Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr1
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: 35726063
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1821929 characters in sequence are not A, C, G, or T
File 1 of 109
Found at i:246 original size:17 final size:17
Alignment explanation
Indices: 224--262 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
214 AACTAGTATA
224 ATAATAA-ACAATAATAT
1 ATAATAATA-AATAATAT
*
241 ATAATAATAAGTAATAT
1 ATAATAATAAATAATAT
258 ATAAT
1 ATAAT
263 GTACTACTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 19 0.95
18 1 0.05
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (17 bp):
ATAATAATAAATAATAT
Found at i:857 original size:245 final size:243
Alignment explanation
Indices: 307--942 Score: 657
Period size: 242 Copynumber: 2.7 Consensus size: 243
297 AGATTATAAT
* * *
307 ATGACATTACAATGTTTAATCATTTATGCATATATAT--A-TA--AA-CTATTA-ATA-TATA--
1 ATGATATTATAATGTTTAATCATTTATGCATATATATAAACTATTAATATATTATATACTATATG
* * * * * * *
362 ATATTATATAACATTATATAGTATAGTAGGATGA-CTAACTTTCTAATATACAAGAAGTATAGGG
66 ATATGATATAATATTATATAATAAAGTAAGA-GAGCTAACTTTCAAATATAGAA-AAGTATAGGG
* * * * *
426 ACTTAGTACATATTTAAACTTGTATAATAACAAACAAAAATATATAAGAATTAATATATAATGTG
129 ACTTAGAACATATTTCAACTAGTATAATAATAAACAAAAATATATAAGAATTAATATATAATATG
* * * *
491 CTGCTATTATTATATTATATATAAAATATAATAAAAGAAATAGTAATTAC
194 CTGATATAACTATATTATATATAAAATACAATAAAAGAAATAGTAATTAC
* *
541 ATGATATTATAATGTTTAATCATTAATGC--ATATATAAACTATTAATATATTATATACTACATG
1 ATGATATTATAATGTTTAATCATTTATGCATATATATAAACTATTAATATATTATATACTATATG
* *
604 ATATGATATAATATTATATAATAAAGTAAGAGAGCTAACTTTCAAATGTATGAAAAGTATAGAGA
66 ATATGATATAATATTATATAATAAAGTAAGAGAGCTAACTTTCAAATATA-GAAAAGTATAGGGA
* * * *
669 CTTAGAACATATTTCAACCAGTATAATAATAAACAATAATA-AT-TGATATATAATGTACTAATA
130 CTTAGAACATATTTCAACTAGTATAATAATAAACAAAAATATATAAGA-AT-TAATATA-TAATA
* * * * *
732 T-TTTATATAACTATTATTATATTATAGATTACAATAAAAGATATAGT-ATTAC
192 TGCTGATATAACTA-TATTATA-TATAAAATACAATAAAAGAAATAGTAATTAC
784 ATGATATTATAATGTTTAATCATTTATGCATATATATAAACTATTAATATATTATATACTATATG
1 ATGATATTATAATGTTTAATCATTTATGCATATATATAAACTATTAATATATTATATACTATATG
* * * * *
849 ATATGATATGATATAACATTATAATAG-AAG-G-GCTAACTTTCAAATTTACG-AAAGTATAGGG
66 ATATGATATAATATTATATAATAA-AGTAAGAGAGCTAACTTTCAAATATA-GAAAAGTATAGGG
* * *
910 GCTTCGAGCATATTTCAACTATAGTATAATAAT
129 ACTTAGAACATATTTCAAC--TAGTATAATAAT
943 TAATATATAA
Statistics
Matches: 335, Mismatches: 45, Indels: 34
0.81 0.11 0.08
Matches are distributed among these distances:
232 6 0.02
234 27 0.08
235 2 0.01
237 2 0.01
238 5 0.01
239 3 0.01
240 5 0.01
241 6 0.02
242 124 0.37
243 64 0.19
244 33 0.10
245 56 0.17
246 2 0.01
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.37
Consensus pattern (243 bp):
ATGATATTATAATGTTTAATCATTTATGCATATATATAAACTATTAATATATTATATACTATATG
ATATGATATAATATTATATAATAAAGTAAGAGAGCTAACTTTCAAATATAGAAAAGTATAGGGAC
TTAGAACATATTTCAACTAGTATAATAATAAACAAAAATATATAAGAATTAATATATAATATGCT
GATATAACTATATTATATATAAAATACAATAAAAGAAATAGTAATTAC
Found at i:886 original size:243 final size:243
Alignment explanation
Indices: 503--942 Score: 638
Period size: 243 Copynumber: 1.8 Consensus size: 243
493 GCTATTATTA
*
503 TATTATATATAAAATATAATAAAAGAAATAGTAATTACATGATATTATAATGTTTAATCATTAAT
1 TATTATATATAAAATACAATAAAAGAAATAGTAATTACATGATATTATAATGTTTAATCATTAAT
* *
568 GCATATATAAACTATTAATATATTATATACTACATGATATGATATAATATTATATAATAAAGTAA
66 GCATATATAAACTATTAATATATTATATACTACATGATATGATATAATATAACATAATAAAGTAA
*
633 GAGAGCTAACTTTCAAATGTATGAAAAGTATAGAGACTTAGAACATATTTCAAC-CAGTATAATA
131 GAGAGCTAACTTTCAAATGTACG-AAAGTATAGAGACTTAGAACATATTTCAACACAGTATAATA
697 ATAAACAATAATAATTGATATATAATGTACTAATATTTTATATAACTAT
195 ATAAACAATAATAATTGATATATAATGTACTAATATTTTATATAACTAT
* * * *
746 TATTATATTATAGATTACAATAAAAGATATAGT-ATTACATGATATTATAATGTTTAATCATTTA
1 TATTATA-TATAAAATACAATAAAAGAAATAGTAATTACATGATATTATAATGTTTAATCATTAA
* * *
810 TGCATATATATAAACTATTAATATATTATATACTATATGATATGATATGATATAACATTATAATA
65 TGC--ATATATAAACTATTAATATATTATATACTACATGATATGATATAATATAACATAATAA-A
* * * * * *
875 G-AAG-G-GCTAACTTTCAAATTTACGAAAGTATAGGGGCTTCGAGCATATTTCAACTATAGTAT
127 GTAAGAGAGCTAACTTTCAAATGTACGAAAGTATAGAGACTTAGAACATATTTCAAC-ACAGTAT
937 AATAAT
191 AATAAT
943 TAATATATAA
Statistics
Matches: 174, Mismatches: 17, Indels: 11
0.86 0.08 0.05
Matches are distributed among these distances:
242 26 0.15
243 57 0.33
244 33 0.19
245 56 0.32
246 2 0.01
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (243 bp):
TATTATATATAAAATACAATAAAAGAAATAGTAATTACATGATATTATAATGTTTAATCATTAAT
GCATATATAAACTATTAATATATTATATACTACATGATATGATATAATATAACATAATAAAGTAA
GAGAGCTAACTTTCAAATGTACGAAAGTATAGAGACTTAGAACATATTTCAACACAGTATAATAA
TAAACAATAATAATTGATATATAATGTACTAATATTTTATATAACTAT
Found at i:11185 original size:2 final size:2
Alignment explanation
Indices: 11180--11206 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11170 CATACGTGTG
11180 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
11207 CTACATCCAC
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:11667 original size:2 final size:2
Alignment explanation
Indices: 11662--11689 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11652 TTTTTTTTGA
11662 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
11690 TTGCATTTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19039 original size:3 final size:3
Alignment explanation
Indices: 19031--19064 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
19021 TAATTTATAT
19031 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
19065 AGCAAATGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:22091 original size:13 final size:13
Alignment explanation
Indices: 22073--22225 Score: 60
Period size: 13 Copynumber: 11.8 Consensus size: 13
22063 GGTCAGTCTG
22073 TTATGTATGTATA
1 TTATGTATGTATA
22086 TTATGTATGT-TA
1 TTATGTATGTATA
22098 TGCATAT-TACT-T-T-
1 T---TATGTA-TGTATA
* *
22111 TTATGTATGTTTG
1 TTATGTATGTATA
22124 TTATGTATGTATA
1 TTATGTATGTATA
22137 TTATGTATG-ATA
1 TTATGTATGTATA
*
22149 TGCATAT-TACTGTCTA
1 T---TATGTA-TGTATA
22165 TGTATGTCA-GT-TA
1 T-TATGT-ATGTATA
*
22178 TGTATGTATAT-TA
1 T-TATGTATGTATA
*
22191 TCATGTATGTATA
1 TTATGTATGTATA
*
22204 TTACAGT-T-TATA
1 TTA-TGTATGTATA
22216 TTATGTATGT
1 TTATGTATGT
22226 GCAGTGTTTT
Statistics
Matches: 110, Mismatches: 10, Indels: 40
0.69 0.06 0.25
Matches are distributed among these distances:
10 4 0.04
11 5 0.05
12 24 0.22
13 50 0.45
14 13 0.12
15 10 0.09
16 4 0.04
ACGTcount: A:0.27, C:0.05, G:0.16, T:0.52
Consensus pattern (13 bp):
TTATGTATGTATA
Found at i:22092 original size:9 final size:9
Alignment explanation
Indices: 22078--22191 Score: 60
Period size: 9 Copynumber: 12.3 Consensus size: 9
22068 GTCTGTTATG
22078 TATGTATAT
1 TATGTATAT
*
22087 TATGTATGT
1 TATGTATAT
*
22096 TATGCATAT
1 TATGTATAT
22105 TACT-T-T-T
1 TA-TGTATAT
*
22112 TATGTATGT
1 TATGTATAT
22121 T-TGT-TAT
1 TATGTATAT
22128 GTATGTATAT
1 -TATGTATAT
22138 TATGTATGA-
1 TATGTAT-AT
*
22147 TATGCATAT
1 TATGTATAT
*
22156 TACTGTCTAT
1 TA-TGTATAT
22166 GTATGTCAGTTAT
1 -TATGT-A--TAT
22179 GTATGTATAT
1 -TATGTATAT
22189 TAT
1 TAT
22192 CATGTATGTA
Statistics
Matches: 82, Mismatches: 9, Indels: 28
0.69 0.08 0.24
Matches are distributed among these distances:
6 1 0.01
7 6 0.07
8 7 0.09
9 40 0.49
10 16 0.20
11 2 0.02
12 1 0.01
13 9 0.11
ACGTcount: A:0.26, C:0.05, G:0.16, T:0.53
Consensus pattern (9 bp):
TATGTATAT
Found at i:22151 original size:51 final size:50
Alignment explanation
Indices: 22068--22207 Score: 201
Period size: 51 Copynumber: 2.8 Consensus size: 50
22058 TGAAAGGTCA
* *
22068 GTCTGTTATGTATGTATATTATGTATGTTATGCATATTACTTTTTATGTAT
1 GTCTGTTATGTATGTATATTATGTATG-TATGCATATTACTGTCTATGTAT
*
22119 GTTTGTTATGTATGTATATTATGTATGATATGCATATTACTGTCTATGTAT
1 GTCTGTTATGTATGTATATTATGTATG-TATGCATATTACTGTCTATGTAT
* * *
22170 GTCAGTTATGTATGTATATTAT-CATGTATGTATATTAC
1 GTCTGTTATGTATGTATATTATGTATGTATGCATATTAC
22208 AGTTTATATT
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
49 11 0.14
50 3 0.04
51 67 0.83
ACGTcount: A:0.26, C:0.06, G:0.16, T:0.51
Consensus pattern (50 bp):
GTCTGTTATGTATGTATATTATGTATGTATGCATATTACTGTCTATGTAT
Found at i:22520 original size:42 final size:42
Alignment explanation
Indices: 22473--22642 Score: 340
Period size: 42 Copynumber: 4.0 Consensus size: 42
22463 TTATGATAAT
22473 TCATCATTCATAGCAATGATTAGTCATAGTAGAAAAATAGGG
1 TCATCATTCATAGCAATGATTAGTCATAGTAGAAAAATAGGG
22515 TCATCATTCATAGCAATGATTAGTCATAGTAGAAAAATAGGG
1 TCATCATTCATAGCAATGATTAGTCATAGTAGAAAAATAGGG
22557 TCATCATTCATAGCAATGATTAGTCATAGTAGAAAAATAGGG
1 TCATCATTCATAGCAATGATTAGTCATAGTAGAAAAATAGGG
22599 TCATCATTCATAGCAATGATTAGTCATAGTAGAAAAATAGGG
1 TCATCATTCATAGCAATGATTAGTCATAGTAGAAAAATAGGG
22641 TC
1 TC
22643 CATACATGTA
Statistics
Matches: 128, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 128 1.00
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.29
Consensus pattern (42 bp):
TCATCATTCATAGCAATGATTAGTCATAGTAGAAAAATAGGG
Found at i:23268 original size:18 final size:18
Alignment explanation
Indices: 23245--23282 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
23235 TATGATGTTT
23245 AAAAGATTAGAAGAATTC
1 AAAAGATTAGAAGAATTC
23263 AAAAGATTAGAAGAATTC
1 AAAAGATTAGAAGAATTC
23281 AA
1 AA
23283 GACTGCTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.58, C:0.05, G:0.16, T:0.21
Consensus pattern (18 bp):
AAAAGATTAGAAGAATTC
Found at i:23798 original size:56 final size:56
Alignment explanation
Indices: 23712--23824 Score: 226
Period size: 56 Copynumber: 2.0 Consensus size: 56
23702 TCAGGGACAT
23712 TGGTCCTATCTATCAACCAATGTGCCAAACAATGAGAAACACTAGTGGCTAATTTA
1 TGGTCCTATCTATCAACCAATGTGCCAAACAATGAGAAACACTAGTGGCTAATTTA
23768 TGGTCCTATCTATCAACCAATGTGCCAAACAATGAGAAACACTAGTGGCTAATTTA
1 TGGTCCTATCTATCAACCAATGTGCCAAACAATGAGAAACACTAGTGGCTAATTTA
23824 T
1 T
23825 AGGTAGAAGA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.27
Consensus pattern (56 bp):
TGGTCCTATCTATCAACCAATGTGCCAAACAATGAGAAACACTAGTGGCTAATTTA
Found at i:29970 original size:18 final size:18
Alignment explanation
Indices: 29949--30000 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
29939 CTACAAATTA
**
29949 AATTAAAATTTAAAACTT
1 AATTAAAATTTAAAAAGT
* *
29967 AATTAAGAAGTAAAAAAGT
1 AATTAA-AATTTAAAAAGT
*
29986 AATTTAAATTTAAAA
1 AATTAAAATTTAAAA
30001 TCAAAATACA
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
18 13 0.50
19 13 0.50
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.33
Consensus pattern (18 bp):
AATTAAAATTTAAAAAGT
Found at i:30174 original size:11 final size:12
Alignment explanation
Indices: 30150--30174 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30140 GAAGTATAGT
30150 AAAATATTTAAA
1 AAAATATTTAAA
30162 AAAATATTTAAA
1 AAAATATTTAAA
30174 A
1 A
30175 TAAAGACACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATATTTAAA
Found at i:38396 original size:22 final size:22
Alignment explanation
Indices: 38337--38407 Score: 74
Period size: 22 Copynumber: 3.2 Consensus size: 22
38327 TTGCCATATT
*
38337 TATACACATGCAT-TTTTCATA
1 TATACATATGCATATTTTCATA
*
38358 TAGTACATACGCATATTTTCCATA
1 TA-TACATATGCATATTTT-CATA
*
38382 TATA-ATATGCATATTTTTAATA
1 TATACATATGCATA-TTTTCATA
38404 TATA
1 TATA
38408 TATACAGTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
21 2 0.05
22 24 0.57
23 10 0.24
24 6 0.14
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.44
Consensus pattern (22 bp):
TATACATATGCATATTTTCATA
Found at i:40337 original size:13 final size:13
Alignment explanation
Indices: 40319--40344 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
40309 AAAGAGATTT
40319 GTTTTCTAGTAAA
1 GTTTTCTAGTAAA
40332 GTTTTCTAGTAAA
1 GTTTTCTAGTAAA
40345 AAATTGAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
GTTTTCTAGTAAA
Found at i:43339 original size:21 final size:21
Alignment explanation
Indices: 43301--43341 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
43291 AAGTGATGTG
*
43301 AAAAATGAAAAGATAAAATGA
1 AAAAATGAAAAGAGAAAATGA
43322 AAAAATGAAAA-AGGAAAATG
1 AAAAATGAAAAGA-GAAAATG
43342 GAGAGGCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.71, C:0.00, G:0.17, T:0.12
Consensus pattern (21 bp):
AAAAATGAAAAGAGAAAATGA
Found at i:45014 original size:132 final size:132
Alignment explanation
Indices: 44628--45274 Score: 1104
Period size: 132 Copynumber: 4.9 Consensus size: 132
44618 TCCCTCGGTT
* * * * * *
44628 GTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCTCTGTGGTTACAGTAGAGTACATTGAAGC
1 GTAGTAGAGCAGATCAAAGATGGCGGATTTTACTTCCCTGTGGTTACAGTGGAGTATATTGAAGC
* * *
44693 CAGTAATTCTACTTCCCTAGACAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAG
66 CAGTAATTCTACTTCCCTGGGCAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAG
*
44758 CG
131 CA
* * * *
44760 GTAGTGGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTAGAGTACA-T---GC
1 GTAGTAGAGCAGATCAAAGATGGCGGATTTTACTTCCCTGTGGTTACAGTGGAGTATATTGAAGC
44821 CAGTAATTCTACTTCCCTGGGCAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAG
66 CAGTAATTCTACTTCCCTGGGCAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAG
44886 CA
131 CA
44888 GTAGTAGAGCAGATCAAAGATGGCGGATTTTACTTCCCTGTGGTTACAGTGGAGTATATTGAAGC
1 GTAGTAGAGCAGATCAAAGATGGCGGATTTTACTTCCCTGTGGTTACAGTGGAGTATATTGAAGC
44953 CAGTAATTCTACTTCCCTGGGCAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAG
66 CAGTAATTCTACTTCCCTGGGCAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAG
45018 CA
131 CA
45020 GTAGTAGAGCAGATCAAAGATGGCGGATTTTACTTCCCTGTGGTTACAGTGGAGTATATTGAAGC
1 GTAGTAGAGCAGATCAAAGATGGCGGATTTTACTTCCCTGTGGTTACAGTGGAGTATATTGAAGC
45085 CAGTAATTCTACTTCCCTGGGCAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAG
66 CAGTAATTCTACTTCCCTGGGCAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAG
45150 CA
131 CA
45152 GTAGTAGAGCAGATCAAAGATGGCGGATTTTACTTCCCTGTGGTTACAGTGGAGTATATTGAAGC
1 GTAGTAGAGCAGATCAAAGATGGCGGATTTTACTTCCCTGTGGTTACAGTGGAGTATATTGAAGC
* * **
45217 CAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTAAAGATACCAGATCTTGTCT
66 CAGTAATTCTACTTCCCTGGGCAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCT
45275 TCCCATACTG
Statistics
Matches: 497, Mismatches: 14, Indels: 8
0.96 0.03 0.02
Matches are distributed among these distances:
128 119 0.24
129 1 0.00
131 1 0.00
132 376 0.76
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.29
Consensus pattern (132 bp):
GTAGTAGAGCAGATCAAAGATGGCGGATTTTACTTCCCTGTGGTTACAGTGGAGTATATTGAAGC
CAGTAATTCTACTTCCCTGGGCAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAG
CA
Found at i:45576 original size:132 final size:132
Alignment explanation
Indices: 45339--45576 Score: 338
Period size: 132 Copynumber: 1.8 Consensus size: 132
45329 GGCGTGAAGT
*
45339 AGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTATAGTGGAGTAGATTGAAGCCAGTAATTCT
1 AGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTAGATTGAAGCCAGTAATTCT
** * *
45404 ATCTCCCTGGGTAGCAGTGGAATAGATTGAAGATTACAGATATTATCTCCCTAAGCAATAGTGGA
66 ATCTCCCCCGGTAGCAGTGGAATAGATCGAAGATAACAGATATTATCTCCCTAAGCAATAGTGGA
45469 GC
131 GC
* * *
45471 AGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTGCAGTGGAGTATATTGAAGCCAGTAATTCT
1 AGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTAGATTGAAGCCAGTAATTCT
* *
45536 AT-TCCCCCGGTCGGTAGTGGAATCA-ATCGAAGA-AAGCAGAT
66 ATCTCCCCCGGT-AGCAGTGGAAT-AGATCGAAGATAA-CAGAT
45577 CTTGTCTTCA
Statistics
Matches: 93, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
131 8 0.09
132 84 0.90
133 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (132 bp):
AGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTAGATTGAAGCCAGTAATTCT
ATCTCCCCCGGTAGCAGTGGAATAGATCGAAGATAACAGATATTATCTCCCTAAGCAATAGTGGA
GC
Found at i:45652 original size:309 final size:308
Alignment explanation
Indices: 45030--45629 Score: 807
Period size: 309 Copynumber: 1.9 Consensus size: 308
45020 GTAGTAGAGC
* * *
45030 AGATCAAAGATGGCGGATTTTACTTCCCTGTGGTTACAGTGGAGTATATTGAAGCCAGTAATTCT
1 AGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTAGATTGAAGCCAGTAATTCT
* * * *
45095 ACTTCCCTGGGCAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTAGA
66 ACTTCCCTGGGCAGCAGCGGAATAGATTGAAGATTACAGATATTATCTCCCTAAGCAATAGTAGA
* *
45160 GCAGATCAAAGATGGCGGATTTTACTTCCCTGTGGTTACAGTGGAGTATATTGAAGCCAGTAATT
131 GCAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTATATTGAAGCCAGTAATT
* * * *
45225 CTACTTCCCTGGGCAGCAGTGGAATAGATTAAAGATACCAGATCTTGTCTTCCCATACTGGTGGC
196 CTACTTCCCCGGGCAGCAGTGGAATAGATCAAAGAAACCAGATCTTGTCTT-CCATACTAGTGGC
* * * **
45290 GAAGTAGATCGAAGAAAACAGTTCTTGTCTTCATGTCTTGGCGTGAAGT
260 AAAGTAGAGCGAAGAAAACAGATCTTGTCTTCATCACTTGGCGTGAAGT
*
45339 AGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTATAGTGGAGTAGATTGAAGCCAGTAATTCT
1 AGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTAGATTGAAGCCAGTAATTCT
* * *
45404 A-TCTCCCTGGGTAGCAGTGGAATAGATTGAAGATTACAGATATTATCTCCCTAAGCAATAGTGG
66 ACT-TCCCTGGGCAGCAGCGGAATAGATTGAAGATTACAGATATTATCTCCCTAAGCAATAGTAG
* *
45468 AGCAGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTGCAGTGGAGTATATTGAAGCCAGTAAT
130 AGCAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTATATTGAAGCCAGTAAT
* * * * * * *
45533 TCTA-TTCCCCCGGTCGGTAGTGGAATCA-ATCGAAGAAAGCAGATCTTGTCTT-CAT-GTATTG
195 TCTACTT-CCCCGGGCAGCAGTGGAAT-AGATCAAAGAAACCAGATCTTGTCTTCCATACTAGTG
*
45594 GCATAAAGTAGAGCGAA-AAAAGTAGATCTTGTCTTC
258 GC--AAAGTAGAGCGAAGAAAA-CAGATCTTGTCTTC
45630 CCACACTGGT
Statistics
Matches: 255, Mismatches: 30, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
306 5 0.02
307 7 0.03
308 26 0.10
309 216 0.85
310 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (308 bp):
AGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTAGATTGAAGCCAGTAATTCT
ACTTCCCTGGGCAGCAGCGGAATAGATTGAAGATTACAGATATTATCTCCCTAAGCAATAGTAGA
GCAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTATATTGAAGCCAGTAATT
CTACTTCCCCGGGCAGCAGTGGAATAGATCAAAGAAACCAGATCTTGTCTTCCATACTAGTGGCA
AAGTAGAGCGAAGAAAACAGATCTTGTCTTCATCACTTGGCGTGAAGT
Found at i:46907 original size:3 final size:3
Alignment explanation
Indices: 46899--46951 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
46889 ATTTATTAGC
46899 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
46947 ATT AT
1 ATT AT
46952 NNNNNNNNNN
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:49002 original size:9 final size:9
Alignment explanation
Indices: 48988--49030 Score: 68
Period size: 9 Copynumber: 4.8 Consensus size: 9
48978 GTTTTCAAAT
48988 TCGAATAAC
1 TCGAATAAC
48997 TCGAATAAC
1 TCGAATAAC
*
49006 TCGAATAAT
1 TCGAATAAC
*
49015 TCGAATAAT
1 TCGAATAAC
49024 TCGAATA
1 TCGAATA
49031 TCAAACTATA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (9 bp):
TCGAATAAC
Found at i:49107 original size:21 final size:21
Alignment explanation
Indices: 49066--49108 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
49056 ACCCCAAACT
* *
49066 CTCAAACCTTTTTACTTTTCC
1 CTCAAAACTTTTTACTCTTCC
49087 CTCAAAAC-TTTTACTCCTTCC
1 CTCAAAACTTTTTACT-CTTCC
49108 C
1 C
49109 ACTTTCCCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.21, C:0.37, G:0.00, T:0.42
Consensus pattern (21 bp):
CTCAAAACTTTTTACTCTTCC
Found at i:54219 original size:2 final size:2
Alignment explanation
Indices: 54212--54237 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
54202 CAAAAACAAT
54212 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
54238 AAGATATGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:61079 original size:21 final size:22
Alignment explanation
Indices: 61055--61095 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
61045 AACGTCCAGC
*
61055 AACAAAAAAT-CAAGAAAATGG
1 AACAAAAAATGAAAGAAAATGG
*
61076 AACAAGAAATGAAAGAAAAT
1 AACAAAAAATGAAAGAAAAT
61096 AGGCAATAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.68, C:0.07, G:0.15, T:0.10
Consensus pattern (22 bp):
AACAAAAAATGAAAGAAAATGG
Found at i:61619 original size:43 final size:43
Alignment explanation
Indices: 61510--61656 Score: 136
Period size: 43 Copynumber: 3.4 Consensus size: 43
61500 GATTCGGTTC
* * * * *
61510 ATCCAATGATGCAC-CCATGTGCCAGTATAATTGCTTCGACTT
1 ATCCGATGATGCACTACAAGTGCCAGTATATTTCCTTCGACTT
* * ** *
61552 ATTCGATGATGCTCTATGTA-TGCCAGTATGTTTCCTTCGACTT
1 ATCCGATGATGCACTA-CAAGTGCCAGTATATTTCCTTCGACTT
* * * *
61595 ATCCGATGATGCACTACAAGTGCCAATATATTTCATTTGATTT
1 ATCCGATGATGCACTACAAGTGCCAGTATATTTCCTTCGACTT
*
61638 ATCCGGTGATGCACTACAA
1 ATCCGATGATGCACTACAA
61657 TGTCAGATTG
Statistics
Matches: 82, Mismatches: 20, Indels: 5
0.77 0.19 0.05
Matches are distributed among these distances:
42 12 0.15
43 70 0.85
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (43 bp):
ATCCGATGATGCACTACAAGTGCCAGTATATTTCCTTCGACTT
Found at i:62880 original size:17 final size:18
Alignment explanation
Indices: 62848--62881 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
62838 TTTTTAAAAA
62848 TTTTAAAGAAAAATATAT
1 TTTTAAAGAAAAATATAT
*
62866 TTTTAAA-AAATATATA
1 TTTTAAAGAAAAATATA
62882 AAATTAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (18 bp):
TTTTAAAGAAAAATATAT
Found at i:68174 original size:51 final size:51
Alignment explanation
Indices: 68114--68228 Score: 194
Period size: 51 Copynumber: 2.3 Consensus size: 51
68104 TCCTCTCTAG
*
68114 TCCTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATT
1 TCCTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTCCAATT
* *
68165 TCCTCTCAATTTCCTTCTAAAATTCTCTCAAATCCATATTTAATTCCAATT
1 TCCTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTCCAATT
*
68216 TCCCCTCAATTTC
1 TCCTCTCAATTTC
68229 ATTTTTTAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.28, C:0.30, G:0.00, T:0.42
Consensus pattern (51 bp):
TCCTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTCCAATT
Found at i:68286 original size:32 final size:28
Alignment explanation
Indices: 68229--68293 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 28
68219 CCTCAATTTC
**
68229 ATTTTTTAAAATAATTTAAATTTTTTTTAT
1 ATTTTTTAAAATAAAATAAA--TTTTTTAT
68259 ATTTTTTAAAAATAAAAATAAATTTTTTAT
1 ATTTTTT-AAAAT-AAAATAAATTTTTTAT
68289 ATTTT
1 ATTTT
68294 CATCAATGGC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 20 0.65
31 5 0.16
32 6 0.19
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (28 bp):
ATTTTTTAAAATAAAATAAATTTTTTAT
Found at i:69896 original size:18 final size:18
Alignment explanation
Indices: 69870--69904 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
69860 AGGTGTGTTT
* *
69870 CCTAGCCCTTATATGTAC
1 CCTAACCCTTACATGTAC
69888 CCTAACCCTTACATGTA
1 CCTAACCCTTACATGTA
69905 TCCTTTTCCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.34, G:0.09, T:0.31
Consensus pattern (18 bp):
CCTAACCCTTACATGTAC
Found at i:73639 original size:19 final size:19
Alignment explanation
Indices: 73597--73639 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
73587 AGTAATCTAA
73597 AATATATAGCATAAATTAT
1 AATATATAGCATAAATTAT
* *
73616 TATATATA-TATAAATATAT
1 AATATATAGCATAAAT-TAT
73635 AATAT
1 AATAT
73640 CATGGGCCGG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (19 bp):
AATATATAGCATAAATTAT
Found at i:75573 original size:31 final size:31
Alignment explanation
Indices: 75537--75595 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
75527 ATTTGGTCAT
*
75537 TGAACTATTCGAAAGTTTTCATTTAAGTTGC
1 TGAACTATTCAAAAGTTTTCATTTAAGTTGC
*
75568 TGAACTATTCAAAAGTTTTTATTTAAGT
1 TGAACTATTCAAAAGTTTTCATTTAAGT
75596 CATTGGGTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.44
Consensus pattern (31 bp):
TGAACTATTCAAAAGTTTTCATTTAAGTTGC
Found at i:76252 original size:25 final size:25
Alignment explanation
Indices: 76224--76273 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
76214 CGTCAACCTG
76224 GGCATAATGATCTGAAACAATTCAA
1 GGCATAATGATCTGAAACAATTCAA
76249 GGCATAATGATCTGAAACAATTCAA
1 GGCATAATGATCTGAAACAATTCAA
76274 ACCCTAACCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (25 bp):
GGCATAATGATCTGAAACAATTCAA
Found at i:80651 original size:30 final size:30
Alignment explanation
Indices: 80586--80661 Score: 75
Period size: 30 Copynumber: 2.5 Consensus size: 30
80576 AAAAAAATTA
* *
80586 GAAAATTTTAGTAAGTTTGTAAAACTTTTT
1 GAAAATTTCATTAAGTTTGTAAAACTTTTT
* *
80616 GAAAATTTGATTAAGTTTCTTAAAA-TTTTCT
1 GAAAATTTCATTAAGTTT-GTAAAACTTTT-T
80647 -AAAATTCTCATTAAG
1 GAAAATT-TCATTAAG
80662 CCTCTCAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
30 26 0.67
31 13 0.33
ACGTcount: A:0.38, C:0.07, G:0.11, T:0.45
Consensus pattern (30 bp):
GAAAATTTCATTAAGTTTGTAAAACTTTTT
Found at i:85776 original size:30 final size:32
Alignment explanation
Indices: 85742--85843 Score: 97
Period size: 31 Copynumber: 3.3 Consensus size: 32
85732 AAAAAAAATA
*
85742 GAAAATTTTAA-TAAG-TTCGTAAAATTTTTT
1 GAAAATTTTAATTAAGTTTCGTAAAATTTTCT
*
85772 GAAAATTTTAATTAAGTTTCTTAAAATTTTCT
1 GAAAATTTTAATTAAGTTTCGTAAAATTTTCT
* * ** *
85804 -AAAATTCTCATTAAGCCTC-TCAAAAGTTT-T
1 GAAAATTTTAATTAAGTTTCGT-AAAATTTTCT
85834 GAAAATTTTA
1 GAAAATTTTA
85844 TTGAACTCTC
Statistics
Matches: 59, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
30 13 0.22
31 33 0.56
32 13 0.22
ACGTcount: A:0.39, C:0.09, G:0.08, T:0.44
Consensus pattern (32 bp):
GAAAATTTTAATTAAGTTTCGTAAAATTTTCT
Found at i:85920 original size:63 final size:60
Alignment explanation
Indices: 85794--85920 Score: 134
Period size: 63 Copynumber: 2.1 Consensus size: 60
85784 TAAGTTTCTT
* * * *
85794 AAAATTTTCTAAAATTCTCATTAAGCCTCTCAAAAGTTTTGAAAATTTTATTGAACTCTC
1 AAAATTTTCTAAAATTCTCATTAAGCCCCTCAAAAGTTTTAAAAATTTTATTGAACCCCC
*
85854 AAAATTTTCTAAAAGAATTCTTATT-AGACCCCTCAAAA-TTTATAAAAATTTTAATT-AACCCC
1 AAAATTTTCT--AA-AATTCTCATTAAG-CCCCTCAAAAGTTT-TAAAAATTTT-ATTGAACCCC
85916 C
60 C
85917 AAAA
1 AAAA
85921 CTAACTATTA
Statistics
Matches: 56, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
60 10 0.18
62 7 0.12
63 36 0.64
64 3 0.05
ACGTcount: A:0.42, C:0.17, G:0.05, T:0.36
Consensus pattern (60 bp):
AAAATTTTCTAAAATTCTCATTAAGCCCCTCAAAAGTTTTAAAAATTTTATTGAACCCCC
Found at i:86758 original size:2 final size:2
Alignment explanation
Indices: 86753--86781 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
86743 ACACACACAC
86753 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
86782 AAGATCAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:96685 original size:20 final size:19
Alignment explanation
Indices: 96632--96692 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 19
96622 CCGAATTATA
*
96632 TATTAAATATATTTATTTAT
1 TATTAAATATATATATTT-T
* *
96652 T-TTTAATCAAATATACTTTT
1 TATTAAAT-ATATATA-TTTT
96672 TATTAAATATATATATTTT
1 TATTAAATATATATATTTT
96691 TA
1 TA
96693 AACTTTTAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
19 11 0.33
20 14 0.42
21 8 0.24
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.57
Consensus pattern (19 bp):
TATTAAATATATATATTTT
Found at i:100555 original size:441 final size:441
Alignment explanation
Indices: 99733--100615 Score: 1730
Period size: 441 Copynumber: 2.0 Consensus size: 441
99723 TATGAAATAG
99733 TAGAAAATGAAGATGAGATTGAGATGCCCATTGAAAGTTCCATCATTGTTATTGAGAGCAACGAT
1 TAGAAAATGAAGATGAGATTGAGATGCCCATTGAAAGTTCCATCATTGTTATTGAGAGCAACGAT
*
99798 GCTGGAGAAGCTACAAAAATAAATCATTTCAAGCATATGCATAATCTAATGTTAGGTCCCTTTGT
66 GCTGGAGAAGCTACAAAAATAAAGCATTTCAAGCATATGCATAATCTAATGTTAGGTCCCTTTGT
99863 TGGAGGATATGAAAATAGTTGCGACGGGTGTATGTTGCCAATCTCGGATCCGTTTTACTACTGTT
131 TGGAGGATATGAAAATAGTTGCGACGGGTGTATGTTGCCAATCTCGGATCCGTTTTACTACTGTT
*
99928 CAGAATGTGCTTTTTTTCTTCATAAAGCGTGTGCCGAGTTACCTAAGATGAAGAATGTTTGGCAT
196 CAGAATGTGCTTTTTTTCTTCATAAAGCGTGTGCCGAGTTACCTAAGATGAAGAACGTTTGGCAT
*
99993 CATGATTGCAAAGAGCCCCTAGCCCTTATTTCTGACAAAGCTTTTCTGTGTCGACGATGTTTGTA
261 CATGATTGCAAAGAGCCCCTAGCCCTTATTTCTGACAAAGCTTTTCTGTGTCGACGATGTTGGTA
100058 CGTAACTAATGCCTTTGCTTATGAATGTTGTGGATGTGAGGGAAAAATATGTCTCCGATGTGTGA
326 CGTAACTAATGCCTTTGCTTATGAATGTTGTGGATGTGAGGGAAAAATATGTCTCCGATGTGTGA
100123 TTGCTCTTACTCCTGGTGCTCGAACATGTTTGAAACATGAACACCCCCTCT
391 TTGCTCTTACTCCTGGTGCTCGAACATGTTTGAAACATGAACACCCCCTCT
100174 TAGAAAATGAAGATGAGATTGAGATGCCCATTGAAAGTTCCATCATTGTTATTGAGAGCAACGAT
1 TAGAAAATGAAGATGAGATTGAGATGCCCATTGAAAGTTCCATCATTGTTATTGAGAGCAACGAT
100239 GCTGGAGAAGCTACAAAAATAAAGCATTTCAAGCATATGCATAATCTAATGTTAGGTCCCTTTGT
66 GCTGGAGAAGCTACAAAAATAAAGCATTTCAAGCATATGCATAATCTAATGTTAGGTCCCTTTGT
100304 TGGAGGATATGAAAATAGTTGCGACGGGTGTATGTTGCCAATCTCGGATCCGTTTTACTACTGTT
131 TGGAGGATATGAAAATAGTTGCGACGGGTGTATGTTGCCAATCTCGGATCCGTTTTACTACTGTT
100369 CAGAATGTGCTTTTTTTCTTCATAAAGCGTGTGCCGAGTTACCTAAGATGAAGAACGTTTGGCAT
196 CAGAATGTGCTTTTTTTCTTCATAAAGCGTGTGCCGAGTTACCTAAGATGAAGAACGTTTGGCAT
*
100434 CATGGTTGCAAAGAGCCCCTAGCCCTTATTTCTGACAAAGCTTTTCTGTGTCGACGATGTTGGTA
261 CATGATTGCAAAGAGCCCCTAGCCCTTATTTCTGACAAAGCTTTTCTGTGTCGACGATGTTGGTA
100499 CGTAACTAATGCCTTTGCTTATGAATGTTGTGGATGTGAGGGAAAAATATGTCTCCGATGTGTGA
326 CGTAACTAATGCCTTTGCTTATGAATGTTGTGGATGTGAGGGAAAAATATGTCTCCGATGTGTGA
100564 TTGCTCTTACTCCTGGTGCTCGAACATGTTTGAAACATGAACACCCCCTCT
391 TTGCTCTTACTCCTGGTGCTCGAACATGTTTGAAACATGAACACCCCCTCT
100615 T
1 T
100616 TTACTACCCA
Statistics
Matches: 438, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
441 438 1.00
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.32
Consensus pattern (441 bp):
TAGAAAATGAAGATGAGATTGAGATGCCCATTGAAAGTTCCATCATTGTTATTGAGAGCAACGAT
GCTGGAGAAGCTACAAAAATAAAGCATTTCAAGCATATGCATAATCTAATGTTAGGTCCCTTTGT
TGGAGGATATGAAAATAGTTGCGACGGGTGTATGTTGCCAATCTCGGATCCGTTTTACTACTGTT
CAGAATGTGCTTTTTTTCTTCATAAAGCGTGTGCCGAGTTACCTAAGATGAAGAACGTTTGGCAT
CATGATTGCAAAGAGCCCCTAGCCCTTATTTCTGACAAAGCTTTTCTGTGTCGACGATGTTGGTA
CGTAACTAATGCCTTTGCTTATGAATGTTGTGGATGTGAGGGAAAAATATGTCTCCGATGTGTGA
TTGCTCTTACTCCTGGTGCTCGAACATGTTTGAAACATGAACACCCCCTCT
Found at i:103840 original size:28 final size:28
Alignment explanation
Indices: 103788--103846 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 28
103778 TTTTGGTCCT
*
103788 TCTATTATTTTCAATTTTGAAAA-TTAA
1 TCTATTATTTTCAATTTGGAAAATTTAA
*
103815 TCTATGTATTTT-AATTTGGTATAATTTAA
1 TCTAT-TATTTTCAATTTGG-AAAATTTAA
103844 TCT
1 TCT
103847 TCGTAATCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 11 0.41
28 9 0.33
29 7 0.26
ACGTcount: A:0.32, C:0.07, G:0.07, T:0.54
Consensus pattern (28 bp):
TCTATTATTTTCAATTTGGAAAATTTAA
Found at i:104661 original size:11 final size:11
Alignment explanation
Indices: 104645--104682 Score: 67
Period size: 11 Copynumber: 3.4 Consensus size: 11
104635 ATTTTTTTAA
104645 TTTTAAAATAT
1 TTTTAAAATAT
104656 TTTTAAAATAT
1 TTTTAAAATAT
104667 TTTTAAAATACT
1 TTTTAAAATA-T
104679 TTTT
1 TTTT
104683 TTGTTTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 21 0.81
12 5 0.19
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:104696 original size:26 final size:27
Alignment explanation
Indices: 104664--104730 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 27
104654 ATTTTTAAAA
* * * *
104664 TATTTTTAAAATACTTTTTTTGTTTTT
1 TATTTTAAAAATAATTTTTTGGTGTTT
104691 TATTTTAAAAATAATTTTTTGGTGTTT
1 TATTTTAAAAATAATTTTTTGGTGTTT
**
104718 TATTAAAAAAATA
1 TATTTTAAAAATA
104731 GGCCGGGCCG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.34, C:0.01, G:0.06, T:0.58
Consensus pattern (27 bp):
TATTTTAAAAATAATTTTTTGGTGTTT
Found at i:111835 original size:18 final size:17
Alignment explanation
Indices: 111811--111851 Score: 73
Period size: 18 Copynumber: 2.4 Consensus size: 17
111801 GCTACTAGAC
111811 TGAGCTTGCAGCTTTGG
1 TGAGCTTGCAGCTTTGG
111828 TGGAGCTTGCAGCTTTGG
1 T-GAGCTTGCAGCTTTGG
111846 TGAGCT
1 TGAGCT
111852 CACAATTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 6 0.26
18 17 0.74
ACGTcount: A:0.12, C:0.17, G:0.37, T:0.34
Consensus pattern (17 bp):
TGAGCTTGCAGCTTTGG
Found at i:112723 original size:129 final size:128
Alignment explanation
Indices: 112420--112778 Score: 306
Period size: 129 Copynumber: 2.8 Consensus size: 128
112410 CATTTCAAAA
* * * * * * *
112420 TTGATCATTTTAGACTAATATTGAATGGTGTTGGGTTA-TTTTTTTAGTCAAATCGGGTTTTGAA
1 TTGATCATTTTGGGCTCATATTGAATGGTGTTGGATTACTTTTTTTAGTCAAATCGAGTATTAAA
* * * * * *
112484 ATTTTTGAATCATTTTGGTTCGGGTTAGTTTCAAGTTCAAATCATTTTAGGTTCAAGTCATTGGT
66 ATTTCTAAATCATTTTGGTTCAGGTTAGGTTCAAGTT--AA-CATTTCAGGTTCAAATCATTGGT
112549 C
128 C
* * ** * * *
112550 TCGGATAATTCCGGGCTCATATTGAACGATGTTGGATAAC--TTTTTAGTCAAATCGAG-ATTAA
1 T-TGATCATTTTGGGCTCATATTGAATGGTGTTGGATTACTTTTTTTAGTCAAATCGAGTATTAA
*
112612 AATTTCTAAATCATTTTGGTTCAGGTTAGGTTCAAGTT-A-GTTTCAGGTTCAAATCAATTTCGG
65 AATTTCTAAATCATTTTGGTTCAGGTTAGGTTCAAGTTAACATTTCAGGTTCAAATC-A-TT-GG
112675 AT-
127 -TC
*
112677 TTGATCATTTTGGGCTCATATTGAATGGTGTTGGATTATCTTTTTTT-GTCAAATC-AGGTTTTA
1 TTGATCATTTTGGGCTCATATTGAATGGTGTTGGATTA-CTTTTTTTAGTCAAATCGA-GTATTA
* * * * *
112740 AATTTTCCAGATCATTTTGATTCCA-GTTAGTTTCAAGTT
64 AAATTTCTAAATCATTTTGGTT-CAGGTTAGGTTCAAGTT
112779 TAAATCAATT
Statistics
Matches: 183, Mismatches: 34, Indels: 25
0.76 0.14 0.10
Matches are distributed among these distances:
124 13 0.07
125 1 0.01
126 33 0.18
127 5 0.03
128 10 0.05
129 76 0.42
130 19 0.10
131 26 0.14
ACGTcount: A:0.25, C:0.11, G:0.19, T:0.44
Consensus pattern (128 bp):
TTGATCATTTTGGGCTCATATTGAATGGTGTTGGATTACTTTTTTTAGTCAAATCGAGTATTAAA
ATTTCTAAATCATTTTGGTTCAGGTTAGGTTCAAGTTAACATTTCAGGTTCAAATCATTGGTC
Found at i:112906 original size:122 final size:123
Alignment explanation
Indices: 112660--112920 Score: 305
Period size: 122 Copynumber: 2.1 Consensus size: 123
112650 AGTTTCAGGT
* * *** * *
112660 TCAAA-TCAATTTCGGATTTGATCATTTTGGGCTCATATTGAATGGTGTTGGATTATCTTTTTTT
1 TCAAATTCGATTTCAGATTTGATCATTTCAAGCTCATATAGAATGGTGTTGGATTA-CTTTTTTA
* * * *
112724 GTCAAATCAGGTTTTAAATTTTCCAGATCATTTTGATTCCAGTTAGTTTCAAGTTTAAA
65 ATCAAATCAGGTTTTAAATTTTCCAGATCATTTTGATTCCAGTTAATTCCAAGTTCAAA
* * *
112783 TCAATTTTGATTTCAGATTTGATCATTTCAAGTTCATATAGAATGGTGTTGGATTA-TTTTTTAA
1 TCAAATTCGATTTCAGATTTGATCATTTCAAGCTCATATAGAATGGTGTTGGATTACTTTTTTAA
* * **
112847 TCAAATCGGGTTTTAAGATTTT-CAGATCATTTTCG-TTCGAGTTAATTCCCGGTTCAAA
66 TCAAATCAGGTTTTAA-ATTTTCCAGATCATTTT-GATTCCAGTTAATTCCAAGTTCAAA
112905 TCAAATTCGATTTCAG
1 TCAAATTCGATTTCAG
112921 TTCATTTTGA
Statistics
Matches: 115, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
122 63 0.55
123 10 0.09
124 42 0.37
ACGTcount: A:0.27, C:0.13, G:0.16, T:0.44
Consensus pattern (123 bp):
TCAAATTCGATTTCAGATTTGATCATTTCAAGCTCATATAGAATGGTGTTGGATTACTTTTTTAA
TCAAATCAGGTTTTAAATTTTCCAGATCATTTTGATTCCAGTTAATTCCAAGTTCAAA
Found at i:121893 original size:118 final size:119
Alignment explanation
Indices: 121728--122017 Score: 320
Period size: 118 Copynumber: 2.4 Consensus size: 119
121718 TATTGAACGG
* ** *
121728 TGTTGGATAATTTTTTTAGTCAAATCGAG-TTTAAAATTTCCAAATCATTTTGGTTCAGGTTAGT
1 TGTTGGATTATTTTTTTAGTCAAATCG-GTTTTAAAATTTCCGGATCATTTTGATTCAGGTTAGT
* * * *
121792 TTCAGGTTCAAATC-A-G-TTTCGGATTTGATCATTTTAGGCCCATATTGGACAA
65 TTCAAGTTCAAATCAATGATTTCGGATTTGATCATTTCAGGCCCATATAGAACAA
*
121844 TGTTGGATTATCTTTTTTAGTCAAATCAGGTTTTAAAATTTCCGGATCATTTTGATTCGGGTTAG
1 TGTTGGATTAT-TTTTTTAGTCAAATC-GGTTTTAAAATTTCCGGATCATTTTGATTCAGGTTAG
* ** **
121909 TTTCAAGTTTAAATCAATTTCGATTTCGGATTTGATCATTTCAGGTTCATATAGAACGG
64 TTTCAAGTTCAAATCAA--T-GATTTCGGATTTGATCATTTCAGGCCCATATAGAACAA
* * **
121968 TGTTGGATTA-TTTTTTAATCAAATCGGGTTTTAAATTTTTTGGATCATTT
1 TGTTGGATTATTTTTTTAGTCAAATC-GGTTTTAAAATTTCCGGATCATTT
122018 CCGTTCGAGT
Statistics
Matches: 146, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
116 10 0.07
117 16 0.11
118 44 0.30
119 1 0.01
122 35 0.24
123 1 0.01
124 39 0.27
ACGTcount: A:0.26, C:0.11, G:0.18, T:0.44
Consensus pattern (119 bp):
TGTTGGATTATTTTTTTAGTCAAATCGGTTTTAAAATTTCCGGATCATTTTGATTCAGGTTAGTT
TCAAGTTCAAATCAATGATTTCGGATTTGATCATTTCAGGCCCATATAGAACAA
Found at i:122055 original size:122 final size:123
Alignment explanation
Indices: 121808--122057 Score: 270
Period size: 122 Copynumber: 2.0 Consensus size: 123
121798 TTCAAATCAG
* * * *
121808 TTTCGGATTTGATCATTTTAGGCCCATATTGGACAATGTTGGATTATCTTTTTTAGTCAAATCAG
1 TTTCGGATTTGATCATTTCAGGCCCATATAGAACAATGTTGGATTA-CTTTTTTAATCAAATCAG
* * * ** * * * *
121873 GTTTTAAAATTTCCGGATCATTTTGATTCGGGTTAGTTTCAAGTTTAAATCAATTTCGA
65 GTTTTAAAATTTCCGGATCATTTCGATTCGAGTTAATCCCAAGTTCAAATAAAATCCGA
** ** *
121932 TTTCGGATTTGATCATTTCAGGTTCATATAGAACGGTGTTGGATTA-TTTTTTAATCAAATCGGG
1 TTTCGGATTTGATCATTTCAGGCCCATATAGAACAATGTTGGATTACTTTTTTAATCAAATCAGG
* ** *
121996 TTTTAAATTTTTTGGATCATTTCCG-TTCGAGTTAATCCCCAGTTCAAATAAAATCCGA
66 TTTTAAAATTTCCGGATCATTT-CGATTCGAGTTAATCCCAAGTTCAAATAAAATCCGA
122054 TTTC
1 TTTC
122058 AGATCATATC
Statistics
Matches: 103, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
122 63 0.61
123 1 0.01
124 39 0.38
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.43
Consensus pattern (123 bp):
TTTCGGATTTGATCATTTCAGGCCCATATAGAACAATGTTGGATTACTTTTTTAATCAAATCAGG
TTTTAAAATTTCCGGATCATTTCGATTCGAGTTAATCCCAAGTTCAAATAAAATCCGA
Found at i:126291 original size:18 final size:17
Alignment explanation
Indices: 126267--126307 Score: 73
Period size: 18 Copynumber: 2.4 Consensus size: 17
126257 GCTACTAGAC
126267 TGAGCTTGCAGCTTTGG
1 TGAGCTTGCAGCTTTGG
126284 TGGAGCTTGCAGCTTTGG
1 T-GAGCTTGCAGCTTTGG
126302 TGAGCT
1 TGAGCT
126308 CACAATTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 6 0.26
18 17 0.74
ACGTcount: A:0.12, C:0.17, G:0.37, T:0.34
Consensus pattern (17 bp):
TGAGCTTGCAGCTTTGG
Found at i:141292 original size:117 final size:119
Alignment explanation
Indices: 141092--141493 Score: 380
Period size: 117 Copynumber: 3.4 Consensus size: 119
141082 GTTTCGGATA
* *
141092 ATTTCAGGCTCATATTGAACGGTGTTGGATAATTTTTTTAATCAAATCGAG-TTTAAAATTTCCA
1 ATTTCAGGCTCATATTGAACGGTGTTGGATTA-TTTTTTAATCAAATCGAGTTTTAAAATTTCCG
* * * *
141156 AATCATTTTGGTTCAGGTTAGTTTCAGGTTCAAATC-A-G-TTTCGGATTTGATC
65 GATCATTTTGATTCAGGTTAGTTTCAAGTTCAAATCAATGATTCCGGATTTGATC
* * ** *
141208 ATTTTAGGCTCATATTGGACAATGTTGGATTATCATTTTTAGTCAAATC-AGTTTTAAAATTTCC
1 ATTTCAGGCTCATATTGAACGGTGTTGGATTAT--TTTTTAATCAAATCGAGTTTTAAAATTTCC
* *
141272 GGATCATTTTGATTCGGGTTAGTTTCAAGTTTAAATCAATTTCGATTCCGGATTTGATC
64 GGATCATTTTGATTCAGGTTAGTTTCAAGTTCAAATCAA--T-GATTCCGGATTTGATC
* * * **
141331 ATTTCAGGTTCATATAGAACGGTGTTGGATTATTTTTTAATCAAATCGGGTTTTAAAATTTTTGG
1 ATTTCAGGCTCATATTGAACGGTGTTGGATTATTTTTTAATCAAATCGAGTTTTAAAATTTCCGG
** * * *
141396 ATCATATCCG-TTC-GAGTTAATTCCCAGTTCAAATCAA--ATT-C-GATTTCAGATC
66 ATCAT-TTTGATTCAG-GTTAGTTTCAAGTTCAAATCAATGATTCCGGATTT--GATC
* *
141448 ATATC-GAGCTCATATT-AACAGTGTTGGATTATTTTTGTAATCAAAT
1 ATTTCAG-GCTCATATTGAACGGTGTTGGATTATTTTT-TAATCAAAT
141494 GAAACCATTT
Statistics
Matches: 237, Mismatches: 33, Indels: 31
0.79 0.11 0.10
Matches are distributed among these distances:
115 6 0.03
116 50 0.21
117 83 0.35
118 1 0.00
121 14 0.06
122 41 0.17
123 42 0.18
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (119 bp):
ATTTCAGGCTCATATTGAACGGTGTTGGATTATTTTTTAATCAAATCGAGTTTTAAAATTTCCGG
ATCATTTTGATTCAGGTTAGTTTCAAGTTCAAATCAATGATTCCGGATTTGATC
Found at i:141475 original size:239 final size:242
Alignment explanation
Indices: 140952--141493 Score: 534
Period size: 239 Copynumber: 2.2 Consensus size: 242
140942 ATCATTTCAA
** * ** * *
140952 ATTTGATCATTTTAGACTCATATTGAATGGTGTTGGATTATTTTTTTAGTCAAATCGGGTTTTAA
1 ATTTGATCATTCGAGGCTCATATTGAACAGTGTTGGATTATATTTTTAGTCAAATCGAGTTTTAA
** * *
141017 AATTTTTGGATCATTTTGGTTCGGTTTAGTTTCAAGTTCAAACCATTTTAGGTTCAAGTCATTCG
66 AATTTCCGGATCATTTTGATTCGGGTTAGTTTCAAGTTCAAACCA---TAGGTTC-AG-CATTCG
*
141082 GTTTCGGATAATTTCAGGCTCATATTGAACGGTGTTGGATAATTTTTTTAATCAAATCGAGTTTA
126 GTTTC-GATAATTTCAGGCTCATATAGAACGGTGTTGGATAATTTTTTTAATCAAATCGAGTTTA
* ** * * **
141147 AAATTTCCAAATCATTTTGGTTCAGGTTAGTTTCAGGTTCAAATCAGTTTCGG
190 AAATTTCCAAATCATATCCGTTCAGGTTAATTCCAGGTTCAAATCAAATTCGG
** * *
141200 ATTTGATCATTTTAGGCTCATATTGGACAATGTTGGATTATCATTTTTAGTCAAATC-AGTTTTA
1 ATTTGATCATTCGAGGCTCATATTGAACAGTGTTGGATTAT-ATTTTTAGTCAAATCGAGTTTTA
* * *
141264 AAATTTCCGGATCATTTTGATTCGGGTTAGTTTCAAGTTTAAATCA-A-TTTC-G-ATTCCGGAT
65 AAATTTCCGGATCATTTTGATTCGGGTTAGTTTCAAGTTCAAACCATAGGTTCAGCATT-CGG-T
* * * *
141325 TT-GATCATTTCAGGTTCATATAGAACGGTGTTGGATTA-TTTTTTAATCAAATCGGGTTTTAAA
128 TTCGATAATTTCAGGCTCATATAGAACGGTGTTGGATAATTTTTTTAATCAAATCGAG-TTTAAA
****
141388 ATTTTTGGATCATATCCGTTC-GAGTTAATTCCCA-GTTCAAATCAAATTC-G
192 ATTTCCAAATCATATCCGTTCAG-GTTAATT-CCAGGTTCAAATCAAATTCGG
*
141438 ATTTCAGATCATATCGA-GCTCATATT-AACAGTGTTGGATTAT-TTTTGTAATCAAAT
1 ATTT--GATCAT-TCGAGGCTCATATTGAACAGTGTTGGATTATATTTT-TAGTCAAAT
141494 GAAACCATTT
Statistics
Matches: 249, Mismatches: 35, Indels: 30
0.79 0.11 0.10
Matches are distributed among these distances:
237 4 0.02
238 31 0.12
239 88 0.35
240 20 0.08
241 6 0.02
243 3 0.01
244 1 0.00
248 82 0.33
249 14 0.06
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.43
Consensus pattern (242 bp):
ATTTGATCATTCGAGGCTCATATTGAACAGTGTTGGATTATATTTTTAGTCAAATCGAGTTTTAA
AATTTCCGGATCATTTTGATTCGGGTTAGTTTCAAGTTCAAACCATAGGTTCAGCATTCGGTTTC
GATAATTTCAGGCTCATATAGAACGGTGTTGGATAATTTTTTTAATCAAATCGAGTTTAAAATTT
CCAAATCATATCCGTTCAGGTTAATTCCAGGTTCAAATCAAATTCGG
Found at i:144438 original size:720 final size:720
Alignment explanation
Indices: 142838--144954 Score: 3095
Period size: 720 Copynumber: 2.9 Consensus size: 720
142828 TGTAGCTAAG
* * * * ** * * * *
142838 TGCTCAAGGTGTCGCGACAAGGTGTCAACTCCATGTTTTGGCTGTGCCGAGGATTGTGGGTTTTA
1 TGCTCGAGGTGTGGGGAGAAGGTGTCTGCTCCATGTTTTTGCTGTGCAGAGCACTGTGGGTTTTA
* * * * *
142903 CCTTCACAAGGTATGCGCTGAGGCACCTTTGGAGCTTCATCACCCTTTTCATCCTGATCATCC-T
66 TCTTCATAAGGTATGTGCCGAGGCACCTTTGGAGCTTAATCACCCTTTTCAT-C---TCATCCAT
* *
142967 CTTCTTCTTATGCAAAATGCACTTTATTCATCTGGAATGTACATTTGCAATTTTTGCAATAAATC
127 CCTCTTCTTATGCAAAATGCACCTTATTCATCTGGAATGTACATTTGCAATTTTTGCAATAAATC
*
143032 TGGTCGCAAGTCTGTTTATCGCTGCTCTACTTGTGAATTGGACTTTCATATTAAATGTGCTTTGT
192 TGGTCACAAGTCTGTTTATCGCTGCTCTACTTGTGAATTGGACTTTCATATTAAATGTGCTTTGT
*
143097 TTACATTTAATATTGCTGAGAATAATTTGAAAGAGCTTGACCATGTTGCCCTTCAAGTTGAAGA-
257 TTACATTTAATATTGCTGAGAATAATTTGAAAGAGCTTGACCATGTTGCCCTTCAAGATGAA-AC
*
143161 ACTTGAAGATGATAGTAAGTGCTTCGGGTGTCGGGAACCATTAGCAAAGTATACACACTTTTCTC
321 ACTTGAAGATGATAGTAAGTGCTTTGGGTGTCGGGAACCATTAGCAAAGTATACACACTTTTCTC
* * *
143226 CTAACTGTGGATTTAATTTACATGAGAAATGCGCTGAGCTTCCCTTCAAACTGAATCTTGTGTGC
386 CTGACTGTGGATTTAATTTACATGAGAAATGCGCTGAGCTTCCTTTCAAACTGAATCTTGAGTGC
* * *
143291 CATCGCGAACATCCTCTTGTTCTACAATTTAATAGCCAACGGCTCTCTTGCAAGATATGCAG--A
451 CATCGCGAACATCCTCTTGTTCTACAATTTTATAGCGAACGGCTCTCTTGCAAGATATGCTGCCA
* * *
143354 -GAAATCAATGTAGAAGCTATAGGATTTGTTTATGGTTGTTCTCCTTGTACGTTTGTTGTTCACA
516 GGAAA-CAA-G--G-CG-AATAGGATTTGTTTATGGTTGTTCTCCTTGTAAGTTTGTTGTTCACA
* *
143418 TTGAATGTGCATCGCAATCACCATTGCAAGTTATTAAGAGTACAAATCATGAACATCCATTTACC
575 TTGAATGTGCATCACAATCACCATTACAAGTTATTAAGAGTACAAATCATGAACATCCATTTACC
*
143483 TTGTTTAACGGTCACCAACATCCCCTGTTTCTTATGTTAAATCAAGAGCAGCTGATGGACAATCA
640 TTGTTTAACGGGCACCAACATCCCCTGTTTCTTATGTTAAATCAAGAGCAGCTGATGGACAATCA
143548 AAGGGGTGTAACTGAT
705 AAGGGGTGTAACTGAT
*
143564 TGCTCGAGGTGTGGGGAGAAGGTGTCTGCTCCATGTTTTTGCTGTGCGGAGCACTGTGGGTTTTA
1 TGCTCGAGGTGTGGGGAGAAGGTGTCTGCTCCATGTTTTTGCTGTGCAGAGCACTGTGGGTTTTA
*
143629 TCTTCATAAGGTATGTGCCAAGGCACCTTTGGAGCTTAATCACCCTTTTCATCTCATCCATCCTC
66 TCTTCATAAGGTATGTGCCGAGGCACCTTTGGAGCTTAATCACCCTTTTCATCTCATCCATCCTC
143694 TTCTTATGCAAAATGCACCTTATTCATCTGGAATGTACATTTGCAATTTTTGCAATAAATCTGGT
131 TTCTTATGCAAAATGCACCTTATTCATCTGGAATGTACATTTGCAATTTTTGCAATAAATCTGGT
*
143759 CACAAGTCTGTTTATCGCTGCTCTACTTGTGAATTGGACTTTCATATTAAATGTGATTTGTTTAC
196 CACAAGTCTGTTTATCGCTGCTCTACTTGTGAATTGGACTTTCATATTAAATGTGCTTTGTTTAC
143824 ATTTAATATTGCTGAGAATAATTTGAAAGAGCTTGACCATGTTGCCCTTCAAGATGAAACACTTG
261 ATTTAATATTGCTGAGAATAATTTGAAAGAGCTTGACCATGTTGCCCTTCAAGATGAAACACTTG
* *
143889 AAGATGATAGTAAGTGCTTTGGGTGTTGGGAACCATTAGCAAAGTATACACACTTTTCTCCGGAC
326 AAGATGATAGTAAGTGCTTTGGGTGTCGGGAACCATTAGCAAAGTATACACACTTTTCTCCTGAC
* * *
143954 TGTGGATTTAATTTACATGACAAATGCGCCGAGCTTTCTTTCAAACTGAATCTTGAGTGCCATCG
391 TGTGGATTTAATTTACATGAGAAATGCGCTGAGCTTCCTTTCAAACTGAATCTTGAGTGCCATCG
**
144019 CGAACATCCTCTTGTTCTACAATTTTATAGCGAACAACTCTCTTGCAAGATATGCTGCCAGGAAA
456 CGAACATCCTCTTGTTCTACAATTTTATAGCGAACGGCTCTCTTGCAAGATATGCTGCCAGGAAA
* * *
144084 CAAGGCGAATAGGATTTTTTTATGGTTGTTCTCCCTGTAAGTCTGTTGTTCACATTGAATGTGCA
521 CAAGGCGAATAGGATTTGTTTATGGTTGTTCTCCTTGTAAGTTTGTTGTTCACATTGAATGTGCA
144149 TCACAATCACCATTACAAGTTATTAAGAGTACAAATCATGAACATCCATTTACCTTGTTTAACGG
586 TCACAATCACCATTACAAGTTATTAAGAGTACAAATCATGAACATCCATTTACCTTGTTTAACGG
* *
144214 GCACCAACATCCCCTGTTTCTTATGTTGAATCAAGAGCAGCTGATGGATAATCAAAGGGGTGTAA
651 GCACCAACATCCCCTGTTTCTTATGTTAAATCAAGAGCAGCTGATGGACAATCAAAGGGGTGTAA
144279 CTGAT
716 CTGAT
*
144284 TGCTCGAGGTGTGGGGAGAAGGTGTCTGCTCCATGTTTTTTCTGTGCAGAGCACTGTGGGTTTTA
1 TGCTCGAGGTGTGGGGAGAAGGTGTCTGCTCCATGTTTTTGCTGTGCAGAGCACTGTGGGTTTTA
*
144349 TCTTCATAAGGTATGTGCCGAGGCACCTTTGGAGCTTAATCATCCC-TTTCATCTCAACCATCCT
66 TCTTCATAAGGTATGTGCCGAGGCACCTTTGGAGCTTAATCA-CCCTTTTCATCTCATCCATCCT
*
144413 CTTCTTATGCAAAATGCACCTTATTCATCTGGAATGTACATTTGCAATTTCTGCAATAAATCTGG
130 CTTCTTATGCAAAATGCACCTTATTCATCTGGAATGTACATTTGCAATTTTTGCAATAAATCTGG
* *
144478 TCACAAGTCTGTTTATCGCTGCTCTTCTTGTGAATTGAACTTTCATATTAAATGTGCTTTGTTTA
195 TCACAAGTCTGTTTATCGCTGCTCTACTTGTGAATTGGACTTTCATATTAAATGTGCTTTGTTTA
* *
144543 CATTTAATATTGCTGAGAATAATTTGAAAGAGCTTGAGCATGTTGCCCTTCAACATCCATTGATT
260 CATTTAATATTGCTGAGAATAATTTGAAAGAGCTTGACCATGTTGCCCTTC-A-A--GA-TGA--
** *
144608 CCCAC-TGAAAATAGTGATGAAAAACTAAAAGATGTTTCTAAGTGCTTTGGGTGCCGGGAACCAT
318 AACACTTG---A-A--GATG----A-T-----A-G----TAAGTGCTTTGGGTGTCGGGAACCAT
* * * * * * *
144672 TACCAAATTATACACACTTTTCTCCTTG-CCGTGGATTTAACTTACACGAGAAATGCACTGAGAT
362 TAGCAAAGTATACACACTTTTCTCC-TGACTGTGGATTTAATTTACATGAGAAATGCGCTGAGCT
* * * *
144736 TCCTTTCAAATTGAATCAT-ATGTGGCATCGC-AAGCATCCTCTTGTCCTACAA-TTTAGTAGCG
426 TCCTTTCAAACTGAATCTTGA-GTGCCATCGCGAA-CATCCTCTTGTTCTACAATTTTA-TAGCG
* * * *
144798 AACGGCTCTCTTGCAAGATATGCTGCCAGGTAACAAAGCGAAGAGGATTTGGTTATGGTTGTTCT
488 AACGGCTCTCTTGCAAGATATGCTGCCAGGAAACAAGGCGAATAGGATTTGTTTATGGTTGTTCT
144863 CCTTGTAAGTTTGTTGTTCACATTGAATGTGCATCACAATCACCATTACAAGTTATTAAGAGTAC
553 CCTTGTAAGTTTGTTGTTCACATTGAATGTGCATCACAATCACCATTACAAGTTATTAAGAGTAC
* *
144928 AAATCATGAACATTCATTCACCTTGTT
618 AAATCATGAACATCCATTTACCTTGTT
144955 GTTGAGACAA
Statistics
Matches: 1267, Mismatches: 86, Indels: 55
0.90 0.06 0.04
Matches are distributed among these distances:
720 480 0.38
721 5 0.00
722 9 0.01
723 366 0.29
724 2 0.00
725 8 0.01
726 107 0.08
727 3 0.00
729 1 0.00
730 1 0.00
732 4 0.00
736 1 0.00
737 1 0.00
742 1 0.00
743 1 0.00
746 7 0.01
747 269 0.21
748 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (720 bp):
TGCTCGAGGTGTGGGGAGAAGGTGTCTGCTCCATGTTTTTGCTGTGCAGAGCACTGTGGGTTTTA
TCTTCATAAGGTATGTGCCGAGGCACCTTTGGAGCTTAATCACCCTTTTCATCTCATCCATCCTC
TTCTTATGCAAAATGCACCTTATTCATCTGGAATGTACATTTGCAATTTTTGCAATAAATCTGGT
CACAAGTCTGTTTATCGCTGCTCTACTTGTGAATTGGACTTTCATATTAAATGTGCTTTGTTTAC
ATTTAATATTGCTGAGAATAATTTGAAAGAGCTTGACCATGTTGCCCTTCAAGATGAAACACTTG
AAGATGATAGTAAGTGCTTTGGGTGTCGGGAACCATTAGCAAAGTATACACACTTTTCTCCTGAC
TGTGGATTTAATTTACATGAGAAATGCGCTGAGCTTCCTTTCAAACTGAATCTTGAGTGCCATCG
CGAACATCCTCTTGTTCTACAATTTTATAGCGAACGGCTCTCTTGCAAGATATGCTGCCAGGAAA
CAAGGCGAATAGGATTTGTTTATGGTTGTTCTCCTTGTAAGTTTGTTGTTCACATTGAATGTGCA
TCACAATCACCATTACAAGTTATTAAGAGTACAAATCATGAACATCCATTTACCTTGTTTAACGG
GCACCAACATCCCCTGTTTCTTATGTTAAATCAAGAGCAGCTGATGGACAATCAAAGGGGTGTAA
CTGAT
Found at i:147738 original size:36 final size:38
Alignment explanation
Indices: 147687--147780 Score: 104
Period size: 37 Copynumber: 2.6 Consensus size: 38
147677 CTCACTATTA
* * * *
147687 TGGTGTGTAGGGTGGAT-GGGCTACCATAGTCC-TTTG
1 TGGTGTGCAGAGTGGATCGGGCTACCATAGCCCAATTG
*
147723 TGGTGTGCAGAGTGGATCGGTCTACCATAGCCCAATTG
1 TGGTGTGCAGAGTGGATCGGGCTACCATAGCCCAATTG
* *
147761 TGGTGTGTAGGGTGG-TCGGG
1 TGGTGTGCAGAGTGGATCGGG
147781 GTGGTTTTTG
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
36 15 0.31
37 17 0.35
38 16 0.33
ACGTcount: A:0.15, C:0.15, G:0.40, T:0.30
Consensus pattern (38 bp):
TGGTGTGCAGAGTGGATCGGGCTACCATAGCCCAATTG
Found at i:147766 original size:38 final size:36
Alignment explanation
Indices: 147687--147767 Score: 99
Period size: 36 Copynumber: 2.2 Consensus size: 36
147677 CTCACTATTA
* * * *
147687 TGGTGTGTAGGGTGGATGGGCTACCATAGTCCTTTG
1 TGGTGTGCAGAGTGGATGGGCTACCATAGCCCATTG
*
147723 TGGTGTGCAGAGTGGATCGGTCTACCATAGCCCAATTG
1 TGGTGTGCAGAGTGGAT-GGGCTACCATAGCCC-ATTG
147761 TGGTGTG
1 TGGTGTG
147768 TAGGGTGGTC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
36 15 0.39
37 13 0.34
38 10 0.26
ACGTcount: A:0.16, C:0.16, G:0.37, T:0.31
Consensus pattern (36 bp):
TGGTGTGCAGAGTGGATGGGCTACCATAGCCCATTG
Found at i:152110 original size:21 final size:21
Alignment explanation
Indices: 152084--152125 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
152074 CATGTTGCCC
152084 TTCAACATCCACTGATTCCCA
1 TTCAACATCCACTGATTCCCA
*
152105 TTCAACATCCATTGATTCCCA
1 TTCAACATCCACTGATTCCCA
152126 CTGAAAATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.36, G:0.05, T:0.31
Consensus pattern (21 bp):
TTCAACATCCACTGATTCCCA
Found at i:155515 original size:67 final size:70
Alignment explanation
Indices: 155424--155566 Score: 204
Period size: 67 Copynumber: 2.1 Consensus size: 70
155414 GTTTCGGATA
*
155424 ATTTCGGGCTCATATTGAACGGTGTTGGA-TAT-TTTTTTAGTCAAATC-GAG-TTTAAAATTTC
1 ATTTTGGGCTCATATTGAACGGTGTTGGATTATCTTTTTTAGTCAAATCAG-GTTTTAAAATTTC
155485 CAAATC
65 CAAATC
* * *
155491 ATTTTGGGCTCATATTGAATGGTGTTGGATTATCTTTTTTTGTCAAATCAGGTTTTGAAATTTCC
1 ATTTTGGGCTCATATTGAACGGTGTTGGATTATCTTTTTTAGTCAAATCAGGTTTTAAAATTTCC
*
155556 AGATC
66 AAATC
155561 ATTTTG
1 ATTTTG
155567 ATTTGGGTTA
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
67 27 0.40
68 3 0.04
69 15 0.22
70 22 0.33
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (70 bp):
ATTTTGGGCTCATATTGAACGGTGTTGGATTATCTTTTTTAGTCAAATCAGGTTTTAAAATTTCC
AAATC
Found at i:163734 original size:2 final size:2
Alignment explanation
Indices: 163727--163752 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
163717 AATAAAAAGA
163727 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
163753 GGTAAGACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:163976 original size:21 final size:21
Alignment explanation
Indices: 163944--163986 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
163934 TGAAGTTAGG
*
163944 AATATATTATTTATCTTTTAAAA
1 AATATAAT-TTTAT-TTTTAAAA
163967 AATATAATTTTATTTTTAAA
1 AATATAATTTTATTTTTAAA
163987 TGAATTACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 5 0.26
23 7 0.37
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (21 bp):
AATATAATTTTATTTTTAAAA
Found at i:173961 original size:7 final size:7
Alignment explanation
Indices: 173951--173983 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
173941 ACAAAAACCC
173951 AAAACGT
1 AAAACGT
173958 AAAACGT
1 AAAACGT
173965 AAAACGT
1 AAAACGT
173972 AAAACGT
1 AAAACGT
173979 AAAAC
1 AAAAC
173984 AAAGAGGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.61, C:0.15, G:0.12, T:0.12
Consensus pattern (7 bp):
AAAACGT
Found at i:173961 original size:21 final size:20
Alignment explanation
Indices: 173938--173986 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
173928 AACTGAAACA
173938 AAAACAAAAACCCAAAACGT
1 AAAACAAAAACCCAAAACGT
* **
173958 AAAACGTAAAACGTAAAACGT
1 AAAAC-AAAAACCCAAAACGT
173979 AAAACAAA
1 AAAACAAA
173987 GAGGTTAGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.65, C:0.18, G:0.08, T:0.08
Consensus pattern (20 bp):
AAAACAAAAACCCAAAACGT
Found at i:174760 original size:29 final size:29
Alignment explanation
Indices: 174676--174763 Score: 72
Period size: 31 Copynumber: 2.9 Consensus size: 29
174666 AATTGAATCA
* *
174676 AAATCAAAGTTCCATATA-CACATATGAATT
1 AAATCAAAGTT-CATATATCAAAT-TGCATT
* * *
174706 ACAATTAAAGTTTCATGTGT-ATAATTGCATT
1 A-AATCAAAG-TTCATATATCA-AATTGCATT
174737 AAATCAAAGTTCATATATCAAATTGCA
1 AAATCAAAGTTCATATATCAAATTGCA
174764 CATTGAACTA
Statistics
Matches: 45, Mismatches: 8, Indels: 11
0.70 0.12 0.17
Matches are distributed among these distances:
29 14 0.31
30 9 0.20
31 18 0.40
32 4 0.09
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (29 bp):
AAATCAAAGTTCATATATCAAATTGCATT
Found at i:177068 original size:27 final size:25
Alignment explanation
Indices: 177035--177103 Score: 66
Period size: 27 Copynumber: 2.6 Consensus size: 25
177025 TACTTTATGC
177035 TATTTTTTAAAATTTTTATGAACTTTA
1 TATTTTTTAAAATTTTT-T-AACTTTA
** * *
177062 TATTTTTTTGAATTTTTTTATTTTA
1 TATTTTTTAAAATTTTTTAACTTTA
177087 TATGTTTTTATAAATTT
1 TAT-TTTTTA-AAATTT
177104 AAAATTATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
25 8 0.24
26 6 0.18
27 20 0.59
ACGTcount: A:0.28, C:0.01, G:0.04, T:0.67
Consensus pattern (25 bp):
TATTTTTTAAAATTTTTTAACTTTA
Found at i:183563 original size:29 final size:29
Alignment explanation
Indices: 183529--183586 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
183519 ATTTGATTTT
*
183529 TTTAATAATATAGAGACTAAATTGATACA
1 TTTAATAATAGAGAGACTAAATTGATACA
* * *
183558 TTTAATAGTAGAGGGACTAATTTGATACA
1 TTTAATAATAGAGAGACTAAATTGATACA
183587 ATCTATATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.43, C:0.07, G:0.16, T:0.34
Consensus pattern (29 bp):
TTTAATAATAGAGAGACTAAATTGATACA
Found at i:185954 original size:144 final size:144
Alignment explanation
Indices: 185694--185982 Score: 569
Period size: 144 Copynumber: 2.0 Consensus size: 144
185684 GATTTGCAGA
185694 TGGTATTCTGCATTTCATCTAGCATTCACTATAGTATTGACAGATTAGTAGACATGTGCTCGTAT
1 TGGTATTCTGCATTTCATCTAGCATTCACTATAGTATTGACAGATTAGTAGACATGTGCTCGTAT
185759 TTTCGTTCGAGCGAACTTCGACGTGTATTTTAGGCAATCATGGTTGTTTCCCTCTGGGGTGGCAA
66 TTTCGTTCGAGCGAACTTCGACGTGTATTTTAGGCAATCATGGTTGTTTCCCTCTGGGGTGGCAA
185824 ATTTTTTTTTTTTT
131 ATTTTTTTTTTTTT
185838 TGGTATTCTGCATTTCATCTAGCATTCACTATAGTATTGACAGATTAGTAGACATGTGCTCGTAT
1 TGGTATTCTGCATTTCATCTAGCATTCACTATAGTATTGACAGATTAGTAGACATGTGCTCGTAT
*
185903 TTTCGTTCGAGCGAACTTCGACGTGTATTTTAGGCAATCATGGTTTTTTCCCTCTGGGGTGGCAA
66 TTTCGTTCGAGCGAACTTCGACGTGTATTTTAGGCAATCATGGTTGTTTCCCTCTGGGGTGGCAA
185968 ATTTTTTTTTTTTT
131 ATTTTTTTTTTTTT
185982 T
1 T
185983 TTTTGTATTC
Statistics
Matches: 144, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
144 144 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (144 bp):
TGGTATTCTGCATTTCATCTAGCATTCACTATAGTATTGACAGATTAGTAGACATGTGCTCGTAT
TTTCGTTCGAGCGAACTTCGACGTGTATTTTAGGCAATCATGGTTGTTTCCCTCTGGGGTGGCAA
ATTTTTTTTTTTTT
Found at i:188524 original size:15 final size:16
Alignment explanation
Indices: 188485--188534 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
188475 GATTCGATTA
188485 ATAAATTATT-AAAAAT
1 ATAAA-TATTAAAAAAT
188501 CATAAATA-TAAAAAAT
1 -ATAAATATTAAAAAAT
*
188517 ATATATATTTAAAAAAT
1 ATAAATA-TTAAAAAAT
188534 A
1 A
188535 AAAAAAATTG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
15 7 0.24
16 8 0.28
17 14 0.48
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (16 bp):
ATAAATATTAAAAAAT
Found at i:188837 original size:28 final size:28
Alignment explanation
Indices: 188795--188852 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
188785 GATATTAATT
*
188795 ATTTTAATTAATTAATAACATTATA-AA
1 ATTTTAACTAATTAATAACATTATATAA
*
188822 ATTTTAAACTAATTAATAATATTATATAA
1 ATTTT-AACTAATTAATAACATTATATAA
188851 AT
1 AT
188853 ATAGATACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 5 0.19
28 18 0.67
29 4 0.15
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (28 bp):
ATTTTAACTAATTAATAACATTATATAA
Found at i:189995 original size:2 final size:2
Alignment explanation
Indices: 189988--190014 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
189978 CGATCCCTTT
189988 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
190015 TTTTGTTTTG
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:204963 original size:28 final size:30
Alignment explanation
Indices: 204893--204970 Score: 97
Period size: 31 Copynumber: 2.6 Consensus size: 30
204883 GTCATTTGGT
* *
204893 TTAAATACCAAATTGAATATTGAAATTAAAC
1 TTAAATACCAAATTGAA-ATAGAAATAAAAC
*
204924 TTAAATATCAAATTGAAA-AGAAA-AAAAC
1 TTAAATACCAAATTGAAATAGAAATAAAAC
204952 TTAAATACCAAATTTGAAA
1 TTAAATACCAAA-TTGAAA
204971 CTAAACTTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
28 15 0.36
29 10 0.24
30 1 0.02
31 16 0.38
ACGTcount: A:0.56, C:0.09, G:0.06, T:0.28
Consensus pattern (30 bp):
TTAAATACCAAATTGAAATAGAAATAAAAC
Found at i:204970 original size:24 final size:24
Alignment explanation
Indices: 204943--204988 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
204933 AAATTGAAAA
204943 GAAA-AAAACTTAAATACCAAATTT
1 GAAACAAAACTT-AATACCAAATTT
* *
204967 GAAACTAAACTTAATACTAAAT
1 GAAACAAAACTTAATACCAAAT
204989 GATATATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 13 0.68
25 6 0.32
ACGTcount: A:0.57, C:0.13, G:0.04, T:0.26
Consensus pattern (24 bp):
GAAACAAAACTTAATACCAAATTT
Found at i:209969 original size:42 final size:42
Alignment explanation
Indices: 209917--210016 Score: 146
Period size: 42 Copynumber: 2.4 Consensus size: 42
209907 GATCTTGGAA
* * **
209917 TCGCACACTTAGTGCCGGTTATTCGACATCGTCATTTTTGTT
1 TCGCACACTTAGTGCCCGTTATTCAACATCGTCATTTTAATT
* *
209959 TCGCACACTTAGTTCCCGTTATTCAACATTGTCATTTTAATT
1 TCGCACACTTAGTGCCCGTTATTCAACATCGTCATTTTAATT
210001 TCGCACACTTAGTGCC
1 TCGCACACTTAGTGCC
210017 ATTCGTATAG
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.20, C:0.26, G:0.15, T:0.39
Consensus pattern (42 bp):
TCGCACACTTAGTGCCCGTTATTCAACATCGTCATTTTAATT
Found at i:214257 original size:20 final size:20
Alignment explanation
Indices: 214219--214257 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
214209 ATCAAAAAGT
*
214219 AAATTGATTCTTCTACTACA
1 AAATTGATTCATCTACTACA
214239 AAATTGCATTCATCT-CTAC
1 AAATTG-ATTCATCTACTAC
214258 GGTTAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.38
Consensus pattern (20 bp):
AAATTGATTCATCTACTACA
Found at i:222794 original size:2 final size:2
Alignment explanation
Indices: 222787--222815 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
222777 ACGCATGTGA
222787 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
222816 GTTAATTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:225195 original size:20 final size:20
Alignment explanation
Indices: 225157--225195 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
225147 GTTTGTAGTC
225157 TTGGTCCATTCGATTCAACTT
1 TTGGTCCATTC-ATTCAACTT
225178 TTGGTCCACTTC-TTCAAC
1 TTGGTCCA-TTCATTCAAC
225196 CACTTGCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 8 0.47
22 3 0.18
ACGTcount: A:0.18, C:0.28, G:0.13, T:0.41
Consensus pattern (20 bp):
TTGGTCCATTCATTCAACTT
Found at i:227600 original size:34 final size:35
Alignment explanation
Indices: 227556--227622 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
227546 CAGTAAAATA
*
227556 TTTTCCGTAAAATGATTT-CAGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACAGGAAAATATTTTAC
* *
227590 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACAGGAAAATATTTT
227623 CTGTTATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACAGGAAAATATTTTAC
Found at i:237990 original size:40 final size:40
Alignment explanation
Indices: 237935--238015 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
237925 GTCAATCACG
237935 CTAGTTTTTAACAGTACAAATGGATAAATTTTTTTACAGA
1 CTAGTTTTTAACAGTACAAATGGATAAATTTTTTTACAGA
*
237975 CTAGTTTTTAACAGTACAAATGGATGAATTTTTTTACAGA
1 CTAGTTTTTAACAGTACAAATGGATAAATTTTTTTACAGA
238015 C
1 C
238016 AACATCGATC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.40
Consensus pattern (40 bp):
CTAGTTTTTAACAGTACAAATGGATAAATTTTTTTACAGA
Found at i:240365 original size:29 final size:28
Alignment explanation
Indices: 240321--240387 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 28
240311 GTTTGACATG
* *
240321 AATTTTAAAATTTAAAAGTAGAGAGACTA
1 AATTTTAAAA-GTAAAAATAGAGAGACTA
* *
240350 AATTCTTAAAAGTAAAAATATAGGGACTA
1 AATT-TTAAAAGTAAAAATAGAGAGACTA
240379 AATTTTAAA
1 AATTTTAAA
240388 TTTGAGAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 5 0.15
29 22 0.67
30 6 0.18
ACGTcount: A:0.52, C:0.04, G:0.12, T:0.31
Consensus pattern (28 bp):
AATTTTAAAAGTAAAAATAGAGAGACTA
Found at i:250179 original size:2 final size:2
Alignment explanation
Indices: 250172--250206 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
250162 GATGAACCTT
250172 TA TA 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 T
250207 GATCTCTANN
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:253935 original size:127 final size:128
Alignment explanation
Indices: 253709--253963 Score: 503
Period size: 127 Copynumber: 2.0 Consensus size: 128
253699 AATTCAAACT
253709 TTCCCTATTTCTACATTAAAAAAATATAATTGTCTAATCAAATAATAATAATAATTGGGGACAAA
1 TTCCCTATTTCTACATTAAAAAAATATAATTGTCTAATCAAATAATAATAATAATTGGGGACAAA
253774 CCATCACTTTCATACTAAACACTAATCCTTAATTTAGAAAATATTTTTAAA-GATTATTAAAA
66 CCATCACTTTCATACTAAACACTAATCCTTAATTTAGAAAATATTTTTAAATGATTATTAAAA
253836 TTCCCTATTTCTACATTAAAAAAATATAATTGTCTAATCAAATAATAATAATAATTGGGGACAAA
1 TTCCCTATTTCTACATTAAAAAAATATAATTGTCTAATCAAATAATAATAATAATTGGGGACAAA
253901 CCATCACTTTCATACTAAACACTAATCCTTAATTTAGAAAATATTTTTAAATGATTATTAAAA
66 CCATCACTTTCATACTAAACACTAATCCTTAATTTAGAAAATATTTTTAAATGATTATTAAAA
253964 ATAGTAATAT
Statistics
Matches: 127, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
127 116 0.91
128 11 0.09
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (128 bp):
TTCCCTATTTCTACATTAAAAAAATATAATTGTCTAATCAAATAATAATAATAATTGGGGACAAA
CCATCACTTTCATACTAAACACTAATCCTTAATTTAGAAAATATTTTTAAATGATTATTAAAA
Found at i:268405 original size:19 final size:20
Alignment explanation
Indices: 268381--268419 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
268371 GTAAGTTGTG
268381 AATTTAGACA-TTTTAGTTT
1 AATTTAGACATTTTTAGTTT
*
268400 AATTTAGTCATTTTTAGTTT
1 AATTTAGACATTTTTAGTTT
268420 TATTCGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.28, C:0.05, G:0.10, T:0.56
Consensus pattern (20 bp):
AATTTAGACATTTTTAGTTT
Found at i:268591 original size:36 final size:36
Alignment explanation
Indices: 268549--268622 Score: 94
Period size: 36 Copynumber: 2.1 Consensus size: 36
268539 AAAGTTGGTT
**
268549 AATAATTTGATGACTATCATTTGCATAAAGACTTGA
1 AATAATTTGACAACTATCATTTGCATAAAGACTTGA
* ** *
268585 AATAATTTGACAACTGTCATTTGTGTAAGGACTTGA
1 AATAATTTGACAACTATCATTTGCATAAAGACTTGA
268621 AA
1 AA
268623 ATTCAAAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (36 bp):
AATAATTTGACAACTATCATTTGCATAAAGACTTGA
Found at i:270793 original size:17 final size:17
Alignment explanation
Indices: 270773--270807 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
270763 CTTTTAGAAC
270773 CATAAAGTTTTTGCAGT
1 CATAAAGTTTTTGCAGT
270790 CATAAAGTTTTTGCAGT
1 CATAAAGTTTTTGCAGT
270807 C
1 C
270808 CCGATGTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (17 bp):
CATAAAGTTTTTGCAGT
Found at i:281953 original size:24 final size:22
Alignment explanation
Indices: 281917--281960 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 22
281907 AATTAATTAA
281917 TTTTTAAAAAAATTTAAAATATT
1 TTTTTAAAAAAA-TTAAAATATT
281940 TTTTATAAAAAAATTAAAATA
1 TTTT-TAAAAAAATTAAAATA
281961 CTAATTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
TTTTTAAAAAAATTAAAATATT
Found at i:289762 original size:22 final size:22
Alignment explanation
Indices: 289720--289765 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
289710 TAAGACCCAA
*
289720 CAAATGCATCTCATGGAAAGCC
1 CAAATGCATCTCATAGAAAGCC
*
289742 CAAATGGCATCTC-TAGCAAGCC
1 CAAAT-GCATCTCATAGAAAGCC
289764 CA
1 CA
289766 TTTTGGGCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.35, C:0.30, G:0.17, T:0.17
Consensus pattern (22 bp):
CAAATGCATCTCATAGAAAGCC
Found at i:293909 original size:19 final size:19
Alignment explanation
Indices: 293885--293943 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 19
293875 AATTGCATCG
293885 AAAAGAAATGGGTATAAGA
1 AAAAGAAATGGGTATAAGA
* *
293904 AAAAGAACT---TAT-CG-
1 AAAAGAAATGGGTATAAGA
293918 AAAAGAAATGGGTATAAGA
1 AAAAGAAATGGGTATAAGA
293937 AAAAGAA
1 AAAAGAA
293944 CTTACTTTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
14 8 0.26
15 1 0.03
16 3 0.10
17 3 0.10
18 1 0.03
19 15 0.48
ACGTcount: A:0.59, C:0.03, G:0.22, T:0.15
Consensus pattern (19 bp):
AAAAGAAATGGGTATAAGA
Found at i:293918 original size:33 final size:33
Alignment explanation
Indices: 293881--293947 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
293871 TGTAAATTGC
293881 ATCGAAAAGAAATGGGTATAAGAAAAAGAACTT
1 ATCGAAAAGAAATGGGTATAAGAAAAAGAACTT
293914 ATCGAAAAGAAATGGGTATAAGAAAAAGAACTT
1 ATCGAAAAGAAATGGGTATAAGAAAAAGAACTT
293947 A
1 A
293948 CTTTTCTATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.55, C:0.06, G:0.21, T:0.18
Consensus pattern (33 bp):
ATCGAAAAGAAATGGGTATAAGAAAAAGAACTT
Found at i:295332 original size:210 final size:210
Alignment explanation
Indices: 294970--295612 Score: 1182
Period size: 210 Copynumber: 3.1 Consensus size: 210
294960 CCCTACTCTC
294970 GGAACAATTTCCAGTTTGCTGCACTCTGATATATCTAGATTTCGAAGAAAGGAAAATCCTTCCAA
1 GGAACAATTTCCAGTTTGCTGCACTCTGATATATCTAGATTTCGAAGAAAGGAAAATCCTTCCAA
295035 ATCTGGAATGGAACTTAAATTAGCACAGCCACTTAGCTTTAATTCTTTAAGACAACTGGAGGTCG
66 ATCTGGAATGGAACTTAAATTAGCACAGCCACTTAGCTTTAATTCTTTAAGACAACTGGAGGTCG
295100 ACAACCCGTCTCCTATCTTGCTTAAGTTTTGACACGAGGAAATGTGAAGCTTTTCAAGAGATGAA
131 ACAACCCGTCTCCTATCTTGCTTAAGTTTTGACACGAGGAAATGTGAAGCTTTTCAAGAGATGAA
295165 CATCTTCCTCTTATT
196 CATCTTCCTCTTATT
* *
295180 GGAACAATTTCCAGTTTGCTGCACCCTGATATAACTAGATTTCGAAGAAAGGAAAATCCTTCCAA
1 GGAACAATTTCCAGTTTGCTGCACTCTGATATATCTAGATTTCGAAGAAAGGAAAATCCTTCCAA
* * * * *
295245 ATCTGGAATGGAGCTTAAATTAGCACAGCCACATAGCTTTAATTCTATAAGATAAGTGGAGGTCG
66 ATCTGGAATGGAACTTAAATTAGCACAGCCACTTAGCTTTAATTCTTTAAGACAACTGGAGGTCG
295310 ACAACCCGTCTCCTATCTTGCTTAAGTTTTGACACGAGGAAATGTGAAGCTTTTCAAGAGATGAA
131 ACAACCCGTCTCCTATCTTGCTTAAGTTTTGACACGAGGAAATGTGAAGCTTTTCAAGAGATGAA
*
295375 CATCTTCCCCTTATT
196 CATCTTCCTCTTATT
*
295390 GGAACAATTTCCAGTTTGCTGCACTTTGATATATCTAGATTTCGAAGAAAGGAAAATCC-TCCAA
1 GGAACAATTTCCAGTTTGCTGCACTCTGATATATCTAGATTTCGAAGAAAGGAAAATCCTTCC-A
295454 AATCTGGAATGGAACTTAAATTAGCACAGCCACTTAGCTTTAATTCTTTAAGACAACTGGAGGTC
65 AATCTGGAATGGAACTTAAATTAGCACAGCCACTTAGCTTTAATTCTTTAAGACAACTGGAGGTC
295519 GACAACCCGTCTCCTATCTTGCTTAAGTTTTGACACGAGGAAATGTGAAGCTTTTCAAGAGATGA
130 GACAACCCGTCTCCTATCTTGCTTAAGTTTTGACACGAGGAAATGTGAAGCTTTTCAAGAGATGA
295584 ACATCTTCCTCTTATT
195 ACATCTTCCTCTTATT
295600 GG-ACAATTTCCAG
1 GGAACAATTTCCAG
295613 CAGCCACTTA
Statistics
Matches: 415, Mismatches: 17, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
209 14 0.03
210 401 0.97
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.30
Consensus pattern (210 bp):
GGAACAATTTCCAGTTTGCTGCACTCTGATATATCTAGATTTCGAAGAAAGGAAAATCCTTCCAA
ATCTGGAATGGAACTTAAATTAGCACAGCCACTTAGCTTTAATTCTTTAAGACAACTGGAGGTCG
ACAACCCGTCTCCTATCTTGCTTAAGTTTTGACACGAGGAAATGTGAAGCTTTTCAAGAGATGAA
CATCTTCCTCTTATT
Found at i:295664 original size:133 final size:134
Alignment explanation
Indices: 295480--295746 Score: 466
Period size: 133 Copynumber: 2.0 Consensus size: 134
295470 TAAATTAGCA
* * *
295480 CAGCCACTTAGCTTTAATTCTTTAAGACAACTGGAGGTCGACAACCCGTCTCCTATCTTGCTTAA
1 CAGCCACTTAGCTTTAATTCTATAAGACAACTGGAAGTCGACAACCAGTCTCCTATCTTGCTTAA
*
295545 GTTTTGACACGAGGAAATGTGAAGCTTTTCAAGAGATGAACATCTTCCTCTTATTGG-ACAATTT
66 GTTTTGACACGAGGAAATGTGAAGCTTTTCAAGAGATGAACATCTTCCCCTTATTGGAACAATTT
295609 CCAG
131 CCAG
*
295613 CAGCCACTTAGCTTTAATTCTATAAGATAAGC-GGAAGTCGACAACCAGTCTCCTATCTTGCTTA
1 CAGCCACTTAGCTTTAATTCTATAAGACAA-CTGGAAGTCGACAACCAGTCTCCTATCTTGCTTA
295677 AGTTTTGACACGAGGAAATGTGAAGCTTTTCAAGAGATGAACATCTTCCCCTTATTGGAACAATT
65 AGTTTTGACACGAGGAAATGTGAAGCTTTTCAAGAGATGAACATCTTCCCCTTATTGGAACAATT
295742 TCCAG
130 TCCAG
295747 TTTGCTGCAC
Statistics
Matches: 127, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
133 115 0.91
134 12 0.09
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (134 bp):
CAGCCACTTAGCTTTAATTCTATAAGACAACTGGAAGTCGACAACCAGTCTCCTATCTTGCTTAA
GTTTTGACACGAGGAAATGTGAAGCTTTTCAAGAGATGAACATCTTCCCCTTATTGGAACAATTT
CCAG
Found at i:295896 original size:343 final size:344
Alignment explanation
Indices: 295270--295956 Score: 1263
Period size: 343 Copynumber: 2.0 Consensus size: 344
295260 TAAATTAGCA
* * *
295270 CAGCCACATAGCTTTAATTCTATAAGATAAGTGGAGGTCGACAACCCGTCTCCTATCTTGCTTAA
1 CAGCCACATAGCTTTAATTCTATAAGATAAGCGGAAGTCGACAACCAGTCTCCTATCTTGCTTAA
295335 GTTTTGACACGAGGAAATGTGAAGCTTTTCAAGAGATGAACATCTTCCCCTTATTGGAACAATTT
66 GTTTTGACACGAGGAAATGTGAAGCTTTTCAAGAGATGAACATCTTCCCCTTATTGGAACAATTT
295400 CCAGTTTGCTGCACTTTGATATATCTAGATTTCGAAGAAAGGAAAATCCTCCAAAATCTGGAATG
131 CCAGTTTGCTGCACTTTGATATATCTAGATTTCGAAGAAAGGAAAATCCTCCAAAATCTGGAATG
* * *
295465 GAACTTAAATTAGCACAGCCACTTAGCTTTAATTCTTTAAGACAACTGGAGGTCGACAACCCGTC
196 GAACTTAAATTAGCACAGCCACTTAGCTTTAATTCTATAAGACAACTGGAAGTCGACAACCAGTC
295530 TCCTATCTTGCTTAAGTTTTGACACGAGGAAATGTGAAGCTTTTCAAGAGATGAACATCTTCCTC
261 TCCTATCTTGCTTAAGTTTTGACACGAGGAAATGTGAAGCTTTTCAAGAGATGAACATCTTCCTC
295595 TTATTGG-ACAATTTCCAG
326 TTATTGGAACAATTTCCAG
*
295613 CAGCCACTTAGCTTTAATTCTATAAGATAAGCGGAAGTCGACAACCAGTCTCCTATCTTGCTTAA
1 CAGCCACATAGCTTTAATTCTATAAGATAAGCGGAAGTCGACAACCAGTCTCCTATCTTGCTTAA
295678 GTTTTGACACGAGGAAATGTGAAGCTTTTCAAGAGATGAACATCTTCCCCTTATTGGAACAATTT
66 GTTTTGACACGAGGAAATGTGAAGCTTTTCAAGAGATGAACATCTTCCCCTTATTGGAACAATTT
295743 CCAGTTTGCTGCACTTTGATATATCTAGATTTCGAAGAAAGGAAAATCCTTCC-AAATCTGGAAT
131 CCAGTTTGCTGCACTTTGATATATCTAGATTTCGAAGAAAGGAAAATCC-TCCAAAATCTGGAAT
*
295807 GGAACTTAAATTAGCACAGCCACTTAGCTTTAATTCTATAAGATAAGC-GGAAGTCGACAACCAG
195 GGAACTTAAATTAGCACAGCCACTTAGCTTTAATTCTATAAGACAA-CTGGAAGTCGACAACCAG
295871 TCTCCTATCTTGCTTAAGTTTTGACACGAGGAAATGTGAAGCTTTTCAAGAGATGAACATCTTCC
259 TCTCCTATCTTGCTTAAGTTTTGACACGAGGAAATGTGAAGCTTTTCAAGAGATGAACATCTTCC
295936 TCTTATTGGAACAATTTCCAG
324 TCTTATTGGAACAATTTCCAG
295957 TTTGCTGCAC
Statistics
Matches: 333, Mismatches: 8, Indels: 5
0.96 0.02 0.01
Matches are distributed among these distances:
343 318 0.95
344 15 0.05
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (344 bp):
CAGCCACATAGCTTTAATTCTATAAGATAAGCGGAAGTCGACAACCAGTCTCCTATCTTGCTTAA
GTTTTGACACGAGGAAATGTGAAGCTTTTCAAGAGATGAACATCTTCCCCTTATTGGAACAATTT
CCAGTTTGCTGCACTTTGATATATCTAGATTTCGAAGAAAGGAAAATCCTCCAAAATCTGGAATG
GAACTTAAATTAGCACAGCCACTTAGCTTTAATTCTATAAGACAACTGGAAGTCGACAACCAGTC
TCCTATCTTGCTTAAGTTTTGACACGAGGAAATGTGAAGCTTTTCAAGAGATGAACATCTTCCTC
TTATTGGAACAATTTCCAG
Found at i:296131 original size:553 final size:553
Alignment explanation
Indices: 295060--296155 Score: 1853
Period size: 553 Copynumber: 2.0 Consensus size: 553
295050 TAAATTAGCA
* * *
295060 CAGCCACTTAGCTTTAATTCTTTAAGACAACTGGAGGTCGACAACCCGTCTCCTATCTTGCTTAA
1 CAGCCACTTAGCTTTAATTCTATAAGACAACTGGAAGTCGACAACCAGTCTCCTATCTTGCTTAA
*
295125 GTTTTGACACGAGGAAATGTGAAGCTTTTCAAGAGATGAACATCTTCCTCTTATTGGAACAATTT
66 GTTTTGACACGAGGAAATGTGAAGCTTTTCAAGAGATGAACATCTTCCCCTTATTGGAACAATTT
295190 CCAGTTTGCTGCACCCTGATATAACTAGATTTCGAAGAAAGGAAAATCCTTCCAAATCTGGAATG
131 CCAGTTTGCTGCACCCTGATATAACTAGATTTCGAAGAAAGGAAAATCCTTCCAAATCTGGAATG
* * * *
295255 GAGCTTAAATTAGCACAGCCACATAGCTTTAATTCTATAAGATAAGTGGAGGTCGACAACCCGTC
196 GAACTTAAATTAGCACAGCCACATAGCTTTAATTCTATAAGATAAGCGGAAGTCGACAACCAGTC
295320 TCCTATCTTGCTTAAGTTTTGACACGAGGAAATGTGAAGCTTTTCAAGAGATGAACATCTTCCCC
261 TCCTATCTTGCTTAAGTTTTGACACGAGGAAATGTGAAGCTTTTCAAGAGATGAACATCTTCCCC
*
295385 TTATTGGAACAATTTCCAGTTTGCTGCACTTTGATATATCTAGATTTCGAAGAAAGGAAAATCCT
326 TTATTGGAACAATTTCCAGTTTGCTGCACTCTGATATATCTAGATTTCGAAGAAAGGAAAATCCT
295450 CCAAAATCTGGAATGGAACTTAAATTAGCACAGCCACTTAGCTTTAATTCTTTAAGACAACTGGA
391 CCAAAATCTGGAATGGAACTTAAATTAGCACAGCCACTTAGCTTTAATTCTTTAAGACAACTGGA
* * * * **
295515 GGTCGACAACCCGTCTCCTATCTTGCTTAAGTTTTGACACGAGGAAATGTGAAGCTTTTCAAGAG
456 GGTAGACAACCCGCCTCCTATCTCGCTTAAGTTTTGACACGAGGAAATGTCAAAATTTTCAAGAG
*
295580 ATGAACATCTTCCT-CTTATTGGACAATTTCCAG
521 ATGAACATATTCCTGC-TATTGGACAATTTCCAG
*
295613 CAGCCACTTAGCTTTAATTCTATAAGATAAGC-GGAAGTCGACAACCAGTCTCCTATCTTGCTTA
1 CAGCCACTTAGCTTTAATTCTATAAGACAA-CTGGAAGTCGACAACCAGTCTCCTATCTTGCTTA
295677 AGTTTTGACACGAGGAAATGTGAAGCTTTTCAAGAGATGAACATCTTCCCCTTATTGGAACAATT
65 AGTTTTGACACGAGGAAATGTGAAGCTTTTCAAGAGATGAACATCTTCCCCTTATTGGAACAATT
** *
295742 TCCAGTTTGCTGCACTTTGATATATCTAGATTTCGAAGAAAGGAAAATCCTTCCAAATCTGGAAT
130 TCCAGTTTGCTGCACCCTGATATAACTAGATTTCGAAGAAAGGAAAATCCTTCCAAATCTGGAAT
*
295807 GGAACTTAAATTAGCACAGCCACTTAGCTTTAATTCTATAAGATAAGCGGAAGTCGACAACCAGT
195 GGAACTTAAATTAGCACAGCCACATAGCTTTAATTCTATAAGATAAGCGGAAGTCGACAACCAGT
*
295872 CTCCTATCTTGCTTAAGTTTTGACACGAGGAAATGTGAAGCTTTTCAAGAGATGAACATCTTCCT
260 CTCCTATCTTGCTTAAGTTTTGACACGAGGAAATGTGAAGCTTTTCAAGAGATGAACATCTTCCC
295937 CTTATTGGAACAATTTCCAGTTTGCTGCACTCTGATATATCTAGATTTCGAAGAAAGGAAAATCC
325 CTTATTGGAACAATTTCCAGTTTGCTGCACTCTGATATATCTAGATTTCGAAGAAAGGAAAATCC
* *
296002 TTCC-AAATCTGGAATGGAGCTTAAATTAGCACAGCCACTTAGCTTTAATTCTTTAAGACAAGTG
390 -TCCAAAATCTGGAATGGAACTTAAATTAGCACAGCCACTTAGCTTTAATTCTTTAAGACAACTG
***
296066 GAGGTAGACAACCCGCCTCCTATCTCGCTTAA-TTCCTT-ACACTCTGAAATG-CAAAATTCTTC
454 GAGGTAGACAACCCGCCTCCTATCTCGCTTAAGTT--TTGACACGAGGAAATGTCAAAATT-TTC
296128 AAGAGATGAACATATTCCTGCTATTGGA
516 AAGAGATGAACATATTCCTGCTATTGGA
296156 ACACTTCCCA
Statistics
Matches: 510, Mismatches: 27, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
552 6 0.01
553 497 0.97
554 7 0.01
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (553 bp):
CAGCCACTTAGCTTTAATTCTATAAGACAACTGGAAGTCGACAACCAGTCTCCTATCTTGCTTAA
GTTTTGACACGAGGAAATGTGAAGCTTTTCAAGAGATGAACATCTTCCCCTTATTGGAACAATTT
CCAGTTTGCTGCACCCTGATATAACTAGATTTCGAAGAAAGGAAAATCCTTCCAAATCTGGAATG
GAACTTAAATTAGCACAGCCACATAGCTTTAATTCTATAAGATAAGCGGAAGTCGACAACCAGTC
TCCTATCTTGCTTAAGTTTTGACACGAGGAAATGTGAAGCTTTTCAAGAGATGAACATCTTCCCC
TTATTGGAACAATTTCCAGTTTGCTGCACTCTGATATATCTAGATTTCGAAGAAAGGAAAATCCT
CCAAAATCTGGAATGGAACTTAAATTAGCACAGCCACTTAGCTTTAATTCTTTAAGACAACTGGA
GGTAGACAACCCGCCTCCTATCTCGCTTAAGTTTTGACACGAGGAAATGTCAAAATTTTCAAGAG
ATGAACATATTCCTGCTATTGGACAATTTCCAG
Found at i:296158 original size:210 final size:210
Alignment explanation
Indices: 295613--296097 Score: 871
Period size: 210 Copynumber: 2.3 Consensus size: 210
295603 CAATTTCCAG
295613 CAGCCACTTAGCTTTAATTCTATAAGATAAGCGGAAGTCGACAACCAGTCTCCTATCTTGCTTAA
1 CAGCCACTTAGCTTTAATTCTATAAGATAAGCGGAAGTCGACAACCAGTCTCCTATCTTGCTTAA
*
295678 GTTTTGACACGAGGAAATGTGAAGCTTTTCAAGAGATGAACATCTTCCCCTTATTGGAACAATTT
66 GTTTTGACACGAGGAAATGTGAAGCTTTTCAAGAGATGAACATCTTCCTCTTATTGGAACAATTT
*
295743 CCAGTTTGCTGCACTTTGATATATCTAGATTTCGAAGAAAGGAAAATCCTTCCAAATCTGGAATG
131 CCAGTTTGCTGCACTCTGATATATCTAGATTTCGAAGAAAGGAAAATCCTTCCAAATCTGGAATG
295808 GAACTTAAATTAGCA
196 GAACTTAAATTAGCA
295823 CAGCCACTTAGCTTTAATTCTATAAGATAAGCGGAAGTCGACAACCAGTCTCCTATCTTGCTTAA
1 CAGCCACTTAGCTTTAATTCTATAAGATAAGCGGAAGTCGACAACCAGTCTCCTATCTTGCTTAA
295888 GTTTTGACACGAGGAAATGTGAAGCTTTTCAAGAGATGAACATCTTCCTCTTATTGGAACAATTT
66 GTTTTGACACGAGGAAATGTGAAGCTTTTCAAGAGATGAACATCTTCCTCTTATTGGAACAATTT
295953 CCAGTTTGCTGCACTCTGATATATCTAGATTTCGAAGAAAGGAAAATCCTTCCAAATCTGGAATG
131 CCAGTTTGCTGCACTCTGATATATCTAGATTTCGAAGAAAGGAAAATCCTTCCAAATCTGGAATG
*
296018 GAGCTTAAATTAGCA
196 GAACTTAAATTAGCA
* * * * * * * *
296033 CAGCCACTTAGCTTTAATTCTTTAAGACAAGTGGAGGTAGACAACCCGCCTCCTATCTCGCTTAA
1 CAGCCACTTAGCTTTAATTCTATAAGATAAGCGGAAGTCGACAACCAGTCTCCTATCTTGCTTAA
296098 TTCCTTACAC
Statistics
Matches: 264, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
210 264 1.00
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.30
Consensus pattern (210 bp):
CAGCCACTTAGCTTTAATTCTATAAGATAAGCGGAAGTCGACAACCAGTCTCCTATCTTGCTTAA
GTTTTGACACGAGGAAATGTGAAGCTTTTCAAGAGATGAACATCTTCCTCTTATTGGAACAATTT
CCAGTTTGCTGCACTCTGATATATCTAGATTTCGAAGAAAGGAAAATCCTTCCAAATCTGGAATG
GAACTTAAATTAGCA
Found at i:296199 original size:210 final size:210
Alignment explanation
Indices: 295613--296226 Score: 637
Period size: 210 Copynumber: 2.9 Consensus size: 210
295603 CAATTTCCAG
* * * *
295613 CAGCCACTTAGCTTTAATTCTATAAGATAAGCGGAAGTCGACAACCAGTCTCCTATCTTGCTTAA
1 CAGCCACTTAGCTTTAATTCTATAAGACAAGCGGAAGTAGACAACCAGCCTCCTATCTCGCTTAA
* ** * * *
295678 GTTTTGACACGAGGAAATGTGAAGCTTTTCAAGAGATGAACATCTTCCCCTTATTGGAACAATTT
66 GTTTTGACACGAGGAAATGTCAAAATTTTCAAGAGATGAACATATTCCTCTTATTGGAACAATTC
** * * ** * * ** * *
295743 CCAGTTTGCTGCACTTTGATATATCTAGATTTCGAAGAAAGGAAAATCCTTCCAAATCTGGAATG
131 CCAGCGTGCCGCAATCGGAAACATAGACACTTCGAAGAAAGGAAAATCCTTCCAAATCTGGAATG
295808 GAACTTAAATTAGCA
196 GAACTTAAATTAGCA
* * * *
295823 CAGCCACTTAGCTTTAATTCTATAAGATAAGCGGAAGTCGACAACCAGTCTCCTATCTTGCTTAA
1 CAGCCACTTAGCTTTAATTCTATAAGACAAGCGGAAGTAGACAACCAGCCTCCTATCTCGCTTAA
* ** * *
295888 GTTTTGACACGAGGAAATGTGAAGCTTTTCAAGAGATGAACATCTTCCTCTTATTGGAACAATTT
66 GTTTTGACACGAGGAAATGTCAAAATTTTCAAGAGATGAACATATTCCTCTTATTGGAACAATTC
** * * * * * ** * *
295953 CCAGTTTGCTGCACTCTGATATATCTAGATTTCGAAGAAAGGAAAATCCTTCCAAATCTGGAATG
131 CCAGCGTGCCGCAATCGGAAACATAGACACTTCGAAGAAAGGAAAATCCTTCCAAATCTGGAATG
*
296018 GAGCTTAAATTAGCA
196 GAACTTAAATTAGCA
* * * *
296033 CAGCCACTTAGCTTTAATTCTTTAAGACAAGTGGAGGTAGACAACCCGCCTCCTATCTCGCTTAA
1 CAGCCACTTAGCTTTAATTCTATAAGACAAGCGGAAGTAGACAACCAGCCTCCTATCTCGCTTAA
***
296098 -TTCCTT-ACACTCTGAAATG-CAAAATTCTTCAAGAGATGAACATATTCCTGC-TATTGGAACA
66 GTT--TTGACACGAGGAAATGTCAAAATT-TTCAAGAGATGAACATATTCCT-CTTATTGGAACA
* ** * *
296159 CTTCCCAAGCGT-CCGCAATCGGAAACATAGACACTTCGAAGAGCGGAAAACCCATT-CAAATTT
127 ATTCCC-AGCGTGCCGCAATCGGAAACATAGACACTTCGAAGAAAGGAAAATCC-TTCCAAATCT
296222 GGAAT
190 GGAAT
296227 TGAGAACAAA
Statistics
Matches: 363, Mismatches: 35, Indels: 12
0.89 0.09 0.03
Matches are distributed among these distances:
209 6 0.02
210 349 0.96
211 8 0.02
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.29
Consensus pattern (210 bp):
CAGCCACTTAGCTTTAATTCTATAAGACAAGCGGAAGTAGACAACCAGCCTCCTATCTCGCTTAA
GTTTTGACACGAGGAAATGTCAAAATTTTCAAGAGATGAACATATTCCTCTTATTGGAACAATTC
CCAGCGTGCCGCAATCGGAAACATAGACACTTCGAAGAAAGGAAAATCCTTCCAAATCTGGAATG
GAACTTAAATTAGCA
Found at i:300442 original size:42 final size:42
Alignment explanation
Indices: 300385--300594 Score: 393
Period size: 42 Copynumber: 5.0 Consensus size: 42
300375 GTTTTTAAGA
*
300385 AAGCTGGTGTATTTAAGAAGGTTTGGTGGAATAGTACTGTTT
1 AAGCCGGTGTATTTAAGAAGGTTTGGTGGAATAGTACTGTTT
300427 AAGCCGGTGTATTTAAGAAGGTTTGGTGGAATAGTACTGTTT
1 AAGCCGGTGTATTTAAGAAGGTTTGGTGGAATAGTACTGTTT
300469 AAGCCGGTGTATTTAAGAAGGTTTGGTGGAATAGTACTGTTT
1 AAGCCGGTGTATTTAAGAAGGTTTGGTGGAATAGTACTGTTT
300511 AAGCCGGTGTATTTAAGAAGGTTTGGTGGAATAGTACTGTTT
1 AAGCCGGTGTATTTAAGAAGGTTTGGTGGAATAGTACTGTTT
* *
300553 AAGCTGGTGTATTTAAGAAGGTTAGGTGGAATAGTACTGTTT
1 AAGCCGGTGTATTTAAGAAGGTTTGGTGGAATAGTACTGTTT
300595 TCTGATGGAT
Statistics
Matches: 165, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 165 1.00
ACGTcount: A:0.27, C:0.06, G:0.31, T:0.36
Consensus pattern (42 bp):
AAGCCGGTGTATTTAAGAAGGTTTGGTGGAATAGTACTGTTT
Found at i:304704 original size:32 final size:34
Alignment explanation
Indices: 304650--304714 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 34
304640 ATCTTTAAAT
* *
304650 AATTAAAAATCATAATTTAAAATATTATGAAACA
1 AATTAAAAATAATAATTTAAAATATTATAAAACA
304684 AATTAAAAA-AAT-ATTTAAAATATTATAAAAC
1 AATTAAAAATAATAATTTAAAATATTATAAAAC
304715 TAATAATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 18 0.62
33 2 0.07
34 9 0.31
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.32
Consensus pattern (34 bp):
AATTAAAAATAATAATTTAAAATATTATAAAACA
Found at i:305417 original size:30 final size:31
Alignment explanation
Indices: 305383--305442 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
305373 ATCATAATAT
* *
305383 AAAATATTATGAAACAAATTA-AAAATATTA
1 AAAATATTATAAAACAAATAATAAAATATTA
*
305413 AAAATATTATAAAACTAATAATAAAATATT
1 AAAATATTATAAAACAAATAATAAAATATT
305443 TAGATGNNNN
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (31 bp):
AAAATATTATAAAACAAATAATAAAATATTA
Found at i:305589 original size:13 final size:14
Alignment explanation
Indices: 305566--305599 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
305556 NNNNNNNNNN
305566 ATAAT-AAAAAATA
1 ATAATAAAAAAATA
305579 A-AATAAAAAAATA
1 ATAATAAAAAAATA
305592 ATAATAAA
1 ATAATAAA
305600 GACAAAACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 3 0.16
13 10 0.53
14 6 0.32
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
ATAATAAAAAAATA
Found at i:305657 original size:32 final size:29
Alignment explanation
Indices: 305583--305657 Score: 69
Period size: 32 Copynumber: 2.4 Consensus size: 29
305573 AAAATAAAAT
* *
305583 AAAAAAATAATAATAAAGACAAAACTTAA
1 AAAAAAATAAAAAAAAAGACAAAACTTAA
* *
305612 AAAAAGTATTAAAAAAAAAGGACAAAATTTTAA
1 AAAAA--AATAAAAAAAAA-GACAAAA-CTTAA
305645 AAAAAAAGTAAAA
1 AAAAAAA-TAAAA
305658 GGGTGTCAGG
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
29 5 0.14
31 10 0.28
32 12 0.33
33 9 0.25
ACGTcount: A:0.72, C:0.04, G:0.07, T:0.17
Consensus pattern (29 bp):
AAAAAAATAAAAAAAAAGACAAAACTTAA
Found at i:312891 original size:210 final size:209
Alignment explanation
Indices: 312245--313733 Score: 1630
Period size: 210 Copynumber: 7.2 Consensus size: 209
312235 TGTCAAGAAC
* * * * * * *
312245 TTCAAGAGATGAGCACCTTTCTGTTATTGGAACAATTTCCAGTTTGTTGCACCCAGATATA-CAT
1 TTCAAGAGATGAACATCTTCCTCTTATTGGAACAATTTCCAGTTTGCTGCACTCTGATATATC-T
** * * *
312309 A-AACTCTGAAGAGACGAAAATCCTTTCAAATCTGGAATGGAACTTAAATTAGGGCAAAG-C-CT
65 AGATTTC-GAAGA-AGGAAAATCCTTCCAAATCTGGAATGGAACTTAAATTA--GCACAGCCACT
* * * * * * * ** * * * *
312371 TATCCTCAATTCTTTGACAAAAGAGGAAATAGAAAACCCGTCTCCTACCTTGCTT-AGTTTTTCA
126 TAGCTTTAATTCTTTAAGATAAGTGGAGGTAGACAACCCATCTCCTATCTTGCTTAAG-TTTTGA
*
312435 CACTGA-AAAATGTGAAGCTT
190 CAC-GAGGAAATGTGAAGCTT
* * * * * * *
312455 TTCAAGAAAAGGAA-GTCTT-C-C-TGTTGGAATAATTTCCAGGTTG-T-CACATTTAGATATAT
1 TTCAAG-AGATGAACATCTTCCTCTTATTGGAACAATTTCCAGTTTGCTGCAC-TCT-GATATAT
* * * * * **
312514 CTAAAGTTCGAAG-A-G---A---TTCCAAATCTGGAATGGAATTTAAGTTACCACAATGGGA--
63 CTAGATTTCGAAGAAGGAAAATCCTTCCAAATCTGGAATGGAACTTAAATTAGCAC-A-GCCACT
* * * * * * *
312569 TAGCTTTAACTCTTTGAGACAAGTGGCA-ATAGGCAACCAATCTTCTATCTTGC------TTTGA
126 TAGCTTTAATTCTTTAAGATAAGTGG-AGGTAGACAACCCATCTCCTATCTTGCTTAAGTTTTGA
** *
312627 CACCCGGAAATGAGAAGCTT
190 CACGAGGAAATGTGAAGCTT
* * * * * *
312647 TTCAAGAGATGAACAT-TGTCCTCTTATCGGAACAATTTCCAGTTCGTTGCAGTTTGATAAATCT
1 TTCAAGAGATGAACATCT-TCCTCTTATTGGAACAATTTCCAGTTTGCTGCACTCTGATATATCT
* * * * * ** *
312711 AAAATTT-TAAGAGAGGAAAATCCTTCCAAATCTAGAATGGAACATAAATTAGGACAATCGCTTA
65 -AGATTTCGAAGA-AGGAAAATCCTTCCAAATCTGGAATGGAACTTAAATTAGCACAGCCACTTA
*
312775 ACTTTAATTCTTTAAGATAAGTGGAGGTAGACAACCCATCTCCTATCTTGCTTAAGTTTTGACAC
128 GCTTTAATTCTTTAAGATAAGTGGAGGTAGACAACCCATCTCCTATCTTGCTTAAGTTTTGACAC
*
312840 GAGGAAATGTGAAACTT
193 GAGGAAATGTGAAGCTT
*
312857 TTGAAGAGATGAACATCTTCCTCTTATTGGAACAATTTCCAGTTTGCTGCACTCTGATATATCTA
1 TTCAAGAGATGAACATCTTCCTCTTATTGGAACAATTTCCAGTTTGCTGCACTCTGATATATCTA
* *
312922 GATTTCGAAGAACGGAAAATCCTTCCAAATCTGGAATGAAACTTAATTTAGCACAGCCACTTAGC
66 GATTTCGAAGAA-GGAAAATCCTTCCAAATCTGGAATGGAACTTAAATTAGCACAGCCACTTAGC
* * * *
312987 TTTAATTCTATAAGATAAGCGGAAGTCGACAA-CCAGTCTCCTATCTTGCTTAAGTTTTGACACG
130 TTTAATTCTTTAAGATAAGTGGAGGTAGACAACCCA-TCTCCTATCTTGCTTAAGTTTTGACACG
313051 AGGAAATGTGAAGCTT
194 AGGAAATGTGAAGCTT
* *
313067 TTGAAGAGATGAACATCTTCCTCTTATTGGAACAATTTCCAGTTTGCTACACTCTGATATATCTA
1 TTCAAGAGATGAACATCTTCCTCTTATTGGAACAATTTCCAGTTTGCTGCACTCTGATATATCTA
313132 GATTTCGAAGAACGGAAAATCCTTCCAAATCTGGAATGGAACTTAAATTAGCACAGCCACTTAGC
66 GATTTCGAAGAA-GGAAAATCCTTCCAAATCTGGAATGGAACTTAAATTAGCACAGCCACTTAGC
* * *
313197 TTTAATTCTATAAGATAAGTGGAAGTCGACAA-CCAGTCTCCTATCTTGCTTAAGTTTTGACACG
130 TTTAATTCTTTAAGATAAGTGGAGGTAGACAACCCA-TCTCCTATCTTGCTTAAGTTTTGACACG
313261 AGGAAATGTGAAGCTT
194 AGGAAATGTGAAGCTT
* * *
313277 TTGAAGAGATGAACATCTTCCCCTTATTGGAACAATTTCCAGTTTGTTGCACTCTGATATATCTA
1 TTCAAGAGATGAACATCTTCCTCTTATTGGAACAATTTCCAGTTTGCTGCACTCTGATATATCTA
313342 GATTTCGAAGAAAGGAAAATCCTTCCAAATCTGGAATGGAACTTAAATTAGCACAGCCACTTAGC
66 GATTTCGAAG-AAGGAAAATCCTTCCAAATCTGGAATGGAACTTAAATTAGCACAGCCACTTAGC
* *
313407 TTTAATTCTTTAAGACAACTGGAGGTAGACAACCCATCTCCTATCTTGCTTAAGTTTTGACACGA
130 TTTAATTCTTTAAGATAAGTGGAGGTAGACAACCCATCTCCTATCTTGCTTAAGTTTTGACACGA
313472 GGAAATGTGAAGCTT
195 GGAAATGTGAAGCTT
313487 TTCAAGAGATGAACATCTTCCTCTTATTGGAACAATTTCCAGTTTGCTGCACTCTGATATATCTA
1 TTCAAGAGATGAACATCTTCCTCTTATTGGAACAATTTCCAGTTTGCTGCACTCTGATATATCTA
*
313552 GATTTCGAAGAAAGGAAAATCCTTCCAAATCTGGAATGGAGCTTAAATTAGCACAGCCACTTAGC
66 GATTTCGAAG-AAGGAAAATCCTTCCAAATCTGGAATGGAACTTAAATTAGCACAGCCACTTAGC
* ** *
313617 TTTAATTCTTTAAGACAAGTGGAGGTAGACAACCCGCCTCCTATCTCGCTTAA-TTCCTT-ACAC
130 TTTAATTCTTTAAGATAAGTGGAGGTAGACAACCCATCTCCTATCTTGCTTAAGTT--TTGACAC
*** * **
313680 TCTGAAATG-CAAAATT
193 GAGGAAATGTGAAGCTT
*
313696 CTTCAAGAGATGAACATATTCCTGC-TATTGGAACAATT
1 -TTCAAGAGATGAACATCTTCCT-CTTATTGGAACAATT
313734 CCCAAGCGTC
Statistics
Matches: 1110, Mismatches: 122, Indels: 94
0.84 0.09 0.07
Matches are distributed among these distances:
191 6 0.01
192 27 0.02
193 1 0.00
194 1 0.00
195 28 0.03
196 11 0.01
197 4 0.00
198 65 0.06
199 1 0.00
201 2 0.00
203 2 0.00
204 70 0.06
205 4 0.00
206 1 0.00
207 31 0.03
208 4 0.00
209 16 0.01
210 823 0.74
211 13 0.01
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (209 bp):
TTCAAGAGATGAACATCTTCCTCTTATTGGAACAATTTCCAGTTTGCTGCACTCTGATATATCTA
GATTTCGAAGAAGGAAAATCCTTCCAAATCTGGAATGGAACTTAAATTAGCACAGCCACTTAGCT
TTAATTCTTTAAGATAAGTGGAGGTAGACAACCCATCTCCTATCTTGCTTAAGTTTTGACACGAG
GAAATGTGAAGCTT
Found at i:313772 original size:210 final size:210
Alignment explanation
Indices: 312622--313669 Score: 1650
Period size: 210 Copynumber: 5.0 Consensus size: 210
312612 TCTATCTTGC
** * * *
312622 TTTGACACCCGGAAATGAGAAGCTTTTCAAGAGATGAACAT-TGTCCTCTTATCGGAACAATTTC
1 TTTGACACGAGGAAATGTGAAGCTTTTGAAGAGATGAACATCT-TCCTCTTATTGGAACAATTTC
* * * * * * * * *
312686 CAGTTCGTTGCAGTTTGATAAATCTAAAATTT-TAAGAGAGGAAAATCCTTCCAAATCTAGAATG
65 CAGTTTGCTGCACTCTGATATATCT-AGATTTCGAAGAAAGGAAAATCCTTCCAAATCTGGAATG
* * ** * * *
312750 GAACATAAATTAGGACAATCGCTTAACTTTAATTCTTTAAGATAAGTGGAGGTAGACAACCCATC
129 GAACTTAAATTAGCACAGCCACTTAGCTTTAATTCTTTAAGATAAGTGGAGGTAGACAACCCGTC
312815 TCCTATCTTGCTTAAGT
194 TCCTATCTTGCTTAAGT
*
312832 TTTGACACGAGGAAATGTGAAACTTTTGAAGAGATGAACATCTTCCTCTTATTGGAACAATTTCC
1 TTTGACACGAGGAAATGTGAAGCTTTTGAAGAGATGAACATCTTCCTCTTATTGGAACAATTTCC
* *
312897 AGTTTGCTGCACTCTGATATATCTAGATTTCGAAGAACGGAAAATCCTTCCAAATCTGGAATGAA
66 AGTTTGCTGCACTCTGATATATCTAGATTTCGAAGAAAGGAAAATCCTTCCAAATCTGGAATGGA
* * * * * *
312962 ACTTAATTTAGCACAGCCACTTAGCTTTAATTCTATAAGATAAGCGGAAGTCGACAACCAGTCTC
131 ACTTAAATTAGCACAGCCACTTAGCTTTAATTCTTTAAGATAAGTGGAGGTAGACAACCCGTCTC
313027 CTATCTTGCTTAAGT
196 CTATCTTGCTTAAGT
313042 TTTGACACGAGGAAATGTGAAGCTTTTGAAGAGATGAACATCTTCCTCTTATTGGAACAATTTCC
1 TTTGACACGAGGAAATGTGAAGCTTTTGAAGAGATGAACATCTTCCTCTTATTGGAACAATTTCC
* *
313107 AGTTTGCTACACTCTGATATATCTAGATTTCGAAGAACGGAAAATCCTTCCAAATCTGGAATGGA
66 AGTTTGCTGCACTCTGATATATCTAGATTTCGAAGAAAGGAAAATCCTTCCAAATCTGGAATGGA
* * * *
313172 ACTTAAATTAGCACAGCCACTTAGCTTTAATTCTATAAGATAAGTGGAAGTCGACAACCAGTCTC
131 ACTTAAATTAGCACAGCCACTTAGCTTTAATTCTTTAAGATAAGTGGAGGTAGACAACCCGTCTC
313237 CTATCTTGCTTAAGT
196 CTATCTTGCTTAAGT
*
313252 TTTGACACGAGGAAATGTGAAGCTTTTGAAGAGATGAACATCTTCCCCTTATTGGAACAATTTCC
1 TTTGACACGAGGAAATGTGAAGCTTTTGAAGAGATGAACATCTTCCTCTTATTGGAACAATTTCC
*
313317 AGTTTGTTGCACTCTGATATATCTAGATTTCGAAGAAAGGAAAATCCTTCCAAATCTGGAATGGA
66 AGTTTGCTGCACTCTGATATATCTAGATTTCGAAGAAAGGAAAATCCTTCCAAATCTGGAATGGA
* * *
313382 ACTTAAATTAGCACAGCCACTTAGCTTTAATTCTTTAAGACAACTGGAGGTAGACAACCCATCTC
131 ACTTAAATTAGCACAGCCACTTAGCTTTAATTCTTTAAGATAAGTGGAGGTAGACAACCCGTCTC
313447 CTATCTTGCTTAAGT
196 CTATCTTGCTTAAGT
*
313462 TTTGACACGAGGAAATGTGAAGCTTTTCAAGAGATGAACATCTTCCTCTTATTGGAACAATTTCC
1 TTTGACACGAGGAAATGTGAAGCTTTTGAAGAGATGAACATCTTCCTCTTATTGGAACAATTTCC
313527 AGTTTGCTGCACTCTGATATATCTAGATTTCGAAGAAAGGAAAATCCTTCCAAATCTGGAATGGA
66 AGTTTGCTGCACTCTGATATATCTAGATTTCGAAGAAAGGAAAATCCTTCCAAATCTGGAATGGA
* * *
313592 GCTTAAATTAGCACAGCCACTTAGCTTTAATTCTTTAAGACAAGTGGAGGTAGACAACCCGCCTC
131 ACTTAAATTAGCACAGCCACTTAGCTTTAATTCTTTAAGATAAGTGGAGGTAGACAACCCGTCTC
*
313657 CTATCTCGCTTAA
196 CTATCTTGCTTAA
313670 TTCCTTACAC
Statistics
Matches: 782, Mismatches: 54, Indels: 4
0.93 0.06 0.00
Matches are distributed among these distances:
209 5 0.01
210 776 0.99
211 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (210 bp):
TTTGACACGAGGAAATGTGAAGCTTTTGAAGAGATGAACATCTTCCTCTTATTGGAACAATTTCC
AGTTTGCTGCACTCTGATATATCTAGATTTCGAAGAAAGGAAAATCCTTCCAAATCTGGAATGGA
ACTTAAATTAGCACAGCCACTTAGCTTTAATTCTTTAAGATAAGTGGAGGTAGACAACCCGTCTC
CTATCTTGCTTAAGT
Found at i:323635 original size:210 final size:210
Alignment explanation
Indices: 323301--324919 Score: 2192
Period size: 210 Copynumber: 7.7 Consensus size: 210
323291 ATTCGAACAA
* * * *
323301 TTTCCAGATT-GTTGCAGTCTGATATATTTAAAATAT-GAAGAGAGGAAAATCCTAT-TAAATCT
1 TTTCCAG-TTCGTGGCAGTCTGATATATCTAAAAT-TCGGAGAGAGGAAAATCCT-TCCAAATCT
* * * ***** ** * *
323363 GGAATGGAATTTAAGTTACCACAATGGGATAGCTTTAACTT-TTTGAG-GTAAGTGGCGGTAGAC
63 GGAATGGAACTTAAATTAGCACAACCACTTAGCTTTAA-TTCTTCAAGACT-AGTGGAGGTAGAC
* * * * * * * * *
323426 AGCCCGTTTCCTATCTTGCTTAATTTAGGACACCAAGAAATGAGAAACTTTTCAAGAGATAAACA
126 AACCCGTCTCCTATCTTGCTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACA
* *
323491 TCTTTCTCTTATAGGAATAG
191 TCTTCCTCTTATCGGAATAG
* * * *
323511 TTTTCAGTTCGTGGCAGTTTGATATATCTAAAATTCGGAGAGAGGAAATTCCTTCTAAATCTGGA
1 TTTCCAGTTCGTGGCAGTCTGATATATCTAAAATTCGGAGAGAGGAAAATCCTTCCAAATCTGGA
* * * * * * *
323576 ATGAAATTTAAATTAGCACAACCAATTGGCTTTACTTTTTCAAGACTAGTGGAGGTAGACAACCG
66 ATGGAACTTAAATTAGCACAACCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCC
* *
323641 GTCTCCTATCTTGCTTAATTTTGGACATGA-GAAATCGTAAAGCTTTTCAAGAGATGAACATCTT
131 GTCTCCTATCTTGCTTAATTTTGGACACGAGGAAA-CGTGAAGCTTTTCAAGAGATGAACATCTT
*
323705 CCTCTTACCGGAATAG
195 CCTCTTATCGGAATAG
*
323721 TTTCCAGTTCGTGGCAGTCTGATATATTTAAAATTCGGAGAGAGGAAAATCCTAT-CAAATCTGG
1 TTTCCAGTTCGTGGCAGTCTGATATATCTAAAATTCGGAGAGAGGAAAATCCT-TCCAAATCTGG
* * *
323785 AATGGAATTTAAATTAGCACAATCATTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACC
65 AATGGAACTTAAATTAGCACAACCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACC
*
323850 CATCTCCTATCTTGCTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTT
130 CGTCTCCTATCTTGCTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTT
* * * *
323915 CCTCTAATTGGAACAA
195 CCTCTTATCGGAATAG
* * * *
323931 TTTCCAATTCGTGGCAGCCTGATATATCTAAAATTCGGAGAGAGGAAATTTCTTCCAAATCTGGA
1 TTTCCAGTTCGTGGCAGTCTGATATATCTAAAATTCGGAGAGAGGAAAATCCTTCCAAATCTGGA
* * *
323996 ATGGAACTTAAATTAGCACAACCACTTAACTTTAATTCTTCAAGAATAGTGGAGGTAGACATCCC
66 ATGGAACTTAAATTAGCACAACCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCC
324061 GTCTCCTATCTTGCTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTC
131 GTCTCCTATCTTGCTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTC
* *
324126 CTCTTATCAGAACAG
196 CTCTTATCGGAATAG
* *
324141 TTTCCAATTCGTGGCAGTCTGATATATCTAAAATTTGGAGAGAGGAAAATCCTTCCAAATCTGGA
1 TTTCCAGTTCGTGGCAGTCTGATATATCTAAAATTCGGAGAGAGGAAAATCCTTCCAAATCTGGA
* * * *
324206 ATGGAACTTAAATTAGAACAACCGCTTAGCTTTAATTCTTCAAGAATAGTGGAGGTAGACATCCC
66 ATGGAACTTAAATTAGCACAACCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCC
324271 GTCTCCTATCTTGCTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTC
131 GTCTCCTATCTTGCTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTC
*
324336 CT-TCTATCGGAACAG
196 CTCT-TATCGGAATAG
* * *
324351 TTTCCAGCTCGTGACAGTCTAATATATCTAAAATTCGGAGAGAGGAAAATCCTTCCAAATCTGGA
1 TTTCCAGTTCGTGGCAGTCTGATATATCTAAAATTCGGAGAGAGGAAAATCCTTCCAAATCTGGA
* *
324416 ATGGAACTGAAATTAGAACAACCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCC
66 ATGGAACTTAAATTAGCACAACCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCC
* * * * * *
324481 ATCTCCAATCTTGCTTAATTTTGGACACAAGGAAACATGAAGCTTTTTAAGAGATGAATATCTTC
131 GTCTCCTATCTTGCTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTC
324546 CTCTTATCGGAATAG
196 CTCTTATCGGAATAG
* * * * * * *
324561 TTTCTAGTTTGTGGCAGTTTAATATATCTAAAATTAGGAGAGAAGAAAATCCTACCAAATCTGGA
1 TTTCCAGTTCGTGGCAGTCTGATATATCTAAAATTCGGAGAGAGGAAAATCCTTCCAAATCTGGA
* * *
324626 ATGGAACTTAAATTAGCACAACCACCTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAGCCA
66 ATGGAACTTAAATTAGCACAACCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCC
* * * * *
324691 GTCTCCGATCTTGCATAATTTTGGACATGAGGAAATGTGAAGCTTTTCAAGAGATGGACATCTTC
131 GTCTCCTATCTTGCTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTC
324756 CTCTTATCGGAATAG
196 CTCTTATCGGAATAG
*
324771 TTTCCAGTTCGTGGCAGTCTGATATATCTAAAATTCGGAGAGAGGAAAATTCTTCCAAATCTGGA
1 TTTCCAGTTCGTGGCAGTCTGATATATCTAAAATTCGGAGAGAGGAAAATCCTTCCAAATCTGGA
* * * * * * *
324836 ATGAAACTTAATTTGGCACAATCACTTAGCTTTAATTCTGCAAGACAAATGGAGGTAGACAACCC
66 ATGGAACTTAAATTAGCACAACCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCC
* *
324901 CTCTCCAATCTTGCTTAAT
131 GTCTCCTATCTTGCTTAAT
324920 CCATTGCACT
Statistics
Matches: 1260, Mismatches: 138, Indels: 22
0.89 0.10 0.02
Matches are distributed among these distances:
209 12 0.01
210 1241 0.98
211 7 0.01
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.31
Consensus pattern (210 bp):
TTTCCAGTTCGTGGCAGTCTGATATATCTAAAATTCGGAGAGAGGAAAATCCTTCCAAATCTGGA
ATGGAACTTAAATTAGCACAACCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCC
GTCTCCTATCTTGCTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTC
CTCTTATCGGAATAG
Found at i:325209 original size:630 final size:627
Alignment explanation
Indices: 323413--325209 Score: 1625
Period size: 630 Copynumber: 2.9 Consensus size: 627
323403 TTTTGAGGTA
* * * * * * * * * * *
323413 AGTGGCGGTAGACAGCCCGTTTCCTATCTTGCTTAATTTAGGACACCAAGAAATGAGAAACTTTT
1 AGTGGAGGTAGACAGCCAGTCTCCGATCTTGCATAATTTTGGACACGAGGAAACGTGAAGCTTTT
* * * * * *
323478 CAAGAGATAAACATCTTTCTCTTAT-AGGAATAGTTTTCAGTTCGTGGCAGTTTGATATATCTAA
66 CAAGAGATGAACATCTTCCTCTTATCA-GAACAGTTTCCAATTCGTGGCAGTCTGATATATCTAA
* * * * * *
323542 AATTCGGAGAGAGGAAATTCCTTCTAAATCTGGAATGAAATTTAAATTAGCACAACCAATTGGCT
130 AATTCGGAGAGAGGAAAATCCTTCCAAATCTGGAATGAAACTTAAATTAGAACAACCACTTAGCT
* * * * * ** * * *
323607 TTACTTTTTCAAGACTAGTGGAGGTAGACAACCGGTCTCCTATCTTGCTTAATTTTGGACATGA-
195 TTAATTCTGCAAGAATAATGGAGGTAGACAACCCCTCTCCAATCTTGCTTAATATTGGACACGAG
* * * * * * * *
323671 GAAA-TCGTAAAGCTTTTCAAGAGATGAACATCTTCCT-CTTACCGGAATAGTTTCCAGTTCGTG
260 GAAACT-G-AAA-ATTTTCAAGAGATGAACATATTCCTGC-TATCGGAAAAATTCCCAGCTCGCG
* * * * * ** * * **
323734 GCAGTCTGATATATTTAAAATTCGGAGAGAGGAAAATCCTAT-CAAATCTGGAATGGAATTTAAA
321 ACAATCTAAAACATAGAAAATTCGAAGAGAGGAAAAGCCT-TCCAAATCTGGAATGGAA-CGAAA
* * * * * * * *
323798 TTAGC-ACAATCATTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCCATCTCCTATCT
384 TTA-CAACAACCACTTAGC-TCAACTCCTCAAGACTAGTGGAAGTAGACAACCCATCCCCAATCT
** * * * * * * **
323862 TGCTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTCCTCTAATTGGA
447 TGCTTAATCGTGGACACAAGCAAACATGAAGCTTTTTAAGAGATAAACATCTTCCTCTCAGCGGA
* ** * ** * * * * * *
323927 ACAATTTCCAATTCGTGGCAGCCTGATATATCTAAAATTCGGAGAGAGGAAATTTCTTCCAAATC
512 ACACTTTCCAATAAGGGGCAGTTTAATATATCTAAAATTAGGAGAGAAGAAAATCCTACCAAATC
*
323992 TGGAATGGAACTTAAATTAGCACAACCACTTAACTTTAATTCTTCAAGAAT
577 TGGAATGGAACTTAAATTAGCACAACCACCTAACTTTAATTCTTCAAGAAT
* * * *
324043 AGTGGAGGTAGACATCCCGTCTCCTATCTTGCTTAATTTTGGACACGAGGAAACGTGAAGCTTTT
1 AGTGGAGGTAGACAGCCAGTCTCCGATCTTGCATAATTTTGGACACGAGGAAACGTGAAGCTTTT
324108 CAAGAGATGAACATCTTCCTCTTATCAGAACAGTTTCCAATTCGTGGCAGTCTGATATATCTAAA
66 CAAGAGATGAACATCTTCCTCTTATCAGAACAGTTTCCAATTCGTGGCAGTCTGATATATCTAAA
* * *
324173 ATTTGGAGAGAGGAAAATCCTTCCAAATCTGGAATGGAACTTAAATTAGAACAACCGCTTAGCTT
131 ATTCGGAGAGAGGAAAATCCTTCCAAATCTGGAATGAAACTTAAATTAGAACAACCACTTAGCTT
* * * * * *
324238 TAATTCTTCAAGAATAGTGGAGGTAGACATCCCGTCTCCTATCTTGCTTAATTTTGGACACGAGG
196 TAATTCTGCAAGAATAATGGAGGTAGACAACCCCTCTCCAATCTTGCTTAATATTGGACACGAGG
** * * * * * * *
324303 AAACGTGAAGCTTTTCAAGAGATGAACATCTTCCTTCTATCGGAACAGTTTCCAGCTCGTGACAG
261 AAAC-TGAAAATTTTCAAGAGATGAACATATTCCTGCTATCGGAAAAATTCCCAGCTCGCGACAA
* * ** * * *
324368 TCTAATATATCTAAAATTCGGAGAGAGGAAAATCCTTCCAAATCTGGAATGGAACTGAAATTAGA
325 TCTAAAACATAGAAAATTCGAAGAGAGGAAAAGCCTTCCAAATCTGGAATGGAAC-GAAATTACA
* * * * *
324433 ACAACCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCCATCTCCAATCTTGCTTA
389 ACAACCACTTAGC-TCAACTCCTCAAGACTAGTGGAAGTAGACAACCCATCCCCAATCTTGCTTA
** * * * * * * *
324498 ATTTTGGACACAAGGAAACATGAAGCTTTTTAAGAGATGAATATCTTCCTCTTATCGGAATAGTT
453 ATCGTGGACACAAGCAAACATGAAGCTTTTTAAGAGATAAACATCTTCCTCTCAGCGGAACACTT
* * ** *
324563 TCTAGTTTGTGGCAGTTTAATATATCTAAAATTAGGAGAGAAGAAAATCCTACCAAATCTGGAAT
518 TCCAATAAGGGGCAGTTTAATATATCTAAAATTAGGAGAGAAGAAAATCCTACCAAATCTGGAAT
* *
324628 GGAACTTAAATTAGCACAACCACCTAGCTTTAATTCTTCAAGACT
583 GGAACTTAAATTAGCACAACCACCTAACTTTAATTCTTCAAGAAT
* *
324673 AGTGGAGGTAGACAGCCAGTCTCCGATCTTGCATAATTTTGGACATGAGGAAATGTGAAGCTTTT
1 AGTGGAGGTAGACAGCCAGTCTCCGATCTTGCATAATTTTGGACACGAGGAAACGTGAAGCTTTT
* * * *
324738 CAAGAGATGGACATCTTCCTCTTATCGGAATAGTTTCCAGTTCGTGGCAGTCTGATATATCTAAA
66 CAAGAGATGAACATCTTCCTCTTATCAGAACAGTTTCCAATTCGTGGCAGTCTGATATATCTAAA
* * * * *
324803 ATTCGGAGAGAGGAAAATTCTTCCAAATCTGGAATGAAACTTAATTTGGCACAATCACTTAGCTT
131 ATTCGGAGAGAGGAAAATCCTTCCAAATCTGGAATGAAACTTAAATTAGAACAACCACTTAGCTT
324868 TAATTCTGCAAGACA-AATGGAGGTAGACAACCCCTCTCCAATCTTGCTTAATCCATT-G-CACT
196 TAATTCTGCAAGA-ATAATGGAGGTAGACAACCCCTCTCCAATCTTGCTTAAT--ATTGGACAC-
* * *
324930 TA-GAAA-TGCAAAATTCTTTAAGAGATGAACATATTCCTGCTATTGGAAAAATTCCCAAGCTTC
257 GAGGAAACTG-AAAATT-TTCAAGAGATGAACATATTCCTGCTATCGGAAAAATTCCC-AGC-TC
* * * * *
324993 -CG-CAATC-AGAAACATAGACACTTCGAAGAGCGGAAAAGCCATT-TAAATTTGGAATTGAGAA
318 GCGACAATCTA-AAACATAGAAAATTCGAAGAGAGGAAAAGCC-TTCCAAATCTGGAA-TG-GAA
* * * **
325054 C-AAATCT-CCAC-ACTTCACTATAG-TCAGCTCCTCAAGAAC-CGTGGAAGTAG-CTAGTCCAT
379 CGAAAT-TACAACAAC--CACT-TAGCTCAACTCCTCAAG-ACTAGTGGAAGTAGAC-AACCCAT
* *
325113 CCCCGATAC-TGCTTAATCGT-GA-ACAATCCTCAATACA-G-AGCTTTTTAAGAGATAAACAT-
438 CCCCAAT-CTTGCTTAATCGTGGACACAA---GCAA-ACATGAAGCTTTTTAAGAGATAAACATC
*
325172 TGTCC-CGTCAGGGGAACACTTTCCAATAAGGGGCAGTT
498 T-TCCTC-TCAGCGGAACACTTTCCAATAAGGGGCAGTT
325210 AGAAACAAGC
Statistics
Matches: 994, Mismatches: 140, Indels: 66
0.83 0.12 0.05
Matches are distributed among these distances:
628 6 0.01
629 13 0.01
630 929 0.93
631 30 0.03
632 15 0.02
633 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (627 bp):
AGTGGAGGTAGACAGCCAGTCTCCGATCTTGCATAATTTTGGACACGAGGAAACGTGAAGCTTTT
CAAGAGATGAACATCTTCCTCTTATCAGAACAGTTTCCAATTCGTGGCAGTCTGATATATCTAAA
ATTCGGAGAGAGGAAAATCCTTCCAAATCTGGAATGAAACTTAAATTAGAACAACCACTTAGCTT
TAATTCTGCAAGAATAATGGAGGTAGACAACCCCTCTCCAATCTTGCTTAATATTGGACACGAGG
AAACTGAAAATTTTCAAGAGATGAACATATTCCTGCTATCGGAAAAATTCCCAGCTCGCGACAAT
CTAAAACATAGAAAATTCGAAGAGAGGAAAAGCCTTCCAAATCTGGAATGGAACGAAATTACAAC
AACCACTTAGCTCAACTCCTCAAGACTAGTGGAAGTAGACAACCCATCCCCAATCTTGCTTAATC
GTGGACACAAGCAAACATGAAGCTTTTTAAGAGATAAACATCTTCCTCTCAGCGGAACACTTTCC
AATAAGGGGCAGTTTAATATATCTAAAATTAGGAGAGAAGAAAATCCTACCAAATCTGGAATGGA
ACTTAAATTAGCACAACCACCTAACTTTAATTCTTCAAGAAT
Found at i:328538 original size:43 final size:42
Alignment explanation
Indices: 328477--328719 Score: 288
Period size: 43 Copynumber: 5.7 Consensus size: 42
328467 GCGCTTTGTT
* *
328477 GCTAAAGACCAAGACCTTTAACGGCGCTTCTCTCACAAACGCC
1 GCTAAAGACCAAGACCTTTAGCGGCGCTT-TCCCACAAACGCC
*
328520 GCTAAAGACCAATACCTTTAGCGGCGCTTTACCCACAAACGCC
1 GCTAAAGACCAAGACCTTTAGCGGCGCTTT-CCCACAAACGCC
* * *
328563 GCTAAAGACCAAGACCTTTAACGACGCTTTCCCACAAACGCT
1 GCTAAAGACCAAGACCTTTAGCGGCGCTTTCCCACAAACGCC
* * * * *
328605 GCTAAAGATCACGACTTTTTGCGGCGCTTTTCCCACGAACGCC
1 GCTAAAGACCAAGACCTTTAGCGGCGC-TTTCCCACAAACGCC
* ** *
328648 GCTAAAGACCAAGACCTTTAGCAGCGCTTTTATCACAAACGCT
1 GCTAAAGACCAAGACCTTTAGCGGCGC-TTTCCCACAAACGCC
* **
328691 GCTACAGACCATCACCTTTAGCGGCGCTT
1 GCTAAAGACCAAGACCTTTAGCGGCGCTT
328720 CTAGCGAAAA
Statistics
Matches: 170, Mismatches: 28, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
42 35 0.21
43 135 0.79
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.21
Consensus pattern (42 bp):
GCTAAAGACCAAGACCTTTAGCGGCGCTTTCCCACAAACGCC
Found at i:328736 original size:86 final size:85
Alignment explanation
Indices: 328477--328739 Score: 327
Period size: 86 Copynumber: 3.1 Consensus size: 85
328467 GCGCTTTGTT
* *
328477 GCTAAAGACCAAGACCTTTAACGGCGCTTCTCTCACAAACGCCGCTAAAGACCAAT-ACCTTTAG
1 GCTAAAGACCAAGACCTTTAAC-GCGCTTTTCTCACAAACGCTGCTAAAGACC-ATCACCTTTAG
328541 CGGCGCTTTACCCACAAACGCC
64 CGGCGCTTTACCCACAAACGCC
* * * *
328563 GCTAAAGACCAAGACCTTTAACGACGC-TTTCCCACAAACGCTGCTAAAGATCA-CGACTTTTTG
1 GCTAAAGACCAAGACCTTTAACG-CGCTTTTCTCACAAACGCTGCTAAAGACCATC-ACCTTTAG
* *
328626 CGGCGCTTTTCCCACGAACGCC
64 CGGCGCTTTACCCACAAACGCC
* * *
328648 GCTAAAGACCAAGACCTTTAGCAGCGCTTTTATCACAAACGCTGCTACAGACCATCACCTTTAGC
1 GCTAAAGACCAAGACCTTTAAC-GCGCTTTTCTCACAAACGCTGCTAAAGACCATCACCTTTAGC
* *
328713 GGCGCTTCTAGCGA-AAACGCC
65 GGCGCTT-TACCCACAAACGCC
328734 GCTAAA
1 GCTAAA
328740 AACATAAACT
Statistics
Matches: 151, Mismatches: 19, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
84 1 0.01
85 72 0.48
86 74 0.49
87 4 0.03
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (85 bp):
GCTAAAGACCAAGACCTTTAACGCGCTTTTCTCACAAACGCTGCTAAAGACCATCACCTTTAGCG
GCGCTTTACCCACAAACGCC
Found at i:330160 original size:16 final size:16
Alignment explanation
Indices: 330139--330175 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
330129 TTTTTTGTAT
330139 AAAGTGCATGCCTTAA
1 AAAGTGCATGCCTTAA
330155 AAAGTGCATGCCTTAA
1 AAAGTGCATGCCTTAA
330171 AAAGT
1 AAAGT
330176 AATTTAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.24
Consensus pattern (16 bp):
AAAGTGCATGCCTTAA
Found at i:331640 original size:41 final size:43
Alignment explanation
Indices: 331584--331664 Score: 112
Period size: 41 Copynumber: 1.9 Consensus size: 43
331574 TTAAAAAAAT
* * *
331584 TATTTTAAAAATAAAAA-AATAA-AAAAAATTTATTTTTAAAG
1 TATTTTAAAAATAAAAATAAAAACAAAAAATATATATTTAAAG
*
331625 TATTTTAAAATTAAAAATAAAAACAAAAAATATATATTTA
1 TATTTTAAAAATAAAAATAAAAACAAAAAATATATATTTA
331665 TTATATTCGG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 16 0.47
42 4 0.12
43 14 0.41
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (43 bp):
TATTTTAAAAATAAAAATAAAAACAAAAAATATATATTTAAAG
Found at i:333244 original size:14 final size:14
Alignment explanation
Indices: 333227--333266 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
333217 CCCTAAATCA
333227 CTAACCACAAACCC
1 CTAACCACAAACCC
* *
333241 CTAACCTCTAACCC
1 CTAACCACAAACCC
333255 CTAACCACAAAC
1 CTAACCACAAAC
333267 ATTTAACCCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.40, C:0.47, G:0.00, T:0.12
Consensus pattern (14 bp):
CTAACCACAAACCC
Found at i:333470 original size:14 final size:14
Alignment explanation
Indices: 333441--333505 Score: 69
Period size: 14 Copynumber: 4.6 Consensus size: 14
333431 CGAATCCATA
*
333441 AACCCTAAATCCCT
1 AACCCTTAATCCCT
* *
333455 AACTCTTAATCTCT
1 AACCCTTAATCCCT
333469 AACCCTTAATCCCT
1 AACCCTTAATCCCT
* *
333483 AACCCCTAAATCAC-
1 AA-CCCTTAATCCCT
333497 AACCCTTAA
1 AACCCTTAA
333506 ACCAAAACCC
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
13 6 0.14
14 27 0.64
15 9 0.21
ACGTcount: A:0.35, C:0.38, G:0.00, T:0.26
Consensus pattern (14 bp):
AACCCTTAATCCCT
Found at i:333500 original size:28 final size:29
Alignment explanation
Indices: 333441--333519 Score: 81
Period size: 28 Copynumber: 2.8 Consensus size: 29
333431 CGAATCCATA
* * * *
333441 AACCCTAAATCCCTAA-CTCTTAATCTCT
1 AACCCTTAATCCCTAACCCCTAAATCACT
333469 AACCCTTAATCCCTAACCCCTAAATCAC-
1 AACCCTTAATCCCTAACCCCTAAATCACT
* **
333497 AACCCTTAAACCAAAACCCCTAA
1 AACCCTTAATCCCTAACCCCTAA
333520 TCCATAGTCC
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 35 0.81
29 8 0.19
ACGTcount: A:0.38, C:0.39, G:0.00, T:0.23
Consensus pattern (29 bp):
AACCCTTAATCCCTAACCCCTAAATCACT
Found at i:333637 original size:14 final size:14
Alignment explanation
Indices: 333592--333629 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
333582 ATCCTAAATT
333592 AACCATATATCCTA
1 AACCATATATCCTA
*
333606 AACCATATACCCTA
1 AACCATATATCCTA
333620 AACCATATAT
1 AACCATATAT
333630 ATTAAACCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.26
Consensus pattern (14 bp):
AACCATATATCCTA
Found at i:333976 original size:41 final size:40
Alignment explanation
Indices: 333918--334114 Score: 261
Period size: 41 Copynumber: 4.8 Consensus size: 40
333908 AAATGTTTTT
* * *
333918 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCAAGAGCATTA
1 GCGGCGC-TTTTAAAAAACGCCGCTAAAGCCCAGAGAATTA
*
333959 GCGGCGCTTTATAAAAAACGCCGCTAAAGCCCAGAGCATTA
1 GCGGCGCTTT-TAAAAAACGCCGCTAAAGCCCAGAGAATTA
*
334000 GCGGCGC-TTTACGAAAAACGCCACTAAAGCCCAGAGAATTA
1 GCGGCGCTTTTA--AAAAACGCCGCTAAAGCCCAGAGAATTA
* *
334041 GCGGCGCTTTTACAAAAATGCCGCTAAATCCCAGAGAATTA
1 GCGGCGCTTTTA-AAAAACGCCGCTAAAGCCCAGAGAATTA
334082 GCGGCGCTTTTCCAAAAAACGCCGCTAAAGCCC
1 GCGGCGCTTTT--AAAAAACGCCGCTAAAGCCC
334115 CGAATGGTCT
Statistics
Matches: 140, Mismatches: 10, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
39 2 0.01
40 5 0.04
41 111 0.79
42 21 0.15
43 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.21, T:0.18
Consensus pattern (40 bp):
GCGGCGCTTTTAAAAAACGCCGCTAAAGCCCAGAGAATTA
Found at i:340503 original size:210 final size:210
Alignment explanation
Indices: 340181--341786 Score: 2182
Period size: 210 Copynumber: 7.6 Consensus size: 210
340171 CCAGATTGTT
* * * * * * *
340181 GCAGTTTGATATATTTAAAATAT-GAAGAGAGGAAAATCCTACTAAATCTGGAATGGAATTTAAG
1 GCAGTCTGATATATCTAAAAT-TCGGAGAGAGGAAAATCCTTCCAAATCTGGAATGGAACTTAAA
* ***** * ** * * **
340245 TTACCACAATGGGATAGTTTTAACTT-TTTGAGGCAAGTGGCTGTAGACAACCCATCTCCTATCT
65 TTAGCACAACCACTTAGCTTTAA-TTCTTCAAGACTAGTGGAGGTAGACAACCCATCTCCTATCT
* * * * * * **
340309 TGCTTAATTTAGGACACCAGGAAATGAGAAGCTTCTCAAGAGATGGACATCTTCCTCTTATCAAA
129 TGCTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTCCTCTTATCGGA
*
340374 ACAGTTTTCAGTTCATG
194 ACAGTTTTCAGTTCGTG
* * *
340391 ACAGTTTGATATATCTAAAATTCGTAGAGAGGAAAATCCTTCCAAATCTGGAATGGAACTTAAAT
1 GCAGTCTGATATATCTAAAATTCGGAGAGAGGAAAATCCTTCCAAATCTGGAATGGAACTTAAAT
* * *
340456 TAGCACAACCAATTAGCTTTACTTTTTCAAGACTAGTGGAGGTAGACAA-CCAGTCTCCTATCTT
66 TAGCACAACCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCCA-TCTCCTATCTT
* * * * *
340520 GCTTAATTTTGGACACGAGAAAATGTAAAGCTTTTCAAGAGATGAACATATTCCTCTTACCGGAA
130 GCTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTCCTCTTATCGGAA
* *
340585 TAGTTTCCAGTTCGTG
195 CAGTTTTCAGTTCGTG
* ** *
340601 GCAGTCTGATATATTTAAAATTTAGAGAGAGGAAAATCCTACCAAATCTGGAATGGAACTTAAAT
1 GCAGTCTGATATATCTAAAATTCGGAGAGAGGAAAATCCTTCCAAATCTGGAATGGAACTTAAAT
*
340666 TAGAACAACCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCCATCTCCTATCTTG
66 TAGCACAACCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCCATCTCCTATCTTG
*
340731 CTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTCCTCTAATCGGAAC
131 CTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTCCTCTTATCGGAAC
* *
340796 AATTTTCAATTCGTG
196 AGTTTTCAGTTCGTG
* * *
340811 GCAGTCTGATATATCTAAAATTCGGAGAGAGGAAATTTCTTCCAAATCTGGAATGAAACTTAAAT
1 GCAGTCTGATATATCTAAAATTCGGAGAGAGGAAAATCCTTCCAAATCTGGAATGGAACTTAAAT
* * * *
340876 TAGCACAACCACTTAACTTTAATTCTTCAAGAATAGTGGAGGTAGACAGCCCGTCTCCTATCTTG
66 TAGCACAACCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCCATCTCCTATCTTG
340941 CTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTCCTCTTATCGGAAC
131 CTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTCCTCTTATCGGAAC
* * *
341006 AATTTCCAATTCGTG
196 AGTTTTCAGTTCGTG
*
341021 GCAGTCTGATATATCTAAAATTTGGAGAGAGGAAAATCCTTCCAAATCTGGAATGGAACTTAAAT
1 GCAGTCTGATATATCTAAAATTCGGAGAGAGGAAAATCCTTCCAAATCTGGAATGGAACTTAAAT
* * * *
341086 TAGAACAACCACTTAGCTTTAATTCTTCAAGAATAGTGGAGGTAGATAACCCGTCTCCTATCTTG
66 TAGCACAACCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCCATCTCCTATCTTG
341151 CTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTCCT-TCTATCGGAA
131 CTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTCCTCT-TATCGGAA
* *
341215 CAGTTTCCAGCTCGTG
195 CAGTTTTCAGTTCGTG
* *
341231 GCAGTCTAATATATCTAAAATTCGGAGAGAGGAAAATCCTTCCAAATCTGGAATGAAACTTAAAT
1 GCAGTCTGATATATCTAAAATTCGGAGAGAGGAAAATCCTTCCAAATCTGGAATGGAACTTAAAT
* * *
341296 TAGAACAACCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCCGTCTCCAATCTTG
66 TAGCACAACCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCCATCTCCTATCTTG
* * * * *
341361 CTTAATTTTGGACACAAGGAAACATGAAGCTTTTTAAGAGATGTATATCTTCCTCTTATCGGAAC
131 CTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTCCTCTTATCGGAAC
341426 AG-TTTCTAGTTCGTG
196 AGTTTTC-AGTTCGTG
* * * *
341441 GCAATCTAATATATCTAAAATTCGGAGAGAGAAAAATCCTACCAAATCTGGAATGGAACTTAAAT
1 GCAGTCTGATATATCTAAAATTCGGAGAGAGGAAAATCCTTCCAAATCTGGAATGGAACTTAAAT
* * *
341506 TAGCACAACCACCTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGAC-AGCCAGTCTCCGATCTT
66 TAGCACAACCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCCA-TCTCCTATCTT
* * * *
341570 GCTTAATTTTGGACATGAGGAAATGTGAAGCTTTTCAAGAGATGGACATCTTCCTCTTATCGTAA
130 GCTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTCCTCTTATCGGAA
* *
341635 TAG-TTTCTAGTTTGTG
195 CAGTTTTC-AGTTCGTG
* * * * *
341651 GCAATCTGATATATCTAAAATACGGAGAGAGGAAAATTCTTCCAAATCTGGAATGAAACTTAATT
1 GCAGTCTGATATATCTAAAATTCGGAGAGAGGAAAATCCTTCCAAATCTGGAATGGAACTTAAAT
* * * * * * *
341716 TGGCACAATCACTTAGCTTTAATTCTTCAAGACAAATGGAGGTAGATAACCCCTCTCCAATCTTG
66 TAGCACAACCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCCATCTCCTATCTTG
341781 CTTAAT
131 CTTAAT
341787 CCATTGCACT
Statistics
Matches: 1258, Mismatches: 129, Indels: 18
0.90 0.09 0.01
Matches are distributed among these distances:
209 13 0.01
210 1238 0.98
211 7 0.01
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.30
Consensus pattern (210 bp):
GCAGTCTGATATATCTAAAATTCGGAGAGAGGAAAATCCTTCCAAATCTGGAATGGAACTTAAAT
TAGCACAACCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCCATCTCCTATCTTG
CTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTCCTCTTATCGGAAC
AGTTTTCAGTTCGTG
Found at i:342620 original size:210 final size:210
Alignment explanation
Indices: 342244--342918 Score: 1017
Period size: 210 Copynumber: 3.2 Consensus size: 210
342234 AGGAAACACC
* *
342244 TCAAGACTAGTGGAGGTAGACAACCAGTCTCCTATCTCGCTTAATTTTGGACATGAGGAAATGTG
1 TCAAGACTAGTGGAGGTAGACAACCAGTCTCCAATCTTGCTTAATTTTGGACATGAGGAAATGTG
* * * *
342309 AAGCTTTCTAAGAGATGGACATCTTCCTTTTATCGGAATAGTTTCCAGTTTGTGGCACTCTGATA
66 AAGCTTTTTAAGAGATGGACATCTTCCTCTTATCGGAATAGTTTCCAGTTCGTGGCAGTCTGATA
* * * * *
342374 TATCTAAAATTCGGAGAGAGGAAAATCCTACCAAATCCGGAATGGAAGTTAAATTAGCACAACCA
131 TATCTAAAATTCGGAGAGAGGAAAATTCTTCCAAATCTGGAATGGAACTTAAATTAGCACAATCA
*
342439 CCTAGCTTTAATTCT
196 CTTAGCTTTAATTCT
*
342454 TCAAGACTAGTGGAGGTAGACAACCAGTCTCCTATCTTGCTTAATTTTGGACATGAGGAAATGTG
1 TCAAGACTAGTGGAGGTAGACAACCAGTCTCCAATCTTGCTTAATTTTGGACATGAGGAAATGTG
*
342519 AAGCTTTTTAAGAGATGGACATCTTCCTCTTATCGAAATAGTTTCCAGTTCGTGGCAGTCTGATA
66 AAGCTTTTTAAGAGATGGACATCTTCCTCTTATCGGAATAGTTTCCAGTTCGTGGCAGTCTGATA
* * *
342584 TATCAAAAATTCGCAGAGAGGACAATTCTTCCAAATCTGGAATGGAACTTAAATTAGCACAATCA
131 TATCTAAAATTCGGAGAGAGGAAAATTCTTCCAAATCTGGAATGGAACTTAAATTAGCACAATCA
* *
342649 TTTAGCTTTAAGTCT
196 CTTAGCTTTAATTCT
* * * *
342664 TCAAGACTAGTGGAGGTAGACAACCCGTCTCCAATCTTGCTTAATTTAGGACACGAGGAAATGAG
1 TCAAGACTAGTGGAGGTAGACAACCAGTCTCCAATCTTGCTTAATTTTGGACATGAGGAAATGTG
* * * * * * *
342729 AATCTTTTTAAGAGATGGACATCTTCCTCTTATCGGAACAATTTTCAATTCGCGGCAGTTTGATA
66 AAGCTTTTTAAGAGATGGACATCTTCCTCTTATCGGAATAGTTTCCAGTTCGTGGCAGTCTGATA
*
342794 TATCTAAAATTCGGAGAGAGGAAAATTCTTCCAAATCTGGAATGGAACTTAATTTAGCACAATCA
131 TATCTAAAATTCGGAGAGAGGAAAATTCTTCCAAATCTGGAATGGAACTTAAATTAGCACAATCA
342859 CTTAGCTTTAATTCT
196 CTTAGCTTTAATTCT
* * * * **
342874 GCAAGACAAATGGAGGTTGACAACCCCTCTCCAATCTTGCTTAAT
1 TCAAGACTAGTGGAGGTAGACAACCAGTCTCCAATCTTGCTTAAT
342919 CCATTGCACT
Statistics
Matches: 424, Mismatches: 41, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
210 424 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (210 bp):
TCAAGACTAGTGGAGGTAGACAACCAGTCTCCAATCTTGCTTAATTTTGGACATGAGGAAATGTG
AAGCTTTTTAAGAGATGGACATCTTCCTCTTATCGGAATAGTTTCCAGTTCGTGGCAGTCTGATA
TATCTAAAATTCGGAGAGAGGAAAATTCTTCCAAATCTGGAATGGAACTTAAATTAGCACAATCA
CTTAGCTTTAATTCT
Found at i:347968 original size:13 final size:13
Alignment explanation
Indices: 347950--347976 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
347940 AAAGAATCAT
347950 AAAAATTTTCAAA
1 AAAAATTTTCAAA
347963 AAAAATTTTCAAA
1 AAAAATTTTCAAA
347976 A
1 A
347977 TTGATTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAAATTTTCAAA
Found at i:348383 original size:5 final size:5
Alignment explanation
Indices: 348373--348397 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
348363 TATTCATCTT
348373 CCTCC CCTCC CCTCC CCTCC CCTCC
1 CCTCC CCTCC CCTCC CCTCC CCTCC
348398 TCTATTTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.80, G:0.00, T:0.20
Consensus pattern (5 bp):
CCTCC
Found at i:355661 original size:5 final size:5
Alignment explanation
Indices: 355653--355681 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
355643 TTTGTATTGT
355653 ATGTC ATGTC ATGTC ATGTC ATGTC ATGT
1 ATGTC ATGTC ATGTC ATGTC ATGTC ATGT
355682 AGATCTAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.41
Consensus pattern (5 bp):
ATGTC
Found at i:363155 original size:32 final size:31
Alignment explanation
Indices: 363094--363157 Score: 76
Period size: 34 Copynumber: 2.0 Consensus size: 31
363084 ACTCGTCCCG
363094 AAAAAACAAAACTATACCAACTCAGTCCAGTCC
1 AAAAAACAAAACTATACCAACT-A-TCCAGTCC
*
363127 AAAAAATCAAAGCTATACTCAACT-TCCAGTC
1 AAAAAA-CAAAACTATAC-CAACTATCCAGTC
363158 ATCTCTAATC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
32 7 0.25
33 6 0.21
34 10 0.36
35 5 0.18
ACGTcount: A:0.47, C:0.28, G:0.06, T:0.19
Consensus pattern (31 bp):
AAAAAACAAAACTATACCAACTATCCAGTCC
Found at i:368448 original size:31 final size:31
Alignment explanation
Indices: 368413--368474 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
368403 TGAGTTAATC
*
368413 AAGTTATTCGGACTAATTCGAATAAAAATTT
1 AAGTTATTCGGACTAACTCGAATAAAAATTT
* ** *
368444 AAGTTTTTCGGTTTAACTCGAATATAAATTT
1 AAGTTATTCGGACTAACTCGAATAAAAATTT
368475 TACAATTTGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (31 bp):
AAGTTATTCGGACTAACTCGAATAAAAATTT
Found at i:371003 original size:33 final size:34
Alignment explanation
Indices: 370961--371025 Score: 89
Period size: 33 Copynumber: 1.9 Consensus size: 34
370951 TGATTTCGAA
*
370961 GATGATGAAACT-ACTGCAACTCGACTT-TTCAGC
1 GATGATGAAA-TAAATGCAACTCGACTTATTCAGC
*
370994 GATGATGAAATAAATGCAACTCGTCTTATTCA
1 GATGATGAAATAAATGCAACTCGACTTATTCA
371026 AGGAATTTGC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 1 0.04
33 23 0.82
34 4 0.14
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (34 bp):
GATGATGAAATAAATGCAACTCGACTTATTCAGC
Found at i:378980 original size:58 final size:60
Alignment explanation
Indices: 378898--379009 Score: 147
Period size: 59 Copynumber: 1.9 Consensus size: 60
378888 CTCGTGATAA
* *
378898 AAAAAAGATTAAGTGCCAAATTAAG-AAAAAGAGTAAAATTTGGGTACTAAATTAGACCC
1 AAAAAAGATTAAGTACCAAATTAAGAAAAAAGAGTAAAATTTGGATACTAAATTAGACCC
* * * * *
378957 AAAAAATA-TAAGTACCAATTTAAGAAAAAAGTGTCAAGTTTGGATACTAAATT
1 AAAAAAGATTAAGTACCAAATTAAGAAAAAAGAGTAAAATTTGGATACTAAATT
379010 GGACAATAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
58 14 0.31
59 31 0.69
ACGTcount: A:0.51, C:0.09, G:0.15, T:0.25
Consensus pattern (60 bp):
AAAAAAGATTAAGTACCAAATTAAGAAAAAAGAGTAAAATTTGGATACTAAATTAGACCC
Found at i:379021 original size:59 final size:57
Alignment explanation
Indices: 378897--379064 Score: 153
Period size: 58 Copynumber: 2.9 Consensus size: 57
378887 CCTCGTGATA
* * * *
378897 AAAAAAAGATTAAGTGCCAAATTAAGAAAAAGAGTAAAATTTGGGTACTAAATTAGACCC
1 AAAAAAA-A-TAAGTACCAAATTAAGAAAAAGTGTAAAGTTTGGATACTAAATTAGA-CC
* * * *
378957 AAAAAATATAAGTACCAATTTAAGAAAAAAGTGTCAAGTTTGGATACTAAATTGGA-C
1 AAAAAAAATAAGTACCAAATTAAG-AAAAAGTGTAAAGTTTGGATACTAAATTAGACC
* * * *
379014 AATAAAAAA-AAGATATCAAATTAAGAAAAA-TGTGAAGTTTAGATACCAAAT
1 AA-AAAAAATAAG-TACCAAATTAAGAAAAAGTGTAAAGTTTGGATACTAAAT
379065 ATTATATTAT
Statistics
Matches: 91, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
56 18 0.20
57 11 0.12
58 29 0.32
59 27 0.30
60 6 0.07
ACGTcount: A:0.53, C:0.08, G:0.15, T:0.24
Consensus pattern (57 bp):
AAAAAAAATAAGTACCAAATTAAGAAAAAGTGTAAAGTTTGGATACTAAATTAGACC
Found at i:382948 original size:59 final size:58
Alignment explanation
Indices: 382836--382971 Score: 150
Period size: 60 Copynumber: 2.3 Consensus size: 58
382826 AAAAGATTAG
* * * * *
382836 GTACCAAATT-AGGAAAAAGAGTCAAGTTCGGGTACTAAATTAGATCCCAAAAAATATAA
1 GTACCAAATTAAGAAAAAAGAGGCAAGTTCGGATACTAAATTAGAT-CAAAAAAAAAT-A
* * *
382895 GTACCAATTTAAGAAAAAAGAGGCAAGTTTGGATACTAAATTGGA-CAAAAAAAAATA
1 GTACCAAATTAAGAAAAAAGAGGCAAGTTCGGATACTAAATTAGATCAAAAAAAAATA
*
382952 GATATCAAATTAAGAAAAAA
1 G-TACCAAATTAAGAAAAAA
382972 TGTGAAGTTT
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
57 2 0.03
58 25 0.38
59 9 0.14
60 29 0.45
ACGTcount: A:0.52, C:0.10, G:0.16, T:0.21
Consensus pattern (58 bp):
GTACCAAATTAAGAAAAAAGAGGCAAGTTCGGATACTAAATTAGATCAAAAAAAAATA
Found at i:389334 original size:15 final size:15
Alignment explanation
Indices: 389314--389344 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
389304 TGATTTTCCT
389314 TTTAACATCATATAA
1 TTTAACATCATATAA
*
389329 TTTAACATTATATAA
1 TTTAACATCATATAA
389344 T
1 T
389345 AGCCTCAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (15 bp):
TTTAACATCATATAA
Done.