Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 333 of 362
Found at i:111016375 original size:42 final size:42
Alignment explanation
Indices: 111016318--111016433 Score: 126
Period size: 43 Copynumber: 2.7 Consensus size: 42
111016308 TAGGGTTAAT
* * * *
111016318 GAGACTACTTGTAAGACCATATCTAGGATATGGCATCGACAT
1 GAGAATACATGTAAGACCATATCTGGGATATGGCATCGACAC
* * * *
111016360 GAGACAT-CGTGTAAGACCATAGCTGGGCTATTGGCATCGATAC
1 GAGA-ATACATGTAAGACCATATCTGGGATA-TGGCATCGACAC
*
111016403 GAGATTACATGTAAGACCATATCTGGGATAT
1 GAGAATACATGTAAGACCATATCTGGGATAT
111016434 AGTGTAACAC
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
42 25 0.42
43 35 0.58
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (42 bp):
GAGAATACATGTAAGACCATATCTGGGATATGGCATCGACAC
Found at i:111021379 original size:12 final size:12
Alignment explanation
Indices: 111021358--111021416 Score: 57
Period size: 12 Copynumber: 4.9 Consensus size: 12
111021348 GATTTTATTT
*
111021358 GTTTTCTTTTTA
1 GTTTTATTTTTA
111021370 GTTTTATTTTTTA
1 GTTTTA-TTTTTA
* *
111021383 TTTTTATGTTTA
1 GTTTTATTTTTA
* *
111021395 TTTTTGTTTTTA
1 GTTTTATTTTTA
111021407 GTTTT-TTTTT
1 GTTTTATTTTT
111021417 CTTAAACTTC
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
11 5 0.12
12 24 0.60
13 11 0.28
ACGTcount: A:0.10, C:0.02, G:0.08, T:0.80
Consensus pattern (12 bp):
GTTTTATTTTTA
Found at i:111021386 original size:19 final size:19
Alignment explanation
Indices: 111021359--111021416 Score: 68
Period size: 18 Copynumber: 3.2 Consensus size: 19
111021349 ATTTTATTTG
*
111021359 TTTTCTTTTTAGTTTTATT
1 TTTTATTTTTAGTTTTATT
111021378 TTTTATTTTTA-TGTTTA-T
1 TTTTATTTTTAGT-TTTATT
*
111021396 TTTTGTTTTTAGTTTT-TT
1 TTTTATTTTTAGTTTTATT
111021414 TTT
1 TTT
111021417 CTTAAACTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
18 19 0.56
19 15 0.44
ACGTcount: A:0.10, C:0.02, G:0.07, T:0.81
Consensus pattern (19 bp):
TTTTATTTTTAGTTTTATT
Found at i:111022738 original size:2 final size:2
Alignment explanation
Indices: 111022733--111022770 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
111022723 TTTATATATA
111022733 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
111022771 ATTATATTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:111023835 original size:39 final size:39
Alignment explanation
Indices: 111023781--111024077 Score: 368
Period size: 39 Copynumber: 7.5 Consensus size: 39
111023771 TAATGGACAA
111023781 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
111023820 TTATATCCGGGCTAAGGCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
111023859 TTATATTCGGGCTAAG-CTCCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTC-CCGAAGGCATTCGTGCTGGTG
*
111023898 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
111023937 TTTTATCCGGGCTAA-ACCCTGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCC-GAAGGCATTCGTGCTGGTG
* * *
111023976 TTATATCCGGGCTAAAGTCCCGTAGGC-TTTGTGCTGGTA
1 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
* * * * *
111024015 TTATATTCGGGCTTAAAGTCCCGCATGC-TTTGTGCTGGTA
1 TTATATCCGGGC-T-AAGTCCCGAAGGCATTCGTGCTGGTG
*
111024055 TTATATTCGGGCTTAAAGTCCCG
1 TTATATCCGGGC-T-AAGTCCCG
111024078 CATGCTTTGT
Statistics
Matches: 235, Mismatches: 17, Indels: 11
0.89 0.06 0.04
Matches are distributed among these distances:
38 4 0.02
39 172 0.73
40 56 0.24
41 3 0.01
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.31
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:111024045 original size:40 final size:40
Alignment explanation
Indices: 111023967--111024093 Score: 202
Period size: 40 Copynumber: 3.2 Consensus size: 40
111023957 GAAGGCATTC
* * * *
111023967 GTGCTGGTGTTATATCCGGGC-TAAAGTCCCGTAGGCTTT
1 GTGCTGGTATTATATTCGGGCTTAAAGTCCCGCATGCTTT
111024006 GTGCTGGTATTATATTCGGGCTTAAAGTCCCGCATGCTTT
1 GTGCTGGTATTATATTCGGGCTTAAAGTCCCGCATGCTTT
111024046 GTGCTGGTATTATATTCGGGCTTAAAGTCCCGCATGCTTT
1 GTGCTGGTATTATATTCGGGCTTAAAGTCCCGCATGCTTT
*
111024086 GTGGTGGT
1 GTGCTGGT
111024094 GATTGGATTT
Statistics
Matches: 82, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 19 0.23
40 63 0.77
ACGTcount: A:0.16, C:0.19, G:0.29, T:0.36
Consensus pattern (40 bp):
GTGCTGGTATTATATTCGGGCTTAAAGTCCCGCATGCTTT
Found at i:111033061 original size:15 final size:15
Alignment explanation
Indices: 111033043--111033071 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
111033033 AATAAAACTC
111033043 AAATACAGAAAATCT
1 AAATACAGAAAATCT
111033058 AAATACAGAAAATC
1 AAATACAGAAAATC
111033072 ACAGCCTAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.14, G:0.07, T:0.17
Consensus pattern (15 bp):
AAATACAGAAAATCT
Found at i:111038825 original size:8 final size:8
Alignment explanation
Indices: 111038812--111038844 Score: 57
Period size: 8 Copynumber: 4.0 Consensus size: 8
111038802 AATACAAAAG
111038812 TTTTTTTA
1 TTTTTTTA
111038820 TTTTTTTA
1 TTTTTTTA
111038828 TTTTTTTTA
1 -TTTTTTTA
111038837 TTTTTTTA
1 TTTTTTTA
111038845 ATGAAATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 16 0.67
9 8 0.33
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTTTA
Found at i:111038826 original size:9 final size:9
Alignment explanation
Indices: 111038812--111038843 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
111038802 AATACAAAAG
111038812 TTTTTTTA-
1 TTTTTTTAT
111038820 TTTTTTTAT
1 TTTTTTTAT
111038829 TTTTTTTAT
1 TTTTTTTAT
111038838 TTTTTT
1 TTTTTT
111038844 AATGAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:111038834 original size:17 final size:17
Alignment explanation
Indices: 111038812--111038844 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
111038802 AATACAAAAG
111038812 TTTTTTTATTTTTTTAT
1 TTTTTTTATTTTTTTAT
111038829 TTTTTTTATTTTTTTA
1 TTTTTTTATTTTTTTA
111038845 ATGAAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (17 bp):
TTTTTTTATTTTTTTAT
Found at i:111038985 original size:22 final size:23
Alignment explanation
Indices: 111038949--111038994 Score: 85
Period size: 22 Copynumber: 2.0 Consensus size: 23
111038939 AAATATATTT
111038949 TATGGGCTTTTTTTTCTTTTTAA
1 TATGGGCTTTTTTTTCTTTTTAA
111038972 TATGGGC-TTTTTTTCTTTTTAA
1 TATGGGCTTTTTTTTCTTTTTAA
111038994 T
1 T
111038995 TTGTGAATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.13, C:0.09, G:0.13, T:0.65
Consensus pattern (23 bp):
TATGGGCTTTTTTTTCTTTTTAA
Found at i:111040417 original size:7 final size:7
Alignment explanation
Indices: 111040405--111040438 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
111040395 TCCGAACGTG
111040405 ATTAAAA
1 ATTAAAA
111040412 ATTAAAA
1 ATTAAAA
*
111040419 ACTAAAA
1 ATTAAAA
111040426 ATT-AAA
1 ATTAAAA
111040432 ATTAAAA
1 ATTAAAA
111040439 TCAGAATAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (7 bp):
ATTAAAA
Found at i:111042180 original size:19 final size:17
Alignment explanation
Indices: 111042095--111042171 Score: 52
Period size: 19 Copynumber: 4.4 Consensus size: 17
111042085 TATTATTTAA
*
111042095 TAATTTTTTCATTTATG
1 TAATTTTTTAATTTATG
111042112 TAATTTTAATTAA-TT-T-
1 TAATTTT--TTAATTTATG
* *
111042128 TAATTTTTAAATATTATT
1 TAATTTTTTAAT-TTATG
*
111042146 TAATATTTTTCCATTTATG
1 TAAT-TTTTT-AATTTATG
111042165 TAATTTT
1 TAATTTT
111042172 AATTAATTTG
Statistics
Matches: 47, Mismatches: 5, Indels: 15
0.70 0.07 0.22
Matches are distributed among these distances:
14 3 0.06
16 9 0.19
17 9 0.19
18 9 0.19
19 15 0.32
20 2 0.04
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (17 bp):
TAATTTTTTAATTTATG
Found at i:111042187 original size:53 final size:54
Alignment explanation
Indices: 111042067--111042180 Score: 203
Period size: 53 Copynumber: 2.1 Consensus size: 54
111042057 ATGGTAAGGG
* *
111042067 TTAATTTTAATTTTTGAATATTATTTAATAATTTTTTCATTTATGTAATTTTAA
1 TTAATTTTAATTTTTAAATATTATTTAATAATTTTTCCATTTATGTAATTTTAA
111042121 TTAATTTTAATTTTTAAATATTATTTAAT-ATTTTTCCATTTATGTAATTTTAA
1 TTAATTTTAATTTTTAAATATTATTTAATAATTTTTCCATTTATGTAATTTTAA
111042174 TTAATTT
1 TTAATTT
111042181 GTATTTTATA
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
53 30 0.52
54 28 0.48
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (54 bp):
TTAATTTTAATTTTTAAATATTATTTAATAATTTTTCCATTTATGTAATTTTAA
Found at i:111043131 original size:18 final size:20
Alignment explanation
Indices: 111043089--111043125 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
111043079 ATATTTTATG
*
111043089 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
111043108 ATTATTTTAATGAGATAT
1 ATTATTTTAATGAGATAT
111043126 TTTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:111045338 original size:46 final size:46
Alignment explanation
Indices: 111045286--111045559 Score: 343
Period size: 46 Copynumber: 6.0 Consensus size: 46
111045276 AGTGTGCTCT
* *
111045286 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
111045332 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
111045378 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ** * * *
111045424 ATGACGGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
111045470 GTGACATGAAATGAATAAGACCATGGTTGAAAAATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
111045516 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGACATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
111045560 TCATGTCAAA
Statistics
Matches: 203, Mismatches: 24, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 1 0.00
46 202 1.00
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:111045443 original size:92 final size:92
Alignment explanation
Indices: 111045286--111045559 Score: 395
Period size: 92 Copynumber: 3.0 Consensus size: 92
111045276 AGTGTGCTCT
* * * *
111045286 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAG
111045351 ACCATGGTTGAAAGATACCATGGCAGC
66 ACCATGGTTGAAAGATACCATGGCAGC
* * * *
111045378 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATAAATAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAG
111045443 ACCATGGTTGAAAGATACCATGGCAGC
66 ACCATGGTTGAAAGATACCATGGCAGC
* * ** * *
111045470 GTGACATGAAATGAATAAGACCATGGTTGAAAAATACCATGGCAACATGACAGAAAATGAGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAG
* * *
111045535 ACCATAGTTGAAAGACACTATGGCA
66 ACCATGGTTGAAAGATACCATGGCA
111045560 TCATGTCAAA
Statistics
Matches: 161, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
92 161 1.00
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (92 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAG
ACCATGGTTGAAAGATACCATGGCAGC
Found at i:111049107 original size:7 final size:7
Alignment explanation
Indices: 111049095--111049126 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
111049085 AGTCGTTTCA
111049095 TATTTAG
1 TATTTAG
111049102 TATTTAG
1 TATTTAG
111049109 TATTTAG
1 TATTTAG
*
111049116 TATATAG
1 TATTTAG
111049123 TATT
1 TATT
111049127 ATGTATATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (7 bp):
TATTTAG
Found at i:111049114 original size:14 final size:14
Alignment explanation
Indices: 111049095--111049135 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
111049085 AGTCGTTTCA
*
111049095 TATTTAGTATTTAG
1 TATTTAGTATATAG
111049109 TATTTAGTATATAG
1 TATTTAGTATATAG
111049123 TA-TTATGTATATA
1 TATTTA-GTATATA
111049136 ACTAATATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 3 0.12
14 22 0.88
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (14 bp):
TATTTAGTATATAG
Found at i:111049679 original size:30 final size:30
Alignment explanation
Indices: 111049623--111049690 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
111049613 GATGACGGCA
* * * *
111049623 CGGGCCCATCAATAGCACCCATACAATCAT
1 CGGGCCCATAAACAGCACCCACACAATCAC
111049653 CGGGCCCATAAACA-CAGCCCACACAATCAC
1 CGGGCCCATAAACAGCA-CCCACACAATCAC
*
111049683 CGAGCCCA
1 CGGGCCCA
111049691 ACGCCTTAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 2 0.06
30 30 0.94
ACGTcount: A:0.34, C:0.41, G:0.15, T:0.10
Consensus pattern (30 bp):
CGGGCCCATAAACAGCACCCACACAATCAC
Found at i:111049768 original size:18 final size:18
Alignment explanation
Indices: 111049745--111049786 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
111049735 GCTAGGTGCA
*
111049745 TATCCTAGCCCTTATATG
1 TATCCTAACCCTTATATG
111049763 TATCCTAACCCTTATATG
1 TATCCTAACCCTTATATG
*
111049781 TTTCCT
1 TATCCT
111049787 TTTACCAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.21, C:0.29, G:0.07, T:0.43
Consensus pattern (18 bp):
TATCCTAACCCTTATATG
Found at i:111051576 original size:18 final size:17
Alignment explanation
Indices: 111051533--111051577 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
111051523 TAAAAAAATG
111051533 AAAGTAATAGTAATAAT
1 AAAGTAATAGTAATAAT
* *
111051550 AATATTAATGGTAATAAT
1 AA-AGTAATAGTAATAAT
111051568 ATAAGTAATA
1 A-AAGTAATA
111051578 AATATTTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
17 2 0.09
18 19 0.86
19 1 0.05
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (17 bp):
AAAGTAATAGTAATAAT
Found at i:111051716 original size:3 final size:3
Alignment explanation
Indices: 111051708--111051825 Score: 141
Period size: 3 Copynumber: 40.0 Consensus size: 3
111051698 TAGATATATG
* * * *
111051708 TAA TAA TAA T-A TAA TAG TAA TGA TAA TAA T-A TAA TAA TAA TAG TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
111051754 TAA TAA TAA TAA AAA TAA AAA TAA TAA AAA TAA TAC TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
111051802 TAA TAA TAA TAG TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
111051826 GACCGTAAAG
Statistics
Matches: 97, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
2 4 0.04
3 93 0.96
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:111051868 original size:20 final size:20
Alignment explanation
Indices: 111051843--111051895 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
111051833 AAGAAAAAGA
* *
111051843 AATAATAACATGTAAATAGT
1 AATAATAACATATAAATAAT
* *
111051863 AATAATAATATATTAATAAT
1 AATAATAACATATAAATAAT
*
111051883 AATAATAATATAT
1 AATAATAACATAT
111051896 GTTAGTCATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (20 bp):
AATAATAACATATAAATAAT
Found at i:111051923 original size:10 final size:9
Alignment explanation
Indices: 111051908--111051944 Score: 51
Period size: 8 Copynumber: 4.2 Consensus size: 9
111051898 TAGTCATGAC
111051908 AATAATAGAA
1 AATAATA-AA
111051918 AATAATAAA
1 AATAATAAA
111051927 AATAA-AAA
1 AATAATAAA
111051935 AATAA-AAA
1 AATAATAAA
111051943 AA
1 AA
111051945 CTATGTCAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 13 0.48
9 7 0.26
10 7 0.26
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (9 bp):
AATAATAAA
Found at i:111051938 original size:14 final size:16
Alignment explanation
Indices: 111051911--111051942 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
111051901 TCATGACAAT
111051911 AATAGAAAATAATAAA
1 AATAGAAAATAATAAA
111051927 AATA-AAAA-AATAAA
1 AATAGAAAATAATAAA
111051941 AA
1 AA
111051943 AACTATGTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 4 0.25
16 4 0.25
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (16 bp):
AATAGAAAATAATAAA
Found at i:111052001 original size:12 final size:11
Alignment explanation
Indices: 111051975--111052027 Score: 52
Period size: 12 Copynumber: 4.4 Consensus size: 11
111051965 GAAATAACAG
*
111051975 TAATAAAAACAA
1 TAATAATAA-AA
111051987 TAATAATAAATA
1 TAATAATAAA-A
111051999 TAATAATAGAAAA
1 TAATAAT--AAAA
111052012 TAATAATGAAAA
1 TAATAAT-AAAA
111052024 TAAT
1 TAAT
111052028 TAATTTGAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
11 1 0.03
12 25 0.68
13 8 0.22
14 3 0.08
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:111054312 original size:126 final size:126
Alignment explanation
Indices: 111054086--111054474 Score: 530
Period size: 126 Copynumber: 3.1 Consensus size: 126
111054076 CATGAACTAC
* * * *
111054086 TGTAGAAAAAGAGCGTTC-ACATTGGAGCATTTTTCAGAAATTTTGCTAACATTACATCCTGCTT
1 TGTAGAAAAAGAGC-TTCTACGTAGGAGCTTTTTTCAGAAATTTTGCTGACATTACATCCTGCTT
* *
111054150 GAAGTGTTTTTGATACTATTTGTTTAGAAACATCTTCTCAAAATTATTTTTTCAGGAATTAT
65 GAAGTGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGGAATTAT
* *
111054212 TGTAGAAAAAGAGCTTCTACGTAGGAGCTTTTTTCAGAAATTTTGATGACATTGCATCCTGCTTG
1 TGTAGAAAAAGAGCTTCTACGTAGGAGCTTTTTTCAGAAATTTTGCTGACATTACATCCTGCTTG
** * * * *
111054277 AAGCATTGTTGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCAAGAATTAT
66 AAGTGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGGAATTAT
* * * * *
111054338 TGTAGAAAAATGA-CATCTATGTGGGAGCTTTTTTTCAGAAATTTTGCTGACATTACATCTTCCT
1 TGTAGAAAAA-GAGCTTCTACGTAGGAGC-TTTTTTCAGAAATTTTGCTGACATTACATCCTGCT
* * * *
111054402 TGAGGTGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATCATTTTTTCAGGAACTAC
64 TGAAGTGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGGAATTAT
111054465 TGTAGAAAAA
1 TGTAGAAAAA
111054475 TCATAAACCT
Statistics
Matches: 229, Mismatches: 31, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
125 3 0.01
126 130 0.57
127 96 0.42
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.39
Consensus pattern (126 bp):
TGTAGAAAAAGAGCTTCTACGTAGGAGCTTTTTTCAGAAATTTTGCTGACATTACATCCTGCTTG
AAGTGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGGAATTAT
Found at i:111055014 original size:19 final size:20
Alignment explanation
Indices: 111054992--111055039 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
111054982 ATTAAATTCT
111054992 TAAAAATAGAATAAA-ATTA
1 TAAAAATAGAATAAATATTA
* *
111055011 TAAAAATTGAATAAATTTTA
1 TAAAAATAGAATAAATATTA
111055031 TAAATAATA
1 TAAA-AATA
111055040 AAAACCCTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 14 0.58
20 7 0.29
21 3 0.12
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (20 bp):
TAAAAATAGAATAAATATTA
Found at i:111062086 original size:18 final size:18
Alignment explanation
Indices: 111062059--111062261 Score: 130
Period size: 18 Copynumber: 11.3 Consensus size: 18
111062049 AATTGATCGG
*
111062059 TTATTTAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
*
111062077 TTATTCAGTAA-AATCAGA
1 TTATTCAGTAACAGTCA-A
* *
111062095 -TATTCAATAACTA-TTAA
1 TTATTCAGTAAC-AGTCAA
*
111062112 GTTATTCAGTAGCAGTC-A
1 -TTATTCAGTAACAGTCAA
* * *
111062130 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAGTCAA
* *
111062149 TTATTTAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAA
* * *
111062167 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAA
111062185 TTATTCAGTAACAGTCTAA
1 TTATTCAGTAACAGTC-AA
* *
111062204 -TATCCAGTAACAGTAAA
1 TTATTCAGTAACAGTCAA
* *
111062221 TTATCCGGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
* * *
111062239 TTACTCAGTAATAATCAA
1 TTATTCAGTAACAGTCAA
111062257 TTATT
1 TTATT
111062262 TTATACATTT
Statistics
Matches: 140, Mismatches: 33, Indels: 24
0.71 0.17 0.12
Matches are distributed among these distances:
17 18 0.13
18 108 0.77
19 14 0.10
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:111062436 original size:6 final size:6
Alignment explanation
Indices: 111062425--111062449 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
111062415 ATAAATCTGG
111062425 AACAGT AACAGT AACAGT AACAGT A
1 AACAGT AACAGT AACAGT AACAGT A
111062450 TTCAACAGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:111062497 original size:45 final size:45
Alignment explanation
Indices: 111062429--111062668 Score: 338
Period size: 45 Copynumber: 5.3 Consensus size: 45
111062419 ATCTGGAACA
* * * *
111062429 GTAACAGTAACAGTAACAGTATTCAACAGACAAAGTGCTGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* *
111062474 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGTCGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* * *
111062519 TTAACAGTAATAGTAACAATATTCGACACACACAGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
*
111062564 GTAACAGTAGCAGTAACAATATTCGACACACAAAGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* * *
111062609 GTAATAGTAGCAGTAACAATATTCGACATACAAAGTGCCGAAGT-G
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAA-TCG
*
111062654 GTAACAGTAGCAGTA
1 GTAACAGTAACAGTA
111062669 GCGGTAACAG
Statistics
Matches: 176, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 175 0.99
46 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.20
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
Found at i:111063069 original size:10 final size:10
Alignment explanation
Indices: 111063055--111063089 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
111063045 AATTAATCAT
111063055 AATTCCATTC
1 AATTCCATTC
*
111063065 CATTCCATTC
1 AATTCCATTC
*
111063075 AATTCAATTC
1 AATTCCATTC
111063085 AATTC
1 AATTC
111063090 AAATTCACTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.40
Consensus pattern (10 bp):
AATTCCATTC
Found at i:111063484 original size:21 final size:21
Alignment explanation
Indices: 111063459--111063519 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
111063449 TTCAATTTCA
111063459 ATTCAATAA-CAATTCACATAT
1 ATTCAATAATCAATTCA-ATAT
111063480 ATTC-ATAAATCAATTCAATAT
1 ATTCAAT-AATCAATTCAATAT
* * *
111063501 AATCAATATTCAATCCAAT
1 ATTCAATAATCAATTCAAT
111063520 TCATATAATC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 2 0.06
21 23 0.68
22 9 0.26
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.34
Consensus pattern (21 bp):
ATTCAATAATCAATTCAATAT
Found at i:111072064 original size:3 final size:3
Alignment explanation
Indices: 111072050--111072082 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
111072040 TATTCTAAAT
111072050 TAA TAA -AA TAA TAA TAA TAA TAA TAAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA
111072083 AACTAAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 23 0.82
4 3 0.11
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:111072080 original size:13 final size:13
Alignment explanation
Indices: 111072051--111072092 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
111072041 ATTCTAAATT
111072051 AATAA-AATAAT-
1 AATAATAATAATA
111072062 AATAATAATAATA
1 AATAATAATAATA
111072075 AATAATAA-AACTA
1 AATAATAATAA-TA
111072088 AATAA
1 AATAA
111072093 AACAAAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.18
12 8 0.29
13 15 0.54
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.26
Consensus pattern (13 bp):
AATAATAATAATA
Found at i:111104372 original size:140 final size:140
Alignment explanation
Indices: 111104120--111104396 Score: 554
Period size: 140 Copynumber: 2.0 Consensus size: 140
111104110 TATGATTGGT
111104120 AGCAATTATGTTTGACTCGGATCGGAAATCAATTGAGATTTCAGTTTAAAGAATGGTATTGGATT
1 AGCAATTATGTTTGACTCGGATCGGAAATCAATTGAGATTTCAGTTTAAAGAATGGTATTGGATT
111104185 GGTTGAATTGGCGATTGAACTAGTTGAATCGATTTTTAAATTTATTTGAATTTATATAAAATTTA
66 GGTTGAATTGGCGATTGAACTAGTTGAATCGATTTTTAAATTTATTTGAATTTATATAAAATTTA
111104250 AATTAAACCG
131 AATTAAACCG
111104260 AGCAATTATGTTTGACTCGGATCGGAAATCAATTGAGATTTCAGTTTAAAGAATGGTATTGGATT
1 AGCAATTATGTTTGACTCGGATCGGAAATCAATTGAGATTTCAGTTTAAAGAATGGTATTGGATT
111104325 GGTTGAATTGGCGATTGAACTAGTTGAATCGATTTTTAAATTTATTTGAATTTATATAAAATTTA
66 GGTTGAATTGGCGATTGAACTAGTTGAATCGATTTTTAAATTTATTTGAATTTATATAAAATTTA
111104390 AATTAAA
131 AATTAAA
111104397 TCGATTAAAC
Statistics
Matches: 137, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
140 137 1.00
ACGTcount: A:0.35, C:0.07, G:0.19, T:0.39
Consensus pattern (140 bp):
AGCAATTATGTTTGACTCGGATCGGAAATCAATTGAGATTTCAGTTTAAAGAATGGTATTGGATT
GGTTGAATTGGCGATTGAACTAGTTGAATCGATTTTTAAATTTATTTGAATTTATATAAAATTTA
AATTAAACCG
Found at i:111109173 original size:9 final size:9
Alignment explanation
Indices: 111109152--111109199 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
111109142 AATTTTAACA
*
111109152 AAAAATAAT
1 AAAAATTAT
*
111109161 -AAAATTGT
1 AAAAATTAT
111109169 AAAAATTAT
1 AAAAATTAT
*
111109178 AAAAATCAT
1 AAAAATTAT
111109187 AAAAAATTAT
1 -AAAAATTAT
111109197 AAA
1 AAA
111109200 CTGTATCAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
8 6 0.19
9 18 0.56
10 8 0.25
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (9 bp):
AAAAATTAT
Found at i:111110540 original size:21 final size:19
Alignment explanation
Indices: 111110515--111110554 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
111110505 TAACATGTAA
111110515 TAAATTATTAACAATATTAAT
1 TAAATT-TTAA-AATATTAAT
*
111110536 TAAATTTTAATATATTAAT
1 TAAATTTTAAAATATTAAT
111110555 ATTAATATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 4 0.22
21 6 0.33
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (19 bp):
TAAATTTTAAAATATTAAT
Found at i:111119076 original size:51 final size:51
Alignment explanation
Indices: 111119005--111119114 Score: 193
Period size: 51 Copynumber: 2.2 Consensus size: 51
111118995 CTGATCACAT
111119005 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
* *
111119056 TTATCACTTGTCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
*
111119107 TTGTCACT
1 TTATCACT
111119115 GATCAGAAGT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
Found at i:111125052 original size:47 final size:47
Alignment explanation
Indices: 111124943--111125053 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
111124933 CCGGGATAAG
*
111124943 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
* * * *
111124990 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTA
111125037 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
111125054 ACTCAATGTC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 52 0.95
48 2 0.04
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
Found at i:111125827 original size:4 final size:4
Alignment explanation
Indices: 111125818--111125846 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
111125808 CCCTTTTCTA
111125818 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
111125847 CACGTTTGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:111127715 original size:103 final size:104
Alignment explanation
Indices: 111127471--111127736 Score: 419
Period size: 103 Copynumber: 2.6 Consensus size: 104
111127461 GTTGTACATA
** *
111127471 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
111127536 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
111127575 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
111127639 TCTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TCTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
111127678 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
111127737 AATAACGGTT
Statistics
Matches: 149, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:111135208 original size:103 final size:104
Alignment explanation
Indices: 111134964--111135229 Score: 419
Period size: 103 Copynumber: 2.6 Consensus size: 104
111134954 GTTGTACATA
** *
111134964 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
111135029 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
111135068 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
111135132 TCTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TCTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
111135171 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
111135230 AATAACGGTT
Statistics
Matches: 149, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:111140435 original size:3 final size:3
Alignment explanation
Indices: 111140422--111140466 Score: 54
Period size: 3 Copynumber: 14.7 Consensus size: 3
111140412 GGAATCCAAT
* * *
111140422 AAG AGG AAG AAG AAG AAG AAG CAAG ACG AGG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG -AAG AAG AAG AAG AAG AAG AAG AA
111140467 CCGGAGGAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.60, C:0.04, G:0.36, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:111145637 original size:16 final size:18
Alignment explanation
Indices: 111145605--111145642 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
111145595 GCGATGAACT
*
111145605 TTACTATTTTATTAAT-A
1 TTACTATTTTATAAATAA
111145622 TTACTA-TTTATAAATAA
1 TTACTATTTTATAAATAA
111145639 TTAC
1 TTAC
111145643 AAGGATATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (18 bp):
TTACTATTTTATAAATAA
Found at i:111145695 original size:2 final size:2
Alignment explanation
Indices: 111145688--111145719 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
111145678 TGAGATAGTA
111145688 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
111145720 TGGACTTTGA
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:111146224 original size:20 final size:20
Alignment explanation
Indices: 111146186--111146224 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
111146176 AATGATTCTG
*
111146186 CCATTAATTTTAAGGTTTAT
1 CCATTAATTTTAAGATTTAT
111146206 CCATTAAATTTTAA-ATTTA
1 CCATT-AATTTTAAGATTTA
111146225 GGTTCGGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.49
Consensus pattern (20 bp):
CCATTAATTTTAAGATTTAT
Found at i:111147356 original size:3 final size:3
Alignment explanation
Indices: 111147348--111147380 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
111147338 GCCAAAACAT
111147348 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
111147381 CATTCCCACC
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):
ATA
Found at i:111161422 original size:10 final size:10
Alignment explanation
Indices: 111161407--111161443 Score: 65
Period size: 10 Copynumber: 3.6 Consensus size: 10
111161397 TCATGCTAAT
111161407 TTTTTATGAA
1 TTTTTATGAA
111161417 TTTTTATGAA
1 TTTTTATGAA
111161427 TTTTTATGAA
1 TTTTTATGAA
111161437 TATTTTA
1 T-TTTTA
111161444 ATAAATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 21 0.81
11 5 0.19
ACGTcount: A:0.30, C:0.00, G:0.08, T:0.62
Consensus pattern (10 bp):
TTTTTATGAA
Found at i:111161430 original size:21 final size:23
Alignment explanation
Indices: 111161404--111161452 Score: 68
Period size: 20 Copynumber: 2.3 Consensus size: 23
111161394 ACTTCATGCT
*
111161404 AATTTTTTATGAAT-TTTT-ATG
1 AATTTTTTATGAATATTTTAATA
111161425 AA-TTTTTATGAATATTTTAATA
1 AATTTTTTATGAATATTTTAATA
111161447 AATTTT
1 AATTTT
111161453 AAATTATTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 11 0.46
21 6 0.25
22 4 0.17
23 3 0.12
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (23 bp):
AATTTTTTATGAATATTTTAATA
Found at i:111161441 original size:22 final size:20
Alignment explanation
Indices: 111161407--111161452 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
111161397 TCATGCTAAT
* *
111161407 TTTTTATGAATTTTTATGAA
1 TTTTTATGAATTTTAATAAA
111161427 TTTTTATGAATATTTTAATAAA
1 TTTTTATG-A-ATTTTAATAAA
111161449 TTTT
1 TTTT
111161453 AAATTATTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 8 0.36
21 1 0.05
22 13 0.59
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.61
Consensus pattern (20 bp):
TTTTTATGAATTTTAATAAA
Found at i:111163253 original size:34 final size:34
Alignment explanation
Indices: 111163210--111163278 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
111163200 ACTGTATGAT
*
111163210 AGCCTAGAATATTTAGATAAATTTTCAATTGAGA
1 AGCCTAGAATATTTAGATAAATTTTCAATTAAGA
111163244 AGCCTAGAATATTTAGATAAATTTTCAATTAAGA
1 AGCCTAGAATATTTAGATAAATTTTCAATTAAGA
111163278 A
1 A
111163279 AAATTAGTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.35
Consensus pattern (34 bp):
AGCCTAGAATATTTAGATAAATTTTCAATTAAGA
Found at i:111163935 original size:42 final size:42
Alignment explanation
Indices: 111163827--111163984 Score: 163
Period size: 42 Copynumber: 3.8 Consensus size: 42
111163817 CAACCTTAAA
* *
111163827 GGGTTTCCGTTCAGCACTTTTGAGCTTCTGTTTAACCCTAAT
1 GGGTTTCCGTTCAGCACTTATGAGCTTCTGTTTAACCCTTAT
* * ** *
111163869 GGGTCTCTGTTCAGTTCTTTTGAGCTTCTGTTTAACCCTTAT
1 GGGTTTCCGTTCAGCACTTATGAGCTTCTGTTTAACCCTTAT
* * * * ** *
111163911 TGGTTTCCGTTAAGCTCTCATGAGCTTCCATTCAACCCTTAT
1 GGGTTTCCGTTCAGCACTTATGAGCTTCTGTTTAACCCTTAT
* * *
111163953 GGGTTTCTGTTTAGCACTTATGTGCTTCTGTT
1 GGGTTTCCGTTCAGCACTTATGAGCTTCTGTT
111163985 CAGCCTTCGG
Statistics
Matches: 93, Mismatches: 23, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 93 1.00
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.44
Consensus pattern (42 bp):
GGGTTTCCGTTCAGCACTTATGAGCTTCTGTTTAACCCTTAT
Found at i:111163980 original size:84 final size:84
Alignment explanation
Indices: 111163828--111163984 Score: 188
Period size: 84 Copynumber: 1.9 Consensus size: 84
111163818 AACCTTAAAG
* ** ** * ** *
111163828 GGTTTCCGTTCAGCACTTTTGAGCTTCTGTTTAACCCTAATGGGTCTCTGTTCAGTTCTTTTGAG
1 GGTTTCCGTTAAGCACTCATGAGCTTCCATTCAACCCTAATGGGTCTCTGTTCAGCACTTATGAG
111163893 CTTCTGTTTAACCCTTATT
66 CTTCTGTTTAACCCTTATT
* * * * *
111163912 GGTTTCCGTTAAGCTCTCATGAGCTTCCATTCAACCCTTATGGGTTTCTGTTTAGCACTTATGTG
1 GGTTTCCGTTAAGCACTCATGAGCTTCCATTCAACCCTAATGGGTCTCTGTTCAGCACTTATGAG
111163977 CTTCTGTT
66 CTTCTGTT
111163985 CAGCCTTCGG
Statistics
Matches: 59, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
84 59 1.00
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.44
Consensus pattern (84 bp):
GGTTTCCGTTAAGCACTCATGAGCTTCCATTCAACCCTAATGGGTCTCTGTTCAGCACTTATGAG
CTTCTGTTTAACCCTTATT
Found at i:111166397 original size:21 final size:21
Alignment explanation
Indices: 111166373--111166415 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
111166363 TAATTATCTT
* *
111166373 ATAATTGCGCATTGATTTGTA
1 ATAATTGCACATTAATTTGTA
*
111166394 ATAATTGCATATTAATTTGTA
1 ATAATTGCACATTAATTTGTA
111166415 A
1 A
111166416 ATTTTTGTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.07, G:0.14, T:0.44
Consensus pattern (21 bp):
ATAATTGCACATTAATTTGTA
Found at i:111167805 original size:32 final size:32
Alignment explanation
Indices: 111167768--111167849 Score: 119
Period size: 32 Copynumber: 2.6 Consensus size: 32
111167758 TTGAAATTAG
*
111167768 TTTGTTGGATTTTGAAATTATTATGTCTTAAA
1 TTTGTTGGATATTGAAATTATTATGTCTTAAA
* * *
111167800 TTTGTTAGATATTGAATTTATTATGTTTTAAA
1 TTTGTTGGATATTGAAATTATTATGTCTTAAA
*
111167832 CTTGTTGGATATTGAAAT
1 TTTGTTGGATATTGAAAT
111167850 GATTGACAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.29, C:0.02, G:0.16, T:0.52
Consensus pattern (32 bp):
TTTGTTGGATATTGAAATTATTATGTCTTAAA
Found at i:111171238 original size:27 final size:27
Alignment explanation
Indices: 111171200--111171253 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
111171190 ATTATTGGTA
111171200 CATAGAAATTATTCTACTAACTTGAAT
1 CATAGAAATTATTCTACTAACTTGAAT
111171227 CATAGAAATTATTCTACTAACTTGAAT
1 CATAGAAATTATTCTACTAACTTGAAT
111171254 GTTGAGTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (27 bp):
CATAGAAATTATTCTACTAACTTGAAT
Found at i:111174281 original size:40 final size:40
Alignment explanation
Indices: 111174237--111174316 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 40
111174227 ATTTTCAATA
* *
111174237 ACAATTGAAGGTTAAAATATGCCACAAATCTTTATACTCT
1 ACAATTGAAGGTTAAAATAGGCCACAAAACTTTATACTCT
*
111174277 ACAATTGAAGGTTAAAATAGGCCACAAAACTTTCTACTCT
1 ACAATTGAAGGTTAAAATAGGCCACAAAACTTTATACTCT
111174317 TTGTAAATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (40 bp):
ACAATTGAAGGTTAAAATAGGCCACAAAACTTTATACTCT
Found at i:111178459 original size:11 final size:11
Alignment explanation
Indices: 111178443--111178470 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
111178433 ATAATAATAG
111178443 AAATAATTAAA
1 AAATAATTAAA
111178454 AAATAATTAAA
1 AAATAATTAAA
111178465 AAATAA
1 AAATAA
111178471 AAATACATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (11 bp):
AAATAATTAAA
Found at i:111182657 original size:20 final size:21
Alignment explanation
Indices: 111182617--111182670 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
111182607 ACAAATAAAG
*
111182617 TAAAAATTTTAAAAAGATTCA
1 TAAAAATTATAAAAAGATTCA
111182638 -AACAAATTATAAAAAG-TTCA
1 TAA-AAATTATAAAAAGATTCA
111182658 TAAAAATTA-AAAA
1 TAAAAATTATAAAA
111182671 TAGTATGTAG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
19 4 0.13
20 12 0.40
21 14 0.47
ACGTcount: A:0.63, C:0.06, G:0.04, T:0.28
Consensus pattern (21 bp):
TAAAAATTATAAAAAGATTCA
Found at i:111184931 original size:21 final size:21
Alignment explanation
Indices: 111184897--111184936 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
111184887 AAACAGTATC
*
111184897 TCCTTTCTTCATTTGTTTACA
1 TCCTTTCTTCATTTATTTACA
111184918 TCCTTTCTGT-ATTTATTTA
1 TCCTTTCT-TCATTTATTTA
111184937 TTTTATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.15, C:0.20, G:0.05, T:0.60
Consensus pattern (21 bp):
TCCTTTCTTCATTTATTTACA
Found at i:111199902 original size:31 final size:31
Alignment explanation
Indices: 111199836--111199914 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
111199826 CTGGTCACTG
* **
111199836 AACTATTTGAAAGTTTTCATTTAAGCCATTG
1 AACTATTTAAAAGTTTTCATTTAAGCCATCA
* *
111199867 AACTATTTAAAAGTTTTTATTTAA-CTTATCA
1 AACTATTTAAAAGTTTTCATTTAAGC-CATCA
*
111199898 AACTATTCAAAAGTTTT
1 AACTATTTAAAAGTTTT
111199915 ATTCAAGTCA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
30 1 0.02
31 40 0.98
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.44
Consensus pattern (31 bp):
AACTATTTAAAAGTTTTCATTTAAGCCATCA
Found at i:111203102 original size:33 final size:33
Alignment explanation
Indices: 111203064--111203219 Score: 120
Period size: 33 Copynumber: 4.7 Consensus size: 33
111203054 CATTGACGGA
*
111203064 TAAGACCATGGTTGGGCCATGGCAATATATGTG
1 TAAGACCATAGTTGGGCCATGGCAATATATGTG
* * * * *
111203097 TAAGACCATAGCTAGGCTATGGC-ATCCTGATG-A
1 TAAGACCATAGTTGGGCCATGGCAAT-AT-ATGTG
* ** ** *
111203130 TAAGACCATATTTGGGATATGGCACCACGA-GTG
1 TAAGACCATAGTTGGGCCATGGCAATA-TATGTG
* * *
111203163 TAAGACCATGGTTGGGCCATGACAATACATGTG
1 TAAGACCATAGTTGGGCCATGGCAATATATGTG
*
111203196 TAAGACCATAGTTGGACCATGGCA
1 TAAGACCATAGTTGGGCCATGGCA
111203220 TCATATCAGA
Statistics
Matches: 91, Mismatches: 26, Indels: 12
0.71 0.20 0.09
Matches are distributed among these distances:
32 4 0.04
33 84 0.92
34 3 0.03
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (33 bp):
TAAGACCATAGTTGGGCCATGGCAATATATGTG
Found at i:111203297 original size:45 final size:45
Alignment explanation
Indices: 111203233--111203344 Score: 152
Period size: 45 Copynumber: 2.5 Consensus size: 45
111203223 TATCAGAAAT
* *
111203233 GAGTAAGACTATAGCTGAAAGACGCTATGGAATCACGATTCAAAC
1 GAGTAAGACCATAGCTGAAAGACGCTATGGAATCACAATTCAAAC
* * *
111203278 GAGTAAGACCATAGCTGAAAGACGCTATGGCATCGCAATTCAAAT
1 GAGTAAGACCATAGCTGAAAGACGCTATGGAATCACAATTCAAAC
* * *
111203323 GTGTAAGACCATGGTTGAAAGA
1 GAGTAAGACCATAGCTGAAAGA
111203345 TACCCTGGCA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 59 1.00
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (45 bp):
GAGTAAGACCATAGCTGAAAGACGCTATGGAATCACAATTCAAAC
Found at i:111204634 original size:57 final size:58
Alignment explanation
Indices: 111204572--111204680 Score: 141
Period size: 58 Copynumber: 1.9 Consensus size: 58
111204562 TCTTGTTTCC
* **
111204572 AACATATGCTCATA-AGAGCTTA-ATCAAGATTACCCGTCCGGGCTAAATCCTATCTAT
1 AACATATGCTCA-AGAGAGCTTATATCAAGATTACCAGTCCAAGCTAAATCCTATCTAT
* * *
111204629 AACATATGCTCAAGAGGGCTTATATTAGGATTACCAGTCCAAGCTAAATCCT
1 AACATATGCTCAAGAGAGCTTATATCAAGATTACCAGTCCAAGCTAAATCCT
111204681 TTCTGTAATG
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
56 1 0.02
57 19 0.43
58 24 0.55
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.28
Consensus pattern (58 bp):
AACATATGCTCAAGAGAGCTTATATCAAGATTACCAGTCCAAGCTAAATCCTATCTAT
Found at i:111209939 original size:28 final size:28
Alignment explanation
Indices: 111209873--111210000 Score: 175
Period size: 28 Copynumber: 4.5 Consensus size: 28
111209863 CATGAGATTG
* * **
111209873 GCACTAAGTGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
111209902 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
111209930 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
111209959 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
111209987 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
111210001 GACTTGCTAT
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 45 0.51
29 44 0.49
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:111209962 original size:57 final size:57
Alignment explanation
Indices: 111209873--111210000 Score: 186
Period size: 57 Copynumber: 2.2 Consensus size: 57
111209863 CATGAGATTG
*
111209873 GCACTAAGTGTGCGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
* * * *
111209930 GCACTAAGTGTGCGAGTTTGATTATGTA-AGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAAT-TGCATAGCACTAAGTGTGCAAGTTTGATTATATA
*
111209987 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
111210001 GACTTGCTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
Found at i:111212745 original size:28 final size:28
Alignment explanation
Indices: 111212713--111212840 Score: 175
Period size: 29 Copynumber: 4.5 Consensus size: 28
111212703 ATAGTAAGTC
*
111212713 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
111212741 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGC-TATATAATCAAACT
111212770 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* ** * *
111212798 TGCACACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
111212827 CGCACACTTAGTGC
1 CGCACACTTAGTGC
111212841 CAATCTCATG
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 44 0.49
29 45 0.51
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:111212803 original size:57 final size:57
Alignment explanation
Indices: 111212712--111212840 Score: 188
Period size: 57 Copynumber: 2.3 Consensus size: 57
111212702 TATAGTAAGT
*
111212712 CCGCACACTTAGTGTTATATAATCAAACTCGCACACTTAGTGCT-TACATAATCAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACA-AATCAAAC
* * * * *
111212769 TCGCACACTTAGTGCTATATAATCAAACTTGCACACTTAGTGCTATGCAATTTAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
111212826 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
111212841 CAATCTCATG
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (57 bp):
CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
Found at i:111219222 original size:23 final size:23
Alignment explanation
Indices: 111219194--111219243 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
111219184 GGGTGTTACA
*
111219194 TTTACTATATATTAAATTTAGAT
1 TTTACTATATATTAAATTAAGAT
*
111219217 TTTACTATATATTAACTTAAGAT
1 TTTACTATATATTAAATTAAGAT
111219240 TTTA
1 TTTA
111219244 TAAATTTGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (23 bp):
TTTACTATATATTAAATTAAGAT
Found at i:111221330 original size:17 final size:15
Alignment explanation
Indices: 111221311--111221349 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
111221301 TTGTTTGATA
*
111221311 AAAATAATATAATCAT
1 AAAATAATATAA-AAT
111221327 AAAATAA-ATAAAAT
1 AAAATAATATAAAAT
111221341 AAAATAATA
1 AAAATAATA
111221350 ATTGGATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 9 0.43
15 5 0.24
16 7 0.33
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAATAATATAAAAT
Found at i:111221341 original size:22 final size:22
Alignment explanation
Indices: 111221308--111221350 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
111221298 AGATTGTTTG
* *
111221308 ATAAAAATAATATAATCATAAA
1 ATAAAAATAATAAAATAATAAA
111221330 ATAAATAA-AATAAAATAATAA
1 ATAAA-AATAATAAAATAATAA
111221351 TTGGATTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (22 bp):
ATAAAAATAATAAAATAATAAA
Found at i:111227290 original size:16 final size:17
Alignment explanation
Indices: 111227271--111227303 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
111227261 AATTTATTTC
111227271 ATAAATAATA-TTAATA
1 ATAAATAATATTTAATA
*
111227287 ATAATTAATATTTAATA
1 ATAAATAATATTTAATA
111227304 TATATAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
ATAAATAATATTTAATA
Found at i:111230419 original size:4 final size:4
Alignment explanation
Indices: 111230410--111230439 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
111230400 GAGCAAACGT
111230410 GAAA GAAA G-AA GAAA GAAA GAAA GAAA GAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAA
111230440 GGGAAATTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:111238338 original size:313 final size:313
Alignment explanation
Indices: 111237549--111238490 Score: 1877
Period size: 313 Copynumber: 3.0 Consensus size: 313
111237539 ACCTCCTCTA
111237549 TTTCCCTTCTTTGAGCCTGGTGAACTCAAATCATGGTCTTTTTACAGAGCTGGTATTGCCGAGTT
1 TTTCCCTTCTTTGAGCCTGGTGAACTCAAATCATGGTCTTTTTACAGAGCTGGTATTGCCGAGTT
111237614 TGTAGCCACCTTCTTGTTCCTTTACATCACCGTCTTGACTGTCATGGGTGTGTCTCAGTCTAAAA
66 TGTAGCCACCTTCTTGTTCCTTTACATCACCGTCTTGACTGTCATGGGTGTGTCTCAGTCTAAAA
111237679 CCAAATGTGCAACCGTTGGTATTCAAGGCATTGCTTGGGCTTTTGGTGGCATGATCTTTGCTCTT
131 CCAAATGTGCAACCGTTGGTATTCAAGGCATTGCTTGGGCTTTTGGTGGCATGATCTTTGCTCTT
111237744 GTTTACTGTACTGCCGGCATTTCAGGTCACCTTCCCCTTC-TTTTTTTATCTTGAACTTGTTGAA
196 GTTTACTGTACTGCCGGCATTTCAGGTCACCTTCCCCTTCTTTTTTTTATCTTGAACTTGTTGAA
111237808 GATGATGAAGATTAGTGGTAAAAAGATGTTTAATAACCAGATCTGGGTTTGTT
261 GATGATGAAGATTAGTGGTAAAAAGATGTTTAATAACCAGATCTGGGTTTGTT
111237861 TTTCCCTTCTTTGAGCCTGGTGAACTCAAATCATGGTCTTTTTACAGAGCTGGTATTGCCGAGTT
1 TTTCCCTTCTTTGAGCCTGGTGAACTCAAATCATGGTCTTTTTACAGAGCTGGTATTGCCGAGTT
111237926 TGTAGCCACCTTCTTGTTCCTTTACATCACCGTCTTGACTGTCATGGGTGTGTCTCAGTCTAAAA
66 TGTAGCCACCTTCTTGTTCCTTTACATCACCGTCTTGACTGTCATGGGTGTGTCTCAGTCTAAAA
111237991 CCAAATGTGCAACCGTTGGTATTCAAGGCATTGCTTGGGCTTTTGGTGGCATGATCTTTGCTCTT
131 CCAAATGTGCAACCGTTGGTATTCAAGGCATTGCTTGGGCTTTTGGTGGCATGATCTTTGCTCTT
111238056 GTTTACTGTACTGCCGGCATTTCAGGTCACCTTCCCCTTCTTTTTTTTATCTTGAACTTGTTGAA
196 GTTTACTGTACTGCCGGCATTTCAGGTCACCTTCCCCTTCTTTTTTTTATCTTGAACTTGTTGAA
111238121 GATGATGAAGATTAGTGGTAAAAAGATGTTTAATAACCAGATCTGGGTTTGTT
261 GATGATGAAGATTAGTGGTAAAAAGATGTTTAATAACCAGATCTGGGTTTGTT
111238174 TTTCCCTTCTTTGAGCCTGGTGAACTCAAATCATGGTCTTTTTACAGAGCTGGTATTGCCGAGTT
1 TTTCCCTTCTTTGAGCCTGGTGAACTCAAATCATGGTCTTTTTACAGAGCTGGTATTGCCGAGTT
111238239 TGTAGCCACCTTCTTGTTCCTTTACATCACCGTCTTGACTGTCATGGGTGTGTCTCAGTCTAAAA
66 TGTAGCCACCTTCTTGTTCCTTTACATCACCGTCTTGACTGTCATGGGTGTGTCTCAGTCTAAAA
111238304 CCAAATGTGCAACCGTTGGTATTCAAGGCATTGCTTGGGCTTTTGGTGGCATGATCTTTGCTCTT
131 CCAAATGTGCAACCGTTGGTATTCAAGGCATTGCTTGGGCTTTTGGTGGCATGATCTTTGCTCTT
111238369 GTTTACTGTACTGCCGGCATTTCAGGTCACCTTCCCCTTCTTTTTTTTATCTTGAACTTGTTGAA
196 GTTTACTGTACTGCCGGCATTTCAGGTCACCTTCCCCTTCTTTTTTTTATCTTGAACTTGTTGAA
111238434 GATGATGAAGATTAGTGGTAAAAAGATGTTTAATAACCAGATCTGGGTTTGTT
261 GATGATGAAGATTAGTGGTAAAAAGATGTTTAATAACCAGATCTGGGTTTGTT
111238487 TTTC
1 TTTC
111238491 AGGTGGTCAT
Statistics
Matches: 629, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
312 235 0.37
313 394 0.63
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.38
Consensus pattern (313 bp):
TTTCCCTTCTTTGAGCCTGGTGAACTCAAATCATGGTCTTTTTACAGAGCTGGTATTGCCGAGTT
TGTAGCCACCTTCTTGTTCCTTTACATCACCGTCTTGACTGTCATGGGTGTGTCTCAGTCTAAAA
CCAAATGTGCAACCGTTGGTATTCAAGGCATTGCTTGGGCTTTTGGTGGCATGATCTTTGCTCTT
GTTTACTGTACTGCCGGCATTTCAGGTCACCTTCCCCTTCTTTTTTTTATCTTGAACTTGTTGAA
GATGATGAAGATTAGTGGTAAAAAGATGTTTAATAACCAGATCTGGGTTTGTT
Found at i:111240580 original size:28 final size:29
Alignment explanation
Indices: 111240540--111240599 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
111240530 ATTTAAGCTT
111240540 TAAAGCTTTTT-AAAAAATGAATAAAAAA
1 TAAAGCTTTTTAAAAAAATGAATAAAAAA
111240568 TAAAGCTTTTTAAAAAAATGAATAAAAAA
1 TAAAGCTTTTTAAAAAAATGAATAAAAAA
111240597 TAA
1 TAA
111240600 GATTCGTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 11 0.35
29 20 0.65
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.28
Consensus pattern (29 bp):
TAAAGCTTTTTAAAAAAATGAATAAAAAA
Found at i:111241511 original size:39 final size:39
Alignment explanation
Indices: 111241457--111241535 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
111241447 TTATTCAGAG
111241457 AAAGATAATTTAACAGTTTTTAAAACTGACATAATAGTA
1 AAAGATAATTTAACAGTTTTTAAAACTGACATAATAGTA
111241496 AAAGATAATTTAACAGTTTTTAAAACTGACATAATAGTA
1 AAAGATAATTTAACAGTTTTTAAAACTGACATAATAGTA
111241535 A
1 A
111241536 TATTAACTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.33
Consensus pattern (39 bp):
AAAGATAATTTAACAGTTTTTAAAACTGACATAATAGTA
Found at i:111242259 original size:21 final size:20
Alignment explanation
Indices: 111242233--111242272 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
111242223 GTAAAAAATG
*
111242233 TTTATTGTATAAAAATGAAAC
1 TTTATT-TACAAAAATGAAAC
*
111242254 TTTATTTCCAAAAATGAAA
1 TTTATTTACAAAAATGAAA
111242273 ATATGAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.38
Consensus pattern (20 bp):
TTTATTTACAAAAATGAAAC
Found at i:111242426 original size:24 final size:27
Alignment explanation
Indices: 111242367--111242427 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 27
111242357 TAAGTGGTTG
*
111242367 AATAAAACAATAAAATATTTTATTTATT
1 AATAAAA-AATAAAATATTTTATTTACT
*
111242395 AA-ATAAAAT-AAA-ATTTTA-TTACT
1 AATAAAAAATAAAATATTTTATTTACT
111242418 AATAAAAAAT
1 AATAAAAAAT
111242428 TATATTCGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
23 6 0.21
24 12 0.41
25 3 0.10
26 3 0.10
27 3 0.10
28 2 0.07
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (27 bp):
AATAAAAAATAAAATATTTTATTTACT
Found at i:111244365 original size:17 final size:19
Alignment explanation
Indices: 111244345--111244382 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
111244335 AAGTGAATTG
111244345 AAATTGC-GAAATT-AAAT
1 AAATTGCAGAAATTGAAAT
111244362 AAATTGCAGAAATTGAAAT
1 AAATTGCAGAAATTGAAAT
111244381 AA
1 AA
111244383 GAAAAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 6 0.32
19 6 0.32
ACGTcount: A:0.55, C:0.05, G:0.13, T:0.26
Consensus pattern (19 bp):
AAATTGCAGAAATTGAAAT
Found at i:111245102 original size:20 final size:20
Alignment explanation
Indices: 111245079--111245126 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
111245069 TAAATTCTAA
*
111245079 AAAGATAAATACAA-TTAATT
1 AAAGATAAATA-AAGATAATT
111245099 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
111245119 AAA-ATAAA
1 AAAGATAAA
111245127 ATCCTAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:111245137 original size:19 final size:18
Alignment explanation
Indices: 111245113--111245156 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
111245103 ATAAATAAAG
111245113 ATAATTAAAATAAAATCCTA
1 ATAATTAAAAT--AATCCTA
*
111245133 A-AATTTAAATAATCCTA
1 ATAATTAAAATAATCCTA
111245150 ATAATTA
1 ATAATTA
111245157 TCCTAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 8 0.38
18 4 0.19
19 8 0.38
20 1 0.05
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAATTAAAATAATCCTA
Found at i:111245171 original size:15 final size:15
Alignment explanation
Indices: 111245151--111245180 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
111245141 ATAATCCTAA
111245151 TAATTATCCTAATAT
1 TAATTATCCTAATAT
111245166 TAATTATCCTAATAT
1 TAATTATCCTAATAT
111245181 AAATAAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:111248091 original size:21 final size:21
Alignment explanation
Indices: 111248065--111248107 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
111248055 ATTTAACCAT
*
111248065 AAACCAGTATAAATACGAAAA
1 AAACCAATATAAATACGAAAA
111248086 AAACCAATATAAATACGAAAA
1 AAACCAATATAAATACGAAAA
111248107 A
1 A
111248108 GCTCTGAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.65, C:0.14, G:0.07, T:0.14
Consensus pattern (21 bp):
AAACCAATATAAATACGAAAA
Found at i:111257895 original size:28 final size:30
Alignment explanation
Indices: 111257864--111257927 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 30
111257854 TAAAAAAAAT
* * *
111257864 AGGATTTAATTTTAATT-TTTTAAA-TATA
1 AGGATTAAATTTCAATTGTTGTAAAGTATA
111257892 AGGATTAAATTTCAATTGTTGTAAAGTATA
1 AGGATTAAATTTCAATTGTTGTAAAGTATA
*
111257922 ATGATT
1 AGGATT
111257928 GATAACATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 15 0.50
29 6 0.20
30 9 0.30
ACGTcount: A:0.39, C:0.02, G:0.12, T:0.47
Consensus pattern (30 bp):
AGGATTAAATTTCAATTGTTGTAAAGTATA
Found at i:111258945 original size:22 final size:22
Alignment explanation
Indices: 111258920--111258964 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
111258910 TTAAAAGGTT
* *
111258920 TAAAAAAGTTGCCAAAATTATA
1 TAAAAAAGTTACCAAAATAATA
*
111258942 TAAAGAAGTTACCAAAATAATA
1 TAAAAAAGTTACCAAAATAATA
111258964 T
1 T
111258965 CGCGCGGTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.56, C:0.09, G:0.09, T:0.27
Consensus pattern (22 bp):
TAAAAAAGTTACCAAAATAATA
Found at i:111265457 original size:24 final size:24
Alignment explanation
Indices: 111265423--111265490 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
111265413 TATATAACGG
*
111265423 GAAGCTTATAAGAGCCATAATCAA
1 GAAGCTCATAAGAGCCATAATCAA
* *
111265447 GAAGTTCATAAAGAACCAT-ATCAA
1 GAAGCTCAT-AAGAGCCATAATCAA
*
111265471 GAAGCTCACAAAGAGCCATA
1 GAAGCTCA-TAAGAGCCATA
111265491 TAATGGGAGC
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
24 27 0.77
25 8 0.23
ACGTcount: A:0.47, C:0.19, G:0.16, T:0.18
Consensus pattern (24 bp):
GAAGCTCATAAGAGCCATAATCAA
Found at i:111265491 original size:24 final size:24
Alignment explanation
Indices: 111265432--111265491 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
111265422 GGAAGCTTAT
* *
111265432 AAGAGCCATAATCAAGAAGTTCATA
1 AAGAGCCAT-ATCAAGAAGCTCACA
*
111265457 AAGAACCATATCAAGAAGCTCACA
1 AAGAGCCATATCAAGAAGCTCACA
111265481 AAGAGCCATAT
1 AAGAGCCATAT
111265492 AATGGGAGCT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
24 23 0.74
25 8 0.26
ACGTcount: A:0.48, C:0.20, G:0.15, T:0.17
Consensus pattern (24 bp):
AAGAGCCATATCAAGAAGCTCACA
Found at i:111277677 original size:23 final size:22
Alignment explanation
Indices: 111277651--111277695 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
111277641 ATATATATAT
*
111277651 TAAAAGATGTAATATTTTTAATA
1 TAAAA-ATGCAATATTTTTAATA
* *
111277674 TAAAAATGCATTGTTTTTAATA
1 TAAAAATGCAATATTTTTAATA
111277696 AGTGAAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.44
Consensus pattern (22 bp):
TAAAAATGCAATATTTTTAATA
Found at i:111286354 original size:20 final size:19
Alignment explanation
Indices: 111286317--111286354 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
111286307 AAATTCATTT
111286317 ATTATTCACATTAAATCTG
1 ATTATTCACATTAAATCTG
111286336 ATTA-TCACAATTCAAATCT
1 ATTATTCAC-ATT-AAATCT
111286355 AAACTCTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 7 0.41
20 6 0.35
ACGTcount: A:0.39, C:0.18, G:0.03, T:0.39
Consensus pattern (19 bp):
ATTATTCACATTAAATCTG
Found at i:111301940 original size:22 final size:22
Alignment explanation
Indices: 111301899--111301940 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
111301889 AGCTATTAAA
*
111301899 ATGGTAAAATTACATTTTTACT
1 ATGGTAAAATTACATATTTACT
111301921 ATGGTAAAAATTACA-ATTTA
1 ATGGT-AAAATTACATATTTA
111301941 ATTTCGACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (22 bp):
ATGGTAAAATTACATATTTACT
Found at i:111306518 original size:21 final size:23
Alignment explanation
Indices: 111306459--111306524 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
111306449 GCTTTACTGA
111306459 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACTTTATGTGTCGTATT
* **
111306482 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACTTTATGTGTCGTATT
111306504 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACTTTATGTGTCGTAT
111306525 ACTGATCAGG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
21 15 0.42
22 4 0.11
23 17 0.47
ACGTcount: A:0.15, C:0.20, G:0.24, T:0.41
Consensus pattern (23 bp):
TCAGGCACTTTATGTGTCGTATT
Found at i:111308612 original size:5 final size:5
Alignment explanation
Indices: 111308602--111308650 Score: 73
Period size: 5 Copynumber: 9.6 Consensus size: 5
111308592 CATAATTCAT
111308602 AATTC AATTC AATTC AATTC AATTC AATT- ACATTC AATTC AATATC AAT
1 AATTC AATTC AATTC AATTC AATTC AATTC A-ATTC AATTC AAT-TC AAT
111308651 ACTCACCTCA
Statistics
Matches: 41, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
4 1 0.02
5 34 0.83
6 6 0.15
ACGTcount: A:0.43, C:0.18, G:0.00, T:0.39
Consensus pattern (5 bp):
AATTC
Found at i:111310678 original size:21 final size:19
Alignment explanation
Indices: 111310621--111310685 Score: 71
Period size: 21 Copynumber: 3.4 Consensus size: 19
111310611 ATACTATTAT
111310621 TATTTATCTATTTTTATTTC
1 TATTTAT-TATTTTTATTTC
* *
111310641 TA-CTATTA-TTATATTTC
1 TATTTATTATTTTTATTTC
111310658 TATTTATTATATTTTTATTTC
1 TATTTA-T-TATTTTTATTTC
111310679 TATTTAT
1 TATTTAT
111310686 ATACTAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
17 10 0.27
18 4 0.11
19 4 0.11
20 5 0.14
21 14 0.38
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.68
Consensus pattern (19 bp):
TATTTATTATTTTTATTTC
Found at i:111310700 original size:38 final size:40
Alignment explanation
Indices: 111310611--111310714 Score: 103
Period size: 38 Copynumber: 2.6 Consensus size: 40
111310601 TGTTATTCTA
* *
111310611 ATACTATTATTATTTA-TCTATTTTTATTTCTACTATTAT
1 ATACTAATATTATTTATTATATTTTTATTTCTACTATTAT
*
111310650 -TA-T-ATTTCTATTTATTATATTTTTATTTCTA-T-TTAT
1 ATACTAATAT-TATTTATTATATTTTTATTTCTACTATTAT
111310686 ATACTAATATTATTTTCATTATTATTTTT
1 ATACTAATATTA-TTT-ATTA-TATTTTT
111310715 CTAATATTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
36 6 0.11
37 10 0.19
38 20 0.38
39 6 0.11
40 4 0.08
41 7 0.13
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (40 bp):
ATACTAATATTATTTATTATATTTTTATTTCTACTATTAT
Found at i:111312712 original size:19 final size:20
Alignment explanation
Indices: 111312688--111312725 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
111312678 TAATTAGATT
111312688 TTAATTAA-GTAAATTTAGC
1 TTAATTAAGGTAAATTTAGC
*
111312707 TTAATTAAGGTTAATTTAG
1 TTAATTAAGGTAAATTTAG
111312726 TGTAATGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.45
Consensus pattern (20 bp):
TTAATTAAGGTAAATTTAGC
Found at i:111312931 original size:8 final size:8
Alignment explanation
Indices: 111312896--111312943 Score: 55
Period size: 8 Copynumber: 6.0 Consensus size: 8
111312886 TTACTTATAT
111312896 TATAAGTAA
1 TATAA-TAA
111312905 -ATAATAA
1 TATAATAA
*
111312912 T-TACTAAA
1 TATAAT-AA
111312920 TATAATAA
1 TATAATAA
111312928 TATAATAA
1 TATAATAA
111312936 TATAATAA
1 TATAATAA
111312944 AAGAATAAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
7 6 0.18
8 25 0.74
9 3 0.09
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (8 bp):
TATAATAA
Found at i:111312950 original size:16 final size:16
Alignment explanation
Indices: 111312918--111312951 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
111312908 ATAATTACTA
* *
111312918 AATATAATAATATAAT
1 AATATAATAAAAGAAT
111312934 AATATAATAAAAGAAT
1 AATATAATAAAAGAAT
111312950 AA
1 AA
111312952 AGAAATAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (16 bp):
AATATAATAAAAGAAT
Found at i:111313887 original size:12 final size:12
Alignment explanation
Indices: 111313856--111313890 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
111313846 TGACTATGAC
*
111313856 TGTTACTATTAT
1 TGTTACTGTTAT
111313868 TGTTACTGTTAT
1 TGTTACTGTTAT
111313880 TGTTACTGTTA
1 TGTTACTGTTA
111313891 CCCTACGGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.20, C:0.09, G:0.14, T:0.57
Consensus pattern (12 bp):
TGTTACTGTTAT
Found at i:111316969 original size:39 final size:39
Alignment explanation
Indices: 111316915--111317081 Score: 275
Period size: 39 Copynumber: 4.3 Consensus size: 39
111316905 ACATTTACGA
*
111316915 CTAACTGAAACACATAAGTGCTAAACGGAAGCCCAGAGG
1 CTAACTGAAGCACATAAGTGCTAAACGGAAGCCCAGAGG
111316954 CTAACTGAAGCACATAAGTGCTAAACGGAAGCCCAGAGG
1 CTAACTGAAGCACATAAGTGCTAAACGGAAGCCCAGAGG
111316993 CTAACTGAAGCACATAAGTGCTAAACGGAAGCCC-GAAGG
1 CTAACTGAAGCACATAAGTGCTAAACGGAAGCCCAG-AGG
* *
111317032 CTAGA-TGAAGCATATAAGTGCTAAACGGAAGCCCGGAGG
1 CTA-ACTGAAGCACATAAGTGCTAAACGGAAGCCCAGAGG
111317071 CTAACTGAAGC
1 CTAACTGAAGC
111317082 TCATCAGAGC
Statistics
Matches: 122, Mismatches: 2, Indels: 8
0.92 0.02 0.06
Matches are distributed among these distances:
38 2 0.02
39 118 0.97
40 2 0.02
ACGTcount: A:0.38, C:0.22, G:0.26, T:0.14
Consensus pattern (39 bp):
CTAACTGAAGCACATAAGTGCTAAACGGAAGCCCAGAGG
Found at i:111320569 original size:9 final size:9
Alignment explanation
Indices: 111320551--111320626 Score: 98
Period size: 9 Copynumber: 8.4 Consensus size: 9
111320541 TAAATATAAG
111320551 ATTAACCGA
1 ATTAACCGA
*
111320560 ATTAATCGA
1 ATTAACCGA
111320569 ATTAACCGA
1 ATTAACCGA
*
111320578 ATTACCCGA
1 ATTAACCGA
* *
111320587 ATTACCCAA
1 ATTAACCGA
*
111320596 ATTAACTGA
1 ATTAACCGA
*
111320605 ATTAACCAA
1 ATTAACCGA
111320614 ATTAACCGA
1 ATTAACCGA
111320623 ATTA
1 ATTA
111320627 TTTGTATAAA
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 57 1.00
ACGTcount: A:0.45, C:0.21, G:0.08, T:0.26
Consensus pattern (9 bp):
ATTAACCGA
Found at i:111327074 original size:15 final size:16
Alignment explanation
Indices: 111327054--111327090 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
111327044 AAATGAGTGG
111327054 TTAATTAGAATTTAA-
1 TTAATTAGAATTTAAT
111327069 TTAATT-GAATTTAAT
1 TTAATTAGAATTTAAT
111327084 TTAATTA
1 TTAATTA
111327091 AGAGTGATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (16 bp):
TTAATTAGAATTTAAT
Found at i:111327639 original size:13 final size:13
Alignment explanation
Indices: 111327621--111327648 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
111327611 AGAATAGGGG
111327621 AGAAAGAAAGAAA
1 AGAAAGAAAGAAA
111327634 AGAAAGAAAGAAA
1 AGAAAGAAAGAAA
111327647 AG
1 AG
111327649 GAAAATTTAG
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:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (13 bp):
AGAAAGAAAGAAA
Found at i:111339545 original size:19 final size:19
Alignment explanation
Indices: 111339521--111339558 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
111339511 TACATGTGAC
111339521 ATGCCATGTGTCATTTTCT
1 ATGCCATGTGTCATTTTCT
111339540 ATGCCATGTGTCATTTTCT
1 ATGCCATGTGTCATTTTCT
111339559 GGTTATTCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.16, C:0.21, G:0.16, T:0.47
Consensus pattern (19 bp):
ATGCCATGTGTCATTTTCT
Found at i:111341325 original size:13 final size:13
Alignment explanation
Indices: 111341307--111341331 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
111341297 TTTAAATTAA
111341307 ATTAATTTATTCG
1 ATTAATTTATTCG
111341320 ATTAATTTATTC
1 ATTAATTTATTC
111341332 AACCGATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.56
Consensus pattern (13 bp):
ATTAATTTATTCG
Found at i:111341915 original size:32 final size:33
Alignment explanation
Indices: 111341848--111341919 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 33
111341838 TGAAAAAGTT
111341848 AATATTTTTTGGTGTTTAGATGAATTTATATAA
1 AATATTTTTTGGTGTTTAGATGAATTTATATAA
* * *
111341881 AATATTTTTTGTTGTTT-GATAGATTTTTTA-AA
1 AATATTTTTTGGTGTTTAGAT-GAATTTATATAA
111341913 AATATTT
1 AATATTT
111341920 CATAAAAACT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
32 12 0.34
33 23 0.66
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (33 bp):
AATATTTTTTGGTGTTTAGATGAATTTATATAA
Found at i:111352152 original size:19 final size:21
Alignment explanation
Indices: 111352114--111352157 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
111352104 TTTTACTTTT
111352114 TGTTCAGCTCTTACGAGCTTC
1 TGTTCAGCTCTTACGAGCTTC
*
111352135 TGTTCAGCT-TT-TGAGCTTC
1 TGTTCAGCTCTTACGAGCTTC
111352154 TGTT
1 TGTT
111352158 GGCTTATTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.50
20 2 0.09
21 9 0.41
ACGTcount: A:0.11, C:0.23, G:0.20, T:0.45
Consensus pattern (21 bp):
TGTTCAGCTCTTACGAGCTTC
Found at i:111353864 original size:130 final size:129
Alignment explanation
Indices: 111353641--111353956 Score: 442
Period size: 130 Copynumber: 2.4 Consensus size: 129
111353631 CCCAGCACAG
* * * * *
111353641 TAGGGCACGATTCCTCGAATTTCTAGACATCGAACATTGCCTT-ATTTT-AGAA-TTTAGAGAAC
1 TAGGGCACGATTCC-CGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAGAATTTTAAAGAAC
* * * *
111353703 ATGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAACAAACGGGAAATTGCAACCCAGCATGA
65 ATGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGA
*
111353768 TAGGGCACGATTCCCAGAATTGCCAAACATCGAACATTACCTTCGTTTTGAAGAATTTTAAAG-A
1 TAGGGCACGATTCCC-GAATTGCCAAACATCGAACATTGCCTTCGTTTT-AAGAATTTTAAAGAA
*
111353832 CATGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAACAAACGAGAAATTGCAATCCAACACG
64 CATGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACG
111353897 A
129 A
* *
111353898 TAGGGCACGATTCCCCGAATTGCCAAACATAGAATATTGCCTTCGTTTTAAAGAATTTT
1 TAGGGCACGATT-CCCGAATTGCCAAACATCGAACATTGCCTTCGTTTT-AAGAATTTT
111353957 TGAATGAATA
Statistics
Matches: 168, Mismatches: 15, Indels: 9
0.88 0.08 0.05
Matches are distributed among these distances:
126 1 0.01
127 37 0.22
128 4 0.02
130 117 0.70
131 9 0.05
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (129 bp):
TAGGGCACGATTCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAGAATTTTAAAGAACA
TGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGA
Found at i:111361475 original size:18 final size:19
Alignment explanation
Indices: 111361449--111361489 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
111361439 TATATAAAAA
111361449 TAATAA-TTTGTAGAAAATT
1 TAATAATTTTGTA-AAAATT
*
111361468 TAAT-ATTTTTTAAAAATT
1 TAATAATTTTGTAAAAATT
111361486 TAAT
1 TAAT
111361490 TTAACTCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (19 bp):
TAATAATTTTGTAAAAATT
Found at i:111362081 original size:69 final size:69
Alignment explanation
Indices: 111361970--111362101 Score: 255
Period size: 69 Copynumber: 1.9 Consensus size: 69
111361960 TATTCTCAAA
*
111361970 CCTTCAATTTCTTAGAAAGTGAGGATCTAATTTCTGAACCAAACACATAATGAAAACTTTAACAC
1 CCTTCAATTTCTTAGAAAGTGAGGATCTAATTTCTAAACCAAACACATAATGAAAACTTTAACAC
111362035 TGAT
66 TGAT
111362039 CCTTCAATTTCTTAGAAAGTGAGGATCTAATTTCTAAACCAAACACATAATGAAAACTTTAAC
1 CCTTCAATTTCTTAGAAAGTGAGGATCTAATTTCTAAACCAAACACATAATGAAAACTTTAAC
111362102 CTTTTAGTAA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
69 62 1.00
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (69 bp):
CCTTCAATTTCTTAGAAAGTGAGGATCTAATTTCTAAACCAAACACATAATGAAAACTTTAACAC
TGAT
Found at i:111365484 original size:16 final size:15
Alignment explanation
Indices: 111365459--111365496 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
111365449 TCCATAATTG
111365459 ATTTTTTTTAGATAA-
1 ATTTTTTTTA-ATAAT
111365474 ATTTTTATTTAATAAT
1 ATTTTT-TTTAATAAT
111365490 ATTTTTT
1 ATTTTTT
111365497 AAAAATATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (15 bp):
ATTTTTTTTAATAAT
Found at i:111367216 original size:30 final size:30
Alignment explanation
Indices: 111367180--111367242 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
111367170 ACTTATTTTA
*
111367180 TTGTTAATTTTTTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
111367210 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
111367240 TTG
1 TTG
111367243 CTTGCTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.03, G:0.11, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:111372861 original size:29 final size:30
Alignment explanation
Indices: 111372796--111372865 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 30
111372786 TTTAGAAATT
* * *
111372796 TATTTAAAATATGTAATATTATATATTCGTA
1 TATTT-AAATATCTAAAATAATATATTCGTA
*
111372827 TAATTTAAATATCTAAAATAATATTTTCG-A
1 T-ATTTAAATATCTAAAATAATATATTCGTA
111372857 TATTTAAAT
1 TATTTAAAT
111372866 TAAATGTTAC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
29 8 0.24
30 2 0.06
31 20 0.59
32 4 0.12
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.47
Consensus pattern (30 bp):
TATTTAAATATCTAAAATAATATATTCGTA
Found at i:111373194 original size:21 final size:20
Alignment explanation
Indices: 111373155--111373193 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
111373145 TGAATTAAAA
111373155 AAAAATCAAAAATAATTTTC
1 AAAAATCAAAAATAATTTTC
111373175 AAAAAT-ACAAAATAATTTT
1 AAAAATCA-AAAATAATTTT
111373194 TAAAGTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAAATCAAAAATAATTTTC
Found at i:111373723 original size:2 final size:2
Alignment explanation
Indices: 111373716--111373744 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
111373706 CTAAACATTT
111373716 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
111373745 GATAAGATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:111374764 original size:2 final size:2
Alignment explanation
Indices: 111374722--111374754 Score: 57
Period size: 2 Copynumber: 16.0 Consensus size: 2
111374712 AATAAAGTAA
111374722 AT AT CAT 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
111374755 TCAAATATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:111375827 original size:32 final size:31
Alignment explanation
Indices: 111375768--111375827 Score: 84
Period size: 32 Copynumber: 1.9 Consensus size: 31
111375758 TAATCTCACG
**
111375768 AAAATTTAATTAAACCCTTAATTTTTTTAAA
1 AAAATTTAATTAAACCCTTAAAATTTTTAAA
*
111375799 AAAATTCTCATTAAACCCTTAAAATTTTT
1 AAAATT-TAATTAAACCCTTAAAATTTTT
111375828 GAATTTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 6 0.24
32 19 0.76
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.43
Consensus pattern (31 bp):
AAAATTTAATTAAACCCTTAAAATTTTTAAA
Found at i:111377142 original size:19 final size:19
Alignment explanation
Indices: 111377111--111377148 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
111377101 TAAGTATCAG
111377111 AAATAATTGTGATGAAAAC
1 AAATAATTGTGATGAAAAC
*
111377130 AAAT-ATTGCTGATTAAAAC
1 AAATAATTG-TGATGAAAAC
111377149 TATTGATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.50, C:0.08, G:0.13, T:0.29
Consensus pattern (19 bp):
AAATAATTGTGATGAAAAC
Found at i:111390086 original size:17 final size:17
Alignment explanation
Indices: 111390064--111390103 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
111390054 TATATATATA
*
111390064 TATATTTCAAATTATTT
1 TATATTTCAAATTATTG
* *
111390081 TATATTTTAAGTTATTG
1 TATATTTCAAATTATTG
111390098 TATATT
1 TATATT
111390104 ATATATTTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.60
Consensus pattern (17 bp):
TATATTTCAAATTATTG
Done.