Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009574.1 Hibiscus syriacus cultivar Beakdansim tig00116939_pilon, whole genome shotgun sequence
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: 2686660
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 14
Found at i:2269643 original size:12 final size:12
Alignment explanation
Indices: 2269622--2269655 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2269612 ACCACATTTC
*
2269622 CAATACCAAACA
1 CAATATCAAACA
2269634 CAATATCAAACA
1 CAATATCAAACA
*
2269646 CAATCTCAAA
1 CAATATCAAA
2269656 ACCCACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:2270047 original size:29 final size:31
Alignment explanation
Indices: 2269989--2270047 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
2269979 AACCCTGAAG
*
2269989 AAGAAAAAGAAGAAGAATAAGTCACCGGAGAA
1 AAGAAAAAGAAGAAGAAT-AGCCACCGGAGAA
*
2270021 AAGAAAAAGAAGAA-AAT-GCCACGGGAG
1 AAGAAAAAGAAGAAGAATAGCCACCGGAG
2270048 TATAACTGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 8 0.32
31 3 0.12
32 14 0.56
ACGTcount: A:0.58, C:0.10, G:0.27, T:0.05
Consensus pattern (31 bp):
AAGAAAAAGAAGAAGAATAGCCACCGGAGAA
Found at i:2272112 original size:18 final size:18
Alignment explanation
Indices: 2272086--2272124 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
2272076 AAGCAAAAGG
2272086 AAATCAAAATCACAATCA
1 AAATCAAAATCACAATCA
* *
2272104 AAATTAAAATCCCAATCA
1 AAATCAAAATCACAATCA
2272122 AAA
1 AAA
2272125 CCGACTTCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.62, C:0.21, G:0.00, T:0.18
Consensus pattern (18 bp):
AAATCAAAATCACAATCA
Found at i:2272518 original size:20 final size:19
Alignment explanation
Indices: 2272489--2272546 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 19
2272479 GGTGTTTTCC
*
2272489 TTGATTTCGCGTTGCGATT
1 TTGATTTCGCGTTGCGAAT
2272508 TTGACTTTCGCGTTGCGAAT
1 TTGA-TTTCGCGTTGCGAAT
2272528 TTGATTCTCGCGTTGCGAA
1 TTGATT-TCGCGTTGCGAA
2272547 AGTGTACCTT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
19 6 0.17
20 30 0.83
ACGTcount: A:0.14, C:0.19, G:0.26, T:0.41
Consensus pattern (19 bp):
TTGATTTCGCGTTGCGAAT
Found at i:2274064 original size:21 final size:20
Alignment explanation
Indices: 2274016--2274095 Score: 108
Period size: 20 Copynumber: 4.0 Consensus size: 20
2274006 TATGCCATGT
2274016 GAGGGCCTCTTGAACGATGA
1 GAGGGCCTCTTGAACGATGA
* *
2274036 GAGGGCCTCTTGAACGGTGG
1 GAGGGCCTCTTGAACGATGA
2274056 GAGGGGCCTCTTGAACGAT-A
1 GA-GGGCCTCTTGAACGATGA
* *
2274076 GGGGGTCTCTTGAACGATGA
1 GAGGGCCTCTTGAACGATGA
2274096 CAGGTGAATC
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
19 15 0.29
20 22 0.42
21 15 0.29
ACGTcount: A:0.21, C:0.19, G:0.39, T:0.21
Consensus pattern (20 bp):
GAGGGCCTCTTGAACGATGA
Found at i:2275372 original size:20 final size:20
Alignment explanation
Indices: 2275347--2275389 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
2275337 TTTCACAACA
2275347 TTGCGATTTTCATTTTCGCG
1 TTGCGATTTTCATTTTCGCG
*
2275367 TTGCGATTTTCATTTTCGTG
1 TTGCGATTTTCATTTTCGCG
2275387 TTG
1 TTG
2275390 TGAATTTAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.09, C:0.16, G:0.21, T:0.53
Consensus pattern (20 bp):
TTGCGATTTTCATTTTCGCG
Found at i:2275970 original size:20 final size:20
Alignment explanation
Indices: 2275947--2275996 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
2275937 TGACTTCTGT
2275947 GTTGCGATTTACAAATTCAC
1 GTTGCGATTTACAAATTCAC
* *
2275967 GTTGCGATTTACATATTCGC
1 GTTGCGATTTACAAATTCAC
2275987 GTTGCGATTT
1 GTTGCGATTT
2275997 TGGAACCTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (20 bp):
GTTGCGATTTACAAATTCAC
Found at i:2277556 original size:53 final size:53
Alignment explanation
Indices: 2277476--2277580 Score: 156
Period size: 53 Copynumber: 2.0 Consensus size: 53
2277466 ATTGAAGAAG
*
2277476 CGATCCCTTTTCCCTTCCAAATCTCCTCTACACCACATGTCTTCTCTAAGACA
1 CGATCCCTTCTCCCTTCCAAATCTCCTCTACACCACATGTCTTCTCTAAGACA
** * * *
2277529 CGATCCCTTCTCCCTTTTAGATCTCCTCTACACTATATGTCTTCTCTAAGAC
1 CGATCCCTTCTCCCTTCCAAATCTCCTCTACACCACATGTCTTCTCTAAGAC
2277581 GCTACCTTCT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.21, C:0.37, G:0.07, T:0.35
Consensus pattern (53 bp):
CGATCCCTTCTCCCTTCCAAATCTCCTCTACACCACATGTCTTCTCTAAGACA
Found at i:2283779 original size:31 final size:32
Alignment explanation
Indices: 2283725--2283818 Score: 93
Period size: 31 Copynumber: 3.0 Consensus size: 32
2283715 GAACCTCGGC
* *
2283725 AACTGTCCATAGGTCCCAAAGAACCTAGGTA-
1 AACTGTCCATATGTCCCAAAGAACATAGGTAT
* **
2283756 AACTGTCCATATGTTCCTTAGAACATAGGTAT
1 AACTGTCCATATGTCCCAAAGAACATAGGTAT
** *
2283788 ATTTGTCCATATGTCTCGAAAG-ACATAGGTA
1 AACTGTCCATATGTC-CCAAAGAACATAGGTA
2283819 AAACCCTCGA
Statistics
Matches: 50, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
31 26 0.52
32 21 0.42
33 3 0.06
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (32 bp):
AACTGTCCATATGTCCCAAAGAACATAGGTAT
Found at i:2283978 original size:21 final size:22
Alignment explanation
Indices: 2283954--2283999 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
2283944 CATATATCTC
2283954 ATATCATAT-CACATGTATT-AT
1 ATAT-ATATACACATGTATTCAT
*
2283975 ATATATATATACATGTATTCAT
1 ATATATATACACATGTATTCAT
2283997 ATA
1 ATA
2284000 AATCATTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 4 0.18
21 13 0.59
22 5 0.23
ACGTcount: A:0.41, C:0.11, G:0.04, T:0.43
Consensus pattern (22 bp):
ATATATATACACATGTATTCAT
Found at i:2284588 original size:64 final size:65
Alignment explanation
Indices: 2284477--2284627 Score: 191
Period size: 64 Copynumber: 2.3 Consensus size: 65
2284467 TCTTTCAATG
* * * * * *
2284477 AAGGTATGCATCGATGCACTA-CTTGTGCATCGGTGCATAAAATGCATTCGATGTTTTTATTTTA
1 AAGGAATGCATCGATGCATTATCTTATGCATCGATGCATAAAAGGCATTCGATGTTCTTATTTT-
2284541 A
65 A
* *
2284542 AAGG-ATGCATCGATGCATTATC-TATGCATCGATGCATCAAAGGCATTCGATGTTCTTCTTTTA
1 AAGGAATGCATCGATGCATTATCTTATGCATCGATGCATAAAAGGCATTCGATGTTCTTATTTTA
2284605 AAGGAATGCATCGATGCACTTAT
1 AAGGAATGCATCGATGCA-TTAT
2284628 GAATGTGCAT
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
63 5 0.07
64 62 0.82
65 9 0.12
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.34
Consensus pattern (65 bp):
AAGGAATGCATCGATGCATTATCTTATGCATCGATGCATAAAAGGCATTCGATGTTCTTATTTTA
Found at i:2287952 original size:31 final size:31
Alignment explanation
Indices: 2287914--2288008 Score: 111
Period size: 31 Copynumber: 3.1 Consensus size: 31
2287904 GAACCTCGGC
* *
2287914 AACTGTCCATAGGTCCCAAAGAACCTAGGTA
1 AACTGTCCATATGTCCCAAAGAACATAGGTA
* **
2287945 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTCCCAAAGAACATAGGTA
* *
2287976 TACTGTCCATATGTCTCGAAAG-ACATAGGTA
1 AACTGTCCATATGTC-CCAAAGAACATAGGTA
2288007 AA
1 AA
2288009 ACCCTCGACT
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
31 49 0.94
32 3 0.06
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (31 bp):
AACTGTCCATATGTCCCAAAGAACATAGGTA
Found at i:2288174 original size:17 final size:19
Alignment explanation
Indices: 2288142--2288177 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
2288132 CATATATCTC
2288142 ATATCATATCACATGTATT
1 ATATCATATCACATGTATT
2288161 ATAT-ATAT-ACATGTATT
1 ATATCATATCACATGTATT
2288178 CATGTAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 4 0.24
19 4 0.24
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (19 bp):
ATATCATATCACATGTATT
Found at i:2288791 original size:63 final size:65
Alignment explanation
Indices: 2288661--2288810 Score: 191
Period size: 64 Copynumber: 2.3 Consensus size: 65
2288651 TCTTTCAATG
* * * * * *
2288661 AAGGTATGCATCGATGCACTA-CTTGTGCATCGGTGCATAAATGCATTCGATGTTTTTATTTTAA
1 AAGGAATGCATCGATGCATTATCTTATGCATCGATGCATAAAGGCATTCGATGTTCTTATTTTAA
*
2288725 AAGG-ATGCATCGATGCATTATC-TATGCATCGATGCATCAAAGGCATTCGATGTTCTTCTTTT-
1 AAGGAATGCATCGATGCATTATCTTATGCATCGATGCAT-AAAGGCATTCGATGTTCTTATTTTA
2288787 A
65 A
2288788 AAGGAATGCATCGATGCACTTAT
1 AAGGAATGCATCGATGCA-TTAT
2288811 GAATGTGCAT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
63 33 0.43
64 39 0.51
65 4 0.05
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (65 bp):
AAGGAATGCATCGATGCATTATCTTATGCATCGATGCATAAAGGCATTCGATGTTCTTATTTTAA
Found at i:2292885 original size:6 final size:6
Alignment explanation
Indices: 2292874--2292908 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
2292864 CTTTTAACAG
2292874 CCACCT CCACCT CCACCT CCACCT CCACCT CCACC
1 CCACCT CCACCT CCACCT CCACCT CCACCT CCACC
2292909 ACCTCCAGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.69, G:0.00, T:0.14
Consensus pattern (6 bp):
CCACCT
Found at i:2299406 original size:13 final size:13
Alignment explanation
Indices: 2299388--2299414 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2299378 CTCAAACCTT
2299388 TCGTCGTGAATCG
1 TCGTCGTGAATCG
2299401 TCGTCGTGAATCG
1 TCGTCGTGAATCG
2299414 T
1 T
2299415 TAATTTCAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.22, G:0.30, T:0.33
Consensus pattern (13 bp):
TCGTCGTGAATCG
Found at i:2311196 original size:17 final size:18
Alignment explanation
Indices: 2311153--2311193 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
2311143 AAATTATATT
2311153 AGTAAAATA-TTAAATAA
1 AGTAAAATACTTAAATAA
2311170 AGTAAAATACTTAAATAA
1 AGTAAAATACTTAAATAA
*
2311188 ATTAAA
1 AGTAAA
2311194 TACATAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.29
Consensus pattern (18 bp):
AGTAAAATACTTAAATAA
Found at i:2319476 original size:23 final size:23
Alignment explanation
Indices: 2319410--2319535 Score: 162
Period size: 23 Copynumber: 5.4 Consensus size: 23
2319400 AAATTAAAGG
*
2319410 AACGTTAAACGAATATGTTCGCA
1 AACGTTAAAAGAATATGTTCGCA
* *
2319433 AAAGTTAAAAACAAATATGTTCGCA
1 AACGTT-AAAA-GAATATGTTCGCA
*
2319458 AACGTTAAAGGAATATGTTCGCA
1 AACGTTAAAAGAATATGTTCGCA
2319481 AACGTTAAAAGAATATGTTCGCA
1 AACGTTAAAAGAATATGTTCGCA
* * *
2319504 AATGTTAAAAGAACATGTTCACA
1 AACGTTAAAAGAATATGTTCGCA
*
2319527 AACGCTAAA
1 AACGTTAAA
2319536 CACAATATTG
Statistics
Matches: 89, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
23 66 0.74
24 6 0.07
25 17 0.19
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.25
Consensus pattern (23 bp):
AACGTTAAAAGAATATGTTCGCA
Found at i:2322561 original size:23 final size:23
Alignment explanation
Indices: 2322534--2322602 Score: 111
Period size: 23 Copynumber: 3.0 Consensus size: 23
2322524 GAGACTCGAG
*
2322534 CTCGATTAAAGTTTAATTTTAAA
1 CTCGATTAAAGCTTAATTTTAAA
2322557 CTCGATTAAAGCTTAATTTTAAA
1 CTCGATTAAAGCTTAATTTTAAA
* *
2322580 CTCGAATAAAGCTCAATTTTAAA
1 CTCGATTAAAGCTTAATTTTAAA
2322603 TTCAATTCAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CTCGATTAAAGCTTAATTTTAAA
Found at i:2322615 original size:12 final size:12
Alignment explanation
Indices: 2322600--2322659 Score: 52
Period size: 12 Copynumber: 5.2 Consensus size: 12
2322590 GCTCAATTTT
2322600 AAATTCAATTCA
1 AAATTCAATTCA
*
2322612 AAATTCGATTCA
1 AAATTCAATTCA
* *
2322624 AAGTTTAATTC-
1 AAATTCAATTCA
* *
2322635 AAACTCGATTC-
1 AAATTCAATTCA
*
2322646 AAGTTCAATTCA
1 AAATTCAATTCA
2322658 AA
1 AA
2322660 CTAAATACTC
Statistics
Matches: 36, Mismatches: 11, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
11 15 0.42
12 21 0.58
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (12 bp):
AAATTCAATTCA
Found at i:2322655 original size:22 final size:23
Alignment explanation
Indices: 2322603--2322661 Score: 84
Period size: 22 Copynumber: 2.6 Consensus size: 23
2322593 CAATTTTAAA
*
2322603 TTCAATTCAAAATTCGATTCAAAG
1 TTCAATTC-AAACTCGATTCAAAG
*
2322627 TTTAATTCAAACTCGATTC-AAG
1 TTCAATTCAAACTCGATTCAAAG
2322649 TTCAATTCAAACT
1 TTCAATTCAAACT
2322662 AAATACTCAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
22 15 0.47
23 10 0.31
24 7 0.22
ACGTcount: A:0.39, C:0.19, G:0.07, T:0.36
Consensus pattern (23 bp):
TTCAATTCAAACTCGATTCAAAG
Found at i:2325008 original size:14 final size:14
Alignment explanation
Indices: 2324963--2325071 Score: 67
Period size: 14 Copynumber: 7.8 Consensus size: 14
2324953 GAGTTAAGGA
* *
2324963 TTTAGGGCTTATGG
1 TTTAGGGTTTATAG
* *
2324977 CTTAGGATTTATAG
1 TTTAGGGTTTATAG
*
2324991 TTTAGGGTTTATAA
1 TTTAGGGTTTATAG
* * *
2325005 TTTAAGGCTTATGG
1 TTTAGGGTTTATAG
*
2325019 TTTAGGGTTT-GAG
1 TTTAGGGTTTATAG
* * *
2325032 ATTTAAGGCTTATGG
1 -TTTAGGGTTTATAG
* * *
2325047 TTTATGCTTTATGG
1 TTTAGGGTTTATAG
2325061 TTTAGGGTTTA
1 TTTAGGGTTTA
2325072 GGGTGTAATA
Statistics
Matches: 69, Mismatches: 24, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
13 1 0.01
14 67 0.97
15 1 0.01
ACGTcount: A:0.21, C:0.05, G:0.28, T:0.47
Consensus pattern (14 bp):
TTTAGGGTTTATAG
Found at i:2325016 original size:28 final size:28
Alignment explanation
Indices: 2324985--2325050 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
2324975 GGCTTAGGAT
*
2324985 TTATAGTTTAGGGTTT-ATAATTTAAGGC
1 TTATGGTTTAGGGTTTGA-AATTTAAGGC
*
2325013 TTATGGTTTAGGGTTTGAGATTTAAGGC
1 TTATGGTTTAGGGTTTGAAATTTAAGGC
2325041 TTATGGTTTA
1 TTATGGTTTA
2325051 TGCTTTATGG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 34 0.97
29 1 0.03
ACGTcount: A:0.24, C:0.03, G:0.26, T:0.47
Consensus pattern (28 bp):
TTATGGTTTAGGGTTTGAAATTTAAGGC
Found at i:2325183 original size:14 final size:13
Alignment explanation
Indices: 2325145--2325179 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
2325135 AATCAGATTA
2325145 AGGGTTTAGTGTTT
1 AGGGTTTAG-GTTT
*
2325159 AAGGTTTAGGTTT
1 AGGGTTTAGGTTT
2325172 AGGGTTTA
1 AGGGTTTA
2325180 AGGTGTAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.20, C:0.00, G:0.34, T:0.46
Consensus pattern (13 bp):
AGGGTTTAGGTTT
Found at i:2326691 original size:16 final size:15
Alignment explanation
Indices: 2326670--2326728 Score: 55
Period size: 16 Copynumber: 3.8 Consensus size: 15
2326660 TATGTGTTGG
2326670 TAATTATAATTTTTAA
1 TAATTAT-ATTTTTAA
****
2326686 TAATTATAAAAATAA
1 TAATTATATTTTTAA
*
2326701 TAATTATATTTTTCAT
1 TAATTATATTTTT-AA
2326717 TAATTATATTTT
1 TAATTATATTTT
2326729 AATGTTTATT
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
15 13 0.39
16 20 0.61
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (15 bp):
TAATTATATTTTTAA
Found at i:2328685 original size:25 final size:25
Alignment explanation
Indices: 2328657--2328745 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 25
2328647 TTTATACTAA
2328657 ATATATATAATATTTTATATATTTT
1 ATATATATAATATTTTATATATTTT
* *
2328682 ATATTAATTATATATATAATATTTTATA-TTA
1 ATA-T-A-TATA-ATAT--T-TTATATATTTT
2328713 ATTATATATAATATTTTATAT-TTTT
1 A-TATATATAATATTTTATATATTTT
2328738 ATATATAT
1 ATATATAT
2328746 TTTTAATGAA
Statistics
Matches: 51, Mismatches: 4, Indels: 19
0.69 0.05 0.26
Matches are distributed among these distances:
24 7 0.14
25 11 0.22
26 2 0.04
27 1 0.02
28 8 0.16
29 8 0.16
30 1 0.02
31 5 0.10
32 8 0.16
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (25 bp):
ATATATATAATATTTTATATATTTT
Found at i:2328695 original size:34 final size:33
Alignment explanation
Indices: 2328622--2328743 Score: 128
Period size: 32 Copynumber: 3.7 Consensus size: 33
2328612 CGCCCCGATT
* *
2328622 ATATATATATAAATATTTTTTATTTTTTATACTA
1 ATATATATAT-AATATTTTATATATTTTATACTA
*
2328656 A-ATATATATAATATTTTATATATTTTATATTA
1 ATATATATATAATATTTTATATATTTTATACTA
*
2328688 ATTATATATATAATATTTTATATTAATTATATA-TA
1 A-TATATATATAATATTTTATA-T-ATTTTATACTA
*
2328723 ATAT-TTTAT-AT-TTTTATATAT
1 ATATATATATAATATTTTATATAT
2328744 ATTTTTAATG
Statistics
Matches: 79, Mismatches: 5, Indels: 13
0.81 0.05 0.13
Matches are distributed among these distances:
29 2 0.03
30 1 0.01
31 7 0.09
32 23 0.29
33 12 0.15
34 23 0.29
35 4 0.05
36 7 0.09
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (33 bp):
ATATATATATAATATTTTATATATTTTATACTA
Found at i:2328734 original size:23 final size:23
Alignment explanation
Indices: 2328675--2328744 Score: 106
Period size: 23 Copynumber: 3.0 Consensus size: 23
2328665 AATATTTTAT
2328675 ATATTTTATATTAATTATATATATA
1 ATATTTTATATTAA-T-TATATATA
2328700 ATATTTTATATTAATTATATATA
1 ATATTTTATATTAATTATATATA
*
2328723 ATATTTTATATT-TTTATATATA
1 ATATTTTATATTAATTATATATA
2328745 TTTTTAATGA
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
22 9 0.20
23 20 0.45
24 1 0.02
25 14 0.32
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
ATATTTTATATTAATTATATATA
Found at i:2331365 original size:22 final size:22
Alignment explanation
Indices: 2331330--2331402 Score: 74
Period size: 22 Copynumber: 3.3 Consensus size: 22
2331320 CTGAGTGCCA
* *
2331330 TATGAGATTTGTCCCAAATAACC
1 TATGA-ATATGTCCCAAATGACC
* * *
2331353 TATGAATATGTCCCAACTGGCT
1 TATGAATATGTCCCAAATGACC
* *
2331375 TATGAGTATGTCCCAAAGGACC
1 TATGAATATGTCCCAAATGACC
2331397 TATGAA
1 TATGAA
2331403 ACCCTCGACT
Statistics
Matches: 39, Mismatches: 11, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
22 34 0.87
23 5 0.13
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.29
Consensus pattern (22 bp):
TATGAATATGTCCCAAATGACC
Found at i:2332355 original size:15 final size:15
Alignment explanation
Indices: 2332335--2332364 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2332325 ACTTTACAAC
2332335 ATGTTCTAATTCCAA
1 ATGTTCTAATTCCAA
2332350 ATGTTCTAATTCCAA
1 ATGTTCTAATTCCAA
2332365 TTCTAACACT
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:0.33, C:0.20, G:0.07, T:0.40
Consensus pattern (15 bp):
ATGTTCTAATTCCAA
Found at i:2338220 original size:22 final size:22
Alignment explanation
Indices: 2338183--2338255 Score: 92
Period size: 22 Copynumber: 3.3 Consensus size: 22
2338173 CTGAGTGGTA
*
2338183 TATGAGATTTGTCCTGAAGGACC
1 TATGA-ATATGTCCTGAAGGACC
*
2338206 TATGAATATGTCCTGAATGACC
1 TATGAATATGTCCTGAAGGACC
* **
2338228 TATGAGTATGTCAAGAAGGACC
1 TATGAATATGTCCTGAAGGACC
2338250 TATGAA
1 TATGAA
2338256 ACCCTCGACT
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
22 38 0.88
23 5 0.12
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (22 bp):
TATGAATATGTCCTGAAGGACC
Found at i:2346534 original size:22 final size:21
Alignment explanation
Indices: 2346506--2346548 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
2346496 GCATTCTTAT
2346506 TTTTTATATTTTTCATAATTTA
1 TTTTTATATTTTTCAT-ATTTA
*
2346528 TTTTTATATTTTTTATATTTA
1 TTTTTATATTTTTCATATTTA
2346549 ATGTTTTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTTTATATTTTTCATATTTA
Found at i:2346577 original size:16 final size:15
Alignment explanation
Indices: 2346524--2346586 Score: 56
Period size: 15 Copynumber: 4.1 Consensus size: 15
2346514 TTTTTCATAA
* *
2346524 TTTATTTTTATATTT
1 TTTATATTTAAATTT
2346539 TTTATATTT-AATGTT
1 TTTATATTTAAAT-TT
*
2346554 TTGAATATTTAAATATT
1 TT-TATATTTAAAT-TT
*
2346571 TTTATATTTTAATTT
1 TTTATATTTAAATTT
2346586 T
1 T
2346587 AATTTTCAGC
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
14 2 0.05
15 15 0.38
16 15 0.38
17 7 0.18
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (15 bp):
TTTATATTTAAATTT
Found at i:2346685 original size:43 final size:43
Alignment explanation
Indices: 2346624--2346709 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
2346614 TTGATTTCGT
2346624 TGGTCAAAGATTCAAAATAGCTTTTTTCTCAATTGAGGATCAC
1 TGGTCAAAGATTCAAAATAGCTTTTTTCTCAATTGAGGATCAC
2346667 TGGTCAAAGATTCAAAATAGCTTTTTTCTCAATTGAGGATCAC
1 TGGTCAAAGATTCAAAATAGCTTTTTTCTCAATTGAGGATCAC
2346710 ATTGAATCTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (43 bp):
TGGTCAAAGATTCAAAATAGCTTTTTTCTCAATTGAGGATCAC
Found at i:2350281 original size:82 final size:82
Alignment explanation
Indices: 2350144--2350319 Score: 334
Period size: 82 Copynumber: 2.1 Consensus size: 82
2350134 ACACAATCCT
*
2350144 TGAGTATCGATATCATCTTAAAGTATCAATACTATTTTAAACTTCAAAATGAATTTAATTAAAAT
1 TGAGTATCGATATCATCTTAAAGTATCAATACTATTCTAAACTTCAAAATGAATTTAATTAAAAT
2350209 GATATCGATACCCCATG
66 GATATCGATACCCCATG
*
2350226 TGAGTATCGATATCATCTTAAAGTATCAATACTATTCTAAGCTTCAAAATGAATTTAATTAAAAT
1 TGAGTATCGATATCATCTTAAAGTATCAATACTATTCTAAACTTCAAAATGAATTTAATTAAAAT
2350291 GATATCGATACCCCATG
66 GATATCGATACCCCATG
2350308 TGAGTATCGATA
1 TGAGTATCGATA
2350320 CCAGCCCCTT
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 92 1.00
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (82 bp):
TGAGTATCGATATCATCTTAAAGTATCAATACTATTCTAAACTTCAAAATGAATTTAATTAAAAT
GATATCGATACCCCATG
Found at i:2355219 original size:44 final size:44
Alignment explanation
Indices: 2355156--2355245 Score: 153
Period size: 44 Copynumber: 2.0 Consensus size: 44
2355146 TCAGATTCAC
2355156 TAGAACAGCCAATCAACATGCTTATATAAAGGTCTCGTCGTATT
1 TAGAACAGCCAATCAACATGCTTATATAAAGGTCTCGTCGTATT
* * *
2355200 TAGAATAGCCAATCAACATGCTTATATAACGGTCTTGTCGTATT
1 TAGAACAGCCAATCAACATGCTTATATAAAGGTCTCGTCGTATT
2355244 TA
1 TA
2355246 CGTTAATGTT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (44 bp):
TAGAACAGCCAATCAACATGCTTATATAAAGGTCTCGTCGTATT
Found at i:2357887 original size:35 final size:35
Alignment explanation
Indices: 2357846--2357958 Score: 108
Period size: 35 Copynumber: 3.2 Consensus size: 35
2357836 AAGTGACATG
2357846 TCATTTTAAACTCCTTCAAAACTGCCCTATTGTCA
1 TCATTTTAAACTCCTTCAAAACTGCCCTATTGTCA
* * * * *
2357881 TCATTTTCAAA-TCC-TGAAACCATAG--CAAGTGACA
1 TCATTTT-AAACTCCTTCAAAAC-T-GCCCTATTGTCA
2357915 TGTCATTTTAAACTCCTTCAAAACTGCCCTATTGTCA
1 --TCATTTTAAACTCCTTCAAAACTGCCCTATTGTCA
2357952 TCATTTT
1 TCATTTT
2357959 CAAATCATAG
Statistics
Matches: 59, Mismatches: 10, Indels: 18
0.68 0.11 0.21
Matches are distributed among these distances:
34 11 0.19
35 22 0.37
36 15 0.25
37 11 0.19
ACGTcount: A:0.30, C:0.26, G:0.08, T:0.36
Consensus pattern (35 bp):
TCATTTTAAACTCCTTCAAAACTGCCCTATTGTCA
Found at i:2357938 original size:71 final size:71
Alignment explanation
Indices: 2357822--2357964 Score: 286
Period size: 71 Copynumber: 2.0 Consensus size: 71
2357812 CAAGTCATGA
2357822 CCTGAAACCATAGCAAGTGACATGTCATTTTAAACTCCTTCAAAACTGCCCTATTGTCATCATTT
1 CCTGAAACCATAGCAAGTGACATGTCATTTTAAACTCCTTCAAAACTGCCCTATTGTCATCATTT
2357887 TCAAAT
66 TCAAAT
2357893 CCTGAAACCATAGCAAGTGACATGTCATTTTAAACTCCTTCAAAACTGCCCTATTGTCATCATTT
1 CCTGAAACCATAGCAAGTGACATGTCATTTTAAACTCCTTCAAAACTGCCCTATTGTCATCATTT
2357958 TCAAAT
66 TCAAAT
2357964 C
1 C
2357965 ATAGCTTCAC
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.32, C:0.26, G:0.10, T:0.32
Consensus pattern (71 bp):
CCTGAAACCATAGCAAGTGACATGTCATTTTAAACTCCTTCAAAACTGCCCTATTGTCATCATTT
TCAAAT
Found at i:2359445 original size:2 final size:2
Alignment explanation
Indices: 2359433--2359470 Score: 67
Period size: 2 Copynumber: 18.5 Consensus size: 2
2359423 ATGTTTCAAG
2359433 TA TA GTA TA TA TA 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 TA TA TA TA TA TA T
2359471 TATCAATAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 33 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2365765 original size:51 final size:51
Alignment explanation
Indices: 2365654--2365770 Score: 130
Period size: 51 Copynumber: 2.3 Consensus size: 51
2365644 AACATGCTCT
* * ** *
2365654 CTGTCCCGCGTTATATGCTGATTTGGCGTCACGTGGGGTATAGCGCGTCCC
1 CTGTACCGCGCTATATGCTGACATGGCGTCACGTGGGGTATAGCGCGCCCC
* * *
2365705 TTGTACCGCGCTATATGCTGACATGGCTTACACGT-GGGTATAGCGTGCCCC
1 CTGTACCGCGCTATATGCTGACATGGCGT-CACGTGGGGTATAGCGCGCCCC
2365756 CTG-ATCCGCGCTATA
1 CTGTA-CCGCGCTATA
2365771 CGCCACGTAA
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
50 1 0.02
51 49 0.89
52 5 0.09
ACGTcount: A:0.15, C:0.28, G:0.28, T:0.28
Consensus pattern (51 bp):
CTGTACCGCGCTATATGCTGACATGGCGTCACGTGGGGTATAGCGCGCCCC
Found at i:2369481 original size:35 final size:34
Alignment explanation
Indices: 2369396--2369482 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
2369386 AATATAATTT
*
2369396 TAAATACAACAAACTTACAATAAGAATTAAATGG
1 TAAATACAACAAAATTACAATAAGAATTAAATGG
* *
2369430 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--GA-ATTAAATGG
2369468 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
2369483 ACTGAAATAC
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 5 0.11
38 10 0.22
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.26
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGAATTAAATGG
Found at i:2370072 original size:18 final size:18
Alignment explanation
Indices: 2370049--2370083 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2370039 AAGGCGGCAG
*
2370049 CATCATATATGGCTGCGA
1 CATCATAAATGGCTGCGA
*
2370067 CATCATAAATGGTTGCG
1 CATCATAAATGGCTGCG
2370084 GTGGCTGCTG
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:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (18 bp):
CATCATAAATGGCTGCGA
Found at i:2371782 original size:17 final size:18
Alignment explanation
Indices: 2371760--2371800 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
2371750 AAATTTTATT
2371760 AGTAAAAT-ATTAAATAA
1 AGTAAAATGATTAAATAA
*
2371777 AGTAAAATGCTTAAATAA
1 AGTAAAATGATTAAATAA
*
2371795 ATTAAA
1 AGTAAA
2371801 TACATAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.29
Consensus pattern (18 bp):
AGTAAAATGATTAAATAA
Found at i:2375659 original size:11 final size:11
Alignment explanation
Indices: 2375643--2375692 Score: 66
Period size: 11 Copynumber: 4.5 Consensus size: 11
2375633 CTATGTAGTG
2375643 TATATATGAAA-
1 TATATAT-AAAC
2375654 TATATATAAAC
1 TATATATAAAC
*
2375665 TATATTATATAC
1 TATA-TATAAAC
2375677 TATATATAAAC
1 TATATATAAAC
2375688 TATAT
1 TATAT
2375693 GGTTTATTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
10 3 0.09
11 22 0.63
12 10 0.29
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (11 bp):
TATATATAAAC
Found at i:2375720 original size:22 final size:22
Alignment explanation
Indices: 2375657--2375721 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
2375647 TATGAAATAT
* *
2375657 ATATAAACTATATTA-TATACTA
1 ATATAAACTATA-TACTTTATTA
**
2375679 TATATAAACTATATGGTTTATTA
1 -ATATAAACTATATACTTTATTA
*
2375702 ATATGAACTATATACTTTAT
1 ATATAAACTATATACTTTAT
2375722 AGTTTATTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
22 18 0.51
23 17 0.49
ACGTcount: A:0.43, C:0.08, G:0.05, T:0.45
Consensus pattern (22 bp):
ATATAAACTATATACTTTATTA
Found at i:2375758 original size:21 final size:21
Alignment explanation
Indices: 2375733--2375785 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
2375723 GTTTATTAAT
2375733 ATAAACTATATTGATATAGTA
1 ATAAACTATATTGATATAGTA
2375754 ATAAACTATATTGATATAGTA
1 ATAAACTATATTGATATAGTA
2375775 ATAAACTATAT
1 ATAAACTATAT
2375786 AGTTTTTATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.38
Consensus pattern (21 bp):
ATAAACTATATTGATATAGTA
Found at i:2375806 original size:13 final size:13
Alignment explanation
Indices: 2375790--2375841 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
2375780 CTATATAGTT
2375790 TTTATATATATAA
1 TTTATATATATAA
*
2375803 TTTATATTTATAAA
1 TTTATATATAT-AA
* *
2375817 TTATAAACTATATAG
1 TT-TATA-TATATAA
2375832 TTTATATATA
1 TTTATATATA
2375842 AACTATAAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
13 14 0.45
14 7 0.23
15 6 0.19
16 4 0.13
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (13 bp):
TTTATATATATAA
Found at i:2375814 original size:15 final size:15
Alignment explanation
Indices: 2375781--2375841 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
2375771 AGTAATAAAC
* *
2375781 TATATAGTTTTTATA
1 TATATAATTTATATA
2375796 TATATAATTTATAT-
1 TATATAATTTATATA
* *
2375810 T-TATAAATTATAAA
1 TATATAATTTATATA
*
2375824 CTATATAGTTTATATA
1 -TATATAATTTATATA
2375840 TA
1 TA
2375842 AACTATAAAG
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
13 10 0.28
14 1 0.03
15 15 0.42
16 10 0.28
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (15 bp):
TATATAATTTATATA
Found at i:2375828 original size:27 final size:27
Alignment explanation
Indices: 2375796--2375850 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
2375786 AGTTTTTATA
* *
2375796 TATATAATTTATATTTATAAATTATAAAC
1 TATATAGTTTATA--TATAAACTATAAAC
2375825 TATATAGTTTATATATAAACTATAAA
1 TATATAGTTTATATATAAACTATAAA
2375851 GGAAGTGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 12 0.50
29 12 0.50
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (27 bp):
TATATAGTTTATATATAAACTATAAAC
Found at i:2376170 original size:18 final size:19
Alignment explanation
Indices: 2376149--2376194 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
2376139 TACAATTCAT
*
2376149 TAGTATATAT-AAATTATA
1 TAGTATATATAAAACTATA
2376167 TAGTATATATAAAACTATA
1 TAGTATATATAAAACTATA
*
2376186 TATTATATA
1 TAGTATATA
2376195 GTTCATTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.43
Consensus pattern (19 bp):
TAGTATATATAAAACTATA
Found at i:2376211 original size:26 final size:26
Alignment explanation
Indices: 2376144--2376238 Score: 81
Period size: 26 Copynumber: 3.7 Consensus size: 26
2376134 AATTGTACAA
*
2376144 TTCATTAGTATATATAAATTATATAG
1 TTCATTATTATATATAAATTATATAG
* * *
2376170 -T-ATATATAAAACTATATATTATATAG
1 TTCAT-TATTATA-TATAAATTATATAG
*
2376196 TTCATTATTATATATAAACTATATA-
1 TTCATTATTATATATAAATTATATAG
*
2376221 TTAATTTATTA-ATATAAA
1 TTCA-TTATTATATATAAA
2376239 CATATATATT
Statistics
Matches: 55, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
24 2 0.04
25 15 0.27
26 30 0.55
27 6 0.11
28 2 0.04
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.46
Consensus pattern (26 bp):
TTCATTATTATATATAAATTATATAG
Found at i:2376244 original size:26 final size:26
Alignment explanation
Indices: 2376200--2376252 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
2376190 ATATAGTTCA
2376200 TTATTATATATAAACTATATATTAAT
1 TTATTATATATAAACTATATATTAAT
2376226 TTATTA-ATATAAACATATATATTAAT
1 TTATTATATATAAAC-TATATATTAAT
2376252 T
1 T
2376253 AAAAGAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 8 0.31
26 18 0.69
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (26 bp):
TTATTATATATAAACTATATATTAAT
Found at i:2376932 original size:15 final size:15
Alignment explanation
Indices: 2376908--2376938 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2376898 GCCCAAACCC
*
2376908 TAAGCCTATTCACTT
1 TAAGCATATTCACTT
2376923 TAAGCATATTCACTT
1 TAAGCATATTCACTT
2376938 T
1 T
2376939 CTGTCTCTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.23, G:0.06, T:0.42
Consensus pattern (15 bp):
TAAGCATATTCACTT
Found at i:2377164 original size:55 final size:55
Alignment explanation
Indices: 2377060--2377182 Score: 140
Period size: 55 Copynumber: 2.2 Consensus size: 55
2377050 TATATTCATT
* * * *
2377060 TTCTCTAACCCTAACCCTTACTGTTCATCATCATATTATTCTTATTCTGTACATC
1 TTCTCTAACCCTAACCCATAATGTTCATCATCATATTACTCTTACTCTGTACATC
* * * * *
2377115 TTCTCTAACCCTAACCGATAATGTTCATCATCTTCTTCCTCTGT-CTCTGTTCATC
1 TTCTCTAACCCTAACCCATAATGTTCATCATCATATTACTCT-TACTCTGTACATC
*
2377170 TTCTGTAACCCTA
1 TTCTCTAACCCTA
2377183 GATCTAACCG
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
55 56 0.98
56 1 0.02
ACGTcount: A:0.21, C:0.31, G:0.06, T:0.42
Consensus pattern (55 bp):
TTCTCTAACCCTAACCCATAATGTTCATCATCATATTACTCTTACTCTGTACATC
Found at i:2378930 original size:45 final size:46
Alignment explanation
Indices: 2378881--2379002 Score: 149
Period size: 45 Copynumber: 2.7 Consensus size: 46
2378871 TTGATTTATG
* *
2378881 TGATTACATGAAAATGAGATATAAACTATGTGGA-ATTGACCTATA
1 TGATTACATGAAAATGTGATATAAACTATGTGGACAATGACCTATA
* * * *
2378926 TGATTACATGAAAATGTGATATAAGCTATAT-GACAATGATCTATG
1 TGATTACATGAAAATGTGATATAAACTATGTGGACAATGACCTATA
* * *
2378971 TGATTATATGTATATGTGATATAAACTATGTG
1 TGATTACATGAAAATGTGATATAAACTATGTG
2379003 ATATATTATA
Statistics
Matches: 64, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
44 2 0.03
45 62 0.97
ACGTcount: A:0.39, C:0.07, G:0.18, T:0.35
Consensus pattern (46 bp):
TGATTACATGAAAATGTGATATAAACTATGTGGACAATGACCTATA
Found at i:2379110 original size:23 final size:23
Alignment explanation
Indices: 2379080--2379181 Score: 118
Period size: 23 Copynumber: 4.4 Consensus size: 23
2379070 GAGTCGAGGG
2379080 TTCTACGTGGTTC-TTCGGGACAA
1 TTCTACGTGG-TCATTCGGGACAA
*
2379103 TTCTACGTGGTCATTCGGGACAT
1 TTCTACGTGGTCATTCGGGACAA
2379126 TTCTACGTGGTCATTCGGGAC-A
1 TTCTACGTGGTCATTCGGGACAA
** * * *
2379148 TATCTATATGGTTATTTGGGACAT
1 T-TCTACGTGGTCATTCGGGACAA
2379172 TTCTACGTGG
1 TTCTACGTGG
2379182 CACTTCAGTG
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
22 3 0.04
23 63 0.94
24 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.37
Consensus pattern (23 bp):
TTCTACGTGGTCATTCGGGACAA
Found at i:2379147 original size:46 final size:46
Alignment explanation
Indices: 2379080--2379181 Score: 136
Period size: 46 Copynumber: 2.2 Consensus size: 46
2379070 GAGTCGAGGG
*
2379080 TTCTACGTGGTTCTTCGGGACA-ATTCTACGTGGTCATTCGGGACAT
1 TTCTACGTGGTTCTTCGGGACATA-TCTACATGGTCATTCGGGACAT
* * *
2379126 TTCTACGTGG-TCATTCGGGACATATCTATATGGTTATTTGGGACAT
1 TTCTACGTGGTTC-TTCGGGACATATCTACATGGTCATTCGGGACAT
2379172 TTCTACGTGG
1 TTCTACGTGG
2379182 CACTTCAGTG
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
45 2 0.04
46 47 0.94
47 1 0.02
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.37
Consensus pattern (46 bp):
TTCTACGTGGTTCTTCGGGACATATCTACATGGTCATTCGGGACAT
Found at i:2381794 original size:20 final size:20
Alignment explanation
Indices: 2381769--2381806 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2381759 TATGTTAATA
2381769 TCATTAA-TATTTCAAATTGT
1 TCATTAATTATTT-AAATTGT
2381789 TCATTAATTATTTAAATT
1 TCATTAATTATTTAAATT
2381807 TCATTTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.37, C:0.08, G:0.03, T:0.53
Consensus pattern (20 bp):
TCATTAATTATTTAAATTGT
Found at i:2382843 original size:21 final size:20
Alignment explanation
Indices: 2382794--2382854 Score: 65
Period size: 21 Copynumber: 3.1 Consensus size: 20
2382784 TAACATAAGA
2382794 ATCATAATTAATA--TAATT
1 ATCATAATTAATATTTAATT
*
2382812 AGTC-TATTTAATAATTTAATT
1 A-TCATAATTAAT-ATTTAATT
*
2382833 ATCATAATTAATATTTTATT
1 ATCATAATTAATATTTAATT
2382853 AT
1 AT
2382855 AACATTTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
18 8 0.23
19 3 0.09
20 11 0.31
21 13 0.37
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.51
Consensus pattern (20 bp):
ATCATAATTAATATTTAATT
Found at i:2382863 original size:20 final size:21
Alignment explanation
Indices: 2382817--2382868 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 21
2382807 TAATTAGTCT
* *
2382817 ATTTAATAATTTAATTATCAT
1 ATTTAATAATTTAATTATAAC
* *
2382838 AATTAAT-ATTTTATTATAAC
1 ATTTAATAATTTAATTATAAC
*
2382858 ATTTAAAAATT
1 ATTTAATAATT
2382869 AATCATATTA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTTAATAATTTAATTATAAC
Found at i:2385376 original size:20 final size:20
Alignment explanation
Indices: 2385347--2385443 Score: 92
Period size: 20 Copynumber: 4.8 Consensus size: 20
2385337 AAATGACCAA
*
2385347 CAAATTCGCAACGCGAATTC
1 CAAATTCGCAACGCGAAGTC
* * *
2385367 CAATTTCGCAAC-CCAGTGTC
1 CAAATTCGCAACGCGA-AGTC
2385387 CAAATTCGCAACGCGATAGT-
1 CAAATTCGCAACGCGA-AGTC
*
2385407 CAAATTCTCAACGCGATAGT-
1 CAAATTCGCAACGCGA-AGTC
*
2385427 CAAATTTGCAACGCGAA
1 CAAATTCGCAACGCGAA
2385444 AGTCAAATGT
Statistics
Matches: 64, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
19 3 0.05
20 57 0.89
21 4 0.06
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (20 bp):
CAAATTCGCAACGCGAAGTC
Found at i:2385447 original size:20 final size:20
Alignment explanation
Indices: 2385387--2385451 Score: 96
Period size: 20 Copynumber: 3.2 Consensus size: 20
2385377 ACCCAGTGTC
*
2385387 CAAATTCGCAACGCGATAGT
1 CAAATTTGCAACGCGATAGT
2385407 CAAATTCT-CAACGCGATAGT
1 CAAATT-TGCAACGCGATAGT
*
2385427 CAAATTTGCAACGCGAAAGT
1 CAAATTTGCAACGCGATAGT
2385447 CAAAT
1 CAAAT
2385452 GTTTTTATGC
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
19 1 0.02
20 40 0.98
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.22
Consensus pattern (20 bp):
CAAATTTGCAACGCGATAGT
Found at i:2385604 original size:22 final size:22
Alignment explanation
Indices: 2385579--2385626 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
2385569 CTACGGCGAC
2385579 ATCCGTCCCCATCTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
*
2385601 ATCCGTCCCCATTTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
2385623 ATCC
1 ATCC
2385627 ATCTATCTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.23, C:0.44, G:0.12, T:0.21
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACGAA
Found at i:2388114 original size:21 final size:21
Alignment explanation
Indices: 2388088--2388143 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
2388078 TAAGTCTGAT
2388088 GCACCTATCATCATTCAAGAG
1 GCACCTATCATCATTCAAGAG
*
2388109 GCACCT-CCTATCATTCAAGAG
1 GCACCTATC-ATCATTCAAGAG
*
2388130 GCCCCTATCATCAT
1 GCACCTATCATCAT
2388144 CGAAGAAGCC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 1 0.03
21 28 0.93
22 1 0.03
ACGTcount: A:0.29, C:0.34, G:0.12, T:0.25
Consensus pattern (21 bp):
GCACCTATCATCATTCAAGAG
Found at i:2388149 original size:21 final size:22
Alignment explanation
Indices: 2388091--2388149 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 22
2388081 GTCTGATGCA
2388091 CCTATCATCATTCAAGAGGCACCT
1 CCTATCATCA-TCAAGAGG-ACCT
2388115 CCTATCAT--TCAAGAGG-CC-
1 CCTATCATCATCAAGAGGACCT
2388133 CCTATCATCATCGAAGA
1 CCTATCATCATC-AAGA
2388150 AGCCTCTCCC
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
18 8 0.25
19 2 0.06
20 2 0.06
21 12 0.38
24 8 0.25
ACGTcount: A:0.31, C:0.32, G:0.14, T:0.24
Consensus pattern (22 bp):
CCTATCATCATCAAGAGGACCT
Found at i:2389635 original size:61 final size:64
Alignment explanation
Indices: 2389562--2389702 Score: 164
Period size: 66 Copynumber: 2.2 Consensus size: 64
2389552 TTTTACATTG
2389562 AAAGTTGATTTGTTACAATTGATGAGGAAATAAG-A-T-TTATTTT-TTGATTAATTGATTTGTA
1 AAAGTTGATTTGTTA-AATTGATGAGGAAATAAGAATTATTATTTTCTTGATTAATTGATTTGTA
* * ** * * *
2389623 AAAGCTGATTTGTTTAATTTGATTTGTAAATAAGAATTATTTTTTTGCTTGTTTAATTGATTTGT
1 AAAGTTGATTTG-TTAAATTGATGAGGAAATAAGAATTATTATTTT-CTTGATTAATTGATTTGT
2389688 A
64 A
2389689 AAAGTTGATTTGTT
1 AAAGTTGATTTGTT
2389703 GTTTCTAAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
61 25 0.38
62 4 0.06
63 1 0.02
64 6 0.09
65 2 0.03
66 28 0.42
ACGTcount: A:0.31, C:0.02, G:0.17, T:0.50
Consensus pattern (64 bp):
AAAGTTGATTTGTTAAATTGATGAGGAAATAAGAATTATTATTTTCTTGATTAATTGATTTGTA
Found at i:2390071 original size:39 final size:39
Alignment explanation
Indices: 2390016--2390102 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
2390006 TCAAGTTGTA
*
2390016 GATTTTGATTTTCTTTTGCTTGGCACCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
2390055 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
2390094 GATTTTGAT
1 GATTTTGAT
2390103 AGGCATCGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:2390391 original size:18 final size:18
Alignment explanation
Indices: 2390368--2390404 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2390358 CGAAATTTAT
2390368 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
2390386 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
2390404 A
1 A
2390405 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:2390825 original size:25 final size:25
Alignment explanation
Indices: 2390791--2390840 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
2390781 ATTATTTTTC
*
2390791 CAAATAATGTACCCATAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
2390816 CAAATAATGTACCCACAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
2390841 TAATTGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.26
Consensus pattern (25 bp):
CAAATAATGTACCCACAACAATGTT
Found at i:2390954 original size:20 final size:20
Alignment explanation
Indices: 2390931--2390992 Score: 88
Period size: 20 Copynumber: 3.1 Consensus size: 20
2390921 AATAAACGTT
*
2390931 GCGATAGTCAAATTCGCAAC
1 GCGATAGTTAAATTCGCAAC
* *
2390951 GCGAAAGTTAAATTCGCTAC
1 GCGATAGTTAAATTCGCAAC
*
2390971 GCGATAGTTTAATTCGCAAC
1 GCGATAGTTAAATTCGCAAC
2390991 GC
1 GC
2390993 TTATTTTGCG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (20 bp):
GCGATAGTTAAATTCGCAAC
Found at i:2393739 original size:12 final size:12
Alignment explanation
Indices: 2393718--2393751 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2393708 GTTGTGGGTT
*
2393718 TTTGAGATTGTG
1 TTTGATATTGTG
2393730 TTTGATATTGTG
1 TTTGATATTGTG
*
2393742 TTTGGTATTG
1 TTTGATATTG
2393752 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:2394517 original size:20 final size:20
Alignment explanation
Indices: 2394481--2394651 Score: 102
Period size: 20 Copynumber: 8.6 Consensus size: 20
2394471 ACTAAAACCT
*
2394481 GTTGCGAAATT-AAATTCGC
1 GTTGCGAATTTGAAATTCGC
*
2394500 GTTGCGAATTTGAAATTC-A
1 GTTGCGAATTTGAAATTCGC
**
2394519 GTTGCGAATTTGACTTTCGC
1 GTTGCGAATTTGAAATTCGC
2394539 GTTGCGAATTT-AGAATATCGC
1 GTTGCGAATTTGA-AAT-TCGC
*** *
2394560 AACGCGAATTTGGAAAATCGC
1 GTTGCGAATTT-GAAATTCGC
**
2394581 AATGCG-ATTT-ACATATTCGC
1 GTTGCGAATTTGA-A-ATTCGC
* * *
2394601 GTTGCGAAGTTGGAAACT-GT
1 GTTGCGAA-TTTGAAATTCGC
* *
2394621 GTTGCGAAATTGGAATTCGC
1 GTTGCGAATTTGAAATTCGC
*
2394641 GTTGTGAATTT
1 GTTGCGAATTT
2394652 ATTGGTCATT
Statistics
Matches: 115, Mismatches: 25, Indels: 23
0.71 0.15 0.14
Matches are distributed among these distances:
18 1 0.01
19 33 0.29
20 50 0.43
21 24 0.21
22 5 0.04
23 2 0.02
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (20 bp):
GTTGCGAATTTGAAATTCGC
Found at i:2394566 original size:21 final size:21
Alignment explanation
Indices: 2394542--2394591 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
2394532 CTTTCGCGTT
*
2394542 GCGAATTTAGAATATCGCAAC
1 GCGAATTTAGAAAATCGCAAC
* *
2394563 GCGAATTTGGAAAATCGCAAT
1 GCGAATTTAGAAAATCGCAAC
2394584 GCG-ATTTA
1 GCGAATTTA
2394592 CATATTCGCG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 4 0.16
21 21 0.84
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (21 bp):
GCGAATTTAGAAAATCGCAAC
Found at i:2395049 original size:28 final size:28
Alignment explanation
Indices: 2395017--2395073 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
2395007 TCACCGTTGC
*
2395017 TTTCAAGCACTAGCTC-ATCAGCATAATG
1 TTTCAAACACTAGCTCGATCA-CATAATG
* *
2395045 TTTCAAACACTTGCTCGATGACATAATG
1 TTTCAAACACTAGCTCGATCACATAATG
2395073 T
1 T
2395074 AAACGGAGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 22 0.88
29 3 0.12
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.32
Consensus pattern (28 bp):
TTTCAAACACTAGCTCGATCACATAATG
Found at i:2399304 original size:127 final size:127
Alignment explanation
Indices: 2399078--2399339 Score: 524
Period size: 127 Copynumber: 2.1 Consensus size: 127
2399068 TTAAATGGTT
2399078 ATTTGGGTTAGGCTTAGGTGAAAAATAAAGTAAGAATCTTTATCTACGAAGCAGCTTTTGTATGG
1 ATTTGGGTTAGGCTTAGGTGAAAAATAAAGTAAGAATCTTTATCTACGAAGCAGCTTTTGTATGG
2399143 GGGAAACACAGTAAGATGATATGATGAAATATAGAACGGGTTTACGCTTTTGTAAATCTGGG
66 GGGAAACACAGTAAGATGATATGATGAAATATAGAACGGGTTTACGCTTTTGTAAATCTGGG
2399205 ATTTGGGTTAGGCTTAGGTGAAAAATAAAGTAAGAATCTTTATCTACGAAGCAGCTTTTGTATGG
1 ATTTGGGTTAGGCTTAGGTGAAAAATAAAGTAAGAATCTTTATCTACGAAGCAGCTTTTGTATGG
2399270 GGGAAACACAGTAAGATGATATGATGAAATATAGAACGGGTTTACGCTTTTGTAAATCTGGG
66 GGGAAACACAGTAAGATGATATGATGAAATATAGAACGGGTTTACGCTTTTGTAAATCTGGG
2399332 ATTTGGGT
1 ATTTGGGT
2399340 CAATAAGTTC
Statistics
Matches: 135, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
127 135 1.00
ACGTcount: A:0.33, C:0.09, G:0.26, T:0.31
Consensus pattern (127 bp):
ATTTGGGTTAGGCTTAGGTGAAAAATAAAGTAAGAATCTTTATCTACGAAGCAGCTTTTGTATGG
GGGAAACACAGTAAGATGATATGATGAAATATAGAACGGGTTTACGCTTTTGTAAATCTGGG
Found at i:2403840 original size:2 final size:2
Alignment explanation
Indices: 2403791--2403822 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2403781 TTTTGGATAC
2403791 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2403823 CAAGTTATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2408362 original size:23 final size:23
Alignment explanation
Indices: 2408319--2408363 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2408309 TCGTATAAAT
* * *
2408319 TGCACCGAAGTGTCGTGTAGAAA
1 TGCACCGAAGTGCCATATAGAAA
2408342 TGCACCGAAGTGCCATATAGAA
1 TGCACCGAAGTGCCATATAGAA
2408364 TGTCCTGAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (23 bp):
TGCACCGAAGTGCCATATAGAAA
Found at i:2408414 original size:23 final size:23
Alignment explanation
Indices: 2408362--2408429 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
2408352 TGCCATATAG
* *
2408362 AATGTCCTGAAGGACCAC--ATA
1 AATGTCCCGAAGGACCACGTAGA
*
2408383 TATGTCCCGAAGGACCACGTAGA
1 AATGTCCCGAAGGACCACGTAGA
* *
2408406 AATGTCCCGAATGACCGCGTAGA
1 AATGTCCCGAAGGACCACGTAGA
2408429 A
1 A
2408430 CCCTCGACTC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
21 16 0.41
23 23 0.59
ACGTcount: A:0.34, C:0.25, G:0.24, T:0.18
Consensus pattern (23 bp):
AATGTCCCGAAGGACCACGTAGA
Found at i:2412596 original size:17 final size:17
Alignment explanation
Indices: 2412574--2412606 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
2412564 CTGTGCTTAT
2412574 TTTTCAAAATCAAATAG
1 TTTTCAAAATCAAATAG
2412591 TTTTCAAAATCAAATA
1 TTTTCAAAATCAAATA
2412607 TTGACTTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.12, G:0.03, T:0.36
Consensus pattern (17 bp):
TTTTCAAAATCAAATAG
Found at i:2424558 original size:17 final size:17
Alignment explanation
Indices: 2424523--2424562 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
2424513 AATTTCAGTC
2424523 TTTATTATTTTAATGAT
1 TTTATTATTTTAATGAT
*
2424540 TTTATATATTTTGAT-AT
1 TTTAT-TATTTTAATGAT
2424557 TTTATT
1 TTTATT
2424563 TAATTATTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 12 0.57
18 8 0.38
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (17 bp):
TTTATTATTTTAATGAT
Found at i:2429025 original size:26 final size:26
Alignment explanation
Indices: 2428989--2429048 Score: 102
Period size: 26 Copynumber: 2.3 Consensus size: 26
2428979 AGGACATTTA
*
2428989 GTGTATTATGGTGGGCACGACCTTAT
1 GTGTATTATGGTGGGCACAACCTTAT
2429015 GTGTATTATGGTGGGCACAACCTTAT
1 GTGTATTATGGTGGGCACAACCTTAT
*
2429041 ATGTATTA
1 GTGTATTA
2429049 GCACTTCGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.23, C:0.13, G:0.27, T:0.37
Consensus pattern (26 bp):
GTGTATTATGGTGGGCACAACCTTAT
Found at i:2431130 original size:76 final size:77
Alignment explanation
Indices: 2431039--2431224 Score: 320
Period size: 77 Copynumber: 2.4 Consensus size: 77
2431029 AACGTGATTT
* * *
2431039 TAGTATTGTTTACCTATATCGGTAATTAGCGTTACGAATTTGAAAATCGTG-TGTGAATTTAAAA
1 TAGTACTGTTTACCTATATCGGTAATTAGCGTTACAAATTTGAAAATCGTGTTGCGAATTTAAAA
*
2431103 ATCGTATTGCGA
66 ATCATATTGCGA
*
2431115 TAGTACTGTTTACCTATATCGGTAATTAGCGTTACAAATTTGAAAATCGTGTTGCGAATTTGAAA
1 TAGTACTGTTTACCTATATCGGTAATTAGCGTTACAAATTTGAAAATCGTGTTGCGAATTTAAAA
2431180 ATCATATTGCGA
66 ATCATATTGCGA
2431192 TAGTACTGTTTACCTATATCGGTAATTAGCGTT
1 TAGTACTGTTTACCTATATCGGTAATTAGCGTT
2431225 GTGAATTTCA
Statistics
Matches: 104, Mismatches: 5, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
76 49 0.47
77 55 0.53
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (77 bp):
TAGTACTGTTTACCTATATCGGTAATTAGCGTTACAAATTTGAAAATCGTGTTGCGAATTTAAAA
ATCATATTGCGA
Found at i:2431189 original size:20 final size:20
Alignment explanation
Indices: 2431151--2431191 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
2431141 TAGCGTTACA
* *
2431151 AATTTGAAAATCGTGTTGCG
1 AATTTGAAAATCATATTGCG
2431171 AATTTGAAAATCATATTGCG
1 AATTTGAAAATCATATTGCG
2431191 A
1 A
2431192 TAGTACTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.34
Consensus pattern (20 bp):
AATTTGAAAATCATATTGCG
Found at i:2431287 original size:20 final size:20
Alignment explanation
Indices: 2431262--2431359 Score: 196
Period size: 20 Copynumber: 4.9 Consensus size: 20
2431252 ACCGATATAG
2431262 GTAAACAGTACTATCGCAAT
1 GTAAACAGTACTATCGCAAT
2431282 GTAAACAGTACTATCGCAAT
1 GTAAACAGTACTATCGCAAT
2431302 GTAAACAGTACTATCGCAAT
1 GTAAACAGTACTATCGCAAT
2431322 GTAAACAGTACTATCGCAAT
1 GTAAACAGTACTATCGCAAT
2431342 GTAAACAGTACTATCGCA
1 GTAAACAGTACTATCGCA
2431360 TGCGATTTTC
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 78 1.00
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.24
Consensus pattern (20 bp):
GTAAACAGTACTATCGCAAT
Found at i:2431454 original size:20 final size:20
Alignment explanation
Indices: 2431431--2431516 Score: 172
Period size: 20 Copynumber: 4.3 Consensus size: 20
2431421 AGCAGTACTA
2431431 TCGCAATGCGATTTTCAAAT
1 TCGCAATGCGATTTTCAAAT
2431451 TCGCAATGCGATTTTCAAAT
1 TCGCAATGCGATTTTCAAAT
2431471 TCGCAATGCGATTTTCAAAT
1 TCGCAATGCGATTTTCAAAT
2431491 TCGCAATGCGATTTTCAAAT
1 TCGCAATGCGATTTTCAAAT
2431511 TCGCAA
1 TCGCAA
2431517 CATTAATTAC
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 66 1.00
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (20 bp):
TCGCAATGCGATTTTCAAAT
Found at i:2431475 original size:136 final size:135
Alignment explanation
Indices: 2431230--2431593 Score: 377
Period size: 136 Copynumber: 2.7 Consensus size: 135
2431220 GCGTTGTGAA
*
2431230 TTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAATGTAAACAGTACTA
1 TTTCAAATTCGCAACGTTAATTACCGATATAGGTAAACAGTACTATCGCAATGTAAACAGTACTA
* * *
2431295 TCGCAAT-GTAAACAGTACTATCGCAATGTAAACAGTACTATCGCAAT-G-TAAACAGTACTATC
66 TCGCAATGGTAAACAG-AATATCGCAATGTAAACAG-AATATCGCAATCGATAAACA--AAT-TC
2431357 GC-ATGCGAT
126 GCAATGCGAT
* *
2431366 TTTCAAATTCGCAACGTTAATTACCGATATAGGTAAACAATACTATCGCAATGTAAGCAGTACTA
1 TTTCAAATTCGCAACGTTAATTACCGATATAGGTAAACAGTACTATCGCAATGTAAACAGTACTA
*** *** ***
2431431 TCGCAATGCGATTTTCA-AAT-TCGCAATGCGATTTTCA-AAT-TCGCAATGCGATTTTCAAATT
66 TCGCAATG-G-TAAACAGAATATCGCAAT--G-TAAACAGAATATCGCAAT-CGATAAACAAATT
2431492 CGCAATGCGAT
125 CGCAATGCGAT
* * * *
2431503 TTTCAAATTCGCAACATTAATTACCGATATAGGTAAACAGTATTATCGCAATGTAAACAATAGTA
1 TTTCAAATTCGCAACGTTAATTACCGATATAGGTAAACAGTACTATCGCAATGTAAACAGTACTA
*
2431568 TCGCAAT-GTAAACAGTACTATCGCAA
66 TCGCAATGGTAAACAG-AATATCGCAA
2431594 CACGATTTTC
Statistics
Matches: 190, Mismatches: 25, Indels: 25
0.79 0.10 0.10
Matches are distributed among these distances:
134 3 0.02
135 1 0.01
136 89 0.47
137 85 0.45
138 3 0.02
139 9 0.05
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.29
Consensus pattern (135 bp):
TTTCAAATTCGCAACGTTAATTACCGATATAGGTAAACAGTACTATCGCAATGTAAACAGTACTA
TCGCAATGGTAAACAGAATATCGCAATGTAAACAGAATATCGCAATCGATAAACAAATTCGCAAT
GCGAT
Found at i:2431560 original size:20 final size:20
Alignment explanation
Indices: 2431535--2431593 Score: 91
Period size: 20 Copynumber: 3.0 Consensus size: 20
2431525 ACCGATATAG
*
2431535 GTAAACAGTATTATCGCAAT
1 GTAAACAGTACTATCGCAAT
* *
2431555 GTAAACAATAGTATCGCAAT
1 GTAAACAGTACTATCGCAAT
2431575 GTAAACAGTACTATCGCAA
1 GTAAACAGTACTATCGCAA
2431594 CACGATTTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.25
Consensus pattern (20 bp):
GTAAACAGTACTATCGCAAT
Found at i:2431657 original size:20 final size:20
Alignment explanation
Indices: 2431632--2431730 Score: 171
Period size: 20 Copynumber: 5.0 Consensus size: 20
2431622 ACCGATATAG
2431632 GTAAACAGTACTATCGCAAT
1 GTAAACAGTACTATCGCAAT
2431652 GTAAACAGTACTATCGCAAT
1 GTAAACAGTACTATCGCAAT
*
2431672 GTAAACAGTACTATCGTAAT
1 GTAAACAGTACTATCGCAAT
*
2431692 GTAAACAGTACTATCACAAT
1 GTAAACAGTACTATCGCAAT
*
2431712 GTAAACAATACTATCGCAA
1 GTAAACAGTACTATCGCAA
2431731 CACGATTTTC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 74 1.00
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.25
Consensus pattern (20 bp):
GTAAACAGTACTATCGCAAT
Found at i:2431680 original size:97 final size:97
Alignment explanation
Indices: 2431499--2431687 Score: 315
Period size: 97 Copynumber: 1.9 Consensus size: 97
2431489 ATTCGCAATG
* *
2431499 CGATTTTCAAATTCGCAACATTAATTACCGATATAGGTAAACAGTATTATCGCAATGTAAACAAT
1 CGATTTTCAAATTCGCAACACTAATTACCGATATAGGTAAACAGTACTATCGCAATGTAAACAAT
*
2431564 AGTATCGCAATGTAAACAGTACTATCGCAACA
66 ACTATCGCAATGTAAACAGTACTATCGCAACA
** * *
2431596 CGATTTTCAAATTCGCAATGCTAGTTACCGATATAGGTAAACAGTACTATCGCAATGTAAACAGT
1 CGATTTTCAAATTCGCAACACTAATTACCGATATAGGTAAACAGTACTATCGCAATGTAAACAAT
2431661 ACTATCGCAATGTAAACAGTACTATCG
66 ACTATCGCAATGTAAACAGTACTATCG
2431688 TAATGTAAAC
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
97 85 1.00
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (97 bp):
CGATTTTCAAATTCGCAACACTAATTACCGATATAGGTAAACAGTACTATCGCAATGTAAACAAT
ACTATCGCAATGTAAACAGTACTATCGCAACA
Found at i:2431782 original size:137 final size:137
Alignment explanation
Indices: 2431535--2431787 Score: 382
Period size: 137 Copynumber: 1.8 Consensus size: 137
2431525 ACCGATATAG
* * * *
2431535 GTAAACAGTATTATCGCAATGTAAACAATAGTATCGCAATGTAAACAGTACTATCGCAACACGAT
1 GTAAACAGTACTATCGCAATGTAAACAATACTATCACAATGTAAACAATACTATCGCAACACGAT
* **
2431600 TTTCAAATTCGCAATGCTAGTTACCGATATAGGTAAACAGTACTATCGCAATGTAAACAGTACTA
66 TTTCAAATTCGCAATGCTAATTACCGATATAGGTAAACACAACTATCGCAATGTAAACAGTACTA
2431665 TCGCAAT
131 TCGCAAT
* *
2431672 GTAAACAGTACTATCGTAATGTAAACAGTACTATCACAATGTAAACAATACTATCGCAACACGAT
1 GTAAACAGTACTATCGCAATGTAAACAATACTATCACAATGTAAACAATACTATCGCAACACGAT
* * *
2431737 TTTCAAATTTGTAACT-CTAATTACCGATATAGGTAAACACAACTATGGCAA
66 TTTCAAATTCGCAA-TGCTAATTACCGATATAGGTAAACACAACTATCGCAA
2431788 CGCGAATTTT
Statistics
Matches: 103, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
137 102 0.99
138 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.27
Consensus pattern (137 bp):
GTAAACAGTACTATCGCAATGTAAACAATACTATCACAATGTAAACAATACTATCGCAACACGAT
TTTCAAATTCGCAATGCTAATTACCGATATAGGTAAACACAACTATCGCAATGTAAACAGTACTA
TCGCAAT
Found at i:2431824 original size:20 final size:21
Alignment explanation
Indices: 2431789--2431833 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
2431779 CTATGGCAAC
2431789 GCGAATTTTCGAAACTGAGTT
1 GCGAATTTTCGAAACTGAGTT
* *
2431810 GCGAA-TTTGGAAACTGTGTT
1 GCGAATTTTCGAAACTGAGTT
2431830 GCGA
1 GCGA
2431834 TTTACAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (21 bp):
GCGAATTTTCGAAACTGAGTT
Found at i:2432961 original size:3 final size:3
Alignment explanation
Indices: 2432953--2432996 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
2432943 GACAAATGAA
2432953 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2432997 ATATGGGTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:2436319 original size:21 final size:21
Alignment explanation
Indices: 2436293--2436449 Score: 162
Period size: 21 Copynumber: 7.6 Consensus size: 21
2436283 GTTTCCAGAT
* *
2436293 TCGCAACGCGAACTTCGACTA
1 TCGCAATGCGAACTTGGACTA
2436314 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
*
2436335 TCGCAATGCGAACTTGAACTA
1 TCGCAATGCGAACTTGGACTA
2436356 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
* * *
2436377 TCGCAATGTGAA-TATGTA-AA
1 TCGCAATGCGAACT-TGGACTA
* *
2436397 TCGCAATGCGAA-TATGTA-AA
1 TCGCAATGCGAACT-TGGACTA
* *
2436417 TCGCAATGCGATAGTCGG-CTA
1 TCGCAATGCGA-ACTTGGACTA
2436438 TCGCAATGCGAA
1 TCGCAATGCGAA
2436450 TATGTAAATC
Statistics
Matches: 121, Mismatches: 11, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
20 33 0.27
21 87 0.72
22 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (21 bp):
TCGCAATGCGAACTTGGACTA
Found at i:2436401 original size:20 final size:20
Alignment explanation
Indices: 2436376--2436488 Score: 165
Period size: 20 Copynumber: 5.6 Consensus size: 20
2436366 AACTTGGACT
*
2436376 ATCGCAATGTGAATATGTAA
1 ATCGCAATGCGAATATGTAA
2436396 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
***
2436416 ATCGCAATGCG-ATAGTCGGCT
1 ATCGCAATGCGAATA-T-GTAA
2436437 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
2436457 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
2436477 ATCGCAATGCGA
1 ATCGCAATGCGA
2436489 TAGTCCAAGT
Statistics
Matches: 83, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
19 3 0.04
20 64 0.77
21 13 0.16
22 3 0.04
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGAATATGTAA
Found at i:2436439 original size:61 final size:62
Alignment explanation
Indices: 2436309--2436493 Score: 245
Period size: 61 Copynumber: 3.0 Consensus size: 62
2436299 CGCGAACTTC
* * *
2436309 GACTATCGCAATGCGAACT-TGGACTATCGCAATGCGAACT-TG-AACTATCGCAATGCGA-ACT
1 GACTATCGCAATGCGAA-TATGTA-AATCGCAATGCGAA-TATGTAA--ATCGCAATGCGATAGT
*
2436370 TG
61 CG
*
2436372 GACTATCGCAATGTGAATATGTAAATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCG
1 GACTATCGCAATGCGAATATGTAAATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCG
2436434 G-CTATCGCAATGCGAATATGTAAATCGCAATGCGAATATGTAAATCGCAATGCGATAGTC
1 GACTATCGCAATGCGAATATGTAAATCGCAATGCGAATATGTAAATCGCAATGCGATAGTC
2436494 CAAGTTCGCA
Statistics
Matches: 112, Mismatches: 6, Indels: 10
0.88 0.05 0.08
Matches are distributed among these distances:
61 71 0.63
62 20 0.18
63 21 0.19
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (62 bp):
GACTATCGCAATGCGAATATGTAAATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCG
Found at i:2436508 original size:21 final size:22
Alignment explanation
Indices: 2436477--2436580 Score: 126
Period size: 21 Copynumber: 4.9 Consensus size: 22
2436467 GAATATGTAA
* *
2436477 ATCGCAATGCGATAGTCCAAGT
1 ATCGCATTGCGATAGTCCAACT
*
2436499 -TCGCATTGCGATAGT-CGACT
1 ATCGCATTGCGATAGTCCAACT
* *
2436519 ATCGCAATGCGATAGTCCAAGT
1 ATCGCATTGCGATAGTCCAACT
*
2436541 -TCGCATTGCGATAGT-CGACT
1 ATCGCATTGCGATAGTCCAACT
2436561 ATCGCATTGCGATAGTCCAA
1 ATCGCATTGCGATAGTCCAA
2436581 AATCGCAACG
Statistics
Matches: 68, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
20 6 0.09
21 57 0.84
22 5 0.07
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (22 bp):
ATCGCATTGCGATAGTCCAACT
Found at i:2436528 original size:42 final size:42
Alignment explanation
Indices: 2436477--2436580 Score: 199
Period size: 42 Copynumber: 2.5 Consensus size: 42
2436467 GAATATGTAA
2436477 ATCGCAATGCGATAGTCCAAGTTCGCATTGCGATAGTCGACT
1 ATCGCAATGCGATAGTCCAAGTTCGCATTGCGATAGTCGACT
2436519 ATCGCAATGCGATAGTCCAAGTTCGCATTGCGATAGTCGACT
1 ATCGCAATGCGATAGTCCAAGTTCGCATTGCGATAGTCGACT
*
2436561 ATCGCATTGCGATAGTCCAA
1 ATCGCAATGCGATAGTCCAA
2436581 AATCGCAACG
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (42 bp):
ATCGCAATGCGATAGTCCAAGTTCGCATTGCGATAGTCGACT
Found at i:2436586 original size:63 final size:61
Alignment explanation
Indices: 2436394--2436588 Score: 211
Period size: 61 Copynumber: 3.1 Consensus size: 61
2436384 GTGAATATGT
* *
2436394 AAATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGGCTATCGCAATGCGAATATGT--
1 AAATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGACTATCGCATTGCG-ATA-GTCA
* *
2436455 AAATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCCAAGT-TCGCATTGCGATAGTCGA
1 AAATCGCAATGCGAATATGTAAATCGCAATGCGATAGT-CGACTATCGCATTGCGATAGTC-A
** * *
2436517 CTATCGCAATGCG-ATA-GTCCAAGTTCGCATTGCGATAGTCGACTATCGCATTGCGATAGTCCA
1 AAATCGCAATGCGAATATGT--AA-ATCGCAATGCGATAGTCGACTATCGCATTGCGATAGT-CA
2436580 AAATCGCAA
1 AAATCGCAA
2436589 CGACTGGTGG
Statistics
Matches: 113, Mismatches: 12, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
59 2 0.02
60 5 0.04
61 50 0.44
62 18 0.16
63 37 0.33
64 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (61 bp):
AAATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGACTATCGCATTGCGATAGTCA
Found at i:2436587 original size:42 final size:42
Alignment explanation
Indices: 2436414--2436588 Score: 191
Period size: 42 Copynumber: 4.2 Consensus size: 42
2436404 GCGAATATGT
*
2436414 AAATCGCAATGCGATAGTCGGCTATCGCAATGCGAATATGT---
1 AAATCGCAATGCGATAGTCGACTATCGCAATGCG-ATA-GTCCA
*
2436455 AAATCGCAATGCGAATA-T-GTA-AATCGCAATGCGATAGTCCA
1 AAATCGCAATGCG-ATAGTCG-ACTATCGCAATGCGATAGTCCA
** *
2436496 AGTTCGCATTGCGATAGTCGACTATCGCAATGCGATAGTCCA
1 AAATCGCAATGCGATAGTCGACTATCGCAATGCGATAGTCCA
** * *
2436538 AGTTCGCATTGCGATAGTCGACTATCGCATTGCGATAGTCCA
1 AAATCGCAATGCGATAGTCGACTATCGCAATGCGATAGTCCA
2436580 AAATCGCAA
1 AAATCGCAA
2436589 CGACTGGTGG
Statistics
Matches: 116, Mismatches: 10, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
38 2 0.02
39 3 0.03
40 15 0.13
41 26 0.22
42 70 0.60
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (42 bp):
AAATCGCAATGCGATAGTCGACTATCGCAATGCGATAGTCCA
Found at i:2437226 original size:5 final size:5
Alignment explanation
Indices: 2437218--2437242 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
2437208 CCTTCTCGTC
2437218 TCGGG TCGGG TCGGG TCGGG TCGGG
1 TCGGG TCGGG TCGGG TCGGG TCGGG
2437243 GTCGTGGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.60, T:0.20
Consensus pattern (5 bp):
TCGGG
Found at i:2437381 original size:23 final size:23
Alignment explanation
Indices: 2437343--2437512 Score: 180
Period size: 23 Copynumber: 7.8 Consensus size: 23
2437333 ATTTTGGACT
*
2437343 ATCGCAA--CGAAATTGGAATAA
1 ATCGCAACGCGAACTTGGAATAA
*
2437364 ATCGCAACGCGAATTTGGAATAA
1 ATCGCAACGCGAACTTGGAATAA
* *
2437387 ATCGCAACGCGAACTTCGACT--
1 ATCGCAACGCGAACTTGGAATAA
*
2437408 ATCGCAA--CGAATTTGGAATAA
1 ATCGCAACGCGAACTTGGAATAA
*
2437429 ATCGTAACGCGAACTTGGAATAA
1 ATCGCAACGCGAACTTGGAATAA
* * *
2437452 ATCGCAACGCAAACTTCGACT--
1 ATCGCAACGCGAACTTGGAATAA
*
2437473 ATCGCAA--TGAACTTGGAATAA
1 ATCGCAACGCGAACTTGGAATAA
2437494 ATCGCAACGCGAACTTGGA
1 ATCGCAACGCGAACTTGGA
2437513 CTATCGCAAT
Statistics
Matches: 121, Mismatches: 18, Indels: 18
0.77 0.11 0.11
Matches are distributed among these distances:
19 17 0.14
21 34 0.28
23 70 0.58
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (23 bp):
ATCGCAACGCGAACTTGGAATAA
Found at i:2437447 original size:65 final size:65
Alignment explanation
Indices: 2437339--2437512 Score: 294
Period size: 65 Copynumber: 2.7 Consensus size: 65
2437329 TGCGATTTTG
* *
2437339 GACTATCGCAACGAAATTGGAATAAATCGCAACGCGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAAATTGGAATAAATCGCAACGCGAACTTGGAATAAATCGCAACGCAAACTTC
* *
2437404 GACTATCGCAACGAATTTGGAATAAATCGTAACGCGAACTTGGAATAAATCGCAACGCAAACTTC
1 GACTATCGCAACGAAATTGGAATAAATCGCAACGCGAACTTGGAATAAATCGCAACGCAAACTTC
* *
2437469 GACTATCGCAATGAACTTGGAATAAATCGCAACGCGAACTTGGA
1 GACTATCGCAACGAAATTGGAATAAATCGCAACGCGAACTTGGA
2437513 CTATCGCAAT
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
65 102 1.00
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (65 bp):
GACTATCGCAACGAAATTGGAATAAATCGCAACGCGAACTTGGAATAAATCGCAACGCAAACTTC
Found at i:2437485 original size:42 final size:42
Alignment explanation
Indices: 2437439--2437523 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
2437429 ATCGTAACGC
2437439 GAACTTGGAATAAATCGCAACGCAAACTTCGACTATCGCAAT
1 GAACTTGGAATAAATCGCAACGCAAACTTCGACTATCGCAAT
* *
2437481 GAACTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAAT
1 GAACTTGGAATAAATCGCAACGCAAACTTCGACTATCGCAAT
2437523 G
1 G
2437524 CGATAGTCGA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.21
Consensus pattern (42 bp):
GAACTTGGAATAAATCGCAACGCAAACTTCGACTATCGCAAT
Found at i:2442738 original size:20 final size:20
Alignment explanation
Indices: 2442710--2442822 Score: 127
Period size: 20 Copynumber: 5.5 Consensus size: 20
2442700 TTCCTAATTT
*
2442710 GCAATGCGAATAAGTAAATC
1 GCAACGCGAATAAGTAAATC
** *
2442730 GCAACGCGAATTGGGAAAATC
1 GCAACGCGAA-TAAGTAAATC
*
2442751 GCAATGCGAATAAGTAAATC
1 GCAACGCGAATAAGTAAATC
** *
2442771 GCAACGCGAATTGGGAAAATC
1 GCAACGCGAA-TAAGTAAATC
*
2442792 GCAATGCGAATAAGTAAATC
1 GCAACGCGAATAAGTAAATC
2442812 GCAACGCGAAT
1 GCAACGCGAAT
2442823 TGGGAAAATC
Statistics
Matches: 74, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
20 42 0.57
21 32 0.43
ACGTcount: A:0.42, C:0.18, G:0.24, T:0.17
Consensus pattern (20 bp):
GCAACGCGAATAAGTAAATC
Found at i:2442751 original size:21 final size:21
Alignment explanation
Indices: 2442725--2442841 Score: 139
Period size: 21 Copynumber: 5.7 Consensus size: 21
2442715 GCGAATAAGT
2442725 AAATCGCAACGCGAATTGGGA
1 AAATCGCAACGCGAATTGGGA
* ** *
2442746 AAATCGCAATGCGAA-TAAGT
1 AAATCGCAACGCGAATTGGGA
2442766 AAATCGCAACGCGAATTGGGA
1 AAATCGCAACGCGAATTGGGA
* ** *
2442787 AAATCGCAATGCGAA-TAAGT
1 AAATCGCAACGCGAATTGGGA
2442807 AAATCGCAACGCGAATTGGGA
1 AAATCGCAACGCGAATTGGGA
*
2442828 AAATCGCAATGCGA
1 AAATCGCAACGCGA
2442842 TAATAAAAAA
Statistics
Matches: 77, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
20 32 0.42
21 45 0.58
ACGTcount: A:0.41, C:0.18, G:0.25, T:0.16
Consensus pattern (21 bp):
AAATCGCAACGCGAATTGGGA
Found at i:2442755 original size:41 final size:41
Alignment explanation
Indices: 2442710--2442859 Score: 266
Period size: 41 Copynumber: 3.6 Consensus size: 41
2442700 TTCCTAATTT
2442710 GCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAATC
1 GCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAATC
2442751 GCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAATC
1 GCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAATC
2442792 GCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAATC
1 GCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAATC
*
2442833 GCAATGCGATAATAA-AAAATCGCAACG
1 GCAATGCG--AATAAGTAAATCGCAACG
2442860 AGATACTTAC
Statistics
Matches: 106, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
41 90 0.85
42 11 0.10
43 5 0.05
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (41 bp):
GCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAATC
Found at i:2442900 original size:20 final size:20
Alignment explanation
Indices: 2442852--2442903 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
2442842 TAATAAAAAA
* *
2442852 TCGCAACGAGATACTTACTT
1 TCGCAACGCGATACTGACTT
2442872 TCGCAACGCGATACTGACTT
1 TCGCAACGCGATACTGACTT
2442892 TCGCAACGCGAT
1 TCGCAACGCGAT
2442904 TTACATAGCG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (20 bp):
TCGCAACGCGATACTGACTT
Found at i:2443456 original size:19 final size:19
Alignment explanation
Indices: 2443418--2443484 Score: 98
Period size: 19 Copynumber: 3.5 Consensus size: 19
2443408 TTCGAGAATG
2443418 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
**
2443438 ACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
*
2443457 AAAATCGCAACGCGAAACA
1 AAAATCGCAACGCGAAATA
2443476 AAAATCGCA
1 AAAATCGCA
2443485 TTGCGATTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
19 31 0.74
20 11 0.26
ACGTcount: A:0.49, C:0.24, G:0.16, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:2443502 original size:19 final size:19
Alignment explanation
Indices: 2443480--2443644 Score: 152
Period size: 19 Copynumber: 9.1 Consensus size: 19
2443470 GAAACAAAAA
*
2443480 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
2443499 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
2443518 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
2443537 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
2443553 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
2443570 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
2443584 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
2443603 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
2443623 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
2443643 TC
1 TC
2443645 AACCAAAAGA
Statistics
Matches: 121, Mismatches: 13, Indels: 24
0.77 0.08 0.15
Matches are distributed among these distances:
14 20 0.17
15 1 0.01
16 3 0.02
17 3 0.02
18 1 0.01
19 61 0.50
20 31 0.26
21 1 0.01
ACGTcount: A:0.12, C:0.23, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:2443536 original size:38 final size:35
Alignment explanation
Indices: 2443480--2443644 Score: 140
Period size: 33 Copynumber: 4.6 Consensus size: 35
2443470 GAAACAAAAA
*
2443480 TCGCATTGCGATTTTCATTTCGCGTTGCGATTTTC
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTC
*
2443515 ATTTCGCGTTGCGATTTTCATTTCGCGTTGCGATTGTC
1 ---TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTC
* **
2443553 T-G-GTCGCGATAGTCATTTCGCGTTGCGA--TTC
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTC
* ** *
2443584 TCTCGTTGCGATAGTCATTTCCGCGTTGCGATTCTCATTA
1 TCGCGTTGCGATTTTCATTT-CGCGTTGCGA-T-T--TTC
*
2443624 TCTCGTTGCGATTTTCATTTC
1 TCGCGTTGCGATTTTCATTTC
2443645 AACCAAAAGA
Statistics
Matches: 107, Mismatches: 11, Indels: 17
0.79 0.08 0.13
Matches are distributed among these distances:
31 3 0.03
33 38 0.36
34 11 0.10
35 1 0.01
38 33 0.31
39 1 0.01
40 20 0.19
ACGTcount: A:0.12, C:0.23, G:0.22, T:0.43
Consensus pattern (35 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTC
Found at i:2443621 original size:20 final size:20
Alignment explanation
Indices: 2443587--2443644 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
2443577 GCGATTCTCT
**
2443587 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTCTCATTTCCG
*
2443607 CGTTGCGATTCTCATTAT-CT
1 CGTTGCGATTCTCATT-TCCG
*
2443627 CGTTGCGATTTTCATTTC
1 CGTTGCGATTCTCATTTC
2443645 AACCAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTCTCATTTCCG
Found at i:2445694 original size:42 final size:42
Alignment explanation
Indices: 2445634--2445756 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
2445624 GCCCGACTCG
* * *
2445634 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
2445676 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
2445718 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
2445757 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:2445714 original size:21 final size:21
Alignment explanation
Indices: 2445690--2445756 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
2445680 TCATTCCTCG
2445690 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
2445711 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
2445732 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
2445753 AGAG
1 AGAG
2445757 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:2447125 original size:14 final size:14
Alignment explanation
Indices: 2447106--2447148 Score: 77
Period size: 14 Copynumber: 3.1 Consensus size: 14
2447096 TTAATTGATT
2447106 TAAAAGGTGATTTG
1 TAAAAGGTGATTTG
2447120 TAAAAGGTGATTTG
1 TAAAAGGTGATTTG
*
2447134 TAAAAGTTGATTTG
1 TAAAAGGTGATTTG
2447148 T
1 T
2447149 TTAATTGATG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.26, T:0.40
Consensus pattern (14 bp):
TAAAAGGTGATTTG
Found at i:2448017 original size:142 final size:143
Alignment explanation
Indices: 2447761--2448046 Score: 549
Period size: 142 Copynumber: 2.0 Consensus size: 143
2447751 TCGATCTCTT
2447761 TTCTCTTCACCCTTAGACGGTATACGATCGTGACTTTTTGGTCGGCCAGGTAGCCTTCTGTCCAT
1 TTCTCTTCACCCTTAGACGGTATACGATCGTGACTTTTTGGTCGGCCAGGTAGCCTTCTGTCCAT
2447826 GGCTGTGGCAAAACTGTTTGTAAGTCATCTGGTATGTCCCACTCAGAAGGATGTG-AATAGGGTA
66 GGCTGTGGCAAAACTGTTTGTAAGTCATCTGGTATGTCCCACTCAGAAGGATGTGAAATAGGGTA
2447890 GACAATCTCGGCA
131 GACAATCTCGGCA
2447903 TTCTCTTCACCCTTAGACGGTATACGATCGTGACTTTTTGGTCGGCCAGGTAGCCTTCTGTCCAT
1 TTCTCTTCACCCTTAGACGGTATACGATCGTGACTTTTTGGTCGGCCAGGTAGCCTTCTGTCCAT
2447968 GGCTGGTGGCAAAACTG-TTGTAAGTCATCTGGTATGTCCCACTCAGAAGGATGTGAAATAGGGT
66 GGCT-GTGGCAAAACTGTTTGTAAGTCATCTGGTATGTCCCACTCAGAAGGATGTGAAATAGGGT
2448032 AGACAATCTCGGCA
130 AGACAATCTCGGCA
2448046 T
1 T
2448047 AAGTCTGTCG
Statistics
Matches: 142, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
142 107 0.75
143 35 0.25
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (143 bp):
TTCTCTTCACCCTTAGACGGTATACGATCGTGACTTTTTGGTCGGCCAGGTAGCCTTCTGTCCAT
GGCTGTGGCAAAACTGTTTGTAAGTCATCTGGTATGTCCCACTCAGAAGGATGTGAAATAGGGTA
GACAATCTCGGCA
Found at i:2450008 original size:24 final size:24
Alignment explanation
Indices: 2449974--2450027 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
2449964 CTGAAACATC
* *
2449974 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
2449998 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
2450022 ATCAAA
1 ATCAAA
2450028 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:2451107 original size:19 final size:20
Alignment explanation
Indices: 2451075--2451131 Score: 89
Period size: 19 Copynumber: 2.9 Consensus size: 20
2451065 ATTCATTTGA
2451075 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
2451095 CTATCGC-ACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
* *
2451114 TTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
2451132 CGCAATGCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 18 0.53
20 16 0.47
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.18
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:2451187 original size:33 final size:33
Alignment explanation
Indices: 2451150--2451298 Score: 199
Period size: 33 Copynumber: 4.4 Consensus size: 33
2451140 GAAATGAAAA
2451150 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
2451183 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTC---TCG--TTGCGATTTTCATT
* *
2451221 TCGCATTGCGATTTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
***
2451254 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
1 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
*
2451287 TCGCGTTGCGAT
1 TCGCATTGCGAT
2451299 AGTCTGTTTT
Statistics
Matches: 103, Mismatches: 8, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
33 69 0.67
35 1 0.01
36 3 0.03
38 30 0.29
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.44
Consensus pattern (33 bp):
TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
Found at i:2451191 original size:19 final size:19
Alignment explanation
Indices: 2451150--2451269 Score: 170
Period size: 19 Copynumber: 6.8 Consensus size: 19
2451140 GAAATGAAAA
2451150 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
2451166 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
2451183 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
2451202 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
2451221 TCGCATTGCGA---T--TT
1 TCGCATTGCGATTTTCATT
2451235 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
2451254 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
2451270 TCGTTGCGAT
Statistics
Matches: 94, Mismatches: 0, Indels: 17
0.85 0.00 0.15
Matches are distributed among these distances:
14 24 0.26
16 4 0.04
17 4 0.04
19 62 0.66
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:2451209 original size:52 final size:52
Alignment explanation
Indices: 2451150--2451298 Score: 196
Period size: 52 Copynumber: 2.9 Consensus size: 52
2451140 GAAATGAAAA
*
2451150 TCGCATTGCGATTTTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCTCGTTGCGATTTCCATTTCGCATTGCGATTTTCATT
* *
2451202 TCGCATTGCGATTTTCAT--TT-CGCATTGCGATTTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTC-TCGTTGCG-ATTTCCA-TTTCGCATTGCGATTTTCATT
** *
2451254 TCGCATTGCGATTTTCTCGTTGCGATAGCCATTTCGCGTTGCGAT
1 TCGCATTGCGATTTTCTCGTTGCGATTTCCATTTCGCATTGCGAT
2451299 AGTCTGTTTT
Statistics
Matches: 85, Mismatches: 6, Indels: 12
0.83 0.06 0.12
Matches are distributed among these distances:
50 2 0.02
51 7 0.08
52 66 0.78
53 8 0.09
54 2 0.02
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.44
Consensus pattern (52 bp):
TCGCATTGCGATTTTCTCGTTGCGATTTCCATTTCGCATTGCGATTTTCATT
Done.