Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 236 of 253
Found at i:76766650 original size:54 final size:55
Alignment explanation
Indices: 76766563--76766779 Score: 322
Period size: 54 Copynumber: 4.0 Consensus size: 55
76766553 CGCTGAGGTA
*
76766563 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
76766618 TTTT-AATTTCTATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
76766672 --TT---TTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTCAATTTCTATTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* * *
76766723 TTTTGCAAATTCT-GTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCC
1 TTTT-CAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
76766778 TT
1 TT
76766780 GGCTCACGTG
Statistics
Matches: 149, Mismatches: 6, Indels: 14
0.88 0.04 0.08
Matches are distributed among these distances:
50 12 0.08
51 35 0.23
52 2 0.01
53 2 0.01
54 48 0.32
55 41 0.28
56 5 0.03
57 4 0.03
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (55 bp):
TTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
Found at i:76767091 original size:30 final size:30
Alignment explanation
Indices: 76767051--76767152 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
76767041 TAAAAAATAA
* * *
76767051 AAATTGCATTTTGACCCCTGAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAAC-TTTCATT
* *
76767081 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTCATT
* *
76767111 AAATTTCACTTAGACCCCTAAACTTTCATT
1 AAATTTCATTTTGACCCCTAAACTTTCATT
76767141 AAATTTCATTTT
1 AAATTTCATTTT
76767153 AATCCTAAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 4 0.07
30 57 0.93
ACGTcount: A:0.28, C:0.23, G:0.05, T:0.44
Consensus pattern (30 bp):
AAATTTCATTTTGACCCCTAAACTTTCATT
Found at i:76767434 original size:10 final size:10
Alignment explanation
Indices: 76767415--76767464 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 10
76767405 TTTTTCGAAG
*
76767415 GAAAAAAGAA
1 GAAAAGAGAA
76767425 GAAAAGAGAA
1 GAAAAGAGAA
76767435 GAAAAGAGAA
1 GAAAAGAGAA
* *
76767445 -AGAGGAGAA
1 GAAAAGAGAA
76767454 GAAAAGA-AA
1 GAAAAGAGAA
76767463 GA
1 GA
76767465 GTACCGGCGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
9 11 0.32
10 23 0.68
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (10 bp):
GAAAAGAGAA
Found at i:76767465 original size:17 final size:19
Alignment explanation
Indices: 76767418--76767460 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
76767408 TTCGAAGGAA
76767418 AAAAGAAGAAA-A-GAGAAG
1 AAAAG-AGAAAGAGGAGAAG
76767436 AAAAGAGAAAGAGGAGAAG
1 AAAAGAGAAAGAGGAGAAG
76767455 AAAAGA
1 AAAAGA
76767461 AAGAGTACCG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.22
18 6 0.26
19 12 0.52
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (19 bp):
AAAAGAGAAAGAGGAGAAG
Found at i:76767536 original size:3 final size:3
Alignment explanation
Indices: 76767530--76767561 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
76767520 GTGTAGGAGG
76767530 AGA AGA AGA AGA AGA AGA AGAA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AG-A AGA AGA AGA A
76767562 AGAAAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:76767556 original size:10 final size:10
Alignment explanation
Indices: 76767532--76767575 Score: 63
Period size: 10 Copynumber: 4.5 Consensus size: 10
76767522 GTAGGAGGAG
76767532 AAGAAGAAG-
1 AAGAAGAAGA
76767541 AAGAAGAAGA
1 AAGAAGAAGA
76767551 AAGAAGAAGA
1 AAGAAGAAGA
* *
76767561 AAGAAAAAAA
1 AAGAAGAAGA
76767571 AAGAA
1 AAGAA
76767576 AAAAAATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
9 9 0.28
10 23 0.72
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (10 bp):
AAGAAGAAGA
Found at i:76767741 original size:32 final size:33
Alignment explanation
Indices: 76767678--76767752 Score: 91
Period size: 32 Copynumber: 2.3 Consensus size: 33
76767668 AAAATTAATT
* *
76767678 AAAAAAACAACACAAAAAAAAACAAATCAGCCC
1 AAAAAAAAAACACAAAAAAAAACAAAGCAGCCC
*
76767711 AAAAAAAAAAC-CAAAGCAAAAA-AAAGCAGCCC
1 AAAAAAAAAACACAAA-AAAAAACAAAGCAGCCC
*
76767743 AAAAAGAAAA
1 AAAAAAAAAA
76767753 GGCCCAATCA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
32 22 0.59
33 15 0.41
ACGTcount: A:0.72, C:0.20, G:0.07, T:0.01
Consensus pattern (33 bp):
AAAAAAAAAACACAAAAAAAAACAAAGCAGCCC
Found at i:76767861 original size:15 final size:15
Alignment explanation
Indices: 76767841--76767938 Score: 101
Period size: 15 Copynumber: 6.5 Consensus size: 15
76767831 CAGGCCAGGA
* *
76767841 AAAAAAGAGAGAAAG
1 AAAAAAGAAAAAAAG
*
76767856 AAAAAAGAAAAAAAT
1 AAAAAAGAAAAAAAG
*
76767871 AAAGAAGAAAAAAAG
1 AAAAAAGAAAAAAAG
*
76767886 AAAAGAGAAAAAAAGG
1 AAAAAAGAAAAAAA-G
*
76767902 AAAAAAGGAAAAAAG
1 AAAAAAGAAAAAAAG
*
76767917 AAGAAAA-AAAGAAA-
1 AA-AAAAGAAAAAAAG
76767931 AAAAAAGA
1 AAAAAAGA
76767939 GTTTCAATTC
Statistics
Matches: 69, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
13 4 0.06
14 3 0.04
15 45 0.65
16 17 0.25
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.01
Consensus pattern (15 bp):
AAAAAAGAAAAAAAG
Found at i:76767867 original size:8 final size:8
Alignment explanation
Indices: 76767839--76767934 Score: 90
Period size: 8 Copynumber: 12.0 Consensus size: 8
76767829 AGCAGGCCAG
76767839 GAAAAAAA
1 GAAAAAAA
* *
76767847 GAGAGAAA
1 GAAAAAAA
76767855 G-AAAAAA
1 GAAAAAAA
76767862 GAAAAAAA
1 GAAAAAAA
* *
76767870 -TAAAGAA
1 GAAAAAAA
76767877 GAAAAAAA
1 GAAAAAAA
*
76767885 G-AAAAGA
1 GAAAAAAA
76767892 GAAAAAAA
1 GAAAAAAA
*
76767900 GGAAAAAAG
1 -GAAAAAAA
76767909 GAAAAAAGAA
1 G-AAAAA-AA
76767919 GAAAAAAA
1 GAAAAAAA
76767927 GAAAAAAA
1 GAAAAAAA
76767935 AAGAGTTTCA
Statistics
Matches: 70, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
7 16 0.23
8 35 0.50
9 17 0.24
10 2 0.03
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.01
Consensus pattern (8 bp):
GAAAAAAA
Found at i:76767869 original size:23 final size:23
Alignment explanation
Indices: 76767839--76767938 Score: 93
Period size: 22 Copynumber: 4.4 Consensus size: 23
76767829 AGCAGGCCAG
*
76767839 GAAAAAAAGAGAGAAAGAAAAAA
1 GAAAAAAAGAAAGAAAGAAAAAA
*
76767862 GAAAAAAATAAAG-AAGAAAAAA
1 GAAAAAAAGAAAGAAAGAAAAAA
* *
76767884 -AGAAAAGAGAAAAAAAGGAAAAAA
1 GA-AAAAAAGAAAGAAA-GAAAAAA
*
76767908 GGAAAAAAG-AAGAAA-AAAAGAA
1 GAAAAAAAGAAAGAAAGAAAA-AA
76767930 -AAAAAAAGA
1 GAAAAAAAGA
76767939 GTTTCAATTC
Statistics
Matches: 62, Mismatches: 9, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
21 12 0.19
22 19 0.31
23 18 0.29
24 13 0.21
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.01
Consensus pattern (23 bp):
GAAAAAAAGAAAGAAAGAAAAAA
Found at i:76767894 original size:18 final size:17
Alignment explanation
Indices: 76767839--76767938 Score: 73
Period size: 18 Copynumber: 5.7 Consensus size: 17
76767829 AGCAGGCCAG
*
76767839 GAAAAAAAGAGAGAAAGA
1 GAAAAAAAAAGA-AAAGA
*
76767857 -AAAAAGAAAA-AAATAAA
1 GAAAAA-AAAAGAAA-AGA
76767874 GAAGAAAAAAAGAAAAGA
1 GAA-AAAAAAAGAAAAGA
76767892 GAAAAAAAGGAA-AAAAG-
1 GAAAAAAA--AAGAAAAGA
* *
76767909 GAAAAAAGAAGAAAAAAA
1 GAAAAAAAAAG-AAAAGA
76767927 GAAAAAAAAAGA
1 GAAAAAAAAAGA
76767939 GTTTCAATTC
Statistics
Matches: 66, Mismatches: 6, Indels: 21
0.71 0.06 0.23
Matches are distributed among these distances:
15 2 0.03
16 2 0.03
17 25 0.38
18 29 0.44
19 8 0.12
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.01
Consensus pattern (17 bp):
GAAAAAAAAAGAAAAGA
Found at i:76767896 original size:27 final size:26
Alignment explanation
Indices: 76767839--76767934 Score: 94
Period size: 26 Copynumber: 3.7 Consensus size: 26
76767829 AGCAGGCCAG
76767839 GAAAAAAAGAGAGAAAGAAAA-AAGAAAA
1 GAAAAAAAGA-AGAAA-AAAAGAA-AAAA
* *
76767867 -AAATAAAGAAGAAAAAAAGAAAAGA
1 GAAAAAAAGAAGAAAAAAAGAAAAAA
*
76767892 GAAAAAAAG--GAAAAAAGGAAAAAA
1 GAAAAAAAGAAGAAAAAAAGAAAAAA
76767916 GAAGAAAAA-AAGAAAAAAA
1 GAA-AAAAAGAAGAAAAAAA
76767935 AAGAGTTTCA
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
24 16 0.28
25 12 0.21
26 21 0.37
27 8 0.14
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.01
Consensus pattern (26 bp):
GAAAAAAAGAAGAAAAAAAGAAAAAA
Found at i:76768506 original size:21 final size:20
Alignment explanation
Indices: 76768482--76768525 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 20
76768472 AAATTTGTGT
76768482 AAAAAAATCCAATATTTTCAAAA
1 AAAAAAATCC-AT-TTTTC-AAA
76768505 AAAAAAATCCATTTTTCAAA
1 AAAAAAATCCATTTTTCAAA
76768525 A
1 A
76768526 TTTTTAGTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 4 0.19
21 5 0.24
22 2 0.10
23 10 0.48
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.27
Consensus pattern (20 bp):
AAAAAAATCCATTTTTCAAA
Found at i:76768557 original size:218 final size:219
Alignment explanation
Indices: 76768139--76768562 Score: 526
Period size: 218 Copynumber: 1.9 Consensus size: 219
76768129 TTTTAGATAA
* *
76768139 TTTTAATAAATAAGGCAACGAATCGATTTAACATAAAATCGTTGATTTCATCGCTACGTTGGGTG
1 TTTTAATAAATAAGACAACGAATCGATTTAACATAAAATCGTTGATTTCATCGCTACGTTGAGTG
*
76768204 AATATCACCGATTCGCGTTAAAATCGATACGCCCTTTTTAAAATAAAAAATATTAAAAAAAAAGT
66 AATATCACCGATTCGCGTTAAAATCGATACGCCCTTTTAAAAATAAAAAATATTAAAAAAAAAGT
* *
76768269 CTCATATTTACAAAAAAAAAAATTCTATTTTTCAAAATTTTTCGTGCCTTCAAAAATTTTTCTCG
131 CTCATATTTACAAAAAAAAAAATTCCATTTTTCAAAATTTTTAGTGCCTTCAAAAATTTTTCTCG
76768334 TGTTTCAAAAAAATATATTCGTGT
196 TGTTTCAAAAAAATATATTCGTGT
* * * * * *
76768358 TTTTAA-AAATAAGACAATGAATCGATTTGACACT-AATTTGTTGATTTCATTGCTATGTTGAGT
1 TTTTAATAAATAAGACAACGAATCGATTTAACA-TAAAATCGTTGATTTCATCGCTACGTTGAGT
* ** * **
76768421 GAATATCACCGATTCGTGTT-AAATACGATACG-TGTTTAATAAAAAATCAAAAAATTTGTGTAA
65 GAATATCACCGATTCGCGTTAAAAT-CGATACGCCCTTT--T-AAAAAT-AAAAAATAT-TAAAA
* *
76768484 AAAAA-TC-CAATATTTTCAAAAAAAAAAA-TCCATTTTTCAAAATTTTTAGTGTCTTCTAAAAA
124 AAAAAGTCTC-ATATTTACAAAAAAAAAAATTCCATTTTTCAAAATTTTTAGTGCCTTC-AAAAA
76768546 -TTTT-T-GTGTTTCAAAAA
187 TTTTTCTCGTGTTTCAAAAA
76768563 TTTTCGTTAT
Statistics
Matches: 177, Mismatches: 19, Indels: 19
0.82 0.09 0.09
Matches are distributed among these distances:
217 7 0.04
218 85 0.48
219 9 0.05
220 35 0.20
221 33 0.19
222 8 0.05
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (219 bp):
TTTTAATAAATAAGACAACGAATCGATTTAACATAAAATCGTTGATTTCATCGCTACGTTGAGTG
AATATCACCGATTCGCGTTAAAATCGATACGCCCTTTTAAAAATAAAAAATATTAAAAAAAAAGT
CTCATATTTACAAAAAAAAAAATTCCATTTTTCAAAATTTTTAGTGCCTTCAAAAATTTTTCTCG
TGTTTCAAAAAAATATATTCGTGT
Found at i:76768608 original size:18 final size:18
Alignment explanation
Indices: 76768517--76768683 Score: 159
Period size: 17 Copynumber: 9.6 Consensus size: 18
76768507 AAAAATCCAT
* *
76768517 TTTTCAAAATTTTTAGTG
1 TTTTCAAAAATTTTCGTG
* *
76768535 TCTTCTAAAAATTTTTGTG
1 TTTTC-AAAAATTTTCGTG
76768554 -TTTCAAAAATTTTC--G
1 TTTTCAAAAATTTTCGTG
*
76768569 TTATCAAAAATTTTCGTG
1 TTTTCAAAAATTTTCGTG
76768587 -TTTCAAAAATTTTCGTG
1 TTTTCAAAAATTTTCGTG
*
76768604 TTTTCAAAATTTTTCGT-
1 TTTTCAAAAATTTTCGTG
* ** *
76768621 ATTTCAAAAATCCTCTTG
1 TTTTCAAAAATTTTCGTG
76768639 TTTTCAAAAA-TTTCGGTG
1 TTTTCAAAAATTTTC-GTG
* *
76768657 TTTT-GAAAATTTTCGTA
1 TTTTCAAAAATTTTCGTG
76768674 TTTTCAAAAA
1 TTTTCAAAAA
76768684 AAAAATCTCG
Statistics
Matches: 120, Mismatches: 20, Indels: 18
0.76 0.13 0.11
Matches are distributed among these distances:
15 1 0.01
16 13 0.11
17 49 0.41
18 46 0.38
19 11 0.09
ACGTcount: A:0.31, C:0.11, G:0.10, T:0.49
Consensus pattern (18 bp):
TTTTCAAAAATTTTCGTG
Found at i:76768618 original size:35 final size:35
Alignment explanation
Indices: 76768518--76768682 Score: 158
Period size: 35 Copynumber: 4.7 Consensus size: 35
76768508 AAAATCCATT
* * *
76768518 TTTCAAAATTTTTAGTGTCTTCTAAAAATTTTT-GTG
1 TTTCAAAAATTTTCGTGT-TT-TCAAAATTTTTCGTG
* *
76768554 TTTCAAAAATTTTC--GTTATCAAAAATTTTCGTG
1 TTTCAAAAATTTTCGTGTTTTCAAAATTTTTCGTG
*
76768587 TTTCAAAAATTTTCGTGTTTTCAAAATTTTTCGTA
1 TTTCAAAAATTTTCGTGTTTTCAAAATTTTTCGTG
** * *
76768622 TTTCAAAAATCCTCTTGTTTTCAAAA-ATTTCGGTG
1 TTTCAAAAATTTTCGTGTTTTCAAAATTTTTC-GTG
** *
76768657 TTTTGAAAATTTTCGTATTTTCAAAA
1 TTTCAAAAATTTTCGTGTTTTCAAAA
76768683 AAAAAATCTC
Statistics
Matches: 106, Mismatches: 19, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
32 9 0.08
33 18 0.17
34 6 0.06
35 61 0.58
36 12 0.11
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.48
Consensus pattern (35 bp):
TTTCAAAAATTTTCGTGTTTTCAAAATTTTTCGTG
Found at i:76769877 original size:20 final size:21
Alignment explanation
Indices: 76769836--76769877 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
76769826 TCATCGAGAG
*
76769836 ATTATTTAATGGATTCTTTTA
1 ATTATTTAATGAATTCTTTTA
*
76769857 ATTATTTAAT-AATTTTTTTA
1 ATTATTTAATGAATTCTTTTA
76769877 A
1 A
76769878 ACCTTAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (21 bp):
ATTATTTAATGAATTCTTTTA
Found at i:76769958 original size:20 final size:21
Alignment explanation
Indices: 76769930--76769977 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
76769920 GTCGAGTTTG
* **
76769930 GATTTGAAATTTAGGGTTTAA
1 GATTCGAAATTTAAAGTTTAA
76769951 G-TTCGAAATTTAAAGTTTAA
1 GATTCGAAATTTAAAGTTTAA
76769971 GATTCGA
1 GATTCGA
76769978 GTTTAGTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.35, C:0.04, G:0.21, T:0.40
Consensus pattern (21 bp):
GATTCGAAATTTAAAGTTTAA
Found at i:76777773 original size:43 final size:43
Alignment explanation
Indices: 76777725--76777812 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
76777715 ACTTTCTCTC
*
76777725 GTGGTAATTTTTATCCAAGACACTTTCACTTTCAACAAAATTG
1 GTGGTAATTTTTATCCAAGACACTTTAACTTTCAACAAAATTG
76777768 GTGGTAATTTTTATCCAAGACACTTTAACTTTCAACAAAATTG
1 GTGGTAATTTTTATCCAAGACACTTTAACTTTCAACAAAATTG
76777811 GT
1 GT
76777813 ATTAAAGACG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (43 bp):
GTGGTAATTTTTATCCAAGACACTTTAACTTTCAACAAAATTG
Found at i:76779484 original size:18 final size:18
Alignment explanation
Indices: 76779452--76779486 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
76779442 ACATTTATTA
**
76779452 TTTTAAAATTTTAAAATT
1 TTTTAAAATACTAAAATT
76779470 TTTTAAAATACTAAAAT
1 TTTTAAAATACTAAAAT
76779487 AACAAATTTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTTAAAATACTAAAATT
Found at i:76780997 original size:165 final size:165
Alignment explanation
Indices: 76780693--76781019 Score: 539
Period size: 165 Copynumber: 2.0 Consensus size: 165
76780683 GATTCAACAG
* * *
76780693 GTTTCAGAAGTAGGGAGAATGAATCAATGTTTGGGCCATGAATGCTGGTGGAAAAGAGATATTCA
1 GTTTCAAAAGCAGGGAGAATGAATCAATGTTTGGGCCATGAATGCTCGTGGAAAAGAGATATTCA
** * *
76780758 CTGTGAGGGAAGAGGGATTTTTCAGCGGAAAATATGGAAAAACAAAAAAAAATAGTCGTTAGGCT
66 CTGTGAGGGAAGAGGGATTTTTCAGAAGAAAATATGGAAAAACAAAAAAAAACAGCCGTTAGGCT
76780823 CTAATTCTCGGCGTTGTAGGGAGAGGAGGATACTA
131 CTAATTCTCGGCGTTGTAGGGAGAGGAGGATACTA
** *
76780858 GTTTCAAAAGCAGGGAGAATGAATCGGTGTTTGGGCCATGGATGCTCGTGGAAAAGAGATATTCA
1 GTTTCAAAAGCAGGGAGAATGAATCAATGTTTGGGCCATGAATGCTCGTGGAAAAGAGATATTCA
*
76780923 CTGTGAGGGAAGAGGGATTTTTCAGAAGAAAATATGGAAAAA-TAAAAAAAACAGCCGTTAGGCT
66 CTGTGAGGGAAGAGGGATTTTTCAGAAGAAAATATGGAAAAACAAAAAAAAACAGCCGTTAGGCT
76780987 CTAGATTCTCGGCGTTGTAGGGAGAGGAGGATA
131 CTA-ATTCTCGGCGTTGTAGGGAGAGGAGGATA
76781020 TTAATGGCGA
Statistics
Matches: 150, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
164 22 0.15
165 128 0.85
ACGTcount: A:0.35, C:0.11, G:0.31, T:0.24
Consensus pattern (165 bp):
GTTTCAAAAGCAGGGAGAATGAATCAATGTTTGGGCCATGAATGCTCGTGGAAAAGAGATATTCA
CTGTGAGGGAAGAGGGATTTTTCAGAAGAAAATATGGAAAAACAAAAAAAAACAGCCGTTAGGCT
CTAATTCTCGGCGTTGTAGGGAGAGGAGGATACTA
Found at i:76785366 original size:13 final size:13
Alignment explanation
Indices: 76785348--76785375 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
76785338 GAGCTAGTTG
76785348 GGATTGCTTATTT
1 GGATTGCTTATTT
76785361 GGATTGCTTATTT
1 GGATTGCTTATTT
76785374 GG
1 GG
76785376 TGCATATGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.07, G:0.29, T:0.50
Consensus pattern (13 bp):
GGATTGCTTATTT
Found at i:76788236 original size:84 final size:86
Alignment explanation
Indices: 76788136--76788298 Score: 231
Period size: 84 Copynumber: 1.9 Consensus size: 86
76788126 AGTTCTGAAT
* * * * ** *
76788136 TTTTTTTTACTTAATTGGGTATTTGAACTTTC-AAATGCATTAAAAATGC-CTCAAACTTTTTCA
1 TTTTTTTCACTCAATTGGATACTTGAACTTTCAAAATGCACGAAAAAGGCTCTCAAACTTTTTCA
76788199 AAAAAAGCAATTAAACGCCTA
66 AAAAAAGCAATTAAACGCCTA
*
76788220 TTTTTTTCACTCAATTGGATACTTGAACTTTCAAAATGCACGAAAAAGGCTCTCAAATTTTTTCA
1 TTTTTTTCACTCAATTGGATACTTGAACTTTCAAAATGCACGAAAAAGGCTCTCAAACTTTTTCA
*
76788285 AGAAAAGCAATTAA
66 AAAAAAGCAATTAA
76788299 GATTCTGTTA
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
84 28 0.41
85 14 0.21
86 26 0.38
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.36
Consensus pattern (86 bp):
TTTTTTTCACTCAATTGGATACTTGAACTTTCAAAATGCACGAAAAAGGCTCTCAAACTTTTTCA
AAAAAAGCAATTAAACGCCTA
Found at i:76788584 original size:19 final size:19
Alignment explanation
Indices: 76788555--76788613 Score: 75
Period size: 18 Copynumber: 3.1 Consensus size: 19
76788545 TTTTATAAAG
76788555 TCGTAAGAAAATTATAAAAAT
1 TCGTAA-AAAA-TATAAAAAT
**
76788576 TTTTAAAAAATAT-AAAAT
1 TCGTAAAAAATATAAAAAT
76788594 TCGTAAAAAATATAAAAAT
1 TCGTAAAAAATATAAAAAT
76788613 T
1 T
76788614 ATCATACCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 16 0.48
19 9 0.27
20 4 0.12
21 4 0.12
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.32
Consensus pattern (19 bp):
TCGTAAAAAATATAAAAAT
Found at i:76788809 original size:19 final size:19
Alignment explanation
Indices: 76788787--76788856 Score: 79
Period size: 19 Copynumber: 3.5 Consensus size: 19
76788777 ATGTATTTGT
*
76788787 AATTTTTTATAAGTTTTAC
1 AATTTTTTATAATTTTTAC
76788806 AATTTTTTATAAATTTTTAC
1 AATTTTTTAT-AATTTTTAC
*
76788826 AACTTTTTTTCTAATTTTTA-
1 AA--TTTTTTATAATTTTTAC
76788846 AATATTTTTAT
1 AAT-TTTTTAT
76788857 TAAAAATAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
18 1 0.02
19 16 0.36
20 12 0.27
21 8 0.18
22 7 0.16
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.61
Consensus pattern (19 bp):
AATTTTTTATAATTTTTAC
Found at i:76788841 original size:21 final size:19
Alignment explanation
Indices: 76788787--76788859 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 19
76788777 ATGTATTTGT
* *
76788787 AATTTTTTATAAGTTTTAC
1 AATTTTTTTTAATTTTTAC
*
76788806 AATTTTTTATAAATTTTTAC
1 AATTTTTT-TTAATTTTTAC
76788826 AACTTTTTTTCTAATTTTTA-
1 AA-TTTTTTT-TAATTTTTAC
76788846 AATATTTTTATTAA
1 AAT-TTTTT-TTAA
76788860 AAATAATAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
19 9 0.20
20 21 0.47
21 15 0.33
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.60
Consensus pattern (19 bp):
AATTTTTTTTAATTTTTAC
Found at i:76792115 original size:20 final size:21
Alignment explanation
Indices: 76792086--76792125 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
76792076 TTTCCTTTTT
*
76792086 TTTTTCAAACTTTTAGCAATA
1 TTTTTCAAACTTATAGCAATA
76792107 TTTTT-AAACTTATAGCAAT
1 TTTTTCAAACTTATAGCAAT
76792126 CTTCTCTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.35, C:0.12, G:0.05, T:0.47
Consensus pattern (21 bp):
TTTTTCAAACTTATAGCAATA
Found at i:76796357 original size:13 final size:13
Alignment explanation
Indices: 76796339--76796367 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
76796329 TGGTGATATG
76796339 AAAAATAGTAAAC
1 AAAAATAGTAAAC
76796352 AAAAATAGTAAAC
1 AAAAATAGTAAAC
76796365 AAA
1 AAA
76796368 GAGACCTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.72, C:0.07, G:0.07, T:0.14
Consensus pattern (13 bp):
AAAAATAGTAAAC
Found at i:76797015 original size:25 final size:24
Alignment explanation
Indices: 76796958--76797016 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 24
76796948 AAATGTTTAA
* *
76796958 TAAAAATTTCAATCATATTTTCAC
1 TAAAATTTTCAATCATATTTACAC
*
76796982 TAAATAATTTTCAATCATATTTAAGAC
1 T-AA-AATTTTCAATCATATTT-ACAC
76797009 TAAAATTT
1 TAAAATTT
76797017 CAAATTTTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
24 1 0.03
25 7 0.24
26 18 0.62
27 3 0.10
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.42
Consensus pattern (24 bp):
TAAAATTTTCAATCATATTTACAC
Found at i:76798573 original size:22 final size:22
Alignment explanation
Indices: 76798545--76798586 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
76798535 ACAAAAAAAC
* *
76798545 TGCTATTTTTTTGTTGTTTTAA
1 TGCTATTTTCTTGTTATTTTAA
76798567 TGCTATTTTCTTGTTATTTT
1 TGCTATTTTCTTGTTATTTT
76798587 CTCCTTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.12, C:0.07, G:0.12, T:0.69
Consensus pattern (22 bp):
TGCTATTTTCTTGTTATTTTAA
Found at i:76799093 original size:44 final size:44
Alignment explanation
Indices: 76799045--76799131 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
76799035 ATAGAAGTGT
76799045 CATCTTAATTTTGCATTCAATCAAATTTTGACA-GGCTAGTTTGA
1 CATCTTAATTTTGCATTCAATCAAATTTTGACATGGC-AGTTTGA
76799089 CATCTTAATTTTGCATTCAATCAAATTTTGACATGGCAGTTTG
1 CATCTTAATTTTGCATTCAATCAAATTTTGACATGGCAGTTTG
76799132 GCATGAAAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
44 39 0.93
45 3 0.07
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (44 bp):
CATCTTAATTTTGCATTCAATCAAATTTTGACATGGCAGTTTGA
Found at i:76801145 original size:17 final size:17
Alignment explanation
Indices: 76801120--76801155 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
76801110 TCAATTATCT
76801120 ATAAAAATATTTAAAAA
1 ATAAAAATATTTAAAAA
* *
76801137 ATAAGAATATTTAGAAA
1 ATAAAAATATTTAAAAA
76801154 AT
1 AT
76801156 TCCATTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.31
Consensus pattern (17 bp):
ATAAAAATATTTAAAAA
Found at i:76806642 original size:15 final size:16
Alignment explanation
Indices: 76806608--76806644 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
76806598 ACCCAACCTA
*
76806608 ACCCAAAACCCAGAAG
1 ACCCAAAACCCACAAG
76806624 -CCCAAAACCC-CAAG
1 ACCCAAAACCCACAAG
76806638 ACCCAAA
1 ACCCAAA
76806645 TCAGAAACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 3 0.16
15 16 0.84
ACGTcount: A:0.49, C:0.43, G:0.08, T:0.00
Consensus pattern (16 bp):
ACCCAAAACCCACAAG
Found at i:76807717 original size:18 final size:16
Alignment explanation
Indices: 76807684--76807740 Score: 64
Period size: 16 Copynumber: 3.5 Consensus size: 16
76807674 ATTAAATTTG
76807684 TAATATTAATTTTATT
1 TAATATTAATTTTATT
76807700 TAATATTAATATTATATT
1 TAATATTAAT-TT-TATT
*
76807718 TACTATT-ATTTT-TT
1 TAATATTAATTTTATT
76807732 TAAATATTA
1 T-AATATTA
76807741 GTGTACTTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
14 3 0.09
15 6 0.17
16 12 0.34
17 4 0.11
18 10 0.29
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (16 bp):
TAATATTAATTTTATT
Found at i:76807773 original size:17 final size:16
Alignment explanation
Indices: 76807750--76807797 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
76807740 AGTGTACTTT
76807750 GTATGTATATATTATTA
1 GTATGTATATATT-TTA
*
76807767 TTATG--TATATTTTA
1 GTATGTATATATTTTA
76807781 GTATGTATATATATTTA
1 GTATGTATATAT-TTTA
76807798 TGAAGTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
14 7 0.27
15 6 0.23
16 5 0.19
17 8 0.31
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.56
Consensus pattern (16 bp):
GTATGTATATATTTTA
Found at i:76807787 original size:14 final size:15
Alignment explanation
Indices: 76807757--76807795 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
76807747 TTTGTATGTA
*
76807757 TATATTATTATTATG
1 TATATTATTAGTATG
76807772 TATATT-TTAGTATG
1 TATATTATTAGTATG
76807786 TATATATATT
1 TATAT-TATT
76807796 TATGAAGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 12 0.57
15 7 0.33
16 2 0.10
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (15 bp):
TATATTATTAGTATG
Found at i:76808215 original size:59 final size:57
Alignment explanation
Indices: 76808106--76808222 Score: 130
Period size: 59 Copynumber: 2.0 Consensus size: 57
76808096 TATATTTTAT
* * *
76808106 TACAAGTATATATATACTTTTTATTAGTATTATTTTGTATATTATATTATTCATTATTA
1 TACAAGTATATATATAATTTTTATTAGTATTATTATGAATATTATATTATT-A-TATTA
* * *
76808165 TACATGTATATATATAATATTTT-TTAGTACTTATTAT-AATATTTTCTTATTATATTA
1 TACAAGTATATATATAAT-TTTTATTAGTA-TTATTATGAATATTATATTATTATATTA
76808222 T
1 T
76808223 TGTGCATATT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
57 6 0.12
58 1 0.02
59 33 0.66
60 10 0.20
ACGTcount: A:0.34, C:0.05, G:0.04, T:0.56
Consensus pattern (57 bp):
TACAAGTATATATATAATTTTTATTAGTATTATTATGAATATTATATTATTATATTA
Found at i:76808290 original size:8 final size:8
Alignment explanation
Indices: 76808279--76808315 Score: 56
Period size: 8 Copynumber: 4.5 Consensus size: 8
76808269 TTAATACTCC
76808279 TATATTAT
1 TATATTAT
76808287 TATATTAT
1 TATATTAT
76808295 GTATATTAT
1 -TATATTAT
*
76808304 TATTTTAT
1 TATATTAT
76808312 TATA
1 TATA
76808316 CGTATTACGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
8 18 0.69
9 8 0.31
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:76808299 original size:17 final size:16
Alignment explanation
Indices: 76808279--76808315 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
76808269 TTAATACTCC
76808279 TATATTATTATATTAT
1 TATATTATTATATTAT
*
76808295 GTATATTATTATTTTAT
1 -TATATTATTATATTAT
76808312 TATA
1 TATA
76808316 CGTATTACGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (16 bp):
TATATTATTATATTAT
Found at i:76813016 original size:6 final size:6
Alignment explanation
Indices: 76813005--76813031 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
76812995 TTTATAATCT
76813005 ATCTCA ATCTCA ATCTCA ATCTCA ATC
1 ATCTCA ATCTCA ATCTCA ATCTCA ATC
76813032 CTTAAAATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (6 bp):
ATCTCA
Found at i:76820108 original size:23 final size:24
Alignment explanation
Indices: 76820067--76820111 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
76820057 TAGAATGTAG
* *
76820067 TTATATAACTTTCTTTAAAAAAAA
1 TTATACAACTTTCTATAAAAAAAA
76820091 TTATACAAC-TTCTATAAAAAA
1 TTATACAACTTTCTATAAAAAA
76820112 TTCAAAAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (24 bp):
TTATACAACTTTCTATAAAAAAAA
Found at i:76839662 original size:53 final size:53
Alignment explanation
Indices: 76839599--76839702 Score: 174
Period size: 53 Copynumber: 2.0 Consensus size: 53
76839589 TGGTTACGTA
*
76839599 ATCATTCAAAAGTTTTCATTCAAGTCATT-GAGCCATTAAAAAAAGGGTAAAAT
1 ATCATTCAAAAGTTTTCATTCAAGTCATTAG-GCCATCAAAAAAAGGGTAAAAT
*
76839652 ATCATTCAAAAGTTTTCATTTAAGTCATTAGGCCATCAAAAAAAGGGTAAA
1 ATCATTCAAAAGTTTTCATTCAAGTCATTAGGCCATCAAAAAAAGGGTAAA
76839703 GTTTTTATGG
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
53 47 0.98
54 1 0.02
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.30
Consensus pattern (53 bp):
ATCATTCAAAAGTTTTCATTCAAGTCATTAGGCCATCAAAAAAAGGGTAAAAT
Found at i:76840666 original size:28 final size:28
Alignment explanation
Indices: 76840626--76840693 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
76840616 CCTGGGCAGT
*
76840626 AGAAGAAAAAGAGAA-AAAGAAGAATAGG
1 AGAAGAAAAAGAGAAGAAA-AAGAAGAGG
*
76840654 AGAAGAAACAGAGAAGAAAAAGAAGAGG
1 AGAAGAAAAAGAGAAGAAAAAGAAGAGG
* *
76840682 AGGAGAAGAAGA
1 AGAAGAAAAAGA
76840694 ATTAAGAGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 31 0.91
29 3 0.09
ACGTcount: A:0.65, C:0.01, G:0.32, T:0.01
Consensus pattern (28 bp):
AGAAGAAAAAGAGAAGAAAAAGAAGAGG
Found at i:76840675 original size:31 final size:28
Alignment explanation
Indices: 76840626--76840691 Score: 87
Period size: 31 Copynumber: 2.2 Consensus size: 28
76840616 CCTGGGCAGT
*
76840626 AGAAGAAAAAGAGAAAAAGAAGAATAGG
1 AGAAGAAAAAGAGAAAAAGAAGAAGAGG
*
76840654 AGAAGAAACAGAGAAGAAAAAGAAGAGGAGG
1 AGAAGAAA-A-AG-AGAAAAAGAAGAAGAGG
76840685 AGAAGAA
1 AGAAGAA
76840692 GAATTAAGAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
28 8 0.24
29 1 0.03
30 2 0.06
31 22 0.67
ACGTcount: A:0.65, C:0.02, G:0.32, T:0.02
Consensus pattern (28 bp):
AGAAGAAAAAGAGAAAAAGAAGAAGAGG
Found at i:76841854 original size:53 final size:53
Alignment explanation
Indices: 76841792--76841901 Score: 211
Period size: 53 Copynumber: 2.1 Consensus size: 53
76841782 TTCTTCCTCT
*
76841792 GCTTCTTTTCCACTGGTTCATAGTAATCCCATGGTCTTTCAGGGATGCGGATG
1 GCTTCTTTTCCACTGGTTCATAGTAATCCCATCGTCTTTCAGGGATGCGGATG
76841845 GCTTCTTTTCCACTGGTTCATAGTAATCCCATCGTCTTTCAGGGATGCGGATG
1 GCTTCTTTTCCACTGGTTCATAGTAATCCCATCGTCTTTCAGGGATGCGGATG
76841898 GCTT
1 GCTT
76841902 GGGGTTGTTC
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (53 bp):
GCTTCTTTTCCACTGGTTCATAGTAATCCCATCGTCTTTCAGGGATGCGGATG
Found at i:76842158 original size:21 final size:21
Alignment explanation
Indices: 76842132--76842172 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
76842122 CTACATGGCA
76842132 AGTTAACTGGCCATATCAGCT
1 AGTTAACTGGCCATATCAGCT
* *
76842153 AGTTAACTTGCCATGTCAGC
1 AGTTAACTGGCCATATCAGC
76842173 GCTCCCGTTA
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:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (21 bp):
AGTTAACTGGCCATATCAGCT
Found at i:76842941 original size:11 final size:10
Alignment explanation
Indices: 76842915--76842939 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
76842905 TAATGTTTAC
76842915 AAAAAGAAAA
1 AAAAAGAAAA
76842925 AAAAAGAAAA
1 AAAAAGAAAA
76842935 AAAAA
1 AAAAA
76842940 AGCTCATGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:76843228 original size:31 final size:31
Alignment explanation
Indices: 76843193--76843258 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
76843183 GTCAATTAAT
*
76843193 TATTCAAAAATTTTCATTTAAGTCACCAAAC
1 TATTCAAAAATTTTCATTTAAATCACCAAAC
* * * * *
76843224 TATTCGAAAGTTTTTATTTAAATCACTAGAC
1 TATTCAAAAATTTTCATTTAAATCACCAAAC
76843255 TATT
1 TATT
76843259 TTTTTTAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.41
Consensus pattern (31 bp):
TATTCAAAAATTTTCATTTAAATCACCAAAC
Found at i:76846573 original size:62 final size:62
Alignment explanation
Indices: 76846469--76846597 Score: 213
Period size: 62 Copynumber: 2.1 Consensus size: 62
76846459 GGAATTGACG
* * *
76846469 GTAAAAAGGATCTAGCCCGGATGGGTGATCCTATCCTGATATAGCCCTCCCGAAGAATATGT
1 GTAAAAAGGATCTAGCCCGGACGGGTGATCCTATCCTAATATAGCCCTCCCGAAGAATACGT
* *
76846531 GTAAAAAGGATCTAGCCCGGACGGGTGATCCTATTCTAATATAGCCCTTCCGAAGAATACGT
1 GTAAAAAGGATCTAGCCCGGACGGGTGATCCTATCCTAATATAGCCCTCCCGAAGAATACGT
76846593 GTAAA
1 GTAAA
76846598 TGGATTTAGC
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (62 bp):
GTAAAAAGGATCTAGCCCGGACGGGTGATCCTATCCTAATATAGCCCTCCCGAAGAATACGT
Found at i:76846868 original size:46 final size:47
Alignment explanation
Indices: 76846801--76847017 Score: 307
Period size: 46 Copynumber: 4.7 Consensus size: 47
76846791 TGGCAACCTG
*
76846801 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAA
* *
76846847 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAA
* *
76846893 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACAGGAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAA
* *
76846940 T-AGTAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAA
* * * *
76846985 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
76847018 TCACGTCAAA
Statistics
Matches: 159, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
45 6 0.04
46 150 0.94
47 3 0.02
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.21
Consensus pattern (47 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAA
Found at i:76846995 original size:138 final size:130
Alignment explanation
Indices: 76846755--76847017 Score: 357
Period size: 138 Copynumber: 2.0 Consensus size: 130
76846745 GTGTTCTCTA
*
76846755 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGA
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGGGTGTAAGACCATGGTTGA
* * * * *
76846820 AAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
66 AAGATACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAACCTG
* *
76846885 ATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACAGGAAAATAGTAAGACC
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG---GG----T-GTAAGACC
*
76846950 ATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTAT
58 ATGGTTGAAAGATACCATGGCAACATGACATG-AAATGAGTAAGACCATAGTTGAAAGACACCAT
76847014 GGCA
122 GGCA
76847018 TCACGTCAAA
Statistics
Matches: 115, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
130 44 0.38
133 1 0.01
137 2 0.02
138 68 0.59
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (130 bp):
ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGGGTGTAAGACCATGGTTGA
AAGATACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAACCTG
Found at i:76847323 original size:23 final size:25
Alignment explanation
Indices: 76847278--76847324 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
76847268 AATAAATATA
*
76847278 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
76847303 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
76847325 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:76850410 original size:52 final size:50
Alignment explanation
Indices: 76850340--76850680 Score: 436
Period size: 52 Copynumber: 6.9 Consensus size: 50
76850330 ATCAAGTGAT
* **
76850340 AAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGT--A
* *
76850392 AAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTG---A-TA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTA
*
76850438 AAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC----A
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTA
*
76850484 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGT--A
76850536 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGT--A
* *
76850588 AAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC----A
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTA
** *
76850634 AAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
76850681 AGTGATAAGT
Statistics
Matches: 264, Mismatches: 15, Indels: 24
0.87 0.05 0.08
Matches are distributed among these distances:
46 130 0.49
48 1 0.00
49 1 0.00
52 132 0.50
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.29
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTA
Found at i:76850441 original size:46 final size:46
Alignment explanation
Indices: 76850391--76850691 Score: 404
Period size: 46 Copynumber: 6.3 Consensus size: 46
76850381 TGACAAGTGG
* * *
76850391 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAT
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
*
76850437 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
*
76850483 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
76850529 AAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
1 ------AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
* *
76850581 AAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 ------AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
** *
76850633 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
76850679 AAAGTGATAAGTG
1 AAAGTGATAAGTG
76850692 GCTACACTTA
Statistics
Matches: 238, Mismatches: 11, Indels: 12
0.91 0.04 0.05
Matches are distributed among these distances:
46 144 0.61
52 94 0.39
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
Found at i:76850468 original size:98 final size:97
Alignment explanation
Indices: 76850326--76850691 Score: 492
Period size: 98 Copynumber: 3.7 Consensus size: 97
76850316 TTTGAGTACT
* *
76850326 TCTGATCAAGTGAT-AAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-
*
76850390 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
65 GAAAGTGATAAGTGATAGCTTCGGCTATACTTA
* *
76850423 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
76850483 AAAGTGATAAGTGATAGCTTCAGCTACACTTA
66 AAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
76850515 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 TCTGATCAAGTG---A-T--AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
76850580 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
60 CAAGTG-AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* * * *
76850619 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGT
76850684 GATAAGTG
65 GA-AAGTG
76850692 GCTACACTTA
Statistics
Matches: 239, Mismatches: 15, Indels: 28
0.85 0.05 0.10
Matches are distributed among these distances:
92 41 0.17
95 1 0.00
96 1 0.00
97 14 0.06
98 130 0.54
99 10 0.04
101 1 0.00
104 41 0.17
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.29
Consensus pattern (97 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:76850666 original size:196 final size:196
Alignment explanation
Indices: 76850332--76850691 Score: 605
Period size: 196 Copynumber: 1.8 Consensus size: 196
76850322 TACTTCTGAT
* * *
76850332 CAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTG
1 CAAGTGATAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTG
* * *
76850397 ATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCT
66 ATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCT
* *
76850462 ATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTG
131 ACACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTG
76850527 A
196 A
*
76850528 CAAGTGGA-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGT
1 CAAGT-GATAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGT
* *
76850592 GATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGC
65 GATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGC
76850657 TACACTTATCTGATCAAGAGACAAAGTGATAAGTG
130 TACACTTATCTGATCAAGAGACAAAGTGATAAGTG
76850692 GCTACACTTA
Statistics
Matches: 152, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
196 150 0.99
197 2 0.01
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.29
Consensus pattern (196 bp):
CAAGTGATAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTG
ATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCT
ACACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTG
A
Found at i:76850699 original size:37 final size:37
Alignment explanation
Indices: 76850655--76850800 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
76850645 GATAGCTTTA
*
76850655 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
76850692 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
* *
76850729 GCTACACTTATGTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
76850766 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
76850801 ATCATACGTA
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 87 0.85
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:76850728 original size:150 final size:149
Alignment explanation
Indices: 76850326--76850680 Score: 458
Period size: 150 Copynumber: 2.4 Consensus size: 149
76850316 TTTGAGTACT
* * * * *
76850326 TCTGATCAAGTGA-TAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
* * * *
76850390 GAAAGTGATAAGTAATAGCTTC-G---GCTATACTTATC---TGATCAAGTGATAAAGTGATAAG
66 GAAAGTGATAACT-ATAGCTTCAGCAAACTAAACTGATCAAGTGA-CAAGTGATAAAGTGATAAG
76850448 TGATAGCTTCGGCTATACTTA
129 TGATAGCTTCGGCTATACTTA
* *
76850469 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
* * * * *
76850534 GAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA-AAAGTGATAAG
66 GAAAGTGATAACT-ATAGCTTCAGC-AAACTAAACTGATCAAGTGACAAGTGATAAAGTGATAAG
76850598 TGATAGCTTCGGCTATACTTA
129 TGATAGCTTCGGCTATACTTA
*
76850619 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAA
76850681 AGTGATAAGT
Statistics
Matches: 191, Mismatches: 12, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
143 13 0.07
144 69 0.36
145 1 0.01
149 7 0.04
150 91 0.48
151 7 0.04
152 3 0.02
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (149 bp):
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
GAAAGTGATAACTATAGCTTCAGCAAACTAAACTGATCAAGTGACAAGTGATAAAGTGATAAGTG
ATAGCTTCGGCTATACTTA
Found at i:76853262 original size:26 final size:26
Alignment explanation
Indices: 76853226--76853309 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
76853216 CATGAAATTC
76853226 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
76853252 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
76853278 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
76853304 TTATCA
1 TTATCA
76853310 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:76856437 original size:103 final size:104
Alignment explanation
Indices: 76856258--76856522 Score: 417
Period size: 103 Copynumber: 2.6 Consensus size: 104
76856248 AACCGTTATT
* * * *
76856258 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
** *
76856323 ATCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
76856361 GGTGGATATCGCACTTAGCACCACCAATGAA-CTGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 GGTGGATATCGCACTTAGCACCACCAATGAATC-GGGGAATCAGCACTTAGCAACCCCTCGGGGG
76856425 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
65 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
76856465 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
76856523 TTATGTACAA
Statistics
Matches: 149, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
102 1 0.01
103 82 0.55
104 65 0.44
105 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.20
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:76856884 original size:30 final size:29
Alignment explanation
Indices: 76856850--76856914 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
76856840 TAATCCACCA
76856850 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
76856880 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
76856910 CCCAA
1 CCCAA
76856915 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:76856888 original size:31 final size:30
Alignment explanation
Indices: 76856857--76856914 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
76856847 CCACCCAACT
76856857 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
76856887 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
76856915 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:76860704 original size:35 final size:35
Alignment explanation
Indices: 76860665--76860964 Score: 289
Period size: 35 Copynumber: 8.6 Consensus size: 35
76860655 CATGGCAAAG
*
76860665 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATTATCCATACCGAGT
*
76860700 TGTGAAACGTAGGTATGGTATTAACCATACCGAGT
1 TGTGAAACGTAGGTATGGTATTATCCATACCGAGT
* * * * *
76860735 TGTGAAACATTGGTATGGTATTAACCATACTGAGC
1 TGTGAAACGTAGGTATGGTATTATCCATACCGAGT
* *
76860770 TGTGAAACATAGGTATGGTATT-TCCATACCGAGC
1 TGTGAAACGTAGGTATGGTATTATCCATACCGAGT
* * ** ** * *
76860804 TATGAAACGTAGGTATCGCGTCGTCCATACTGAGC
1 TGTGAAACGTAGGTATGGTATTATCCATACCGAGT
* * * ** *
76860839 TATGATACGTAGGTATGGCATCGTCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTATCCATACCGAGT
* ** * *
76860874 TATGAAATATAGGTATGGTATTTTCCATACCG-GG
1 TGTGAAACGTAGGTATGGTATTATCCATACCGAGT
** * * *
76860908 CATGAAAAGTAGGTATGGTGTTTTCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATTATCCATACCGAGT
76860943 TGTGAAACGTAGGTATGGTATT
1 TGTGAAACGTAGGTATGGTATT
76860965 TCAATAAGGA
Statistics
Matches: 226, Mismatches: 37, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
34 55 0.24
35 171 0.76
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (35 bp):
TGTGAAACGTAGGTATGGTATTATCCATACCGAGT
Found at i:76860854 original size:104 final size:102
Alignment explanation
Indices: 76860665--76860964 Score: 323
Period size: 104 Copynumber: 2.9 Consensus size: 102
76860655 CATGGCAAAG
* * * *
76860665 TGTGAAACGTAGGTATGGTATCATCCATACCGAGTTGTGAAACGTAGGTATGGTATTAACCATAC
1 TGTGAAACATAGGTATGGTAT-TTCCATACCGAGCTATGAAACGTAGGTATGGTATT--CCATAC
* *
76860730 CGAGTTGTGAAACATTGGTATGGTATTAACCATACTGAGC
63 CGAGTTGTGAAACGTAGGTATGGTATTAACCATACTGAGC
** *
76860770 TGTGAAACATAGGTATGGTATTTCCATACCGAGCTATGAAACGTAGGTATCGCGTCGTCCATACT
1 TGTGAAACATAGGTATGGTATTTCCATACCGAGCTATGAAACGTAGGTAT-G-GTATTCCATACC
* * * * *** *
76860835 GAGCTATGATACGTAGGTATGGCATCGTCCATACTGAGT
64 GAGTTGTGAAACGTAGGTATGGTATTAACCATACTGAGC
* * * * *
76860874 TATGAAATATAGGTATGGTATTTTCCATACCGGGC-ATGAAAAGTAGGTATGGTGTTTTCCATAC
1 TGTGAAACATAGGTATGGTA-TTTCCATACCGAGCTATGAAACGTAGGTAT-G-GTATTCCATAC
76860938 CGAGTTGTGAAACGTAGGTATGGTATT
63 CGAGTTGTGAAACGTAGGTATGGTATT
76860965 TCAATAAGGA
Statistics
Matches: 161, Mismatches: 31, Indels: 7
0.81 0.16 0.04
Matches are distributed among these distances:
104 124 0.77
105 34 0.21
106 3 0.02
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (102 bp):
TGTGAAACATAGGTATGGTATTTCCATACCGAGCTATGAAACGTAGGTATGGTATTCCATACCGA
GTTGTGAAACGTAGGTATGGTATTAACCATACTGAGC
Found at i:76860903 original size:139 final size:139
Alignment explanation
Indices: 76860667--76860958 Score: 336
Period size: 139 Copynumber: 2.1 Consensus size: 139
76860657 TGGCAAAGTG
* * * * * *
76860667 TGAAACGTAGGTATGGTATCATCCATACCGAGTTGTGAAACGTAGGTATGGTATTAACCATACCG
1 TGAAACGTAGGTATCGCATCATCCATACCGAGCTATGAAACGTAGGTATGGCATCAACCATACCG
* * * *
76860732 AGTTGTGAAACATTGGTATGGTATTAACCATACTGAGCTGTGAAACA-TAGGTATGGT-ATTTCC
66 AGTTATGAAACATAGGTATGGTATTAACCATACCGAGC-ATGAAA-AGTAGGTATGGTGATTTCC
76860795 ATACCGAGCTA
129 ATACCGAGCTA
* * * * ** *
76860806 TGAAACGTAGGTATCGCGTCGTCCATACTGAGCTATGATACGTAGGTATGGCATCGTCCATACTG
1 TGAAACGTAGGTATCGCATCATCCATACCGAGCTATGAAACGTAGGTATGGCATCAACCATACCG
* ** * *
76860871 AGTTATGAAATATAGGTATGGTATTTTCCATACCGGGCATGAAAAGTAGGTATGGTGTTTTCCAT
66 AGTTATGAAACATAGGTATGGTATTAACCATACCGAGCATGAAAAGTAGGTATGGTGATTTCCAT
* *
76860936 ACCGAGTTG
131 ACCGAGCTA
76860945 TGAAACGTAGGTAT
1 TGAAACGTAGGTAT
76860959 GGTATTTCAA
Statistics
Matches: 127, Mismatches: 24, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
137 1 0.01
138 15 0.12
139 111 0.87
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (139 bp):
TGAAACGTAGGTATCGCATCATCCATACCGAGCTATGAAACGTAGGTATGGCATCAACCATACCG
AGTTATGAAACATAGGTATGGTATTAACCATACCGAGCATGAAAAGTAGGTATGGTGATTTCCAT
ACCGAGCTA
Found at i:76864539 original size:44 final size:44
Alignment explanation
Indices: 76864448--76864539 Score: 105
Period size: 44 Copynumber: 2.1 Consensus size: 44
76864438 CTGAAGTAAC
* * *
76864448 AGTAACAGTACGACACACAAGGTGCCTTATTGACTTAAAGTCAA
1 AGTAACAGTACGACACACAAGGTGCCTCATCGACTCAAAGTCAA
** * *
76864492 AGTAACAGTACGACACTTATA-GTGCCTCATCGACTCAAGGTCGA
1 AGTAACAGTACGACACACA-AGGTGCCTCATCGACTCAAAGTCAA
76864536 AGTA
1 AGTA
76864540 TCTCTGAACA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
44 39 0.98
45 1 0.03
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.23
Consensus pattern (44 bp):
AGTAACAGTACGACACACAAGGTGCCTCATCGACTCAAAGTCAA
Found at i:76866025 original size:36 final size:36
Alignment explanation
Indices: 76865984--76866058 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
76865974 TAATTTAAGC
76865984 TAATTTACTTAATTAAACTCTAATTAACCACTCAAT
1 TAATTTACTTAATTAAACTCTAATTAACCACTCAAT
76866020 TAATTTACTTAATTAAACTCTAATTAACCACTCAAT
1 TAATTTACTTAATTAAACTCTAATTAACCACTCAAT
76866056 TAA
1 TAA
76866059 CTTCGTAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.43, C:0.19, G:0.00, T:0.39
Consensus pattern (36 bp):
TAATTTACTTAATTAAACTCTAATTAACCACTCAAT
Found at i:76866052 original size:13 final size:13
Alignment explanation
Indices: 76866000--76866059 Score: 58
Period size: 13 Copynumber: 4.9 Consensus size: 13
76865990 ACTTAATTAA
76866000 ACTCTAATTAACC
1 ACTCTAATTAACC
**
76866013 ACTC-AATTAATTT
1 ACTCTAATTAA-CC
76866026 ACT-TAATTAA--
1 ACTCTAATTAACC
76866036 ACTCTAATTAACC
1 ACTCTAATTAACC
76866049 ACTC-AATTAAC
1 ACTCTAATTAAC
76866060 TTCGTAAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
10 3 0.08
11 7 0.17
12 13 0.32
13 17 0.43
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (13 bp):
ACTCTAATTAACC
Found at i:76866454 original size:22 final size:22
Alignment explanation
Indices: 76866423--76866465 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
76866413 GCATTAATGA
* *
76866423 ACAGAGAGCACTAAAGTGCTAT
1 ACAGAAAGCACGAAAGTGCTAT
*
76866445 ACAGAAAGCACGAATGTGCTA
1 ACAGAAAGCACGAAAGTGCTA
76866466 AATAGAGTGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.42, C:0.19, G:0.23, T:0.16
Consensus pattern (22 bp):
ACAGAAAGCACGAAAGTGCTAT
Found at i:76867653 original size:10 final size:10
Alignment explanation
Indices: 76867638--76867713 Score: 50
Period size: 10 Copynumber: 7.4 Consensus size: 10
76867628 TAATTATATA
76867638 ATATAATAAT
1 ATATAATAAT
76867648 ATATAAT-AT
1 ATATAATAAT
*
76867657 AATTTAATAAT
1 -ATATAATAAT
* * *
76867668 ATTTACTTAT
1 ATATAATAAT
76867678 ATTATAAGTAAAT
1 A-TATAA-T-AAT
76867691 ATATAATAAT
1 ATATAATAAT
76867701 -TACTAAT-AT
1 ATA-TAATAAT
76867710 ATAT
1 ATAT
76867714 TTATTATTAT
Statistics
Matches: 53, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
9 7 0.13
10 31 0.58
11 6 0.11
12 6 0.11
13 3 0.06
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (10 bp):
ATATAATAAT
Found at i:76871066 original size:50 final size:50
Alignment explanation
Indices: 76870991--76871089 Score: 171
Period size: 50 Copynumber: 2.0 Consensus size: 50
76870981 TGGCAACAAT
*
76870991 TGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGAAAAGTGAAAG
1 TGATAAGTGATAGCTTCGACTACACTTATCTGATCAAGGAAAAGTGAAAG
* *
76871041 TGATAAGTGATAGCTTCGACTACACTTATCTGATCAATGACAAGTGAAA
1 TGATAAGTGATAGCTTCGACTACACTTATCTGATCAAGGAAAAGTGAAA
76871090 AGTGGTAGCT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.27
Consensus pattern (50 bp):
TGATAAGTGATAGCTTCGACTACACTTATCTGATCAAGGAAAAGTGAAAG
Found at i:76871101 original size:44 final size:44
Alignment explanation
Indices: 76870986--76871107 Score: 127
Period size: 50 Copynumber: 2.6 Consensus size: 44
76870976 GACCATGGCA
* * *
76870986 ACAATTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGG
1 ACAAGTGAAAAGTGATAGCTTCGACTACACTTATCTGATCAAGG
* *
76871030 AAAAGTGAAAGTGATAAGTGATAGCTTCGACTACACTTATCTGATCAATG
1 ACAAGTG--A---A-AAGTGATAGCTTCGACTACACTTATCTGATCAAGG
* *
76871080 ACAAGTGAAAAGTGGTAGCTTCAACTAC
1 ACAAGTGAAAAGTGATAGCTTCGACTAC
76871108 CTGATCAGTG
Statistics
Matches: 64, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
44 22 0.34
45 1 0.02
46 1 0.02
48 1 0.02
50 39 0.61
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.27
Consensus pattern (44 bp):
ACAAGTGAAAAGTGATAGCTTCGACTACACTTATCTGATCAAGG
Found at i:76871121 original size:31 final size:31
Alignment explanation
Indices: 76871083--76871231 Score: 235
Period size: 31 Copynumber: 4.8 Consensus size: 31
76871073 ATCAATGACA
**
76871083 AGTGAAAAGTGGTAGCTTCAACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
76871114 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
76871145 AGTGAAAAGTGGTAGTTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
76871176 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
76871207 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
76871232 AAGTGACAAG
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 108 1.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:76871457 original size:42 final size:42
Alignment explanation
Indices: 76871350--76871447 Score: 153
Period size: 42 Copynumber: 2.3 Consensus size: 42
76871340 TATGTGATTC
* *
76871350 GTGTAAGATCATAGCTGGGCTATGGCATCGATATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAAGAT
*
76871392 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAAGAT
76871434 GTGTAAGACCATAG
1 GTGTAAGACCATAG
76871448 TTGAACTATG
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
41 1 0.02
42 51 0.98
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAAGAT
Found at i:76876013 original size:2 final size:2
Alignment explanation
Indices: 76876006--76876032 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
76875996 TCTAACTGAA
76876006 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
76876033 GTGCTGTTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:76878812 original size:5 final size:5
Alignment explanation
Indices: 76878769--76878795 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
76878759 GCTGATTGGT
76878769 AGAAA AGAAA AGAAA AGAAA AGAAA AG
1 AGAAA AGAAA AGAAA AGAAA AGAAA AG
76878796 CTTAAGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:76883261 original size:26 final size:26
Alignment explanation
Indices: 76883204--76883253 Score: 79
Period size: 23 Copynumber: 2.0 Consensus size: 26
76883194 TTTCAGTAAA
76883204 TAAAAATATATATAATTATTAAATAT
1 TAAAAATATATATAATTATTAAATAT
76883230 TAAAAATA-ATATAA-TA-TAAATAT
1 TAAAAATATATATAATTATTAAATAT
76883253 T
1 T
76883254 TTTAAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 8 0.33
24 2 0.08
25 6 0.25
26 8 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (26 bp):
TAAAAATATATATAATTATTAAATAT
Found at i:76885140 original size:23 final size:22
Alignment explanation
Indices: 76885089--76885144 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
76885079 AATAAAAAAT
76885089 AAAAA-ATAATATTAAATATTA
1 AAAAATATAATATTAAATATTA
*
76885110 AAATAATATAATA-TAAATATTTT
1 AAA-AATATAATATTAAATA-TTA
76885133 AAAAA-ATAATAT
1 AAAAATATAATAT
76885145 GAATGGGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
21 9 0.30
22 10 0.33
23 11 0.37
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
AAAAATATAATATTAAATATTA
Found at i:76885342 original size:6 final size:7
Alignment explanation
Indices: 76885324--76885349 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
76885314 TGTTACATTG
76885324 ATTTTTT
1 ATTTTTT
76885331 ATTTTTT
1 ATTTTTT
76885338 ATTTTTT
1 ATTTTTT
76885345 ATTTT
1 ATTTT
76885350 AATATTTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
ATTTTTT
Found at i:76885357 original size:14 final size:14
Alignment explanation
Indices: 76885324--76885358 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
76885314 TGTTACATTG
*
76885324 ATTTTTTATTTTTT
1 ATTTTTTATTTTAT
76885338 ATTTTTTATTTTAAT
1 ATTTTTTATTTT-AT
76885353 ATTTTT
1 ATTTTT
76885359 GTTTAACATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (14 bp):
ATTTTTTATTTTAT
Found at i:76889294 original size:19 final size:19
Alignment explanation
Indices: 76889270--76889308 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
76889260 AAATAGGTGT
76889270 CTAGTTAGACTTTTAACCA
1 CTAGTTAGACTTTTAACCA
76889289 CTAGTTAGACTTTTAACCA
1 CTAGTTAGACTTTTAACCA
76889308 C
1 C
76889309 AACTCCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.23, G:0.10, T:0.36
Consensus pattern (19 bp):
CTAGTTAGACTTTTAACCA
Found at i:76891226 original size:31 final size:32
Alignment explanation
Indices: 76891179--76891242 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
76891169 TCAAATTTTT
* *
76891179 AAAGAAAAGAGACTAAAATTGATCAATTCAAA
1 AAAGAAAAGAGACTAAAATTAATCAAATCAAA
* *
76891211 AAAGATAAG-GACTAAATTTAATCAAATCAAA
1 AAAGAAAAGAGACTAAAATTAATCAAATCAAA
76891242 A
1 A
76891243 CATAGGGACT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 20 0.71
32 8 0.29
ACGTcount: A:0.59, C:0.09, G:0.11, T:0.20
Consensus pattern (32 bp):
AAAGAAAAGAGACTAAAATTAATCAAATCAAA
Found at i:76898616 original size:19 final size:19
Alignment explanation
Indices: 76898592--76898628 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
76898582 TATCAAACTT
*
76898592 CTTTTTTATCTTCCATATA
1 CTTTTTTATCTTCAATATA
76898611 CTTTTTTATCTTCAATAT
1 CTTTTTTATCTTCAATAT
76898629 CAGGATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.19, G:0.00, T:0.59
Consensus pattern (19 bp):
CTTTTTTATCTTCAATATA
Found at i:76901175 original size:18 final size:17
Alignment explanation
Indices: 76901142--76901180 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
76901132 TTGTATAAAT
76901142 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
76901160 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
76901177 TGTG
1 TGTG
76901181 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:76901433 original size:23 final size:23
Alignment explanation
Indices: 76901406--76901502 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
76901396 AGTGTTATTG
76901406 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
76901429 TTCAGTGGTAGCTTTGGCTAC--
1 ATCAGTGGTAGCTTCGGCTACAT
76901450 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
76901473 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
76901496 ATCAGTG
1 ATCAGTG
76901503 TGGCACTTAT
Statistics
Matches: 68, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
21 19 0.28
23 49 0.72
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:76901469 original size:44 final size:44
Alignment explanation
Indices: 76901406--76901495 Score: 162
Period size: 44 Copynumber: 2.0 Consensus size: 44
76901396 AGTGTTATTG
* *
76901406 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTAC
1 ATCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTAC
76901450 ATCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTAC
1 ATCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTAC
76901494 AT
1 AT
76901496 ATCAGTGTGG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (44 bp):
ATCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTAC
Found at i:76904521 original size:21 final size:21
Alignment explanation
Indices: 76904495--76904535 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
76904485 AGACAAGCGA
* *
76904495 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
76904516 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
76904536 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:76907881 original size:41 final size:42
Alignment explanation
Indices: 76907817--76907897 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 42
76907807 AGAACAAAGA
* *
76907817 AAATGAAAGGGAAAAGGAGATAAAAAGAAAAAATAGAAATAG
1 AAATGAAAGGGAAAAGAAAATAAAAAGAAAAAATAGAAATAG
* ** *
76907859 AAATG-AAGGGAAAATAAAATAAAGTGAAATAATAGAAAT
1 AAATGAAAGGGAAAAGAAAATAAAAAGAAAAAATAGAAAT
76907898 TTTTAAAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
41 28 0.85
42 5 0.15
ACGTcount: A:0.65, C:0.00, G:0.21, T:0.14
Consensus pattern (42 bp):
AAATGAAAGGGAAAAGAAAATAAAAAGAAAAAATAGAAATAG
Found at i:76908034 original size:20 final size:20
Alignment explanation
Indices: 76908009--76908053 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
76907999 TAAATTAGTA
76908009 TAATTATATACCTAAAATTC
1 TAATTATATACCTAAAATTC
* *
76908029 TAATTATATACGTAAAATTT
1 TAATTATATACCTAAAATTC
76908049 TAATT
1 TAATT
76908054 CTAATTCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.44
Consensus pattern (20 bp):
TAATTATATACCTAAAATTC
Found at i:76908145 original size:25 final size:25
Alignment explanation
Indices: 76908109--76908159 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
76908099 ACAAACAAAC
* *
76908109 AAATTAATTTATTTTTATATTTAAT
1 AAATTAATTTATTTATATATATAAT
76908134 AAATATAA-TTATTTATATATATAAT
1 AAAT-TAATTTATTTATATATATAAT
76908159 A
1 A
76908160 TATAAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 20 0.87
26 3 0.13
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
AAATTAATTTATTTATATATATAAT
Found at i:76908156 original size:29 final size:30
Alignment explanation
Indices: 76908110--76908170 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 30
76908100 CAAACAAACA
* * *
76908110 AATTAATTTATTTTTAT-ATTTAATAAATAT
1 AATTAATTTATATATATAATAT-ATAAATAT
76908140 AATT-ATTTATATATATAATATATAAATAT
1 AATTAATTTATATATATAATATATAAATAT
76908169 AA
1 AA
76908171 AACGATATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 20 0.74
30 7 0.26
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (30 bp):
AATTAATTTATATATATAATATATAAATAT
Found at i:76908157 original size:16 final size:17
Alignment explanation
Indices: 76908126--76908158 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
76908116 TTTATTTTTA
76908126 TATTTAATAAATATAAT
1 TATTTAATAAATATAAT
*
76908143 TATTT-ATATATATAAT
1 TATTTAATAAATATAAT
76908159 ATATAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TATTTAATAAATATAAT
Found at i:76908272 original size:29 final size:30
Alignment explanation
Indices: 76908219--76908277 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
76908209 GAATTTGATT
* *
76908219 AAATTAAAATTTCATGTATAGAATTATACA
1 AAATCAAAATTTCATGTATAAAATTATACA
76908249 AAATCAAAA-TTCATGTATAAAATTATACA
1 AAATCAAAATTTCATGTATAAAATTATACA
76908278 TTAAACTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 19 0.70
30 8 0.30
ACGTcount: A:0.53, C:0.08, G:0.05, T:0.34
Consensus pattern (30 bp):
AAATCAAAATTTCATGTATAAAATTATACA
Found at i:76909664 original size:12 final size:12
Alignment explanation
Indices: 76909649--76909675 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
76909639 AATTTTACCA
76909649 AAAAAAAAAAAG
1 AAAAAAAAAAAG
76909661 AAAAAAAAAAAG
1 AAAAAAAAAAAG
76909673 AAA
1 AAA
76909676 CAAGTAAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:76917002 original size:41 final size:42
Alignment explanation
Indices: 76916939--76917018 Score: 101
Period size: 41 Copynumber: 1.9 Consensus size: 42
76916929 ATGCAGGGGA
* *
76916939 CACACGGTCTATCAAAATGCCCGTGTG-CAAGCCGTGTGTCT
1 CACACGGTCTATCAAAACGCCCGTATGACAAGCCGTGTGTCT
* *
76916980 CACACGGTCTGATC-ACACGCCCGTATGACATGCCGTGTG
1 CACACGGTCT-ATCAAAACGCCCGTATGACAAGCCGTGTG
76917019 GACTCAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
41 20 0.61
42 13 0.39
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.23
Consensus pattern (42 bp):
CACACGGTCTATCAAAACGCCCGTATGACAAGCCGTGTGTCT
Found at i:76917755 original size:24 final size:24
Alignment explanation
Indices: 76917720--76917774 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
76917710 ACCATAACAT
76917720 TAACAGTAACAGTAACAATATCGG
1 TAACAGTAACAGTAACAATATCGG
* * *
76917744 TAACAGTGACAGTAGCAATTTCGG
1 TAACAGTAACAGTAACAATATCGG
76917768 TACACAG
1 TA-ACAG
76917775 AGTAGCTCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 23 0.85
25 4 0.15
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.22
Consensus pattern (24 bp):
TAACAGTAACAGTAACAATATCGG
Found at i:76918633 original size:15 final size:15
Alignment explanation
Indices: 76918607--76918674 Score: 57
Period size: 15 Copynumber: 4.4 Consensus size: 15
76918597 CCTCAAAACC
76918607 CTATTT-TTTCCTTT
1 CTATTTCTTTCCTTT
*
76918621 CTTTTTCTTTCCTTT
1 CTATTTCTTTCCTTT
* *
76918636 CTATTTCATTTTCATT
1 CTATTTC-TTTCCTTT
* *
76918652 CTCAGTTCTTTCTTTTT
1 CT-ATTTCTTTC-CTTT
76918669 CTATTT
1 CTATTT
76918675 TGTTTCTTTT
Statistics
Matches: 41, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
14 5 0.12
15 14 0.34
16 14 0.34
17 8 0.20
ACGTcount: A:0.09, C:0.22, G:0.01, T:0.68
Consensus pattern (15 bp):
CTATTTCTTTCCTTT
Found at i:76918680 original size:17 final size:18
Alignment explanation
Indices: 76918660--76918694 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
76918650 TTCTCAGTTC
76918660 TTTCTTTT-TCTATTTTG
1 TTTCTTTTATCTATTTTG
*
76918677 TTTCTTTTATTTATTTTG
1 TTTCTTTTATCTATTTTG
76918695 ACTATTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.09, C:0.09, G:0.06, T:0.77
Consensus pattern (18 bp):
TTTCTTTTATCTATTTTG
Found at i:76918744 original size:16 final size:15
Alignment explanation
Indices: 76918697--76918744 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
76918687 TTATTTTGAC
*
76918697 TATTATATTATATTAT
1 TATTATATTA-AATAT
*
76918713 TATTATAATAACATAT
1 TATTATATTAA-ATAT
76918729 TATATATATTAAATAT
1 TAT-TATATTAAATAT
76918745 CTTATACTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 1 0.04
16 19 0.70
17 7 0.26
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTATATTAAATAT
Found at i:76919598 original size:302 final size:302
Alignment explanation
Indices: 76919052--76919646 Score: 1129
Period size: 302 Copynumber: 2.0 Consensus size: 302
76919042 CCGGAAATAC
*
76919052 ACTTTTCCGATACTCATAAACTTTGGGTCATTACACAACAACTAAAAGTAAGATCGATTCTTTGG
1 ACTTTTCCGATACTCATAAACTTTGGGTCATTACACAACAACTAAAAGAAAGATCGATTCTTTGG
76919117 GATCTTTCCTTTCTTCAAACGAAACGAACCGAGATAGAATCAGATCGATTCCCTAAGTGCCTTTC
66 GATCTTTCCTTTCTTCAAACGAAACGAACCGAGATAGAATCAGATCGATTCCCTAAGTGCCTTTC
* *
76919182 TGGATATTCCTCAATGTCTCGGCTGTTCATGGAACGTGAGAAGTGAATGAATAATCATTTGCTTC
131 TGGATATTCCTCAATGTCCCGGCTGTTCATGGAACGTGAGAAGAGAATGAATAATCATTTGCTTC
76919247 CAAAAGAAATCGAATTTCTTAGGAATCTTACAAGATCCATTTATTCTTTTTTCTCTAATAGATGG
196 CAAAAGAAATCGAATTTCTTAGGAATCTTACAAGATCCATTTATTCTTTTTTCTCTAATAGATGG
76919312 TTAGAACTTCATCTAGGTTCGAATCCTACTGAGGTGGTTAGA
261 TTAGAACTTCATCTAGGTTCGAATCCTACTGAGGTGGTTAGA
76919354 ACTTTTCCGATACTCATAAACTTTGGGTCATTACACAACAACTAAAAGAAAGATCGATTCTTTGG
1 ACTTTTCCGATACTCATAAACTTTGGGTCATTACACAACAACTAAAAGAAAGATCGATTCTTTGG
*
76919419 GATCTTTCCTTTCTTCAAACGGAACGAACCGAGATAGAATCAGATCGATTCCCTAAGTGCCTTTC
66 GATCTTTCCTTTCTTCAAACGAAACGAACCGAGATAGAATCAGATCGATTCCCTAAGTGCCTTTC
76919484 TGGATATTCCTCAATGTCCCGGCTGTTCATGGAACGTGAGAAGCAG-ATGAATAATCATTTGCTT
131 TGGATATTCCTCAATGTCCCGGCTGTTCATGGAACGTGAGAAG-AGAATGAATAATCATTTGCTT
*
76919548 CCAAAAGAAATCGAATTTCTTAGGAATCTTACAAGATCCATTTATTCTTTTTTCTCTGATAGATG
195 CCAAAAGAAATCGAATTTCTTAGGAATCTTACAAGATCCATTTATTCTTTTTTCTCTAATAGATG
76919613 GTTAGAACTTCATCTAGGTTCGAATCCTACTGAG
260 GTTAGAACTTCATCTAGGTTCGAATCCTACTGAG
76919647 AGGTCCACTA
Statistics
Matches: 287, Mismatches: 5, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
302 286 1.00
303 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (302 bp):
ACTTTTCCGATACTCATAAACTTTGGGTCATTACACAACAACTAAAAGAAAGATCGATTCTTTGG
GATCTTTCCTTTCTTCAAACGAAACGAACCGAGATAGAATCAGATCGATTCCCTAAGTGCCTTTC
TGGATATTCCTCAATGTCCCGGCTGTTCATGGAACGTGAGAAGAGAATGAATAATCATTTGCTTC
CAAAAGAAATCGAATTTCTTAGGAATCTTACAAGATCCATTTATTCTTTTTTCTCTAATAGATGG
TTAGAACTTCATCTAGGTTCGAATCCTACTGAGGTGGTTAGA
Found at i:76924125 original size:21 final size:24
Alignment explanation
Indices: 76924101--76924149 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
76924091 AGAACAAGAG
76924101 AAAATTAAT-CA-TTC-TTGTTAA
1 AAAATTAATCCATTTCATTGTTAA
76924122 AAAATTAATCCATTTCTATTGTTAA
1 AAAATTAATCCATTTC-ATTGTTAA
76924147 AAA
1 AAA
76924150 TTGGCTTCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.38
22 2 0.08
23 3 0.12
25 10 0.42
ACGTcount: A:0.45, C:0.10, G:0.04, T:0.41
Consensus pattern (24 bp):
AAAATTAATCCATTTCATTGTTAA
Found at i:76926629 original size:24 final size:24
Alignment explanation
Indices: 76926602--76926657 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
76926592 AAAAGTTATA
*
76926602 AAAATTTTCAGGTAATAATATGGT
1 AAAATTTTCAGGTAATAATATGAT
* * *
76926626 AAAATCTTCAGGTGATAATGTGAT
1 AAAATTTTCAGGTAATAATATGAT
76926650 AAAATTTT
1 AAAATTTT
76926658 AGAGTGTCAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.05, G:0.16, T:0.38
Consensus pattern (24 bp):
AAAATTTTCAGGTAATAATATGAT
Found at i:76931234 original size:39 final size:39
Alignment explanation
Indices: 76931127--76931261 Score: 123
Period size: 39 Copynumber: 3.4 Consensus size: 39
76931117 GACCTCGAGT
* * *
76931127 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTCGGCTAG-TC
** ** *
76931168 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
*
76931206 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAACTATTACTTCG-GCTAGTC
*
76931245 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
76931262 CCATATTGGT
Statistics
Matches: 76, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
38 19 0.25
39 36 0.47
40 4 0.05
41 15 0.20
42 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
Found at i:76937298 original size:5 final size:5
Alignment explanation
Indices: 76937288--76937326 Score: 55
Period size: 5 Copynumber: 8.0 Consensus size: 5
76937278 AATAATTAAG
76937288 TATAT TATAT TATAT TATAT TAT-T TATA- TATTAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TA-TAT TATAT
76937327 ATAAAAGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
4 6 0.19
5 23 0.74
6 2 0.06
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TATAT
Found at i:76938994 original size:39 final size:39
Alignment explanation
Indices: 76938887--76939021 Score: 123
Period size: 39 Copynumber: 3.4 Consensus size: 39
76938877 GACCTCGAGT
* * *
76938887 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTCGGCTAG-TC
** ** *
76938928 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
*
76938966 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAACTATTACTTCG-GCTAGTC
*
76939005 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
76939022 CCATATTGGT
Statistics
Matches: 76, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
38 19 0.25
39 36 0.47
40 4 0.05
41 15 0.20
42 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
Found at i:76942149 original size:31 final size:31
Alignment explanation
Indices: 76942111--76942200 Score: 171
Period size: 31 Copynumber: 2.9 Consensus size: 31
76942101 GGTGGAAAAC
*
76942111 TTATTGACTTAAATGCTGAATGTTGCTGTTG
1 TTATTGACTTAAATGCTAAATGTTGCTGTTG
76942142 TTATTGACTTAAATGCTAAATGTTGCTGTTG
1 TTATTGACTTAAATGCTAAATGTTGCTGTTG
76942173 TTATTGACTTAAATGCTAAATGTTGCTG
1 TTATTGACTTAAATGCTAAATGTTGCTG
76942201 CTGTCCGAAT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 58 1.00
ACGTcount: A:0.26, C:0.10, G:0.20, T:0.44
Consensus pattern (31 bp):
TTATTGACTTAAATGCTAAATGTTGCTGTTG
Found at i:76947352 original size:20 final size:19
Alignment explanation
Indices: 76947300--76947352 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
76947290 AATTTATAAT
76947300 ATTTTATACTTAAATATTAC
1 ATTTTATA-TTAAATATTAC
*
76947320 ATTTTAT-TCTAAATATTTC
1 ATTTTATAT-TAAATATTAC
*
76947339 GTATTTATATTAAA
1 AT-TTTATATTAAA
76947353 AACCATTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
18 1 0.04
19 10 0.36
20 16 0.57
21 1 0.04
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.53
Consensus pattern (19 bp):
ATTTTATATTAAATATTAC
Found at i:76953437 original size:9 final size:9
Alignment explanation
Indices: 76953423--76953454 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
76953413 GAGTGAAGCA
76953423 AAGAGGGAG
1 AAGAGGGAG
76953432 AAGAGGGAG
1 AAGAGGGAG
76953441 AAGAGGG-G
1 AAGAGGGAG
76953449 AAGAGG
1 AAGAGG
76953455 AAATTTCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 7 0.30
9 16 0.70
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (9 bp):
AAGAGGGAG
Found at i:76954201 original size:3 final size:3
Alignment explanation
Indices: 76954188--76954221 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
76954178 CTAGGTTTTA
76954188 ATT ATTT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT
76954222 GTTCATGGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:76954585 original size:21 final size:21
Alignment explanation
Indices: 76954534--76954586 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
76954524 ATATTTGATA
*
76954534 AAAAAATTATAATAAAATTATT
1 AAAAAA-TATAATAAAATAATT
* *
76954556 AATATATATAATTAAAA-AATT
1 AAAAAATATAA-TAAAATAATT
76954577 AAAAAATATA
1 AAAAAATATA
76954587 GAAATTATTT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 16 0.64
22 9 0.36
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
AAAAAATATAATAAAATAATT
Found at i:76954736 original size:3 final size:3
Alignment explanation
Indices: 76954728--76954761 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
76954718 TTCCATTTCT
76954728 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
76954762 AATCATTCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:76961768 original size:17 final size:18
Alignment explanation
Indices: 76961730--76961771 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
76961720 TTATAAAGAT
*
76961730 ATTTTT-ATTTTATATTA
1 ATTTTTAATTTAATATTA
*
76961747 TTTTTTAATTTAAT-TTA
1 ATTTTTAATTTAATATTA
76961764 ATTTTTAA
1 ATTTTTAA
76961772 ATCAATTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
ATTTTTAATTTAATATTA
Found at i:76966304 original size:20 final size:20
Alignment explanation
Indices: 76966281--76966335 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
76966271 TGTTATAAAA
76966281 ATATATTATATTAATTATAT
1 ATATATTATATTAATTATAT
* *
76966301 ATAT-TAAATAATAATTATAT
1 ATATAT-TATATTAATTATAT
76966321 ATATATTCATATTAA
1 ATATATT-ATATTAA
76966336 ACCACACTCC
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
19 1 0.04
20 20 0.71
21 7 0.25
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATATTATATTAATTATAT
Found at i:76966691 original size:39 final size:40
Alignment explanation
Indices: 76966633--76966722 Score: 128
Period size: 39 Copynumber: 2.2 Consensus size: 40
76966623 AAAAATTATA
* *
76966633 TTTAAGATAATAAAATATTTATCATATTTAT-TTGTGTTT
1 TTTAATATAATAAAATATTTATCATATTTATATAGTGTTT
* *
76966672 TTTAATATAATAAAGTATTTATTATATTTATAGTAGTGTTT
1 TTTAATATAATAAAATATTTATCATATTTATA-TAGTGTTT
76966713 TTTAATATAA
1 TTTAATATAA
76966723 ATATTTTTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
39 28 0.62
41 17 0.38
ACGTcount: A:0.38, C:0.01, G:0.08, T:0.53
Consensus pattern (40 bp):
TTTAATATAATAAAATATTTATCATATTTATATAGTGTTT
Found at i:76968102 original size:19 final size:18
Alignment explanation
Indices: 76968074--76968119 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
76968064 AATCTTTTAT
*
76968074 TAATTATTGATAACTATTA
1 TAATTTTTGATAA-TATTA
*
76968093 TAATTTTTGATAATTTTA
1 TAATTTTTGATAATATTA
76968111 TAATATTTT
1 TAAT-TTTT
76968120 ACAACTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (18 bp):
TAATTTTTGATAATATTA
Found at i:76971069 original size:15 final size:16
Alignment explanation
Indices: 76971051--76971084 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
76971041 TTTTTCTCTT
76971051 AAATTATT-TTTTATA
1 AAATTATTATTTTATA
76971066 AAATTATTAATTTTATA
1 AAATTATT-ATTTTATA
76971083 AA
1 AA
76971085 TAAACCTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
17 9 0.53
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AAATTATTATTTTATA
Found at i:76972042 original size:80 final size:80
Alignment explanation
Indices: 76971953--76972114 Score: 315
Period size: 80 Copynumber: 2.0 Consensus size: 80
76971943 TTTAATAAAG
76971953 AATATAAAAAATATAAATATTCTTAATTATAATTTTAAAAAAACCCAAAATGATAAATTTGATGC
1 AATATAAAAAATATAAATATTCTTAATTATAATTTTAAAAAAACCCAAAATGATAAATTTGATGC
76972018 CTTAAACACAGAGGC
66 CTTAAACACAGAGGC
*
76972033 AATATAAAAAGTATAAATATTCTTAATTATAATTTTAAAAAAACCCAAAATGATAAATTTGATGC
1 AATATAAAAAATATAAATATTCTTAATTATAATTTTAAAAAAACCCAAAATGATAAATTTGATGC
76972098 CTTAAACACAGAGGC
66 CTTAAACACAGAGGC
76972113 AA
1 AA
76972115 AGCCAGAAAA
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 81 1.00
ACGTcount: A:0.51, C:0.11, G:0.08, T:0.30
Consensus pattern (80 bp):
AATATAAAAAATATAAATATTCTTAATTATAATTTTAAAAAAACCCAAAATGATAAATTTGATGC
CTTAAACACAGAGGC
Found at i:76972772 original size:12 final size:12
Alignment explanation
Indices: 76972755--76972795 Score: 82
Period size: 12 Copynumber: 3.4 Consensus size: 12
76972745 ACCTCACACT
76972755 CGTGTGCTAGGC
1 CGTGTGCTAGGC
76972767 CGTGTGCTAGGC
1 CGTGTGCTAGGC
76972779 CGTGTGCTAGGC
1 CGTGTGCTAGGC
76972791 CGTGT
1 CGTGT
76972796 AACAACCTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.07, C:0.24, G:0.41, T:0.27
Consensus pattern (12 bp):
CGTGTGCTAGGC
Found at i:76978035 original size:17 final size:17
Alignment explanation
Indices: 76978015--76978049 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
76978005 GGAATAAATT
*
76978015 ATATTATTAAATATAAA
1 ATATTATAAAATATAAA
*
76978032 ATATTATAAAATTTAAA
1 ATATTATAAAATATAAA
76978049 A
1 A
76978050 CTTATATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATTATAAAATATAAA
Found at i:76979541 original size:29 final size:28
Alignment explanation
Indices: 76979507--76979583 Score: 75
Period size: 28 Copynumber: 2.7 Consensus size: 28
76979497 TATGTAATAC
76979507 TTTTTATAAATTTGAAATTTAGT-CTTTT
1 TTTTTAT-AATTTGAAATTTAGTGCTTTT
** *
76979535 TATTTTATTTTTTTAAATTTAGTGCTTTT
1 T-TTTTATAATTTGAAATTTAGTGCTTTT
* * *
76979564 TTTTTAGATTTTAAAATTTA
1 TTTTTATAATTTGAAATTTA
76979584 AGTGTAACTA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
28 29 0.71
29 12 0.29
ACGTcount: A:0.27, C:0.03, G:0.06, T:0.64
Consensus pattern (28 bp):
TTTTTATAATTTGAAATTTAGTGCTTTT
Done.