Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002028.1 Hibiscus syriacus cultivar Beakdansim tig00004140_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: 88327
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:1753 original size:14 final size:14
Alignment explanation
Indices: 1710--1758 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
1700 TTAGCTTGTT
1710 TGTAG-AAACAAAC
1 TGTAGAAAACAAAC
*
1723 TGTA-TAAACAGAA-
1 TGTAGAAAACA-AAC
1736 TGTAGAAAACAAAC
1 TGTAGAAAACAAAC
1750 TGTAGAAAA
1 TGTAGAAAA
1759 ATACAAGTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 15 0.48
14 16 0.52
ACGTcount: A:0.55, C:0.10, G:0.16, T:0.18
Consensus pattern (14 bp):
TGTAGAAAACAAAC
Found at i:6467 original size:14 final size:14
Alignment explanation
Indices: 6444--6511 Score: 100
Period size: 14 Copynumber: 4.9 Consensus size: 14
6434 ACTTGATACC
*
6444 ATGTAGAAAATAGA
1 ATGTAGAAAACAGA
* *
6458 CTGTATAAAACAGA
1 ATGTAGAAAACAGA
6472 ATGTAGAAAACAGA
1 ATGTAGAAAACAGA
6486 ATGTAGAAAACAGA
1 ATGTAGAAAACAGA
*
6500 CTGTAGAAAACA
1 ATGTAGAAAACA
6512 AACAAGTTTG
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 48 1.00
ACGTcount: A:0.54, C:0.09, G:0.19, T:0.18
Consensus pattern (14 bp):
ATGTAGAAAACAGA
Found at i:11886 original size:36 final size:36
Alignment explanation
Indices: 11832--11912 Score: 112
Period size: 36 Copynumber: 2.2 Consensus size: 36
11822 TGGTAACCAA
11832 CTTTGAAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAAAT-GTTTTCAAAGTTTGGTAAATGTTT
*
11869 CTTTGAAAAATAT-TTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAA-ATGTTTTCAAAGTTTGGTAAATGTTT
*
11905 -GTTGAAAA
1 CTTTGAAAA
11913 TAGGAATGGG
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
35 7 0.17
36 22 0.54
37 10 0.24
38 2 0.05
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (36 bp):
CTTTGAAAAAATGTTTTCAAAGTTTGGTAAATGTTT
Found at i:13126 original size:15 final size:15
Alignment explanation
Indices: 13106--13137 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
13096 TGGCAGATCC
*
13106 AAATCAAGAAGGGGA
1 AAATCAAGAACGGGA
13121 AAATCAAGAACGGGA
1 AAATCAAGAACGGGA
13136 AA
1 AA
13138 GAAAGATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.56, C:0.09, G:0.28, T:0.06
Consensus pattern (15 bp):
AAATCAAGAACGGGA
Found at i:16289 original size:27 final size:27
Alignment explanation
Indices: 16259--16315 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
16249 AAAGATGGTG
16259 ACTACAGACAAACTGAAGTTGTGTTCA
1 ACTACAGACAAACTGAAGTTGTGTTCA
16286 ACTACAGACAAACTGAAGTTGTGTTCA
1 ACTACAGACAAACTGAAGTTGTGTTCA
16313 ACT
1 ACT
16316 TCAGTTGGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (27 bp):
ACTACAGACAAACTGAAGTTGTGTTCA
Found at i:16479 original size:21 final size:21
Alignment explanation
Indices: 16455--16514 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
16445 AACTTTGAAA
16455 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
16476 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
16490 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
16511 AAAT
1 AAAT
16515 ATTTCTTTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
14 5 0.17
15 4 0.13
16 4 0.13
19 4 0.13
20 4 0.13
21 9 0.30
ACGTcount: A:0.32, C:0.05, G:0.20, T:0.43
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:16536 original size:36 final size:36
Alignment explanation
Indices: 16420--16549 Score: 178
Period size: 35 Copynumber: 3.7 Consensus size: 36
16410 TGAAAGTATT
** *
16420 AAAATGGTTTTC-AAGTTTGGTAACCA--ACTTTGAA
1 AAAATGGTTTTCAAAGTTTGGTAAATATTTCTTTG-A
*
16454 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG-
1 AAAATGGTTTTCAAAGTTTGGTAAATATTTCTTTGA
16489 AAAATGGTTTTCAAAGTTTGGTAAATATTTCTTTGA
1 AAAATGGTTTTCAAAGTTTGGTAAATATTTCTTTGA
*
16525 AAAATGTTTTTCAAAGTTTGGTAAA
1 AAAATGGTTTTCAAAGTTTGGTAAA
16550 GTTTGGTAGA
Statistics
Matches: 86, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
34 12 0.14
35 45 0.52
36 24 0.28
37 5 0.06
ACGTcount: A:0.34, C:0.07, G:0.18, T:0.42
Consensus pattern (36 bp):
AAAATGGTTTTCAAAGTTTGGTAAATATTTCTTTGA
Found at i:16540 original size:71 final size:68
Alignment explanation
Indices: 16420--16553 Score: 189
Period size: 71 Copynumber: 1.9 Consensus size: 68
16410 TGAAAGTATT
*
16420 AAAATGGTTTTCAAGTTTGGTAACCAACTTTGAAAAAATGGTTTTCAAAGTTTGGTAAATGTTTC
1 AAAATGGTTTTCAAGTTTGGTAAACAACTTTGAAAAAATGGTTTTCAAAGTTTGGTAAA-GTTTC
16485 TTTG
65 TTTG
* * *
16489 AAAATGGTTTTCAAAGTTTGGTAAATATTTCTTTG-AAAAATGTTTTTCAAAGTTTGGTAAAGTT
1 AAAATGGTTTTC-AAGTTTGGTAAACA--ACTTTGAAAAAATGGTTTTCAAAGTTTGGTAAAGTT
16553 T
63 T
16554 GGTAGATGTT
Statistics
Matches: 58, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
69 12 0.21
70 16 0.28
71 25 0.43
72 5 0.09
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.43
Consensus pattern (68 bp):
AAAATGGTTTTCAAGTTTGGTAAACAACTTTGAAAAAATGGTTTTCAAAGTTTGGTAAAGTTTCT
TTG
Found at i:19681 original size:2 final size:2
Alignment explanation
Indices: 19674--19703 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
19664 AATAAAGTAA
19674 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
19704 TAAACATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19913 original size:3 final size:3
Alignment explanation
Indices: 19905--19958 Score: 62
Period size: 3 Copynumber: 19.0 Consensus size: 3
19895 AAATAAAAAT
*
19905 TAA TAA TAA TAA TAA T-C TAA TAA TAA T-A TAA TAA TAA T-A TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
19950 -AA TTAA TAA
1 TAA -TAA TAA
19959 ATAAAAAGGA
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
2 7 0.16
3 35 0.80
4 2 0.05
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:19927 original size:11 final size:11
Alignment explanation
Indices: 19905--19958 Score: 76
Period size: 11 Copynumber: 5.0 Consensus size: 11
19895 AAATAAAAAT
19905 TAATAATAATAA
1 TAAT-ATAATAA
*
19917 TAATCTAATAA
1 TAATATAATAA
19928 TAATATAATAA
1 TAATATAATAA
19939 TAATATAATAA
1 TAATATAATAA
19950 -AAT-TAATAA
1 TAATATAATAA
19959 ATAAAAAGGA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
9 6 0.15
10 3 0.08
11 27 0.68
12 4 0.10
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATATAATAA
Found at i:20234 original size:17 final size:17
Alignment explanation
Indices: 20193--20236 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
20183 CATTTTGTCT
*
20193 TTTATTATTATTTTTAA
1 TTTATTATTATTTGTAA
20210 -TTATTTATTATTTGTAA
1 TTTA-TTATTATTTGTAA
20227 TTTATTATTA
1 TTTATTATTA
20237 ATATATATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 3 0.12
17 18 0.75
18 3 0.12
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (17 bp):
TTTATTATTATTTGTAA
Found at i:21398 original size:16 final size:16
Alignment explanation
Indices: 21377--21407 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21367 GCCGAAATCT
21377 CCCTAGGGTTGCTGAA
1 CCCTAGGGTTGCTGAA
*
21393 CCCTAGGGTTTCTGA
1 CCCTAGGGTTGCTGA
21408 TGTGCTTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.26, G:0.29, T:0.29
Consensus pattern (16 bp):
CCCTAGGGTTGCTGAA
Found at i:21579 original size:3 final size:3
Alignment explanation
Indices: 21571--21611 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
21561 TTTGGGCATG
*
21571 TAA TAA TAA TAA TATT TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA T
21612 TTTAAAAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 33 0.94
4 2 0.06
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:21960 original size:131 final size:130
Alignment explanation
Indices: 21808--22434 Score: 1051
Period size: 131 Copynumber: 4.8 Consensus size: 130
21798 GCTCGGAAGG
** *
21808 CTTACAGATGACCTAGAGGATTTAAGATCAAAAAAAATTTGAAAATCAGTTTCTTAAAATCTCAT
1 CTTACAGATGACCCGGAGGATTTAAGATCAAAAAAACTTTGAAAATCAGTTTCTTAAAATCTCAT
21873 TTGAAAACATCCTGCACTAGAGGTCTTATGGATGACCCTGAGGTCTTATCATCTTGCACTGTAGG
66 TTGAAAACATCCTGCACT-GAGGTCTTATGGATGACCCTGAGGTCTTATCATCTTGCACTGTAGG
21938 T
130 T
*
21939 CTTACAGATGACCCGGAGGATTTAAGAT-AAAAAAACCTTTGAAAATCAGTTTCTTAAAATCTTA
1 CTTACAGATGACCCGGAGGATTTAAGATCAAAAAAA-CTTTGAAAATCAGTTTCTTAAAATCTCA
*
22003 TTTAAAAACATCCTGCACTGGAGGTCTTATGGATGACCCTGAGGTCTTATCATCTTGCACTGTAG
65 TTTGAAAACATCCTGCACT-GAGGTCTTATGGATGACCCTGAGGTCTTATCATCTTGCACTGTAG
22068 GT
129 GT
* * *
22070 CTTATAGATGACCCGGAGGATTTAAGATCAAAAAACCTTTGAAAATCATTTTCTTAAAATCTCAT
1 CTTACAGATGACCCGGAGGATTTAAGATCAAAAAAACTTTGAAAATCAGTTTCTTAAAATCTCAT
* *
22135 TTGAAAACATCCTGCACTGAAGGTCTTACGGATGGCCCTGAGGTCTTATCATCTTGCACTGTAGG
66 TTGAAAACATCCTGCACTG-AGGTCTTATGGATGACCCTGAGGTCTTATCATCTTGCACTGTAGG
22200 T
130 T
22201 CTTACAGATGACCCGGAGGATTTAAGAT-AAAAAAACCTTTGAAAATCAGTTTCTTAAAATCTCA
1 CTTACAGATGACCCGGAGGATTTAAGATCAAAAAAA-CTTTGAAAATCAGTTTCTTAAAATCTCA
*
22265 TTTGAAAACATCCTGCACTGGAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCACTGTAG
65 TTTGAAAACATCCTGCACT-GAGGTCTTATGGATGACCCTGAGGTCTTATCATCTTGCACTGTAG
22330 GT
129 GT
* *
22332 CTTACAGATGACCCGGAGGATTTAAGATCAAAAAACCTTTGAAAATCAATTTCTTAAAATCTCAT
1 CTTACAGATGACCCGGAGGATTTAAGATCAAAAAAACTTTGAAAATCAGTTTCTTAAAATCTCAT
*
22397 TTGAAAACATCCTGCACTGAAGGTCTTACGGATGACCC
66 TTGAAAACATCCTGCACTG-AGGTCTTATGGATGACCC
22435 GAAGGCTTTT
Statistics
Matches: 468, Mismatches: 21, Indels: 14
0.93 0.04 0.03
Matches are distributed among these distances:
130 15 0.03
131 440 0.94
132 13 0.03
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.30
Consensus pattern (130 bp):
CTTACAGATGACCCGGAGGATTTAAGATCAAAAAAACTTTGAAAATCAGTTTCTTAAAATCTCAT
TTGAAAACATCCTGCACTGAGGTCTTATGGATGACCCTGAGGTCTTATCATCTTGCACTGTAGGT
Found at i:22744 original size:45 final size:46
Alignment explanation
Indices: 22396--22985 Score: 877
Period size: 45 Copynumber: 12.8 Consensus size: 46
22386 TAAAATCTCA
* * *
22396 TTTGAAAACATCCTGCACTGAAGGTCTTACGGATGACCCGAAGGCTTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG--TT
* * *
22444 TTTGAAAACATCCTGCACTGAAGGTCTTACGGATGACCCGAAGGCTTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG--TT
* * *
22492 TTTGAAAACATCCTGCACTGAAGGTCTTACGGATGACCCGAAGGCTTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG--TT
* * **
22540 TTTGAAAACATCCTGCACTGAAGGTCTTATGGATGACCCGAAGGCTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-TT
* *
22587 TTTGAAAACATCATGCACTGAAGGTCTTACGGATGACCCGAAGGCTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-TT
* * *
22634 TTTGAAAATATCATGCACTGAAGGTCTTACGGATGACCCGAAGGTAT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT-T
22681 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-T
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
*
22726 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-T
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
22771 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-T
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
*
22816 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-C
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
22861 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-T
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
22906 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-T
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
22951 TTTGAAAACATCATGCACTGAAGGGCTTACAGATG
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATG
22986 TGGGAAATAG
Statistics
Matches: 529, Mismatches: 12, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
45 257 0.49
46 1 0.00
47 132 0.25
48 139 0.26
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.25
Consensus pattern (46 bp):
TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
Found at i:23680 original size:22 final size:22
Alignment explanation
Indices: 23655--23733 Score: 131
Period size: 22 Copynumber: 3.6 Consensus size: 22
23645 AATAAGGCTT
*
23655 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAGAGAGAATCTA
23677 TCATCTTTGAAGAGAGAATCTA
1 TCATCTTTGAAGAGAGAATCTA
* *
23699 CCATATTTGAAGAGAGAATCTA
1 TCATCTTTGAAGAGAGAATCTA
23721 TCATCTTTGAAGA
1 TCATCTTTGAAGA
23734 ATGTAGATGT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (22 bp):
TCATCTTTGAAGAGAGAATCTA
Found at i:31057 original size:46 final size:46
Alignment explanation
Indices: 30990--31077 Score: 151
Period size: 46 Copynumber: 1.9 Consensus size: 46
30980 AGGTATAAAT
30990 CCTAACCTCATGATTTCTAGTTCCATGCTTTGTTTAGAAAAATTAA
1 CCTAACCTCATGATTTCTAGTTCCATGCTTTGTTTAGAAAAATTAA
*
31036 CCTAA-CTGCATGATTTCTAGTTTCATGCTTTGTTTAGAAAAA
1 CCTAACCT-CATGATTTCTAGTTCCATGCTTTGTTTAGAAAAA
31078 AATGAAATCA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
45 2 0.05
46 38 0.95
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.40
Consensus pattern (46 bp):
CCTAACCTCATGATTTCTAGTTCCATGCTTTGTTTAGAAAAATTAA
Found at i:31507 original size:30 final size:30
Alignment explanation
Indices: 31471--31564 Score: 79
Period size: 30 Copynumber: 3.2 Consensus size: 30
31461 TTTAATACTT
31471 GAAAATAAAATAAAATAAAAATATTAATAA
1 GAAAATAAAATAAAATAAAAATATTAATAA
* * *
31501 GAAAATAATAT-ACATATAAATATT-AT--
1 GAAAATAAAATAAAATAAAAATATTAATAA
* * *
31527 GAAAATAATAAGTATATATAAAAATTTTAAAAA
1 GAAAATAA-AA-TA-AAATAAAAATATTAATAA
31560 GAAAA
1 GAAAA
31565 AATTATAAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
26 8 0.16
27 1 0.02
28 3 0.06
29 11 0.22
30 20 0.41
31 1 0.02
33 5 0.10
ACGTcount: A:0.66, C:0.01, G:0.05, T:0.28
Consensus pattern (30 bp):
GAAAATAAAATAAAATAAAAATATTAATAA
Found at i:31525 original size:29 final size:30
Alignment explanation
Indices: 31483--31583 Score: 84
Period size: 29 Copynumber: 3.4 Consensus size: 30
31473 AAATAAAATA
31483 AAATAAAAATATTAATAAGAAAATAA-TAT
1 AAATAAAAATATTAATAAGAAAATAAGTAT
* *
31512 ACATATAAATATT-ATGAA-AATAATAAGTAT
1 AAATAAAAATATTAAT-AAGAA-AATAAGTAT
* * * *
31542 ATATAAAAATTTTAAAAAGAAAA-AATTAT
1 AAATAAAAATATTAATAAGAAAATAAGTAT
*
31571 AAATTAAATATAT
1 AAA-TAAAAATAT
31584 GAATTTTTAA
Statistics
Matches: 56, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
28 4 0.07
29 25 0.45
30 24 0.43
31 3 0.05
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (30 bp):
AAATAAAAATATTAATAAGAAAATAAGTAT
Found at i:31548 original size:59 final size:54
Alignment explanation
Indices: 31470--31586 Score: 137
Period size: 59 Copynumber: 2.1 Consensus size: 54
31460 ATTTAATACT
* *
31470 TGAAAATAAAATAAAATAAAAATATTAATAAGAAAATAA-TATACATATAAATATTA
1 TGAAAATAAAATAAAATAAAAATATTAAAAAGAAAA-AATTATAAAT-TAAATA-TA
* *
31526 TGAAAATAATAAGTATATATAAAAATTTTAAAAAGAAAAAATTATAAATTAAATATA
1 TGAAAATAA-AA-TA-AAATAAAAATATTAAAAAGAAAAAATTATAAATTAAATATA
31583 TGAA
1 TGAA
31587 TTTTTAATTT
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
56 9 0.17
57 8 0.15
58 10 0.19
59 26 0.49
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (54 bp):
TGAAAATAAAATAAAATAAAAATATTAAAAAGAAAAAATTATAAATTAAATATA
Found at i:31559 original size:28 final size:26
Alignment explanation
Indices: 31502--31559 Score: 62
Period size: 28 Copynumber: 2.2 Consensus size: 26
31492 TATTAATAAG
* *
31502 AAAATAATATACATATAAATATTATG
1 AAAATAATATACATATAAAAATTATA
* *
31528 AAAATAATAAGTATATATAAAAATTTTA
1 AAAATAAT-A-TACATATAAAAATTATA
31556 AAAA
1 AAAA
31560 GAAAAAATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 8 0.31
27 1 0.04
28 17 0.65
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (26 bp):
AAAATAATATACATATAAAAATTATA
Found at i:32254 original size:2 final size:2
Alignment explanation
Indices: 32247--32272 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
32237 AAAAATAAAG
32247 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
32273 AACATTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:32476 original size:3 final size:3
Alignment explanation
Indices: 32468--32532 Score: 82
Period size: 3 Copynumber: 22.7 Consensus size: 3
32458 AAGAAAAATA
* *
32468 AAT AAT AAT AAT AAT AAT -CT AAT AAT AAT AAT AAT AAT -AT TAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
32514 AAT -AT AAT AAA AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AA
32533 ATAAAAAGGA
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
2 5 0.09
3 49 0.91
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:32492 original size:8 final size:8
Alignment explanation
Indices: 32464--32536 Score: 68
Period size: 8 Copynumber: 9.6 Consensus size: 8
32454 TTTCAAGAAA
32464 AATAA-AT
1 AATAATAT
32471 AATAATAAT
1 AATAAT-AT
*
32480 AATAATCT
1 AATAATAT
32488 AAT-A-AT
1 AATAATAT
32494 AATAATAAT
1 AATAAT-AT
*
32503 AATATTAT
1 AATAATAT
32511 AATAATAT
1 AATAATAT
32519 AATAA-A-
1 AATAATAT
32525 AATAATA-
1 AATAATAT
32532 AATAA
1 AATAA
32537 AAAGGACAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 12
0.78 0.06 0.17
Matches are distributed among these distances:
6 9 0.16
7 14 0.25
8 18 0.32
9 15 0.27
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (8 bp):
AATAATAT
Found at i:32492 original size:14 final size:14
Alignment explanation
Indices: 32472--32536 Score: 78
Period size: 14 Copynumber: 4.5 Consensus size: 14
32462 AAAATAAATA
32472 ATAATAATAATAAT
1 ATAATAATAATAAT
*
32486 CTAATAATAATAAT
1 ATAATAATAATAAT
32500 AATAATATTATAATAAT
1 -ATAATA--ATAATAAT
*
32517 ATAATAAAAATAAT
1 ATAATAATAATAAT
32531 A-AATAA
1 ATAATAA
32537 AAAGGACAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
13 5 0.11
14 21 0.47
15 5 0.11
16 6 0.13
17 8 0.18
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.34
Consensus pattern (14 bp):
ATAATAATAATAAT
Found at i:32492 original size:17 final size:16
Alignment explanation
Indices: 32464--32532 Score: 79
Period size: 17 Copynumber: 4.3 Consensus size: 16
32454 TTTCAAGAAA
*
32464 AATAAATAATAATAAT
1 AATAATTAATAATAAT
32480 AATAATCTAATAATAAT
1 AATAAT-TAATAATAAT
*
32497 AATAA-TAAT-ATTAT
1 AATAATTAATAATAAT
*
32511 AATAATATAATAAAAAT
1 AATAAT-TAATAATAAT
32528 AATAA
1 AATAA
32533 ATAAAAAGGA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
14 9 0.20
15 4 0.09
16 9 0.20
17 23 0.51
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAATTAATAATAAT
Found at i:32493 original size:20 final size:20
Alignment explanation
Indices: 32464--32532 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
32454 TTTCAAGAAA
32464 AATA-AATAATAATAATAAT
1 AATATAATAATAATAATAAT
*
32483 AATCTAATAATAATAATAAT
1 AATATAATAATAATAATAAT
*
32503 AATATTATAATAAT-ATAAT
1 AATATAATAATAATAATAAT
32522 AA-A-AATAATAA
1 AATATAATAATAA
32533 ATAAAAAGGA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.16
18 1 0.02
19 10 0.22
20 27 0.60
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.33
Consensus pattern (20 bp):
AATATAATAATAATAATAAT
Found at i:32539 original size:14 final size:14
Alignment explanation
Indices: 32461--32539 Score: 70
Period size: 14 Copynumber: 5.4 Consensus size: 14
32451 ATATTTCAAG
32461 AAAAATAAATAATAAT
1 AAAAAT-AAT-ATAAT
* *
32477 AATAATAATCTAAT
1 AAAAATAATATAAT
*
32491 AATAATAATAATAAT
1 AAAAATAAT-ATAAT
*
32506 ATTATAATAATATAAT
1 A--AAAATAATATAAT
32522 AAAAATAATA-AAT
1 AAAAATAATATAAT
32535 AAAAA
1 AAAAA
32540 GGACAAACAC
Statistics
Matches: 56, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
13 8 0.14
14 21 0.38
15 8 0.14
16 11 0.20
17 8 0.14
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.30
Consensus pattern (14 bp):
AAAAATAATATAAT
Found at i:32790 original size:8 final size:7
Alignment explanation
Indices: 32768--32811 Score: 56
Period size: 7 Copynumber: 6.3 Consensus size: 7
32758 CATTTTGTCT
32768 TTTATTA
1 TTTATTA
32775 -TTATTA
1 TTTATTA
32781 TTTAATTA
1 TTT-ATTA
32789 TTTATTA
1 TTTATTA
32796 TTT-TTAA
1 TTTATT-A
32803 TTTATTA
1 TTTATTA
32810 TT
1 TT
32812 AATATATATT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
6 8 0.24
7 16 0.48
8 9 0.27
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
TTTATTA
Found at i:32790 original size:14 final size:15
Alignment explanation
Indices: 32767--32812 Score: 51
Period size: 17 Copynumber: 3.0 Consensus size: 15
32757 GCATTTTGTC
32767 TTTT-ATTATTATTA
1 TTTTAATTATTATTA
32781 -TTTAATTATTTATTA
1 TTTTAATTA-TTATTA
32796 TTTTTAATTTATTATTA
1 -TTTTAA-TTATTATTA
32813 ATATATATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
13 3 0.11
14 4 0.15
15 6 0.22
17 11 0.41
18 3 0.11
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTAATTATTATTA
Found at i:32792 original size:21 final size:21
Alignment explanation
Indices: 32768--32811 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
32758 CATTTTGTCT
32768 TTTATTATTATT-ATTTAATTA
1 TTTATTATTATTAATTT-ATTA
*
32789 TTTATTATTTTTAATTTATTA
1 TTTATTATTATTAATTTATTA
32810 TT
1 TT
32812 AATATATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTATTATTATTAATTTATTA
Found at i:34123 original size:3 final size:3
Alignment explanation
Indices: 34115--34183 Score: 102
Period size: 3 Copynumber: 22.7 Consensus size: 3
34105 GTTTGGGCCT
*
34115 ATA ATA ATA ATA ATA TTTA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
34161 TTT ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA AT
34184 TTTAAAAATA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
3 57 0.97
4 2 0.03
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
ATA
Found at i:40009 original size:64 final size:63
Alignment explanation
Indices: 39873--40010 Score: 154
Period size: 64 Copynumber: 2.2 Consensus size: 63
39863 GCACTAAGGG
* * * ****
39873 TGCATCGATGCATAAAATGCATTCGATGTTTTAAAATAGCTTGAGTGTATCGATGCATGGCTTG
1 TGCATCGATGCATAAAATGCATTCGATGTTTTAAAAAAGCTGGAGTGCATCGATGCAT-GAAAA
*
39937 TGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAAATC-GGAGTGCATCGATGCAT-AAAA
1 TGCATCGATGCATAAAATGCATTCGATGTTTT-A-AAAAAGCTGGAGTGCATCGATGCATGAAAA
40000 TGCATTCGATG
1 TGCA-TCGATG
40011 TTCAATTTAT
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
63 4 0.06
64 38 0.60
65 16 0.25
66 5 0.08
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (63 bp):
TGCATCGATGCATAAAATGCATTCGATGTTTTAAAAAAGCTGGAGTGCATCGATGCATGAAAA
Found at i:46655 original size:22 final size:22
Alignment explanation
Indices: 46612--46652 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
46602 AAGACTATTT
* *
46612 TCATTTTTTTAATTTTGAAATA
1 TCATTTTTGTAATTGTGAAATA
46634 TCATTTTTGT-ATTGTGAAA
1 TCATTTTTGTAATTGTGAAA
46653 ATAGAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.29, C:0.05, G:0.10, T:0.56
Consensus pattern (22 bp):
TCATTTTTGTAATTGTGAAATA
Found at i:55651 original size:121 final size:121
Alignment explanation
Indices: 55494--55717 Score: 385
Period size: 121 Copynumber: 1.9 Consensus size: 121
55484 CTTTTGTTCA
* * * *
55494 ATTTACTTTTTATTTTATTTTAGTGTCATTTGTTAAAACGTTAAAGGCAAACTAACGTGGTACTT
1 ATTTACTTTTTATTTCATTTTAGTGTCATTTGTTAAAAAGTTAAAGGCAAACTAACATAGTACTT
* *
55559 TTTTAATATTTTTTAATTACCTCAATTTTTAATTTTTTTTCAAAATCACACATAAC
66 TTTTAATATTTTTTAATTACCTCAACTTTTAAATTTTTTTCAAAATCACACATAAC
55615 ATTTACTTTTTATTTCATTTTAGTGTCATTTGTTAAAAAGTTAAAGGCAAACTAACATAGTACTT
1 ATTTACTTTTTATTTCATTTTAGTGTCATTTGTTAAAAAGTTAAAGGCAAACTAACATAGTACTT
*
55680 TTTTAATATTTTTTAGTTACCTCAACTTTTAAATTTTT
66 TTTTAATATTTTTTAATTACCTCAACTTTTAAATTTTT
55718 AATATTTTGG
Statistics
Matches: 96, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
121 96 1.00
ACGTcount: A:0.31, C:0.12, G:0.08, T:0.50
Consensus pattern (121 bp):
ATTTACTTTTTATTTCATTTTAGTGTCATTTGTTAAAAAGTTAAAGGCAAACTAACATAGTACTT
TTTTAATATTTTTTAATTACCTCAACTTTTAAATTTTTTTCAAAATCACACATAAC
Found at i:55792 original size:275 final size:266
Alignment explanation
Indices: 55300--55861 Score: 892
Period size: 275 Copynumber: 2.1 Consensus size: 266
55290 TCCATTTTAG
* * *
55300 TACCTCAACTTTTAAATTTTTTTCAAAATCATACCTAACATTTACTTTTTATTTCATTTTAGTGT
1 TACCTCAACTTTTAATTTTTTTTCAAAATCACACATAACATTTACTTTTTATTTCATTTTAGTGT
* * *
55365 CATTTGTTAAAAAGTTAAAGGCTAACTAACGTGGTACTTTTTTTAATATTTTTTAGTTACCTCAA
66 CATTTGTTAAAAAGTTAAAGGCAAACTAACATAGTACTTTTTTTAATATTTTTTAGTTACCTCAA
*
55430 CTTTTAATTTTTTAATATTTTAGGTAAACTACATGTTTAATATCTAAATTATCACTTTTGTTCAA
131 CTTTTAAATTTTTAATATTTTAGGTAAACTACATGTTTAATATCTAAATTATCACTTTTGTTCAA
* *
55495 TTTACTTTTTATTTTATTTTAGTGTCATTTGTTAAAACGTTAAAGGCAAACTAACGTGGTACTTT
196 TTTACTTTTTATTTCATTTTA--GT-A-----T-AAA-GTTAAAGGCAAACTAACGTGGTACCTT
55560 TTTAATATTTTTTAAT
251 TTTAATATTTTTTAAT
*
55576 TACCTCAATTTTTAATTTTTTTTCAAAATCACACATAACATTTACTTTTTATTTCATTTTAGTGT
1 TACCTCAACTTTTAATTTTTTTTCAAAATCACACATAACATTTACTTTTTATTTCATTTTAGTGT
55641 CATTTGTTAAAAAGTTAAAGGCAAACTAACATAGTAC-TTTTTTAATATTTTTTAGTTACCTCAA
66 CATTTGTTAAAAAGTTAAAGGCAAACTAACATAGTACTTTTTTTAATATTTTTTAGTTACCTCAA
* * *
55705 CTTTTAAATTTTTAATATTTTGGGTAAATTACATGTTTAATATCTAAATTATCACTTTTGTTCCA
131 CTTTTAAATTTTTAATATTTTAGGTAAACTACATGTTTAATATCTAAATTATCACTTTTGTTCAA
*
55770 TTTACTTTTTATTTCATTTTAGTATCAAGTTAAAGGCAAACTAACGTGGTACCTTTTTAATATTT
196 TTTACTTTTTATTTCATTTTAGTATAAAGTTAAAGGCAAACTAACGTGGTACCTTTTTAATATTT
*
55835 TTTAGT
261 TTTAAT
55841 TACCTCAACTTTTAATTTTTT
1 TACCTCAACTTTTAATTTTTT
55862 AATATTTTGG
Statistics
Matches: 270, Mismatches: 16, Indels: 11
0.91 0.05 0.04
Matches are distributed among these distances:
265 61 0.23
266 2 0.01
267 1 0.00
272 1 0.00
273 2 0.01
275 108 0.40
276 95 0.35
ACGTcount: A:0.31, C:0.12, G:0.08, T:0.49
Consensus pattern (266 bp):
TACCTCAACTTTTAATTTTTTTTCAAAATCACACATAACATTTACTTTTTATTTCATTTTAGTGT
CATTTGTTAAAAAGTTAAAGGCAAACTAACATAGTACTTTTTTTAATATTTTTTAGTTACCTCAA
CTTTTAAATTTTTAATATTTTAGGTAAACTACATGTTTAATATCTAAATTATCACTTTTGTTCAA
TTTACTTTTTATTTCATTTTAGTATAAAGTTAAAGGCAAACTAACGTGGTACCTTTTTAATATTT
TTTAAT
Found at i:55829 original size:144 final size:144
Alignment explanation
Indices: 55652--55916 Score: 485
Period size: 144 Copynumber: 1.8 Consensus size: 144
55642 ATTTGTTAAA
*
55652 AAGTTAAAGGCAAACTAACATAGTACTTTTTTAATATTTTTTAGTTACCTCAACTTTTAAATTTT
1 AAGTTAAAGGCAAACTAACATAGTACCTTTTTAATATTTTTTAGTTACCTCAACTTTTAAATTTT
*
55717 TAATATTTTGGGTAAATTACATGTTTAATATCTAAATTATCACTTTTGTTCCATTTACTTTTTAT
66 TAATATTTTGGGTAAACTACATGTTTAATATCTAAATTATCACTTTTGTTCCATTTACTTTTTAT
55782 TTCATTTTAGTATC
131 TTCATTTTAGTATC
* * *
55796 AAGTTAAAGGCAAACTAACGTGGTACCTTTTTAATATTTTTTAGTTACCTCAACTTTTAATTTTT
1 AAGTTAAAGGCAAACTAACATAGTACCTTTTTAATATTTTTTAGTTACCTCAACTTTTAAATTTT
55861 TAATATTTTGGGTAAACTACATGTTTAATATCTAAATTATCACTTTTGTTCCATTT
66 TAATATTTTGGGTAAACTACATGTTTAATATCTAAATTATCACTTTTGTTCCATTT
55917 TAGTATCTCA
Statistics
Matches: 116, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
144 116 1.00
ACGTcount: A:0.31, C:0.12, G:0.09, T:0.48
Consensus pattern (144 bp):
AAGTTAAAGGCAAACTAACATAGTACCTTTTTAATATTTTTTAGTTACCTCAACTTTTAAATTTT
TAATATTTTGGGTAAACTACATGTTTAATATCTAAATTATCACTTTTGTTCCATTTACTTTTTAT
TTCATTTTAGTATC
Found at i:57270 original size:5 final size:5
Alignment explanation
Indices: 57260--57312 Score: 83
Period size: 5 Copynumber: 11.0 Consensus size: 5
57250 ACGACGGCAG
*
57260 CTCAT CTCAT CTCAC CTCAT CTCAT CTCAT CTCA- -TCAT CTCAT CTCAT
1 CTCAT CTCAT CTCAT CTCAT CTCAT CTCAT CTCAT CTCAT CTCAT CTCAT
57308 CTCAT
1 CTCAT
57313 TTGGGCACAA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
3 3 0.07
5 41 0.93
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.38
Consensus pattern (5 bp):
CTCAT
Found at i:67798 original size:11 final size:11
Alignment explanation
Indices: 67782--67818 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
67772 CCCGATTTTA
67782 CCGGTTTTCAG
1 CCGGTTTTCAG
*
67793 CCGGTTCT-A-
1 CCGGTTTTCAG
67802 CCGGTTTTCAG
1 CCGGTTTTCAG
67813 CCGGTT
1 CCGGTT
67819 CATTGCCAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 7 0.32
10 2 0.09
11 13 0.59
ACGTcount: A:0.08, C:0.30, G:0.27, T:0.35
Consensus pattern (11 bp):
CCGGTTTTCAG
Found at i:67805 original size:20 final size:20
Alignment explanation
Indices: 67780--67819 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
67770 ACCCCGATTT
67780 TACCGGTTTTCAGCCGGTTC
1 TACCGGTTTTCAGCCGGTTC
67800 TACCGGTTTTCAGCCGGTTC
1 TACCGGTTTTCAGCCGGTTC
67820 ATTGCCAGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.10, C:0.30, G:0.25, T:0.35
Consensus pattern (20 bp):
TACCGGTTTTCAGCCGGTTC
Found at i:69185 original size:54 final size:54
Alignment explanation
Indices: 68960--69452 Score: 398
Period size: 54 Copynumber: 9.2 Consensus size: 54
68950 GAGCTGGTTT
* * *
68960 AATTTGCTCTACT-CTTCTATAACAAAGGAATACTAGAACTTGATCTA----TTGTA
1 AATTTGCTCTACTCCTTC-ATAACAAAGGAATGCTAGAGCTT-A-CTAGGTCTTGGA
* * * * * * ** **
69012 AA-GTACTCTACTCCTCCATAACAAAGGAACGCTATAGCTTGCTTA-AACTTATA
1 AATTTGCTCTACTCCTTCATAACAAAGGAATGCTAGAGCTTAC-TAGGTCTTGGA
* * * * * * * **
69065 AATTTGCTCCACTCCTCCGTAAAAAAGTAATGCTAGAGCTTTTGCTCGGTCTTTAA
1 AATTTGCTCTACTCCTTCATAACAAAGGAATGCTAGAGC--TTACTAGGTCTTGGA
* * * *
69121 AATTTACTCTATTCCTTCATAACAAAGGAATGTTAGAGCTTACTAGGTATTGGA
1 AATTTGCTCTACTCCTTCATAACAAAGGAATGCTAGAGCTTACTAGGTCTTGGA
* * *
69175 AATTTGCTCTACTCCTCCATAACAAAGGAATGCTAGAGCTTACTTGATCTTGGA
1 AATTTGCTCTACTCCTTCATAACAAAGGAATGCTAGAGCTTACTAGGTCTTGGA
* * *
69229 AATTTGCTCTACTCCTTCATAACAAA-GAACGCTAGAACTTACTCGGTCTTGGA
1 AATTTGCTCTACTCCTTCATAACAAAGGAATGCTAGAGCTTACTAGGTCTTGGA
* * *
69282 AATTTGCTATACTCCTTCATAACAAAGGAATGCTAGAACTT-CTCA-GTCTTAGA
1 AATTTGCTCTACTCCTTCATAACAAAGGAATGCTAGAGCTTACT-AGGTCTTGGA
* * * * * **
69335 AATTTGAC-CTACTCCTTCATAGCAAAAGAATGCTAAAGCTTGCTTGGTCTTATA
1 AATTTG-CTCTACTCCTTCATAACAAAGGAATGCTAGAGCTTACTAGGTCTTGGA
* * * *
69389 AATTTTCTCTACTCCTCCATAACAAAGGAACGCTAGAGCTTACTCA-GTCTTAGA
1 AATTTGCTCTACTCCTTCATAACAAAGGAATGCTAGAGCTTACT-AGGTCTTGGA
*
69443 AATTTACTCT
1 AATTTGCTCT
69453 TCCAATTTGA
Statistics
Matches: 357, Mismatches: 68, Indels: 30
0.78 0.15 0.07
Matches are distributed among these distances:
49 1 0.00
50 2 0.01
51 27 0.08
52 5 0.01
53 98 0.27
54 184 0.52
55 1 0.00
56 39 0.11
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.33
Consensus pattern (54 bp):
AATTTGCTCTACTCCTTCATAACAAAGGAATGCTAGAGCTTACTAGGTCTTGGA
Found at i:69297 original size:107 final size:107
Alignment explanation
Indices: 69064--69452 Score: 403
Period size: 107 Copynumber: 3.6 Consensus size: 107
69054 TTAAACTTAT
* * * * * * * *
69064 AAATTTGCTCCACTCCTCCGTAAAAAAGTAATGCTAGAGCTTTTGCTCGGTCTTTA-AAATTTAC
1 AAATTTGCTCTACTCCTCCATAACAAAGGAATGCTAGAGC--TTACTTGATC-TTAGAAATTTGC
* * * *
69128 TCTATTCCTTCATAACAAAGGAATGTTAGAGCTTACTAGGTATTGG
63 TCTACTCCTTCATAACAAA-GAATGCTAGAACTTACTAGGTCTTGG
*
69174 AAATTTGCTCTACTCCTCCATAACAAAGGAATGCTAGAGCTTACTTGATCTTGGAAATTTGCTCT
1 AAATTTGCTCTACTCCTCCATAACAAAGGAATGCTAGAGCTTACTTGATCTTAGAAATTTGCTCT
* *
69239 ACTCCTTCATAACAAAGAACGCTAGAACTTACTCGGTCTTGG
66 ACTCCTTCATAACAAAGAATGCTAGAACTTACTAGGTCTTGG
* * * *
69281 AAATTTGCTATACTCCTTCATAACAAAGGAATGCTAGAACTT-C-TCAGTCTTAGAAATTTGAC-
1 AAATTTGCTCTACTCCTCCATAACAAAGGAATGCTAGAGCTTACTTGA-TCTTAGAAATTTG-CT
* * * **
69343 CTACTCCTTCATAGCAAAAGAATGCTA-AAGCTTGCTTGGTCTTAT
64 CTACTCCTTCATAAC-AAAGAATGCTAGAA-CTTACTAGGTCTTGG
* * * *
69388 AAATTTTCTCTACTCCTCCATAACAAAGGAACGCTAGAGCTTAC-TCAGTCTTAGAAATTTACTC
1 AAATTTGCTCTACTCCTCCATAACAAAGGAATGCTAGAGCTTACTTGA-TCTTAGAAATTTGCTC
69452 T
65 T
69453 TCCAATTTGA
Statistics
Matches: 240, Mismatches: 32, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
105 2 0.01
106 29 0.12
107 122 0.51
108 51 0.21
110 36 0.15
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.33
Consensus pattern (107 bp):
AAATTTGCTCTACTCCTCCATAACAAAGGAATGCTAGAGCTTACTTGATCTTAGAAATTTGCTCT
ACTCCTTCATAACAAAGAATGCTAGAACTTACTAGGTCTTGG
Found at i:70638 original size:24 final size:23
Alignment explanation
Indices: 70611--70655 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
70601 CAAGAGAAAT
70611 TGTCTTAAAG-GAGACAAAAATCCA
1 TGTC-TAAAGAGAGA-AAAAATCCA
*
70635 TGTCTCAAGAGAGAAAAAATC
1 TGTCTAAAGAGAGAAAAAATC
70656 TTTATTTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.47, C:0.16, G:0.18, T:0.20
Consensus pattern (23 bp):
TGTCTAAAGAGAGAAAAAATCCA
Found at i:70710 original size:39 final size:39
Alignment explanation
Indices: 70636--70733 Score: 117
Period size: 40 Copynumber: 2.5 Consensus size: 39
70626 AAAAATCCAT
*
70636 GTCTCAAGAGAGAAAAAATCTTTATTTCTACGGAAATAG
1 GTCTCAAGAGAGAAAAAATCTTTATTTCTAAGGAAATAG
* * *
70675 GTCTCAAGGGAGATAAAAATCTTTATTTC-AAGGAAAACAA
1 GTCTCAAGAGAGA-AAAAATCTTTATTTCTAAGG-AAATAG
*
70715 GTTTCAAGAGAGGAAAAAA
1 GTCTCAAGAGA-GAAAAAA
70734 ATATTTGTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
39 15 0.30
40 33 0.66
41 2 0.04
ACGTcount: A:0.45, C:0.11, G:0.19, T:0.24
Consensus pattern (39 bp):
GTCTCAAGAGAGAAAAAATCTTTATTTCTAAGGAAATAG
Found at i:70865 original size:37 final size:37
Alignment explanation
Indices: 70692--70959 Score: 166
Period size: 37 Copynumber: 7.0 Consensus size: 37
70682 GGGAGATAAA
* * * *
70692 AATCTTTATTTCAAGGAAAACAAGTTTCAAGAGAGGAAAAA
1 AATCTTTGTTTCAAGGGAAACAAGTCTCAAGAGA-G---AC
* * * *
70733 AATATTTGTTTCAAGAGAAACATA-TCTCAAAGTAGAAAA
1 AATCTTTGTTTCAAGGGAAACA-AGTCTC-AAG-AGAGAC
* * * * *
70772 AATATTTGTTTCAGGGGAAACATGTGTCAAGGGAGAC
1 AATCTTTGTTTCAAGGGAAACAAGTCTCAAGAGAGAC
* *
70809 AATCTTTGATTCAATGGAAACAAGTCTCAAGAGAGAC
1 AATCTTTGTTTCAAGGGAAACAAGTCTCAAGAGAGAC
* *
70846 AAT-TTATGTTTTAAGGGAAACAAGTCTTAAG-GAGAC
1 AATCTT-TGTTTCAAGGGAAACAAGTCTCAAGAGAGAC
* * * * * *
70882 AAAATC-TTATTACAACGGAAACAGGTCTGAAGGGAGAC
1 --AATCTTTGTTTCAAGGGAAACAAGTCTCAAGAGAGAC
* * *
70920 AAAATCTTTGTTTTAAGAGAAACATGTCTCAAGAGAGAC
1 --AATCTTTGTTTCAAGGGAAACAAGTCTCAAGAGAGAC
70959 A
1 A
70960 TAATCATTAT
Statistics
Matches: 179, Mismatches: 38, Indels: 24
0.74 0.16 0.10
Matches are distributed among these distances:
36 7 0.04
37 77 0.43
38 18 0.10
39 49 0.27
41 21 0.12
42 4 0.02
43 3 0.02
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.26
Consensus pattern (37 bp):
AATCTTTGTTTCAAGGGAAACAAGTCTCAAGAGAGAC
Found at i:70958 original size:39 final size:38
Alignment explanation
Indices: 70633--70980 Score: 226
Period size: 39 Copynumber: 9.0 Consensus size: 38
70623 GACAAAAATC
* * *
70633 CATGTCTCAAGAGAGAAAAAATCTTTATTTCTACGGAAA
1 CATGTCTCAAGAGAGACAAAATCTTTGTTTC-AAGGAAA
* * * * *
70672 TAGGTCTCAAGGGAGATAAAAATCTTTATTTCAAGGAAAA
1 CATGTCTCAAGAGAGA-CAAAATCTTTGTTTCAAGG-AAA
* * * *
70712 CAAGTTTCAAGAGAGGAAAAAAATATTTGTTTCAAGAGAAA
1 CATGTCTCAAGAGA-G-ACAAAATCTTTGTTTCAAG-GAAA
* * * *
70753 CATATCTCAA-AGTAGAAAAAATATTTGTTTCAGGGGAAA
1 CATGTCTCAAGAG-AGACAAAATCTTTGTTTCA-AGGAAA
* * *
70792 CATGTGTCAAGGGAGAC--AATCTTTGATTCAATGGAAA
1 CATGTCTCAAGAGAGACAAAATCTTTGTTTCAA-GGAAA
* *
70829 CAAGTCTCAAGAGAGAC--AAT-TTATGTTTTAAGGGAAA
1 CATGTCTCAAGAGAGACAAAATCTT-TGTTTCAA-GGAAA
* * * *
70866 CAAGTCTTAAG-GAGACAAAATC-TTATTACAACGGAAA
1 CATGTCTCAAGAGAGACAAAATCTTTGTTTCAA-GGAAA
* * * *
70903 CAGGTCTGAAGGGAGACAAAATCTTTGTTTTAAGAGAAA
1 CATGTCTCAAGAGAGACAAAATCTTTGTTTCAAG-GAAA
* * *
70942 CATGTCTCAAGAGAGACATAATCATTATTTCAAGAGAAA
1 CATGTCTCAAGAGAGACAAAATCTTTGTTTCAAG-GAAA
70981 TATTCTTAAG
Statistics
Matches: 249, Mismatches: 44, Indels: 32
0.77 0.14 0.10
Matches are distributed among these distances:
36 7 0.03
37 73 0.29
38 16 0.06
39 90 0.36
40 33 0.13
41 28 0.11
42 2 0.01
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.26
Consensus pattern (38 bp):
CATGTCTCAAGAGAGACAAAATCTTTGTTTCAAGGAAA
Found at i:72699 original size:60 final size:60
Alignment explanation
Indices: 72590--72706 Score: 137
Period size: 60 Copynumber: 1.9 Consensus size: 60
72580 AGAAGAAAAC
* * * *
72590 TTGTGATTTCAAGTGAAAGAGCAGGGGATCATGTGATTTTGAGAAAAAGATAAAGGGGTA
1 TTGTCATTTCAAGCGAAAGAGCAAGGGATCATGTAATTTTGAGAAAAAGATAAAGGGGTA
* * ** *
72650 TTGTCATTTTAAGCGAAAGATCAAGGGATC-TCGTAATTTTGAGTGAAAGATCAAGGG
1 TTGTCATTTCAAGCGAAAGAGCAAGGGATCAT-GTAATTTTGAGAAAAAGATAAAGGG
72707 ATTTCTCGTA
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
59 1 0.02
60 46 0.98
ACGTcount: A:0.35, C:0.08, G:0.29, T:0.28
Consensus pattern (60 bp):
TTGTCATTTCAAGCGAAAGAGCAAGGGATCATGTAATTTTGAGAAAAAGATAAAGGGGTA
Found at i:72719 original size:32 final size:29
Alignment explanation
Indices: 72655--72770 Score: 108
Period size: 30 Copynumber: 3.8 Consensus size: 29
72645 GGGTATTGTC
*
72655 ATTTTAAGCGAAAGATCAAGGGATCTCGTA
1 ATTTT-AGTGAAAGATCAAGGGATCTCGTA
72685 ATTTTGAGTGAAAGATCAAGGGATTTCTCGTA
1 ATTTT-AGTGAAAGATCAAGGGA--TCTCGTA
* * * *
72717 ATTTTAGGTGAATGATCATGAGATCAT-ATA
1 ATTTTA-GTGAAAGATCAAGGGATC-TCGTA
*
72747 ATTTTAGTTGAAAGATCGAGGGAT
1 ATTTTAG-TGAAAGATCAAGGGAT
72771 TTCATTTTGG
Statistics
Matches: 71, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
29 1 0.01
30 43 0.61
31 2 0.03
32 25 0.35
ACGTcount: A:0.34, C:0.09, G:0.24, T:0.33
Consensus pattern (29 bp):
ATTTTAGTGAAAGATCAAGGGATCTCGTA
Found at i:74926 original size:30 final size:30
Alignment explanation
Indices: 74891--74987 Score: 76
Period size: 30 Copynumber: 3.2 Consensus size: 30
74881 GCCAAAGTTG
74891 ATCAATTTCCAAATTAGGAACAATATTAGA
1 ATCAATTTCCAAATTAGGAACAATATTAGA
**** *
74921 ATCAATCAAGAAATT--GAACTCAA-ATTTATTA
1 ATCAATTTCCAAATTAGGAA--CAATA-TTA-GA
74952 A-CTAATTTCCAAATTAGGAACAATATTAGA
1 ATC-AATTTCCAAATTAGGAACAATATTAGA
74982 ATCAAT
1 ATCAAT
74988 CAAGAAATTG
Statistics
Matches: 48, Mismatches: 10, Indels: 18
0.63 0.13 0.24
Matches are distributed among these distances:
28 3 0.06
29 1 0.02
30 23 0.48
31 17 0.35
32 1 0.02
33 3 0.06
ACGTcount: A:0.47, C:0.13, G:0.08, T:0.31
Consensus pattern (30 bp):
ATCAATTTCCAAATTAGGAACAATATTAGA
Found at i:76855 original size:26 final size:26
Alignment explanation
Indices: 76826--76886 Score: 113
Period size: 26 Copynumber: 2.3 Consensus size: 26
76816 TTTGAACTTT
*
76826 GGCCGAAGAGATTGTTGACCGGAGTA
1 GGCCGAAGAGATTGTTGAACGGAGTA
76852 GGCCGAAGAGATTGTTGAACGGAGTA
1 GGCCGAAGAGATTGTTGAACGGAGTA
76878 GGCCGAAGA
1 GGCCGAAGA
76887 TCATCGATCC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.30, C:0.15, G:0.39, T:0.16
Consensus pattern (26 bp):
GGCCGAAGAGATTGTTGAACGGAGTA
Found at i:78981 original size:11 final size:11
Alignment explanation
Indices: 78967--78991 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
78957 TCTGTAATAT
78967 ATATATATTTA
1 ATATATATTTA
78978 ATATATATTTA
1 ATATATATTTA
78989 ATA
1 ATA
78992 ATAATAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
ATATATATTTA
Found at i:78995 original size:3 final size:3
Alignment explanation
Indices: 78987--79114 Score: 247
Period size: 3 Copynumber: 42.7 Consensus size: 3
78977 AATATATATT
*
78987 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
79035 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
79083 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
79115 TGGATAAAAA
Statistics
Matches: 123, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 123 1.00
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:79897 original size:225 final size:226
Alignment explanation
Indices: 79434--80328 Score: 1512
Period size: 225 Copynumber: 4.0 Consensus size: 226
79424 AGAGTCATTC
* * *
79434 AAAAGGTTGAATAAATTCTTCTTATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
79499 TATGAAC-TTCTCTGGAAAAGATAATCCATCAATTGATGAATTCAGGTAAAAGGTTGAACAAATT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGAATTCAGGTAAAAGGTTGAACAAATT
79563 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTT-TCTGGA
131 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
79627 AAAGATGATCCATCAAATGATGAATTCAGGT
196 AAAGATGATCCATCAAATGATGAATTCAGGT
79658 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
79723 TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGAATTCAGGT-AAAGGTTGAACAAATT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGAATTCAGGTAAAAGGTTGAACAAATT
79787 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
131 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
79852 AAAGATGATCCATCAAATGATGAATTCAGGT
196 AAAGATGATCCATCAAATGATGAATTCAGGT
*
79883 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTTAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
79948 TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGAATTCAGGTAAAAGGTTGAACAAATT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGAATTCAGGTAAAAGGTTGAACAAATT
80013 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
131 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
*
80078 AAAGTTGATCCATCAAATGATGAATTCAGGT
196 AAAGATGATCCATCAAATGATGAATTCAGGT
80109 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCT
* * * * * *** *
80174 CATTATGAACTCTAC-CTGGCAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACA
63 CATTATGAACT-TTCTCTGGAAAAGATGATCCATCAAATGATGAATTCAGGTAAAAGGTTGAACA
* *
80238 AGTTCTTCTCATTATGAAGTTCTTCTTCCTTCTTCAGATGATGTTCTTCTCATTATGAAC-TTCT
127 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGA-GTTCTTCTCATTATGAACTTTCT
* * * *
80302 TTGGAAAAGCTGCTCCATCAAGTGATG
191 CTGGAAAAGATGATCCATCAAATGATG
80329 GATTTGAATC
Statistics
Matches: 640, Mismatches: 23, Indels: 11
0.95 0.03 0.02
Matches are distributed among these distances:
224 143 0.22
225 187 0.29
226 162 0.25
229 128 0.20
230 20 0.03
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (226 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGAATTCAGGTAAAAGGTTGAACAAATT
CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
AAAGATGATCCATCAAATGATGAATTCAGGT
Found at i:79969 original size:113 final size:113
Alignment explanation
Indices: 79434--80328 Score: 1512
Period size: 113 Copynumber: 7.9 Consensus size: 113
79424 AGAGTCATTC
* * *
79434 AAAAGGTTGAATAAATTCTTCTTATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
79499 TATGAAC-TTCTCTGGAAAAGATAATCCATCAATTGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGAATTCAGGT
79546 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
79611 TATGAACTTT-TCTGGAAAAGATGATCCATCAAATGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGAATTCAGGT
79658 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
79723 TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGAATTCAGGT
79771 -AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
79835 TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGAATTCAGGT
*
79883 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTTAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
79948 TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGAATTCAGGT
79996 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
80061 TATGAACTTTCTCTGGAAAAGTTGATCCATCAAATGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGAATTCAGGT
80109 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCT
* * * * * ***
80174 CATTATGAACTCTAC-CTGGCAATGTTGATCCATCAAATGATGAATTTAAAC
63 CATTATGAACT-TTCTCTGGAAAAGATGATCCATCAAATGATGAATTCAGGT
* * *
80225 AAAAAGTTGAACAAGTTCTTCTCATTATGAAGTTCTTCTTCCTTCTTCAGATGATGTTCTTCTCA
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGA-GTTCTTCTCA
* * * *
80290 TTATGAAC-TTCTTTGGAAAAGCTGCTCCATCAAGTGATG
65 TTATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATG
80329 GATTTGAATC
Statistics
Matches: 749, Mismatches: 25, Indels: 17
0.95 0.03 0.02
Matches are distributed among these distances:
112 293 0.39
113 336 0.45
114 18 0.02
116 100 0.13
117 2 0.00
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (113 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGAATTCAGGT
Found at i:81199 original size:83 final size:83
Alignment explanation
Indices: 81060--81699 Score: 1080
Period size: 83 Copynumber: 7.7 Consensus size: 83
81050 GTTCCTACCA
* *
81060 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACAAATTCATCTTCTAAATT
81125 CAATGATTGGTTCTGTCC
66 CAATGATTGGTTCTGTCC
81143 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACAAATTCATCTTCTAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACAAATTCATCTTCTAAATT
81208 CAATGATTGGTTCTG-CC
66 CAATGATTGGTTCTGTCC
*
81225 AAACCAGATCAGATAACTCAAAGAACACTTCTAGAAGATGCTATTGACAAATTCATCTTCTAAAT
1 -AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACAAATTCATCTTCTAAAT
81290 TCAATGATTGGTTCTG-CC
65 TCAATGATTGGTTCTGTCC
*
81308 AAACCAGATCAGATAACTCAAAGAACACTTCTAGAAGATGCTATTGACAAATTCATCTTCTAAAT
1 -AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACAAATTCATCTTCTAAAT
81373 TCAATGATTGGTTCTG-CC
65 TCAATGATTGGTTCTGTCC
* *
81391 AAACCAGATCAGATAACTCAAAGAACACTTCTAGAAGATGCTATTGGCAAATTCATCTTCTAAAT
1 -AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACAAATTCATCTTCTAAAT
81456 TCAATGATT-GTTCTGTCC
65 TCAATGATTGGTTCTGTCC
*
81474 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCAAATTCATCTTCTAAAC
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGA-CAAATTCATCTTCTAAAT
81538 TCAATGATTGGTTCTGTCC
65 TCAATGATTGGTTCTGTCC
* *
81557 AACCAGATCAAATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCAAATTCATCTTCTAAAC
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGA-CAAATTCATCTTCTAAAT
81621 TCAATGATT-GTTCTGTCC
65 TCAATGATTGGTTCTGTCC
*
81639 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGAAAATTCATCTTCTA
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGA-CAAATTCATCTTCTA
81700 GTTAATGTTT
Statistics
Matches: 543, Mismatches: 10, Indels: 9
0.97 0.02 0.02
Matches are distributed among these distances:
81 2 0.00
82 143 0.26
83 398 0.73
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (83 bp):
AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACAAATTCATCTTCTAAATT
CAATGATTGGTTCTGTCC
Found at i:82466 original size:19 final size:19
Alignment explanation
Indices: 82444--82480 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
82434 AATTATGTTA
82444 ATTTATAAAAATAAATTGG
1 ATTTATAAAAATAAATTGG
* *
82463 ATTTCTACAAATAAATTG
1 ATTTATAAAAATAAATTG
82481 AATCTCAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (19 bp):
ATTTATAAAAATAAATTGG
Found at i:82845 original size:11 final size:10
Alignment explanation
Indices: 82828--82878 Score: 66
Period size: 10 Copynumber: 5.0 Consensus size: 10
82818 TTGACCCTCC
82828 TTTTTCTTTT
1 TTTTTCTTTT
*
82838 TCTTTTCTCTT
1 T-TTTTCTTTT
*
82849 TTTTTCCTTT
1 TTTTTCTTTT
82859 TTTTTCTTTT
1 TTTTTCTTTT
*
82869 TCTTTCTTTT
1 TTTTTCTTTT
82879 CTTCAAGCAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
10 26 0.74
11 9 0.26
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:82848 original size:7 final size:6
Alignment explanation
Indices: 82827--82873 Score: 53
Period size: 6 Copynumber: 7.7 Consensus size: 6
82817 CTTGACCCTC
82827 CTTTTT CTTTTT CTTTTCT CTTTTT -TTCCTTT -TTTTT CTTTTT CTTT
1 CTTTTT CTTTTT CTTTT-T CTTTTT CTT--TTT CTTTTT CTTTTT CTTT
82874 CTTTTCTTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
5 5 0.14
6 21 0.57
7 11 0.30
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
CTTTTT
Done.