106 GAGAAGTCTC
389 GAGAAGTCTC
** ** *
392116 CCCTTCCGAGCTAGAAATAGTAAAGAAAGAATTTGAAGCTGTAAAGAATGAGCTGAAGTAAATGG
1 CCCTTCCGAGCTAGAAATAACAAAGAAAGAATTTGAAGCTGTAAAGAATGAGCTGAAACAAAGGG
* * * ** *
392181 TAAGGGAACTTGAGGCCGAAAGATACCATTGGAAATTGGATTTCGATAC-TCAGAAAGATCGGGC
66 TAAGGAAACTTGAGGCCGAAAGATACCAGTGGAAACTGGATGCCGATACAT-AGAAAGATAGGGC
*
392245 AGACAAGTTAGAGAAAGAACATAAGAAAACTT-TTTTGAGCTTGAAGACTTAAGAAAAGGGTATC
130 AGACAAGTTAGAGAAAGAACAGAAGAAAACTTGTTTTGAGCTTGAAGACTTAAGAAAAGGGTATC
* * *
392309 GAGAACAAGTCCAGAGCAATTCTAATAT-AAAAAGAACTTCTGAGTACTGGAAAGGCGAAGCTAG
195 GAGAACAAGTCCAGAGAAATTCTAATATGAAAAAG-ACTTCTGAGTACTGGAAAGGCGAAACCAG
* * * *
392373 CAGCCTGAAAAGAAAATTTGAAAGGCATGATGAAATAGAGACTTTGAAATAATAACTGAAGACTG
259 CAGCCTGAAAAGAAAATTTGAAAGGCATAATGAAAGAGAGACTTTGAAAGAATAACTGAAGACTA
*
392438 CTCAGAGGCATTTGATAGACAGACAGCATCAGAACAAGAGTTTGAGAATCTAGGTAGCTGATTTG
324 CTCAGAGGCATTTGATAGACAGACAGCATCAGAACAAGAGTTTGAGAATCCAGGTAGCTGATTTG
392503 GAGAAGTCTC
389 GAGAAGTCTC
392513 TTCAGAAACA
Statistics
Matches: 356, Mismatches: 37, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
396 6 0.02
397 207 0.58
398 143 0.40
ACGTcount: A:0.40, C:0.13, G:0.25, T:0.22
Consensus pattern (398 bp):
CCCTTCCGAGCTAGAAATAACAAAGAAAGAATTTGAAGCTGTAAAGAATGAGCTGAAACAAAGGG
TAAGGAAACTTGAGGCCGAAAGATACCAGTGGAAACTGGATGCCGATACATAGAAAGATAGGGCA
GACAAGTTAGAGAAAGAACAGAAGAAAACTTGTTTTGAGCTTGAAGACTTAAGAAAAGGGTATCG
AGAACAAGTCCAGAGAAATTCTAATATGAAAAAGACTTCTGAGTACTGGAAAGGCGAAACCAGCA
GCCTGAAAAGAAAATTTGAAAGGCATAATGAAAGAGAGACTTTGAAAGAATAACTGAAGACTACT
CAGAGGCATTTGATAGACAGACAGCATCAGAACAAGAGTTTGAGAATCCAGGTAGCTGATTTGGA
GAAGTCTC
Found at i:393001 original size:22 final size:22
Alignment explanation
Indices: 392976--393017 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
392966 CATACTTTGC
*
392976 TTTTTTAT-TTTTCCATGTTTA
1 TTTTTTCTATTTTCCATGTTTA
392997 TTTTTTCTATTTTCCATGTTT
1 TTTTTTCTATTTTCCATGTTT
393018 TTACATTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.12, C:0.12, G:0.05, T:0.71
Consensus pattern (22 bp):
TTTTTTCTATTTTCCATGTTTA
Found at i:396930 original size:25 final size:27
Alignment explanation
Indices: 396885--396947 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 27
396875 TATATGTATT
*
396885 ATATAAATGTATATACTATAT-TATATAC
1 ATATTAAT-TATATACTATATAT-TATAC
396913 -TA-TAATTATATAAC-ATATATTATAC
1 ATATTAATTATAT-ACTATATATTATAC
396938 ATATTAATTA
1 ATATTAATTA
396948 ATTAATTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
25 14 0.47
26 8 0.27
27 8 0.27
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (27 bp):
ATATTAATTATATACTATATATTATAC
Found at i:396945 original size:27 final size:25
Alignment explanation
Indices: 396885--396947 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 25
396875 TATATGTATT
* *
396885 ATATAAATGTATATACTATATTATAT
1 ATATTAAT-TATATACTATATTATAC
396911 ACTA-TAATTATATAACATATATTATAC
1 A-TATTAATTATAT-AC-TATATTATAC
396938 ATATTAATTA
1 ATATTAATTA
396948 ATTAATTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
25 5 0.16
26 8 0.26
27 18 0.58
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (25 bp):
ATATTAATTATATACTATATTATAC
Found at i:398326 original size:3 final size:3
Alignment explanation
Indices: 398313--398403 Score: 62
Period size: 3 Copynumber: 30.7 Consensus size: 3
398303 TATATACATT
* ** * * * *
398313 TTA TT- TTA TTA TTA TTA TTT TTA TTA TTA TTA CAA CTG CTA TTG TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
398360 TTC TTC TT- TTCA TTTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TT-A -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
398404 TTCATTTTTA
Statistics
Matches: 72, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
2 6 0.08
3 63 0.88
4 1 0.01
5 2 0.03
ACGTcount: A:0.25, C:0.07, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:400925 original size:20 final size:20
Alignment explanation
Indices: 400893--400950 Score: 82
Period size: 20 Copynumber: 2.9 Consensus size: 20
400883 GTGGTACCGA
400893 TACTGAGCCCTTCGGTATTGG
1 TACTGA-CCCTTCGGTATTGG
400914 TACTGACCCTTCGGTATTGG
1 TACTGACCCTTCGGTATTGG
*
400934 TATTGA-CCTATCGGTAT
1 TACTGACCCT-TCGGTAT
400951 AGATATCCTA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
19 3 0.09
20 26 0.74
21 6 0.17
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.36
Consensus pattern (20 bp):
TACTGACCCTTCGGTATTGG
Found at i:401040 original size:22 final size:20
Alignment explanation
Indices: 400989--401042 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
400979 GGTAAAGAAA
*
400989 TAGTATCGATACTCCTAAGT
1 TAGTATCGATACTCCAAAGT
*
401009 TAGTACCGATACTCCAAAGT
1 TAGTATCGATACTCCAAAGT
401029 TAGAGTATCGATAC
1 T--AGTATCGATAC
401043 CAATTTACAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 19 0.66
22 10 0.34
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (20 bp):
TAGTATCGATACTCCAAAGT
Found at i:401104 original size:21 final size:21
Alignment explanation
Indices: 401079--401130 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
401069 AATACATTGA
401079 TATCGATACTACTATTGGGAG
1 TATCGATACTACTATTGGGAG
401100 TATCGATACTACTATTGGGAG
1 TATCGATACTACTATTGGGAG
401121 TATCGATACT
1 TATCGATACT
401131 CTACCCCTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (21 bp):
TATCGATACTACTATTGGGAG
Found at i:401167 original size:19 final size:20
Alignment explanation
Indices: 401119--401169 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
401109 TACTATTGGG
*
401119 AGTATCGATACTCTACCCCT
1 AGTATCGATACTCTACCCCA
*
401139 AGTAGT-GATACTCT-CCGCA
1 AGTA-TCGATACTCTACCCCA
401158 AGTATCGATACT
1 AGTATCGATACT
401170 AAAATGAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 1 0.04
19 13 0.48
20 12 0.44
21 1 0.04
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.29
Consensus pattern (20 bp):
AGTATCGATACTCTACCCCA
Found at i:409898 original size:6 final size:6
Alignment explanation
Indices: 409878--409915 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
409868 TTTGCTTTCA
409878 GTTATG GTT-TG GTTATG GTTATG GTTATG GTTATG GTT
1 GTTATG GTTATG GTTATG GTTATG GTTATG GTTATG GTT
409916 TAATTTGCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.16
6 26 0.84
ACGTcount: A:0.13, C:0.00, G:0.34, T:0.53
Consensus pattern (6 bp):
GTTATG
Found at i:413297 original size:4 final size:4
Alignment explanation
Indices: 413284--413317 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
413274 TATATGACAA
413284 AAAT -AAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
413318 CAAAGGGTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.10
4 26 0.90
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:418724 original size:20 final size:20
Alignment explanation
Indices: 418699--418738 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
418689 CATATGTAAC
*
418699 GACATCAGATTATTTAACTA
1 GACATCAAATTATTTAACTA
418719 GACATCAAATTATTTAACTA
1 GACATCAAATTATTTAACTA
418739 CAATAGACAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.35
Consensus pattern (20 bp):
GACATCAAATTATTTAACTA
Found at i:419516 original size:23 final size:24
Alignment explanation
Indices: 419467--419518 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
419457 TTGATTTTTT
* *
419467 AAAAATTTAAAATATATAATATTC
1 AAAAACTTAAAATATATAATATAC
419491 AAAAACTT-AAATATAATAATA-AC
1 AAAAACTTAAAATAT-ATAATATAC
419514 AAAAA
1 AAAAA
419519 TATAATAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 12 0.48
24 13 0.52
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (24 bp):
AAAAACTTAAAATATATAATATAC
Done.