Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_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: 14308945
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 26 of 62
Found at i:6132292 original size:64 final size:64
Alignment explanation
Indices: 6132128--6132293 Score: 176
Period size: 64 Copynumber: 2.6 Consensus size: 64
6132118 AATCATTTAC
* ***
6132128 TTATATTTTCATGAATATAGTTTTTTTTAAAAAAATAATTTAATTATTAATATTATATTTATTA
1 TTATAATTTCATGAATATAGACATTTTTAAAAAAATAATTTAATTATTAATATTATATTTATTA
* *** *
6132192 TTATATTTTCATGAATATAGTTTTTTTTTAAAAAATAATTTAATTATTAATATTATTATTTTATT
1 TTATAATTTCATGAATATAGACATTTTTAAAAAAATAATTTAATTATTAATATTA-TA-TTTATT
6132257 A
64 A
* * *
6132258 TTA-AATTTCTTG-ATGTA-ACATTTTCAAAATAAATAA
1 TTATAATTTCATGAATATAGACATTTTTAAAA-AAATAA
6132294 AACAATAATT
Statistics
Matches: 90, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
63 7 0.08
64 64 0.71
65 9 0.10
66 10 0.11
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.53
Consensus pattern (64 bp):
TTATAATTTCATGAATATAGACATTTTTAAAAAAATAATTTAATTATTAATATTATATTTATTA
Found at i:6132627 original size:2 final size:2
Alignment explanation
Indices: 6132620--6132651 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6132610 AATTCGACCC
6132620 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
6132652 TAATAAATTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6133208 original size:15 final size:17
Alignment explanation
Indices: 6133180--6133212 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
6133170 TAGTATCTAT
6133180 TATACAATATTAGTATA
1 TATACAATATTAGTATA
6133197 TATAC-ATA-TAGTATA
1 TATACAATATTAGTATA
6133212 T
1 T
6133213 GATATTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 3 0.19
17 5 0.31
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (17 bp):
TATACAATATTAGTATA
Found at i:6133217 original size:28 final size:28
Alignment explanation
Indices: 6133186--6133239 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
6133176 CTATTATACA
6133186 ATATTAGTAT-ATATACATATAGTATATG
1 ATATTA-TATAATATACATATAGTATATG
* *
6133214 ATATTATTTAATATACATATATTATA
1 ATATTATATAATATACATATAGTATA
6133240 GTAGTATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 2 0.09
28 21 0.91
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (28 bp):
ATATTATATAATATACATATAGTATATG
Found at i:6133251 original size:33 final size:34
Alignment explanation
Indices: 6133203--6133272 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 34
6133193 TATATATACA
* *
6133203 TATAGTATATGATATTATTTAATATACA-TATAT
1 TATAGTATATGATATTATATAATATAAAGTATAT
*
6133236 TATAGTAGTAT-ATATTATATATTATAAAGTATAT
1 TATAGTA-TATGATATTATATAATATAAAGTATAT
6133270 TAT
1 TAT
6133273 TATATTTATA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
33 21 0.66
34 11 0.34
ACGTcount: A:0.43, C:0.01, G:0.07, T:0.49
Consensus pattern (34 bp):
TATAGTATATGATATTATATAATATAAAGTATAT
Found at i:6133258 original size:22 final size:22
Alignment explanation
Indices: 6133230--6133282 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
6133220 TTTAATATAC
*
6133230 ATATATTATAGTAGTATA-TATT
1 ATATATTATA-AAGTATATTATT
6133252 ATATATTATAAAGTATATTATT
1 ATATATTATAAAGTATATTATT
6133274 ATAT-TTATA
1 ATATATTATA
6133283 TGATATGATA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 11 0.38
22 18 0.62
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (22 bp):
ATATATTATAAAGTATATTATT
Found at i:6133303 original size:26 final size:27
Alignment explanation
Indices: 6133281--6133524 Score: 149
Period size: 25 Copynumber: 9.9 Consensus size: 27
6133271 ATTATATTTA
* * *
6133281 TATGATATGATATGATATGATA-TGAT
1 TATGATATCATATCATATCATATTGAT
*
6133307 TATGATATCATATCATATCATA-TCA-
1 TATGATATCATATCATATCATATTGAT
* *
6133332 TATCATATCATATCATAT-A-A-TCA-
1 TATGATATCATATCATATCATATTGAT
*
6133355 TATCATATCATAT-AT-TCATA-T-A-
1 TATGATATCATATCATATCATATTGAT
*
6133377 TATCATATCATATCATATCATATAT-AT
1 TATGATATCATATCATATCATAT-TGAT
* *
6133404 CAAT-ATATCATAT-ATATCATA-TCA-
1 -TATGATATCATATCATATCATATTGAT
* *
6133428 TATCATATCATAT-ATATCATA-TCA-
1 TATGATATCATATCATATCATATTGAT
* *
6133452 TATCATATCATATCATATCATA-TCA-
1 TATGATATCATATCATATCATATTGAT
* *
6133477 TATCATATCATATCATATCATA-TCA-
1 TATGATATCATATCATATCATATTGAT
*
6133502 TATCATATCATATCATATCATAT
1 TATGATATCATATCATATCATAT
6133525 CATATCATAG
Statistics
Matches: 199, Mismatches: 7, Indels: 24
0.87 0.03 0.10
Matches are distributed among these distances:
21 1 0.01
22 17 0.09
23 23 0.12
24 40 0.20
25 76 0.38
26 31 0.16
27 9 0.05
28 2 0.01
ACGTcount: A:0.41, C:0.15, G:0.02, T:0.41
Consensus pattern (27 bp):
TATGATATCATATCATATCATATTGAT
Found at i:6133553 original size:5 final size:5
Alignment explanation
Indices: 6133311--6133533 Score: 376
Period size: 5 Copynumber: 46.6 Consensus size: 5
6133301 TATGATTATG
6133311 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATAT- A-ATC ATATC
1 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC
6133359 ATATC ATAT- AT-TC ATAT- ATATC ATATC ATATC ATATC ATAT- ATATC
1 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC
6133405 A-AT- ATATC ATAT- ATATC ATATC ATATC ATATC ATAT- ATATC ATATC
1 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC
6133451 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC
1 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC
6133501 ATATC ATATC ATATC ATATC ATATC ATATC ATA
1 ATATC ATATC ATATC ATATC ATATC ATATC ATA
6133534 GTATAGTATT
Statistics
Matches: 208, Mismatches: 0, Indels: 20
0.91 0.00 0.09
Matches are distributed among these distances:
3 4 0.02
4 26 0.12
5 178 0.86
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATC
Found at i:6135045 original size:21 final size:21
Alignment explanation
Indices: 6135019--6135060 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
6135009 CTATGATAGG
6135019 GGGTATCGGTACCCCTTCATA
1 GGGTATCGGTACCCCTTCATA
*
6135040 GGGTATCGGTACTCCTTCATA
1 GGGTATCGGTACCCCTTCATA
6135061 AAATTCAAAT
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:0.19, C:0.26, G:0.24, T:0.31
Consensus pattern (21 bp):
GGGTATCGGTACCCCTTCATA
Found at i:6135151 original size:19 final size:19
Alignment explanation
Indices: 6135091--6135160 Score: 76
Period size: 19 Copynumber: 3.8 Consensus size: 19
6135081 GTTGCAGCCA
6135091 GGGGGTATAGATACCCCTGG
1 GGGGGTATAGATACCCCT-G
*
6135111 GGGGGTATCGATA---CT-
1 GGGGGTATAGATACCCCTG
* *
6135126 CGGGGTATGGATACCCCTG
1 GGGGGTATAGATACCCCTG
6135145 GGGGGTATAGATACCC
1 GGGGGTATAGATACCC
6135161 TTCGAGCAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
15 11 0.27
17 2 0.05
18 2 0.05
19 14 0.34
20 12 0.29
ACGTcount: A:0.20, C:0.20, G:0.39, T:0.21
Consensus pattern (19 bp):
GGGGGTATAGATACCCCTG
Found at i:6135158 original size:34 final size:35
Alignment explanation
Indices: 6135092--6135158 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
6135082 TTGCAGCCAG
*
6135092 GGGGTATAGATACCCCTGGGGGGGTATCGATACTC
1 GGGGTATAGATACCCCTGGGGGGGTATAGATACTC
*
6135127 GGGGTATGGATACCCCT-GGGGGGTATAGATAC
1 GGGGTATAGATACCCCTGGGGGGGTATAGATAC
6135159 CCTTCGAGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 14 0.47
35 16 0.53
ACGTcount: A:0.21, C:0.18, G:0.39, T:0.22
Consensus pattern (35 bp):
GGGGTATAGATACCCCTGGGGGGGTATAGATACTC
Found at i:6135330 original size:29 final size:31
Alignment explanation
Indices: 6135297--6135354 Score: 102
Period size: 30 Copynumber: 1.9 Consensus size: 31
6135287 AAACTTTGAA
6135297 AAATTCAATT-AAGTCCAAAAA-CATTTTGT
1 AAATTCAATTCAAGTCCAAAAACCATTTTGT
6135326 AAATTCAATTCAAGTCCAAAAACCATTTT
1 AAATTCAATTCAAGTCCAAAAACCATTTT
6135355 TCCTTAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 10 0.37
30 11 0.41
31 6 0.22
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (31 bp):
AAATTCAATTCAAGTCCAAAAACCATTTTGT
Found at i:6135835 original size:18 final size:19
Alignment explanation
Indices: 6135814--6135860 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
6135804 TTTAATCCTT
* *
6135814 TTTTAATTT-ATTTTTTTC
1 TTTTAATTTGATATTTTTA
6135832 TTTTAATTTGATATTTTTA
1 TTTTAATTTGATATTTTTA
*
6135851 TTTTATTTTG
1 TTTTAATTTG
6135861 TTGTTTACCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.74
Consensus pattern (19 bp):
TTTTAATTTGATATTTTTA
Found at i:6135835 original size:19 final size:20
Alignment explanation
Indices: 6135813--6135854 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
6135803 ATTTAATCCT
6135813 TTTTTAATTT-AT-TTTTT-
1 TTTTTAATTTGATATTTTTA
6135830 TCTTTTAATTTGATATTTTTA
1 T-TTTTAATTTGATATTTTTA
6135851 TTTT
1 TTTT
6135855 ATTTTGTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 1 0.05
18 9 0.43
19 2 0.10
20 8 0.38
21 1 0.05
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTTTAATTTGATATTTTTA
Found at i:6142255 original size:20 final size:21
Alignment explanation
Indices: 6142209--6142262 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 21
6142199 GATATTGATT
6142209 GAAGAGTATCGATACTAATGTA
1 GAAG-GTATCGATACTAATGTA
6142231 G-AGGTATCGATACTAA-G-A
1 GAAGGTATCGATACTAATGTA
*
6142249 GGAAGGTATTGATA
1 -GAAGGTATCGATA
6142263 TCGTAATAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 1 0.03
19 2 0.07
20 23 0.79
21 2 0.07
22 1 0.03
ACGTcount: A:0.39, C:0.07, G:0.28, T:0.26
Consensus pattern (21 bp):
GAAGGTATCGATACTAATGTA
Found at i:6142941 original size:23 final size:23
Alignment explanation
Indices: 6142911--6142993 Score: 139
Period size: 23 Copynumber: 3.6 Consensus size: 23
6142901 GTCGAGGGTT
6142911 CTATGTGGTCCTTCGGGACAAAC
1 CTATGTGGTCCTTCGGGACAAAC
*
6142934 CTATGTGGTCCTTCAGGACAAAC
1 CTATGTGGTCCTTCGGGACAAAC
*
6142957 CTATGTGGTCATTCGGGACAAAC
1 CTATGTGGTCCTTCGGGACAAAC
*
6142980 TTATGTGGTCCTTC
1 CTATGTGGTCCTTC
6142994 AGGAAAAATA
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 55 1.00
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (23 bp):
CTATGTGGTCCTTCGGGACAAAC
Found at i:6143749 original size:23 final size:23
Alignment explanation
Indices: 6143723--6143767 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
6143713 CACCACAGCT
*
6143723 CGTATAATTGCACCGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCG
*
6143746 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGAAGTGCC
6143768 ATATAATAAT
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:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCG
Found at i:6144005 original size:149 final size:149
Alignment explanation
Indices: 6143735--6144049 Score: 587
Period size: 149 Copynumber: 2.1 Consensus size: 149
6143725 TATAATTGCA
6143735 CCGAAGTG-CCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTA
1 CCGAAG-GACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTA
*
6143799 TTCCTTAAGAATCATATACATATATTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTT
65 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTT
6143864 CCAAAGAATATACATATGTC
130 CCAAAGAATATACATATGTC
6143884 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
*
6143949 TCCTTAAGAATCATATATATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
66 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
6144014 CAAAGAATATACATATGTC
131 CAAAGAATATACATATGTC
*
6144033 ACGAAGGACCGCGTAGA
1 CCGAAGGACCGCGTAGA
6144050 CCCTCGACTC
Statistics
Matches: 162, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
148 1 0.01
149 161 0.99
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (149 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
CAAAGAATATACATATGTC
Found at i:6145541 original size:21 final size:21
Alignment explanation
Indices: 6145517--6145561 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
6145507 TTTTGTTCGT
* *
6145517 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
6145538 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
6145559 TTG
1 TTG
6145562 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:6149103 original size:149 final size:149
Alignment explanation
Indices: 6148853--6149167 Score: 569
Period size: 149 Copynumber: 2.1 Consensus size: 149
6148843 TATAATTGCA
**
6148853 CCGAAGTG-CCGCGTAGAATTGAACTGTAGTGCCATATAATAATGTCCATAAGGACCACATATTA
1 CCGAAG-GACCGCGTAGAATTGAACCATAGTGCCATATAATAATGTCCATAAGGACCACATATTA
6148917 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTT
65 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTT
6148982 CCAAAGAATATACATATGTC
130 CCAAAGAATATACATATGTC
*
6149002 CCGAAGGACCGCGTAGAATTGCACCATAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
1 CCGAAGGACCGCGTAGAATTGAACCATAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
*
6149067 TCTTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
66 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
6149132 CAAAGAATATACATATGTC
131 CAAAGAATATACATATGTC
*
6149151 CCGAAGGACCGTGTAGA
1 CCGAAGGACCGCGTAGA
6149168 CCCTCGACTC
Statistics
Matches: 160, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
148 1 0.01
149 159 0.99
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (149 bp):
CCGAAGGACCGCGTAGAATTGAACCATAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
CAAAGAATATACATATGTC
Found at i:6150657 original size:21 final size:21
Alignment explanation
Indices: 6150633--6150677 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
6150623 TTTTGTTCGT
* *
6150633 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
6150654 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
6150675 TTG
1 TTG
6150678 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:6152903 original size:101 final size:103
Alignment explanation
Indices: 6152666--6153073 Score: 560
Period size: 102 Copynumber: 4.0 Consensus size: 103
6152656 AGATTTATTC
* **
6152666 CACTTGAGATGATTTTTCTTAAAATCAATTCCGTCTCGCTCAAGACAGTTTTCCCTTGAAACACA
1 CACTTGAGATGATTTTTCTTAAAATCAATTTCGTCTCGCTTGAGACAGTTTTCCCTTGAAACACA
* *
6152731 ACTTTTGAAATTGTTTCACCTG-AAACAAAAATTTTATCT
66 AATTTTGAAATTGTTTCA-CTGCAAACAAAAA-ATTATCT
6152770 CACTTGAGATGATTTTTCTTAAAATCAATTTCGTCTCGCTTGAGACAG-TTTCCCTTGAAACACA
1 CACTTGAGATGATTTTTCTTAAAATCAATTTCGTCTCGCTTGAGACAGTTTTCCCTTGAAACACA
* * *
6152834 AAATATGAAATTGTTTCACTGCAAA-AAAAATTTATCT
66 AATTTTGAAATTGTTTCACTGCAAACAAAAAATTATCT
* * * * * * *
6152871 TACTTGAGATGGTTTTTCTTAAAATAAATTTCGTCTTGCTTGAAACAGTTTTCCCCTGAAACAGA
1 CACTTGAGATGATTTTTCTTAAAATCAATTTCGTCTCGCTTGAGACAGTTTTCCCTTGAAACACA
6152936 AATTTTGAAATTGTTTCACT-CGAAACAAAAAATTAT-T
66 AATTTTGAAATTGTTTCACTGC-AAACAAAAAATTATCT
* *
6152973 CCACTTGAGATGA-TTTTCTTAAAATCATTTTCGTCTCGCTTGAGACAGTTTTCCCTT-AGGACA
1 -CACTTGAGATGATTTTTCTTAAAATCAATTTCGTCTCGCTTGAGACAGTTTTCCCTTGA-AACA
*
6153036 CAAATTTTGAAATTGTTTCACTTCAAACAAAAAATTAT
64 CAAATTTTGAAATTGTTTCACTGCAAACAAAAAATTAT
6153074 ATCTCCTGAG
Statistics
Matches: 272, Mismatches: 25, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
101 52 0.19
102 121 0.44
103 54 0.20
104 45 0.17
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (103 bp):
CACTTGAGATGATTTTTCTTAAAATCAATTTCGTCTCGCTTGAGACAGTTTTCCCTTGAAACACA
AATTTTGAAATTGTTTCACTGCAAACAAAAAATTATCT
Found at i:6155084 original size:6 final size:7
Alignment explanation
Indices: 6155073--6155098 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
6155063 ATTTTTCATC
6155073 GAAAAAA
1 GAAAAAA
6155080 GAAAAAA
1 GAAAAAA
6155087 GAAAAAA
1 GAAAAAA
6155094 GAAAA
1 GAAAA
6155099 GCATTGTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
GAAAAAA
Found at i:6156689 original size:35 final size:35
Alignment explanation
Indices: 6156649--6156716 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
6156639 ACTTAAACTC
** *
6156649 TTAAAAATTTGAATTACATAATTCAAACATAAAGT
1 TTAAAAATTCAAAATACATAATTCAAACATAAAGT
* *
6156684 TTAAAAATTCAAAATGCATAATTCAAATATAAA
1 TTAAAAATTCAAAATACATAATTCAAACATAAA
6156717 ACTTAAAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.54, C:0.09, G:0.04, T:0.32
Consensus pattern (35 bp):
TTAAAAATTCAAAATACATAATTCAAACATAAAGT
Found at i:6156723 original size:35 final size:35
Alignment explanation
Indices: 6156665--6156732 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
6156655 ATTTGAATTA
**
6156665 CATAATTCAAACATAAAGTTTAAAA-ATTCAAAATG
1 CATAATTCAAACATAAAACTTAAAATATT-AAAATG
*
6156700 CATAATTCAAATATAAAACTTAAAATATTAAAA
1 CATAATTCAAACATAAAACTTAAAATATTAAAA
6156733 GTCTAAAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 26 0.90
36 3 0.10
ACGTcount: A:0.57, C:0.10, G:0.03, T:0.29
Consensus pattern (35 bp):
CATAATTCAAACATAAAACTTAAAATATTAAAATG
Found at i:6159170 original size:150 final size:150
Alignment explanation
Indices: 6158827--6159201 Score: 438
Period size: 150 Copynumber: 2.5 Consensus size: 150
6158817 GAAATATTTT
* *
6158827 AAAAGGATATTA-TTTCATAC-AAACAATCATTGAAAACACACTCTTTGTCAGTCAAGGCACGTT
1 AAAAGGATATTATTTTC-TACTAAACAATCA-TGGAAACACACTCCTTGTCAGTCAAGGCACGTT
* *
6158890 TCCATAAATTCCATATAAGAAATAATATTACCTTATTTTTAAAAATAAAATACATATATTTAATA
64 TCCATAAATTCCACACAAGAAATAATATTACCTTATTTTT-AAAATAAAATACATATATTTAATA
*
6158955 TATTCATAACTCACTCGAATACA
128 TATTCAGAACTCACTCGAATACA
* * * * *
6158978 AAAAGGATATTATTTTCTACTGAA-AATCCTTGAAGACACACTCCATGTCAGTCAAGGCGCGTTT
1 AAAAGGATATTATTTTCTACTAAACAATCATGGAA-ACACACTCCTTGTCAGTCAAGGCACGTTT
* *
6159042 CTATAAATTCCCCACACA-AAATAATATTACCTTAATTTTT-AAATAAAATACATATATTTAATA
65 CCATAAATTCCACACA-AGAAATAATATTACCTT-ATTTTTAAAATAAAATACATATATTTAATA
* * * * *
6159105 TATTTAGAATTCGCTTGAATATA
128 TATTCAGAACTCACTCGAATACA
* * * * * *
6159128 AAAATGATGTTATTTTGTA-TAAACAATCATCGGAAACACACTCCTTGTCAGTTAAGGTAAGTTT
1 AAAAGGATATTATTTTCTACTAAACAATCAT-GGAAACACACTCCTTGTCAGTCAAGGCACGTTT
6159192 CCATAAATTC
65 CCATAAATTC
6159202 ATCGGATAAA
Statistics
Matches: 188, Mismatches: 29, Indels: 15
0.81 0.12 0.06
Matches are distributed among these distances:
149 3 0.02
150 97 0.52
151 75 0.40
152 13 0.07
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.34
Consensus pattern (150 bp):
AAAAGGATATTATTTTCTACTAAACAATCATGGAAACACACTCCTTGTCAGTCAAGGCACGTTTC
CATAAATTCCACACAAGAAATAATATTACCTTATTTTTAAAATAAAATACATATATTTAATATAT
TCAGAACTCACTCGAATACA
Found at i:6159805 original size:54 final size:54
Alignment explanation
Indices: 6159699--6159806 Score: 144
Period size: 54 Copynumber: 2.0 Consensus size: 54
6159689 AATTATAATC
* * ** *
6159699 GAAGATGTACGTACTTACACCAGTGTAAATATGTGTTAAGTACTACACTTTTTG
1 GAAGATGTACATACCTACACCAAAGTAAATATGTGTTAAGTACCACACTTTTTG
* * *
6159753 GAAGATGTACATACCTACACCAAAGTAAGTATGTGTTAAGTGCCACATTTTTTG
1 GAAGATGTACATACCTACACCAAAGTAAATATGTGTTAAGTACCACACTTTTTG
6159807 TTGTATGAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (54 bp):
GAAGATGTACATACCTACACCAAAGTAAATATGTGTTAAGTACCACACTTTTTG
Found at i:6161663 original size:12 final size:12
Alignment explanation
Indices: 6161648--6161702 Score: 74
Period size: 12 Copynumber: 4.6 Consensus size: 12
6161638 GTTATTTAAA
6161648 CGGGTATTGGGC
1 CGGGTATTGGGC
*
6161660 CGGGTATTGGGT
1 CGGGTATTGGGC
6161672 CGGGTATTGGGC
1 CGGGTATTGGGC
* * *
6161684 CGAGAATCGGGC
1 CGGGTATTGGGC
6161696 CGGGTAT
1 CGGGTAT
6161703 ATATATATTT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 36 1.00
ACGTcount: A:0.13, C:0.16, G:0.47, T:0.24
Consensus pattern (12 bp):
CGGGTATTGGGC
Found at i:6161864 original size:13 final size:13
Alignment explanation
Indices: 6161808--6161851 Score: 72
Period size: 13 Copynumber: 3.5 Consensus size: 13
6161798 TTTAATATTT
*
6161808 ATCGGGTCGGGT-
1 ATCGGGGCGGGTA
6161820 ATCGGGGCGGGTA
1 ATCGGGGCGGGTA
6161833 ATCGGGGCGGGTA
1 ATCGGGGCGGGTA
6161846 ATCGGG
1 ATCGGG
6161852 TAATCGGGGC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
12 11 0.37
13 19 0.63
ACGTcount: A:0.14, C:0.16, G:0.52, T:0.18
Consensus pattern (13 bp):
ATCGGGGCGGGTA
Found at i:6162524 original size:28 final size:28
Alignment explanation
Indices: 6162484--6162549 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 28
6162474 TGAATTTTAG
6162484 ATGACGCGCAATTGTGTGTCATAAATCT
1 ATGACGCGCAATTGTGTGTCATAAATCT
* *
6162512 ATGACGCTCAATTGTGTGTCATAAATTT
1 ATGACGCGCAATTGTGTGTCATAAATCT
6162540 ATGACGCGCA
1 ATGACGCGCA
6162550 TTTATGATGC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (28 bp):
ATGACGCGCAATTGTGTGTCATAAATCT
Found at i:6162554 original size:13 final size:13
Alignment explanation
Indices: 6162536--6162577 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
6162526 TGTGTCATAA
6162536 ATTTATGACGCGC
1 ATTTATGACGCGC
* *
6162549 ATTTATGATGCAC
1 ATTTATGACGCGC
*
6162562 ATTTATGACGAGC
1 ATTTATGACGCGC
6162575 ATT
1 ATT
6162578 GAGTGTCATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (13 bp):
ATTTATGACGCGC
Found at i:6162807 original size:2 final size:2
Alignment explanation
Indices: 6162800--6162874 Score: 134
Period size: 2 Copynumber: 37.5 Consensus size: 2
6162790 TCATAATACT
6162800 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6162842 TA TA TA TA TA TA TA TA TA TCA TA T- TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA T
6162875 GCAATCCATT
Statistics
Matches: 71, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.01
2 68 0.96
3 2 0.03
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6165672 original size:23 final size:24
Alignment explanation
Indices: 6165626--6165672 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
6165616 ATATTTTTGC
*
6165626 GTGTTTTAGTGTATTTATAGGGTG
1 GTGTTTTAGTGTATTTATAAGGTG
6165650 GTGTTTT-GTGTATGTTA-AAGGTG
1 GTGTTTTAGTGTAT-TTATAAGGTG
6165673 CATGGTGATC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.17, C:0.00, G:0.34, T:0.49
Consensus pattern (24 bp):
GTGTTTTAGTGTATTTATAAGGTG
Found at i:6173775 original size:39 final size:38
Alignment explanation
Indices: 6173728--6173806 Score: 115
Period size: 39 Copynumber: 2.1 Consensus size: 38
6173718 TATTTAAGGG
* *
6173728 TGGGATTGAAGAGTCTTTTGGGAGTTAGATAT-TTTTAT
1 TGGGATTGAAGAGTCTCTTGGGAGTTA-AAATGTTTTAT
6173766 TGGGAATTGAAGAGTCTCTTGGGAGTTAAAATGTTTTAT
1 TGGG-ATTGAAGAGTCTCTTGGGAGTTAAAATGTTTTAT
6173805 TG
1 TG
6173807 TAAATTTAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
38 7 0.19
39 30 0.81
ACGTcount: A:0.25, C:0.04, G:0.29, T:0.42
Consensus pattern (38 bp):
TGGGATTGAAGAGTCTCTTGGGAGTTAAAATGTTTTAT
Found at i:6174659 original size:63 final size:63
Alignment explanation
Indices: 6174553--6174676 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
6174543 TCCTAAGGGA
* * **
6174553 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCATGGAGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCACAGAGCCTACCTAAGAAC
* * *
6174616 ACATCTTAGGG-CTGCAGGGCCTACCCGAGA-ATGATCTCAGGGCCGCAGAGCCTACCTAAGA
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAGATA-GATCTCAGGGCCACAGAGCCTACCTAAGA
6174677 GTCACATTAG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 4 0.08
63 48 0.92
ACGTcount: A:0.27, C:0.28, G:0.27, T:0.18
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCACAGAGCCTACCTAAGAAC
Found at i:6175689 original size:29 final size:29
Alignment explanation
Indices: 6175557--6175677 Score: 145
Period size: 29 Copynumber: 4.2 Consensus size: 29
6175547 CACATTCAAA
* *
6175557 AATTCCCAGAATGTCACCTTTTTAAAAAT
1 AATTCCCAGAATATCACCTTTTTCAAAAT
** *
6175586 AATTCCCAGAATATCATTTTTTTTAAAA-
1 AATTCCCAGAATATCACCTTTTTCAAAAT
* * *
6175614 AATTCCCATAATTTCACTTTTTTCAAAAT
1 AATTCCCAGAATATCACCTTTTTCAAAAT
* *
6175643 AATTCCTAGAATATCACCATTTTCAAAAT
1 AATTCCCAGAATATCACCTTTTTCAAAAT
6175672 AATTCC
1 AATTCC
6175678 TAAAATGTCA
Statistics
Matches: 78, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 24 0.31
29 54 0.69
ACGTcount: A:0.38, C:0.20, G:0.03, T:0.39
Consensus pattern (29 bp):
AATTCCCAGAATATCACCTTTTTCAAAAT
Found at i:6182544 original size:10 final size:10
Alignment explanation
Indices: 6182529--6182554 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
6182519 TGATCTAGAA
6182529 GAGCTGGGTC
1 GAGCTGGGTC
6182539 GAGCTGGGTC
1 GAGCTGGGTC
6182549 GAGCTG
1 GAGCTG
6182555 TCGAACGATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.12, C:0.19, G:0.50, T:0.19
Consensus pattern (10 bp):
GAGCTGGGTC
Found at i:6183006 original size:29 final size:29
Alignment explanation
Indices: 6182968--6183046 Score: 122
Period size: 29 Copynumber: 2.7 Consensus size: 29
6182958 GTCCACATTC
*
6182968 AAAAATTCCCAGAATGTTACCTTTTTCAA
1 AAAAATTCCCAGAATGTCACCTTTTTCAA
* *
6182997 AATAATTCCCAGAATGTCACTTTTTTCAA
1 AAAAATTCCCAGAATGTCACCTTTTTCAA
*
6183026 AAAAATTCCCAAAATGTCACC
1 AAAAATTCCCAGAATGTCACC
6183047 GGGTCGGGTC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.39, C:0.23, G:0.06, T:0.32
Consensus pattern (29 bp):
AAAAATTCCCAGAATGTCACCTTTTTCAA
Found at i:6183097 original size:29 final size:29
Alignment explanation
Indices: 6183055--6183112 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
6183045 CCGGGTCGGG
6183055 TCAGACCGGTTTGGACCGGTCAAACCGGT
1 TCAGACCGGTTTGGACCGGTCAAACCGGT
* *
6183084 TCAGATCGGTTTGGACCGGTCAAGCCGGT
1 TCAGACCGGTTTGGACCGGTCAAACCGGT
6183113 CAACATGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.19, C:0.26, G:0.33, T:0.22
Consensus pattern (29 bp):
TCAGACCGGTTTGGACCGGTCAAACCGGT
Found at i:6186046 original size:21 final size:21
Alignment explanation
Indices: 6186002--6186047 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
6185992 GAAATCTTTA
* *
6186002 AATTAGATACTCAAGGAAGTT
1 AATTAGATACTCAAGCAAGGT
6186023 AATTAGATA-TCAATGCAAGGT
1 AATTAGATACTCAA-GCAAGGT
6186044 AATT
1 AATT
6186048 GTAATATTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.43, C:0.09, G:0.17, T:0.30
Consensus pattern (21 bp):
AATTAGATACTCAAGCAAGGT
Found at i:6188048 original size:21 final size:21
Alignment explanation
Indices: 6187998--6188050 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
6187988 TTTTCTTTTC
*
6187998 TTTGTTTTATTTTCGTTATAG
1 TTTGTTTTATGTTCGTTATAG
*
6188019 TTT-TGTTTATGTTGGTTTATA-
1 TTTGT-TTTATGTTCG-TTATAG
6188040 TTTGTTTTATG
1 TTTGTTTTATG
6188051 GTATTTTTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
20 1 0.04
21 20 0.74
22 6 0.22
ACGTcount: A:0.13, C:0.02, G:0.17, T:0.68
Consensus pattern (21 bp):
TTTGTTTTATGTTCGTTATAG
Found at i:6197493 original size:24 final size:24
Alignment explanation
Indices: 6197465--6197512 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
6197455 ATTTAATTGC
*
6197465 ATGTATCTTTAATTTATAAAATAT
1 ATGTATATTTAATTTATAAAATAT
*
6197489 ATGTATATTTAATTTGTAAAATAT
1 ATGTATATTTAATTTATAAAATAT
6197513 GATAAATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (24 bp):
ATGTATATTTAATTTATAAAATAT
Found at i:6214083 original size:58 final size:56
Alignment explanation
Indices: 6214046--6214182 Score: 158
Period size: 56 Copynumber: 2.5 Consensus size: 56
6214036 TAAGATATTT
*
6214046 ATACTAAGTGTATGAA-TTTCTGTATGGGCATTTGGTGTACAAAAATAAGGAAATTC
1 ATACAAAGTGTATGAATTTTC-GTATGGGCATTTGGTGTACAAAAATAAGGAAATTC
* * *
6214102 ATACAAAGTGTATGAATTTTCGTATGGGCACTAT-GTTTGC-AAAATAA-GAAATTC
1 ATACAAAGTGTATGAATTTTCGTATGGGCA-TTTGGTGTACAAAAATAAGGAAATTC
* * *
6214156 ATTCCAAG-GTATGAATGTTCGTATGGG
1 ATACAAAGTGTATGAATTTTCGTATGGG
6214183 AAAATATATG
Statistics
Matches: 72, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
53 18 0.25
54 13 0.18
55 7 0.10
56 28 0.39
57 6 0.08
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.34
Consensus pattern (56 bp):
ATACAAAGTGTATGAATTTTCGTATGGGCATTTGGTGTACAAAAATAAGGAAATTC
Found at i:6214506 original size:68 final size:68
Alignment explanation
Indices: 6214395--6214608 Score: 243
Period size: 68 Copynumber: 3.1 Consensus size: 68
6214385 AAAGATTAAT
* * * * * * *
6214395 AGGCCTAACTATGCATTTGACATAAATGTGTTATTTATGCCAGTTAGATGAAAGGCTAAGTGTCT
1 AGGCCTAACTGTGCATCTGACAAAAAGGTGTCATTTATACCAGTTAGATGAAAGGCTAAGTGCCT
*
6214460 TTG
66 TTA
* * *
6214463 AGGCCTAACTGTGC-TCATGACACAAAGGTGTCATTTATACCAGTTAGATTAAAGACTAAGTGCC
1 AGGCCTAACTGTGCATC-TGACAAAAAGGTGTCATTTATACCAGTTAGATGAAAGGCTAAGTGCC
6214527 TTTA
65 TTTA
* * * * *
6214531 AGGCCTAACTGTGCTTCTGACAAAAAGGTATCATTTA-AGCTAGTTATATGGAAGGCTAAGTGCC
1 AGGCCTAACTGTGCATCTGACAAAAAGGTGTCATTTATA-CCAGTTAGATGAAAGGCTAAGTGCC
*
6214595 TTTT
65 TTTA
6214599 AGGCCTAACT
1 AGGCCTAACT
6214609 ATGTAATTGG
Statistics
Matches: 125, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
67 2 0.02
68 121 0.97
69 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (68 bp):
AGGCCTAACTGTGCATCTGACAAAAAGGTGTCATTTATACCAGTTAGATGAAAGGCTAAGTGCCT
TTA
Found at i:6214646 original size:136 final size:136
Alignment explanation
Indices: 6214395--6214647 Score: 294
Period size: 136 Copynumber: 1.9 Consensus size: 136
6214385 AAAGATTAAT
* * * * * *
6214395 AGGCCTAACTATGCATTTGACATAAATGTGTTATTTATGCCAGTTAGATGAAAGGCTAAGTGTCT
1 AGGCCTAACTATGCATTTGACAAAAAGGTATCATTTAAGCCAGTTAGATGAAAGGCTAAGTGCCT
* * * * *
6214460 TTGAGGCCTAACTGTGCTCATGACACAAAGGTGTCATTTATACCAGTTAGATTAAAGACTAAGTG
66 TTGAGGCCTAACTATGCTAATGACACAAAGGTGACAATTATACCAATTAGATTAAAGACTAAGTG
6214525 CCTTTA
131 CCTTTA
* * * *
6214531 AGGCCTAACTGTGC-TTCTGACAAAAAGGTATCATTTAAGCTAGTTATATGGAAGGCTAAGTGCC
1 AGGCCTAACTATGCATT-TGACAAAAAGGTATCATTTAAGCCAGTTAGATGAAAGGCTAAGTGCC
* ** * *
6214595 TTTTAGGCCTAACTATG-TAATTGGTAGAAAGGTGACAATTATGCCAATTAGAT
65 TTTGAGGCCTAACTATGCTAA-TGACACAAAGGTGACAATTATACCAATTAGAT
6214648 GAACGGTTAA
Statistics
Matches: 95, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
135 4 0.04
136 91 0.96
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (136 bp):
AGGCCTAACTATGCATTTGACAAAAAGGTATCATTTAAGCCAGTTAGATGAAAGGCTAAGTGCCT
TTGAGGCCTAACTATGCTAATGACACAAAGGTGACAATTATACCAATTAGATTAAAGACTAAGTG
CCTTTA
Found at i:6214737 original size:81 final size:81
Alignment explanation
Indices: 6214600--6215082 Score: 655
Period size: 81 Copynumber: 6.0 Consensus size: 81
6214590 GTGCCTTTTA
* * * * *
6214600 GGCCTAACTATGTAATTGGTAGAAAGGTGACAATTATGCCAATTAGATGAACGGTTAAATATCGT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTGCCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
6214665 TGAGTAAATGAATAAT
66 TGAGTAAATGAATAAT
* * *
6214681 GGCCTAACTGTGCAATTGGTAGAAATGTGCCAATTATGCCAGTTAGATGAATGGTTAAATATCGT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTGCCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
*
6214746 TGAGTAAAAGAATAAT
66 TGAGTAAATGAATAAT
* * * * * * *
6214762 GACCAAATTGTGTAATTGGTAGAAAGGTGCCAATTATGCTAGTTAAATGAACGGTTAAATACCTT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTGCCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
*
6214827 TGAGTAAAAGAATAAT
66 TGAGTAAATGAATAAT
* **
6214843 GGCCTAATTGTGCAATTGGTAGAAATATGCCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTGCCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
6214908 TGAGT-AATAGAATAAT
66 TGAGTAAAT-GAATAAT
* * *
6214924 GGCCTAACTGTGCAATTGGTAGAAAGGTGCCAATTATACCAGTTAGATGAATGGTTAAATACTGT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTGCCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
6214989 TGAGTAAAAT-AATAAT
66 TGAGT-AAATGAATAAT
* * * * * *
6215005 GGCCTAACTCTGCAATTGGTAGAAAGGTGCTAATTATGCCCGTCAGATGAACGATTAAACACCGT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTGCCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
*
6215070 TAAGTAAAATGAA
66 TGAGT-AAATGAA
6215083 AAGTTAAACA
Statistics
Matches: 356, Mismatches: 42, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
80 2 0.01
81 349 0.98
82 2 0.01
83 3 0.01
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (81 bp):
GGCCTAACTGTGCAATTGGTAGAAAGGTGCCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
TGAGTAAATGAATAAT
Found at i:6218279 original size:16 final size:16
Alignment explanation
Indices: 6218258--6218290 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
6218248 TGGATGACTG
6218258 AGTTCAGGAGATCAGA
1 AGTTCAGGAGATCAGA
6218274 AGTTCAGGAGATCAGA
1 AGTTCAGGAGATCAGA
6218290 A
1 A
6218291 CAGGTTATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.12, G:0.30, T:0.18
Consensus pattern (16 bp):
AGTTCAGGAGATCAGA
Found at i:6218576 original size:23 final size:23
Alignment explanation
Indices: 6218549--6218613 Score: 96
Period size: 23 Copynumber: 2.8 Consensus size: 23
6218539 ATTCTGGTCA
*
6218549 TGTATCAGATCAGAATCCATGT-
1 TGTATCAGATCAGAATCCATATC
*
6218571 TAGTATCAGATTAGAATCCATATC
1 T-GTATCAGATCAGAATCCATATC
6218595 TGTATCAGATCAGAATCCA
1 TGTATCAGATCAGAATCCA
6218614 GGTCAGGTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
22 1 0.03
23 36 0.95
24 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.31
Consensus pattern (23 bp):
TGTATCAGATCAGAATCCATATC
Found at i:6223088 original size:34 final size:34
Alignment explanation
Indices: 6223045--6223122 Score: 147
Period size: 34 Copynumber: 2.3 Consensus size: 34
6223035 TGATAAGGGG
*
6223045 TATCGATACCAAGCAACATCGAATTTAATTTTTA
1 TATCGATACCAAGCAACATCGAATCTAATTTTTA
6223079 TATCGATACCAAGCAACATCGAATCTAATTTTTA
1 TATCGATACCAAGCAACATCGAATCTAATTTTTA
6223113 TATCGATACC
1 TATCGATACC
6223123 GAAAGGGGGT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.33
Consensus pattern (34 bp):
TATCGATACCAAGCAACATCGAATCTAATTTTTA
Found at i:6223693 original size:56 final size:53
Alignment explanation
Indices: 6223619--6223765 Score: 163
Period size: 56 Copynumber: 2.7 Consensus size: 53
6223609 GCAAAAATTG
*
6223619 TAAGATATTCATACTAAGTGTATGAATTTCTGTATGGGCACTT-GGTGTGCAAAAA
1 TAAGAAATTCATACTAAGTGTATGAATTTC-GTATGGGCA-TTAGGTGTGC-AAAA
* * * * *
6223674 TAAGGAAATTCATGCTAAGTGTATGAATTTCCGTAT-GGCATTATGTTTGCGAAC
1 TAA-GAAATTCATACTAAGTGTATGAATTT-CGTATGGGCATTAGGTGTGCAAAA
*
6223728 TAAGAAATTCATACCAAGTGTATGAATGTTCGTATGGG
1 TAAGAAATTCATACTAAGTGTATGAAT-TTCGTATGGG
6223766 AAAATATATG
Statistics
Matches: 79, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
53 27 0.34
54 11 0.14
55 12 0.15
56 28 0.35
57 1 0.01
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.34
Consensus pattern (53 bp):
TAAGAAATTCATACTAAGTGTATGAATTTCGTATGGGCATTAGGTGTGCAAAA
Found at i:6223762 original size:53 final size:53
Alignment explanation
Indices: 6223605--6223764 Score: 162
Period size: 53 Copynumber: 2.9 Consensus size: 53
6223595 ATGACACTAA
*
6223605 GTGTGCAAAAATTGTAAGATATTCATACTAAGTGTATGAATTTCTGTATGGGCACTTG
1 GTGTGCAAAAA---TAAGAAATTCATACTAAGTGTATGAATTTC-GTAT-GGCACTTG
* *
6223663 GTGTGCAAAAATAAGGAAATTCATGCTAAGTGTATGAATTTCCGTATGGCA-TTAT
1 GTGTGCAAAAATAA-GAAATTCATACTAAGTGTATGAATTT-CGTATGGCACTT-G
* * * *
6223718 GTTTGC-GAACTAAGAAATTCATACCAAGTGTATGAATGTTCGTATGG
1 GTGTGCAAAAATAAGAAATTCATACTAAGTGTATGAAT-TTCGTATGG
6223765 GAAAATATAT
Statistics
Matches: 90, Mismatches: 8, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
53 29 0.32
54 9 0.10
55 12 0.13
56 28 0.31
57 1 0.01
58 11 0.12
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.34
Consensus pattern (53 bp):
GTGTGCAAAAATAAGAAATTCATACTAAGTGTATGAATTTCGTATGGCACTTG
Found at i:6224161 original size:68 final size:68
Alignment explanation
Indices: 6224016--6224165 Score: 158
Period size: 68 Copynumber: 2.2 Consensus size: 68
6224006 TATCATTTAG
* * * * * * * *
6224016 GCCATATAGATGAAAGGCTAAGTGCCTTTGAGGATTAACTCTGCTTATGACATAAAGGTGTCATT
1 GCCATTTAGATGAAAGGCTAAGTGCCTTTGAGGACTAACTATGCATATGACAGAAAAGTGCCAAT
6224081 TAA
66 TAA
* * * **
6224084 GCGAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTATGCA-ATTGGTAGAAAAGTGCCAA
1 GCCATTTAGATGAAAGGCTAAGTGCCTTTGAGGACTAACTATGCATA-TGACAGAAAAGTGCCAA
*
6224148 TTAT
65 TTAA
6224152 GCCATTTAGATGAA
1 GCCATTTAGATGAA
6224166 TGGTTAAATA
Statistics
Matches: 65, Mismatches: 16, Indels: 2
0.78 0.19 0.02
Matches are distributed among these distances:
67 1 0.02
68 64 0.98
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.29
Consensus pattern (68 bp):
GCCATTTAGATGAAAGGCTAAGTGCCTTTGAGGACTAACTATGCATATGACAGAAAAGTGCCAAT
TAA
Found at i:6224252 original size:81 final size:81
Alignment explanation
Indices: 6224115--6224408 Score: 334
Period size: 81 Copynumber: 3.7 Consensus size: 81
6224105 GTGCCTTTGA
* *
6224115 GGCCTAACTATGCAATTGGTAGAAAAGTGCCAATTATGCCATTTAGATGAATGGTTAAATACCGT
1 GGCCTAACTATGCAATTGGTAGAAAAGTGCCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
*
6224180 TGAGTAAAAAAATAGT
66 TGAGTAAAAAAATAAT
* * * * * * *
6224196 GGCCTAACTGTGTAATTTGTTGAAAGGTGCCAATTATGCTAGTTAGATGGACGGTTAAATACCGT
1 GGCCTAACTATGCAATTGGTAGAAAAGTGCCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
**
6224261 TGAGTAAATGAATAAT
66 TGAGTAAAAAAATAAT
* *
6224277 GGCCTAACTATGCAATTGGTAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCG-
1 GGCCTAACTATGCAATTGGTAGAAAAGTGCCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
*
6224341 T---T----ACATAAT
66 TGAGTAAAAAAATAAT
* * * ** *
6224350 GGCCTAACTGTGCAATTGGTATAAAGGTGCCAATTATGTTAGTTATATGAACGAGTTAA
1 GGCCTAACTATGCAATTGGTAGAAAAGTGCCAATTATGCCAGTTAGATGAACG-GTTAA
6224409 CATTGTTGAA
Statistics
Matches: 183, Mismatches: 29, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
73 51 0.28
74 5 0.03
77 1 0.01
80 1 0.01
81 125 0.68
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.31
Consensus pattern (81 bp):
GGCCTAACTATGCAATTGGTAGAAAAGTGCCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
TGAGTAAAAAAATAAT
Found at i:6224394 original size:73 final size:74
Alignment explanation
Indices: 6224272--6224408 Score: 204
Period size: 73 Copynumber: 1.9 Consensus size: 74
6224262 GAGTAAATGA
* *
6224272 ATAATGGCCTAACTATGCAATTGGTAGAAATGTGTCAATTATGCCAGTTAGATGAACG-GTTAAA
1 ATAATGGCCTAACTATGCAATTGGTAGAAAGGTGCCAATTATGCCAGTTAGATGAACGAGTTAAA
6224336 TACCGTTAC
66 TACCGTTAC
* * ** *
6224345 ATAATGGCCTAACTGTGCAATTGGTATAAAGGTGCCAATTATGTTAGTTATATGAACGAGTTAA
1 ATAATGGCCTAACTATGCAATTGGTAGAAAGGTGCCAATTATGCCAGTTAGATGAACGAGTTAA
6224409 CATTGTTGAA
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
73 51 0.91
74 5 0.09
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.31
Consensus pattern (74 bp):
ATAATGGCCTAACTATGCAATTGGTAGAAAGGTGCCAATTATGCCAGTTAGATGAACGAGTTAAA
TACCGTTAC
Found at i:6231612 original size:90 final size:90
Alignment explanation
Indices: 6231482--6231648 Score: 298
Period size: 90 Copynumber: 1.9 Consensus size: 90
6231472 CCTAACACAC
*
6231482 CCTTTTATAGCCAAGTTACCCTAATCATATTAGAGTTTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGAGATTTTATTATTTCAAATTAATTAAATCTAT
6231547 ATTTAATTAATTGGAATTTAATAAT
66 ATTTAATTAATTGGAATTTAATAAT
* * *
6231572 CCTTTTATATCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATTTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGAGATTTTATTATTTCAAATTAATTAAATCTAT
6231637 ATTTAATTAATT
66 ATTTAATTAATT
6231649 AAAATTAAAT
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
90 73 1.00
ACGTcount: A:0.36, C:0.11, G:0.06, T:0.47
Consensus pattern (90 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATTAGAGATTTTATTATTTCAAATTAATTAAATCTAT
ATTTAATTAATTGGAATTTAATAAT
Found at i:6233461 original size:19 final size:19
Alignment explanation
Indices: 6233434--6233479 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
6233424 TGGTACTTAC
*
6233434 ACAATATCAAACTCATATA
1 ACAACATCAAACTCATATA
6233453 ACAACATCAAACTCATATA
1 ACAACATCAAACTCATATA
6233472 ACAACATC
1 ACAACATC
6233480 TGCCAGTTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.22
Consensus pattern (19 bp):
ACAACATCAAACTCATATA
Found at i:6234138 original size:172 final size:172
Alignment explanation
Indices: 6233852--6234198 Score: 694
Period size: 172 Copynumber: 2.0 Consensus size: 172
6233842 ACTATCAAAA
6233852 TACGAAATAAACTGTATACTTCATAAGAATCATTTAAAAACAATCTCAGCTAAACCAAGTTTCTA
1 TACGAAATAAACTGTATACTTCATAAGAATCATTTAAAAACAATCTCAGCTAAACCAAGTTTCTA
6233917 TCATATAATCATCGAAACTATTCTTAGTATGCCCAGTATACCTATCTATCTGTATTTTTCCAATT
66 TCATATAATCATCGAAACTATTCTTAGTATGCCCAGTATACCTATCTATCTGTATTTTTCCAATT
6233982 ACCTTTTATTTTGCCCAATGTATGTCAACTGAGAATGCAAGG
131 ACCTTTTATTTTGCCCAATGTATGTCAACTGAGAATGCAAGG
6234024 TACGAAATAAACTGTATACTTCATAAGAATCATTTAAAAACAATCTCAGCTAAACCAAGTTTCTA
1 TACGAAATAAACTGTATACTTCATAAGAATCATTTAAAAACAATCTCAGCTAAACCAAGTTTCTA
6234089 TCATATAATCATCGAAACTATTCTTAGTATGCCCAGTATACCTATCTATCTGTATTTTTCCAATT
66 TCATATAATCATCGAAACTATTCTTAGTATGCCCAGTATACCTATCTATCTGTATTTTTCCAATT
6234154 ACCTTTTATTTTGCCCAATGTATGTCAACTGAGAATGCAAGG
131 ACCTTTTATTTTGCCCAATGTATGTCAACTGAGAATGCAAGG
6234196 TAC
1 TAC
6234199 ATGCGTTGCA
Statistics
Matches: 175, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
172 175 1.00
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (172 bp):
TACGAAATAAACTGTATACTTCATAAGAATCATTTAAAAACAATCTCAGCTAAACCAAGTTTCTA
TCATATAATCATCGAAACTATTCTTAGTATGCCCAGTATACCTATCTATCTGTATTTTTCCAATT
ACCTTTTATTTTGCCCAATGTATGTCAACTGAGAATGCAAGG
Found at i:6234417 original size:112 final size:111
Alignment explanation
Indices: 6234218--6234448 Score: 327
Period size: 112 Copynumber: 2.1 Consensus size: 111
6234208 ACTGAAGTTC
* *
6234218 CGAAATGGTAATTCACCTCATTATGAATACCATGTGTGGCACCTCTTATGCCAAAAATGCACCAT
1 CGAAATGGTAATTCACCTCATTATGAATACCATGGGTGACACCTCTTATGCCAAAAATGCACCAT
* * * *
6234283 AATGCATTAAGCAAAATTGATCGATAACTTTCATACACGAAGTATGT
66 AATGCATTAAACAAAATCGATCGAT-ACTATCATACACAAAGTATGT
* * * * * *
6234330 CGAAATTGTAATTCACCTCATTATGAATACCATGGGTGACACCTTTTATGTCGAAATTGCACCGT
1 CGAAATGGTAATTCACCTCATTATGAATACCATGGGTGACACCTCTTATGCCAAAAATGCACCAT
*
6234395 TATGCATTAAACAAAATCGATCGATACTATCATACACAAAGTATGT
66 AATGCATTAAACAAAATCGATCGATACTATCATACACAAAGTATGT
*
6234441 CAAAATGG
1 CGAAATGG
6234449 ACCTATAACT
Statistics
Matches: 104, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
111 25 0.24
112 79 0.76
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (111 bp):
CGAAATGGTAATTCACCTCATTATGAATACCATGGGTGACACCTCTTATGCCAAAAATGCACCAT
AATGCATTAAACAAAATCGATCGATACTATCATACACAAAGTATGT
Found at i:6239009 original size:13 final size:13
Alignment explanation
Indices: 6238970--6239021 Score: 68
Period size: 13 Copynumber: 4.0 Consensus size: 13
6238960 GTCATAAATC
6238970 TATGACGCACATT
1 TATGACGCACATT
* *
6238983 TATGAAGCAAATT
1 TATGACGCACATT
*
6238996 TATGACGCGCATT
1 TATGACGCACATT
*
6239009 TATGACGCTCATT
1 TATGACGCACATT
6239022 GCGCGTCATT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (13 bp):
TATGACGCACATT
Found at i:6239168 original size:85 final size:85
Alignment explanation
Indices: 6238991--6239146 Score: 215
Period size: 85 Copynumber: 1.8 Consensus size: 85
6238981 TTTATGAAGC
* ** * * * *
6238991 AAATTTATGACGCGCATTTATGACGCTCATTGCGCGTCATTGAAGCCCCCGTCATAAATGAAGAT
1 AAATTTATGACACATATGTATGACGCTCATTGCGCGTCATTGAAGCACACGTCATAAATAAAGAT
6239056 GACACACATTTGTGTATCAT
66 GACACACATTTGTGTATCAT
* *
6239076 AAATTTATGACACATATGTATGATGCTCATTGCGTGTCATTGAAGCACACGTCATTAAA-AAAGA
1 AAATTTATGACACATATGTATGACGCTCATTGCGCGTCATTGAAGCACACGTCA-TAAATAAAGA
6239140 TGACACA
65 TGACACA
6239147 TATTCTTGTG
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
85 57 0.93
86 4 0.07
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (85 bp):
AAATTTATGACACATATGTATGACGCTCATTGCGCGTCATTGAAGCACACGTCATAAATAAAGAT
GACACACATTTGTGTATCAT
Found at i:6240461 original size:2 final size:2
Alignment explanation
Indices: 6240449--6240497 Score: 89
Period size: 2 Copynumber: 24.0 Consensus size: 2
6240439 ATATTCGTAC
6240449 AT AT GAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6240492 AT AT AT
1 AT AT AT
6240498 GTCTGCCAAG
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 44 0.96
3 2 0.04
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6251747 original size:21 final size:22
Alignment explanation
Indices: 6251708--6251749 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
6251698 TTGTCTGAAA
6251708 TCATTGAATCATTATTCTTAGC
1 TCATTGAATCATTATTCTTAGC
6251730 TCATT-AAT-ATTAGTTCTTAG
1 TCATTGAATCATTA-TTCTTAG
6251750 GTTTAATACT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 10 0.53
22 5 0.26
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.48
Consensus pattern (22 bp):
TCATTGAATCATTATTCTTAGC
Found at i:6254948 original size:21 final size:21
Alignment explanation
Indices: 6254923--6254962 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
6254913 AAGACTTTAT
6254923 TTTCAAAA-TACAAAAATGATA
1 TTTCAAAACTA-AAAAATGATA
6254944 TTTCAAAACTAAAAAATGA
1 TTTCAAAACTAAAAAATGA
6254963 AAATAGTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.57, C:0.10, G:0.05, T:0.28
Consensus pattern (21 bp):
TTTCAAAACTAAAAAATGATA
Found at i:6258804 original size:22 final size:22
Alignment explanation
Indices: 6258774--6258830 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
6258764 CTGCGTGCTA
*
6258774 GGTATCGATACCCCCTTGAATG
1 GGTACCGATACCCCCTTGAATG
** *
6258796 GGTACCGATATCATCTTTGAATG
1 GGTACCGATA-CCCCCTTGAATG
6258819 GGTACCGATACC
1 GGTACCGATACC
6258831 TCCCCATAAG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
22 10 0.34
23 19 0.66
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.28
Consensus pattern (22 bp):
GGTACCGATACCCCCTTGAATG
Found at i:6259339 original size:13 final size:14
Alignment explanation
Indices: 6259316--6259355 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
6259306 AAAACTATAT
6259316 ATTGATTTTCAAAC
1 ATTGATTTTCAAAC
6259330 ATTG-TTTTCAAAC
1 ATTGATTTTCAAAC
* *
6259343 ATAGTTTTTCAAA
1 ATTGATTTTCAAA
6259356 ATTTGCCCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.45
Consensus pattern (14 bp):
ATTGATTTTCAAAC
Found at i:6259921 original size:15 final size:15
Alignment explanation
Indices: 6259901--6259945 Score: 81
Period size: 15 Copynumber: 3.0 Consensus size: 15
6259891 CTAACGTATT
6259901 TGGATTAGATAATGA
1 TGGATTAGATAATGA
6259916 TGGATTAGATAATGA
1 TGGATTAGATAATGA
*
6259931 TGGCTTAGATAATGA
1 TGGATTAGATAATGA
6259946 AAAAGAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.38, C:0.02, G:0.27, T:0.33
Consensus pattern (15 bp):
TGGATTAGATAATGA
Found at i:6261129 original size:13 final size:13
Alignment explanation
Indices: 6261111--6261138 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
6261101 GGAGTAAGAC
6261111 AAAATTGATTTCA
1 AAAATTGATTTCA
6261124 AAAATTGATTTCA
1 AAAATTGATTTCA
6261137 AA
1 AA
6261139 TAAAATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (13 bp):
AAAATTGATTTCA
Found at i:6261564 original size:19 final size:19
Alignment explanation
Indices: 6261537--6261589 Score: 88
Period size: 19 Copynumber: 2.8 Consensus size: 19
6261527 ATGCTCTATG
6261537 GGTACCGATACCCCTTGGA
1 GGTACCGATACCCCTTGGA
* *
6261556 GGTATCGATACCCCCTGGA
1 GGTACCGATACCCCTTGGA
6261575 GGTACCGATACCCCT
1 GGTACCGATACCCCT
6261590 AGTCAATTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.21, C:0.34, G:0.25, T:0.21
Consensus pattern (19 bp):
GGTACCGATACCCCTTGGA
Found at i:6270672 original size:23 final size:23
Alignment explanation
Indices: 6270642--6270687 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
6270632 TCTGAAAGAA
6270642 TGAATCGAAAACTATTAGACATG
1 TGAATCGAAAACTATTAGACATG
6270665 TGAATCGAAAACTATTAGACATG
1 TGAATCGAAAACTATTAGACATG
6270688 ATTCGATCGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.26
Consensus pattern (23 bp):
TGAATCGAAAACTATTAGACATG
Found at i:6281715 original size:5 final size:5
Alignment explanation
Indices: 6281705--6281732 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
6281695 AATTTTTTTA
6281705 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
6281733 TAAATGGTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:6285790 original size:18 final size:18
Alignment explanation
Indices: 6285767--6285803 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
6285757 GAGTTACATC
6285767 AACTTCTACTTTCAACGG
1 AACTTCTACTTTCAACGG
6285785 AACTTCTACTTTCAACGG
1 AACTTCTACTTTCAACGG
6285803 A
1 A
6285804 GAAATATGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.27, G:0.11, T:0.32
Consensus pattern (18 bp):
AACTTCTACTTTCAACGG
Found at i:6293527 original size:20 final size:20
Alignment explanation
Indices: 6293502--6293549 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
6293492 GCTTCTCAAC
6293502 TCACTCTCAACATTTAGAAT
1 TCACTCTCAACATTTAGAAT
6293522 TCACTCTCAACATTTAGAAT
1 TCACTCTCAACATTTAGAAT
*
6293542 TAACTCTC
1 TCACTCTC
6293550 CAAGTGTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.35
Consensus pattern (20 bp):
TCACTCTCAACATTTAGAAT
Found at i:6297210 original size:17 final size:17
Alignment explanation
Indices: 6297190--6297223 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6297180 TGTTGAGCTT
* *
6297190 GATTCAAGCTTGAACTC
1 GATTAAAGCTCGAACTC
6297207 GATTAAAGCTCGAACTC
1 GATTAAAGCTCGAACTC
6297224 AAACTCGAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (17 bp):
GATTAAAGCTCGAACTC
Found at i:6297527 original size:21 final size:21
Alignment explanation
Indices: 6297502--6297595 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
6297492 TGTCATAACT
6297502 TAAACCCTAACACATAAACCC
1 TAAACCCTAACACATAAACCC
*
6297523 TAAACCTTAACACATAAACCC
1 TAAACCCTAACACATAAACCC
* * *
6297544 TAAACTCTAA-ACTTTAAACCT
1 TAAACCCTAACAC-ATAAACCC
* * *
6297565 TAAATCCTATCACATAAACTC
1 TAAACCCTAACACATAAACCC
*
6297586 TAAATCCTAA
1 TAAACCCTAA
6297596 ACCCTAAACC
Statistics
Matches: 59, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
20 2 0.03
21 55 0.93
22 2 0.03
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (21 bp):
TAAACCCTAACACATAAACCC
Found at i:6297528 original size:7 final size:7
Alignment explanation
Indices: 6297502--6297605 Score: 52
Period size: 7 Copynumber: 14.9 Consensus size: 7
6297492 TGTCATAACT
6297502 TAAACCC
1 TAAACCC
*
6297509 T-AACACA
1 TAAAC-CC
6297516 TAAACCC
1 TAAACCC
6297523 TAAA-CC
1 TAAACCC
* *
6297529 TTAACACA
1 TAAAC-CC
6297537 TAAACCC
1 TAAACCC
*
6297544 TAAACTC
1 TAAACCC
**
6297551 TAAACTT
1 TAAACCC
*
6297558 TAAACCT
1 TAAACCC
*
6297565 TAAATCC
1 TAAACCC
* *
6297572 T-ATCACA
1 TAAAC-CC
*
6297579 TAAACTC
1 TAAACCC
*
6297586 TAAATCC
1 TAAACCC
6297593 TAAACCC
1 TAAACCC
6297600 TAAACC
1 TAAACC
6297606 TTATCACATA
Statistics
Matches: 71, Mismatches: 20, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
6 9 0.13
7 52 0.73
8 10 0.14
ACGTcount: A:0.45, C:0.32, G:0.00, T:0.23
Consensus pattern (7 bp):
TAAACCC
Found at i:6297555 original size:35 final size:35
Alignment explanation
Indices: 6297502--6297616 Score: 90
Period size: 35 Copynumber: 3.1 Consensus size: 35
6297492 TGTCATAACT
*
6297502 TAAACCCTAACAC-ATAAACCCTAAACCTTAACACA
1 TAAACCCTAA-ACTCTAAACCCTAAACCTTAACACA
**
6297537 TAAACCCTAAACTCTAAACTTTAAACCTTAAATCCTATCACA
1 TAAACCCTAAACTCTAAACCCTAAACCTT--A----A-CACA
* *
6297579 TAAACTCTAAA-TCCTAAACCCTAAACCTTATCACA
1 TAAACCCTAAACT-CTAAACCCTAAACCTTAACACA
6297614 TAA
1 TAA
6297617 TTAGTTATGA
Statistics
Matches: 64, Mismatches: 7, Indels: 18
0.72 0.08 0.20
Matches are distributed among these distances:
34 2 0.03
35 30 0.47
37 1 0.02
40 1 0.02
41 2 0.03
42 28 0.44
ACGTcount: A:0.45, C:0.30, G:0.00, T:0.24
Consensus pattern (35 bp):
TAAACCCTAAACTCTAAACCCTAAACCTTAACACA
Found at i:6297596 original size:42 final size:42
Alignment explanation
Indices: 6297516--6297608 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 42
6297506 CCCTAACACA
* **
6297516 TAAACCCTAAACCTTAACACATAAACCCTAAACTCTAAACTT
1 TAAACCTTAAACCTTAACACATAAACCCTAAACTCTAAACCC
* *
6297558 TAAACCTTAAATCC-TATCACATAAACTCTAAA-TCCTAAACCC
1 TAAACCTTAAA-CCTTAACACATAAACCCTAAACT-CTAAACCC
6297600 TAAACCTTA
1 TAAACCTTA
6297609 TCACATAATT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
41 1 0.02
42 41 0.93
43 2 0.05
ACGTcount: A:0.44, C:0.30, G:0.00, T:0.26
Consensus pattern (42 bp):
TAAACCTTAAACCTTAACACATAAACCCTAAACTCTAAACCC
Found at i:6297888 original size:14 final size:14
Alignment explanation
Indices: 6297871--6297911 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
6297861 TTTATTCATC
6297871 AATAATGTATTTTT
1 AATAATGTATTTTT
6297885 AAT-A--TATTTTT
1 AATAATGTATTTTT
*
6297896 AATAATGTAATTTT
1 AATAATGTATTTTT
6297910 AA
1 AA
6297912 AAAATATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
11 10 0.43
12 1 0.04
13 1 0.04
14 11 0.48
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (14 bp):
AATAATGTATTTTT
Found at i:6300451 original size:120 final size:120
Alignment explanation
Indices: 6300316--6300555 Score: 435
Period size: 120 Copynumber: 2.0 Consensus size: 120
6300306 TAATTTACTA
*
6300316 TTATGATGATAAATATTTATTATAATTTAAAATATTTCTTATTTTGAATAAAATTAATAATTTCT
1 TTATGATGATAAATATTTATTATAATTTAAAATATTTCTTATTTTAAATAAAATTAATAATTTCT
*
6300381 ATTAGAAAAAACTTACTCACTTGCATGATTAAAGCCTATTAAAAGACTGTTGTGG
66 ATTAGAAAAAACTTACTCACTTACATGATTAAAGCCTATTAAAAGACTGTTGTGG
* *
6300436 TTATGATGATAAATATTTATTGTAATTTAAGATATTTCTTATTTTAAATAAAATTAATAATTTCT
1 TTATGATGATAAATATTTATTATAATTTAAAATATTTCTTATTTTAAATAAAATTAATAATTTCT
*
6300501 ATTAGAAAAAACTTACTCACTTACATGATTAAAGCCTATTAAAAGTCTGTTGTGG
66 ATTAGAAAAAACTTACTCACTTACATGATTAAAGCCTATTAAAAGACTGTTGTGG
6300556 CACCAAATTT
Statistics
Matches: 115, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 115 1.00
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (120 bp):
TTATGATGATAAATATTTATTATAATTTAAAATATTTCTTATTTTAAATAAAATTAATAATTTCT
ATTAGAAAAAACTTACTCACTTACATGATTAAAGCCTATTAAAAGACTGTTGTGG
Found at i:6305441 original size:20 final size:20
Alignment explanation
Indices: 6305412--6305449 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
6305402 TTTCAAAGTG
6305412 ATGCACCGATGCACCAATCC
1 ATGCACCGATGCACCAATCC
*
6305432 ATGCATCGATGCACCAAT
1 ATGCACCGATGCACCAAT
6305450 TATTTTGTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.34, G:0.16, T:0.18
Consensus pattern (20 bp):
ATGCACCGATGCACCAATCC
Found at i:6313657 original size:2 final size:2
Alignment explanation
Indices: 6313650--6313681 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6313640 CAGCTTAAGC
6313650 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6313682 CTTAATTGGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6315308 original size:3 final size:3
Alignment explanation
Indices: 6315302--6315348 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
6315292 AAAATTATAA
* *
6315302 AAG AAG ACA- AAG GAG AAG AAG AAG AAT AAG AAG AAG AAG AAG AAG
1 AAG AAG A-AG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
6315347 AA
1 AA
6315349 ATAGTAAGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
2 1 0.03
3 36 0.95
4 1 0.03
ACGTcount: A:0.66, C:0.02, G:0.30, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:6315949 original size:5 final size:5
Alignment explanation
Indices: 6315939--6315985 Score: 58
Period size: 5 Copynumber: 9.2 Consensus size: 5
6315929 AAAAAAGTAT
* * *
6315939 ATAAG ATAAG ATAAT ATATAG ATAAT ATAAG ATAAT ATAAG ATAAG A
1 ATAAG ATAAG ATAAG ATA-AG ATAAG ATAAG ATAAG ATAAG ATAAG A
6315986 AAAGTTATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
5 31 0.89
6 4 0.11
ACGTcount: A:0.60, C:0.00, G:0.13, T:0.28
Consensus pattern (5 bp):
ATAAG
Found at i:6315963 original size:21 final size:20
Alignment explanation
Indices: 6315939--6315985 Score: 76
Period size: 21 Copynumber: 2.3 Consensus size: 20
6315929 AAAAAAGTAT
6315939 ATAAGATAAGATAATATATAG
1 ATAAGATAAGATAATATA-AG
*
6315960 ATAATATAAGATAATATAAG
1 ATAAGATAAGATAATATAAG
6315980 ATAAGA
1 ATAAGA
6315986 AAAGTTATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.60, C:0.00, G:0.13, T:0.28
Consensus pattern (20 bp):
ATAAGATAAGATAATATAAG
Found at i:6315971 original size:10 final size:10
Alignment explanation
Indices: 6315939--6315983 Score: 72
Period size: 10 Copynumber: 4.4 Consensus size: 10
6315929 AAAAAAGTAT
*
6315939 ATAAGATAAG
1 ATAATATAAG
6315949 ATAATATATAG
1 ATAATATA-AG
6315960 ATAATATAAG
1 ATAATATAAG
6315970 ATAATATAAG
1 ATAATATAAG
6315980 ATAA
1 ATAA
6315984 GAAAAGTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
10 23 0.70
11 10 0.30
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.29
Consensus pattern (10 bp):
ATAATATAAG
Found at i:6322856 original size:36 final size:36
Alignment explanation
Indices: 6322815--6322951 Score: 229
Period size: 36 Copynumber: 3.8 Consensus size: 36
6322805 ATTTATCCAT
* *
6322815 TATCAGCTTTGATACTTTCGTGTATCAATTTTATCA
1 TATCAGCTTTGATACATTCGTGTATCAATGTTATCA
*
6322851 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
1 TATCAGCTTTGATACATTCGTGTATCAATGTTATCA
6322887 TATCAGCTTTGATACATTCGTGTATCAATGTTATCA
1 TATCAGCTTTGATACATTCGTGTATCAATGTTATCA
* *
6322923 TATCAGCTTTGGTATATTCGTGTATCAAT
1 TATCAGCTTTGATACATTCGTGTATCAAT
6322952 ATCGAGCGTT
Statistics
Matches: 95, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 95 1.00
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.44
Consensus pattern (36 bp):
TATCAGCTTTGATACATTCGTGTATCAATGTTATCA
Found at i:6336327 original size:22 final size:22
Alignment explanation
Indices: 6336301--6336355 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 22
6336291 TTAGTACAAA
*
6336301 GGGAATCGATACCCCCTTGAAG
1 GGGAACCGATACCCCCTTGAAG
* *
6336323 GGGAACCAATTCCCCCTTTGAAG
1 GGGAACCGATACCCCC-TTGAAG
6336346 GGGAACCGAT
1 GGGAACCGAT
6336356 TCTCCCCCAC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 13 0.46
23 15 0.54
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.18
Consensus pattern (22 bp):
GGGAACCGATACCCCCTTGAAG
Found at i:6336343 original size:23 final size:22
Alignment explanation
Indices: 6336312--6336362 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 22
6336302 GGAATCGATA
6336312 CCCCCTTGAAGGGGAACCAATT
1 CCCCCTTGAAGGGGAACCAATT
*
6336334 CCCCCTTTGAAGGGGAACCGATT
1 CCCCC-TTGAAGGGGAACCAATT
6336357 CTCCCC
1 C-CCCC
6336363 CACAGGGGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 5 0.19
23 17 0.65
24 4 0.15
ACGTcount: A:0.22, C:0.37, G:0.22, T:0.20
Consensus pattern (22 bp):
CCCCCTTGAAGGGGAACCAATT
Found at i:6342514 original size:18 final size:18
Alignment explanation
Indices: 6342473--6342531 Score: 82
Period size: 18 Copynumber: 3.2 Consensus size: 18
6342463 GTTTTGACCC
6342473 GACCCGACCCGACCCGGTTT
1 GACCCGACCCGACCC-G-TT
6342493 GACCCGACCCGACCCGTT
1 GACCCGACCCGACCCGTT
* *
6342511 GACCCGATCTGACCCGTT
1 GACCCGACCCGACCCGTT
6342529 GAC
1 GAC
6342532 TTTGACCAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
18 21 0.57
19 1 0.03
20 15 0.41
ACGTcount: A:0.17, C:0.44, G:0.24, T:0.15
Consensus pattern (18 bp):
GACCCGACCCGACCCGTT
Found at i:6343765 original size:32 final size:31
Alignment explanation
Indices: 6343681--6343765 Score: 75
Period size: 31 Copynumber: 2.7 Consensus size: 31
6343671 CTAATGTGAC
* * *
6343681 TCTTAGGTAGGCTTTGTGGCCCTGAGATCAT
1 TCTTAGGTAGGCCTCGTGGCCCTAAGATCAT
** *
6343712 TCTCGGGTAGGCC-CGGCGGCCCTAAGAT-ATGT
1 TCTTAGGTAGGCCTC-GTGGCCCTAAGATCA--T
6343744 TCTTAGGTAGGCCTCGTGGCCC
1 TCTTAGGTAGGCCTCGTGGCCC
6343766 CAAAACTTTC
Statistics
Matches: 41, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
30 1 0.02
31 21 0.51
32 18 0.44
33 1 0.02
ACGTcount: A:0.14, C:0.26, G:0.32, T:0.28
Consensus pattern (31 bp):
TCTTAGGTAGGCCTCGTGGCCCTAAGATCAT
Found at i:6348481 original size:32 final size:31
Alignment explanation
Indices: 6348408--6348483 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
6348398 CTAATGTGAC
* *
6348408 TCTTAGGTAGGCTCTACGGCCCTGAGATCAT
1 TCTTAGGTAGGCCCTACGGCCCTAAGATCAT
* * **
6348439 TCTCAGGTAGGCCCTGCGGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCTACGGCCCTAAGAT-CAT
6348471 TCTTAGGTAGGCC
1 TCTTAGGTAGGCC
6348484 TCGTGGACCC
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
31 24 0.65
32 13 0.35
ACGTcount: A:0.17, C:0.26, G:0.29, T:0.28
Consensus pattern (31 bp):
TCTTAGGTAGGCCCTACGGCCCTAAGATCAT
Found at i:6351035 original size:23 final size:23
Alignment explanation
Indices: 6351003--6351055 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
6350993 TAATACTTTA
* *
6351003 ATATATAAAAATATCAAATTAAAT
1 ATATAAAAAAATAT-AAATGAAAT
6351027 -TATAAAAAAAATATAAATGAAAT
1 ATAT-AAAAAAATATAAATGAAAT
6351050 ATATAA
1 ATATAA
6351056 TTATAATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 13 0.52
24 12 0.48
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (23 bp):
ATATAAAAAAATATAAATGAAAT
Found at i:6351054 original size:24 final size:24
Alignment explanation
Indices: 6351009--6351055 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
6350999 TTTAATATAT
*
6351009 AAAAATATCAAATTAAATTATAAA
1 AAAAATATCAAATGAAATTATAAA
6351033 AAAAATAT-AAATGAAATATATAA
1 AAAAATATCAAATGAAAT-TATAA
6351056 TTATAATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAAATATCAAATGAAATTATAAA
Found at i:6352750 original size:23 final size:23
Alignment explanation
Indices: 6352687--6352752 Score: 96
Period size: 23 Copynumber: 2.9 Consensus size: 23
6352677 CTGAATGATT
* *
6352687 CAGTGCTGACTGATTCAACAAAA
1 CAGTGCTGAATGATTCAGCAAAA
* *
6352710 TAGTGATGAATGATTCAGCAAAA
1 CAGTGCTGAATGATTCAGCAAAA
6352733 CAGTGCTGAATGATTCAGCA
1 CAGTGCTGAATGATTCAGCA
6352753 CAGAAGTACA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (23 bp):
CAGTGCTGAATGATTCAGCAAAA
Found at i:6352867 original size:15 final size:16
Alignment explanation
Indices: 6352831--6352869 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
6352821 AGAACCTCTG
*
6352831 AATCATTCAACATTTA
1 AATCATTCAACACTTA
6352847 AATCATTCAACACTT-
1 AATCATTCAACACTTA
6352862 AATCATTC
1 AATCATTC
6352870 TAAAGTAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.41, C:0.23, G:0.00, T:0.36
Consensus pattern (16 bp):
AATCATTCAACACTTA
Found at i:6355356 original size:21 final size:20
Alignment explanation
Indices: 6355326--6355378 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
6355316 AAACACAATA
6355326 AAAAATAAAAAGTAAAATGAT
1 AAAAATAAAAAG-AAAATGAT
* * *
6355347 TAAAACAAAATAGAATATGAT
1 AAAAATAAAA-AGAAAATGAT
6355368 AAAAATAAAAA
1 AAAAATAAAAA
6355379 TAAGGAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 1 0.04
21 23 0.88
22 2 0.08
ACGTcount: A:0.72, C:0.02, G:0.08, T:0.19
Consensus pattern (20 bp):
AAAAATAAAAAGAAAATGAT
Found at i:6355402 original size:76 final size:78
Alignment explanation
Indices: 6355292--6355461 Score: 175
Period size: 76 Copynumber: 2.2 Consensus size: 78
6355282 TCAAAAAAGG
* * * ** *
6355292 AAAAAGAAAAATAAAGATAAAATAAAACACAATAAAAAATAAAAAGT-AAAATGATTAAAACAAA
1 AAAAATAAAAATAAAGAAAAAATAAAACACAAT-AAAAATAAAAACTGAAAAAAAATAAAACAAA
* *
6355356 ATAG-AATAT-GAT
65 ATAGAAAAATAGAA
* *** * *
6355368 AAAAATAAAAATAAGGAAAAAATAAAATTGAATAAGATTAAAAACTGAAAAAAAATAAAACAAAA
1 AAAAATAAAAATAAAGAAAAAATAAAACACAATAAAAATAAAAACTGAAAAAAAATAAAACAAAA
6355433 TAGAAAAAATAGAA
66 TAG-AAAAATAGAA
6355447 AAAAATAAAAATAAA
1 AAAAATAAAAATAAA
6355462 ACATATATAA
Statistics
Matches: 75, Mismatches: 15, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
75 10 0.13
76 45 0.60
78 4 0.05
79 16 0.21
ACGTcount: A:0.74, C:0.03, G:0.08, T:0.16
Consensus pattern (78 bp):
AAAAATAAAAATAAAGAAAAAATAAAACACAATAAAAATAAAAACTGAAAAAAAATAAAACAAAA
TAGAAAAATAGAA
Found at i:6355432 original size:10 final size:9
Alignment explanation
Indices: 6355415--6355457 Score: 59
Period size: 10 Copynumber: 4.6 Consensus size: 9
6355405 TTAAAAACTG
6355415 AAAAAAAAT
1 AAAAAAAAT
6355424 AAAACAAAAT
1 AAAA-AAAAT
*
6355434 AGAAAAAAT
1 AAAAAAAAT
6355443 AGAAAAAAAT
1 A-AAAAAAAT
6355453 AAAAA
1 AAAAA
6355458 TAAAACATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 14 0.47
10 16 0.53
ACGTcount: A:0.84, C:0.02, G:0.05, T:0.09
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:6355433 original size:38 final size:37
Alignment explanation
Indices: 6355347--6355460 Score: 97
Period size: 38 Copynumber: 2.9 Consensus size: 37
6355337 GTAAAATGAT
*
6355347 TAAAACAAAATAGAATATGATAAAAATAAAAATAAGGA
1 TAAAACAAAATAGAATAAGATAAAAATAAAAATAA-GA
* * *
6355385 AAAAATAAAATTGAATAAGATTAAAAACTGAAAAA-AA-A
1 TAAAACAAAATAGAATAAGA-TAAAAA-T-AAAAATAAGA
* *
6355423 TAAAACAAAATAGAAAAAATAGAAAAAAATAAAAATAA
1 TAAAACAAAATAG--AATA-AGATAAAAATAAAAATAA
6355461 AACATATATA
Statistics
Matches: 60, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
38 32 0.53
39 9 0.15
40 11 0.18
41 8 0.13
ACGTcount: A:0.73, C:0.03, G:0.08, T:0.17
Consensus pattern (37 bp):
TAAAACAAAATAGAATAAGATAAAAATAAAAATAAGA
Found at i:6355441 original size:19 final size:18
Alignment explanation
Indices: 6355416--6355457 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
6355406 TAAAAACTGA
6355416 AAAAAAATA-AAACAAAAT
1 AAAAAAATAGAAA-AAAAT
6355434 AGAAAAAATAGAAAAAAAT
1 A-AAAAAATAGAAAAAAAT
6355453 AAAAA
1 AAAAA
6355458 TAAAACATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.23
19 14 0.64
20 3 0.14
ACGTcount: A:0.83, C:0.02, G:0.05, T:0.10
Consensus pattern (18 bp):
AAAAAAATAGAAAAAAAT
Found at i:6355619 original size:2 final size:2
Alignment explanation
Indices: 6355612--6355659 Score: 82
Period size: 2 Copynumber: 25.0 Consensus size: 2
6355602 AAATAAAATA
6355612 AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6355652 AT AT AT AT
1 AT AT AT AT
6355660 GCATAAATAA
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 2 0.05
2 42 0.95
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6355625 original size:19 final size:19
Alignment explanation
Indices: 6355603--6355658 Score: 73
Period size: 17 Copynumber: 3.1 Consensus size: 19
6355593 AAAACAAATA
*
6355603 AATAAAATAATATATATAT
1 AATAATATAATATATATAT
6355622 AAT-ATAT-ATATATATAT
1 AATAATATAATATATATAT
6355639 -ATAATATATATATATATAT
1 AATAATATA-ATATATATAT
6355658 A
1 A
6355659 TGCATAAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
16 2 0.06
17 14 0.44
18 3 0.09
19 13 0.41
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
AATAATATAATATATATAT
Found at i:6355659 original size:19 final size:19
Alignment explanation
Indices: 6355612--6355659 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
6355602 AAATAAAATA
6355612 ATATATATATAATATATAT
1 ATATATATATAATATATAT
6355631 ATATATATATAATATATAT
1 ATATATATATAATATATAT
6355650 ATATATATAT
1 ATATATATAT
6355660 GCATAAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
ATATATATATAATATATAT
Found at i:6355722 original size:15 final size:15
Alignment explanation
Indices: 6355679--6355766 Score: 54
Period size: 15 Copynumber: 5.5 Consensus size: 15
6355669 AAACGTTAGG
6355679 AAAAAATAAATAAA-A
1 AAAAAATAAA-AAATA
* **
6355694 AATAAACCAAAAATA
1 AAAAAATAAAAAATA
6355709 AAAAAATAAAAAATA
1 AAAAAATAAAAAATA
*
6355724 ATGAAAAA-AAATAATA
1 A--AAAAATAAAAAATA
*
6355740 ATGAAAATAATGAAAATA
1 A-AAAAATAA--AAAATA
6355758 AAAATAATA
1 AAAA-AATA
6355767 TATATATATA
Statistics
Matches: 55, Mismatches: 11, Indels: 11
0.71 0.14 0.14
Matches are distributed among these distances:
14 3 0.05
15 25 0.45
16 10 0.18
17 7 0.13
18 10 0.18
ACGTcount: A:0.77, C:0.02, G:0.03, T:0.17
Consensus pattern (15 bp):
AAAAAATAAAAAATA
Found at i:6355730 original size:19 final size:18
Alignment explanation
Indices: 6355686--6355733 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 18
6355676 AGGAAAAAAT
6355686 AAAT-AAAAAATAAACCAA
1 AAATAAAAAAATAAA-CAA
6355704 AAATAAAAAAATAAA-AA
1 AAATAAAAAAATAAACAA
6355721 ATAATGAAAAAAA
1 A-AAT-AAAAAAA
6355734 ATAATAATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 3 0.11
18 7 0.26
19 17 0.63
ACGTcount: A:0.81, C:0.04, G:0.02, T:0.12
Consensus pattern (18 bp):
AAATAAAAAAATAAACAA
Found at i:6355731 original size:26 final size:25
Alignment explanation
Indices: 6355679--6355766 Score: 79
Period size: 25 Copynumber: 3.5 Consensus size: 25
6355669 AAACGTTAGG
* **
6355679 AAAAAATAAATAAAAAATAAACCAAA
1 AAAAAAAAAATAAAAAAT-AATGAAA
*
6355705 AATAAAAAAATAAAAAATAATGAAA
1 AAAAAAAAAATAAAAAATAATGAAA
* *
6355730 AAAAATAATAAT-GAAAATAATGAAA
1 AAAAA-AAAAATAAAAAATAATGAAA
* *
6355755 ATAAAAATAATA
1 AAAAAAAAAATA
6355767 TATATATATA
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
24 6 0.12
25 25 0.48
26 21 0.40
ACGTcount: A:0.77, C:0.02, G:0.03, T:0.17
Consensus pattern (25 bp):
AAAAAAAAAATAAAAAATAATGAAA
Found at i:6355746 original size:13 final size:13
Alignment explanation
Indices: 6355716--6355765 Score: 57
Period size: 12 Copynumber: 3.8 Consensus size: 13
6355706 ATAAAAAAAT
6355716 AAAAAATAATGAA
1 AAAAAATAATGAA
6355729 AAAAAATAAT-AA
1 AAAAAATAATGAA
**
6355741 TGAAAATAATGAAA
1 AAAAAATAATG-AA
6355755 ATAAAAATAAT
1 A-AAAAATAAT
6355766 ATATATATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
12 10 0.33
13 10 0.33
14 2 0.07
15 8 0.27
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (13 bp):
AAAAAATAATGAA
Found at i:6355771 original size:2 final size:2
Alignment explanation
Indices: 6355764--6355796 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
6355754 AATAAAAATA
6355764 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 A
6355797 AATAGTAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6357174 original size:34 final size:31
Alignment explanation
Indices: 6357134--6357213 Score: 92
Period size: 30 Copynumber: 2.5 Consensus size: 31
6357124 GAGAAAAATT
**
6357134 AAATTTAAAAGTAAACAACGTTTCAAATTAAACC
1 AAATTTAAAAGTAAA-AA-GAGT-AAATTAAACC
6357168 AAATTTAAAAG-AAAAAGAGTAAATTAAACC
1 AAATTTAAAAGTAAAAAGAGTAAATTAAACC
*
6357198 AAA-TTAAAATTAAAAA
1 AAATTTAAAAGTAAAAA
6357214 TCTAAATTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
29 6 0.14
30 18 0.43
31 2 0.05
32 2 0.05
33 3 0.07
34 11 0.26
ACGTcount: A:0.61, C:0.09, G:0.06, T:0.24
Consensus pattern (31 bp):
AAATTTAAAAGTAAAAAGAGTAAATTAAACC
Found at i:6358442 original size:32 final size:32
Alignment explanation
Indices: 6358401--6358462 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
6358391 TTCGCGAAGG
6358401 TCAAATCTGAAAAACTTAGTTGATTTGCTTCA
1 TCAAATCTGAAAAACTTAGTTGATTTGCTTCA
*
6358433 TCAAATCTGAAAAACTTGGTTGATTTGCTT
1 TCAAATCTGAAAAACTTAGTTGATTTGCTT
6358463 TCTCGTCTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.39
Consensus pattern (32 bp):
TCAAATCTGAAAAACTTAGTTGATTTGCTTCA
Found at i:6358583 original size:49 final size:49
Alignment explanation
Indices: 6358433--6358585 Score: 184
Period size: 49 Copynumber: 3.1 Consensus size: 49
6358423 ATTTGCTTCA
* **
6358433 TCAAATCTGAAAAACTTGGTTGATTTGCTT-TCTCGTCTCTTCGTGAAGG
1 TCAAATATGAAAAACTTGGTTGATTTGCTTCT-TCGTCTCTTCGTGAAAT
* * ** *
6358482 TCAAATTTGAAAAACTTGGTTGATTTACTTCACCGTCTCTTTGT-AAAGT
1 TCAAATATGAAAAACTTGGTTGATTTGCTTCTTCGTCTCTTCGTGAAA-T
* *
6358531 TCAAATATGAAAAGCTTGATTGATTTGCTTCTTCGTCTCTTCGTGAAAT
1 TCAAATATGAAAAACTTGGTTGATTTGCTTCTTCGTCTCTTCGTGAAAT
6358580 TCAAAT
1 TCAAAT
6358586 CTGGAAATTT
Statistics
Matches: 87, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
48 2 0.02
49 82 0.94
50 3 0.03
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.40
Consensus pattern (49 bp):
TCAAATATGAAAAACTTGGTTGATTTGCTTCTTCGTCTCTTCGTGAAAT
Found at i:6358841 original size:95 final size:95
Alignment explanation
Indices: 6358714--6358888 Score: 235
Period size: 95 Copynumber: 1.8 Consensus size: 95
6358704 ACCGTTTATT
** * * * *
6358714 TGTGAAGATTAAATCTGGAAATATAGTGATTCACTCTATTGTTTCTTCATGAAGGATGAATCTGG
1 TGTGAAGACCAAATATGGAAAGATAGTGATTCACTCTATCGTCTCTTCATGAAGGATGAATCTGG
*
6358779 AAAAGTTACTGACTTACTTAACTATTTTTA
66 AAAAGTTAATGACTTACTTAACTATTTTTA
* * * *
6358809 TGTGAAGACCAAATATGGAAAGAT-GATGATTCACTCTATCGTCTCTTCGTGGATGATGAATTTG
1 TGTGAAGACCAAATATGGAAAGATAG-TGATTCACTCTATCGTCTCTTCATGAAGGATGAATCTG
6358873 GAAAAGTTAATGACTT
65 GAAAAGTTAATGACTT
6358889 GCTCTACCGT
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
94 1 0.01
95 67 0.99
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (95 bp):
TGTGAAGACCAAATATGGAAAGATAGTGATTCACTCTATCGTCTCTTCATGAAGGATGAATCTGG
AAAAGTTAATGACTTACTTAACTATTTTTA
Found at i:6358900 original size:48 final size:47
Alignment explanation
Indices: 6358842--6359043 Score: 148
Period size: 47 Copynumber: 4.3 Consensus size: 47
6358832 TGATGATTCA
* * *
6358842 CTCTATCGTCTCTTCGTGGATGATGAATTTGGAAAAGTTAATGACTTG
1 CTCTACCGTCTCTTCGTGAATGATGAATCT-GAAAAGTTAATGACTTG
*
6358890 CTCTACCGTCTCTTCGTGAATGATGAATCTGAAAAGTTGATGACTTG
1 CTCTACCGTCTCTTCGTGAATGATGAATCTGAAAAGTTAATGACTTG
* * * * *
6358937 TTGC-ACTGTCT-TT-GTGAA-GATCAAATTTGAAAAGATAATGA-TT-
1 CT-CTACCGTCTCTTCGTGAATGAT-GAATCTGAAAAGTTAATGACTTG
** * * * *
6358980 CTCTCCACTATCTCTTCATGAATGATGGATCTAGAAAA-TTGATGATTTG
1 CTCT--ACCGTCTCTTCGTGAATGATGAATCT-GAAAAGTTAATGACTTG
* *
6359029 CTCCACCATCTCTTC
1 CTCTACCGTCTCTTC
6359044 ACGGAGATCA
Statistics
Matches: 123, Mismatches: 20, Indels: 23
0.74 0.12 0.14
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 5 0.04
45 26 0.21
46 4 0.03
47 45 0.37
48 38 0.31
49 3 0.02
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (47 bp):
CTCTACCGTCTCTTCGTGAATGATGAATCTGAAAAGTTAATGACTTG
Found at i:6358970 original size:45 final size:47
Alignment explanation
Indices: 6358842--6358977 Score: 136
Period size: 48 Copynumber: 2.9 Consensus size: 47
6358832 TGATGATTCA
* * *
6358842 CTCTATCGTCTCTTCGTGGATGATGAATTTGGAAAAGTTAATGACTTG
1 CTCTACCGTCTCTTCGTGAATGATAAATTT-GAAAAGTTAATGACTTG
* * *
6358890 CTCTACCGTCTCTTCGTGAATGATGAATCTGAAAAGTTGATGACTTG
1 CTCTACCGTCTCTTCGTGAATGATAAATTTGAAAAGTTAATGACTTG
* * *
6358937 TTGC-ACTGTCT-TT-GTGAA-GATCAAATTTGAAAAGATAATGA
1 CT-CTACCGTCTCTTCGTGAATGAT-AAATTTGAAAAGTTAATGA
6358978 TTCTCTCCAC
Statistics
Matches: 76, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
44 3 0.04
45 20 0.26
46 2 0.03
47 23 0.30
48 28 0.37
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (47 bp):
CTCTACCGTCTCTTCGTGAATGATAAATTTGAAAAGTTAATGACTTG
Found at i:6359343 original size:8 final size:8
Alignment explanation
Indices: 6359330--6359366 Score: 56
Period size: 8 Copynumber: 4.5 Consensus size: 8
6359320 TGAAATGAAC
6359330 ATATATTT
1 ATATATTT
6359338 ATATATTT
1 ATATATTT
6359346 ATATATATT
1 ATATAT-TT
*
6359355 ATATATAT
1 ATATATTT
6359363 ATAT
1 ATAT
6359367 TGTATAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
8 19 0.70
9 8 0.30
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (8 bp):
ATATATTT
Found at i:6360720 original size:2 final size:2
Alignment explanation
Indices: 6360713--6360765 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
6360703 CGTTCGTTAC
6360713 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6360755 TA TA TA TA TA T
1 TA TA TA TA TA T
6360766 TATTCTTATT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6371401 original size:7 final size:7
Alignment explanation
Indices: 6371391--6371424 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
6371381 AAGAAAAAGA
6371391 AAAAAAC
1 AAAAAAC
6371398 AAAAAAC
1 AAAAAAC
6371405 AAAAAAC
1 AAAAAAC
6371412 AAAAAAC
1 AAAAAAC
6371419 AAAAAA
1 AAAAAA
6371425 GAGGAAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:6371497 original size:6 final size:6
Alignment explanation
Indices: 6371472--6371526 Score: 67
Period size: 6 Copynumber: 8.8 Consensus size: 6
6371462 GCCCTAAATT
*
6371472 AAAAAG AAAAA- AAAAGAG AAAAAG AACAAAAG AAAAAG AAAAAG AAAGAG
1 AAAAAG AAAAAG AAAA-AG AAAAAG -A-AAAAG AAAAAG AAAAAG AAAAAG
6371522 AAAAA
1 AAAAA
6371527 TAAGGTGGGT
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
5 4 0.09
6 28 0.65
7 6 0.14
8 5 0.12
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:6371502 original size:26 final size:26
Alignment explanation
Indices: 6371473--6371523 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
6371463 CCCTAAATTA
6371473 AAAAGAAAAA-AAAAGAGAAAAAGAAC
1 AAAAGAAAAAGAAAA-AGAAAAAGAAC
*
6371499 AAAAGAAAAAGAAAAAGAAAGAGAA
1 AAAAGAAAAAGAAAAAGAAAAAGAA
6371524 AAATAAGGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (26 bp):
AAAAGAAAAAGAAAAAGAAAAAGAAC
Found at i:6371511 original size:20 final size:18
Alignment explanation
Indices: 6371472--6371518 Score: 67
Period size: 20 Copynumber: 2.5 Consensus size: 18
6371462 GCCCTAAATT
*
6371472 AAAAAGAAAAAAAAAGAG
1 AAAAAGAAAAAAAAAAAG
6371490 AAAAAGAACAAAAGAAAAAG
1 AAAAAGAA-AAAA-AAAAAG
6371510 AAAAAGAAA
1 AAAAAGAAA
6371519 GAGAAAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 8 0.31
19 5 0.19
20 13 0.50
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAAAAAAAAAG
Done.