Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 236 of 311
Found at i:79588010 original size:36 final size:36
Alignment explanation
Indices: 79587942--79588010 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
79587932 TCAGGAAAAA
* **
79587942 ATATATTATAAAAAATATTATAAACTCTAAATATAT
1 ATATATAATAAAAAATATTATAAACTAAAAATATAT
*
79587978 ATATATAATAAATAAT-TTATTAAACTAAAAATA
1 ATATATAATAAAAAATATTA-TAAACTAAAAATA
79588011 GATTTTATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 3 0.11
36 25 0.89
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (36 bp):
ATATATAATAAAAAATATTATAAACTAAAAATATAT
Found at i:79591587 original size:23 final size:23
Alignment explanation
Indices: 79591557--79591602 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
79591547 GTGAAAAAAT
79591557 CAGGTAGAAGCCCAATTCATTGA
1 CAGGTAGAAGCCCAATTCATTGA
*
79591580 CAGGTAGAAGCTCAATTCATTGA
1 CAGGTAGAAGCCCAATTCATTGA
79591603 AGGAAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.24
Consensus pattern (23 bp):
CAGGTAGAAGCCCAATTCATTGA
Found at i:79592894 original size:201 final size:201
Alignment explanation
Indices: 79592549--79592950 Score: 804
Period size: 201 Copynumber: 2.0 Consensus size: 201
79592539 CAGACTACAT
79592549 GGCTGTTAGCCCAAGCATTCCTAATTGAGACATTTGCTCAAGTGAGAGCATACACCATCACGGAA
1 GGCTGTTAGCCCAAGCATTCCTAATTGAGACATTTGCTCAAGTGAGAGCATACACCATCACGGAA
79592614 GAAAGTAACAAGAAAACAGACTCCAGAAGTTCGACTGTTTAAATTTGTAAGCGTGCATCTTTACC
66 GAAAGTAACAAGAAAACAGACTCCAGAAGTTCGACTGTTTAAATTTGTAAGCGTGCATCTTTACC
79592679 GATAGATCTTAAGATTATGATTTGAAGTAGAACATATTTCTTTCTTAAAGTGCAAAGGGATATAC
131 GATAGATCTTAAGATTATGATTTGAAGTAGAACATATTTCTTTCTTAAAGTGCAAAGGGATATAC
79592744 TAAATG
196 TAAATG
79592750 GGCTGTTAGCCCAAGCATTCCTAATTGAGACATTTGCTCAAGTGAGAGCATACACCATCACGGAA
1 GGCTGTTAGCCCAAGCATTCCTAATTGAGACATTTGCTCAAGTGAGAGCATACACCATCACGGAA
79592815 GAAAGTAACAAGAAAACAGACTCCAGAAGTTCGACTGTTTAAATTTGTAAGCGTGCATCTTTACC
66 GAAAGTAACAAGAAAACAGACTCCAGAAGTTCGACTGTTTAAATTTGTAAGCGTGCATCTTTACC
79592880 GATAGATCTTAAGATTATGATTTGAAGTAGAACATATTTCTTTCTTAAAGTGCAAAGGGATATAC
131 GATAGATCTTAAGATTATGATTTGAAGTAGAACATATTTCTTTCTTAAAGTGCAAAGGGATATAC
79592945 TAAATG
196 TAAATG
79592951 AGAGGCATGC
Statistics
Matches: 201, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
201 201 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.28
Consensus pattern (201 bp):
GGCTGTTAGCCCAAGCATTCCTAATTGAGACATTTGCTCAAGTGAGAGCATACACCATCACGGAA
GAAAGTAACAAGAAAACAGACTCCAGAAGTTCGACTGTTTAAATTTGTAAGCGTGCATCTTTACC
GATAGATCTTAAGATTATGATTTGAAGTAGAACATATTTCTTTCTTAAAGTGCAAAGGGATATAC
TAAATG
Found at i:79598017 original size:210 final size:211
Alignment explanation
Indices: 79597654--79598077 Score: 652
Period size: 210 Copynumber: 2.0 Consensus size: 211
79597644 CAAGAAGTTT
* * * *
79597654 ATAGTCTTGATTGCTGGTTCAGTTTCCCAATAATAGTTGGGGTCAAGAAATAACATTTTGAGAGA
1 ATAGTCTTGATTGCTAGTTCAGTTTCCCAATAATAGTAGGGCTCAAGAAATAACATTGTGAGAGA
** * *
79597719 TGAGAGTGGTGCATATGATTCTTAACAAACCAACCAGTATACTGCACCAAATCAAGATGAAAATT
66 CAAGAGTGGTGCACATGATTCCTAACAAACCAACCAGTATACTGCACCAAATCAAGATGAAAATT
* * * *
79597784 CGATATTGTAATTAACGAATTTTCATATGATGTCCTAGTTTACTAAATACAGAAGAGTAGGTTTA
131 CGATATTGTAACTAAAGAATTTTCATATGATGCCCTAGTTTACTAAAGACAGAAGAGTAGGTTTA
79597849 ATATGGTTCAACTTCC
196 ATATGGTTCAACTTCC
* * * *
79597865 ATAGTCTTGATTGCTAGTTCAGTTTTCCGATATTGGTAGGGCTCAAGAAATAACATTGT-AGAGA
1 ATAGTCTTGATTGCTAGTTCAGTTTCCCAATAATAGTAGGGCTCAAGAAATAACATTGTGAGAGA
* * *
79597929 CAAGGGTGGTGCACATGATTCCTAACAAACCAACCAGTATACTGCACCAAATCAAGGTGAAATTT
66 CAAGAGTGGTGCACATGATTCCTAACAAACCAACCAGTATACTGCACCAAATCAAGATGAAAATT
* *
79597994 TGATATTGTGACTAAAGAATTTTCATATGATGCCCTAGTTTACTAAAGACAGAAGAGTAGGTTTA
131 CGATATTGTAACTAAAGAATTTTCATATGATGCCCTAGTTTACTAAAGACAGAAGAGTAGGTTTA
79598059 ATATGGTTCAACTTCC
196 ATATGGTTCAACTTCC
79598075 ATA
1 ATA
79598078 AAGAAGTGGC
Statistics
Matches: 192, Mismatches: 21, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
210 141 0.73
211 51 0.27
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.31
Consensus pattern (211 bp):
ATAGTCTTGATTGCTAGTTCAGTTTCCCAATAATAGTAGGGCTCAAGAAATAACATTGTGAGAGA
CAAGAGTGGTGCACATGATTCCTAACAAACCAACCAGTATACTGCACCAAATCAAGATGAAAATT
CGATATTGTAACTAAAGAATTTTCATATGATGCCCTAGTTTACTAAAGACAGAAGAGTAGGTTTA
ATATGGTTCAACTTCC
Found at i:79600071 original size:6 final size:6
Alignment explanation
Indices: 79600062--79600094 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
79600052 ATAGTAGTAT
*
79600062 AGTACA AGTAGA AGTAGA AGTAGA AGTAGA AGT
1 AGTAGA AGTAGA AGTAGA AGTAGA AGTAGA AGT
79600095 TTATATATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.48, C:0.03, G:0.30, T:0.18
Consensus pattern (6 bp):
AGTAGA
Found at i:79601523 original size:53 final size:53
Alignment explanation
Indices: 79601421--79601576 Score: 138
Period size: 53 Copynumber: 2.9 Consensus size: 53
79601411 CTTTTTCTTA
* * * * ** *
79601421 TTTTGAATCGATTGTTTATATGTTCAAAAT-AATTGTTATGTCGGGATACTAAT
1 TTTTTAATAGATTGTTTACATGTT-TAAATCAATTGTTATGTAAGAATACTAAT
* *
79601474 TTTTTAATTGATTGTTTACATGTTTAAATCAATTGTTATGTAAGAATACTACT
1 TTTTTAATAGATTGTTTACATGTTTAAATCAATTGTTATGTAAGAATACTAAT
* * *
79601527 TCTTTTGAATAAATTATTTATACA-G-TTAAATCGATTGTTATGTAAGAATA
1 T-TTTT-AATAGATT-GTT-TACATGTTTAAATCAATTGTTATGTAAGAATA
79601577 TTATTTCTTC
Statistics
Matches: 86, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
52 4 0.05
53 41 0.48
54 4 0.05
55 30 0.35
56 3 0.03
57 4 0.05
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.46
Consensus pattern (53 bp):
TTTTTAATAGATTGTTTACATGTTTAAATCAATTGTTATGTAAGAATACTAAT
Found at i:79601646 original size:55 final size:55
Alignment explanation
Indices: 79601421--79601682 Score: 172
Period size: 55 Copynumber: 4.7 Consensus size: 55
79601411 CTTTTTCTTA
* * * * **** *
79601421 TTTTGAATCGATTGTTTATATGTTCAAAAT-AATTGTTATGTCGGGATACTAATT-
1 TTTTAAATTGATTGTTTATATATT-TAAATCAATTGTTATGTTAAAATACTACTTC
* *
79601475 TTTT-AATTGATTGTTTACATGTTTAAATCAATTGTTATG-TAAGAATACTACTTC
1 TTTTAAATTGATTGTTTATATATTTAAATCAATTGTTATGTTAA-AATACTACTTC
* ** * * * * * *
79601529 TTTTGAATAAATTATTTATACAGTTAAATCGATTGTTATGTAAGAATATTATTTCTTCTTC
1 TTTTAAATTGATTGTTTATATATTTAAATCAATTGTTATGTTA-AA-A-TA---CTACTTC
* * *
79601590 TTTTAAATTGGTTGTTTATATATTTAAATCAATTATTATGTTAAAATACTGCTTC
1 TTTTAAATTGATTGTTTATATATTTAAATCAATTGTTATGTTAAAATACTACTTC
** * * *
79601645 TTTTAAATAAATTATTTATATTTTTAAATTAATTGTTA
1 TTTTAAATTGATTGTTTATATATTTAAATCAATTGTTA
79601683 CATAACATAT
Statistics
Matches: 161, Mismatches: 36, Indels: 21
0.74 0.17 0.10
Matches are distributed among these distances:
52 4 0.02
53 35 0.22
54 8 0.05
55 64 0.40
56 2 0.01
57 2 0.01
58 4 0.02
59 1 0.01
60 2 0.01
61 39 0.24
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (55 bp):
TTTTAAATTGATTGTTTATATATTTAAATCAATTGTTATGTTAAAATACTACTTC
Found at i:79608766 original size:24 final size:22
Alignment explanation
Indices: 79608736--79608781 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
79608726 TCATTTAATA
79608736 ATATATGCTGAATTTTTTTAAAAT
1 ATATATGCT--ATTTTTTTAAAAT
*
79608760 ATATATGCTTTTTTTTTAAAAT
1 ATATATGCTATTTTTTTAAAAT
79608782 TTATTGATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 12 0.57
24 9 0.43
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (22 bp):
ATATATGCTATTTTTTTAAAAT
Found at i:79611558 original size:58 final size:58
Alignment explanation
Indices: 79611493--79611609 Score: 216
Period size: 58 Copynumber: 2.0 Consensus size: 58
79611483 ACTGGGTAGG
*
79611493 TAAACCTTGCCCGTTTTTCGAGCTCGTATTAACTTAATATAGTTAACCCGGGAACTAT
1 TAAACCTTGCCCGTTTTTCGAGCTCGTATTAACTTAATATAGCTAACCCGGGAACTAT
*
79611551 TAAACCTTGCCCGTTTTTCGAGCTCGTATTAACTTAATATAGCTAACCCGGGGACTAT
1 TAAACCTTGCCCGTTTTTCGAGCTCGTATTAACTTAATATAGCTAACCCGGGAACTAT
79611609 T
1 T
79611610 TGCAAAACTG
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.34
Consensus pattern (58 bp):
TAAACCTTGCCCGTTTTTCGAGCTCGTATTAACTTAATATAGCTAACCCGGGAACTAT
Found at i:79614952 original size:41 final size:41
Alignment explanation
Indices: 79614876--79615095 Score: 309
Period size: 41 Copynumber: 5.4 Consensus size: 41
79614866 CATTTTACAA
* * *
79614876 AAAACGCCGCTAAAA-ACAGAGAAATAGCGGTGCTTTTGGT
1 AAAACGCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGT
* *
79614916 AAAACGCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTAGC
1 AAAACGCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGT
* * * *
79614957 AAAAAGCCGCTAAAAGACAGAGCATTAGCGGTGCTTTCGTT
1 AAAACGCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGT
*
79614998 AAAACGCCGCTAAAAGAAAGAGCATTAGCGGCG-TTTTCGGT
1 AAAACGCCGCTAAAAGACAGAGCATTAGCGGCGCTTTT-GGT
* *
79615039 AAAACGTCGCTAAAAGACAGAGCATTAGCGGCGTTTTTGGT
1 AAAACGCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGT
79615080 AAAACGCCGCTAAAAG
1 AAAACGCCGCTAAAAG
79615096 TCATATAACT
Statistics
Matches: 158, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
40 18 0.11
41 136 0.86
42 4 0.03
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (41 bp):
AAAACGCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGT
Found at i:79615001 original size:82 final size:81
Alignment explanation
Indices: 79614845--79615095 Score: 326
Period size: 82 Copynumber: 3.1 Consensus size: 81
79614835 GCAAAAATTG
* * * * *
79614845 TAAAACACAGAGCAATAGCGGCATTTTA-CAAAAAACGCCGCTAAAA-ACAGAGAAATAGCGGTG
1 TAAAAGACAGAGCATTAGCGGCGTTTTAGC-AAAAA-GCCGCTAAAAGACAGAGCATTAGCGGTG
79614908 CTTTTGGTAAAACGCCGC
64 CTTTTGGTAAAACGCCGC
79614926 TAAAAGACAGAGCATTAGCGGCGCTTTTAGCAAAAAGCCGCTAAAAGACAGAGCATTAGCGGTGC
1 TAAAAGACAGAGCATTAGCGGCG-TTTTAGCAAAAAGCCGCTAAAAGACAGAGCATTAGCGGTGC
* *
79614991 TTTCGTTAAAACGCCGC
65 TTTTGGTAAAACGCCGC
* * * * * * *
79615008 TAAAAGAAAGAGCATTAGCGGCGTTTTCGGTAAAACGTCGCTAAAAGACAGAGCATTAGCGGCGT
1 TAAAAGACAGAGCATTAGCGGCGTTTT-AGCAAAAAGCCGCTAAAAGACAGAGCATTAGCGGTGC
79615073 TTTTGGTAAAACGCCGC
65 TTTTGGTAAAACGCCGC
79615090 TAAAAG
1 TAAAAG
79615096 TCATATAACT
Statistics
Matches: 150, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
81 34 0.23
82 115 0.77
83 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.20
Consensus pattern (81 bp):
TAAAAGACAGAGCATTAGCGGCGTTTTAGCAAAAAGCCGCTAAAAGACAGAGCATTAGCGGTGCT
TTTGGTAAAACGCCGC
Found at i:79615728 original size:24 final size:24
Alignment explanation
Indices: 79615701--79615749 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
79615691 CGTATATTTA
*
79615701 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTCTATATAAAAATTAAT
79615725 TTAAAAGTCTATATAAAAATTAAT
1 TTAAAAGTCTATATAAAAATTAAT
79615749 T
1 T
79615750 GTTATTTTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (24 bp):
TTAAAAGTCTATATAAAAATTAAT
Found at i:79616068 original size:15 final size:15
Alignment explanation
Indices: 79616048--79616078 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
79616038 GGTTTATGGA
79616048 TTATGGATTACGAGT
1 TTATGGATTACGAGT
*
79616063 TTATGGATTATGAGT
1 TTATGGATTACGAGT
79616078 T
1 T
79616079 GGGATTTAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.03, G:0.26, T:0.45
Consensus pattern (15 bp):
TTATGGATTACGAGT
Found at i:79616103 original size:14 final size:14
Alignment explanation
Indices: 79616084--79616142 Score: 64
Period size: 14 Copynumber: 4.2 Consensus size: 14
79616074 GAGTTGGGAT
* *
79616084 TTAAGGTTTAGGTG
1 TTAAGGGTTAGGGG
79616098 TTAAGGGTTAGGGG
1 TTAAGGGTTAGGGG
* *
79616112 TTAGGGGATAGGGG
1 TTAAGGGTTAGGGG
* *
79616126 TTATGGGTTATGGG
1 TTAAGGGTTAGGGG
79616140 TTA
1 TTA
79616143 TGTTGTATGA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 38 1.00
ACGTcount: A:0.20, C:0.00, G:0.44, T:0.36
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:79616144 original size:7 final size:7
Alignment explanation
Indices: 79616091--79616142 Score: 59
Period size: 7 Copynumber: 7.4 Consensus size: 7
79616081 GATTTAAGGT
*
79616091 TTAGGTG
1 TTAGGGG
*
79616098 TTAAGGG
1 TTAGGGG
79616105 TTAGGGG
1 TTAGGGG
79616112 TTAGGGG
1 TTAGGGG
*
79616119 ATAGGGG
1 TTAGGGG
*
79616126 TTATGGG
1 TTAGGGG
*
79616133 TTATGGG
1 TTAGGGG
79616140 TTA
1 TTA
79616143 TGTTGTATGA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.19, C:0.00, G:0.46, T:0.35
Consensus pattern (7 bp):
TTAGGGG
Found at i:79616517 original size:22 final size:22
Alignment explanation
Indices: 79616492--79616547 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
79616482 AAATTTTTTT
79616492 TAAAAAATATTTAA-AATT-AATA
1 TAAAAAATA--TAATAATTAAATA
*
79616514 TAAAAGATATAATAATTAAATA
1 TAAAAAATATAATAATTAAATA
*
79616536 TAAAAATTATAA
1 TAAAAAATATAA
79616548 AAAAGTTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 3 0.10
21 4 0.14
22 22 0.76
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (22 bp):
TAAAAAATATAATAATTAAATA
Found at i:79616744 original size:20 final size:18
Alignment explanation
Indices: 79616729--79616764 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
79616719 TATTTCTCTC
*
79616729 CCCCGATTCCCTTTTCTT
1 CCCCAATTCCCTTTTCTT
*
79616747 TCCCAATTCCCTTTTCTT
1 CCCCAATTCCCTTTTCTT
79616765 TCTCAGCATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.08, C:0.42, G:0.03, T:0.47
Consensus pattern (18 bp):
CCCCAATTCCCTTTTCTT
Found at i:79618776 original size:22 final size:22
Alignment explanation
Indices: 79618735--79618776 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
79618725 CTGGGTTTAC
*
79618735 GTCTGCTGCATCGCCTTCGGTA
1 GTCTGCTGCATCGCCGTCGGTA
* *
79618757 GTCTTCTGCATCGTCGTCGG
1 GTCTGCTGCATCGCCGTCGG
79618777 CAGCCCTCTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.07, C:0.31, G:0.29, T:0.33
Consensus pattern (22 bp):
GTCTGCTGCATCGCCGTCGGTA
Found at i:79618801 original size:25 final size:25
Alignment explanation
Indices: 79618773--79618847 Score: 96
Period size: 25 Copynumber: 3.0 Consensus size: 25
79618763 TGCATCGTCG
*
79618773 TCGGCAGCCCTCTGCTACATCTCTA
1 TCGGCATCCCTCTGCTACATCTCTA
* **
79618798 TCGGCATCCCTCTTCTACATCTCCG
1 TCGGCATCCCTCTGCTACATCTCTA
* *
79618823 TCGGCATCCCTCTGCTGCTTCTCTA
1 TCGGCATCCCTCTGCTACATCTCTA
79618848 ATTTTCTGCC
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.12, C:0.41, G:0.15, T:0.32
Consensus pattern (25 bp):
TCGGCATCCCTCTGCTACATCTCTA
Found at i:79621592 original size:33 final size:33
Alignment explanation
Indices: 79621541--79621607 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
79621531 ATCCTTTGGA
*
79621541 TCTCTTTGCTACTAGTTCCAATGCGTATGTTCT
1 TCTCATTGCTACTAGTTCCAATGCGTATGTTCT
*
79621574 TCTCATTGCTACTGGTTCCAATGCGTATGTTCT
1 TCTCATTGCTACTAGTTCCAATGCGTATGTTCT
79621607 T
1 T
79621608 AAGTATGAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.15, C:0.24, G:0.16, T:0.45
Consensus pattern (33 bp):
TCTCATTGCTACTAGTTCCAATGCGTATGTTCT
Found at i:79622297 original size:241 final size:241
Alignment explanation
Indices: 79621632--79622784 Score: 2143
Period size: 241 Copynumber: 4.8 Consensus size: 241
79621622 ATGAATTAAT
*
79621632 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACATT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
* *
79621697 TTTTTAAATATTTTAATGATTCAAAGTATATAGGCTGAAAACCTGACGGGTTGCCTTACATCGAG
66 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGAAAACCTGACGGGTTGCCTTATATCGAG
*
79621762 CTGTAAGATATAATGGATCCTCTCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
79621827 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
196 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
* * *
79621873 TTTATTACAATGTAGCTTGCTTGTCCATTAAAATTACAACAATAACTGA-C--CTCTCCAACTTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
*
79621935 TTTTTAAATATTTTAAAGATTCAAAGCATATAGGCTGAAAACCTGACGGGTTGCCTTATATCGAG
66 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGAAAACCTGACGGGTTGCCTTATATCGAG
79622000 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
79622065 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
196 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
*
79622111 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACATTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
*
79622176 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
66 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGAAAACCTGACGGGTTGCCTTATATCGAG
79622241 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTT-AAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
79622305 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
196 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
79622351 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
* *
79622416 TTTTAAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
66 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGAAAACCTGACGGGTTGCCTTATATCGAG
*
79622481 CTGTAAGATATAATGGATCCTCCTTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
*
79622546 AAAAAGACTTGAAAAAAGTTCTATTGAGCTCATTTACTATTGAATA
196 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
*
79622592 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCTAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
79622657 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGAAAACCTGACGGGTTGCCTTATATCGAG
66 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGAAAACCTGACGGGTTGCCTTATATCGAG
79622722 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAAT
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAAT
79622785 AACTTACATA
Statistics
Matches: 887, Mismatches: 21, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
238 230 0.26
240 238 0.27
241 419 0.47
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (241 bp):
TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGAAAACCTGACGGGTTGCCTTATATCGAG
CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
Found at i:79622600 original size:481 final size:478
Alignment explanation
Indices: 79621632--79622782 Score: 2131
Period size: 481 Copynumber: 2.4 Consensus size: 478
79621622 ATGAATTAAT
*
79621632 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACATT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
* *
79621697 TTTTTAAATATTTTAATGATTCAAAGTATATAGGCTGAAAACCTGACGGGTTGCCTTACATCGAG
66 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGAAAACCTGACGGGTTGCCTTATATCGAG
*
79621762 CTGTAAGATATAATGGATCCTCTCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTT-AAAAATTC
79621827 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATTACAATGTAGCTTG
195 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATTACAATGTAGCTTG
* *
79621892 CTTGTCCATTAAAATTACAACAATAACTGACCTCTCCAACTTTTTTTTAAATATTTTAAAGATTC
260 CTTGTCCATTAAAATTACAACAATAACTGACCTCTCCAACCTTTTTTAAAATATTTTAAAGATTC
79621957 AAAGCATATAGGCTGAAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTC
325 AAAGCATATAGGCTGAAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTC
79622022 CCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCT
390 CCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCT
79622087 ATCGAGCTCATTTACTATTGAATA
455 ATCGAGCTCATTTACTATTGAATA
*
79622111 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACATTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
*
79622176 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
66 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGAAAACCTGACGGGTTGCCTTATATCGAG
79622241 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAATTCA
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAATTCA
*
79622306 AAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTTGC
196 AAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATTACAATGTAGCTTGC
*
79622371 TTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTTTTTTAAAATATTTTAAAGAT
261 TTGTCCATTAAAATTACAACAATAACTGA-C--CTCTCCAACCTTTTTTAAAATATTTTAAAGAT
* *
79622436 TCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCC
323 TCAAAGCATATAGGCTGAAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCC
*
79622501 TCCTTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTT
388 TCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTT
*
79622566 CTATTGAGCTCATTTACTATTGAATA
453 CTATCGAGCTCATTTACTATTGAATA
*
79622592 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCTAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
79622657 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGAAAACCTGACGGGTTGCCTTATATCGAG
66 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGAAAACCTGACGGGTTGCCTTATATCGAG
79622722 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAA
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAA
79622783 ATAACTTACA
Statistics
Matches: 652, Mismatches: 17, Indels: 4
0.97 0.03 0.01
Matches are distributed among these distances:
478 101 0.15
479 181 0.28
481 370 0.57
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (478 bp):
TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGAAAACCTGACGGGTTGCCTTATATCGAG
CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAATTCA
AAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATTACAATGTAGCTTGC
TTGTCCATTAAAATTACAACAATAACTGACCTCTCCAACCTTTTTTAAAATATTTTAAAGATTCA
AAGCATATAGGCTGAAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCC
CTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTA
TCGAGCTCATTTACTATTGAATA
Found at i:79622797 original size:9 final size:9
Alignment explanation
Indices: 79622783--79622841 Score: 91
Period size: 9 Copynumber: 6.6 Consensus size: 9
79622773 ATCTTAAAAA
79622783 ATAACTTAC
1 ATAACTTAC
*
79622792 ATAACTCAC
1 ATAACTTAC
79622801 ATAACTTAC
1 ATAACTTAC
*
79622810 ATAATTTAC
1 ATAACTTAC
79622819 ATAACTTAC
1 ATAACTTAC
*
79622828 ATAACGTAC
1 ATAACTTAC
79622837 ATAAC
1 ATAAC
79622842 AACTTACGGA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 45 1.00
ACGTcount: A:0.46, C:0.22, G:0.02, T:0.31
Consensus pattern (9 bp):
ATAACTTAC
Found at i:79628458 original size:19 final size:19
Alignment explanation
Indices: 79628406--79628451 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
79628396 ACTTAGAGCG
*
79628406 GAGGCAGCAGAGAGGGAGGCA
1 GAGGCAGCAGCGA--GAGGCA
*
79628427 GCGGCAGCAGCGAGAGGCA
1 GAGGCAGCAGCGAGAGGCA
79628446 GAGGCA
1 GAGGCA
79628452 CGAGCGATGG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 11 0.50
21 11 0.50
ACGTcount: A:0.30, C:0.20, G:0.50, T:0.00
Consensus pattern (19 bp):
GAGGCAGCAGCGAGAGGCA
Found at i:79628753 original size:31 final size:31
Alignment explanation
Indices: 79628691--79628773 Score: 94
Period size: 31 Copynumber: 2.6 Consensus size: 31
79628681 TTAGAATTAA
*
79628691 TGTTTTTGGTTGTATTTTTTATGCTAAATTTAC
1 TGTTTTTGGTTGTA--TTTTATACTAAATTTAC
* * *
79628724 TGTTTTTGGCTGTATTTTATACTATATTTAT
1 TGTTTTTGGTTGTATTTTATACTAAATTTAC
* *
79628755 TGTATTTGGTTGGATTTTA
1 TGTTTTTGGTTGTATTTTA
79628774 ATACAGGAAG
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 30 0.70
33 13 0.30
ACGTcount: A:0.18, C:0.05, G:0.17, T:0.60
Consensus pattern (31 bp):
TGTTTTTGGTTGTATTTTATACTAAATTTAC
Found at i:79632570 original size:21 final size:21
Alignment explanation
Indices: 79632544--79632584 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
79632534 AGACAAGCGA
* *
79632544 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
79632565 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
79632585 TTGAGCAGAT
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:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:79635840 original size:3 final size:3
Alignment explanation
Indices: 79635832--79635872 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
79635822 TTATCAAAGA
79635832 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
79635873 AGACATTCCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:79639422 original size:15 final size:14
Alignment explanation
Indices: 79639389--79639425 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
79639379 ATTTTTCATA
79639389 TTTTTTATAGAAAT
1 TTTTTTATAGAAAT
*
79639403 TTTTTTATCGAAAT
1 TTTTTTATAGAAAT
79639417 TGTTTTTAT
1 T-TTTTTAT
79639426 TTTTTATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 14 0.67
15 7 0.33
ACGTcount: A:0.27, C:0.03, G:0.08, T:0.62
Consensus pattern (14 bp):
TTTTTTATAGAAAT
Found at i:79643796 original size:16 final size:17
Alignment explanation
Indices: 79643766--79643798 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
79643756 TATACAAAAG
*
79643766 AAAATTATTACTTCAAA
1 AAAATTAATACTTCAAA
79643783 AAAATTAATA-TTCAAA
1 AAAATTAATACTTCAAA
79643799 TATCATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAATTAATACTTCAAA
Found at i:79647262 original size:26 final size:27
Alignment explanation
Indices: 79647233--79647293 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 27
79647223 TCAAAAAAAA
79647233 AAGAAAATAAAAAAG-AACA-A-ATGAGG
1 AAGAAAA-AAAAAAGAAACAGAGA-GAGG
*
79647259 AAGAGAAAAGAAAAGAAACAGAGAGAGG
1 AAGA-AAAAAAAAAGAAACAGAGAGAGG
79647287 AAGAAAA
1 AAGAAAA
79647294 CAGAACGTCT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
26 10 0.33
27 10 0.33
28 9 0.30
29 1 0.03
ACGTcount: A:0.69, C:0.03, G:0.25, T:0.03
Consensus pattern (27 bp):
AAGAAAAAAAAAAGAAACAGAGAGAGG
Found at i:79648833 original size:22 final size:21
Alignment explanation
Indices: 79648808--79648870 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
79648798 TGAGATTTGG
79648808 ACTACGATGCCTACTGATTTAC
1 ACTACG-TGCCTACTGATTTAC
* * *
79648830 ACTATTGTGCCTATTGATTTGC
1 ACTA-CGTGCCTACTGATTTAC
*
79648852 ACTACGGTGCCTAGTGATT
1 ACTAC-GTGCCTACTGATT
79648871 CACATTTTGA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
22 33 0.97
23 1 0.03
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (21 bp):
ACTACGTGCCTACTGATTTAC
Found at i:79648945 original size:56 final size:56
Alignment explanation
Indices: 79648852--79649021 Score: 216
Period size: 56 Copynumber: 3.0 Consensus size: 56
79648842 ATTGATTTGC
* * *
79648852 ACTACGGTGCCTAGTGATTCACAT-TTTGATGCGTACTGCTCAGCATTTTGGTGCCT
1 ACTACGGTGCCTAGTGATTCGC-TCTTTGATGCATACTGCTCAGCACTTTGGTGCCT
* * *
79648908 ACTACGGTGCCTAGTGATTCGCTCTTTGATACATACTGCTAAGCACTTTGGTGCTT
1 ACTACGGTGCCTAGTGATTCGCTCTTTGATGCATACTGCTCAGCACTTTGGTGCCT
* ** * * *
79648964 ATTATAGTGCCTAGTGATTCGCACTTCGATGCATACTGCTCAGTACTTTGGTGCCT
1 ACTACGGTGCCTAGTGATTCGCTCTTTGATGCATACTGCTCAGCACTTTGGTGCCT
79649020 AC
1 AC
79649022 CGTTAAAGCA
Statistics
Matches: 97, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
55 1 0.01
56 96 0.99
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
ACTACGGTGCCTAGTGATTCGCTCTTTGATGCATACTGCTCAGCACTTTGGTGCCT
Found at i:79651737 original size:19 final size:22
Alignment explanation
Indices: 79651698--79651737 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
79651688 AGAAACCCAA
79651698 CCATATCCAACCGTATACACCC
1 CCATATCCAACCGTATACACCC
79651720 CCATA-CCAACC-T-TACACC
1 CCATATCCAACCGTATACACC
79651738 GTGTGTGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.33, C:0.47, G:0.03, T:0.17
Consensus pattern (22 bp):
CCATATCCAACCGTATACACCC
Found at i:79651839 original size:27 final size:26
Alignment explanation
Indices: 79651799--79651913 Score: 131
Period size: 27 Copynumber: 4.3 Consensus size: 26
79651789 AGCATGGCTG
*
79651799 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGACAGAGCCA
* *
79651825 CCAGATACATATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGACAGAGCCA
79651853 CCAGAACAGATATATGTGACAGAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCA
* * * *
79651880 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCA
79651907 CCAGAAC
1 CCAGAAC
79651914 GCTTCCTCCA
Statistics
Matches: 76, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
26 5 0.07
27 54 0.71
28 17 0.22
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGACAGAGCCA
Found at i:79651863 original size:54 final size:54
Alignment explanation
Indices: 79651799--79651913 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
79651789 AGCATGGCTG
* *
79651799 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACATATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * *
79651853 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
79651907 CCAGAAC
1 CCAGAAC
79651914 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 36 0.65
55 19 0.35
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:79652044 original size:26 final size:26
Alignment explanation
Indices: 79652015--79652077 Score: 117
Period size: 26 Copynumber: 2.4 Consensus size: 26
79652005 CAAAATTAAC
*
79652015 CCTAGGGGTGTAACGGTAATTTTGCA
1 CCTAGGGGTATAACGGTAATTTTGCA
79652041 CCTAGGGGTATAACGGTAATTTTGCA
1 CCTAGGGGTATAACGGTAATTTTGCA
79652067 CCTAGGGGTAT
1 CCTAGGGGTAT
79652078 TATAGTAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (26 bp):
CCTAGGGGTATAACGGTAATTTTGCA
Found at i:79652085 original size:26 final size:26
Alignment explanation
Indices: 79652015--79652088 Score: 103
Period size: 26 Copynumber: 2.8 Consensus size: 26
79652005 CAAAATTAAC
* *
79652015 CCTAGGGGTGTAACGGTAATTTTGCA
1 CCTAGGGGTATAACAGTAATTTTGCA
*
79652041 CCTAGGGGTATAACGGTAATTTTGCA
1 CCTAGGGGTATAACAGTAATTTTGCA
* *
79652067 CCTAGGGGTATTATAGTAATTT
1 CCTAGGGGTATAACAGTAATTT
79652089 AGCTACTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.34
Consensus pattern (26 bp):
CCTAGGGGTATAACAGTAATTTTGCA
Found at i:79653555 original size:26 final size:26
Alignment explanation
Indices: 79653519--79653628 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
79653509 CATGGAATTC
79653519 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
79653545 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
79653571 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
79653597 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
79653623 TTATCA
1 TTATCA
79653629 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
26 79 0.98
27 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:79657724 original size:37 final size:37
Alignment explanation
Indices: 79657665--79657803 Score: 224
Period size: 37 Copynumber: 3.8 Consensus size: 37
79657655 AGCTCAGATG
* *
79657665 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
79657702 AAATCTCCACATGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
79657739 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
79657776 TAATCTCCACACGTAGTCATCTGGTCTT
1 AAATCTCCACACGTAGTCATCGGGTCTT
79657804 TAATCCCAGG
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 96 1.00
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:79658050 original size:46 final size:46
Alignment explanation
Indices: 79657961--79658097 Score: 152
Period size: 46 Copynumber: 3.0 Consensus size: 46
79657951 ATATATACAC
* *
79657961 ATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATCT
1 ATCTCATACACATTTCGCATTAGCCATTCGGCCTTACCTCATATCT
*
79658007 ATCTCATACACATTTCGCATTAGCCATTCGGCCTTA-CTACATATAT
1 ATCTCATACACATTTCGCATTAGCCATTCGGCCTTACCT-CATATCT
* * * * * *
79658053 A-CACGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATAT
1 ATCTCATACACATT--TCGCATTAGCCATTCGGCCTTACCTCATAT
79658098 ATGCATGTTC
Statistics
Matches: 79, Mismatches: 8, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
45 11 0.14
46 41 0.52
47 25 0.32
48 2 0.03
ACGTcount: A:0.25, C:0.30, G:0.10, T:0.35
Consensus pattern (46 bp):
ATCTCATACACATTTCGCATTAGCCATTCGGCCTTACCTCATATCT
Found at i:79658084 original size:47 final size:47
Alignment explanation
Indices: 79658024--79658312 Score: 373
Period size: 47 Copynumber: 6.1 Consensus size: 47
79658014 ACACATTTCG
* *
79658024 CATTAGCCATTCGGCCTTA-CTACATATATACACGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATC-ACATATATACATGTTCACATTCATCA
* *
79658071 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* **
79658118 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* **
79658165 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* * *
79658212 CATTGGCCATTCAGCCTTATCACGCATATATATACAGGTTCACATTCGTCA
1 CATTGGCCATTCGGCCTTATCA--C--ATATATACATGTTCACATTCATCA
* * **
79658263 CATTTGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
79658310 CAT
1 CAT
79658313 AAAATCCTAA
Statistics
Matches: 218, Mismatches: 19, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
47 177 0.81
48 1 0.00
49 2 0.01
51 38 0.17
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
Found at i:79676978 original size:116 final size:116
Alignment explanation
Indices: 79676774--79677007 Score: 459
Period size: 116 Copynumber: 2.0 Consensus size: 116
79676764 AATATTCTTG
79676774 AAAGCAGTTACCATAATGTAATTAACATTTGGGCAGTAATTACACTGAAATTGCAGTATGTTTGA
1 AAAGCAGTTACCATAATGTAATTAACATTTGGGCAGTAATTACACTGAAATTGCAGTATGTTTGA
79676839 GCAAGAAAAAGTTGTTGGATGTTGGTCCTGATGTGAAAGGTCATTACCTTA
66 GCAAGAAAAAGTTGTTGGATGTTGGTCCTGATGTGAAAGGTCATTACCTTA
*
79676890 AAAGCAGTTACCATAATGTAATTAACATTTGGGCAGTAATTACACTGAAATTGCAGTTTGTTTGA
1 AAAGCAGTTACCATAATGTAATTAACATTTGGGCAGTAATTACACTGAAATTGCAGTATGTTTGA
79676955 GCAAGAAAAAGTTGTTGGATGTTGGTCCTGATGTGAAAGGTCATTACCTTA
66 GCAAGAAAAAGTTGTTGGATGTTGGTCCTGATGTGAAAGGTCATTACCTTA
79677006 AA
1 AA
79677008 GAATTATAGA
Statistics
Matches: 117, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
116 117 1.00
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.32
Consensus pattern (116 bp):
AAAGCAGTTACCATAATGTAATTAACATTTGGGCAGTAATTACACTGAAATTGCAGTATGTTTGA
GCAAGAAAAAGTTGTTGGATGTTGGTCCTGATGTGAAAGGTCATTACCTTA
Found at i:79677349 original size:25 final size:25
Alignment explanation
Indices: 79677315--79677365 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
79677305 TTCCTTATAA
**
79677315 ACTTTAAATTAGGAATTCTATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
79677340 ACTTTAAATTAGGAATTAGATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
79677365 A
1 A
79677366 TTTTCCTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.37
Consensus pattern (25 bp):
ACTTTAAATTAGGAATTAGATTAGG
Found at i:79677364 original size:12 final size:12
Alignment explanation
Indices: 79677318--79677365 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
79677308 CTTATAAACT
79677318 TTAAATTAGGAA
1 TTAAATTAGGAA
** *
79677330 TTCTATTAGGACT
1 TTAAATTAGGA-A
79677343 TTAAATTAGGAA
1 TTAAATTAGGAA
*
79677355 TTAGATTAGGA
1 TTAAATTAGGA
79677366 TTTTCCTTTG
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
12 19 0.68
13 9 0.32
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.38
Consensus pattern (12 bp):
TTAAATTAGGAA
Found at i:79682015 original size:25 final size:25
Alignment explanation
Indices: 79681981--79682031 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
79681971 TTCCTTATAA
**
79681981 ACTTTAAATTAGGAATTCTATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
79682006 ACTTTAAATTAGGAATTAGATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
79682031 A
1 A
79682032 TTTTCCTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.37
Consensus pattern (25 bp):
ACTTTAAATTAGGAATTAGATTAGG
Found at i:79682030 original size:12 final size:12
Alignment explanation
Indices: 79681984--79682031 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
79681974 CTTATAAACT
79681984 TTAAATTAGGAA
1 TTAAATTAGGAA
** *
79681996 TTCTATTAGGACT
1 TTAAATTAGGA-A
79682009 TTAAATTAGGAA
1 TTAAATTAGGAA
*
79682021 TTAGATTAGGA
1 TTAAATTAGGA
79682032 TTTTCCTTTG
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
12 19 0.68
13 9 0.32
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.38
Consensus pattern (12 bp):
TTAAATTAGGAA
Found at i:79687506 original size:23 final size:23
Alignment explanation
Indices: 79687476--79687519 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
79687466 ACATTTTATG
*
79687476 GGTGCAAGTGTTAGTGGCACTAC
1 GGTGCAAGTGATAGTGGCACTAC
79687499 GGTGCAAGTGATAGTGGCACT
1 GGTGCAAGTGATAGTGGCACT
79687520 TTAGTGCAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.23, C:0.16, G:0.36, T:0.25
Consensus pattern (23 bp):
GGTGCAAGTGATAGTGGCACTAC
Found at i:79687526 original size:23 final size:23
Alignment explanation
Indices: 79687477--79687532 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
79687467 CATTTTATGG
* *
79687477 GTGCAAGTGTTAGTGGCACTACG
1 GTGCAAGTGATAGTGGCACTACA
**
79687500 GTGCAAGTGATAGTGGCACTTTA
1 GTGCAAGTGATAGTGGCACTACA
79687523 GTGCAAGTGA
1 GTGCAAGTGA
79687533 CAGAAGCACA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.25, C:0.14, G:0.34, T:0.27
Consensus pattern (23 bp):
GTGCAAGTGATAGTGGCACTACA
Found at i:79691214 original size:21 final size:21
Alignment explanation
Indices: 79691188--79691238 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
79691178 TCAAACTCTT
*
79691188 ACAAAAAATGGCTAAATTGGA
1 ACAAAAAATGGCTAAATTGAA
79691209 ACAAAAAATGGCTAAATTGAA
1 ACAAAAAATGGCTAAATTGAA
79691230 ACAAAAAAT
1 ACAAAAAAT
79691239 AAAGAGGAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.59, C:0.10, G:0.14, T:0.18
Consensus pattern (21 bp):
ACAAAAAATGGCTAAATTGAA
Found at i:79698729 original size:126 final size:126
Alignment explanation
Indices: 79698502--79698815 Score: 493
Period size: 126 Copynumber: 2.5 Consensus size: 126
79698492 CCAAATAGGA
* * *
79698502 ACTACTGTAGCAAAAGAGCATCCACGTGGGAGTTTTTTTCAGTAATTTTACTGACAATACATCCT
1 ACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTACTGACAGTGCATCCT
* * * * *
79698567 GCTTGAAGCGTTTTGGACATTATTTGTTTAGGAACGTGTTCTCAAAATTATTTTTTCAGAT
66 GCTTGAAACGTTTTGGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
* * *
79698628 ACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATGCT
1 ACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTACTGACAGTGCATCCT
79698693 GCTTGAAACGTTTTGGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
66 GCTTGAAACGTTTTGGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
* * * *
79698754 ACTACCGTAGCAAAAGAGTATCCACGTGGAAGCTTTTTTCAGTAATTTTACTGATAGTGCAT
1 ACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTACTGACAGTGCAT
79698816 TCTAATTTAA
Statistics
Matches: 171, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
126 171 1.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (126 bp):
ACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTACTGACAGTGCATCCT
GCTTGAAACGTTTTGGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
Found at i:79698917 original size:22 final size:23
Alignment explanation
Indices: 79698890--79698933 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
79698880 GTTAATTTAA
79698890 TTAATTAACCAT-AAACCCTAAT
1 TTAATTAACCATAAAACCCTAAT
*
79698912 TTAATTAACCCTAAAACCCTAA
1 TTAATTAACCATAAAACCCTAA
79698934 AGACAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (23 bp):
TTAATTAACCATAAAACCCTAAT
Found at i:79699117 original size:175 final size:174
Alignment explanation
Indices: 79698817--79699149 Score: 515
Period size: 175 Copynumber: 1.9 Consensus size: 174
79698807 ATAGTGCATT
* * *
79698817 CTAATTTAATTAAATAACCCTAAAAACCTTAAACCTTAATTGAATTGATTTTTTAAATTAATAGT
1 CTAATTTAATTAAATAACCCTAAAAACCATAAACCCTAATTGAATTAATTTTTTAAATTAATAGT
* *
79698882 TAATTTAATTAATTAACCATAAACCCTAATTTAATTAACCCTAAAACCCTAAAGACAATAAACTA
66 TAATTTAATTAATTAACCATAAACCCTAATTTAATTAACCCTAAAACCCTAAACACAATAAAATA
79698947 CTAAACTCTTAAAATCC-TAACCCTAAACTTTAAAACAATAAATC
131 CTAAACTCTTAAAA-CCATAACCCTAAACTTTAAAACAATAAATC
* * *
79698991 CTAATTTAATTAATTAACCCTAAAAATCATAAACCCTAATTTAATTAATTTTTTAAAATTAATAG
1 CTAATTTAATTAAATAACCCTAAAAACCATAAACCCTAATTGAATTAATTTTTT-AAATTAATAG
* * * *
79699056 TTAATTTAATTAATTAACCCTAAGCCCTAATTTAATTAGCCCTAAAACCCTGAACACAATAAAAT
65 TTAATTTAATTAATTAACCATAAACCCTAATTTAATTAACCCTAAAACCCTAAACACAATAAAAT
* *
79699121 CCTAAACTCTTAAAACCATAACCTTAAAC
130 ACTAAACTCTTAAAACCATAACCCTAAAC
79699150 CCTAAAACCT
Statistics
Matches: 143, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
174 50 0.35
175 93 0.65
ACGTcount: A:0.46, C:0.19, G:0.02, T:0.33
Consensus pattern (174 bp):
CTAATTTAATTAAATAACCCTAAAAACCATAAACCCTAATTGAATTAATTTTTTAAATTAATAGT
TAATTTAATTAATTAACCATAAACCCTAATTTAATTAACCCTAAAACCCTAAACACAATAAAATA
CTAAACTCTTAAAACCATAACCCTAAACTTTAAAACAATAAATC
Found at i:79699724 original size:13 final size:14
Alignment explanation
Indices: 79699694--79699726 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
79699684 TTAAATAAGT
79699694 AATTATCAAATCTA
1 AATTATCAAATCTA
*
79699708 AATTATCATAT-TA
1 AATTATCAAATCTA
79699721 AATTAT
1 AATTAT
79699727 TTTTCTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.42
Consensus pattern (14 bp):
AATTATCAAATCTA
Found at i:79723950 original size:57 final size:57
Alignment explanation
Indices: 79723868--79723982 Score: 153
Period size: 57 Copynumber: 2.0 Consensus size: 57
79723858 AAAAATGGTG
* * *
79723868 AAATGGAGAAATAGGAAACATTTGGAAATGATTA-AGATTTTCTCCAAAATGAAAATGA
1 AAATGGAGAAATA-GAAACATTTGGAAATGAATATAG-TTTTATCCAAAAGGAAAATGA
*
79723926 AAATGGAGAAATA-AAATCATTTGGAAATGAATATTGTTTTATCCAAAAGGAAAATGA
1 AAATGGAGAAATAGAAA-CATTTGGAAATGAATATAGTTTTATCCAAAAGGAAAATGA
79723983 CCTAAAAAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
56 3 0.06
57 34 0.67
58 14 0.27
ACGTcount: A:0.49, C:0.06, G:0.18, T:0.27
Consensus pattern (57 bp):
AAATGGAGAAATAGAAACATTTGGAAATGAATATAGTTTTATCCAAAAGGAAAATGA
Found at i:79726956 original size:30 final size:30
Alignment explanation
Indices: 79726922--79726983 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
79726912 ACTTATTTTA
79726922 TTGTT-AATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAAATTTT-TTATTATTTTAAAGGCAT
*
79726952 TTGTTAAATTTTTTATTATTTTAGAGGCAT
1 TTGTTAAATTTTTTATTATTTTAAAGGCAT
79726982 TT
1 TT
79726984 ACTTGTTAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 24 0.80
31 6 0.20
ACGTcount: A:0.26, C:0.03, G:0.13, T:0.58
Consensus pattern (30 bp):
TTGTTAAATTTTTTATTATTTTAAAGGCAT
Found at i:79735369 original size:42 final size:42
Alignment explanation
Indices: 79735322--79735405 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
79735312 AACCTAATTG
79735322 GGAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAAA
1 GGAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAAA
*
79735364 GGAAAATAATTCCCTTATTTTAATAAACTACTAAAAGATAAA
1 GGAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAAA
79735406 ATAAATATTC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.50, C:0.13, G:0.07, T:0.30
Consensus pattern (42 bp):
GGAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAAA
Found at i:79735467 original size:19 final size:19
Alignment explanation
Indices: 79735443--79735479 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
79735433 ATTTATTTTA
79735443 AGATTTATCTACCTAAATG
1 AGATTTATCTACCTAAATG
79735462 AGATTTATCTACCTAAAT
1 AGATTTATCTACCTAAAT
79735480 AACTTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (19 bp):
AGATTTATCTACCTAAATG
Found at i:79740438 original size:21 final size:22
Alignment explanation
Indices: 79740406--79740447 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
79740396 CACTAGAACA
*
79740406 ATGTAACAAAAT-CAATAAAAT
1 ATGTAACAAAATGAAATAAAAT
79740427 ATGT-ACATAAATGAAATAAAA
1 ATGTAACA-AAATGAAATAAAA
79740448 GAAGAAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
20 3 0.17
21 8 0.44
22 7 0.39
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.24
Consensus pattern (22 bp):
ATGTAACAAAATGAAATAAAAT
Found at i:79746965 original size:21 final size:21
Alignment explanation
Indices: 79746920--79747071 Score: 141
Period size: 21 Copynumber: 7.3 Consensus size: 21
79746910 CAAATGAGCC
* *
79746920 AACAGAAGCTC-GAA-AGCTG
1 AACAGAAGCTCATAAGAGCTA
* *
79746939 AACAGAAGCTCATAAGAGTTT
1 AACAGAAGCTCATAAGAGCTA
* *
79746960 AACAGAAGCACATAAGAGCTG
1 AACAGAAGCTCATAAGAGCTA
*
79746981 AACAGAAGCTCGA-AAAAGCTA
1 AACAGAAGCTC-ATAAGAGCTA
* * *
79747002 AACAAAAGCTCTTAAGAGCTT
1 AACAGAAGCTCATAAGAGCTA
*
79747023 AACAGAAGCTCGA-AAGAGCTG
1 AACAGAAGCTC-ATAAGAGCTA
**
79747044 AACAGAAGCTTGTAAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
79747065 AACAGAA
1 AACAGAA
79747072 AGCAAAACAT
Statistics
Matches: 108, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
19 11 0.10
20 2 0.02
21 94 0.87
22 1 0.01
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGCTA
Found at i:79746984 original size:42 final size:42
Alignment explanation
Indices: 79746920--79747071 Score: 166
Period size: 42 Copynumber: 3.7 Consensus size: 42
79746910 CAAATGAGCC
* * *
79746920 AACAGAAGCTC-GAA-AGCTGAACAGAAGCTC-ATAAGAGTTT
1 AACAGAAGCTCATAAGAGCTGAACAGAAGCTCGA-AAGAGCTA
* *
79746960 AACAGAAGCACATAAGAGCTGAACAGAAGCTCGAAAAAGCTA
1 AACAGAAGCTCATAAGAGCTGAACAGAAGCTCGAAAGAGCTA
* * * *
79747002 AACAAAAGCTCTTAAGAGCTTAACAGAAGCTCGAAAGAGCTG
1 AACAGAAGCTCATAAGAGCTGAACAGAAGCTCGAAAGAGCTA
** *
79747044 AACAGAAGCTTGTAAGAGCTAAACAGAA
1 AACAGAAGCTCATAAGAGCTGAACAGAA
79747072 AGCAAAACAT
Statistics
Matches: 94, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
40 10 0.11
41 2 0.02
42 81 0.86
43 1 0.01
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (42 bp):
AACAGAAGCTCATAAGAGCTGAACAGAAGCTCGAAAGAGCTA
Found at i:79747018 original size:63 final size:62
Alignment explanation
Indices: 79746920--79747074 Score: 197
Period size: 63 Copynumber: 2.5 Consensus size: 62
79746910 CAAATGAGCC
* * *
79746920 AACAGAAGCTCG-AAAGCTGAACAGAAGCTCATAAGAGTTTAACAGAAGCAC-ATAAGAGCTG
1 AACAGAAGCTCGAAAAGCTAAACAAAAGCTCATAAGAGCTTAACAGAAGCACGA-AAGAGCTG
* *
79746981 AACAGAAGCTCGAAAAAGCTAAACAAAAGCTCTTAAGAGCTTAACAGAAGCTCGAAAGAGCTG
1 AACAGAAGCTCG-AAAAGCTAAACAAAAGCTCATAAGAGCTTAACAGAAGCACGAAAGAGCTG
* *
79747044 AACAGAAGCTTGTAAGAGCTAAACAGAAAGC
1 AACAGAAGCTCG-AAAAGCTAAACA-AAAGC
79747075 AAAACATGAG
Statistics
Matches: 82, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
61 12 0.15
63 64 0.78
64 6 0.07
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (62 bp):
AACAGAAGCTCGAAAAGCTAAACAAAAGCTCATAAGAGCTTAACAGAAGCACGAAAGAGCTG
Found at i:79747697 original size:21 final size:21
Alignment explanation
Indices: 79747673--79747727 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
79747663 TTAATAAGCT
79747673 ATCGAAACGTTAAAATTTTTC
1 ATCGAAACGTTAAAATTTTTC
79747694 ATCGAAACGTTAAAATTTTTC
1 ATCGAAACGTTAAAATTTTTC
* *
79747715 ATCAAAACTTTAA
1 ATCGAAACGTTAA
79747728 TACTACCTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.36
Consensus pattern (21 bp):
ATCGAAACGTTAAAATTTTTC
Found at i:79751430 original size:13 final size:13
Alignment explanation
Indices: 79751412--79751443 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
79751402 GGAAACTTTA
79751412 ACTAATAAACTGT
1 ACTAATAAACTGT
79751425 ACTAATAAACTGT
1 ACTAATAAACTGT
79751438 ACTAAT
1 ACTAAT
79751444 GAGTCTAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.06, T:0.31
Consensus pattern (13 bp):
ACTAATAAACTGT
Found at i:79751852 original size:41 final size:41
Alignment explanation
Indices: 79751795--79751876 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
79751785 GCAGACTTAG
79751795 TTATTTTGTTACGTGTCATAATTGTCTAGGTTTAAAATACT
1 TTATTTTGTTACGTGTCATAATTGTCTAGGTTTAAAATACT
79751836 TTATTTTGTTACGTGTCATAATTGTCTAGGTTTAAAATACT
1 TTATTTTGTTACGTGTCATAATTGTCTAGGTTTAAAATACT
79751877 ACTTATTGTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.27, C:0.10, G:0.15, T:0.49
Consensus pattern (41 bp):
TTATTTTGTTACGTGTCATAATTGTCTAGGTTTAAAATACT
Found at i:79753652 original size:15 final size:15
Alignment explanation
Indices: 79753632--79753688 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
79753622 CGATGAATTT
79753632 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
79753647 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
79753662 ATTGAATTTATATTG
1 ATTGAATTTATATTG
79753677 ATTGAA-TTATAT
1 ATTGAATTTATAT
79753689 AATATACATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:79759805 original size:47 final size:47
Alignment explanation
Indices: 79759741--79759851 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
79759731 GACATTGAGT
*
79759741 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
79759788 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
79759835 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
79759852 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:79765277 original size:21 final size:21
Alignment explanation
Indices: 79765234--79765426 Score: 187
Period size: 21 Copynumber: 9.3 Consensus size: 21
79765224 TAAATGAGCC
*
79765234 AACAGAAGCTCG-AA-AGCTG
1 AACAGAAGCTCGTAAGAGCTA
*
79765253 AACAGAAGCTTGTAAGAGCTA
1 AACAGAAGCTCGTAAGAGCTA
* * **
79765274 AACAGAAACTCATAAGATTTGA
1 AACAGAAGCTCGTAAGAGCT-A
79765296 AA-AGAAGCTCGTAAGAGCTA
1 AACAGAAGCTCGTAAGAGCTA
* ** *
79765316 AACAAAAGCTCAAAAGAGCTT
1 AACAGAAGCTCGTAAGAGCTA
* *
79765337 AACAGAAGCTCGTAAGAGTTG
1 AACAGAAGCTCGTAAGAGCTA
*
79765358 AACAGAAGCTCGTAAGGGCT-
1 AACAGAAGCTCGTAAGAGCTA
* *
79765378 AACAGAAGCTCATAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTA
***
79765399 AACAGAAGCTTACAAGAGCTA
1 AACAGAAGCTCGTAAGAGCTA
79765420 AACAGAA
1 AACAGAA
79765427 AGCAAAACAT
Statistics
Matches: 142, Mismatches: 27, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
19 11 0.08
20 23 0.16
21 105 0.74
22 3 0.02
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.16
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTA
Found at i:79769016 original size:31 final size:31
Alignment explanation
Indices: 79768926--79769019 Score: 122
Period size: 31 Copynumber: 3.1 Consensus size: 31
79768916 CAATATTTTG
*
79768926 TAAAATT-TAGATTAAATCAAAATTTTATGTA
1 TAAAATTATACATTAAATCAAAA-TTTATGTA
* *
79768957 TAAATTTATACA--AAATCAAAGTTTATGTA
1 TAAAATTATACATTAAATCAAAATTTATGTA
*
79768986 TAAAATTATACATTAAACCAAAATTTATGTA
1 TAAAATTATACATTAAATCAAAATTTATGTA
79769017 TAA
1 TAA
79769020 CTTTAAGATT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
29 19 0.35
30 8 0.15
31 24 0.44
32 3 0.06
ACGTcount: A:0.50, C:0.06, G:0.05, T:0.38
Consensus pattern (31 bp):
TAAAATTATACATTAAATCAAAATTTATGTA
Found at i:79773537 original size:69 final size:69
Alignment explanation
Indices: 79773426--79773564 Score: 269
Period size: 69 Copynumber: 2.0 Consensus size: 69
79773416 CAAGACTCTA
*
79773426 TCAGCCCTACCACCACTACAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAA
1 TCAGCCCTACCACAACTACAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAA
79773491 CCTG
66 CCTG
79773495 TCAGCCCTACCACAACTACAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAA
1 TCAGCCCTACCACAACTACAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAA
79773560 CCTG
66 CCTG
79773564 T
1 T
79773565 TTTTCCTATC
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.28, C:0.32, G:0.13, T:0.27
Consensus pattern (69 bp):
TCAGCCCTACCACAACTACAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAA
CCTG
Found at i:79778650 original size:3 final size:3
Alignment explanation
Indices: 79778642--79778670 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
79778632 CATAAAATGC
79778642 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
79778671 AGGAAAGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:79780253 original size:40 final size:40
Alignment explanation
Indices: 79780209--79780297 Score: 128
Period size: 39 Copynumber: 2.2 Consensus size: 40
79780199 TAAAAAATAT
* *
79780209 TTATATTAAAAAAATAACCA-TAAATATAATAAATGTTTTA
1 TTATATTAAAAAAATAA-AATTAAATATAATAAATATTTTA
*
79780249 TTATATT-AAAAACTAAAATTAAATATAATAAATATTTTA
1 TTATATTAAAAAAATAAAATTAAATATAATAAATATTTTA
79780288 TTATATTAAA
1 TTATATTAAA
79780298 TATAATATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 34 0.77
40 9 0.20
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.40
Consensus pattern (40 bp):
TTATATTAAAAAAATAAAATTAAATATAATAAATATTTTA
Found at i:79780756 original size:15 final size:15
Alignment explanation
Indices: 79780736--79780764 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
79780726 CGTATTGGGA
79780736 GTTGGCTTAATAGGG
1 GTTGGCTTAATAGGG
79780751 GTTGGCTTAATAGG
1 GTTGGCTTAATAGG
79780765 TGTATTTGGC
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:0.21, C:0.07, G:0.38, T:0.34
Consensus pattern (15 bp):
GTTGGCTTAATAGGG
Found at i:79786659 original size:26 final size:26
Alignment explanation
Indices: 79786612--79786663 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
79786602 AATGGAGTAG
* **
79786612 AGAGTGTCACGCAATCGCAATATTTT
1 AGAGTGTCAAGCAATAACAATATTTT
*
79786638 AGAGTGTCAAGCAATAATAATATTTT
1 AGAGTGTCAAGCAATAACAATATTTT
79786664 TATGCTGAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (26 bp):
AGAGTGTCAAGCAATAACAATATTTT
Found at i:79792317 original size:21 final size:21
Alignment explanation
Indices: 79792284--79792324 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
79792274 ATTGAAATGG
79792284 TTGTGAATAAAATGGCATGTT
1 TTGTGAATAAAATGGCATGTT
* *
79792305 TTGTGTATTAAATGGCATGT
1 TTGTGAATAAAATGGCATGT
79792325 CTTGGTTGCC
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:0.29, C:0.05, G:0.24, T:0.41
Consensus pattern (21 bp):
TTGTGAATAAAATGGCATGTT
Found at i:79803655 original size:3 final size:3
Alignment explanation
Indices: 79803649--79803689 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
79803639 GTTGTTGTTG
79803649 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
79803690 TGTGGTTCCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:79807793 original size:27 final size:27
Alignment explanation
Indices: 79807761--79807814 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
79807751 TTTGCTGTCT
79807761 ACAGGGAATGAGATTGATTAATTGTTC
1 ACAGGGAATGAGATTGATTAATTGTTC
79807788 ACAGGGAATGAGATTGATTAATTGTTC
1 ACAGGGAATGAGATTGATTAATTGTTC
79807815 TTGTATCGTA
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:0.33, C:0.07, G:0.26, T:0.33
Consensus pattern (27 bp):
ACAGGGAATGAGATTGATTAATTGTTC
Found at i:79811706 original size:37 final size:34
Alignment explanation
Indices: 79811633--79811711 Score: 88
Period size: 37 Copynumber: 2.3 Consensus size: 34
79811623 AATCATGTAA
* *
79811633 TTAA-AAAATAATAATGATATAATAAATTTAAAT
1 TTAATAAAATAATAATGATAAAATAAATTGAAAT
* *
79811666 TTAATAAAATAATAATGTTAAAAATTAAACTTGAATT
1 TTAATAAAATAATAATGAT-AAAA-TAAA-TTGAAAT
79811703 TTAATAAAA
1 TTAATAAAA
79811712 GTATTAAGGA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
33 4 0.11
34 13 0.34
35 3 0.08
36 4 0.11
37 14 0.37
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.37
Consensus pattern (34 bp):
TTAATAAAATAATAATGATAAAATAAATTGAAAT
Found at i:79814854 original size:15 final size:15
Alignment explanation
Indices: 79814834--79814864 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
79814824 ATTACATAAT
79814834 ATATAAAATAACATA
1 ATATAAAATAACATA
*
79814849 ATATAAAATATCATA
1 ATATAAAATAACATA
79814864 A
1 A
79814865 ATTTAAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (15 bp):
ATATAAAATAACATA
Found at i:79820042 original size:25 final size:25
Alignment explanation
Indices: 79820007--79820086 Score: 97
Period size: 25 Copynumber: 3.2 Consensus size: 25
79819997 CTCTCTCTCA
* *
79820007 AGCCATATAACGGGAAGCTCATGTG
1 AGCCATGTAACGGGAAGCTCATGCG
* *
79820032 AGCCATGTAACGGGAAGCTTATCCG
1 AGCCATGTAACGGGAAGCTCATGCG
* * *
79820057 AGCTATGTAACAGGAAACTCATGCG
1 AGCCATGTAACGGGAAGCTCATGCG
79820082 AGCCA
1 AGCCA
79820087 ATAACGAGTA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.33, C:0.23, G:0.26, T:0.19
Consensus pattern (25 bp):
AGCCATGTAACGGGAAGCTCATGCG
Found at i:79822093 original size:47 final size:47
Alignment explanation
Indices: 79822039--79822296 Score: 327
Period size: 47 Copynumber: 5.7 Consensus size: 47
79822029 GTTACATGTT
*
79822039 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
1 TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATG
*
79822086 TAACCGTGGCATATCCACTTAGCACCACATTAATGAATCAATATATG
1 TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATG
* * *
79822133 TAACCGTGGCATATTCACTTAGCATCACG-T--T--A-C-ATGT-T-
1 TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATG
* * *
79822171 TAACCGTGGTATATCCTCTTAGCACCACGTTAATGACTCAATATATG
1 TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATG
* * *
79822218 TAACCGTGGCATATCCACTTAGCACCACATTACATGTATCAATATGTG
1 TAACCGTGGCATATCCACTTAGCACCACGTTA-ATGAATCAATATATG
* *
79822266 TAATCGTGGTATATCCACTTAGCACCACGTT
1 TAACCGTGGCATATCCACTTAGCACCACGTT
79822297 TTTTCATTTC
Statistics
Matches: 180, Mismatches: 21, Indels: 19
0.82 0.10 0.09
Matches are distributed among these distances:
38 25 0.14
39 2 0.01
40 3 0.02
41 2 0.01
42 1 0.01
44 2 0.01
45 3 0.02
46 2 0.01
47 100 0.56
48 40 0.22
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.31
Consensus pattern (47 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATG
Found at i:79822175 original size:85 final size:85
Alignment explanation
Indices: 79822086--79822254 Score: 275
Period size: 85 Copynumber: 2.0 Consensus size: 85
79822076 TCAATATATG
*
79822086 TAACCGTGGCATATCCACTTAGCACCACATTAATGAATCAATATATGTAACCGTGGCATATTCAC
1 TAACCGTGGCATATCCACTTAGCACCACATTAATGAATCAATATATGTAACCGTGGCATATCCAC
* *
79822151 TTAGCATCACGTTACATGTT
66 TTAGCACCACATTACATGTT
* * * *
79822171 TAACCGTGGTATATCCTCTTAGCACCACGTTAATGACTCAATATATGTAACCGTGGCATATCCAC
1 TAACCGTGGCATATCCACTTAGCACCACATTAATGAATCAATATATGTAACCGTGGCATATCCAC
79822236 TTAGCACCACATTACATGT
66 TTAGCACCACATTACATGT
79822255 ATCAATATGT
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 77 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (85 bp):
TAACCGTGGCATATCCACTTAGCACCACATTAATGAATCAATATATGTAACCGTGGCATATCCAC
TTAGCACCACATTACATGTT
Found at i:79822192 original size:132 final size:133
Alignment explanation
Indices: 79822001--79822296 Score: 504
Period size: 132 Copynumber: 2.2 Consensus size: 133
79821991 TTAACATGTA
*
79822001 TAACCATGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
79822066 CGTTAATGAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACATTA-ATGAATCAATAT
66 CGTTAATGAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACATTACATGAATCAATAT
79822130 ATG
131 ATG
* * *
79822133 TAACCGTGGCATATTCACTTAGCATCACGTTACATGTTTAACCGTGGTATATCCTCTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
* *
79822198 CGTTAATGACTCAATATATGTAACCGTGGCATATCCACTTAGCACCACATTACATGTATCAATAT
66 CGTTAATGAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACATTACATGAATCAATAT
*
79822263 GTG
131 ATG
* *
79822266 TAATCGTGGTATATCCACTTAGCACCACGTT
1 TAACCGTGGCATATCCACTTAGCACCACGTT
79822297 TTTTCATTTC
Statistics
Matches: 152, Mismatches: 11, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
132 112 0.74
133 40 0.26
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (133 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
CGTTAATGAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACATTACATGAATCAATAT
ATG
Found at i:79822274 original size:48 final size:47
Alignment explanation
Indices: 79822166--79822293 Score: 177
Period size: 48 Copynumber: 2.7 Consensus size: 47
79822156 ATCACGTTAC
* * *
79822166 ATGTTTAACCGTGGTATATCCTCTTAGCACCACGTTAATGACTCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACATTAATGACTCAAT
* *
79822213 ATATGTAACCGTGGCATATCCACTTAGCACCACATTACATGTA-TCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACATTA-ATG-ACTCAAT
*
79822261 ATGTGTAATCGTGGTATATCCACTTAGCACCAC
1 ATGTGTAACCGTGGTATATCCACTTAGCACCAC
79822294 GTTTTTTCAT
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
47 32 0.45
48 38 0.54
49 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (47 bp):
ATGTGTAACCGTGGTATATCCACTTAGCACCACATTAATGACTCAAT
Found at i:79825758 original size:9 final size:9
Alignment explanation
Indices: 79825744--79825768 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
79825734 GTAACATTTA
79825744 CAATTTATT
1 CAATTTATT
79825753 CAATTTATT
1 CAATTTATT
79825762 CAATTTA
1 CAATTTA
79825769 CTCCCTAAAA
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:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (9 bp):
CAATTTATT
Found at i:79826793 original size:15 final size:14
Alignment explanation
Indices: 79826737--79826853 Score: 62
Period size: 15 Copynumber: 8.1 Consensus size: 14
79826727 TTATTATGTT
*
79826737 TCTATTTATATTTA
1 TCTATTTTTATTTA
*
79826751 T-T-TTGTTATTCTAA
1 TCTATTTTTATT-T-A
*
79826765 TACTATTATTATTTA
1 T-CTATTTTTATTTA
79826780 TCTAATTTTTATTTA
1 TCT-ATTTTTATTTA
* *
79826795 TCTATTTATATTTC
1 TCTATTTTTATTTA
*
79826809 TACTATTATTATATT-
1 T-CTATTTTTAT-TTA
79826824 TCTATTTATTATATT-
1 TCTATTT-TTAT-TTA
* *
79826839 TTTATTTCTATTTA
1 TCTATTTTTATTTA
79826853 T
1 T
79826854 ATACTAATAT
Statistics
Matches: 82, Mismatches: 11, Indels: 20
0.73 0.10 0.18
Matches are distributed among these distances:
12 6 0.07
13 4 0.05
14 24 0.29
15 37 0.45
16 4 0.05
17 7 0.09
ACGTcount: A:0.26, C:0.08, G:0.01, T:0.65
Consensus pattern (14 bp):
TCTATTTTTATTTA
Found at i:79826806 original size:29 final size:28
Alignment explanation
Indices: 79826725--79826832 Score: 82
Period size: 29 Copynumber: 3.8 Consensus size: 28
79826715 TTATTGCTAT
79826725 TATTATTATGTT-TCTATTTATATTTAT-
1 TATTATTAT-TTATCTATTTATATTTATC
*
79826752 T-TTGTTATTCTAATACTA-TTATTATTTATC
1 TATTATTATT-T-AT-CTATTTA-TATTTATC
* *
79826782 TAATTTTTATTTATCTATTTATATTTCTAC
1 T-ATTATTATTTATCTATTTATATTTAT-C
79826812 TATTATTATATT-TCTATTTAT
1 TATTATTAT-TTATCTATTTAT
79826833 TATATTTTTA
Statistics
Matches: 66, Mismatches: 4, Indels: 20
0.73 0.04 0.22
Matches are distributed among these distances:
25 1 0.02
26 7 0.11
27 1 0.02
28 4 0.06
29 35 0.53
30 10 0.15
31 1 0.02
32 7 0.11
ACGTcount: A:0.27, C:0.07, G:0.02, T:0.64
Consensus pattern (28 bp):
TATTATTATTTATCTATTTATATTTATC
Found at i:79826822 original size:17 final size:15
Alignment explanation
Indices: 79826800--79826845 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
79826790 ATTTATCTAT
79826800 TTATATTTCTACTATTA
1 TTATATTTCTA-T-TTA
79826817 TTATATTTCTATTTA
1 TTATATTTCTATTTA
*
79826832 TTATATTTTTATTT
1 TTATATTTCTATTT
79826846 CTATTTATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:79826889 original size:52 final size:54
Alignment explanation
Indices: 79826768--79826889 Score: 125
Period size: 52 Copynumber: 2.4 Consensus size: 54
79826758 ATTCTAATAC
* * *
79826768 TATTATTATTTATC-TA-ATTTTTATTTATCTATTTATATTTCTACTATTATTA
1 TATTATTATTTTTCTTATATTTTTATTTATCTATTTATATTACTAATATTATTA
* *
79826820 TATT-TCTA--TTTATTATATTTTTA-TT-TCTATTTATA-TACTAATATTATTT
1 TATTAT-TATTTTTCTTATATTTTTATTTATCTATTTATATTACTAATATTATTA
79826869 TCATTATTATTTTTCTTATAT
1 T-ATTATTATTTTTCTTATAT
79826890 ACATTTTACT
Statistics
Matches: 57, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
49 12 0.21
50 17 0.30
51 6 0.11
52 22 0.39
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (54 bp):
TATTATTATTTTTCTTATATTTTTATTTATCTATTTATATTACTAATATTATTA
Found at i:79828422 original size:19 final size:19
Alignment explanation
Indices: 79828394--79828433 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
79828384 GAAATCTCTT
*
79828394 TTTTTTTTTTCATTTAATA
1 TTTTTGTTTTCATTTAATA
* *
79828413 TTTTTGTTTTTATTTACTA
1 TTTTTGTTTTCATTTAATA
79828432 TT
1 TT
79828434 AATTTAATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.17, C:0.05, G:0.03, T:0.75
Consensus pattern (19 bp):
TTTTTGTTTTCATTTAATA
Found at i:79860044 original size:29 final size:28
Alignment explanation
Indices: 79860002--79860056 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
79859992 TTTTAATTTT
*
79860002 TATTTTATAATTAAATTTTAATTTAAAAA
1 TATTTTATAATTAAA-TTAAATTTAAAAA
* *
79860031 TATTTTTTATTTAAATTAAATTTAAA
1 TATTTTATAATTAAATTAAATTTAAA
79860057 CTGAGTCTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 10 0.43
29 13 0.57
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (28 bp):
TATTTTATAATTAAATTAAATTTAAAAA
Found at i:79862235 original size:16 final size:17
Alignment explanation
Indices: 79862200--79862237 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
79862190 AAAATATTTT
79862200 TAACTATATTCAATACA
1 TAACTATATTCAATACA
79862217 TAAC-ATATTCAAATA-A
1 TAACTATATTC-AATACA
79862233 TAACT
1 TAACT
79862238 GGAGTTAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (17 bp):
TAACTATATTCAATACA
Found at i:79862960 original size:19 final size:22
Alignment explanation
Indices: 79862932--79862977 Score: 64
Period size: 19 Copynumber: 2.3 Consensus size: 22
79862922 AGATCATACC
79862932 TTTT-AAATAAT-TTT-TAAT-
1 TTTTAAAATAATCTTTATAATG
79862950 TTTTAAAATAATCTTTATAATG
1 TTTTAAAATAATCTTTATAATG
79862972 TTTTAA
1 TTTTAA
79862978 TTTAAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.17
19 7 0.29
20 3 0.12
21 4 0.17
22 6 0.25
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
TTTTAAAATAATCTTTATAATG
Found at i:79867609 original size:19 final size:19
Alignment explanation
Indices: 79867585--79867627 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
79867575 ATTAAAAAAA
* * *
79867585 TTTAAATTATTTTTATATT
1 TTTAAATAATTTTAATAAT
79867604 TTTAAATAATTTTAATAAT
1 TTTAAATAATTTTAATAAT
79867623 TTTAA
1 TTTAA
79867628 TTTCTTAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTAAATAATTTTAATAAT
Found at i:79867615 original size:28 final size:28
Alignment explanation
Indices: 79867576--79867653 Score: 79
Period size: 28 Copynumber: 2.8 Consensus size: 28
79867566 TAACAAATTA
* *
79867576 TTAAAAAAATTTAAATTATTTTTATATTT-
1 TTAAAATAATTTAAA-TAATTTTA-ATTTC
*
79867605 TT-AAATAATTTTAATAATTTTAATTTC
1 TTAAAATAATTTAAATAATTTTAATTTC
**
79867632 TTAAAATAATTTTTATAATTTT
1 TTAAAATAATTTAAATAATTTT
79867654 TTAGAAATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
26 4 0.09
27 9 0.21
28 28 0.65
29 2 0.05
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.56
Consensus pattern (28 bp):
TTAAAATAATTTAAATAATTTTAATTTC
Found at i:79871808 original size:3 final size:3
Alignment explanation
Indices: 79871800--79871825 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
79871790 GGTTGAGGAT
79871800 GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
79871826 GATGATAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:79884307 original size:10 final size:10
Alignment explanation
Indices: 79884292--79884321 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
79884282 GTAAGACATA
79884292 TTATAAATAT
1 TTATAAATAT
79884302 TTATAAATA-
1 TTATAAATAT
79884311 TTATAAATAT
1 TTATAAATAT
79884321 T
1 T
79884322 AAGTAATGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
TTATAAATAT
Found at i:79884314 original size:9 final size:9
Alignment explanation
Indices: 79884289--79884322 Score: 59
Period size: 9 Copynumber: 3.7 Consensus size: 9
79884279 TTGGTAAGAC
79884289 ATATTATAA
1 ATATTATAA
79884298 ATATTTATAA
1 ATA-TTATAA
79884308 ATATTATAA
1 ATATTATAA
79884317 ATATTA
1 ATATTA
79884323 AGTAATGAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 15 0.62
10 9 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (9 bp):
ATATTATAA
Found at i:79891443 original size:39 final size:39
Alignment explanation
Indices: 79891400--79891484 Score: 152
Period size: 39 Copynumber: 2.2 Consensus size: 39
79891390 TACATAAATC
79891400 AACATCAAGTATAAGCACGTGTCAGTGTTAGTGTAGATA
1 AACATCAAGTATAAGCACGTGTCAGTGTTAGTGTAGATA
* *
79891439 AACATCAAGTATAAGCATGTGTCGGTGTTAGTGTAGATA
1 AACATCAAGTATAAGCACGTGTCAGTGTTAGTGTAGATA
79891478 AACATCA
1 AACATCA
79891485 TTGAATCGAG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.28
Consensus pattern (39 bp):
AACATCAAGTATAAGCACGTGTCAGTGTTAGTGTAGATA
Found at i:79893904 original size:33 final size:33
Alignment explanation
Indices: 79893857--79893949 Score: 132
Period size: 33 Copynumber: 2.8 Consensus size: 33
79893847 GACTGGGTGG
*
79893857 GAGTGTTTGGTTGCTGGACAGGAGCTAGAATGT
1 GAGTGTTTGGTTGCTGGACAGGAGCTAGAATGC
* * * *
79893890 GAGTATTTGGTTGCTGGACAAGAGTTGGAATGC
1 GAGTGTTTGGTTGCTGGACAGGAGCTAGAATGC
*
79893923 GGGTGTTTGGTTGCTGGACAGGAGCTA
1 GAGTGTTTGGTTGCTGGACAGGAGCTA
79893950 AAAAAGCTTT
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 50 1.00
ACGTcount: A:0.20, C:0.10, G:0.40, T:0.30
Consensus pattern (33 bp):
GAGTGTTTGGTTGCTGGACAGGAGCTAGAATGC
Found at i:79895704 original size:29 final size:29
Alignment explanation
Indices: 79895671--79895730 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
79895661 TTAGCTATAT
79895671 GAAGAGACTACTATCCTAAAGATATGTGA
1 GAAGAGACTACTATCCTAAAGATATGTGA
79895700 GAAGAGACTACTATCCTAAAGATATGTGA
1 GAAGAGACTACTATCCTAAAGATATGTGA
79895729 GA
1 GA
79895731 CACACTTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.42, C:0.13, G:0.22, T:0.23
Consensus pattern (29 bp):
GAAGAGACTACTATCCTAAAGATATGTGA
Found at i:79899840 original size:17 final size:18
Alignment explanation
Indices: 79899820--79899859 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
79899810 TCAATTATTC
79899820 AAAAAGAT-ATTTTATAT
1 AAAAAGATGATTTTATAT
*
79899837 AAAAAGCTGGATTTTATAT
1 AAAAAGAT-GATTTTATAT
79899856 AAAA
1 AAAA
79899860 GTTGGTTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
19 13 0.65
ACGTcount: A:0.53, C:0.03, G:0.10, T:0.35
Consensus pattern (18 bp):
AAAAAGATGATTTTATAT
Found at i:79905108 original size:27 final size:27
Alignment explanation
Indices: 79905056--79905108 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
79905046 AATAAACAGG
* * *
79905056 TGAAATAAAAAAATGAAAAGAAACAAT
1 TGAAAAAAAAAAAAGAAAACAAACAAT
*
79905083 TGAAAAAAAAAAAAGAAAACAGACAA
1 TGAAAAAAAAAAAAGAAAACAAACAA
79905109 AAAATAAAGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.74, C:0.06, G:0.11, T:0.09
Consensus pattern (27 bp):
TGAAAAAAAAAAAAGAAAACAAACAAT
Found at i:79907682 original size:40 final size:39
Alignment explanation
Indices: 79907628--79907758 Score: 126
Period size: 40 Copynumber: 3.4 Consensus size: 39
79907618 ATACAATTTT
* * **
79907628 AAAAATATATTAAAAAAGATGTGAATAGATAAATTTTGA
1 AAAAAAATATTAAAAAAAATACGAATAGATAAATTTTGA
*
79907667 AAAAAAATATCTAAAAAAAATACGAATTGATAAATTTTGA
1 AAAAAAATAT-TAAAAAAAATACGAATAGATAAATTTTGA
* * * *
79907707 AAAAATAT-TTTAAGAAAATACG-ATCTGATAAA-TTT-A
1 AAAAAAATATTAAAAAAAATACGAAT-AGATAAATTTTGA
*
79907743 AAAAAAAAATTAAAAA
1 AAAAAAATATTAAAAA
79907759 TAAAATACAA
Statistics
Matches: 77, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
36 7 0.09
37 10 0.13
38 18 0.23
39 10 0.13
40 32 0.42
ACGTcount: A:0.60, C:0.03, G:0.08, T:0.28
Consensus pattern (39 bp):
AAAAAAATATTAAAAAAAATACGAATAGATAAATTTTGA
Found at i:79907725 original size:38 final size:39
Alignment explanation
Indices: 79907622--79907781 Score: 125
Period size: 38 Copynumber: 4.1 Consensus size: 39
79907612 CTGCGTATAC
* * ** *
79907622 AATTTT-AAAAATATAT-TAAAAAAGATGTGAATAGATA
1 AATTTTGAAAAAAATATCTAAAAAAAATACGAATTGATA
79907659 AATTTTGAAAAAAAATATCTAAAAAAAATACGAATTGATA
1 AATTTTG-AAAAAAATATCTAAAAAAAATACGAATTGATA
* * *
79907699 AATTTTG-AAAAAATATTTTAAGAAAATACG-ATCTGATA
1 AATTTTGAAAAAAATATCTAAAAAAAATACGAAT-TGATA
* * * *
79907737 AA-TTTAAAAAAAAAAT-TAAAAATAAAATACAAAACTGATA
1 AATTTTGAAAAAAATATCT-AAAA-AAAATAC-GAATTGATA
79907777 AATTT
1 AATTT
79907782 ATGGAATGTG
Statistics
Matches: 99, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
37 12 0.12
38 37 0.37
39 16 0.16
40 31 0.31
41 3 0.03
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (39 bp):
AATTTTGAAAAAAATATCTAAAAAAAATACGAATTGATA
Found at i:79907809 original size:22 final size:23
Alignment explanation
Indices: 79907772--79907814 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
79907762 AATACAAAAC
* *
79907772 TGATAAATTTATGGAATGTGGAT
1 TGATAAATATATGGAACGTGGAT
79907795 TGATAAA-ATATGGAACGTGG
1 TGATAAATATATGGAACGTGG
79907815 CCACATGTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.37, C:0.02, G:0.28, T:0.33
Consensus pattern (23 bp):
TGATAAATATATGGAACGTGGAT
Found at i:79911263 original size:42 final size:42
Alignment explanation
Indices: 79911202--79911283 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
79911192 GCCAATGTGT
* **
79911202 ATATATAGCCGAAGTTATCTCAATCTAGCACACTAAGTGCAA
1 ATATATAACCGAAACTATCTCAATCTAGCACACTAAGTGCAA
* * *
79911244 ATATATAACCGAAACTATCTCGATTTCGCACACTAAGTGC
1 ATATATAACCGAAACTATCTCAATCTAGCACACTAAGTGC
79911284 CCATAATTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (42 bp):
ATATATAACCGAAACTATCTCAATCTAGCACACTAAGTGCAA
Found at i:79916586 original size:57 final size:57
Alignment explanation
Indices: 79916525--79916651 Score: 245
Period size: 57 Copynumber: 2.2 Consensus size: 57
79916515 TCAACTTCAA
79916525 TTTTTTTATTCAAATTAACCCTTGAATTTGACAATTATCACATATCAAGACCTAAAC
1 TTTTTTTATTCAAATTAACCCTTGAATTTGACAATTATCACATATCAAGACCTAAAC
*
79916582 TTTTTTTATTCAAATTAACCCTTGAATTTGACAATTATCACATATCGAGACCTAAAC
1 TTTTTTTATTCAAATTAACCCTTGAATTTGACAATTATCACATATCAAGACCTAAAC
79916639 TTTTTTTATTCAA
1 TTTTTTTATTCAA
79916652 GTTAGTCTCT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
57 69 1.00
ACGTcount: A:0.35, C:0.18, G:0.06, T:0.42
Consensus pattern (57 bp):
TTTTTTTATTCAAATTAACCCTTGAATTTGACAATTATCACATATCAAGACCTAAAC
Found at i:79916673 original size:57 final size:57
Alignment explanation
Indices: 79916525--79916676 Score: 180
Period size: 57 Copynumber: 2.7 Consensus size: 57
79916515 TCAACTTCAA
* ** *
79916525 TTTTTTTATTCAAATTAACCCTTGAATTTGACAATTATCACATATCAAGACCTAAAC
1 TTTTTTTATTCAAATTAACCCTTAAACGTCACAATTATCACATATCAAGACCTAAAC
* ** * *
79916582 TTTTTTTATTCAAATTAACCCTTGAATTTGACAATTATCACATATCGAGACCTAAAC
1 TTTTTTTATTCAAATTAACCCTTAAACGTCACAATTATCACATATCAAGACCTAAAC
* **
79916639 TTTTTTTATTCAAGTT-AGTCTCTAAACGTCACAATTAT
1 TTTTTTTATTCAAATTAACCCT-TAAACGTCACAATTAT
79916677 TCTCAAATTA
Statistics
Matches: 86, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
56 3 0.03
57 83 0.97
ACGTcount: A:0.34, C:0.18, G:0.07, T:0.41
Consensus pattern (57 bp):
TTTTTTTATTCAAATTAACCCTTAAACGTCACAATTATCACATATCAAGACCTAAAC
Found at i:79917124 original size:18 final size:18
Alignment explanation
Indices: 79917098--79917134 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
79917088 TTCCTCCAGT
*
79917098 GAAAAAAAAAGAAAGAAA
1 GAAAAAAAAAGAAAAAAA
*
79917116 GAAAGAAAAAGAAAAAAA
1 GAAAAAAAAAGAAAAAAA
79917134 G
1 G
79917135 TTCAAACGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (18 bp):
GAAAAAAAAAGAAAAAAA
Found at i:79918452 original size:15 final size:17
Alignment explanation
Indices: 79918417--79918454 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
79918407 GAATGAAAAG
*
79918417 AAAATTGAAAGAGTAGA
1 AAAATAGAAAGAGTAGA
79918434 AAAATAGAAAGA-T-GA
1 AAAATAGAAAGAGTAGA
79918449 AAAATA
1 AAAATA
79918455 TAATTGTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 8 0.40
16 1 0.05
17 11 0.55
ACGTcount: A:0.66, C:0.00, G:0.18, T:0.16
Consensus pattern (17 bp):
AAAATAGAAAGAGTAGA
Found at i:79929734 original size:3 final size:3
Alignment explanation
Indices: 79929728--79929794 Score: 134
Period size: 3 Copynumber: 22.3 Consensus size: 3
79929718 AAAAAATAAA
79929728 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
79929776 AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG A
79929795 TAATATAGTC
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:79933724 original size:73 final size:76
Alignment explanation
Indices: 79933602--79933751 Score: 198
Period size: 73 Copynumber: 2.0 Consensus size: 76
79933592 TGAACGCAGC
* *
79933602 ACATTTTCTTCGTTTTATTTAAAAAAAAAAAAAAAGAGAATGAGAAAGAAGCAAGAGCAAAATAA
1 ACATTTTCTTCGTTCTATTTAAAAAAAAAAAAAAAGAGAATGAGAAAGAAGCAAGAGCAAAACAA
79933667 CTATAAAGAAA
66 CTATAAAGAAA
* * * * *
79933678 ACATTTTCTTTGTTCT-TTTAAAAAATAATAACAA-A-AATGAGAAAGAAGCAAGAGCACAACAA
1 ACATTTTCTTCGTTCTATTTAAAAAAAAAAAAAAAGAGAATGAGAAAGAAGCAAGAGCAAAACAA
* *
79933740 CTTTATAGAAA
66 CTATAAAGAAA
79933751 A
1 A
79933752 GAAAACGAGA
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
73 35 0.54
74 1 0.02
75 15 0.23
76 14 0.22
ACGTcount: A:0.53, C:0.10, G:0.12, T:0.25
Consensus pattern (76 bp):
ACATTTTCTTCGTTCTATTTAAAAAAAAAAAAAAAGAGAATGAGAAAGAAGCAAGAGCAAAACAA
CTATAAAGAAA
Found at i:79934153 original size:21 final size:21
Alignment explanation
Indices: 79934129--79934168 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
79934119 TTTTACAAAA
* *
79934129 ATATATTTTATTTTTTAATCC
1 ATATACTTTAATTTTTAATCC
79934150 ATATACTTTAATTTTTAAT
1 ATATACTTTAATTTTTAAT
79934169 TTTTAATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (21 bp):
ATATACTTTAATTTTTAATCC
Found at i:79934178 original size:6 final size:7
Alignment explanation
Indices: 79934156--79934182 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
79934146 ATCCATATAC
79934156 TTTAATT
1 TTTAATT
79934163 TTTAATT
1 TTTAATT
79934170 TTTAATT
1 TTTAATT
79934177 TTTAAT
1 TTTAAT
79934183 ATAATTTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
TTTAATT
Found at i:79935893 original size:16 final size:15
Alignment explanation
Indices: 79935872--79935911 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
79935862 CGTTTGGTTC
79935872 ACTGTAATGGAATAGG
1 ACTGTAATGGAATA-G
*
79935888 ACTGTAATTGAATAG
1 ACTGTAATGGAATAG
79935903 AGCTGTAAT
1 A-CTGTAAT
79935912 ATGTAATTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 2 0.09
16 20 0.91
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (15 bp):
ACTGTAATGGAATAG
Found at i:79935982 original size:44 final size:46
Alignment explanation
Indices: 79935897--79935986 Score: 130
Period size: 44 Copynumber: 2.0 Consensus size: 46
79935887 GACTGTAATT
*
79935897 GAATAGAGCTGTAATATGTAATTCAACTGTTTGGTTGAATGGAATG
1 GAATAGAACTGTAATATGTAATTCAACTGTTTGGTTGAATGGAATG
***
79935943 GAATAGAACTGTAATA-GT-ATTCTTGTGTTTGGTTGAATGGAATG
1 GAATAGAACTGTAATATGTAATTCAACTGTTTGGTTGAATGGAATG
79935987 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 2 0.05
46 15 0.38
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.37
Consensus pattern (46 bp):
GAATAGAACTGTAATATGTAATTCAACTGTTTGGTTGAATGGAATG
Found at i:79936603 original size:18 final size:18
Alignment explanation
Indices: 79936580--79936614 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
79936570 GCGTGGCAGT
79936580 CCAACTAGATTTTAAGTG
1 CCAACTAGATTTTAAGTG
79936598 CCAACTAGATTTTAAGT
1 CCAACTAGATTTTAAGT
79936615 ATATCTGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (18 bp):
CCAACTAGATTTTAAGTG
Found at i:79936699 original size:40 final size:40
Alignment explanation
Indices: 79936622--79936699 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
79936612 AGTATATCTG
* * * *
79936622 TTAATGCATACTTCATCCGGTTAAATTATATAGTTTTCTA
1 TTAATACATACTTCATCCAGTTAAATTATACAATTTTCTA
79936662 TTAATACATACTTCATCCAGTTAAATTATACAATTTTC
1 TTAATACATACTTCATCCAGTTAAATTATACAATTTTC
79936700 ACTCAAATGC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.33, C:0.17, G:0.06, T:0.44
Consensus pattern (40 bp):
TTAATACATACTTCATCCAGTTAAATTATACAATTTTCTA
Found at i:79937652 original size:23 final size:22
Alignment explanation
Indices: 79937601--79937660 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 22
79937591 ATTGATATGA
79937601 AATAAAAATAGATAAAAGAAAG
1 AATAAAAATAGATAAAAGAAAG
* * *
79937623 AACTAAAAATATATTAAAGTAAAT
1 AA-TAAAAATAGATAAAAG-AAAG
*
79937647 AATAAATAT-GATAA
1 AATAAAAATAGATAA
79937661 TAATATTAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
22 5 0.17
23 20 0.67
24 5 0.17
ACGTcount: A:0.67, C:0.02, G:0.08, T:0.23
Consensus pattern (22 bp):
AATAAAAATAGATAAAAGAAAG
Found at i:79938390 original size:27 final size:27
Alignment explanation
Indices: 79938353--79938404 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
79938343 TACAAGATAT
* * *
79938353 ATATATAATATGATGTTAAGAGTATAC
1 ATATAAAATATAATGTTAAAAGTATAC
79938380 ATATAAAATATAATGTTAAAAGTAT
1 ATATAAAATATAATGTTAAAAGTAT
79938405 GTATGCATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.50, C:0.02, G:0.12, T:0.37
Consensus pattern (27 bp):
ATATAAAATATAATGTTAAAAGTATAC
Done.