Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008959.1 Hibiscus syriacus cultivar Beakdansim tig00112293_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: 4521124
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 21
Found at i:1361635 original size:13 final size:13
Alignment explanation
Indices: 1361617--1361652 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
1361607 AACCTCTCCT
1361617 TTTTTTCTTTTTC
1 TTTTTTCTTTTTC
1361630 TTTTTTCTTTTTC
1 TTTTTTCTTTTTC
1361643 -TTTTTCTTTT
1 TTTTTTCTTTT
1361653 CAGGCGTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTTTCTTTTTC
Found at i:1370532 original size:223 final size:218
Alignment explanation
Indices: 1370099--1370540 Score: 789
Period size: 223 Copynumber: 2.0 Consensus size: 218
1370089 GATATGGCAT
1370099 TTGTCGAGGAAATCCACCATAGGCGAAAAATCGATTGATGTCTCCGAGCCCACCCTTCTCACTAT
1 TTGTCGAGGAAATCCACCATAGGCGAAAAATCGATTGATGTCTCCGAGCCCACCCTTCTCACTAT
1370164 CCAGGAGTGGCTCCACCACCAACTAGTAATAGTGAAGTACATCCAGTGAACTGACCTCCTCCCAA
66 CCAGGAGTGGCTCCACCACCAACTAGTAATAGTGAAGTACATCCAGTGAACTGACCTCCTCCCAA
1370229 TCGTCTACACTGGTTCGTGATAGGAATGTTTTCGCAAGGATGGCTGTGCGGGATTCTTTCTGGCA
131 TCGTCTACACTGGTTCGTGATAGGAATGTTTTCGCAAGGATGGCTGTGCGGGATTCTTTCTGGCA
*
1370294 ATAGCTTCGACGAAATCG-TTAAG
196 ATA-CTTCCACGAAATCGATTAAG
1370317 TTGTCGAGGAAATCCACCATAGGCGAAAAAAATCGATTGATGTCTCCGAGCCCAGCCCTTCTCAA
1 TTGTCGAGGAAATCCACCATAGGCG--AAAAATCGATTGATGTCTCCGAGCCCA-CCCTTCTC-A
1370382 CTATCCAGGAGTGGCTCCACCACCAAACTAGTAATAGTGAAGTACATCCAGTGAACTGACCTCCT
62 CTATCCAGGAGTGGCTCCACCACC-AACTAGTAATAGTGAAGTACATCCAGTGAACTGACCTCCT
1370447 CCCAATCGTCTACACTGGTTCAGTGATAGGAATGTTTTCGCAAGGATGGCTGGTGCGGGATTCTT
126 CCCAATCGTCTACACTGGTTC-GTGATAGGAATGTTTTCGCAAGGATGGCT-GTGCGGGATTCTT
1370512 TCTGGCAATA-TTCCACGAAATCGATTAAG
189 TCTGGCAATACTTCCACGAAATCGATTAAG
1370541 GCAATGTCAA
Statistics
Matches: 215, Mismatches: 1, Indels: 10
0.95 0.00 0.04
Matches are distributed among these distances:
218 25 0.12
220 27 0.13
221 8 0.04
222 25 0.12
223 73 0.34
224 34 0.16
225 23 0.11
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.25
Consensus pattern (218 bp):
TTGTCGAGGAAATCCACCATAGGCGAAAAATCGATTGATGTCTCCGAGCCCACCCTTCTCACTAT
CCAGGAGTGGCTCCACCACCAACTAGTAATAGTGAAGTACATCCAGTGAACTGACCTCCTCCCAA
TCGTCTACACTGGTTCGTGATAGGAATGTTTTCGCAAGGATGGCTGTGCGGGATTCTTTCTGGCA
ATACTTCCACGAAATCGATTAAG
Found at i:1371925 original size:157 final size:153
Alignment explanation
Indices: 1371680--1371989 Score: 550
Period size: 158 Copynumber: 2.0 Consensus size: 153
1371670 CTATGATATG
1371680 CAAATATCCTAAATTCACAAAATGTAAGCATTACAGACTGAAATCAGTTTTTTTCTTTTTTGAAA
1 CAAATATCCTAAATTCACAAAATGTAAGCATTACAGACTGAAATCAGTTTTTTTCTTTTTTGAAA
1371745 TAACATAATGAACAGTAAATTAAAT-AAATCGAACGCGTAATTTCCAAAATAGTAAATACATGGT
66 TAACATAATGAACAGTAAATTAAATAAAATCGAACGCGTAATTTCCAAAATAGTAAATACATGGT
1371809 AACCAACTCGTGGCTCGACTCTC
131 AACCAACTCGTGGCTCGACTCTC
*
1371832 CAAATATCCTAAATATTCACAAAAATGTAAGCATTAACCAGACTGAAATCAGTTTTTTTTTTTTT
1 CAAATATCCT-AA-ATTCAC-AAAATGTAAGCATT-A-CAGACTGAAATCAGTTTTTTTCTTTTT
*
1371897 TGAAATAACATAATGAACAGTAAATTAAATAAAATCGAACTCGTAATTTCCAAAATAGTAAATAC
61 TGAAATAACATAATGAACAGTAAATTAAATAAAATCGAACGCGTAATTTCCAAAATAGTAAATAC
1371962 ATGGTAACCAACTCGTGGCTCGACTCTC
126 ATGGTAACCAACTCGTGGCTCGACTCTC
1371990 AATTTGTTTT
Statistics
Matches: 150, Mismatches: 2, Indels: 6
0.95 0.01 0.04
Matches are distributed among these distances:
152 10 0.07
153 2 0.01
154 6 0.04
155 14 0.09
156 1 0.01
157 56 0.37
158 61 0.41
ACGTcount: A:0.41, C:0.17, G:0.11, T:0.31
Consensus pattern (153 bp):
CAAATATCCTAAATTCACAAAATGTAAGCATTACAGACTGAAATCAGTTTTTTTCTTTTTTGAAA
TAACATAATGAACAGTAAATTAAATAAAATCGAACGCGTAATTTCCAAAATAGTAAATACATGGT
AACCAACTCGTGGCTCGACTCTC
Found at i:1373201 original size:13 final size:13
Alignment explanation
Indices: 1373178--1373215 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
1373168 TATTAATCTT
1373178 AATTA-AAAATAA
1 AATTACAAAATAA
1373190 AATTACAAAAT-A
1 AATTACAAAATAA
*
1373202 AAGTACAAAATAA
1 AATTACAAAATAA
1373215 A
1 A
1373216 TTAAATAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 16 0.70
13 7 0.30
ACGTcount: A:0.71, C:0.05, G:0.03, T:0.21
Consensus pattern (13 bp):
AATTACAAAATAA
Found at i:1373283 original size:17 final size:18
Alignment explanation
Indices: 1373240--1373277 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
1373230 AATTTAAACA
1373240 AAATAAT-A-AAAATTAC
1 AAATAATAAGAAAATTAC
1373256 AAATAATAAGAAAATTA-
1 AAATAATAAGAAAATTAC
1373273 AAATA
1 AAATA
1373278 CAAAGATCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 7 0.35
17 6 0.30
18 7 0.35
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (18 bp):
AAATAATAAGAAAATTAC
Found at i:1379656 original size:41 final size:41
Alignment explanation
Indices: 1379607--1379686 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 41
1379597 CCACTGTACT
* *
1379607 AAGTGTCCTTGCACATTGTAGTACTGAATTAAACCTGCATA
1 AAGTGTCCTTGCACACTATAGTACTGAATTAAACCTGCATA
** *
1379648 AAGTGTCCTTGCACACTATAGTGTTGTATTAAACCTGCA
1 AAGTGTCCTTGCACACTATAGTACTGAATTAAACCTGCA
1379687 GCTGCTGGAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (41 bp):
AAGTGTCCTTGCACACTATAGTACTGAATTAAACCTGCATA
Found at i:1381716 original size:30 final size:30
Alignment explanation
Indices: 1381660--1381716 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
1381650 GAAAAGTATC
* **
1381660 ACTTTGTCCCTAAACTTTTCCTAATTTTAT
1 ACTTTGACCCTAAACTTTTCAAAATTTTAT
1381690 ACTTTGACCTCTAAAC-TTTCAAAATTT
1 ACTTTGACC-CTAAACTTTTCAAAATTT
1381717 ATGTTTTGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
30 17 0.74
31 6 0.26
ACGTcount: A:0.28, C:0.23, G:0.04, T:0.46
Consensus pattern (30 bp):
ACTTTGACCCTAAACTTTTCAAAATTTTAT
Found at i:1389194 original size:85 final size:85
Alignment explanation
Indices: 1389051--1389222 Score: 326
Period size: 85 Copynumber: 2.0 Consensus size: 85
1389041 TCCGCGAAGC
1389051 AAAAGTGGGTAAGACTAATCATCTTGCATTTTGGGTGACATTGAAAGAGCCCCTCTTTAGCACTA
1 AAAAGTGGGTAAGACTAATCATCTTGCATTTTGGGTGACATTGAAAGAGCCCCTCTTTAGCACTA
1389116 AGGTCCAGAAGCTTGGACAA
66 AGGTCCAGAAGCTTGGACAA
*
1389136 AAAAGTGGGTAAGACTAATCATCTTGCATTTTGGGTGACATTGAAAGAGCCCCTCTTTAGTACTA
1 AAAAGTGGGTAAGACTAATCATCTTGCATTTTGGGTGACATTGAAAGAGCCCCTCTTTAGCACTA
*
1389201 AGGTCTAGAAGCTTGGACAA
66 AGGTCCAGAAGCTTGGACAA
1389221 AA
1 AA
1389223 CATTCATAGC
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 85 1.00
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (85 bp):
AAAAGTGGGTAAGACTAATCATCTTGCATTTTGGGTGACATTGAAAGAGCCCCTCTTTAGCACTA
AGGTCCAGAAGCTTGGACAA
Found at i:1391305 original size:11 final size:12
Alignment explanation
Indices: 1391269--1391314 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
1391259 AAAGTGTTCG
1391269 AACAGAAAAAAC
1 AACAGAAAAAAC
*
1391281 AA-AGCAAAATAC
1 AACAG-AAAAAAC
1391293 AACAG-AAAAAC
1 AACAGAAAAAAC
1391304 AACAAGAAAAA
1 AAC-AGAAAAA
1391315 TTGAAAAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
11 10 0.36
12 12 0.43
13 6 0.21
ACGTcount: A:0.74, C:0.15, G:0.09, T:0.02
Consensus pattern (12 bp):
AACAGAAAAAAC
Found at i:1396663 original size:10 final size:10
Alignment explanation
Indices: 1396648--1396685 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
1396638 GTCTAAGAGC
1396648 TCATATAGGA
1 TCATATAGGA
1396658 TCATATA-GA
1 TCATATAGGA
*
1396667 TGCATTTAGGA
1 T-CATATAGGA
1396678 TCATATAG
1 TCATATAG
1396686 TTGCATGTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 3 0.12
10 18 0.75
11 3 0.12
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (10 bp):
TCATATAGGA
Found at i:1396678 original size:20 final size:20
Alignment explanation
Indices: 1396653--1396691 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1396643 AGAGCTCATA
1396653 TAGGATCATATAGATGCATT
1 TAGGATCATATAGATGCATT
*
1396673 TAGGATCATATAGTTGCAT
1 TAGGATCATATAGATGCAT
1396692 GTGGTGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (20 bp):
TAGGATCATATAGATGCATT
Found at i:1422964 original size:16 final size:16
Alignment explanation
Indices: 1422943--1422979 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
1422933 TGATGTCATT
* *
1422943 TATCATTGGTGACACG
1 TATCATTGATGACAAG
1422959 TATCATTGATGACAAG
1 TATCATTGATGACAAG
1422975 TATCA
1 TATCA
1422980 CCCTCTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.32
Consensus pattern (16 bp):
TATCATTGATGACAAG
Found at i:1423300 original size:59 final size:62
Alignment explanation
Indices: 1423158--1423300 Score: 150
Period size: 59 Copynumber: 2.4 Consensus size: 62
1423148 GTATAGTTTA
* * * * **
1423158 AATTTTAAAAATATATATTTTACTTTTCTCTTAACTTATTAAATATATTTTATTTTTATTTT
1 AATTTTAAAAATATATATTTTTCTGTTCTCTTAACTTATAAAATATATTTTAATTTTATCCT
* * * * *
1423220 AA-TATAAGAATATTTATTTTTTCTGTT-TCTTCA-TT-TAAAATGTATTTTAATTTTATCCT
1 AATTTTAAAAATATATA-TTTTTCTGTTCTCTTAACTTATAAAATATATTTTAATTTTATCCT
1423279 AATTTTAAAAATATATATTTTT
1 AATTTTAAAAATATATATTTTT
1423301 AAATATCTTA
Statistics
Matches: 65, Mismatches: 14, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
59 26 0.40
60 13 0.20
61 16 0.25
62 10 0.15
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.57
Consensus pattern (62 bp):
AATTTTAAAAATATATATTTTTCTGTTCTCTTAACTTATAAAATATATTTTAATTTTATCCT
Found at i:1423402 original size:29 final size:29
Alignment explanation
Indices: 1423326--1423462 Score: 168
Period size: 29 Copynumber: 4.7 Consensus size: 29
1423316 AAATATTTCA
* **
1423326 ATATTTTATTATTA-TTTAGTTATAAAAAT
1 ATATTTTATTCTTATTTTAAAT-TAAAAAT
* * *
1423355 ATATATTTATTCTTATTTTTACTTTAAAAT
1 ATAT-TTTATTCTTATTTTAAATTAAAAAT
1423385 ATATTTTATTCTTATTTTAAATTAAAAAT
1 ATATTTTATTCTTATTTTAAATTAAAAAT
1423414 ATATTTTATTCTTATTTTAAATTAAAAAT
1 ATATTTTATTCTTATTTTAAATTAAAAAT
* * *
1423443 ATGTTTTATTATTATCTTAA
1 ATATTTTATTCTTATTTTAA
1423463 CTTTTAAAAT
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 72 0.76
30 19 0.20
31 4 0.04
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.57
Consensus pattern (29 bp):
ATATTTTATTCTTATTTTAAATTAAAAAT
Found at i:1424109 original size:16 final size:15
Alignment explanation
Indices: 1424076--1424105 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1424066 CGGAAGGTCA
1424076 TATTTTGGTTTATAT
1 TATTTTGGTTTATAT
1424091 TATTTTGGTTT-TAT
1 TATTTTGGTTTATAT
1424105 T
1 T
1424106 TTATATGGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.17, C:0.00, G:0.13, T:0.70
Consensus pattern (15 bp):
TATTTTGGTTTATAT
Found at i:1425853 original size:112 final size:112
Alignment explanation
Indices: 1425670--1425909 Score: 329
Period size: 112 Copynumber: 2.1 Consensus size: 112
1425660 ACTTGTACAA
** * * * * *
1425670 AAAGTATAAATACTTTTAACATATACGGTAGGTCTTTATCAGTTTTGTCATAATGAAACTGGTAT
1 AAAGTATCGATACTTTCAACATATACGGTAGCTCTTTACCAGTTTTGTCATAATAAAACTGATAT
* *
1425735 TGTCATATTTTTACCTGTTATATTGTTATGCATCGATACATTTTTAT
66 TGTCATATTTTTACCTATTATATTATTATGCATCGATACATTTTTAT
* *
1425782 AAAGTATCGATACTTTCAACATAT-CTGGTAGCTCTTTACCGGTTTTGTCATAATAAAACTGATT
1 AAAGTATCGATACTTTCAACATATAC-GGTAGCTCTTTACCAGTTTTGTCATAATAAAACTGATA
* * * *
1425846 TTTTCATATTTTTACTTATTATATTATTATGTATCGATATATTTTTAT
65 TTGTCATATTTTTACCTATTATATTATTATGCATCGATACATTTTTAT
1425894 AAAGTATCGATACTTT
1 AAAGTATCGATACTTT
1425910 ATAGGCGCTA
Statistics
Matches: 112, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
111 1 0.01
112 111 0.99
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.46
Consensus pattern (112 bp):
AAAGTATCGATACTTTCAACATATACGGTAGCTCTTTACCAGTTTTGTCATAATAAAACTGATAT
TGTCATATTTTTACCTATTATATTATTATGCATCGATACATTTTTAT
Found at i:1426102 original size:75 final size:75
Alignment explanation
Indices: 1425991--1426634 Score: 707
Period size: 75 Copynumber: 8.8 Consensus size: 75
1425981 CAACATATCT
* * *
1425991 GGTAGGTAGTTTAATGTAATAGGCAGTGCCTATTTTTTTTTACCGTTTACATTATTAGCAACCTT
1 GGTAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTTACCGTTTACATTATTAGCAACCTT
*
1426056 CAAAAAAACC
66 TAAAAAAACC
* * *
1426066 GATAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTTACTGTTTACATTATTAACAACC-T
1 GGTAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTTACCGTTTACATTATTAGCAACCTT
1426130 TAAAAAAACC
66 TAAAAAAACC
* * * *
1426140 GGTAGGTATTTTAATGTAATAGGTAGCACCTA---TTTTTTATCGTTTAAATTATTAGCAATCTT
1 GGTAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTTACCGTTTACATTATTAGCAACCTT
* *
1426202 TAAACACA-C
66 TAAAAAAACC
* * *
1426211 GGATAGGTATTTTAATGTAATAGGTAGCGCCTATGTTTTTATATCGTTTACATTATTAGCAACCT
1 GG-TAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTTACCGTTTACATTATTAGCAACCT
* *
1426276 TCAAAAAAAACT
65 T-TAAAAAAACC
* * *
1426288 GGTATGTAGTTTAATATAATAGGTAGCGCCTA-TTTTTTTTACCGTTTACATTATTAGCAACC-T
1 GGTAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTTACCGTTTACATTATTAGCAACCTT
*
1426351 TAAAAAAATC
66 TAAAAAAACC
* * *** * *
1426361 GATAGGTATTTTAATGTAATATGTA-ATTCTCATTTTTTTTTTACCTTTTACATCATTAGCAA-C
1 GGTAGGTATTTTAATGTAATAGGTAGCGCCT-A-TTTTTTTTTACCGTTTACATTATTAGCAACC
1426424 TTTAAAAAAA-C
64 TTTAAAAAAACC
* * * *
1426435 GGTAGGTATTTTAA--T-AT--GTAGCGCCT-TTTTTATTTTATCGTTTATATTATTAGTAATCT
1 GGTAGGTATTTTAATGTAATAGGTAGCGCCTATTTTT-TTTTACCGTTTACATTATTAGCAACCT
*
1426494 TTAAACAAACC
65 TTAAAAAAACC
* * * * * *
1426505 GGTAGGTATTTTAATATAATAGGTAGCG--TATATTCTTTTACTGTTTATATTATTAGTAACCTT
1 GGTAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTTACCGTTTACATTATTAGCAACCTT
1426568 TAAAAAAACC
66 TAAAAAAACC
* * * *
1426578 GGTAGGTAGTTTATTGTTATAGGTAGCGCCTA--TTTTTTTACCGTTTATATTATTAGC
1 GGTAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTTACCGTTTACATTATTAGC
1426635 CGTTTTTAAC
Statistics
Matches: 480, Mismatches: 66, Indels: 48
0.81 0.11 0.08
Matches are distributed among these distances:
67 5 0.01
68 19 0.04
69 13 0.03
70 17 0.04
71 28 0.06
72 40 0.08
73 111 0.23
74 59 0.12
75 154 0.32
76 32 0.07
77 2 0.00
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.42
Consensus pattern (75 bp):
GGTAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTTACCGTTTACATTATTAGCAACCTT
TAAAAAAACC
Found at i:1426260 original size:146 final size:148
Alignment explanation
Indices: 1425991--1426634 Score: 719
Period size: 146 Copynumber: 4.4 Consensus size: 148
1425981 CAACATATCT
* * *
1425991 GGTAGGTAGTTTAATGTAATAGGCAGTGCCTATTTTTTTTTACCGTTTACATTATTAGCAACCTT
1 GGTAGGTAGTTTAATGTAATAGGTAGCGCCTA--TTTTTTTACCGTTTACATTATTAGCAATCTT
*
1426056 CAAAAAAACC-GATAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTTACTGTTTACATTA
64 TAAAAAAACCGGATAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTTACTGTTTACATTA
*
1426120 TTAACAACCTTAAAAAAACC
129 TTAGCAACCTTAAAAAAACC
* * * *
1426140 GGTAGGTATTTTAATGTAATAGGTAGCACCTA-TTTTTTATCGTTTAAATTATTAGCAATCTTTA
1 GGTAGGTAGTTTAATGTAATAGGTAGCGCCTATTTTTTTACCGTTTACATTATTAGCAATCTTTA
* * * *
1426204 AACACA-CGGATAGGTATTTTAATGTAATAGGTAGCGCCTATGTTTTTATA-TCGTTTACATTAT
66 AAAAAACCGGATAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTTACT-GTTTACATTAT
*
1426267 TAGCAACCTTCAAAAAAAACT
130 TAGCAACCTT--AAAAAAACC
* * *
1426288 GGTATGTAGTTTAATATAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAGCAA-CCTT
1 GGTAGGTAGTTTAATGTAATAGGTAGCGCCTA-TTTTTTTACCGTTTACATTATTAGCAATCTTT
* * ***
1426352 AAAAAAATC-GATAGGTATTTTAATGTAATATGTA-ATTCTCATTTTTTTTTTACCT-TTTACAT
65 AAAAAAACCGGATAGGTATTTTAATGTAATAGGTAGCGCCT-A-TTTTTTTTTA-CTGTTTACAT
* *
1426414 CATTAGCAACTTTAAAAAAA-C
127 TATTAGCAACCTTAAAAAAACC
* * * * *
1426435 GGTAGGTA--TT--T-TAATATGTAGCGCCTTTTTTATTTTATCGTTTATATTATTAGTAATCTT
1 GGTAGGTAGTTTAATGTAATAGGTAGCGCC-TATTT-TTTTACCGTTTACATTATTAGCAATCTT
* * * * *
1426495 TAAACAAACCGG-TAGGTATTTTAATATAATAGGTAGCG--TATATTCTTTTACTGTTTATATTA
64 TAAAAAAACCGGATAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTTACTGTTTACATTA
*
1426557 TTAGTAACCTTTAAAAAAACC
129 TTAGCAACC-TTAAAAAAACC
* * *
1426578 GGTAGGTAGTTTATTGTTATAGGTAGCGCCTATTTTTTTACCGTTTATATTATTAGC
1 GGTAGGTAGTTTAATGTAATAGGTAGCGCCTATTTTTTTACCGTTTACATTATTAGC
1426635 CGTTTTTAAC
Statistics
Matches: 415, Mismatches: 56, Indels: 51
0.80 0.11 0.10
Matches are distributed among these distances:
140 2 0.00
141 22 0.05
142 26 0.06
143 33 0.08
144 31 0.07
145 7 0.02
146 112 0.27
147 12 0.03
148 57 0.14
149 61 0.15
150 51 0.12
152 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.42
Consensus pattern (148 bp):
GGTAGGTAGTTTAATGTAATAGGTAGCGCCTATTTTTTTACCGTTTACATTATTAGCAATCTTTA
AAAAAACCGGATAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTTACTGTTTACATTATT
AGCAACCTTAAAAAAACC
Found at i:1426351 original size:221 final size:218
Alignment explanation
Indices: 1425991--1426634 Score: 773
Period size: 221 Copynumber: 2.9 Consensus size: 218
1425981 CAACATATCT
* * * *
1425991 GGTAGGTAGTTTAATGTAATAGGCAGTGCCTATTTTTTTTTACCGTTTACATTATTAGCAACCTT
1 GGTAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTTATCGTTTACATTATTAGCAACCTT
* *
1426056 CAAAAAAACCGATAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTTACTGTTTACATTAT
66 CAAAAAAACCGGTAGGTATTTTAATATAATAGGTAGCGCCTA-TTTTTTTTACTGTTTACATTAT
* *
1426121 TAACAACCTTAAAAAAACCGGTAGGTATTTTAATGTAATAGGTAGCACCTATTTTTTATCGTTTA
130 TAGCAACCTTAAAAAAACCGGTAGGTATTTTAATGTAATAGGTAGCACCTATTTTTTACCGTTTA
* *
1426186 AATTATTAGCAATCTTTAAACACAC
195 AATTATTAGCAA-CTTTAAAAAAAC
* *
1426211 GGATAGGTATTTTAATGTAATAGGTAGCGCCTATGTTTTTATATCGTTTACATTATTAGCAACCT
1 GG-TAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTTATCGTTTACATTATTAGCAACCT
* * * *
1426276 TCAAAAAAAACTGGTATGTAGTTTAATATAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTA
65 TC-AAAAAAACCGGTAGGTATTTTAATATAATAGGTAGCGCCTATTTTTTTTACTGTTTACATTA
* * * * ** *
1426341 TTAGCAACCTTAAAAAAATCGATAGGTATTTTAATGTAATATGTAATTCTCATTTTTTTTTTACC
129 TTAGCAACCTTAAAAAAACCGGTAGGTATTTTAATGTAATAGGT-A---GCACCTATTTTTTACC
* * *
1426406 TTTTACATCATTAGCAACTTTAAAAAAAC
190 GTTTAAATTATTAGCAACTTTAAAAAAAC
* * *
1426435 GGTAGGTATTTTAA--T-AT--GTAGCGCCT-TTTTTATTTTATCGTTTATATTATTAGTAATCT
1 GGTAGGTATTTTAATGTAATAGGTAGCGCCTATTTTT-TTTTATCGTTTACATTATTAGCAACCT
* * * *
1426494 TTAAACAAACCGGTAGGTATTTTAATATAATAGGTAGCG--TATATTCTTTTACTGTTTATATTA
65 TCAAAAAAACCGGTAGGTATTTTAATATAATAGGTAGCGCCTAT-TTTTTTTACTGTTTACATTA
* * * * *
1426557 TTAGTAACCTTTAAAAAAACCGGTAGGTAGTTTATTGTTATAGGTAGCGCCTATTTTTTTACCGT
129 TTAGCAACC-TTAAAAAAACCGGTAGGTATTTTAATGTAATAGGTAGCACCTA-TTTTTTACCGT
*
1426622 TTATATTATTAGC
192 TTAAATTATTAGC
1426635 CGTTTTTAAC
Statistics
Matches: 360, Mismatches: 54, Indels: 26
0.82 0.12 0.06
Matches are distributed among these distances:
213 2 0.01
214 21 0.06
215 3 0.01
216 26 0.07
217 66 0.18
218 33 0.09
220 4 0.01
221 119 0.33
222 37 0.10
223 12 0.03
224 12 0.03
225 25 0.07
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.42
Consensus pattern (218 bp):
GGTAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTTATCGTTTACATTATTAGCAACCTT
CAAAAAAACCGGTAGGTATTTTAATATAATAGGTAGCGCCTATTTTTTTTACTGTTTACATTATT
AGCAACCTTAAAAAAACCGGTAGGTATTTTAATGTAATAGGTAGCACCTATTTTTTACCGTTTAA
ATTATTAGCAACTTTAAAAAAAC
Found at i:1430528 original size:19 final size:21
Alignment explanation
Indices: 1430489--1430529 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
1430479 GACTAAACCT
1430489 AAAAATGGAGGCTCTTATATA
1 AAAAATGGAGGCTCTTATATA
1430510 AAAAATGGAGGCTCTTATAT
1 AAAAATGGAGGCTCTTATAT
1430530 TAATCCTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.29
Consensus pattern (21 bp):
AAAAATGGAGGCTCTTATATA
Found at i:1433240 original size:44 final size:44
Alignment explanation
Indices: 1433192--1433369 Score: 252
Period size: 44 Copynumber: 4.0 Consensus size: 44
1433182 TTATAAAATG
* * *
1433192 GAATCGAGCAAAATTGTGGTGTTGATCCAACTCCTTATGTGATA
1 GAATCAAGCAAAATGGTGATGTTGATCCAACTCCTTATGTGATA
*
1433236 GAATCAAGCAAAATGGTGATGTTGATCTAACTCCTTATGTGAT-
1 GAATCAAGCAAAATGGTGATGTTGATCCAACTCCTTATGTGATA
* * *
1433279 GAAATCAAGCGAAATGGTGATATTGATCCAACTCCTTATGTGATG
1 G-AATCAAGCAAAATGGTGATGTTGATCCAACTCCTTATGTGATA
*
1433324 GAATCAAG-AGAAATGGTGATGCTGATCCAACTCCTTATGTGATA
1 GAATCAAGCA-AAATGGTGATGTTGATCCAACTCCTTATGTGATA
1433368 GA
1 GA
1433370 TGCGTCGAGG
Statistics
Matches: 120, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
43 1 0.01
44 118 0.98
45 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (44 bp):
GAATCAAGCAAAATGGTGATGTTGATCCAACTCCTTATGTGATA
Found at i:1433930 original size:19 final size:19
Alignment explanation
Indices: 1433908--1433948 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
1433898 ACTTTGATTT
*
1433908 TTTCTTTTTCTTTTTC-TTC
1 TTTCTTTCT-TTTTTCGTTC
1433927 TTTCTTTCTTTTTTCGTTC
1 TTTCTTTCTTTTTTCGTTC
1433946 TTT
1 TTT
1433949 TATTATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (19 bp):
TTTCTTTCTTTTTTCGTTC
Found at i:1439719 original size:16 final size:16
Alignment explanation
Indices: 1439698--1439733 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
1439688 TTTATGAAAT
1439698 GAATGTAAAGAATAAA
1 GAATGTAAAGAATAAA
* *
1439714 GAATGTAAATAATGAA
1 GAATGTAAAGAATAAA
1439730 GAAT
1 GAAT
1439734 AAAGAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.58, C:0.00, G:0.19, T:0.22
Consensus pattern (16 bp):
GAATGTAAAGAATAAA
Found at i:1440158 original size:21 final size:18
Alignment explanation
Indices: 1440110--1440176 Score: 73
Period size: 17 Copynumber: 3.6 Consensus size: 18
1440100 TTATTATTTA
* *
1440110 ATTAATTAGGATTCTAGT
1 ATTAATTAGGATTTTATT
*
1440128 -TTACTTAGGATTTTAATT
1 ATTAATTAGGATTTT-ATT
1440146 ATTATTATTAGGATTTTATT
1 ATTA--ATTAGGATTTTATT
1440166 ATTAATTAGGA
1 ATTAATTAGGA
1440177 ATTAAGTGTT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
17 12 0.29
18 9 0.22
19 3 0.07
20 7 0.17
21 10 0.24
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.51
Consensus pattern (18 bp):
ATTAATTAGGATTTTATT
Found at i:1441613 original size:23 final size:23
Alignment explanation
Indices: 1441569--1441614 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
1441559 ATATAGCAGA
*
1441569 AAAATAAAAGAAAATATGAAAAT
1 AAAATAAAAGAAAATATAAAAAT
*
1441592 AAAATAAAATAAAA-ACTAAAAAT
1 AAAATAAAAGAAAATA-TAAAAAT
1441615 GTCATAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.17
Consensus pattern (23 bp):
AAAATAAAAGAAAATATAAAAAT
Found at i:1443450 original size:16 final size:17
Alignment explanation
Indices: 1443422--1443453 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1443412 TTGTATATTA
1443422 TTTTCTTCAAATTCCTT
1 TTTTCTTCAAATTCCTT
1443439 TTTTCTTC-AATTCCT
1 TTTTCTTCAAATTCCT
1443454 CATTATTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.16, C:0.25, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTTCTTCAAATTCCTT
Found at i:1444464 original size:25 final size:25
Alignment explanation
Indices: 1444430--1444481 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
1444420 AGGTTACTTT
* *
1444430 GTGTAGTGATAGCCTTGCAATGCTC
1 GTGTAGTGATAGCCCTGCAATACTC
1444455 GTGTAGTGATAGCCCTGCAATACTC
1 GTGTAGTGATAGCCCTGCAATACTC
1444480 GT
1 GT
1444482 TACATTGGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (25 bp):
GTGTAGTGATAGCCCTGCAATACTC
Found at i:1445333 original size:29 final size:29
Alignment explanation
Indices: 1445293--1445362 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
1445283 AATAATTTTT
1445293 AATATTAAAAATAAAG-GGATTAAATTATAA
1 AATATT-AAAATAAAGTGG-TTAAATTATAA
* * *
1445323 AATATTAAAATATAGTGGTTAGATTGTAA
1 AATATTAAAATAAAGTGGTTAAATTATAA
*
1445352 AATAATAAAAT
1 AATATTAAAAT
1445363 TATCTCTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 27 0.77
30 8 0.23
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (29 bp):
AATATTAAAATAAAGTGGTTAAATTATAA
Found at i:1446745 original size:18 final size:19
Alignment explanation
Indices: 1446698--1446753 Score: 71
Period size: 18 Copynumber: 2.9 Consensus size: 19
1446688 GCCTTTGTAA
*
1446698 TAATAATATAAT-AGTATAT
1 TAAT-ATATAATAAATATAT
1446717 TAATATAATAATAAATATAT
1 TAATAT-ATAATAAATATAT
1446737 T-ATATATAATAAATATA
1 TAATATATAATAAATATA
1446754 AACGACACTT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
18 14 0.41
19 13 0.38
20 7 0.21
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (19 bp):
TAATATATAATAAATATAT
Found at i:1446752 original size:30 final size:27
Alignment explanation
Indices: 1446695--1446754 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 27
1446685 TGGGCCTTTG
*
1446695 TAATAATAATATAATAGTATATTAATA
1 TAATAATAATATAATAGTATATAAATA
1446722 TAATAATAAATATATTATA-TATAATAAATA
1 TAATAAT-AATATA--ATAGTAT-ATAAATA
1446752 TAA
1 TAA
1446755 ACGACACTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
27 7 0.25
28 6 0.21
29 3 0.11
30 12 0.43
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (27 bp):
TAATAATAATATAATAGTATATAAATA
Found at i:1446999 original size:41 final size:42
Alignment explanation
Indices: 1446940--1447042 Score: 120
Period size: 42 Copynumber: 2.5 Consensus size: 42
1446930 GTCCAAAGGC
* * *
1446940 CTGACAGATGGCCATAAGGACTT-ATCATC-TTGCTCAAAAGA
1 CTGACAGATGACCCTAAGGACTTAAACATCATT-CTCAAAAGA
* *
1446981 CTGACAGATGACCCTAAGGATTTAAACATCATTCTCGAAAGA
1 CTGACAGATGACCCTAAGGACTTAAACATCATTCTCAAAAGA
* *
1447023 CTAACAGATGACCCGAAGGA
1 CTGACAGATGACCCTAAGGA
1447043 TTTACAAATT
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
41 20 0.38
42 31 0.58
43 2 0.04
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.21
Consensus pattern (42 bp):
CTGACAGATGACCCTAAGGACTTAAACATCATTCTCAAAAGA
Found at i:1454260 original size:58 final size:57
Alignment explanation
Indices: 1454146--1454258 Score: 208
Period size: 57 Copynumber: 1.9 Consensus size: 57
1454136 TACAGACTTT
1454146 CAGATTGAGTTTAATTCGAAGTAAACACTTTCTTATTCCATACGAAGGTGAAAAACC
1 CAGATTGAGTTTAATTCGAAGTAAACACTTTCTTATTCCATACGAAGGTGAAAAACC
1454203 CAGATTGAGTTTAATTCGAAGTAACACACTTTCTTATTTCCATACGAAGGTGAAAA
1 CAGATTGAGTTTAATTCGAAGTAA-ACACTTTCTTA-TTCCATACGAAGGTGAAAA
1454259 CCACACGAGG
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
57 24 0.44
58 11 0.20
59 19 0.35
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (57 bp):
CAGATTGAGTTTAATTCGAAGTAAACACTTTCTTATTCCATACGAAGGTGAAAAACC
Found at i:1456144 original size:27 final size:25
Alignment explanation
Indices: 1456096--1456158 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 25
1456086 GGCCTTTGTA
1456096 ATAATAATAATATAATAGTATATTAAT
1 ATAATAATAA-ATAATAGTATA-TAAT
1456123 ATAATAATAAATACATTA-TATATAAT
1 ATAATAATAAATA-A-TAGTATATAAT
1456149 A-AAT-ATAAAT
1 ATAATAATAAAT
1456159 GACACTCAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
24 6 0.18
25 3 0.09
26 8 0.24
27 15 0.44
28 2 0.06
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (25 bp):
ATAATAATAAATAATAGTATATAAT
Found at i:1461877 original size:18 final size:17
Alignment explanation
Indices: 1461850--1461889 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
1461840 TTTCTAATCC
*
1461850 TATCTACTTCTCTTACTT
1 TATCTACTTCTCTCA-TT
*
1461868 TATCTTCTTCTCTCATT
1 TATCTACTTCTCTCATT
1461885 TATCT
1 TATCT
1461890 CTTTAAGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.15, C:0.28, G:0.00, T:0.57
Consensus pattern (17 bp):
TATCTACTTCTCTCATT
Found at i:1462183 original size:130 final size:130
Alignment explanation
Indices: 1461950--1462210 Score: 513
Period size: 130 Copynumber: 2.0 Consensus size: 130
1461940 ATCTTCTTCT
*
1461950 GGTCTTACATGCTTGGAAGAGCTTGAAGCATATAATATCGTGTTTGAAACTACAACTATTGCAAA
1 GGTCTTACATGCTTGGAAGAGCTTGAAGCATATAAGATCGTGTTTGAAACTACAACTATTGCAAA
1462015 AATTAGATAAAACACAAATGGATTTTTGGATACGGAAGTCATTATTGATTGCTTACAACTTACAA
66 AATTAGATAAAACACAAATGGATTTTTGGATACGGAAGTCATTATTGATTGCTTACAACTTACAA
1462080 GGTCTTACATGCTTGGAAGAGCTTGAAGCATATAAGATCGTGTTTGAAACTACAACTATTGCAAA
1 GGTCTTACATGCTTGGAAGAGCTTGAAGCATATAAGATCGTGTTTGAAACTACAACTATTGCAAA
1462145 AATTAGATAAAACACAAATGGATTTTTGGATACGGAAGTCATTATTGATTGCTTACAACTTACAA
66 AATTAGATAAAACACAAATGGATTTTTGGATACGGAAGTCATTATTGATTGCTTACAACTTACAA
1462210 G
1 G
1462211 TTGTTGATGA
Statistics
Matches: 130, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
130 130 1.00
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (130 bp):
GGTCTTACATGCTTGGAAGAGCTTGAAGCATATAAGATCGTGTTTGAAACTACAACTATTGCAAA
AATTAGATAAAACACAAATGGATTTTTGGATACGGAAGTCATTATTGATTGCTTACAACTTACAA
Found at i:1462318 original size:50 final size:50
Alignment explanation
Indices: 1462243--1462342 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
1462233 TTCGGTTCAC
1462243 AACCAGGAAATACTGACGAGTGGTACTTCTGATGAAGAATTAGTGGAGAT
1 AACCAGGAAATACTGACGAGTGGTACTTCTGATGAAGAATTAGTGGAGAT
1462293 AACCAGGAAATACTGACGAGTGGTACTTCTGATGAAGAATTAGTGGAGAT
1 AACCAGGAAATACTGACGAGTGGTACTTCTGATGAAGAATTAGTGGAGAT
1462343 TTTAGGTCGA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.36, C:0.12, G:0.28, T:0.24
Consensus pattern (50 bp):
AACCAGGAAATACTGACGAGTGGTACTTCTGATGAAGAATTAGTGGAGAT
Found at i:1462637 original size:81 final size:82
Alignment explanation
Indices: 1462548--1462763 Score: 267
Period size: 81 Copynumber: 2.6 Consensus size: 82
1462538 GAACAATGTT
*
1462548 GTTTATAGTGGCGTTTTTCCAACAAATGCCGCAATAGAGTAGTAATTTAGCGGCGTTT-T-TATA
1 GTTTATAGTGGC-TTTTTCCAACAAACGCCGCAATAGAGTAGTAATTTAGCGGCGTTTATCTA-A
1462611 CAAACGCCGCAATA-GGTG
64 CAAACGCCGCAATAGGGTG
* * * *
1462629 GTTTATAGTGGCATTTGTCCAACAAACGGCGCTATAGAGAAGTAATTTAGCGGCGTTTATCTAAC
1 GTTTATAGTGGC-TTTTTCCAACAAACGCCGCAATAGAGTAGTAATTTAGCGGCGTTTATCTAAC
* *
1462694 AAATGCCGCAATAGGGTT
65 AAACGCCGCAATAGGGTG
* * * * *
1462712 GTTTCTAGTGGCTTTTGTGCAAAAAACGCCGTAATAGAGTAATAATTTAGCG
1 GTTTATAGTGGCTTTT-TCCAACAAACGCCGCAATAGAGTAGTAATTTAGCG
1462764 CAATATGTTT
Statistics
Matches: 114, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
81 52 0.46
82 18 0.16
83 44 0.39
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.31
Consensus pattern (82 bp):
GTTTATAGTGGCTTTTTCCAACAAACGCCGCAATAGAGTAGTAATTTAGCGGCGTTTATCTAACA
AACGCCGCAATAGGGTG
Found at i:1468385 original size:47 final size:48
Alignment explanation
Indices: 1468294--1468390 Score: 187
Period size: 47 Copynumber: 2.0 Consensus size: 48
1468284 TTTATGAGGG
1468294 ATAAAAGTTTTCAAAGCTTTCTTTTTGCATTCGTCTTTTCCACTTAAA
1 ATAAAAGTTTTCAAAGCTTTCTTTTTGCATTCGTCTTTTCCACTTAAA
1468342 ATAAAAGTTTTCAAAGCTTTC-TTTTGCATTCGTCTTTTCCACTTAAA
1 ATAAAAGTTTTCAAAGCTTTCTTTTTGCATTCGTCTTTTCCACTTAAA
1468389 AT
1 AT
1468391 GCCTGGAGGG
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
47 28 0.57
48 21 0.43
ACGTcount: A:0.28, C:0.19, G:0.08, T:0.45
Consensus pattern (48 bp):
ATAAAAGTTTTCAAAGCTTTCTTTTTGCATTCGTCTTTTCCACTTAAA
Found at i:1469032 original size:161 final size:163
Alignment explanation
Indices: 1468767--1469091 Score: 636
Period size: 161 Copynumber: 2.0 Consensus size: 163
1468757 GTGGCATCAT
1468767 GATGGCAGAACCGATGATGGATTATTACGACATCATGCAGATTCTTTAGCTTGGAAGTCATTTGA
1 GATGGCAGAACCGATGATGGATTATTACGACATCATGCAGATTCTTTAGCTTGGAAGTCATTTGA
1468832 CAATAAGTATCCAAGTTTTGCGAGAGATCCTTGAAATGTCAGGCTCGATCTTGCAACTGATGGGT
66 CAATAAGTATCCAAGTTTTGCGAGAGATCCTTGAAATGTCAGGCTCGATCTTGCAACTGATGGGT
1468897 TT-ATCCATTC-AAATCATGAGTACTTCTTATA
131 TTAATCCATTCAAAATCATGAGTACTTCTTATA
1468928 GATGGCAGAACCGATGATGGATTATTACGACATCATGCAGATTCTTTAGCTTGGAAGTCATTTGA
1 GATGGCAGAACCGATGATGGATTATTACGACATCATGCAGATTCTTTAGCTTGGAAGTCATTTGA
1468993 CAATAAGTATCCAAGTTTTGCGAGAGATCCTTGAAATGTCAGGCTCGATCTTGCAACTGATGGGT
66 CAATAAGTATCCAAGTTTTGCGAGAGATCCTTGAAATGTCAGGCTCGATCTTGCAACTGATGGGT
1469058 TTAATCCATTCAAAATCATGAGTACTTCTTATA
131 TTAATCCATTCAAAATCATGAGTACTTCTTATA
1469091 G
1 G
1469092 TACTTGGCCT
Statistics
Matches: 162, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
161 132 0.81
162 8 0.05
163 22 0.14
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (163 bp):
GATGGCAGAACCGATGATGGATTATTACGACATCATGCAGATTCTTTAGCTTGGAAGTCATTTGA
CAATAAGTATCCAAGTTTTGCGAGAGATCCTTGAAATGTCAGGCTCGATCTTGCAACTGATGGGT
TTAATCCATTCAAAATCATGAGTACTTCTTATA
Found at i:1473376 original size:21 final size:21
Alignment explanation
Indices: 1473333--1473385 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
1473323 GAAAGGAAGG
** *
1473333 CAGAGAGAGCAGCAGTGGAAA
1 CAGAGAGAAAAGCAGCGGAAA
1473354 CAGAGAGAAAAGCAGCGGTAACA
1 CAGAGAGAAAAGCAGCGG-AA-A
*
1473377 CAAAGAGAA
1 CAGAGAGAA
1473386 GTAGCGGCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 15 0.58
22 2 0.08
23 9 0.35
ACGTcount: A:0.49, C:0.15, G:0.32, T:0.04
Consensus pattern (21 bp):
CAGAGAGAAAAGCAGCGGAAA
Found at i:1473391 original size:21 final size:21
Alignment explanation
Indices: 1473367--1473407 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1473357 AGAGAAAAGC
*
1473367 AGCGGTAACACAAAGAGAAGT
1 AGCGGCAACACAAAGAGAAGT
* *
1473388 AGCGGCAGCACAGAGAGAAG
1 AGCGGCAACACAAAGAGAAG
1473408 CAGCATATCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.44, C:0.17, G:0.34, T:0.05
Consensus pattern (21 bp):
AGCGGCAACACAAAGAGAAGT
Found at i:1473942 original size:43 final size:43
Alignment explanation
Indices: 1473895--1474018 Score: 164
Period size: 43 Copynumber: 2.9 Consensus size: 43
1473885 CGCATTTTAT
1473895 GACGTTTGTGAGAAAAACGCCGCTAAATGC-C-ACAACCTATTAC
1 GACGTTTGTGAGAAAAACGCCGCTAAAT-CTCGAC-ACCTATTAC
*
1473938 GACGTTTGTGA-AAAAACGCCGCTAAATCTCGACACCTATTGC
1 GACGTTTGTGAGAAAAACGCCGCTAAATCTCGACACCTATTAC
* * * *
1473980 GACATTTGTGGGAAAAACGCCGCTAAACCTCCACACCTA
1 GACGTTTGTGAGAAAAACGCCGCTAAATCTCGACACCTA
1474019 CAAACGCCGC
Statistics
Matches: 73, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
41 1 0.01
42 34 0.47
43 38 0.52
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (43 bp):
GACGTTTGTGAGAAAAACGCCGCTAAATCTCGACACCTATTAC
Found at i:1474041 original size:26 final size:26
Alignment explanation
Indices: 1473994--1474044 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
1473984 TTTGTGGGAA
* **
1473994 AAACGCCGCTAAACCTCCACACCTAC
1 AAACGCCGCTAAACATAAACACCTAC
*
1474020 AAACGCCGCTAAATATAAACACCTA
1 AAACGCCGCTAAACATAAACACCTA
1474045 TTACAGCGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.41, C:0.37, G:0.08, T:0.14
Consensus pattern (26 bp):
AAACGCCGCTAAACATAAACACCTAC
Found at i:1476444 original size:20 final size:18
Alignment explanation
Indices: 1476421--1476467 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
1476411 GATTTTTGAA
1476421 TTCGCAACATGAATTTTAAT
1 TTCGCAACA-G-ATTTTAAT
* *
1476441 TTCGCAACAGGTTTTAGT
1 TTCGCAACAGATTTTAAT
1476459 TTCGCAACA
1 TTCGCAACA
1476468 CAAATGTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 15 0.60
19 1 0.04
20 9 0.36
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (18 bp):
TTCGCAACAGATTTTAAT
Found at i:1477412 original size:24 final size:24
Alignment explanation
Indices: 1477385--1477438 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
1477375 GTATTCGAAA
*
1477385 TTTGATTTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* * *
1477409 TTTGATCTTGGTTAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
1477433 TTTGAT
1 TTTGAT
1477439 GATGTTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.44
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:1479716 original size:18 final size:18
Alignment explanation
Indices: 1479693--1479728 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1479683 AAGCAAAAGG
*
1479693 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
1479711 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
1479729 CAACCGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.25, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:1479932 original size:29 final size:29
Alignment explanation
Indices: 1479899--1479955 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
1479889 CAGATTTTTT
1479899 GTTGCGATTGTTGCGAAAGTCAAATTCGC
1 GTTGCGATTGTTGCGAAAGTCAAATTCGC
1479928 GTTGCGATTGTTGCGAAAGTCAAATTCG
1 GTTGCGATTGTTGCGAAAGTCAAATTCG
1479956 AAACGCGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.32
Consensus pattern (29 bp):
GTTGCGATTGTTGCGAAAGTCAAATTCGC
Found at i:1479963 original size:29 final size:29
Alignment explanation
Indices: 1479902--1479963 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
1479892 ATTTTTTGTT
****
1479902 GCGATTGTTGCGAAAGTCAAATTCGCGTT
1 GCGATTGTTGCGAAAGTCAAATTCGAAAC
1479931 GCGATTGTTGCGAAAGTCAAATTCGAAAC
1 GCGATTGTTGCGAAAGTCAAATTCGAAAC
1479960 GCGA
1 GCGA
1479964 AAATCGCAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (29 bp):
GCGATTGTTGCGAAAGTCAAATTCGAAAC
Found at i:1480014 original size:20 final size:20
Alignment explanation
Indices: 1479974--1480038 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
1479964 AAATCGCAAC
* **
1479974 GCGAAGTTGACTTTCGTGTT
1 GCGAATTTGACTTTCACGTT
* *
1479994 GTGAATTTGGCTTTCACGTT
1 GCGAATTTGACTTTCACGTT
*
1480014 GCGAATTTGACTTTCGCGTT
1 GCGAATTTGACTTTCACGTT
1480034 GCGAA
1 GCGAA
1480039 AGTGTACCTT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.17, C:0.17, G:0.28, T:0.38
Consensus pattern (20 bp):
GCGAATTTGACTTTCACGTT
Found at i:1480198 original size:64 final size:64
Alignment explanation
Indices: 1480097--1480244 Score: 226
Period size: 64 Copynumber: 2.3 Consensus size: 64
1480087 AATTTAAAAC
1480097 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAAGAATTATTTACACATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAAGAATTATTTACACATCAATTA
* *** * **
1480161 AACAAATCAACTTTTACAAATTAATTAAACAAGCAAAAAATAATTCTTATTTCCTTATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAAGAATTATTTACACATCAATTA
1480225 AACAAATCAAC-TTTACAAAT
1 AACAAATCAACTTTTACAAAT
1480245 AAACTTTTAC
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
63 9 0.12
64 68 0.88
ACGTcount: A:0.52, C:0.16, G:0.02, T:0.30
Consensus pattern (64 bp):
AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAAGAATTATTTACACATCAATTA
Found at i:1480242 original size:13 final size:14
Alignment explanation
Indices: 1480226--1480259 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
1480216 TATCAATTAA
*
1480226 ACAAATCAAC-TTT
1 ACAAATAAACTTTT
1480239 ACAAATAAACTTTT
1 ACAAATAAACTTTT
1480253 ACAAATA
1 ACAAATA
1480260 CATCAATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.53, C:0.18, G:0.00, T:0.29
Consensus pattern (14 bp):
ACAAATAAACTTTT
Found at i:1481650 original size:21 final size:20
Alignment explanation
Indices: 1481626--1481691 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 20
1481616 GAACGGTGGG
*
1481626 AGGGACCTCTTGAATGATGAC
1 AGGG-CCTCTTGAACGATGAC
* *
1481647 AGGGGCCTCTTGAACGATAAG
1 A-GGGCCTCTTGAACGATGAC
*
1481668 AGAGGCCACTTGAACGATGAC
1 AG-GGCCTCTTGAACGATGAC
1481689 AGG
1 AGG
1481692 TGTTTCGGGC
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
20 2 0.05
21 32 0.86
22 3 0.08
ACGTcount: A:0.30, C:0.20, G:0.32, T:0.18
Consensus pattern (20 bp):
AGGGCCTCTTGAACGATGAC
Found at i:1482119 original size:21 final size:21
Alignment explanation
Indices: 1482095--1482142 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
1482085 AACATTATCT
* *
1482095 TCACGTAAAGTATCGACCTCC
1 TCACGTAAAGCATCGACCTCA
* *
1482116 TCACGCAAAGCATTGACCTCA
1 TCACGTAAAGCATCGACCTCA
1482137 TCACGT
1 TCACGT
1482143 GACTCCCCTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.29, C:0.33, G:0.15, T:0.23
Consensus pattern (21 bp):
TCACGTAAAGCATCGACCTCA
Found at i:1484239 original size:19 final size:20
Alignment explanation
Indices: 1484217--1484254 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1484207 AATATTGTGT
1484217 TTCGAATT-CGAAAATAAAA
1 TTCGAATTGCGAAAATAAAA
**
1484236 TTCGCGTTGCGAAAATAAA
1 TTCGAATTGCGAAAATAAA
1484255 CGCGCTTTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (20 bp):
TTCGAATTGCGAAAATAAAA
Found at i:1494271 original size:24 final size:24
Alignment explanation
Indices: 1494244--1494295 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
1494234 TTAGACACAT
*
1494244 GACATGTGTCACG-TTATCATTTTG
1 GACATGTGTCA-GATTATCACTTTG
1494268 GACATGTGTCAGATTATCACTTTG
1 GACATGTGTCAGATTATCACTTTG
1494292 GACA
1 GACA
1494296 CATACTTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 1 0.04
24 25 0.96
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (24 bp):
GACATGTGTCAGATTATCACTTTG
Found at i:1498796 original size:15 final size:15
Alignment explanation
Indices: 1498766--1498818 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
1498756 TTCAAGTGAA
* *
1498766 AAATATTATATTTTT
1 AAATATTTTATATTT
1498781 AAATATTTTATATTT
1 AAATATTTTATATTT
* *
1498796 ATCTATATTTAATATTT
1 A--AATATTTTATATTT
1498813 AAATAT
1 AAATAT
1498819 AAAGAACCAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
15 18 0.58
17 13 0.42
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (15 bp):
AAATATTTTATATTT
Found at i:1498819 original size:17 final size:16
Alignment explanation
Indices: 1498768--1498819 Score: 52
Period size: 17 Copynumber: 3.2 Consensus size: 16
1498758 CAAGTGAAAA
*
1498768 ATATTATATTTTTAAAT
1 ATATT-TATATTTAAAT
**
1498785 AT-TTTATATTTATCT
1 ATATTTATATTTAAAT
1498800 ATATTTAATATTTAAAT
1 ATATTT-ATATTTAAAT
1498817 ATA
1 ATA
1498820 AAGAACCAAG
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 10 0.36
16 5 0.18
17 13 0.46
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (16 bp):
ATATTTATATTTAAAT
Found at i:1499292 original size:17 final size:17
Alignment explanation
Indices: 1499243--1499284 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
1499233 GTCAGCGCCA
*
1499243 GTCCGTCCAGCACGAAG
1 GTCCCTCCAGCACGAAG
1499260 GTCCCTCCAGCACGAAG
1 GTCCCTCCAGCACGAAG
1499277 GTCCCTCC
1 GTCCCTCC
1499285 TCTACGAACC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.19, C:0.43, G:0.24, T:0.14
Consensus pattern (17 bp):
GTCCCTCCAGCACGAAG
Found at i:1501079 original size:23 final size:23
Alignment explanation
Indices: 1501033--1501093 Score: 97
Period size: 23 Copynumber: 2.7 Consensus size: 23
1501023 AGCTCGTATC
*
1501033 ATTGCACCGAAGTG-CACGTAGA
1 ATTGCACCGTAGTGCCACGTAGA
*
1501055 ATTGCACCGTAGTGCCGCGTAGA
1 ATTGCACCGTAGTGCCACGTAGA
1501078 ATTGCACCGTAGTGCC
1 ATTGCACCGTAGTGCC
1501094 TTATAATAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
22 13 0.36
23 23 0.64
ACGTcount: A:0.25, C:0.26, G:0.28, T:0.21
Consensus pattern (23 bp):
ATTGCACCGTAGTGCCACGTAGA
Found at i:1501735 original size:34 final size:32
Alignment explanation
Indices: 1501682--1501751 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
1501672 ACCTTACAAC
*
1501682 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
*
1501714 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACCTT
1501748 TCCC
1 TCCC
1501752 ATTTACAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 22 0.65
ACGTcount: A:0.21, C:0.31, G:0.16, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
Found at i:1502060 original size:21 final size:21
Alignment explanation
Indices: 1502034--1502075 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1502024 CCAGAATGGG
*
1502034 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
1502055 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
1502076 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:1502325 original size:30 final size:31
Alignment explanation
Indices: 1502274--1502364 Score: 159
Period size: 31 Copynumber: 3.0 Consensus size: 31
1502264 AAATTTTGAA
*
1502274 TAAATTCAATT-AAGTCTAAAAA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1502303 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1502334 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1502365 CCTTAAATTG
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
29 11 0.19
30 10 0.17
31 38 0.64
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.34
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:1507239 original size:23 final size:23
Alignment explanation
Indices: 1507193--1507253 Score: 97
Period size: 23 Copynumber: 2.7 Consensus size: 23
1507183 AGCTCGTATC
*
1507193 ATTGCACCGAAGTG-CACGTAGA
1 ATTGCACCGTAGTGCCACGTAGA
*
1507215 ATTGCACCGTAGTGCCGCGTAGA
1 ATTGCACCGTAGTGCCACGTAGA
1507238 ATTGCACCGTAGTGCC
1 ATTGCACCGTAGTGCC
1507254 TTATAATAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
22 13 0.36
23 23 0.64
ACGTcount: A:0.25, C:0.26, G:0.28, T:0.21
Consensus pattern (23 bp):
ATTGCACCGTAGTGCCACGTAGA
Found at i:1511239 original size:31 final size:31
Alignment explanation
Indices: 1511192--1511256 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
1511182 GTTTGTGTAG
* * **
1511192 TATAGAGATTGGTTC-AATCTAATCCTCTTAT
1 TATAGAGATAGATTCAAAT-TAATCCAATTAT
1511223 TATAGAGATAGATTCAAATTAATCCAATTAT
1 TATAGAGATAGATTCAAATTAATCCAATTAT
1511254 TAT
1 TAT
1511257 TAAATGGATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 26 0.90
32 3 0.10
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (31 bp):
TATAGAGATAGATTCAAATTAATCCAATTAT
Found at i:1511460 original size:58 final size:58
Alignment explanation
Indices: 1511342--1511518 Score: 275
Period size: 58 Copynumber: 3.0 Consensus size: 58
1511332 GAGATGATGC
* *
1511342 TATAGGTTTCTTTAACAATGTTTTGGATTTTGAGTCTCATAATTATGAGTGAAGTGAAT
1 TATAGGTTTCTTTAACAATGTTTAGGA-TTTGAGTCTCATAATTACGAGTGAAGTGAAT
* *
1511401 TATAGATTTCTTTAACAATGTTTAGGATTTAAGTCTCATAATTACGAGTGAAGTGAAT
1 TATAGGTTTCTTTAACAATGTTTAGGATTTGAGTCTCATAATTACGAGTGAAGTGAAT
* *
1511459 TATAGGTTTCTTCAACAATGTTTAGGATTTGAGTCTCATAATTATC-AGTGAAGCGAAT
1 TATAGGTTTCTTTAACAATGTTTAGGATTTGAGTCTCATAATTA-CGAGTGAAGTGAAT
1511517 TA
1 TA
1511519 GACGGGAAGG
Statistics
Matches: 109, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
58 83 0.76
59 26 0.24
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.41
Consensus pattern (58 bp):
TATAGGTTTCTTTAACAATGTTTAGGATTTGAGTCTCATAATTACGAGTGAAGTGAAT
Found at i:1513468 original size:152 final size:153
Alignment explanation
Indices: 1513261--1513566 Score: 605
Period size: 152 Copynumber: 2.0 Consensus size: 153
1513251 TGGAGGTCCA
1513261 GATTCTTCACTACTTCCATTGTTATTGTTTTAGATTTTTTTTGGTGGGGGGGGGGAGAAGTGGTT
1 GATTCTTCACTACTTCCATTGTTATTGTTTTAGATTTTTTTTGGTGGGGGGGGGGAGAAGTGGTT
1513326 GTTGCTGGTGTTTTTAATAGTGTTTGGAAATGTGAAATGTTGAGTGAATCGTGGA-GGCTGAGGG
66 GTTGCTGGTGTTTTTAATAGTGTTTGGAAATGTGAAATGTTGAGTGAATCGTGGAGGGCTGAGGG
1513390 TCATACATGTTTAGCGTATAGAT
131 TCATACATGTTTAGCGTATAGAT
1513413 GATTCTTCACTACTTCCATTGTTATTGTTTTAGATTTTTTTTGGTGGGGGGGGGGAGAAGTGGTT
1 GATTCTTCACTACTTCCATTGTTATTGTTTTAGATTTTTTTTGGTGGGGGGGGGGAGAAGTGGTT
1513478 GTTGCTGGTGTTTTTAATAGTGTTTGGAAATGTGAAATGTTGAGTGAATCGTGGAGGGCTGAGGG
66 GTTGCTGGTGTTTTTAATAGTGTTTGGAAATGTGAAATGTTGAGTGAATCGTGGAGGGCTGAGGG
1513543 TCATACATGTTTAGCGTATAGAT
131 TCATACATGTTTAGCGTATAGAT
1513566 G
1 G
1513567 GCCTGCAACT
Statistics
Matches: 153, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
152 120 0.78
153 33 0.22
ACGTcount: A:0.20, C:0.08, G:0.32, T:0.40
Consensus pattern (153 bp):
GATTCTTCACTACTTCCATTGTTATTGTTTTAGATTTTTTTTGGTGGGGGGGGGGAGAAGTGGTT
GTTGCTGGTGTTTTTAATAGTGTTTGGAAATGTGAAATGTTGAGTGAATCGTGGAGGGCTGAGGG
TCATACATGTTTAGCGTATAGAT
Found at i:1513790 original size:31 final size:31
Alignment explanation
Indices: 1513744--1513812 Score: 113
Period size: 31 Copynumber: 2.3 Consensus size: 31
1513734 CAATTTCATC
*
1513744 TTTCACTTCACCTCAGCAAAGAGACAAATGG
1 TTTCACTTCAACTCAGCAAAGAGACAAATGG
*
1513775 TTTCTCTTCAACTCAGCAAAGAGACAAATGG
1 TTTCACTTCAACTCAGCAAAGAGACAAATGG
1513806 TTT-ACTT
1 TTTCACTT
1513813 GAATTGTTAG
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
30 3 0.09
31 32 0.91
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.29
Consensus pattern (31 bp):
TTTCACTTCAACTCAGCAAAGAGACAAATGG
Found at i:1515127 original size:24 final size:25
Alignment explanation
Indices: 1515100--1515155 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
1515090 AACACGTTTG
1515100 TTTATATAT-TCGCCAAC-ATATACA
1 TTTATATATCTCG-CAACTATATACA
* *
1515124 TTTA-ACATCTCGCGACTATATACA
1 TTTATATATCTCGCAACTATATACA
1515148 TTTATATA
1 TTTATATA
1515156 ATTCAAGTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
23 6 0.23
24 18 0.69
25 2 0.08
ACGTcount: A:0.36, C:0.20, G:0.05, T:0.39
Consensus pattern (25 bp):
TTTATATATCTCGCAACTATATACA
Found at i:1516976 original size:30 final size:30
Alignment explanation
Indices: 1516940--1516999 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
1516930 TCTTCTCTCA
1516940 TTCTGGGTTGTTGTCAAATTTTGGTTTTGG
1 TTCTGGGTTGTTGTCAAATTTTGGTTTTGG
1516970 TTCTGGGTTGTTGTCAAATTTTGGTTTTGG
1 TTCTGGGTTGTTGTCAAATTTTGGTTTTGG
1517000 GGTGTAGTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.10, C:0.07, G:0.30, T:0.53
Consensus pattern (30 bp):
TTCTGGGTTGTTGTCAAATTTTGGTTTTGG
Found at i:1523899 original size:2 final size:2
Alignment explanation
Indices: 1523892--1523934 Score: 77
Period size: 2 Copynumber: 21.0 Consensus size: 2
1523882 TCTAACCATA
1523892 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
1523935 TCTTTTCATG
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 38 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1533096 original size:20 final size:20
Alignment explanation
Indices: 1533044--1533097 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
1533034 AACTTAATAT
*
1533044 TATTATTTTTAAAATATTAAAA
1 TATTATTTTT--ATTATTAAAA
*
1533066 TAATT-TATTTATTATTAAAA
1 T-ATTATTTTTATTATTAAAA
1533086 TATTATTTTTAT
1 TATTATTTTTAT
1533098 AATTTTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
19 3 0.11
20 16 0.59
22 5 0.19
23 3 0.11
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TATTATTTTTATTATTAAAA
Found at i:1533220 original size:23 final size:23
Alignment explanation
Indices: 1533191--1533235 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
1533181 AGTGTTATAT
1533191 TATATTTTAAAAATATTAATTAG
1 TATATTTTAAAAATATTAATTAG
* *
1533214 TATATTTTAAATATATTTATTA
1 TATATTTTAAAAATATTAATTA
1533236 AAATATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
TATATTTTAAAAATATTAATTAG
Found at i:1533241 original size:23 final size:23
Alignment explanation
Indices: 1533192--1533260 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
1533182 GTGTTATATT
* * **
1533192 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAATATATTTATTAAA
1533215 ATATTTTAAATATATTTATTAAA
1 ATATTTTAAATATATTTATTAAA
*
1533238 ATATTATTAGAT-TATTATATTAA
1 ATATT-TTAAATATATT-TATTAA
1533261 TATTAAATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
23 28 0.72
24 11 0.28
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (23 bp):
ATATTTTAAATATATTTATTAAA
Found at i:1533264 original size:34 final size:34
Alignment explanation
Indices: 1533185--1533264 Score: 80
Period size: 35 Copynumber: 2.4 Consensus size: 34
1533175 AGTAATAGTG
1533185 TTATATT-ATATTTTAAAAATATTAATTAGTATA
1 TTATATTAATATTTTAAAAATATTAATTAGTATA
*
1533218 TT-T-TAAATATATTTATTAAAATATT-ATTAG-ATTA
1 TTATATTAATAT-TTTA--AAAATATTAATTAGTA-TA
1533252 TTATATTAATATT
1 TTATATTAATATT
1533265 AAATATATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
31 1 0.03
32 5 0.13
33 7 0.18
34 9 0.24
35 10 0.26
36 6 0.16
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (34 bp):
TTATATTAATATTTTAAAAATATTAATTAGTATA
Found at i:1533298 original size:19 final size:19
Alignment explanation
Indices: 1533230--1533310 Score: 64
Period size: 19 Copynumber: 4.3 Consensus size: 19
1533220 TTAAATATAT
1533230 TTATTAA-AATATTATTAGA
1 TTATTAATAATATTATTA-A
1533249 TTATTATATTAATATTA--AA
1 TTATTA-A-TAATATTATTAA
* *
1533268 TATATAAATAATATTATTCA
1 T-TATTAATAATATTATTAA
*
1533288 TTATTAATAAT-TTAATAA
1 TTATTAATAATATTATTAA
1533306 -TATTA
1 TTATTA
1533311 TTTCTATGAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
17 5 0.10
18 13 0.25
19 18 0.35
20 8 0.16
22 7 0.14
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (19 bp):
TTATTAATAATATTATTAA
Found at i:1533422 original size:22 final size:22
Alignment explanation
Indices: 1533392--1533440 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
1533382 TATAATTGAT
*
1533392 TATTTTATTATAATATTAAAAA
1 TATTATATTATAATATTAAAAA
* *
1533414 TATTATATTATATTATTAGAAA
1 TATTATATTATAATATTAAAAA
1533436 TATTA
1 TATTA
1533441 ATAAATGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
TATTATATTATAATATTAAAAA
Found at i:1547395 original size:23 final size:26
Alignment explanation
Indices: 1547347--1547401 Score: 71
Period size: 23 Copynumber: 2.2 Consensus size: 26
1547337 TAATTATGAG
*
1547347 GAAAAAAAATAATTTATATATATTTA
1 GAAATAAAATAATTTATATATATTTA
*
1547373 TAAATAAAAT-ATTTAT-T-TATTTA
1 GAAATAAAATAATTTATATATATTTA
1547396 GAAATA
1 GAAATA
1547402 TCAGAAAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 11 0.42
24 1 0.04
25 6 0.23
26 8 0.31
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.42
Consensus pattern (26 bp):
GAAATAAAATAATTTATATATATTTA
Found at i:1547491 original size:25 final size:24
Alignment explanation
Indices: 1547451--1547498 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
1547441 CTTTGATATT
1547451 AATAAATATTAATATAATAATTTA
1 AATAAATATTAATATAATAATTTA
1547475 AATAAA-ATTAAATTATAATAATTT
1 AATAAATATT-AA-TATAATAATTT
1547499 TTTTATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 3 0.14
24 8 0.36
25 11 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
AATAAATATTAATATAATAATTTA
Found at i:1549004 original size:2 final size:2
Alignment explanation
Indices: 1548997--1549023 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1548987 TATTATTATT
1548997 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 T
1549024 TTTAATAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1549034 original size:3 final size:3
Alignment explanation
Indices: 1549026--1549073 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
1549016 ATATATATTT
*
1549026 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1549074 ATAAATAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:1555767 original size:20 final size:21
Alignment explanation
Indices: 1555742--1555783 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
1555732 TTACAATATT
* *
1555742 AATAGATTCTCCGC-AGAACA
1 AATAGAGTCTCAGCAAGAACA
1555762 AATAGAGTCTCAGCAAGAACA
1 AATAGAGTCTCAGCAAGAACA
1555783 A
1 A
1555784 GGAATGTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.45, C:0.21, G:0.17, T:0.17
Consensus pattern (21 bp):
AATAGAGTCTCAGCAAGAACA
Found at i:1556531 original size:2 final size:2
Alignment explanation
Indices: 1556524--1556550 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1556514 TCTGGAAATC
1556524 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 T
1556551 TCATGCTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1558950 original size:49 final size:49
Alignment explanation
Indices: 1558878--1558988 Score: 213
Period size: 49 Copynumber: 2.3 Consensus size: 49
1558868 CTGAGGAAAT
1558878 TACTGTTCAACCTCTAATTATCACTATCGATTTTAAAGAGAAAAGTAAA
1 TACTGTTCAACCTCTAATTATCACTATCGATTTTAAAGAGAAAAGTAAA
1558927 TACTGTTCAACCTCTAATTATCACTATCGATTTTAAAGAGAAAAGTAAA
1 TACTGTTCAACCTCTAATTATCACTATCGATTTTAAAGAGAAAAGTAAA
*
1558976 TATTGTTCAACCT
1 TACTGTTCAACCT
1558989 TATCACTATT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 61 1.00
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (49 bp):
TACTGTTCAACCTCTAATTATCACTATCGATTTTAAAGAGAAAAGTAAA
Found at i:1559007 original size:44 final size:47
Alignment explanation
Indices: 1558878--1559013 Score: 181
Period size: 49 Copynumber: 2.9 Consensus size: 47
1558868 CTGAGGAAAT
1558878 TACTGTTCAACCTCTAATTATCACTATCGATTTTAAAGAGAAAAGTAAA
1 TACTGTTCAACCTC--ATTATCACTATCGATTTTAAAGAGAAAAGTAAA
1558927 TACTGTTCAACCTCTAATTATCACTATCGATTTTAAAGAGAAAAGTAAA
1 TACTGTTCAACCTC--ATTATCACTATCGATTTTAAAGAGAAAAGTAAA
* *
1558976 TATTGTTCAA-C-C-TTATCACTATTTG-TTTTAAAGAGAAA
1 TACTGTTCAACCTCATTATCACTA-TCGATTTTAAAGAGAAA
1559014 CAAAAAAAAT
Statistics
Matches: 84, Mismatches: 2, Indels: 7
0.90 0.02 0.08
Matches are distributed among these distances:
44 22 0.26
45 2 0.02
47 1 0.01
48 1 0.01
49 58 0.69
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.35
Consensus pattern (47 bp):
TACTGTTCAACCTCATTATCACTATCGATTTTAAAGAGAAAAGTAAA
Found at i:1564599 original size:42 final size:42
Alignment explanation
Indices: 1564538--1564635 Score: 133
Period size: 42 Copynumber: 2.3 Consensus size: 42
1564528 GTATCGTAAA
* * * * *
1564538 TCGTTGTGATAGTCTAAGTTCGTGTTATGATTTATTTCAAGT
1 TCGTTGTGATAGTCGAAGTTCGCGTTACGATTTATTCCAAAT
*
1564580 TCGTTGTGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAAT
1 TCGTTGTGATAGTCGAAGTTCGCGTTACGATTTATTCCAAAT
*
1564622 TCGTTGCGATAGTC
1 TCGTTGTGATAGTC
1564636 TAAAATTGCA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.20, C:0.14, G:0.23, T:0.42
Consensus pattern (42 bp):
TCGTTGTGATAGTCGAAGTTCGCGTTACGATTTATTCCAAAT
Found at i:1564605 original size:21 final size:20
Alignment explanation
Indices: 1564539--1564606 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 20
1564529 TATCGTAAAT
1564539 CGTTGTGATAGTCTAAGTTCG
1 CGTTGTGATAGTC-AAGTTCG
* * *
1564560 TGTTATGATTTATTTCAAGTT--
1 CGTTGTGA--TA-GTCAAGTTCG
1564581 CGTTGTGATAGTCGAAGTTCG
1 CGTTGTGATAGTC-AAGTTCG
1564602 CGTTG
1 CGTTG
1564607 CGATTTATTC
Statistics
Matches: 35, Mismatches: 6, Indels: 12
0.66 0.11 0.23
Matches are distributed among these distances:
18 2 0.06
19 7 0.20
21 17 0.49
23 7 0.20
24 2 0.06
ACGTcount: A:0.19, C:0.12, G:0.26, T:0.43
Consensus pattern (20 bp):
CGTTGTGATAGTCAAGTTCG
Found at i:1567313 original size:177 final size:183
Alignment explanation
Indices: 1566998--1567377 Score: 589
Period size: 177 Copynumber: 2.1 Consensus size: 183
1566988 TTTTTTAATT
* * *
1566998 TATATAA-AAATTAAATATTTTTAATTCAAAAAACAGTTTATAATTAATTTAAATAATATATAAT
1 TATATAATATATTTAATATTTTTAATTCAAAAAACAGTTTAAAATTAATTTAAATAATATATAAT
*
1567062 TATAAATAAAAATTTTATATAAATTTTTTAATTAATTAATATTGATTTGGTTTTAAAAGTTATTG
66 TATAAATAAAAAATTTATATAAATTTTTTAATTAATTAATATTGATTTGGTTTTAAAAGTTATTG
* * * * *
1567127 GATCTTAAATTATTAATTGGGTTTTAAATGGTTTGGGGTGAGC-CTATATGTTA
131 AATCTTAAATTATTAAATGGGTTTTAAATGGTTTGGGCTAAGCTC-ATATATTA
1567180 TATATAATATATTTAATATTTTTAATTCAAAAAACAGTTTAAAATTAATTTAAAT-A-ATAT-A-
1 TATATAATATATTTAATATTTTTAATTCAAAAAACAGTTTAAAATTAATTTAAATAATATATAAT
1567241 TA-AAATAAAAAATTTATAT-AATTTTTTAATTAATTAATATTGATTTAGG-TTTAAAAGTTATT
66 TATAAATAAAAAATTTATATAAATTTTTTAATTAATTAATATTGATTT-GGTTTTAAAAGTTATT
1567303 GAATCTTAAATTATTAAATGGGTTTTAAATGGTTTGGGCTAAGCTCATATATTA
130 GAATCTTAAATTATTAAATGGGTTTTAAATGGTTTGGGCTAAGCTCATATATTA
*
1567357 TATATAATATATTTAAAATTT
1 TATATAATATATTTAATATTT
1567378 AAAATTTAAT
Statistics
Matches: 185, Mismatches: 10, Indels: 11
0.90 0.05 0.05
Matches are distributed among these distances:
177 107 0.58
178 19 0.10
179 2 0.01
180 1 0.01
181 4 0.02
182 8 0.04
183 44 0.24
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.46
Consensus pattern (183 bp):
TATATAATATATTTAATATTTTTAATTCAAAAAACAGTTTAAAATTAATTTAAATAATATATAAT
TATAAATAAAAAATTTATATAAATTTTTTAATTAATTAATATTGATTTGGTTTTAAAAGTTATTG
AATCTTAAATTATTAAATGGGTTTTAAATGGTTTGGGCTAAGCTCATATATTA
Found at i:1575224 original size:36 final size:36
Alignment explanation
Indices: 1575184--1575286 Score: 152
Period size: 36 Copynumber: 2.9 Consensus size: 36
1575174 ACGGTGTTAG
1575184 ACATTGATAAACGAATGTACCAAAGCTGATATGATA
1 ACATTGATAAACGAATGTACCAAAGCTGATATGATA
* * * *
1575220 ACATTGATATACGAATATATCAAAACTGATATGATA
1 ACATTGATAAACGAATGTACCAAAGCTGATATGATA
* *
1575256 ACATAGATACACGAATGTACCAAAGCTGATA
1 ACATTGATAAACGAATGTACCAAAGCTGATA
1575287 ATGGATAAAT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 58 1.00
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.25
Consensus pattern (36 bp):
ACATTGATAAACGAATGTACCAAAGCTGATATGATA
Found at i:1577073 original size:2 final size:2
Alignment explanation
Indices: 1577066--1577100 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1577056 TTAGTGAGGC
1577066 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1577101 ACAATGCATT
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1577374 original size:18 final size:18
Alignment explanation
Indices: 1577351--1577419 Score: 75
Period size: 18 Copynumber: 3.7 Consensus size: 18
1577341 ACTGAATATT
1577351 TGTCCCAAAGGACCACTA
1 TGTCCCAAAGGACCACTA
**
1577369 TGTCCCGGAGGACCACTGA
1 TGTCCCAAAGGACCACT-A
* * *
1577388 TTGTTCCGAAGAACCACTA
1 -TGTCCCAAAGGACCACTA
1577407 TGTCCCAAAGGAC
1 TGTCCCAAAGGAC
1577420 AACTGATAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
18 25 0.61
19 2 0.05
20 14 0.34
ACGTcount: A:0.29, C:0.30, G:0.22, T:0.19
Consensus pattern (18 bp):
TGTCCCAAAGGACCACTA
Found at i:1599968 original size:21 final size:20
Alignment explanation
Indices: 1599912--1599979 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 20
1599902 GTTTTTTATT
* * *
1599912 AAAAAATAAAAG-AAGAAGA
1 AAAAAAAAAAAGAAAAAAGC
* *
1599931 AAATAAAAAAAATAAAAAGGC
1 AAA-AAAAAAAAGAAAAAAGC
1599952 AAAAAAAAGAAAGAAAAAAGCC
1 AAAAAAAA-AAAGAAAAAAG-C
1599974 AAAAAA
1 AAAAAA
1599980 TATTTTAAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
19 3 0.08
20 12 0.32
21 16 0.42
22 7 0.18
ACGTcount: A:0.79, C:0.04, G:0.12, T:0.04
Consensus pattern (20 bp):
AAAAAAAAAAAGAAAAAAGC
Found at i:1608864 original size:36 final size:36
Alignment explanation
Indices: 1608817--1608889 Score: 121
Period size: 36 Copynumber: 2.0 Consensus size: 36
1608807 AGTTCTGGAA
*
1608817 TTAAGTGATAAAAGAATCATG-CATGGATATGTAGAT
1 TTAAGTGATAAAAGAATCA-GCCATGAATATGTAGAT
1608853 TTAAGTGATAAAAGAATCAGCCATGAATATGTAGAT
1 TTAAGTGATAAAAGAATCAGCCATGAATATGTAGAT
1608889 T
1 T
1608890 ATAATTTATC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
35 1 0.03
36 34 0.97
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.30
Consensus pattern (36 bp):
TTAAGTGATAAAAGAATCAGCCATGAATATGTAGAT
Found at i:1612870 original size:23 final size:23
Alignment explanation
Indices: 1612844--1612887 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
1612834 TTGACCGGTT
*
1612844 CCAACCCGACCCGTTTACCCGAC
1 CCAACCCGACCCGTTGACCCGAC
*
1612867 CCAACCTGACCCGTTGACCCG
1 CCAACCCGACCCGTTGACCCG
1612888 TTGACCGTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.50, G:0.16, T:0.14
Consensus pattern (23 bp):
CCAACCCGACCCGTTGACCCGAC
Found at i:1615395 original size:12 final size:12
Alignment explanation
Indices: 1615380--1615437 Score: 62
Period size: 12 Copynumber: 4.8 Consensus size: 12
1615370 GATAAATGAC
1615380 CTGAATTCTGTT
1 CTGAATTCTGTT
* * *
1615392 CTGATTTCGGAT
1 CTGAATTCTGTT
*
1615404 CTGGATTCTGTT
1 CTGAATTCTGTT
1615416 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
1615428 TTGATTTCTG
1 CTGAATTCTG
1615438 ATATCTCGGT
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 36 1.00
ACGTcount: A:0.14, C:0.16, G:0.21, T:0.50
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:1618210 original size:36 final size:36
Alignment explanation
Indices: 1618163--1618235 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
1618153 AGTTCTGGAA
*
1618163 TTAAGTGATAAAAGAATCAGCCATGGATATGTAGAT
1 TTAAGTGATAAAAGAATCAGCCATGAATATGTAGAT
1618199 TTAAGTGATAAAAGAATCAGCCATGAATATGTAGAT
1 TTAAGTGATAAAAGAATCAGCCATGAATATGTAGAT
1618235 T
1 T
1618236 ATAATTTATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (36 bp):
TTAAGTGATAAAAGAATCAGCCATGAATATGTAGAT
Found at i:1620032 original size:24 final size:24
Alignment explanation
Indices: 1620004--1620086 Score: 78
Period size: 24 Copynumber: 3.5 Consensus size: 24
1619994 AAATATTTTA
* *
1620004 TCTGATTTCTGACTTGAATTTTGT
1 TCTGATATCTGACTTGAATTCTGT
** * *
1620028 TCTGATAAATGACCTAAATTCTGT
1 TCTGATATCTGACTTGAATTCTGT
* *
1620052 TCTGATTTCTGA-TATGGATTCTGT
1 TCTGATATCTGACT-TGAATTCTGT
1620076 TCTGATATCTG
1 TCTGATATCTG
1620087 TTCTGAATTC
Statistics
Matches: 45, Mismatches: 13, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.22, C:0.14, G:0.17, T:0.47
Consensus pattern (24 bp):
TCTGATATCTGACTTGAATTCTGT
Found at i:1620086 original size:12 final size:11
Alignment explanation
Indices: 1620045--1620097 Score: 52
Period size: 12 Copynumber: 4.5 Consensus size: 11
1620035 AATGACCTAA
1620045 ATTCTGTTCTG
1 ATTCTGTTCTG
* *
1620056 ATTTCTGATATGG
1 A-TTCTGTTCT-G
1620069 ATTCTGTTCTG
1 ATTCTGTTCTG
1620080 ATATCTGTTCTG
1 AT-TCTGTTCTG
1620092 AATTCT
1 -ATTCT
1620098 ATTATGATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
11 4 0.12
12 26 0.76
13 4 0.12
ACGTcount: A:0.17, C:0.15, G:0.17, T:0.51
Consensus pattern (11 bp):
ATTCTGTTCTG
Found at i:1620090 original size:17 final size:18
Alignment explanation
Indices: 1620047--1620097 Score: 52
Period size: 17 Copynumber: 2.8 Consensus size: 18
1620037 TGACCTAAAT
1620047 TCTGTTCTGATTTCTGATA
1 TCTGTTCTGA-TTCTGATA
*
1620066 T-GGATTCTG-TTCTGATA
1 TCTG-TTCTGATTCTGATA
1620083 TCTGTTCTGAATTCT
1 TCTGTTCTG-ATTCT
1620098 ATTATGATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
17 14 0.54
18 2 0.08
19 10 0.38
ACGTcount: A:0.16, C:0.16, G:0.18, T:0.51
Consensus pattern (18 bp):
TCTGTTCTGATTCTGATA
Found at i:1620096 original size:24 final size:24
Alignment explanation
Indices: 1620004--1620097 Score: 73
Period size: 24 Copynumber: 3.9 Consensus size: 24
1619994 AAATATTTTA
* *
1620004 TCTGATTTCTGACT-TGAATTTTGT
1 TCTGATATCTGA-TATGAATTCTGT
** ** *
1620028 TCTGATAAATGACCTAAATTCTGT
1 TCTGATATCTGATATGAATTCTGT
* *
1620052 TCTGATTTCTGATATGGATTCTGT
1 TCTGATATCTGATATGAATTCTGT
* *
1620076 TCTGATATCTGTTCTGAATTCT
1 TCTGATATCTGATATGAATTCT
1620098 ATTATGATTT
Statistics
Matches: 52, Mismatches: 17, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.21, C:0.15, G:0.16, T:0.48
Consensus pattern (24 bp):
TCTGATATCTGATATGAATTCTGT
Found at i:1620096 original size:48 final size:48
Alignment explanation
Indices: 1620004--1620114 Score: 116
Period size: 48 Copynumber: 2.3 Consensus size: 48
1619994 AAATATTTTA
* *
1620004 TCTGATTTCTGACT-TGAATTTTGTTCTGATAAATGACCTAAATTCTGT
1 TCTGATTTCTGA-TATGAATTCTGTTCTGATAAATGACCTAAATTCTAT
* ** ** *
1620052 TCTGATTTCTGATATGGATTCTGTTCTGATATCTGTTCTGAATTCTAT
1 TCTGATTTCTGATATGAATTCTGTTCTGATAAATGACCTAAATTCTAT
* *
1620100 TATGATTTTTGATAT
1 TCTGATTTCTGATAT
1620115 CTCCGTTTAC
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
47 1 0.02
48 51 0.98
ACGTcount: A:0.23, C:0.13, G:0.15, T:0.50
Consensus pattern (48 bp):
TCTGATTTCTGATATGAATTCTGTTCTGATAAATGACCTAAATTCTAT
Found at i:1620497 original size:36 final size:36
Alignment explanation
Indices: 1620455--1620530 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
1620445 TTATAGCTAA
*
1620455 AAAAATCGTCTTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1620491 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1620527 AAAA
1 AAAA
1620531 TCCCGAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (36 bp):
AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
Found at i:1620842 original size:2 final size:2
Alignment explanation
Indices: 1620835--1620870 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1620825 CCCTGCATCA
1620835 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
1620871 GTGTTTTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1622437 original size:160 final size:159
Alignment explanation
Indices: 1622099--1622602 Score: 679
Period size: 159 Copynumber: 3.2 Consensus size: 159
1622089 GTGCAAGAGG
* * * * *
1622099 ATTTATTATAGATATTCA-AAAAATGTTTAACATTTAACATATTTTGTTCAAAACTAAAGTAACA
1 ATTTATTATAGATATTCATAACATTTTTTAGCTTTTAACATATTTTGTTCAAAACTAAAGTAACA
* * * * * *
1622163 TTTTAGACGTAATCCATTTTATCAATAAAAATATTAATTTTCCAGAACACAACCTAATTTCTTAG
66 TTTTAGGCGTAACCCATTTTATTAATAAAAATATTAATGTTCCAGATCGCAACCTAATTTCTTAG
* * * *
1622228 TGAACCATGCCATTCTTGGACGTAGCCGG
131 TGAACCATGACATTCTTGGGCGTAACCGA
*
1622257 ATTTATTATAGATATTCATAACATTTTTTAGCTTTTAACATATTTTTTTCAAAACTAAAGTAACA
1 ATTTATTATAGATATTCATAACATTTTTTAGCTTTTAACATATTTTGTTCAAAACTAAAGTAACA
* ** * *
1622322 TTTTAGGTGTAACCCATTTTATTAATAAAAAATATTAATGTTCTGGATCGTAACCTAGTTTCTTA
66 TTTTAGGCGTAACCCATTTTATTAAT-AAAAATATTAATGTTCCAGATCGCAACCTAATTTCTTA
* *
1622387 GTGAACTATGACATTCTTGGGCTTAACCGA
130 GTGAACCATGACATTCTTGGGCGTAACCGA
* * * *
1622417 ATTTATTATAGATGTTCATAATA-TTTTTAGCTTTTTAACTTATTTTGTTCAAAGCTAAAGTAAC
1 ATTTATTATAGATATTCATAACATTTTTTAGC-TTTTAACATATTTTGTTCAAAACTAAAGTAAC
* * * *
1622481 ATTTTATGCGCAACCCATTTTATTAATGAAAATATTAATGTTCCAAATCGCAACCTAATTTCTTA
65 ATTTTAGGCGTAACCCATTTTATTAATAAAAATATTAATGTTCCAGATCGCAACCTAATTTCTTA
* *
1622546 GTGAACCATGACATTCTTGGGCGCAACCGT
130 GTGAACCATGACATTCTTGGGCGTAACCGA
1622576 ATTTATTATAGATATTCATAACATTTT
1 ATTTATTATAGATATTCATAACATTTT
1622603 CATCTTTAAC
Statistics
Matches: 299, Mismatches: 43, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
158 18 0.06
159 149 0.50
160 132 0.44
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.40
Consensus pattern (159 bp):
ATTTATTATAGATATTCATAACATTTTTTAGCTTTTAACATATTTTGTTCAAAACTAAAGTAACA
TTTTAGGCGTAACCCATTTTATTAATAAAAATATTAATGTTCCAGATCGCAACCTAATTTCTTAG
TGAACCATGACATTCTTGGGCGTAACCGA
Found at i:1624036 original size:30 final size:30
Alignment explanation
Indices: 1623981--1624052 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 30
1623971 GATTGTAAAT
1623981 TTTTGAT-AAATTTAATAATCAATTTTAGTA
1 TTTTGATAAAATTTAATAATCAATTTT-GTA
* *
1624011 TTTTGATAAAATTTAATGA-CTATTTTGTA
1 TTTTGATAAAATTTAATAATCAATTTTGTA
*
1624040 GTTT-ATCAAAATT
1 TTTTGAT-AAAATT
1624053 GATTATCATT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 2 0.05
29 12 0.32
30 13 0.35
31 10 0.27
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (30 bp):
TTTTGATAAAATTTAATAATCAATTTTGTA
Found at i:1630216 original size:170 final size:169
Alignment explanation
Indices: 1629935--1630275 Score: 673
Period size: 170 Copynumber: 2.0 Consensus size: 169
1629925 ACACCTAAAT
1629935 TAACGGAAAAAATCTTTTTATATTAAACCATCTTTTTTTTTCAGTCTTTTCATAATTTGAAAAAC
1 TAACGGAAAAAATCTTTTTATATTAAACCATCTTTTTTTTTCAGTCTTTTCATAATTTGAAAAAC
1630000 ATTTAAGTTTAACATTATTAAGAGAATTGCAATAAGGATTATAGTGTCGAAAGAAATCTTTTAGT
66 ATTTAAGTTTAACATTATTAAGAGAATTGCAATAAGGATTATAGTGTCGAAAGAAATCTTTTAGT
1630065 GATGCCACAATTTTTGAAGAAGTAATATTTTCTGTTTAA
131 GATGCCACAATTTTTGAAGAAGTAATATTTTCTGTTTAA
1630104 TAACGGAAAAAATCTTTTTATATTAAACCATCTTTTTTTTTTCAGTCTTTTCATAATTTGAAAAA
1 TAACGGAAAAAATCTTTTTATATTAAACCATC-TTTTTTTTTCAGTCTTTTCATAATTTGAAAAA
1630169 CATTTAAGTTTAACATTATTAAGAGAATTGCAATAAGGATTATAGTGTCGAAAGAAATCTTTTAG
65 CATTTAAGTTTAACATTATTAAGAGAATTGCAATAAGGATTATAGTGTCGAAAGAAATCTTTTAG
1630234 TGATGCCACAATTTTTGAAGAAGTAATATTTTCTGTTTAA
130 TGATGCCACAATTTTTGAAGAAGTAATATTTTCTGTTTAA
1630274 TA
1 TA
1630276 TTATTAAAGT
Statistics
Matches: 171, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
169 32 0.19
170 139 0.81
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.41
Consensus pattern (169 bp):
TAACGGAAAAAATCTTTTTATATTAAACCATCTTTTTTTTTCAGTCTTTTCATAATTTGAAAAAC
ATTTAAGTTTAACATTATTAAGAGAATTGCAATAAGGATTATAGTGTCGAAAGAAATCTTTTAGT
GATGCCACAATTTTTGAAGAAGTAATATTTTCTGTTTAA
Found at i:1631594 original size:23 final size:23
Alignment explanation
Indices: 1631527--1631588 Score: 124
Period size: 23 Copynumber: 2.7 Consensus size: 23
1631517 AACATATTAG
1631527 GTAGCGCTTATATAATGTAATAT
1 GTAGCGCTTATATAATGTAATAT
1631550 GTAGCGCTTATATAATGTAATAT
1 GTAGCGCTTATATAATGTAATAT
1631573 GTAGCGCTTATATAAT
1 GTAGCGCTTATATAAT
1631589 AAAATAGGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.39
Consensus pattern (23 bp):
GTAGCGCTTATATAATGTAATAT
Found at i:1635543 original size:21 final size:22
Alignment explanation
Indices: 1635510--1635551 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
1635500 AAACACGCGT
*
1635510 AATTTTAAAAAGTGTCGACACG
1 AATTTTAAAAAGTGTCAACACG
1635532 AATTTT-AAAAGTGTCAACAC
1 AATTTTAAAAAGTGTCAACAC
1635552 ATTATGTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (22 bp):
AATTTTAAAAAGTGTCAACACG
Found at i:1635924 original size:200 final size:200
Alignment explanation
Indices: 1635550--1636029 Score: 572
Period size: 200 Copynumber: 2.4 Consensus size: 200
1635540 AAGTGTCAAC
* * * * *
1635550 ACATTATGTTGACCTATTTTCT-ATTTACACCGGTAAATTTCAACTAGTTACATTGTAAAATGAC
1 ACATTATGTAGACCTATTTTCTCA-TAAAACCGGTAAATTTAAACCAGTTACATTGTAAAATGAC
* * * *
1635614 ATATTACATTATAATTTCTGGTCTCGATGTATTTGGGGTCGATACTTTTTATAAATATATTGAAA
65 CTATTACATTAAAATTTCTGGTCTCGATGTATTTGGGGTCGATACTTTTAATAAATATATCGAAA
* * * * * * * * *
1635679 CTTTATGTGTGGACATCGGTAGGCATTAATTATGTACATAAAGTATCGACATAAATGTAA-AAAG
130 CTTTATGCGCGCACATAGGTAGGAATTAATTATGGACAAAAAGTATCGACACAAAT-AAATAAAG
1635743 TATCGAT
194 TATCGAT
* *
1635750 ACATTATGTAGACCTATTTGCTCATAAAACCGGTAAATTTAAACCAGTTACATTGTAAAGTGACC
1 ACATTATGTAGACCTATTTTCTCATAAAACCGGTAAATTTAAACCAGTTACATTGTAAAATGACC
* * *
1635815 TATTATATTAAAAGTTT-TGGTCTCGATGTATTTGGGGTCGATACTTTTAATAAATGTATCGACA
66 TATTACATTAAAA-TTTCTGGTCTCGATGTATTTGGGGTCGATACTTTTAATAAATATATCGAAA
* * * * *
1635879 TTTTA-GCGCGCACATAGTTTGGGAATTCATTATGGATAAAAAGTATCGACACAAATAAATAAAG
130 CTTTATGCGCGCACATAG-GTAGGAATTAATTATGGACAAAAAGTATCGACACAAATAAATAAAG
* *
1635943 TGTTGAT
194 TATCGAT
* * * * *
1635950 ACATTATTTAGACCTATTTTCTCATAAAACCGGTAAATTTAAACCGGTTACATTGTTAATTTACC
1 ACATTATGTAGACCTATTTTCTCATAAAACCGGTAAATTTAAACCAGTTACATTGTAAAATGACC
*
1636015 TATTACATTATAATT
66 TATTACATTAAAATT
1636030 ATGGGTGATA
Statistics
Matches: 238, Mismatches: 38, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
199 12 0.05
200 222 0.93
201 4 0.02
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.37
Consensus pattern (200 bp):
ACATTATGTAGACCTATTTTCTCATAAAACCGGTAAATTTAAACCAGTTACATTGTAAAATGACC
TATTACATTAAAATTTCTGGTCTCGATGTATTTGGGGTCGATACTTTTAATAAATATATCGAAAC
TTTATGCGCGCACATAGGTAGGAATTAATTATGGACAAAAAGTATCGACACAAATAAATAAAGTA
TCGAT
Found at i:1636559 original size:12 final size:12
Alignment explanation
Indices: 1636542--1636571 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1636532 TAGGTTCATT
1636542 AGTTTTACATCA
1 AGTTTTACATCA
*
1636554 AGTTTTACATTA
1 AGTTTTACATCA
1636566 AGTTTT
1 AGTTTT
1636572 CTTTATTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (12 bp):
AGTTTTACATCA
Found at i:1642541 original size:12 final size:12
Alignment explanation
Indices: 1642524--1642553 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1642514 TAGAGCCATT
1642524 AGTTTTACATCA
1 AGTTTTACATCA
*
1642536 AGTTTTACATTA
1 AGTTTTACATCA
1642548 AGTTTT
1 AGTTTT
1642554 CTTTATTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (12 bp):
AGTTTTACATCA
Found at i:1645906 original size:200 final size:200
Alignment explanation
Indices: 1643217--1645877 Score: 4382
Period size: 200 Copynumber: 13.3 Consensus size: 200
1643207 TTTATCTTTC
* * *
1643217 TCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGAAACTTTGTTGTGCACCTGGTTTTTA
1 TCGATGTTTTTCGGATCGACACTTGTTATAAATGTATCGACACTTTGTTGTGCACTTGGTTTTTA
* * * *
1643282 AAATACACTCTGGACAAAAAGTATCGACACTTTTTGGATTTGTGACGATACTTTATGTATACCTA
66 AAATACACTCTGGACAAAAAGTATCGACACTTGTTGGATTTGTGTCGATACTTTATGTATACATG
*
1643347 TTTTCTCATAAACTGGTATATTTAGGCCGGTTACATTGTTAATTTACCTATTACATTATAATTAT
131 TTTTCTCATAAACCGGTATATTTAGGCCGGTTACATTGTTAATTTACCTATTACATTATAATTAT
*
1643412 GGGTG
196 GGGTT
*
1643417 TCGATGTTTTT-GGATCGACACTTGTTATAAATGCATCGACACTTTGTTGTGCACTTGGTTTTTA
1 TCGATGTTTTTCGGATCGACACTTGTTATAAATGTATCGACACTTTGTTGTGCACTTGGTTTTTA
* *
1643481 AAATACACTCTGGACAAAAAGTATCGACACTTGTTGGATTTGTGTCGATACTTTATATATACTTG
66 AAATACACTCTGGACAAAAAGTATCGACACTTGTTGGATTTGTGTCGATACTTTATGTATACATG
1643546 TTTTCTCATAAACCGGTATATTTAGGCCGGTTACATTGTTAATTTACCTATTACATTATAATTAT
131 TTTTCTCATAAACCGGTATATTTAGGCCGGTTACATTGTTAATTTACCTATTACATTATAATTAT
1643611 GGGTT
196 GGGTT
* *
1643616 TCGATGTTTTTCGGATTGACACTTGTTATAAATGTATCGACCCTTTGTTGTGCACTTGGTTTTTA
1 TCGATGTTTTTCGGATCGACACTTGTTATAAATGTATCGACACTTTGTTGTGCACTTGGTTTTTA
* * ** *
1643681 AAATACACTATGGAGAAAAAGTATCGACACTTGTTAAATTTGTGTTGATACTTTATGTATACATG
66 AAATACACTCTGGACAAAAAGTATCGACACTTGTTGGATTTGTGTCGATACTTTATGTATACATG
* *
1643746 TTTTCTCATAAA-CGAGTATATTTAGGTCGGTTACATTATTAATTTACCTATTACATTATAATTA
131 TTTTCTCATAAACCG-GTATATTTAGGCCGGTTACATTGTTAATTTACCTATTACATTATAATTA
*
1643810 TGAGTT
195 TGGGTT
* * * *
1643816 TCGATGTTTTTCGGATCAACAATTGTTATAACTGTATCGAAACTTTGTTGTGCACTTGGTTTTTA
1 TCGATGTTTTTCGGATCGACACTTGTTATAAATGTATCGACACTTTGTTGTGCACTTGGTTTTTA
*
1643881 AAATACACTCTGGAGAAAAAGTATCGACACTTGTTGGATTTGTGTCGATACTTTATGTATACATG
66 AAATACACTCTGGACAAAAAGTATCGACACTTGTTGGATTTGTGTCGATACTTTATGTATACATG
* *
1643946 TTTTCGCATAAACTGGTATATTTAGGCCGGTTACATTGTTAATTTACCTATTACATTATAATTAT
131 TTTTCTCATAAACCGGTATATTTAGGCCGGTTACATTGTTAATTTACCTATTACATTATAATTAT
1644011 GGGTT
196 GGGTT
*
1644016 TCGATGTTTTTCGGATCGACACTTGTTATAAATGTATCGACACTTTGTTGAGCACTTGGTTTTTA
1 TCGATGTTTTTCGGATCGACACTTGTTATAAATGTATCGACACTTTGTTGTGCACTTGGTTTTTA
* *
1644081 AAATACACTCTGGACAAAACGTATCGACACTTGTTGGATTTGTGTCGATACTTTATGTATACCTG
66 AAATACACTCTGGACAAAAAGTATCGACACTTGTTGGATTTGTGTCGATACTTTATGTATACATG
* * *
1644146 CTTTCTCATAAACCGGTATATTTAGGCCGGGTACATTGTTAAATTACCTATTACATTATAATTAT
131 TTTTCTCATAAACCGGTATATTTAGGCCGGTTACATTGTTAATTTACCTATTACATTATAATTAT
1644211 GGGTT
196 GGGTT
* *
1644216 TCGATGTTTTTCGGATCGACACTTGTTATAAATGTATCGACACTTTATTGTGCAATTGGTTTTTA
1 TCGATGTTTTTCGGATCGACACTTGTTATAAATGTATCGACACTTTGTTGTGCACTTGGTTTTTA
* ** *
1644281 AAATACACACTGGACAAAAAGTATCGACACTTGTTTCATTTGTGTCGATACTTTATGTATACCTG
66 AAATACACTCTGGACAAAAAGTATCGACACTTGTTGGATTTGTGTCGATACTTTATGTATACATG
* * ** * *
1644346 TTTTCTCATAAATCTGTATATTTACACCGGTGACATTGTTAATTTATCTATTACATTATAATTAT
131 TTTTCTCATAAACCGGTATATTTAGGCCGGTTACATTGTTAATTTACCTATTACATTATAATTAT
1644411 GGGTT
196 GGGTT
* * * * *
1644416 TCGATATTTTTGGGATTGACACTTATTATAAATGTATGGACACTTTGTTGTGCACTTGGTTTTTA
1 TCGATGTTTTTCGGATCGACACTTGTTATAAATGTATCGACACTTTGTTGTGCACTTGGTTTTTA
* *
1644481 AAATACACTCTGGACAAAAAGTATCGACACTTGTTGGATTTGTGTCGATACTTTATGTATACCTA
66 AAATACACTCTGGACAAAAAGTATCGACACTTGTTGGATTTGTGTCGATACTTTATGTATACATG
*
1644546 TTTTCTCATAGAA-CGGTATATTTAGGCCGGTTACATTGTTAATGTACCTATTACATTATAATTA
131 TTTTCTCATA-AACCGGTATATTTAGGCCGGTTACATTGTTAATTTACCTATTACATTATAATTA
*
1644610 TGAGTT
195 TGGGTT
*
1644616 TTGATGTTTTTTC-GATCGACACTTGTTATAAATGTATCGACACTTTGTTGTGCACTTGGTTTTT
1 TCGATG-TTTTTCGGATCGACACTTGTTATAAATGTATCGACACTTTGTTGTGCACTTGGTTTTT
* *
1644680 AAAATACACTCTGGAAAAAAAGTATCGACACTTGTTGGATTTGTGTCGATACTTT-TATATACAT
65 AAAATACACTCTGGACAAAAAGTATCGACACTTGTTGGATTTGTGTCGATACTTTATGTATACAT
*
1644744 GTTTTCTCATAAACCCGTATATTTAGGCCGGTTACATTGTTAATTTACCTATTACATTATAATTA
130 GTTTTCTCATAAACCGGTATATTTAGGCCGGTTACATTGTTAATTTACCTATTACATTATAATTA
1644809 TGGGTT
195 TGGGTT
1644815 TCGATGTTTTTCGGATCGACACTTGTTATAAATGTATCGACACTTTGTTGTGCACTTGGTTTTTA
1 TCGATGTTTTTCGGATCGACACTTGTTATAAATGTATCGACACTTTGTTGTGCACTTGGTTTTTA
*
1644880 AAATACACTCTGGACAAAAAGTATCGACACTTGTTGGATTTGTGTCGATACTTTATGTATACACG
66 AAATACACTCTGGACAAAAAGTATCGACACTTGTTGGATTTGTGTCGATACTTTATGTATACATG
* * *
1644945 TTTTCTCATAAACCGGTATATTCAGGTCGGTTACATTATTAATTTACCTATTACATTATAATTAT
131 TTTTCTCATAAACCGGTATATTTAGGCCGGTTACATTGTTAATTTACCTATTACATTATAATTAT
1645010 GGGTT
196 GGGTT
*
1645015 TCGATGTTTTTCGGATCGACACTTGTTATAAATGTATCGACACTTTGTTGTGTACTTGGTTTTTA
1 TCGATGTTTTTCGGATCGACACTTGTTATAAATGTATCGACACTTTGTTGTGCACTTGGTTTTTA
* *
1645080 AAATACACTCTGGAGAAAAAGTATCAACACTTGTTGGATTTGTGTCGATACTTTATGTATACATG
66 AAATACACTCTGGACAAAAAGTATCGACACTTGTTGGATTTGTGTCGATACTTTATGTATACATG
**
1645145 TTTTCTCATAAATTGGTATATTTAGGCCGGTTACATTGTTAATTTACCTATTACATTATAATTAT
131 TTTTCTCATAAACCGGTATATTTAGGCCGGTTACATTGTTAATTTACCTATTACATTATAATTAT
1645210 GGGTT
196 GGGTT
1645215 TCGATGTTTTTCGGATCGACACTTGTTATAAATGTATCGACACTTTGTTGTGCACTTGGTTTTTA
1 TCGATGTTTTTCGGATCGACACTTGTTATAAATGTATCGACACTTTGTTGTGCACTTGGTTTTTA
*
1645280 AAATACACTCTGGACAAAAAGTATCGACACTTGTTGGATTTGTGTCGATACTTTATGTATACCTG
66 AAATACACTCTGGACAAAAAGTATCGACACTTGTTGGATTTGTGTCGATACTTTATGTATACATG
*
1645345 TTTTCTTATAAACCGGTATATTTAGGCCGGTTACATTGTTAATTTACCTATTACATTATAATTAT
131 TTTTCTCATAAACCGGTATATTTAGGCCGGTTACATTGTTAATTTACCTATTACATTATAATTAT
1645410 GGGTT
196 GGGTT
1645415 TCGATGTTTTTCGGATCGACACTTGTTATAAATGTATCGACACTTTGTTGTGCACTTGGTTTTTA
1 TCGATGTTTTTCGGATCGACACTTGTTATAAATGTATCGACACTTTGTTGTGCACTTGGTTTTTA
** *
1645480 AAATACACTCTGGACAAAAAGTATCGACACTTGTTTCATTTGTGTCGATACTTTATGTATACTTG
66 AAATACACTCTGGACAAAAAGTATCGACACTTGTTGGATTTGTGTCGATACTTTATGTATACATG
* * * * *
1645545 TTTTCTCATAAATCGGTATATTTAGACTGGTGACATTGTTAATTTATCTATTACATTATAATTAT
131 TTTTCTCATAAACCGGTATATTTAGGCCGGTTACATTGTTAATTTACCTATTACATTATAATTAT
1645610 GGGTT
196 GGGTT
* *
1645615 TCGATGTTTTTGGGATCGACACTTATTATAAATGTATCGACACTTTGTTGTGCACTTGGTTTTTA
1 TCGATGTTTTTCGGATCGACACTTGTTATAAATGTATCGACACTTTGTTGTGCACTTGGTTTTTA
* *
1645680 AAATACACGT-TGGACAAAAAGTATCGACACTTATTGTATTTGTGTCGATACTTTATGTATACAT
66 AAATACAC-TCTGGACAAAAAGTATCGACACTTGTTGGATTTGTGTCGATACTTTATGTATACAT
* * * *
1645744 GTTTTCTCAAAAACCGGTATATTTAGGCCGGTTACATTGTTATTTTACCTATTTCATTAT-GTCT
130 GTTTTCTCATAAACCGGTATATTTAGGCCGGTTACATTGTTAATTTACCTATTACATTATAAT-T
*
1645808 ATGTGTT
194 ATGGGTT
* *** *
1645815 TTGATGTTTTTATTATCGACACTTGTTATAAATGTATCGACACTTTTTTCGTGCACTTGGTTT
1 TCGATGTTTTTCGGATCGACACTTGTTATAAATGTATCGACACTTTGTT-GTGCACTTGGTTT
1645878 GGAAATACAA
Statistics
Matches: 2297, Mismatches: 153, Indels: 21
0.93 0.06 0.01
Matches are distributed among these distances:
198 8 0.00
199 373 0.16
200 1894 0.82
201 22 0.01
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (200 bp):
TCGATGTTTTTCGGATCGACACTTGTTATAAATGTATCGACACTTTGTTGTGCACTTGGTTTTTA
AAATACACTCTGGACAAAAAGTATCGACACTTGTTGGATTTGTGTCGATACTTTATGTATACATG
TTTTCTCATAAACCGGTATATTTAGGCCGGTTACATTGTTAATTTACCTATTACATTATAATTAT
GGGTT
Found at i:1646131 original size:24 final size:24
Alignment explanation
Indices: 1646094--1646140 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
1646084 ATTTACATTT
1646094 AAATTCAAACTCAAACTCAAATTG
1 AAATTCAAACTCAAACTCAAATTG
* * *
1646118 AAATTTAAATTCAAACTCTAATT
1 AAATTCAAACTCAAACTCAAATT
1646141 ATAAATAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.49, C:0.17, G:0.02, T:0.32
Consensus pattern (24 bp):
AAATTCAAACTCAAACTCAAATTG
Found at i:1649032 original size:19 final size:19
Alignment explanation
Indices: 1649008--1649057 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
1648998 TTACATTCAC
*
1649008 ATACAAAATTATAAATCGT
1 ATACAAAATTAAAAATCGT
*
1649027 ATACAAAATTAAAAATCTT
1 ATACAAAATTAAAAATCGT
1649046 ATACAAAATTAA
1 ATACAAAATTAA
1649058 CCCTACATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.58, C:0.10, G:0.02, T:0.30
Consensus pattern (19 bp):
ATACAAAATTAAAAATCGT
Found at i:1650562 original size:18 final size:18
Alignment explanation
Indices: 1650526--1650564 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
1650516 TTCTCCTAAT
*
1650526 TTCCTCCATCTTTTATTC
1 TTCCTCCATCTTCTATTC
*
1650544 TTCCTCCATCTTCTCTTC
1 TTCCTCCATCTTCTATTC
1650562 TTC
1 TTC
1650565 AAATTTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.08, C:0.38, G:0.00, T:0.54
Consensus pattern (18 bp):
TTCCTCCATCTTCTATTC
Found at i:1651275 original size:22 final size:21
Alignment explanation
Indices: 1651247--1651302 Score: 58
Period size: 24 Copynumber: 2.5 Consensus size: 21
1651237 AACCTGCATT
*
1651247 TATAATAAAAGTTATCATTTTA
1 TATAATAAAA-CTATCATTTTA
1651269 TATAATAACTATACTATCATTTTA
1 TATAATAA--A-ACTATCATTTTA
*
1651293 TATAAAAAAA
1 TATAATAAAA
1651303 ACATTCTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
21 1 0.03
22 9 0.31
24 18 0.62
25 1 0.03
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (21 bp):
TATAATAAAACTATCATTTTA
Found at i:1651776 original size:13 final size:13
Alignment explanation
Indices: 1651758--1651789 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
1651748 CATTGTTTGA
1651758 CATCAAATTGCTC
1 CATCAAATTGCTC
1651771 CATCAAATTGCTC
1 CATCAAATTGCTC
1651784 CATCAA
1 CATCAA
1651790 GGATCGACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.34, C:0.31, G:0.06, T:0.28
Consensus pattern (13 bp):
CATCAAATTGCTC
Found at i:1652625 original size:18 final size:17
Alignment explanation
Indices: 1652575--1652635 Score: 77
Period size: 19 Copynumber: 3.3 Consensus size: 17
1652565 TACAACCTAA
1652575 AATATCATTTTCTATCAAT
1 AATATCATTTT-TA-CAAT
1652594 AATATCATTTTTTACCAAT
1 AATATCA-TTTTTA-CAAT
1652613 AATATCATTTTTACATAT
1 AATATCATTTTTACA-AT
1652631 AATAT
1 AATAT
1652636 TAAATAAAAG
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
17 2 0.05
18 13 0.33
19 20 0.51
20 4 0.10
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.48
Consensus pattern (17 bp):
AATATCATTTTTACAAT
Found at i:1653336 original size:183 final size:182
Alignment explanation
Indices: 1653023--1653683 Score: 876
Period size: 182 Copynumber: 3.6 Consensus size: 182
1653013 TACGCGTACT
* * ** *
1653023 TATTAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGATTTTGTCATTTTGAGACCG
1 TATTAAAATATCGACACTTTCAACATATCCGGTATCTTTTTACCGGTTTTGTCATTTTGAGACCG
* *
1653088 GTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTAAAAGTATTGACACT
66 GTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACACT
*
1653153 TTATAGGCGCTATAACTTCTTCTTTTTTAAATTCCAAAAGTGTCGATACTTA
131 TTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
* * *
1653205 TATTAAATTATCGACACTTTCAACATATCCGGTATCTTTTTACCGGTATTGTCATTTTTTAGACC
1 TATTAAAATATCGACACTTTCAACATATCCGGTATCTTTTTACCGGTTTTGTCA-TTTTGAGACC
* * *
1653270 TGTTTTATCATATTTTTACCAGTTATATTGTTATGGATCGATATATTTTTTTAAAGTATCGACAC
65 GGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACAC
* *
1653335 TTTATAGGTGCCATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
130 TTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
* * *
1653388 TATTAAAATATCGACACTTTCAACATATCCGATAGT-TATTTACCTGTTTTGTCATTTTGAGACC
1 TATTAAAATATCGACACTTTCAACATATCCGGTA-TCTTTTTACCGGTTTTGTCATTTTGAGACC
* * * * ** ** *
1653452 GGTTTTGTCATAGTTTTAGCTGTTATATTATTATAAATCGATACATTTTCATAAAGTATCCACAC
65 GGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACAC
* * * **
1653517 TTTTTAGACGTTATAACTTCTTCTCTTTTAAATTCTGAAAGTGTCGATACTTA
130 TTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
* * ** * *
1653570 TATTAAACTATCGACACTTTTAACATAT-ATGTCAACATTTTACCGGTTTTGTCATTTTGAGACC
1 TATTAAAATATCGACACTTTCAACATATCCGGT-ATCTTTTTACCGGTTTTGTCATTTTGAGACC
* * * ** *
1653634 GGTTTTGTCATATTTTTACCTATAATATTACTATGGAGCGATACATTTTT
65 GGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
1653684 CATTTGTATC
Statistics
Matches: 417, Mismatches: 58, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
181 1 0.00
182 249 0.60
183 166 0.40
184 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.12, T:0.44
Consensus pattern (182 bp):
TATTAAAATATCGACACTTTCAACATATCCGGTATCTTTTTACCGGTTTTGTCATTTTGAGACCG
GTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACACT
TTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
Found at i:1655355 original size:21 final size:21
Alignment explanation
Indices: 1655329--1655371 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
1655319 TTATATGTAG
1655329 AATTGGGGGGAGAATTACTCA
1 AATTGGGGGGAGAATTACTCA
1655350 AATTGGGGGGAGAATTACTCA
1 AATTGGGGGGAGAATTACTCA
1655371 A
1 A
1655372 TCTTTTCAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.09, G:0.33, T:0.23
Consensus pattern (21 bp):
AATTGGGGGGAGAATTACTCA
Found at i:1667309 original size:19 final size:20
Alignment explanation
Indices: 1667291--1667337 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 20
1667281 TATTTCTTTA
1667291 AATTTTT-T-TAATTTTTTT
1 AATTTTTATATAATTTTTTT
*
1667309 AATTTTTATATAATTTTATT
1 AATTTTTATATAATTTTTTT
1667329 --TTTTTATAT
1 AATTTTTATAT
1667338 TTTTATTGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 16 0.62
19 1 0.04
20 9 0.35
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (20 bp):
AATTTTTATATAATTTTTTT
Done.