Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 33 of 144
Found at i:10024044 original size:21 final size:19
Alignment explanation
Indices: 10024019--10024062 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 19
10024009 CCGGCCCAAT
10024019 TTTTAATAAACACAAAAAATA
1 TTTTAA-AAACA-AAAAAATA
*
10024040 TTTTAAAAATAAAAAAATA
1 TTTTAAAAACAAAAAAATA
10024059 TTTT
1 TTTT
10024063 TAAAGTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 12 0.55
20 4 0.18
21 6 0.27
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (19 bp):
TTTTAAAAACAAAAAAATA
Found at i:10024063 original size:20 final size:21
Alignment explanation
Indices: 10024017--10024066 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
10024007 GCCCGGCCCA
10024017 ATTTTTAATAAACACAAAAAAT
1 ATTTTTAA-AAACACAAAAAAT
*
10024039 A-TTTTAAAAATA-AAAAAAT
1 ATTTTTAAAAACACAAAAAAT
10024058 ATTTTTAAA
1 ATTTTTAAA
10024067 GTATTTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 8 0.31
20 11 0.42
21 6 0.23
22 1 0.04
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (21 bp):
ATTTTTAAAAACACAAAAAAT
Found at i:10024086 original size:7 final size:7
Alignment explanation
Indices: 10024074--10024112 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
10024064 AAAGTATTTT
10024074 AAAATTA
1 AAAATTA
10024081 AAAATTA
1 AAAATTA
*
10024088 AAAAATA
1 AAAATTA
*
10024095 AAAAATA
1 AAAATTA
10024102 AAAA-TA
1 AAAATTA
10024108 AAAAT
1 AAAAT
10024113 ATATATTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
6 6 0.20
7 24 0.80
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (7 bp):
AAAATTA
Found at i:10024096 original size:14 final size:13
Alignment explanation
Indices: 10024072--10024112 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
10024062 TTAAAGTATT
*
10024072 TTAAAATTAAAAA
1 TTAAAAATAAAAA
10024085 TTAAAAAATAAAAA
1 TT-AAAAATAAAAA
*
10024099 ATAAAAATAAAAA
1 TTAAAAATAAAAA
10024112 T
1 T
10024113 ATATATTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
TTAAAAATAAAAA
Found at i:10024873 original size:40 final size:41
Alignment explanation
Indices: 10024786--10024877 Score: 141
Period size: 44 Copynumber: 2.2 Consensus size: 41
10024776 AAGAAGAAGA
*
10024786 AGAAAATGAAGTTACCCGGATTAACTAGAAACAAACAGCCAAAC
1 AGAAAATGAAGTTACCCGGATTAACCAGAAACAAACAG---AAC
10024830 AGAAAATGAAGTTACCCGGATTAACCAGAAACAAACAG-AC
1 AGAAAATGAAGTTACCCGGATTAACCAGAAACAAACAGAAC
10024870 AGAAAATG
1 AGAAAATG
10024878 GAAGGGAATC
Statistics
Matches: 47, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
40 10 0.21
44 37 0.79
ACGTcount: A:0.51, C:0.18, G:0.17, T:0.13
Consensus pattern (41 bp):
AGAAAATGAAGTTACCCGGATTAACCAGAAACAAACAGAAC
Found at i:10025044 original size:14 final size:14
Alignment explanation
Indices: 10025027--10025054 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
10025017 GTGGAGGATC
10025027 GGAGGTGGATCGGT
1 GGAGGTGGATCGGT
10025041 GGAGGTGGATCGGT
1 GGAGGTGGATCGGT
10025055 ATTTTGGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.07, G:0.57, T:0.21
Consensus pattern (14 bp):
GGAGGTGGATCGGT
Found at i:10025716 original size:12 final size:12
Alignment explanation
Indices: 10025701--10025725 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10025691 ATTATTTTTG
10025701 TATTTATTATCA
1 TATTTATTATCA
10025713 TATTTATTATCA
1 TATTTATTATCA
10025725 T
1 T
10025726 TTGCACTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (12 bp):
TATTTATTATCA
Found at i:10025907 original size:12 final size:12
Alignment explanation
Indices: 10025890--10025914 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10025880 GGTGTACATT
10025890 CGGTTAACCGAC
1 CGGTTAACCGAC
10025902 CGGTTAACCGAC
1 CGGTTAACCGAC
10025914 C
1 C
10025915 TGAAATAGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:10026089 original size:9 final size:9
Alignment explanation
Indices: 10026075--10026114 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
10026065 TTTGGTTAAA
10026075 AATTAACCG
1 AATTAACCG
10026084 AATTAACCG
1 AATTAACCG
*
10026093 AATTAATCG
1 AATTAACCG
*
10026102 AATTACCCG
1 AATTAACCG
10026111 AATT
1 AATT
10026115 GAATCACTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:10026144 original size:17 final size:17
Alignment explanation
Indices: 10026122--10026184 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
10026112 ATTGAATCAC
10026122 TACATAATTAAAAATAT
1 TACATAATTAAAAATAT
*** *
10026139 TACATAAGTCTTTGAATCAC
1 TACATAA-T-TAAAAAT-AT
*
10026159 TACATAATTAAAAACAT
1 TACATAATTAAAAATAT
10026176 TACATAATT
1 TACATAATT
10026185 CTTGAAATTA
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
17 17 0.50
18 4 0.12
19 5 0.15
20 8 0.24
ACGTcount: A:0.49, C:0.13, G:0.03, T:0.35
Consensus pattern (17 bp):
TACATAATTAAAAATAT
Found at i:10026160 original size:37 final size:37
Alignment explanation
Indices: 10026113--10026187 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
10026103 ATTACCCGAA
*
10026113 TTGAATCACTACATAATTAAAAATATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
*
10026150 TTGAATCACTACATAATTAAAAACATTACATAATTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
10026187 T
1 T
10026188 GAAATTAACA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.45, C:0.15, G:0.04, T:0.36
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAAGTCT
Found at i:10026432 original size:44 final size:39
Alignment explanation
Indices: 10026319--10026427 Score: 193
Period size: 39 Copynumber: 2.8 Consensus size: 39
10026309 AGTTAAGAGT
*
10026319 TAGACTTTAGTTTTATTTTTATTGGGTT-GGTAATTGAG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGAG
*
10026357 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGAG
10026396 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGT
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGT
10026428 TGGGTTGGAT
Statistics
Matches: 68, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
38 27 0.40
39 41 0.60
ACGTcount: A:0.18, C:0.03, G:0.28, T:0.51
Consensus pattern (39 bp):
TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGAG
Found at i:10026656 original size:7 final size:7
Alignment explanation
Indices: 10026644--10026668 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
10026634 AATTTCATCA
10026644 AAATTAC
1 AAATTAC
10026651 AAATTAC
1 AAATTAC
10026658 AAATTAC
1 AAATTAC
10026665 AAAT
1 AAAT
10026669 GATACCTAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AAATTAC
Found at i:10029619 original size:22 final size:20
Alignment explanation
Indices: 10029588--10029661 Score: 69
Period size: 22 Copynumber: 3.5 Consensus size: 20
10029578 ATCACTTTTT
10029588 AAAA-AATTTTAAAATATTAA
1 AAAATAATTTTAAAAT-TTAA
* *
10029608 AAAATATATTTTCATAATTTTA
1 AAAATA-ATTTT-AAAATTTAA
10029630 AAAATAATTTTAATAATTTTAA
1 AAAATAATTTTAA-AA-TTTAA
10029652 AAAATTAATT
1 AAAA-TAATT
10029662 AAATGTTGAT
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
20 5 0.11
21 8 0.18
22 22 0.50
23 9 0.20
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (20 bp):
AAAATAATTTTAAAATTTAA
Found at i:10029639 original size:21 final size:22
Alignment explanation
Indices: 10029593--10029654 Score: 83
Period size: 21 Copynumber: 2.9 Consensus size: 22
10029583 TTTTTAAAAA
*
10029593 ATTTTAA-AATATTAAAAAATAT
1 ATTTTAATAAT-TTTAAAAATAT
*
10029615 ATTTTCATAATTTTAAAAATA-
1 ATTTTAATAATTTTAAAAATAT
10029636 ATTTTAATAATTTTAAAAA
1 ATTTTAATAATTTTAAAAA
10029655 ATTAATTAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
21 18 0.50
22 15 0.42
23 3 0.08
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
ATTTTAATAATTTTAAAAATAT
Found at i:10029663 original size:21 final size:21
Alignment explanation
Indices: 10029584--10029663 Score: 62
Period size: 21 Copynumber: 3.9 Consensus size: 21
10029574 TTTAATCACT
10029584 TTTTAAAAAATT--TTAA-AA
1 TTTTAAAAAATTAATTAATAA
* * *
10029602 TATTAAAAAATATATTTTCATAA
1 TTTTAAAAAAT-TA-ATTAATAA
10029625 TTTT-AAAAA-TAATTTTAATAA
1 TTTTAAAAAATTAA--TTAATAA
10029646 TTTTAAAAAATTAATTAA
1 TTTTAAAAAATTAATTAA
10029664 ATGTTGATGT
Statistics
Matches: 48, Mismatches: 5, Indels: 15
0.71 0.07 0.22
Matches are distributed among these distances:
18 10 0.21
19 1 0.02
20 2 0.04
21 14 0.29
22 13 0.27
23 8 0.17
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (21 bp):
TTTTAAAAAATTAATTAATAA
Found at i:10029799 original size:26 final size:25
Alignment explanation
Indices: 10029747--10029795 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
10029737 TCTATCTATT
*
10029747 TTGAGATAATTTGATAAAAACATAA
1 TTGAGATAATTTGACAAAAACATAA
10029772 TTGAGATAATTTGACAAAAA-ATAA
1 TTGAGATAATTTGACAAAAACATAA
10029796 AATTAAGAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.53, C:0.04, G:0.12, T:0.31
Consensus pattern (25 bp):
TTGAGATAATTTGACAAAAACATAA
Found at i:10035582 original size:16 final size:16
Alignment explanation
Indices: 10035561--10035592 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
10035551 CTACTGAGTG
10035561 ACTATTTCTTTTGTTA
1 ACTATTTCTTTTGTTA
10035577 ACTATTTCTTTTGTTA
1 ACTATTTCTTTTGTTA
10035593 TAAAAATGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.12, G:0.06, T:0.62
Consensus pattern (16 bp):
ACTATTTCTTTTGTTA
Found at i:10042112 original size:6 final size:6
Alignment explanation
Indices: 10042103--10042127 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
10042093 ATTCAAATTT
10042103 AACTTC AACTTC AACTTC AACTTC A
1 AACTTC AACTTC AACTTC AACTTC A
10042128 CATAGAAAAT
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:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (6 bp):
AACTTC
Found at i:10043443 original size:17 final size:15
Alignment explanation
Indices: 10043421--10043454 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
10043411 ATTAAAATAA
10043421 ATAATATATATTATTAT
1 ATAATATAT-TT-TTAT
10043438 ATAATATATTTTTAT
1 ATAATATATTTTTAT
10043453 AT
1 AT
10043455 TAGCAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 2 0.12
17 9 0.53
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
ATAATATATTTTTAT
Found at i:10046274 original size:15 final size:15
Alignment explanation
Indices: 10046251--10046280 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10046241 GAAAATTTGT
10046251 AATAATTTTTTAAAA
1 AATAATTTTTTAAAA
*
10046266 AATATTTTTTTAAAA
1 AATAATTTTTTAAAA
10046281 CACCACATCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AATAATTTTTTAAAA
Found at i:10047651 original size:17 final size:17
Alignment explanation
Indices: 10047629--10047661 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10047619 AGAATCAACG
10047629 CGAGAAAAATCGAAGCA
1 CGAGAAAAATCGAAGCA
*
10047646 CGAGAAAAATTGAAGC
1 CGAGAAAAATCGAAGC
10047662 TTAGTAAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.15, G:0.24, T:0.09
Consensus pattern (17 bp):
CGAGAAAAATCGAAGCA
Found at i:10048330 original size:8 final size:8
Alignment explanation
Indices: 10048312--10048361 Score: 50
Period size: 8 Copynumber: 6.2 Consensus size: 8
10048302 CACAAAATAT
10048312 AAAAT-AA
1 AAAATAAA
10048319 AAAATAAA
1 AAAATAAA
10048327 AAAATAAA
1 AAAATAAA
*
10048335 CAATAA-ATA
1 -AA-AATAAA
10048344 AAAATAAA
1 AAAATAAA
*
10048352 AAACTAAA
1 AAAATAAA
10048360 AA
1 AA
10048362 TTCGGTTAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
7 7 0.19
8 23 0.64
9 4 0.11
10 2 0.06
ACGTcount: A:0.82, C:0.04, G:0.00, T:0.14
Consensus pattern (8 bp):
AAAATAAA
Found at i:10048354 original size:7 final size:7
Alignment explanation
Indices: 10048305--10048361 Score: 51
Period size: 7 Copynumber: 7.4 Consensus size: 7
10048295 AAAAGGACAC
*
10048305 AAAATAT
1 AAAATAA
10048312 AAAATAA
1 AAAATAA
10048319 AAAATAAA
1 AAAAT-AA
10048327 AAAATAA
1 AAAATAA
*
10048334 ACAATAAATA
1 A-AA-ATA-A
10048344 AAAATAA
1 AAAATAA
10048351 AAAACTAA
1 AAAA-TAA
10048359 AAA
1 AAA
10048362 TTCGGTTAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
7 19 0.45
8 17 0.40
9 4 0.10
10 2 0.05
ACGTcount: A:0.81, C:0.04, G:0.00, T:0.16
Consensus pattern (7 bp):
AAAATAA
Found at i:10053992 original size:21 final size:21
Alignment explanation
Indices: 10053968--10054010 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
10053958 CCTGATATTT
*
10053968 TGCCTAAGGAGAATGAAATTG
1 TGCCTAACGAGAATGAAATTG
*
10053989 TGCCTAACGAGAATGTAATTG
1 TGCCTAACGAGAATGAAATTG
10054010 T
1 T
10054011 AGACATACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.35, C:0.12, G:0.26, T:0.28
Consensus pattern (21 bp):
TGCCTAACGAGAATGAAATTG
Found at i:10069897 original size:17 final size:16
Alignment explanation
Indices: 10069858--10069901 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
10069848 GAAGATAGGG
10069858 TGGTGAAGGAGGAGGA
1 TGGTGAAGGAGGAGGA
* *
10069874 GGAGTGAAGTGAGGAGGT
1 TG-GTGAAG-GAGGAGGA
10069892 TGGTGAAGGA
1 TGGTGAAGGA
10069902 CTGACTATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 3 0.13
17 12 0.52
18 8 0.35
ACGTcount: A:0.30, C:0.00, G:0.55, T:0.16
Consensus pattern (16 bp):
TGGTGAAGGAGGAGGA
Found at i:10076464 original size:14 final size:13
Alignment explanation
Indices: 10076441--10076470 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
10076431 GCTTGAGGAT
10076441 TGTTGCTCTTCAA
1 TGTTGCTCTTCAA
10076454 TGTTGGCTCTTCAA
1 TGTT-GCTCTTCAA
10076468 TGT
1 TGT
10076471 AGTGACATCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.13, C:0.20, G:0.20, T:0.47
Consensus pattern (13 bp):
TGTTGCTCTTCAA
Found at i:10079191 original size:28 final size:30
Alignment explanation
Indices: 10079160--10079217 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 30
10079150 AAGTAATAGA
10079160 GATTAAAATTTT-TA-AAAAAAT-ATATAAG
1 GATT-AAATTTTATATAAAAAATAATATAAG
10079188 GATTAAATTTTATATTAAAAAATAATATAA
1 GATTAAATTTTATA-TAAAAAATAATATAA
10079218 AAATTTATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
27 7 0.27
28 6 0.23
30 7 0.27
31 6 0.23
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (30 bp):
GATTAAATTTTATATAAAAAATAATATAAG
Found at i:10082161 original size:22 final size:22
Alignment explanation
Indices: 10082120--10082161 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
10082110 AGCTTTATTT
* *
10082120 AATAAATTGTTTTGATATAACA
1 AATAAAATGTTTTGAAATAACA
*
10082142 AATAAAATGTTTTTAAATAA
1 AATAAAATGTTTTGAAATAA
10082162 AATTTGTTTT
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:0.50, C:0.02, G:0.07, T:0.40
Consensus pattern (22 bp):
AATAAAATGTTTTGAAATAACA
Found at i:10082403 original size:17 final size:17
Alignment explanation
Indices: 10082381--10082413 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10082371 ATACCATACA
10082381 ATTTTTATCGATACCAT
1 ATTTTTATCGATACCAT
*
10082398 ATTTTTATTGATACCA
1 ATTTTTATCGATACCA
10082414 AAATTGCTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.15, G:0.06, T:0.48
Consensus pattern (17 bp):
ATTTTTATCGATACCAT
Found at i:10083630 original size:9 final size:9
Alignment explanation
Indices: 10083613--10083649 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
10083603 TGAGTTTTCG
10083613 AATTCGAAT
1 AATTCGAAT
*
10083622 AACTCGAAT
1 AATTCGAAT
10083631 AATTCGAAT
1 AATTCGAAT
10083640 AATTCGAAT
1 AATTCGAAT
10083649 A
1 A
10083650 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:10084576 original size:5 final size:5
Alignment explanation
Indices: 10084566--10084613 Score: 96
Period size: 5 Copynumber: 9.6 Consensus size: 5
10084556 GAACAAATAT
10084566 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATT
1 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATT
10084614 TCCATCTCAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 43 1.00
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
ATTCG
Found at i:10089946 original size:42 final size:42
Alignment explanation
Indices: 10089807--10089981 Score: 140
Period size: 42 Copynumber: 4.1 Consensus size: 42
10089797 GGGCAAGTCG
* * * *
10089807 AAGCAATTATACTAACACACAAGGTGTATTATCGAATGA-ACTGA
1 AAGCAATTATACTGACACACAA-GTGCATCATCGAAT-ATAC-CA
* * * * * *
10089851 AA-TAATTATACTAACACACATAGTACATCATCGGATGTATCGA
1 AAGCAATTATACTGACACACA-AGTGCATCATCGAATATA-CCA
* *
10089894 AA-CAAATATACTGGCACACAAGTGCATCATCGAATATACCA
1 AAGCAATTATACTGACACACAAGTGCATCATCGAATATACCA
* * * *
10089935 AAGCAATTATACTGACACATAAGTGCATCATTGAATAAATCA
1 AAGCAATTATACTGACACACAAGTGCATCATCGAATATACCA
10089977 AAGCA
1 AAGCA
10089982 GATACACTAG
Statistics
Matches: 107, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
41 4 0.04
42 53 0.50
43 46 0.43
44 4 0.04
ACGTcount: A:0.44, C:0.19, G:0.13, T:0.24
Consensus pattern (42 bp):
AAGCAATTATACTGACACACAAGTGCATCATCGAATATACCA
Found at i:10098351 original size:32 final size:30
Alignment explanation
Indices: 10098288--10098362 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 30
10098278 TTTAGATTAG
* ** *
10098288 GATTAAAATTTAAAAATTCAAAAAGTATAA
1 GATTAAAATTGATTAATTCAAAAAATATAA
10098318 GAATTAAAATTGATTAATTCAAAAAATACTAA
1 G-ATTAAAATTGATTAATTCAAAAAATA-TAA
*
10098350 GATTAAATTTGAT
1 GATTAAAATTGAT
10098363 CAAATTAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
30 1 0.03
31 33 0.87
32 4 0.11
ACGTcount: A:0.55, C:0.04, G:0.08, T:0.33
Consensus pattern (30 bp):
GATTAAAATTGATTAATTCAAAAAATATAA
Found at i:10098362 original size:31 final size:31
Alignment explanation
Indices: 10098302--10098362 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
10098292 AAAATTTAAA
*
10098302 AATTCAAAAAGTATAAGAATTAAAATTGATT
1 AATTCAAAAAATATAAGAATTAAAATTGATT
*
10098333 AATTCAAAAAATACTAAG-ATTAAATTTGAT
1 AATTCAAAAAATA-TAAGAATTAAAATTGAT
10098363 CAAATTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 23 0.85
32 4 0.15
ACGTcount: A:0.54, C:0.05, G:0.08, T:0.33
Consensus pattern (31 bp):
AATTCAAAAAATATAAGAATTAAAATTGATT
Found at i:10099211 original size:138 final size:139
Alignment explanation
Indices: 10099033--10099309 Score: 520
Period size: 139 Copynumber: 2.0 Consensus size: 139
10099023 TTTTTATTCC
* *
10099033 CCAAAACTTTTTATTTTCCCTCTAAACTTTTACTTCTCACCCTTTACTCTCAAAT-AAAAAATCA
1 CCAAAACTTTTTATTTTCCCCCTAAACTTTTACTTATCACCCTTTACTCTCAAATAAAAAAATCA
*
10099097 AAATTATCCCAAAAAAATCACTAAACATAAATAGTAATAATTTTATTTATATCTACTATTTATAT
66 AAATTATCCAAAAAAAATCACTAAACATAAATAGTAATAATTTTATTTATATCTACTATTTATAT
10099162 TATTAAATT
131 TATTAAATT
10099171 CCAAAACTTTTTATTTTCCCCCTAAACTTTTACTTATCACCCTTTACTCTCAAATAAAAAAATCA
1 CCAAAACTTTTTATTTTCCCCCTAAACTTTTACTTATCACCCTTTACTCTCAAATAAAAAAATCA
10099236 AAATTATCCAAAAAAAATCACTAAACATAAATAGTAATAATTTTATTTATATCTACTATTTATAT
66 AAATTATCCAAAAAAAATCACTAAACATAAATAGTAATAATTTTATTTATATCTACTATTTATAT
10099301 TATTAAATT
131 TATTAAATT
10099310 AAATTTCACA
Statistics
Matches: 135, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
138 53 0.39
139 82 0.61
ACGTcount: A:0.42, C:0.18, G:0.01, T:0.39
Consensus pattern (139 bp):
CCAAAACTTTTTATTTTCCCCCTAAACTTTTACTTATCACCCTTTACTCTCAAATAAAAAAATCA
AAATTATCCAAAAAAAATCACTAAACATAAATAGTAATAATTTTATTTATATCTACTATTTATAT
TATTAAATT
Found at i:10100859 original size:12 final size:12
Alignment explanation
Indices: 10100838--10100874 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
10100828 AAGCCTTATA
*
10100838 TGTGTGTGTGTG
1 TGTGTATGTGTG
*
10100850 TGTGTATGTGTC
1 TGTGTATGTGTG
10100862 TGTGTATGTGTG
1 TGTGTATGTGTG
10100874 T
1 T
10100875 TTAAGGCTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.05, C:0.03, G:0.41, T:0.51
Consensus pattern (12 bp):
TGTGTATGTGTG
Found at i:10103524 original size:23 final size:23
Alignment explanation
Indices: 10103498--10103541 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
10103488 ATTATAACTG
* *
10103498 TAATATCCCGAAAATTACTACTT
1 TAATACCCCAAAAATTACTACTT
10103521 TAATACCCCAAAAATTACTAC
1 TAATACCCCAAAAATTACTAC
10103542 AGTAAGAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.43, C:0.25, G:0.02, T:0.30
Consensus pattern (23 bp):
TAATACCCCAAAAATTACTACTT
Found at i:10106514 original size:105 final size:105
Alignment explanation
Indices: 10106332--10106541 Score: 368
Period size: 105 Copynumber: 2.0 Consensus size: 105
10106322 TTTCGATAAT
* * *
10106332 CTGAAAAGTAAAGGAAAACAACTACGTAAGCAACAAATGCTTAGTAATCTTGTATAAACTTTAAT
1 CTGAAAAGTAAAGGAAAACAACTACATAAGCAACAAATGCTTAGTAAGCTCGTATAAACTTTAAT
10106397 CATATTAATTCATTTCAAATATGAAATCTATACGTATCAA
66 CATATTAATTCATTTCAAATATGAAATCTATACGTATCAA
*
10106437 CTGAAAAGTACTA-GAAAACAACTACATAAGCAACAAATGCTTAGTAAGCTCGTATAAACTTTAA
1 CTGAAAAGTA-AAGGAAAACAACTACATAAGCAACAAATGCTTAGTAAGCTCGTATAAACTTTAA
10106501 TCATATTAATTCATTTCAAATATGAAATCTATACGTATCAA
65 TCATATTAATTCATTTCAAATATGAAATCTATACGTATCAA
10106542 GAATAACCCA
Statistics
Matches: 100, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
105 99 0.99
106 1 0.01
ACGTcount: A:0.45, C:0.15, G:0.10, T:0.30
Consensus pattern (105 bp):
CTGAAAAGTAAAGGAAAACAACTACATAAGCAACAAATGCTTAGTAAGCTCGTATAAACTTTAAT
CATATTAATTCATTTCAAATATGAAATCTATACGTATCAA
Found at i:10109011 original size:207 final size:207
Alignment explanation
Indices: 10108656--10109074 Score: 820
Period size: 207 Copynumber: 2.0 Consensus size: 207
10108646 AAAAAAATTC
*
10108656 ATTTCCTGCAATTTGGTTTTTTGACATTTTTACAAAATTACCCCTAAAGTTTTACTTTTATTCAA
1 ATTTCCTGCAATTTGGTTTTTTGACATTCTTACAAAATTACCCCTAAAGTTTTACTTTTATTCAA
10108721 TTTAGTCCCTGAGCCTAAAACATGCAAATTAGCCATTTTTAATGTAAACCCATGCTAGCTGAATA
66 TTTAGTCCCTGAGCCTAAAACATGCAAATTAGCCATTTTTAATGTAAACCCATGCTAGCTGAATA
*
10108786 TTCATATATATTTTCCTCCTCTTGTCCATTCCACATCCTTAATGTATATAACATGCTTATATGTA
131 TTCATATATATTTTCCTCCTCCTGTCCATTCCACATCCTTAATGTATATAACATGCTTATATGTA
10108851 ACATTATCTATA
196 ACATTATCTATA
10108863 ATTTCCTGCAATTTGGTTTTTTGACATTCTTACAAAATTACCCCTAAAGTTTTACTTTTATTCAA
1 ATTTCCTGCAATTTGGTTTTTTGACATTCTTACAAAATTACCCCTAAAGTTTTACTTTTATTCAA
10108928 TTTAGTCCCTGAGCCTAAAACATGCAAATTAGCCATTTTTAATGTAAACCCATGCTAGCTGAATA
66 TTTAGTCCCTGAGCCTAAAACATGCAAATTAGCCATTTTTAATGTAAACCCATGCTAGCTGAATA
10108993 TTCATATATATTTTCCTCCTCCTGTCCATTCCACATCCTTAATGTATATAACATGCTTATATGTA
131 TTCATATATATTTTCCTCCTCCTGTCCATTCCACATCCTTAATGTATATAACATGCTTATATGTA
10109058 ACATTATCTATA
196 ACATTATCTATA
10109070 ATTTC
1 ATTTC
10109075 ACTATTACTT
Statistics
Matches: 210, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
207 210 1.00
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.41
Consensus pattern (207 bp):
ATTTCCTGCAATTTGGTTTTTTGACATTCTTACAAAATTACCCCTAAAGTTTTACTTTTATTCAA
TTTAGTCCCTGAGCCTAAAACATGCAAATTAGCCATTTTTAATGTAAACCCATGCTAGCTGAATA
TTCATATATATTTTCCTCCTCCTGTCCATTCCACATCCTTAATGTATATAACATGCTTATATGTA
ACATTATCTATA
Found at i:10110116 original size:11 final size:11
Alignment explanation
Indices: 10110102--10110148 Score: 58
Period size: 11 Copynumber: 4.1 Consensus size: 11
10110092 TTAAATACTA
10110102 AATAAAATAAT
1 AATAAAATAAT
10110113 AATAAAATATAT
1 AATAAAATA-AT
* *
10110125 ATTTAAAATATT
1 A-ATAAAATAAT
10110137 AATAAAATAAT
1 AATAAAATAAT
10110148 A
1 A
10110149 TTTATCTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
11 18 0.60
12 5 0.17
13 7 0.23
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:10110161 original size:23 final size:24
Alignment explanation
Indices: 10110104--10110152 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
10110094 AAATACTAAA
*
10110104 TAAAATAATAATAAAATATATATT
1 TAAAATATTAATAAAATATATATT
10110128 TAAAATATTAATAAAATA-ATATT
1 TAAAATATTAATAAAATATATATT
10110151 TA
1 TA
10110153 TCTAATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 7 0.29
24 17 0.71
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
TAAAATATTAATAAAATATATATT
Found at i:10112297 original size:23 final size:23
Alignment explanation
Indices: 10112264--10112375 Score: 84
Period size: 23 Copynumber: 4.7 Consensus size: 23
10112254 AGCCATATAA
*
10112264 CAGGAAACTCACAAAGAGCATAT
1 CAGGAAGCTCACAAAGAGCATAT
* *
10112287 CGGGAAGCTCACAAAGAGCCTAT
1 CAGGAAGCTCACAAAGAGCATAT
* * *
10112310 CAGGAAGCTTA-AATGGGCTATAT
1 CAGGAAGCTCACAAAGAGC-ATAT
* *
10112333 AACGAGAAGCTCA-TAAGAGACATAAT
1 CA-G-GAAGCTCACAAAGAG-CAT-AT
*
10112359 CAGGAAGTTCACAAAGA
1 CAGGAAGCTCACAAAGA
10112376 ACTTTTAATT
Statistics
Matches: 67, Mismatches: 16, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
22 5 0.07
23 33 0.49
24 8 0.12
25 17 0.25
26 4 0.06
ACGTcount: A:0.43, C:0.19, G:0.22, T:0.16
Consensus pattern (23 bp):
CAGGAAGCTCACAAAGAGCATAT
Found at i:10116583 original size:33 final size:32
Alignment explanation
Indices: 10116546--10116625 Score: 83
Period size: 35 Copynumber: 2.4 Consensus size: 32
10116536 TATTATTAAA
*
10116546 AATAAATATTTAATAATATAATTAATTATTTT-T
1 AATAAATATTTAATAATACAATT--TTATTTTAT
*
10116579 AATAAATTATTTAAATATTACAATTTTATTTTAAT
1 AATAAA-TATTT-AATAATACAATTTTATTTT-AT
10116614 AATAAAT-TTTAA
1 AATAAATATTTAA
10116626 CAGTAATAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
32 2 0.05
33 16 0.39
34 6 0.15
35 17 0.41
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (32 bp):
AATAAATATTTAATAATACAATTTTATTTTAT
Found at i:10116592 original size:22 final size:22
Alignment explanation
Indices: 10116554--10116597 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
10116544 AAAATAAATA
*
10116554 TTTAATAATATAATTAATTATT
1 TTTAATAATATAATTAAATATT
*
10116576 TTTAATAA-ATTATTTAAATATT
1 TTTAATAATA-TAATTAAATATT
10116598 ACAATTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTAATAATATAATTAAATATT
Found at i:10116609 original size:19 final size:18
Alignment explanation
Indices: 10116585--10116624 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
10116575 TTTTAATAAA
*
10116585 TTATTTAAATATTACAATT
1 TTATTTAAATAATA-AATT
*
10116604 TTATTTTAATAATAAATT
1 TTATTTAAATAATAAATT
10116622 TTA
1 TTA
10116625 ACAGTAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (18 bp):
TTATTTAAATAATAAATT
Found at i:10129390 original size:20 final size:20
Alignment explanation
Indices: 10129330--10129392 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
10129320 CATGGAGAAA
10129330 ACAAATTGTAGTTTTTGTTT
1 ACAAATTGTAGTTTTTGTTT
** * *
10129350 AC-TTTTTTCAATTTTTAGTTT
1 ACAAATTGT-AGTTTTT-GTTT
10129371 ACAAATTGTAGTTTTTGTTT
1 ACAAATTGTAGTTTTTGTTT
10129391 AC
1 AC
10129393 TTTACTAACT
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
19 3 0.09
20 14 0.44
21 12 0.38
22 3 0.09
ACGTcount: A:0.24, C:0.08, G:0.11, T:0.57
Consensus pattern (20 bp):
ACAAATTGTAGTTTTTGTTT
Found at i:10131329 original size:5 final size:5
Alignment explanation
Indices: 10131321--10131349 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
10131311 AAGAAGGGAA
10131321 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
10131350 TTAAAAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTC
Found at i:10135583 original size:14 final size:14
Alignment explanation
Indices: 10135564--10135591 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
10135554 TTGTACACTG
10135564 CCAAATCAAAACTA
1 CCAAATCAAAACTA
10135578 CCAAATCAAAACTA
1 CCAAATCAAAACTA
10135592 ACCCGAGTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.29, G:0.00, T:0.14
Consensus pattern (14 bp):
CCAAATCAAAACTA
Found at i:10138648 original size:20 final size:20
Alignment explanation
Indices: 10138623--10138663 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
10138613 CAATCCACAT
* *
10138623 TGCAAATATAATTTTTAGGA
1 TGCAAATATAAATTCTAGGA
*
10138643 TGCAAATTTAAATTCTAGGA
1 TGCAAATATAAATTCTAGGA
10138663 T
1 T
10138664 ATTTCACCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (20 bp):
TGCAAATATAAATTCTAGGA
Found at i:10141715 original size:16 final size:15
Alignment explanation
Indices: 10141667--10141716 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
10141657 TCCTTAAATT
10141667 TAATA-ATTAT-ATA
1 TAATATATTATGATA
*
10141680 AAATATATTATGATA
1 TAATATATTATGATA
10141695 TAATATATTGATGGA-A
1 TAATATATT-AT-GATA
10141711 TAATAT
1 TAATAT
10141717 TTGGTACACT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 4 0.13
14 5 0.16
15 11 0.35
16 9 0.29
17 2 0.06
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (15 bp):
TAATATATTATGATA
Found at i:10149999 original size:22 final size:22
Alignment explanation
Indices: 10149973--10150029 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
10149963 CAAAAATAAC
*
10149973 AAAATAGTAATAATATAATAGT
1 AAAATAGTAACAATATAATAGT
* *
10149995 GAAATAGTAGCAATATAATAGT
1 AAAATAGTAACAATATAATAGT
10150017 AAAATAGTAACAA
1 AAAATAGTAACAA
10150030 AACAACAACG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.58, C:0.04, G:0.12, T:0.26
Consensus pattern (22 bp):
AAAATAGTAACAATATAATAGT
Found at i:10160690 original size:25 final size:24
Alignment explanation
Indices: 10160656--10160704 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
10160646 ATTATTTTGG
*
10160656 ATTTATTAATATATTTAAAAATAT
1 ATTTATTAATATATATAAAAATAT
*
10160680 ATTTAATTAATGTATATAAAAATAT
1 ATTT-ATTAATATATATAAAAATAT
10160705 TTATAGATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (24 bp):
ATTTATTAATATATATAAAAATAT
Found at i:10170711 original size:18 final size:17
Alignment explanation
Indices: 10170658--10170711 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
10170648 ATAAAATCAA
10170658 ATAATTATTTCAAATAT
1 ATAATTATTTCAAATAT
* **
10170675 CATTATTATTT-TTATAT
1 -ATAATTATTTCAAATAT
10170692 ATAATATATTTCAAATAT
1 ATAAT-TATTTCAAATAT
10170710 AT
1 AT
10170712 TTGTTTTTTC
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
16 4 0.14
17 9 0.32
18 15 0.54
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.52
Consensus pattern (17 bp):
ATAATTATTTCAAATAT
Found at i:10173730 original size:21 final size:18
Alignment explanation
Indices: 10173710--10173746 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
10173700 TAAATATTAC
10173710 ACATATAAAAATTATATTT
1 ACATA-AAAAATTATATTT
*
10173729 ACATAAATAATTATATTT
1 ACATAAAAAATTATATTT
10173747 GGAAATAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (18 bp):
ACATAAAAAATTATATTT
Found at i:10173800 original size:13 final size:13
Alignment explanation
Indices: 10173782--10173806 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10173772 TAAAAGAGTT
10173782 ATTAATTAAAAAG
1 ATTAATTAAAAAG
10173795 ATTAATTAAAAA
1 ATTAATTAAAAA
10173807 TATAAAAAAA
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:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
ATTAATTAAAAAG
Found at i:10176345 original size:14 final size:14
Alignment explanation
Indices: 10176326--10176365 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
10176316 TTGATTGGCA
10176326 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
10176340 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
10176354 GGAAAATGTTTT
1 GTAAAATGTTTT
10176366 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:10176378 original size:34 final size:35
Alignment explanation
Indices: 10176334--10176400 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
10176324 CAGTAAAATG
* *
10176334 TTTTCCGTAAAATGA-TTTCTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
*
10176368 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTT
10176401 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 14 0.48
35 15 0.52
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
Found at i:10176387 original size:20 final size:20
Alignment explanation
Indices: 10176349--10176388 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
10176339 CGTAAAATGA
**
10176349 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGACTTACT
*
10176369 TTTCTGTAAAATGACTTACT
1 TTTCTGGAAAATGACTTACT
10176389 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGACTTACT
Found at i:10177364 original size:112 final size:112
Alignment explanation
Indices: 10177200--10177456 Score: 383
Period size: 113 Copynumber: 2.3 Consensus size: 112
10177190 GAAAATAACA
* * * * *
10177200 TTAGCGGCG-CTTTAATAATGCGCCGCTAATGCAGGGCTTTAGCGGCGTTTTTATGGAAGCGCCG
1 TTAGCGGCGTTTTTAATAAAGCGCCGCTAATGCTGGGCTTTAGCGGCGCTTTTATGAAAGCGCCG
* * *
10177264 C-AAAAAAATTAAACCCAACGACATCGTTTTCTTTGCTTTCGGGGGT
66 CAAAAAAAATTAAACCCAACGACACCGTTTTCTTAGCTTTCAGGGGT
* * *
10177310 TTAGCGGCGTTTTTAGTAAAGCGTCGCTAATGCTGGGTTTTTAGCGGCGCTTTTATGAAAGCGCC
1 TTAGCGGCGTTTTTAATAAAGCGCCGCTAATGCTGGG-CTTTAGCGGCGCTTTTATGAAAGCGCC
10177375 GCAAAAAAAATTAAACCCAACGACACCGTTTTCTTAGCTTTCAGGGGT
65 GCAAAAAAAATTAAACCCAACGACACCGTTTTCTTAGCTTTCAGGGGT
*
10177423 TTAGCGGCATTTTTAATAAAGCGCCGCTAATGCT
1 TTAGCGGCGTTTTTAATAAAGCGCCGCTAATGCT
10177457 CAGGGATTTA
Statistics
Matches: 130, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
110 9 0.07
111 22 0.17
112 26 0.20
113 73 0.56
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (112 bp):
TTAGCGGCGTTTTTAATAAAGCGCCGCTAATGCTGGGCTTTAGCGGCGCTTTTATGAAAGCGCCG
CAAAAAAAATTAAACCCAACGACACCGTTTTCTTAGCTTTCAGGGGT
Found at i:10177810 original size:35 final size:35
Alignment explanation
Indices: 10177771--10177853 Score: 94
Period size: 35 Copynumber: 2.3 Consensus size: 35
10177761 TGGTTTTACA
* ***
10177771 GTTTAGGGTTTAAGGGTTATGCTTTAAGGTTTATG
1 GTTTAGGGTTTAAGAGTTACAATTTAAGGTTTATG
* *
10177806 GTTTAAGATTTAAGAGTTACAATTTAAGGTTTATG
1 GTTTAGGGTTTAAGAGTTACAATTTAAGGTTTATG
*
10177841 GATTATGGGTTTA
1 GTTTA-GGGTTTA
10177854 GTGATTATGT
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
35 33 0.87
36 5 0.13
ACGTcount: A:0.27, C:0.02, G:0.27, T:0.45
Consensus pattern (35 bp):
GTTTAGGGTTTAAGAGTTACAATTTAAGGTTTATG
Found at i:10177817 original size:14 final size:14
Alignment explanation
Indices: 10177771--10177817 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
10177761 TGGTTTTACA
*
10177771 GTTTAGGGTTTAAG
1 GTTTATGGTTTAAG
* *
10177785 GGTTATGCTTTAAG
1 GTTTATGGTTTAAG
10177799 GTTTATGGTTTAAG
1 GTTTATGGTTTAAG
*
10177813 ATTTA
1 GTTTA
10177818 AGAGTTACAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.23, C:0.02, G:0.28, T:0.47
Consensus pattern (14 bp):
GTTTATGGTTTAAG
Found at i:10186766 original size:21 final size:21
Alignment explanation
Indices: 10186740--10186833 Score: 107
Period size: 21 Copynumber: 4.3 Consensus size: 21
10186730 CAACAACTTA
*
10186740 AAGCAGAGGCAGCAACGAGAG
1 AAGCAGAGGCAGCAGCGAGAG
*
10186761 AAGCAGAGGCCGCAGCGAGAG
1 AAGCAGAGGCAGCAGCGAGAG
* *
10186782 AAGCAGAGGCTGCAGTGAGAG
1 AAGCAGAGGCAGCAGCGAGAG
* *
10186803 AAGCAGCGAGAGAAGCAGCGATAG
1 AAGCA--GAG-GCAGCAGCGAGAG
10186827 AAGCAGA
1 AAGCAGA
10186834 TGTTCAAAAG
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
21 43 0.69
22 2 0.03
23 3 0.05
24 14 0.23
ACGTcount: A:0.39, C:0.18, G:0.39, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCGAGAG
Found at i:10186813 original size:12 final size:12
Alignment explanation
Indices: 10186772--10186832 Score: 65
Period size: 12 Copynumber: 5.3 Consensus size: 12
10186762 AGCAGAGGCC
10186772 GCAGCGAGAGAA
1 GCAGCGAGAGAA
**
10186784 GCA--GAG-GCT
1 GCAGCGAGAGAA
*
10186793 GCAGTGAGAGAA
1 GCAGCGAGAGAA
10186805 GCAGCGAGAGAA
1 GCAGCGAGAGAA
*
10186817 GCAGCGATAGAA
1 GCAGCGAGAGAA
10186829 GCAG
1 GCAG
10186833 ATGTTCAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
9 4 0.10
10 3 0.08
11 3 0.08
12 30 0.75
ACGTcount: A:0.38, C:0.16, G:0.41, T:0.05
Consensus pattern (12 bp):
GCAGCGAGAGAA
Found at i:10187437 original size:42 final size:42
Alignment explanation
Indices: 10187338--10187688 Score: 506
Period size: 42 Copynumber: 8.3 Consensus size: 42
10187328 CTTTTTTGTC
*
10187338 CTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTT
1 CTAAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTA-TTT
*
10187381 CTTAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTATTT
1 CTAAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTATTT
* *
10187423 CTAAGCGCCGCTAAAGAACATGCTCTTTAGTGGCGTTAATTT
1 CTAAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTATTT
*
10187465 CTAAGCGCCGCTAAAGAACATGCTCTTTAGTGGCGTTTATTT
1 CTAAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTATTT
*
10187507 CTGAGCGCCGCTAAAGAACATTG-TCTTTAGTGGCGTTTATTT
1 CTAAGCGCCGCTAAAGAACA-TGATCTTTAGTGGCGTTTATTT
* * *
10187549 TTTAGCGCCGCTAAAGAACATAATCTTTAGTGGCGTTTATTTT
1 CTAAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTA-TTT
* * * * *
10187592 TTTAGCGCGGCTAAAGAACATGATCTTTAGCGGCGTTTCTTT
1 CTAAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTATTT
* *
10187634 CTAAGCGCCGCTAAAGAACATGATCTTTAGTGGCATTTTTTT
1 CTAAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTATTT
10187676 CTGTAAGCGCCGC
1 C--TAAGCGCCGC
10187689 AAATGTTTGC
Statistics
Matches: 283, Mismatches: 20, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
41 1 0.00
42 195 0.69
43 77 0.27
44 10 0.04
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (42 bp):
CTAAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTATTT
Found at i:10187494 original size:127 final size:127
Alignment explanation
Indices: 10187338--10187688 Score: 517
Period size: 127 Copynumber: 2.7 Consensus size: 127
10187328 CTTTTTTGTC
*
10187338 CTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTTCTTAGCGCCGCTAAAGAACATG
1 CTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTA-TTTCTAAGCGCCGCTAAAGAACATG
**
10187403 ATCTTTAGTGGCGTTTATTTCTAAGCGCCGCTAAAGAACATGCTCTTTAGTGGCG-TTAATTT
65 ATCTTTAGTGGCGTTTATTTCTAAGCGCCGCTAAAGAACATAATCTTTAGTGGCGTTTAATTT
* * *
10187465 CTAAGCGCCGCTAAAGAACATGCTCTTTAGTGGCGTTTATTTCTGAGCGCCGCTAAAGAACATTG
1 CTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCTAAGCGCCGCTAAAGAACA-TG
* * *
10187530 -TCTTTAGTGGCGTTTATTTTTTAGCGCCGCTAAAGAACATAATCTTTAGTGGCGTTTATTTT
65 ATCTTTAGTGGCGTTTATTTCTAAGCGCCGCTAAAGAACATAATCTTTAGTGGCGTTTAATTT
* * * *
10187592 TTTAGCGCGGCTAAAGAACATGATCTTTAGCGGCGTTTCTTTCTAAGCGCCGCTAAAGAACATGA
1 CTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCTAAGCGCCGCTAAAGAACATGA
* *
10187657 TCTTTAGTGGCATTTTTTTCTGTAAGCGCCGC
66 TCTTTAGTGGCGTTTATTTC--TAAGCGCCGC
10187689 AAATGTTTGC
Statistics
Matches: 200, Mismatches: 19, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
126 74 0.37
127 117 0.58
129 9 0.05
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (127 bp):
CTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCTAAGCGCCGCTAAAGAACATGA
TCTTTAGTGGCGTTTATTTCTAAGCGCCGCTAAAGAACATAATCTTTAGTGGCGTTTAATTT
Found at i:10188510 original size:27 final size:27
Alignment explanation
Indices: 10188480--10188549 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
10188470 AATAATCAAT
*
10188480 TCAATATCCAACAATGTTAAAACATA-A
1 TCAATATCCAACAAT-TCAAAACATATA
* *
10188507 TCAATATCTAACCAATTCAAGACATATA
1 TCAATATCCAA-CAATTCAAAACATATA
*
10188535 TCAAAATCCAACAAT
1 TCAATATCCAACAAT
10188550 CTAAAATCTG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 22 0.61
28 14 0.39
ACGTcount: A:0.50, C:0.21, G:0.03, T:0.26
Consensus pattern (27 bp):
TCAATATCCAACAATTCAAAACATATA
Found at i:10191276 original size:14 final size:14
Alignment explanation
Indices: 10191257--10191284 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
10191247 TCTTTAAAAA
10191257 GAATTAACTTATTT
1 GAATTAACTTATTT
10191271 GAATTAACTTATTT
1 GAATTAACTTATTT
10191285 TTAAAGGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (14 bp):
GAATTAACTTATTT
Found at i:10200463 original size:57 final size:57
Alignment explanation
Indices: 10200402--10200514 Score: 190
Period size: 57 Copynumber: 2.0 Consensus size: 57
10200392 CAAGTTGTGC
* * *
10200402 TGTTAGAAGTTAGAACAAAGGATGTCCTACATTAATTATTTGCAATCCGGATATATT
1 TGTTAGAAGTTAGAACAAAGCATGTCCTACATTAATTATTTACAATCCGAATATATT
*
10200459 TGTTAGAAGTTAGAACAAAGCATGTCCTAGATTAATTATTTACAATCCGAATATAT
1 TGTTAGAAGTTAGAACAAAGCATGTCCTACATTAATTATTTACAATCCGAATATAT
10200515 CCTCAACCAG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (57 bp):
TGTTAGAAGTTAGAACAAAGCATGTCCTACATTAATTATTTACAATCCGAATATATT
Found at i:10201812 original size:16 final size:16
Alignment explanation
Indices: 10201788--10201820 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
10201778 TGTATTGGGT
*
10201788 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
10201804 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
10201820 T
1 T
10201821 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:10201865 original size:45 final size:44
Alignment explanation
Indices: 10201799--10201893 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
10201789 GGATTAGAGG
* *
10201799 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
10201844 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
10201888 TGTAAT
1 TGTAAT
10201894 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:10202076 original size:18 final size:17
Alignment explanation
Indices: 10202055--10202089 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
10202045 TTATTATTTA
*
10202055 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
10202073 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
10202090 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:10202083 original size:28 final size:27
Alignment explanation
Indices: 10202013--10202085 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
10202003 TTTATTATCA
*
10202013 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
10202041 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
10202068 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
10202086 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:10202202 original size:144 final size:147
Alignment explanation
Indices: 10201974--10202245 Score: 487
Period size: 144 Copynumber: 1.9 Consensus size: 147
10201964 ATGATTATTG
10201974 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
*
10202039 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
64 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
10202104 AGAAATTTGTTTTGGTAAA
129 AGAAATTTGTTTTGGTAAA
*
10202123 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
10202185 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
10202246 ATATTCTTAT
Statistics
Matches: 121, Mismatches: 2, Indels: 5
0.95 0.02 0.04
Matches are distributed among these distances:
144 92 0.76
145 1 0.01
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAG
AAATTTGTTTTGGTAAA
Found at i:10202220 original size:18 final size:17
Alignment explanation
Indices: 10202199--10202233 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
10202189 TTATTATTAA
*
10202199 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
10202217 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
10202234 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:10202277 original size:54 final size:54
Alignment explanation
Indices: 10202219--10202397 Score: 128
Period size: 55 Copynumber: 3.1 Consensus size: 54
10202209 ATTAAAATAT
*
10202219 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
** * * * * *
10202273 ATAATATATGATACTGTAAAATAT-AAAATAACATAATTATTATTAAATAT-AATATAATTAAAA
1 ATAAT-T-T-A-A---TAAAAT-TCTTAATAA-TTAA-TATTCTT--ATATGAAT-TTACTCAAA
*
10202336 TAT
53 -AC
*
10202339 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
10202393 ATAAT
1 ATAAT
10202398 ATATGATACT
Statistics
Matches: 91, Mismatches: 18, Indels: 32
0.65 0.13 0.23
Matches are distributed among these distances:
54 10 0.11
55 11 0.12
56 4 0.04
57 7 0.08
58 5 0.05
59 11 0.12
61 11 0.12
62 5 0.05
63 7 0.08
64 4 0.04
65 11 0.12
66 5 0.05
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (54 bp):
ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
Found at i:10202340 original size:18 final size:17
Alignment explanation
Indices: 10202319--10202353 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
10202309 TTATTATTAA
10202319 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
10202337 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
10202354 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:10202468 original size:18 final size:17
Alignment explanation
Indices: 10202429--10202460 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
10202419 TTTTAAATAA
10202429 TTAATATTAAATATATT
1 TTAATATTAAATATATT
10202446 TTAAT-TTAAATATAT
1 TTAATATTAAATATAT
10202461 GATTTAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAATATTAAATATATT
Found at i:10202485 original size:120 final size:120
Alignment explanation
Indices: 10202182--10202474 Score: 482
Period size: 120 Copynumber: 2.4 Consensus size: 120
10202172 ATCATATTTA
10202182 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
10202247 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATATAAAAT
* *
10202302 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
10202367 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATA-AAATTTT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATATAAA--AT
* * *
10202423 AA-ATAATTAATATTAAATATATTTTAATTTAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
10202475 TAAAATAATT
Statistics
Matches: 161, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
119 3 0.02
120 155 0.96
121 3 0.02
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATATAAAAT
Found at i:10202615 original size:93 final size:92
Alignment explanation
Indices: 10202505--10202699 Score: 293
Period size: 93 Copynumber: 2.1 Consensus size: 92
10202495 AATTATATTT
* * *
10202505 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATTTAATAATAATATAAAATTTCA
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTTAATAATAATATAAAATTTCA
* *
10202569 TAAAATTCTTGATAATAAAAATTTTCTTA
65 TAAAATTCTTAATAAT-AAAATGTTCTTA
* * *
10202598 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATAAAATTTCAT
10202663 AAAATTCTTAATAATAAAATGTTCTTA
66 AAAATTCTTAATAATAAAATGTTCTTA
10202690 TATGAATTTA
1 TATGAATTTA
10202700 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
92 21 0.23
93 69 0.74
94 3 0.03
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATAAAATTTCAT
AAAATTCTTAATAATAAAATGTTCTTA
Found at i:10204114 original size:11 final size:11
Alignment explanation
Indices: 10204100--10204126 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
10204090 AAAAATCAAT
10204100 ACAAAAGTTTC
1 ACAAAAGTTTC
10204111 ACAAAAGTTTC
1 ACAAAAGTTTC
10204122 ACAAA
1 ACAAA
10204127 CTAATTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (11 bp):
ACAAAAGTTTC
Found at i:10206329 original size:15 final size:15
Alignment explanation
Indices: 10206309--10206339 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
10206299 ATATTATGTA
10206309 TAATTGAGGTAAAAT
1 TAATTGAGGTAAAAT
10206324 TAATTGAGGTAAAAT
1 TAATTGAGGTAAAAT
10206339 T
1 T
10206340 TGAAGGTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.19, T:0.35
Consensus pattern (15 bp):
TAATTGAGGTAAAAT
Found at i:10210336 original size:38 final size:38
Alignment explanation
Indices: 10210263--10210337 Score: 91
Period size: 38 Copynumber: 1.9 Consensus size: 38
10210253 TTTACTTTTT
* *
10210263 TAAAATTATTAAAATATGTGAATTTATTAATATATTTAA
1 TAAAATTATTAAAATA-GTAAATTTATTAAAATATTTAA
10210302 TAAAA-TATTAAAATA-TAAATTTATAATAAAATATTT
1 TAAAATTATTAAAATAGTAAATTTAT--TAAAATATTT
10210338 TTTCTTTAGC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
36 8 0.25
38 19 0.59
39 5 0.16
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (38 bp):
TAAAATTATTAAAATAGTAAATTTATTAAAATATTTAA
Found at i:10213555 original size:2 final size:2
Alignment explanation
Indices: 10213550--10213587 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
10213540 AAAACAAAAA
*
10213550 AT AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10213588 AAATATGCGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:10213567 original size:10 final size:10
Alignment explanation
Indices: 10213552--10213593 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
10213542 AACAAAAAAT
10213552 ATATATATAA
1 ATATATATAA
*
10213562 ATATATATAT
1 ATATATATAA
*
10213572 ATATATATAT
1 ATATATATAA
10213582 AT-TATA-AA
1 ATATATATAA
10213590 ATAT
1 ATAT
10213594 GCGTTGGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 3 0.10
9 5 0.17
10 21 0.72
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (10 bp):
ATATATATAA
Found at i:10213593 original size:12 final size:13
Alignment explanation
Indices: 10213547--10213593 Score: 60
Period size: 14 Copynumber: 3.5 Consensus size: 13
10213537 ATGAAAACAA
10213547 AAAATATATATAT
1 AAAATATATATAT
10213560 -AAATATATATAT
1 AAAATATATATAT
*
10213572 ATATATATATATTAT
1 A-AAATATATA-TAT
10213587 AAAATAT
1 AAAATAT
10213594 GCGTTGGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 12 0.41
14 13 0.45
15 4 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
AAAATATATATAT
Found at i:10215373 original size:23 final size:21
Alignment explanation
Indices: 10215347--10215393 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 21
10215337 GCCCTGGCCC
10215347 AAACCCAAAAATAAACAAAAATA
1 AAACCCAAAAA-AAACAAAAA-A
*
10215370 AAACCCAAAAAAAATAAAAAA
1 AAACCCAAAAAAAACAAAAAA
10215391 AAA
1 AAA
10215394 TAGTCCAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.17
22 8 0.35
23 11 0.48
ACGTcount: A:0.79, C:0.15, G:0.00, T:0.06
Consensus pattern (21 bp):
AAACCCAAAAAAAACAAAAAA
Found at i:10216522 original size:23 final size:23
Alignment explanation
Indices: 10216489--10216694 Score: 145
Period size: 23 Copynumber: 8.9 Consensus size: 23
10216479 AGAAATTGAG
*
10216489 CAGCATGTATATACCAATTTGGA
1 CAGCATATATATACCAATTTGGA
* *
10216512 CAGCACT-TATACACAAAATTT-GA
1 CAGCA-TATATATAC-CAATTTGGA
* * *
10216535 CAGCATGTATATACAAAATTGGA
1 CAGCATATATATACCAATTTGGA
* * *
10216558 CAGCATTTAT-TCACCAAAATTGGG
1 CAGCATATATAT-ACC-AATTTGGA
10216582 CAGCATATATATACCAATTTGGA
1 CAGCATATATATACCAATTTGGA
* *
10216605 CAGCACT-TATACACAAAATTT-GA
1 CAGCA-TATATATAC-CAATTTGGA
* * *
10216628 CAGCATGTATATACAAAATTGGA
1 CAGCATATATATACCAATTTGGA
* * *
10216651 CAGCATTTAT-TCACCAAAATTGGG
1 CAGCATATATAT-ACC-AATTTGGA
10216675 CAGCATATATATACCAATTT
1 CAGCATATATATACCAATTT
10216695 TAGACCATTA
Statistics
Matches: 150, Mismatches: 19, Indels: 28
0.76 0.10 0.14
Matches are distributed among these distances:
22 14 0.09
23 84 0.56
24 50 0.33
25 2 0.01
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (23 bp):
CAGCATATATATACCAATTTGGA
Found at i:10216547 original size:46 final size:47
Alignment explanation
Indices: 10216458--10216694 Score: 291
Period size: 46 Copynumber: 5.1 Consensus size: 47
10216448 ATCTATCCTG
* *
10216458 TTTGGACAGCTCTTATACATCAGAAA-TTGAGCAGCATGTATATACCAA
1 TTTGGACAGCACTTATACACCA-AAATTTGA-CAGCATGTATATACCAA
*
10216506 TTTGGACAGCACTTATACA-CAAAATTTGACAGCATGTATATACAAA
1 TTTGGACAGCACTTATACACCAAAATTTGACAGCATGTATATACCAA
* * * * * *
10216552 ATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCAA
1 TTTGGACAGCACTTATACACCAAAATTTGACAGCATGTATATACCAA
*
10216599 TTTGGACAGCACTTATACA-CAAAATTTGACAGCATGTATATACAAA
1 TTTGGACAGCACTTATACACCAAAATTTGACAGCATGTATATACCAA
* * * * * *
10216645 ATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCAA
1 TTTGGACAGCACTTATACACCAAAATTTGACAGCATGTATATACCAA
10216692 TTT
1 TTT
10216695 TAGACCATTA
Statistics
Matches: 162, Mismatches: 24, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
46 74 0.46
47 70 0.43
48 18 0.11
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.29
Consensus pattern (47 bp):
TTTGGACAGCACTTATACACCAAAATTTGACAGCATGTATATACCAA
Found at i:10216593 original size:93 final size:93
Alignment explanation
Indices: 10216459--10216694 Score: 411
Period size: 93 Copynumber: 2.5 Consensus size: 93
10216449 TCTATCCTGT
* * * *
10216459 TTGGACAGC-TCTTATACATCAGAAATTGAGCAGCATGTATATACCAATTTGGACAGCACTTATA
1 TTGGACAGCAT-TTATTCACCA-AAATTGGGCAGCATATATATACCAATTTGGACAGCACTTATA
10216523 CACAAAATTTGACAGCATGTATATACAAAA
64 CACAAAATTTGACAGCATGTATATACAAAA
10216553 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGACAGCACTTATACA
1 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGACAGCACTTATACA
10216618 CAAAATTTGACAGCATGTATATACAAAA
66 CAAAATTTGACAGCATGTATATACAAAA
10216646 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCAATTT
1 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCAATTT
10216695 TAGACCATTA
Statistics
Matches: 137, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
93 119 0.87
94 17 0.12
95 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (93 bp):
TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGACAGCACTTATACA
CAAAATTTGACAGCATGTATATACAAAA
Found at i:10217417 original size:28 final size:28
Alignment explanation
Indices: 10217385--10217510 Score: 182
Period size: 28 Copynumber: 4.5 Consensus size: 28
10217375 TTTAATAAGT
* * *
10217385 TCGCACACTTAGTG-TTCAATAATCAAAC
1 TCGCACACTTAGTGCTT-TACAATTAAAC
* *
10217413 TCGCACACTTAGTGCTTTGCCATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
10217441 TCGCACACTTAGTGCTTTACAATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
*
10217469 TCGCACACTTAGTGCTTTACAATTAAAT
1 TCGCACACTTAGTGCTTTACAATTAAAC
10217497 TCGCACACTTAGTG
1 TCGCACACTTAGTG
10217511 TCGAAAGTCA
Statistics
Matches: 89, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
28 87 0.98
29 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (28 bp):
TCGCACACTTAGTGCTTTACAATTAAAC
Found at i:10219219 original size:26 final size:26
Alignment explanation
Indices: 10219190--10219263 Score: 73
Period size: 24 Copynumber: 2.9 Consensus size: 26
10219180 TTTTAATTTT
*
10219190 TTTTATTTATCATTTATTTTAAACTG
1 TTTTATATATCATTTATTTTAAACTG
* *
10219216 TTTTACATA-CTATTTA-TTTAAA-TT
1 TTTTATATATC-ATTTATTTTAAACTG
* *
10219240 TTTTATATATGATTCATTTTAAAC
1 TTTTATATATCATTTATTTTAAAC
10219264 CATTATATGT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
24 13 0.34
25 13 0.34
26 12 0.32
ACGTcount: A:0.31, C:0.08, G:0.03, T:0.58
Consensus pattern (26 bp):
TTTTATATATCATTTATTTTAAACTG
Found at i:10231026 original size:24 final size:25
Alignment explanation
Indices: 10230973--10231026 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
10230963 GTTCGAATTT
*
10230973 TATTATCTTAATTTATCAAATTATA
1 TATTATCTTAATTTATCAAATTAAA
* *
10230998 T-TTATTTTAATTTAT-AACTTAAA
1 TATTATCTTAATTTATCAAATTAAA
10231021 TATTAT
1 TATTAT
10231027 ATTGATAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 7 0.28
24 17 0.68
25 1 0.04
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.56
Consensus pattern (25 bp):
TATTATCTTAATTTATCAAATTAAA
Found at i:10236196 original size:13 final size:13
Alignment explanation
Indices: 10236170--10236230 Score: 59
Period size: 13 Copynumber: 4.7 Consensus size: 13
10236160 AGTTCTTCAT
* *
10236170 TGCTTTTAAAAAG
1 TGCTTTTGAGAAG
*
10236183 TACTTTTGAGAAG
1 TGCTTTTGAGAAG
* * *
10236196 TGCTGTGGAAAAG
1 TGCTTTTGAGAAG
10236209 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
*
10236222 TGTTTTTGA
1 TGCTTTTGA
10236231 AAATTTTGAG
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 37 1.00
ACGTcount: A:0.28, C:0.07, G:0.26, T:0.39
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:10236232 original size:26 final size:26
Alignment explanation
Indices: 10236170--10236233 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 26
10236160 AGTTCTTCAT
*
10236170 TGCTTTTAAAAAGTACTTTTGAGAAG
1 TGCTTTTGAAAAGTACTTTTGAGAAG
* * *
10236196 TGCTGTGGAAAAGTGCTTTTGAGAAG
1 TGCTTTTGAAAAGTACTTTTGAGAAG
*
10236222 TGTTTTTGAAAA
1 TGCTTTTGAAAA
10236234 TTTTGAGTGT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (26 bp):
TGCTTTTGAAAAGTACTTTTGAGAAG
Found at i:10236492 original size:24 final size:23
Alignment explanation
Indices: 10236463--10236520 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 23
10236453 TATTTATTAA
10236463 ATTTAATTAGAAT-ATATAAACTAT
1 ATTTAATTAGAATAAT-TAAA-TAT
* *
10236487 ATTTAAATATAATAATTAAATAT
1 ATTTAATTAGAATAATTAAATAT
*
10236510 TTTTAATTAGA
1 ATTTAATTAGA
10236521 TATTGACACA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
23 11 0.39
24 15 0.54
25 2 0.07
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (23 bp):
ATTTAATTAGAATAATTAAATAT
Found at i:10240695 original size:2 final size:2
Alignment explanation
Indices: 10240688--10241478 Score: 1582
Period size: 2 Copynumber: 395.5 Consensus size: 2
10240678 TAGAAGAAAA
10240688 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
10240730 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
10240772 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
10240814 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
10240856 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
10240898 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
10240940 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
10240982 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
10241024 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
10241066 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
10241108 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
10241150 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
10241192 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
10241234 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
10241276 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
10241318 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
10241360 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
10241402 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
10241444 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
10241479 TTTTCTTTGC
Statistics
Matches: 789, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 789 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10243872 original size:19 final size:19
Alignment explanation
Indices: 10243848--10244074 Score: 301
Period size: 19 Copynumber: 11.8 Consensus size: 19
10243838 AATTTTTGAG
*
10243848 GATATGCAATCATAGATAT
1 GATATGCAATCTTAGATAT
**
10243867 GATATGCAATCCAAGATAT
1 GATATGCAATCTTAGATAT
10243886 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
10243907 GATATGCAATCTTAGAGAT
1 GATATGCAATCTTAGATAT
**
10243926 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
10243945 GATATGCAATCTTAGAGAT
1 GATATGCAATCTTAGATAT
**
10243964 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
10243983 GATATGCAATCTTAGAGAT
1 GATATGCAATCTTAGATAT
**
10244002 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
10244021 GATATGCAATCTTAGAGAT
1 GATATGCAATCTTAGATAT
**
10244040 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
10244059 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
10244075 ATATATGATT
Statistics
Matches: 178, Mismatches: 28, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
19 161 0.90
21 17 0.10
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:10243890 original size:38 final size:38
Alignment explanation
Indices: 10243855--10244074 Score: 386
Period size: 38 Copynumber: 5.7 Consensus size: 38
10243845 GAGGATATGC
* ** *
10243855 AATCATAGATATGATATGCAATCCAAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGAGATGATATAT
10243893 GCAATCTTAGATATGATATGCAATCTTAGAGATGATATAT
1 --AATCTTAGATATGATATGCAATCTTAGAGATGATATAT
10243933 AATCTTAGATATGATATGCAATCTTAGAGATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGAGATGATATAT
10243971 AATCTTAGATATGATATGCAATCTTAGAGATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGAGATGATATAT
10244009 AATCTTAGATATGATATGCAATCTTAGAGATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGAGATGATATAT
10244047 AATCTTAGATATGATATGCAATCTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
10244075 ATATATGATT
Statistics
Matches: 176, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
38 142 0.81
40 34 0.19
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.35
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGAGATGATATAT
Found at i:10245121 original size:98 final size:98
Alignment explanation
Indices: 10244988--10245184 Score: 313
Period size: 98 Copynumber: 2.0 Consensus size: 98
10244978 GTAAAAATAA
* * * *
10244988 TAAATGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTAGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
*
10245053 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCCTGGATAAGTGGATGTTCTTTTAAAG
* * *
10245086 TAAAGGAAATATTCCGAGTTTAGGATTCTAGAGGAATCGTGTCCTAATGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTAGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
*
10245151 TTAAATCCTGGATGAGTGGATGTTCTTTTAAAG
66 TTAAATCCTGGATAAGTGGATGTTCTTTTAAAG
10245184 T
1 T
10245185 TTTATTGTAC
Statistics
Matches: 90, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
98 90 1.00
ACGTcount: A:0.28, C:0.10, G:0.24, T:0.38
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTAGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCCTGGATAAGTGGATGTTCTTTTAAAG
Found at i:10249282 original size:12 final size:12
Alignment explanation
Indices: 10249266--10249314 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
10249256 AAATATTTCA
*
10249266 AAAAAAAAAGAGG
1 AAAAAGAAA-AGG
10249279 AAAAAGAAAAGG
1 AAAAAGAAAAGG
*
10249291 AAAAAGGAAAAAAG
1 AAAAA-G-AAAAGG
10249305 AAAAAGAAAA
1 AAAAAGAAAA
10249315 AGTAAAAGGA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 12 0.38
13 10 0.31
14 10 0.31
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAAGG
Found at i:10249287 original size:6 final size:6
Alignment explanation
Indices: 10249278--10249322 Score: 54
Period size: 6 Copynumber: 7.2 Consensus size: 6
10249268 AAAAAAAGAG
* *
10249278 GAAAAA GAAAAG GAAAAA GGAAAAAA GAAAAA GAAAAA GTAAAA G
1 GAAAAA GAAAAA GAAAAA -G-AAAAA GAAAAA GAAAAA GAAAAA G
10249323 GAGAAGCCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
6 27 0.79
7 2 0.06
8 5 0.15
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (6 bp):
GAAAAA
Found at i:10249294 original size:20 final size:20
Alignment explanation
Indices: 10249265--10249321 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
10249255 AAAATATTTC
*
10249265 AAAAA-AAAAAGAGGAAAAAG
1 AAAAAGAAAAAG-GAAAAAAG
*
10249285 AAAAGGAAAAAGGAAAAAAG
1 AAAAAGAAAAAGGAAAAAAG
*
10249305 AAAAAGAAAAAGTAAAA
1 AAAAAGAAAAAGGAAAA
10249322 GGAGAAGCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 26 0.81
21 6 0.19
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (20 bp):
AAAAAGAAAAAGGAAAAAAG
Found at i:10249297 original size:7 final size:7
Alignment explanation
Indices: 10249271--10249321 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
10249261 TTTCAAAAAA
10249271 AAAAGAGG
1 AAAA-AGG
10249279 AAAAA-G
1 AAAAAGG
10249285 -AAAAGG
1 AAAAAGG
10249291 AAAAAGG
1 AAAAAGG
*
10249298 AAAAAAG
1 AAAAAGG
10249305 AAAAA-G
1 AAAAAGG
*
10249311 AAAAAGT
1 AAAAAGG
10249318 AAAA
1 AAAA
10249322 GGAGAAGCCA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
5 4 0.11
6 8 0.21
7 22 0.58
8 4 0.11
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (7 bp):
AAAAAGG
Found at i:10250721 original size:44 final size:44
Alignment explanation
Indices: 10250541--10250899 Score: 168
Period size: 44 Copynumber: 8.2 Consensus size: 44
10250531 AAAATTGTAG
* * * *
10250541 ATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGACGGTGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCGA
** * * * *
10250585 ATCTTATCTTTCGAAG-A-TAGTGGGAAGCAGATTTAAGCCA-CCA
1 ATCTTATCTCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACAGCGA
* * * * * * * ** *
10250628 AGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTG-TA
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCGA
*
10250672 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCGA
* * * *
10250717 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACCGA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACAGCGA
* * * *
10250761 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCA-CCA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACAGCGA
* * * * * * **
10250804 AGCCTTGTCTCCCTGAGCAGTAGCGGAGAAGGTTGAA-A-ATTGTA
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCG-A
*
10250848 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCGA
10250893 ATCTTAT
1 ATCTTAT
10250900 ATTTCCAAGA
Statistics
Matches: 233, Mismatches: 62, Indels: 40
0.70 0.19 0.12
Matches are distributed among these distances:
42 9 0.04
43 14 0.06
44 190 0.82
45 14 0.06
46 6 0.03
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCGA
Found at i:10250815 original size:132 final size:131
Alignment explanation
Indices: 10250679--10251189 Score: 525
Period size: 132 Copynumber: 3.9 Consensus size: 131
10250669 GTAGATCTTA
* * * *
10250679 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCG-A-ATCTTATCTTTCC-AAGATAGTGGG
1 TCTCCCTAAGCAGTAGCGGAGAAGATCGAA-A-AGTGTAGATCTTATC-TCCCTAAGATAGTGGG
*
10250741 AAGCAGATTTAAGCCACCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAG
63 -AGCAGATTGAAGCCACCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAG
10250806 CCTTG
127 CCTTG
* * * *
10250811 TCTCCCTGAGCAGTAGCGGAGAAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGT-GGA
1 TCTCCCTAAGCAGTAGCGGAGAAGATCGAAAAGTGTAGATCTTATCTCCCTAAG-A-TAGTGGGA
* ** *
10250875 GCAGATTGAAGACGGCGAATCTTATATTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCC
64 GCAGATTGAAGCCACCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCC
10250940 TTG
129 TTG
* * * * *
10250943 TCTCCCTGAGCAGCAGCGGAGAAGGTTGAAAATTGTAGATCTTATCTCCCTAAG-TAGTAGTGGA
1 TCTCCCTAAGCAGTAGCGGAGAAGATCGAAAAGTGTAGATCTTATCTCCCTAAGATAGT-G-GGA
* * ** *
10251007 GCATATCGAAGATGA-CAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGC
64 GCAGATTGAAG-CCACCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGC
10251071 CTTG
128 CTTG
* * * * * * * * *
10251075 TTTTCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT-GGA
1 TCTCCCTAAGCAGTAGCGGAGAAGATCGAAAAGTGTAGATCTTATCTCCCTAAG-A-TAGTGGGA
* ** * *
10251139 GCAGATCGAAGATGA-CAAATCATATCTTTCCAAGATAGTGGGAAGCAGATT
64 GCAGATTGAAG-CCACCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATT
10251190 AAAGTGGACA
Statistics
Matches: 340, Mismatches: 27, Indels: 24
0.87 0.07 0.06
Matches are distributed among these distances:
129 4 0.01
130 2 0.01
131 5 0.01
132 318 0.94
133 3 0.01
134 4 0.01
135 4 0.01
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.25
Consensus pattern (131 bp):
TCTCCCTAAGCAGTAGCGGAGAAGATCGAAAAGTGTAGATCTTATCTCCCTAAGATAGTGGGAGC
AGATTGAAGCCACCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTT
G
Found at i:10250835 original size:176 final size:176
Alignment explanation
Indices: 10250583--10250934 Score: 650
Period size: 176 Copynumber: 2.0 Consensus size: 176
10250573 CGAAGACGGT
*
10250583 GAATCTTATCTTTCGAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAG
1 GAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAG
*
10250648 CAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACA
66 CAGCGGAGAAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACA
*
10250713 GCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACC
131 GCGAATCTTATATTTCCAAGATAGTGGGAAGCAGATTTAAGCCACC
10250759 GAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAG
1 GAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAG
* * *
10250824 TAGCGGAGAAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACG
66 CAGCGGAGAAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACA
10250889 GCGAATCTTATATTTCCAAGATAGTGGGAAGCAGATTTAAGCCACC
131 GCGAATCTTATATTTCCAAGATAGTGGGAAGCAGATTTAAGCCACC
10250935 AAGCCTTGTC
Statistics
Matches: 170, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
176 170 1.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (176 bp):
GAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAG
CAGCGGAGAAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACA
GCGAATCTTATATTTCCAAGATAGTGGGAAGCAGATTTAAGCCACC
Found at i:10251259 original size:44 final size:44
Alignment explanation
Indices: 10251204--10251839 Score: 316
Period size: 44 Copynumber: 14.7 Consensus size: 44
10251194 TGGACAATCA
*
10251204 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCATAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCATAGATCT
* * ***
10251248 TATC-CCTCTGAAGTTGCAG-AGAGTAGA-TCGCATC-TAG-TCT
1 TATCTCC-CTGAAGTTGCAGTGGAGCAGATTAAAATCATAGATCT
* *
10251288 TATCTCCCTGAAGTTGC-GATGGA-CAAGACTAAGTAAGCA-AG-TCT
1 TATCTCCCTGAAGTTGCAG-TGGAGC-AGATTAA--AATCATAGATCT
* * * * * *
10251332 TATC-CTCCTGAAGTTACAGT-GAGGCAGACTGAAGATGACAAATCT
1 TATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAAAATCATAGATCT
* * * *
10251377 TATCTTCCTGAAGTTGCAGTGAAGCAGATT-AAATCCGACA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAT-C-ATAGATCT
* * * *
10251421 TATCTCCCTGAAGTTGCAGTGGAGCGGAATAAAATTACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCATAGATCT
* * * ***
10251465 TATCTCTCTGAAGTTACAG-AGAGCAGA-TCGCATC-TAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCATAGATCT
* * *
10251505 TATCTCCCTGAAGTTGCGGTGGA-CAAGACTAAGTATGCA-AG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGC-AGATTAA-AAT-CATAGATCT
* * *
10251549 TATCT-CCTGAAGTTACAGT-GAGGCAGACTGAAGATGGCA-A-ATCT
1 TATCTCCCTGAAGTTGCAGTGGA-GCAGA-TTAAAAT--CATAGATCT
* * *
10251593 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTGATA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-ATCATAGATCT
* * *
10251637 TATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAATCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCATAGATCT
* * * * * *
10251681 TCTCTCTCTAAAGTTGCAG-AGAGCAGA-TCACATC-TAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCATAGATCT
* * * *
10251721 TATCTCCCTAAAGTTGCAGTGGAGTAGACTAAGGAAGCA-AG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AATCATAGATCT
* * *
10251765 TATC-CTCCTGAAGTTGCAGT-GAGGAAGACTGAAGATGGCA-AG-TCT
1 TATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAAAAT--CATAGATCT
*
10251810 TATCTCCCTGAAGTTGCAGTGGAGTAGATT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATT
10251840 GAAGCACTAA
Statistics
Matches: 455, Mismatches: 87, Indels: 100
0.71 0.14 0.16
Matches are distributed among these distances:
39 1 0.00
40 57 0.13
41 25 0.05
42 18 0.04
43 58 0.13
44 204 0.45
45 86 0.19
46 6 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCATAGATCT
Found at i:10251650 original size:172 final size:174
Alignment explanation
Indices: 10251327--10251661 Score: 391
Period size: 172 Copynumber: 1.9 Consensus size: 174
10251317 TAAGTAAGCA
*
10251327 AGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGACAAATCTTATCTTCCTGAAGTT
1 AGTCTTATCCTCCTGAAGTTACAGTGAGACAGACTGAAGATGACAAATCTTATCTTCCTGAAGTT
* * * *
10251392 GCAGTGAAGCAGATTAAATCCGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGAATAAAATT
66 ACAGTGAAGCAGATGAAATCCGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGAATAAAATG
* *
10251457 ACAGATCTTATCTCTCTGAAGTTACAG-AGAGCAGATCGCATCT
131 ACAGATCCTATCTCCCTGAAGTTACAGTAGAGCAGATCGCATCT
* * *
10251500 AGTCTTAT-CTCCCTGAAGTTGCGGTG-GACAAGACT-AAGTATG-CAAGTCTTATC-TCCTGAA
1 AGTCTTATCCT-CCTGAAGTTACAGTGAGAC-AGACTGAAG-ATGACAAATCTTATCTTCCTGAA
* * * *
10251560 GTTACAGTGAGGCAGACTGAAGAT--GGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
63 GTTACAGTGAAGCAGA-TGAA-ATCCGAC-AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGAAT
* * *
10251623 AAAGCTGATA-ATCCTATCTCCCTGAAGTTGCAGTAGAGC
125 AAA-ATGACAGATCCTATCTCCCTGAAGTTACAGTAGAGC
10251662 GGATTAAAAT
Statistics
Matches: 137, Mismatches: 17, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
171 23 0.17
172 75 0.55
173 39 0.28
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (174 bp):
AGTCTTATCCTCCTGAAGTTACAGTGAGACAGACTGAAGATGACAAATCTTATCTTCCTGAAGTT
ACAGTGAAGCAGATGAAATCCGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGAATAAAATG
ACAGATCCTATCTCCCTGAAGTTACAGTAGAGCAGATCGCATCT
Found at i:10251679 original size:216 final size:217
Alignment explanation
Indices: 10251182--10251844 Score: 1042
Period size: 217 Copynumber: 3.1 Consensus size: 217
10251172 GATAGTGGGA
* *
10251182 AGCAGATTAAAG-TGGACAATCATATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCATAGAT
1 AGCAGATTAAAGCT-GACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGAT
* * *
10251246 CTTATCCCTCTGAAGTTGCAGAGAGTAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCGATGGA
65 CTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCGGTGGA
*
10251311 CAAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGACAAATC
130 CAAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGGCAAATC
* *
10251376 TTATCTTCCTGAAGTTGCAGTGA
195 TTATCTCCCTGAAGTTGCAGTGG
* * * *
10251399 AGCAGATTAAATCCGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGAATAAAATTACAGATC
1 AGCAGATTAAAGCTGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATC
*
10251464 TTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCGGTGGAC
66 TTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCGGTGGAC
*
10251529 AAGACTAAGTATGCAAGTCTTAT-CTCCTGAAGTTACAGTGAGGCAGACTGAAGATGGCAAATCT
131 AAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGGCAAATCT
10251593 TATCTCCCTGAAGTTGCAGTGG
196 TATCTCCCTGAAGTTGCAGTGG
* *
10251615 AGCAGATTAAAGCTGATAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAATCACAGATC
1 AGCAGATTAAAGCTGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATC
* * * * * *
10251680 TTCTCTCTCTAAAGTTGCAGAGAGCAGATCACATCTAGTCTTATCTCCCTAAAGTTGCAGTGGAG
66 TTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCGGTGGAC
* * * * *
10251745 TAGACTAAGGAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGAAGACTGAAGATGGCAAGTCT
131 AAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGGCAAATCT
10251810 TATCTCCCTGAAGTTGCAGTGG
196 TATCTCCCTGAAGTTGCAGTGG
* *
10251832 AGTAGATTGAAGC
1 AGCAGATTAAAGC
10251845 ACTAATTCCT
Statistics
Matches: 409, Mismatches: 35, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
216 197 0.48
217 212 0.52
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (217 bp):
AGCAGATTAAAGCTGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATC
TTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCGGTGGAC
AAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGGCAAATCT
TATCTCCCTGAAGTTGCAGTGG
Found at i:10252073 original size:51 final size:51
Alignment explanation
Indices: 10251997--10252098 Score: 186
Period size: 51 Copynumber: 2.0 Consensus size: 51
10251987 ATGGGCAGCT
*
10251997 GTAATACCCAATTTTAGCCTGGGCTCACATATGGAAACATAATTTTTGAGG
1 GTAATACCCAATTTTAGCCCGGGCTCACATATGGAAACATAATTTTTGAGG
*
10252048 GTAATACCCAATTTTAGCCCGGGCTCACATATGGAAATATAATTTTTGAGG
1 GTAATACCCAATTTTAGCCCGGGCTCACATATGGAAACATAATTTTTGAGG
10252099 ATATGCAATC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (51 bp):
GTAATACCCAATTTTAGCCCGGGCTCACATATGGAAACATAATTTTTGAGG
Found at i:10252122 original size:19 final size:19
Alignment explanation
Indices: 10252098--10252172 Score: 98
Period size: 19 Copynumber: 3.8 Consensus size: 19
10252088 AATTTTTGAG
10252098 GATATGCAATCATAGATAT
1 GATATGCAATCATAGATAT
10252117 GATATGCAATCCA-AGATAT
1 GATATGCAAT-CATAGATAT
*
10252136 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCATAGATAT
*
10252157 GATATGCAATCTTAGA
1 GATATGCAATCATAGA
10252173 ATATATGATT
Statistics
Matches: 51, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
19 32 0.63
20 3 0.06
21 16 0.31
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (19 bp):
GATATGCAATCATAGATAT
Found at i:10252144 original size:21 final size:21
Alignment explanation
Indices: 10252099--10252161 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 21
10252089 ATTTTTGAGG
10252099 ATATGCAAT-CATAGATATG--
1 ATATGCAATCCA-AGATATGAT
10252118 ATATGCAATCCAAGATATGAT
1 ATATGCAATCCAAGATATGAT
**
10252139 ATATGCAATCTTAGATATGAT
1 ATATGCAATCCAAGATATGAT
10252160 AT
1 AT
10252162 GCAATCTTAG
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
19 16 0.41
20 2 0.05
21 21 0.54
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.33
Consensus pattern (21 bp):
ATATGCAATCCAAGATATGAT
Found at i:10254540 original size:13 final size:13
Alignment explanation
Indices: 10254524--10254553 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
10254514 ATTGTCATGT
10254524 AATTGTTTTTCTG
1 AATTGTTTTTCTG
10254537 AATTGTTTTTCTG
1 AATTGTTTTTCTG
10254550 AATT
1 AATT
10254554 TAGCTTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.20, C:0.07, G:0.13, T:0.60
Consensus pattern (13 bp):
AATTGTTTTTCTG
Found at i:10255397 original size:16 final size:16
Alignment explanation
Indices: 10255376--10255417 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
10255366 TTATTAAATT
*
10255376 ATATATTTTAATTATA
1 ATATATTTTAATAATA
10255392 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
10255407 AT-TATGTTTAA
1 ATATAT-TTTAA
10255418 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:10255402 original size:15 final size:15
Alignment explanation
Indices: 10255367--10255408 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
10255357 TTAAGAATTT
*
10255367 TATTAAATTAT-ATA
1 TATTTAATTATAATA
10255381 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
10255395 TATTTAATAATAAT
1 TATTTAATTATAAT
10255409 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:10255657 original size:16 final size:16
Alignment explanation
Indices: 10255636--10255671 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
10255626 GATTTGCTAT
10255636 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
10255652 TACACCTTTAATCCAA
1 TACACCTCTAATCCAA
10255668 TACA
1 TACA
10255672 GCGAACCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.33, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:10259148 original size:33 final size:32
Alignment explanation
Indices: 10259106--10259185 Score: 106
Period size: 33 Copynumber: 2.5 Consensus size: 32
10259096 TGTGGCCGTG
* *
10259106 TGGGCCACACGGGCTAGGCCAAGTTGGGCGTA
1 TGGGCCACACGGGCAAGGCCAAGTTGGACGTA
* *
10259138 TGGGCCCACACGGGCAAGGCCAATTTGGACGTG
1 TGGG-CCACACGGGCAAGGCCAAGTTGGACGTA
*
10259171 TGGGCCATACGGGCA
1 TGGGCCACACGGGCA
10259186 TGTGGGCCCA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
32 14 0.33
33 28 0.67
ACGTcount: A:0.20, C:0.26, G:0.39, T:0.15
Consensus pattern (32 bp):
TGGGCCACACGGGCAAGGCCAAGTTGGACGTA
Found at i:10261136 original size:17 final size:17
Alignment explanation
Indices: 10261114--10261149 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
10261104 CGCAAATTGT
10261114 AAAGCTGGACAGCTAGG
1 AAAGCTGGACAGCTAGG
10261131 AAAGCTGGACAGCTAGG
1 AAAGCTGGACAGCTAGG
10261148 AA
1 AA
10261150 GCTATCCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.39, C:0.17, G:0.33, T:0.11
Consensus pattern (17 bp):
AAAGCTGGACAGCTAGG
Found at i:10270358 original size:16 final size:16
Alignment explanation
Indices: 10270347--10270408 Score: 90
Period size: 16 Copynumber: 3.9 Consensus size: 16
10270337 TGTATTGGAT
*
10270347 TAGAGGTGTATTA-AA
1 TAGAGGTGTAATAGAA
10270362 TTAGAGGTGTAATAGAA
1 -TAGAGGTGTAATAGAA
*
10270379 TAGAGGTGTAATGGAA
1 TAGAGGTGTAATAGAA
10270395 TAGAGGTGTAATAG
1 TAGAGGTGTAATAG
10270409 CAAATCAACT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
16 40 0.95
17 2 0.05
ACGTcount: A:0.39, C:0.00, G:0.32, T:0.29
Consensus pattern (16 bp):
TAGAGGTGTAATAGAA
Done.