Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 376 of 378
Found at i:112306276 original size:5 final size:5
Alignment explanation
Indices: 112306260--112306313 Score: 99
Period size: 5 Copynumber: 10.6 Consensus size: 5
112306250 TTGTGTGTTC
112306260 TTTAT CTTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT -TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
112306311 TTT
1 TTT
112306314 TTCACAAATT
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 43 0.90
6 5 0.10
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:112309050 original size:37 final size:37
Alignment explanation
Indices: 112309009--112309087 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
112308999 TCAGAACTAG
** *
112309009 AATCAAAATGGGAATCAGAATCAGGTGACAGAATCAA
1 AATCAAAATCAGAATCAGAATCAGGTAACAGAATCAA
* *
112309046 AATCAGAATCAGAATCAGAATTAGGTAACAGAATCAA
1 AATCAAAATCAGAATCAGAATCAGGTAACAGAATCAA
112309083 AATCA
1 AATCA
112309088 GTATCAGGTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.51, C:0.14, G:0.18, T:0.18
Consensus pattern (37 bp):
AATCAAAATCAGAATCAGAATCAGGTAACAGAATCAA
Found at i:112309054 original size:12 final size:12
Alignment explanation
Indices: 112308998--112309178 Score: 95
Period size: 12 Copynumber: 14.7 Consensus size: 12
112308988 AAGAAACATT
112308998 ATCAGAA-CTAGA
1 ATCAGAATC-AGA
* **
112309010 ATCAAAATGGGA
1 ATCAGAATCAGA
112309022 ATCAGAATCAG-
1 ATCAGAATCAGA
* *
112309033 GTGACAGAATCAAA
1 AT--CAGAATCAGA
112309047 ATCAGAATCAGA
1 ATCAGAATCAGA
*
112309059 ATCAGAATTAGGTA
1 ATCAGAATCA-G-A
*
112309073 A-CAGAATCAAA
1 ATCAGAATCAGA
*
112309084 ATCAGTATCAGGTA
1 ATCAGAATCA-G-A
112309098 AT-AGAATCAGA
1 ATCAGAATCAGA
*
112309109 ATCAGAACCAGA
1 ATCAGAATCAGA
*
112309121 ATCAGAATTAGGTA
1 ATCAGAATCA-G-A
*
112309135 A-CATAATCAGA
1 ATCAGAATCAGA
* *
112309146 ATTAGTATCAGGTA
1 ATCAGAATCA-G-A
*
112309160 A-CAGAATCATA
1 ATCAGAATCAGA
112309171 ATCAGAAT
1 ATCAGAAT
112309179 GTGAATGCAA
Statistics
Matches: 126, Mismatches: 27, Indels: 32
0.68 0.15 0.17
Matches are distributed among these distances:
11 10 0.08
12 70 0.56
13 36 0.29
14 10 0.08
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (12 bp):
ATCAGAATCAGA
Found at i:112309088 original size:37 final size:37
Alignment explanation
Indices: 112309020--112309128 Score: 125
Period size: 37 Copynumber: 2.9 Consensus size: 37
112309010 ATCAAAATGG
*
112309020 GAATCAGAATCAGGTGACAGAATCAAAATCAGAATCA
1 GAATCAGAATCAGGTAACAGAATCAAAATCAGAATCA
* *
112309057 GAATCAGAATTAGGTAACAGAATCAAAATCAGTATCA
1 GAATCAGAATCAGGTAACAGAATCAAAATCAGAATCA
* *
112309094 GGTAAT-AGAATCA-G-AATCAGAACCAGAATCAGAAT
1 -G-AATCAGAATCAGGTAA-CAGAATCAAAATCAGAAT
112309129 TAGGTAACAT
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
36 2 0.03
37 50 0.81
38 7 0.11
39 3 0.05
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (37 bp):
GAATCAGAATCAGGTAACAGAATCAAAATCAGAATCA
Found at i:112309096 original size:62 final size:62
Alignment explanation
Indices: 112309021--112309178 Score: 235
Period size: 62 Copynumber: 2.5 Consensus size: 62
112309011 TCAAAATGGG
* *
112309021 AATCAGAATCAGGTGACAGAATCAAAATCAGAATCAGAATCAGAATTAGGTAACAGAATCAA
1 AATCAGTATCAGGTAACAGAATCAAAATCAGAATCAGAATCAGAATTAGGTAACAGAATCAA
* * * * *
112309083 AATCAGTATCAGGTAATAGAATCAGAATCAGAACCAGAATCAGAATTAGGTAACATAATCAG
1 AATCAGTATCAGGTAACAGAATCAAAATCAGAATCAGAATCAGAATTAGGTAACAGAATCAA
* *
112309145 AATTAGTATCAGGTAACAGAATCATAATCAGAAT
1 AATCAGTATCAGGTAACAGAATCAAAATCAGAAT
112309179 GTGAATGCAA
Statistics
Matches: 85, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
62 85 1.00
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.21
Consensus pattern (62 bp):
AATCAGTATCAGGTAACAGAATCAAAATCAGAATCAGAATCAGAATTAGGTAACAGAATCAA
Found at i:112309146 original size:25 final size:25
Alignment explanation
Indices: 112309020--112309178 Score: 100
Period size: 25 Copynumber: 6.4 Consensus size: 25
112309010 ATCAAAATGG
*
112309020 GAATCAGAATCAGGTGACAGAATCA
1 GAATCAGAATCAGGTAACAGAATCA
* *
112309045 AAATCAGAATCA-G-AATCAGAATTA
1 GAATCAGAATCAGGTAA-CAGAATCA
* *
112309069 GGTAA-CAGAATCA--AAATCAGTATCA
1 -G-AATCAGAATCAGGTAA-CAGAATCA
*
112309094 GGTAAT-AGAATCA-G-AATCAGAACCA
1 -G-AATCAGAATCAGGTAA-CAGAATCA
* *
112309119 GAATCAGAATTAGGTAACATAATCA
1 GAATCAGAATCAGGTAACAGAATCA
* *
112309144 GAATTAGTATCAGGTAACAGAATCA
1 GAATCAGAATCAGGTAACAGAATCA
*
112309169 TAATCAGAAT
1 GAATCAGAAT
112309179 GTGAATGCAA
Statistics
Matches: 107, Mismatches: 18, Indels: 18
0.75 0.13 0.13
Matches are distributed among these distances:
23 4 0.04
24 15 0.14
25 84 0.79
26 4 0.04
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.21
Consensus pattern (25 bp):
GAATCAGAATCAGGTAACAGAATCA
Found at i:112309469 original size:27 final size:26
Alignment explanation
Indices: 112309421--112309472 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
112309411 GCGAGGCTGC
*
112309421 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
112309447 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
112309473 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:112309736 original size:27 final size:27
Alignment explanation
Indices: 112309706--112310164 Score: 561
Period size: 27 Copynumber: 17.1 Consensus size: 27
112309696 TAGCACCCTA
** * *
112309706 AGGGTAAAATGGTAATTTTATAAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCG
* * *
112309733 AGGGTAAAATAGTAACTCTATAAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCG
112309760 AGGGTAAAACAGTAATTCTGT-AATCG
1 AGGGTAAAACAGTAATTCTGTAAATCG
112309786 AGGGTAAAAC-GTAATTCTGTAAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCG
* * * * *
112309812 AGGATAAAATAGTAATTTTATGAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCG
* * *
112309839 AGGGTAAAAC-GATAATTTTATAAATCA
1 AGGGTAAAACAG-TAATTCTGTAAATCG
* * *
112309866 AGGATAAAATAGTAATTTTGTAAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCG
112309893 AGGGTAAAAC-GATAATTCTGTAAATCG
1 AGGGTAAAACAG-TAATTCTGTAAATCG
* *
112309920 AGGGTAAAATAGTAATTTTGTAAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCG
* *
112309947 AGGGTAAAACGGTAATTCTGTATATCG
1 AGGGTAAAACAGTAATTCTGTAAATCG
*
112309974 AGGGTAAAACAGTAATTCTGTAAATCA
1 AGGGTAAAACAGTAATTCTGTAAATCG
*
112310001 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCG
* *
112310028 AGGGTAAAA-TGATAATTTTGTAAATCG
1 AGGGTAAAACAG-TAATTCTGTAAATCG
* *
112310055 AGGGTAAAATAGTAATTCTGTAAATTG
1 AGGGTAAAACAGTAATTCTGTAAATCG
* * *
112310082 AGGGTAAAACGGTAATTTTATAAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCG
112310109 AGGGTAAAACAGTAATTCTGTAAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCG
112310136 AGGGTAAAAC-GATAATTCTGTAAATCG
1 AGGGTAAAACAG-TAATTCTGTAAATCG
112310163 AG
1 AG
112310165 TGTACTTTGA
Statistics
Matches: 377, Mismatches: 46, Indels: 18
0.85 0.10 0.04
Matches are distributed among these distances:
25 10 0.03
26 32 0.08
27 332 0.88
28 3 0.01
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
AGGGTAAAACAGTAATTCTGTAAATCG
Found at i:112310190 original size:27 final size:26
Alignment explanation
Indices: 112310160--112310293 Score: 101
Period size: 27 Copynumber: 5.0 Consensus size: 26
112310150 ATTCTGTAAA
*
112310160 TCGAGTGTACTTTGATAATTTTACAAG
1 TCGAGGGTA-TTTGATAATTTTACAAG
* *
112310187 TCGAGGGTATTTCAGTAATTTTACAGG
1 TCGAGGGTATTTGA-TAATTTTACAAG
* * *
112310214 TCGAGGGTATTTCTATAATTTCACAAA
1 TCGAGGGTATTT-GATAATTTTACAAG
*
112310241 TC-AGAGGTATTTTGGTAATTTTACAA-
1 TCGAG-GGTA-TTTGATAATTTTACAAG
* * *
112310267 ACTAGGGGTATTTTGGTAATTTTACAA
1 TCGA-GGGTA-TTTGATAATTTTACAA
112310294 ACCAGGGGTA
Statistics
Matches: 90, Mismatches: 11, Indels: 12
0.80 0.10 0.11
Matches are distributed among these distances:
26 7 0.08
27 78 0.87
28 5 0.06
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (26 bp):
TCGAGGGTATTTGATAATTTTACAAG
Found at i:112310218 original size:54 final size:54
Alignment explanation
Indices: 112310160--112310265 Score: 126
Period size: 54 Copynumber: 2.0 Consensus size: 54
112310150 ATTCTGTAAA
* * *
112310160 TCGAGTGTACTTT-GATAATTTTACAAGTC-GAGGGTATTTCAGTAATTTTACAGG
1 TCGAGGGTA-TTTCGATAATTTCACAAATCAGA-GGTATTTCAGTAATTTTACAGG
* **
112310214 TCGAGGGTATTTCTATAATTTCACAAATCAGAGGTATTTTGGTAATTTTACA
1 TCGAGGGTATTTCGATAATTTCACAAATCAGAGGTATTTCAGTAATTTTACA
112310266 AACTAGGGGT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
53 3 0.07
54 39 0.89
55 2 0.05
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (54 bp):
TCGAGGGTATTTCGATAATTTCACAAATCAGAGGTATTTCAGTAATTTTACAGG
Found at i:112310294 original size:27 final size:27
Alignment explanation
Indices: 112310229--112310314 Score: 129
Period size: 27 Copynumber: 3.2 Consensus size: 27
112310219 GGTATTTCTA
* *
112310229 TAATTTCACAAA-TCAGAGGTATTTTGG
1 TAATTTTACAAACT-AGGGGTATTTTGG
112310256 TAATTTTACAAACTAGGGGTATTTTGG
1 TAATTTTACAAACTAGGGGTATTTTGG
*
112310283 TAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAACTAGGGGTATTTTGG
112310310 TAATT
1 TAATT
112310315 CTATCCTACA
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
27 54 0.98
28 1 0.02
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
TAATTTTACAAACTAGGGGTATTTTGG
Found at i:112310333 original size:27 final size:27
Alignment explanation
Indices: 112310309--112310378 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
112310299 GGGTATTTTG
*
112310309 GTAATTCTATCCTACAAGGGCATTTCA
1 GTAATTCTACCCTACAAGGGCATTTCA
*
112310336 GTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGCATTTCA
* *
112310363 GTAATGCTAGCCTACA
1 GTAATTCTACCCTACA
112310379 GATATGAGAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGCATTTCA
Found at i:112310340 original size:54 final size:54
Alignment explanation
Indices: 112310229--112310341 Score: 120
Period size: 54 Copynumber: 2.1 Consensus size: 54
112310219 GGTATTTCTA
* * * * **
112310229 TAATTTCACAAATCAGAGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGG
1 TAATTTCACAAACCAGAGGTATTTTGGTAATTCTACAAACTAAGGGCATTTCAG
* * **
112310283 TAATTTTACAAACCAGGGGTATTTTGGTAATTCTATCCTAC-AAGGGCATTTCAG
1 TAATTTCACAAACCAGAGGTATTTTGGTAATTCTA-CAAACTAAGGGCATTTCAG
112310337 TAATT
1 TAATT
112310342 CTACCCTACA
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
54 45 0.94
55 3 0.06
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (54 bp):
TAATTTCACAAACCAGAGGTATTTTGGTAATTCTACAAACTAAGGGCATTTCAG
Found at i:112311710 original size:26 final size:26
Alignment explanation
Indices: 112311681--112311788 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
112311671 TGGTACAAAT
*
112311681 TGATAATGGGTTAAGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
112311707 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
112311733 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
112311759 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
112311785 TGAT
1 TGAT
112311789 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:112316425 original size:24 final size:25
Alignment explanation
Indices: 112316393--112316456 Score: 89
Period size: 24 Copynumber: 2.7 Consensus size: 25
112316383 CAATGATGTG
*
112316393 AATAATAAAATATATAAAATAT-AA
1 AATATTAAAATATATAAAATATCAA
112316417 AATATTAAAATAT-TAAAATATCAA
1 AATATTAAAATATATAAAATATCAA
*
112316441 AATATTAGAATA-ATAA
1 AATATTAAAATATATAA
112316457 TAATTAATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
23 8 0.22
24 28 0.78
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (25 bp):
AATATTAAAATATATAAAATATCAA
Found at i:112316427 original size:8 final size:8
Alignment explanation
Indices: 112316393--112316452 Score: 77
Period size: 8 Copynumber: 7.5 Consensus size: 8
112316383 CAATGATGTG
*
112316393 AATAATAA
1 AATATTAA
112316401 AATATATAA
1 AATAT-TAA
112316410 AATA-TAA
1 AATATTAA
112316417 AATATTAA
1 AATATTAA
112316425 AATATTAA
1 AATATTAA
*
112316433 AATATCAA
1 AATATTAA
*
112316441 AATATTAG
1 AATATTAA
112316449 AATA
1 AATA
112316453 ATAATAATTA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
7 7 0.15
8 32 0.70
9 7 0.15
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (8 bp):
AATATTAA
Found at i:112316763 original size:27 final size:26
Alignment explanation
Indices: 112316688--112316763 Score: 82
Period size: 25 Copynumber: 2.9 Consensus size: 26
112316678 CATGTAGAAA
*
112316688 AAAATATATATATAAATAATATAATAT
1 AAAATATATATAT-AATAATATAGTAT
* * *
112316715 TAAAGATATATA-AATAAAATAGTAT
1 AAAATATATATATAATAATATAGTAT
*
112316740 AAAATATATATATACGTAATATAG
1 AAAATATATATATA-ATAATATAG
112316764 AATTTAAAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
25 21 0.54
26 1 0.03
27 17 0.44
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.34
Consensus pattern (26 bp):
AAAATATATATATAATAATATAGTAT
Found at i:112317353 original size:30 final size:30
Alignment explanation
Indices: 112317317--112317431 Score: 185
Period size: 30 Copynumber: 3.8 Consensus size: 30
112317307 TAGGTACAAG
* * *
112317317 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
112317347 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
* *
112317377 TGGTGGTGGAAAATGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
112317407 TGGTGGTGGAAAAAGAGTGGCTAGT
1 TGGTGGTGGAAAAAGAGTGGCTAGT
112317432 TGAGAAAAGT
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 78 1.00
ACGTcount: A:0.23, C:0.03, G:0.48, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
Found at i:112317410 original size:60 final size:60
Alignment explanation
Indices: 112317317--112317431 Score: 212
Period size: 60 Copynumber: 1.9 Consensus size: 60
112317307 TAGGTACAAG
*
112317317 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
*
112317377 TGGTGGTGGAAAATGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGT
112317432 TGAGAAAAGT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.23, C:0.03, G:0.48, T:0.26
Consensus pattern (60 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
Found at i:112318233 original size:14 final size:14
Alignment explanation
Indices: 112318216--112318244 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
112318206 GATTTTGACG
112318216 AACAGAAATTGAAA
1 AACAGAAATTGAAA
112318230 AACAGAAATTGAAA
1 AACAGAAATTGAAA
112318244 A
1 A
112318245 GACCTCAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:112318267 original size:88 final size:89
Alignment explanation
Indices: 112318000--112318318 Score: 358
Period size: 89 Copynumber: 3.6 Consensus size: 89
112317990 GTGATCCTGA
** * * * *
112318000 GCTCAACTCATTTCTCGCAATATGAATTGACTTTT-AAAAACTAGACATT-AAAAACAGAAATTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAAC-AGAAATTGAAAAACAGAAATTG
* * **
112318063 AAAAATAGCTCAGCACGTGAGCAAAG
65 -AAAATACCTCAGCATGTGAGCCGAG
* * ** **
112318089 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTGA-AAACAGAATTTGCCAAACAGATTTTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGACAAACAGAAATTGAAAAACAGAAATTG
** *
112318153 AAAATACCTTGGCATGTGACCCGAG
65 AAAATACCTCAGCATGTGAGCCGAG
* *
112318178 GCTCAACTCACCTCTCGTAATATGAGTTGA-TTTTGACGAACAGAAATTGAAAAACAGAAATTGA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAAAACAGAAATTGA
* *
112318242 AAAGACCTCAGCATGTAAGCCGAG
66 AAATACCTCAGCATGTGAGCCGAG
* *
112318266 GCTCAACTCACCTCTCGCGATATGAGTTGATCTTTGACAAACAGAAATTGAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAA
112318319 TTACTTCAGC
Statistics
Matches: 192, Mismatches: 33, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
87 6 0.03
88 68 0.35
89 99 0.52
90 18 0.09
91 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (89 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAAAACAGAAATTGA
AAATACCTCAGCATGTGAGCCGAG
Found at i:112318393 original size:14 final size:14
Alignment explanation
Indices: 112318374--112318408 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
112318364 GTTGATTTTT
112318374 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
112318388 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
112318402 TTGAAAA
1 TTGAAAA
112318409 TACCTCAGCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.57, C:0.06, G:0.20, T:0.17
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:112318480 original size:164 final size:163
Alignment explanation
Indices: 112318175--112319049 Score: 962
Period size: 164 Copynumber: 5.3 Consensus size: 163
112318165 CATGTGACCC
* *
112318175 GAGGCTCAACTCACCTCTCGTAATATGAGTTGA---TTTTGACGAA-CAGAAATTGAAAAACAGA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA-AAAGCAGAAATTG-AAAACAGA
* *
112318236 AATTGAAAAGACCTCAGCATGTAAG-CC-GAGGCTCAACTCACCTCTCGCGATATGAGTTGA--T
64 AATTGAAAATACCTCAGC--GT--GCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
* * *
112318297 CTTTGACAAACAGAAATTGAAATTACTTCAGCGTGCCCT
125 TTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCT
112318336 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAAGCAGAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAA-CAGAA
* *
112318401 ATTGAAAATACCTCAGCGTGCCCTGAGGCTCATCTCACCTCTCGCAATATGAGCTGATTTTTTTG
65 ATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
*
112318466 AAAAACATAAATTGAAGAAAACAGAAATTGAAATTACCTCAGCATGTCCT
130 ----AC------------AAACAGAAATTGAAATTACCTCAGCGTGTCCT
112318516 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTG-AAAGACAGAAATTGAAAAACAG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAAG-CAGAAATTG-AAAACAG
* * * * *
112318580 AAATTGAAAAGACCTCAACATGTGAGCC-GAGGCTCAACTCACCTCTCACTATATGAGTTGA--T
63 AAATTGAAAATACCTCAGC--GTG-CCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
* *
112318642 TTTTGACAAACAAAAACTGAAATTACCTCAGCGTGTCCT
125 TTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCT
* * *
112318681 GAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGAAGAGCAGAAATTGAAAATAGAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAACAGAAA
* * * *
112318746 TCGACAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTTTCACAATATGAGTTGATTTTTTTTG
66 TTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTG
*
112318811 ACAAACATAAATTGAAATTACCTCAGCGTGTCCT
130 ACAAACAGAAATTGAAATTACCTCAGCGTGTCCT
*
112318845 GAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTGAAAAGCAGAAATT-------GAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAACAGAAA
* *
112318903 -T-----TACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTG
66 TTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTG
* *
112318962 A-AAAGCAGAAATTGAAAATACCTTAGCGTG-CCT
130 ACAAA-CAGAAATTGAAATTACCTCAGCGTGTCCT
* * *
112318995 GAGGCTCAACTCACCTCTCGCAATATGAGCTGA--TTTTTGAAAAACATAAATTGAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAA
112319050 GAAAATAGAA
Statistics
Matches: 627, Mismatches: 47, Indels: 90
0.82 0.06 0.12
Matches are distributed among these distances:
148 17 0.03
150 37 0.06
151 77 0.12
157 4 0.01
160 3 0.00
161 68 0.11
162 32 0.05
163 27 0.04
164 147 0.23
165 64 0.10
168 2 0.00
177 2 0.00
180 66 0.11
181 43 0.07
182 4 0.01
183 32 0.05
184 2 0.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (163 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAACAGAAA
TTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
CAAACAGAAATTGAAATTACCTCAGCGTGTCCT
Found at i:112318488 original size:16 final size:16
Alignment explanation
Indices: 112318467--112318497 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
112318457 ATTTTTTTGA
*
112318467 AAAACATAAATTGAAG
1 AAAACAGAAATTGAAG
112318483 AAAACAGAAATTGAA
1 AAAACAGAAATTGAA
112318498 ATTACCTCAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.06, G:0.13, T:0.16
Consensus pattern (16 bp):
AAAACAGAAATTGAAG
Found at i:112318529 original size:91 final size:89
Alignment explanation
Indices: 112318299--112318645 Score: 471
Period size: 89 Copynumber: 3.8 Consensus size: 89
112318289 GAGTTGATCT
* * * *
112318299 TTGACAAACAGAAATTGAAATTACTTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
112318364 GTTGATTTTTTTGAAAAGCAGAAA
66 GTTGATTTTTTTGAAAAACAGAAA
* * *
112318388 TTGAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCATCTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
* *
112318453 GCTGATTTTTTTGAAAAACATAAA
66 GTTGATTTTTTTGAAAAACAGAAA
* *
112318477 TTGAAGAAAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTG-A-AAAACAGAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATAT
*
112318542 GAGTTGATTTTTTTTGAAAGACAGAAA
64 GAGTTGA-TTTTTTTGAAAAACAGAAA
* * * * *
112318569 TTGAAAAACAGAAATTGAAAAGACCTCAACATGTGAGCC-GAGGCTCAACTCACCTCTCACTATA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCA--TG-CCCTGAGGCTCAACTCACCTCTCGCAATA
112318633 TGAGTTGATTTTT
63 TGAGTTGATTTTT
112318646 GACAAACAAA
Statistics
Matches: 230, Mismatches: 22, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
89 84 0.37
90 25 0.11
91 66 0.29
92 53 0.23
93 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (89 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTTTGAAAAACAGAAA
Found at i:112318574 original size:14 final size:14
Alignment explanation
Indices: 112318555--112318589 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
112318545 TTGATTTTTT
*
112318555 TTGAAAGACAGAAA
1 TTGAAAAACAGAAA
112318569 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
112318583 TTGAAAA
1 TTGAAAA
112318590 GACCTCAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.60, C:0.06, G:0.17, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:112318625 original size:345 final size:334
Alignment explanation
Indices: 112317995--112319049 Score: 1172
Period size: 345 Copynumber: 3.2 Consensus size: 334
112317985 GGTGTGTGAT
** * * * *
112317995 CCTGA-GCTCAACTCATTTCTCGCAATATGAATTGACTTTT-AAAAACTAGACATTAAAAACAGA
1 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC-AGAAATTGAAAACAGA
* ** ** *
112318058 AATTGAAAAATAGCTCAGCACGTGAGCAAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT
65 AATTG-AAAATACCTCAG--CGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* * ** * ** *
112318123 TTGAAAACAGAATTTGCCAAACAGATTTTGAAAATACCTTGGCATGTGACCCGAGGCTCAACTCA
127 TTGAAAACATAA-TTGACAAACAGAAATTGAAATTACCTCAGCATGT--CCTGAGGCTCAACTCA
*
112318188 CCTCTCGTAATATGAGTTGA---TTTTG-ACGAACAGAAATTGAAAAACAGAAATTGAAAAGACC
189 CCTCTCGTAATATGAGTTGATTTTTTTGAAAG-ACAGAAATTGAAAAACAGAAATTGAAAAGACC
* *
112318249 TCAGCATGTAAGCCGAGGCTCAACTCACCTCTCGCGATATGAGTTGATCTTTGACAAACAGAAAT
253 TCAGCATGT-AGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAAT
112318314 TGAAATTACTTCAGCGTG
317 TGAAATTACTTCAGCGTG
*
112318332 CCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAAGC
1 -CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAAAA-C
* *
112318397 AGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCATCTCACCTCTCGCAATATGAGCTGATTTT
62 AGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT
*
112318462 TTTGAAAAACATAAATTGAAGAAAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACT
126 TTTG-AAAACAT-AATTG-A-CAAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACT
*
112318527 CACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAAAAACAGAAATTGAAAAGA
187 CACCTCTCGTAATATGAGTTGA-TTTTTTTGAAAGACAGAAATTGAAAAACAGAAATTGAAAAGA
* * * *
112318592 CCTCAACATGTGAGCCGAGGCTCAACTCACCTCTCACTATATGAGTTGATTTTTGACAAACAAAA
251 CCTCAGCATGT-AGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAA
* *
112318657 ACTGAAATTACCTCAGCGTG
315 ATTGAAATTACTTCAGCGTG
* * * *
112318677 TCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGAAGAGCAGAAATTGAAAATA
1 -CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAAAACA
* * * *
112318742 GAAATCGACAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTTTCACAATATGAGTTGA-TTTT
63 GAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* *
112318806 T-------T--TTGACAAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
128 TGAAAACATAATTGACAAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTC
112318862 TCGTAATATGAGTTGATTTTTTTGAAA-AGCAGAAATT--------GAAATT------ACCTCAG
193 TCGTAATATGAGTTGATTTTTTTGAAAGA-CAGAAATTGAAAAACAGAAATTGAAAAGACCTCAG
112318912 CATGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGA-AAAGCAGAAAT
257 CATGTAGCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTGACAAA-CAGAAAT
*
112318974 TGAAAATACCTT-AGCGTG
317 TGAAATTA-CTTCAGCGTG
* *
112318992 CCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAAAAACATAAATTGAA
1 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
112319050 GAAAATAGAA
Statistics
Matches: 635, Mismatches: 60, Indels: 70
0.83 0.08 0.09
Matches are distributed among these distances:
311 2 0.00
312 50 0.08
314 48 0.08
315 25 0.04
316 2 0.00
320 6 0.01
327 1 0.00
328 19 0.03
329 62 0.10
330 1 0.00
331 3 0.00
334 1 0.00
338 5 0.01
339 61 0.10
340 7 0.01
341 68 0.11
342 21 0.03
343 24 0.04
344 55 0.09
345 172 0.27
346 2 0.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (334 bp):
CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAACAGAA
ATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA
AAACATAATTGACAAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCG
TAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAAACAGAAATTGAAAAGACCTCAGCATG
TAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTAC
TTCAGCGTG
Found at i:112318923 original size:75 final size:76
Alignment explanation
Indices: 112318753--112319032 Score: 449
Period size: 75 Copynumber: 3.7 Consensus size: 76
112318743 AAATCGACAA
* * *
112318753 TACCTCAGCGTGCCCTGAGGCTCAACTCACCTTTCACAATATGAGTTGATTTTTTTTGACAAA-C
1 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGA-AAAGC
*
112318817 ATAAATTGAAAT
65 AGAAATTGAAAT
*
112318829 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGA-TTTTTTTGAAAAGCA
1 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAGCA
112318893 GAAATTGAAAT
66 GAAATTGAAAT
*
112318904 TACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAGCA
1 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAGCA
*
112318969 GAAATTGAAAA
66 GAAATTGAAAT
* *
112318980 TACCTTAGCGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTT
1 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
112319033 GAAAAACATA
Statistics
Matches: 191, Mismatches: 11, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
74 3 0.02
75 108 0.57
76 80 0.42
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.32
Consensus pattern (76 bp):
TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAGCA
GAAATTGAAAT
Found at i:112319941 original size:10 final size:9
Alignment explanation
Indices: 112319923--112319947 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
112319913 CTTTAAGCAT
112319923 AATAAAAAA
1 AATAAAAAA
112319932 AATAAAAAA
1 AATAAAAAA
112319941 AATAAAA
1 AATAAAA
112319948 TAACCCAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
AATAAAAAA
Found at i:112320612 original size:28 final size:28
Alignment explanation
Indices: 112320576--112320634 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
112320566 TAGAGGTATA
112320576 TCGGTAATTTTGCTCTTTAGGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGGTAATT
112320604 TCGGTAATTTTGCTCTTTAGGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGGTAATT
112320632 TCG
1 TCG
112320635 TGATCTACGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.17, C:0.12, G:0.25, T:0.46
Consensus pattern (28 bp):
TCGGTAATTTTGCTCTTTAGGGGTAATT
Found at i:112321285 original size:27 final size:27
Alignment explanation
Indices: 112321255--112321316 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
112321245 GGGCAAAATG
112321255 GTAATTTTACCCCACAAGGGTATTTCA
1 GTAATTTTACCCCACAAGGGTATTTCA
* * *
112321282 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCCACAAGGGTATTTCA
112321309 GTAATTTT
1 GTAATTTT
112321317 TCAAACCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACCCCACAAGGGTATTTCA
Found at i:112321330 original size:54 final size:54
Alignment explanation
Indices: 112321272--112321422 Score: 160
Period size: 54 Copynumber: 2.8 Consensus size: 54
112321262 TACCCCACAA
** * * *
112321272 GGGTATTTCAGTAATTTTACCCTAC-AGGGGTATTTTAGTAATTTTTCAAACCAT
1 GGGTATTTCAGTAATTTTA-CAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
** *
112321326 GGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
** * * * *
112321380 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATT
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATT
112321423 CTGTAAATTG
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
53 2 0.02
54 83 0.98
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:112321388 original size:81 final size:81
Alignment explanation
Indices: 112321270--112321422 Score: 220
Period size: 81 Copynumber: 1.9 Consensus size: 81
112321260 TTTACCCCAC
** *
112321270 AAGGGTATTTCAGTAATTTTACCCTACAGGGGTATTTTAGTAATTTT-TCAAACCATGGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTAT-AAACCAAGGGTATTT
112321334 TGGTAATTTTATAAACA
65 TGGTAATTTTATAAACA
* * *
112321351 AAGGGTATTTTAGTAATTTTA-CAAACCAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAA-CAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTT
112321415 TGGTAATT
65 TGGTAATT
112321423 CTGTAAATTG
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
80 2 0.03
81 61 0.95
82 1 0.02
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.41
Consensus pattern (81 bp):
AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTTT
GGTAATTTTATAAACA
Found at i:112321429 original size:27 final size:27
Alignment explanation
Indices: 112321299--112321422 Score: 169
Period size: 27 Copynumber: 4.6 Consensus size: 27
112321289 TACCCTACAG
* *
112321299 GGGTATTTTAGTAATTTT-TCAAACCAT
1 GGGTATTTTGGTAATTTTAT-AAACCAA
*
112321326 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
112321353 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
*
112321380 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
112321407 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
112321423 CTGTAAATTG
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 83 0.99
28 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:112321436 original size:27 final size:27
Alignment explanation
Indices: 112321406--112321476 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
112321396 TTATAAACCA
* *
112321406 AGGGTATTTTGGTAATTCTGTAAATTG
1 AGGGTAATTTGGTAATTCTGTAAATCG
***
112321433 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAATTTGGTAATTCTGTAAATCG
*
112321460 -GGAGTACTTTGGTAATT
1 AGG-GTAATTTGGTAATT
112321477 TTACAAGTCG
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (27 bp):
AGGGTAATTTGGTAATTCTGTAAATCG
Found at i:112321438 original size:54 final size:54
Alignment explanation
Indices: 112321299--112321422 Score: 203
Period size: 54 Copynumber: 2.3 Consensus size: 54
112321289 TACCCTACAG
* *
112321299 GGGTATTTTAGTAATTTTTCAAACCATGGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
* *
112321353 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
*
112321407 GGGTATTTTGGTAATT
1 GGGTATTTTAGTAATT
112321423 CTGTAAATTG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
Found at i:112321448 original size:81 final size:81
Alignment explanation
Indices: 112321296--112321449 Score: 175
Period size: 81 Copynumber: 1.9 Consensus size: 81
112321286 TTTTACCCTA
* * ***
112321296 CAGGGGTATTTTAGTAATTTTTCAAACCATGGGTATTTTGGTAATTTTATAAACAAAGGGTATTT
1 CAGGGGTATTTTAGTAATTTTTCAAACCAAGGGTATTTTGGTAATTCTATAAACAAAGGGTAAAA
*
112321361 TAGTAATTTTACAAAC
66 CAGTAATTTTACAAAC
* * * ***
112321377 CAGGGGTATTTTGGTGATTTTAT-AAACCAAGGGTATTTTGGTAATTCTGTAAATTGAGGGTAAA
1 CAGGGGTATTTTAGTAATTTT-TCAAACCAAGGGTATTTTGGTAATTCTATAAACAAAGGGTAAA
*
112321441 ACGGTAATT
65 ACAGTAATT
112321450 CTGTAAATCG
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
81 58 0.98
82 1 0.02
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (81 bp):
CAGGGGTATTTTAGTAATTTTTCAAACCAAGGGTATTTTGGTAATTCTATAAACAAAGGGTAAAA
CAGTAATTTTACAAAC
Found at i:112330499 original size:12 final size:12
Alignment explanation
Indices: 112330467--112330502 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
112330457 TAGGATATGC
112330467 AATGTATGAATG
1 AATGTATGAATG
**
112330479 AATACATGAATG
1 AATGTATGAATG
112330491 AATGTATGAATG
1 AATGTATGAATG
112330503 TCAAAATGTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.31
Consensus pattern (12 bp):
AATGTATGAATG
Found at i:112334070 original size:16 final size:15
Alignment explanation
Indices: 112334049--112334096 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
112334039 GATGTGAATA
112334049 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
112334065 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
112334080 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
112334096 A
1 A
112334097 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:112334079 original size:8 final size:8
Alignment explanation
Indices: 112334045--112334096 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
112334035 CAATGATGTG
*
112334045 AATAATAA
1 AATATTAA
112334053 AATATATAA
1 AATAT-TAA
112334062 AATA-TAA
1 AATATTAA
112334069 AATATTAA
1 AATATTAA
*
112334077 AATATCAA
1 AATATTAA
*
112334085 AATATTAG
1 AATATTAA
112334093 AATA
1 AATA
112334097 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:112334096 original size:24 final size:24
Alignment explanation
Indices: 112334044--112334100 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
112334034 ACAATGATGT
*
112334044 GAATAATAAAATATATAAAATATA
1 GAATAATAAAATATACAAAATATA
* *
112334068 AAATATTAAAATAT-CAAAATATTA
1 GAATAATAAAATATACAAAATA-TA
112334092 GAATAATAA
1 GAATAATAA
112334101 TAATTAATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.30
Consensus pattern (24 bp):
GAATAATAAAATATACAAAATATA
Found at i:112334406 original size:27 final size:26
Alignment explanation
Indices: 112334331--112334406 Score: 82
Period size: 25 Copynumber: 2.9 Consensus size: 26
112334321 CATGTAGAAA
*
112334331 AAAATATATATATAAATAATATAATAT
1 AAAATATATATAT-AATAATATAGTAT
* * *
112334358 TAAAGATATATA-AATAAAATAGTAT
1 AAAATATATATATAATAATATAGTAT
*
112334383 AAAATATATATATACGTAATATAG
1 AAAATATATATATA-ATAATATAG
112334407 AATTTAAAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
25 21 0.54
26 1 0.03
27 17 0.44
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.34
Consensus pattern (26 bp):
AAAATATATATATAATAATATAGTAT
Found at i:112334995 original size:30 final size:30
Alignment explanation
Indices: 112334959--112335073 Score: 185
Period size: 30 Copynumber: 3.8 Consensus size: 30
112334949 TAGGTACAAG
* * *
112334959 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
112334989 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
* *
112335019 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
112335049 TGGTGGTGGAAAAAGAGTGGCTAGT
1 TGGTGGTGGAAAAAGAGTGGCTAGT
112335074 TGAGAAAAGT
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 78 1.00
ACGTcount: A:0.23, C:0.03, G:0.49, T:0.25
Consensus pattern (30 bp):
TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
Found at i:112335052 original size:60 final size:60
Alignment explanation
Indices: 112334959--112335073 Score: 221
Period size: 60 Copynumber: 1.9 Consensus size: 60
112334949 TAGGTACAAG
*
112334959 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
112335019 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGT
112335074 TGAGAAAAGT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.23, C:0.03, G:0.49, T:0.25
Consensus pattern (60 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
Found at i:112337159 original size:29 final size:29
Alignment explanation
Indices: 112337118--112337175 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
112337108 TTACTCAACC
112337118 TTACCCTTATCCAATCCTCTAGTTGCCCT
1 TTACCCTTATCCAATCCTCTAGTTGCCCT
*
112337147 TTACCCTTGTCCAATCCTCTAGTTGCCCT
1 TTACCCTTATCCAATCCTCTAGTTGCCCT
112337176 CAGCATGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.16, C:0.38, G:0.09, T:0.38
Consensus pattern (29 bp):
TTACCCTTATCCAATCCTCTAGTTGCCCT
Found at i:112338980 original size:7 final size:7
Alignment explanation
Indices: 112338968--112338993 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
112338958 TTATCATGCC
112338968 AATATTT
1 AATATTT
112338975 AATATTT
1 AATATTT
112338982 AATATTT
1 AATATTT
112338989 AATAT
1 AATAT
112338994 AATTTGCTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
AATATTT
Found at i:112340933 original size:87 final size:87
Alignment explanation
Indices: 112340787--112340961 Score: 350
Period size: 87 Copynumber: 2.0 Consensus size: 87
112340777 GCAACATCAT
112340787 TCTATTTCTGATTTGGTCCTTCAATTTGCCAAAGAATATAGCGCATTTAGTGGGGTTTGGGGTAT
1 TCTATTTCTGATTTGGTCCTTCAATTTGCCAAAGAATATAGCGCATTTAGTGGGGTTTGGGGTAT
112340852 TTTCCCAGTTAATCCCCATTCC
66 TTTCCCAGTTAATCCCCATTCC
112340874 TCTATTTCTGATTTGGTCCTTCAATTTGCCAAAGAATATAGCGCATTTAGTGGGGTTTGGGGTAT
1 TCTATTTCTGATTTGGTCCTTCAATTTGCCAAAGAATATAGCGCATTTAGTGGGGTTTGGGGTAT
112340939 TTTCCCAGTTAATCCCCATTCC
66 TTTCCCAGTTAATCCCCATTCC
112340961 T
1 T
112340962 TTTTTGCGCA
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 88 1.00
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.39
Consensus pattern (87 bp):
TCTATTTCTGATTTGGTCCTTCAATTTGCCAAAGAATATAGCGCATTTAGTGGGGTTTGGGGTAT
TTTCCCAGTTAATCCCCATTCC
Found at i:112341050 original size:26 final size:26
Alignment explanation
Indices: 112341004--112341072 Score: 115
Period size: 26 Copynumber: 2.7 Consensus size: 26
112340994 GGTTTAATTA
112341004 TTTTATTA-TT-TATATTTTGACCCC
1 TTTTATTATTTATATATTTTGACCCC
112341028 TTTTATTATTTATATATTTTGACCCC
1 TTTTATTATTTATATATTTTGACCCC
*
112341054 TTTTATTATTTATTTATTT
1 TTTTATTATTTATATATTT
112341073 CGATTTGTCC
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
24 8 0.19
25 2 0.05
26 32 0.76
ACGTcount: A:0.22, C:0.12, G:0.03, T:0.64
Consensus pattern (26 bp):
TTTTATTATTTATATATTTTGACCCC
Found at i:112341350 original size:27 final size:30
Alignment explanation
Indices: 112341315--112341371 Score: 84
Period size: 27 Copynumber: 2.0 Consensus size: 30
112341305 TTATGTCTTC
112341315 ATTATCATTAGTA-T-TTTATT-ATCTATT
1 ATTATCATTAGTATTATTTATTCATCTATT
*
112341342 ATTATCATTATTATTATTTATTCATCTATT
1 ATTATCATTAGTATTATTTATTCATCTATT
112341372 TATTTATTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 12 0.46
28 1 0.04
29 6 0.23
30 7 0.27
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.60
Consensus pattern (30 bp):
ATTATCATTAGTATTATTTATTCATCTATT
Found at i:112341371 original size:12 final size:11
Alignment explanation
Indices: 112341329--112341375 Score: 57
Period size: 10 Copynumber: 4.5 Consensus size: 11
112341319 TCATTAGTAT
112341329 TTTATTATCTA
1 TTTATTATCTA
112341340 -TTATTATC-A
1 TTTATTATCTA
112341349 -TTATTAT-TA
1 TTTATTATCTA
112341358 TTTATTCATCTA
1 TTTATT-ATCTA
112341370 TTTATT
1 TTTATT
112341376 TATTACCCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
9 9 0.28
10 13 0.41
11 2 0.06
12 8 0.25
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.64
Consensus pattern (11 bp):
TTTATTATCTA
Found at i:112341437 original size:3 final size:3
Alignment explanation
Indices: 112341423--112341480 Score: 66
Period size: 3 Copynumber: 19.0 Consensus size: 3
112341413 ATATTAATCC
*
112341423 TAT TAC TAT TAT TAT TAT T-T TAT CTAT TAT TAT TAT TAT TATT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TA-T TAT
112341469 GTAT T-T TAT TAT
1 -TAT TAT TAT TAT
112341481 AAATTGTGCC
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
2 4 0.08
3 35 0.73
4 9 0.19
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:112341656 original size:3 final size:3
Alignment explanation
Indices: 112341648--112341727 Score: 160
Period size: 3 Copynumber: 26.7 Consensus size: 3
112341638 TAATATCCTT
112341648 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
112341696 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
112341728 CACTTCATTA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 77 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:112348795 original size:24 final size:24
Alignment explanation
Indices: 112348768--112348816 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
112348758 CATATATTTA
112348768 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTTTATATAAAAATTAAT
112348792 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTTTATATAAAAATTAAT
112348816 T
1 T
112348817 GTTATTTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (24 bp):
TTAAAAGTTTATATAAAAATTAAT
Found at i:112348870 original size:2 final size:2
Alignment explanation
Indices: 112348863--112348897 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
112348853 CGAGTTTTAT
112348863 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
112348898 CAATATAAAA
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:112349702 original size:14 final size:13
Alignment explanation
Indices: 112349653--112349704 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 13
112349643 TTAATTTTTT
112349653 TATTTATAAAAACCA
1 TATTTATAAAAA--A
112349668 -ATTTATAAAAAA
1 TATTTATAAAAAA
* *
112349680 TAGTAATAAAAAA
1 TATTTATAAAAAA
112349693 TATTTTATAAAA
1 TA-TTTATAAAA
112349705 TCACTTAACT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
12 1 0.03
13 12 0.39
14 18 0.58
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.35
Consensus pattern (13 bp):
TATTTATAAAAAA
Found at i:112349912 original size:25 final size:24
Alignment explanation
Indices: 112349865--112349912 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
112349855 CGGTTTTATC
*
112349865 CCTAAATTTTCCCCCTCCGAAACG
1 CCTAAATTTTCCCCCTCCAAAACG
* *
112349889 CCTAATTTTTTCCCCTCTCAAAAC
1 CCTAAATTTTCCCCCTC-CAAAAC
112349913 ACCCCCCAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.25, C:0.40, G:0.04, T:0.31
Consensus pattern (24 bp):
CCTAAATTTTCCCCCTCCAAAACG
Found at i:112353940 original size:43 final size:42
Alignment explanation
Indices: 112353866--112354092 Score: 206
Period size: 43 Copynumber: 5.3 Consensus size: 42
112353856 AATCATTATT
* ** *
112353866 TTTAGCGGCGTTTGTGAGAAAAGTGCCGCTAAAGGTTATGATC
1 TTTAGCGGCGTTTGCGA-AAAAACGCCGCTAAAGGTTATGGTC
* * *
112353909 TTTAGCGGCGTTTGTGAAAAAACTGCTGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGCGAAAAAAC-GCCGCTAAAGGTTATGGTC
** * * * *
112353952 TTTAGTAGCGTTTGCAAAAAAAGCACCACTAAAAGTCT-TGGTC
1 TTTAGCGGCGTTTGCGAAAAAA-CGCCGCTAAAGGT-TATGGTC
* ** * *
112353995 TTTAGCGGCATTTGCGAAAATGCGCCGCTAAAAGTCT-TAGTC
1 TTTAGCGGCGTTTGCGAAAAAACGCCGCTAAAGGT-TATGGTC
* *
112354037 TTTAGCAGCGTTTGCGAAAAAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGCGAAAAAA-CGCCGCTAAAGGTTATGGTC
112354080 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
112354093 TTTTCAAAAA
Statistics
Matches: 148, Mismatches: 31, Indels: 10
0.78 0.16 0.05
Matches are distributed among these distances:
42 39 0.26
43 108 0.73
44 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (42 bp):
TTTAGCGGCGTTTGCGAAAAAACGCCGCTAAAGGTTATGGTC
Found at i:112354057 original size:85 final size:86
Alignment explanation
Indices: 112353907--112354088 Score: 231
Period size: 85 Copynumber: 2.1 Consensus size: 86
112353897 AAGGTTATGA
* * * * * *
112353907 TCTTTAGCGGCGTTTGTGAAAAAACTGCTGCTAAAGGTCATGGTCTTTAGTAGCGTTTGCAAAAA
1 TCTTTAGCGGCATTTGCGAAAAAACTGCCGCTAAAAGTCATAGTCTTTAGCAGCGTTTGCAAAAA
*
112353972 AAGCACCACTAAAAGTCTTGG
66 AAGCACCACTAAAAGTCATGG
** * *
112353993 TCTTTAGCGGCATTTGCGAAAATGC-GCCGCTAAAAGTCTTAGTCTTTAGCAGCGTTTGCGAAAA
1 TCTTTAGCGGCATTTGCGAAAAAACTGCCGCTAAAAGTCATAGTCTTTAGCAGCGTTTGCAAAAA
* * *
112354057 AAGCGCCGCTAAAGGTCATGG
66 AAGCACCACTAAAAGTCATGG
112354078 TCTTTAGCGGC
1 TCTTTAGCGGC
112354089 GTTTTTTTCA
Statistics
Matches: 82, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
85 61 0.74
86 21 0.26
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (86 bp):
TCTTTAGCGGCATTTGCGAAAAAACTGCCGCTAAAAGTCATAGTCTTTAGCAGCGTTTGCAAAAA
AAGCACCACTAAAAGTCATGG
Found at i:112362275 original size:42 final size:42
Alignment explanation
Indices: 112362229--112362407 Score: 268
Period size: 42 Copynumber: 4.3 Consensus size: 42
112362219 TAGAAAAGAC
** *
112362229 AAACTGAAGCTGGAGAAGGATGAAGCTGACTTAAAAGACAAG
1 AAACTGAAGCTGGATCAGGACGAAGCTGACTTAAAAGACAAG
112362271 AAACTGAAGCTGGATCAGGACGAAGCTGACTTAAAAGACAAG
1 AAACTGAAGCTGGATCAGGACGAAGCTGACTTAAAAGACAAG
* *
112362313 AAACTGAAGCTGGATCAGGACGAAGCTCACTTAAAAGAGAAG
1 AAACTGAAGCTGGATCAGGACGAAGCTGACTTAAAAGACAAG
* * * *
112362355 AAACTGAAGCTGGATCAGGACGAACCTGAGTTAAAAGAAAAC
1 AAACTGAAGCTGGATCAGGACGAAGCTGACTTAAAAGACAAG
*
112362397 CAACTGAAGCT
1 AAACTGAAGCT
112362408 AGCCAGGTTG
Statistics
Matches: 126, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 126 1.00
ACGTcount: A:0.44, C:0.16, G:0.26, T:0.15
Consensus pattern (42 bp):
AAACTGAAGCTGGATCAGGACGAAGCTGACTTAAAAGACAAG
Found at i:112362591 original size:74 final size:75
Alignment explanation
Indices: 112362462--112362654 Score: 307
Period size: 74 Copynumber: 2.6 Consensus size: 75
112362452 TGAAATACAG
* * *
112362462 TCTCAATGGTTTATTGGGATGTTTATGAACTGAAGATACTGCCAGTATGCATTTGTGTGATGG-T
1 TCTCAATGGTTTATTGGGATGTTTATGAACTGAAGATACAGACAATATGCATTTGTGTGATGGTT
112362526 TGTGTTTGAA
66 TGTGTTTGAA
* **
112362536 TGTCAATGGTTTATTGGGATGTTTATGAACTGAAGATACAGACAATATGTGTTTGTGTGATGGTT
1 TCTCAATGGTTTATTGGGATGTTTATGAACTGAAGATACAGACAATATGCATTTGTGTGATGG-T
112362601 TTGTGTTTGAA
65 TTGTGTTTGAA
*
112362612 TCCCAATGGTTTATTGGGATGTTTATGAACTGAAGATACAGAC
1 TCTCAATGGTTTATTGGGATGTTTATGAACTGAAGATACAGAC
112362655 TGTGTTTGTG
Statistics
Matches: 109, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
74 57 0.52
76 52 0.48
ACGTcount: A:0.25, C:0.09, G:0.26, T:0.39
Consensus pattern (75 bp):
TCTCAATGGTTTATTGGGATGTTTATGAACTGAAGATACAGACAATATGCATTTGTGTGATGGTT
TGTGTTTGAA
Found at i:112364086 original size:30 final size:30
Alignment explanation
Indices: 112364050--112364110 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
112364040 TAATTTAACA
*
112364050 AGCAAATG-CTTCTAAAATAATAACAAAATT
1 AGCAAATGTCTT-TAAAATAATAAAAAAATT
112364080 AGCAAATGTCTTTAAAATAATAAAAAAATT
1 AGCAAATGTCTTTAAAATAATAAAAAAATT
112364110 A
1 A
112364111 ACAATAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 26 0.90
31 3 0.10
ACGTcount: A:0.56, C:0.10, G:0.07, T:0.28
Consensus pattern (30 bp):
AGCAAATGTCTTTAAAATAATAAAAAAATT
Found at i:112366966 original size:13 final size:13
Alignment explanation
Indices: 112366948--112366973 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
112366938 TGTGAAAAAT
112366948 AAAATAAAATAAA
1 AAAATAAAATAAA
112366961 AAAATAAAATAAA
1 AAAATAAAATAAA
112366974 GAATACACAA
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAATAAAATAAA
Found at i:112368704 original size:9 final size:9
Alignment explanation
Indices: 112368690--112368766 Score: 127
Period size: 9 Copynumber: 8.6 Consensus size: 9
112368680 ATAAGCATAA
112368690 AATTAACCG
1 AATTAACCG
112368699 AATTAACCG
1 AATTAACCG
*
112368708 AATTAATCG
1 AATTAACCG
112368717 AATTAACCG
1 AATTAACCG
112368726 AATTAACCG
1 AATTAACCG
*
112368735 AATTACCCG
1 AATTAACCG
112368744 AATTAACCG
1 AATTAACCG
*
112368753 AATTAACTG
1 AATTAACCG
112368762 AATTA
1 AATTA
112368767 TTTGTATAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 63 1.00
ACGTcount: A:0.44, C:0.19, G:0.10, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:112368803 original size:14 final size:14
Alignment explanation
Indices: 112368778--112368827 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
112368768 TTGTATAAAG
112368778 TTATATTTTTTATATT
1 TTATA-TTTTTAT-TT
112368794 TT-TATTTTTATTT
1 TTATATTTTTATTT
*
112368807 TTAGATTTTTATTT
1 TTATATTTTTATTT
*
112368821 TTTTATT
1 TTATATT
112368828 ACATTATTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 4 0.13
14 22 0.73
15 2 0.07
16 2 0.07
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (14 bp):
TTATATTTTTATTT
Found at i:112368809 original size:20 final size:20
Alignment explanation
Indices: 112368784--112368822 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
112368774 AAAGTTATAT
*
112368784 TTTTTATATTTTTATTTTTA
1 TTTTTAGATTTTTATTTTTA
112368804 TTTTTAGATTTTTATTTTT
1 TTTTTAGATTTTTATTTTT
112368823 TTATTACATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (20 bp):
TTTTTAGATTTTTATTTTTA
Found at i:112374480 original size:25 final size:25
Alignment explanation
Indices: 112374452--112374504 Score: 65
Period size: 24 Copynumber: 2.1 Consensus size: 25
112374442 AAGTAAAAAT
112374452 AAATTATAATAGT-ATAAAAATAG-TG
1 AAATTA-AATA-TAATAAAAATAGATG
*
112374477 AAATTAAGTATAATAAAAATAGATG
1 AAATTAAATATAATAAAAATAGATG
112374502 AAA
1 AAA
112374505 CCCATATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 1 0.04
24 13 0.52
25 11 0.44
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.28
Consensus pattern (25 bp):
AAATTAAATATAATAAAAATAGATG
Found at i:112375498 original size:44 final size:46
Alignment explanation
Indices: 112375414--112375503 Score: 130
Period size: 44 Copynumber: 2.0 Consensus size: 46
112375404 TAATACATTT
*
112375414 GAATAGAGCTGTAATCAGTAATTCAACTGTTTGGTTGAATGGAATG
1 GAATAGAACTGTAATCAGTAATTCAACTGTTTGGTTGAATGGAATG
***
112375460 GAATAGAACTGTAAT-AGT-ATTCTTGTGTTTGGTTGAATGGAATG
1 GAATAGAACTGTAATCAGTAATTCAACTGTTTGGTTGAATGGAATG
112375504 ATGTTGTAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 23 0.57
45 3 0.08
46 14 0.35
ACGTcount: A:0.31, C:0.07, G:0.27, T:0.36
Consensus pattern (46 bp):
GAATAGAACTGTAATCAGTAATTCAACTGTTTGGTTGAATGGAATG
Found at i:112375670 original size:58 final size:58
Alignment explanation
Indices: 112375608--112375731 Score: 160
Period size: 58 Copynumber: 2.1 Consensus size: 58
112375598 TTTTAATAAG
* * *
112375608 ATTATTATTAAAAATAATTTAATAAAAATAATAAATAGTTTAACCATATT-TTAACATA
1 ATTATTATTAAAAATAATTTAAT-AAAATAATAAATAATTTAACAAAATTCTTAACATA
* * * * *
112375666 ATTATTATTAAATATAATTTAATTAAATAATATATAATTTAATAAAATTCTTAATATA
1 ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAACAAAATTCTTAACATA
112375724 ATTATTAT
1 ATTATTAT
112375732 ATGAATTAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
57 20 0.35
58 37 0.65
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (58 bp):
ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAACAAAATTCTTAACATA
Found at i:112377596 original size:2 final size:2
Alignment explanation
Indices: 112377589--112377641 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
112377579 GAGACTAGTC
112377589 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
112377631 AT AT AT AT AT A
1 AT AT AT AT AT A
112377642 CATGTCATGA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:112383554 original size:117 final size:118
Alignment explanation
Indices: 112383395--112383624 Score: 381
Period size: 117 Copynumber: 2.0 Consensus size: 118
112383385 TATTTCCGGT
112383395 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
* *
112383460 CCTA-CCCGGTTACTCAGTCAGTCACGATTTGAGCCATACTCATAACCTCGGC
66 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCGGC
****
112383512 TAGCGGAGTTTTACTTGTCACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
**
112383577 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCTGTACTCATAACC
66 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACC
112383625 ATGGAAAACA
Statistics
Matches: 104, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
117 65 0.62
118 39 0.38
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.23
Consensus pattern (118 bp):
TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCGGC
Found at i:112384423 original size:42 final size:41
Alignment explanation
Indices: 112384377--112384506 Score: 165
Period size: 42 Copynumber: 3.2 Consensus size: 41
112384367 TGAAAAGGGG
* * * *
112384377 TGTTTGGCTGCAGGTTTTGGGGATTCTAGGCTGGAATAGGAC
1 TGTTTGGCTGCAGGATAT-GGCATTCTAGGCTGGAATAGAAC
*
112384419 TGTTTGGCTGCAGAGATATGGCATTCTGGGCTGGAATAGAAC
1 TGTTTGGCTGCAG-GATATGGCATTCTAGGCTGGAATAGAAC
* *
112384461 TGTTTGGCAGCAGGATA-GGCATTTTAGG-TGGAATAGAAC
1 TGTTTGGCTGCAGGATATGGCATTCTAGGCTGGAATAGAAC
112384500 TGTTTGG
1 TGTTTGG
112384507 TACCATGCAC
Statistics
Matches: 79, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 18 0.23
40 9 0.11
41 4 0.05
42 45 0.57
43 3 0.04
ACGTcount: A:0.22, C:0.12, G:0.35, T:0.32
Consensus pattern (41 bp):
TGTTTGGCTGCAGGATATGGCATTCTAGGCTGGAATAGAAC
Found at i:112384604 original size:5 final size:5
Alignment explanation
Indices: 112384594--112384665 Score: 58
Period size: 5 Copynumber: 14.0 Consensus size: 5
112384584 AATATTTAAC
* * *
112384594 TAAAA TAAAA TAAAA TAAAA TAAAA TAATAA -ATAA TAAAA GAAAA -AAAG
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAA-AA TAAAA TAAAA TAAAA TAAAA
*
112384643 GAAAA TAATAAA TAAAAA TAAAA
1 TAAAA T-A-AAA T-AAAA TAAAA
112384666 AGAAAGATTG
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
4 5 0.09
5 38 0.68
6 7 0.12
7 6 0.11
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (5 bp):
TAAAA
Found at i:112384653 original size:29 final size:30
Alignment explanation
Indices: 112384597--112384657 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 30
112384587 ATTTAACTAA
* *
112384597 AATAAAATAAAATAAAATAAAATAATAAAT
1 AATAAAAGAAAATAAAAGAAAATAATAAAT
*
112384627 AATAAAAGAAAA-AAAGGAAAATAATAAAT
1 AATAAAAGAAAATAAAAGAAAATAATAAAT
112384656 AA
1 AA
112384658 AAATAAAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 17 0.61
30 11 0.39
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (30 bp):
AATAAAAGAAAATAAAAGAAAATAATAAAT
Found at i:112384655 original size:7 final size:6
Alignment explanation
Indices: 112384595--112384666 Score: 51
Period size: 7 Copynumber: 11.7 Consensus size: 6
112384585 ATATTTAACT
* **
112384595 AAAAT- AAAAT- AAAAT- AAAATAA AATAATA AATAATA AAAGAAA AAAAGG
1 AAAATA AAAATA AAAATA AAAAT-A AA-AATA AA-AATA AAA-ATA AAAATA
112384644 AAAATA ATAAATA AAAATA AAAA
1 AAAATA A-AAATA AAAATA AAAA
112384667 GAAAGATTGG
Statistics
Matches: 57, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
5 15 0.26
6 16 0.28
7 23 0.40
8 3 0.05
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:112388381 original size:20 final size:20
Alignment explanation
Indices: 112388343--112388390 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
112388333 TAAATTCTAA
* **
112388343 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
112388363 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
112388383 AAA-ATAAA
1 AAAGATAAA
112388391 ATCCTAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:112393202 original size:25 final size:25
Alignment explanation
Indices: 112393172--112393382 Score: 231
Period size: 25 Copynumber: 8.7 Consensus size: 25
112393162 GACCTCAGCA
112393172 TGCTCTCTGATTATTAGCACGTCAG
1 TGCTCTCTGATTATTAGCACGTCAG
* *
112393197 TGCTCTCTGAATATTAGCACGACAG
1 TGCTCTCTGATTATTAGCACGTCAG
* *
112393222 TGCTCTCCGATTATTAGCATGTCAG
1 TGCTCTCTGATTATTAGCACGTCAG
* * *
112393247 TGCTCTCTAATTATTAGCATGCCAG
1 TGCTCTCTGATTATTAGCACGTCAG
* *
112393272 TGCTCTCTGATTATTAGTACGCCAG
1 TGCTCTCTGATTATTAGCACGTCAG
112393297 TGCTCTCTGA-TATTTAGCACGTCAG
1 TGCTCTCTGATTA-TTAGCACGTCAG
* **
112393322 TGCTCTCTG---ATTAGCACATTTG
1 TGCTCTCTGATTATTAGCACGTCAG
*
112393344 TGCTCTCTG--TA-TAGCACTTCAG
1 TGCTCTCTGATTATTAGCACGTCAG
112393366 TGCTCTCTG-TTCATTAG
1 TGCTCTCTGATT-ATTAG
112393383 TGCATAATAA
Statistics
Matches: 161, Mismatches: 20, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
22 35 0.22
23 3 0.02
24 3 0.02
25 120 0.75
ACGTcount: A:0.20, C:0.24, G:0.19, T:0.36
Consensus pattern (25 bp):
TGCTCTCTGATTATTAGCACGTCAG
Found at i:112394317 original size:13 final size:14
Alignment explanation
Indices: 112394296--112394332 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
112394286 TCTGAAAGGC
*
112394296 AAATGTGAAATATT
1 AAATGTGAAATATA
112394310 AAAT-TGAAA-ATA
1 AAATGTGAAATATA
112394322 AAATGTGAAAT
1 AAATGTGAAAT
112394333 GAAAGGATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
12 6 0.30
13 10 0.50
14 4 0.20
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.30
Consensus pattern (14 bp):
AAATGTGAAATATA
Found at i:112399383 original size:3 final size:3
Alignment explanation
Indices: 112399375--112399463 Score: 72
Period size: 3 Copynumber: 29.3 Consensus size: 3
112399365 TTGTTATCAG
* ** * * *
112399375 TAT TAT TAT TAT CAT TGC TAT TTT TAT TTT TAT TAC TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
112399423 T-T TAC TAG TAT TATT TAT TATT TAT TAT TAT TAC TAT TAT T
1 TAT TAT TAT TAT TA-T TAT TA-T TAT TAT TAT TAT TAT TAT T
112399464 GTCATTATCA
Statistics
Matches: 66, Mismatches: 17, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
2 2 0.03
3 58 0.88
4 6 0.09
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:112399717 original size:3 final size:3
Alignment explanation
Indices: 112399709--112399960 Score: 192
Period size: 3 Copynumber: 82.7 Consensus size: 3
112399699 CAAAGTTTAG
112399709 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
** * ** * *
112399757 ATT ATT GCT ATT ACT ATT ATT ATT ATT ATT -TCCT -TT AGC ACT ATC
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT--T ATT ATT ATT ATT
* * * * *
112399802 ACT GTT ATT A-T ATT ATT -TGT CTT GTT AATGT ACT ATT ATT ATT -TCCT
1 ATT ATT ATT ATT ATT ATT AT-T ATT ATT -AT-T ATT ATT ATT ATT AT--T
* * * * * * *
112399849 ACTT AACTT -CT ACT ACT ACT ACT ACT ACT ATT ATT ATT ATT ATT ATT
1 A-TT -A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
112399896 ATT ATT ATT ACT 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
112399944 ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT AT
112399961 CACTTTTGTA
Statistics
Matches: 210, Mismatches: 25, Indels: 28
0.80 0.10 0.11
Matches are distributed among these distances:
2 7 0.03
3 190 0.90
4 7 0.03
5 5 0.02
6 1 0.00
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:112400241 original size:27 final size:27
Alignment explanation
Indices: 112400191--112400245 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
112400181 TATATACATG
112400191 TGTATTTTTCATGTTCATATTAGTATT
1 TGTATTTTTCATGTTCATATTAGTATT
112400218 TGTATTTTTCATGTTCATATTAGTATT
1 TGTATTTTTCATGTTCATATTAGTATT
112400245 T
1 T
112400246 CTACTATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.22, C:0.07, G:0.11, T:0.60
Consensus pattern (27 bp):
TGTATTTTTCATGTTCATATTAGTATT
Found at i:112404835 original size:18 final size:19
Alignment explanation
Indices: 112404806--112404842 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
112404796 CAGTATCATT
112404806 TTGTGCGTGATATTATTGC
1 TTGTGCGTGATATTATTGC
112404825 TTGTG-GTGATATTATTGC
1 TTGTGCGTGATATTATTGC
112404843 GACCAAAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.16, C:0.08, G:0.27, T:0.49
Consensus pattern (19 bp):
TTGTGCGTGATATTATTGC
Found at i:112405153 original size:24 final size:24
Alignment explanation
Indices: 112405090--112405146 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
112405080 TTTCTAGAAG
* * *
112405090 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATCTATTAGCATAATAT
112405114 ATTTAGCATCTATTAGCATAATAT
1 ATTTAGCATCTATTAGCATAATAT
*
112405138 ATTTGGCAT
1 ATTTAGCAT
112405147 TGATTAGAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.35, C:0.07, G:0.11, T:0.47
Consensus pattern (24 bp):
ATTTAGCATCTATTAGCATAATAT
Found at i:112406002 original size:110 final size:109
Alignment explanation
Indices: 112405797--112406032 Score: 384
Period size: 110 Copynumber: 2.2 Consensus size: 109
112405787 ATTTTAATAA
* *
112405797 AAATGTTGAGCACCAAACGCACAATACGTATTAACAAGCTCAATGGCCTAAAGACTTTGACCGTA
1 AAATGTTGAGCACCAAACGCACAATACATATTAACAAGCTCAATGGCCTAAAGACTTAGACCGTA
* *
112405862 AGCTCGACTCCAAAATGAAAAGTAATTGAAACGCGTTATCTAAT
66 AGCTCGACTCCAAAATGAAAAGCAACTGAAACGCGTTATCTAAT
* *
112405906 AAATGTTGAGACACCAAACGCACGATACATATTAACAAGCTCAATGGTCTAAAGACTTAGACCGT
1 AAATGTTGAG-CACCAAACGCACAATACATATTAACAAGCTCAATGGCCTAAAGACTTAGACCGT
*
112405971 AAGCAT-GACTCCAAAATGAAAAGCAACTGAAACGCGTTTTCTAAT
65 AAGC-TCGACTCCAAAATGAAAAGCAACTGAAACGCGTTATCTAAT
112406016 AAATGTTGAGCACCAAA
1 AAATGTTGAGCACCAAA
112406033 TTGAAAAGCA
Statistics
Matches: 118, Mismatches: 7, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
109 17 0.14
110 100 0.85
111 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.17, T:0.22
Consensus pattern (109 bp):
AAATGTTGAGCACCAAACGCACAATACATATTAACAAGCTCAATGGCCTAAAGACTTAGACCGTA
AGCTCGACTCCAAAATGAAAAGCAACTGAAACGCGTTATCTAAT
Found at i:112418201 original size:21 final size:21
Alignment explanation
Indices: 112418175--112418215 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
112418165 ATCTGCTCAA
* *
112418175 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
112418196 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
112418216 TCGCTTGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:112422887 original size:3 final size:3
Alignment explanation
Indices: 112422879--112422911 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
112422869 ATAAACCAAC
112422879 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
112422912 GATAACAGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:112422975 original size:5 final size:5
Alignment explanation
Indices: 112422965--112423034 Score: 51
Period size: 5 Copynumber: 14.2 Consensus size: 5
112422955 TAAACAGAAT
* *
112422965 AATAA AATAA AATAA AATAA ACTAA GCAA-AA GAATGA AAT-A AAT-A
1 AATAA AATAA AATAA AATAA AATAA --AATAA -AATAA AATAA AATAA
112423010 AATAA AATAA AA-AA TAA-AA AATAA A
1 AATAA AATAA AATAA -AATAA AATAA A
112423035 TAGGGAAAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
4 12 0.22
5 39 0.71
6 3 0.05
7 1 0.02
ACGTcount: A:0.76, C:0.03, G:0.04, T:0.17
Consensus pattern (5 bp):
AATAA
Found at i:112422989 original size:32 final size:30
Alignment explanation
Indices: 112422930--112423034 Score: 85
Period size: 32 Copynumber: 3.4 Consensus size: 30
112422920 GTAAAATAGT
*
112422930 AATAAAACAATAATAATAAAAT-TACTAAACA
1 AATAAAA-AATAA-AATAAAATAAACTAAACA
*
112422961 GAATAATAAAATAAAATAAAATAAACTAAGCA
1 -AATAA-AAAATAAAATAAAATAAACTAAACA
*
112422993 AA-AGAATGAAAT-AAAT-AAATAAAATAAA-A
1 AATA-AA--AAATAAAATAAAATAAACTAAACA
112423022 AATAAAAAATAAA
1 AATAAAAAATAAA
112423035 TAGGGAAAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
27 4 0.06
28 2 0.03
29 5 0.08
30 13 0.21
31 15 0.24
32 21 0.34
33 2 0.03
ACGTcount: A:0.72, C:0.05, G:0.04, T:0.19
Consensus pattern (30 bp):
AATAAAAAATAAAATAAAATAAACTAAACA
Found at i:112423026 original size:12 final size:13
Alignment explanation
Indices: 112423001--112423036 Score: 51
Period size: 11 Copynumber: 3.0 Consensus size: 13
112422991 CAAAAGAATG
112423001 AAATAAATAAATA
1 AAATAAATAAATA
112423014 AAATAAA-AAAT-
1 AAATAAATAAATA
112423025 AAA-AAATAAATA
1 AAATAAATAAATA
112423037 GGGAAAATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
10 3 0.14
11 7 0.33
12 4 0.19
13 7 0.33
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (13 bp):
AAATAAATAAATA
Found at i:112425022 original size:32 final size:33
Alignment explanation
Indices: 112424954--112425027 Score: 109
Period size: 33 Copynumber: 2.3 Consensus size: 33
112424944 AAACAAGTAC
112424954 ATTTATATTATTTATGTATAATTAGTGAAAAGAT
1 ATTT-TATTATTTATGTATAATTAGTGAAAAGAT
112424988 ATTTTATTATTTAT-TATTAATTAGT-AAAAGAT
1 ATTTTATTATTTATGTA-TAATTAGTGAAAAGAT
112425020 A-TTTATTA
1 ATTTTATTA
112425028 GATGATTATT
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
31 7 0.18
32 10 0.26
33 18 0.46
34 4 0.10
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (33 bp):
ATTTTATTATTTATGTATAATTAGTGAAAAGAT
Found at i:112425047 original size:31 final size:32
Alignment explanation
Indices: 112424972--112425047 Score: 93
Period size: 31 Copynumber: 2.4 Consensus size: 32
112424962 TATTTATGTA
* *
112424972 TAATTAGTGAAAAGATATTTTATTATTTATTAT
1 TAATTAGT-AAAAGATATTTTATTAATGATTAT
112425005 TAATTAGTAAAAGATA-TTTATTAGATGATTAT
1 TAATTAGTAAAAGATATTTTATTA-ATGATTAT
*
112425037 T-ATTATTAAAA
1 TAATTAGTAAAA
112425048 TTATTAATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
31 16 0.41
32 15 0.38
33 8 0.21
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.47
Consensus pattern (32 bp):
TAATTAGTAAAAGATATTTTATTAATGATTAT
Found at i:112436861 original size:19 final size:21
Alignment explanation
Indices: 112436834--112436872 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
112436824 TGTAATGTTA
112436834 TGAACAAT-ATTTGT-TAATG
1 TGAACAATAATTTGTATAATG
*
112436853 TGAAGAATAATTTGTATAAT
1 TGAACAATAATTTGTATAAT
112436873 TAATATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 6 0.35
21 4 0.24
ACGTcount: A:0.41, C:0.03, G:0.15, T:0.41
Consensus pattern (21 bp):
TGAACAATAATTTGTATAATG
Found at i:112438697 original size:7 final size:7
Alignment explanation
Indices: 112438685--112438712 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
112438675 CCGTAGCCCT
112438685 TTTCATA
1 TTTCATA
112438692 TTTCATA
1 TTTCATA
112438699 TTTCATA
1 TTTCATA
112438706 TTTCATA
1 TTTCATA
112438713 ATACTAGGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.00, T:0.57
Consensus pattern (7 bp):
TTTCATA
Found at i:112438737 original size:31 final size:31
Alignment explanation
Indices: 112438699--112438762 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
112438689 ATATTTCATA
112438699 TTTCATATTTCATAATACTAGGCCGAAGCCT
1 TTTCATATTTCATAATACTAGGCCGAAGCCT
* *
112438730 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTAGGCCGAAGCCT
112438761 TT
1 TT
112438763 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTAGGCCGAAGCCT
Found at i:112439005 original size:24 final size:24
Alignment explanation
Indices: 112438954--112439073 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
112438944 GCTTTATCAT
*
112438954 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
112438979 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
*
112439003 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
112439027 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
112439051 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
112439074 TCACTTCCTC
Statistics
Matches: 88, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
24 76 0.86
25 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:112439149 original size:20 final size:20
Alignment explanation
Indices: 112439124--112439183 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
112439114 TATGATTACC
112439124 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
112439144 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
112439164 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
112439184 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:112439258 original size:25 final size:25
Alignment explanation
Indices: 112439226--112439273 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
112439216 ATACATAAAC
* * *
112439226 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
112439251 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
112439274 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:112440544 original size:27 final size:27
Alignment explanation
Indices: 112440513--112440723 Score: 230
Period size: 27 Copynumber: 7.8 Consensus size: 27
112440503 GGGTATTTTA
* *
112440513 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
112440540 ATAATTATGTAAATCTG-GGGTAAAATG
1 GTAATTCTATAAATC-GAGGGTAAAACG
* * *
112440567 GTAATTATGTAAAT-TAGGGGTAAAACG
1 GTAATTCTATAAATCGA-GGGTAAAACG
**
112440594 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
112440621 GTAATTCTGTAAA-CTGAGGGTAAAATG
1 GTAATTCTATAAATC-GAGGGTAAAACG
112440648 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
112440675 GTAATTTTACAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
112440702 GTAATTCTATAAATCGAGGGTA
1 GTAATTCTATAAATCGAGGGTA
112440724 CTTTGGTAAT
Statistics
Matches: 158, Mismatches: 20, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.01
27 154 0.97
28 3 0.02
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:112440561 original size:54 final size:54
Alignment explanation
Indices: 112440513--112440750 Score: 250
Period size: 54 Copynumber: 4.4 Consensus size: 54
112440503 GGGTATTTTA
* *
112440513 GTAATTTTGTAAATCGAGGGTAAAACGATAATTATGTAAATCTG-GGGTAAAATG
1 GTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATC-GAGGGTAAAATG
* * * *
112440567 GTAATTATGTAAAT-TAGGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTTTGTAAATCGA-GGGTAAAACGATAATTCTATAAATCGAGGGTAAAATG
* * * *
112440621 GTAATTCTGTAAA-CTGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTTTGTAAATC-GAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATG
** ***
112440675 GTAATTTTACAAATCGAGGGTAAAAC-AGTAATTCTATAAATCGAGGGTACTTTG
1 GTAATTTTGTAAATCGAGGGTAAAACGA-TAATTCTATAAATCGAGGGTAAAATG
** *
112440729 GTAATTTTACAAGTCGAGGGTA
1 GTAATTTTGTAAATCGAGGGTA
112440751 TTTCAATAAT
Statistics
Matches: 157, Mismatches: 21, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
53 2 0.01
54 153 0.97
55 2 0.01
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (54 bp):
GTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATG
Found at i:112440708 original size:81 final size:81
Alignment explanation
Indices: 112440513--112440750 Score: 277
Period size: 81 Copynumber: 2.9 Consensus size: 81
112440503 GGGTATTTTA
* * *
112440513 GTAATTTTGTAAATCGAGGGTAAAAC-GATAATTATGTAAATCTG-GGGTAAAATGGTAATTATG
1 GTAATTTTATAAATCGAGGGTAAAACAG-TAATTCTGTAAA-CTGAGGGTAAAATGGTAATTATA
*
112440576 TAAAT-TAGGGGTAAAACG
64 TAAATCGA-GGGTAAAACG
* * *
112440594 GTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAATGGTAATTCTATA
1 GTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAATGGTAATTATATA
112440659 AATCGAGGGTAAAACG
66 AATCGAGGGTAAAACG
* * *** * *
112440675 GTAATTTTACAAATCGAGGGTAAAACAGTAATTCTATAAA-TCGAGGGTACTTTGGTAATTTTAC
1 GTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAACT-GAGGGTAAAATGGTAATTATAT
*
112440739 AAGTCGAGGGTA
65 AAATCGAGGGTA
112440751 TTTCAATAAT
Statistics
Matches: 136, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
80 4 0.03
81 130 0.96
82 2 0.01
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (81 bp):
GTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAATGGTAATTATATA
AATCGAGGGTAAAACG
Found at i:112440732 original size:27 final size:27
Alignment explanation
Indices: 112440513--112440750 Score: 221
Period size: 27 Copynumber: 8.8 Consensus size: 27
112440503 GGGTATTTTA
* * *
112440513 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * *
112440540 ATAATTATGTAAATCTG-GGGTAAAATG
1 GTAATTCTATAAATC-GAGGGTAAAATG
* * * *
112440567 GTAATTATGTAAAT-TAGGGGTAAAACG
1 GTAATTCTATAAATCGA-GGGTAAAATG
*
112440594 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAATG
*
112440621 GTAATTCTGTAAA-CTGAGGGTAAAATG
1 GTAATTCTATAAATC-GAGGGTAAAATG
*
112440648 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * **
112440675 GTAATTTTACAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAATG
***
112440702 GTAATTCTATAAATCGAGGGTACTTTG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * *
112440729 GTAATTTTACAAGTCGAGGGTA
1 GTAATTCTATAAATCGAGGGTA
112440751 TTTCAATAAT
Statistics
Matches: 177, Mismatches: 28, Indels: 12
0.82 0.13 0.06
Matches are distributed among these distances:
26 1 0.01
27 173 0.98
28 3 0.02
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAATG
Found at i:112440760 original size:27 final size:27
Alignment explanation
Indices: 112440648--112440924 Score: 179
Period size: 27 Copynumber: 10.3 Consensus size: 27
112440638 GGGTAAAATG
* * *** *
112440648 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTTTACAAATCGAGGGTATTTCA
***
112440675 GTAATTTTACAAATCGAGGGTAAAACA
1 GTAATTTTACAAATCGAGGGTATTTCA
* * *
112440702 GTAATTCTATAAATCGAGGGTACTTT-G
1 GTAATTTTACAAATCGAGGGTA-TTTCA
*
112440729 GTAATTTTACAAGTCGAGGGTATTTCA
1 GTAATTTTACAAATCGAGGGTATTTCA
* **
112440756 ATAATTTTACAGGTCGAGGGTATTTCA
1 GTAATTTTACAAATCGAGGGTATTTCA
* * **
112440783 GTAATTTCACAAAT-TAGGGGTATTTTG
1 GTAATTTTACAAATCGA-GGGTATTTCA
* *
112440810 GTAATTTTACAAA-CTAGGGGTATTT-T
1 GTAATTTTACAAATCGA-GGGTATTTCA
* **
112440836 GATAATTTTACAAA-CTAGGGGTATTTTG
1 G-TAATTTTACAAATCGA-GGGTATTTCA
* * * *
112440864 GTAATTTTATAAACCAAGGGTATTTTA
1 GTAATTTTACAAATCGAGGGTATTTCA
* **
112440891 GTAATTTTACAAAGC-AGGGTATTTTG
1 GTAATTTTACAAATCGAGGGTATTTCA
112440917 GTAATTTT
1 GTAATTTT
112440925 GTAAACCAAA
Statistics
Matches: 212, Mismatches: 31, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
26 23 0.11
27 186 0.88
28 3 0.01
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (27 bp):
GTAATTTTACAAATCGAGGGTATTTCA
Found at i:112440761 original size:81 final size:80
Alignment explanation
Indices: 112440595--112440849 Score: 212
Period size: 81 Copynumber: 3.1 Consensus size: 80
112440585 GGTAAAACGG
* * * * **
112440595 TAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAA-CTGAGGGTAAAATGGTAATTCTATA
1 TAATTTTACAAATCGAGGGTAAAACAGTAATTCTATAAATC-GAGGGTAATTTGGTAATT-T-TA
*** *
112440659 -AATCGAGGGTAAAACGG
63 CAATCGAGGGTATTTCGA
*
112440676 TAATTTTACAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTACTTTGGTAATTTTACAA
1 TAATTTTACAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAATTTGGTAATTTTACAA
*
112440741 GTCGAGGGTATTTCAA
66 -TCGAGGGTATTTCGA
** *** * * *
112440757 TAATTTTACAGGTCGAGGGTATTTCAGTAATT-TCACAAAT-TAGGGGTATTTTGGTAATTTTAC
1 TAATTTTACAAATCGAGGGTAAAACAGTAATTCT-ATAAATCGA-GGGTAATTTGGTAATTTTAC
* * *
112440820 AAACTAGGGGTATTTTGA
64 AATCGA-GGGTATTTCGA
112440838 TAATTTTACAAA
1 TAATTTTACAAA
112440850 CTAGGGGTAT
Statistics
Matches: 142, Mismatches: 26, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
79 2 0.01
80 7 0.05
81 132 0.93
82 1 0.01
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.34
Consensus pattern (80 bp):
TAATTTTACAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAATTTGGTAATTTTACAA
TCGAGGGTATTTCGA
Found at i:112440858 original size:81 final size:81
Alignment explanation
Indices: 112440718--112440924 Score: 206
Period size: 81 Copynumber: 2.6 Consensus size: 81
112440708 CTATAAATCG
* * * ** ** *
112440718 AGGGTACTTTGGTAATTTTAC-AAGTCGAGGGTATTTCAATAATTTTACAGGTCGAGGGTATTTC
1 AGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGATAATTTTACAACTAGAGGGTATTTC
**
112440782 AGTAATTTCACAAATTA
65 AGTAATTTCACAAACCA
* *
112440799 GGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACTAG-GGGTATTTT
1 AGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTAC-AACTAGAGGGTATTTC
* * *
112440863 GGTAATTTTATAAACCA
65 AGTAATTTCACAAACCA
* *
112440880 AGGGTATTTTAGTAATTTTACAAAGC-A-GGGTATTTTGGTAATTTT
1 AGGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGATAATTTT
112440925 GTAAACCAAA
Statistics
Matches: 105, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
80 17 0.16
81 80 0.76
82 8 0.08
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.40
Consensus pattern (81 bp):
AGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAACTAGAGGGTATTTCA
GTAATTTCACAAACCA
Found at i:112440938 original size:26 final size:26
Alignment explanation
Indices: 112440801--112440941 Score: 138
Period size: 27 Copynumber: 5.3 Consensus size: 26
112440791 ACAAATTAGG
* * *
112440801 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTATAAACCA-A
* * * *
112440828 GGTATTTTGATAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTATAAACCA-A
112440855 GGTATTTTGGTAATTTTATAAACCAA
1 GGTATTTTGGTAATTTTATAAACCAA
* * * *
112440881 GGGTATTTTAGTAATTTTACAAAGCAG
1 -GGTATTTTGGTAATTTTATAAACCAA
*
112440908 GGTATTTTGGTAATTTTGTAAACCAA
1 GGTATTTTGGTAATTTTATAAACCAA
*
112440934 AGTATTTT
1 GGTATTTT
112440942 AAACATGGAT
Statistics
Matches: 98, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
26 28 0.29
27 70 0.71
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.42
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTATAAACCAA
Found at i:112442661 original size:13 final size:13
Alignment explanation
Indices: 112442643--112442670 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
112442633 TTTATAGAAG
112442643 ATTACTACTGACT
1 ATTACTACTGACT
112442656 ATTACTACTGACT
1 ATTACTACTGACT
112442669 AT
1 AT
112442671 CCTCTCTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.39
Consensus pattern (13 bp):
ATTACTACTGACT
Found at i:112442727 original size:18 final size:17
Alignment explanation
Indices: 112442706--112442739 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
112442696 TTTGCACCAG
112442706 ACTAACAACTCCTAACAA
1 ACTAACAACT-CTAACAA
*
112442724 ACTAACTACTCTAACA
1 ACTAACAACTCTAACA
112442740 TGCATCCATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (17 bp):
ACTAACAACTCTAACAA
Found at i:112447564 original size:13 final size:13
Alignment explanation
Indices: 112447548--112447575 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
112447538 TTTATAGAAG
112447548 ATTACTACTGACT
1 ATTACTACTGACT
112447561 ATTACTACTGACT
1 ATTACTACTGACT
112447574 AT
1 AT
112447576 CCTCTCTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.39
Consensus pattern (13 bp):
ATTACTACTGACT
Found at i:112447632 original size:18 final size:17
Alignment explanation
Indices: 112447611--112447644 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
112447601 TTTGCACCAG
112447611 ACTAACAACTCCTAACAA
1 ACTAACAACT-CTAACAA
*
112447629 ACTAACTACTCTAACA
1 ACTAACAACTCTAACA
112447645 CATTCAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (17 bp):
ACTAACAACTCTAACAA
Found at i:112450134 original size:2 final size:2
Alignment explanation
Indices: 112450127--112450158 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
112450117 TTTGCCATTC
112450127 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
112450159 GCTGGAACCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:112451132 original size:14 final size:14
Alignment explanation
Indices: 112451113--112451141 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
112451103 TTAATCATTT
112451113 ACTATAATAATAGC
1 ACTATAATAATAGC
112451127 ACTATAATAATAGC
1 ACTATAATAATAGC
112451141 A
1 A
112451142 GGAGCAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.14, G:0.07, T:0.28
Consensus pattern (14 bp):
ACTATAATAATAGC
Found at i:112459309 original size:93 final size:93
Alignment explanation
Indices: 112459196--112459368 Score: 267
Period size: 93 Copynumber: 1.9 Consensus size: 93
112459186 CGCCCATAAG
*
112459196 CGAACTCGGACTCAACTCAACAAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACAAGCTC-GGACACTCGCATCCATAAGTGAACTCGGACTCAACTC
*
112459260 AATGAGCTCGGATGCCTAGTTACATCTCA
65 AACGAGCTCGGATGCCTAGTTACATCTCA
* * * *
112459289 CGAACTTGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGACACTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
112459354 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
112459369 CAAATATCCC
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACAAGCTCGGACACTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:112459364 original size:46 final size:46
Alignment explanation
Indices: 112459189--112459364 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
112459179 TGTAACCCGC
* **
112459189 CCATAAGCGAACTCGGACTCAACTCAACAAGCTCAGG-CATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC-GGACGCTCGCAT
* * * *
112459235 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCG---CAT
* * *
112459285 -C-TCA-CGAACTTGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* *
112459328 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
112459365 TGCCCAAATA
Statistics
Matches: 105, Mismatches: 17, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 4 0.04
46 62 0.59
47 29 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:112459383 original size:46 final size:45
Alignment explanation
Indices: 112459240--112459383 Score: 121
Period size: 46 Copynumber: 3.1 Consensus size: 45
112459230 CGCATCCATA
* * * *
112459240 AGTGAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * * *
112459288 A-CGAACTTGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
112459333 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
112459379 AGTGA
1 AGTGA
112459384 CATGTCACTT
Statistics
Matches: 74, Mismatches: 17, Indels: 12
0.72 0.17 0.12
Matches are distributed among these distances:
43 4 0.05
45 1 0.01
46 36 0.49
47 28 0.38
48 5 0.07
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:112460972 original size:41 final size:40
Alignment explanation
Indices: 112460911--112461300 Score: 410
Period size: 41 Copynumber: 9.6 Consensus size: 40
112460901 TAATAAACAT
* *
112460911 TAGCGGCG--TTTGGCCGAAACGCCACTACAAACTGAACAA
1 TAGCGGCGTTTTTGGCC-AAACGCCACTAAAAACTGATCAA
*
112460950 TAGCGGCGTTTTTGGCCAAAACGCCACTAAAAACTGGTCAA
1 TAGCGGCGTTTTTGGCC-AAACGCCACTAAAAACTGATCAA
* * *
112460991 TAGCTGCGTTTTTGGCCAAACACCACTAAAAGCTGATCAA
1 TAGCGGCGTTTTTGGCCAAACGCCACTAAAAACTGATCAA
** ** *
112461031 TAGCGGCGTTTTTATCCCAAACGCCACTAAAAAGGGAACAA
1 TAGCGGCGTTTTT-GGCCAAACGCCACTAAAAACTGATCAA
* *
112461072 TAGCGGCGTTTTTGGCCAAATGCCACTAAAAACCTGATTAA
1 TAGCGGCGTTTTTGGCCAAACGCCACTAAAAA-CTGATCAA
** *
112461113 TAGCGGCGTTTTTATCCCAAACGCCACTAAAAACCGATCAA
1 TAGCGGCGTTTTT-GGCCAAACGCCACTAAAAACTGATCAA
* * **
112461154 TAGCGGCATTTTTTGCCCAGGCGCCACTAAAAACTGA-CTAA
1 TAGCGGC-GTTTTTGGCCAAACGCCACTAAAAACTGATC-AA
** * *
112461195 TAGCGGCGTTTTTCTTCCAAACGCCACGAAAAACTTG-TGAA
1 TAGCGGCGTTTTT-GGCCAAACGCCACTAAAAAC-TGATCAA
* * *
112461236 TAGCGGCATTTTTAGTCAAACGCCACTAAAAACTGATCAA
1 TAGCGGCGTTTTTGGCCAAACGCCACTAAAAACTGATCAA
*
112461276 TAGCGGCGTTTTAGGTCCAAACGCC
1 TAGCGGCGTTTTTGG-CCAAACGCC
112461301 GCAAAAAGTT
Statistics
Matches: 289, Mismatches: 50, Indels: 22
0.80 0.14 0.06
Matches are distributed among these distances:
39 10 0.03
40 85 0.29
41 171 0.59
42 23 0.08
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.23
Consensus pattern (40 bp):
TAGCGGCGTTTTTGGCCAAACGCCACTAAAAACTGATCAA
Found at i:112461130 original size:82 final size:82
Alignment explanation
Indices: 112460911--112461287 Score: 444
Period size: 81 Copynumber: 4.6 Consensus size: 82
112460901 TAATAAACAT
* * ** *
112460911 TAGCGGCG--TTTGGCCGAAACGCCACTACAAACTGAACAATAGCGGCGTTTTTGGCCAAAACGC
1 TAGCGGCGTTTTTGGCC-AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTATCCCAAACGC
112460974 CACTAAAAACTGG-TCAA
65 CACTAAAAACTGGATCAA
* * *
112460991 TAGCTGCGTTTTTGGCCAAACACCACTAAAAGCTGATCAATAGCGGCGTTTTTATCCCAAACGCC
1 TAGCGGCGTTTTTGGCCAAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTATCCCAAACGCC
* *
112461056 ACTAAAAA-GGGAACAA
66 ACTAAAAACTGGATCAA
* *
112461072 TAGCGGCGTTTTTGGCCAAATGCCACTAAAAACCTGATTAATAGCGGCGTTTTTATCCCAAACGC
1 TAGCGGCGTTTTTGGCCAAACGCCACTAAAAA-CTGATCAATAGCGGCGTTTTTATCCCAAACGC
*
112461137 CACTAAAAAC-CGATCAA
65 CACTAAAAACTGGATCAA
* * ** * *
112461154 TAGCGGCATTTTTTGCCCAGGCGCCACTAAAAACTGA-CTAATAGCGGCGTTTTTCTTCCAAACG
1 TAGCGGC-GTTTTTGGCCAAACGCCACTAAAAACTGATC-AATAGCGGCGTTTTTATCCCAAACG
* * *
112461218 CCACGAAAAACTTG-TGAA
64 CCACTAAAAACTGGATCAA
* * *
112461236 TAGCGGCATTTTTAGTCAAACGCCACTAAAAACTGATCAATAGCGGCGTTTT
1 TAGCGGCGTTTTTGGCCAAACGCCACTAAAAACTGATCAATAGCGGCGTTTT
112461288 AGGTCCAAAC
Statistics
Matches: 254, Mismatches: 34, Indels: 17
0.83 0.11 0.06
Matches are distributed among these distances:
80 9 0.04
81 117 0.46
82 107 0.42
83 21 0.08
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (82 bp):
TAGCGGCGTTTTTGGCCAAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTATCCCAAACGCC
ACTAAAAACTGGATCAA
Found at i:112461621 original size:7 final size:7
Alignment explanation
Indices: 112461611--112461681 Score: 52
Period size: 7 Copynumber: 10.0 Consensus size: 7
112461601 TCTTAAACAT
112461611 TAAACCC
1 TAAACCC
112461618 TAAACCC
1 TAAACCC
***
112461625 TAAATTT
1 TAAACCC
*
112461632 TAAACCA
1 TAAACCC
*
112461639 TAAACCA
1 TAAACCC
*
112461646 TAAACAC
1 TAAACCC
* *
112461653 TAATCCA
1 TAAACCC
*
112461660 TAAACTC
1 TAAACCC
112461667 TAAACCCC
1 TAAA-CCC
112461675 TAAACCC
1 TAAACCC
112461682 CCCAAAAAAA
Statistics
Matches: 48, Mismatches: 15, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
7 42 0.88
8 6 0.12
ACGTcount: A:0.46, C:0.32, G:0.00, T:0.21
Consensus pattern (7 bp):
TAAACCC
Found at i:112461628 original size:21 final size:21
Alignment explanation
Indices: 112461604--112461671 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
112461594 CCTTAAATCT
*
112461604 TAAACATTAAACCCTAAACCC
1 TAAACATTAAACCATAAACCC
** *
112461625 TAAATTTTAAACCATAAACCA
1 TAAACATTAAACCATAAACCC
* * *
112461646 TAAACACTAATCCATAAACTC
1 TAAACATTAAACCATAAACCC
112461667 TAAAC
1 TAAAC
112461672 CCCTAAACCC
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (21 bp):
TAAACATTAAACCATAAACCC
Found at i:112461887 original size:41 final size:42
Alignment explanation
Indices: 112461836--112461921 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 42
112461826 TATGGTTTAA
* *
112461836 GGTTCAATGG-TAGAATATATTTTAAGTTTATGGTTTAGGCT
1 GGTTCAATGGATAGAATATATGTTAAGTTTATGGTATAGGCT
*
112461877 GGTTCAATGGTATAGTATATATGTTAAGTTTATGGTATAGGCT
1 GGTTCAATGG-ATAGAATATATGTTAAGTTTATGGTATAGGCT
112461920 GG
1 GG
112461922 GTTTGTTATC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
41 10 0.25
43 30 0.75
ACGTcount: A:0.27, C:0.05, G:0.27, T:0.42
Consensus pattern (42 bp):
GGTTCAATGGATAGAATATATGTTAAGTTTATGGTATAGGCT
Found at i:112463685 original size:18 final size:19
Alignment explanation
Indices: 112463651--112463686 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
112463641 CTTCTTTCTG
112463651 TAGAATTGCAAAGATGAAA
1 TAGAATTGCAAAGATGAAA
*
112463670 TAGAATTG-AGAGATGAA
1 TAGAATTGCAAAGATGAA
112463687 GAATTTCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.50, C:0.03, G:0.25, T:0.22
Consensus pattern (19 bp):
TAGAATTGCAAAGATGAAA
Found at i:112473488 original size:40 final size:39
Alignment explanation
Indices: 112473444--112473573 Score: 102
Period size: 41 Copynumber: 3.2 Consensus size: 39
112473434 TATTATACAT
*
112473444 TAGCGGCGTTTGCATTAAAACGCCACAAAAAACTGAGCAA
1 TAGCGGCGTTTG-ATTAAAACGCCACTAAAAACTGAGCAA
** **
112473484 TAGCGATGTTTTTGATCCAAACG-CAGCTAAAAA-TAGAGCAA
1 TAGCG--GCGTTTGATTAAAACGCCA-CTAAAAACT-GAGCAA
* * * *
112473525 TAGTGGCGTTTTTAGTTAAAACGCCGCTAAAAACTGAACAA
1 TAGCGGCG-TTTGA-TTAAAACGCCACTAAAAACTGAGCAA
112473566 TAGCGGCG
1 TAGCGGCG
112473574 CTTTTGAAAA
Statistics
Matches: 68, Mismatches: 14, Indels: 15
0.70 0.14 0.15
Matches are distributed among these distances:
39 1 0.01
40 12 0.18
41 48 0.71
42 7 0.10
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (39 bp):
TAGCGGCGTTTGATTAAAACGCCACTAAAAACTGAGCAA
Done.