Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 62 of 295
Found at i:17955731 original size:22 final size:22
Alignment explanation
Indices: 17955703--17955749 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
17955693 AGTGGCGTAA
*
17955703 TAACAGAAACGCCTTACCTATT
1 TAACAGAAACGCCTTACATATT
17955725 TAACAGAAACGCCTTACATATT
1 TAACAGAAACGCCTTACATATT
17955747 TAA
1 TAA
17955750 TCGGAATAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (22 bp):
TAACAGAAACGCCTTACATATT
Found at i:17956925 original size:14 final size:14
Alignment explanation
Indices: 17956906--17956976 Score: 56
Period size: 14 Copynumber: 5.0 Consensus size: 14
17956896 ACCCCAGACT
17956906 CCTAAACCTTAAAC
1 CCTAAACCTTAAAC
*
17956920 CCTAAACACCCTAATAC
1 CCT-AA-ACCTTAA-AC
17956937 CCT-AACCTTAAA-
1 CCTAAACCTTAAAC
* * *
17956949 CCTACATCGTAAAC
1 CCTAAACCTTAAAC
*
17956963 CCTAAACTTTAAAC
1 CCTAAACCTTAAAC
17956977 TTTACACTGT
Statistics
Matches: 43, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
12 3 0.07
13 7 0.16
14 19 0.44
15 3 0.07
16 6 0.14
17 5 0.12
ACGTcount: A:0.41, C:0.35, G:0.01, T:0.23
Consensus pattern (14 bp):
CCTAAACCTTAAAC
Found at i:17957411 original size:113 final size:115
Alignment explanation
Indices: 17957213--17957418 Score: 290
Period size: 113 Copynumber: 1.8 Consensus size: 115
17957203 ATCAACAAAT
* * * *
17957213 CGCCGCTAATACTATGCTTTAGCGGCGTTTTACCGAAATCGCCACTAAATCAAGTATACATCAAG
1 CGCCGCTAATACTATGCTTTAACGGCGTTTCACCGAAAGCGCCACTAAATCAACTATACATCAAG
*
17957278 ACCAAAACGATGCGTTTTGGTTCAGATACTTGGTGGCGCTTTTATCCAAG
66 ACCAAAACGATGCGTTTTGGTTAAGATACTTGGTGGCGCTTTTATCCAAG
* * * *
17957328 CGCCGCTAATACTATGCTTTAACGGCGTTTCA-C-TAAGCGCCACTAATTCTACTATACATCGAG
1 CGCCGCTAATACTATGCTTTAACGGCGTTTCACCGAAAGCGCCACTAAATCAACTATACATCAAG
* **
17957391 GCCAAAATTATGCGTTTTGGTTAAGATA
66 ACCAAAACGATGCGTTTTGGTTAAGATA
17957419 TTTTGCTGCT
Statistics
Matches: 79, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
113 48 0.61
114 1 0.01
115 30 0.38
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (115 bp):
CGCCGCTAATACTATGCTTTAACGGCGTTTCACCGAAAGCGCCACTAAATCAACTATACATCAAG
ACCAAAACGATGCGTTTTGGTTAAGATACTTGGTGGCGCTTTTATCCAAG
Found at i:17957588 original size:208 final size:209
Alignment explanation
Indices: 17957229--17957861 Score: 741
Period size: 208 Copynumber: 2.9 Consensus size: 209
17957219 TAATACTATG
* * * * ** * *
17957229 CTTTAGCGGCGTTTTACCGAAATCGCCACTAAATCAAGTATACATCAAGACCAAAACGA-TGCGT
1 CTTTAGCGGCGGTTTACCGTAAGCGCCACTAATTTTA-TATACATTAAGATCAAAAC-ACTGCGT
* * * * ** * *
17957293 TTTGGTTCAGATACTTGGTGGCGCT-TTTATCCAAGCGCCGCTAATACTATGCTTTAACGGCGTT
64 TTTTGTTAAGATATTTTGTGGCGCTAGCTA-CAAATCGCCGCTAATACTATGCTTTAACGGCGTT
17957357 TCACTAAGCGCCACTAATTCTACTATACATCGAGGCCAAAATTATGCGTTTTGGTTAAGATATTT
128 TCACTAAGCGCCACTAATTCTACTATACATCGAGGCCAAAATTATGCGTTTTGGTTAAGATATTT
17957422 TGCT-GCTATTAATATT
193 TGCTCGCTATTAATATT
17957438 CTTTAGCGGCGGTTTACCGTAAGCGCCACTAATTTTATATACATTAAGATCAAAACACTGCGTTT
1 CTTTAGCGGCGGTTTACCGTAAGCGCCACTAATTTTATATACATTAAGATCAAAACACTGCGTTT
*
17957503 TTGTTAAGATATTTTGCGGCGCTAGCTACAAATCGCCGCTAATACTATGCTTTAACGGCGTTTCA
66 TTGTTAAGATATTTTGTGGCGCTAGCTACAAATCGCCGCTAATACTATGCTTTAACGGCGTTTCA
17957568 CTAAGCGCCACTAATTCTACTATACATCGAGGCCAAAATTATGCGTTTTGGTTAAGATATTTTGC
131 CTAAGCGCCACTAATTCTACTATACATCGAGGCCAAAATTATGCGTTTTGGTTAAGATATTTT--
17957633 GGCGCTTCTCACAAAGCGCCGCTATTAATATT
194 ---G---CT----------CGCTATTAATATT
*
17957665 CTTTAGCGGCGGTTTACCGTAAGCGCCACTAATTTTATATACATTAAGATCAAAACGCTGCGTTT
1 CTTTAGCGGCGGTTTACCGTAAGCGCCACTAATTTTATATACATTAAGATCAAAACACTGCGTTT
* * *
17957730 TTGTTAAGATATTTTGTGGCGCTAGCTACAAATCGCCGCTAATACTATTCTTTAGCGGCGTTTGA
66 TTGTTAAGATATTTTGTGGCGCTAGCTACAAATCGCCGCTAATACTATGCTTTAACGGCGTTTCA
* * * * * * ** * * * *
17957795 CCATATGCGCCACTAGTTCTAGTATAAATCAAGACCAAAACGATGTGTTTCGCTTAAGATAGTTT
131 -C-TAAGCGCCACTAATTCTACTATACATCGAGGCCAAAATTATGCGTTTTGGTTAAGATATTTT
17957860 GC
194 GC
17957862 GGCGCTTCCA
Statistics
Matches: 367, Mismatches: 34, Indels: 34
0.84 0.08 0.08
Matches are distributed among these distances:
207 1 0.00
208 140 0.38
209 33 0.09
213 1 0.00
216 2 0.01
221 1 0.00
224 1 0.00
227 137 0.37
228 1 0.00
229 50 0.14
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.33
Consensus pattern (209 bp):
CTTTAGCGGCGGTTTACCGTAAGCGCCACTAATTTTATATACATTAAGATCAAAACACTGCGTTT
TTGTTAAGATATTTTGTGGCGCTAGCTACAAATCGCCGCTAATACTATGCTTTAACGGCGTTTCA
CTAAGCGCCACTAATTCTACTATACATCGAGGCCAAAATTATGCGTTTTGGTTAAGATATTTTGC
TCGCTATTAATATT
Found at i:17957751 original size:114 final size:113
Alignment explanation
Indices: 17957426--17958092 Score: 594
Period size: 113 Copynumber: 5.9 Consensus size: 113
17957416 ATATTTTGCT
* * * *
17957426 GCTATTAATATTCTTTAGCGGCGGTTTACCGTAAGCGCCACTAATTTTATATACATTAAGATCAA
1 GCTATTACTATTCTTTAGCGGC-GTTTACCATAAGCGCCACTAATTTTATATACATCAAGACCAA
* * * *
17957491 AACACTGCGTTTTTGTTAAGATATTTTGCGGCGCTAGCT-ACAAATCGCC
65 AACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCT-TCTCACAAAGCGCC
* * * * * *
17957540 GCTAATACTATGCTTTAACGGCGTTT--CACTAAGCGCCACTAATTCTACTATACATCGAGGCCA
1 GCTATTACTATTCTTTAGCGGCGTTTACCA-TAAGCGCCACTAATTTTA-TATACATCAAGACCA
***
17957603 AAATTATGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAGCGCC
64 AAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAGCGCC
* * * *
17957653 GCTATTAATATTCTTTAGCGGCGGTTTACCGTAAGCGCCACTAATTTTATATACATTAAGATCAA
1 GCTATTACTATTCTTTAGCGGC-GTTTACCATAAGCGCCACTAATTTTATATACATCAAGACCAA
* * * *
17957718 AACGCTGCGTTTTTGTTAAGATATTTTGTGGCGCTAGCT-ACAAATCGCC
65 AACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCT-TCTCACAAAGCGCC
* * * * *
17957767 GCTAATACTATTCTTTAGCGGCGTTTGACCATATGCGCCACTAGTTCTAGTATAAATCAAGACCA
1 GCTATTACTATTCTTTAGCGGCGTTT-ACCATAAGCGCCACTAATTTTA-TATACATCAAGACCA
* * * * * * *
17957832 AAACGATGTGTTTCGCTTAAGATAGTTTGCGGCGCTTC-CATAAAGCGTC
64 AAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAGCGCC
* * * * * * * *
17957881 GCTATTACTGTACTTTAACGGCGTTTTCCTATAAACGCCACTAATTCTAAGATACCTCAAGACC-
1 GCTATTACTATTCTTTAGCGGCGTTTACC-ATAAGCGCCACTAATT-TTATATACATCAAGACCA
* * * * *
17957945 AAACTCTGTGTTTTGGTTAAGCTATTTTGCGGCGTTTC-CAGAAAGCGCC
64 AAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAGCGCC
* * ** * * * * * *
17957994 GCTATTACTGTCCTTTAATGGCGTTT-CGCGTAAACGCCACTACTTTTAAGATAGATCAAGACGA
1 GCTATTACTATTCTTTAGCGGCGTTTAC-CATAAGCGCCACTAATTTT-ATATACATCAAGACCA
* * * *
17958058 AAACACAGCGTTTTGGTTAAGAGATTTCGCGGCGC
64 AAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGC
17958093 ATTGTGGTAA
Statistics
Matches: 448, Mismatches: 90, Indels: 31
0.79 0.16 0.05
Matches are distributed among these distances:
111 2 0.00
112 46 0.10
113 173 0.39
114 165 0.37
115 61 0.14
116 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (113 bp):
GCTATTACTATTCTTTAGCGGCGTTTACCATAAGCGCCACTAATTTTATATACATCAAGACCAAA
ACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAGCGCC
Found at i:17957997 original size:227 final size:227
Alignment explanation
Indices: 17957426--17957978 Score: 671
Period size: 227 Copynumber: 2.4 Consensus size: 227
17957416 ATATTTTGCT
* * * * * * *
17957426 GCTATTAATATTCTTTAGCGGCGGTTTACCGTAAGCGCCACTAATTTTATATACATTAAGATCAA
1 GCTATTAATATACTTTAACGGCGGTTTACCATAAACGCCACTAATTTAAGATACATCAAGATCAA
17957491 AACACTGCGTTTTTGTTAAGATATTTTGCGGCGCTAGCTACAAATCGCCGCTAATACTATGCTTT
66 AACACTGCGTTTTTGTTAAGATATTTTGCGGCGCTAGCTACAAATCGCCGCTAATACTATGCTTT
* * * ** * *
17957556 AACGGCGTTTCACTAAGCGCCACTAATTCTACTATACATCGAGGCCAAAATTATGCGTTTTGGTT
131 AACGGCGTTTCACTAAGCGCCACTAATTCTACTATAAATCAAGACCAAAACGATGCGTTTCGCTT
*
17957621 AAGATATTTTGCGGCGCTTCTCACAAAGCGCC
196 AAGATAGTTTGCGGCGCTTCTCACAAAGCGCC
* * * * * * *
17957653 GCTATTAATATTCTTTAGCGGCGGTTTACCGTAAGCGCCACTAATTTTATATACATTAAGATCAA
1 GCTATTAATATACTTTAACGGCGGTTTACCATAAACGCCACTAATTTAAGATACATCAAGATCAA
* * *
17957718 AACGCTGCGTTTTTGTTAAGATATTTTGTGGCGCTAGCTACAAATCGCCGCTAATACTATTCTTT
66 AACACTGCGTTTTTGTTAAGATATTTTGCGGCGCTAGCTACAAATCGCCGCTAATACTATGCTTT
* * * * * *
17957783 AGCGGCGTTTGACCATATGCGCCACTAGTTCTAGTATAAATCAAGACCAAAACGATGTGTTTCGC
131 AACGGCGTTTCA-C-TAAGCGCCACTAATTCTACTATAAATCAAGACCAAAACGATGCGTTTCGC
* *
17957848 TTAAGATAGTTTGCGGCGCTTC-CATAAAGCGTC
194 TTAAGATAGTTTGCGGCGCTTCTCACAAAGCGCC
* * * *
17957881 GCTATTACTGTACTTTAACGGC-GTTTTCCTATAAACGCCACTAATTCTAAGATACCTCAAGA-C
1 GCTATTAATATACTTTAACGGCGGTTTACC-ATAAACGCCACTAATT-TAAGATACATCAAGATC
* * * * *
17957944 CAAACTCTGTGTTTTGGTTAAGCTATTTTGCGGCG
64 AAAACACTGCGTTTTTGTTAAGATATTTTGCGGCG
17957979 TTTCCAGAAA
Statistics
Matches: 286, Mismatches: 36, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
227 143 0.50
228 72 0.25
229 71 0.25
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (227 bp):
GCTATTAATATACTTTAACGGCGGTTTACCATAAACGCCACTAATTTAAGATACATCAAGATCAA
AACACTGCGTTTTTGTTAAGATATTTTGCGGCGCTAGCTACAAATCGCCGCTAATACTATGCTTT
AACGGCGTTTCACTAAGCGCCACTAATTCTACTATAAATCAAGACCAAAACGATGCGTTTCGCTT
AAGATAGTTTGCGGCGCTTCTCACAAAGCGCC
Found at i:17960432 original size:14 final size:14
Alignment explanation
Indices: 17960410--17960442 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
17960400 GTCATCTCAC
*
17960410 TATTATATTGTTAT
1 TATTTTATTGTTAT
17960424 TATTTTATTGTTAT
1 TATTTTATTGTTAT
17960438 TATTT
1 TATTT
17960443 GAATATTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (14 bp):
TATTTTATTGTTAT
Found at i:17966073 original size:16 final size:16
Alignment explanation
Indices: 17966038--17966078 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
17966028 AAAATATAGC
*
17966038 ATTATATCTATTGTGT
1 ATTATATCAATTGTGT
17966054 ATTATATCAATTGATG-
1 ATTATATCAATTG-TGT
17966070 ATTA-ATCAA
1 ATTATATCAA
17966079 AAGTGTGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 5 0.22
16 16 0.70
17 2 0.09
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.46
Consensus pattern (16 bp):
ATTATATCAATTGTGT
Found at i:17969626 original size:15 final size:14
Alignment explanation
Indices: 17969603--17969683 Score: 53
Period size: 15 Copynumber: 5.7 Consensus size: 14
17969593 TTCATTTAGC
*
17969603 TTTAAATATTATTCA
1 TTTATATATTATT-A
17969618 TTTATATA-TATTA
1 TTTATATATTATTA
*
17969631 TTGT-TATCACTATTA
1 TT-TATAT-ATTATTA
*
17969646 TTTTTATATTATTA
1 TTTATATATTATTA
17969660 -TTATAT-TATATTTA
1 TTTATATAT-TA-TTA
*
17969674 GTTATATATT
1 TTTATATATT
17969684 TTAAATATCT
Statistics
Matches: 55, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
12 1 0.02
13 13 0.24
14 16 0.29
15 24 0.44
16 1 0.02
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (14 bp):
TTTATATATTATTA
Found at i:17969663 original size:17 final size:19
Alignment explanation
Indices: 17969641--17969685 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 19
17969631 TTGTTATCAC
17969641 TATTATTTTTATA-TTA-T
1 TATTATTTTTATATTTAGT
*
17969658 TATTA-TATTATATTTAGT
1 TATTATTTTTATATTTAGT
17969676 TATATATTTT
1 TAT-TATTTT
17969686 AAATATCTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
16 6 0.27
17 8 0.36
18 4 0.18
19 2 0.09
20 2 0.09
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (19 bp):
TATTATTTTTATATTTAGT
Found at i:17969735 original size:3 final size:3
Alignment explanation
Indices: 17969727--17969768 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
17969717 TATATATTTT
* *
17969727 TTA TTA TTA GTA TTA TTA TTA -TA TTCA TTA TTA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA
17969769 GTACTAGTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:17969744 original size:12 final size:11
Alignment explanation
Indices: 17969727--17969768 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 11
17969717 TATATATTTT
17969727 TTATTATTAGTA
1 TTATTATTA-TA
17969739 TTATTATTATA
1 TTATTATTATA
17969750 TTCATTATTAATA
1 TT-ATTATT-ATA
17969763 TTATTA
1 TTATTA
17969769 GTACTAGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
11 4 0.14
12 19 0.68
13 5 0.18
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (11 bp):
TTATTATTATA
Found at i:17969896 original size:21 final size:21
Alignment explanation
Indices: 17969872--17970036 Score: 89
Period size: 21 Copynumber: 7.8 Consensus size: 21
17969862 TCATTTTTAA
*
17969872 TATATATATTGTATATGTTTT
1 TATATATATTGTATATATTTT
17969893 TATATATATTATGTATATATTTT
1 TATATATA-T-TGTATATATTTT
17969916 TA-ATATTATTAGT-TATATTTT
1 TATATA-TATT-GTATATATTTT
* * *
17969937 TTTATACTATTTCGTGTATATATT
1 TATATA-TA-TT-GTATATATTTT
*
17969961 TATAT-TATCCT-TAT-TATTAT
1 TATATATAT--TGTATATATTTT
*
17969981 TAT-TAATATTAGTATAT-GTTT
1 TATAT-ATATT-GTATATATTTT
*
17970002 TAT-TATA-TGTATATATCTT
1 TATATATATTGTATATATTTT
17970021 TA-ATATATATGTATAT
1 TATATATAT-TGTATAT
17970037 CTTTATGTAA
Statistics
Matches: 113, Mismatches: 13, Indels: 36
0.70 0.08 0.22
Matches are distributed among these distances:
18 6 0.05
19 11 0.10
20 10 0.09
21 40 0.35
22 15 0.13
23 20 0.18
24 11 0.10
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.59
Consensus pattern (21 bp):
TATATATATTGTATATATTTT
Found at i:17969897 original size:23 final size:23
Alignment explanation
Indices: 17969864--17970036 Score: 92
Period size: 20 Copynumber: 8.0 Consensus size: 23
17969854 CATTATTATC
17969864 ATTTTTAATATATATATTGTATAT
1 ATTTTT-ATATATATATTGTATAT
*
17969888 GTTTTTATATATAT-TATGTATAT
1 ATTTTTATATATATAT-TGTATAT
17969911 ATTTTTA-ATAT-TATTAGT-TAT
1 ATTTTTATATATATATT-GTATAT
* *
17969932 ATTTTTTTATACTAT-TTCGTGTAT
1 ATTTTTATATA-TATATT-GTATAT
* **
17969956 ATATTTATAT-TATCCT-TAT-T
1 ATTTTTATATATATATTGTATAT
*
17969976 ATTATTAT-TA-ATA-T-TAGTAT
1 ATTTTTATATATATATTGTA-TAT
*
17969996 ATGTTT-TAT-TATA-TGTATAT
1 ATTTTTATATATATATTGTATAT
*
17970016 ATCTTTA-ATATATA-TGTATAT
1 ATTTTTATATATATATTGTATAT
17970037 CTTTATGTAA
Statistics
Matches: 119, Mismatches: 14, Indels: 35
0.71 0.08 0.21
Matches are distributed among these distances:
18 3 0.03
19 5 0.04
20 27 0.23
21 26 0.22
22 14 0.12
23 27 0.23
24 17 0.14
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.59
Consensus pattern (23 bp):
ATTTTTATATATATATTGTATAT
Found at i:17969918 original size:47 final size:47
Alignment explanation
Indices: 17969864--17969961 Score: 121
Period size: 47 Copynumber: 2.1 Consensus size: 47
17969854 CATTATTATC
*
17969864 ATTTTTAATA-TATATATTGTATATGTTTTTATA-TATATT-ATGTATAT
1 ATTTTTAATATTAT-TAGT-TATATGTTTTTATACTAT-TTCATGTATAT
* *
17969911 ATTTTTAATATTATTAGTTATATTTTTTTATACTATTTCGTGTATAT
1 ATTTTTAATATTATTAGTTATATGTTTTTATACTATTTCATGTATAT
17969958 ATTT
1 ATTT
17969962 ATATTATCCT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
46 15 0.33
47 27 0.60
48 3 0.07
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (47 bp):
ATTTTTAATATTATTAGTTATATGTTTTTATACTATTTCATGTATAT
Found at i:17969985 original size:217 final size:226
Alignment explanation
Indices: 17969754--17970167 Score: 498
Period size: 217 Copynumber: 1.9 Consensus size: 226
17969744 ATTATATTCA
*
17969754 TTATTAATATTATTAGTACTAGTAT-TGATTTTCACTTAATAT-T-TATATATGT-ATATACATG
1 TTATTAATATTATTAATACTAGTATATG-TTTT-A-TT-ATATGTATATATATGTAATATACATG
* * *
17969815 TACATATTTATGTAGT-GTATTAATAGTTTTTATTTTTCACATTATTATCATTTT-TAATA-TAT
62 TACATATTTATGTAATAGTATTAATAG-TTGT-TTTTTAACATTATTATCATTTTCTAATAGTAT
* * * *
17969877 ATA-T-TGTATATGTTTTTATA-TATATTATGTATATATTTTTAATAT-TATTA-GT-TATAT-T
125 ATACTATGTAAATATTTTAATACTATATTATGTATACATTTTTAATATATATTACGTATATATAT
17969935 -TTTTTATACTATTTCGTGTATATATTTATATTATCC
190 CTTTTTATACTATTTCGTGTATATATTTATATTATCC
* * * * * *
17969971 TTATTATTATTATTAATATTAGTATATGTTTTATTATATGTATATATCTTTAATATATATGTATA
1 TTATTAATATTATTAATACTAGTATATGTTTTATTATATGTATATATATGTAATATACATGTACA
* * *
17970036 TCTTTATGTAATATTATTAATAGTTGTTTTTTAACATTATTATTATTTTCTAATATGTATATACT
66 TATTTATGTAATAGTATTAATAGTTGTTTTTTAACATTATTATCATTTTCTAATA-GTATATACT
*
17970101 ATGTAAATATTTTAATACTATATTATGTATACATTTTTTATATATATTACGTATATATATCTTTT
130 ATGTAAATATTTTAATACTATATTATGTATACATTTTTAATATATATTACGTATATATATCTTTT
17970166 TA
195 TA
17970168 ATATTGTATT
Statistics
Matches: 163, Mismatches: 18, Indels: 22
0.80 0.09 0.11
Matches are distributed among these distances:
214 4 0.02
215 3 0.02
216 28 0.17
217 55 0.34
218 11 0.07
219 6 0.04
220 1 0.01
221 13 0.08
222 23 0.14
223 5 0.03
224 2 0.01
225 5 0.03
226 1 0.01
227 6 0.04
ACGTcount: A:0.33, C:0.05, G:0.06, T:0.56
Consensus pattern (226 bp):
TTATTAATATTATTAATACTAGTATATGTTTTATTATATGTATATATATGTAATATACATGTACA
TATTTATGTAATAGTATTAATAGTTGTTTTTTAACATTATTATCATTTTCTAATAGTATATACTA
TGTAAATATTTTAATACTATATTATGTATACATTTTTAATATATATTACGTATATATATCTTTTT
ATACTATTTCGTGTATATATTTATATTATCC
Found at i:17970049 original size:19 final size:19
Alignment explanation
Indices: 17969983--17970041 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
17969973 ATTATTATTA
*
17969983 TTAATAT-TA-GTATATGT
1 TTAATATATATGTATATCT
*
17970000 TTTAT-TATATGTATATATCT
1 TTAATATATATG--TATATCT
17970020 TTAATATATATGTATATCT
1 TTAATATATATGTATATCT
17970039 TTA
1 TTA
17970042 TGTAATATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
16 1 0.03
17 6 0.18
18 1 0.03
19 10 0.29
20 10 0.29
21 6 0.18
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.56
Consensus pattern (19 bp):
TTAATATATATGTATATCT
Found at i:17970136 original size:24 final size:24
Alignment explanation
Indices: 17970093--17970155 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 24
17970083 TTCTAATATG
*
17970093 TATATACTATGTA-A-ATATTTTAA
1 TATATATTATGTATACAT-TTTTAA
*
17970116 TACTATATTATGTATACATTTTTTA
1 TA-TATATTATGTATACATTTTTAA
*
17970141 TATATATTACGTATA
1 TATATATTATGTATA
17970156 TATATCTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
23 2 0.06
24 22 0.65
25 8 0.24
26 2 0.06
ACGTcount: A:0.38, C:0.06, G:0.05, T:0.51
Consensus pattern (24 bp):
TATATATTATGTATACATTTTTAA
Found at i:17970296 original size:25 final size:25
Alignment explanation
Indices: 17970265--17970312 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
17970255 TTTTAAATAA
**
17970265 CTATATTATGTATGTATTTTTAACG
1 CTATATTATGTACATATTTTTAACG
17970290 CTATATTATGTACATATTTTTAA
1 CTATATTATGTACATATTTTTAA
17970313 TACTATGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.52
Consensus pattern (25 bp):
CTATATTATGTACATATTTTTAACG
Found at i:17970318 original size:25 final size:25
Alignment explanation
Indices: 17970254--17970318 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 25
17970244 TATATAATTT
**
17970254 TTTTTAAATAACTATATTATGTATGTA
1 TTTTT-AAT-ACTATATTATGTACATA
**
17970281 TTTTTAACGCTATATTATGTACATA
1 TTTTTAATACTATATTATGTACATA
17970306 TTTTTAATACTAT
1 TTTTTAATACTAT
17970319 GTATACACTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
25 25 0.78
26 2 0.06
27 5 0.16
ACGTcount: A:0.34, C:0.08, G:0.06, T:0.52
Consensus pattern (25 bp):
TTTTTAATACTATATTATGTACATA
Found at i:17979628 original size:3 final size:3
Alignment explanation
Indices: 17979615--17979687 Score: 53
Period size: 3 Copynumber: 25.0 Consensus size: 3
17979605 ATATAGATAT
* * * *
17979615 TTA TTA TTTA TTA TTA TT- CTA TTA -AA TTA TAA TTT TTA TTA TTA
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
17979659 -AA TTA TGA TTA TTA TGA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
17979688 AAAATAAATT
Statistics
Matches: 52, Mismatches: 14, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
2 3 0.06
3 46 0.88
4 3 0.06
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:17979659 original size:20 final size:20
Alignment explanation
Indices: 17979624--17979678 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
17979614 TTTATTATTT
17979624 ATTATTATTCTATTAAATTATA
1 ATTATTA-T-TATTAAATTATA
* *
17979646 ATTTTTATTATTAAATTATG
1 ATTATTATTATTAAATTATA
*
17979666 ATTATTATGATTA
1 ATTATTATTATTA
17979679 TTATTATTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 22 0.76
21 1 0.03
22 6 0.21
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (20 bp):
ATTATTATTATTAAATTATA
Found at i:17979663 original size:25 final size:26
Alignment explanation
Indices: 17979615--17979702 Score: 72
Period size: 26 Copynumber: 3.3 Consensus size: 26
17979605 ATATAGATAT
* **
17979615 TTATTATTTATTATTATTCTATTAAA
1 TTATAATTTATTATTATTAAATTAAA
*
17979641 TTATAATTT-TTATTATTAAATTATGA
1 TTATAATTTATTATTATTAAATTA-AA
* *
17979667 TTATTATGATTATTATTATTAAAAATAAA
1 TTATAAT--TTATTATTATT-AAATTAAA
17979696 TTA-AATT
1 TTATAATT
17979703 AAAGACAAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
25 12 0.24
26 16 0.33
28 4 0.08
29 12 0.24
30 5 0.10
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.56
Consensus pattern (26 bp):
TTATAATTTATTATTATTAAATTAAA
Found at i:17979698 original size:29 final size:29
Alignment explanation
Indices: 17979640--17979694 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
17979630 ATTCTATTAA
* * *
17979640 ATTATAATTTTTATTATTAAATTATGATT
1 ATTATAATTATTATTATTAAAATATAATT
*
17979669 ATTATGATTATTATTATTAAAA-ATAA
1 ATTATAATTATTATTATTAAAATATAA
17979695 ATTAAATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 3 0.14
29 19 0.86
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (29 bp):
ATTATAATTATTATTATTAAAATATAATT
Found at i:17980058 original size:23 final size:23
Alignment explanation
Indices: 17980032--17980076 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
17980022 AGAACATTTC
17980032 GAAACAGAACAGG-AAAGAAAAAG
1 GAAACA-AACAGGAAAAGAAAAAG
* *
17980055 GAAAGAAAGAGGAAAAGAAAAA
1 GAAACAAACAGGAAAAGAAAAA
17980077 TTAAGGTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.69, C:0.04, G:0.27, T:0.00
Consensus pattern (23 bp):
GAAACAAACAGGAAAAGAAAAAG
Found at i:17980073 original size:12 final size:11
Alignment explanation
Indices: 17980042--17980076 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
17980032 GAAACAGAAC
17980042 AGGAAAGAAAA
1 AGGAAAGAAAA
*
17980053 AGGAAAGAAAG
1 AGGAAAGAAAA
17980064 AGGAAAAGAAAA
1 AGG-AAAGAAAA
17980076 A
1 A
17980077 TTAAGGTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 13 0.62
12 8 0.38
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (11 bp):
AGGAAAGAAAA
Found at i:17981072 original size:6 final size:6
Alignment explanation
Indices: 17981061--17981090 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
17981051 TGCCTACTAT
17981061 TGTTAC TGTTAC TGTTAC TGTTAC TGTTAC
1 TGTTAC TGTTAC TGTTAC TGTTAC TGTTAC
17981091 CGATTCGACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.50
Consensus pattern (6 bp):
TGTTAC
Found at i:17981171 original size:6 final size:6
Alignment explanation
Indices: 17981160--17981211 Score: 52
Period size: 6 Copynumber: 8.3 Consensus size: 6
17981150 GTGTGTTGAA
* *
17981160 TACTGT TACTGT TACTGT TACTGC TACTGC TA-TCGT TACTGAT TACTTGT
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACT-GT TACTG-T TAC-TGT
17981210 TA
1 TA
17981212 GATATTGTGT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
5 1 0.03
6 29 0.73
7 8 0.20
8 2 0.05
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.46
Consensus pattern (6 bp):
TACTGT
Found at i:17981955 original size:16 final size:15
Alignment explanation
Indices: 17981930--17981966 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
17981920 GTCGAAATTT
17981930 ATAAAAAAATAAAAA
1 ATAAAAAAATAAAAA
17981945 ATAATAAAAAT-AAAA
1 ATAA-AAAAATAAAAA
17981960 ATAAAAA
1 ATAAAAA
17981967 TTTGGAGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 3 0.14
15 12 0.57
16 6 0.29
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (15 bp):
ATAAAAAAATAAAAA
Found at i:17985611 original size:76 final size:75
Alignment explanation
Indices: 17985392--17985614 Score: 356
Period size: 75 Copynumber: 3.0 Consensus size: 75
17985382 TTATTCTAAT
* * *
17985392 AATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGAGACACGCTGAGGTATTTTTAATTTCTAT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCTAT
17985457 TTTTCAAAAA
66 TTTTCAAAAA
*
17985467 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTTAATTTCTAT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCTAT
17985532 TTTTCAAAAA
66 TTTTCAAAAA
* * * * *
17985542 AATCAACTCATATTACGAGAGGTGAGTTGAGCCGCGGGTCCACGTTGAGGTATTTTCAATTTCTG
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT-CACGCTGAGGTATTTTTAATTTCTA
17985607 TTTTTCAA
65 TTTTTCAA
17985615 TTTCTACTTT
Statistics
Matches: 137, Mismatches: 10, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
75 107 0.78
76 30 0.22
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (75 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCTAT
TTTTCAAAAA
Found at i:17985625 original size:14 final size:14
Alignment explanation
Indices: 17985594--17985628 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
17985584 CGTTGAGGTA
**
17985594 TTTTCAATTTCTGT
1 TTTTCAATTTCTAC
17985608 TTTTCAATTTCTAC
1 TTTTCAATTTCTAC
17985622 TTTTCAA
1 TTTTCAA
17985629 AAATCAACTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.20, C:0.17, G:0.03, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTAC
Found at i:17985721 original size:13 final size:14
Alignment explanation
Indices: 17985683--17985726 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
17985673 TGCCAAGGTA
*
17985683 TTTTCAAATTCTAT
1 TTTTCAAATTCTGT
17985697 TTTTCAAATTCTGT
1 TTTTCAAATTCTGT
*
17985711 TTTT-AATTTCTGT
1 TTTTCAAATTCTGT
17985724 TTT
1 TTT
17985727 AAAAAAAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
13 11 0.39
14 17 0.61
ACGTcount: A:0.20, C:0.11, G:0.05, T:0.64
Consensus pattern (14 bp):
TTTTCAAATTCTGT
Found at i:17985791 original size:102 final size:103
Alignment explanation
Indices: 17985594--17985814 Score: 288
Period size: 103 Copynumber: 2.2 Consensus size: 103
17985584 CGTTGAGGTA
* * * *
17985594 TTTTCAATTTCTGTTTTTCAATTTCTACTTTTCAAAAATCAACTCATATTGCAAGATGTGAGTTG
1 TTTTCAAATTCTGTTTTTCAATTTCTACTTTTAAAAAAACAACTCATATTGCAAGAGGTGAGTTG
**
17985659 AGCCTTGGGTCACATGCCAAGGTATTTTCAAATTCTAT
66 AGCCTTCAGTCACATGCCAAGGTATTTTCAAATTCTAT
* *
17985697 TTTTCAAATTCTGTTTTT-AATTTCT-GTTTTAAAAAAAAACAACTCATATTGCGAGAGGTGAGT
1 TTTTCAAATTCTGTTTTTCAATTTCTACTTTT--AAAAAAACAACTCATATTGCAAGAGGTGAGT
* * *
17985760 TGAGCC-TCAGTCACATGCTAAGGTATTTTCAATTTCTGT
64 TGAGCCTTCAGTCACATGCCAAGGTATTTTCAAATTCTAT
17985799 TTTTC-AATTCATGTTT
1 TTTTCAAATTC-TGTTT
17985815 CAACAATCAA
Statistics
Matches: 104, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
101 9 0.09
102 45 0.43
103 50 0.48
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.43
Consensus pattern (103 bp):
TTTTCAAATTCTGTTTTTCAATTTCTACTTTTAAAAAAACAACTCATATTGCAAGAGGTGAGTTG
AGCCTTCAGTCACATGCCAAGGTATTTTCAAATTCTAT
Found at i:17985842 original size:86 final size:86
Alignment explanation
Indices: 17985697--17985974 Score: 346
Period size: 86 Copynumber: 3.2 Consensus size: 86
17985687 CAAATTCTAT
* * * *
17985697 TTTTCAAATTCTGTTTTTAATTTCTGTTTTAAAAAAAAACAACTCATATTGCGAGAGGTGAGTTG
1 TTTTCAATTTCTGTTTTTAATGTCTGTTTT--CAAAAATCAACTCATATTGCGAGAGGTGAGTTG
* *
17985762 AGCCTCAGTCACATGCTAAGGTA
64 AGCCTCGGTCACATGCCAAGGTA
*
17985785 TTTTCAATTTCTGTTTTTCAAT-TCATG-TTTCAACAATCAACTCATATTGCGAGAGGTGAGTTG
1 TTTTCAATTTCTGTTTTT-AATGTC-TGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
* * *
17985848 AGCCCCGGGCTACATGCCGAGGTA
64 AGCCTCGGTC-ACATGCCAAGGTA
* *
17985872 -TTTCAATTTCTATTTTTAATGTCTGTTTTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAG
1 TTTTCAATTTCTGTTTTTAATGTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
* *
17985936 CCTTGGCTCACACGCCAAGGTA
66 CCTCGG-TCACATGCCAAGGTA
*
17985958 TTTTCAATTCCTGTTTT
1 TTTTCAATTTCTGTTTT
17985975 CGAAAATCAA
Statistics
Matches: 164, Mismatches: 19, Indels: 15
0.83 0.10 0.08
Matches are distributed among these distances:
85 5 0.03
86 106 0.65
87 26 0.16
88 22 0.13
89 5 0.03
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.38
Consensus pattern (86 bp):
TTTTCAATTTCTGTTTTTAATGTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
CCTCGGTCACATGCCAAGGTA
Found at i:17986009 original size:74 final size:74
Alignment explanation
Indices: 17985894--17986038 Score: 218
Period size: 74 Copynumber: 2.0 Consensus size: 74
17985884 TTTTTAATGT
* * * *
17985894 CTGTTTTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCCAAGGTAT
1 CTGTTTTCAAAAATCAACTCATATTGCGAGAGATGAATTGAGCCTTGGCTCACACACCAAGGTAT
17985959 TTTCAATTC
66 TTTCAATTC
* * * *
17985968 CTGTTTTCGAAAATCAACTCATATTGCGAGAGATGAATTGAGCCTTGGGTCACATACCGAGGTAT
1 CTGTTTTCAAAAATCAACTCATATTGCGAGAGATGAATTGAGCCTTGGCTCACACACCAAGGTAT
17986033 TTTCAA
66 TTTCAA
17986039 ATTCTACTTT
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
74 63 1.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (74 bp):
CTGTTTTCAAAAATCAACTCATATTGCGAGAGATGAATTGAGCCTTGGCTCACACACCAAGGTAT
TTTCAATTC
Found at i:17986056 original size:74 final size:74
Alignment explanation
Indices: 17985897--17986054 Score: 210
Period size: 74 Copynumber: 2.1 Consensus size: 74
17985887 TTAATGTCTG
* * * *
17985897 TTTTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCCAAGGTATTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGATGAATTGAGCCTTGGCTCACACACCAAGGTATTTT
*
17985962 CAATTCCTG
66 CAATTCCTC
* * * *
17985971 TTTTCGAAAATCAACTCATATTGCGAGAGATGAATTGAGCCTTGGGTCACATACCGAGGTATTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGATGAATTGAGCCTTGGCTCACACACCAAGGTATTTT
17986036 CAAATT-CTAC
66 C-AATTCCT-C
17986046 TTTTCAAAA
1 TTTTCAAAA
17986055 TCTGTTTTTA
Statistics
Matches: 72, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
74 60 0.83
75 12 0.17
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (74 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGATGAATTGAGCCTTGGCTCACACACCAAGGTATTTT
CAATTCCTC
Found at i:17987655 original size:15 final size:14
Alignment explanation
Indices: 17987632--17987705 Score: 57
Period size: 14 Copynumber: 5.3 Consensus size: 14
17987622 TTCATTTAGC
*
17987632 TTTAAATATTATTCA
1 TTTATATATTATT-A
17987647 TTTATATA-TATTA
1 TTTATATATTATTA
*
17987660 TTGT-TATCACTATTA
1 TT-TATAT-ATTATTA
*
17987675 TTTTTATATTATTA
1 TTTATATATTATTA
17987689 -TTATTATATTA-TA
1 TTTA-TATATTATTA
17987702 TTTA
1 TTTA
17987706 GGTATATTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 13
0.76 0.05 0.20
Matches are distributed among these distances:
13 10 0.20
14 23 0.46
15 17 0.34
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (14 bp):
TTTATATATTATTA
Found at i:17987764 original size:3 final size:3
Alignment explanation
Indices: 17987756--17987797 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
17987746 GCATATATAT
* *
17987756 TTA TTA TTA TTA GTA TTA TTA -TA TTCA TTA TTA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA
17987798 GTACTAGTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:17987926 original size:23 final size:23
Alignment explanation
Indices: 17987900--17987997 Score: 85
Period size: 23 Copynumber: 4.2 Consensus size: 23
17987890 ATTTCTAATA
*
17987900 TATATATATATCGTATATGTTTT
1 TATATATATATCGTATATATTTT
17987923 TATATATATTAT-GTATATATTTT
1 TATATATA-TATCGTATATATTTT
* *
17987946 TA-ATAT-TATTAGTTATATTTTTT
1 TATATATATA-TCG-TATATATTTT
* * *
17987969 TATATACTATTTCGTGTATATATT
1 TATATA-TATATCGTATATATTTT
17987993 TATAT
1 TATAT
17987998 TATCGTTATT
Statistics
Matches: 61, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
20 2 0.03
21 1 0.02
22 5 0.08
23 31 0.51
24 18 0.30
25 3 0.05
26 1 0.02
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.59
Consensus pattern (23 bp):
TATATATATATCGTATATATTTT
Found at i:17987963 original size:46 final size:46
Alignment explanation
Indices: 17987913--17988000 Score: 117
Period size: 46 Copynumber: 1.9 Consensus size: 46
17987903 ATATATATCG
*
17987913 TATATGTTTTTATATA-TATTAT-GTATATATTTTTAATATTATTAGT
1 TATATGTTTTTATATACTATT-TCGTATATATATTT-ATATTATTAGT
* *
17987959 TATATTTTTTTATATACTATTTCGTGTATATATTTATATTAT
1 TATATGTTTTTATATACTATTTCGTATATATATTTATATTAT
17988001 CGTTATTATT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
46 23 0.62
47 14 0.38
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (46 bp):
TATATGTTTTTATATACTATTTCGTATATATATTTATATTATTAGT
Found at i:17988167 original size:24 final size:24
Alignment explanation
Indices: 17988124--17988186 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 24
17988114 TTCTAATATG
*
17988124 TATATACTATGTA-A-ATATTTTAA
1 TATATATTATGTATACAT-TTTTAA
*
17988147 TACTATATTATGTATACATTTTTTA
1 TA-TATATTATGTATACATTTTTAA
*
17988172 TATATATTACGTATA
1 TATATATTATGTATA
17988187 TATATCTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
23 2 0.06
24 22 0.65
25 8 0.24
26 2 0.06
ACGTcount: A:0.38, C:0.06, G:0.05, T:0.51
Consensus pattern (24 bp):
TATATATTATGTATACATTTTTAA
Found at i:17988301 original size:32 final size:30
Alignment explanation
Indices: 17988240--17988304 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
17988230 TTTCTAATAC
* * *
17988240 TATATTACATTTTTTACATATTATCTTATG
1 TATATTACATTTTTTAAATACTATATTATG
*
17988270 TATATATATATTTTTTAAATAACTATATTATG
1 TATAT-TACATTTTTTAAAT-ACTATATTATG
17988302 TAT
1 TAT
17988305 GTATTTTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 5 0.17
31 12 0.41
32 12 0.41
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.55
Consensus pattern (30 bp):
TATATTACATTTTTTAAATACTATATTATG
Found at i:17988323 original size:25 final size:25
Alignment explanation
Indices: 17988292--17988339 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
17988282 TTTTAAATAA
**
17988292 CTATATTATGTATGTATTTTTAACG
1 CTATATTATGTACATATTTTTAACG
17988317 CTATATTATGTACATATTTTTAA
1 CTATATTATGTACATATTTTTAA
17988340 TACTATGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.52
Consensus pattern (25 bp):
CTATATTATGTACATATTTTTAACG
Found at i:17988345 original size:25 final size:25
Alignment explanation
Indices: 17988281--17988345 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 25
17988271 ATATATATAT
**
17988281 TTTTTAAATAACTATATTATGTATGTA
1 TTTTT-AAT-ACTATATTATGTACATA
**
17988308 TTTTTAACGCTATATTATGTACATA
1 TTTTTAATACTATATTATGTACATA
17988333 TTTTTAATACTAT
1 TTTTTAATACTAT
17988346 GTATACACTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
25 25 0.78
26 2 0.06
27 5 0.16
ACGTcount: A:0.34, C:0.08, G:0.06, T:0.52
Consensus pattern (25 bp):
TTTTTAATACTATATTATGTACATA
Found at i:17991335 original size:27 final size:27
Alignment explanation
Indices: 17991296--17991384 Score: 97
Period size: 27 Copynumber: 3.3 Consensus size: 27
17991286 AGTTGCGCCT
* * * *
17991296 ATAGGCCCTACCAGTCGCACCTGCCAG
1 ATAGGCTCAACCAGTCGCGCCTGTCAG
* *
17991323 ATAGGCTCAACCATTCGCGCCTATCAG
1 ATAGGCTCAACCAGTCGCGCCTGTCAG
* * *
17991350 ATAGGCTCCACCAGTTGCGTCTGTCAG
1 ATAGGCTCAACCAGTCGCGCCTGTCAG
17991377 ATAGGCTC
1 ATAGGCTC
17991385 CGCCAAGTGC
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.22, C:0.34, G:0.22, T:0.21
Consensus pattern (27 bp):
ATAGGCTCAACCAGTCGCGCCTGTCAG
Found at i:17991385 original size:27 final size:27
Alignment explanation
Indices: 17991320--17991415 Score: 90
Period size: 27 Copynumber: 3.6 Consensus size: 27
17991310 TCGCACCTGC
*
17991320 CAGATAGGCTCAACCATTCGCGCCTAT
1 CAGATAGGCTCCACCATTCGCGCCTAT
* *
17991347 CAGATAGGCTCCACCAGTT-GCGTCTGT
1 CAGATAGGCTCCACCA-TTCGCGCCTAT
* *
17991374 CAGATAGGCTCCGCCAAGT-GCGCCTA-
1 CAGATAGGCTCCACC-ATTCGCGCCTAT
*
17991400 CTAGATAGGCGCCACC
1 C-AGATAGGCTCCACC
17991416 TACCCATACC
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
26 1 0.02
27 53 0.93
28 3 0.05
ACGTcount: A:0.23, C:0.33, G:0.24, T:0.20
Consensus pattern (27 bp):
CAGATAGGCTCCACCATTCGCGCCTAT
Found at i:17992545 original size:32 final size:32
Alignment explanation
Indices: 17992508--17992583 Score: 82
Period size: 32 Copynumber: 2.3 Consensus size: 32
17992498 TTTTTTTATA
17992508 ATTTTTTATTTTTAAAAATTATAT-ATTTTTT
1 ATTTTTTATTTTTAAAAATTATATAATTTTTT
** * * *
17992539 ACTTTTTTAAATTTATAATTTATTTAATTTTTT
1 A-TTTTTTATTTTTAAAAATTATATAATTTTTT
17992572 ATGTTTTTATTT
1 AT-TTTTTATTT
17992584 AAAATGTGCA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
31 1 0.03
32 19 0.54
33 15 0.43
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.68
Consensus pattern (32 bp):
ATTTTTTATTTTTAAAAATTATATAATTTTTT
Found at i:17992571 original size:25 final size:24
Alignment explanation
Indices: 17992502--17992572 Score: 90
Period size: 25 Copynumber: 2.9 Consensus size: 24
17992492 AAGTGTTTTT
*
17992502 TTTATAATTTTTT-ATTTTTAAAA
1 TTTATAATTTTTTAATTTTTTAAA
* *
17992525 ATTATATATTTTTTACTTTTTTAAA
1 TTTATA-ATTTTTTAATTTTTTAAA
17992550 TTTATAATTTATTTAATTTTTTA
1 TTTATAATTT-TTTAATTTTTTA
17992573 TGTTTTTATT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
23 5 0.12
24 11 0.28
25 24 0.60
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.66
Consensus pattern (24 bp):
TTTATAATTTTTTAATTTTTTAAA
Found at i:17992808 original size:20 final size:18
Alignment explanation
Indices: 17992779--17992817 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
17992769 TAATGTTTTG
17992779 AAATTAAAATATAAAGAAAA
1 AAATTAAAAT-TAAA-AAAA
*
17992799 AAATTTAAATTAAAAAAA
1 AAATTAAAATTAAAAAAA
17992817 A
1 A
17992818 TAGAGAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 4 0.22
20 9 0.50
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (18 bp):
AAATTAAAATTAAAAAAA
Found at i:17993451 original size:28 final size:26
Alignment explanation
Indices: 17993419--17993479 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 26
17993409 TTTTAAATAA
17993419 TTTTAATGATTTTT-AATTTTACAAACAT
1 TTTTAAT-ATTTTTGAATTTT-CAAA-AT
*
17993447 TTTTACATTTTTTTGAATTTTCAAAAT
1 TTTTA-ATATTTTTGAATTTTCAAAAT
17993474 TTTTAA
1 TTTTAA
17993480 AAAATCAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
26 1 0.03
27 7 0.23
28 14 0.47
29 8 0.27
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (26 bp):
TTTTAATATTTTTGAATTTTCAAAAT
Found at i:17993826 original size:31 final size:31
Alignment explanation
Indices: 17993746--17993833 Score: 78
Period size: 29 Copynumber: 2.9 Consensus size: 31
17993736 AAATACAAAA
* *
17993746 AAAAAAATCAATTAAGCCCCTATATTAAATT
1 AAAACAATCAATTAAGCCCCTTTATTAAATT
*
17993777 --CAC-ATCCAATT-AGTCCCCTTTAATT-AATT
1 AAAACAAT-CAATTAAG-CCCCTTT-ATTAAATT
*
17993806 AAAACAATCAATTAAGCCCCTTTGTTAA
1 AAAACAATCAATTAAGCCCCTTTATTAA
17993834 TGGTTTCTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 16
0.68 0.08 0.25
Matches are distributed among these distances:
28 4 0.09
29 16 0.36
30 5 0.11
31 15 0.34
32 4 0.09
ACGTcount: A:0.42, C:0.22, G:0.05, T:0.32
Consensus pattern (31 bp):
AAAACAATCAATTAAGCCCCTTTATTAAATT
Found at i:17994055 original size:21 final size:21
Alignment explanation
Indices: 17994029--17994097 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
17994019 ATAAACTAAT
17994029 AAAATATTTTAAATATTATAA
1 AAAATATTTTAAATATTATAA
* *
17994050 AAAATA-TCTAATAAATTATAAA
1 AAAATATTTTAA-ATATTAT-AA
* * *
17994072 AAAATATTTAAAATATTTTTA
1 AAAATATTTTAAATATTATAA
17994093 AAAAT
1 AAAAT
17994098 TATTAAAAGT
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
20 4 0.11
21 18 0.47
22 13 0.34
23 3 0.08
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.39
Consensus pattern (21 bp):
AAAATATTTTAAATATTATAA
Found at i:17995275 original size:86 final size:86
Alignment explanation
Indices: 17995121--17995296 Score: 264
Period size: 86 Copynumber: 2.0 Consensus size: 86
17995111 TTAGGTTTAT
* * * * *
17995121 TTTTTTCCTTATTGTACTCTCGTTTGTTTATTCATTTAGTGAAAAGTCGATGTCTCCTTTATCCA
1 TTTTCTCCATATTGTACTATCGTTTGTTTACTCATTTAGTGAAAAGTCGATGTCTCATTTATCCA
17995186 TGGTTTTTCCCTCTTTGAGGG
66 TGGTTTTTCCCTCTTTGAGGG
* * *
17995207 TTTTCTCCATATTGTACTATTGTTTGTTTACTCATTTAGTGAAAATTTGAT-TCCTCATTTATCC
1 TTTTCTCCATATTGTACTATCGTTTGTTTACTCATTTAGTGAAAAGTCGATGT-CTCATTTATCC
17995271 ATGGTTTTTCCCTCTTTGAGGG
65 ATGGTTTTTCCCTCTTTGAGGG
17995293 TTTT
1 TTTT
17995297 TCACGTAAAA
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
85 1 0.01
86 80 0.99
ACGTcount: A:0.16, C:0.18, G:0.15, T:0.51
Consensus pattern (86 bp):
TTTTCTCCATATTGTACTATCGTTTGTTTACTCATTTAGTGAAAAGTCGATGTCTCATTTATCCA
TGGTTTTTCCCTCTTTGAGGG
Found at i:17996720 original size:20 final size:20
Alignment explanation
Indices: 17996660--17996720 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
17996650 TTTAAAAAAA
17996660 TTATATTAATCTTATAAT-TTT
1 TTATA-TAAT-TTATAATATTT
* * *
17996681 TTGTATAATTTATTAGATTT
1 TTATATAATTTATAATATTT
*
17996701 TTATATATTTTATAATATTT
1 TTATATAATTTATAATATTT
17996721 ATAAGTTTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
19 5 0.16
20 23 0.72
21 4 0.12
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (20 bp):
TTATATAATTTATAATATTT
Found at i:17996743 original size:28 final size:28
Alignment explanation
Indices: 17996688--17996775 Score: 101
Period size: 28 Copynumber: 3.1 Consensus size: 28
17996678 TTTTTGTATA
*
17996688 ATTTATTAGATTTTTATATATTTTATAAT
1 ATTTATAAG-TTTTTATATATTTTATAAT
17996717 ATTTATAAGTTTTTATAT-TTTTCATAAT
1 ATTTATAAGTTTTTATATATTTT-ATAAT
* *
17996745 TTTTATAAGTTTATATCA-ATTTT-TAAT
1 ATTTATAAGTTTTTAT-ATATTTTATAAT
17996772 ATTT
1 ATTT
17996776 TTTAATAGTT
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
27 11 0.21
28 28 0.54
29 13 0.25
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.61
Consensus pattern (28 bp):
ATTTATAAGTTTTTATATATTTTATAAT
Found at i:17996757 original size:26 final size:27
Alignment explanation
Indices: 17996699--17996775 Score: 88
Period size: 27 Copynumber: 2.8 Consensus size: 27
17996689 TTTATTAGAT
17996699 TTTTATATATTTTATAATATTTATAAG
1 TTTTATATATTTTATAATATTTATAAG
*
17996726 TTTT-TATATTTTTCATAATTTTTATAAG
1 TTTTATATA-TTTT-ATAATATTTATAAG
17996754 -TTTATATCAATTTT-TAATATTT
1 TTTTATAT--ATTTTATAATATTT
17996776 TTTAATAGTT
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
26 4 0.09
27 18 0.42
28 16 0.37
29 4 0.09
30 1 0.02
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (27 bp):
TTTTATATATTTTATAATATTTATAAG
Found at i:17996804 original size:10 final size:10
Alignment explanation
Indices: 17996671--17996834 Score: 66
Period size: 9 Copynumber: 17.3 Consensus size: 10
17996661 TATATTAATC
17996671 TTATAATTTTT
1 TTATAA-TTTT
*
17996682 TGTATAATTTA
1 T-TATAATTTT
*
17996693 TTA-GA-TTT
1 TTATAATTTT
*
17996701 TTAT-ATATT
1 TTATAATTTT
*
17996710 TTATAA-TAT
1 TTATAATTTT
*
17996719 TTATAAGTTT
1 TTATAATTTT
17996729 TTAT-ATTTT
1 TTATAATTTT
*
17996738 TCATAA-TTT
1 TTATAATTTT
*
17996747 TTATAAGTTT
1 TTATAATTTT
*
17996757 ATATCAATTTT
1 TTAT-AATTTT
*
17996768 TAAT-A-TTT
1 TTATAATTTT
**
17996776 TT-TAATAGT
1 TTATAATTTT
*
17996785 TAATAA--TT
1 TTATAATTTT
17996793 TTATAATTTT
1 TTATAATTTT
* *
17996803 TT-TTACTTT
1 TTATAATTTT
*
17996812 TAAT-ATTTGT
1 TTATAATTT-T
17996822 TTATAATTTT
1 TTATAATTTT
17996832 TTA
1 TTA
17996835 ATTATTTTTA
Statistics
Matches: 112, Mismatches: 25, Indels: 33
0.66 0.15 0.19
Matches are distributed among these distances:
7 1 0.01
8 17 0.15
9 41 0.37
10 32 0.29
11 16 0.14
12 5 0.04
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.63
Consensus pattern (10 bp):
TTATAATTTT
Found at i:17996814 original size:27 final size:28
Alignment explanation
Indices: 17996762--17996833 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 28
17996752 AGTTTATATC
*
17996762 AATTTT-TAATATTTTTTAATAGTTAAT
1 AATTTTATAATTTTTTTTAATAGTTAAT
* *
17996789 AATTTTATAATTTTTTTTACT-TTTAAT
1 AATTTTATAATTTTTTTTAATAGTTAAT
*
17996816 ATTTGTTTATAATTTTTT
1 A-AT-TTTATAATTTTTT
17996834 AATTATTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
27 12 0.32
28 13 0.34
29 13 0.34
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (28 bp):
AATTTTATAATTTTTTTTAATAGTTAAT
Found at i:17996828 original size:37 final size:36
Alignment explanation
Indices: 17996684--17996842 Score: 121
Period size: 37 Copynumber: 4.3 Consensus size: 36
17996674 TAATTTTTTG
* *
17996684 TATAATTTATTAGATTTTT-ATATAT-TTTATAATATT
1 TATAATTTTTTATATTTTTAATAT-TGTTTATAAT-TT
* *
17996720 TATAAGTTTTTATATTTTTCATAATT-TTTATAAGTTT
1 TATAATTTTTTATATTTTTAAT-ATTGTTTATAA-TTT
* *
17996757 ATATCAATTTTTAATATTTTTTAATA--GTTAATAATTT
1 -TAT-AATTTTTTATA-TTTTTAATATTGTTTATAATTT
* *
17996794 TATAATTTTTTTTACTTTTAATATTTGTTTATAATTT
1 TATAATTTTTTATATTTTTAATA-TTGTTTATAATTT
*
17996831 TTTAATTATTTT
1 TATAATT-TTTT
17996843 TATGAGAAAA
Statistics
Matches: 100, Mismatches: 12, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
34 8 0.08
35 9 0.09
36 19 0.19
37 31 0.31
38 16 0.16
39 10 0.10
40 7 0.07
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (36 bp):
TATAATTTTTTATATTTTTAATATTGTTTATAATTT
Found at i:17998374 original size:31 final size:31
Alignment explanation
Indices: 17998336--17998410 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
17998326 ATTTATTTAA
*
17998336 ATTTATACAATTGAATCA-AAATCAAATTTTC
1 ATTTATACAATTGAA-CAGAAATCAAAATTTC
* *
17998367 ATTTATACATTTGAACAGCAATCAAAATTTC
1 ATTTATACAATTGAACAGAAATCAAAATTTC
* *
17998398 ATGTATATAATTG
1 ATTTATACAATTG
17998411 CATTAAATCA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
30 2 0.05
31 35 0.95
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.39
Consensus pattern (31 bp):
ATTTATACAATTGAACAGAAATCAAAATTTC
Found at i:17999428 original size:20 final size:20
Alignment explanation
Indices: 17999389--17999428 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
17999379 TTACTTATTG
* *
17999389 ATTTTGTTGTTTTTTACAGC
1 ATTTTATTGTTGTTTACAGC
*
17999409 ATTTTATTGTTGTTTCCAGC
1 ATTTTATTGTTGTTTACAGC
17999429 CTTTACAAAT
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:0.15, C:0.12, G:0.15, T:0.57
Consensus pattern (20 bp):
ATTTTATTGTTGTTTACAGC
Found at i:18007402 original size:21 final size:21
Alignment explanation
Indices: 18007376--18007416 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
18007366 ATCTGCTCAA
* *
18007376 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
18007397 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
18007417 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:18012422 original size:24 final size:25
Alignment explanation
Indices: 18012376--18012425 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
18012366 AAATAAAAAA
*
18012376 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAATAT-ATAAAACAAATAT
18012402 ATTTAAAAATAT-TAAAACAAATAT
1 ATTTAAAAATATATAAAACAAATAT
18012426 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.48
26 12 0.52
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (25 bp):
ATTTAAAAATATATAAAACAAATAT
Found at i:18012423 original size:12 final size:12
Alignment explanation
Indices: 18012408--18012436 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
18012398 ATATATTTAA
18012408 AAATATTAAAAC
1 AAATATTAAAAC
18012420 AAATATTAAAAC
1 AAATATTAAAAC
18012432 AAATA
1 AAATA
18012437 AAAATAATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (12 bp):
AAATATTAAAAC
Found at i:18013995 original size:22 final size:21
Alignment explanation
Indices: 18013946--18014000 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
18013936 AATACTTTAT
*
18013946 TTTCAAATTATTTATTTGGGA
1 TTTCAAAATATTTATTTGGGA
*
18013967 ATT-AAAATATTTGGATTT-GGA
1 TTTCAAAATATTT--ATTTGGGA
18013988 TTTCAAAAT-TTTA
1 TTTCAAAATATTTA
18014001 GCTTAAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
19 1 0.04
20 8 0.29
21 10 0.36
22 9 0.32
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.49
Consensus pattern (21 bp):
TTTCAAAATATTTATTTGGGA
Found at i:18024369 original size:3 final size:3
Alignment explanation
Indices: 18024361--18024386 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
18024351 TCACTTTGAA
18024361 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
18024387 AGATGCACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:18025169 original size:12 final size:12
Alignment explanation
Indices: 18025152--18025177 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18025142 TATTTGTTTC
18025152 TTGTTTTAATGT
1 TTGTTTTAATGT
18025164 TTGTTTTAATGT
1 TTGTTTTAATGT
18025176 TT
1 TT
18025178 TTAAATGTAT
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:0.15, C:0.00, G:0.15, T:0.69
Consensus pattern (12 bp):
TTGTTTTAATGT
Found at i:18030346 original size:26 final size:26
Alignment explanation
Indices: 18030317--18030366 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
18030307 CCAGCACACC
*
18030317 AATATCGCAGCAAAGCTGCCAGTAAT
1 AATAACGCAGCAAAGCTGCCAGTAAT
**
18030343 AATAACGCAGCGTAGCTGCCAGTA
1 AATAACGCAGCAAAGCTGCCAGTA
18030367 GCAGTAAGTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.18
Consensus pattern (26 bp):
AATAACGCAGCAAAGCTGCCAGTAAT
Found at i:18046730 original size:35 final size:34
Alignment explanation
Indices: 18046684--18046756 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 34
18046674 ATAGGATTTG
*
18046684 GAATGCCTAAGAACCCTCAAAATTGGCCTTTTCT
1 GAATGCCTAAGAACCCTCAAAATTAGCCTTTTCT
18046718 AGAATGCCTAAGAACCCTCAAAATTAGCCTTTTCT
1 -GAATGCCTAAGAACCCTCAAAATTAGCCTTTTCT
18046753 GAAT
1 GAAT
18046757 TGGACTAAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
34 4 0.11
35 33 0.89
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.29
Consensus pattern (34 bp):
GAATGCCTAAGAACCCTCAAAATTAGCCTTTTCT
Found at i:18050708 original size:25 final size:24
Alignment explanation
Indices: 18050676--18050725 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
18050666 TTAAATAAAA
* *
18050676 ATTTTAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
18050702 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
18050726 TAAAACAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:18051508 original size:55 final size:55
Alignment explanation
Indices: 18051421--18051542 Score: 154
Period size: 55 Copynumber: 2.2 Consensus size: 55
18051411 TATGTAGTCC
* * * *
18051421 CACGCCCGTGTTAATATAATAGGTTCAACCACGGTTGCTTGGCACGGGCGTGTCG
1 CACGCCCGTGTTAATATAACAGGATCAACCACGATTGCTAGGCACGGGCGTGTCG
* * * * * *
18051476 CATGCCCGTGTTAATTTGACAGGATCAGCCACGATTTCTAGGCACGGGTGTGTCG
1 CACGCCCGTGTTAATATAACAGGATCAACCACGATTGCTAGGCACGGGCGTGTCG
18051531 CACGCCCGTGTT
1 CACGCCCGTGTT
18051543 GTTTTGAAAG
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.19, C:0.26, G:0.29, T:0.26
Consensus pattern (55 bp):
CACGCCCGTGTTAATATAACAGGATCAACCACGATTGCTAGGCACGGGCGTGTCG
Found at i:18053789 original size:8 final size:8
Alignment explanation
Indices: 18053756--18053791 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
18053746 TAAATAAGAA
18053756 ATAATAATT
1 ATAATAA-T
18053765 ATAATAAT
1 ATAATAAT
*
18053773 TTAATAAT
1 ATAATAAT
18053781 ATAATAAT
1 ATAATAAT
18053789 ATA
1 ATA
18053792 TGTTATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 18 0.72
9 7 0.28
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (8 bp):
ATAATAAT
Found at i:18056240 original size:15 final size:14
Alignment explanation
Indices: 18056210--18056251 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
18056200 TTCTTGCAAT
18056210 TTAATTTAATTTTA
1 TTAATTTAATTTTA
*
18056224 TTAATTTATTATTTA
1 TTAATTTAAT-TTTA
*
18056239 TTAATTTACTTTT
1 TTAATTTAATTTT
18056252 TCCTTCTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (14 bp):
TTAATTTAATTTTA
Found at i:18059214 original size:22 final size:22
Alignment explanation
Indices: 18059189--18059244 Score: 96
Period size: 22 Copynumber: 2.5 Consensus size: 22
18059179 TTGATAGGAG
18059189 AACAC-AGACGTGGGAATAGAAA
1 AACACGAG-CGTGGGAATAGAAA
18059211 AACACGAGCGTGGGAATAGAAA
1 AACACGAGCGTGGGAATAGAAA
18059233 AACACGAGCGTG
1 AACACGAGCGTG
18059245 TCAGGGGCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 31 0.94
23 2 0.06
ACGTcount: A:0.45, C:0.16, G:0.30, T:0.09
Consensus pattern (22 bp):
AACACGAGCGTGGGAATAGAAA
Found at i:18064132 original size:8 final size:8
Alignment explanation
Indices: 18064114--18064144 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
18064104 TCTCTTTGCT
18064114 TTAGTTTAA
1 TTAG-TTAA
18064123 TTAGTTAA
1 TTAGTTAA
18064131 TTAGTTAA
1 TTAGTTAA
18064139 TTAGTT
1 TTAGTT
18064145 TAGTAATTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.82
9 4 0.18
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (8 bp):
TTAGTTAA
Found at i:18073843 original size:46 final size:46
Alignment explanation
Indices: 18073776--18073904 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
18073766 TGTAACCCGC
* * * *
18073776 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
18073822 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
18073868 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
18073905 TGCTCAACCA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:18073923 original size:46 final size:45
Alignment explanation
Indices: 18073784--18073923 Score: 140
Period size: 46 Copynumber: 3.0 Consensus size: 45
18073774 GCCCATAAGC
* ** * *
18073784 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
*** *
18073830 GAACTCGGACTCAACTCAACGAGTTCGGACATTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
18073876 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACCATCCTAGT
18073922 GA
1 GA
18073924 CATGTCACTT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
46 79 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCCTAGT
Found at i:18088282 original size:22 final size:22
Alignment explanation
Indices: 18088257--18088303 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
18088247 ACCACACACT
* *
18088257 CGTGTGCCTAATGTGACACGCC
1 CGTGTGACTAATGTGACACCCC
*
18088279 CGTGTGACTAGTGTGACACCCC
1 CGTGTGACTAATGTGACACCCC
18088301 CGT
1 CGT
18088304 AAAGGGCTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.17, C:0.32, G:0.28, T:0.23
Consensus pattern (22 bp):
CGTGTGACTAATGTGACACCCC
Found at i:18089269 original size:22 final size:23
Alignment explanation
Indices: 18089230--18089277 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
18089220 ACAATCATTT
*
18089230 AATCATTACTATTCAGTATCAGTC
1 AATCATTA-TATTCAGTAACAGTC
*
18089254 AATCATT-TATTTAGTAACAGTC
1 AATCATTATATTCAGTAACAGTC
18089276 AA
1 AA
18089278 GTACTCGGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 15 0.68
24 7 0.32
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.38
Consensus pattern (23 bp):
AATCATTATATTCAGTAACAGTC
Found at i:18089429 original size:6 final size:6
Alignment explanation
Indices: 18089420--18089461 Score: 66
Period size: 6 Copynumber: 7.0 Consensus size: 6
18089410 CACCGTAAGG
* *
18089420 GTAACA GTAACA GTAACA ATAACA GTAATA GTAACA GTAACA
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA
18089462 ATAGCAGTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.52, C:0.14, G:0.14, T:0.19
Consensus pattern (6 bp):
GTAACA
Found at i:18089442 original size:18 final size:18
Alignment explanation
Indices: 18089421--18089475 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 18
18089411 ACCGTAAGGG
18089421 TAACAGTAACAGTAACAA
1 TAACAGTAACAGTAACAA
* *
18089439 TAACAGTAATAGTAACAG
1 TAACAGTAACAGTAACAA
* *
18089457 TAACAATAGCAGTACACAA
1 TAACAGTAACAGTA-ACAA
18089476 AGTACCTCCT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 27 0.90
19 3 0.10
ACGTcount: A:0.53, C:0.16, G:0.13, T:0.18
Consensus pattern (18 bp):
TAACAGTAACAGTAACAA
Found at i:18089452 original size:24 final size:24
Alignment explanation
Indices: 18089420--18089470 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
18089410 CACCGTAAGG
18089420 GTAACAGTAACAGTAACAATAACA
1 GTAACAGTAACAGTAACAATAACA
* *
18089444 GTAATAGTAACAGTAACAATAGCA
1 GTAACAGTAACAGTAACAATAACA
18089468 GTA
1 GTA
18089471 CACAAAGTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.20
Consensus pattern (24 bp):
GTAACAGTAACAGTAACAATAACA
Found at i:18089469 original size:12 final size:12
Alignment explanation
Indices: 18089420--18089475 Score: 67
Period size: 12 Copynumber: 4.6 Consensus size: 12
18089410 CACCGTAAGG
*
18089420 GTAACAGTAACA
1 GTAACAATAACA
18089432 GTAACAATAACA
1 GTAACAATAACA
* *
18089444 GTAATAGTAACA
1 GTAACAATAACA
*
18089456 GTAACAATAGCA
1 GTAACAATAACA
18089468 GTACACAA
1 GTA-ACAA
18089476 AGTACCTCCT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
12 33 0.89
13 4 0.11
ACGTcount: A:0.52, C:0.16, G:0.14, T:0.18
Consensus pattern (12 bp):
GTAACAATAACA
Found at i:18089725 original size:23 final size:25
Alignment explanation
Indices: 18089689--18089734 Score: 60
Period size: 23 Copynumber: 1.9 Consensus size: 25
18089679 ACTTTCAAAT
**
18089689 TTTCAATTTTATTT-GTA-ATTTAA
1 TTTCAATTCAATTTAGTACATTTAA
18089712 TTTCAATTCAATTTAGTACATTT
1 TTTCAATTCAATTTAGTACATTT
18089735 TTCCATATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 12 0.63
24 3 0.16
25 4 0.21
ACGTcount: A:0.30, C:0.09, G:0.04, T:0.57
Consensus pattern (25 bp):
TTTCAATTCAATTTAGTACATTTAA
Found at i:18090542 original size:18 final size:17
Alignment explanation
Indices: 18090503--18090554 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
18090493 TCGTTTCATG
18090503 TTCTGTTCTTTCTATTCTTT
1 TTCT-TTCTTT-TATT-TTT
18090523 TTCTTTCTTTTATTTGTT
1 TTCTTTCTTTTATTT-TT
*
18090541 TTGTTTC-TTTATTT
1 TTCTTTCTTTTATTT
18090555 AACTATTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 8 0.27
18 12 0.40
19 6 0.20
20 4 0.13
ACGTcount: A:0.06, C:0.13, G:0.06, T:0.75
Consensus pattern (17 bp):
TTCTTTCTTTTATTTTT
Found at i:18096815 original size:29 final size:31
Alignment explanation
Indices: 18096767--18096827 Score: 83
Period size: 29 Copynumber: 2.0 Consensus size: 31
18096757 CCCATTTTCC
*
18096767 TATTTTATTTATTTAGTATTAT-T-TTATTT
1 TATTTTATTTATTTACTATTATATATTATTT
18096796 TATTTTATTTATTGT-CTATTATATATTATTT
1 TATTTTATTTATT-TACTATTATATATTATTT
18096827 T
1 T
18096828 CTTTGTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 19 0.68
30 2 0.07
31 7 0.25
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.70
Consensus pattern (31 bp):
TATTTTATTTATTTACTATTATATATTATTT
Found at i:18098426 original size:6 final size:6
Alignment explanation
Indices: 18098395--18098434 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
18098385 TCCATTTGTC
* * *
18098395 TTTATC TTTATT TTTATT TTTATT TTTCTT TTTATG TTTA
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTA
18098435 CTCTATTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.78
Consensus pattern (6 bp):
TTTATT
Found at i:18098426 original size:18 final size:18
Alignment explanation
Indices: 18098395--18098446 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
18098385 TCCATTTGTC
*
18098395 TTTATCTTTATTTTTATT
1 TTTATCTTTATTTTTATG
* *
18098413 TTTATTTTTCTTTTTATG
1 TTTATCTTTATTTTTATG
*
18098431 TTTA-CTCTATTTTTAT
1 TTTATCTTTATTTTTAT
18098447 ATTTTGAACT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 9 0.32
18 19 0.68
ACGTcount: A:0.15, C:0.08, G:0.02, T:0.75
Consensus pattern (18 bp):
TTTATCTTTATTTTTATG
Found at i:18100521 original size:54 final size:54
Alignment explanation
Indices: 18100439--18100547 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
18100429 CTCCTGTAGC
18100439 TGCAAATACTTTTGAACTGAAACCTAACACAATTCAAATGATACAACAATTTGT
1 TGCAAATACTTTTGAACTGAAACCTAACACAATTCAAATGATACAACAATTTGT
18100493 TGCAAATACTTTTGAACTGAAACCTAACACAATTCAAATGATACAACAATTTGT
1 TGCAAATACTTTTGAACTGAAACCTAACACAATTCAAATGATACAACAATTTGT
18100547 T
1 T
18100548 TAGTTTGATA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.30
Consensus pattern (54 bp):
TGCAAATACTTTTGAACTGAAACCTAACACAATTCAAATGATACAACAATTTGT
Found at i:18102336 original size:64 final size:64
Alignment explanation
Indices: 18102255--18102438 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
18102245 AGACATTATG
* * * *
18102255 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACTATGTAGACAAGAGAGCTACGAGATAA
* * * * *
18102319 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACTATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACTATGTAGACAAGAGAGCTACGAGAT
18102384 AA
63 AA
* * *
18102386 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACTATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACTATGTAG-ACAAGAGAGC
18102439 CAAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.26
66 21 0.21
67 32 0.33
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACTATGTAGACAAGAGAGCTACGAGATAA
Found at i:18106767 original size:63 final size:63
Alignment explanation
Indices: 18106688--18106870 Score: 199
Period size: 63 Copynumber: 2.8 Consensus size: 63
18106678 AGACATTATG
* * *
18106688 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTGACAAGAGAGCTACGAGATAA
* * * * *
18106751 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGT-GACAAGAGAGCTACGAGAT
18106816 AA
62 AA
* * *
18106818 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGTGTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTG-ACAAGAGAGC
18106871 CGAACTATAT
Statistics
Matches: 98, Mismatches: 16, Indels: 12
0.78 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 43 0.44
64 1 0.01
65 2 0.02
66 29 0.30
67 22 0.22
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.23
Consensus pattern (63 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTGACAAGAGAGCTACGAGATAA
Found at i:18108731 original size:103 final size:104
Alignment explanation
Indices: 18108549--18108749 Score: 332
Period size: 103 Copynumber: 1.9 Consensus size: 104
18108539 AAAATATTAT
* * *
18108549 GAAATTTTATGGCCCGTATTTTAGTTTAATGTTTGTATGTTTGTTCGGTAACGCCTCGTACGTTA
1 GAAATTTTATGGCCCGTATTTTAGTTTAATGTTTGTATGCTTGTTCGATAACGCCTCGTACCTTA
* **
18108614 TCCCGGCCTTGGGTACGGGTAA-GGGTGTTACATTTAGC
66 TCCCGGCCTCGGGTACAAGTAAGGGGTGTTACATTTAGC
*
18108652 GAAATTTTATGGCCCGTATTTTAGTTTAATGTTTTTATGCTTGTTCGATAACGCCTCGTACCTTA
1 GAAATTTTATGGCCCGTATTTTAGTTTAATGTTTGTATGCTTGTTCGATAACGCCTCGTACCTTA
18108717 TCCCGGCCTCGGGTACAAGTAAGGGGTGTTACA
66 TCCCGGCCTCGGGTACAAGTAAGGGGTGTTACA
18108750 CACCTTCATT
Statistics
Matches: 90, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
103 80 0.89
104 10 0.11
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (104 bp):
GAAATTTTATGGCCCGTATTTTAGTTTAATGTTTGTATGCTTGTTCGATAACGCCTCGTACCTTA
TCCCGGCCTCGGGTACAAGTAAGGGGTGTTACATTTAGC
Found at i:18112657 original size:82 final size:82
Alignment explanation
Indices: 18112520--18112685 Score: 332
Period size: 82 Copynumber: 2.0 Consensus size: 82
18112510 CAATCTACAC
18112520 AAGATCATTTCAATATATAAATCTCATCACAATGGACACTAATCCATCCATAGAAAGAATATCAT
1 AAGATCATTTCAATATATAAATCTCATCACAATGGACACTAATCCATCCATAGAAAGAATATCAT
18112585 ATGTATTCATCAAAATG
66 ATGTATTCATCAAAATG
18112602 AAGATCATTTCAATATATAAATCTCATCACAATGGACACTAATCCATCCATAGAAAGAATATCAT
1 AAGATCATTTCAATATATAAATCTCATCACAATGGACACTAATCCATCCATAGAAAGAATATCAT
18112667 ATGTATTCATCAAAATG
66 ATGTATTCATCAAAATG
18112684 AA
1 AA
18112686 TAATAGCCAT
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 84 1.00
ACGTcount: A:0.45, C:0.18, G:0.08, T:0.29
Consensus pattern (82 bp):
AAGATCATTTCAATATATAAATCTCATCACAATGGACACTAATCCATCCATAGAAAGAATATCAT
ATGTATTCATCAAAATG
Found at i:18113361 original size:47 final size:45
Alignment explanation
Indices: 18113256--18113566 Score: 222
Period size: 47 Copynumber: 6.7 Consensus size: 45
18113246 ATATGCGTGT
* * * *
18113256 TGATGTATGTCCCAGACATGTCTTACACTAGCACAACTCT-TA-GC
1 TGATGCATGTCCCAGACATGTCTTACACTGGC-TATCTCTGTAGGC
* * *
18113300 CGATGCGTGTCCCAGACACGTCTTACACTGGCTATCTCTGTCGAGGC
1 TGATGCATGTCCCAGACATGTCTTACACTGGCTATCTCTGT--AGGC
* * *
18113347 TGATGCATGTCCCAGACATGTATTACACTAGCACTCATCTCTGT-GTC
1 TGATGCATGTCCCAGACATGTCTTACACT-G-GCT-ATCTCTGTAGGC
*
18113394 -GATGCCATGTTCCAGACATGCTCTTACACTGGCTATCT-TAGTATGGC
1 TGATG-CATGTCCCAGACATG-TCTTACACTGGCTATCTCT-GTA-GGC
* * * * * *
18113441 TGATGTATGTCCCAGACATGTCTTACACTAGCCCT-TGTTTGGATGC
1 TGATGCATGTCCCAGACATGTCTTACACT-G-GCTATCTCTGTAGGC
* * * *
18113487 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTAGAC
1 TGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATC-T-CTGTAGGC
* *
18113536 -AAAGCATGTCCCAGACATGTCTTACACTGGC
1 TGATGCATGTCCCAGACATGTCTTACACTGGC
18113567 ACACAAATCA
Statistics
Matches: 213, Mismatches: 33, Indels: 40
0.74 0.12 0.14
Matches are distributed among these distances:
43 5 0.02
44 29 0.14
45 6 0.03
46 37 0.17
47 93 0.44
48 29 0.14
49 6 0.03
50 8 0.04
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (45 bp):
TGATGCATGTCCCAGACATGTCTTACACTGGCTATCTCTGTAGGC
Found at i:18113458 original size:94 final size:93
Alignment explanation
Indices: 18113205--18113521 Score: 353
Period size: 94 Copynumber: 3.4 Consensus size: 93
18113195 GGATATATTA
* * * *
18113205 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATA-TATGCGTGTTGATGTATGTCCC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTTAGTAT--G-GCTGATGTATGTCCC
*
18113269 AGACATGTCTTACACTAGCA-CAACTCT-TAG
63 AGACATGTCTTACACTAGCACCATCTCTGT-G
* * *
18113299 CCGATG-CGTGTCCCAGACA-CGTCTTACACTGGCTATCTCT-GTCGA-GGCTGATGCATGTCCC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCT-TAGT--ATGGCTGATGTATGTCCC
*
18113360 AGACATGTATTACACTAGCACTCATCTCTGTG
63 AGACATGTCTTACACTAGCAC-CATCTCTGTG
* * *
18113392 TCGATGCCATGTTCCAGACATGCTCTTACACTGGCTATCTTAGTATGGCTGATGTATGTCCCAGA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTTAGTATGGCTGATGTATGTCCCAGA
* * *
18113457 CATGTCTTACACTAGC-CCTTGTTTGGATG
66 CATGTCTTACACTAGCACCATCTCT-G-TG
18113486 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
18113522 CTCATAATGT
Statistics
Matches: 188, Mismatches: 22, Indels: 26
0.80 0.09 0.11
Matches are distributed among these distances:
91 32 0.17
92 21 0.11
93 28 0.15
94 87 0.46
95 20 0.11
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (93 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTTAGTATGGCTGATGTATGTCCCAGA
CATGTCTTACACTAGCACCATCTCTGTG
Found at i:18113545 original size:94 final size:93
Alignment explanation
Indices: 18113205--18113563 Score: 349
Period size: 94 Copynumber: 3.8 Consensus size: 93
18113195 GGATATATTA
* * * * *
18113205 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATATG-CGTGTTGATGTATGTCCC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATC-TA-ATGTAG-GCTGATGCATGTCCC
* *
18113269 AGACATGTCTTACACTAGCACAACTCTT-A-G
63 AGACATGTCTTACACTAGCCCATCT-TTGATG
* * *
18113299 CCGATG-CGTGTCCCAGACA-CGTCTTACACTGGCTATCT-CTGTCGAGGCTGATGCATGTCCCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTAATGT--AGGCTGATGCATGTCCCA
* *
18113361 GACATGTATTACACTAGCACTCATCTCTG-TG
64 GACATGTCTTACACTAGC-C-CATCTTTGATG
* * * * *
18113392 TCGATGCCATGTTCCAGACATGCTCTTACACTGGCTATCTTA-GTATGGCTGATGTATGTCCCAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTAATGTA-GGCTGATGCATGTCCCAG
* *
18113456 ACATGTCTTACACTAGCCCTTGTTTGGATG
65 ACATGTCTTACACTAGCCCATCTTT-GATG
* * * *
18113486 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTAGAC-AAAGCATGTCCCAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATC-TAATGTAGGCTGATGCATGTCCCAG
18113550 ACATGTCTTACACT
65 ACATGTCTTACACT
18113564 GGCACACAAA
Statistics
Matches: 218, Mismatches: 32, Indels: 30
0.78 0.11 0.11
Matches are distributed among these distances:
89 2 0.01
91 32 0.15
92 22 0.10
93 24 0.11
94 112 0.51
95 23 0.11
96 3 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.30
Consensus pattern (93 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTAATGTAGGCTGATGCATGTCCCAGA
CATGTCTTACACTAGCCCATCTTTGATG
Found at i:18120078 original size:40 final size:40
Alignment explanation
Indices: 18120011--18120098 Score: 97
Period size: 40 Copynumber: 2.2 Consensus size: 40
18120001 CTCAGTCTCA
**
18120011 CACACTAAGTGCTACATATAGCCGAAGCTACCCCGAATTG
1 CACACTAAGTGCTACATATAGCCGAAGCTACCCCGAAACG
* ** * *
18120051 CACACTAAGTGCT-CTATATGGTTGAAGCTATCTCGAAACG
1 CACACTAAGTGCTAC-ATATAGCCGAAGCTACCCCGAAACG
18120091 CACACTAA
1 CACACTAA
18120099 CTGCCAAACA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
39 1 0.03
40 39 0.98
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (40 bp):
CACACTAAGTGCTACATATAGCCGAAGCTACCCCGAAACG
Found at i:18124956 original size:26 final size:22
Alignment explanation
Indices: 18124902--18124946 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
18124892 GTCTCAAACC
18124902 ATTCTTCATCGACAATTAATTT
1 ATTCTTCATCGACAATTAATTT
18124924 ATTCTTCATCGACAATTAATTT
1 ATTCTTCATCGACAATTAATTT
18124946 A
1 A
18124947 CCTATTCTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.18, G:0.04, T:0.44
Consensus pattern (22 bp):
ATTCTTCATCGACAATTAATTT
Found at i:18134311 original size:23 final size:23
Alignment explanation
Indices: 18134280--18134355 Score: 109
Period size: 23 Copynumber: 3.3 Consensus size: 23
18134270 AAAAATAAAA
*
18134280 AATGTACAGTGAAGATTTTCTGC
1 AATGAACAGTGAAGATTTTCTGC
*
18134303 AATGAACAGTGAAG-TTTCCTTGC
1 AATGAACAGTGAAGATTTTC-TGC
*
18134326 AATGAACAGTGAAGATTCTCTGC
1 AATGAACAGTGAAGATTTTCTGC
18134349 AATGAAC
1 AATGAAC
18134356 TTTAAATGTA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
22 4 0.09
23 40 0.85
24 3 0.06
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (23 bp):
AATGAACAGTGAAGATTTTCTGC
Found at i:18134448 original size:25 final size:25
Alignment explanation
Indices: 18134384--18134448 Score: 60
Period size: 26 Copynumber: 2.6 Consensus size: 25
18134374 AGATTTTATT
* *
18134384 TAAATTTAATATAAGTTAAAATATA
1 TAAAATTAATAAAAGTTAAAATATA
* * *
18134409 -ATAATTTATGAAAAATTTAAAATATA
1 TAAAATTAAT--AAAAGTTAAAATATA
18134435 TAAAATTAATAAAA
1 TAAAATTAATAAAA
18134449 AAATATATGG
Statistics
Matches: 30, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
24 6 0.20
25 4 0.13
26 13 0.43
27 7 0.23
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (25 bp):
TAAAATTAATAAAAGTTAAAATATA
Found at i:18134448 original size:26 final size:26
Alignment explanation
Indices: 18134399--18134450 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
18134389 TTAATATAAG
* *
18134399 TTAAAATATAATAATTTATGAAAAAT
1 TTAAAATATAAAAATTAATGAAAAAT
*
18134425 TTAAAATATATAAAATTAATAAAAAA
1 TTAAAATATA-AAAATTAATGAAAAA
18134451 ATATATGGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (26 bp):
TTAAAATATAAAAATTAATGAAAAAT
Found at i:18145923 original size:20 final size:20
Alignment explanation
Indices: 18145898--18145938 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
18145888 AAGGTTCAAA
18145898 TGTGATTGTTTGATTAGTAG
1 TGTGATTGTTTGATTAGTAG
18145918 TGTGATTGTTTGATTAGTAG
1 TGTGATTGTTTGATTAGTAG
18145938 T
1 T
18145939 CTGAGGTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.00, G:0.29, T:0.51
Consensus pattern (20 bp):
TGTGATTGTTTGATTAGTAG
Found at i:18160385 original size:40 final size:40
Alignment explanation
Indices: 18160323--18160464 Score: 130
Period size: 40 Copynumber: 3.6 Consensus size: 40
18160313 CAAACACACC
* * * *
18160323 AATTTGTCACCCAACG-CATCATCGGTTAATTCGAAGTAAT
1 AATTTGACACCCAATGTC-TCATCGGATAATCCGAAGTAAT
* * *
18160363 AATTTGACACCCAATGTCTCATCGGCTAAACCAAAGT-A-
1 AATTTGACACCCAATGTCTCATCGGATAATCCGAAGTAAT
* * *
18160401 AA-TTGACATCCAATGCCTCATCGAATATATCCGAAGTAAT
1 AATTTGACACCCAATGTCTCATCGGATA-ATCCGAAGTAAT
* *
18160441 AAATTGACACCCAGTGTCTCATCG
1 AATTTGACACCCAATGTCTCATCG
18160465 ACTTGATGTC
Statistics
Matches: 82, Mismatches: 15, Indels: 9
0.77 0.14 0.08
Matches are distributed among these distances:
37 21 0.26
38 9 0.11
39 2 0.02
40 31 0.38
41 19 0.23
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.27
Consensus pattern (40 bp):
AATTTGACACCCAATGTCTCATCGGATAATCCGAAGTAAT
Found at i:18160462 original size:41 final size:40
Alignment explanation
Indices: 18160354--18160465 Score: 122
Period size: 37 Copynumber: 2.9 Consensus size: 40
18160344 TCGGTTAATT
* **
18160354 CGAAGTAATAATTTGACACCCAATGTCTCATCGGCTAAAC
1 CGAAGTAATAAATTGACACCCAATGTCTCATCGAATAAAC
* * * *
18160394 C-AA--AGTAAATTGACATCCAATGCCTCATCGAATATATC
1 CGAAGTAATAAATTGACACCCAATGTCTCATCGAATA-AAC
*
18160432 CGAAGTAATAAATTGACACCCAGTGTCTCATCGA
1 CGAAGTAATAAATTGACACCCAATGTCTCATCGA
18160466 CTTGATGTCG
Statistics
Matches: 57, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
37 25 0.44
38 3 0.05
39 4 0.07
40 1 0.02
41 24 0.42
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (40 bp):
CGAAGTAATAAATTGACACCCAATGTCTCATCGAATAAAC
Found at i:18161351 original size:25 final size:26
Alignment explanation
Indices: 18161314--18161370 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
18161304 GAAACCCTAA
*
18161314 CTTTTCCTCCTTTATTTCTCT-TTTT
1 CTTTTCCTCCTTTACTTCTCTATTTT
* * *
18161339 CTTTTCTTTCTTTCCTTCTCTATTTT
1 CTTTTCCTCCTTTACTTCTCTATTTT
*
18161365 CGTTTC
1 CTTTTC
18161371 AATTTGTTTC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 17 0.65
26 9 0.35
ACGTcount: A:0.04, C:0.28, G:0.02, T:0.67
Consensus pattern (26 bp):
CTTTTCCTCCTTTACTTCTCTATTTT
Found at i:18164608 original size:3 final size:3
Alignment explanation
Indices: 18164600--18164626 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
18164590 TACAACGAAA
18164600 AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG
18164627 TCATTCTAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:18168437 original size:17 final size:17
Alignment explanation
Indices: 18168415--18168449 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
18168405 AGAAATCAAC
18168415 CAACCGCTTCATGTTAT
1 CAACCGCTTCATGTTAT
18168432 CAACCGCTTCATGTTAT
1 CAACCGCTTCATGTTAT
18168449 C
1 C
18168450 GTATTTGCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.31, G:0.11, T:0.34
Consensus pattern (17 bp):
CAACCGCTTCATGTTAT
Found at i:18169599 original size:16 final size:17
Alignment explanation
Indices: 18169571--18169614 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
18169561 ATTAGGAATT
18169571 AAATAACTAAAATAAAA
1 AAATAACTAAAATAAAA
*
18169588 AAATAA-TAAAATAAAC
1 AAATAACTAAAATAAAA
*
18169604 AAATGACTAAA
1 AAATAACTAAA
18169615 CCAATTAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.73, C:0.07, G:0.02, T:0.18
Consensus pattern (17 bp):
AAATAACTAAAATAAAA
Found at i:18171525 original size:20 final size:19
Alignment explanation
Indices: 18171500--18171545 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
18171490 TTCATTAAGC
* *
18171500 TAATTATTTTTGTTTCATCT
1 TAATTAATTTTATTTCA-CT
18171520 TAATTAAATTTTATTTCACT
1 TAATT-AATTTTATTTCACT
18171540 TAATTA
1 TAATTA
18171546 GTCCACATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 1 0.04
20 12 0.52
21 10 0.43
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.59
Consensus pattern (19 bp):
TAATTAATTTTATTTCACT
Found at i:18171536 original size:21 final size:20
Alignment explanation
Indices: 18171507--18171545 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
18171497 AGCTAATTAT
*
18171507 TTTTGTTTCATCTTAATTAAA
1 TTTTATTTCA-CTTAATTAAA
18171528 TTTTATTTCACTTAATTA
1 TTTTATTTCACTTAATTA
18171546 GTCCACATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.28, C:0.10, G:0.03, T:0.59
Consensus pattern (20 bp):
TTTTATTTCACTTAATTAAA
Found at i:18173712 original size:24 final size:24
Alignment explanation
Indices: 18173680--18173729 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
18173670 GCTAAAAGTA
18173680 AAATATTAACTTGAAATATGAGAT
1 AAATATTAACTTGAAATATGAGAT
*
18173704 AAATCTTAACTTGAAATATGAGAT
1 AAATATTAACTTGAAATATGAGAT
18173728 AA
1 AA
18173730 GAAATAATGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.32
Consensus pattern (24 bp):
AAATATTAACTTGAAATATGAGAT
Found at i:18175339 original size:18 final size:18
Alignment explanation
Indices: 18175316--18175364 Score: 89
Period size: 18 Copynumber: 2.7 Consensus size: 18
18175306 ATCTAAATGA
18175316 GCCCACACGCCTATGTGG
1 GCCCACACGCCTATGTGG
*
18175334 GCCCACACGCCCATGTGG
1 GCCCACACGCCTATGTGG
18175352 GCCCACACGCCTA
1 GCCCACACGCCTA
18175365 GATTAGCCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.18, C:0.45, G:0.24, T:0.12
Consensus pattern (18 bp):
GCCCACACGCCTATGTGG
Found at i:18181334 original size:4 final size:4
Alignment explanation
Indices: 18181325--18181353 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
18181315 CCCTTTTCTA
18181325 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
18181354 CACGTTTGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:18187817 original size:47 final size:46
Alignment explanation
Indices: 18187709--18187818 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 46
18187699 CCGGGATAAG
*
18187709 CACATAGTGT-TCATCGGAACAAATCTGGAACTTTAACATTATAGTA
1 CACATAGTGTCTCATCGGAACAAATCCGGAACTTTAACA-TATAGTA
* *
18187755 CACAAAGT-ACTTCATCGGAACAAATCCGGAACTTTAACA-ATAGTCGA
1 CACATAGTGTC-TCATCGGAACAAATCCGGAACTTTAACATATAGT--A
18187802 CACATAGTGTCTCATCG
1 CACATAGTGTCTCATCG
18187819 ACTCAATGTC
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
45 5 0.09
46 7 0.13
47 41 0.76
48 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.26
Consensus pattern (46 bp):
CACATAGTGTCTCATCGGAACAAATCCGGAACTTTAACATATAGTA
Found at i:18188590 original size:4 final size:4
Alignment explanation
Indices: 18188581--18188688 Score: 76
Period size: 4 Copynumber: 25.8 Consensus size: 4
18188571 TCCTTTTCTA
** * *
18188581 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TCAC GTTTGC --TC TTTG TAACTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTT-C TTTC TTTC T--TTC
* * *
18188631 TTTC TATC TTTC TTTC TTTC GTAACTC TTTC TATC TTTC TTTC TTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC -T--TTC TTTC TTTC TTTC TTTC TTTC TTTC
18188682 TTTC TTT
1 TTTC TTT
18188689 TAACTTACTC
Statistics
Matches: 81, Mismatches: 14, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
2 1 0.01
3 1 0.01
4 71 0.88
5 2 0.02
6 4 0.05
7 2 0.02
ACGTcount: A:0.06, C:0.25, G:0.04, T:0.65
Consensus pattern (4 bp):
TTTC
Found at i:18188661 original size:27 final size:27
Alignment explanation
Indices: 18188619--18188677 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
18188609 TCACGTTTGC
18188619 TCTTT-GTAACTCTTTCTATCTTTCTT
1 TCTTTCGTAACTCTTTCTATCTTTCTT
18188645 TCTTTCGTAACTCTTTCTATCTTTCTT
1 TCTTTCGTAACTCTTTCTATCTTTCTT
18188672 TCTTTC
1 TCTTTC
18188678 TTTCTTTCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 5 0.16
27 27 0.84
ACGTcount: A:0.10, C:0.25, G:0.03, T:0.61
Consensus pattern (27 bp):
TCTTTCGTAACTCTTTCTATCTTTCTT
Found at i:18193195 original size:21 final size:22
Alignment explanation
Indices: 18193153--18193195 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
18193143 TTAAAACAAA
* * *
18193153 ATATGATTTTTTAATTATTTTT
1 ATATGATTTTCTAATAACTTTT
18193175 ATAT-ATTTTCTAATAACTTTT
1 ATATGATTTTCTAATAACTTTT
18193196 TGTCTAAGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (22 bp):
ATATGATTTTCTAATAACTTTT
Found at i:18196798 original size:96 final size:96
Alignment explanation
Indices: 18196628--18196817 Score: 285
Period size: 96 Copynumber: 2.0 Consensus size: 96
18196618 GTGTCCGAGG
* *
18196628 AAGTCTGTCATCCATGGGAAAGATGGAGCAGATACAGAGCCCAAAAAGCTTGGTTCGAGCAAGGG
1 AAGTCTGTCATCAATGGGAAAGATGGAGCAGACACAGAGCCCAAAAAGCTTGGTTCGAGCAAGGG
18196693 AAAAACCGAAGCCAAGAGGGCAAAGAGGAGC
66 AAAAACCGAAGCCAAGAGGGCAAAGAGGAGC
* *
18196724 AAGTCTGTCATCGAAT-GGAACGATGGAGCAGACA-AGAAGCCCAAGAAGCTTGGTTCGAGCAAG
1 AAGTCTGTCATC-AATGGGAAAGATGGAGCAGACACAG-AGCCCAAAAAGCTTGGTTCGAGCAAG
* * *
18196787 GGTAAAGCCGAAGCCAAGAGGGCTAAGAGGA
64 GGAAAAACCGAAGCCAAGAGGGCAAAGAGGA
18196818 ACAAAAAGAA
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
95 2 0.02
96 81 0.95
97 2 0.02
ACGTcount: A:0.37, C:0.18, G:0.32, T:0.12
Consensus pattern (96 bp):
AAGTCTGTCATCAATGGGAAAGATGGAGCAGACACAGAGCCCAAAAAGCTTGGTTCGAGCAAGGG
AAAAACCGAAGCCAAGAGGGCAAAGAGGAGC
Found at i:18201093 original size:38 final size:37
Alignment explanation
Indices: 18201042--18201113 Score: 110
Period size: 38 Copynumber: 1.9 Consensus size: 37
18201032 GATTCTTTTT
18201042 CTTTTTCTTTTTCTCTTTTT-GGATACTATCTCTATGAA
1 CTTTTTCTTTTTCTCTTTTTGGGATA-T-TCTCTATGAA
*
18201080 CTTTTTCTTTTTCTTTTTTTGGGATATTCTCTAT
1 CTTTTTCTTTTTCTCTTTTTGGGATATTCTCTAT
18201114 CAAAGATTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
37 7 0.22
38 20 0.62
39 5 0.16
ACGTcount: A:0.12, C:0.17, G:0.08, T:0.62
Consensus pattern (37 bp):
CTTTTTCTTTTTCTCTTTTTGGGATATTCTCTATGAA
Found at i:18201111 original size:37 final size:38
Alignment explanation
Indices: 18201042--18201133 Score: 116
Period size: 37 Copynumber: 2.4 Consensus size: 38
18201032 GATTCTTTTT
* *
18201042 CTTTTTCTTTTTCTCTTTTTGGATACTATCTCTATGAA
1 CTTTTTCTTTTTCTTTTTTTGGATACTATCTCTATCAA
18201080 CTTTTTCTTTTTCTTTTTTTGGGATA-T-TCTCTATCAA
1 CTTTTTCTTTTTCTTTTTTT-GGATACTATCTCTATCAA
***
18201117 AGATTTCTTTTTCTTTT
1 CTTTTTCTTTTTCTTTT
18201134 GATTAATCTT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
37 23 0.48
38 20 0.42
39 5 0.10
ACGTcount: A:0.14, C:0.16, G:0.08, T:0.62
Consensus pattern (38 bp):
CTTTTTCTTTTTCTTTTTTTGGATACTATCTCTATCAA
Done.