Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008092.1 Hibiscus syriacus cultivar Beakdansim tig00110607_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: 2324158
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 12
Found at i:1842588 original size:2 final size:2
Alignment explanation
Indices: 1842581--1842612 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1842571 CCAATACCCA
1842581 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
1842613 TCTTTTTCAA
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:1845647 original size:48 final size:48
Alignment explanation
Indices: 1845572--1845663 Score: 157
Period size: 48 Copynumber: 1.9 Consensus size: 48
1845562 TTGGGCCAGG
* *
1845572 ATAATTTTGAATGTTATTAATAATCATATATTATTGCTACGTACCGGA
1 ATAATTTTGAATGTTATGAATAATCATATACTATTGCTACGTACCGGA
*
1845620 ATAATTTTGAATGTTATGAATATTCATATACTATTGCTACGTAC
1 ATAATTTTGAATGTTATGAATAATCATATACTATTGCTACGTAC
1845664 GTGAACATGT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.42
Consensus pattern (48 bp):
ATAATTTTGAATGTTATGAATAATCATATACTATTGCTACGTACCGGA
Found at i:1853906 original size:29 final size:29
Alignment explanation
Indices: 1853864--1853947 Score: 123
Period size: 29 Copynumber: 2.9 Consensus size: 29
1853854 CTCCGAAGAG
** *
1853864 GATCCCAAACAGAAACATGATGAGAATAT
1 GATCCCATGCAGAAACATGACGAGAATAT
*
1853893 GATCCCATGCAGAAACATGACGAGGATAT
1 GATCCCATGCAGAAACATGACGAGAATAT
1853922 GATCCCATGCAGAAACATGACAGAGA
1 GATCCCATGCAGAAACATGAC-GAGA
1853948 TATTGCCATC
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 46 0.94
30 3 0.06
ACGTcount: A:0.43, C:0.20, G:0.21, T:0.15
Consensus pattern (29 bp):
GATCCCATGCAGAAACATGACGAGAATAT
Found at i:1854787 original size:20 final size:20
Alignment explanation
Indices: 1854762--1854836 Score: 123
Period size: 20 Copynumber: 3.8 Consensus size: 20
1854752 CAATGCTGGT
* *
1854762 AGTATCGATACTACTTAGTG
1 AGTATCGATACTTCCTAGTG
1854782 AGTATCGATACTTCCTAGTG
1 AGTATCGATACTTCCTAGTG
1854802 AGTATCGATACTTCCTAGTG
1 AGTATCGATACTTCCTAGTG
*
1854822 AGTATCAATACTTCC
1 AGTATCGATACTTCC
1854837 CTTACCTTGG
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (20 bp):
AGTATCGATACTTCCTAGTG
Found at i:1859013 original size:31 final size:30
Alignment explanation
Indices: 1858978--1859056 Score: 76
Period size: 31 Copynumber: 2.6 Consensus size: 30
1858968 TATATTTATA
*
1858978 TTTTCATTCTTTTTTATTTGT-TTTATCATT
1 TTTTCATTCTTTTTTATTTGTATATA-CATT
*
1859008 GTTTTCATT-TTTGTTTCTTATGTATATACATT
1 -TTTTCATTCTTT-TTTATT-TGTATATACATT
1859040 TTTTC--TCTTTTTTATTT
1 TTTTCATTCTTTTTTATTT
1859057 TTTAAATATT
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
28 1 0.02
29 6 0.15
30 6 0.15
31 18 0.44
32 7 0.17
33 3 0.07
ACGTcount: A:0.14, C:0.10, G:0.05, T:0.71
Consensus pattern (30 bp):
TTTTCATTCTTTTTTATTTGTATATACATT
Found at i:1859143 original size:14 final size:13
Alignment explanation
Indices: 1859126--1859155 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
1859116 GTATTTTGTC
1859126 TTTTACTTTTACCT
1 TTTTACTTTTA-CT
1859140 TTTTACTTTTACT
1 TTTTACTTTTACT
1859153 TTT
1 TTT
1859156 ATTTATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTACTTTTACT
Found at i:1859235 original size:15 final size:15
Alignment explanation
Indices: 1859196--1859228 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
1859186 AAAAAATTCC
1859196 TTTTGATTTTATTAT
1 TTTTGATTTTATTAT
1859211 TTTTGATTTTATTAT
1 TTTTGATTTTATTAT
1859226 TTT
1 TTT
1859229 ATGTTTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (15 bp):
TTTTGATTTTATTAT
Found at i:1862646 original size:96 final size:96
Alignment explanation
Indices: 1862469--1862732 Score: 329
Period size: 96 Copynumber: 2.7 Consensus size: 96
1862459 TTATAATAAT
* * *
1862469 ATTATATATATACAATAAAGCTTGAGTTGTACCTCTAAAGCAATTGGTTAAACGCCCCAGT-TTT
1 ATTATA-ATATACAATAAAACTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCAGTCTTT
* *
1862533 ATGGATAAGATTCAGCTAAGCCTGATAAAGGTG
65 ATGGATAAGATTCAGCT-AGCCTAATAAAGGCG
*
1862566 ATTATAATATACAATAAAACTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACG-CCCTGTCTTTA
1 ATTATAATATACAATAAAACTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCAGTCTTTA
* *
1862630 TGGATAATATTTAGCTAGCCTAATAAAGGCG
66 TGGATAAGATTCAGCTAGCCTAATAAAGGCG
* * * * *
1862661 ATTGTAATAT-CTATACAATGATATTAAGTTGTCCCTCTAGAGAAATTGGTTAAACGCCCCAG-C
1 ATTATAATATACAATA-AA--A-CTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCAGTC
1862724 TTTATGGAT
62 TTTATGGAT
1862733 TCATCTAGCC
Statistics
Matches: 147, Mismatches: 14, Indels: 11
0.85 0.08 0.06
Matches are distributed among these distances:
94 4 0.03
95 29 0.20
96 62 0.42
97 7 0.05
98 41 0.28
99 4 0.03
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (96 bp):
ATTATAATATACAATAAAACTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCAGTCTTTA
TGGATAAGATTCAGCTAGCCTAATAAAGGCG
Found at i:1864114 original size:36 final size:34
Alignment explanation
Indices: 1864069--1864726 Score: 499
Period size: 36 Copynumber: 18.8 Consensus size: 34
1864059 AAAAAATTGA
*
1864069 CTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTTT
1 CTCTCTTGAGACAGTTTCCCTTGAAACAAA--TTTT
1864105 CTCTCTTGAGACAGTTTCCCTTGAAACAAATTTT
1 CTCTCTTGAGACAGTTTCCCTTGAAACAAATTTT
1864139 CTCTCTTGAGACAGTTTCCCCTTGAAACAAA----
1 CTCTCTTGAGACAGTTT-CCCTTGAAACAAATTTT
* * *
1864170 ATCT-TTGA-ATCTGTTTTCCTTGAAACAAATTTCGT
1 CTCTCTTGAGA-CAGTTTCCCTTGAAACAAATTT--T
* * ** * *
1864205 CTCCCTTGAGACATTTTCTTTTGGAACTAAGTTTTGT
1 CTCTCTTGAGACAGTTTCCCTTGAAAC-AA-ATTT-T
*
1864242 CTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGT
1 CTCTCTTGAGACAGTTTCCCTTGAAACAAA-TTT-T
*
1864278 CTCTCTTTAGACAGTTTCCCTTGAAACAAATTTTGT
1 CTCTCTTGAGACAGTTTCCCTTGAAACAAA-TTT-T
*
1864314 CTCTCTTGAGACAGTTTCCCTTGAAATAAA----
1 CTCTCTTGAGACAGTTTCCCTTGAAACAAATTTT
* * * *
1864344 ATCT-TTGA-ATATGTTTTCCTTAAAACAAATTTTGT
1 CTCTCTTGAGACA-GTTTCCCTTGAAACAAA-TTT-T
* * ** * *
1864379 CTCCCTTGAGACATTTTCTTTTGGAACTAAGTTTTGT
1 CTCTCTTGAGACAGTTTCCCTTGAAAC-AA-ATTT-T
* *
1864416 CTCTCTTGAGACAGTTTCACATGAAACAAATTTTGT
1 CTCTCTTGAGACAGTTTCCCTTGAAACAAA-TTT-T
*
1864452 CTCTCTTGAGATAGTTTCCCTTGAAACAAATTTTGT
1 CTCTCTTGAGACAGTTTCCCTTGAAACAAA-TTT-T
*
1864488 CTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTGT
1 CTCTCTTGAGACAGTTTCCCTTGAAAC-AAATTT-T
*
1864524 CTCTCTTGAGATAGTTTCCCTTGAAACAAATTTTGT
1 CTCTCTTGAGACAGTTTCCCTTGAAACAAA-TTT-T
1864560 CTCTCTTGAGACAGTTTCCCTTGAAACAAA----
1 CTCTCTTGAGACAGTTTCCCTTGAAACAAATTTT
* * *
1864590 ATCT-TTGA-ATATGTATT-CCTTTAAACAAATTTTGT
1 CTCTCTTGAGACA-GT-TTCCCTTGAAACAAA-TTT-T
* ** * *
1864625 CTCTCTCGAGACAGTTTCTTTTGGAACTAAGTTTTGT
1 CTCTCTTGAGACAGTTTCCCTTGAAAC-AA-ATTT-T
*
1864662 CTCTCTTGAGACAGTTTCTCTTGAAACAAAATTTT
1 CTCTCTTGAGACAGTTTCCCTTGAAAC-AAATTTT
* *
1864697 GCCTCCCTTGAGACAGTTTCTCTTGAAACA
1 --CTCTCTTGAGACAGTTTCCCTTGAAACA
1864727 CAAAAAAACC
Statistics
Matches: 515, Mismatches: 65, Indels: 84
0.78 0.10 0.13
Matches are distributed among these distances:
28 4 0.01
29 48 0.09
30 17 0.03
31 3 0.01
34 21 0.04
35 26 0.05
36 271 0.53
37 122 0.24
38 3 0.01
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.41
Consensus pattern (34 bp):
CTCTCTTGAGACAGTTTCCCTTGAAACAAATTTT
Found at i:1864244 original size:37 final size:36
Alignment explanation
Indices: 1864184--1864726 Score: 548
Period size: 36 Copynumber: 15.4 Consensus size: 36
1864174 TTGAATCTGT
* * *
1864184 TTTC-CTTGAAACAAATTTCGTCTCCCTTGAGACAT
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* * *
1864219 TTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAAC-AAATTTTGTCTCTCTTGAGACAG
*
1864256 TTTCTCTTGAAACAAATTTTGTCTCTCTTTAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
*
1864292 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* * * *
1864328 TTTCCCTTGAAATAAA------ATCT-TTGA-ATATG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACA-G
* * *
1864357 TTT-TCCTTAAAACAAATTTTGTCTCCCTTGAGACAT
1 TTTCT-CTTGAAACAAATTTTGTCTCTCTTGAGACAG
* * *
1864393 TTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAAC-AAATTTTGTCTCTCTTGAGACAG
* * *
1864430 TTTCACATGAAACAAATTTTGTCTCTCTTGAGATAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* *
1864466 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGATAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* * *
1864502 TTTCCCTTGAAACAAAATTTGTCTCTCTTGAGATAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
*
1864538 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* * *
1864574 TTTCCCTTGAAACAAA------ATCT-TTGA-ATATG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACA-G
* *
1864603 TATTC-CTTTAAACAAATTTTGTCTCTCTCGAGACAG
1 T-TTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* * *
1864639 TTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAAC-AAATTTTGTCTCTCTTGAGACAG
* *
1864676 TTTCTCTTGAAACAAAATTTTGCCTCCCTTGAGACAG
1 TTTCTCTTGAAAC-AAATTTTGTCTCTCTTGAGACAG
1864713 TTTCTCTTGAAACA
1 TTTCTCTTGAAACA
1864727 CAAAAAAACC
Statistics
Matches: 426, Mismatches: 56, Indels: 51
0.80 0.11 0.10
Matches are distributed among these distances:
28 4 0.01
29 33 0.08
30 9 0.02
35 12 0.03
36 239 0.56
37 129 0.30
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.41
Consensus pattern (36 bp):
TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
Found at i:1864283 original size:21 final size:21
Alignment explanation
Indices: 1864258--1864322 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 21
1864248 TGAGACAGTT
1864258 TCTCTTGAAACAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
* * *
1864279 TCTCTTTAGAC--A-GTT-TC
1 TCTCTTGAAACAAATTTTGTC
1864296 -C-CTTGAAACAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
1864315 TCTCTTGA
1 TCTCTTGA
1864323 GACAGTTTCC
Statistics
Matches: 32, Mismatches: 6, Indels: 12
0.64 0.12 0.24
Matches are distributed among these distances:
15 6 0.19
16 1 0.03
17 3 0.09
18 4 0.12
19 3 0.09
20 1 0.03
21 14 0.44
ACGTcount: A:0.25, C:0.22, G:0.11, T:0.43
Consensus pattern (21 bp):
TCTCTTGAAACAAATTTTGTC
Found at i:1864402 original size:174 final size:174
Alignment explanation
Indices: 1864069--1864697 Score: 818
Period size: 174 Copynumber: 3.6 Consensus size: 174
1864059 AAAAAATTGA
*
1864069 CTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTTTCTCTCTTGAGACAGTTTCCCTTGAAACAA
1 CTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAA
*
1864134 A-TTT-TCTCTCTTGAGACAGTTTCCCCTTGAAACAAAATCTTTGAATCTGTTTTCCTTGAAACA
66 ATTTTGTCTCTCTTGAGACAGTTT-CCCTTGAAACAAAATCTTTGAATATGTTTTCCTTGAAACA
*
1864197 AATTTCGTCTCCCTTGAGACATTTTCTTTTGGAACTAAGTTTTGT
130 AATTTTGTCTCCCTTGAGACATTTTCTTTTGGAACTAAGTTTTGT
*
1864242 CTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTTAGACAGTTTCCCTTGAAACAA
1 CTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAA
* *
1864307 ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAATAAAATCTTTGAATATGTTTTCCTTAAAACAA
66 ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATATGTTTTCCTTGAAACAA
1864372 ATTTTGTCTCCCTTGAGACATTTTCTTTTGGAACTAAGTTTTGT
131 ATTTTGTCTCCCTTGAGACATTTTCTTTTGGAACTAAGTTTTGT
* * *
1864416 CTCTCTTGAGACAGTTTCACATGAAACAAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAA
1 CTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAA
* *
1864481 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTGTCTCTCTTGAGATA-GTTTCCCT
66 ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAA------TCT-TTGA-ATATGTTTTCCT
* * ** * *
1864545 TGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AA------A
123 TGAAACAAATTTTGTCTCCCTTGAGACATTTTCTTTTGGAACTAAGTTTTGT
* * * * ** *
1864590 ATCT-TTGA-ATATGTATTC-CTTTAAACAAATTTTGTCTCTCTCGAGACAGTTTCTTTTGGAAC
1 CTCTCTTGAGACA-GT-TTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC
* *
1864652 TAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAAT-TTTG
64 -AAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTG
1864698 CCTCCCTTGA
Statistics
Matches: 411, Mismatches: 32, Indels: 33
0.86 0.07 0.07
Matches are distributed among these distances:
166 3 0.01
167 1 0.00
168 1 0.00
172 2 0.00
173 107 0.26
174 224 0.55
175 18 0.04
180 5 0.01
181 47 0.11
182 3 0.01
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.41
Consensus pattern (174 bp):
CTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAA
ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATATGTTTTCCTTGAAACAA
ATTTTGTCTCCCTTGAGACATTTTCTTTTGGAACTAAGTTTTGT
Found at i:1864441 original size:102 final size:102
Alignment explanation
Indices: 1864256--1864541 Score: 308
Period size: 109 Copynumber: 2.7 Consensus size: 102
1864246 CTTGAGACAG
* * *
1864256 TTTCTCTTGAAACAAATTTTGTCTCTCTTTAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTT
1 TTTCTCTTAAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTT
* *
1864321 GAGACAGTTTCCCTTGAAATAAAATCTTTGAATATGT
66 GAGACAGTTTCACATGAAATAAAATCTTTGAATATGT
* ** * *
1864358 TTTC-CTTAAAACAAATTTTGTCTCCCTTGAGACATTTTCTTTTGGAACTAAGTTTTGTCTCTCT
1 TTTCTCTTAAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAAC-AAATTTTGTCTCTCT
* *
1864422 TGAGACAGTTTCACATGAAACAAATTTTGTCTCTCTTGAGATA-G-
65 TGAGACAGTTTCACATGAAATAAA------ATCT-TTGA-ATATGT
* * * * *
1864466 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTGTCTCTCTT
1 TTTCTCTTAAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTT
*
1864531 GAGATAGTTTC
66 GAGACAGTTTC
1864542 CCTTGAAACA
Statistics
Matches: 152, Mismatches: 22, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
101 37 0.24
102 39 0.26
108 31 0.20
109 42 0.28
110 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42
Consensus pattern (102 bp):
TTTCTCTTAAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTT
GAGACAGTTTCACATGAAATAAAATCTTTGAATATGT
Found at i:1864514 original size:246 final size:246
Alignment explanation
Indices: 1864190--1864726 Score: 858
Period size: 246 Copynumber: 2.2 Consensus size: 246
1864180 CTGTTTTCCT
* * * * *
1864190 TGAAACAAATTTCGTCTCCCTTGAGACATTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACA
1 TGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC-AAATTTTGTCTCTCTTGAGACA
* * *
1864255 GTTTCTCTTGAAACAAATTTTGTCTCTCTTTAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCT
65 GTTTCCCTTGAAACAAAATTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCT
* *
1864320 TGAGACAGTTTCCCTTGAAATAAAATCTTTGAATATGTTTTCCTTAAAACAAATTTTGTCTCCCT
130 TGAGACAGTTTCCCTTGAAACAAAATCTTTGAATATGTATTCCTTAAAACAAATTTTGTCTCCCT
* *
1864385 TGAGACATTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCACA
195 CGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCACA
* * * *
1864437 TGAAACAAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGATAG
1 TGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
*
1864502 TTTCCCTTGAAACAAAATTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCTCTT
66 TTTCCCTTGAAACAAAATTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTT
* *
1864567 GAGACAGTTTCCCTTGAAACAAAATCTTTGAATATGTATTCCTTTAAACAAATTTTGTCTCTCTC
131 GAGACAGTTTCCCTTGAAACAAAATCTTTGAATATGTATTCCTTAAAACAAATTTTGTCTCCCTC
* *
1864632 GAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCTCT
196 GAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCACA
*
1864683 TGAAACAAAATTTTGCCTCCCTTGAGACAGTTTCTCTTGAAACA
1 TGAAAC-AAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
1864727 CAAAAAAACC
Statistics
Matches: 264, Mismatches: 25, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
246 196 0.74
247 68 0.26
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.41
Consensus pattern (246 bp):
TGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
TTTCCCTTGAAACAAAATTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTT
GAGACAGTTTCCCTTGAAACAAAATCTTTGAATATGTATTCCTTAAAACAAATTTTGTCTCCCTC
GAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCACA
Found at i:1866310 original size:11 final size:10
Alignment explanation
Indices: 1866294--1866319 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
1866284 TGTATATACG
1866294 TTTTTTTTTC
1 TTTTTTTTTC
1866304 TTTTTTTTTC
1 TTTTTTTTTC
1866314 TTTTTT
1 TTTTTT
1866320 AAATATTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:1866487 original size:25 final size:24
Alignment explanation
Indices: 1866459--1866519 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 24
1866449 AAAAAATTCC
*
1866459 TTTTGATTTTATTATTTTAT-TTTAT
1 TTTTGATTTAATT-TTTTATGTTT-T
*
1866484 TTTTAAATTTAATTTTTTATGTTTT
1 TTTT-GATTTAATTTTTTATGTTTT
1866509 TCTTTGATTTA
1 T-TTTGATTTA
1866520 TCTAACATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
25 17 0.57
26 13 0.43
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.72
Consensus pattern (24 bp):
TTTTGATTTAATTTTTTATGTTTT
Found at i:1866934 original size:25 final size:25
Alignment explanation
Indices: 1866900--1866950 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
1866890 GGAACCCCTT
1866900 TGGGTACGATTTTTGTATTCTGGAA
1 TGGGTACGATTTTTGTATTCTGGAA
1866925 TGGGTACGATTTTTGTATTCTGGAA
1 TGGGTACGATTTTTGTATTCTGGAA
1866950 T
1 T
1866951 TTGAGCAACG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.20, C:0.08, G:0.27, T:0.45
Consensus pattern (25 bp):
TGGGTACGATTTTTGTATTCTGGAA
Found at i:1867558 original size:3 final size:3
Alignment explanation
Indices: 1867550--1867609 Score: 102
Period size: 3 Copynumber: 19.7 Consensus size: 3
1867540 TTTTTATCCA
*
1867550 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TATT TAT TAT TAT CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
1867596 TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TA
1867610 AATATATATT
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
3 51 0.94
4 3 0.06
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:1867621 original size:11 final size:11
Alignment explanation
Indices: 1867605--1867634 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
1867595 TTATTATTAT
1867605 TATTAAATATA
1 TATTAAATATA
1867616 TATTAAATATA
1 TATTAAATATA
1867627 TA-TAAATA
1 TATTAAATA
1867635 ATTATTACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.32
11 13 0.68
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
TATTAAATATA
Found at i:1868090 original size:18 final size:18
Alignment explanation
Indices: 1868066--1868103 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
1868056 CCAACCTGAA
1868066 AAAAAAAACAGACAGAGAC
1 AAAAAAAA-AGACAGAGAC
*
1868085 AAAAAAAAAGAGAGAGAC
1 AAAAAAAAAGACAGAGAC
1868103 A
1 A
1868104 GAACCGGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.71, C:0.11, G:0.18, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAGACAGAGAC
Found at i:1869754 original size:28 final size:30
Alignment explanation
Indices: 1869709--1869788 Score: 71
Period size: 28 Copynumber: 2.7 Consensus size: 30
1869699 TTAAAAATTC
* *
1869709 ATATATTTA-ATTTAATTTTATCTTTTCA-A
1 ATATTTTTATATTT-ATTTTATATTTTCATA
1869738 A-ATTTTTATATTTA-TTTATTATTTTCATA
1 ATATTTTTATATTTATTTTA-TATTTTCATA
1869767 ATATTTGTT-TCATTTATTTTAT
1 ATATTT-TTAT-ATTTATTTTAT
1869789 TTGCAATTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
27 4 0.10
28 14 0.33
29 7 0.17
30 5 0.12
31 8 0.19
32 4 0.10
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.64
Consensus pattern (30 bp):
ATATTTTTATATTTATTTTATATTTTCATA
Found at i:1869800 original size:15 final size:13
Alignment explanation
Indices: 1869760--1869814 Score: 56
Period size: 15 Copynumber: 3.9 Consensus size: 13
1869750 TATTTATTAT
* *
1869760 TTTCATAATATTTG
1 TTTCATTAT-TTTA
1869774 TTTCATTTATTTTA
1 TTTCA-TTATTTTA
1869788 TTTGCAATTATTTTA
1 TTT-C-ATTATTTTA
1869803 TTTCATTATTTT
1 TTTCATTATTTT
1869815 TCTGTCAGAG
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
13 8 0.22
14 12 0.33
15 15 0.42
16 1 0.03
ACGTcount: A:0.24, C:0.07, G:0.04, T:0.65
Consensus pattern (13 bp):
TTTCATTATTTTA
Found at i:1881453 original size:84 final size:84
Alignment explanation
Indices: 1881309--1882038 Score: 1184
Period size: 84 Copynumber: 8.7 Consensus size: 84
1881299 ACTGGAACAA
*
1881309 ATGAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
1 ATGAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1881374 CAATCATTGAATTTGGAAG
66 CAATCATTGAATTTGGAAG
*
1881393 AAT-AATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAA
1 -ATGAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
1881457 CCAATCATTGAATTTGGAAG
65 CCAATCATTGAATTTGGAAG
* *
1881477 ATGAATGTGCTCAATAGCATCTTTTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATGAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1881542 CAATCATTGAATTTGGAAG
66 CAATCATTGAATTTGGAAG
* * * *
1881561 ATGAATGTGCTCAATAGCATCTTTTAGAAGTGTTCTTTGAGTTATCTGATCTGTTTGGATAGAAC
1 ATGAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1881626 CAATCATTGAATTTGGAAG
66 CAATCATTGAATTTGGAAG
* * *
1881645 ATGAATGTGCTCAATAGCATCTTTTAGAAGTGTTCTTTGAGTTATCTGATCTGTTTGGACAGAAC
1 ATGAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1881710 CAATCATTGAATTTGGAAG
66 CAATCATTGAATTTGGAAG
* *
1881729 AAT-AATGTGTTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGTTTGGACAGAA
1 -ATGAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
1881793 CCAATCATTGAATTTGGAAG
65 CCAATCATTGAATTTGGAAG
* * *
1881813 AAT-AATGTGCTCAATAGCATCTTTTAGAAGTGTTCTTTGAGTTATCTGATCTGTTTGGACAGAA
1 -ATGAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
*
1881877 CCAATCATTGAATTTGAAAG
65 CCAATCATTGAATTTGGAAG
*
1881897 AAT-AATGTGTTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAGA
1 -ATGAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAGA
1881960 ACCAATCATTGAATTTGGAAG
64 ACCAATCATTGAATTTGGAAG
* *
1881981 ATGAATTTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGGGTTGG
1 ATGAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT-GGTTGG
1882039 TAGGAATTAC
Statistics
Matches: 619, Mismatches: 21, Indels: 12
0.95 0.03 0.02
Matches are distributed among these distances:
83 48 0.08
84 563 0.91
85 8 0.01
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (84 bp):
ATGAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
CAATCATTGAATTTGGAAG
Found at i:1882959 original size:114 final size:114
Alignment explanation
Indices: 1882769--1883312 Score: 742
Period size: 113 Copynumber: 4.8 Consensus size: 114
1882759 GATAGATTAG
1882769 CTTTTCCAGA-AAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
1 CTTTTCCAGAGAAA-GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
* * * *
1882833 AGAAGAATTTGTTCAACCTTTT-ACCTGAATTCATCAAATTGATGGATTAT
65 AGAAGAACTTGTTCAACCTTTTGATCTGAATTCATC-AATTGATGGATCAA
* * *
1882883 TTTTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAA
1 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
* * *
1882948 GAAGAACTTGTTCAACCTTTTGGTTTGAATTCATCATTTGATGGATCAA
66 GAAGAACTTGTTCAACCTTTTGATCTGAATTCATCAATTGATGGATCAA
* *
1882997 CATTGCCAG-GAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATA
1 CTTTTCCAGAGAA-AGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATA
* * * *
1883061 ATGAGAAGAATTTGTTCAACCTTTT-ATCTGAATTCATCACTGGATGGAT-TA
62 ATGAGAAGAACTTGTTCAACCTTTTGATCTGAATTCATCAATTGATGGATCAA
*
1883112 TTTATTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
1 CTT-TTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
* * *
1883177 AGAAGAACTTGTTCAACTTTTTGGTTTGAATTCATC-ATTGATGGATCAA
65 AGAAGAACTTGTTCAACCTTTTGATCTGAATTCATCAATTGATGGATCAA
* * * *
1883226 CATTGCCAG-GAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATA
1 CTTTTCCAGAGAA-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
*
1883290 AGAAGAACTTGTTCAACTTTTTG
65 AGAAGAACTTGTTCAACCTTTTG
1883313 CATAATTCTA
Statistics
Matches: 383, Mismatches: 36, Indels: 23
0.87 0.08 0.05
Matches are distributed among these distances:
112 3 0.01
113 140 0.37
114 126 0.33
115 15 0.04
116 44 0.11
117 55 0.14
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.29
Consensus pattern (114 bp):
CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
GAAGAACTTGTTCAACCTTTTGATCTGAATTCATCAATTGATGGATCAA
Found at i:1883173 original size:230 final size:227
Alignment explanation
Indices: 1882783--1883311 Score: 916
Period size: 230 Copynumber: 2.3 Consensus size: 227
1882773 TCCAGAAAAG
1882783 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
* * *
1882848 ACCTTTTACCTGAATTCATCAAATTGATGGATTATTTTTTTCAGAGAAAGTTCATAATGAGAAGA
66 ACCTTTTACCTGAATTCATCAAATGGATGGATTATTTATTCCAGAGAAAGTTCATAATGAGAAGA
1882913 ACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGGTTTGAAT
131 ACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGGTTTGAAT
1882978 TCATCATTTGATGGATCAACATTGCCAGGAAGA
196 TCATCA-TTGATGGATCAACATTGCCAGGAAGA
1883011 GTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGT
1 GTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGT
* *
1883076 TCAACCTTTTATCTGAATTCATC-ACTGGATGGATTATTTATTCCAGAGAAAGTTCATAATGAGA
63 TCAACCTTTTACCTGAATTCATCAAATGGATGGATTATTTATTCCAGAGAAAGTTCATAATGAGA
* *
1883140 AGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGGTTTG
128 AGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGGTTTG
1883205 AATTCATCATTGATGGATCAACATTGCCAGGAAGA
193 AATTCATCATTGATGGATCAACATTGCCAGGAAGA
* * *
1883240 GTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATAAGAAGAACTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
*
1883305 ACTTTTT
66 ACCTTTT
1883312 GCATAATTCT
Statistics
Matches: 287, Mismatches: 11, Indels: 8
0.94 0.04 0.03
Matches are distributed among these distances:
226 50 0.17
227 1 0.00
228 17 0.06
229 43 0.15
230 110 0.38
231 66 0.23
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.29
Consensus pattern (227 bp):
GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
ACCTTTTACCTGAATTCATCAAATGGATGGATTATTTATTCCAGAGAAAGTTCATAATGAGAAGA
ACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGGTTTGAAT
TCATCATTGATGGATCAACATTGCCAGGAAGA
Found at i:1883640 original size:3 final size:3
Alignment explanation
Indices: 1883634--1883713 Score: 151
Period size: 3 Copynumber: 26.7 Consensus size: 3
1883624 TTTATCCATA
1883634 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
1883682 TAT TAT TAT TAT CAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1883714 AATATATATT
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 75 1.00
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:1883725 original size:11 final size:11
Alignment explanation
Indices: 1883709--1883738 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
1883699 TTATTATTAT
1883709 TATTAAATATA
1 TATTAAATATA
1883720 TATTAAATATA
1 TATTAAATATA
1883731 TA-TAAATA
1 TATTAAATA
1883739 ATTAATTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.32
11 13 0.68
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
TATTAAATATA
Found at i:1885371 original size:578 final size:578
Alignment explanation
Indices: 1884276--1885434 Score: 2273
Period size: 578 Copynumber: 2.0 Consensus size: 578
1884266 GATCTCAGTC
1884276 AAACATCCCACAACCAGAAACAAAAAAGAAGGAAAAATGAAGAAGAGAAACTTACCGAGGAAGCC
1 AAACATCCCACAACCAGAAACAAAAAAGAAGGAAAAATGAAGAAGAGAAACTTACCGAGGAAGCC
1884341 CCGACCACCGGATCTCACCGGAACCTTCGAAACACCGAAGGTACTTTTGTAGATTCGCTCCGATT
66 CCGACCACCGGATCTCACCGGAACCTTCGAAACACCGAAGGTACTTTTGTAGATTCGCTCCGATT
1884406 GGGAGCTTTTTAGGAGAAAATACCACCGGATCCGTCCTTAGGACGGTCCGATCTATCTATTAGTG
131 GGGAGCTTTTTAGGAGAAAATACCACCGGATCCGTCCTTAGGACGGTCCGATCTATCTATTAGTG
*
1884471 TAAAAATAAATTTTTTCGGCCACCGGATGCGGTGGCCGGCGGTGACAGTCACGGCAGCAGACGGT
196 TAAAAATAAATTTTTCCGGCCACCGGATGCGGTGGCCGGCGGTGACAGTCACGGCAGCAGACGGT
*
1884536 TGCCGTCCGGTGACCGGTTTCCCTCCGATGAGGGAAGCTAGAGAGAAGGCAGAGAACAAATTTGT
261 TGCCGTCCGGTGACCGGCTTCCCTCCGATGAGGGAAGCTAGAGAGAAGGCAGAGAACAAATTTGT
1884601 TCTCTCTGTTAGAGAGAGAACAGGGAAAATGAAATGAGAAGCTGGCCCTATGGGCCATCCGGTTT
326 TCTCTCTGTTAGAGAGAGAACAGGGAAAATGAAATGAGAAGCTGGCCCTATGGGCCATCCGGTTT
1884666 GGGTTATAAATACCCTCTCCCAAACGACGTCGTTTTGGGGAGGGTATTTCTGTAATTTCACAAAG
391 GGGTTATAAATACCCTCTCCCAAACGACGTCGTTTTGGGGAGGGTATTTCTGTAATTTCACAAAG
1884731 GGTAAATCCCATCCGAAGCCATTCCAATTTATAATTTTTACATTTTAGTCACTAAATCGAATTTA
456 GGTAAATCCCATCCGAAGCCATTCCAATTTATAATTTTTACATTTTAGTCACTAAATCGAATTTA
1884796 TAAAAACTTTTAATTCAGTCTTTGAATTTTAATTTTATTTATTTTAATCCTTTTTATT
521 TAAAAACTTTTAATTCAGTCTTTGAATTTTAATTTTATTTATTTTAATCCTTTTTATT
1884854 AAACATCCCACAACCAGAAACAAAAAAGAAGGAAAAATGAAGAAGAGAAACTTACCGAGGAAGCC
1 AAACATCCCACAACCAGAAACAAAAAAGAAGGAAAAATGAAGAAGAGAAACTTACCGAGGAAGCC
1884919 CCGACCACCGGATCTCACCGGAACCTTCGAAACACCGAAGGTACTTTTGTAGATTCGCTCCGATT
66 CCGACCACCGGATCTCACCGGAACCTTCGAAACACCGAAGGTACTTTTGTAGATTCGCTCCGATT
1884984 GGGAGCTTTTTAGGAGAAAATACCACCGGATCCGTCCTTAGGACGGTCCGATCTATCTATTAGTG
131 GGGAGCTTTTTAGGAGAAAATACCACCGGATCCGTCCTTAGGACGGTCCGATCTATCTATTAGTG
*
1885049 TAAAAATAAATTTTTCCGGCCACCGGATGCGGTGGCCGGCGGTGACAGTCACGGCGGCAGACGGT
196 TAAAAATAAATTTTTCCGGCCACCGGATGCGGTGGCCGGCGGTGACAGTCACGGCAGCAGACGGT
1885114 TGCCGTCCGGTGACCGGCTTCCCTCCGATGAGGGAAGCTAGAGAGAAGGCAGAGAACAAATTTGT
261 TGCCGTCCGGTGACCGGCTTCCCTCCGATGAGGGAAGCTAGAGAGAAGGCAGAGAACAAATTTGT
*
1885179 TCTCTCTGTTAGAGAGAGAACAGGGAAAATGAAATGAGAAGTTGGCCCTATGGGCCATCCGGTTT
326 TCTCTCTGTTAGAGAGAGAACAGGGAAAATGAAATGAGAAGCTGGCCCTATGGGCCATCCGGTTT
1885244 GGGTTATAAATACCCTCTCCCAAACGACGTCGTTTTGGGGAGGGTATTTCTGTAATTTCACAAAG
391 GGGTTATAAATACCCTCTCCCAAACGACGTCGTTTTGGGGAGGGTATTTCTGTAATTTCACAAAG
*
1885309 GGTAAATCTCATCCGAAGCCATTCCAATTTATAATTTTTACATTTTAGTCACTAAATCGAATTTA
456 GGTAAATCCCATCCGAAGCCATTCCAATTTATAATTTTTACATTTTAGTCACTAAATCGAATTTA
1885374 TAAAAACTTTTAATTCAGTCTTTGAATTTTAATTTTATTTATTTTAATCCTTTTTATT
521 TAAAAACTTTTAATTCAGTCTTTGAATTTTAATTTTATTTATTTTAATCCTTTTTATT
1885432 AAA
1 AAA
1885435 ATAATATATT
Statistics
Matches: 576, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
578 576 1.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.27
Consensus pattern (578 bp):
AAACATCCCACAACCAGAAACAAAAAAGAAGGAAAAATGAAGAAGAGAAACTTACCGAGGAAGCC
CCGACCACCGGATCTCACCGGAACCTTCGAAACACCGAAGGTACTTTTGTAGATTCGCTCCGATT
GGGAGCTTTTTAGGAGAAAATACCACCGGATCCGTCCTTAGGACGGTCCGATCTATCTATTAGTG
TAAAAATAAATTTTTCCGGCCACCGGATGCGGTGGCCGGCGGTGACAGTCACGGCAGCAGACGGT
TGCCGTCCGGTGACCGGCTTCCCTCCGATGAGGGAAGCTAGAGAGAAGGCAGAGAACAAATTTGT
TCTCTCTGTTAGAGAGAGAACAGGGAAAATGAAATGAGAAGCTGGCCCTATGGGCCATCCGGTTT
GGGTTATAAATACCCTCTCCCAAACGACGTCGTTTTGGGGAGGGTATTTCTGTAATTTCACAAAG
GGTAAATCCCATCCGAAGCCATTCCAATTTATAATTTTTACATTTTAGTCACTAAATCGAATTTA
TAAAAACTTTTAATTCAGTCTTTGAATTTTAATTTTATTTATTTTAATCCTTTTTATT
Found at i:1887251 original size:12 final size:13
Alignment explanation
Indices: 1887232--1887267 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
1887222 CCACTAGTTG
1887232 ATAAATATTTTTT
1 ATAAATATTTTTT
*
1887245 A-AAATATTTATT
1 ATAAATATTTTTT
1887257 ATAAATATTTT
1 ATAAATATTTT
1887268 GCTATTGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
ATAAATATTTTTT
Found at i:1893580 original size:18 final size:18
Alignment explanation
Indices: 1893567--1893609 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
1893557 TGTCCCGTGT
1893567 GACCACTATGTCCCGAAG
1 GACCACTATGTCCCGAAG
** *
1893585 GACCACTATGAACCAAAG
1 GACCACTATGTCCCGAAG
1893603 GACCACT
1 GACCACT
1893610 GATAATCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.35, C:0.33, G:0.19, T:0.14
Consensus pattern (18 bp):
GACCACTATGTCCCGAAG
Found at i:1897934 original size:18 final size:18
Alignment explanation
Indices: 1897911--1897945 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1897901 CGTAGAAATT
*
1897911 TGTCCCGTAGGACCACTA
1 TGTCCCGAAGGACCACTA
1897929 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
1897946 GATAATCCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.34, G:0.23, T:0.20
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:1900086 original size:63 final size:64
Alignment explanation
Indices: 1900018--1900173 Score: 174
Period size: 63 Copynumber: 2.5 Consensus size: 64
1900008 CCTTTAACAT
* * *
1900018 GTGCATCGATGCACTACCCATGCATCGATACACAAATCACCTTCGATGTTT-TAATATT-AAGGG
1 GTGCATCGATGCACTACCTATGCATCGATACACAAATCACATTCGATGTTTGT-ATATTAAACGG
* * * * ** * *
1900081 GTGCATCGATGTACTACTTGTGCATTGATACACTGATGACATTCGATGTTTGTATTTTAAACGG
1 GTGCATCGATGCACTACCTATGCATCGATACACAAATCACATTCGATGTTTGTATATTAAACGG
1900145 GTGCATCGATGCACT-CCTTATGCATCGAT
1 GTGCATCGATGCACTACC-TATGCATCGAT
1900174 GCACTATTGG
Statistics
Matches: 75, Mismatches: 15, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
63 47 0.63
64 28 0.37
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (64 bp):
GTGCATCGATGCACTACCTATGCATCGATACACAAATCACATTCGATGTTTGTATATTAAACGG
Found at i:1900169 original size:64 final size:62
Alignment explanation
Indices: 1900018--1900194 Score: 178
Period size: 64 Copynumber: 2.8 Consensus size: 62
1900008 CCTTTAACAT
* * * * *
1900018 GTGCATCGATGCACTACC-CATGCATCGATACACAAATCACCTTCGATGTTTTAATATTAAGGG
1 GTGCATCGATGCACT-CCTTATGCATCGATACAC-TATGACATTCGATGTTTTAATATTAACGG
* * * * *
1900081 GTGCATCGATGTACTACTTGTGCATTGATACACTGATGACATTCGATGTTTGT-ATTTTAAACGG
1 GTGCATCGATGCACTCCTTATGCATCGATACACT-ATGACATTCGATGTTT-TAATATT-AACGG
* *
1900145 GTGCATCGATGCACTCCTTATGCATCGATGCACTATTGGCATTCGATGTT
1 GTGCATCGATGCACTCCTTATGCATCGATACACTA-TGACATTCGATGTT
1900195 CAATATTTGA
Statistics
Matches: 93, Mismatches: 16, Indels: 9
0.79 0.14 0.08
Matches are distributed among these distances:
62 1 0.01
63 45 0.48
64 47 0.51
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.33
Consensus pattern (62 bp):
GTGCATCGATGCACTCCTTATGCATCGATACACTATGACATTCGATGTTTTAATATTAACGG
Found at i:1901545 original size:20 final size:20
Alignment explanation
Indices: 1901520--1901570 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
1901510 GAAATTTCCA
1901520 TGCATCGATGCCTTCCTGTG
1 TGCATCGATGCCTTCCTGTG
1901540 TGCATCGATGCCTTCCTGTG
1 TGCATCGATGCCTTCCTGTG
1901560 TGCATCGATGC
1 TGCATCGATGC
1901571 ACACTGAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.12, C:0.29, G:0.25, T:0.33
Consensus pattern (20 bp):
TGCATCGATGCCTTCCTGTG
Found at i:1902412 original size:2 final size:2
Alignment explanation
Indices: 1902405--1902468 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
1902395 TTTAGTTCTA
1902405 AT AT 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 AT AT
1902447 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
1902469 TTTTATATTT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1902628 original size:16 final size:17
Alignment explanation
Indices: 1902607--1902643 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
1902597 ATAGCCTATT
1902607 AATATTT-TCTAAAAAA
1 AATATTTATCTAAAAAA
*
1902623 AATATTTATCTAAACAA
1 AATATTTATCTAAAAAA
1902640 AATA
1 AATA
1902644 ATCACATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (17 bp):
AATATTTATCTAAAAAA
Found at i:1906221 original size:22 final size:23
Alignment explanation
Indices: 1906187--1906230 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
1906177 ATATAATAAA
1906187 TAATATTATTTATTATAAAAATT
1 TAATATTATTTATTATAAAAATT
*
1906210 TAATATTA-TTATTTTAAAAAT
1 TAATATTATTTATTATAAAAAT
1906231 ATTAGAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TAATATTATTTATTATAAAAATT
Found at i:1906396 original size:21 final size:23
Alignment explanation
Indices: 1906371--1906417 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
1906361 TCTATAAAAA
*
1906371 TAAAAATATT-AT-ATTATATTT
1 TAAAAATATTAATAAATATATTT
*
1906392 TAAAATTATTAATAAATATATTT
1 TAAAAATATTAATAAATATATTT
1906415 TAA
1 TAA
1906418 GGAATTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 9 0.41
22 2 0.09
23 11 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TAAAAATATTAATAAATATATTT
Found at i:1906432 original size:23 final size:22
Alignment explanation
Indices: 1906371--1906433 Score: 58
Period size: 23 Copynumber: 2.8 Consensus size: 22
1906361 TCTATAAAAA
* *
1906371 TAAAAATA-TTATATTATATTT
1 TAAAATTATTTATAATATATTT
*
1906392 TAAAATTATTAATAAATATATTT
1 TAAAATTATTTAT-AATATATTT
1906415 TAAGGAATT-TTTATAATAT
1 TAA--AATTATTTATAATAT
1906434 TATTAGACTA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 7 0.21
22 3 0.09
23 16 0.47
24 4 0.12
25 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (22 bp):
TAAAATTATTTATAATATATTT
Found at i:1906614 original size:52 final size:49
Alignment explanation
Indices: 1906533--1906631 Score: 119
Period size: 52 Copynumber: 2.0 Consensus size: 49
1906523 ACTTTTATTA
*
1906533 ATAATTTATATATTATTAAAATAAAAATATAATATTATA-TATTATTATAAT
1 ATAATTGATATATTATTAAAATAAAAATAT--TATTATATTA-TATTATAAT
** *
1906584 ATAATTGAGTATATTATTGTAATAATAATATTATTATATTATATTATA
1 ATAATTGA-TATATTATTAAAATAAAAATATTATTATATTATATTATA
1906632 TTATTAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
50 14 0.33
51 9 0.21
52 19 0.45
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (49 bp):
ATAATTGATATATTATTAAAATAAAAATATTATTATATTATATTATAAT
Found at i:1906664 original size:11 final size:12
Alignment explanation
Indices: 1906557--1906669 Score: 62
Period size: 10 Copynumber: 9.8 Consensus size: 12
1906547 ATTAAAATAA
*
1906557 AAATATAATATT
1 AAATATATTATT
1906569 --ATATATTATT
1 AAATATATTATT
1906579 ATAATATA--ATT
1 A-AATATATTATT
* *
1906590 GAGTATATTATT
1 AAATATATTATT
* *
1906602 GTAATAATAATATT
1 -AAAT-ATATTATT
*
1906616 -ATTATATTA-T
1 AAATATATTATT
*
1906626 -ATTATATTATT
1 AAATATATTATT
* *
1906637 AAAAATATTAAT
1 AAATATATTATT
1906649 AAATATATT-TT
1 AAATATATTATT
1906660 AAATATATTA
1 AAATATATTA
1906670 ATAATTAATA
Statistics
Matches: 78, Mismatches: 13, Indels: 20
0.70 0.12 0.18
Matches are distributed among these distances:
10 24 0.31
11 19 0.24
12 21 0.27
13 7 0.09
14 7 0.09
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (12 bp):
AAATATATTATT
Found at i:1906667 original size:23 final size:23
Alignment explanation
Indices: 1906628--1906684 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 23
1906618 TATATTATAT
1906628 TATATTATTAAAAATATTAATAAA
1 TATATT-TTAAAAATATTAATAAA
* *
1906652 TATATTTTAAATATATTAATAAT
1 TATATTTTAAAAATATTAATAAA
1906675 TAATATTTTA
1 T-ATATTTTA
1906685 TTAAAATGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 16 0.53
24 14 0.47
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TATATTTTAAAAATATTAATAAA
Found at i:1907382 original size:15 final size:16
Alignment explanation
Indices: 1907350--1907392 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
1907340 ACCCGGAAGT
**
1907350 TCCGGGTACCCGGGAA
1 TCCGGGTACCCGAAAA
1907366 T-CGGGTACCCGAAAA
1 TCCGGGTACCCGAAAA
*
1907381 TCCAGGTACCCG
1 TCCGGGTACCCG
1907393 GATTTGAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.23, C:0.33, G:0.30, T:0.14
Consensus pattern (16 bp):
TCCGGGTACCCGAAAA
Found at i:1908625 original size:28 final size:28
Alignment explanation
Indices: 1908572--1908627 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
1908562 TTATTCAAAT
**
1908572 TTAGATTTAAACTTAATAGTGATAATAA
1 TTAGATTTAAACTTAATAAAGATAATAA
* *
1908600 TTAGATTTAAATTTAATAAAGTTAATAA
1 TTAGATTTAAACTTAATAAAGATAATAA
1908628 ATATTTAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.48, C:0.02, G:0.09, T:0.41
Consensus pattern (28 bp):
TTAGATTTAAACTTAATAAAGATAATAA
Found at i:1916756 original size:31 final size:28
Alignment explanation
Indices: 1916718--1916775 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
1916708 AAACAATATT
1916718 TATATATTAATACAAATTAATAATTAAATTA
1 TATATATT-ATA-AAATT-ATAATTAAATTA
*
1916749 TATATATTATAAAATTTTAATTAAATT
1 TATATATTATAAAATTATAATTAAATT
1916776 TACTGAACCG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 10 0.38
29 5 0.19
30 3 0.12
31 8 0.31
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (28 bp):
TATATATTATAAAATTATAATTAAATTA
Found at i:1922495 original size:24 final size:23
Alignment explanation
Indices: 1922443--1922498 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
1922433 AATAAGAACA
1922443 TGTTCTTGTGACACACTTTTTTC
1 TGTTCTTGTGACACACTTTTTTC
* * *
1922466 TATTCTTGTGAGA-AGTTTTTTC
1 TGTTCTTGTGACACACTTTTTTC
1922488 TTTGTTCTTGT
1 --TGTTCTTGT
1922499 AGTACGTTCT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 8 0.30
23 11 0.41
24 8 0.30
ACGTcount: A:0.12, C:0.14, G:0.16, T:0.57
Consensus pattern (23 bp):
TGTTCTTGTGACACACTTTTTTC
Found at i:1924040 original size:191 final size:190
Alignment explanation
Indices: 1923717--1924090 Score: 667
Period size: 191 Copynumber: 2.0 Consensus size: 190
1923707 TAGATACTAC
*
1923717 AAATGGCTGTCCATTTTTCCCATATGTATAGGGTAAGGGGAGGTAAGATAGTAGGCTACCCCCAA
1 AAATGGCTGTCCATTTTTCCCATATATATAGGGTAAGGGGAGGTAAGATAGTAGGCTACCCCCAA
1923782 CACCAGGTTGAGAGCAACTTCCGTAAGAGACCTCCGAATTATGAAATGCCCTCCATAGGACTCGA
66 CACCAGGTTGAGAGCAACTTCCGTAAGAGACCTCCGAATTATGAAATGCCCTCCATAGGACTCGA
*
1923847 TCCCACGACCTCAAGGTTAAGAACCTTGTGCTCTACCAATCGAGCTGGATGGTCATTTCA
131 TCCCACGACCTCAAGGTTAAGAACCTTATGCTCTACCAATCGAGCTGGATGGTCATTTCA
* *
1923907 AAATGGCTGTCCCTTTTTCCCATATATATGGGGTAAGGGGGAGGTAAGATAGTAGGCTACCCCCA
1 AAATGGCTGTCCATTTTTCCCATATATATAGGGTAA-GGGGAGGTAAGATAGTAGGCTACCCCCA
* *
1923972 ACACCAGGTTGAGAGCAACTTCCGTAAGAGACCTCCGAATTATGAAATGCCCTCCGTGGGACTCG
65 ACACCAGGTTGAGAGCAACTTCCGTAAGAGACCTCCGAATTATGAAATGCCCTCCATAGGACTCG
* *
1924037 ATCCCACGACCTCAAGGTTAATAACCTTATGCTCTACCAATTGAGCTGGATGGT
130 ATCCCACGACCTCAAGGTTAAGAACCTTATGCTCTACCAATCGAGCTGGATGGT
1924091 AAATATTAAA
Statistics
Matches: 175, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
190 33 0.19
191 142 0.81
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.24
Consensus pattern (190 bp):
AAATGGCTGTCCATTTTTCCCATATATATAGGGTAAGGGGAGGTAAGATAGTAGGCTACCCCCAA
CACCAGGTTGAGAGCAACTTCCGTAAGAGACCTCCGAATTATGAAATGCCCTCCATAGGACTCGA
TCCCACGACCTCAAGGTTAAGAACCTTATGCTCTACCAATCGAGCTGGATGGTCATTTCA
Found at i:1926750 original size:3 final size:3
Alignment explanation
Indices: 1926725--1926771 Score: 53
Period size: 3 Copynumber: 16.3 Consensus size: 3
1926715 AAAAATTGAA
* * *
1926725 AAT AAA AAT ATT AAT ATT AAT AAT AAT AAT AAT AAT AA- AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1926771 A
1 A
1926772 GATATTTTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
2 4 0.11
3 32 0.89
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:1927164 original size:30 final size:31
Alignment explanation
Indices: 1927130--1927234 Score: 112
Period size: 29 Copynumber: 3.5 Consensus size: 31
1927120 AGATAAAATT
*
1927130 TGTTTCAAGAGAAACAATCTC-AAGGTTTTG
1 TGTTTCAAGAGAAACAATTTCAAAGGTTTTG
* *
1927160 TGTTTC-AGAGAAACATTTTCAAAGATTTTTG
1 TGTTTCAAGAGAAACAATTTCAAAG-GTTTTG
*
1927191 TTTTGTTCAAGAG-AACAATTTCAAAGG--TTG
1 -TGT-TTCAAGAGAAACAATTTCAAAGGTTTTG
1927221 TGTTTCAAGAGAAA
1 TGTTTCAAGAGAAA
1927235 TTGTCTTAGG
Statistics
Matches: 62, Mismatches: 7, Indels: 13
0.76 0.09 0.16
Matches are distributed among these distances:
28 8 0.13
29 16 0.26
30 12 0.19
31 5 0.08
32 2 0.03
33 15 0.24
34 4 0.06
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.36
Consensus pattern (31 bp):
TGTTTCAAGAGAAACAATTTCAAAGGTTTTG
Found at i:1927327 original size:67 final size:66
Alignment explanation
Indices: 1927083--1927338 Score: 190
Period size: 67 Copynumber: 3.9 Consensus size: 66
1927073 TTTTAATAAA
*
1927083 TTCAAAGATTTTGTGTTTCAAGAGAAACTG--TCAAGAGAGATAAAA-TTTGTTTCAAGAGAAAC
1 TTCAAAGA--TTGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAAC
1927145 AAT
64 AAT
* * * * *******
1927148 CTCAAGGTTTTGTGTTTC-AGAGAAACAT-TTTCAA-AGA-TTTTTGTTTTG-TTCAAGAG-AAC
1 TTCAAAG-ATTGTGTTTCAAGAGAAAC-TGTCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAAC
1927207 AAT
64 AAT
* * * * * ** *
1927210 TTCAAAGGTTGTGTTTCAAGAGAAATTGTCTTAGGGGAGGTAAAATTTTGTTTCAAGAGAAAC-A
1 TTCAAAGATTGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACAA
1927274 T
66 T
* *
1927275 GTTCAAAGATTGATGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTTAAGGGAAA
1 -TTCAAAGATTG-TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAA
1927339 TTGTCTCAAG
Statistics
Matches: 147, Mismatches: 31, Indels: 24
0.73 0.15 0.12
Matches are distributed among these distances:
61 10 0.07
62 21 0.14
63 19 0.13
64 23 0.16
65 19 0.13
66 13 0.09
67 42 0.29
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (66 bp):
TTCAAAGATTGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACAA
T
Found at i:1927368 original size:21 final size:21
Alignment explanation
Indices: 1927307--1927377 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 21
1927297 AGAAACTGTC
1927307 TCAAGAGAGACAAAACTTTGTT
1 TCAAGAGAGACAAAA-TTTGTT
* *
1927329 TTAAG-G-G---AAA-TTGTC
1 TCAAGAGAGACAAAATTTGTT
1927344 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
*
1927365 TCAAGAGAAACAA
1 TCAAGAGAGACAA
1927378 TCTCAAAGGT
Statistics
Matches: 38, Mismatches: 5, Indels: 13
0.68 0.09 0.23
Matches are distributed among these distances:
15 8 0.21
16 1 0.03
17 4 0.11
20 4 0.11
21 17 0.45
22 4 0.11
ACGTcount: A:0.44, C:0.11, G:0.20, T:0.25
Consensus pattern (21 bp):
TCAAGAGAGACAAAATTTGTT
Found at i:1927383 original size:36 final size:37
Alignment explanation
Indices: 1927288--1927375 Score: 142
Period size: 37 Copynumber: 2.4 Consensus size: 37
1927278 CAAAGATTGA
1927288 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
* * *
1927325 TGTTTTAAGGGAAATTGTCTCAAGAGAGACAAAA-TT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
1927361 TGTTTCAAGAGAAAC
1 TGTTTCAAGAGAAAC
1927376 AATCTCAAAG
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
36 14 0.31
37 31 0.69
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.27
Consensus pattern (37 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
Found at i:1927462 original size:34 final size:34
Alignment explanation
Indices: 1927361--1927475 Score: 166
Period size: 35 Copynumber: 3.4 Consensus size: 34
1927351 AGACAAAATT
*
1927361 TGTTTCAAGAGAAACAATCTCAAAGG---TTTTG
1 TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTG
*
1927392 TGTTTCAAGAGAAAC-ATTTCCAAAGACTTTTTTTG
1 TGTTTCAAGAGAAACAATTT-CAAAG-GTTTTTTTG
1927427 TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTG
1 TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTG
1927461 TGTTTCAAGAGAAAC
1 TGTTTCAAGAGAAAC
1927476 TGTCTCAGAG
Statistics
Matches: 75, Mismatches: 3, Indels: 9
0.86 0.03 0.10
Matches are distributed among these distances:
30 3 0.04
31 20 0.27
34 23 0.31
35 25 0.33
36 4 0.05
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (34 bp):
TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTG
Found at i:1927508 original size:33 final size:36
Alignment explanation
Indices: 1927461--1927536 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 36
1927451 GGTTTTTTTG
* *
1927461 TGTTTC-AAGAGAAACT-GTCTCAGAGA-ACAAAA-T
1 TGTTTCAAAGAGAAACTCCT-TAAGAGAGACAAAATT
1927494 TGTTTCAAAG-GAAACTCCTTAAGAGAGACAAAATT
1 TGTTTCAAAGAGAAACTCCTTAAGAGAGACAAAATT
1927529 TGTTTCAA
1 TGTTTCAA
1927537 GTAAATTAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
33 18 0.49
34 10 0.27
35 9 0.24
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (36 bp):
TGTTTCAAAGAGAAACTCCTTAAGAGAGACAAAATT
Found at i:1929331 original size:11 final size:11
Alignment explanation
Indices: 1929317--1929343 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
1929307 TTTTTCTTTA
1929317 TTTTTCCTGTG
1 TTTTTCCTGTG
1929328 TTTTTCCTGTG
1 TTTTTCCTGTG
1929339 TTTTT
1 TTTTT
1929344 GCTTTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.15, G:0.15, T:0.70
Consensus pattern (11 bp):
TTTTTCCTGTG
Found at i:1929368 original size:16 final size:16
Alignment explanation
Indices: 1929339--1929376 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
1929329 TTTTCCTGTG
1929339 TTTTTGCTTTTTTTTC
1 TTTTTGCTTTTTTTTC
1929355 TTTTT-CTTTGTTTTTC
1 TTTTTGCTTT-TTTTTC
1929371 TCTTTT
1 T-TTTT
1929377 TTCTTCTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 4 0.20
16 12 0.60
17 4 0.20
ACGTcount: A:0.00, C:0.13, G:0.05, T:0.82
Consensus pattern (16 bp):
TTTTTGCTTTTTTTTC
Found at i:1929383 original size:12 final size:12
Alignment explanation
Indices: 1929348--1929389 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
1929338 GTTTTTGCTT
*
1929348 TTTTTTCTTTTTC
1 TTTTTTC-TTCTC
1929361 TTTGTTT-TTCTC
1 TTT-TTTCTTCTC
1929373 TTTTTTCTTCTC
1 TTTTTTCTTCTC
1929385 TTTTT
1 TTTTT
1929390 GTTCTTGATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
11 3 0.12
12 17 0.65
13 3 0.12
14 3 0.12
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (12 bp):
TTTTTTCTTCTC
Found at i:1929392 original size:26 final size:26
Alignment explanation
Indices: 1929328--1929381 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
1929318 TTTTCCTGTG
* *
1929328 TTTTTCCTGTGTTTTTGCTTTTTTTTC
1 TTTTT-CTTTGTTTTTGCTCTTTTTTC
1929355 TTTTTCTTTGTTTTT-CTCTTTTTTC
1 TTTTTCTTTGTTTTTGCTCTTTTTTC
1929380 TT
1 TT
1929382 CTCTTTTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 11 0.44
26 9 0.36
27 5 0.20
ACGTcount: A:0.00, C:0.15, G:0.07, T:0.78
Consensus pattern (26 bp):
TTTTTCTTTGTTTTTGCTCTTTTTTC
Found at i:1930527 original size:64 final size:64
Alignment explanation
Indices: 1930414--1930550 Score: 186
Period size: 64 Copynumber: 2.1 Consensus size: 64
1930404 TTCAATGTGT
* *
1930414 ATCGATGCATCCCTTAAAAATGGAAACATCGAATGCAATTGGTGCATCGATGCATAAGG-AGTGC
1 ATCGATGCATCCCTTAAAAATGAAAACATCGAAGGCAATTGGTGCATCGATGCAT-AGGTAGTGC
* * * * * *
1930478 ATCGATGCATCCCTTTAAGATGAAAACATCGAAGGTAATTTGTGTATCGATGCATGGGTAGTGC
1 ATCGATGCATCCCTTAAAAATGAAAACATCGAAGGCAATTGGTGCATCGATGCATAGGTAGTGC
1930542 ATCGATGCA
1 ATCGATGCA
1930551 CATGTTAAAG
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
63 2 0.03
64 62 0.97
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (64 bp):
ATCGATGCATCCCTTAAAAATGAAAACATCGAAGGCAATTGGTGCATCGATGCATAGGTAGTGC
Found at i:1930584 original size:20 final size:22
Alignment explanation
Indices: 1930539--1930596 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 22
1930529 GCATGGGTAG
1930539 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TGTT-AAGAA
1930563 TGCATCGATGCACTG-T-AGAA
1 TGCATCGATGCACTGTTAAGAA
1930583 TGCATCGATGCACT
1 TGCATCGATGCACT
1930597 TAAAGGGGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 18 0.53
22 1 0.03
23 2 0.06
24 13 0.38
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (22 bp):
TGCATCGATGCACTGTTAAGAA
Found at i:1931114 original size:47 final size:46
Alignment explanation
Indices: 1931048--1931137 Score: 155
Period size: 45 Copynumber: 1.9 Consensus size: 46
1931038 TAGAGACATA
1931048 AATGAAATGAACGAGTGAGCATAAGATAATCAAGTATAAGTCATAAGG
1 AATGAAATGAACGAGTGAGC--AAGATAATCAAGTATAAGTCATAAGG
1931096 AATGAAATG-ACGAGTGAGCAAGATAATCAAGTATAAGTCATA
1 AATGAAATGAACGAGTGAGCAAGATAATCAAGTATAAGTCATA
1931138 TTATATGATA
Statistics
Matches: 42, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
45 23 0.55
47 10 0.24
48 9 0.21
ACGTcount: A:0.48, C:0.09, G:0.22, T:0.21
Consensus pattern (46 bp):
AATGAAATGAACGAGTGAGCAAGATAATCAAGTATAAGTCATAAGG
Found at i:1931738 original size:23 final size:23
Alignment explanation
Indices: 1931706--1931771 Score: 87
Period size: 23 Copynumber: 2.9 Consensus size: 23
1931696 TCTTATATGA
*
1931706 CACTTCGGTGTATTTCTACGCGG
1 CACTTCGGTGCATTTCTACGCGG
* * *
1931729 CACTTAGGTGCAATTCTACGTGG
1 CACTTCGGTGCATTTCTACGCGG
*
1931752 CACTTCGGTGCATTTATACG
1 CACTTCGGTGCATTTCTACG
1931772 AGCTGTGGTG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.33
Consensus pattern (23 bp):
CACTTCGGTGCATTTCTACGCGG
Found at i:1932136 original size:2 final size:2
Alignment explanation
Indices: 1932129--1932162 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1932119 TATGTACATG
1932129 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
1932163 TTATGTTTGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1935145 original size:20 final size:22
Alignment explanation
Indices: 1935100--1935157 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 22
1935090 GCATAGGTAG
1935100 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TGTT-AAGAA
1935124 TGCATCGATGCACTG-T-AGAA
1 TGCATCGATGCACTGTTAAGAA
1935144 TGCATCGATGCACT
1 TGCATCGATGCACT
1935158 TCAAGGGGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 18 0.53
22 1 0.03
23 2 0.06
24 13 0.38
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (22 bp):
TGCATCGATGCACTGTTAAGAA
Found at i:1936234 original size:23 final size:23
Alignment explanation
Indices: 1936208--1936276 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
1936198 ACATATTTTA
1936208 TGGCACTTCGGTGCATTTCTACG
1 TGGCACTTCGGTGCATTTCTACG
* * *
1936231 TGGCACTTAGGTGCAATTCTACT
1 TGGCACTTCGGTGCATTTCTACG
*
1936254 TGGCACTTCGGTGCATTTATACG
1 TGGCACTTCGGTGCATTTCTACG
1936277 AGCTGTGGTG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.17, C:0.23, G:0.25, T:0.35
Consensus pattern (23 bp):
TGGCACTTCGGTGCATTTCTACG
Found at i:1939774 original size:14 final size:14
Alignment explanation
Indices: 1939755--1939784 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1939745 CTAAAAAGTC
*
1939755 AAAAATATTAGATA
1 AAAAATATTAAATA
1939769 AAAAATATTAAATA
1 AAAAATATTAAATA
1939783 AA
1 AA
1939785 TATTAAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (14 bp):
AAAAATATTAAATA
Found at i:1939815 original size:33 final size:30
Alignment explanation
Indices: 1939806--1939876 Score: 65
Period size: 30 Copynumber: 2.3 Consensus size: 30
1939796 CAATGAAAAA
*
1939806 AATAAAAATAAAAAATAAATCAAATGAAAAA
1 AATAAAAAT-AAAATTAAATCAAATGAAAAA
** *
1939837 AATAAGAAA-AAAATTAAAGGAAA-AAAATAA
1 AATAA-AAATAAAATTAAATCAAATGAAA-AA
1939867 AATAAAAATA
1 AATAAAAATA
1939877 TAAAACAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
29 6 0.18
30 19 0.58
31 5 0.15
32 3 0.09
ACGTcount: A:0.77, C:0.01, G:0.06, T:0.15
Consensus pattern (30 bp):
AATAAAAATAAAATTAAATCAAATGAAAAA
Found at i:1939838 original size:18 final size:16
Alignment explanation
Indices: 1939797--1939846 Score: 52
Period size: 18 Copynumber: 3.1 Consensus size: 16
1939787 TTAAATCATC
1939797 AATGAAAAAAAT-AAA
1 AATGAAAAAAATAAAA
1939812 AAT--AAAAAATAAATCA
1 AATGAAAAAAATAAA--A
1939828 AATGAAAAAAATAAGAA
1 AATGAAAAAAATAA-AA
1939845 AA
1 AA
1939847 AAATTAAAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
13 7 0.24
14 2 0.07
15 3 0.10
16 4 0.14
17 3 0.10
18 9 0.31
19 1 0.03
ACGTcount: A:0.78, C:0.02, G:0.06, T:0.14
Consensus pattern (16 bp):
AATGAAAAAAATAAAA
Found at i:1939841 original size:25 final size:24
Alignment explanation
Indices: 1939809--1939875 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 24
1939799 TGAAAAAAAT
*
1939809 AAAAATAAAAAATAAATCAAATGAA
1 AAAAATAAAAAA-AAATCAAAGGAA
*
1939834 AAAAATAAGAAAAAAATTAAAGGAA
1 AAAAATAA-AAAAAAATCAAAGGAA
1939859 AAAAATAAAATAAAAAT
1 AAAAATAAAA-AAAAAT
1939876 ATAAAACAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
24 2 0.05
25 32 0.84
26 4 0.11
ACGTcount: A:0.78, C:0.01, G:0.06, T:0.15
Consensus pattern (24 bp):
AAAAATAAAAAAAAATCAAAGGAA
Found at i:1940987 original size:20 final size:20
Alignment explanation
Indices: 1940962--1941054 Score: 96
Period size: 21 Copynumber: 4.5 Consensus size: 20
1940952 TTTTCCCAAT
1940962 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
1940982 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGTAAA
1941002 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGTAAA
* ** *
1941023 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
1941044 TCGCAATGCGA
1 TCGCAATGCGA
1941055 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:1941004 original size:41 final size:41
Alignment explanation
Indices: 1940959--1941054 Score: 183
Period size: 41 Copynumber: 2.3 Consensus size: 41
1940949 CGATTTTCCC
1940959 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1941000 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
*
1941041 AAATCGCAATGCGA
1 AATTCGCAATGCGA
1941055 TACTGACTAT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.19
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
Found at i:1941008 original size:21 final size:20
Alignment explanation
Indices: 1940962--1941054 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
1940952 TTTTCCCAAT
*
1940962 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGGAAA
* **
1940982 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGGAAA
*
1941002 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGGAAA
* **
1941023 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGG-AAA
1941044 TCGCAATGCGA
1 TCGCAATGCGA
1941055 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 29 0.50
21 29 0.50
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGGAAA
Found at i:1941068 original size:20 final size:20
Alignment explanation
Indices: 1941043--1941136 Score: 80
Period size: 20 Copynumber: 4.7 Consensus size: 20
1941033 AATTGGGAAA
*
1941043 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
1941063 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
1941084 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
* *
1941104 TTCGCAACACGATACTGACT
1 ATCGCAACGCGATACTGACT
*
1941124 TTCGCAACGCGAT
1 ATCGCAACGCGAT
1941137 TTACTTAGCG
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
20 44 0.76
21 14 0.24
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:1941117 original size:41 final size:41
Alignment explanation
Indices: 1941040--1941117 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
1941030 GCGAATTGGG
* * **
1941040 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAA
1 AAAATCGCAACGAGATACTGACTATCGCAACACGATAATAA
* *
1941081 AAAATCGCAACGAGATACTTACTTTCGCAACACGATA
1 AAAATCGCAACGAGATACTGACTATCGCAACACGATA
1941118 CTGACTTTCG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTGACTATCGCAACACGATAATAA
Found at i:1941713 original size:19 final size:19
Alignment explanation
Indices: 1941689--1941733 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
1941679 GCAACGAGAT
*
1941689 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAACAAA
*
1941708 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACAAA
1941727 AATCGCA
1 AATCGCA
1941734 TTGCGATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.49, C:0.27, G:0.16, T:0.09
Consensus pattern (19 bp):
AATCGCAACGCGAAACAAA
Found at i:1941751 original size:19 final size:19
Alignment explanation
Indices: 1941729--1941913 Score: 174
Period size: 19 Copynumber: 10.1 Consensus size: 19
1941719 GAAACCAAAA
*
1941729 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1941748 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
1941767 TCGCGTTGCGATTTTAATT
1 TCGCGTTGCGATTTTCATT
1941786 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
1941806 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
1941822 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
1941839 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
1941853 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
1941872 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
1941892 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
1941912 TC
1 TC
1941914 AACCAAAACA
Statistics
Matches: 138, Mismatches: 15, Indels: 26
0.77 0.08 0.15
Matches are distributed among these distances:
14 20 0.14
15 1 0.01
16 3 0.02
17 3 0.02
18 1 0.01
19 60 0.43
20 49 0.36
21 1 0.01
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1941806 original size:39 final size:38
Alignment explanation
Indices: 1941729--1941818 Score: 153
Period size: 39 Copynumber: 2.3 Consensus size: 38
1941719 GAAACCAAAA
* *
1941729 TCGCATTGCGATTTTCATTTCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTAATTTCGCGTTGCGATTTTCATT
1941767 TCGCGTTGCGATTTTAATTTCGCGGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTAATTTCGC-GTTGCGATTTTCATT
1941806 TCGCGTTGCGATT
1 TCGCGTTGCGATT
1941819 GTCTGGTCGC
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 21 0.43
39 28 0.57
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.46
Consensus pattern (38 bp):
TCGCGTTGCGATTTTAATTTCGCGTTGCGATTTTCATT
Found at i:1941838 original size:33 final size:33
Alignment explanation
Indices: 1941801--1941888 Score: 140
Period size: 33 Copynumber: 2.6 Consensus size: 33
1941791 GTTGCGATTT
* *
1941801 TCATTTCGCGTTGCGATTGTCTGGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
1941834 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
1941867 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
1941889 ATTATCTCGT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 36 0.71
34 15 0.29
ACGTcount: A:0.11, C:0.25, G:0.25, T:0.39
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:1941890 original size:20 final size:20
Alignment explanation
Indices: 1941856--1941913 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
1941846 GCGATTCTCT
**
1941856 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTCTCATTTCCG
*
1941876 CGTTGCGATTCTCATTAT-CT
1 CGTTGCGATTCTCATT-TCCG
*
1941896 CGTTGCGATTTTCATTTC
1 CGTTGCGATTCTCATTTC
1941914 AACCAAAACA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTCTCATTTCCG
Found at i:1943966 original size:42 final size:42
Alignment explanation
Indices: 1943906--1943989 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
1943896 GCTCGACTCG
* * *
1943906 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
1943948 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
1943990 ATGTCATCGT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.21, C:0.39, G:0.17, T:0.23
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:1945398 original size:14 final size:14
Alignment explanation
Indices: 1945379--1945414 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
1945369 ATTGTTTAAT
1945379 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
1945393 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
1945407 TGATTTGT
1 TGATTTGT
1945415 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:1945614 original size:19 final size:19
Alignment explanation
Indices: 1945592--1945709 Score: 76
Period size: 19 Copynumber: 6.7 Consensus size: 19
1945582 CGAAATTAAA
1945592 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
1945611 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
1945626 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
1945644 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
1945659 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
1945677 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
1945696 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
1945710 GGACATTAAG
Statistics
Matches: 73, Mismatches: 15, Indels: 21
0.67 0.14 0.19
Matches are distributed among these distances:
14 17 0.23
16 6 0.08
17 6 0.08
19 34 0.47
20 10 0.14
ACGTcount: A:0.14, C:0.24, G:0.20, T:0.42
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:1945638 original size:33 final size:33
Alignment explanation
Indices: 1945596--1945689 Score: 179
Period size: 33 Copynumber: 2.8 Consensus size: 33
1945586 ATTAAATTCG
1945596 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
*
1945629 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1945662 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
1945690 AGTAATTTCC
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.13, C:0.24, G:0.19, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
Found at i:1947999 original size:12 final size:12
Alignment explanation
Indices: 1947982--1948006 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1947972 TCTTCGGGGA
1947982 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1947994 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1948006 C
1 C
1948007 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:1949320 original size:20 final size:20
Alignment explanation
Indices: 1949295--1949345 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
1949285 ATTCATTTGA
*
1949295 CTATCGCAACGTGAAAATGG
1 CTATCGCAACGCGAAAATGG
1949315 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
*
1949335 TTATCGCAACG
1 CTATCGCAACG
1949346 AGAATATCGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.20
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:1949395 original size:14 final size:15
Alignment explanation
Indices: 1949375--1949447 Score: 60
Period size: 14 Copynumber: 4.5 Consensus size: 15
1949365 TGAAAATCGC
1949375 ATTGCGATTTTCTCG
1 ATTGCGATTTTCTCG
1949390 -TTGCGATTTTCATTTCG
1 ATTGCGATTTTC---TCG
*
1949407 CATTGCGATTTCATTTCG
1 -ATTGCGATTT--TCTCG
1949425 CATTGCGATTTTCTCG
1 -ATTGCGATTTTCTCG
1949441 -TTGCGAT
1 ATTGCGAT
1949448 AGTCATTTCG
Statistics
Matches: 49, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
14 18 0.37
16 4 0.08
17 3 0.06
18 14 0.29
19 9 0.18
21 1 0.02
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.47
Consensus pattern (15 bp):
ATTGCGATTTTCTCG
Found at i:1949412 original size:19 final size:19
Alignment explanation
Indices: 1949371--1949437 Score: 92
Period size: 18 Copynumber: 3.8 Consensus size: 19
1949361 GAAATGAAAA
1949371 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
1949387 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1949404 TCGCATTGCGA-TTTCATT
1 TCGCATTGCGATTTTCATT
1949422 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
1949438 TCGTTGCGAT
Statistics
Matches: 45, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
14 11 0.24
16 3 0.07
17 3 0.07
18 18 0.40
19 10 0.22
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:1949573 original size:14 final size:14
Alignment explanation
Indices: 1949554--1949590 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1949544 CATCAATTAA
1949554 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
1949568 ACAAATCATCTTTT
1 ACAAATCAACATTT
1949582 ACAAATCAA
1 ACAAATCAA
1949591 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:1951491 original size:20 final size:19
Alignment explanation
Indices: 1951456--1951522 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
1951446 GAAACTTAAA
1951456 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
1951475 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
1951495 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
1951514 ATCGCAACG
1 ATCGCAACG
1951523 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:1951530 original size:14 final size:14
Alignment explanation
Indices: 1951511--1951568 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
1951501 ATGCGAAATG
1951511 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
1951525 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
1951541 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
1951557 AAAATCGCAACG
1 AAAATCGCAACG
1951569 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:1951553 original size:32 final size:33
Alignment explanation
Indices: 1951495--1951573 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
1951485 GGAAATGGCT
*
1951495 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
1951528 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
1951560 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
1951574 CACAAATCGC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 30 0.67
33 15 0.33
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:1951602 original size:19 final size:17
Alignment explanation
Indices: 1951580--1951675 Score: 78
Period size: 19 Copynumber: 5.6 Consensus size: 17
1951570 GAAACACAAA
1951580 TCGCATTGCGATTTTCATT
1 TCGC-TTGCGA-TTTCATT
*
1951599 TCGCGTTGCGATTT--TG
1 TCGC-TTGCGATTTCATT
1951615 TCG-TTGCGATTTCATT
1 TCGCTTGCGATTTCATT
*
1951631 TCGCGTTGCGATTT--TG
1 TCGC-TTGCGATTTCATT
1951647 TCG-TTGCGATTTTCATT
1 TCGCTTGCGA-TTTCATT
1951664 TCGCATTGCGAT
1 TCGC-TTGCGAT
1951676 AGCCATTTCC
Statistics
Matches: 63, Mismatches: 5, Indels: 19
0.72 0.06 0.22
Matches are distributed among these distances:
14 15 0.24
15 3 0.05
16 12 0.19
17 4 0.06
18 13 0.21
19 16 0.25
ACGTcount: A:0.11, C:0.20, G:0.23, T:0.46
Consensus pattern (17 bp):
TCGCTTGCGATTTCATT
Found at i:1951621 original size:14 final size:14
Alignment explanation
Indices: 1951602--1951659 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
1951592 TTTCATTTCG
1951602 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
1951616 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
1951632 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
1951648 CGTTGCGATTTT
1 CGTTGCGATTTT
1951660 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:1951666 original size:33 final size:33
Alignment explanation
Indices: 1951585--1951675 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
1951575 ACAAATCGCA
1951585 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1951618 TTGCGA-TTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
*
1951650 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCGTTGCGAT
1951676 AGCCATTTCC
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.57
33 24 0.43
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
Found at i:1951694 original size:20 final size:19
Alignment explanation
Indices: 1951660--1951714 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
1951650 TTGCGATTTT
*
1951660 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
1951679 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
1951699 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
1951715 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:1952212 original size:18 final size:18
Alignment explanation
Indices: 1952186--1952230 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
1952176 GTCGATCAGA
*
1952186 TGATGGCTCTAGGTGAGG
1 TGATGGCTCTAGGCGAGG
* *
1952204 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTAGGCGAGG
1952222 TGATGGCTC
1 TGATGGCTC
1952231 CCGAAGTGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.16, G:0.42, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTAGGCGAGG
Found at i:1953873 original size:22 final size:22
Alignment explanation
Indices: 1953848--1953891 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
1953838 GATTTAGATA
1953848 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
1953870 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
1953892 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:1954104 original size:20 final size:20
Alignment explanation
Indices: 1954079--1954131 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
1954069 GATTATGTAT
*
1954079 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTAAG
1954099 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTAAG
*
1954119 TATCTCGTTGCGA
1 TATCGCGTTGCGA
1954132 TTTTTTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTAAG
Found at i:1954166 original size:20 final size:20
Alignment explanation
Indices: 1954059--1954174 Score: 81
Period size: 20 Copynumber: 5.7 Consensus size: 20
1954049 CGCTTTGAAA
*
1954059 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* *
1954080 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * *
1954100 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * ** * *
1954120 ATCTCGTTGCGATTTTTTTATT
1 ATCGCATTGCGA--TAGTCAGT
1954142 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
1954162 ATCGCATTGCGAT
1 ATCGCATTGCGAT
1954175 TTTCCCAATT
Statistics
Matches: 76, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
19 2 0.03
20 50 0.66
21 11 0.14
22 13 0.17
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:1954207 original size:20 final size:20
Alignment explanation
Indices: 1954163--1954255 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
1954153 ATAGTCAGTA
* **
1954163 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
1954184 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* **
1954204 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCG-ATTTACTTAT
*
1954225 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
1954245 TCGCATTGCGA
1 TCGCATTGCGA
1954256 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:1954208 original size:41 final size:41
Alignment explanation
Indices: 1954163--1954258 Score: 183
Period size: 41 Copynumber: 2.3 Consensus size: 41
1954153 ATAGTCAGTA
*
1954163 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1954204 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1954245 TCGCATTGCGAATT
1 TCGCATTGCGAATT
1954259 GGGAAAATCG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:1954567 original size:3 final size:3
Alignment explanation
Indices: 1954559--1954592 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
1954549 AAAAATAGAA
1954559 AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1954593 TTTTTTGTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.14
3 25 0.86
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:1959788 original size:22 final size:23
Alignment explanation
Indices: 1959763--1959805 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
1959753 ATCTAAATTA
1959763 GTATT-AT-TTTTGTTCTTTTTTT
1 GTATTCATATTTTGTT-TTTTTTT
1959785 GTATTCATATTTTGTTTTTTT
1 GTATTCATATTTTGTTTTTTT
1959806 CAAAATTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.26
23 7 0.37
24 7 0.37
ACGTcount: A:0.12, C:0.05, G:0.09, T:0.74
Consensus pattern (23 bp):
GTATTCATATTTTGTTTTTTTTT
Found at i:1960388 original size:19 final size:19
Alignment explanation
Indices: 1960364--1960457 Score: 102
Period size: 20 Copynumber: 4.8 Consensus size: 19
1960354 AATGACCAAC
1960364 AAAATCGCAACGCGAAATA-
1 AAAATCGCAACGCGAAA-AG
**
1960383 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGA-AAAG
*
1960403 AAAATCGCAACGTTGAAAAG
1 AAAATCGCAACG-CGAAAAG
1960423 AAAATCGCAACG-GTCAAAAG
1 AAAATCGCAACGCG--AAAAG
1960443 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
1960458 TATTCCAAGA
Statistics
Matches: 64, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
18 1 0.02
19 17 0.27
20 43 0.67
21 3 0.05
ACGTcount: A:0.48, C:0.20, G:0.19, T:0.13
Consensus pattern (19 bp):
AAAATCGCAACGCGAAAAG
Found at i:1960579 original size:6 final size:6
Alignment explanation
Indices: 1960568--1960738 Score: 342
Period size: 6 Copynumber: 28.5 Consensus size: 6
1960558 GACACGTATT
1960568 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1960616 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1960664 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1960712 ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACC
1960739 CGAGACGAGA
Statistics
Matches: 165, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 165 1.00
ACGTcount: A:0.33, C:0.50, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:1961251 original size:6 final size:6
Alignment explanation
Indices: 1961240--1961330 Score: 182
Period size: 6 Copynumber: 15.2 Consensus size: 6
1961230 TCGTCTCGTC
1961240 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
1961288 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
1961331 AATACGTGTC
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 85 1.00
ACGTcount: A:0.00, C:0.16, G:0.49, T:0.34
Consensus pattern (6 bp):
TCGTGG
Found at i:1961456 original size:20 final size:20
Alignment explanation
Indices: 1961431--1961710 Score: 367
Period size: 20 Copynumber: 13.8 Consensus size: 20
1961421 CTCATTTTCT
1961431 GAATCGCGTTGCGATTCTTG
1 GAATCGCGTTGCGATTCTTG
*
1961451 GAATCGCGTTGCGATT-TTCT
1 GAATCGCGTTGCGATTCTT-G
1961471 GAATCGCGTTGCGATTCTTG
1 GAATCGCGTTGCGATTCTTG
1961491 GAATCGCGTTGCGATTCTTG
1 GAATCGCGTTGCGATTCTTG
1961511 GAATCGCGTTGCGATTCTTG
1 GAATCGCGTTGCGATTCTTG
1961531 GAATCGCGTTGCGATTTTCTT-
1 GAATCGCGTTGCGA--TTCTTG
1961552 -AATCGCGTTGCGATTCTTG
1 GAATCGCGTTGCGATTCTTG
1961571 GAATCGCGTTGCGATTTTCTT-
1 GAATCGCGTTGCGA--TTCTTG
1961592 -AATCGCGTTGCGATTCTTG
1 GAATCGCGTTGCGATTCTTG
*
1961611 GAATCGCGTTGCGATT-TTCT
1 GAATCGCGTTGCGATTCTT-G
*
1961631 GAATCGCATTGCGATTCTTG
1 GAATCGCGTTGCGATTCTTG
1961651 GAAGATCGCGTTGCGATTCTCT-
1 G-A-ATCGCGTTGCGATTCT-TG
* *
1961673 TAATCGCATTGCGATTCTTG
1 GAATCGCGTTGCGATTCTTG
1961693 GAATATCGCGTTGCGATT
1 G-A-ATCGCGTTGCGATT
1961711 TTCTTTTGAC
Statistics
Matches: 232, Mismatches: 10, Indels: 34
0.84 0.04 0.12
Matches are distributed among these distances:
18 10 0.04
19 5 0.02
20 171 0.74
21 7 0.03
22 38 0.16
23 1 0.00
ACGTcount: A:0.16, C:0.20, G:0.26, T:0.37
Consensus pattern (20 bp):
GAATCGCGTTGCGATTCTTG
Found at i:1961479 original size:40 final size:40
Alignment explanation
Indices: 1961424--1961714 Score: 467
Period size: 40 Copynumber: 7.2 Consensus size: 40
1961414 GAATTTACTC
1961424 ATTTTCTGAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
1961464 ATTTTCTGAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
*
1961504 ATTCTT-GGAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
1 ATT-TTCTGAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
*
1961544 ATTTTCTTAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
*
1961584 ATTTTCTTAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
*
1961624 ATTTTCTGAATCGCATTGCGATTCTTGGAAGATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCGATTCTTGG-A-ATCGCGTTGCG
* * *
1961666 ATTCTCTTAATCGCATTGCGATTCTTGGAATATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCGATTCTTGG-A-ATCGCGTTGCG
1961708 ATTTTCT
1 ATTTTCT
1961715 TTTGACCGTT
Statistics
Matches: 238, Mismatches: 9, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
39 2 0.01
40 177 0.74
41 3 0.01
42 56 0.24
ACGTcount: A:0.16, C:0.20, G:0.25, T:0.38
Consensus pattern (40 bp):
ATTTTCTGAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
Found at i:1961764 original size:20 final size:20
Alignment explanation
Indices: 1961424--1961791 Score: 314
Period size: 20 Copynumber: 18.2 Consensus size: 20
1961414 GAATTTACTC
1961424 ATTTTCTGAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCG
*
1961444 ATTCTT-GGAATCGCGTTGCG
1 ATT-TTCTGAATCGCGTTGCG
1961464 ATTTTCTGAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCG
*
1961484 ATTCTT-GGAATCGCGTTGCG
1 ATT-TTCTGAATCGCGTTGCG
*
1961504 ATTCTT-GGAATCGCGTTGCG
1 ATT-TTCTGAATCGCGTTGCG
*
1961524 ATTCTT-GGAATCGCGTTGCG
1 ATT-TTCTGAATCGCGTTGCG
*
1961544 ATTTTCTTAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCG
*
1961564 ATTCTT-GGAATCGCGTTGCG
1 ATT-TTCTGAATCGCGTTGCG
*
1961584 ATTTTCTTAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCG
*
1961604 ATTCTT-GGAATCGCGTTGCG
1 ATT-TTCTGAATCGCGTTGCG
*
1961624 ATTTTCTGAATCGCATTGCG
1 ATTTTCTGAATCGCGTTGCG
*
1961644 ATTCTT-GGAAGATCGCGTTGCG
1 ATT-TTCTG-A-ATCGCGTTGCG
* * *
1961666 ATTCTCTTAATCGCATTGCG
1 ATTTTCTGAATCGCGTTGCG
*
1961686 ATTCTT-GGAATATCGCGTTGCG
1 ATT-TTCTG-A-ATCGCGTTGCG
1961708 ATTTTCTTTTG-A-C-CGTTGCG
1 ATTTTC---TGAATCGCGTTGCG
** *
1961728 ATTTTCT-TTTCAACGTTGCG
1 ATTTTCTGAATC-GCGTTGCG
*
1961748 ATTTTCTAAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCG
*
1961768 ATTTT-T-ATTTCGCGTTGCG
1 ATTTTCTGA-ATCGCGTTGCG
1961787 ATTTT
1 ATTTT
1961792 GTTGGTCATT
Statistics
Matches: 294, Mismatches: 29, Indels: 51
0.79 0.08 0.14
Matches are distributed among these distances:
17 1 0.00
18 2 0.01
19 24 0.08
20 219 0.74
21 20 0.07
22 27 0.09
25 1 0.00
ACGTcount: A:0.16, C:0.20, G:0.24, T:0.40
Consensus pattern (20 bp):
ATTTTCTGAATCGCGTTGCG
Found at i:1963662 original size:19 final size:19
Alignment explanation
Indices: 1963621--1963664 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
1963611 AAACAAAGAT
* * *
1963621 ATCAGAAATCAGAGCAGAG
1 ATCAGAAATCAGAACAAAA
*
1963640 ATCAGAAATCATAACAAAA
1 ATCAGAAATCAGAACAAAA
1963659 ATCAGA
1 ATCAGA
1963665 GAAAACTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.55, C:0.16, G:0.16, T:0.14
Consensus pattern (19 bp):
ATCAGAAATCAGAACAAAA
Found at i:1966200 original size:32 final size:32
Alignment explanation
Indices: 1966146--1966274 Score: 107
Period size: 32 Copynumber: 4.3 Consensus size: 32
1966136 AGTCGAGGGT
* * *
1966146 TTACCTATGT-TCTACGGAACATATGGATAGAA
1 TTACCTATGTCT-TTCGGGACATATGGACAGAA
1966178 TTACCTATGTCTTTCGGGAC--AT------AA
1 TTACCTATGTCTTTCGGGACATATGGACAGAA
* *
1966202 TTACCTATGTCTTTCGGGACATATGAACATAA
1 TTACCTATGTCTTTCGGGACATATGGACAGAA
* * *
1966234 TTACCTATGTCTTTTGAGACATATGGACAGTA
1 TTACCTATGTCTTTCGGGACATATGGACAGAA
1966266 -TACCTATGT
1 TTACCTATGT
1966275 TCTCAGAAAC
Statistics
Matches: 81, Mismatches: 7, Indels: 19
0.76 0.07 0.18
Matches are distributed among these distances:
24 22 0.27
26 2 0.02
30 2 0.02
31 9 0.11
32 45 0.56
33 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (32 bp):
TTACCTATGTCTTTCGGGACATATGGACAGAA
Found at i:1966206 original size:56 final size:56
Alignment explanation
Indices: 1966146--1966256 Score: 143
Period size: 56 Copynumber: 2.0 Consensus size: 56
1966136 AGTCGAGGGT
* * *
1966146 TTACCTATGT-TCTACGGAACATATGGATAGAATTACCTATGTCTTTCGGGACATAA
1 TTACCTATGTCT-TACGGAACATATGAACAGAATTACCTATGTCTTTCGAGACATAA
* * * *
1966202 TTACCTATGTCTTTCGGGACATATGAACATAATTACCTATGTCTTTTGAGACATA
1 TTACCTATGTCTTACGGAACATATGAACAGAATTACCTATGTCTTTCGAGACATA
1966257 TGGACAGTAT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
56 46 0.98
57 1 0.02
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (56 bp):
TTACCTATGTCTTACGGAACATATGAACAGAATTACCTATGTCTTTCGAGACATAA
Found at i:1966208 original size:24 final size:24
Alignment explanation
Indices: 1966176--1966224 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
1966166 ATATGGATAG
1966176 AATTACCTATGTCTTTCGGGACAT
1 AATTACCTATGTCTTTCGGGACAT
1966200 AATTACCTATGTCTTTCGGGACAT
1 AATTACCTATGTCTTTCGGGACAT
1966224 A
1 A
1966225 TGAACATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (24 bp):
AATTACCTATGTCTTTCGGGACAT
Found at i:1966273 original size:31 final size:30
Alignment explanation
Indices: 1966194--1966305 Score: 100
Period size: 32 Copynumber: 3.5 Consensus size: 30
1966184 ATGTCTTTCG
* *
1966194 GGACATAATTACCTATGTCTTTCGGGACATAT
1 GGACAT-A-TACCTATGTCTTTAGAGACATAT
* *
1966226 GAACATAATTACCTATGTCTTTTGAGACATAT
1 GGACAT-A-TACCTATGTCTTTAGAGACATAT
* *
1966258 GGACAGTATACCTATGT-TCTCAGAAACATAT
1 GGACA-TATACCTATGTCT-TTAGAGACATAT
1966289 GGACAATATACCTATGT
1 GGAC-ATATACCTATGT
1966306 TCTAAGGAAC
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
30 1 0.01
31 33 0.47
32 35 0.50
33 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (30 bp):
GGACATATACCTATGTCTTTAGAGACATAT
Found at i:1966332 original size:31 final size:31
Alignment explanation
Indices: 1966252--1966339 Score: 113
Period size: 31 Copynumber: 2.8 Consensus size: 31
1966242 GTCTTTTGAG
*
1966252 ACATATGGACAGTATACCTATGTTCTCAGAA
1 ACATATGGACAGTATACCTATGTTCTAAGAA
* *
1966283 ACATATGGACAATATACCTATGTTCTAAGGA
1 ACATATGGACAGTATACCTATGTTCTAAGAA
* * * *
1966314 ACGTATGAACAGTTTACCTAGGTTCT
1 ACATATGGACAGTATACCTATGTTCT
1966340 TTGGGACCTA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 49 1.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (31 bp):
ACATATGGACAGTATACCTATGTTCTAAGAA
Found at i:1971879 original size:21 final size:21
Alignment explanation
Indices: 1971841--1971884 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
1971831 TTGATTCGGA
* * * *
1971841 TTGAGTGTTTAGGGTTTATGT
1 TTGAGGGTTTAAGATTTAGGT
1971862 TTGAGGGTTTAAGATTTAGGT
1 TTGAGGGTTTAAGATTTAGGT
1971883 TT
1 TT
1971885 AGGTTCATTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.50
Consensus pattern (21 bp):
TTGAGGGTTTAAGATTTAGGT
Found at i:1972373 original size:11 final size:11
Alignment explanation
Indices: 1972357--1972419 Score: 60
Period size: 11 Copynumber: 5.9 Consensus size: 11
1972347 ATATTATAGA
1972357 ATTTTTAATAT
1 ATTTTTAATAT
1972368 ATTTTTAA-A-
1 ATTTTTAATAT
1972377 ATTTTATAAT-T
1 ATTTT-TAATAT
*** *
1972388 ATCAATAATGT
1 ATTTTTAATAT
1972399 ATTTTTAATAT
1 ATTTTTAATAT
1972410 ATTTTTAATA
1 ATTTTTAATA
1972420 ATGTAATTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
9 5 0.12
10 8 0.20
11 28 0.68
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (11 bp):
ATTTTTAATAT
Found at i:1974947 original size:14 final size:16
Alignment explanation
Indices: 1974923--1974954 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
1974913 AATAGATTAC
1974923 TTTATTAAAGT-ACTT
1 TTTATTAAAGTAACTT
1974938 TTTA-TAAAGTAACTT
1 TTTATTAAAGTAACTT
1974953 TT
1 TT
1974955 ACTTTATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.53
Consensus pattern (16 bp):
TTTATTAAAGTAACTT
Found at i:1977106 original size:32 final size:32
Alignment explanation
Indices: 1977050--1977118 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 32
1977040 TGTGAATATT
* *
1977050 GATATTGTTCTTAGAGTACCGATACTCGTATC
1 GATACTGTTCTTAAAGTACCGATACTCGTATC
** *
1977082 GATACTGTTCTTAAAGTATTGATACTTGTATC
1 GATACTGTTCTTAAAGTACCGATACTCGTATC
*
1977114 AATAC
1 GATAC
1977119 CCCTATCAGT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (32 bp):
GATACTGTTCTTAAAGTACCGATACTCGTATC
Found at i:1978637 original size:18 final size:18
Alignment explanation
Indices: 1978614--1978648 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
1978604 AGGGTTATAC
1978614 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
1978632 AGTGGTCCTTCGGGACA
1 AGTGGTCCTTCGGGACA
1978649 AATATTCAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.23, G:0.34, T:0.26
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Done.