Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 115 of 163
Found at i:37070187 original size:24 final size:24
Alignment explanation
Indices: 37070143--37070208 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 24
37070133 AAATTAAATC
*
37070143 TCTAAGATTACA-AAATCATATCT
1 TCTAAGATTGCATAAATCATATCT
37070166 TCTAAGATTGCATAAATCATA---
1 TCTAAGATTGCATAAATCATATCT
37070187 TCTAAGATTGCAT--ATCATATCT
1 TCTAAGATTGCATAAATCATATCT
37070209 AAGATTACAT
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
19 6 0.16
21 13 0.34
23 11 0.29
24 8 0.21
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (24 bp):
TCTAAGATTGCATAAATCATATCT
Found at i:37070192 original size:21 final size:21
Alignment explanation
Indices: 37070143--37070219 Score: 88
Period size: 19 Copynumber: 3.7 Consensus size: 21
37070133 AAATTAAATC
37070143 TCTAAGATTACA-AAATCATA
1 TCTAAGATTACATAAATCATA
*
37070163 TCTTCTAAGATTGCATAAATCATA
1 ---TCTAAGATTACATAAATCATA
*
37070187 TCTAAGATTGCAT--ATCATA
1 TCTAAGATTACATAAATCATA
37070206 TCTAAGATTACATA
1 TCTAAGATTACATA
37070220 TCCTTGAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
19 18 0.36
21 13 0.26
23 11 0.22
24 8 0.16
ACGTcount: A:0.42, C:0.16, G:0.08, T:0.35
Consensus pattern (21 bp):
TCTAAGATTACATAAATCATA
Found at i:37075031 original size:1 final size:1
Alignment explanation
Indices: 37075025--37075056 Score: 64
Period size: 1 Copynumber: 32.0 Consensus size: 1
37075015 GGCTCTCGCC
37075025 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
37075057 CAAACACCGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:37091585 original size:3 final size:3
Alignment explanation
Indices: 37091577--37091601 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
37091567 CGGCTGGAGT
37091577 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
37091602 GAGATAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:37099481 original size:24 final size:25
Alignment explanation
Indices: 37099435--37099482 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
37099425 TATATTAGGC
* *
37099435 ATTAAAATATTTTTAATAATATTAT
1 ATTAAAATATATTAAATAATATTAT
*
37099460 ATTAAAAT-TATTAAATATTATTA
1 ATTAAAATATATTAAATAATATTA
37099483 ATAATTATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
ATTAAAATATATTAAATAATATTAT
Found at i:37117104 original size:49 final size:50
Alignment explanation
Indices: 37116954--37117139 Score: 152
Period size: 49 Copynumber: 3.8 Consensus size: 50
37116944 AGCTCTTCCT
*** * * *
37116954 AGCCATATAACGGG-AGCTCATTTGAGCCATTTAA-CGGGAAGCTCATGTA
1 AGCCATATAACGGGAAGCTCAAGAGAGCCA-TTAATGGGGAAGCTCATATG
* **
37117003 AGCCA-ATATCGGGAAGCTCCAA-AGAGCCAATT-ATTAGGAAGCTCATATG
1 AGCCATATAACGGGAAGCT-CAAGAGAGCC-ATTAATGGGGAAGCTCATATG
*
37117052 AGCCATA-AACGGGAAGCTCAAGAGAGCCATTAATGGGGAAGCTCGTGA-G
1 AGCCATATAACGGGAAGCTCAAGAGAGCCATTAATGGGGAAGCTCAT-ATG
* * * *
37117101 AGCCATATAACGAGATGCTCATGAGAGCTAATTAATGGG
1 AGCCATATAACGGGAAGCTCAAGAGAGC-CATTAATGGG
37117140 ACGCTCTTGT
Statistics
Matches: 112, Mismatches: 15, Indels: 18
0.77 0.10 0.12
Matches are distributed among these distances:
48 14 0.12
49 67 0.60
50 22 0.20
51 9 0.08
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.20
Consensus pattern (50 bp):
AGCCATATAACGGGAAGCTCAAGAGAGCCATTAATGGGGAAGCTCATATG
Found at i:37117125 original size:25 final size:25
Alignment explanation
Indices: 37116954--37117128 Score: 134
Period size: 25 Copynumber: 7.1 Consensus size: 25
37116944 AGCTCTTCCT
**
37116954 AGCCATATAACGGG-AGCTCATTTG
1 AGCCATATAACGGGAAGCTCATGAG
*
37116978 AGCCATTTAACGGGAAGCTCATGTA-
1 AGCCATATAACGGGAAGCTCATG-AG
* *
37117003 AGCCA-ATATCGGGAAGCTCCA-AAG
1 AGCCATATAACGGGAAGCT-CATGAG
*
37117027 AGCCAATTATTA--GGAAGCTCAT-ATG
1 AGCC-A-TATAACGGGAAGCTCATGA-G
*
37117052 AGCCATA-AACGGGAAGCTCAAGAG
1 AGCCATATAACGGGAAGCTCATGAG
* *
37117076 AGCCAT-TAATGGGGAAGCTCGTGAG
1 AGCCATATAA-CGGGAAGCTCATGAG
* *
37117101 AGCCATATAACGAGATGCTCATGAG
1 AGCCATATAACGGGAAGCTCATGAG
37117126 AGC
1 AGC
37117129 TAATTAATGG
Statistics
Matches: 119, Mismatches: 17, Indels: 29
0.72 0.10 0.18
Matches are distributed among these distances:
22 1 0.01
23 3 0.03
24 50 0.42
25 60 0.50
26 3 0.03
27 2 0.02
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.19
Consensus pattern (25 bp):
AGCCATATAACGGGAAGCTCATGAG
Found at i:37131944 original size:17 final size:19
Alignment explanation
Indices: 37131922--37131958 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
37131912 AAGCAAAAGA
37131922 ATTTC-ATATTA-TGAGAT
1 ATTTCAATATTAGTGAGAT
*
37131939 ATTTCAATTTTAGTGAGAT
1 ATTTCAATATTAGTGAGAT
37131958 A
1 A
37131959 GGGTTAGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 5 0.29
18 5 0.29
19 7 0.41
ACGTcount: A:0.35, C:0.05, G:0.14, T:0.46
Consensus pattern (19 bp):
ATTTCAATATTAGTGAGAT
Found at i:37133016 original size:6 final size:6
Alignment explanation
Indices: 37133005--37133033 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
37132995 CCCAAACTGG
37133005 ACTGAT ACTGAT ACTGAT ACTGAT ACTGA
1 ACTGAT ACTGAT ACTGAT ACTGAT ACTGA
37133034 AAAGGACTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (6 bp):
ACTGAT
Found at i:37138899 original size:28 final size:28
Alignment explanation
Indices: 37138867--37138923 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
37138857 TAGCATCTCT
*
37138867 TAAATCATACCTTTCATATTTATGAATA
1 TAAATCATACATTTCATATTTATGAATA
*
37138895 TAAATCATACATTTCATGTTTATGAATA
1 TAAATCATACATTTCATATTTATGAATA
37138923 T
1 T
37138924 TCATACTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.44
Consensus pattern (28 bp):
TAAATCATACATTTCATATTTATGAATA
Found at i:37139078 original size:33 final size:33
Alignment explanation
Indices: 37139041--37139118 Score: 77
Period size: 33 Copynumber: 2.4 Consensus size: 33
37139031 TGGCCCTGTC
** * * *
37139041 ATGGTCTTACATTCGTACTGCCATAACCCAGTT
1 ATGGTCTTACATTCAAAATACCATAACCCAGCT
* *
37139074 ATGGTTTTATCA-TCAAAATACCATAGCCCAGCT
1 ATGGTCTTA-CATTCAAAATACCATAACCCAGCT
37139107 ATGGTCTTACAT
1 ATGGTCTTACAT
37139119 ATAAACACTG
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
32 2 0.06
33 31 0.89
34 2 0.06
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.33
Consensus pattern (33 bp):
ATGGTCTTACATTCAAAATACCATAACCCAGCT
Found at i:37139168 original size:101 final size:101
Alignment explanation
Indices: 37139059--37139254 Score: 311
Period size: 101 Copynumber: 1.9 Consensus size: 101
37139049 ACATTCGTAC
*
37139059 TGCCATAACCCAGTTATGGTTTTATCATCAAAATACCATAGCCCAGCTATGGTCTTACATATAAA
1 TGCCATAACCCAGTTATGGTCTTATCATCAAAATACCATAGCCCAGCTATGGTCTTACATATAAA
*
37139124 CACTGCCATGGTCGAACCATGGTCTTACGTCTATAG
66 CACTGCCATGGTCCAACCATGGTCTTACGTCTATAG
* * * * * * *
37139160 TGCCATAACCTAGTTATGGTCTTATCATTAGAATGCCATATCCTAGCTATGGTTTTACATATAAA
1 TGCCATAACCCAGTTATGGTCTTATCATCAAAATACCATAGCCCAGCTATGGTCTTACATATAAA
37139225 CACTGCCATGGTCCAACCATGGTCTTACGT
66 CACTGCCATGGTCCAACCATGGTCTTACGT
37139255 GTGAATGCAA
Statistics
Matches: 86, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 86 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.32
Consensus pattern (101 bp):
TGCCATAACCCAGTTATGGTCTTATCATCAAAATACCATAGCCCAGCTATGGTCTTACATATAAA
CACTGCCATGGTCCAACCATGGTCTTACGTCTATAG
Found at i:37146590 original size:73 final size:72
Alignment explanation
Indices: 37146506--37146687 Score: 197
Period size: 73 Copynumber: 2.5 Consensus size: 72
37146496 TATTGTAACA
* * * *
37146506 ATTTAATTTTGTTACAATTACTTATGATTTTCGTGTAAAAAAATTGGTCACA-AACAAATTT-AA
1 ATTTAA-TTTGTCACAATTACTTACGATTTTAGTGTAAAAAAATTAG-C-CATAA-AAATTTGAA
*
37146569 TAACTGTGCCC
62 TAACTGTGACC
* * * *
37146580 ATTTAATTTGTCACAATTGCTTACGATTTTAGTGTACAAAACTTAGCCATAAAAATTTGAATAAT
1 ATTTAATTTGTCACAATTACTTACGATTTTAGTGTAAAAAAATTAGCCATAAAAATTTGAATAAC
37146645 TGTGACC
66 TGTGACC
* * *
37146652 ATTTAATTTCGACATAATTACTTACAATTTTAGTGT
1 ATTTAATTT-GTCACAATTACTTACGATTTTAGTGT
37146688 TCGACATTTT
Statistics
Matches: 92, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
71 8 0.09
72 23 0.25
73 55 0.60
74 6 0.07
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (72 bp):
ATTTAATTTGTCACAATTACTTACGATTTTAGTGTAAAAAAATTAGCCATAAAAATTTGAATAAC
TGTGACC
Found at i:37150908 original size:17 final size:17
Alignment explanation
Indices: 37150886--37150925 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
37150876 AACTCCAACA
37150886 AGCTTCTGACCCAATCG
1 AGCTTCTGACCCAATCG
*
37150903 AGCTTCTGACTCAATCG
1 AGCTTCTGACCCAATCG
37150920 AGCTTC
1 AGCTTC
37150926 CGATAATCTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.23, C:0.33, G:0.17, T:0.28
Consensus pattern (17 bp):
AGCTTCTGACCCAATCG
Found at i:37152097 original size:101 final size:101
Alignment explanation
Indices: 37151858--37152097 Score: 338
Period size: 101 Copynumber: 2.4 Consensus size: 101
37151848 AATTCATCCT
* * * *
37151858 TTACATTCGTAGTGCCATAACTCATTTATGGTCTTATCATCAAAATGCCATAGCCCAGCTATGAT
1 TTACGTTCATAGTGCCATAACCCAATTATGGTCTTATCATCAAAATGCCATAGCCCAGCTATGAT
*
37151923 CTTACATATAAACACTGCTATGGTCCAACCATGGTC
66 CTTACATATAAACACTGCTATAGTCCAACCATGGTC
* * * * *
37151959 TTACGTTCATAGTGCCACAACCCAGTTATGGTATTATCATCAGAATGCCATAGCCCAGCTATGGT
1 TTACGTTCATAGTGCCATAACCCAATTATGGTCTTATCATCAAAATGCCATAGCCCAGCTATGAT
*
37152024 CTTACATATAAACACTG-TCATAGTCTAACCATGGTC
66 CTTACATATAAACACTGCT-ATAGTCCAACCATGGTC
** *
37152060 TTACGTTCATAGTGTTATAACCCAATTATGATCTTATC
1 TTACGTTCATAGTGCCATAACCCAATTATGGTCTTATC
37152098 CGTCAATTCA
Statistics
Matches: 122, Mismatches: 16, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
100 1 0.01
101 121 0.99
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.33
Consensus pattern (101 bp):
TTACGTTCATAGTGCCATAACCCAATTATGGTCTTATCATCAAAATGCCATAGCCCAGCTATGAT
CTTACATATAAACACTGCTATAGTCCAACCATGGTC
Found at i:37152823 original size:13 final size:13
Alignment explanation
Indices: 37152805--37152830 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37152795 ATATTTTTAC
37152805 AAAATTTCCCTTT
1 AAAATTTCCCTTT
37152818 AAAATTTCCCTTT
1 AAAATTTCCCTTT
37152831 TATTCAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (13 bp):
AAAATTTCCCTTT
Found at i:37158256 original size:17 final size:17
Alignment explanation
Indices: 37158236--37158270 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
37158226 TTAAAATTAT
37158236 TAAATA-TTAAAATAAAA
1 TAAATATTTAAAA-AAAA
37158253 TAAATATTTAAAAAAAA
1 TAAATATTTAAAAAAAA
37158270 T
1 T
37158271 TAAAATATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
TAAATATTTAAAAAAAA
Found at i:37158274 original size:18 final size:18
Alignment explanation
Indices: 37158234--37158274 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
37158224 GTTTAAAATT
37158234 ATTAAATATTAAAATAAA
1 ATTAAATATTAAAATAAA
37158252 A-TAAATATTTAAAA-AAA
1 ATTAAATA-TTAAAATAAA
37158269 ATTAAA
1 ATTAAA
37158275 ATATAATATG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
ATTAAATATTAAAATAAA
Found at i:37162666 original size:14 final size:14
Alignment explanation
Indices: 37162647--37162674 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
37162637 CAGATTATCA
37162647 CATATTTCATTTTT
1 CATATTTCATTTTT
37162661 CATATTTCATTTTT
1 CATATTTCATTTTT
37162675 TTTACTATAT
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:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (14 bp):
CATATTTCATTTTT
Found at i:37164114 original size:30 final size:29
Alignment explanation
Indices: 37164076--37164183 Score: 87
Period size: 29 Copynumber: 3.7 Consensus size: 29
37164066 TTAATTAATT
*
37164076 TTTTAAAATTTAAAAATTA-TAAAAACTA
1 TTTTAAAAATTAAAAATTACTAAAAACTA
* * *
37164104 TTTCTAAAAATTAAAAATCATTTAAAACTA
1 TTT-TAAAAATTAAAAATTACTAAAAACTA
* *
37164134 --TTAAAAATTATAAAAATTACAAATAAAATA
1 TTTTAAAAA-T-TAAAAATTACTAA-AAACTA
*
37164164 TTTTTAAATATTAAAAATTA
1 -TTTTAAAAATTAAAAATTA
37164184 ATTAAATGCT
Statistics
Matches: 63, Mismatches: 9, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
27 6 0.10
28 5 0.08
29 23 0.37
30 13 0.21
31 9 0.14
32 1 0.02
33 6 0.10
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (29 bp):
TTTTAAAAATTAAAAATTACTAAAAACTA
Found at i:37164996 original size:28 final size:26
Alignment explanation
Indices: 37164965--37165019 Score: 76
Period size: 25 Copynumber: 2.0 Consensus size: 26
37164955 AATACTTTAA
37164965 AATATATTAAAATTCATAATAAATA-AAT
1 AATATA-TAAAA-TC-TAATAAATACAAT
37164993 AATATATAAAATCTAATAAATACAAT
1 AATATATAAAATCTAATAAATACAAT
37165019 A
1 A
37165020 TTGGGCTCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
25 9 0.35
26 6 0.23
27 5 0.19
28 6 0.23
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (26 bp):
AATATATAAAATCTAATAAATACAAT
Found at i:37165381 original size:21 final size:23
Alignment explanation
Indices: 37165348--37165390 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 23
37165338 TTTGTGCATG
37165348 TATCAATCTTCT-A-CCTTCACA
1 TATCAATCTTCTAAGCCTTCACA
37165369 TATCATATC-TCTAAGCCTTCAC
1 TATCA-ATCTTCTAAGCCTTCAC
37165391 TCTCTCACCA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 8 0.42
22 4 0.21
23 7 0.37
ACGTcount: A:0.28, C:0.33, G:0.02, T:0.37
Consensus pattern (23 bp):
TATCAATCTTCTAAGCCTTCACA
Found at i:37165530 original size:14 final size:13
Alignment explanation
Indices: 37165511--37165544 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
37165501 AAAACCTTAA
37165511 CTTTTTTTGTTTTC
1 CTTTTTTT-TTTTC
37165525 CTTTTTTTTTTTC
1 CTTTTTTTTTTTC
*
37165538 ATTTTTT
1 CTTTTTT
37165545 GAAAGGTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.03, C:0.12, G:0.03, T:0.82
Consensus pattern (13 bp):
CTTTTTTTTTTTC
Found at i:37173567 original size:1 final size:1
Alignment explanation
Indices: 37173561--37173586 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
37173551 NNNNNNNNNN
37173561 CCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCC
37173587 TCTTCCTCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:37178392 original size:103 final size:103
Alignment explanation
Indices: 37178275--37178497 Score: 322
Period size: 103 Copynumber: 2.2 Consensus size: 103
37178265 AAGTATTTTT
* * * *
37178275 TTTATATAACTATTAACAGTAAATAGTTTATTTATCAAAATATCATTATCAACATTAAATATAAA
1 TTTATGTAAATATTAACAGTAAATAATTTATTTATCAAAATATCATTATCAACACTAAATATAAA
** *
37178340 ATTAAAATATACTATCTGTTTTTGTACTCTATATTAAA
66 ATTAAAATATACTATCCATTTTTATACTCTATATTAAA
* * *
37178378 TTTATGTAAATATTAACAGTAAATAATTTATTTATCAAAATATCATTATCGATACTACATATAAA
1 TTTATGTAAATATTAACAGTAAATAATTTATTTATCAAAATATCATTATCAACACTAAATATAAA
*
37178443 ATTAACATATACTATCCATTTTTATACTCTATATTAAA
66 ATTAAAATATACTATCCATTTTTATACTCTATATTAAA
*
37178481 TTT-TGTACAACATTAAC
1 TTTATGTA-AATATTAAC
37178498 TTACCAACCA
Statistics
Matches: 107, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
102 4 0.04
103 103 0.96
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.42
Consensus pattern (103 bp):
TTTATGTAAATATTAACAGTAAATAATTTATTTATCAAAATATCATTATCAACACTAAATATAAA
ATTAAAATATACTATCCATTTTTATACTCTATATTAAA
Found at i:37188959 original size:88 final size:85
Alignment explanation
Indices: 37188847--37189144 Score: 251
Period size: 88 Copynumber: 3.4 Consensus size: 85
37188837 TAGTGCTTCG
* * *
37188847 GTCCACTCCACTGCAACGTCAGGGAGATAGGATTTGTAACTTCAATCTGCTCTACTACAACTTCA
1 GTCCGCTCCACTGCAACTTCAGGGAGATAGGATTTGT--CTTCAATCTGCTCTACTGCAACTTCA
*
37188912 GGGAGATAAGATTGATTTATTCG
64 GGGAGATAAGATTGATTT-TTCA
* * * ** * * * *
37188935 GTCTGCTCCACTGTAACTTCAGGGAGATAAGACCTG-CTACGATCTACTCTACTGCAACTTCAGA
1 GTCCGCTCCACTGCAACTTCAGGGAGATAGGATTTGTCTTCAATCTGCTCTACTGCAACTTCAGG
**
37188999 GAGATAAGATCCATCATTTT-A
66 GAGATAAGATTGAT--TTTTCA
* * * * * *
37189020 ATCCGCTCCACTGTAACTTCAGAGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCA
1 GTCCGCTCCACTGCAACTTCAGGGAGATAGGA-T-TTGTCTTCAATCTGCTCTACTGCAACTTCA
* *
37189085 AGGAGATAAGATTCGCCA-TCTTCA
64 GGGAGATAAGATT-G--ATTTTTCA
* * *
37189109 GTCTGCCCCACTGCAACTTTAGGGAGATAGGATTTG
1 GTCCGCTCCACTGCAACTTCAGGGAGATAGGATTTG
37189145 CAGTTTCACC
Statistics
Matches: 164, Mismatches: 37, Indels: 19
0.75 0.17 0.09
Matches are distributed among these distances:
85 63 0.38
86 2 0.01
87 7 0.04
88 64 0.39
89 27 0.16
91 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (85 bp):
GTCCGCTCCACTGCAACTTCAGGGAGATAGGATTTGTCTTCAATCTGCTCTACTGCAACTTCAGG
GAGATAAGATTGATTTTTCA
Found at i:37189042 original size:44 final size:44
Alignment explanation
Indices: 37188985--37189096 Score: 129
Period size: 44 Copynumber: 2.5 Consensus size: 44
37188975 GATCTACTCT
*
37188985 ACTGCAACTTCAGAGAGATAAGATCCA-TCATTTTAATCCGCTCC
1 ACTGCAACTTCAGAGAGATAAGAT-CATTCACTTTAATCCGCTCC
* * * ** *
37189029 ACTGTAACTTCAGAGAGATAGGATTATTGGCTTTAATCTGCTCC
1 ACTGCAACTTCAGAGAGATAAGATCATTCACTTTAATCCGCTCC
37189073 ACTGCAACTTCA-AGGAGATAAGAT
1 ACTGCAACTTCAGA-GAGATAAGAT
37189097 TCGCCATCTT
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
43 2 0.04
44 55 0.96
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (44 bp):
ACTGCAACTTCAGAGAGATAAGATCATTCACTTTAATCCGCTCC
Found at i:37204183 original size:27 final size:26
Alignment explanation
Indices: 37204153--37204239 Score: 68
Period size: 32 Copynumber: 3.0 Consensus size: 26
37204143 TTTTGAAATT
*
37204153 ATTATGTCTTTGAA-TTTTTAGATATTG
1 ATTATGT-TTT-AACTTGTTAGATATTG
37204180 ATTATGTTTTAAGCTTGTTAGATATTGAATTG
1 ATTATGTTTTAA-CTTGTTAG--A-T--ATTG
*
37204212 ATTATGTTTTAAGCTTGTTGGATATTG
1 ATTATGTTTTAA-CTTGTTAGATATTG
37204239 A
1 A
37204240 AATGATTGAC
Statistics
Matches: 51, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
25 2 0.04
26 3 0.06
27 18 0.35
29 2 0.04
30 2 0.04
32 24 0.47
ACGTcount: A:0.26, C:0.03, G:0.18, T:0.52
Consensus pattern (26 bp):
ATTATGTTTTAACTTGTTAGATATTG
Found at i:37204212 original size:32 final size:32
Alignment explanation
Indices: 37204176--37204246 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
37204166 ATTTTTAGAT
37204176 ATTGATTATGTTTTAAGCTTGTTAGATATTGA
1 ATTGATTATGTTTTAAGCTTGTTAGATATTGA
*
37204208 ATTGATTATGTTTTAAGCTTGTTGGATATTGA
1 ATTGATTATGTTTTAAGCTTGTTAGATATTGA
*
37204240 AATGATT
1 ATTGATT
37204247 GACAATGACA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.28, C:0.03, G:0.20, T:0.49
Consensus pattern (32 bp):
ATTGATTATGTTTTAAGCTTGTTAGATATTGA
Found at i:37209063 original size:49 final size:49
Alignment explanation
Indices: 37209010--37209148 Score: 215
Period size: 49 Copynumber: 2.8 Consensus size: 49
37209000 TTTATTTTCT
* *
37209010 CGATGCCATAGTCCAACTATGGTCTTACACATAATCACATAACATATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACATAACATATAC
* *
37209059 CGATGCCATAGCCCAACTATGGCCTTACACGTAATCACATAACATATAT
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACATAACATATAC
* * *
37209108 CGATGCCATAGCCCAACCACGGTCTTACACGGAATCACATA
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACATA
37209149 TCACTTATTG
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 82 1.00
ACGTcount: A:0.35, C:0.29, G:0.13, T:0.23
Consensus pattern (49 bp):
CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACATAACATATAC
Found at i:37210347 original size:23 final size:23
Alignment explanation
Indices: 37210318--37210462 Score: 200
Period size: 23 Copynumber: 6.3 Consensus size: 23
37210308 ATAAGTGCCA
37210318 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * *
37210341 CATTGATACGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
37210364 CACTGAAATGTAGGCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
37210387 CACTGATATGTAGCAGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
37210410 CACTGAAATGTAGCTGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
37210433 CACTGATATGTAGCCGCAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
37210456 CACTGAT
1 CACTGAT
37210463 CAATAACACT
Statistics
Matches: 104, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 104 1.00
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:37210962 original size:30 final size:30
Alignment explanation
Indices: 37210914--37210972 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
37210904 TCCTTGACTC
*
37210914 AAACTTTTTCAAAATTACAATTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
* * * *
37210944 AAACTTTTGCATATTTACACTTTTTCCCC
1 AAACTTTTGCAAAATTACAATTTTGCCCC
37210973 AAAGCTCGTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.29, C:0.25, G:0.03, T:0.42
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:37212069 original size:18 final size:18
Alignment explanation
Indices: 37212046--37212087 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
37212036 TTCAAGGTGT
37212046 AATTAATTTAAAATT-TTC
1 AATTAA-TTAAAATTATTC
*
37212064 AATTAATTAAAATTATTT
1 AATTAATTAAAATTATTC
37212082 AATTAA
1 AATTAA
37212088 AAACTTATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (18 bp):
AATTAATTAAAATTATTC
Found at i:37213467 original size:539 final size:540
Alignment explanation
Indices: 37212438--37213517 Score: 2153
Period size: 539 Copynumber: 2.0 Consensus size: 540
37212428 TAATATTTAT
37212438 ATAATTGTGAATGTTTTTACTATGTTGTTTTGAAATATCATGTTTATTTTTTTATGTAAAAATAT
1 ATAATTGTGAATGTTTTTACTATGTTGTTTTGAAATATCATGTTTATTTTTTTATGTAAAAATAT
37212503 AAAAAAGGAAATGATATTTAAATAGGTATTATTAAAAAAAAGTACATAAGAATATTCATAATTTA
66 AAAAAAGGAAATGATATTTAAATAGGTATTATTAAAAAAAAGTACATAAGAATATTCATAATTTA
37212568 TTAGGTTTCAACTTTAGACTTGTTCATGGGCTGAGTTATTTGCTCAGACCTGAAGGCTCGCCTGA
131 TTAGGTTTCAACTTTAGACTTGTTCATGGGCTGAGTTATTTGCTCAGACCTGAAGGCTCGCCTGA
37212633 AATTTGAGAAGGTTTGAGAAAAATATTAGGCCTGAAAATGGGCTTTTAAATCCAAGCTCGATCTG
196 AATTTGAGAAGGTTTGAGAAAAATATTAGGCCTGAAAATGGGCTTTTAAATCCAAGCTCGATCTG
37212698 TTTTTAAGTTTTTATATTATGTTATTTTTATATATTATGTAATTGATAACACAAAAAATTAAATC
261 TTTTTAAGTTTTTATATTATGTTATTTTTATATATTATGTAATTGATAACACAAAAAATTAAATC
37212763 TATAGTAATATATATTTTAATTTTTTTAAAAATAATATGAGTTAACCTAAAATGGGCTTGGGTTA
326 TATAGTAATATATATTTTAATTTTTTTAAAAATAATATGAGTTAACCTAAAATGGGCTTGGGTTA
37212828 GCATTTGCAAATATGGGTAAGTTTATACAAAATTTTAAGTCCATGTCAGGCCGAGCCAGGCTTCA
391 GCATTTGCAAATATGGGTAAGTTTATACAAAATTTTAAGTCCATGTCAGGCCGAGCCAGGCTTCA
37212893 ACAAACATAATGTGTGTTAATATCATGCTTAGGCTCAACCTGAACTTGATCTGGCTTGTCCCGAC
456 ACAAACATAATGTGTGTTAATATCATGCTTAGGCTCAACCTGAACTTGATCTGGCTTGTCCCGAC
37212958 CCATGAATACCTCTAGTTCC
521 CCATGAATACCTCTAGTTCC
37212978 ATAATTGTGAA-GTTTTTACTATGTTGTTTTGAAATATCATGTTTATTTTTTTATGTAAAAATAT
1 ATAATTGTGAATGTTTTTACTATGTTGTTTTGAAATATCATGTTTATTTTTTTATGTAAAAATAT
37213042 AAAAAAGGAAATGATATTTAAATAGGTATTATTAAAAAAAAGTACATAAGAATATTCATAATTTA
66 AAAAAAGGAAATGATATTTAAATAGGTATTATTAAAAAAAAGTACATAAGAATATTCATAATTTA
37213107 TTAGGTTTCAACTTTAGACTTGTTCATGGGCTGAGTTATTTGCTCAGACCTGAAGGCTCGCCTGA
131 TTAGGTTTCAACTTTAGACTTGTTCATGGGCTGAGTTATTTGCTCAGACCTGAAGGCTCGCCTGA
37213172 AATTTGAGAAGGTTTGAGAAAAATATTAGGCCTGAAAATGGGCTTTTAAATCCAAGCTCGATCTG
196 AATTTGAGAAGGTTTGAGAAAAATATTAGGCCTGAAAATGGGCTTTTAAATCCAAGCTCGATCTG
37213237 TTTTTAAGTTTTTATATTATGTTATTTTTATATATTATGTAATTGATAACACAAAAAATTAAATC
261 TTTTTAAGTTTTTATATTATGTTATTTTTATATATTATGTAATTGATAACACAAAAAATTAAATC
37213302 TATAGTAATATATATTTTAATTTTTTTAAAAATAATATGAGTTAACCTAAAATGGGCTTGGGTTA
326 TATAGTAATATATATTTTAATTTTTTTAAAAATAATATGAGTTAACCTAAAATGGGCTTGGGTTA
37213367 GCATTTGCAAATATGGGTAAGTTTATACAAAATTTTAAGTCCATGTCAGGCCGAGCCAGGCTTCA
391 GCATTTGCAAATATGGGTAAGTTTATACAAAATTTTAAGTCCATGTCAGGCCGAGCCAGGCTTCA
37213432 ACAAACATAATGTGTGTTAATATCATGCTTAGGCTCAACCTGAACTTGATCTGGCTTGTCCCGAC
456 ACAAACATAATGTGTGTTAATATCATGCTTAGGCTCAACCTGAACTTGATCTGGCTTGTCCCGAC
37213497 CCATGAATACCTCTAGTTCC
521 CCATGAATACCTCTAGTTCC
37213517 A
1 A
37213518 ATTAATTTAT
Statistics
Matches: 540, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
539 529 0.98
540 11 0.02
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (540 bp):
ATAATTGTGAATGTTTTTACTATGTTGTTTTGAAATATCATGTTTATTTTTTTATGTAAAAATAT
AAAAAAGGAAATGATATTTAAATAGGTATTATTAAAAAAAAGTACATAAGAATATTCATAATTTA
TTAGGTTTCAACTTTAGACTTGTTCATGGGCTGAGTTATTTGCTCAGACCTGAAGGCTCGCCTGA
AATTTGAGAAGGTTTGAGAAAAATATTAGGCCTGAAAATGGGCTTTTAAATCCAAGCTCGATCTG
TTTTTAAGTTTTTATATTATGTTATTTTTATATATTATGTAATTGATAACACAAAAAATTAAATC
TATAGTAATATATATTTTAATTTTTTTAAAAATAATATGAGTTAACCTAAAATGGGCTTGGGTTA
GCATTTGCAAATATGGGTAAGTTTATACAAAATTTTAAGTCCATGTCAGGCCGAGCCAGGCTTCA
ACAAACATAATGTGTGTTAATATCATGCTTAGGCTCAACCTGAACTTGATCTGGCTTGTCCCGAC
CCATGAATACCTCTAGTTCC
Found at i:37213951 original size:32 final size:31
Alignment explanation
Indices: 37213901--37213961 Score: 79
Period size: 30 Copynumber: 1.9 Consensus size: 31
37213891 AAAATCGAAA
* *
37213901 AATTTTTTGAATTTCGAGTTAA-TCGAATCG
1 AATTATTTGAATTTCGAGTCAACTCGAATCG
37213931 AATTATTTGAATAATTCGAGTCAACTCGAAT
1 AATTATTTGAAT--TTCGAGTCAACTCGAAT
37213962 AACTCGATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 11 0.42
32 9 0.35
33 6 0.23
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.39
Consensus pattern (31 bp):
AATTATTTGAATTTCGAGTCAACTCGAATCG
Found at i:37214122 original size:11 final size:11
Alignment explanation
Indices: 37214103--37214164 Score: 62
Period size: 11 Copynumber: 6.0 Consensus size: 11
37214093 TCTCAACAAA
*
37214103 AATTACAAAAT
1 AATTTCAAAAT
37214114 AATTTCAAAAT
1 AATTTCAAAAT
*
37214125 AATTTTAAAA-
1 AATTTCAAAAT
37214135 AATTT-AAAAT
1 AATTTCAAAAT
37214145 AATTAT-AAAAT
1 AATT-TCAAAAT
37214156 --TTTCAAAAT
1 AATTTCAAAAT
37214165 TTATGTATTC
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
8 1 0.02
9 11 0.24
10 9 0.20
11 25 0.54
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (11 bp):
AATTTCAAAAT
Found at i:37214145 original size:20 final size:22
Alignment explanation
Indices: 37214103--37214164 Score: 78
Period size: 20 Copynumber: 3.0 Consensus size: 22
37214093 TCTCAACAAA
*
37214103 AATTACAAAATAATTTCAAAAT
1 AATTATAAAATAATTTCAAAAT
*
37214125 AATTTTAAAA-AATTT-AAAAT
1 AATTATAAAATAATTTCAAAAT
37214145 AATTATAAAAT--TTTCAAAAT
1 AATTATAAAATAATTTCAAAAT
37214165 TTATGTATTC
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
19 3 0.09
20 19 0.54
21 5 0.14
22 8 0.23
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (22 bp):
AATTATAAAATAATTTCAAAAT
Found at i:37214209 original size:20 final size:20
Alignment explanation
Indices: 37214171--37214209 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
37214161 AAATTTATGT
*
37214171 ATTCTTAAAAAATTCTAAAA
1 ATTCTTAAAAAATTATAAAA
37214191 ATTC-TAAAAAATATATAAA
1 ATTCTTAAAAAAT-TATAAA
37214210 GAAAGTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (20 bp):
ATTCTTAAAAAATTATAAAA
Found at i:37214834 original size:20 final size:21
Alignment explanation
Indices: 37214811--37214850 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
37214801 TAATCTAATC
* *
37214811 ATTTTTAATA-AAATTAATTT
1 ATTTTAAATACAAATAAATTT
37214831 ATTTTAAATACAAATAAATT
1 ATTTTAAATACAAATAAATT
37214851 AATATATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (21 bp):
ATTTTAAATACAAATAAATTT
Found at i:37215251 original size:15 final size:15
Alignment explanation
Indices: 37215227--37215256 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
37215217 TACATATTTT
37215227 ATTAAATAATAAAAA
1 ATTAAATAATAAAAA
*
37215242 ATTAAGTAATAAAAA
1 ATTAAATAATAAAAA
37215257 TAATTAGAAG
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:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (15 bp):
ATTAAATAATAAAAA
Found at i:37218035 original size:13 final size:13
Alignment explanation
Indices: 37218017--37218047 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
37218007 CTTGGGTTAT
*
37218017 TTTGGGTTTGCTG
1 TTTGGGTTGGCTG
37218030 TTTGGGTTGGCTG
1 TTTGGGTTGGCTG
37218043 TTTGG
1 TTTGG
37218048 TGAGGCCCGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.00, C:0.06, G:0.42, T:0.52
Consensus pattern (13 bp):
TTTGGGTTGGCTG
Found at i:37218332 original size:44 final size:44
Alignment explanation
Indices: 37218284--37218556 Score: 217
Period size: 44 Copynumber: 6.3 Consensus size: 44
37218274 TGTTGCAACT
* * *
37218284 TCAGGGGGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATC
1 TCAGGGAGATAAGATTACTATCTTCAATCTGCTCCACTGTAATC
** *
37218328 TCAGGGAGATAAGATTACTATCTTTGATCTGCTCCGCTGTAATC
1 TCAGGGAGATAAGATTACTATCTTCAATCTGCTCCACTGTAATC
* * *
37218372 TCAGGGAGATAAGATCTGCAATTCTTCAGTCTGCTCCACTGTAATC
1 TCAGGGAGATAAGAT-TACTA-TCTTCAATCTGCTCCACTGTAATC
* * * * ** *
37218418 TTAGGGAGATAAGA--CCTGA--TACGATCCACTCTACTGTAA-C
1 TCAGGGAGATAAGATTACT-ATCTTCAATCTGCTCCACTGTAATC
* * *
37218458 TTTAGAGAGATAAGA-T-CT-T-TT-AATCCGCTCCACTGTAATC
1 -TCAGGGAGATAAGATTACTATCTTCAATCTGCTCCACTGTAATC
* ** *
37218498 TCAAGGAGAT-AGAATTACTATCTTTGATCTGCTCCGCTGTAATC
1 TCAGGGAGATAAG-ATTACTATCTTCAATCTGCTCCACTGTAATC
37218542 TCAGGGAGATAAGAT
1 TCAGGGAGATAAGAT
37218557 CTGAAATTCT
Statistics
Matches: 182, Mismatches: 33, Indels: 28
0.75 0.14 0.12
Matches are distributed among these distances:
38 2 0.01
39 22 0.12
40 4 0.02
41 31 0.17
42 1 0.01
43 3 0.02
44 81 0.45
45 5 0.03
46 33 0.18
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (44 bp):
TCAGGGAGATAAGATTACTATCTTCAATCTGCTCCACTGTAATC
Found at i:37218682 original size:86 final size:86
Alignment explanation
Indices: 37218593--37219076 Score: 783
Period size: 86 Copynumber: 5.6 Consensus size: 86
37218583 CTACCGAGAG
* * *
37218593 AGGCAAGG-TTTGTGTTCGATCTGCTTCGCTGTTAACGTAGGAAGGCAAGATCTGCTATCTTCAA
1 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCT-TCTTTAA
* *
37218657 CCAGCTCCACTGCAACCGATGG
65 CCAGCTCCACTGCAACCAATGA
* * * * *
37218679 AGGCAAGGATTTGTTTTTGATCTGCTTCACTGTTAATGCAGGAAGACAAGATCTGCTTCTTTAAC
1 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAAC
37218744 CAGCTCCACTGCAACCAATGA
66 CAGCTCCACTGCAACCAATGA
* * *
37218765 AGGCAAGGCTTTGTTTCCAATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTTCTTTAAC
1 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAAC
*
37218830 CAACTCCACTGCAACCAATGA
66 CAGCTCCACTGCAACCAATGA
37218851 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAAC
1 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAAC
*
37218916 CAGCTCCACTGTAACCAATGA
66 CAGCTCCACTGCAACCAATGA
37218937 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAAC
1 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAAC
*
37219002 CAGCTCCACTGTAACCAATGA
66 CAGCTCCACTGCAACCAATGA
* *
37219023 AGGCAAGGC-TTGTTTTCGATCTGCTTCGCTGTTAGCGCAAGAAGGCAAGATCTG
1 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTG
37219077 ATGTCTTCAT
Statistics
Matches: 374, Mismatches: 23, Indels: 3
0.94 0.06 0.01
Matches are distributed among these distances:
85 43 0.11
86 289 0.77
87 42 0.11
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.29
Consensus pattern (86 bp):
AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAAC
CAGCTCCACTGCAACCAATGA
Found at i:37220843 original size:6 final size:6
Alignment explanation
Indices: 37220832--37221051 Score: 413
Period size: 6 Copynumber: 36.2 Consensus size: 6
37220822 CCTCTCATTT
37220832 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
37220880 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
37220928 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
37220976 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
37221024 TTTTTTC TTTTTTC TTTTTTC TTTTTC T
1 -TTTTTC -TTTTTC -TTTTTC TTTTTC T
37221052 CCTATTTTTG
Statistics
Matches: 213, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
6 193 0.91
7 20 0.09
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTC
Found at i:37221060 original size:1 final size:1
Alignment explanation
Indices: 37220829--37221049 Score: 127
Period size: 1 Copynumber: 221.0 Consensus size: 1
37220819 TGACCTCTCA
* * * * * * * * * *
37220829 TTTTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * * * * * *
37220894 TTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * * * * * *
37220959 TTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTC
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * *
37221024 TTTTTTCTTTTTTCTTTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
37221050 CTCCTATTTT
Statistics
Matches: 150, Mismatches: 70, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
1 150 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (1 bp):
T
Found at i:37221081 original size:20 final size:21
Alignment explanation
Indices: 37221056--37221099 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
37221046 TTTTCTCCTA
37221056 TTTTTGA-CTTTGATTTTTTT
1 TTTTTGATCTTTGATTTTTTT
*
37221076 TTTTTGATTTTTTGATTTTTTT
1 TTTTTGA-TCTTTGATTTTTTT
37221098 TT
1 TT
37221100 ATTTTTTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.33
22 14 0.67
ACGTcount: A:0.09, C:0.02, G:0.09, T:0.80
Consensus pattern (21 bp):
TTTTTGATCTTTGATTTTTTT
Found at i:37221086 original size:8 final size:8
Alignment explanation
Indices: 37221064--37221096 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
37221054 TATTTTTGAC
37221064 TTTGATTT
1 TTTGATTT
37221072 TTT--TTT
1 TTTGATTT
37221078 TTTGATTT
1 TTTGATTT
37221086 TTTGATTT
1 TTTGATTT
37221094 TTT
1 TTT
37221097 TTTATTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
6 6 0.26
8 17 0.74
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.82
Consensus pattern (8 bp):
TTTGATTT
Found at i:37221087 original size:28 final size:28
Alignment explanation
Indices: 37221056--37221110 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
37221046 TTTTCTCCTA
37221056 TTTTTGACTTTGATTTT-TTTTTTTTGAT
1 TTTTTGA-TTTGATTTTATTTTTTTTGAT
**
37221084 TTTTTGATTTTTTTTTATTTTTTTTGA
1 TTTTTGATTTGATTTTATTTTTTTTGA
37221111 GTCTGAACTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 7 0.29
28 17 0.71
ACGTcount: A:0.11, C:0.02, G:0.09, T:0.78
Consensus pattern (28 bp):
TTTTTGATTTGATTTTATTTTTTTTGAT
Found at i:37227076 original size:13 final size:13
Alignment explanation
Indices: 37227058--37227088 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
37227048 CTTGGGTTAT
*
37227058 TTTGGGTTTGCTG
1 TTTGGGTTGGCTG
37227071 TTTGGGTTGGCTG
1 TTTGGGTTGGCTG
37227084 TTTGG
1 TTTGG
37227089 TGAGGCCCGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.00, C:0.06, G:0.42, T:0.52
Consensus pattern (13 bp):
TTTGGGTTGGCTG
Found at i:37229045 original size:3 final size:3
Alignment explanation
Indices: 37229037--37229072 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
37229027 AGGTGTCGTC
37229037 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
37229073 CTTTCTTTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:37233015 original size:51 final size:50
Alignment explanation
Indices: 37232933--37233037 Score: 165
Period size: 51 Copynumber: 2.1 Consensus size: 50
37232923 GTAGCTATAA
* * *
37232933 ATCATTTGTTTATATTAAGTGTCCATGTGTTGTATGTATCAAGATAGGGT
1 ATCATTTGTTTATATTAAGTGTCCATGTGTTGCACGTATAAAGATAGGGT
*
37232983 ATCATTTGTTTATATTTAAGTGTCCATTTGTTGCACGTATAAAGATAGGGT
1 ATCATTTGTTTATA-TTAAGTGTCCATGTGTTGCACGTATAAAGATAGGGT
37233034 ATCA
1 ATCA
37233038 AAACCAGCAT
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
50 14 0.28
51 36 0.72
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.43
Consensus pattern (50 bp):
ATCATTTGTTTATATTAAGTGTCCATGTGTTGCACGTATAAAGATAGGGT
Found at i:37240276 original size:11 final size:11
Alignment explanation
Indices: 37240258--37240287 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
37240248 TTTATATATT
37240258 TATTTTTTTTA
1 TATTTTTTTTA
*
37240269 TGTTTTTTTTA
1 TATTTTTTTTA
37240280 TATTTTTT
1 TATTTTTT
37240288 ACCTTAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.83
Consensus pattern (11 bp):
TATTTTTTTTA
Found at i:37240901 original size:21 final size:22
Alignment explanation
Indices: 37240875--37240934 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 22
37240865 TTTTTTCATA
37240875 ATTTTTTA-TTTTAAAAAATAT
1 ATTTTTTATTTTTAAAAAATAT
37240896 ATTTTTTATTTTTTAAAAAATTTAT
1 ATTTTTTA-TTTTTAAAAAA--TAT
*
37240921 AGTTTTTAATTTTT
1 A-TTTTTTATTTTT
37240935 TATTTAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 8 0.24
23 10 0.30
25 9 0.27
26 6 0.18
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (22 bp):
ATTTTTTATTTTTAAAAAATAT
Found at i:37240921 original size:25 final size:23
Alignment explanation
Indices: 37240875--37240936 Score: 74
Period size: 26 Copynumber: 2.7 Consensus size: 23
37240865 TTTTTTCATA
37240875 ATTTTTTA--TTTTAAAAAATAT
1 ATTTTTTATTTTTTAAAAAATAT
37240896 ATTTTTTATTTTTTAAAAAATTTAT
1 ATTTTTTATTTTTTAAAAAA--TAT
*
37240921 AGTTTTTAATTTTTTA
1 A-TTTTTTATTTTTTA
37240937 TTTAAAATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
21 8 0.23
23 10 0.29
25 4 0.11
26 13 0.37
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (23 bp):
ATTTTTTATTTTTTAAAAAATAT
Found at i:37244203 original size:11 final size:11
Alignment explanation
Indices: 37244177--37244246 Score: 60
Period size: 11 Copynumber: 6.6 Consensus size: 11
37244167 AAAAAATAAA
37244177 AAAAAGTATTTT
1 AAAAA-TATTTT
37244189 -AAAATATTTT
1 AAAAATATTTT
37244199 AAAAATA----
1 AAAAATATTTT
* **
37244206 AAAAAAATTAA
1 AAAAATATTTT
37244217 AAAAAGTATTTT
1 AAAAA-TATTTT
37244229 AAAAATATTTT
1 AAAAATATTTT
37244240 AAAAATA
1 AAAAATA
37244247 AAAAAAAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
7 6 0.12
10 6 0.12
11 28 0.58
12 8 0.17
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:37244218 original size:41 final size:40
Alignment explanation
Indices: 37244166--37244257 Score: 152
Period size: 41 Copynumber: 2.3 Consensus size: 40
37244156 AAAAATTTTT
37244166 AAAAAAATAAAAAAAAGTATTTT-AAAATATTTTAAAAATA
1 AAAAAAAT-AAAAAAAGTATTTTAAAAATATTTTAAAAATA
37244206 AAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAAATA
1 AAAAAAA-TAAAAAAAGTATTTTAAAAATATTTTAAAAATA
37244247 AAAAAAA-AAAA
1 AAAAAAATAAAA
37244258 TATTTATTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
39 4 0.08
40 21 0.42
41 25 0.50
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (40 bp):
AAAAAAATAAAAAAAGTATTTTAAAAATATTTTAAAAATA
Found at i:37244219 original size:40 final size:41
Alignment explanation
Indices: 37244166--37244257 Score: 161
Period size: 40 Copynumber: 2.3 Consensus size: 41
37244156 AAAAATTTTT
37244166 AAAAAAATAAAAAAAAGTATTTT-AAAATATTTTAAAAATA
1 AAAAAAATAAAAAAAAGTATTTTAAAAATATTTTAAAAATA
*
37244206 AAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAAATA
1 AAAAAAATAAAAAAAAGTATTTTAAAAATATTTTAAAAATA
37244247 AAAAAAA-AAAA
1 AAAAAAATAAAA
37244258 TATTTATTAT
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
40 25 0.51
41 24 0.49
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (41 bp):
AAAAAAATAAAAAAAAGTATTTTAAAAATATTTTAAAAATA
Found at i:37249294 original size:34 final size:34
Alignment explanation
Indices: 37249251--37249316 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
37249241 ACCTCCCCAC
37249251 TGGCCTTTCTTTTTCATTAGAGAATAAACTGTTT
1 TGGCCTTTCTTTTTCATTAGAGAATAAACTGTTT
*
37249285 TGGCCTTTCTTTTTCATTATAGAATAAACTGT
1 TGGCCTTTCTTTTTCATTAGAGAATAAACTGT
37249317 CTCTTGGACT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.24, C:0.15, G:0.14, T:0.47
Consensus pattern (34 bp):
TGGCCTTTCTTTTTCATTAGAGAATAAACTGTTT
Found at i:37256878 original size:19 final size:19
Alignment explanation
Indices: 37256854--37256900 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
37256844 TATACTTGTT
37256854 TATTTATTTTAATTAATCA
1 TATTTATTTTAATTAATCA
*
37256873 TATTTAATTTAATTAATCA
1 TATTTATTTTAATTAATCA
*
37256892 TAATTATTT
1 TATTTATTT
37256901 AACCTTAAGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.57
Consensus pattern (19 bp):
TATTTATTTTAATTAATCA
Found at i:37268385 original size:21 final size:21
Alignment explanation
Indices: 37268364--37268419 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
37268354 TTTAAAATAA
37268364 TAAAAATGTGTTAATATTTAAT
1 TAAAAATGT-TTAATATTTAAT
* *
37268386 TACAAATGTTTAATAATTATAT
1 TAAAAATGTTTAATATTTA-AT
*
37268408 T-TAAATGTTTAA
1 TAAAAATGTTTAA
37268420 AATAACATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.63
22 11 0.37
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.46
Consensus pattern (21 bp):
TAAAAATGTTTAATATTTAAT
Found at i:37274351 original size:12 final size:12
Alignment explanation
Indices: 37274334--37274358 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37274324 GGTGTTCATT
37274334 CGGTTAACCGAC
1 CGGTTAACCGAC
37274346 CGGTTAACCGAC
1 CGGTTAACCGAC
37274358 C
1 C
37274359 CGAAATTACT
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:37274533 original size:9 final size:9
Alignment explanation
Indices: 37274519--37274555 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
37274509 TTTGGTTAAA
*
37274519 AATTACCCG
1 AATTAACCG
*
37274528 AATTACCCG
1 AATTAACCG
37274537 AATTAACCG
1 AATTAACCG
37274546 AATTAACCG
1 AATTAACCG
37274555 A
1 A
37274556 CCTTCCAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.41, C:0.27, G:0.11, T:0.22
Consensus pattern (9 bp):
AATTAACCG
Found at i:37275462 original size:22 final size:21
Alignment explanation
Indices: 37275437--37275477 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
37275427 AATTACAAAA
37275437 AAAAAATACAAAAATATATTTT
1 AAAAAATACAAAAAT-TATTTT
*
37275459 AAAAATTACAAAAATTATT
1 AAAAAATACAAAAATTATT
37275478 AAAATAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (21 bp):
AAAAAATACAAAAATTATTTT
Found at i:37276249 original size:19 final size:21
Alignment explanation
Indices: 37276227--37276273 Score: 64
Period size: 19 Copynumber: 2.4 Consensus size: 21
37276217 TTCTTAATAA
*
37276227 TTTTAATAT-TTTTTATAGTT
1 TTTTAATATATTTTTAAAGTT
37276247 TTTT--TATATTTTTAAAGTT
1 TTTTAATATATTTTTAAAGTT
37276266 TTTTAATA
1 TTTTAATA
37276274 ACGTTAGGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 3 0.13
19 14 0.61
20 4 0.17
21 2 0.09
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (21 bp):
TTTTAATATATTTTTAAAGTT
Found at i:37276259 original size:29 final size:28
Alignment explanation
Indices: 37276204--37276270 Score: 73
Period size: 29 Copynumber: 2.4 Consensus size: 28
37276194 TTTTAACTTT
*
37276204 ATATTTTTTCTATTTCTTAATAATTTTA
1 ATATTTTTTATATTTCTTAATAATTTTA
* * *
37276232 ATATTTTTTATAGTTTTTTTATATTTTTA
1 ATATTTTTTATA-TTTCTTAATAATTTTA
37276261 A-AGTTTTTTA
1 ATA-TTTTTTA
37276271 ATAACGTTAG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 12 0.36
29 21 0.64
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (28 bp):
ATATTTTTTATATTTCTTAATAATTTTA
Found at i:37277882 original size:8 final size:7
Alignment explanation
Indices: 37277848--37277880 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
37277838 CTTTTCATTC
*
37277848 TTTTTGT
1 TTTTTAT
37277855 TTTTTAT
1 TTTTTAT
37277862 TTTTTAT
1 TTTTTAT
37277869 TTTTTAT
1 TTTTTAT
37277876 TTTTT
1 TTTTT
37277881 TAAAAAAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.09, C:0.00, G:0.03, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:37278578 original size:8 final size:8
Alignment explanation
Indices: 37278567--37278627 Score: 88
Period size: 8 Copynumber: 7.4 Consensus size: 8
37278557 TTATTTATTC
37278567 ATTATTAT
1 ATTATTAT
37278575 ATTATTAT
1 ATTATTAT
37278583 ATTATTAT
1 ATTATTAT
37278591 ATTA-TATT
1 ATTATTA-T
37278599 ATTATTATT
1 ATTATTA-T
37278608 ATTATTATT
1 ATTATTA-T
37278617 ATTATTAT
1 ATTATTAT
37278625 ATT
1 ATT
37278628 TCTATTTATA
Statistics
Matches: 51, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
7 2 0.04
8 29 0.57
9 20 0.39
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
ATTATTAT
Found at i:37278580 original size:3 final size:3
Alignment explanation
Indices: 37278561--37278624 Score: 91
Period size: 3 Copynumber: 22.3 Consensus size: 3
37278551 TTATATTTAT
37278561 TTA TTCA TTA TTA -TA TTA TTA -TA TTA TTA -TA TTA -TA TTA TTA
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
37278603 TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
37278625 ATTTCTATTT
Statistics
Matches: 56, Mismatches: 0, Indels: 10
0.85 0.00 0.15
Matches are distributed among these distances:
2 8 0.14
3 45 0.80
4 3 0.05
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:37278595 original size:21 final size:21
Alignment explanation
Indices: 37278569--37278639 Score: 87
Period size: 21 Copynumber: 3.4 Consensus size: 21
37278559 ATTTATTCAT
37278569 TATTATATTATTATATTATTA
1 TATTATATTATTATATTATTA
37278590 TATTATATTA-T-TATTATTA
1 TATTATATTATTATATTATTA
37278609 TTATTATTATTATTATATT-TCTA
1 -TATTA-TATTATTATATTAT-TA
37278632 T-TTATATT
1 TATTATATT
37278640 TACTTATCTA
Statistics
Matches: 45, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
19 8 0.18
20 10 0.22
21 18 0.40
22 3 0.07
23 6 0.13
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (21 bp):
TATTATATTATTATATTATTA
Found at i:37279260 original size:27 final size:27
Alignment explanation
Indices: 37279230--37279289 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
37279220 GAAAGAGAAA
*
37279230 ATTTTGAAAATAAAGGCAATACTCGGT
1 ATTTGGAAAATAAAGGCAATACTCGGT
*
37279257 ATTTGGGAAATAAAGGCAATACTCGGT
1 ATTTGGAAAATAAAGGCAATACTCGGT
37279284 ATTTGG
1 ATTTGG
37279290 GATCTTCGAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (27 bp):
ATTTGGAAAATAAAGGCAATACTCGGT
Found at i:37279290 original size:27 final size:27
Alignment explanation
Indices: 37279237--37279291 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
37279227 AAAATTTTGA
37279237 AAATAAAGGCAATACTCGGTATTTGGG
1 AAATAAAGGCAATACTCGGTATTTGGG
37279264 AAATAAAGGCAATACTCGGTATTTGGG
1 AAATAAAGGCAATACTCGGTATTTGGG
37279291 A
1 A
37279292 TCTTCGAGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.25
Consensus pattern (27 bp):
AAATAAAGGCAATACTCGGTATTTGGG
Found at i:37280872 original size:20 final size:19
Alignment explanation
Indices: 37280847--37280911 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 19
37280837 AAAATAATCA
37280847 AAAATAATTTTCAAAAATTC
1 AAAATAATTTT-AAAAATTC
* *
37280867 AAAATAATTTTTAAAATTA
1 AAAATAATTTTAAAAATTC
37280886 AAAAT-ATTTATAAAAAATTC
1 AAAATAATTT-T-AAAAATTC
37280906 TAAAAT
1 -AAAAT
37280912 TTATATTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
18 4 0.11
19 12 0.32
20 17 0.45
21 5 0.13
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAATAATTTTAAAAATTC
Found at i:37280901 original size:19 final size:19
Alignment explanation
Indices: 37280846--37280901 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
37280836 CAAAATAATC
37280846 AAAAATAATTTTCAAAAATT
1 AAAAATAATTTT-AAAAATT
* *
37280866 CAAAATAATTTTTAAAATT
1 AAAAATAATTTTAAAAATT
37280885 AAAAAT-ATTTATAAAAA
1 AAAAATAATTT-TAAAAA
37280902 ATTCTAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
18 4 0.13
19 16 0.52
20 11 0.35
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAAATAATTTTAAAAATT
Found at i:37282407 original size:31 final size:31
Alignment explanation
Indices: 37282354--37282418 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
37282344 TACAATTTGA
** * *
37282354 TCACTAAACTATTTGAACGTTTTCATTTAAG
1 TCACTAAACTATTCAAAAGTTTTCATGTAAG
*
37282385 TCACTAAACTATTCAAAAGTTTTTATGTAAG
1 TCACTAAACTATTCAAAAGTTTTCATGTAAG
37282416 TCA
1 TCA
37282419 ATGGGTGGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.40
Consensus pattern (31 bp):
TCACTAAACTATTCAAAAGTTTTCATGTAAG
Found at i:37283421 original size:223 final size:221
Alignment explanation
Indices: 37283017--37283424 Score: 516
Period size: 223 Copynumber: 1.8 Consensus size: 221
37283007 TGCACACCCC
* * * *
37283017 TAATCATACAATCATTAATTATATGATCTTAATAAAATGAATTATAAATAGTCGTACATTTAACG
1 TAATCATACAATCATTAATTATACGAACTAAATAAAATGAATTATAAATAGTCGTACATTCAACG
* * * *
37283082 ATCCAATTGAATAGTCTCTATACAAGTGTAATGAAATTACTTGCATTTGCATTTACCTAATTATG
66 ATCCAATTGAATAGTCTATATACAAGTGTAATGAAATTACTTGCATATACATTTACCTAACTATG
** * * *
37283147 AATGTAATAAAATGAATTATAATATTAATCATATAATCATTGATCCAATTGAATTGAACTATGTA
131 AACCTAATAAAATGAATTATAAAATTAATCATATAAGCATTAATCCAATTGAATTGAACTATGTA
37283212 AAAAATTAATTAAATGAATATACTAT
196 AAAAATTAATTAAATGAATATACTAT
*
37283238 TAATCATACAATCATTAATTATACGAACGTAAAT-GAATGAATTATATAATTAGTCGTACATTCA
1 TAATCATACAATCATTAATTATACGAAC-TAAATAAAATGAATTATA-AA-TAGTCGTACATTCA
* * * * * * * *
37283302 ATGATCCAATTGTATTGTTTATGTACTAGTGTAATGACATTA-TGTGCATATACATTTTCCTAAC
63 ACGATCCAATTGAATAGTCTATATACAAGTGTAATGAAATTACT-TGCATATACATTTACCTAAC
** * *
37283366 TATGAACCTAATTGAATGAATTATAAAATTAATCGTACT-AGCATTAATTCAATTGAATT
127 TATGAACCTAATAAAATGAATTATAAAATTAATCATA-TAAGCATTAATCCAATTGAATT
37283425 TGTTTATGTA
Statistics
Matches: 156, Mismatches: 26, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
221 37 0.24
222 7 0.04
223 111 0.71
224 1 0.01
ACGTcount: A:0.41, C:0.11, G:0.10, T:0.38
Consensus pattern (221 bp):
TAATCATACAATCATTAATTATACGAACTAAATAAAATGAATTATAAATAGTCGTACATTCAACG
ATCCAATTGAATAGTCTATATACAAGTGTAATGAAATTACTTGCATATACATTTACCTAACTATG
AACCTAATAAAATGAATTATAAAATTAATCATATAAGCATTAATCCAATTGAATTGAACTATGTA
AAAAATTAATTAAATGAATATACTAT
Found at i:37289520 original size:13 final size:14
Alignment explanation
Indices: 37289493--37289567 Score: 61
Period size: 13 Copynumber: 5.6 Consensus size: 14
37289483 TAGGCCTTGC
*
37289493 TTTCTTCTT-TCTT
1 TTTCTTTTTCTCTT
37289506 TTT-TTTTTCTCTT
1 TTTCTTTTTCTCTT
37289519 TTTCCTTTTTC-CTT
1 TTT-CTTTTTCTCTT
* *
37289533 TTTCCTTTT-TCGT
1 TTTCTTTTTCTCTT
*
37289546 TTTCTGTTTCT-TT
1 TTTCTTTTTCTCTT
37289559 CTTTCTTTT
1 -TTTCTTTT
37289568 CCTATTTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
12 4 0.08
13 25 0.51
14 14 0.29
15 6 0.12
ACGTcount: A:0.00, C:0.21, G:0.03, T:0.76
Consensus pattern (14 bp):
TTTCTTTTTCTCTT
Found at i:37289527 original size:6 final size:7
Alignment explanation
Indices: 37289509--37289548 Score: 62
Period size: 7 Copynumber: 5.6 Consensus size: 7
37289499 CTTTCTTTTT
37289509 TTTTTCTC
1 TTTTTC-C
37289517 TTTTTCC
1 TTTTTCC
37289524 TTTTTCC
1 TTTTTCC
37289531 TTTTTCC
1 TTTTTCC
*
37289538 TTTTTCG
1 TTTTTCC
37289545 TTTT
1 TTTT
37289549 CTGTTTCTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
7 25 0.81
8 6 0.19
ACGTcount: A:0.00, C:0.23, G:0.03, T:0.75
Consensus pattern (7 bp):
TTTTTCC
Found at i:37289576 original size:20 final size:21
Alignment explanation
Indices: 37289525--37289582 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 21
37289515 TCTTTTTCCT
* *
37289525 TTTTCCTTTTTCCTT-TTTCG
1 TTTTCCTATTTCTTTCTTTCG
*
37289545 TTTT-CTGTTTCTTTCTTTC-
1 TTTTCCTATTTCTTTCTTTCG
37289564 TTTTCCTATTTCTTTCTTT
1 TTTTCCTATTTCTTTCTTT
37289583 TTATCTTATC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 12 0.36
20 21 0.64
ACGTcount: A:0.02, C:0.22, G:0.03, T:0.72
Consensus pattern (21 bp):
TTTTCCTATTTCTTTCTTTCG
Found at i:37290935 original size:5 final size:5
Alignment explanation
Indices: 37290925--37290950 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
37290915 TGAGCATTCG
37290925 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
37290951 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:37291048 original size:5 final size:5
Alignment explanation
Indices: 37291040--37291065 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
37291030 GAGATGGAAT
37291040 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
37291066 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:37291065 original size:26 final size:26
Alignment explanation
Indices: 37291014--37291065 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
37291004 TGAAGTTTTC
* * *
37291014 TCGAATCGAGTCGAGTGAGATGGAAT
1 TCGAATCGAATCGAATGAGATCGAAT
37291040 TCGAATCGAATCGAATCGA-ATCGAAT
1 TCGAATCGAATCGAAT-GAGATCGAAT
37291066 ATATTTGTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (26 bp):
TCGAATCGAATCGAATGAGATCGAAT
Found at i:37292677 original size:9 final size:9
Alignment explanation
Indices: 37292663--37292699 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
37292653 TATAGTTTGA
37292663 TATTCGAAT
1 TATTCGAAT
37292672 TATTCGAAT
1 TATTCGAAT
*
37292681 TATTCGAGT
1 TATTCGAAT
37292690 TATTCGAAT
1 TATTCGAAT
37292699 T
1 T
37292700 CGAAAACTCA
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:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:37292769 original size:9 final size:9
Alignment explanation
Indices: 37292752--37292782 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
37292742 TCGAGTTGAT
37292752 TCGAATAAC
1 TCGAATAAC
*
37292761 TCGATTAAC
1 TCGAATAAC
37292770 TCGAATAAC
1 TCGAATAAC
37292779 TCGA
1 TCGA
37292783 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:37293054 original size:19 final size:18
Alignment explanation
Indices: 37293030--37293072 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
37293020 TAATATTAAT
*
37293030 AAAAATTTAAT-ATAAATA
1 AAAAAATTAATAATAAA-A
37293048 AAAAAATTAATCAATAAAA
1 AAAAAATTAAT-AATAAAA
37293067 AAAAAA
1 AAAAAA
37293073 CTAAAAGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 10 0.45
19 7 0.32
20 5 0.23
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (18 bp):
AAAAAATTAATAATAAAA
Found at i:37293595 original size:6 final size:6
Alignment explanation
Indices: 37293584--37293609 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
37293574 ATAATTATCA
37293584 TTTATT TTTATT TTTATT TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TT
37293610 AAGTTATCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:37294160 original size:30 final size:29
Alignment explanation
Indices: 37294101--37294165 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
37294091 TCCCTCTCAA
37294101 TCCCCAACTCCCTTAATCTTAATCTCTTC
1 TCCCCAACTCCCTTAATCTTAATCTCTTC
*
37294130 TCCCCAACTCCTTTAACCTCTTAA-CTCTTC
1 TCCCCAACTCCCTTAA--TCTTAATCTCTTC
*
37294160 TTCCCA
1 TCCCCA
37294166 TTCCTTCATC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
29 15 0.47
30 11 0.34
31 6 0.19
ACGTcount: A:0.20, C:0.43, G:0.00, T:0.37
Consensus pattern (29 bp):
TCCCCAACTCCCTTAATCTTAATCTCTTC
Found at i:37295953 original size:17 final size:17
Alignment explanation
Indices: 37295931--37295978 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
37295921 TCTACCTCCG
37295931 TTATATTTTAAATTTTT
1 TTATATTTTAAATTTTT
* * *
37295948 TTATATATTATATATTT
1 TTATATTTTAAATTTTT
*
37295965 TTATATTTTTAATT
1 TTATATTTTAAATT
37295979 AATATAATAT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TTATATTTTAAATTTTT
Found at i:37297922 original size:18 final size:19
Alignment explanation
Indices: 37297890--37297925 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
37297880 AGTAAATAAC
*
37297890 TTAAAATTTATAAAAATAT
1 TTAAAATTTAAAAAAATAT
37297909 TTAAAA-TTAAAAAAATA
1 TTAAAATTTAAAAAAATA
37297926 GTATGAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
TTAAAATTTAAAAAAATAT
Found at i:37299704 original size:34 final size:34
Alignment explanation
Indices: 37299661--37299727 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
37299651 TAAGTACATC
37299661 CATTAACCACTTTAAATCATACCAAACATACCTT
1 CATTAACCACTTTAAATCATACCAAACATACCTT
37299695 CATTAACCACTTTAAATCATACCAAACATACCT
1 CATTAACCACTTTAAATCATACCAAACATACCT
37299728 CCAAAATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (34 bp):
CATTAACCACTTTAAATCATACCAAACATACCTT
Found at i:37299740 original size:13 final size:13
Alignment explanation
Indices: 37299722--37299751 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
37299712 CATACCAAAC
37299722 ATACCTCCAAAAT
1 ATACCTCCAAAAT
*
37299735 ATACCTCTAAAAT
1 ATACCTCCAAAAT
37299748 ATAC
1 ATAC
37299752 ATGAGAATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.27
Consensus pattern (13 bp):
ATACCTCCAAAAT
Found at i:37300064 original size:25 final size:25
Alignment explanation
Indices: 37300009--37300074 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
37299999 AAGCGAGAAA
*
37300009 CGGTAAGCTCTTTCGAGCTGAATAT
1 CGGTAAGCTCTTACGAGCTGAATAT
* * *
37300034 CAGTAAGCTCTTACGATCTTTAA-AT
1 CGGTAAGCTCTTACGAGC-TGAATAT
*
37300059 CGGTAAGCTCATACGA
1 CGGTAAGCTCTTACGA
37300075 ACTGTGGTGA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 31 0.91
26 3 0.09
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (25 bp):
CGGTAAGCTCTTACGAGCTGAATAT
Found at i:37302382 original size:26 final size:23
Alignment explanation
Indices: 37302352--37302433 Score: 67
Period size: 23 Copynumber: 3.4 Consensus size: 23
37302342 GAGCCATGAT
37302352 CGGTAAGCTC-ATTCTGAGATGATAAA
1 CGGTAAGCTCTA-TC-GAGAT-A-AAA
*
37302378 CGGTAAGCTCTATCGAGCTAAAA
1 CGGTAAGCTCTATCGAGATAAAA
** * * *
37302401 CGGTAAGCTCCGTAGAGCTGAAA
1 CGGTAAGCTCTATCGAGATAAAA
37302424 CGGTAAGCTC
1 CGGTAAGCTC
37302434 ATACAAGCTG
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
23 32 0.64
24 1 0.02
25 4 0.08
26 12 0.24
27 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.22
Consensus pattern (23 bp):
CGGTAAGCTCTATCGAGATAAAA
Found at i:37302405 original size:23 final size:23
Alignment explanation
Indices: 37302375--37302433 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
37302365 CTGAGATGAT
* *
37302375 AAACGGTAAGCTCTATCGAGCTA
1 AAACGGTAAGCTCCATAGAGCTA
* *
37302398 AAACGGTAAGCTCCGTAGAGCTG
1 AAACGGTAAGCTCCATAGAGCTA
37302421 AAACGGTAAGCTC
1 AAACGGTAAGCTC
37302434 ATACAAGCTG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (23 bp):
AAACGGTAAGCTCCATAGAGCTA
Found at i:37302442 original size:23 final size:22
Alignment explanation
Indices: 37302375--37302443 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 22
37302365 CTGAGATGAT
*
37302375 AAACGGTAAGCTCTATCGAGCTA
1 AAACGGTAAGCTCTA-CGAGCTG
37302398 AAACGGTAAGCTCCGTA-GAGCTG
1 AAACGGTAAGCT-C-TACGAGCTG
*
37302421 AAACGGTAAGCTCATACAAGCTG
1 AAACGGTAAGCTC-TACGAGCTG
37302444 GGGTGAGTCT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
22 3 0.08
23 34 0.85
24 1 0.03
25 2 0.05
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.19
Consensus pattern (22 bp):
AAACGGTAAGCTCTACGAGCTG
Found at i:37309342 original size:7 final size:7
Alignment explanation
Indices: 37309330--37309361 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
37309320 TTAAAAACTT
37309330 AATTAAC
1 AATTAAC
37309337 AATTAAC
1 AATTAAC
37309344 AATTAAC
1 AATTAAC
37309351 AATTAAC
1 AATTAAC
37309358 AATT
1 AATT
37309362 CAATGTCCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (7 bp):
AATTAAC
Found at i:37312423 original size:106 final size:107
Alignment explanation
Indices: 37312263--37312483 Score: 284
Period size: 106 Copynumber: 2.1 Consensus size: 107
37312253 CCAAGCATCA
* * * * *
37312263 AAGCTAAAATATCGGAACAAGGGAGGTCTGTCTTGAGACTCAGTCTCCAGACTTGAGAAGTTATG
1 AAGCAAAAATAGCGAAACAAGGGAGGTCTGTCTTGAGACTCAGTCTCCAAACTTGAGAAGTCATG
* * * * *
37312328 TTTTGAGACATGGATTTCAATG-TTCGAGACATGTCAACATTG
66 TCTTGAGAAATAGATTTCAATGCTT-GAGACATGTCAAAATCG
* **
37312370 AAGCAAAAATAGCGAAAC-AGGGAGGTCTGTCTTGAGACTGAGTCTTTAAACTTGAGAAGTCATG
1 AAGCAAAAATAGCGAAACAAGGGAGGTCTGTCTTGAGACTCAGTCTCCAAACTTGAGAAGTCATG
* *
37312434 TCTTGAGAAATAGATTTCAATGCTTGATACGTGTCAAAATCG
66 TCTTGAGAAATAGATTTCAATGCTTGAGACATGTCAAAATCG
37312476 AAGCAAAA
1 AAGCAAAA
37312484 TTTCTAGAAA
Statistics
Matches: 98, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
106 81 0.83
107 17 0.17
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (107 bp):
AAGCAAAAATAGCGAAACAAGGGAGGTCTGTCTTGAGACTCAGTCTCCAAACTTGAGAAGTCATG
TCTTGAGAAATAGATTTCAATGCTTGAGACATGTCAAAATCG
Found at i:37318396 original size:7 final size:7
Alignment explanation
Indices: 37318386--37318411 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
37318376 CGTATACCTA
37318386 ATACCAT
1 ATACCAT
37318393 ATACCAT
1 ATACCAT
37318400 ATACCAT
1 ATACCAT
37318407 ATACC
1 ATACC
37318412 TTACTGCCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.31, G:0.00, T:0.27
Consensus pattern (7 bp):
ATACCAT
Found at i:37318397 original size:14 final size:15
Alignment explanation
Indices: 37318378--37318412 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
37318368 TCTTACAGCG
37318378 TATACCTA-ATACCA
1 TATACCTATATACCA
37318392 TATACC-ATATACCA
1 TATACCTATATACCA
37318406 TATACCT
1 TATACCT
37318413 TACTGCCATG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.05
14 18 0.95
ACGTcount: A:0.40, C:0.29, G:0.00, T:0.31
Consensus pattern (15 bp):
TATACCTATATACCA
Found at i:37320985 original size:28 final size:28
Alignment explanation
Indices: 37320946--37321071 Score: 180
Period size: 28 Copynumber: 4.5 Consensus size: 28
37320936 TGACTTTCGA
* *
37320946 CACTAAGTGTGCGAATTTAATTGTAAAA
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
37320974 CACTAAGTGTGCGAGTTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* *
37321002 CACTAAGTGTGCGAGTTTAATGGCAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* * **
37321030 CACTAAGTGTGCGAGTTTGATTTTTGAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
37321058 CACTAAGTGTGCGA
1 CACTAAGTGTGCGA
37321072 ACTTATTAAA
Statistics
Matches: 88, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 88 1.00
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATTGTAAAG
Found at i:37327862 original size:15 final size:17
Alignment explanation
Indices: 37327844--37327875 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
37327834 CCAAAACATC
37327844 AAAAGAA-AAAG-TAAG
1 AAAAGAAGAAAGCTAAG
37327859 AAAAGAAGAAAGCTAAG
1 AAAAGAAGAAAGCTAAG
37327876 TTCAGCCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 4 0.27
17 4 0.27
ACGTcount: A:0.69, C:0.03, G:0.22, T:0.06
Consensus pattern (17 bp):
AAAAGAAGAAAGCTAAG
Found at i:37328810 original size:28 final size:28
Alignment explanation
Indices: 37328778--37328875 Score: 142
Period size: 28 Copynumber: 3.5 Consensus size: 28
37328768 TGACTTTCGA
37328778 CACTAAGTGTGCGAGTTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* *
37328806 CACTAAGTGTGCGAGTTTAATGGCAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* * **
37328834 CACTAAGTGTGCGAGTTTGATTATTGAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
37328862 CACTAAGTGTGCGA
1 CACTAAGTGTGCGA
37328876 ACTTATTAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 62 1.00
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.30
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATTGTAAAG
Found at i:37329628 original size:23 final size:23
Alignment explanation
Indices: 37329601--37329730 Score: 129
Period size: 23 Copynumber: 5.6 Consensus size: 23
37329591 TTATGCTTAA
* *
37329601 ATGCTATCCAATTTGTTGTATTT
1 ATGCTGTCCAATTTGTTGTATAT
* *
37329624 ATGCTGCCCAAATTGTTGTATAT
1 ATGCTGTCCAATTTGTTGTATAT
* *
37329647 ATGCTGTCCAATTTTTATGCTA-AA
1 ATGCTGTCCAATTTGT-TG-TATAT
*
37329671 ATGCTG-CTCAATTTGATGTATAT
1 ATGCTGTC-CAATTTGTTGTATAT
* **
37329694 ATGCTGCCCAAACTGTTGTATAT
1 ATGCTGTCCAATTTGTTGTATAT
37329717 ATGCTGTCCAATTT
1 ATGCTGTCCAATTT
37329731 TTGGTGTGAA
Statistics
Matches: 85, Mismatches: 17, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
22 2 0.02
23 65 0.76
24 16 0.19
25 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.42
Consensus pattern (23 bp):
ATGCTGTCCAATTTGTTGTATAT
Found at i:37329666 original size:70 final size:70
Alignment explanation
Indices: 37329586--37329732 Score: 233
Period size: 70 Copynumber: 2.1 Consensus size: 70
37329576 ATGTTCATGT
* * * * *
37329586 AATTTTTATGCTTAAATGCT-ATCCAATTTGTTGTATTTATGCTGCCCAAATTGTTGTATATATG
1 AATTTTTATGCTAAAATGCTGCT-CAATTTGATGTATATATGCTGCCCAAACTGTTGTATATATG
37329650 CTGTCC
65 CTGTCC
37329656 AATTTTTATGCTAAAATGCTGCTCAATTTGATGTATATATGCTGCCCAAACTGTTGTATATATGC
1 AATTTTTATGCTAAAATGCTGCTCAATTTGATGTATATATGCTGCCCAAACTGTTGTATATATGC
37329721 TGTCC
66 TGTCC
37329726 AATTTTT
1 AATTTTT
37329733 GGTGTGAAAA
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
70 70 0.99
71 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.44
Consensus pattern (70 bp):
AATTTTTATGCTAAAATGCTGCTCAATTTGATGTATATATGCTGCCCAAACTGTTGTATATATGC
TGTCC
Found at i:37341784 original size:15 final size:15
Alignment explanation
Indices: 37341764--37341792 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
37341754 AGTTGCAACC
37341764 TCAAATGCAACTCCT
1 TCAAATGCAACTCCT
37341779 TCAAATGCAACTCC
1 TCAAATGCAACTCC
37341793 AAGAACGTCA
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:0.34, C:0.34, G:0.07, T:0.24
Consensus pattern (15 bp):
TCAAATGCAACTCCT
Found at i:37347404 original size:18 final size:18
Alignment explanation
Indices: 37347381--37347416 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
37347371 TAAAATATAC
37347381 TCTCTATTTGTT-TTTTAT
1 TCTCTATTT-TTATTTTAT
37347399 TCTCTATTTTTATTTTAT
1 TCTCTATTTTTATTTTAT
37347417 AACAGTAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 15 0.88
ACGTcount: A:0.14, C:0.11, G:0.03, T:0.72
Consensus pattern (18 bp):
TCTCTATTTTTATTTTAT
Found at i:37347684 original size:25 final size:25
Alignment explanation
Indices: 37347650--37347700 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
37347640 TATTTCTTAA
37347650 TTATCCTTAATGAAATTAACTCAAG
1 TTATCCTTAATGAAATTAACTCAAG
37347675 TTATCCTTAATGAAATTAACTCAAG
1 TTATCCTTAATGAAATTAACTCAAG
37347700 T
1 T
37347701 AACTCATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (25 bp):
TTATCCTTAATGAAATTAACTCAAG
Found at i:37352440 original size:162 final size:163
Alignment explanation
Indices: 37352151--37352465 Score: 499
Period size: 162 Copynumber: 1.9 Consensus size: 163
37352141 TTACTAAAAA
37352151 AAGCCCATTTTTTAAAAAAATTATGGAAATGGGCCGGTTTTTTAATTATTTACCGGAATGATCCA
1 AAGCCCATTTTTTAAAAAAATTATGGAAATGGGCCGGTTTTTTAATTATTTACCGGAATGATCCA
* * * ** *
37352216 TTTTCCGCGAAATCGCGGCCACGTCAGCGCGATGTCAGGGTACGTGATAGGGCATTGCGTCCACG
66 TTTTCCGCGAAATCGCGGCCACGTCAACGCGATGTCAGGGTACGTCACAGGAAATCGCGTCCACG
*
37352281 TCAGCGCGACCTGCTGACGTGGAATGAAATCGC
131 TCAGCACGACCTGCTGACGTGGAATGAAATCGC
37352314 AAGCCCA-TTTTTAAAAAAATTATGGAAATGGGCCGGTTTTTTAATTATTTACCGGAATGATCCA
1 AAGCCCATTTTTTAAAAAAATTATGGAAATGGGCCGGTTTTTTAATTATTTACCGGAATGATCCA
* *
37352378 TTTTCCGCGAAATCGCGGCCACGTCAACGCGATTTCAGGGTACG-CACCAGGAAATCGCGTCCAT
66 TTTTCCGCGAAATCGCGGCCACGTCAACGCGATGTCAGGGTACGTCA-CAGGAAATCGCGTCCAC
** *
37352442 GTCAGCACGATTTGCTTACGTGGA
130 GTCAGCACGACCTGCTGACGTGGA
37352466 CACAAATCGC
Statistics
Matches: 139, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
161 1 0.01
162 131 0.94
163 7 0.05
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (163 bp):
AAGCCCATTTTTTAAAAAAATTATGGAAATGGGCCGGTTTTTTAATTATTTACCGGAATGATCCA
TTTTCCGCGAAATCGCGGCCACGTCAACGCGATGTCAGGGTACGTCACAGGAAATCGCGTCCACG
TCAGCACGACCTGCTGACGTGGAATGAAATCGC
Found at i:37356914 original size:14 final size:15
Alignment explanation
Indices: 37356897--37356930 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
37356887 AATAAATATC
37356897 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
37356911 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
37356926 TAAAA
1 TAAAA
37356931 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:37357156 original size:22 final size:22
Alignment explanation
Indices: 37357126--37357167 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
37357116 ATTTGGAGAT
*
37357126 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
37357148 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
37357168 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:37357175 original size:30 final size:30
Alignment explanation
Indices: 37357139--37357197 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
37357129 TTGAAGGAAA
* *
37357139 TTGAGAGGATTTTGGAAGGAATTTGAGAGT
1 TTGAGAGAATTTTGAAAGGAATTTGAGAGT
37357169 TTGAGAGAATTTTGAAAGGAATTTGAGAG
1 TTGAGAGAATTTTGAAAGGAATTTGAGAG
37357198 AATTTTTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.32
Consensus pattern (30 bp):
TTGAGAGAATTTTGAAAGGAATTTGAGAGT
Found at i:37357194 original size:22 final size:22
Alignment explanation
Indices: 37357168--37357216 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
37357158 AATTTGAGAG
37357168 TTTGAGAGAA-TTTTGAAAGGAA
1 TTTGAGAGAATTTTTG-AAGGAA
37357190 TTTGAGAGAATTTTTGAAGGAA
1 TTTGAGAGAATTTTTGAAGGAA
*
37357212 ATTGA
1 TTTGA
37357217 TATTGAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 20 0.80
23 5 0.20
ACGTcount: A:0.39, C:0.00, G:0.27, T:0.35
Consensus pattern (22 bp):
TTTGAGAGAATTTTTGAAGGAA
Found at i:37364352 original size:23 final size:23
Alignment explanation
Indices: 37364309--37364352 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
37364299 TATTATTTCA
*
37364309 TTTCTTTTTATTTTTTATTTATC
1 TTTCTTTTTATTTTGTATTTATC
37364332 TTTCTTTTTAATTTTGT-TTTA
1 TTTCTTTTT-ATTTTGTATTTA
37364353 GTTGCTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.14, C:0.07, G:0.02, T:0.77
Consensus pattern (23 bp):
TTTCTTTTTATTTTGTATTTATC
Found at i:37380781 original size:19 final size:20
Alignment explanation
Indices: 37380737--37380787 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
37380727 CTAAGCTTGA
*
37380737 AGTACCGATACTTTCTCTTT
1 AGTATCGATACTTTCTCTTT
37380757 -GATATCGATACTTTC-CTTT
1 AG-TATCGATACTTTCTCTTT
37380776 AGTATCGATACT
1 AGTATCGATACT
37380788 ATTTTGGCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.43
Consensus pattern (20 bp):
AGTATCGATACTTTCTCTTT
Found at i:37381264 original size:16 final size:15
Alignment explanation
Indices: 37381232--37381276 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
37381222 TTAAGGTTCA
*
37381232 AATCAA-ATTCTATC
1 AATCAATATTCTACC
37381246 AATCAATATATCTACC
1 AATCAATAT-TCTACC
37381262 AATCAATATTTCTAC
1 AATCAATA-TTCTAC
37381277 ATTCAATGGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
14 6 0.22
15 2 0.07
16 18 0.67
17 1 0.04
ACGTcount: A:0.42, C:0.22, G:0.00, T:0.36
Consensus pattern (15 bp):
AATCAATATTCTACC
Found at i:37382972 original size:26 final size:27
Alignment explanation
Indices: 37382920--37382972 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
37382910 ACCATAGCAC
* *
37382920 AAATCAGTCATTTACCCTCGAGGGGCA
1 AAATCAGTCATTTACCCTCCAGAGGCA
37382947 AAAT-AGTCATTTACCCTCCAGAGGCA
1 AAATCAGTCATTTACCCTCCAGAGGCA
37382973 TTACGGTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (27 bp):
AAATCAGTCATTTACCCTCCAGAGGCA
Found at i:37386347 original size:26 final size:27
Alignment explanation
Indices: 37386291--37386349 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 27
37386281 TTATGGAAAA
* * *
37386291 TTTTCTTTCTTTTTTTCTCTGGTTTTC
1 TTTTCTTCCCTTTTTTCTCTGCTTTTC
37386318 -TTTCTTCCCTTTTTTCTCT-CTTTTC
1 TTTTCTTCCCTTTTTTCTCTGCTTTTC
37386343 TTTTCTT
1 TTTTCTT
37386350 TCTTTCCTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 5 0.18
26 23 0.82
ACGTcount: A:0.00, C:0.24, G:0.03, T:0.73
Consensus pattern (27 bp):
TTTTCTTCCCTTTTTTCTCTGCTTTTC
Found at i:37388892 original size:11 final size:12
Alignment explanation
Indices: 37388872--37388897 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
37388862 GGCTAGGCTG
37388872 TTTTGTTTTTTT
1 TTTTGTTTTTTT
37388884 TTTTGTTTTTTT
1 TTTTGTTTTTTT
37388896 TT
1 TT
37388898 AAACTGTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (12 bp):
TTTTGTTTTTTT
Found at i:37389695 original size:5 final size:5
Alignment explanation
Indices: 37389685--37389710 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
37389675 TGAGCATTCG
37389685 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
37389711 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:37396504 original size:18 final size:17
Alignment explanation
Indices: 37396473--37396507 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
37396463 AATTTAGGGT
37396473 TTAAAATTTTTAATTAA
1 TTAAAATTTTTAATTAA
37396490 TTAAAATTATTTAATTAA
1 TTAAAATT-TTTAATTAA
37396508 AAATCTATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTAAAATTTTTAATTAA
Found at i:37397158 original size:24 final size:24
Alignment explanation
Indices: 37397089--37397161 Score: 94
Period size: 24 Copynumber: 3.0 Consensus size: 24
37397079 GGTAAGACAT
* *
37397089 TTTCCACAGCTCCTCTCTTCAACC
1 TTTCCATAGCTCCTCTCTTCACCC
*
37397113 TTTCCACT-GTTCCTCTCTTCACCC
1 TTTCCA-TAGCTCCTCTCTTCACCC
*
37397137 TTTCCATAGCTCCTCTATTCACCC
1 TTTCCATAGCTCCTCTCTTCACCC
37397161 T
1 T
37397162 ATCGATTGCA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
23 1 0.02
24 41 0.98
ACGTcount: A:0.14, C:0.44, G:0.04, T:0.38
Consensus pattern (24 bp):
TTTCCATAGCTCCTCTCTTCACCC
Done.