Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009643.1 Hibiscus syriacus cultivar Beakdansim tig00117056_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: 8859806
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 41
Found at i:1478189 original size:40 final size:40
Alignment explanation
Indices: 1478136--1478237 Score: 186
Period size: 40 Copynumber: 2.5 Consensus size: 40
1478126 TCTTTTCCAG
*
1478136 AGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
1 AGAA-GTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGA
1478177 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGA
1 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGA
1478217 AGAAGTTCATAATGAGAAGAA
1 AGAAGTTCATAATGAGAAGAA
1478238 TTTGTTCAAC
Statistics
Matches: 60, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
40 56 0.93
41 4 0.07
ACGTcount: A:0.49, C:0.09, G:0.25, T:0.18
Consensus pattern (40 bp):
AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGA
Found at i:1478385 original size:113 final size:113
Alignment explanation
Indices: 1478179--1478702 Score: 874
Period size: 113 Copynumber: 4.7 Consensus size: 113
1478169 AAGGAAGAAG
*
1478179 AAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
* *
1478244 CAACCTTTTACTTGAATCCATCATTTGATGGATCATCATTTCCAGAGA
66 CAACCTTTTACCTGAATCCATCAATTGATGGATCATCATTTCCAGAGA
1478292 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
* * * *
1478357 CAACCTTTTACCTGAATTCATTAATTGATGGATTATCTTTTCCAGAGA
66 CAACCTTTTACCTGAATCCATCAATTGATGGATCATCATTTCCAGAGA
1478405 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
* *
1478470 CAACCTTTTACTTGAATCCATCATTTGATGGATCATCATTTCCAGAGA
66 CAACCTTTTACCTGAATCCATCAATTGATGGATCATCATTTCCAGAGA
1478518 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
* * *
1478583 CAACCTTTTACCTGAATTCATCAATTGATGGATTATCTTTTCC--AG-
66 CAACCTTTTACCTGAATCCATCAATTGATGGATCATCATTTCCAGAGA
* * *
1478628 AAGTTCATAATGAGAAGAAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATAAGAAGAACTTGT
1 AAGTTCATAATGAGAAG-AACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGT
*
1478693 TCAACTTTTT
65 TCAACCTTTT
1478703 GCATAATTCT
Statistics
Matches: 388, Mismatches: 22, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
110 17 0.04
111 55 0.14
113 316 0.81
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (113 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
CAACCTTTTACCTGAATCCATCAATTGATGGATCATCATTTCCAGAGA
Found at i:1478460 original size:226 final size:223
Alignment explanation
Indices: 1478177--1478702 Score: 962
Period size: 226 Copynumber: 2.3 Consensus size: 223
1478167 AGAAGGAAGA
*
1478177 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAATTTG
1 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTG
1478242 TTCAACCTTTTACTTGAATCCATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGA
66 TTCAACCTTTTACTTGAATCCATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGA
1478307 AGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGA
131 AGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGA
*
1478372 ATTCATTAATTGATGGATTATCTTTTCC
196 ATTCATCAATTGATGGATTATCTTTTCC
1478400 AGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAT
1 --AG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAT
1478465 TTGTTCAACCTTTTACTTGAATCCATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATG
63 TTGTTCAACCTTTTACTTGAATCCATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATG
1478530 AGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACC
128 AGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACC
1478595 TGAATTCATCAATTGATGGATTATCTTTTCC
193 TGAATTCATCAATTGATGGATTATCTTTTCC
* * *
1478626 AGAAGTTCATAATGAGAAGAAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATAAGAAGAACTT
1 AGAAGTTCATAATGAGAAG-AACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
*
1478691 GTTCAACTTTTT
65 GTTCAACCTTTT
1478703 GCATAATTCT
Statistics
Matches: 293, Mismatches: 6, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
223 17 0.06
224 55 0.19
225 2 0.01
226 219 0.75
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.29
Consensus pattern (223 bp):
AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTG
TTCAACCTTTTACTTGAATCCATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGA
AGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGA
ATTCATCAATTGATGGATTATCTTTTCC
Found at i:1479024 original size:3 final size:3
Alignment explanation
Indices: 1479016--1479105 Score: 148
Period size: 3 Copynumber: 30.7 Consensus size: 3
1479006 TTTTTATCCA
*
1479016 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
1479064 TA- TAT TAT TAT TAT TAT TAT TAT TAT CA- TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1479106 AATATATTAA
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
2 3 0.04
3 78 0.96
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:1480524 original size:19 final size:20
Alignment explanation
Indices: 1480486--1480526 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
1480476 TTTTTATTTT
**
1480486 TATTTTATTATATTGTTAAA
1 TATTTTATTATATTCATAAA
1480506 TATTTTA-TATATTCATAAA
1 TATTTTATTATATTCATAAA
1480525 TA
1 TA
1480527 CATATAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
TATTTTATTATATTCATAAA
Found at i:1491507 original size:32 final size:32
Alignment explanation
Indices: 1491464--1491538 Score: 123
Period size: 32 Copynumber: 2.3 Consensus size: 32
1491454 GGAGCATCTC
* *
1491464 CAATAATTATGTTGGATGGAGCATATCATTTT
1 CAATAAATATGTTGGACGGAGCATATCATTTT
*
1491496 CAATAAATATGTTTGACGGAGCATATCATTTT
1 CAATAAATATGTTGGACGGAGCATATCATTTT
1491528 CAATAAATATG
1 CAATAAATATG
1491539 ATAATGCAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.37
Consensus pattern (32 bp):
CAATAAATATGTTGGACGGAGCATATCATTTT
Found at i:1493758 original size:2 final size:2
Alignment explanation
Indices: 1493751--1493780 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1493741 CAAAAGAACA
1493751 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1493781 GACTTACTTA
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1499068 original size:22 final size:22
Alignment explanation
Indices: 1499035--1499077 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
1499025 TATAAATTAA
* *
1499035 AATTATTATTTATAATTTATAG
1 AATTATTATTTAAAATATATAG
1499057 AATTA-TATTTTAAAATATATA
1 AATTATTA-TTTAAAATATATA
1499078 AAATAAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
AATTATTATTTAAAATATATAG
Found at i:1508345 original size:24 final size:25
Alignment explanation
Indices: 1508294--1508345 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 25
1508284 TTTCATTTGC
*
1508294 AGAAAAATAACAATTTTTTTTAAAATT
1 AGAAAAATAACAA--TTCTTTAAAATT
*
1508321 AGAAAAATAACAA-TCTTTAACATT
1 AGAAAAATAACAATTCTTTAAAATT
1508345 A
1 A
1508346 CATTACATAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 10 0.43
27 13 0.57
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.35
Consensus pattern (25 bp):
AGAAAAATAACAATTCTTTAAAATT
Found at i:1508843 original size:28 final size:29
Alignment explanation
Indices: 1508812--1508879 Score: 75
Period size: 31 Copynumber: 2.3 Consensus size: 29
1508802 ATAAAATGGT
1508812 CATTAAATTTTGAAAG-TTACAAAATAAC
1 CATTAAATTTTGAAAGATTACAAAATAAC
* * * *
1508840 CATTAAAATTTTTGAATGATTGCAAAATCAT
1 CATT-AAA-TTTTGAAAGATTACAAAATAAC
1508871 CATTAAATT
1 CATTAAATT
1508880 ATAGACAACT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
28 4 0.12
29 5 0.15
30 11 0.33
31 13 0.39
ACGTcount: A:0.46, C:0.10, G:0.07, T:0.37
Consensus pattern (29 bp):
CATTAAATTTTGAAAGATTACAAAATAAC
Found at i:1508879 original size:30 final size:29
Alignment explanation
Indices: 1508787--1508879 Score: 89
Period size: 28 Copynumber: 3.2 Consensus size: 29
1508777 TTTATCTATA
* * **
1508787 AAATTTTTTAAAGTTATAAAATGGTCATT
1 AAATTTTTGAAAGTTACAAAATAATCATT
*
1508816 AAA-TTTTGAAAGTTACAAAATAACCATT
1 AAATTTTTGAAAGTTACAAAATAATCATT
* * *
1508844 AAAATTTTTGAATGATTGCAAAATCATCATT
1 -AAATTTTTGAAAG-TTACAAAATAATCATT
1508875 AAATT
1 AAATT
1508880 ATAGACAACT
Statistics
Matches: 52, Mismatches: 9, Indels: 5
0.79 0.14 0.08
Matches are distributed among these distances:
28 20 0.38
29 6 0.12
30 13 0.25
31 13 0.25
ACGTcount: A:0.45, C:0.08, G:0.09, T:0.39
Consensus pattern (29 bp):
AAATTTTTGAAAGTTACAAAATAATCATT
Found at i:1510772 original size:6 final size:6
Alignment explanation
Indices: 1510761--1510789 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
1510751 ACCTCACACC
1510761 TTTTCT TTTTCT TTTTCT TTTTCT TTTTC
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTC
1510790 ATCTTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTCT
Found at i:1517113 original size:12 final size:12
Alignment explanation
Indices: 1517095--1517133 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
1517085 GATCGTAATC
1517095 ATATCTATATAT
1 ATATCTATATAT
* *
1517107 TTATCTATCTAT
1 ATATCTATATAT
*
1517119 ATATCTATCTAT
1 ATATCTATATAT
1517131 ATA
1 ATA
1517134 AATAGATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.36, C:0.13, G:0.00, T:0.51
Consensus pattern (12 bp):
ATATCTATATAT
Found at i:1517117 original size:16 final size:16
Alignment explanation
Indices: 1517096--1517130 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
1517086 ATCGTAATCA
*
1517096 TATCTATATATTTATC
1 TATCTATATATCTATC
1517112 TATCTATATATCTATC
1 TATCTATATATCTATC
1517128 TAT
1 TAT
1517131 ATAAATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.14, G:0.00, T:0.54
Consensus pattern (16 bp):
TATCTATATATCTATC
Found at i:1533018 original size:2 final size:2
Alignment explanation
Indices: 1533011--1533048 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1533001 CACTATAACA
1533011 AT AT AT 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 AT AT AT
1533049 GTATGTATGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1536872 original size:10 final size:10
Alignment explanation
Indices: 1536857--1536905 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
1536847 TTCATTTTTT
1536857 TAAAAATAAA
1 TAAAAATAAA
*
1536867 TAAAAATGAAT
1 TAAAAAT-AAA
*
1536878 TAAAAATGAA
1 TAAAAATAAA
* *
1536888 TAAAATTCAA
1 TAAAAATAAA
1536898 TAAAAATA
1 TAAAAATA
1536906 TAATGTAAAG
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
10 22 0.71
11 9 0.29
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.24
Consensus pattern (10 bp):
TAAAAATAAA
Found at i:1536882 original size:21 final size:21
Alignment explanation
Indices: 1536856--1536905 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
1536846 ATTCATTTTT
*
1536856 TTAAAAATAAATAAAAATGAA
1 TTAAAAATAAATAAAAATCAA
* *
1536877 TTAAAAATGAATAAAATTCAA
1 TTAAAAATAAATAAAAATCAA
1536898 -TAAAAATA
1 TTAAAAATA
1536906 TAATGTAAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (21 bp):
TTAAAAATAAATAAAAATCAA
Found at i:1537446 original size:31 final size:29
Alignment explanation
Indices: 1537411--1537478 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 29
1537401 AAGAGGTGAT
1537411 ATTTTTTAGCTTTACATTATATTTTTATTGA
1 ATTTTTTAGCTTTA-ATT-TATTTTTATTGA
** *
1537442 ATTTTACTTATTTTTAATTTATTTTTATTGC
1 ATTTT--TTAGCTTTAATTTATTTTTATTGA
1537473 ATTTTT
1 ATTTTT
1537479 ATTTATTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
29 1 0.03
31 21 0.66
32 3 0.09
33 7 0.22
ACGTcount: A:0.24, C:0.06, G:0.04, T:0.66
Consensus pattern (29 bp):
ATTTTTTAGCTTTAATTTATTTTTATTGA
Found at i:1537463 original size:11 final size:10
Alignment explanation
Indices: 1537430--1537487 Score: 62
Period size: 10 Copynumber: 5.6 Consensus size: 10
1537420 CTTTACATTA
1537430 TATTTTTATT
1 TATTTTTATT
* * *
1537440 GAATTTTACT
1 TATTTTTATT
1537450 TATTTTTAATT
1 TATTTTT-ATT
1537461 TATTTTTATT
1 TATTTTTATT
*
1537471 GCATTTTTATT
1 -TATTTTTATT
1537482 TATTTT
1 TATTTT
1537488 AAAAAAATGA
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
10 20 0.53
11 18 0.47
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.71
Consensus pattern (10 bp):
TATTTTTATT
Found at i:1537467 original size:21 final size:19
Alignment explanation
Indices: 1537430--1537487 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 19
1537420 CTTTACATTA
* *
1537430 TATTTTTATTGAATTTTACT
1 TATTTTTATTTATTTTTA-T
1537450 TATTTTTAATTTATTTTTAT
1 TATTTTT-ATTTATTTTTAT
1537470 TGCATTTTTATTTATTTT
1 T--ATTTTTATTTATTTT
1537488 AAAAAAATGA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
20 9 0.27
21 18 0.55
22 6 0.18
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.71
Consensus pattern (19 bp):
TATTTTTATTTATTTTTAT
Found at i:1537489 original size:31 final size:32
Alignment explanation
Indices: 1537421--1537487 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
1537411 ATTTTTTAGC
1537421 TTTACATTATATTTTTATTGAATTTTACTTATT
1 TTTA-ATTATATTTTTATTGAATTTTACTTATT
* *
1537454 TTTAATT-TATTTTTATTGCATTTTTATTTATT
1 TTTAATTATATTTTTATTG-AATTTTACTTATT
1537486 TT
1 TT
1537488 AAAAAAATGA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
31 11 0.35
32 16 0.52
33 4 0.13
ACGTcount: A:0.24, C:0.04, G:0.03, T:0.69
Consensus pattern (32 bp):
TTTAATTATATTTTTATTGAATTTTACTTATT
Found at i:1539895 original size:57 final size:57
Alignment explanation
Indices: 1539805--1539920 Score: 153
Period size: 57 Copynumber: 2.0 Consensus size: 57
1539795 AGTATCTCAC
* * * * *
1539805 ATGACCCCTATCAAGGTGGTGAATTGCAGCAGTGTC-AGGTGAGTTCAGTGGGATCAA
1 ATGACCCCCATCAAGGTAGTGAACTACAGCAGTGTCAAAG-GAGTTCAGTGGGATCAA
* *
1539862 ATGACCCCCATCAAGGTAGTGAACTACATCAGTGTCAAAGGAGTTCAGTTGGATCAA
1 ATGACCCCCATCAAGGTAGTGAACTACAGCAGTGTCAAAGGAGTTCAGTGGGATCAA
1539919 AT
1 AT
1539921 TATTGGGAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
57 49 0.96
58 2 0.04
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (57 bp):
ATGACCCCCATCAAGGTAGTGAACTACAGCAGTGTCAAAGGAGTTCAGTGGGATCAA
Found at i:1542233 original size:37 final size:37
Alignment explanation
Indices: 1542176--1542286 Score: 186
Period size: 37 Copynumber: 3.0 Consensus size: 37
1542166 AAGTCTCTGG
* *
1542176 GCATCACCTTGCTCTTCCCCGAGCATCGCCCCTGGTC
1 GCATCACTTTGCTCTCCCCCGAGCATCGCCCCTGGTC
*
1542213 GCATCACTTTGCGCTCCCCCGAGCATCGCCCCTGGTC
1 GCATCACTTTGCTCTCCCCCGAGCATCGCCCCTGGTC
*
1542250 GCATCACTTTGCTATCCCCCGAGCATCGCCCCTGGTC
1 GCATCACTTTGCTCTCCCCCGAGCATCGCCCCTGGTC
1542287 TAAGTCCTTC
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.12, C:0.45, G:0.20, T:0.23
Consensus pattern (37 bp):
GCATCACTTTGCTCTCCCCCGAGCATCGCCCCTGGTC
Found at i:1547185 original size:25 final size:21
Alignment explanation
Indices: 1547131--1547189 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 21
1547121 ATAAGTTATT
*
1547131 ATAT-ATTATTAAAATTAAAA
1 ATATCATTATTAAAATAAAAA
1547151 ATATCA-TATTAAAATAAAAA
1 ATATCATTATTAAAATAAAAA
1547171 TTATATTACATTATTAAAA
1 --ATA-T-CATTATTAAAA
1547190 AATATTTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
20 17 0.53
21 1 0.03
22 3 0.09
23 1 0.03
24 2 0.06
25 8 0.25
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (21 bp):
ATATCATTATTAAAATAAAAA
Found at i:1556155 original size:27 final size:27
Alignment explanation
Indices: 1556124--1556181 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
1556114 CAGTAAGTTT
1556124 TAAAATTCATAAAAAGATGAGATAGAG
1 TAAAATTCATAAAAAGATGAGATAGAG
1556151 TAAAATTCATAAAAAGATGAGATAGAG
1 TAAAATTCATAAAAAGATGAGATAGAG
1556178 TAAA
1 TAAA
1556182 TGACCGTGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.57, C:0.03, G:0.17, T:0.22
Consensus pattern (27 bp):
TAAAATTCATAAAAAGATGAGATAGAG
Found at i:1560896 original size:2 final size:2
Alignment explanation
Indices: 1560889--1560920 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1560879 CTGTGAGTGC
1560889 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
1560921 GGGGGAGAGC
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:1562415 original size:15 final size:16
Alignment explanation
Indices: 1562395--1562433 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
1562385 CATTGGGTTG
1562395 GATCATTTT-GGATTA
1 GATCATTTTAGGATTA
* *
1562410 GGTCATTTTAGGTTTA
1 GATCATTTTAGGATTA
1562426 GATCATTT
1 GATCATTT
1562434 CGGTTTAGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.23, C:0.08, G:0.21, T:0.49
Consensus pattern (16 bp):
GATCATTTTAGGATTA
Found at i:1562431 original size:16 final size:15
Alignment explanation
Indices: 1562395--1562443 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
1562385 CATTGGGTTG
*
1562395 GATCATTTTGGATTA
1 GATCATTTTGGTTTA
*
1562410 GGTCATTTTAGGTTTA
1 GATCATTTT-GGTTTA
*
1562426 GATCATTTCGGTTTA
1 GATCATTTTGGTTTA
1562441 GAT
1 GAT
1562444 TTTGTTCGGG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
15 17 0.59
16 12 0.41
ACGTcount: A:0.22, C:0.08, G:0.22, T:0.47
Consensus pattern (15 bp):
GATCATTTTGGTTTA
Found at i:1562554 original size:21 final size:20
Alignment explanation
Indices: 1562526--1562564 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
1562516 GGTTGGTTAT
*
1562526 TCGGTCGGATTAATATCAAA
1 TCGGTCGGATCAATATCAAA
*
1562546 TCGGATCGGGTCAATATCA
1 TCGG-TCGGATCAATATCA
1562565 GATTAATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (20 bp):
TCGGTCGGATCAATATCAAA
Found at i:1563099 original size:16 final size:16
Alignment explanation
Indices: 1563078--1563134 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
1563068 AATAAATTTG
1563078 GGTTGCTTTTGATTCA
1 GGTTGCTTTTGATTCA
*
1563094 GGTTGC-TTTCAGTTCA
1 GGTTGCTTTTGA-TTCA
** *
1563110 GGTTAATTTTGGTTCA
1 GGTTGCTTTTGATTCA
*
1563126 GATTGCTTT
1 GGTTGCTTT
1563135 CGATCCAATT
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
15 4 0.13
16 24 0.77
17 3 0.10
ACGTcount: A:0.14, C:0.12, G:0.25, T:0.49
Consensus pattern (16 bp):
GGTTGCTTTTGATTCA
Found at i:1563184 original size:16 final size:16
Alignment explanation
Indices: 1563165--1563199 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
1563155 TTGCTTTCGA
*
1563165 TTCAGGTTACTTTTAG
1 TTCAGGTTAATTTTAG
*
1563181 TTCAGGTTAATTTTGG
1 TTCAGGTTAATTTTAG
1563197 TTC
1 TTC
1563200 GGATTGCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.17, C:0.11, G:0.20, T:0.51
Consensus pattern (16 bp):
TTCAGGTTAATTTTAG
Found at i:1563194 original size:75 final size:75
Alignment explanation
Indices: 1563071--1563243 Score: 274
Period size: 75 Copynumber: 2.3 Consensus size: 75
1563061 TTGATAAAAT
* *
1563071 AAATTTGGGTTGCTTTTGATTCAGGTTGCTTTCAGTTCAGGTTAATTTTGGTTCAGATTGCTTTC
1 AAATTTGGGTTGCTTTCGATTCAGGTTACTTTCAGTTCAGGTTAATTTTGGTTCAGATTGCTTTC
1563136 GATCCAATTA
66 GATCCAATTA
* * *
1563146 AAATTTGGGTTGCTTTCGATTCAGGTTACTTTTAGTTCAGGTTAATTTTGGTTCGGATTGCTTTT
1 AAATTTGGGTTGCTTTCGATTCAGGTTACTTTCAGTTCAGGTTAATTTTGGTTCAGATTGCTTTC
1563211 GATCCAATTA
66 GATCCAATTA
* * *
1563221 AAATTCGGGTTGATTTCGGTTCA
1 AAATTTGGGTTGCTTTCGATTCA
1563244 ACTTGGATTA
Statistics
Matches: 90, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
75 90 1.00
ACGTcount: A:0.20, C:0.13, G:0.22, T:0.45
Consensus pattern (75 bp):
AAATTTGGGTTGCTTTCGATTCAGGTTACTTTCAGTTCAGGTTAATTTTGGTTCAGATTGCTTTC
GATCCAATTA
Found at i:1563806 original size:40 final size:40
Alignment explanation
Indices: 1563751--1563860 Score: 195
Period size: 40 Copynumber: 2.8 Consensus size: 40
1563741 TACTAAAATC
1563751 TAAAT-AATCCATACAACTACAATAATAAATTATTTAAAA
1 TAAATCAATCCATACAACTACAATAATAAATTATTTAAAA
*
1563790 TAAATCAATCTATACAACTACAATAATAAATTATTTAAAA
1 TAAATCAATCCATACAACTACAATAATAAATTATTTAAAA
*
1563830 TAAATCAATCGATACAACTACAATAATAAAT
1 TAAATCAATCCATACAACTACAATAATAAAT
1563861 CAATCCATAT
Statistics
Matches: 68, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
39 5 0.07
40 63 0.93
ACGTcount: A:0.55, C:0.14, G:0.01, T:0.30
Consensus pattern (40 bp):
TAAATCAATCCATACAACTACAATAATAAATTATTTAAAA
Found at i:1563814 original size:23 final size:23
Alignment explanation
Indices: 1563788--1563855 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 23
1563778 AATTATTTAA
1563788 AATAAATCAATCTATACAACTAC
1 AATAAATCAATCTATACAACTAC
* * *
1563811 AAT-AATAAAT-TAT----TTAA
1 AATAAATCAATCTATACAACTAC
*
1563828 AATAAATCAATCGATACAACTAC
1 AATAAATCAATCTATACAACTAC
1563851 AATAA
1 AATAA
1563856 TAAATCAATC
Statistics
Matches: 32, Mismatches: 7, Indels: 12
0.63 0.14 0.24
Matches are distributed among these distances:
17 5 0.16
18 6 0.19
19 2 0.06
21 3 0.09
22 6 0.19
23 10 0.31
ACGTcount: A:0.56, C:0.15, G:0.01, T:0.28
Consensus pattern (23 bp):
AATAAATCAATCTATACAACTAC
Found at i:1563900 original size:22 final size:23
Alignment explanation
Indices: 1563825--1563899 Score: 73
Period size: 22 Copynumber: 3.2 Consensus size: 23
1563815 ATAAATTATT
1563825 TAAAATAAATCAATCGATAC-AA
1 TAAAATAAATCAATCGATACTAA
* **
1563847 CTACAATAATAAATCAATCCATA-TTT
1 -T--AA-AATAAATCAATCGATACTAA
1563873 TAAAATAAATCAATCGATACTAA
1 TAAAATAAATCAATCGATACTAA
1563896 TAAA
1 TAAA
1563900 TTATTTAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
22 15 0.37
23 8 0.20
25 3 0.07
26 15 0.37
ACGTcount: A:0.55, C:0.15, G:0.03, T:0.28
Consensus pattern (23 bp):
TAAAATAAATCAATCGATACTAA
Found at i:1563910 original size:32 final size:31
Alignment explanation
Indices: 1563871--1563978 Score: 126
Period size: 32 Copynumber: 3.7 Consensus size: 31
1563861 CAATCCATAT
1563871 TTTAAAATAAATCAATCGATACTAATAAATTA
1 TTTAAAATAAATCAATC-ATACTAATAAATTA
1563903 TTTAAAATAAATCAATC---C--AT--A-T-
1 TTTAAAATAAATCAATCATACTAATAAATTA
1563925 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAA-TCATACTAATAAATTA
1563957 TTTAAAATAAATCAATCCATAC
1 TTTAAAATAAATCAAT-CATAC
1563979 AACTACAATA
Statistics
Matches: 65, Mismatches: 0, Indels: 22
0.75 0.00 0.25
Matches are distributed among these distances:
22 15 0.23
23 3 0.05
24 1 0.02
26 3 0.05
28 3 0.05
30 1 0.02
31 2 0.03
32 37 0.57
ACGTcount: A:0.52, C:0.12, G:0.01, T:0.35
Consensus pattern (31 bp):
TTTAAAATAAATCAATCATACTAATAAATTA
Found at i:1563929 original size:22 final size:22
Alignment explanation
Indices: 1563903--1563945 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1563893 TAATAAATTA
1563903 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
1563925 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
1563946 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1563936 original size:54 final size:53
Alignment explanation
Indices: 1563854--1564245 Score: 312
Period size: 54 Copynumber: 7.3 Consensus size: 53
1563844 CAACTACAAT
1563854 AATAAATCAATCCATATTTTAAAATAAATCAATCGATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATC-ATACTAATAAATTATTTAA
1563908 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAA-TCATACTAATAAATTATTTAA
*** * * *
1563962 AATAAATCAATCCATACAACTACAAT-AATAAATCA-ATCT-GT--A-T-TTTAA
1 AATAAATCAATCCATA-TTTTAAAATAAATCAATCATA-CTAATAAATTATTTAA
* ** *
1564010 AATAAATCAATTCATACTAATAAATTATTTAAAATAAATCA-ATCT-AT--A-T-TTTAA
1 AATAAATCAATCCATA-TTTTAAA--A--T-AAATCAATCATA-CTAATAAATTATTTAA
** * * * * *
1564064 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA-ATTCATACAACTA--CAA
1 AATAAATCAATCCATA-TTTTAAA--A--T-AAATCAATCATACTAATA-AATTATTTAA
1564121 TAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
1 -AATAAATCAATCCATATTTTAAAATAAATCAA-TCATACTAATAAATTATTTAA
*
1564176 AATAAATCAATCCATATTTTAAAATAAATCAATTTATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAA-TCATACTAATAAATTATTTAA
*
1564230 AATAAATCAATTCATA
1 AATAAATCAATCCATA
1564246 CTAATAAATT
Statistics
Matches: 295, Mismatches: 23, Indels: 40
0.82 0.06 0.11
Matches are distributed among these distances:
48 25 0.08
49 1 0.00
50 2 0.01
52 9 0.03
53 14 0.05
54 209 0.71
55 10 0.03
57 8 0.03
58 17 0.06
ACGTcount: A:0.52, C:0.12, G:0.01, T:0.35
Consensus pattern (53 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCATACTAATAAATTATTTAA
Found at i:1563954 original size:22 final size:22
Alignment explanation
Indices: 1563905--1563953 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1563895 ATAAATTATT
**
1563905 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
1563927 TAAAATAAATCAATTCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1563950 TAAA
1 TAAA
1563954 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1563960 original size:134 final size:133
Alignment explanation
Indices: 1563813--1564246 Score: 771
Period size: 134 Copynumber: 3.2 Consensus size: 133
1563803 ACAACTACAA
1563813 TAATAAATTATTTAAAATAAATCAATCGATACAACTACAATAATAAATCAATCCATATTTTAAAA
1 TAATAAATTATTTAAAATAAATCAATC-ATACAACTACAATAATAAATCAATCCATATTTTAAAA
1563878 TAAATCAA-TCGATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATT
65 TAAATCAATTC-ATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATT
1563942 CATAC
129 CATAC
**
1563947 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCTGTATTTTAAAA
1 TAATAAATTATTTAAAATAAATCAAT-CATACAACTACAATAATAAATCAATCCATATTTTAAAA
* *
1564012 TAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCC
65 TAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTC
1564077 ATAC
130 ATAC
1564081 TAATAAATTATTTAAAATAAATCAATTCATACAACTACAATAATAAATCAATCCATATTTTAAAA
1 TAATAAATTATTTAAAATAAATCAA-TCATACAACTACAATAATAAATCAATCCATATTTTAAAA
*
1564146 TAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTT
65 TAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTC
1564211 ATAC
130 ATAC
1564215 TAATAAATTATTTAAAATAAATCAATTCATAC
1 TAATAAATTATTTAAAATAAATCAA-TCATAC
1564247 TAATAAATTA
Statistics
Matches: 288, Mismatches: 9, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
134 284 0.99
135 4 0.01
ACGTcount: A:0.52, C:0.12, G:0.01, T:0.35
Consensus pattern (133 bp):
TAATAAATTATTTAAAATAAATCAATCATACAACTACAATAATAAATCAATCCATATTTTAAAAT
AAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCA
TAC
Found at i:1564044 original size:32 final size:32
Alignment explanation
Indices: 1564005--1564278 Score: 177
Period size: 32 Copynumber: 8.7 Consensus size: 32
1563995 CAATCTGTAT
1564005 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATTCATACTAATAAATTA
1564037 TTTAAAATAAATC-A---AT-CT-AT--A-T-
1 TTTAAAATAAATCAATTCATACTAATAAATTA
*
1564059 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATTCATACTAATAAATTA
1564091 TTTAAAATAAATCAATTCATAC-AACTACAA-TA
1 TTTAAAATAAATCAATTCATACTAA-TA-AATTA
* * * * *
1564123 -AT-AAATCAATCCATATT-TTA-AAATAAATCAA
1 TTTAAAATAAAT-CA-ATTCATACTAATAAAT-TA
* * * * * *
1564154 TTCATACTAATAAAT-TATTTAAAATAAATCAATCCATA
1 TT--TA-AAATAAATCAATTCATACT-AATAAAT---TA
*
1564192 TTTTAAAATAAATCAATTTATACTAATAAATTA
1 -TTTAAAATAAATCAATTCATACTAATAAATTA
1564225 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATTCATACTAATAAATTA
*
1564257 TTTTAAAATAAATCAATACATA
1 -TTTAAAATAAATCAATTCATA
1564279 TTTTATAATA
Statistics
Matches: 190, Mismatches: 22, Indels: 59
0.70 0.08 0.22
Matches are distributed among these distances:
22 13 0.07
23 2 0.01
24 1 0.01
26 4 0.02
27 4 0.02
28 4 0.02
29 2 0.01
30 10 0.05
31 12 0.06
32 72 0.38
33 27 0.14
34 2 0.01
36 25 0.13
37 9 0.05
38 1 0.01
39 2 0.01
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (32 bp):
TTTAAAATAAATCAATTCATACTAATAAATTA
Found at i:1564088 original size:22 final size:22
Alignment explanation
Indices: 1564039--1564087 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1564029 ATAAATTATT
* **
1564039 TAAAATAAATCAATCTATATTT
1 TAAAATAAATCAATCCATATAA
1564061 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1564084 TAAA
1 TAAA
1564088 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1564165 original size:18 final size:18
Alignment explanation
Indices: 1564144--1564254 Score: 67
Period size: 18 Copynumber: 6.4 Consensus size: 18
1564134 CATATTTTAA
1564144 AATAAATCAATTCATACT
1 AATAAATCAATTCATACT
* *
1564162 AATAAAT-TATT--TA-A
1 AATAAATCAATTCATACT
* *
1564176 AATAAATCAATCCATATTTT
1 AATAAATCAATTCATA--CT
*
1564196 AAAATAAATCAATTTATACT
1 --AATAAATCAATTCATACT
* *
1564216 AATAAAT-TATT--TA-A
1 AATAAATCAATTCATACT
1564230 AATAAATCAATTCATACT
1 AATAAATCAATTCATACT
1564248 AATAAAT
1 AATAAAT
1564255 TATTTTAAAA
Statistics
Matches: 69, Mismatches: 12, Indels: 24
0.66 0.11 0.23
Matches are distributed among these distances:
14 14 0.20
15 9 0.13
17 10 0.14
18 21 0.30
20 1 0.01
22 14 0.20
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (18 bp):
AATAAATCAATTCATACT
Found at i:1564168 original size:22 final size:23
Alignment explanation
Indices: 1564093--1564167 Score: 73
Period size: 22 Copynumber: 3.2 Consensus size: 23
1564083 ATAAATTATT
1564093 TAAAATAAATCAATTCATAC-AA
1 TAAAATAAATCAATTCATACTAA
* **
1564115 CTACAATAATAAATCAATCCATA-TTT
1 -T--AA-AATAAATCAATTCATACTAA
1564141 TAAAATAAATCAATTCATACTAA
1 TAAAATAAATCAATTCATACTAA
1564164 TAAA
1 TAAA
1564168 TTATTTAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
22 15 0.37
23 8 0.20
25 3 0.07
26 15 0.37
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.31
Consensus pattern (23 bp):
TAAAATAAATCAATTCATACTAA
Found at i:1564267 original size:33 final size:33
Alignment explanation
Indices: 1564190--1564306 Score: 155
Period size: 32 Copynumber: 3.5 Consensus size: 33
1564180 AATCAATCCA
*
1564190 TATTTTAAAATAAATCAATTTATACTAATAAAT
1 TATTTTAAAATAAATCAATTCATACTAATAAAT
1564223 TA-TTTAAAATAAATCAATTCATACTAATAAAT
1 TATTTTAAAATAAATCAATTCATACTAATAAAT
* * *
1564255 TATTTTAAAATAAATCAATACATATTTTATAATAATT
1 TATTTTAAAATAAATCAATTCATA----CTAATAAAT
1564292 TATTTTAAAATAAAT
1 TATTTTAAAATAAAT
1564307 AATCTTATTA
Statistics
Matches: 75, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
32 31 0.41
33 22 0.29
37 22 0.29
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (33 bp):
TATTTTAAAATAAATCAATTCATACTAATAAAT
Found at i:1564281 original size:54 final size:54
Alignment explanation
Indices: 1563988--1564289 Score: 201
Period size: 54 Copynumber: 5.5 Consensus size: 54
1563978 CAACTACAAT
* *
1563988 AATAAATCAAT-CTGTATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
1 AATAAATCAATAC-ATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1564042 AATAAATCAAT-CTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATAC-ATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* * ** ** * ** *
1564096 AATAAATCAATTCATACAACTACAATAATAAATCAATCCATA-TTTTAAAATAAAT-C
1 AATAAATCAATACAT---ATTTTAA-AATAAATCAATCCATACTAATAAATTATTTAA
** * * * *
1564152 AATTCATACTAATAAAT-TATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTTAT
1 AATAAAT-C-AATACATAT-TTTAAAATAAATCAATCCATA--CT--AATAAAT-TATTTAA
* * *
1564213 ACT-AAT-AA-A-TTA-TTTAAAATAAATCAATTCATACTAATAAATTATTTTAA
1 AATAAATCAATACATATTTTAAAATAAATCAATCCATACTAATAAATTA-TTTAA
*
1564263 AATAAATCAATACATATTTTATAATAA
1 AATAAATCAATACATATTTTAAAATAA
1564290 TTTATTTTAA
Statistics
Matches: 191, Mismatches: 35, Indels: 43
0.71 0.13 0.16
Matches are distributed among these distances:
49 1 0.01
50 13 0.07
51 3 0.02
52 3 0.02
53 1 0.01
54 103 0.54
55 14 0.07
56 6 0.03
57 16 0.08
58 21 0.11
59 4 0.02
60 4 0.02
61 2 0.01
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (54 bp):
AATAAATCAATACATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
Found at i:1574409 original size:16 final size:16
Alignment explanation
Indices: 1574388--1574419 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1574378 AAGAATCTTC
*
1574388 TTCCGCCTTACTGCCT
1 TTCCGCCTAACTGCCT
1574404 TTCCGCCTAACTGCCT
1 TTCCGCCTAACTGCCT
1574420 CTTCTAGCTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.44, G:0.12, T:0.34
Consensus pattern (16 bp):
TTCCGCCTAACTGCCT
Found at i:1577773 original size:38 final size:38
Alignment explanation
Indices: 1577701--1577778 Score: 120
Period size: 38 Copynumber: 2.1 Consensus size: 38
1577691 TGCCAATGAG
* * * *
1577701 AAATCAGAGGATTCTTATGATGTTTTAGGGGCAAGCGA
1 AAATCAGAGGATTCTTATGATGTCTCAGGAGCAAGAGA
1577739 AAATCAGAGGATTCTTATGATGTCTCAGGAGCAAGAGA
1 AAATCAGAGGATTCTTATGATGTCTCAGGAGCAAGAGA
1577777 AA
1 AA
1577779 TATGAAATTC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.36, C:0.12, G:0.27, T:0.26
Consensus pattern (38 bp):
AAATCAGAGGATTCTTATGATGTCTCAGGAGCAAGAGA
Found at i:1577832 original size:38 final size:37
Alignment explanation
Indices: 1577773--1577846 Score: 96
Period size: 38 Copynumber: 2.0 Consensus size: 37
1577763 TCAGGAGCAA
* *
1577773 GAGAAATATGAAATTCTTGTAATTTCTCTGGGCCAAG
1 GAGAAATATGAAATTCTTGTAATTTCCCAGGGCCAAG
*
1577810 GAGAATATCTGAAGATTC-TGTAATTTCCCAGGGCCAA
1 GAGAA-ATATGAA-ATTCTTGTAATTTCCCAGGGCCAA
1577847 AAAGAAAATC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 5 0.16
38 23 0.72
39 4 0.12
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (37 bp):
GAGAAATATGAAATTCTTGTAATTTCCCAGGGCCAAG
Found at i:1580496 original size:24 final size:25
Alignment explanation
Indices: 1580463--1580510 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
1580453 CGGAATTCTC
*
1580463 TTTTTCCCTTCTTTAGTA-AAATCT
1 TTTTTCCCTTCCTTAGTAGAAATCT
*
1580487 TTTTTTCCTTCCTTAGTAGAAATC
1 TTTTTCCCTTCCTTAGTAGAAATC
1580511 GGTTAAGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.21, C:0.21, G:0.06, T:0.52
Consensus pattern (25 bp):
TTTTTCCCTTCCTTAGTAGAAATCT
Found at i:1580578 original size:17 final size:18
Alignment explanation
Indices: 1580547--1580580 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1580537 TAAAAAAATT
1580547 AAAGAAATTTATAAAAAG
1 AAAGAAATTTATAAAAAG
*
1580565 AAAG-AATTTGTAAAAA
1 AAAGAAATTTATAAAAA
1580581 TTACAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.65, C:0.00, G:0.12, T:0.24
Consensus pattern (18 bp):
AAAGAAATTTATAAAAAG
Found at i:1585179 original size:2 final size:2
Alignment explanation
Indices: 1585172--1585196 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1585162 AACTGTGGTT
1585172 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1585197 TTAACTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1589127 original size:15 final size:14
Alignment explanation
Indices: 1589107--1589142 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
1589097 ATCACTCAAT
1589107 AAATATATATATTTA
1 AAATAT-TATATTTA
1589122 AAATATTATATTT-
1 AAATATTATATTTA
1589135 AAATATTA
1 AAATATTA
1589143 AAAAAACAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 8 0.38
14 7 0.33
15 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
AAATATTATATTTA
Found at i:1590742 original size:60 final size:60
Alignment explanation
Indices: 1590675--1590801 Score: 166
Period size: 60 Copynumber: 2.1 Consensus size: 60
1590665 AACATAATGA
* ** *
1590675 ATAGTTGAATGATTATTTTGTAACTTTTAATAGTCGAGAGACTCAACAAAGCAA-CTCTCT
1 ATAGTTGAAGGACCATTTTGTAACTTTTAATAGTCGAGAGACTCAACAAAGCAATATCT-T
* * **
1590735 ATAGTTGAGGGACCATTTTGTAACTTTTAATAGTCGAGGGGTTCAACAAAGCAATATCTT
1 ATAGTTGAAGGACCATTTTGTAACTTTTAATAGTCGAGAGACTCAACAAAGCAATATCTT
1590795 ATAGTTG
1 ATAGTTG
1590802 GGAGATCATA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
60 55 0.95
61 3 0.05
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (60 bp):
ATAGTTGAAGGACCATTTTGTAACTTTTAATAGTCGAGAGACTCAACAAAGCAATATCTT
Found at i:1594077 original size:14 final size:14
Alignment explanation
Indices: 1594058--1594109 Score: 68
Period size: 14 Copynumber: 3.6 Consensus size: 14
1594048 AATTAATTAA
1594058 TTAATAATATAGAT
1 TTAATAATATAGAT
* *
1594072 TTAATAATTTAAAT
1 TTAATAATATAGAT
1594086 AATTAATAATATAGAT
1 --TTAATAATATAGAT
1594102 TTAATAAT
1 TTAATAAT
1594110 TTAAATAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
14 20 0.62
16 12 0.38
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (14 bp):
TTAATAATATAGAT
Found at i:1594091 original size:30 final size:30
Alignment explanation
Indices: 1594050--1594118 Score: 129
Period size: 30 Copynumber: 2.3 Consensus size: 30
1594040 AAATTTTAAA
*
1594050 TTAATTAATTAATAATATAGATTTAATAAT
1 TTAAATAATTAATAATATAGATTTAATAAT
1594080 TTAAATAATTAATAATATAGATTTAATAAT
1 TTAAATAATTAATAATATAGATTTAATAAT
1594110 TTAAATAAT
1 TTAAATAAT
1594119 ATTATAGGTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (30 bp):
TTAAATAATTAATAATATAGATTTAATAAT
Found at i:1594946 original size:2 final size:2
Alignment explanation
Indices: 1594939--1594974 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
1594929 CCCTCCTGGG
1594939 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1594975 TCACGAGTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:1616809 original size:24 final size:24
Alignment explanation
Indices: 1616777--1616824 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
1616767 ACTCTGCAGT
1616777 TGTCTTGTTTATATTCTACATACC
1 TGTCTTGTTTATATTCTACATACC
1616801 TGTCTTGTTTATATTCTACATACC
1 TGTCTTGTTTATATTCTACATACC
1616825 AAAACTATGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.21, G:0.08, T:0.50
Consensus pattern (24 bp):
TGTCTTGTTTATATTCTACATACC
Found at i:1627615 original size:16 final size:16
Alignment explanation
Indices: 1627594--1627624 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1627584 CACTTATATG
1627594 CACCACTAGTGATGTT
1 CACCACTAGTGATGTT
1627610 CACCACTAGTGATGT
1 CACCACTAGTGATGT
1627625 GCACTGATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (16 bp):
CACCACTAGTGATGTT
Found at i:1629177 original size:21 final size:21
Alignment explanation
Indices: 1629151--1629311 Score: 204
Period size: 21 Copynumber: 7.7 Consensus size: 21
1629141 GTTTCCAGAT
*
1629151 TCGCAACGCGAACTTCGACTA
1 TCGCAATGCGAACTTCGACTA
1629172 TCGCAATGCGAACTTCGACTA
1 TCGCAATGCGAACTTCGACTA
*
1629193 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTCGACTA
*
1629214 TCGCAATGCGAA-TAT-GTA-AA
1 TCGCAATGCGAACT-TCG-ACTA
*
1629234 TCGCAATGCGATA-GTCGACTA
1 TCGCAATGCGA-ACTTCGACTA
* *
1629255 TTGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTCGACTA
*
1629276 TCGCAACGCGAACTTCGACTA
1 TCGCAATGCGAACTTCGACTA
1629297 TCGCAATGCGAACTT
1 TCGCAATGCGAACTT
1629312 ACGAACTTGG
Statistics
Matches: 122, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
20 17 0.14
21 105 0.86
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (21 bp):
TCGCAATGCGAACTTCGACTA
Found at i:1629237 original size:62 final size:62
Alignment explanation
Indices: 1629171--1629287 Score: 191
Period size: 62 Copynumber: 1.9 Consensus size: 62
1629161 AACTTCGACT
* *
1629171 ATCGCAATGCGA-ACTTCGACTATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTAA
1 ATCGCAATGCGATA-GTCGACTATCGCAATGCGAACTTGGACTATCGCAACGCGAATATGTAA
*
1629233 ATCGCAATGCGATAGTCGACTATTGCAATGCGAACTTGGACTATCGCAACGCGAA
1 ATCGCAATGCGATAGTCGACTATCGCAATGCGAACTTGGACTATCGCAACGCGAA
1629288 CTTCGACTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
62 50 0.98
63 1 0.02
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (62 bp):
ATCGCAATGCGATAGTCGACTATCGCAATGCGAACTTGGACTATCGCAACGCGAATATGTAA
Found at i:1629354 original size:20 final size:20
Alignment explanation
Indices: 1629329--1629397 Score: 79
Period size: 20 Copynumber: 3.4 Consensus size: 20
1629319 TGGACTATCA
*
1629329 CAATGCGAATATGTAAATTG
1 CAATGCGAATATGTAAATCG
*
1629349 CAATGCG-ATA-GTCGACTATCG
1 CAATGCGAATATGT--A-AATCG
1629370 CAATGCGAATATGTAAATCG
1 CAATGCGAATATGTAAATCG
1629390 CAATGCGA
1 CAATGCGA
1629398 TAGTCGAAGT
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
18 2 0.05
19 3 0.07
20 20 0.49
21 11 0.27
22 3 0.07
23 2 0.05
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (20 bp):
CAATGCGAATATGTAAATCG
Found at i:1629374 original size:21 final size:22
Alignment explanation
Indices: 1629348--1629444 Score: 82
Period size: 21 Copynumber: 4.6 Consensus size: 22
1629338 TATGTAAATT
1629348 GCAATGCGATAGTCG-ACTATC
1 GCAATGCGATAGTCGAACTATC
1629369 GCAATGCGAATA-T-GTAA--ATC
1 GCAATGCG-ATAGTCG-AACTATC
*
1629389 GCAATGCGATAGTCGAAGT-TC
1 GCAATGCGATAGTCGAACTATC
** *
1629410 GCGTTGCGATAGTTG-ACTATC
1 GCAATGCGATAGTCGAACTATC
*
1629431 GCATTGCGATAGTC
1 GCAATGCGATAGTC
1629445 CAAGTTCGCG
Statistics
Matches: 62, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
19 3 0.05
20 17 0.27
21 38 0.61
22 4 0.06
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.27
Consensus pattern (22 bp):
GCAATGCGATAGTCGAACTATC
Found at i:1629378 original size:41 final size:41
Alignment explanation
Indices: 1629321--1629404 Score: 150
Period size: 41 Copynumber: 2.0 Consensus size: 41
1629311 TACGAACTTG
*
1629321 GACTATCACAATGCGAATATGTAAATTGCAATGCGATAGTC
1 GACTATCACAATGCGAATATGTAAATCGCAATGCGATAGTC
*
1629362 GACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTC
1 GACTATCACAATGCGAATATGTAAATCGCAATGCGATAGTC
1629403 GA
1 GA
1629405 AGTTCGCGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (41 bp):
GACTATCACAATGCGAATATGTAAATCGCAATGCGATAGTC
Found at i:1629418 original size:41 final size:41
Alignment explanation
Indices: 1629332--1629460 Score: 138
Period size: 41 Copynumber: 3.1 Consensus size: 41
1629322 ACTATCACAA
* * **
1629332 TGCGAATATGTAAATTGCAATGCGATAGTCG-ACTATCGCAA
1 TGCGAATATGTAAATCGCAATGCGATAGTCGAAGT-TCGCGT
1629373 TGCGAATATGTAAATCGCAATGCGATAGTCGAAGTTCGCGT
1 TGCGAATATGTAAATCGCAATGCGATAGTCGAAGTTCGCGT
* * *
1629414 TGCG-ATA-GTTGACTATCGCATTGCGATAGTCCAAGTTCGCGT
1 TGCGAATATG-T-A-AATCGCAATGCGATAGTCGAAGTTCGCGT
1629456 TGCGA
1 TGCGA
1629461 TTTATTCCAA
Statistics
Matches: 76, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
39 1 0.01
40 4 0.05
41 39 0.51
42 32 0.42
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (41 bp):
TGCGAATATGTAAATCGCAATGCGATAGTCGAAGTTCGCGT
Found at i:1629453 original size:21 final size:21
Alignment explanation
Indices: 1629387--1629461 Score: 71
Period size: 21 Copynumber: 3.6 Consensus size: 21
1629377 AATATGTAAA
* *
1629387 TCGCAATGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCCAAGT
* ** *
1629408 TCGCGTTGCGATAGT-TGACT
1 TCGCATTGCGATAGTCCAAGT
1629428 ATCGCATTGCGATAGTCCAAGT
1 -TCGCATTGCGATAGTCCAAGT
*
1629450 TCGCGTTGCGAT
1 TCGCATTGCGAT
1629462 TTATTCCAAA
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
20 2 0.05
21 38 0.90
22 2 0.05
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (21 bp):
TCGCATTGCGATAGTCCAAGT
Found at i:1630159 original size:21 final size:21
Alignment explanation
Indices: 1630134--1630187 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
1630124 GATTTATATA
*
1630134 TTCGCTTTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
* *
1630155 TTCGCATTGAGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
*
1630176 TTCGCGTTGCGA
1 TTCGCATTGCGA
1630188 ATCTGGAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.31
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCCAAG
Found at i:1638430 original size:36 final size:36
Alignment explanation
Indices: 1638321--1638431 Score: 145
Period size: 36 Copynumber: 3.1 Consensus size: 36
1638311 CGAATAAGAA
*
1638321 GAACGAAAGAA-AGCATC-GCACTTCCGATTCAAGTC
1 GAACGGAAGAAGA-CATCGGCACTTCCGATTCAAGTC
* ** *
1638356 AAACGGAAGAAGGTATCGACACTTCCGATTCAAGTC
1 GAACGGAAGAAGACATCGGCACTTCCGATTCAAGTC
*
1638392 GAACGGAAGAAGACATCGGCACTTCCGATTCAAATC
1 GAACGGAAGAAGACATCGGCACTTCCGATTCAAGTC
1638428 GAAC
1 GAAC
1638432 AGAAAGATTT
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
35 12 0.19
36 52 0.81
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (36 bp):
GAACGGAAGAAGACATCGGCACTTCCGATTCAAGTC
Found at i:1639469 original size:22 final size:22
Alignment explanation
Indices: 1639444--1639514 Score: 56
Period size: 23 Copynumber: 3.1 Consensus size: 22
1639434 CATAATTTTG
1639444 AATATAAAAATTAATTATTTAA
1 AATATAAAAATTAATTATTTAA
* *
1639466 AATATTTAAAA-TAATTATGATCAA
1 AATA-TAAAAATTAATTAT--TTAA
*
1639490 AGTATAAAAATTTTAATT-TTTAA
1 AATATAAAAA--TTAATTATTTAA
1639513 AA
1 AA
1639515 GTTAGATAAG
Statistics
Matches: 37, Mismatches: 6, Indels: 11
0.69 0.11 0.20
Matches are distributed among these distances:
22 11 0.30
23 14 0.38
24 6 0.16
25 1 0.03
26 5 0.14
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (22 bp):
AATATAAAAATTAATTATTTAA
Found at i:1645348 original size:61 final size:61
Alignment explanation
Indices: 1645250--1645436 Score: 154
Period size: 60 Copynumber: 3.1 Consensus size: 61
1645240 GTTAATTGCT
* * * *
1645250 TCCAAACTATAAACCTTCATTTTAAATTTGTCTTTAAATTTTTTGAATATTTCAATTTCATC
1 TCCAAACTATAAACCTTCATTTTAAATTTGTCCTTAAA-CTTTTAAACATTTCAATTTCATC
* * *
1645312 TCCAAATTATAAATCTT-ATTTTAAATTAT-TCCTTAAACTTTTAAACATTTTAATTTCATC
1 TCCAAACTATAAACCTTCATTTTAAATT-TGTCCTTAAACTTTTAAACATTTCAATTTCATC
* * * * * *
1645372 -CCTAAACTAT-GACC--CACTTTCTAAATTGGTCCTCAAACTTTTGAATA-TTCAAATTCATC
1 TCC-AAACTATAAACCTTCA-TTT-TAAATTTGTCCTTAAACTTTTAAACATTTCAATTTCATC
*
1645431 CCCAAA
1 TCCAAA
1645437 TTCACCCAAA
Statistics
Matches: 102, Mismatches: 16, Indels: 17
0.76 0.12 0.13
Matches are distributed among these distances:
58 1 0.01
59 20 0.20
60 48 0.47
61 17 0.17
62 16 0.16
ACGTcount: A:0.34, C:0.20, G:0.03, T:0.43
Consensus pattern (61 bp):
TCCAAACTATAAACCTTCATTTTAAATTTGTCCTTAAACTTTTAAACATTTCAATTTCATC
Found at i:1650644 original size:34 final size:34
Alignment explanation
Indices: 1650606--1650792 Score: 365
Period size: 34 Copynumber: 5.5 Consensus size: 34
1650596 CCGAACCCAA
*
1650606 AAAATATTTTATATATAATTAATATAAAATATAT
1 AAAATATTATATATATAATTAATATAAAATATAT
1650640 AAAATATTATATATATAATTAATATAAAATATAT
1 AAAATATTATATATATAATTAATATAAAATATAT
1650674 AAAATATTATATATATAATTAATATAAAATATAT
1 AAAATATTATATATATAATTAATATAAAATATAT
1650708 AAAATATTATATATATAATTAATATAAAATATAT
1 AAAATATTATATATATAATTAATATAAAATATAT
1650742 AAAATATTATATATATAATTAATATAAAATATAT
1 AAAATATTATATATATAATTAATATAAAATATAT
1650776 AAAATATTATATATATA
1 AAAATATTATATATATA
1650793 TATATATATA
Statistics
Matches: 152, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
34 152 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (34 bp):
AAAATATTATATATATAATTAATATAAAATATAT
Found at i:1651657 original size:21 final size:22
Alignment explanation
Indices: 1651613--1651657 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
1651603 TTTGATATTT
* *
1651613 TAAATAATATTTTAAATTTTAA
1 TAAATAATATTTTAAAATTAAA
1651635 TAAATAATA-TTTAAAATTAAA
1 TAAATAATATTTTAAAATTAAA
1651656 TA
1 TA
1651658 TTTTAATGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
TAAATAATATTTTAAAATTAAA
Found at i:1651664 original size:29 final size:31
Alignment explanation
Indices: 1651628--1651692 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 31
1651618 AATATTTTAA
*
1651628 ATTTTAATAAATAATA-TTTAAAATT-AA-AT
1 ATTTTAATAAACAA-AGTTTAAAATTGAATAT
*
1651657 ATTTTAATGAACAAAGTTTAAAATTGAATAT
1 ATTTTAATAAACAAAGTTTAAAATTGAATAT
1651688 ATTTT
1 ATTTT
1651693 GTTTGAAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 1 0.03
29 21 0.68
30 2 0.06
31 7 0.23
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.45
Consensus pattern (31 bp):
ATTTTAATAAACAAAGTTTAAAATTGAATAT
Found at i:1670843 original size:18 final size:18
Alignment explanation
Indices: 1670822--1670874 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
1670812 AACTAGAGAT
*
1670822 AAGGACAGAGAAAAGGAA
1 AAGGAAAGAGAAAAGGAA
* **
1670840 AAGGAAAGAGACAAGGTG
1 AAGGAAAGAGAAAAGGAA
*
1670858 AAGGAAAGGGAAAAGGA
1 AAGGAAAGAGAAAAGGA
1670875 GAGAGAGAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.57, C:0.04, G:0.38, T:0.02
Consensus pattern (18 bp):
AAGGAAAGAGAAAAGGAA
Found at i:1684670 original size:36 final size:35
Alignment explanation
Indices: 1684625--1684703 Score: 106
Period size: 36 Copynumber: 2.3 Consensus size: 35
1684615 ATCCCTCTAT
* *
1684625 CACCCCCTCCTCGAGCTATCTTTCAAATTATGTTCC
1 CACCTCCTCCTCCAGCTATCTTTCAAATTATG-TCC
* *
1684661 CACCTCCTCCTCCAGTTATCTTTCCAATTATGTCC
1 CACCTCCTCCTCCAGCTATCTTTCAAATTATGTCC
1684696 C-CCTCCTC
1 CACCTCCTC
1684704 GATTGTCTCA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
34 7 0.18
35 4 0.10
36 28 0.72
ACGTcount: A:0.16, C:0.43, G:0.06, T:0.34
Consensus pattern (35 bp):
CACCTCCTCCTCCAGCTATCTTTCAAATTATGTCC
Found at i:1687765 original size:16 final size:16
Alignment explanation
Indices: 1687744--1687774 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1687734 AAACCGAAAG
1687744 GTTAGAAAAAACTAAT
1 GTTAGAAAAAACTAAT
1687760 GTTAGAAAAAACTAA
1 GTTAGAAAAAACTAA
1687775 GCACAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.06, G:0.13, T:0.23
Consensus pattern (16 bp):
GTTAGAAAAAACTAAT
Found at i:1701433 original size:21 final size:21
Alignment explanation
Indices: 1701409--1701503 Score: 78
Period size: 21 Copynumber: 4.8 Consensus size: 21
1701399 AAATTATTTA
1701409 AAAATTATAAAAAATATTTTT
1 AAAATTATAAAAAATATTTTT
* * *
1701430 AAAATGTA-CAAGAAT-TATTT
1 AAAAT-TATAAAAAATATTTTT
*
1701450 AAAATT-T---AAATA-TTAT
1 AAAATTATAAAAAATATTTTT
* *
1701466 AGAATTGTAAAAAATATTTTT
1 AAAATTATAAAAAATATTTTT
1701487 AAAATTATAAAAAATAT
1 AAAATTATAAAAAATAT
1701504 AAAATTGTAA
Statistics
Matches: 56, Mismatches: 10, Indels: 16
0.68 0.12 0.20
Matches are distributed among these distances:
16 10 0.18
17 1 0.02
19 1 0.02
20 14 0.25
21 28 0.50
22 2 0.04
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.39
Consensus pattern (21 bp):
AAAATTATAAAAAATATTTTT
Found at i:1701514 original size:38 final size:38
Alignment explanation
Indices: 1701360--1701517 Score: 119
Period size: 37 Copynumber: 4.1 Consensus size: 38
1701350 CAAATAATAT
* * * *
1701360 AAAATCATTTTGAAAATTATAAAATATCAT-AACTTGTAC
1 AAAAT-ATTTTTAAAATTATAAAAAAT-ATAAAATTGTAA
* *
1701399 AAATTA-TTTAAAAATTATAAAAAATATTTTTAAAA-TGTACA
1 AAAATATTTTTAAAATTATAAAAAATA----TAAAATTGTA-A
* * * * *
1701440 AGAAT-TATTTAAAATT-TAAATATTATAGAATTGTAA
1 AAAATATTTTTAAAATTATAAAAAATATAAAATTGTAA
1701476 AAAATATTTTTAAAATTATAAAAAATATAAAATTGTAA
1 AAAATATTTTTAAAATTATAAAAAATATAAAATTGTAA
1701514 AAAA
1 AAAA
1701518 ACATAAAAAA
Statistics
Matches: 92, Mismatches: 17, Indels: 21
0.71 0.13 0.16
Matches are distributed among these distances:
36 10 0.11
37 31 0.34
38 22 0.24
39 4 0.04
40 12 0.13
41 13 0.14
ACGTcount: A:0.55, C:0.03, G:0.04, T:0.37
Consensus pattern (38 bp):
AAAATATTTTTAAAATTATAAAAAATATAAAATTGTAA
Found at i:1701517 original size:10 final size:10
Alignment explanation
Indices: 1701487--1701536 Score: 52
Period size: 10 Copynumber: 5.3 Consensus size: 10
1701477 AAATATTTTT
1701487 AAAATTATAA
1 AAAATTATAA
1701497 AAAA-TAT--
1 AAAATTATAA
*
1701504 AAAATTGTAA
1 AAAATTATAA
**
1701514 AAAAACATAA
1 AAAATTATAA
1701524 AAAATTATAA
1 AAAATTATAA
1701534 AAA
1 AAA
1701537 TATACAATAT
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
7 4 0.13
8 2 0.06
9 3 0.10
10 22 0.71
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (10 bp):
AAAATTATAA
Found at i:1705443 original size:21 final size:21
Alignment explanation
Indices: 1705405--1705444 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1705395 AGTTTTCAAG
* **
1705405 TCGAGTTTAGTTTTACACTTT
1 TCGAGTTGAGTTCAACACTTT
1705426 TCGAGTTGAGTTCAACACT
1 TCGAGTTGAGTTCAACACT
1705445 ACTTGAACTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.42
Consensus pattern (21 bp):
TCGAGTTGAGTTCAACACTTT
Found at i:1708697 original size:21 final size:22
Alignment explanation
Indices: 1708673--1708729 Score: 55
Period size: 23 Copynumber: 2.6 Consensus size: 22
1708663 TTAATATAAA
1708673 TTATATATATTAAAAT-TATGT
1 TTATATATATTAAAATATATGT
* *
1708694 TTATAAATAAATTAAAATATATTT
1 TTAT--ATATATTAAAATATATGT
*
1708718 TTACA-ATATTAA
1 TTATATATATTAA
1708730 TGTTAAAGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
21 10 0.34
22 1 0.03
23 11 0.38
24 7 0.24
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (22 bp):
TTATATATATTAAAATATATGT
Found at i:1717480 original size:61 final size:61
Alignment explanation
Indices: 1717381--1717500 Score: 152
Period size: 61 Copynumber: 2.0 Consensus size: 61
1717371 TCGGATGATC
* *
1717381 ATTTTATAAATTTTAATAATTAAAATACACAACAAAATAACATCTTATAATCAAAAAATTT
1 ATTTTATAAATTTTAATAATTAAAATACACAACAAAATAACATCTTACAATAAAAAAATTT
* * ** **
1717442 ATTTTATAATTTTTAATAATTAAACA-ACTCAATTAAATAATGTCTTACAATAAAAAAAT
1 ATTTTATAAATTTTAATAATTAAA-ATACACAACAAAATAACATCTTACAATAAAAAAAT
1717501 CAAGGCTATG
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
61 49 0.98
62 1 0.02
ACGTcount: A:0.53, C:0.09, G:0.01, T:0.38
Consensus pattern (61 bp):
ATTTTATAAATTTTAATAATTAAAATACACAACAAAATAACATCTTACAATAAAAAAATTT
Found at i:1722524 original size:15 final size:15
Alignment explanation
Indices: 1722504--1722541 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
1722494 TAATAATGTT
1722504 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
1722519 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
1722534 ATTTATTT
1 ATTTATTT
1722542 ATATTTCAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:1722526 original size:19 final size:19
Alignment explanation
Indices: 1722495--1722543 Score: 61
Period size: 15 Copynumber: 2.7 Consensus size: 19
1722485 TAAATAATTT
1722495 AATAATGTTATTTATTTTAA
1 AATAAT-TTATTTATTTTAA
1722515 AAT-A---ATTTATTTTAA
1 AATAATTTATTTATTTTAA
1722530 AATAATTTATTTAT
1 AATAATTTATTTAT
1722544 ATTTCAGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
15 14 0.56
16 1 0.04
19 7 0.28
20 3 0.12
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
AATAATTTATTTATTTTAA
Found at i:1723379 original size:16 final size:16
Alignment explanation
Indices: 1723358--1723390 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
1723348 TTTTATATGA
1723358 TTGAAATTAAAGATTT
1 TTGAAATTAAAGATTT
1723374 TTGAAATTAAAGATTT
1 TTGAAATTAAAGATTT
1723390 T
1 T
1723391 GTTTTATATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.45
Consensus pattern (16 bp):
TTGAAATTAAAGATTT
Found at i:1723432 original size:46 final size:44
Alignment explanation
Indices: 1723348--1723436 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 44
1723338 AATGAAGATC
1723348 TTTTATATGATTGAAATTAAAGATTTTTGAAATTAAAGATTTTG
1 TTTTATATGATTGAAATTAAAGATTTTTGAAATTAAAGATTTTG
*
1723392 TTTTATATGATTGAAATAGGTACA-ATTTTTGAAATTAAAGATTTT
1 TTTTATATGATTGAAAT---TAAAGATTTTTGAAATTAAAGATTTT
1723437 TTATATTATT
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
44 17 0.41
46 21 0.51
47 3 0.07
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.47
Consensus pattern (44 bp):
TTTTATATGATTGAAATTAAAGATTTTTGAAATTAAAGATTTTG
Found at i:1724340 original size:14 final size:14
Alignment explanation
Indices: 1724320--1724353 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1724310 TTATATGAAT
1724320 ATTTATAATCGAAA
1 ATTTATAATCGAAA
* *
1724334 TTTTATAATCTAAA
1 ATTTATAATCGAAA
1724348 ATTTAT
1 ATTTAT
1724354 TAAATTTTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (14 bp):
ATTTATAATCGAAA
Found at i:1726019 original size:2 final size:2
Alignment explanation
Indices: 1726007--1726043 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
1725997 TTGGATATTC
*
1726007 TA TA AA 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
1726044 CAAATTAAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1729770 original size:22 final size:24
Alignment explanation
Indices: 1729742--1729786 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
1729732 TTGTTTTTGA
*
1729742 GAAAAAAT-CAATTTTA-ATGAAT
1 GAAAAAATGAAATTTTAGATGAAT
1729764 GAAAAAATGAAATTTTAGATGAA
1 GAAAAAATGAAATTTTAGATGAA
1729787 AGAACGAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
23 7 0.35
24 5 0.25
ACGTcount: A:0.56, C:0.02, G:0.13, T:0.29
Consensus pattern (24 bp):
GAAAAAATGAAATTTTAGATGAAT
Found at i:1738404 original size:60 final size:60
Alignment explanation
Indices: 1738330--1738458 Score: 152
Period size: 60 Copynumber: 2.1 Consensus size: 60
1738320 TCGAATAATT
* * * * *
1738330 ATTTTGTAACTTTTAATAGTAGATGGACTTAACAAAGCAAT-TCCCTATAATCAGATGATC
1 ATTTTATAAATTTTAATAGTAGATAGACTCAACAAAGCAATAT-CCTATAATCAGAGGATC
* * * *
1738390 ATTTTATAAATTTTAATAGTCGATAGACTCAATAAAGCAATATCTTATAGTCAGAGGATC
1 ATTTTATAAATTTTAATAGTAGATAGACTCAACAAAGCAATATCCTATAATCAGAGGATC
1738450 ATTTGTATA
1 ATTT-TATA
1738459 TTTACCCTAA
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
60 53 0.91
61 5 0.09
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.36
Consensus pattern (60 bp):
ATTTTATAAATTTTAATAGTAGATAGACTCAACAAAGCAATATCCTATAATCAGAGGATC
Found at i:1739492 original size:16 final size:16
Alignment explanation
Indices: 1739465--1739498 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
1739455 TAAATCTATT
1739465 TTATTCATAATATTTAA
1 TTATTCATAATA-TTAA
1739482 TTATT-ATAATATTAA
1 TTATTCATAATATTAA
1739497 TT
1 TT
1739499 TTAAAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 6 0.35
17 5 0.29
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (16 bp):
TTATTCATAATATTAA
Found at i:1739854 original size:19 final size:19
Alignment explanation
Indices: 1739830--1739892 Score: 85
Period size: 19 Copynumber: 3.4 Consensus size: 19
1739820 ATCTAATTTA
*
1739830 AAAAAATCAGAAAAAATAT
1 AAAAAATCAGAAAAAATAC
1739849 AAAAAATCAGAAAAAATAC
1 AAAAAATCAGAAAAAATAC
*
1739868 AAAAAAAT-ACAAAAAAT-C
1 -AAAAAATCAGAAAAAATAC
1739886 AAAAAAT
1 AAAAAAT
1739893 TACAAAACAA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.17
18 1 0.02
19 26 0.63
20 7 0.17
ACGTcount: A:0.76, C:0.08, G:0.03, T:0.13
Consensus pattern (19 bp):
AAAAAATCAGAAAAAATAC
Found at i:1739872 original size:29 final size:28
Alignment explanation
Indices: 1739829--1739899 Score: 99
Period size: 29 Copynumber: 2.5 Consensus size: 28
1739819 AATCTAATTT
*
1739829 AAAAAAAT-CAGAAAAAATATAAAAAATC
1 AAAAAAATACA-AAAAAATACAAAAAATC
1739857 AGAAAAAATACAAAAAAATACAAAAAATC
1 A-AAAAAATACAAAAAAATACAAAAAATC
*
1739886 AAAAAATTACAAAA
1 AAAAAAATACAAAA
1739900 CAATTAATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 13 0.33
29 24 0.62
30 2 0.05
ACGTcount: A:0.76, C:0.08, G:0.03, T:0.13
Consensus pattern (28 bp):
AAAAAAATACAAAAAAATACAAAAAATC
Found at i:1739881 original size:18 final size:18
Alignment explanation
Indices: 1739829--1739899 Score: 72
Period size: 19 Copynumber: 3.8 Consensus size: 18
1739819 AATCTAATTT
*
1739829 AAAAAAATCAGAAAAAAT-
1 AAAAAAAT-ACAAAAAATC
*
1739847 ATAAAAAATCAGAAAAAATAC
1 A-AAAAAAT-ACAAAAAAT-C
1739868 AAAAAAATACAAAAAATC
1 AAAAAAATACAAAAAATC
*
1739886 AAAAAATTACAAAA
1 AAAAAAATACAAAA
1739900 CAATTAATAT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
18 15 0.31
19 25 0.52
20 7 0.15
21 1 0.02
ACGTcount: A:0.76, C:0.08, G:0.03, T:0.13
Consensus pattern (18 bp):
AAAAAAATACAAAAAATC
Found at i:1739899 original size:9 final size:9
Alignment explanation
Indices: 1739830--1739899 Score: 70
Period size: 10 Copynumber: 7.4 Consensus size: 9
1739820 ATCTAATTTA
*
1739830 AAAAAATCAG
1 AAAAAAT-AC
*
1739840 AAAAAATAT
1 AAAAAATAC
*
1739849 AAAAAATCAG
1 AAAAAAT-AC
1739859 AAAAAATAC
1 AAAAAATAC
1739868 AAAAAAATAC
1 -AAAAAATAC
1739878 AAAAAAT-C
1 AAAAAATAC
1739886 AAAAAATTAC
1 AAAAAA-TAC
1739896 AAAA
1 AAAA
1739900 CAATTAATAT
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
8 7 0.13
9 17 0.32
10 29 0.55
ACGTcount: A:0.76, C:0.09, G:0.03, T:0.13
Consensus pattern (9 bp):
AAAAAATAC
Found at i:1743707 original size:36 final size:36
Alignment explanation
Indices: 1743653--1743725 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
1743643 AACTTTCTGC
*
1743653 TATGATGAAAGTGATAAGTTACCTTACTGCATCAGA
1 TATGATGAAAGAGATAAGTTACCTTACTGCATCAGA
*
1743689 TATGATGAAAGAGGTAAGTTACCTTACTGCATCAGA
1 TATGATGAAAGAGATAAGTTACCTTACTGCATCAGA
1743725 T
1 T
1743726 GTCGATAACA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.30
Consensus pattern (36 bp):
TATGATGAAAGAGATAAGTTACCTTACTGCATCAGA
Found at i:1746048 original size:23 final size:23
Alignment explanation
Indices: 1746022--1746066 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1746012 CACCACAGCT
* *
1746022 CGTATAATTGCACCGAAGTGCCG
1 CGTAGAATTACACCGAAGTGCCG
*
1746045 CGTAGAATTACACCGTAGTGCC
1 CGTAGAATTACACCGAAGTGCC
1746067 ATATAATGAT
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:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (23 bp):
CGTAGAATTACACCGAAGTGCCG
Found at i:1746319 original size:14 final size:14
Alignment explanation
Indices: 1746300--1746327 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1746290 AACTTGTAAT
1746300 TCACGTATCACATA
1 TCACGTATCACATA
1746314 TCACGTATCACATA
1 TCACGTATCACATA
1746328 GCTTCTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.29, G:0.07, T:0.29
Consensus pattern (14 bp):
TCACGTATCACATA
Found at i:1747722 original size:21 final size:21
Alignment explanation
Indices: 1747698--1747742 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1747688 TGTTGTTCGT
* *
1747698 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
1747719 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
1747740 TTG
1 TTG
1747743 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:1759308 original size:2 final size:2
Alignment explanation
Indices: 1759301--1759335 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1759291 TAGTTTGACG
1759301 TA TA 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 T
1759336 TGATAGAAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1764938 original size:31 final size:30
Alignment explanation
Indices: 1764895--1764974 Score: 99
Period size: 31 Copynumber: 2.6 Consensus size: 30
1764885 ACATTTTCTT
* * *
1764895 CGTTTCATTTTAGGTGTCTAACGTTTTT-T
1 CGTTACATTTTAGGTGTCTAACATTTTTGA
1764924 CTGTTACATTTTTAGGTGTCTAACATTTTTGA
1 C-GTTACA-TTTTAGGTGTCTAACATTTTTGA
*
1764956 CGTTATATTTTAGGTGTCT
1 CGTTACATTTTAGGTGTCT
1764975 GAGCTGTAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
29 1 0.02
30 17 0.39
31 25 0.57
32 1 0.02
ACGTcount: A:0.17, C:0.12, G:0.17, T:0.53
Consensus pattern (30 bp):
CGTTACATTTTAGGTGTCTAACATTTTTGA
Found at i:1764951 original size:17 final size:17
Alignment explanation
Indices: 1764902--1764953 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
1764892 CTTCGTTTCA
*
1764902 TTTTAGGTGTCTAACGT
1 TTTTAGGTGTCTAACAT
**
1764919 TTTT-TCTGT-T-ACAT
1 TTTTAGGTGTCTAACAT
1764933 TTTTAGGTGTCTAACAT
1 TTTTAGGTGTCTAACAT
1764950 TTTT
1 TTTT
1764954 GACGTTATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 6
0.71 0.13 0.16
Matches are distributed among these distances:
14 7 0.26
15 4 0.15
16 4 0.15
17 12 0.44
ACGTcount: A:0.17, C:0.12, G:0.15, T:0.56
Consensus pattern (17 bp):
TTTTAGGTGTCTAACAT
Found at i:1765441 original size:31 final size:33
Alignment explanation
Indices: 1765391--1765456 Score: 109
Period size: 31 Copynumber: 2.1 Consensus size: 33
1765381 TGGTTTTTTT
*
1765391 TTTAAAAAAGATATATGATTTTTTTAAAAAGTA
1 TTTAAAAAAGATATATGATTTTTTAAAAAAGTA
1765424 TTTAAAAAA-A-ATATGATTTTTTAAAAAAGTA
1 TTTAAAAAAGATATATGATTTTTTAAAAAAGTA
1765455 TT
1 TT
1765457 ATTTTTTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 22 0.69
32 1 0.03
33 9 0.28
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (33 bp):
TTTAAAAAAGATATATGATTTTTTAAAAAAGTA
Found at i:1765448 original size:19 final size:19
Alignment explanation
Indices: 1765424--1765464 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
1765414 TTAAAAAGTA
1765424 TTTAAAAAAAATATGATTT
1 TTTAAAAAAAATATGATTT
* *
1765443 TTT-AAAAAAGTATTATTT
1 TTTAAAAAAAATATGATTT
1765461 TTTA
1 TTTA
1765465 TTAAAAGCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (19 bp):
TTTAAAAAAAATATGATTT
Found at i:1769927 original size:24 final size:24
Alignment explanation
Indices: 1769900--1769954 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
1769890 CGTTCATTTA
* *
1769900 CGTTCGTGAACGTTCGGTTATGTT
1 CGTTCATGAACGTTCGGTTATCTT
* **
1769924 CGTTTATGTTCGTTCGGTTATCTT
1 CGTTCATGAACGTTCGGTTATCTT
1769948 CGTTCAT
1 CGTTCAT
1769955 TTATGTTTAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.11, C:0.18, G:0.24, T:0.47
Consensus pattern (24 bp):
CGTTCATGAACGTTCGGTTATCTT
Found at i:1769938 original size:14 final size:14
Alignment explanation
Indices: 1769921--1769961 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
1769911 GTTCGGTTAT
1769921 GTTCGTTTATGTTC
1 GTTCGTTTATGTTC
* *
1769935 GTTCGGTTATCTTC
1 GTTCGTTTATGTTC
*
1769949 GTTCATTTATGTT
1 GTTCGTTTATGTT
1769962 TAACCCAATC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.10, C:0.15, G:0.20, T:0.56
Consensus pattern (14 bp):
GTTCGTTTATGTTC
Found at i:1771077 original size:16 final size:16
Alignment explanation
Indices: 1771034--1771077 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
1771024 GTCTCCAACG
*
1771034 TTTATGTTCGTATTCA
1 TTTATGTTCGTGTTCA
*
1771050 TTTATGTTCGTGTTCT
1 TTTATGTTCGTGTTCA
*
1771066 TTTATTTTCGTG
1 TTTATGTTCGTG
1771078 AACGAACATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.11, C:0.11, G:0.16, T:0.61
Consensus pattern (16 bp):
TTTATGTTCGTGTTCA
Found at i:1771126 original size:16 final size:16
Alignment explanation
Indices: 1771102--1771134 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1771092 AAAAAAATTT
1771102 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
1771118 TGTTTGTTTATGTTCG
1 TGTTCGTTTATGTTCG
1771134 T
1 T
1771135 TTATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.09, G:0.24, T:0.61
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:1771556 original size:156 final size:155
Alignment explanation
Indices: 1771267--1771574 Score: 474
Period size: 156 Copynumber: 2.0 Consensus size: 155
1771257 AAATGGAGCC
1771267 TAAGCTGTTAAGAAATGATTTGCTAAGGCAGTTATCTGTTTTCTATGTCTACTGCAGTTCTCAGT
1 TAAGCTGTTAAGAAATGATTTGCTAAGGCAGTTATCTGTTTTCTATGTCTACTGCAGTTCTCAGT
* * * * *
1771332 TTGCTCTCCAATCATATTTGTAAATTATTTTCCAAGATGTTGTTGGTCGACCTGCTTCCTGGCTC
66 TTGCTCTCCAATCATATTTATAAATTATTTTCCAAGAAGTAGTTGATCAACCTGCTTCCTGGCTC
1771397 TTTGCATATGAGAAAGTAAGTTTGAA
131 TTTGCATATGA-AAAGTAAGTTTGAA
* * * *
1771423 TAAGTTGTTAAGAAGTG-TTCTGCTAAGGCAGTTATCTGTTTTGTATGTCTACTGCAGTTCTCAT
1 TAAGCTGTTAAGAAATGATT-TGCTAAGGCAGTTATCTGTTTTCTATGTCTACTGCAGTTCTCAG
* * *
1771487 TTTGCTCTCCGATCATATTTATACATTATTTTCCACGAAGTAGTTGATCAACCTGCTTCCTGGCT
65 TTTGCTCTCCAATCATATTTATAAATTATTTTCCAAGAAGTAGTTGATCAACCTGCTTCCTGGCT
*
1771552 CTTTGCCTATGAAAAGTAAGTTT
130 CTTTGCATATGAAAAGTAAGTTT
1771575 AAATCTTTCT
Statistics
Matches: 138, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
155 13 0.09
156 125 0.91
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.40
Consensus pattern (155 bp):
TAAGCTGTTAAGAAATGATTTGCTAAGGCAGTTATCTGTTTTCTATGTCTACTGCAGTTCTCAGT
TTGCTCTCCAATCATATTTATAAATTATTTTCCAAGAAGTAGTTGATCAACCTGCTTCCTGGCTC
TTTGCATATGAAAAGTAAGTTTGAA
Found at i:1775869 original size:26 final size:26
Alignment explanation
Indices: 1775839--1775899 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
1775829 ACTTATACTT
*
1775839 TAAATAGTAATTTACATCTAACAGTA
1 TAAATAGTAATCTACATCTAACAGTA
* **
1775865 TAAATAGTAATCTATATCTAATTGTA
1 TAAATAGTAATCTACATCTAACAGTA
1775891 TAAATAGTA
1 TAAATAGTA
1775900 GTGTAGATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (26 bp):
TAAATAGTAATCTACATCTAACAGTA
Found at i:1779003 original size:32 final size:32
Alignment explanation
Indices: 1778948--1779028 Score: 85
Period size: 32 Copynumber: 2.5 Consensus size: 32
1778938 CATATGCTAA
* *
1778948 ATCACTTAAGATGAT-AAAGTGATAAGT-ATCAC
1 ATCACTTAAGATAATGATA-TGATAAGTAAT-AC
* *
1778980 ATCATTTAAGATAATGATATGATATGTAATAC
1 ATCACTTAAGATAATGATATGATAAGTAATAC
*
1779012 ATCACTTAAGGTAATGA
1 ATCACTTAAGATAATGA
1779029 GGTAGTACGT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
32 37 0.90
33 4 0.10
ACGTcount: A:0.43, C:0.10, G:0.15, T:0.32
Consensus pattern (32 bp):
ATCACTTAAGATAATGATATGATAAGTAATAC
Found at i:1779279 original size:30 final size:30
Alignment explanation
Indices: 1779245--1779307 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
1779235 AAATACTAAT
*
1779245 TTAACTCTTAAATTTTAGATGAAA-TATCAA
1 TTAACCCTTAAATTTTAGAT-AAATTATCAA
*
1779275 TTAACCCTTAAATTTTAGATAAATTATTAA
1 TTAACCCTTAAATTTTAGATAAATTATCAA
1779305 TTA
1 TTA
1779308 TCGTCCACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 3 0.10
30 27 0.90
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.43
Consensus pattern (30 bp):
TTAACCCTTAAATTTTAGATAAATTATCAA
Found at i:1779712 original size:17 final size:18
Alignment explanation
Indices: 1779687--1779720 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1779677 ACAAGGTTAA
1779687 AAATATATC-ATAATATT
1 AAATATATCAATAATATT
*
1779704 AAATTTATCAATAATAT
1 AAATATATCAATAATAT
1779721 ATATTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (18 bp):
AAATATATCAATAATATT
Found at i:1780581 original size:30 final size:30
Alignment explanation
Indices: 1780545--1780608 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 30
1780535 GTCAACTATA
1780545 ATTTTGTGCTATTATATTTCATATTATTGT-
1 ATTTTGTGCTATTATATTTCATATT-TTGTC
* *
1780575 ATTTTGTGCTATTTTATTTTATATTTTGTC
1 ATTTTGTGCTATTATATTTCATATTTTGTC
1780605 ATTT
1 ATTT
1780609 ACTATATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 4 0.13
30 27 0.87
ACGTcount: A:0.20, C:0.06, G:0.09, T:0.64
Consensus pattern (30 bp):
ATTTTGTGCTATTATATTTCATATTTTGTC
Found at i:1781810 original size:21 final size:21
Alignment explanation
Indices: 1781786--1781844 Score: 100
Period size: 21 Copynumber: 2.8 Consensus size: 21
1781776 ACTCGGACAG
1781786 TATTAACACAGCAGCATACAA
1 TATTAACACAGCAGCATACAA
* *
1781807 TATTAACACAACAGCATACAG
1 TATTAACACAGCAGCATACAA
1781828 TATTAACACAGCAGCAT
1 TATTAACACAGCAGCAT
1781845 TCCTGCAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.46, C:0.24, G:0.10, T:0.20
Consensus pattern (21 bp):
TATTAACACAGCAGCATACAA
Found at i:1784160 original size:43 final size:42
Alignment explanation
Indices: 1784081--1784161 Score: 101
Period size: 43 Copynumber: 1.9 Consensus size: 42
1784071 TTTAGGAAAA
*
1784081 AAAACGCCGTAAATGGTTTTGAGATGTAGCGGCGTTTTACTT
1 AAAACGCCGTAAATGGTTTTGAGATGTAGCGACGTTTTACTT
* * *
1784123 AAAACTGCCGT-AATAGGTTTTGATATTTTGCGACGTTTT
1 AAAAC-GCCGTAAAT-GGTTTTGAGATGTAGCGACGTTTT
1784162 TCCCATAAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
42 8 0.24
43 25 0.76
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (42 bp):
AAAACGCCGTAAATGGTTTTGAGATGTAGCGACGTTTTACTT
Found at i:1784308 original size:44 final size:44
Alignment explanation
Indices: 1784255--1784356 Score: 141
Period size: 44 Copynumber: 2.3 Consensus size: 44
1784245 TCTAGTGCAA
* *
1784255 AAACGCCGCTAAATGCATGGTATATTGCGACGTTTGTAGTATAC
1 AAACGCCGCTAAATGCATGGTATATTGCGACATTTCTAGTATAC
* ** * *
1784299 AAGCGCCGCTAAATGTTTGGTATATTGCGACATTTCTAGTTTGC
1 AAACGCCGCTAAATGCATGGTATATTGCGACATTTCTAGTATAC
1784343 AAACGCCGCTAAAT
1 AAACGCCGCTAAAT
1784357 AACACAGGAT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (44 bp):
AAACGCCGCTAAATGCATGGTATATTGCGACATTTCTAGTATAC
Found at i:1790814 original size:52 final size:52
Alignment explanation
Indices: 1790714--1790877 Score: 258
Period size: 52 Copynumber: 3.1 Consensus size: 52
1790704 ATTAAGACAG
* *
1790714 AAGTACTTATGCATAAA-ACTACTTAACAACAAACATTATAATTTAGAAACATTA
1 AAGTACTTATGCATAAACAGTA-TT--CAACATACATTATAATTTAGAAACATTA
*
1790768 AAGTACTTATGCATAAACAGTATTCACCATACATTATAATTTAGAAACATTA
1 AAGTACTTATGCATAAACAGTATTCAACATACATTATAATTTAGAAACATTA
*
1790820 AAGTACTTATGCATAAACAGTCTTCAACATACATTATAATTTAGAAACATTA
1 AAGTACTTATGCATAAACAGTATTCAACATACATTATAATTTAGAAACATTA
1790872 AAGTAC
1 AAGTAC
1790878 CATAAACAGT
Statistics
Matches: 104, Mismatches: 5, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
52 82 0.79
54 19 0.18
55 3 0.03
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.31
Consensus pattern (52 bp):
AAGTACTTATGCATAAACAGTATTCAACATACATTATAATTTAGAAACATTA
Found at i:1802081 original size:29 final size:29
Alignment explanation
Indices: 1802049--1802114 Score: 132
Period size: 29 Copynumber: 2.3 Consensus size: 29
1802039 GTTTGTATAG
1802049 AAACTCGAACAACTTAACTCATATTTCTT
1 AAACTCGAACAACTTAACTCATATTTCTT
1802078 AAACTCGAACAACTTAACTCATATTTCTT
1 AAACTCGAACAACTTAACTCATATTTCTT
1802107 AAACTCGA
1 AAACTCGA
1802115 CTAGATTCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.39, C:0.24, G:0.05, T:0.32
Consensus pattern (29 bp):
AAACTCGAACAACTTAACTCATATTTCTT
Found at i:1806224 original size:30 final size:30
Alignment explanation
Indices: 1806188--1806245 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 30
1806178 ATTTTATCCA
1806188 TAAACTTAGATAGAA-TATTAATTTGACCTC
1 TAAACTTAGATA-AAGTATTAATTTGACCTC
1806218 TAAACTTAGATAAAGTATTAATTTGACC
1 TAAACTTAGATAAAGTATTAATTTGACC
1806246 ACTGAATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 2 0.07
30 25 0.93
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.36
Consensus pattern (30 bp):
TAAACTTAGATAAAGTATTAATTTGACCTC
Done.