Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 126 of 297
Found at i:44165217 original size:27 final size:27
Alignment explanation
Indices: 44165169--44165273 Score: 135
Period size: 27 Copynumber: 3.9 Consensus size: 27
44165159 GCGAGGCTGC
* *
44165169 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
44165196 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
44165222 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
44165249 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
44165274 GACGCTTCCT
Statistics
Matches: 71, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
26 8 0.11
27 60 0.85
28 3 0.04
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:44174243 original size:30 final size:28
Alignment explanation
Indices: 44174203--44174271 Score: 93
Period size: 30 Copynumber: 2.4 Consensus size: 28
44174193 ATGATGTTTA
* **
44174203 ATTTAATTTTATCTTTATTTTTGTTTTT
1 ATTTTATTTTATCTTTATTTTCATTTTT
44174231 ATTTCTACTTTTATCTTTATTTTCATTTTT
1 ATTT-TA-TTTTATCTTTATTTTCATTTTT
44174261 ATTTTATTTTA
1 ATTTTATTTTA
44174272 AGTTTTTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 9 0.25
29 3 0.08
30 24 0.67
ACGTcount: A:0.19, C:0.07, G:0.01, T:0.72
Consensus pattern (28 bp):
ATTTTATTTTATCTTTATTTTCATTTTT
Found at i:44174260 original size:7 final size:6
Alignment explanation
Indices: 44174204--44174281 Score: 68
Period size: 6 Copynumber: 13.0 Consensus size: 6
44174194 TGATGTTTAA
* * * * * *
44174204 TTTAAT TTTATC TTTATT TTTGTT TTTATT TCTACT TTTATC TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* *
44174252 TTCATT TTTA-T TTTATT TTAAGTT TTTATT
1 TTTATT TTTATT TTTATT TTTA-TT TTTATT
44174282 AATTTCACTT
Statistics
Matches: 55, Mismatches: 15, Indels: 4
0.74 0.20 0.05
Matches are distributed among these distances:
5 5 0.09
6 45 0.82
7 5 0.09
ACGTcount: A:0.18, C:0.06, G:0.03, T:0.73
Consensus pattern (6 bp):
TTTATT
Found at i:44175874 original size:24 final size:24
Alignment explanation
Indices: 44175846--44175891 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
44175836 TACCCCATGC
44175846 TTAGCGCATTTTATAAATGATTTT
1 TTAGCGCATTTTATAAATGATTTT
44175870 TTAGCGCATTTTATAAATGATT
1 TTAGCGCATTTTATAAATGATT
44175892 GTTCCCTAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.30, C:0.09, G:0.13, T:0.48
Consensus pattern (24 bp):
TTAGCGCATTTTATAAATGATTTT
Found at i:44177720 original size:6 final size:6
Alignment explanation
Indices: 44177709--44177741 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
44177699 AAAGCAAACC
*
44177709 TAAAAA TAAAAA T-AAAA TAAAAA TAAAAT TAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAA
44177742 GTGAAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (6 bp):
TAAAAA
Found at i:44177727 original size:11 final size:11
Alignment explanation
Indices: 44177711--44177737 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
44177701 AGCAAACCTA
44177711 AAAATAAAAAT
1 AAAATAAAAAT
44177722 AAAATAAAAAT
1 AAAATAAAAAT
44177733 AAAAT
1 AAAAT
44177738 TAAAGTGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:44177729 original size:17 final size:17
Alignment explanation
Indices: 44177709--44177753 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
44177699 AAAGCAAACC
44177709 TAAAAATAAAAATAAAA
1 TAAAAATAAAAATAAAA
* *
44177726 TAAAAATAAAATTAAAG
1 TAAAAATAAAAATAAAA
44177743 TGAAAAATAAA
1 T-AAAAATAAA
44177754 TGGACTCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 16 0.64
18 9 0.36
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (17 bp):
TAAAAATAAAAATAAAA
Found at i:44179349 original size:3 final size:3
Alignment explanation
Indices: 44179332--44179365 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
44179322 GAAATAAGAG
44179332 TAA TAA -AA GTAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA T
44179366 GATTAAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 25 0.86
4 2 0.07
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:44187004 original size:138 final size:138
Alignment explanation
Indices: 44186710--44187024 Score: 497
Period size: 138 Copynumber: 2.3 Consensus size: 138
44186700 GCTCTCTGAT
** *
44186710 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCAT
1 ATGAAATGAATAAAACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCAT
*
44186775 GGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGC
66 GGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGA
* *
44186840 AACCTGAT
131 AACATGAC
** *
44186848 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCAT
1 ATGAAATGAATAAAACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCAT
44186913 GGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGA
66 GGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGA
44186978 AACATGAC
131 AACATGAC
* * * *
44186986 A-GAAAATGAATAAAACCATAGTTAAAAGACACTATGGCA
1 ATG-AAATGAATAAAACCATGGTTGAAAGATACCATGGCA
44187025 TCATGTCAAA
Statistics
Matches: 166, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
137 1 0.01
138 165 0.99
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.23
Consensus pattern (138 bp):
ATGAAATGAATAAAACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCAT
GGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGA
AACATGAC
Found at i:44187014 original size:46 final size:46
Alignment explanation
Indices: 44186705--44186976 Score: 544
Period size: 46 Copynumber: 5.9 Consensus size: 46
44186695 AGTGTGCTCT
44186705 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
44186751 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
44186797 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
44186843 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
44186889 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
44186935 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGG
44186977 AAACATGACA
Statistics
Matches: 226, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 226 1.00
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:44187909 original size:20 final size:20
Alignment explanation
Indices: 44187886--44187923 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
44187876 ACCTGCTAGA
44187886 AGTAAATAAAATAAAAAATT
1 AGTAAATAAAATAAAAAATT
*
44187906 AGTAATTAAAATAAAAAA
1 AGTAAATAAAATAAAAAA
44187924 AATTAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (20 bp):
AGTAAATAAAATAAAAAATT
Found at i:44187932 original size:20 final size:22
Alignment explanation
Indices: 44187898--44187940 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
44187888 TAAATAAAAT
44187898 AAAAAATTAGTAATT-AAAATAA
1 AAAAAATTAG-AATTGAAAATAA
44187920 AAAAAATTA-AATTGAAAATAA
1 AAAAAATTAGAATTGAAAATAA
44187941 GAAATGGCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 7 0.35
22 9 0.45
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.26
Consensus pattern (22 bp):
AAAAAATTAGAATTGAAAATAA
Found at i:44189516 original size:11 final size:11
Alignment explanation
Indices: 44189502--44189585 Score: 53
Period size: 11 Copynumber: 7.3 Consensus size: 11
44189492 TATTTACATA
44189502 ATATAAAAAAT
1 ATATAAAAAAT
*
44189513 ATATGAATAATAT
1 ATAT-AA-AAAAT
*
44189526 GATATTAAAAAT
1 -ATATAAAAAAT
44189538 ATATACATAAAA-
1 ATATA-A-AAAAT
* *
44189550 ATATATATAAT
1 ATATAAAAAAT
* *
44189561 ATATATAATAT
1 ATATAAAAAAT
*
44189572 ATATAAAATAT
1 ATATAAAAAAT
44189583 ATA
1 ATA
44189586 CATAATATAG
Statistics
Matches: 58, Mismatches: 9, Indels: 12
0.73 0.11 0.15
Matches are distributed among these distances:
10 3 0.05
11 30 0.52
12 12 0.21
13 9 0.16
14 4 0.07
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.36
Consensus pattern (11 bp):
ATATAAAAAAT
Found at i:44189523 original size:45 final size:45
Alignment explanation
Indices: 44189462--44189594 Score: 127
Period size: 45 Copynumber: 3.0 Consensus size: 45
44189452 CAATATAGAC
* * *
44189462 AAAAATATATACATAATGT-AGTATTGAAAATATTTACATAATATA
1 AAAAATATATACATAATATGA-TATTAAAAATATATACATAATATA
44189507 AAAAATATATGA-ATAATATGATATTAAAAATATATAC---ATA-A
1 AAAAATATAT-ACATAATATGATATTAAAAATATATACATAATATA
* *
44189548 AAATATATATA-ATATATATAATATATATAAAATATATACATAATATA
1 AAAAATATATACATA-ATATGATAT-TA-AAAATATATACATAATATA
44189595 GTTTTAAAAA
Statistics
Matches: 74, Mismatches: 5, Indels: 16
0.78 0.05 0.17
Matches are distributed among these distances:
40 4 0.05
41 18 0.24
42 5 0.07
43 11 0.15
45 30 0.41
46 5 0.07
47 1 0.01
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.35
Consensus pattern (45 bp):
AAAAATATATACATAATATGATATTAAAAATATATACATAATATA
Found at i:44189538 original size:14 final size:13
Alignment explanation
Indices: 44189505--44189611 Score: 60
Period size: 14 Copynumber: 8.0 Consensus size: 13
44189495 TTACATAATA
44189505 TAAAAA-ATATAT
1 TAAAAATATATAT
* *
44189517 GAATAATATGATAT
1 TAAAAATAT-ATAT
*
44189531 TAAAAATATATACA
1 TAAAAATATATA-T
44189545 TAAAAATATATA-
1 TAAAAATATATAT
*
44189557 TAATATATATAATAT
1 TAA-AAATAT-ATAT
44189572 ATATAAAATATATA-
1 -TA-AAAATATATAT
* * *
44189586 -CATAATATAGTTT
1 TAAAAATATA-TAT
44189599 TAAAAATATATAT
1 TAAAAATATATAT
44189612 AATACATACA
Statistics
Matches: 71, Mismatches: 13, Indels: 21
0.68 0.12 0.20
Matches are distributed among these distances:
11 7 0.10
12 8 0.11
13 12 0.17
14 33 0.46
15 3 0.04
16 7 0.10
17 1 0.01
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (13 bp):
TAAAAATATATAT
Found at i:44189541 original size:16 final size:14
Alignment explanation
Indices: 44189531--44189590 Score: 61
Period size: 14 Copynumber: 4.2 Consensus size: 14
44189521 AATATGATAT
44189531 TAAAAATATATACA
1 TAAAAATATATACA
44189545 TAAAAATATAT--A
1 TAAAAATATATACA
* *
44189557 TAATATATATAATATA
1 TAA-AAATAT-ATACA
44189573 TATAAAATATATACA
1 TA-AAAATATATACA
44189588 TAA
1 TAA
44189591 TATAGTTTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
12 4 0.11
13 5 0.13
14 14 0.37
15 6 0.16
16 8 0.21
17 1 0.03
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (14 bp):
TAAAAATATATACA
Found at i:44189563 original size:9 final size:9
Alignment explanation
Indices: 44189549--44189594 Score: 67
Period size: 9 Copynumber: 5.1 Consensus size: 9
44189539 TATACATAAA
44189549 AATATATAT
1 AATATATAT
44189558 AATATATAT
1 AATATATAT
44189567 AATATATAT
1 AATATATAT
*
44189576 AAAATATAT
1 AATATATAT
44189585 ACATA-ATAT
1 A-ATATATAT
44189594 A
1 A
44189595 GTTTTAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
9 32 0.94
10 2 0.06
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (9 bp):
AATATATAT
Found at i:44189829 original size:18 final size:18
Alignment explanation
Indices: 44189775--44189836 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
44189765 TATATAAGTG
44189775 TAATAATAGTAATTATAATA
1 TAATAATAGTAA-TA-AATA
* *
44189795 CTAATACTAATAATAAATA
1 -TAATAATAGTAATAAATA
* *
44189814 TAATAATAGTAGTAAAGA
1 TAATAATAGTAATAAATA
44189832 TAATA
1 TAATA
44189837 TAAATAATGT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
18 19 0.54
19 4 0.11
20 2 0.06
21 10 0.29
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.34
Consensus pattern (18 bp):
TAATAATAGTAATAAATA
Found at i:44191414 original size:44 final size:44
Alignment explanation
Indices: 44191352--44192252 Score: 772
Period size: 44 Copynumber: 21.1 Consensus size: 44
44191342 AGGAACACCG
* * * * **
44191352 ATCTGTTATTTTCAATTTGCTCTCTGCCAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
44191396 ATCTGTTATCTTCGATTTGCTCTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
44191440 ATCTGTTATCTTCGATTTGCTCTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
44191484 ATCTATTATCTTTGATCTGCTCTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
44191528 ATC----ATCTTCAATCTGCTCTCTGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * * *
44191568 ATCTGTTATCTTTGATCTGCTCTCCGCCGCTGCAGCGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * * **
44191612 ATCTGTTATCTTTGATCTGCTCTTCGCCGCTACGGAGACGCCTCG
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCC-AA
* * * * ** * **
44191657 ATCTGCTCTC-T-G--CCGCTATAGAGACGC--CA-A-ATCTG--TT
1 ATCTGTTATCTTCGATCTGCTCT-CCGCCGCTACAGAGA-C-GCCAA
* * * ** * *** *
44191694 ATCT-TCGATC-T-GCTCT-C-CGCCGCTAC-AGAGATG-CCAAATC
1 ATCTGT-TATCTTCGATCTGCTCTCCGCCGCTACAGA-GACGCCA-A
* * *
44191734 ATCT-TTGATC-TG------CTCTCCGCCACTACAGAGACGCTAA
1 ATCTGTT-ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * *
44191771 ATCTGTTATCTTCAATCTTCTCTCCGCCGCTACAGTGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
44191815 ATCTGTTATCTTCGATCTGCTCTCCACCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * * *
44191859 ATCTGTTATCTTCGATTTGCTCTCTGCCGCTACAAAGACTCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
44191903 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACACCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * * * ** *
44191947 ATCTGTTATCTTTGATCTGCCCTCTGACAATACAGATACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
** * * * ** *
44191991 ATCCATTATCTTCGATCTGCCCTCTGACAATACAGAGACACCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
** *
44192035 ATCCATTATCTTCGATCTGCTCTCCACCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
** * *
44192079 ATCTGTTATCTTCGATCTGCTCTCTTCTGCTAC--AGA-G--AT
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * *
44192118 ATCTATTATCTTCGATCTGCTCTCCGCCGCTACAGATACGCTAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
44192162 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGATACGCTAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
44192206 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
44192250 ATC
1 ATC
44192253 ATCTTGTATT
Statistics
Matches: 711, Mismatches: 110, Indels: 72
0.80 0.12 0.08
Matches are distributed among these distances:
36 3 0.00
37 24 0.03
38 13 0.02
39 33 0.05
40 48 0.07
41 8 0.01
42 8 0.01
43 1 0.00
44 565 0.79
45 8 0.01
ACGTcount: A:0.22, C:0.32, G:0.16, T:0.30
Consensus pattern (44 bp):
ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
Found at i:44191663 original size:31 final size:31
Alignment explanation
Indices: 44191625--44191684 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
44191615 TGTTATCTTT
*
44191625 GATCTGCTCT-TCGCCGCTACGGAGACGCCTC
1 GATCTGCTCTCT-GCCGCTACAGAGACGCCTC
*
44191656 GATCTGCTCTCTGCCGCTATAGAGACGCC
1 GATCTGCTCTCTGCCGCTACAGAGACGCC
44191685 AAATCTGTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 25 0.96
32 1 0.04
ACGTcount: A:0.15, C:0.37, G:0.25, T:0.23
Consensus pattern (31 bp):
GATCTGCTCTCTGCCGCTACAGAGACGCCTC
Found at i:44192334 original size:87 final size:88
Alignment explanation
Indices: 44192214--44192436 Score: 342
Period size: 87 Copynumber: 2.6 Consensus size: 88
44192204 AAATCTGTTA
* * * * * *
44192214 TCTTCGATCTGCTCTCCGCC-GCTACAGAGATGCCAAATCATCTTGTATTTACTTTAACGTAAAC
1 TCTTCGATCTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTACTTCAACATAAAC
44192278 ACATGAAAGCCAAATCAGCTATG
66 ACATGAAAGCCAAATCAGCTATG
* * *
44192301 TCTTTGATCTACTCCCCGCCTGATACAGA-ATGCCAAATCATCTTGGATCTGCTTCAACATAAAC
1 TCTTCGATCTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTACTTCAACATAAAC
*
44192365 ACGTGAAAGCCAAATCAGCTATG
66 ACATGAAAGCCAAATCAGCTATG
44192388 TCTTCGATCTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGAT
1 TCTTCGATCTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGAT
44192437 ATCTTCAGCT
Statistics
Matches: 122, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
87 96 0.79
88 26 0.21
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (88 bp):
TCTTCGATCTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTACTTCAACATAAAC
ACATGAAAGCCAAATCAGCTATG
Found at i:44192664 original size:61 final size:64
Alignment explanation
Indices: 44192546--44192670 Score: 186
Period size: 61 Copynumber: 2.0 Consensus size: 64
44192536 TCATGTATCC
44192546 ATGCTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
* * *
44192610 ATGCTTTATGTCAAATAATTAGGATG-T-T-A-TGAAATGAGTCAAATGCTCCTAACTAGATGTG
1 ATGC-TTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
44192671 TTATTATATG
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
61 30 0.53
62 1 0.02
63 1 0.02
64 5 0.09
65 20 0.35
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
Found at i:44196475 original size:5 final size:5
Alignment explanation
Indices: 44196465--44196523 Score: 54
Period size: 5 Copynumber: 12.0 Consensus size: 5
44196455 GATGCAAATG
*
44196465 ATGCA ATGCA ATGCA CATG-- ATGCA ATGCA ATGTAA ATG-- ATGCA ATGCA
1 ATGCA ATGCA ATGCA -ATGCA ATGCA ATGCA ATG-CA ATGCA ATGCA ATGCA
44196513 ATGCAA ATGCA
1 ATGC-A ATGCA
44196524 TGGGATGAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 14
0.75 0.02 0.23
Matches are distributed among these distances:
3 6 0.13
5 28 0.61
6 12 0.26
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (5 bp):
ATGCA
Found at i:44196484 original size:19 final size:19
Alignment explanation
Indices: 44196456--44196521 Score: 114
Period size: 19 Copynumber: 3.5 Consensus size: 19
44196446 GGAAAATCTG
44196456 ATGCAAATGATGCAATGCA
1 ATGCAAATGATGCAATGCA
*
44196475 ATGCACATGATGCAATGCA
1 ATGCAAATGATGCAATGCA
*
44196494 ATGTAAATGATGCAATGCA
1 ATGCAAATGATGCAATGCA
44196513 ATGCAAATG
1 ATGCAAATG
44196522 CATGGGATGA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 43 1.00
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.23
Consensus pattern (19 bp):
ATGCAAATGATGCAATGCA
Found at i:44196900 original size:41 final size:41
Alignment explanation
Indices: 44196855--44196992 Score: 109
Period size: 41 Copynumber: 3.2 Consensus size: 41
44196845 GATACAGAAT
44196855 GCCAAATCATCTTGGATCTGCTTCAACATAAACACGTGAAA
1 GCCAAATCATCTTGGATCTGCTTCAACATAAACACGTGAAA
* * ** * * * *
44196896 GCCAAATCAGCTATGTCTTCGATCTGCTCCCCGCCT-GATAC-TGAGAT
1 GCCAAAT---C-A--TCTTGGATCTGCT-TCAACATAAACACGTGA-AA
*
44196943 GCCAAATCATCTTGGATCTGCTTCAACGTAAACACGTGAAA
1 GCCAAATCATCTTGGATCTGCTTCAACATAAACACGTGAAA
44196984 GCCAAATCA
1 GCCAAATCA
44196993 GCTATGTCTT
Statistics
Matches: 71, Mismatches: 16, Indels: 20
0.66 0.15 0.19
Matches are distributed among these distances:
40 3 0.04
41 32 0.45
42 3 0.04
43 1 0.01
44 2 0.03
45 1 0.01
46 3 0.04
47 23 0.32
48 3 0.04
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (41 bp):
GCCAAATCATCTTGGATCTGCTTCAACATAAACACGTGAAA
Found at i:44196947 original size:47 final size:47
Alignment explanation
Indices: 44196896--44197039 Score: 126
Period size: 47 Copynumber: 3.2 Consensus size: 47
44196886 ACACGTGAAA
44196896 GCCAAATCAGCTATGTCTTCGATCTGCTCCCCGCCTGATACTGAGAT
1 GCCAAATCAGCTATGTCTTCGATCTGCTCCCCGCCTGATACTGAGAT
* ** * * *
44196943 GCCAAAT---C-A--TCTTGGATCTGCTTCAACG--TAAACACGTGA-AA
1 GCCAAATCAGCTATGTCTTCGATCTGC-TCCCCGCCT-GATAC-TGAGAT
* *
44196984 GCCAAATCAGCTATGTCTTCGATCTTCTCCCCGCCTGATACAGAGAT
1 GCCAAATCAGCTATGTCTTCGATCTGCTCCCCGCCTGATACTGAGAT
44197031 GCCAAATCA
1 GCCAAATCA
44197040 TCTTGGATAT
Statistics
Matches: 71, Mismatches: 14, Indels: 24
0.65 0.13 0.22
Matches are distributed among these distances:
40 1 0.01
41 22 0.31
42 7 0.10
43 1 0.01
44 2 0.03
45 1 0.01
46 6 0.08
47 30 0.42
48 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.26
Consensus pattern (47 bp):
GCCAAATCAGCTATGTCTTCGATCTGCTCCCCGCCTGATACTGAGAT
Found at i:44196985 original size:88 final size:88
Alignment explanation
Indices: 44196763--44197047 Score: 473
Period size: 88 Copynumber: 3.2 Consensus size: 88
44196753 CCTCGCAATG
* * * * *
44196763 GAGATGCCAAATCATCTTGTATTTACTTTAACGTAAACACATGAAAGCCAAATCAGCTATGTCTT
1 GAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTT
*
44196828 TGATCTACTCCCCGCCTGATACA
66 CGATCTACTCCCCGCCTGATACA
*
44196851 GA-ATGCCAAATCATCTTGGATCTGCTTCAACATAAACACGTGAAAGCCAAATCAGCTATGTCTT
1 GAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTT
* *
44196915 CGATCTGCTCCCCGCCTGATACT
66 CGATCTACTCCCCGCCTGATACA
44196938 GAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTT
1 GAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTT
*
44197003 CGATCTTCTCCCCGCCTGATACA
66 CGATCTACTCCCCGCCTGATACA
44197026 GAGATGCCAAATCATCTTGGAT
1 GAGATGCCAAATCATCTTGGAT
44197048 ATCTTCAGCT
Statistics
Matches: 184, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
87 78 0.42
88 106 0.58
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (88 bp):
GAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTT
CGATCTACTCCCCGCCTGATACA
Found at i:44197275 original size:61 final size:64
Alignment explanation
Indices: 44197157--44197281 Score: 186
Period size: 61 Copynumber: 2.0 Consensus size: 64
44197147 TCATGTATCC
44197157 ATGCTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
* * *
44197221 ATGCTTTATGTCAAATAATTAGGATG-T-T-A-TGAAATGAGTCAAATGCTCCTAACTAGATGTG
1 ATGC-TTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
44197282 TTATTATATG
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
61 30 0.53
62 1 0.02
63 1 0.02
64 5 0.09
65 20 0.35
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
Found at i:44201086 original size:5 final size:5
Alignment explanation
Indices: 44201076--44201134 Score: 54
Period size: 5 Copynumber: 12.0 Consensus size: 5
44201066 GATGCAAATG
*
44201076 ATGCA ATGCA ATGCA CATG-- ATGCA ATGCA ATGTAA ATG-- ATGCA ATGCA
1 ATGCA ATGCA ATGCA -ATGCA ATGCA ATGCA ATG-CA ATGCA ATGCA ATGCA
44201124 ATGCAA ATGCA
1 ATGC-A ATGCA
44201135 TGGGATGAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 14
0.75 0.02 0.23
Matches are distributed among these distances:
3 6 0.13
5 28 0.61
6 12 0.26
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (5 bp):
ATGCA
Found at i:44201095 original size:19 final size:19
Alignment explanation
Indices: 44201067--44201132 Score: 114
Period size: 19 Copynumber: 3.5 Consensus size: 19
44201057 GGAAAATCTG
44201067 ATGCAAATGATGCAATGCA
1 ATGCAAATGATGCAATGCA
*
44201086 ATGCACATGATGCAATGCA
1 ATGCAAATGATGCAATGCA
*
44201105 ATGTAAATGATGCAATGCA
1 ATGCAAATGATGCAATGCA
44201124 ATGCAAATG
1 ATGCAAATG
44201133 CATGGGATGA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 43 1.00
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.23
Consensus pattern (19 bp):
ATGCAAATGATGCAATGCA
Found at i:44201555 original size:17 final size:18
Alignment explanation
Indices: 44201533--44201572 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
44201523 GTAATCTGCG
44201533 TTATTAAGA-AATTTGTT
1 TTATTAAGACAATTTGTT
*
44201550 TTATTATGACAATTTGTT
1 TTATTAAGACAATTTGTT
*
44201568 CTATT
1 TTATT
44201573 TAGCAATTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.30, C:0.05, G:0.10, T:0.55
Consensus pattern (18 bp):
TTATTAAGACAATTTGTT
Found at i:44203389 original size:26 final size:26
Alignment explanation
Indices: 44203339--44203390 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
44203329 TATATGTATT
*
44203339 AAAATATATACGTAATAATAGAAATA
1 AAAATATATACGTAATAATAAAAATA
* * *
44203365 AAAATGTATACGTAGTATTAAAAATA
1 AAAATATATACGTAATAATAAAAATA
44203391 TATACATAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.58, C:0.04, G:0.10, T:0.29
Consensus pattern (26 bp):
AAAATATATACGTAATAATAAAAATA
Found at i:44203714 original size:45 final size:45
Alignment explanation
Indices: 44203653--44203756 Score: 113
Period size: 45 Copynumber: 2.2 Consensus size: 45
44203643 CAATATAGAC
* * *
44203653 AAAAATATATACATAATGT-AGTATTGAAAATATTTACATAATATA
1 AAAAATATATACATAATATGA-TATTAAAAATATATACATAATATA
44203698 AAAAATATATGA-ATAATATGATATTAAAAATATATACATAAAAATATA
1 AAAAATATAT-ACATAATATGATATTAAAAATATATACAT---AATATA
*
44203746 ATAAATATATA
1 AAAAATATATA
44203757 TAATATATAC
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
45 32 0.64
46 2 0.04
47 1 0.02
48 15 0.30
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.34
Consensus pattern (45 bp):
AAAAATATATACATAATATGATATTAAAAATATATACATAATATA
Found at i:44203732 original size:16 final size:14
Alignment explanation
Indices: 44203722--44203770 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 14
44203712 AATATGATAT
44203722 TAAAAATATATACA
1 TAAAAATATATACA
*
44203736 TAAAAATATAATAAA
1 TAAAAATAT-ATACA
44203751 TATATATAATATATACA
1 TA-A-A-AATATATACA
44203768 TAA
1 TAA
44203771 TATAGTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
14 9 0.31
15 6 0.21
16 2 0.07
17 7 0.24
18 5 0.17
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (14 bp):
TAAAAATATATACA
Found at i:44203738 original size:25 final size:24
Alignment explanation
Indices: 44203653--44203765 Score: 91
Period size: 25 Copynumber: 4.9 Consensus size: 24
44203643 CAATATAGAC
*
44203653 AAAAATATATACATAATGTAGTATT
1 AAAAATATATACATAATATA-TATT
* *
44203678 GAAAATATTTACAT-A-ATATA--
1 AAAAATATATACATAATATATATT
44203698 AAAAATATATGA-ATAATATGATATT
1 AAAAATATAT-ACATAATAT-ATATT
*
44203723 AAAAATATATACATAA-AAATA-T
1 AAAAATATATACATAATATATATT
44203745 AATAAATATAT--ATAATATATA
1 AA-AAATATATACATAATATATA
44203766 CATAATATAG
Statistics
Matches: 72, Mismatches: 7, Indels: 21
0.72 0.07 0.21
Matches are distributed among these distances:
20 10 0.14
21 6 0.08
22 11 0.15
23 16 0.22
24 3 0.04
25 26 0.36
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.35
Consensus pattern (24 bp):
AAAAATATATACATAATATATATT
Found at i:44203764 original size:11 final size:11
Alignment explanation
Indices: 44203726--44203795 Score: 56
Period size: 11 Copynumber: 6.4 Consensus size: 11
44203716 TGATATTAAA
*
44203726 AATATATACAT
1 AATATATATAT
*
44203737 AA-AAATATAAT
1 AATATATAT-AT
44203748 AA-ATATATAT
1 AATATATATAT
*
44203758 AATATATACAT
1 AATATATATAT
*
44203769 AATATAGT-TTT
1 AATATA-TATAT
44203780 AAATATATATAT
1 -AATATATATAT
44203792 AATA
1 AATA
44203796 CATACACATT
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
10 8 0.17
11 30 0.64
12 9 0.19
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (11 bp):
AATATATATAT
Found at i:44203767 original size:32 final size:33
Alignment explanation
Indices: 44203726--44203799 Score: 93
Period size: 32 Copynumber: 2.4 Consensus size: 33
44203716 TGATATTAAA
44203726 AATATATACATAAAAATA-TAATAAATATATAT
1 AATATATACATAAAAATAGTAATAAATATATAT
* **
44203758 AATATATACAT-AATATAGTTTTAAATATATAT
1 AATATATACATAAAAATAGTAATAAATATATAT
44203790 -ATA-ATACATA
1 AATATATACATA
44203800 CACATTAGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
30 6 0.16
31 8 0.22
32 23 0.62
ACGTcount: A:0.57, C:0.04, G:0.01, T:0.38
Consensus pattern (33 bp):
AATATATACATAAAAATAGTAATAAATATATAT
Found at i:44203999 original size:12 final size:11
Alignment explanation
Indices: 44203959--44204026 Score: 55
Period size: 12 Copynumber: 5.7 Consensus size: 11
44203949 TAAAAGTGTA
*
44203959 ATAATAGTAATT
1 ATAATAATAA-T
*
44203971 ATAATACTAAT
1 ATAATAATAAT
44203982 ACTAATAATAGAT
1 A-TAATAATA-AT
*
44203995 ATAATAATAGT
1 ATAATAATAAT
*
44204006 AGTAAAAATAAT
1 A-TAATAATAAT
44204018 ATAAATAAT
1 AT-AATAAT
44204027 GTGTACATAA
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
11 5 0.11
12 38 0.83
13 3 0.07
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.34
Consensus pattern (11 bp):
ATAATAATAAT
Found at i:44205297 original size:15 final size:16
Alignment explanation
Indices: 44205279--44205308 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
44205269 GGTTTTGGGC
44205279 TGTTGGG-TTTTTAGA
1 TGTTGGGCTTTTTAGA
44205294 TGTTGGGCTTTTTAG
1 TGTTGGGCTTTTTAG
44205309 CCCGGGCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.10, C:0.03, G:0.33, T:0.53
Consensus pattern (16 bp):
TGTTGGGCTTTTTAGA
Found at i:44213668 original size:26 final size:26
Alignment explanation
Indices: 44213631--44213756 Score: 89
Period size: 26 Copynumber: 4.8 Consensus size: 26
44213621 AACAATATAT
*
44213631 ATTATAAAATAGCACATAAAAGAAATA
1 ATTA-AAAATAGCACATAAAATAAATA
* *
44213658 ATTAAACATAGCATATAAAA-AAGATA
1 ATTAAAAATAGCACATAAAATAA-ATA
* * * *
44213684 CATGCAAAAATTA-TACA-ACAATATAT-
1 -AT-TAAAAA-TAGCACATAAAATAAATA
44213710 ATTATAAAATAGCACATAAAATAAATA
1 ATTA-AAAATAGCACATAAAATAAATA
* *
44213737 ATTAAACATAGCATATAAAA
1 ATTAAAAATAGCACATAAAA
44213757 AATGAAACTA
Statistics
Matches: 76, Mismatches: 14, Indels: 19
0.70 0.13 0.17
Matches are distributed among these distances:
24 3 0.04
25 11 0.14
26 38 0.50
27 15 0.20
28 7 0.09
29 2 0.03
ACGTcount: A:0.60, C:0.10, G:0.06, T:0.25
Consensus pattern (26 bp):
ATTAAAAATAGCACATAAAATAAATA
Found at i:44213685 original size:79 final size:79
Alignment explanation
Indices: 44213602--44213758 Score: 305
Period size: 79 Copynumber: 2.0 Consensus size: 79
44213592 GAAAAACATA
44213602 ATACATGCAAAAATTATACAACAATATATATTATAAAATAGCACATAAAAGAAATAATTAAACAT
1 ATACATGCAAAAATTATACAACAATATATATTATAAAATAGCACATAAAAGAAATAATTAAACAT
44213667 AGCATATAAAAAAG
66 AGCATATAAAAAAG
*
44213681 ATACATGCAAAAATTATACAACAATATATATTATAAAATAGCACATAAAATAAATAATTAAACAT
1 ATACATGCAAAAATTATACAACAATATATATTATAAAATAGCACATAAAAGAAATAATTAAACAT
44213746 AGCATATAAAAAA
66 AGCATATAAAAAA
44213759 TGAAACTATA
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 77 1.00
ACGTcount: A:0.60, C:0.10, G:0.05, T:0.25
Consensus pattern (79 bp):
ATACATGCAAAAATTATACAACAATATATATTATAAAATAGCACATAAAAGAAATAATTAAACAT
AGCATATAAAAAAG
Found at i:44213716 original size:41 final size:41
Alignment explanation
Indices: 44213602--44213718 Score: 118
Period size: 38 Copynumber: 2.9 Consensus size: 41
44213592 GAAAAACATA
*
44213602 ATACATGCAAAAATTATACAACAATATATATTATAAAATAG
1 ATACATGCAAAAATTATACAACAATATATATTATAAAAAAG
* ** * **
44213643 -CACATAAAAGAAATAATTA-AAC-ATA-GCA-TATAAAAAAG
1 ATACATGCAA-AAATTA-TACAACAATATATATTATAAAAAAG
44213681 ATACATGCAAAAATTATACAACAATATATATTATAAAA
1 ATACATGCAAAAATTATACAACAATATATATTATAAAA
44213719 TAGCACATAA
Statistics
Matches: 56, Mismatches: 13, Indels: 14
0.67 0.16 0.17
Matches are distributed among these distances:
37 2 0.04
38 17 0.30
39 10 0.18
40 10 0.18
41 15 0.27
42 2 0.04
ACGTcount: A:0.59, C:0.10, G:0.05, T:0.26
Consensus pattern (41 bp):
ATACATGCAAAAATTATACAACAATATATATTATAAAAAAG
Found at i:44213754 original size:21 final size:23
Alignment explanation
Indices: 44213730--44213782 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 23
44213720 AGCACATAAA
* *
44213730 ATAAATAATTAAAC-ATA-GCAT
1 ATAAATAATGAAACTATACACAT
*
44213751 ATAAAAAATGAAACTATACACAT
1 ATAAATAATGAAACTATACACAT
44213774 ATAAGATAA
1 ATAA-ATAA
44213783 ATGACATACA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 12 0.48
22 3 0.12
23 7 0.28
24 3 0.12
ACGTcount: A:0.60, C:0.09, G:0.06, T:0.25
Consensus pattern (23 bp):
ATAAATAATGAAACTATACACAT
Found at i:44213756 original size:38 final size:37
Alignment explanation
Indices: 44213633--44213756 Score: 115
Period size: 38 Copynumber: 3.2 Consensus size: 37
44213623 CAATATATAT
44213633 TATAAAATAGCACATAAAAGAAATAATTAAACATAGCA
1 TATAAAATAGCACATAAAA-AAATAATTAAACATAGCA
* * ** * **
44213671 TATAAAAAAGATACATGCAAAAATTA-TACAACAATATATA
1 TATAAAATAG-CACATAAAAAAATAATTA-AAC-ATA-GCA
44213711 TTATAAAATAGCACATAAAATAAATAATTAAACATAGCA
1 -TATAAAATAGCACATAAAA-AAATAATTAAACATAGCA
44213750 TATAAAA
1 TATAAAA
44213757 AATGAAACTA
Statistics
Matches: 65, Mismatches: 14, Indels: 14
0.70 0.15 0.15
Matches are distributed among these distances:
37 2 0.03
38 24 0.37
39 10 0.15
40 10 0.15
41 17 0.26
42 2 0.03
ACGTcount: A:0.60, C:0.10, G:0.06, T:0.24
Consensus pattern (37 bp):
TATAAAATAGCACATAAAAAAATAATTAAACATAGCA
Found at i:44214285 original size:22 final size:21
Alignment explanation
Indices: 44214255--44214320 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
44214245 TACAAATTAA
44214255 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
44214277 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
44214298 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
44214317 ATCT
1 ATCT
44214321 ATGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:44214307 original size:19 final size:19
Alignment explanation
Indices: 44214272--44214369 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
44214262 AGATTACAAG
44214272 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
44214293 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
*
44214312 ATCATATCTATGATTG--T
1 ATCATATCTAAGATTGCAT
44214329 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
44214348 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
44214367 ATC
1 ATC
44214370 CTTAAAGATT
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
17 16 0.22
19 48 0.66
20 1 0.01
21 8 0.11
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:44214336 original size:36 final size:36
Alignment explanation
Indices: 44214272--44214363 Score: 139
Period size: 36 Copynumber: 2.4 Consensus size: 36
44214262 AGATTACAAG
44214272 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTG--TATCATATCTAAGATTGCAT
*
44214312 ATCATATCTATGATTGTATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
44214348 ATCATATCTAAGATTG
1 ATCATATCTAAGATTG
44214364 CATATCCTTA
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
36 35 0.70
38 6 0.12
39 1 0.02
40 8 0.16
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (36 bp):
ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
Found at i:44214378 original size:36 final size:35
Alignment explanation
Indices: 44214272--44214379 Score: 103
Period size: 36 Copynumber: 2.9 Consensus size: 35
44214262 AGATTACAAG
*
44214272 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTGCATATC--CT-TAAGATTGCAT
*
44214312 ATCATATCTATGATTGTATCATAT-C-TAAGATTGCAT
1 ATCATATCTAAGATTG---CATATCCTTAAGATTGCAT
44214348 ATCATATCTAAGATTGCATATCCTTAAAGATT
1 ATCATATCTAAGATTGCATATCCTT-AAGATT
44214380 ATATTTCCAT
Statistics
Matches: 59, Mismatches: 3, Indels: 16
0.76 0.04 0.21
Matches are distributed among these distances:
33 5 0.08
34 1 0.02
35 1 0.02
36 32 0.54
38 6 0.10
39 1 0.02
40 8 0.14
41 5 0.08
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (35 bp):
ATCATATCTAAGATTGCATATCCTTAAGATTGCAT
Found at i:44214786 original size:45 final size:45
Alignment explanation
Indices: 44214730--44214818 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
44214720 CGATATCTTC
* *
44214730 TATCTTTGATCTGCTCATCGTCTAATACAGAGACGCCAAATTTGT
1 TATCTTCGATCTGCTCACCGTCTAATACAGAGACGCCAAATTTGT
*
44214775 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATTTG
1 TATCTTCGATCTGCTCACCGTCTAATACAGAGACGCCAAATTTG
44214819 CTGCTTCAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.33
Consensus pattern (45 bp):
TATCTTCGATCTGCTCACCGTCTAATACAGAGACGCCAAATTTGT
Found at i:44215261 original size:205 final size:205
Alignment explanation
Indices: 44214909--44215613 Score: 1198
Period size: 205 Copynumber: 3.4 Consensus size: 205
44214899 AAATCTGCTT
* * *
44214909 CTTCAATTTGTTCCCTGACAATACAGAGATGCCAAATCCTCTTAGATTTGCTTT-AACGTAAGCA
1 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTG-TTTCAACGTAACCA
* * * *
44214973 CGTGAAAGCCAAATCAACTATGTCTTCGACTTGCTCCTTGTAAGCACAAGAATGCCAAACCATCT
65 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTACTCCTTGTAAGCACAAGGATGCCAAACCATCT
* *
44215038 TGGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTA-GATGTCTGCCCTCTGTCGAAGT
130 TGGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATG-TGTCTGCCCTCCGTCAAAGT
44215102 GGAGATGCCAGA
194 GGAGATGCCAGA
*
44215114 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGTTTCAACGTAACCAT
1 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGTTTCAACGTAACCAC
44215179 GTGAAAGCCAAATCAGCTATGTCTTCGATTTACTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTACTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * *
44215244 GGATCTACTTCAGTATAAACATATGAAGGTTGGATCTGCTATGTGCCTGCCCTCCGTCAAAGTGC
131 GGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCGTCAAAGTGG
44215309 AGATGCCAGA
196 AGATGCCAGA
* *
44215319 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGTTTCAACGTAACCAT
1 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGTTTCAACGTAACCAC
44215384 GTGAAAGCCAAATCAGCTATGTCTTCGATTTACTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTACTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
44215449 GGATCTACTTCAGTATAAACATCTAAAAGTTGGATCTGCTATGTGTCTGCCCTCCGTCAAAGTGG
131 GGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCGTCAAAGTGG
44215514 AGATGCCAGA
196 AGATGCCAGA
* * *
44215524 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACAC
1 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGTTTCAACGTAACCAC
44215589 GTGAAAGCCAAATCAGCTATGTCTT
66 GTGAAAGCCAAATCAGCTATGTCTT
44215614 TGATCTGCTC
Statistics
Matches: 476, Mismatches: 22, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
204 3 0.01
205 472 0.99
206 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (205 bp):
CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGTTTCAACGTAACCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTACTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCGTCAAAGTGG
AGATGCCAGA
Found at i:44215666 original size:44 final size:44
Alignment explanation
Indices: 44215595--44215702 Score: 153
Period size: 44 Copynumber: 2.4 Consensus size: 44
44215585 ACACGTGAAA
* * *
44215595 GCCAAATCAGCTATGTCTTTGATCTGCTCTCCGCCAATACAGAGAT
1 GCCAAATCTGCTA--TCTTCGATCTGCTCTCCGACAATACAGAGAT
* *
44215641 GCCAAATCTGGTATCTTCGATCTGCTCTCTGACAATACAGAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCCGACAATACAGAGAT
44215685 GCCAAATCTGCTATCTTC
1 GCCAAATCTGCTATCTTC
44215703 AACTTGTTCC
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 45 0.80
46 11 0.20
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.30
Consensus pattern (44 bp):
GCCAAATCTGCTATCTTCGATCTGCTCTCCGACAATACAGAGAT
Found at i:44215730 original size:44 final size:44
Alignment explanation
Indices: 44215633--44216176 Score: 434
Period size: 44 Copynumber: 12.4 Consensus size: 44
44215623 CTCCGCCAAT
* * * * * *
44215633 ACAGAGATGCCAAATCTGGTATCTTCGATCTGCTCTCTGA-CAAT
1 ACAGGGATGCCAAATCTGCTATCTTCGATCTGTTCCCT-ATAAAC
* *
44215677 ACAGAGATGCCAAATCTGCTATCTTC-AACTTGTTCCCTATAAAC
1 ACAGGGATGCCAAATCTGCTATCTTCGATC-TGTTCCCTATAAAC
** * * * **
44215721 ACAGGGATGCC--ATGCTGAAATCCTCGATCTGCTTCGCTGTAAGT
1 ACAGGGATGCCAAAT-CTGCTATCTTCGATCTG-TTCCCTATAAAC
* * *
44215765 ACA-GGAGTGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAAC
1 ACAGGGA-TGCCAAATCTGCTATCTTCGATCTGTTCCCTATAAAC
*
44215809 ACAGGGATGCCAAATCTGCTATCTTC-AACTTGTTCCCTATAAAC
1 ACAGGGATGCCAAATCTGCTATCTTCGATC-TGTTCCCTATAAAC
* ** * * * * *
44215853 ACAGGGATGTC--ATGCTGAAATCCTCAATCTGCTTCGCTGTAAGC
1 ACAGGGATGCCAAAT-CTGCTATCTTCGATCTG-TTCCCTATAAAC
* * * *
44215897 ACA-GGAGTGTCAGATCTGTTATCTTCGATCTATTCCCTATAAAC
1 ACAGGGA-TGCCAAATCTGCTATCTTCGATCTGTTCCCTATAAAC
* * *
44215941 ACAGGGATGCCAAAACTGCTATCTTC-AACTTATTCCCTATAAAC
1 ACAGGGATGCCAAATCTGCTATCTTCGATC-TGTTCCCTATAAAC
**
44215985 ACAGGGATGCC--ATGCTGAAATCTTCGATCTGTTCCCTATAAAC
1 ACAGGGATGCCAAAT-CTGCTATCTTCGATCTGTTCCCTATAAAC
*
44216028 ACAGGGATGCCAAATCTGCTATCTTC-AACTTGTTCCCTATAAAC
1 ACAGGGATGCCAAATCTGCTATCTTCGATC-TGTTCCCTATAAAC
* *** * * *
44216072 ACAGGGATTCC--ATGCTAAAATCTTCGATCTGCTTCGCTGTAAGC
1 ACAGGGATGCCAAAT-CTGCTATCTTCGATCTG-TTCCCTATAAAC
* * *
44216116 ACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAAC
1 ACAGGGATGCCAAATCTGCTATCTTCGATCTGTTCCCTATAAAC
44216160 ACAGGGATGCCAAATCT
1 ACAGGGATGCCAAATCT
44216177 TGTTTCTTTG
Statistics
Matches: 396, Mismatches: 76, Indels: 56
0.75 0.14 0.11
Matches are distributed among these distances:
42 7 0.02
43 78 0.20
44 257 0.65
45 48 0.12
46 6 0.02
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29
Consensus pattern (44 bp):
ACAGGGATGCCAAATCTGCTATCTTCGATCTGTTCCCTATAAAC
Found at i:44215869 original size:132 final size:132
Alignment explanation
Indices: 44215646--44216079 Score: 633
Period size: 132 Copynumber: 3.3 Consensus size: 132
44215636 GAGATGCCAA
* * * * * *
44215646 ATCTGGTATCTTCGATCTGCTCTCTGA-CAATACAGAGATGCCAAATCTGCTATCTTCAACTTGT
1 ATCTGTTATCTTCGATCTGTTCCCT-ATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGT
*
44215710 TCCCTATAAACACAGGGATGCCATGCTGAAATCCTCGATCTGCTTCGCTGTAAGTACAGGAGTGT
65 TCCCTATAAACACAGGGATGCCATGCTGAAATCCTCGATCTGCTTCGCTGTAAGCACAGGAGTGT
44215775 CAG
130 CAG
44215778 ATCTGTTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTT
1 ATCTGTTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTT
* *
44215843 CCCTATAAACACAGGGATGTCATGCTGAAATCCTCAATCTGCTTCGCTGTAAGCACAGGAGTGTC
66 CCCTATAAACACAGGGATGCCATGCTGAAATCCTCGATCTGCTTCGCTGTAAGCACAGGAGTGTC
44215908 AG
131 AG
* * *
44215910 ATCTGTTATCTTCGATCTATTCCCTATAAACACAGGGATGCCAAAACTGCTATCTTCAACTTATT
1 ATCTGTTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTT
* * * * *
44215975 CCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTG-TTCCCTATAAACACAGG-GATGC
66 CCCTATAAACACAGGGATGCCATGCTGAAATCCTCGATCTGCTTCGCTGTAAGCACAGGAG-TGT
*
44216038 CAA
130 CAG
* *
44216041 ATCTGCTATCTTC-AACTTGTTCCCTATAAACACAGGGAT
1 ATCTGTTATCTTCGATC-TGTTCCCTATAAACACAGGGAT
44216080 TCCATGCTAA
Statistics
Matches: 276, Mismatches: 23, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
130 3 0.01
131 52 0.19
132 221 0.80
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (132 bp):
ATCTGTTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTT
CCCTATAAACACAGGGATGCCATGCTGAAATCCTCGATCTGCTTCGCTGTAAGCACAGGAGTGTC
AG
Found at i:44217104 original size:13 final size:13
Alignment explanation
Indices: 44217081--44217137 Score: 64
Period size: 13 Copynumber: 4.3 Consensus size: 13
44217071 TTTTTTATTT
44217081 TTTTCTCTTTTTTC
1 TTTT-TCTTTTTTC
*
44217095 TTTTTCTTTTTTA
1 TTTTTCTTTTTTC
44217108 TTTTT-TTCTTTTC
1 TTTTTCTT-TTTTC
44217121 TTTTTCCTTTTTT-
1 TTTTT-CTTTTTTC
44217134 TTTT
1 TTTT
44217138 GAAATAGAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
12 2 0.05
13 26 0.68
14 8 0.21
15 2 0.05
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTCTTTTTTC
Found at i:44217104 original size:20 final size:18
Alignment explanation
Indices: 44217070--44217137 Score: 66
Period size: 20 Copynumber: 3.6 Consensus size: 18
44217060 GGCCTTTCCA
*
44217070 TTTTTTTATTTT-TTTCTC
1 TTTTTTT-TTTTCTTTTTC
*
44217088 TTTTTTCTTTTTCTTTTTTA
1 TTTTTT-TTTTTC-TTTTTC
44217108 TTTTTTTCTTTTCTTTTTCC
1 TTTTTTT-TTTTCTTTTT-C
44217128 TTTTTTTTTT
1 TTTTTTTTTT
44217138 GAAATAGAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
18 10 0.24
19 10 0.24
20 22 0.52
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (18 bp):
TTTTTTTTTTTCTTTTTC
Found at i:44217112 original size:21 final size:20
Alignment explanation
Indices: 44217079--44217134 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 20
44217069 ATTTTTTTAT
44217079 TTTTTTCTCTTTTTTCTTTTTC
1 TTTTTTCT-TTTTTTC-TTTTC
*
44217101 TTTTTTATTTTTTTCTTTTC
1 TTTTTTCTTTTTTTCTTTTC
*
44217121 TTTTTCCTTTTTTT
1 TTTTTTCTTTTTTT
44217135 TTTGAAATAG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 17 0.55
21 7 0.23
22 7 0.23
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (20 bp):
TTTTTTCTTTTTTTCTTTTC
Found at i:44217119 original size:7 final size:7
Alignment explanation
Indices: 44217080--44217137 Score: 59
Period size: 7 Copynumber: 8.6 Consensus size: 7
44217070 TTTTTTTATT
44217080 TTTTTCTC
1 TTTTT-TC
44217088 TTTTTTC
1 TTTTTTC
44217095 -TTTTTC
1 TTTTTTC
*
44217101 TTTTTTA
1 TTTTTTC
44217108 TTTTTT-
1 TTTTTTC
*
44217114 TCTTTTC
1 TTTTTTC
*
44217121 TTTTTCC
1 TTTTTTC
44217128 TTTTTT-
1 TTTTTTC
44217134 TTTT
1 TTTT
44217138 GAAATAGAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
6 15 0.35
7 23 0.53
8 5 0.12
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTTC
Found at i:44217135 original size:21 final size:21
Alignment explanation
Indices: 44217080--44217135 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
44217070 TTTTTTTATT
*
44217080 TTTTTCTCTTTTTTCTTTTTC
1 TTTTTCTTTTTTTTCTTTTTC
44217101 TTTTT-TATTTTTTTC-TTTTC
1 TTTTTCT-TTTTTTTCTTTTTC
44217121 TTTTTCCTTTTTTTT
1 TTTTT-CTTTTTTTT
44217136 TTGAAATAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
20 11 0.35
21 19 0.61
22 1 0.03
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (21 bp):
TTTTTCTTTTTTTTCTTTTTC
Found at i:44217135 original size:30 final size:29
Alignment explanation
Indices: 44217070--44217137 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 29
44217060 GGCCTTTCCA
44217070 TTTTTTTATTTTTTTCTCTTTTTTCTTTT
1 TTTTTTTATTTTTTTCTCTTTTTTCTTTT
* *
44217099 TCTTTTTTATTTTTTTCTTTTCTTTTTCCTTT
1 T-TTTTTTATTTTTTTC-TCT-TTTTTCTTTT
44217131 TTTTTTT
1 TTTTTTT
44217138 GAAATAGAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 1 0.03
30 15 0.44
31 8 0.24
32 10 0.29
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (29 bp):
TTTTTTTATTTTTTTCTCTTTTTTCTTTT
Found at i:44224646 original size:53 final size:53
Alignment explanation
Indices: 44224565--44224710 Score: 213
Period size: 53 Copynumber: 2.7 Consensus size: 53
44224555 CTTACACGGT
* *
44224565 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
44224620 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
**
44224673 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTA
44224711 AATGGGCGTA
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
52 1 0.01
53 77 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:44226275 original size:22 final size:21
Alignment explanation
Indices: 44226245--44226310 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
44226235 TACAAATTAA
44226245 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
44226267 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
44226288 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
44226307 ATCT
1 ATCT
44226311 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:44226326 original size:24 final size:19
Alignment explanation
Indices: 44226262--44226342 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
44226252 AGATTACAAG
44226262 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
44226283 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
*
44226302 ATCATATCTAAGATTGTAT
1 ATCATATCTAAGATTGCAT
*
44226321 ATCATATCTGAGATTGCAT
1 ATCATATCTAAGATTGCAT
44226340 ATC
1 ATC
44226343 CTTAAAGATT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
19 48 0.84
20 1 0.02
21 8 0.14
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:44227475 original size:30 final size:30
Alignment explanation
Indices: 44227441--44227520 Score: 88
Period size: 30 Copynumber: 2.7 Consensus size: 30
44227431 ACAAATCAAT
*
44227441 TACAAATTCAGTTGCAGATGCAAATACTTA
1 TACAAATTCAGTTACAGATGCAAATACTTA
* * **
44227471 TACAAATTCTGTTACAGATGCAGATACAGA
1 TACAAATTCAGTTACAGATGCAAATACTTA
* * *
44227501 TACTAATTTAGTTATAGATG
1 TACAAATTCAGTTACAGATG
44227521 GAAACTCAGT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.33
Consensus pattern (30 bp):
TACAAATTCAGTTACAGATGCAAATACTTA
Found at i:44229140 original size:47 final size:47
Alignment explanation
Indices: 44229076--44229186 Score: 118
Period size: 47 Copynumber: 2.4 Consensus size: 47
44229066 GACATTGAGT
* * * *
44229076 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTTCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCAGATTTATTC
* * * *
44229123 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCAGATTTATTT
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCAGATTTATTC
44229170 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
44229187 CTTATCCCGG
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
47 48 0.92
48 4 0.08
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCAGATTTATTC
Found at i:44231142 original size:6 final size:6
Alignment explanation
Indices: 44231131--44231171 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
44231121 TAATTCTAAC
*
44231131 CATTCT CATTCT CATTC- CAATTCT AATTCT CATTCT C-TTCT
1 CATTCT CATTCT CATTCT C-ATTCT CATTCT CATTCT CATTCT
44231172 AGTTCGCTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
5 5 0.16
6 26 0.84
ACGTcount: A:0.20, C:0.32, G:0.00, T:0.49
Consensus pattern (6 bp):
CATTCT
Found at i:44239102 original size:15 final size:15
Alignment explanation
Indices: 44239084--44239113 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
44239074 TTTATTCTTT
44239084 CTTTTATTATTATTA
1 CTTTTATTATTATTA
44239099 CTTTTATTATTATTA
1 CTTTTATTATTATTA
44239114 TAATCTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
CTTTTATTATTATTA
Found at i:44239122 original size:18 final size:18
Alignment explanation
Indices: 44239087--44239131 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 18
44239077 ATTCTTTCTT
*
44239087 TTATTATTATTACTTTTA
1 TTATTATTATAACTTTTA
44239105 TTATTATTATAATCTTTATA
1 TTATTATTATAA-CTTT-TA
44239125 TATATTA
1 T-TATTA
44239132 ATTTCATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 11 0.48
19 4 0.17
20 3 0.13
21 5 0.22
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (18 bp):
TTATTATTATAACTTTTA
Found at i:44240971 original size:20 final size:21
Alignment explanation
Indices: 44240933--44240988 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
44240923 AAAAATGATT
44240933 AAAATCATTA-AAA-TTAT-AA
1 AAAAT-ATTAGAAATTTATAAA
44240952 AAAATATTAGAAATTTATAAAA
1 AAAATATTAGAAATTTAT-AAA
44240974 AAAATATTAGAAATT
1 AAAATATTAGAAATT
44240989 AATTAATCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
18 4 0.12
19 8 0.24
20 4 0.12
22 17 0.52
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (21 bp):
AAAATATTAGAAATTTATAAA
Found at i:44241354 original size:19 final size:20
Alignment explanation
Indices: 44241331--44241379 Score: 84
Period size: 19 Copynumber: 2.5 Consensus size: 20
44241321 GTTTTTAATT
44241331 AATTTCTAATACTTTTTAGG
1 AATTTCTAATACTTTTTAGG
44241351 -ATTTCTAATACTTTTTAGG
1 AATTTCTAATACTTTTTAGG
44241370 AATTT-TAATA
1 AATTTCTAATA
44241380 AAAATTTACA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 24 0.86
20 4 0.14
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.51
Consensus pattern (20 bp):
AATTTCTAATACTTTTTAGG
Found at i:44246325 original size:18 final size:18
Alignment explanation
Indices: 44246293--44246353 Score: 50
Period size: 18 Copynumber: 3.4 Consensus size: 18
44246283 TCTTCATTCT
**
44246293 AGGAAGAAGCCGAAGTAG
1 AGGAAGAAGAAGAAGTAG
*
44246311 AGGAAGAAGAAGAAGAAG
1 AGGAAGAAGAAGAAGTAG
*** *
44246329 AGTCTGAAGAGGAAGTAG
1 AGGAAGAAGAAGAAGTAG
*
44246347 AAGAAGA
1 AGGAAGA
44246354 GCCCGAGGTC
Statistics
Matches: 31, Mismatches: 12, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.51, C:0.05, G:0.38, T:0.07
Consensus pattern (18 bp):
AGGAAGAAGAAGAAGTAG
Found at i:44249073 original size:25 final size:25
Alignment explanation
Indices: 44249018--44249073 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 25
44249008 TTTATTTTAT
*
44249018 TTTATTTTTTCAAAATTAAACTAAA
1 TTTATTTTTACAAAATTAAACTAAA
44249043 TATTATTTTTACAAAATTAAACTAAA
1 T-TTATTTTTACAAAATTAAACTAAA
44249069 TTTAT
1 TTTAT
44249074 ACTATTATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 5 0.17
26 24 0.83
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (25 bp):
TTTATTTTTACAAAATTAAACTAAA
Found at i:44249968 original size:25 final size:24
Alignment explanation
Indices: 44249917--44249973 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
44249907 TTTATTTTAT
*
44249917 TAAATAAA-A-ATTTAAAATATAA
1 TAAATAAATACATTTAAAACATAA
44249939 TAAATCAAATACATTTAAAAACATAA
1 TAAAT-AAATACATTT-AAAACATAA
44249965 -AAATAAATA
1 TAAATAAATA
44249974 TTAAAACAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 5 0.17
23 3 0.10
24 6 0.20
25 8 0.27
26 8 0.27
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (24 bp):
TAAATAAATACATTTAAAACATAA
Found at i:44250360 original size:24 final size:23
Alignment explanation
Indices: 44250333--44250378 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
44250323 GGACTAAAAT
44250333 TAAAATAAAATTTTGATTTAATGG
1 TAAAATAAAATTTTGA-TTAATGG
* * *
44250357 TAAAGTTAAATTTTTATTAATG
1 TAAAATAAAATTTTGATTAATG
44250379 TAACTAGCAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (23 bp):
TAAAATAAAATTTTGATTAATGG
Found at i:44253865 original size:42 final size:42
Alignment explanation
Indices: 44253819--44253904 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
44253809 TAAGGATATC
44253819 AAAAATGACCAAATTGAAGGAAATGAATTGATTTATTGTCTA
1 AAAAATGACCAAATTGAAGGAAATGAATTGATTTATTGTCTA
44253861 AAAAATGACCAAATTGAAGGAAATGAATTGATTTATTGTCTA
1 AAAAATGACCAAATTGAAGGAAATGAATTGATTTATTGTCTA
44253903 AA
1 AA
44253905 TTAATAAATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.47, C:0.07, G:0.16, T:0.30
Consensus pattern (42 bp):
AAAAATGACCAAATTGAAGGAAATGAATTGATTTATTGTCTA
Found at i:44255038 original size:43 final size:43
Alignment explanation
Indices: 44254959--44255040 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 43
44254949 AAAAACACTA
* ***
44254959 CTAAAAATCATGACTTTTAGCGGTATTTGTGGGAAAAGCGCCG
1 CTAAAAATCATGACTTTTAGCGGCATTTGCAAGAAAAGCGCCG
* *
44255002 CTAAAAGTCATGACTTTTAGCGGCGTTTGCAAGAAAAGC
1 CTAAAAATCATGACTTTTAGCGGCATTTGCAAGAAAAGC
44255041 ATGCTTTTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (43 bp):
CTAAAAATCATGACTTTTAGCGGCATTTGCAAGAAAAGCGCCG
Found at i:44255186 original size:31 final size:31
Alignment explanation
Indices: 44255133--44255192 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
44255123 TTCCTACATT
* *
44255133 AAATCCAACCAAAAATAACAAATATAGCATG
1 AAATCCAACAAAAAACAACAAATATAGCATG
* * *
44255164 AAATGCAACAAAAAACAGCAAATTTAGCA
1 AAATCCAACAAAAAACAACAAATATAGCA
44255193 CAAAAAGTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.58, C:0.18, G:0.08, T:0.15
Consensus pattern (31 bp):
AAATCCAACAAAAAACAACAAATATAGCATG
Found at i:44255461 original size:21 final size:21
Alignment explanation
Indices: 44255436--44255494 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
44255426 CTGCTTTGCT
*
44255436 CTGCCTCCCTCGCTGCTGCCG
1 CTGCCTCCCTCACTGCTGCCG
*
44255457 CTGCCTCCCTCATTGCTGCCG
1 CTGCCTCCCTCACTGCTGCCG
*
44255478 CTGCCTCCCTCTCTGCT
1 CTGCCTCCCTCACTGCT
44255495 ACCTCCGCTC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.02, C:0.51, G:0.19, T:0.29
Consensus pattern (21 bp):
CTGCCTCCCTCACTGCTGCCG
Found at i:44257309 original size:9 final size:9
Alignment explanation
Indices: 44257274--44257341 Score: 57
Period size: 9 Copynumber: 7.6 Consensus size: 9
44257264 ACTAGGGATA
44257274 TTATGATAAG
1 TTAT-ATAAG
*
44257284 TTATAT-AT
1 TTATATAAG
*
44257292 TTATCTAAG
1 TTATATAAG
44257301 TTATATAAG
1 TTATATAAG
*
44257310 TTATGTAAG
1 TTATATAAG
* *
44257319 TTTTGTAAG
1 TTATATAAG
* *
44257328 TTATGTAAA
1 TTATATAAG
44257337 TTATA
1 TTATA
44257342 ATATCAAATA
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
8 6 0.12
9 38 0.79
10 4 0.08
ACGTcount: A:0.37, C:0.01, G:0.13, T:0.49
Consensus pattern (9 bp):
TTATATAAG
Found at i:44257313 original size:18 final size:18
Alignment explanation
Indices: 44257274--44257341 Score: 75
Period size: 18 Copynumber: 3.8 Consensus size: 18
44257264 ACTAGGGATA
*
44257274 TTATGATAAGTTATAT-AT
1 TTATG-TAAGTTATATAAG
*
44257292 TTATCTAAGTTATATAAG
1 TTATGTAAGTTATATAAG
* *
44257310 TTATGTAAGTTTTGTAAG
1 TTATGTAAGTTATATAAG
*
44257328 TTATGTAAATTATA
1 TTATGTAAGTTATA
44257342 ATATCAAATA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
17 10 0.24
18 31 0.76
ACGTcount: A:0.37, C:0.01, G:0.13, T:0.49
Consensus pattern (18 bp):
TTATGTAAGTTATATAAG
Found at i:44257497 original size:14 final size:15
Alignment explanation
Indices: 44257478--44257532 Score: 64
Period size: 14 Copynumber: 3.8 Consensus size: 15
44257468 AAGTTGCAGG
44257478 ATTAAA-AATATTTA
1 ATTAAATAATATTTA
44257492 ATTAAATAATATTT-
1 ATTAAATAATATTTA
44257506 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
44257521 ATTAAATAATAT
1 ATTAAATAATAT
44257533 ACATATCGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 10 0.29
15 9 0.26
16 6 0.17
17 2 0.06
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:44257533 original size:25 final size:26
Alignment explanation
Indices: 44257480--44257532 Score: 79
Period size: 29 Copynumber: 1.9 Consensus size: 26
44257470 GTTGCAGGAT
44257480 TAAAAATATTTAATTAAATAATATTTA
1 TAAAAATATTTAATTAAATAATA-TTA
44257507 TAAAAATTATTTTAATTAAATAATAT
1 TAAAAA-TA-TTTAATTAAATAATAT
44257533 ACATATCGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 6 0.25
28 3 0.12
29 15 0.62
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
TAAAAATATTTAATTAAATAATATTA
Found at i:44257749 original size:24 final size:24
Alignment explanation
Indices: 44257717--44257787 Score: 106
Period size: 24 Copynumber: 3.0 Consensus size: 24
44257707 TTAACTTAAA
44257717 TGATAAAACGGACGATAATATTTG
1 TGATAAAACGGACGATAATATTTG
** *
44257741 TGATAAAACGGAAAATAATATTTT
1 TGATAAAACGGACGATAATATTTG
*
44257765 TGATAAAACGGACGAGAATATTT
1 TGATAAAACGGACGATAATATTT
44257788 CAATAATAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.45, C:0.07, G:0.18, T:0.30
Consensus pattern (24 bp):
TGATAAAACGGACGATAATATTTG
Found at i:44259426 original size:23 final size:23
Alignment explanation
Indices: 44259378--44259429 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
44259368 AACCCAATCC
* *
44259378 AAAATTAATCAATGGTTAATATT
1 AAAATTAATCAAAGGCTAATATT
* *
44259401 AAAATTGAATCAAAGGCTGATATA
1 AAAATT-AATCAAAGGCTAATATT
44259425 AAAAT
1 AAAAT
44259430 ATTAACACTC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 6 0.25
24 18 0.75
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.31
Consensus pattern (23 bp):
AAAATTAATCAAAGGCTAATATT
Found at i:44260457 original size:15 final size:15
Alignment explanation
Indices: 44260419--44260458 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
44260409 GGGAACTGAT
*
44260419 TTGGGGAAAAATTAT
1 TTGGGGAAAAATTAC
**
44260434 TTGAAGAAAAATTAC
1 TTGGGGAAAAATTAC
44260449 TTGGGGAAAA
1 TTGGGGAAAA
44260459 TGTTAGGGAT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.45, C:0.03, G:0.25, T:0.28
Consensus pattern (15 bp):
TTGGGGAAAAATTAC
Found at i:44261031 original size:20 final size:19
Alignment explanation
Indices: 44261006--44261044 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
44260996 ACTATTAATT
44261006 TTTA-AAAATTCAACAAAA
1 TTTATAAAATTCAACAAAA
44261024 TTTATAAAATTCAACAAAA
1 TTTATAAAATTCAACAAAA
44261043 TT
1 TT
44261045 GACAAATTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.33
Consensus pattern (19 bp):
TTTATAAAATTCAACAAAA
Found at i:44261293 original size:21 final size:21
Alignment explanation
Indices: 44261269--44261322 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
44261259 TATATACTCT
*
44261269 AAACCTTAAACCCAAAATAAC
1 AAACCTTAAACCCAAAACAAC
** *
44261290 AAACCCCAAGCCCAAAACAAC
1 AAACCTTAAACCCAAAACAAC
44261311 AAACCTTAAACC
1 AAACCTTAAACC
44261323 ATAAACTTAA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.54, C:0.35, G:0.02, T:0.09
Consensus pattern (21 bp):
AAACCTTAAACCCAAAACAAC
Found at i:44261692 original size:21 final size:20
Alignment explanation
Indices: 44261614--44261692 Score: 68
Period size: 21 Copynumber: 3.8 Consensus size: 20
44261604 ATCACATATC
*
44261614 CCCTTAACCCTTAAACCATAAA
1 CCCTTAAACCTTAAACC-T-AA
* *
44261636 ACCTTAAACCTTAACCACTAA
1 CCCTTAAACCTTAAAC-CTAA
**
44261657 CCCTTAAATTTTAAACCTCAA
1 CCCTTAAACCTTAAACCT-AA
*
44261678 CCCTTAAACCATAAA
1 CCCTTAAACCTTAAA
44261693 TCATAATCCC
Statistics
Matches: 45, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
20 2 0.04
21 28 0.62
22 14 0.31
23 1 0.02
ACGTcount: A:0.42, C:0.33, G:0.00, T:0.25
Consensus pattern (20 bp):
CCCTTAAACCTTAAACCTAA
Found at i:44261692 original size:28 final size:28
Alignment explanation
Indices: 44261619--44261694 Score: 82
Period size: 28 Copynumber: 2.7 Consensus size: 28
44261609 ATATCCCCTT
* *
44261619 AACCCTTAAACCATAAAACCTTAAACCTT
1 AACCCTTAAACCAT-AAATCTTAAACCTC
* * *
44261648 AACCAC-TAACCCTTAAATTTTAAACCTC
1 AACC-CTTAAACCATAAATCTTAAACCTC
44261676 AACCCTTAAACCATAAATC
1 AACCCTTAAACCATAAATC
44261695 ATAATCCCTA
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
27 1 0.03
28 25 0.68
29 10 0.27
30 1 0.03
ACGTcount: A:0.43, C:0.32, G:0.00, T:0.25
Consensus pattern (28 bp):
AACCCTTAAACCATAAATCTTAAACCTC
Found at i:44261728 original size:22 final size:21
Alignment explanation
Indices: 44261679--44261752 Score: 58
Period size: 22 Copynumber: 3.4 Consensus size: 21
44261669 AAACCTCAAC
*
44261679 CCTTAAACCATAAATCATAAT
1 CCTTAAACCATAAATCATAAA
* *
44261700 CCCTAAACCCATAATTCATAAA
1 CCTTAAA-CCATAAATCATAAA
* ** *
44261722 CTTTAAAATATTAATTCATAAA
1 CCTTAAACCA-TAAATCATAAA
*
44261744 CCATAAACC
1 CCTTAAACC
44261753 CCTAACCCAT
Statistics
Matches: 40, Mismatches: 11, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
21 7 0.17
22 33 0.82
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.28
Consensus pattern (21 bp):
CCTTAAACCATAAATCATAAA
Found at i:44261773 original size:15 final size:15
Alignment explanation
Indices: 44261751--44261790 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
44261741 AAACCATAAA
*
44261751 CCCC-TAACCCATGT
1 CCCCTTAACCCATAT
*
44261765 CCCCTTAACCCCTAT
1 CCCCTTAACCCATAT
44261780 CCCCTTAACCC
1 CCCCTTAACCC
44261791 TTAAACCCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 4 0.17
15 19 0.83
ACGTcount: A:0.20, C:0.55, G:0.03, T:0.23
Consensus pattern (15 bp):
CCCCTTAACCCATAT
Found at i:44261791 original size:22 final size:22
Alignment explanation
Indices: 44261766--44261818 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
44261756 AACCCATGTC
*
44261766 CCCTTAACCCC-TATCCCCTTAA
1 CCCTTAACCCCATA-ACCCTTAA
*
44261788 CCCTTAAACCCATAACCCTTAA
1 CCCTTAACCCCATAACCCTTAA
*
44261810 CCATTAACC
1 CCCTTAACC
44261819 TCTACCCACT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 24 0.92
23 2 0.08
ACGTcount: A:0.30, C:0.45, G:0.00, T:0.25
Consensus pattern (22 bp):
CCCTTAACCCCATAACCCTTAA
Found at i:44262556 original size:39 final size:40
Alignment explanation
Indices: 44262461--44262570 Score: 134
Period size: 40 Copynumber: 2.8 Consensus size: 40
44262451 GTTTTGGGAG
* * *
44262461 AAACACCGCTAATGCTCAACCTATAGCGGCATTTTCTATA
1 AAACGCCGCTAATGCTCGATCTATAGCGGCATTTTCTATA
* *
44262501 AAAGCGCCGCTAATGCT-GATCTTTAGCGGTATTTTCTGA-A
1 AAA-CGCCGCTAATGCTCGATCTATAGCGGCATTTTCT-ATA
*
44262541 AAACGCCGCTAATGCTCGATCTATAACGGC
1 AAACGCCGCTAATGCTCGATCTATAGCGGC
44262571 GTTTATGCCA
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
39 13 0.22
40 33 0.56
41 13 0.22
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (40 bp):
AAACGCCGCTAATGCTCGATCTATAGCGGCATTTTCTATA
Found at i:44262672 original size:40 final size:39
Alignment explanation
Indices: 44262628--44262714 Score: 95
Period size: 40 Copynumber: 2.2 Consensus size: 39
44262618 TTTTTTTGCT
44262628 GCGTTTTACAATAAACGCCACTAATGCTC-AACCTATAGCG
1 GCGTTTTACAA-AAACGCCACTAATGCTCGAA-CTATAGCG
** * * *
44262668 GCGTTGTTTTAAAAGCGCCGCTAATGCTCGAACTTTAGCG
1 GCGTT-TTACAAAAACGCCACTAATGCTCGAACTATAGCG
44262708 GCGTTTT
1 GCGTTTT
44262715 TTGTTCAAAC
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
39 2 0.05
40 32 0.80
41 6 0.15
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (39 bp):
GCGTTTTACAAAAACGCCACTAATGCTCGAACTATAGCG
Found at i:44262677 original size:43 final size:40
Alignment explanation
Indices: 44262640--44262716 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
44262630 GTTTTACAAT
44262640 AAACGCCACTAATGCTC-AACCTATAGCGGCGTTGTTTTAA
1 AAACGCCACTAATGCTCGAA-CTATAGCGGCGTTGTTTTAA
* * *
44262680 AAGCGCCGCTAATGCTCGAACTTTAGCGGCGTT-TTTT
1 AAACGCCACTAATGCTCGAACTATAGCGGCGTTGTTTT
44262717 GTTCAAACGC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 4 0.12
40 27 0.82
41 2 0.06
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.30
Consensus pattern (40 bp):
AAACGCCACTAATGCTCGAACTATAGCGGCGTTGTTTTAA
Found at i:44264965 original size:15 final size:15
Alignment explanation
Indices: 44264945--44264994 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
44264935 TTGAAAAACA
*
44264945 AAAACAATATAAAAT
1 AAAACAAAATAAAAT
*
44264960 AAAACAAAAATAAATT
1 AAAAC-AAAATAAAAT
* *
44264976 CAAATAAAATAAAAT
1 AAAACAAAATAAAAT
44264991 AAAA
1 AAAA
44264995 ATACCTAATC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
15 17 0.61
16 11 0.39
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (15 bp):
AAAACAAAATAAAAT
Found at i:44265941 original size:17 final size:16
Alignment explanation
Indices: 44265919--44265956 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
44265909 TTAAGGTGCT
44265919 TTTTTATTTCTATTT-CA
1 TTTTTA-TT-TATTTCCA
44265936 TTTTTATTTATTTCCA
1 TTTTTATTTATTTCCA
44265952 TTTTT
1 TTTTT
44265957 TAGTTCGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 5 0.25
16 9 0.45
17 6 0.30
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTTATTTATTTCCA
Found at i:44265957 original size:17 final size:18
Alignment explanation
Indices: 44265918--44265958 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
44265908 ATTAAGGTGC
44265918 TTTTTTATTTCTATTTCA
1 TTTTTTATTTCTATTTCA
44265936 -TTTTTA-TT-TATTTCCA
1 TTTTTTATTTCTATTT-CA
44265952 TTTTTTA
1 TTTTTTA
44265959 GTTCGAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 5 0.24
16 4 0.19
17 12 0.57
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTTTTATTTCTATTTCA
Found at i:44266887 original size:3 final size:3
Alignment explanation
Indices: 44266879--44267010 Score: 87
Period size: 3 Copynumber: 44.3 Consensus size: 3
44266869 TAAATCATTT
* *
44266879 TTA TTA TTA CTA TT- TTCA -TA TATA TTTA T-A TTA TTA TTA CTA TTA
1 TTA TTA TTA TTA TTA TT-A TTA T-TA T-TA TTA TTA TTA TTA TTA TTA
* * * * *
44266924 TTA ATC TTC TTA TTA TTA CTA TTA TTA TTA TTCG TT- TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA
** *
44266969 CCA TTA TTA TT- TTA TTA TTA CTA TTA TT- TCTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA T
44267011 CATGGCTATT
Statistics
Matches: 101, Mismatches: 18, Indels: 20
0.73 0.13 0.14
Matches are distributed among these distances:
2 10 0.10
3 82 0.81
4 9 0.09
ACGTcount: A:0.30, C:0.08, G:0.01, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:44266936 original size:24 final size:23
Alignment explanation
Indices: 44266909--44267009 Score: 104
Period size: 24 Copynumber: 4.4 Consensus size: 23
44266899 TATATTTATA
44266909 TTATTATTACTATTATTAATCTT
1 TTATTATTACTATTATTAATCTT
44266932 CTTATTATTACTATTATTATTATTCGTT
1 -TTATTATTACTATTATTA--A-TC-TT
*
44266960 TTATTATTACCATTATT-A--TT
1 TTATTATTACTATTATTAATCTT
*
44266980 TTATTATTACTATTATT--TCTA
1 TTATTATTACTATTATTAATCTT
44267001 TTATTATTA
1 TTATTATTA
44267010 TCATGGCTAT
Statistics
Matches: 68, Mismatches: 3, Indels: 15
0.79 0.03 0.17
Matches are distributed among these distances:
20 18 0.26
21 10 0.15
24 19 0.28
26 1 0.01
27 18 0.26
28 2 0.03
ACGTcount: A:0.29, C:0.09, G:0.01, T:0.61
Consensus pattern (23 bp):
TTATTATTACTATTATTAATCTT
Found at i:44267030 original size:3 final size:3
Alignment explanation
Indices: 44266907--44267010 Score: 88
Period size: 3 Copynumber: 35.0 Consensus size: 3
44266897 TATATATTTA
* * * * *
44266907 TAT TAT TAT TAC TAT TAT TAA TCT TCT TAT TAT TAC TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
44266955 TCGT T-T TAT TAT TAC CAT TAT TAT T-T TAT TAT TAC TAT TAT T-T
1 T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
44266998 CTAT TAT TAT TAT
1 -TAT TAT TAT TAT
44267011 CATGGCTATT
Statistics
Matches: 81, Mismatches: 15, Indels: 10
0.76 0.14 0.09
Matches are distributed among these distances:
2 5 0.06
3 73 0.90
4 3 0.04
ACGTcount: A:0.29, C:0.09, G:0.01, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:44267446 original size:2 final size:2
Alignment explanation
Indices: 44267439--44267463 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
44267429 TTTAAATTGT
44267439 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
44267464 TGTTTTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:44271130 original size:10 final size:10
Alignment explanation
Indices: 44271117--44271237 Score: 58
Period size: 10 Copynumber: 11.9 Consensus size: 10
44271107 ACATTTCTAT
44271117 ATATTTTATA
1 ATATTTTATA
44271127 ATATTTTATA
1 ATATTTTATA
44271137 AT-TTTTATAA
1 ATATTTTAT-A
*
44271147 ATTATTTTTTCTA
1 A-TA--TTTTATA
44271160 AT-TTTTAATA
1 ATATTTT-ATA
*
44271170 A-AATTTA-A
1 ATATTTTATA
44271178 ATATTTTTTATA
1 ATA--TTTTATA
* *
44271190 TTCTTTTATTA
1 ATATTTTA-TA
44271201 A-ATTTTAATA
1 ATATTTT-ATA
44271211 AT-TTTTATA
1 ATATTTTATA
*
44271220 A-ATTTTATT
1 ATATTTTATA
*
44271229 ATTTTTTAT
1 ATATTTTAT
44271238 TTTTTATTGC
Statistics
Matches: 85, Mismatches: 10, Indels: 32
0.67 0.08 0.25
Matches are distributed among these distances:
8 2 0.02
9 23 0.27
10 42 0.49
11 8 0.09
12 3 0.04
13 2 0.02
14 5 0.06
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.63
Consensus pattern (10 bp):
ATATTTTATA
Found at i:44271142 original size:9 final size:9
Alignment explanation
Indices: 44271120--44271244 Score: 62
Period size: 9 Copynumber: 13.7 Consensus size: 9
44271110 TTTCTATATA
44271120 TTTTATAAT
1 TTTTATAAT
44271129 ATTTTATAAT
1 -TTTTATAAT
44271139 TTTTATAA-
1 TTTTATAAT
*
44271147 -ATTAT--T
1 TTTTATAAT
*
44271153 TTTTCTAAT
1 TTTTATAAT
44271162 TTTTAATAAAAT
1 TTTT-AT--AAT
** *
44271174 TTAAATATT
1 TTTTATAAT
*
44271183 TTTTATATT
1 TTTTATAAT
44271192 CTTTTATTAAAT
1 -TTTTA-T-AAT
*
44271204 TTTAATAAT
1 TTTTATAAT
*
44271213 TTTTATAAA
1 TTTTATAAT
*
44271222 TTTTATTAT
1 TTTTATAAT
*
44271231 TTTT-TATT
1 TTTTATAAT
44271239 TTTTAT
1 TTTTAT
44271245 TGCCATATGT
Statistics
Matches: 87, Mismatches: 17, Indels: 23
0.69 0.13 0.18
Matches are distributed among these distances:
7 7 0.08
8 6 0.07
9 44 0.51
10 16 0.18
11 7 0.08
12 7 0.08
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.65
Consensus pattern (9 bp):
TTTTATAAT
Found at i:44271197 original size:31 final size:29
Alignment explanation
Indices: 44271115--44271227 Score: 91
Period size: 30 Copynumber: 3.7 Consensus size: 29
44271105 CTACATTTCT
* **
44271115 ATATATTTTATAATATTTTATAATTTTTATAA
1 ATATTTTTTATAAT-TTTTATAA-AATT-TAA
*
44271147 ATTATTTTTTCTAATTTTTAATAAAATTTAA
1 A-TATTTTTTATAATTTTT-ATAAAATTTAA
* * *
44271178 ATATTTTTTATATTCTTTTATTAAATTTTA
1 ATATTTTTTATAAT-TTTTATAAAATTTAA
* *
44271208 ATAATTTTTATAAATTTTAT
1 ATATTTTTTATAATTTTTAT
44271228 TATTTTTTAT
Statistics
Matches: 67, Mismatches: 11, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
29 6 0.09
30 31 0.46
31 8 0.12
32 7 0.10
33 15 0.22
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (29 bp):
ATATTTTTTATAATTTTTATAAAATTTAA
Found at i:44271235 original size:19 final size:18
Alignment explanation
Indices: 44271183--44271237 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 18
44271173 TTTAAATATT
44271183 TTTTATATTCTTTTATTAAA
1 TTTTATATT-TTTTA-TAAA
*
44271203 TTTTAATAATTTTTATAAA
1 TTTT-ATATTTTTTATAAA
44271222 TTTTATTATTTTTTAT
1 TTTTA-TATTTTTTAT
44271238 TTTTTATTGC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 1 0.03
19 17 0.55
20 9 0.29
21 4 0.13
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTATATTTTTTATAAA
Found at i:44271593 original size:35 final size:34
Alignment explanation
Indices: 44271548--44271633 Score: 102
Period size: 33 Copynumber: 2.5 Consensus size: 34
44271538 AACTTTTTAA
44271548 AATATTATTATTTTTTAAAATGTAAAATTTATATAT
1 AATA-TATTATTTTTTAAAATGT-AAATTTATATAT
* * * *
44271584 GATATATTATTTTCT-AACTGTAATTTTATATAT
1 AATATATTATTTTTTAAAATGTAAATTTATATAT
44271617 AATATATTATCTTTTTA
1 AATATATTAT-TTTTTA
44271634 CTAGTGTTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
33 20 0.48
34 9 0.21
35 10 0.24
36 3 0.07
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.55
Consensus pattern (34 bp):
AATATATTATTTTTTAAAATGTAAATTTATATAT
Found at i:44279183 original size:26 final size:26
Alignment explanation
Indices: 44279147--44279200 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
44279137 GTTATAAGAG
44279147 TTAAACTTATTATTATATTAATTAAA
1 TTAAACTTATTATTATATTAATTAAA
*
44279173 TTAAATTTATTATTATATTAATTAAA
1 TTAAACTTATTATTATATTAATTAAA
44279199 TT
1 TT
44279201 CATATAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (26 bp):
TTAAACTTATTATTATATTAATTAAA
Found at i:44285964 original size:24 final size:24
Alignment explanation
Indices: 44285932--44285979 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
44285922 CTTCACGACA
44285932 TGACCTCGTTGTTTATGACTTGAC
1 TGACCTCGTTGTTTATGACTTGAC
44285956 TGACCTCGTTGTTTATGACTTGAC
1 TGACCTCGTTGTTTATGACTTGAC
44285980 CTCACTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.42
Consensus pattern (24 bp):
TGACCTCGTTGTTTATGACTTGAC
Found at i:44287347 original size:26 final size:24
Alignment explanation
Indices: 44287303--44287352 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
44287293 ATTTGTTTTA
*
44287303 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
44287327 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
44287353 TTTTTATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:44288118 original size:6 final size:6
Alignment explanation
Indices: 44288107--44288136 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
44288097 TTTTAATATG
44288107 GTGGTA GTGGTA GTGGTA GTGGTA GTGGTA
1 GTGGTA GTGGTA GTGGTA GTGGTA GTGGTA
44288137 ACAACTAGAT
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:0.00, G:0.50, T:0.33
Consensus pattern (6 bp):
GTGGTA
Found at i:44289080 original size:39 final size:39
Alignment explanation
Indices: 44289036--44289113 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
44289026 GGTGTTAATT
**
44289036 AAATCTCCTTATTCTTTTTATATGTTTCTAATTTTAACC
1 AAATCTCCTTACACTTTTTATATGTTTCTAATTTTAACC
44289075 AAATCTCCTTACACTTTTTATATGTTTCTAATTTTAACC
1 AAATCTCCTTACACTTTTTATATGTTTCTAATTTTAACC
44289114 TGCCTATTAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.27, C:0.19, G:0.03, T:0.51
Consensus pattern (39 bp):
AAATCTCCTTACACTTTTTATATGTTTCTAATTTTAACC
Found at i:44290215 original size:18 final size:18
Alignment explanation
Indices: 44290178--44290216 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
44290168 TATTGCATCT
*
44290178 AAAAAACACTTCGAGGAC
1 AAAAAACACTTCGAGAAC
**
44290196 AAAAAACACTTTTAGAAC
1 AAAAAACACTTCGAGAAC
44290214 AAA
1 AAA
44290217 GACATTCCTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.18, G:0.10, T:0.15
Consensus pattern (18 bp):
AAAAAACACTTCGAGAAC
Found at i:44292157 original size:9 final size:10
Alignment explanation
Indices: 44292138--44292171 Score: 54
Period size: 9 Copynumber: 3.6 Consensus size: 10
44292128 AAACTGATTC
44292138 AAAAT-TATA
1 AAAATATATA
44292147 AAAATAT-TA
1 AAAATATATA
44292156 AAAATATATA
1 AAAATATATA
44292166 AAAATA
1 AAAATA
44292172 AAAATATATC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
AAAATATATA
Found at i:44293525 original size:23 final size:22
Alignment explanation
Indices: 44293499--44293541 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
44293489 AAAGAATATA
44293499 TACGTA-ACTAATAATATGAGAAG
1 TACGTACA-TAAT-ATATGAGAAG
44293522 TACGTACATAATATATGAGA
1 TACGTACATAATATATGAGA
44293542 TTGTGATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 8 0.42
23 10 0.53
24 1 0.05
ACGTcount: A:0.47, C:0.09, G:0.16, T:0.28
Consensus pattern (22 bp):
TACGTACATAATATATGAGAAG
Found at i:44293540 original size:22 final size:23
Alignment explanation
Indices: 44293499--44293541 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
44293489 AAAGAATATA
44293499 TACGTAACTAATAATATGAGAAG
1 TACGTAACTAATAATATGAGAAG
44293522 TACGT-ACATAAT-ATATGAGA
1 TACGTAAC-TAATAATATGAGA
44293542 TTGTGATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.47, C:0.09, G:0.16, T:0.28
Consensus pattern (23 bp):
TACGTAACTAATAATATGAGAAG
Found at i:44293889 original size:3 final size:3
Alignment explanation
Indices: 44293875--44293925 Score: 52
Period size: 3 Copynumber: 17.0 Consensus size: 3
44293865 AAACATAAAC
* *
44293875 TAA TACA TAA TAA TAT TAA TAA TAA TAA -AA TTAA TAA T-A TAA AAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA
44293920 TAA TAA
1 TAA TAA
44293926 GAGTATTTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
2 4 0.10
3 31 0.77
4 5 0.12
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:44293907 original size:15 final size:15
Alignment explanation
Indices: 44293875--44293925 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
44293865 AAACATAAAC
*
44293875 TAATACATAATAATAT
1 TAATA-ATAATAAAAT
44293891 TAATAATAATAAAAT
1 TAATAATAATAAAAT
*
44293906 TAATAAT-ATAAAAA
1 TAATAATAATAAAAT
44293920 TAATAA
1 TAATAA
44293926 GAGTATTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.36
15 16 0.48
16 5 0.15
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (15 bp):
TAATAATAATAAAAT
Found at i:44294584 original size:85 final size:85
Alignment explanation
Indices: 44294441--44294658 Score: 436
Period size: 85 Copynumber: 2.6 Consensus size: 85
44294431 GACTCCGGCC
44294441 ATATTTTTTATTTATTTTTGGTCTTAGAATATATAGATTTTAGGTTTAAGTGGCCGGAAAAGGTA
1 ATATTTTTTATTTATTTTTGGTCTTAGAATATATAGATTTTAGGTTTAAGTGGCCGGAAAAGGTA
44294506 AAATTTCTTTTTTTTTTGCT
66 AAATTTCTTTTTTTTTTGCT
44294526 ATATTTTTTATTTATTTTTGGTCTTAGAATATATAGATTTTAGGTTTAAGTGGCCGGAAAAGGTA
1 ATATTTTTTATTTATTTTTGGTCTTAGAATATATAGATTTTAGGTTTAAGTGGCCGGAAAAGGTA
44294591 AAATTTCTTTTTTTTTTGCT
66 AAATTTCTTTTTTTTTTGCT
44294611 ATATTTTTTATTTATTTTTGGTCTTAGAATATATAGATTTTAGGTTTA
1 ATATTTTTTATTTATTTTTGGTCTTAGAATATATAGATTTTAGGTTTA
44294659 TATTAATTTA
Statistics
Matches: 133, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 133 1.00
ACGTcount: A:0.26, C:0.05, G:0.16, T:0.53
Consensus pattern (85 bp):
ATATTTTTTATTTATTTTTGGTCTTAGAATATATAGATTTTAGGTTTAAGTGGCCGGAAAAGGTA
AAATTTCTTTTTTTTTTGCT
Found at i:44295042 original size:22 final size:22
Alignment explanation
Indices: 44295017--44295059 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
44295007 TGTCAGACGC
44295017 GTGGGGGTATGGGGCTGTTGTA
1 GTGGGGGTATGGGGCTGTTGTA
44295039 GTGGGGGTATGGGGCTGTTGT
1 GTGGGGGTATGGGGCTGTTGT
44295060 CTTATTTGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.07, C:0.05, G:0.56, T:0.33
Consensus pattern (22 bp):
GTGGGGGTATGGGGCTGTTGTA
Found at i:44295824 original size:90 final size:91
Alignment explanation
Indices: 44295705--44295884 Score: 220
Period size: 90 Copynumber: 2.0 Consensus size: 91
44295695 TCCTATCTCT
* * * * * * ** *
44295705 TTTTTTTCACTCATTTTAGTATTTAAACTTTCAAAATGTAT-TAAAAAGGCTCTCAAACTTTTTC
1 TTTTTTGCACTCAATTGAGTACTTAAACTTTCAAAATGAATGAAAAAAACCT-TAAAACTTTTTC
44295769 -AAAAAAAGCAATTAAACCACTACTTC
65 AAAAAAAAGCAATTAAACCACTACTTC
* *
44295795 TTTTTTGCACTCAATTGAGTACTTGAACTTTCAAAATGAATGAAAAAAACCTTAAAATTTTTTCA
1 TTTTTTGCACTCAATTGAGTACTTAAACTTTCAAAATGAATGAAAAAAACCTTAAAACTTTTTCA
* *
44295860 AAAAAAAGCAATTAAGCCCCTACTT
66 AAAAAAAGCAATTAAACCACTACTT
44295885 TTATTAAAAA
Statistics
Matches: 75, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
90 45 0.60
91 30 0.40
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.36
Consensus pattern (91 bp):
TTTTTTGCACTCAATTGAGTACTTAAACTTTCAAAATGAATGAAAAAAACCTTAAAACTTTTTCA
AAAAAAAGCAATTAAACCACTACTTC
Done.