Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009582.1 Hibiscus syriacus cultivar Beakdansim tig00116959_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: 4978262
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 24
Found at i:2623829 original size:15 final size:15
Alignment explanation
Indices: 2623809--2623840 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
2623799 TGCAATGAAT
2623809 AATGAATGTATGCAA
1 AATGAATGTATGCAA
2623824 AATGAATGTATGCAA
1 AATGAATGTATGCAA
2623839 AA
1 AA
2623841 GGTATTGATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.06, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:2628217 original size:12 final size:12
Alignment explanation
Indices: 2628197--2628239 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
2628187 TTAATATGAA
*
2628197 TAAAATAATAAT
1 TAAATTAATAAT
2628209 TAAATTAATAAT
1 TAAATTAATAAT
*
2628221 TAAATATATTGAAT
1 TAAAT-TAAT-AAT
2628235 TAAAT
1 TAAAT
2628240 ATATTGAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
12 16 0.59
13 3 0.11
14 8 0.30
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (12 bp):
TAAATTAATAAT
Found at i:2628254 original size:16 final size:14
Alignment explanation
Indices: 2628206--2628247 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
2628196 ATAAAATAAT
*
2628206 AATTAAAT-TAAT-
1 AATTAAATATATTG
2628218 AATTAAATATATTG
1 AATTAAATATATTG
2628232 AATTAAATATATTG
1 AATTAAATATATTG
2628246 AA
1 AA
2628248 ATTTAAAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 8 0.30
13 3 0.11
14 16 0.59
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (14 bp):
AATTAAATATATTG
Found at i:2628841 original size:3 final size:3
Alignment explanation
Indices: 2628833--2628938 Score: 148
Period size: 3 Copynumber: 36.0 Consensus size: 3
2628823 TTTGGGCCTG
2628833 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA
* *
2628878 TAC TAA TAA T-A TAAA TAA -AA TAA TAC TAA TAA TAA TAA TAA T-A
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2628921 TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
2628939 AACAAATGGA
Statistics
Matches: 93, Mismatches: 4, Indels: 12
0.85 0.04 0.11
Matches are distributed among these distances:
2 8 0.09
3 80 0.86
4 5 0.05
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:2629133 original size:24 final size:25
Alignment explanation
Indices: 2629101--2629153 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
2629091 GTTTAATTGT
*
2629101 AAAATTAAAAAAAATTTAAAAA-ATG
1 AAAATTAAAAAAAA-CTAAAAATATG
*
2629126 AAAA-TAAAAATAACTAAAAATATG
1 AAAATTAAAAAAAACTAAAAATATG
2629150 AAAA
1 AAAA
2629154 ATATAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.24
24 15 0.60
25 4 0.16
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.21
Consensus pattern (25 bp):
AAAATTAAAAAAAACTAAAAATATG
Found at i:2629398 original size:25 final size:26
Alignment explanation
Indices: 2629316--2629484 Score: 90
Period size: 29 Copynumber: 6.0 Consensus size: 26
2629306 TTTTGCAAAA
* * *
2629316 AATAATATAGTCCTTGAACTATTTTT
1 AATAATTTAATCCTTGAATTATTTTT
* *
2629342 ACACTCAATTTGATCCTTAAATTAAACTTTTTT
1 A-A-T-AATTTAATCCTTGAATT--A--TTTTT
*
2629375 AATAATTTAAT-TTTGAATTATTTTT
1 AATAATTTAATCCTTGAATTATTTTT
* * *
2629400 AATAATATAGTCCTTGAACTATTTTT
1 AATAATTTAATCCTTGAATTATTTTT
* *
2629426 ACACTCAATTTGATCCTTAAATTAAACTTTTTT
1 A-A-T-AATTTAATCCTTGAATT--A--TTTTT
*
2629459 AATAATTTAAT-TTTGAATTATTTTT
1 AATAATTTAATCCTTGAATTATTTTT
2629484 A
1 A
2629485 TATTCAATGT
Statistics
Matches: 108, Mismatches: 20, Indels: 31
0.68 0.13 0.19
Matches are distributed among these distances:
25 20 0.19
26 14 0.13
27 4 0.04
28 2 0.02
29 36 0.33
30 14 0.13
31 4 0.04
32 2 0.02
33 12 0.11
ACGTcount: A:0.35, C:0.11, G:0.05, T:0.50
Consensus pattern (26 bp):
AATAATTTAATCCTTGAATTATTTTT
Found at i:2629409 original size:84 final size:84
Alignment explanation
Indices: 2629316--2629484 Score: 338
Period size: 84 Copynumber: 2.0 Consensus size: 84
2629306 TTTTGCAAAA
2629316 AATAATATAGTCCTTGAACTATTTTTACACTCAATTTGATCCTTAAATTAAACTTTTTTAATAAT
1 AATAATATAGTCCTTGAACTATTTTTACACTCAATTTGATCCTTAAATTAAACTTTTTTAATAAT
2629381 TTAATTTTGAATTATTTTT
66 TTAATTTTGAATTATTTTT
2629400 AATAATATAGTCCTTGAACTATTTTTACACTCAATTTGATCCTTAAATTAAACTTTTTTAATAAT
1 AATAATATAGTCCTTGAACTATTTTTACACTCAATTTGATCCTTAAATTAAACTTTTTTAATAAT
2629465 TTAATTTTGAATTATTTTT
66 TTAATTTTGAATTATTTTT
2629484 A
1 A
2629485 TATTCAATGT
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 85 1.00
ACGTcount: A:0.35, C:0.11, G:0.05, T:0.50
Consensus pattern (84 bp):
AATAATATAGTCCTTGAACTATTTTTACACTCAATTTGATCCTTAAATTAAACTTTTTTAATAAT
TTAATTTTGAATTATTTTT
Found at i:2631864 original size:19 final size:20
Alignment explanation
Indices: 2631836--2631883 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
2631826 CAAAAAACTG
2631836 AAAATAAAAACTATTTTTTA
1 AAAATAAAAACTATTTTTTA
*
2631856 AAAATAAAAATTATTTTTTA
1 AAAATAAAAACTATTTTTTA
*
2631876 AAACTAAA
1 AAAATAAA
2631884 CGGGTCAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAATAAAAACTATTTTTTA
Found at i:2632600 original size:21 final size:21
Alignment explanation
Indices: 2632576--2632629 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
2632566 CAGTTTCCAA
*
2632576 ATTCGCAACGCGAATAT-TCAG
1 ATTCGCAACGCGAAT-TGTAAG
*
2632597 ATTCGCAACACG-ATTGTAAG
1 ATTCGCAACGCGAATTGTAAG
2632617 ATTCGCAACGCGA
1 ATTCGCAACGCGA
2632630 TTTTGAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 1 0.04
20 16 0.57
21 11 0.39
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.22
Consensus pattern (21 bp):
ATTCGCAACGCGAATTGTAAG
Found at i:2632663 original size:19 final size:19
Alignment explanation
Indices: 2632639--2632740 Score: 105
Period size: 19 Copynumber: 5.1 Consensus size: 19
2632629 ATTTTGAAAT
2632639 ATGTGTTGCGATAGTTAAA
1 ATGTGTTGCGATAGTTAAA
*
2632658 ATGTGTTGCGAGAGTTAAA
1 ATGTGTTGCGATAGTTAAA
2632677 ATGTGTTGCGATAGTTTGAAAA
1 ATGTGTTGCGATAG-TT--AAA
* *
2632699 ACGTGTTGTTGCTATAGTGAAA
1 A--TG-TGTTGCGATAGTTAAA
* *
2632721 AAGTGTTGCGATAGTGAAA
1 ATGTGTTGCGATAGTTAAA
2632740 A
1 A
2632741 ATCTAAAATA
Statistics
Matches: 71, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
19 47 0.66
20 3 0.04
22 8 0.11
24 3 0.04
25 10 0.14
ACGTcount: A:0.32, C:0.06, G:0.28, T:0.33
Consensus pattern (19 bp):
ATGTGTTGCGATAGTTAAA
Found at i:2633168 original size:21 final size:21
Alignment explanation
Indices: 2633150--2633400 Score: 141
Period size: 21 Copynumber: 12.6 Consensus size: 21
2633140 CATTGCGATT
*
2633150 TTGGACTATCGCAACGCGAAC
1 TTGGACAATCGCAACGCGAAC
* * *
2633171 TTCGACAATAGCAA--CGAAT
1 TTGGACAATCGCAACGCGAAC
* *
2633190 TTGGAAAATCTCAACGCGAAC
1 TTGGACAATCGCAACGCGAAC
* *
2633211 TTGGACTATCGCAA--CGAAT
1 TTGGACAATCGCAACGCGAAC
*** *
2633230 TTGGAC--T---AACATAAAT
1 TTGGACAATCGCAACGCGAAC
* *
2633246 TTGGAAAATCGCACCGCGAAC
1 TTGGACAATCGCAACGCGAAC
* * *
2633267 TTGGACTATCGTAA--CGAAT
1 TTGGACAATCGCAACGCGAAC
* * *
2633286 TTGGAAAATCGTAACGCAAAC
1 TTGGACAATCGCAACGCGAAC
* *
2633307 TTCGACTATCGCAACGCGAAC
1 TTGGACAATCGCAACGCGAAC
* * *
2633328 TTCGACTATCGCAA--CGAAT
1 TTGGACAATCGCAACGCGAAC
*
2633347 TTGGAAAATCGCAACGCGAAC
1 TTGGACAATCGCAACGCGAAC
* *
2633368 TTCGACTATCGCAACGCGAAC
1 TTGGACAATCGCAACGCGAAC
* *
2633389 TTCGACTATCGC
1 TTGGACAATCGC
2633401 TTGGAAAATC
Statistics
Matches: 174, Mismatches: 43, Indels: 26
0.72 0.18 0.11
Matches are distributed among these distances:
14 2 0.01
16 8 0.05
17 1 0.01
18 1 0.01
19 55 0.32
21 107 0.61
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.22
Consensus pattern (21 bp):
TTGGACAATCGCAACGCGAAC
Found at i:2633264 original size:56 final size:58
Alignment explanation
Indices: 2633187--2633351 Score: 199
Period size: 61 Copynumber: 2.8 Consensus size: 58
2633177 AATAGCAACG
* *
2633187 AATTTGGAAAATCTCAACGCGAACTTGGACTATCGCAACGAATTTGGA-C-TAACATA
1 AATTTGGAAAATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGATCGTAACACA
* * *
2633243 AATTTGGAAAATCGCACCGCGAACTTGGACTATCGTAACGAATTTGGAAAATCGTAACGCA
1 AATTTGGAAAATCGCAACGCGAACTTGGACTATCGCAACGAATTTGG---ATCGTAACACA
* * ** *
2633304 AACTTCGACTATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGA
1 AATTTGGAAAATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGA
2633352 AAATCGCAAC
Statistics
Matches: 92, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
56 44 0.48
58 1 0.01
59 1 0.01
60 1 0.01
61 45 0.49
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (58 bp):
AATTTGGAAAATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGATCGTAACACA
Found at i:2633290 original size:40 final size:40
Alignment explanation
Indices: 2633243--2633322 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
2633233 GACTAACATA
* * * *
2633243 AATTTGGAAAATCGCACCGCGAACTTGGACTATCGTAACG
1 AATTTGGAAAATCGCAACGCAAACTTCGACTATCGCAACG
*
2633283 AATTTGGAAAATCGTAACGCAAACTTCGACTATCGCAACG
1 AATTTGGAAAATCGCAACGCAAACTTCGACTATCGCAACG
2633323 CGAACTTCGA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.23
Consensus pattern (40 bp):
AATTTGGAAAATCGCAACGCAAACTTCGACTATCGCAACG
Found at i:2633335 original size:61 final size:61
Alignment explanation
Indices: 2633253--2633435 Score: 254
Period size: 61 Copynumber: 3.1 Consensus size: 61
2633243 AATTTGGAAA
* * * *
2633253 ATCGCACCGCGAACTTGGACTATCGTAACGAATTTGGAAAATCGTAACGCAAACTTCGACT
1 ATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAAAATCGCAACGCAAACTTCGACT
*
2633314 ATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAAAATCGCAACGCAAACTTCGACT
* *
2633375 ATCGCAACGCGAACTTCGACTATCG---C----TTGGAAAATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAAAATCGCAACGCAAACTTCGACT
2633429 ATCGCAA
1 ATCGCAA
2633436 AATCGCGTTG
Statistics
Matches: 116, Mismatches: 6, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
54 34 0.29
58 1 0.01
61 81 0.70
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (61 bp):
ATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAAAATCGCAACGCAAACTTCGACT
Found at i:2642690 original size:206 final size:211
Alignment explanation
Indices: 2642296--2642871 Score: 734
Period size: 206 Copynumber: 2.6 Consensus size: 211
2642286 CTTATTCATA
* * * * *
2642296 TATTGAATAAAAATATTTTTTTATTATTTCTGGTCAGGTTGGGTTTCTAATTCATATATTTGGGT
1 TATTAAATAAAAATA-TTTTTTATTATTTCGGGTCGGGTCGGATTTCTAATTCATATA-TT--GT
* * * *
2642361 CAGGTCGGGTCGGGTGAAACTTTATTTCAGTCGGGTCGGATCGGGTTTTTTTAAGTGTGATATTC
62 CGGGTCGGGTCGGATGAAACTTTATTT---TC-GTTCGGGTCGGG-TTTTTTAAGTGTGATA-T-
* * *
2642426 GGGTCGGGTCGGGTCGGGTTCGAGTTTAGGGTGAAAAAAACCGGACCGACCCGAAAATATATATA
120 ---TCGGGTCAGATCGGG-T-GAGTTTAGGGTGAAAAAAACCGGACCGACCAGAAAATATATATA
2642491 ATTCAGGTCGGGTCGGATTAAGTCACTGTTTT
180 ATTCAGGTCGGGTCGGATTAAGTCACTGTTTT
*
2642523 TATTAAATAAAAATATTTTTTATTATTTCGGGTCGGGTCAGATTTCTAATTCATATA-T-TCGGG
1 TATTAAATAAAAATATTTTTTATTATTTCGGGTCGGGTCGGATTTCTAATTCATATATTGTCGGG
2642586 TCGGGTCGGATGAAACTTTATTTT-GTTCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCAGAT
66 TCGGGTCGGATGAAACTTTATTTTCGTTCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCAGAT
*
2642650 C-GG-G-GTTTAGGGTGAAAAAAACCCGGACCGACCAGAAAATATATATAATTCGGGTCGGGTCG
131 CGGGTGAGTTTAGGGTGAAAAAAA-CCGGACCGACCAGAAAATATATATAATTCAGGTCGGGTCG
2642712 GATTAAGTCACTGTTTT
195 GATTAAGTCACTGTTTT
2642729 TATTAAATAAAAATAATTTTTTATTATTTCGGGTCGGGTCGGATTTCTAATTCATATATTCGGGT
1 TATTAAATAAAAAT-ATTTTTTATTATTTCGGGTCGGGTCGGATTTCTAATTCATATATT---GT
*
2642794 CGGGTCGGGTCGGATGAAACTTTATTTTGTTCGGTTCGGGTCGAGTTTTTTAAGTGTGATATTCG
62 CGGGTCGGGTCGGATGAAACTTTA--TT-TTC-GTTCGGGTCGGGTTTTTTAAGTGTGATATTCG
2642859 GGTCA-AGTCGGGT
123 GGTCAGA-TCGGGT
2642872 CGGGTTTTTT
Statistics
Matches: 318, Mismatches: 16, Indels: 38
0.85 0.04 0.10
Matches are distributed among these distances:
205 17 0.05
206 70 0.22
207 42 0.13
208 1 0.00
209 2 0.01
210 10 0.03
212 25 0.08
214 3 0.01
215 18 0.06
216 11 0.03
217 38 0.12
218 3 0.01
221 26 0.08
224 1 0.00
226 37 0.12
227 14 0.04
ACGTcount: A:0.24, C:0.12, G:0.27, T:0.37
Consensus pattern (211 bp):
TATTAAATAAAAATATTTTTTATTATTTCGGGTCGGGTCGGATTTCTAATTCATATATTGTCGGG
TCGGGTCGGATGAAACTTTATTTTCGTTCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCAGAT
CGGGTGAGTTTAGGGTGAAAAAAACCGGACCGACCAGAAAATATATATAATTCAGGTCGGGTCGG
ATTAAGTCACTGTTTT
Found at i:2642879 original size:37 final size:38
Alignment explanation
Indices: 2642829--2642900 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 38
2642819 TTTGTTCGGT
2642829 TCGGGTCGAG-TTTTTTAAGTGTGATATTCGGGTCAAG
1 TCGGGTCGAGTTTTTTTAAGTGTGATATTCGGGTCAAG
*
2642866 TCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTC
1 TCGGGTCGAGTTTTTTTAAGTGTGATATTCGGGTC
2642901 GGGTTCGGGT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
37 9 0.27
38 24 0.73
ACGTcount: A:0.15, C:0.11, G:0.33, T:0.40
Consensus pattern (38 bp):
TCGGGTCGAGTTTTTTTAAGTGTGATATTCGGGTCAAG
Found at i:2643467 original size:18 final size:18
Alignment explanation
Indices: 2643431--2643494 Score: 105
Period size: 18 Copynumber: 3.7 Consensus size: 18
2643421 TATGGAATTG
2643431 GATTCCAATTCC-T-ACA
1 GATTCCAATTCCTTCACA
2643447 GATTCCAATTCCTTCACA
1 GATTCCAATTCCTTCACA
2643465 GATTCCAATTCCTTCACA
1 GATTCCAATTCCTTCACA
*
2643483 GATTTCAATTCC
1 GATTCCAATTCC
2643495 CTCATAAACA
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
16 12 0.27
17 1 0.02
18 32 0.71
ACGTcount: A:0.28, C:0.31, G:0.06, T:0.34
Consensus pattern (18 bp):
GATTCCAATTCCTTCACA
Found at i:2643931 original size:16 final size:15
Alignment explanation
Indices: 2643894--2643936 Score: 56
Period size: 16 Copynumber: 3.0 Consensus size: 15
2643884 AATTATTTTT
2643894 AATTATAATT-A-AA
1 AATTATAATTAATAA
2643907 AATTA-AATTAATAA
1 AATTATAATTAATAA
2643921 AATATATAATTAATAA
1 AAT-TATAATTAATAA
2643937 TTAATTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 4 0.15
13 6 0.23
14 5 0.19
15 2 0.08
16 9 0.35
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AATTATAATTAATAA
Found at i:2643940 original size:23 final size:23
Alignment explanation
Indices: 2643912--2643955 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
2643902 TTAAAAATTA
2643912 AATTAATAAAATATATAATTAAT
1 AATTAATAAAATATATAATTAAT
* *
2643935 AATTAATTAAATGTATAATTA
1 AATTAATAAAATATATAATTA
2643956 TATATGAAGA
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:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (23 bp):
AATTAATAAAATATATAATTAAT
Found at i:2645020 original size:11 final size:10
Alignment explanation
Indices: 2645000--2645079 Score: 56
Period size: 11 Copynumber: 7.7 Consensus size: 10
2644990 AGTTTAAAAA
*
2645000 ATTATAAAAT
1 ATTATTAAAT
2645010 ACTTATTAAAT
1 A-TTATTAAAT
2645021 -TTATTAAAAT
1 ATTATT-AAAT
*
2645031 ATTATAAAATT
1 ATTATTAAA-T
*
2645042 ATTAATAAAT
1 ATTATTAAAT
2645052 -TTATCTAAAT
1 ATTAT-TAAAT
* *
2645062 ACTATAAAAT
1 ATTATTAAAT
2645072 AATTATTA
1 -ATTATTA
2645080 TATTATCGAA
Statistics
Matches: 54, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
9 8 0.15
10 18 0.33
11 28 0.52
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (10 bp):
ATTATTAAAT
Found at i:2645028 original size:31 final size:30
Alignment explanation
Indices: 2644993--2645079 Score: 104
Period size: 31 Copynumber: 2.8 Consensus size: 30
2644983 TCAATAAAGT
*
2644993 TTAAAAAATTATAAAATACTTATTAAATTTA
1 TTAAAATATTATAAAATA-TTATTAAATTTA
*
2645024 TTAAAATATTATAAAATTATTAATAAATTTA
1 TTAAAATATTATAAAA-TATTATTAAATTTA
*
2645055 TCT-AAATACTATAAAATAATTATTA
1 T-TAAAATATTATAAAAT-ATTATTA
2645080 TATTATCGAA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
30 1 0.02
31 45 0.92
32 3 0.06
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (30 bp):
TTAAAATATTATAAAATATTATTAAATTTA
Found at i:2645038 original size:19 final size:21
Alignment explanation
Indices: 2644997--2645046 Score: 70
Period size: 19 Copynumber: 2.5 Consensus size: 21
2644987 TAAAGTTTAA
2644997 AAAATTA-TAAAATACTTATT
1 AAAATTATTAAAATACTTATT
*
2645017 AAATTTATTAAAATA-TTA-T
1 AAAATTATTAAAATACTTATT
2645036 AAAATTATTAA
1 AAAATTATTAA
2645047 TAAATTTATC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 11 0.41
20 9 0.33
21 7 0.26
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
AAAATTATTAAAATACTTATT
Found at i:2647244 original size:3 final size:3
Alignment explanation
Indices: 2647228--2647295 Score: 102
Period size: 3 Copynumber: 22.7 Consensus size: 3
2647218 AGAGATGGAT
* *
2647228 GAA GAA GATA -AA GAA GAA GAT GAA GAA GAA GAT GAA GAA GAA GAA
1 GAA GAA GA-A GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
2647273 GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GA
2647296 GATGGTCAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
2 1 0.02
3 57 0.97
4 1 0.02
ACGTcount: A:0.63, C:0.00, G:0.32, T:0.04
Consensus pattern (3 bp):
GAA
Found at i:2653984 original size:4 final size:4
Alignment explanation
Indices: 2653975--2654001 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
2653965 TTCAACTATG
2653975 TATT TATT TATT TATT TATT TATT TAT
1 TATT TATT TATT TATT TATT TATT TAT
2654002 GCATGCATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:2654823 original size:15 final size:15
Alignment explanation
Indices: 2654805--2654955 Score: 248
Period size: 15 Copynumber: 10.0 Consensus size: 15
2654795 TAATAAGGTT
2654805 ATTTATTATAAAATA
1 ATTTATTATAAAATA
*
2654820 ATTTATTTTAAAAATA
1 ATTTATTAT-AAAATA
2654836 ATTTATTATAAAATA
1 ATTTATTATAAAATA
*
2654851 ATTTATTTTAAAATA
1 ATTTATTATAAAATA
2654866 ATTTATTATAAAATA
1 ATTTATTATAAAATA
*
2654881 ATTTATTTTAAAATA
1 ATTTATTATAAAATA
2654896 ATTTATTATAAAATA
1 ATTTATTATAAAATA
2654911 ATTTATTATAAAATA
1 ATTTATTATAAAATA
*
2654926 ATTTATTTTAAAATA
1 ATTTATTATAAAATA
*
2654941 AATTATTATAAAATA
1 ATTTATTATAAAATA
2654956 GGATTGATTT
Statistics
Matches: 126, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
15 112 0.89
16 14 0.11
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTTATTATAAAATA
Found at i:2654866 original size:30 final size:30
Alignment explanation
Indices: 2654805--2655019 Score: 265
Period size: 30 Copynumber: 7.0 Consensus size: 30
2654795 TAATAAGGTT
2654805 ATTTATTATAAAATAATTTATTTTAAAAATA
1 ATTTATTATAAAATAATTTATTTT-AAAATA
2654836 ATTTATTATAAAATAATTTATTTTAAAATA
1 ATTTATTATAAAATAATTTATTTTAAAATA
2654866 ATTTATTATAAAATAATTTATTTTAAAATA
1 ATTTATTATAAAATAATTTATTTTAAAATA
*
2654896 ATTTATTATAAAATAATTTATTATAAAATA
1 ATTTATTATAAAATAATTTATTTTAAAATA
* * *
2654926 ATTTATTTTAAAATAAATTATTATAAAATAGGA
1 ATTTATTATAAAATAATTTATTTTAAAAT---A
*
2654959 TTGATTTATTTTAAAA-AATTTATTTT-AAATA
1 ---ATTTATTATAAAATAATTTATTTTAAAATA
** *
2654990 ATTTATTAGT-ATGTGATTTATTTTAAAATA
1 ATTTATTA-TAAAATAATTTATTTTAAAATA
2655020 GGATTGATTT
Statistics
Matches: 166, Mismatches: 9, Indels: 19
0.86 0.05 0.10
Matches are distributed among these distances:
28 8 0.05
29 10 0.06
30 97 0.58
31 25 0.15
33 1 0.01
34 4 0.02
35 8 0.05
36 13 0.08
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (30 bp):
ATTTATTATAAAATAATTTATTTTAAAATA
Found at i:2654894 original size:45 final size:45
Alignment explanation
Indices: 2654805--2654997 Score: 264
Period size: 45 Copynumber: 4.2 Consensus size: 45
2654795 TAATAAGGTT
* *
2654805 ATTTATTATAAAATAATTTATTTTAAAAATAATTTATTATAAAATA
1 ATTTATTATAAAATAATTTATTAT-AAAATAATTTATTTTAAAATA
*
2654851 ATTTATTTTAAAATAATTTATTATAAAATAATTTATTTTAAAATA
1 ATTTATTATAAAATAATTTATTATAAAATAATTTATTTTAAAATA
2654896 ATTTATTATAAAATAATTTATTATAAAATAATTTATTTTAAAATA
1 ATTTATTATAAAATAATTTATTATAAAATAATTTATTTTAAAATA
* *
2654941 AATTATTATAAAATAGGATTGATTTATTTTAAAA-AATTTATTTT-AAATA
1 ATTTATTATAAAAT---A---ATTTATTATAAAATAATTTATTTTAAAATA
2654990 ATTTATTA
1 ATTTATTA
2654998 GTATGTGATT
Statistics
Matches: 134, Mismatches: 7, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
45 77 0.57
46 22 0.16
48 1 0.01
49 12 0.09
50 10 0.07
51 12 0.09
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (45 bp):
ATTTATTATAAAATAATTTATTATAAAATAATTTATTTTAAAATA
Found at i:2654981 original size:14 final size:14
Alignment explanation
Indices: 2654962--2654996 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
2654952 AATAGGATTG
2654962 ATTTATTTTAAAAA
1 ATTTATTTTAAAAA
*
2654976 ATTTATTTTAAATA
1 ATTTATTTTAAAAA
2654990 ATTTATT
1 ATTTATT
2654997 AGTATGTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
ATTTATTTTAAAAA
Found at i:2655030 original size:50 final size:52
Alignment explanation
Indices: 2654976--2655086 Score: 190
Period size: 50 Copynumber: 2.1 Consensus size: 52
2654966 ATTTTAAAAA
2654976 ATTTATTTTAAATAATTTATTAGTATG-TGATTTATTTTAAAATA-GGATTG
1 ATTTATTTTAAATAATTTATTAGTATGATGATTTATTTTAAAATATGGATTG
2655026 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATG-A-TGATTTATTTTAAAATATGGATTG
2655080 ATTTATT
1 ATTTATT
2655087 ATTATAGTTG
Statistics
Matches: 57, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
50 27 0.47
53 17 0.30
54 13 0.23
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (52 bp):
ATTTATTTTAAATAATTTATTAGTATGATGATTTATTTTAAAATATGGATTG
Found at i:2655194 original size:80 final size:81
Alignment explanation
Indices: 2655031--2655415 Score: 335
Period size: 80 Copynumber: 4.7 Consensus size: 81
2655021 GATTGATTTA
* * * *
2655031 TTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTATAGTT
1 TTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTTTTA-AATAATT
* * *
2655096 GTA-TA-AATTGATT-AA
65 -TATTAGTATGGATTGAT
*
2655111 TTTTAAATAATTTATTAGTATGGATTGATTTACTTTAAAATATGGATTGATTTTTTAAATAATTT
1 TTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTTTTAAATAATTT
2655176 ATTAGTATGGATTGAT
66 ATTAGTATGGATTGAT
* * ** * * *
2655192 TTTTAAA-ATATTGATT--TAT---TTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATA
1 TTTTAAATA-ATTTATTAGTATGGATTGATTTATTTTA-AAATATGGATTGA-TT-TTTTAAATA
*
2655251 ATTTATTTGTATGGATTGATT
62 ATTTATTAGTATGGATTGA-T
*
2655272 TTTTAAAATATGGGATTTATTATTGTAGTTG-TATGATTTATTTTAAAATATGGATTGATTTATT
1 TTTT-AAATA----ATTTATTA--GTA-TGGAT-TGATTTATTTTAAAATATGGATTGA-TT-TT
2655336 TTAAATAATTTATTAGTATGGATTGATT
55 TTAAATAATTTATTAGTATGGATTGA-T
* *
2655364 TATTTTAATAA-TTATTTGTATGGA-TGATTTATTTTAAAATATGGATTGATTT
1 T-TTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTT
2655416 ATTGTATTGT
Statistics
Matches: 254, Mismatches: 28, Indels: 45
0.78 0.09 0.14
Matches are distributed among these distances:
76 9 0.04
77 11 0.04
78 4 0.02
79 37 0.15
80 66 0.26
81 18 0.07
82 3 0.01
83 25 0.10
84 2 0.01
85 9 0.04
87 5 0.02
88 1 0.00
89 2 0.01
90 1 0.00
92 50 0.20
93 11 0.04
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.52
Consensus pattern (81 bp):
TTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTTTTAAATAATTT
ATTAGTATGGATTGAT
Found at i:2655224 original size:47 final size:47
Alignment explanation
Indices: 2655102--2655240 Score: 206
Period size: 47 Copynumber: 2.9 Consensus size: 47
2655092 AGTTGTATAA
*
2655102 ATTGATTAATTTTAAATAATTTATTAGTATGGATTGATTTACTTTAAAAT
1 ATTGATTTATTTTAAATAATTTATTAGTATGGATTGA-TT--TTTAAAAT
* *
2655152 ATGGATTGATTTTTTAAATAATTTATTAGTATGGATTGATTTTTAAAAT
1 ATTGATT--TATTTTAAATAATTTATTAGTATGGATTGATTTTTAAAAT
2655201 ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTT
1 ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTT
2655241 ATTTTAAATA
Statistics
Matches: 82, Mismatches: 5, Indels: 7
0.87 0.05 0.07
Matches are distributed among these distances:
47 32 0.39
49 14 0.17
50 6 0.07
51 2 0.02
52 28 0.34
ACGTcount: A:0.35, C:0.01, G:0.12, T:0.52
Consensus pattern (47 bp):
ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTTTAAAAT
Found at i:2655239 original size:32 final size:32
Alignment explanation
Indices: 2655201--2655401 Score: 194
Period size: 32 Copynumber: 6.5 Consensus size: 32
2655191 TTTTTAAAAT
2655201 ATTGATTTATTTTAAATAATTTATTAGTATGG
1 ATTGATTTATTTTAAATAATTTATTAGTATGG
*
2655233 ATTGATTTATTTTAAATAATTTATTTGTATGG
1 ATTGATTTATTTTAAATAATTTATTAGTATGG
* *
2655265 ATTGATTT-TTTAAAATATGGGATTTATTA-T-TGT
1 ATTGATTTATTTTAAATA----ATTTATTAGTATGG
* * *
2655298 AGTTG-TATGA-TTT--AT--TTTA-AAATATGG
1 A-TTGAT-TTATTTTAAATAATTTATTAGTATGG
2655325 ATTGATTTATTTTAAATAATTTATTAGTATGG
1 ATTGATTTATTTTAAATAATTTATTAGTATGG
*
2655357 ATTGATTTATTTT-AATAA-TTATTTGTATGG
1 ATTGATTTATTTTAAATAATTTATTAGTATGG
2655387 A-TGATTTATTTTAAA
1 ATTGATTTATTTTAAA
2655402 ATATGGATTG
Statistics
Matches: 140, Mismatches: 12, Indels: 36
0.74 0.06 0.19
Matches are distributed among these distances:
25 1 0.01
26 10 0.07
27 7 0.05
29 13 0.09
30 14 0.10
31 17 0.12
32 60 0.43
33 4 0.03
34 7 0.05
35 7 0.05
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (32 bp):
ATTGATTTATTTTAAATAATTTATTAGTATGG
Found at i:2655284 original size:99 final size:99
Alignment explanation
Indices: 2655094--2655367 Score: 229
Period size: 99 Copynumber: 2.8 Consensus size: 99
2655084 ATTATTATAG
* *
2655094 TTGTATAA-ATTGATTAATTTTAAATAATTTATTAGTATGGATTGATTTACTTTAAAATATGGAT
1 TTGTA-AATATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-TTTTAAATA---AT
* ** * * *
2655158 TGATTT-T-TTAAATAATTTATTAGTAT-GGATTGATT-
61 TTATTTGTATGGATTGATTTATTAATATGGGATTGATTA
2655193 TT-TAAAATATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTAT
1 TTGT-AAATATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTAT
* *
2655257 TTGTATGGATTGATTTTTTAAAATATGGGATTTATTA
65 TTGTATGGATTGATTTATT--AATATGGGATTGATTA
** *
2655294 TTGTAGTTGTATGATTTA-TTT---TAA---A--A-TATGGATTGATTTATTTTAAATAATTTAT
1 TTGTAAATAT-TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTAT
*
2655349 TAGTATGGATTGATTTATT
65 TTGTATGGATTGATTTATT
2655368 TTAATAATTA
Statistics
Matches: 150, Mismatches: 15, Indels: 27
0.78 0.08 0.14
Matches are distributed among these distances:
92 46 0.31
93 1 0.01
95 8 0.05
96 1 0.01
97 9 0.06
98 14 0.09
99 47 0.31
100 8 0.05
101 8 0.05
102 8 0.05
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (99 bp):
TTGTAAATATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATT
TGTATGGATTGATTTATTAATATGGGATTGATTA
Found at i:2655357 original size:92 final size:83
Alignment explanation
Indices: 2655304--2655494 Score: 238
Period size: 83 Copynumber: 2.2 Consensus size: 83
2655294 TTGTAGTTGT
2655304 ATGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTT
1 ATGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTT
*
2655369 TAATAATTATTTGTATGG
66 AAATAATTATTTGTATGG
** * * *
2655387 ATGATTTATTTTAAAATATGGATTGATTTATTGTATTGTATGGATTGATTTAAAATATGGATTGA
1 ATGATTTATTTTAAAATATGGATTGATTTA-T-T-TTAAAT-AATTTA-TT--AGTATGGATTGA
2655452 TTTATTTTAAATAATTTATTTGTATGG
59 TTTA-TTTAAATAA-TTATTTGTATGG
2655479 ATTGATTTATTTTAAA
1 A-TGATTTATTTTAAA
2655495 TAATTTATTT
Statistics
Matches: 92, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
83 30 0.33
84 1 0.01
85 1 0.01
86 4 0.04
87 4 0.04
88 2 0.02
90 15 0.16
91 8 0.09
92 13 0.14
93 14 0.15
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (83 bp):
ATGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTT
AAATAATTATTTGTATGG
Found at i:2655416 original size:22 final size:22
Alignment explanation
Indices: 2655382--2655462 Score: 84
Period size: 22 Copynumber: 4.0 Consensus size: 22
2655372 TAATTATTTG
2655382 TATGGA-TGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
*
2655403 TATGGATTGATTTATTGT---A
1 TATGGATTGATTTATTTTAAAA
* * *
2655422 T-TGTATGGATTGA-TTTAAAA
1 TATGGATTGATTTATTTTAAAA
2655442 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
2655463 TAATTTATTT
Statistics
Matches: 46, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
17 2 0.04
18 9 0.20
19 2 0.04
20 2 0.04
21 15 0.33
22 16 0.35
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.49
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:2655455 original size:90 final size:89
Alignment explanation
Indices: 2655352--2655637 Score: 312
Period size: 90 Copynumber: 3.3 Consensus size: 89
2655342 AATTTATTAG
2655352 TATGGATTGATTTATTTTAATAATTATTTGTATGGA-TGATTTATTTTAAAATATGGATTGATTT
1 TATGGATTGATTTATTTTAATAATTATTTGTATGGATTGATTTATTTTAAAATA---ATTGATTT
*
2655416 A-TTGTATTGTATGGATTGA-TTTAAAA
63 ATTTGTA-TGGATGGATTGATTTTAAAA
*
2655442 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTT-AAATAATTTATTTA
1 TATGGATTGATTTATTTT-AATAA-TTATTTGTATGGATTGATTTATTTTAAAATAATTGATTTA
* *
2655506 TTTGTATGGATTGATTTATTTTAAAA
64 TTTGTATGGATGGATTGATTTTAAAA
*
2655532 TATGGATTGATTTA--TT-AT--TGTAGTTGTATGGATTGATTTATTTT-AAAT-A---ATTTAT
1 TATGGATTGATTTATTTTAATAAT-TATTTGTATGGATTGATTTATTTTAAAATAATTGATTTAT
* * * *
2655587 TAGTATGAATTGATTTATTTTAAAA
65 TTGTATGGATGGATTGATTTTAAAA
*
2655612 TATAGATTGATTTATTTTAAATAATT
1 TATGGATTGATTTATTTT-AATAATT
2655638 TATTATTGTA
Statistics
Matches: 176, Mismatches: 8, Indels: 29
0.83 0.04 0.14
Matches are distributed among these distances:
80 42 0.24
82 2 0.01
83 2 0.01
84 29 0.16
85 1 0.01
86 3 0.02
88 2 0.01
89 17 0.10
90 44 0.25
91 5 0.03
92 18 0.10
93 11 0.06
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (89 bp):
TATGGATTGATTTATTTTAATAATTATTTGTATGGATTGATTTATTTTAAAATAATTGATTTATT
TGTATGGATGGATTGATTTTAAAA
Found at i:2655470 original size:14 final size:14
Alignment explanation
Indices: 2655451--2655504 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
2655441 ATATGGATTG
2655451 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
2655465 ATTTATTTGTATGGATTG
1 ATTTATTT-TA---AATA
2655483 ATTTATTTTAAATA
1 ATTTATTTTAAATA
2655497 ATTTATTT
1 ATTTATTT
2655505 ATTTGTATGG
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 18 0.56
15 2 0.06
17 2 0.06
18 10 0.31
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.59
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:2655478 original size:32 final size:34
Alignment explanation
Indices: 2655442--2655530 Score: 146
Period size: 36 Copynumber: 2.6 Consensus size: 34
2655432 TGATTTAAAA
2655442 TATGGATTGATTTATTTTAAAT-A-ATTTATTTG
1 TATGGATTGATTTATTTTAAATAATATTTATTTG
2655474 TATGGATTGATTTATTTTAAATAATTTATTTATTTG
1 TATGGATTGATTTATTTTAAATAA--TATTTATTTG
2655510 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
2655531 ATATGGATTG
Statistics
Matches: 53, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
32 22 0.42
33 1 0.02
36 30 0.57
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (34 bp):
TATGGATTGATTTATTTTAAATAATATTTATTTG
Found at i:2655486 original size:18 final size:18
Alignment explanation
Indices: 2655343--2655526 Score: 90
Period size: 18 Copynumber: 10.4 Consensus size: 18
2655333 ATTTTAAATA
*
2655343 ATTTATTAGTATGGATTG
1 ATTTATTTGTATGGATTG
2655361 ATTTATTT-TA---A-T-
1 ATTTATTTGTATGGATTG
*
2655373 AATTATTTGTATGGA-TG
1 ATTTATTTGTATGGATTG
*
2655390 ATTTATTTTAAAATATGGATTG
1 ATTTA-TTT---GTATGGATTG
2655412 ATTTATTGTATTGTATGGATTG
1 ATTTA---T-TTGTATGGATTG
***
2655434 ATTTA-AAATATGGATTG
1 ATTTATTTGTATGGATTG
* *
2655451 ATTTATTT-TA---AATA
1 ATTTATTTGTATGGATTG
2655465 ATTTATTTGTATGGATTG
1 ATTTATTTGTATGGATTG
* *
2655483 ATTTATTT-TAAAT-AATTT
1 ATTTATTTGT--ATGGATTG
2655501 ATTTATTTGTATGGATTG
1 ATTTATTTGTATGGATTG
2655519 ATTTATTT
1 ATTTATTT
2655527 TAAAATATGG
Statistics
Matches: 125, Mismatches: 19, Indels: 44
0.66 0.10 0.23
Matches are distributed among these distances:
12 7 0.06
13 3 0.02
14 11 0.09
15 2 0.02
16 2 0.02
17 25 0.20
18 42 0.34
19 3 0.02
21 6 0.05
22 21 0.17
24 1 0.01
25 2 0.02
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (18 bp):
ATTTATTTGTATGGATTG
Found at i:2655512 original size:36 final size:36
Alignment explanation
Indices: 2655442--2655610 Score: 156
Period size: 32 Copynumber: 4.6 Consensus size: 36
2655432 TGATTTAAAA
2655442 TATGGATTGATTTATTTTAAAT-A---ATTTATTTG
1 TATGGATTGATTTATTTTAAATAATTTATTTATTTG
2655474 TATGGATTGATTTATTTTAAATAATTTATTTATTTG
1 TATGGATTGATTTATTTTAAATAATTTATTTATTTG
*
2655510 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
1 TATGGATTGATTTATTTT--AA-AT--A---A--T-TTATT-TATTTG
2655558 TATGGATTGATTTATTTTAAATAATTTA-TTA---G
1 TATGGATTGATTTATTTTAAATAATTTATTTATTTG
*
2655590 TATGAATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
2655611 ATATAGATTG
Statistics
Matches: 119, Mismatches: 2, Indels: 32
0.78 0.01 0.21
Matches are distributed among these distances:
32 43 0.36
33 1 0.01
35 2 0.02
36 28 0.24
37 3 0.03
38 3 0.03
39 2 0.02
40 1 0.01
41 1 0.01
43 1 0.01
44 1 0.01
45 2 0.02
46 3 0.03
47 5 0.04
48 23 0.19
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (36 bp):
TATGGATTGATTTATTTTAAATAATTTATTTATTTG
Found at i:2655522 original size:22 final size:22
Alignment explanation
Indices: 2655497--2655574 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 22
2655487 ATTTTAAATA
2655497 ATTTATTTATTTGTATGGATTG
1 ATTTATTTATTTGTATGGATTG
***
2655519 ATTTATTT-TAAAATATGGATTG
1 ATTTATTTAT-TTGTATGGATTG
*
2655541 ATTTATTATTGTAGTTGTATGGATTG
1 A--T-TTATT-TATTTGTATGGATTG
2655567 ATTTATTT
1 ATTTATTT
2655575 TAAATAATTT
Statistics
Matches: 43, Mismatches: 7, Indels: 12
0.69 0.11 0.19
Matches are distributed among these distances:
21 1 0.02
22 19 0.44
23 5 0.12
24 2 0.05
25 5 0.12
26 11 0.26
ACGTcount: A:0.27, C:0.00, G:0.17, T:0.56
Consensus pattern (22 bp):
ATTTATTTATTTGTATGGATTG
Found at i:2655526 original size:26 final size:24
Alignment explanation
Indices: 2655499--2655573 Score: 82
Period size: 26 Copynumber: 3.1 Consensus size: 24
2655489 TTTAAATAAT
2655499 TTATTTATTTGTATGGATTGATTTA
1 TTATTTA-TTGTATGGATTGATTTA
***
2655524 -T-TTTAAAATATGGATTGATTTA
1 TTATTTATTGTATGGATTGATTTA
2655546 TTATTGTAGTTGTATGGATTGATTTA
1 TTATT-TA-TTGTATGGATTGATTTA
2655572 TT
1 TT
2655574 TTAAATAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
22 14 0.35
23 5 0.12
24 3 0.08
25 2 0.05
26 16 0.40
ACGTcount: A:0.27, C:0.00, G:0.17, T:0.56
Consensus pattern (24 bp):
TTATTTATTGTATGGATTGATTTA
Found at i:2655620 original size:80 final size:82
Alignment explanation
Indices: 2655471--2655627 Score: 264
Period size: 80 Copynumber: 1.9 Consensus size: 82
2655461 AATAATTTAT
* *
2655471 TTGTATGGATTGATTTATTTTAAATAATTTATTTATTTGTATGGATTGATTTATTTTAAAATATG
1 TTGTATGGATTGATTTATTTTAAATAATTTATTTA--TGTATGAATTGATTTATTTTAAAATATA
2655536 GATTGATTTATTATTGTAG
64 GATTGATTTATTATTGTAG
2655555 TTGTATGGATTGATTTATTTTAAATAATTTA-TTA-GTATGAATTGATTTATTTTAAAATATAGA
1 TTGTATGGATTGATTTATTTTAAATAATTTATTTATGTATGAATTGATTTATTTTAAAATATAGA
2655618 TTGATTTATT
66 TTGATTTATT
2655628 TTAAATAATT
Statistics
Matches: 71, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
80 37 0.52
83 3 0.04
84 31 0.44
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (82 bp):
TTGTATGGATTGATTTATTTTAAATAATTTATTTATGTATGAATTGATTTATTTTAAAATATAGA
TTGATTTATTATTGTAG
Found at i:2655692 original size:31 final size:31
Alignment explanation
Indices: 2655657--2655715 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
2655647 AGTTGTATGG
* *
2655657 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGCAAAACTAAA
2655688 ATTATTTAAATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAGTATTGCAAAACT
2655716 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGCAAAACTAAA
Found at i:2663852 original size:15 final size:15
Alignment explanation
Indices: 2663832--2663884 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
2663822 TTGAGACCTT
2663832 ACCCGCCCCGCATCC
1 ACCCGCCCCGCATCC
2663847 ACCCGCCCCGCATCC
1 ACCCGCCCCGCATCC
* * *
2663862 GCCCTCCCCACATCC
1 ACCCGCCCCGCATCC
*
2663877 GCCCGCCC
1 ACCCGCCC
2663885 AACTAAATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.11, C:0.68, G:0.13, T:0.08
Consensus pattern (15 bp):
ACCCGCCCCGCATCC
Found at i:2664337 original size:15 final size:15
Alignment explanation
Indices: 2664317--2664369 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
2664307 TTGAGACCTT
2664317 ACCCGCCCCGCATCC
1 ACCCGCCCCGCATCC
2664332 ACCCGCCCCGCATCC
1 ACCCGCCCCGCATCC
* * *
2664347 GCCCTCCCCACATCC
1 ACCCGCCCCGCATCC
*
2664362 GCCCGCCC
1 ACCCGCCC
2664370 AACTAAATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.11, C:0.68, G:0.13, T:0.08
Consensus pattern (15 bp):
ACCCGCCCCGCATCC
Found at i:2666881 original size:15 final size:15
Alignment explanation
Indices: 2666853--2666907 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
2666843 ATATAAAATT
2666853 AAATATTTAA-TTCAA
1 AAAT-TTTAATTTCAA
2666868 AAATTTTAATTTCAA
1 AAATTTTAATTTCAA
2666883 AATATTTATACATTT-AA
1 AA-ATTT-TA-ATTTCAA
2666900 TAAATTTT
1 -AAATTTT
2666908 TGACATCAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
14 5 0.14
15 11 0.31
16 5 0.14
17 8 0.23
18 6 0.17
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (15 bp):
AAATTTTAATTTCAA
Found at i:2668773 original size:147 final size:151
Alignment explanation
Indices: 2668616--2668921 Score: 478
Period size: 148 Copynumber: 2.0 Consensus size: 151
2668606 TTAAACCTAG
2668616 AAAACTAAAGAATAAACATAAAAGGAAAAATAATACAATTAGGGCACC-AAATTTAAAATAAAAT
1 AAAACTAAAGAATAAACATAAAAGGAAAAATAATACAATTAGGGCACCAAAATTTAAAATAAAAT
* * *
2668680 AAACAAGCTTAAGATCAAGGACTATGATGCAAAA-A-TAC-AGTACAT-GGGCTACAACACGAAT
66 AAACAAGCTTAAGATCAAGGACTATAATACAAAAGACAACAAGTAC-TGGGGCTACAACACGAAT
*
2668741 AAACCATGAATGTAATTATGGA
130 AAACCATGAATGAAATTATGGA
* *
2668763 AAAACTAAAGAATAAACATAAAAGGAAAAATCATGCAATTAGGGCACCAAAATTTAAAATAAAAT
1 AAAACTAAAGAATAAACATAAAAGGAAAAATAATACAATTAGGGCACCAAAATTTAAAATAAAAT
2668828 AAACAAGCTTAAGATCAAGGACTATAATACAAAAGTACAACAAAAGTACTGGGGCTACAACACGA
66 AAACAAGCTTAAGATCAAGGACTATAATACAAAAG-ACAAC--AAGTACTGGGGCTACAACACGA
2668893 ATAAACCATGAATGAAATTATGGA
128 ATAAACCATGAATGAAATTATGGA
*
2668917 TAAAC
1 AAAAC
2668922 AATAAACAAA
Statistics
Matches: 144, Mismatches: 7, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
147 46 0.32
148 48 0.33
150 1 0.01
151 2 0.01
153 1 0.01
154 46 0.32
ACGTcount: A:0.54, C:0.13, G:0.14, T:0.19
Consensus pattern (151 bp):
AAAACTAAAGAATAAACATAAAAGGAAAAATAATACAATTAGGGCACCAAAATTTAAAATAAAAT
AAACAAGCTTAAGATCAAGGACTATAATACAAAAGACAACAAGTACTGGGGCTACAACACGAATA
AACCATGAATGAAATTATGGA
Found at i:2670826 original size:79 final size:80
Alignment explanation
Indices: 2670710--2670891 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 80
2670700 ATCAGATGAA
* *
2670710 TTATTCTCATTACGAAC-TCTTCTATTGAAAATGTTGATCCA-CTCCTTCTGTGATGGAATCGAG
1 TTATTCTCATTACGAACTTCTTCTATTGAAAATATTGATCCACCTCATTCTGTGATGGAATCGAG
* * *
2670773 TGAAATGG-TGTACAAG
66 -CAAA-GGTTGAAAAAG
* * *
2670789 TT-TGTCTCATTAGGAACTTCTTC-ATTGGAAATATTGATCTACCTCATTCTGTGATGGAATCGA
1 TTAT-TCTCATTACGAACTTCTTCTATTGAAAATATTGATCCACCTCATTCTGTGATGGAATCGA
2670852 GCAAAGGTTGAAAAAG
65 GCAAAGGTTGAAAAAG
*
2670868 TTATTCTCATTATGAACTTCTTCT
1 TTATTCTCATTACGAACTTCTTCT
2670892 CCCTCATCGG
Statistics
Matches: 88, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
78 3 0.03
79 58 0.66
80 27 0.31
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (80 bp):
TTATTCTCATTACGAACTTCTTCTATTGAAAATATTGATCCACCTCATTCTGTGATGGAATCGAG
CAAAGGTTGAAAAAG
Found at i:2671591 original size:37 final size:37
Alignment explanation
Indices: 2671533--2671619 Score: 95
Period size: 37 Copynumber: 2.4 Consensus size: 37
2671523 TAGGGAGACA
* * *
2671533 ATCTTAAGAATGATTCGAACAACATTCCAGAGAAA-TG
1 ATCTTAAGAAGGACTCAAACAACATTCCAGA-AAATTG
** *
2671570 ATCTTAAGAAGGACTCAAACAATTTTCTAGAAAATTG
1 ATCTTAAGAAGGACTCAAACAACATTCCAGAAAATTG
*
2671607 ATCCTAAGAAGGA
1 ATCTTAAGAAGGA
2671620 AAAAATAGTT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
36 3 0.07
37 39 0.93
ACGTcount: A:0.44, C:0.15, G:0.16, T:0.25
Consensus pattern (37 bp):
ATCTTAAGAAGGACTCAAACAACATTCCAGAAAATTG
Found at i:2672620 original size:54 final size:54
Alignment explanation
Indices: 2672485--2672977 Score: 494
Period size: 54 Copynumber: 9.0 Consensus size: 54
2672475 TTACAGTTAT
* *
2672485 CATCAAGAAACCCCTAAAAATTAAGCTTAGCTTCTTTAAAAATTCAATTTCAATTGAAGA
1 CATCAAGAAACCCCTAAAAATTAGGCTTAGCTCCTTTAAAAATTC-A--T---TTGAAGA
* * * *
2672545 TATCAAGAAACCCCTTAAAATCATGCTTAGCTCCTTTAAAAATTCATTTGAAGA
1 CATCAAGAAACCCCTAAAAATTAGGCTTAGCTCCTTTAAAAATTCATTTGAAGA
* * *
2672599 CATCAAGAAACCCCTAAAAATCAGGCTTAGGC-CATTTAAAAATTCATTTAAAGA
1 CATCAAGAAACCCCTAAAAATTAGGCTTA-GCTCCTTTAAAAATTCATTTGAAGA
* * * *
2672653 CATCAAGAAACCCATGAAAATCAGGCTTAGCTCCTTTAAAAATTCATTTGAAAA
1 CATCAAGAAACCCCTAAAAATTAGGCTTAGCTCCTTTAAAAATTCATTTGAAGA
* *
2672707 TATCAAG-AACCCCT-AAAATTAGGCTTAGCTCCTTT-AAAATTCATTTGAAAA
1 CATCAAGAAACCCCTAAAAATTAGGCTTAGCTCCTTTAAAAATTCATTTGAAGA
* * * * *
2672758 CATCAAGAAACCCCTAAAAATTAGGCTTAACTTCTTTGAAAATTCTTTTGAAAA
1 CATCAAGAAACCCCTAAAAATTAGGCTTAGCTCCTTTAAAAATTCATTTGAAGA
* **
2672812 CATCAAGAAACCCCTAAAAATTAGGCTTAGTTTATTTGAAAAA-TCATTTGAAGAAA
1 CATCAAGAAACCCCTAAAAATTAGGCTTAGCTCCTTT-AAAAATTCATTTGAAG--A
** * * * *
2672868 TCATCAAGAAACTTCTGAAAA-TCGGACATAGCTCCTTTAAAAATTCATTTGAAAATA
1 -CATCAAGAAACCCCTAAAAATTAGG-CTTAGCTCCTTTAAAAATTCATTTG--AAGA
** * * * *
2672925 TCATCAAGAAACCTTTGAAAATTGGGCTTAGCTTCTTTGAAAATTCATTTGAA
1 -CATCAAGAAACCCCTAAAAATTAGGCTTAGCTCCTTTAAAAATTCATTTGAA
2672978 AATATCATAT
Statistics
Matches: 376, Mismatches: 43, Indels: 33
0.83 0.10 0.07
Matches are distributed among these distances:
51 22 0.06
52 27 0.07
53 27 0.07
54 162 0.43
55 8 0.02
56 9 0.02
57 75 0.20
58 3 0.01
59 3 0.01
60 40 0.11
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.30
Consensus pattern (54 bp):
CATCAAGAAACCCCTAAAAATTAGGCTTAGCTCCTTTAAAAATTCATTTGAAGA
Found at i:2672771 original size:159 final size:160
Alignment explanation
Indices: 2672485--2672984 Score: 526
Period size: 159 Copynumber: 3.0 Consensus size: 160
2672475 TTACAGTTAT
* *
2672485 CATCAAGAAACCCCTAAAAATTAAGCTTAGCTTCTTTAAAAATTCAATTTCAATTGAAGATATCA
1 CATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTAAAAATTC-A--T---TTGAAAATATCA
* * *
2672550 AGAAACCCCTTAAAATCATGCTTAGCTCCTTTAAAAATTCATTTGAAGACATCAAGAAACCCCTA
60 AGAAACCCC-TAAAATTAGGCTTAGCTCCTTTAAAAATTCATTTGAAAACATCAAGAAACCCCTA
*
2672615 AAAATCAGGCTTAGGC-CATTTAAAAATTCATTT-AAAGA
124 AAAATCAGGCTTA-ACTC-TTTAAAAATTCATTTGAAA-A
* * * *
2672653 CATCAAGAAACCCATGAAAATCAGGCTTAGCTCCTTTAAAAATTCATTTGAAAATATCAAG-AAC
1 CATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTAAAAATTCATTTGAAAATATCAAGAAAC
*
2672717 CCCTAAAATTAGGCTTAGCTCCTTT-AAAATTCATTTGAAAACATCAAGAAACCCCTAAAAATTA
66 CCCTAAAATTAGGCTTAGCTCCTTTAAAAATTCATTTGAAAACATCAAGAAACCCCTAAAAATCA
* *
2672781 GGCTTAACTTCTTTGAAAATTCTTTTGAAAA
131 GGCTTAAC-TCTTTAAAAATTCATTTGAAAA
* *
2672812 CATCAAGAAACCCCTAAAAATTAGGCTTAGTTTATTTGAAAAA-TCATTTGAAGAAATCATCAAG
1 CATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTT-AAAAATTCATTTG-A-AAAT-ATCAAG
** * * **
2672876 AAACTTCTGAAAA-TCGGACATAGCTCCTTTAAAAATTCATTTGAAAATATCATCAAGAAACCTT
62 AAACCCCT-AAAATTAGG-CTTAGCTCCTTTAAAAATTCATTTG-AAA-A-CATCAAGAAACCCC
* ** * *
2672940 TGAAAATTGGGCTTAGCTTCTTTGAAAATTCATTTGAAAA
122 TAAAAATCAGGCTTAAC-TCTTTAAAAATTCATTTGAAAA
*
2672980 TATCA
1 CATCA
2672985 TATTGGGTAG
Statistics
Matches: 288, Mismatches: 30, Indels: 28
0.83 0.09 0.08
Matches are distributed among these distances:
158 1 0.00
159 95 0.33
160 30 0.10
161 10 0.03
162 19 0.07
163 8 0.03
164 15 0.05
165 13 0.05
166 3 0.01
167 2 0.01
168 92 0.32
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.30
Consensus pattern (160 bp):
CATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTAAAAATTCATTTGAAAATATCAAGAAAC
CCCTAAAATTAGGCTTAGCTCCTTTAAAAATTCATTTGAAAACATCAAGAAACCCCTAAAAATCA
GGCTTAACTCTTTAAAAATTCATTTGAAAA
Found at i:2672972 original size:273 final size:269
Alignment explanation
Indices: 2672485--2672984 Score: 641
Period size: 273 Copynumber: 1.8 Consensus size: 269
2672475 TTACAGTTAT
* * *
2672485 CATCAAGAAACCCCTAAAAATTAAGCTTAGCTTCTTTAAAAATTCAATTTCAATTGAAGATATCA
1 CATCAAGAAACCCCTAAAAATTAAGCTTAACTTCTTTAAAAATTC-A-TT--ATTGAAAACATCA
* * *
2672550 AGAAACCCCTTAAAATCATGCTTAGCTCCTTTAAAAATTCATTTGAAGACATCAAGAAACCCCTA
62 AGAAACCCCTAAAAATCAGGCTTAGCTCATTTAAAAATTCATTTGAAGACATCAAGAAACCCCTA
*
2672615 AAAATCAGGCTTAGGCCATTTAAAAATTCATTTAAAGACATCAAGAAACCCATGAAAATCAGGCT
127 AAAATCAGGCATAGGCCATTTAAAAATTCATTTAAAGACATCAAGAAACCCATGAAAATCAGGCT
2672680 TAGCTCCTTTAAAAATTCATTTGAAAATATCAAGAACCCCTAAAATTAGGCTTAGCTCCTTTAAA
192 TAGCTCCTTTAAAAATTCATTTGAAAATATCAAGAACCCCTAAAATTAGGCTTAGCTCCTTTAAA
2672745 ATTCATTTGAAAA
257 ATTCATTTGAAAA
* *
2672758 CATCAAGAAACCCCTAAAAATTAGGCTTAACTTCTTTGAAAATTC-TT-TTGAAAACATCAAGAA
1 CATCAAGAAACCCCTAAAAATTAAGCTTAACTTCTTTAAAAATTCATTATTGAAAACATCAAGAA
* * * ** *
2672821 ACCCCTAAAAATTAGGCTTAGTTTATTTGAAAAA-TCATTTGAAGAAATCATCAAGAAACTTCTG
66 ACCCCTAAAAATCAGGCTTAGCTCATTT-AAAAATTCATTTGAAG--A-CATCAAGAAACCCCTA
* * ** *
2672885 AAAATC-GGACATA-GCTCCTTTAAAAATTCATTTGAAAATATCATCAAGAAACCTTTGAAAATT
127 AAAATCAGG-CATAGGC-CATTTAAAAATTCATTT--AAAGA-CATCAAGAAACCCATGAAAATC
* * *
2672948 GGGCTTAGCTTCTTTGAAAATTCATTTGAAAATATCA
187 AGGCTTAGCTCCTTTAAAAATTCATTTGAAAATATCA
2672985 TATTGGGTAG
Statistics
Matches: 195, Mismatches: 23, Indels: 18
0.83 0.10 0.08
Matches are distributed among these distances:
267 46 0.24
268 5 0.03
269 5 0.03
270 40 0.21
272 4 0.02
273 95 0.49
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.30
Consensus pattern (269 bp):
CATCAAGAAACCCCTAAAAATTAAGCTTAACTTCTTTAAAAATTCATTATTGAAAACATCAAGAA
ACCCCTAAAAATCAGGCTTAGCTCATTTAAAAATTCATTTGAAGACATCAAGAAACCCCTAAAAA
TCAGGCATAGGCCATTTAAAAATTCATTTAAAGACATCAAGAAACCCATGAAAATCAGGCTTAGC
TCCTTTAAAAATTCATTTGAAAATATCAAGAACCCCTAAAATTAGGCTTAGCTCCTTTAAAATTC
ATTTGAAAA
Found at i:2675070 original size:9 final size:9
Alignment explanation
Indices: 2675058--2675170 Score: 57
Period size: 10 Copynumber: 11.7 Consensus size: 9
2675048 ATTTGATTTG
2675058 TTTTCTTTT
1 TTTTCTTTT
*
2675067 TTTT-TCTT
1 TTTTCTTTT
2675075 TTTTCTTTT
1 TTTTCTTTT
**
2675084 TTTGGTTTAT
1 TTTTCTTT-T
2675094 TTTCTCTCTTT
1 TTT-TCT-TTT
*
2675105 TGTTGCTTTAT
1 T-TTTCTTT-T
*
2675116 TTTCTCTCTT
1 TTT-TCTTTT
* *
2675126 CTTTCTTTC
1 TTTTCTTTT
*
2675135 TTTTCTCTCT
1 TTTTCT-TTT
*
2675145 TTTTATGTTT
1 TTTTCT-TTT
2675155 TTTTCTTCTT
1 TTTTCTT-TT
2675165 TTTTCT
1 TTTTCT
2675171 ATATCTTCTC
Statistics
Matches: 76, Mismatches: 19, Indels: 17
0.68 0.17 0.15
Matches are distributed among these distances:
8 7 0.09
9 23 0.30
10 32 0.42
11 10 0.13
12 4 0.05
ACGTcount: A:0.03, C:0.17, G:0.04, T:0.76
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:2675103 original size:22 final size:21
Alignment explanation
Indices: 2675063--2675186 Score: 93
Period size: 20 Copynumber: 6.2 Consensus size: 21
2675053 ATTTGTTTTC
*
2675063 TTTTTT-TTTCTTTT-T-TCT
1 TTTTTTCTTTATTTTCTCTCT
*
2675081 TTTTTTGGTTTATTTTCTCTCT
1 TTTTTT-CTTTATTTTCTCTCT
*
2675103 TTTGTTGCTTTATTTTCTCTC-
1 TTT-TTTCTTTATTTTCTCTCT
* *
2675124 TTCTTTCTTTCTTTTCTCTCT
1 TTTTTTCTTTATTTTCTCTCT
* *
2675145 TTTTATGTTT-TTTTCT-TC-
1 TTTTTTCTTTATTTTCTCTCT
* *
2675163 TTTTTTCTATATCTTCTCT-T
1 TTTTTTCTTTATTTTCTCTCT
2675183 TTTT
1 TTTT
2675187 CTCTCCATGT
Statistics
Matches: 84, Mismatches: 13, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
18 13 0.15
19 7 0.08
20 33 0.39
21 10 0.12
22 19 0.23
23 2 0.02
ACGTcount: A:0.04, C:0.17, G:0.04, T:0.75
Consensus pattern (21 bp):
TTTTTTCTTTATTTTCTCTCT
Found at i:2675188 original size:9 final size:9
Alignment explanation
Indices: 2675058--2675190 Score: 58
Period size: 9 Copynumber: 13.9 Consensus size: 9
2675048 ATTTGATTTG
2675058 TTTTCT-TT
1 TTTTCTCTT
*
2675066 TTTTTTCTT
1 TTTTCTCTT
2675075 TTTTCT-TT
1 TTTTCTCTT
* *
2675083 TTTTGGTTTAT
1 TTTT-CTCT-T
2675094 TTTCTCTCTT
1 TTT-TCTCTT
2675104 TTGTTGCT-TT
1 TT-TT-CTCTT
2675114 ATTTTCTCTCT
1 -TTTTCTCT-T
2675125 TCTTTCT-TT
1 T-TTTCTCTT
2675134 CTTTTCTCTCT
1 -TTTTCTCT-T
* *
2675145 TTTTATGTTT
1 TTTTCT-CTT
2675155 TTTTCTTCTT
1 TTTTC-TCTT
* *
2675165 TTTTCTATA
1 TTTTCTCTT
*
2675174 TCTTCTCTT
1 TTTTCTCTT
2675183 TTTTCTCT
1 TTTTCTCT
2675191 CCATGTTGTC
Statistics
Matches: 94, Mismatches: 15, Indels: 31
0.67 0.11 0.22
Matches are distributed among these distances:
8 11 0.12
9 31 0.33
10 31 0.33
11 20 0.21
12 1 0.01
ACGTcount: A:0.04, C:0.18, G:0.04, T:0.74
Consensus pattern (9 bp):
TTTTCTCTT
Found at i:2680650 original size:3 final size:3
Alignment explanation
Indices: 2680642--2680689 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
2680632 ATGAGTAAAT
*
2680642 ATA ATA ATA ATA ATA ATA ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2680690 CAATATATAT
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:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2688178 original size:17 final size:17
Alignment explanation
Indices: 2688156--2688190 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
2688146 TTCTTAAGAT
2688156 TGGCATATAATATTTCC
1 TGGCATATAATATTTCC
2688173 TGGCATATAATATTTCC
1 TGGCATATAATATTTCC
2688190 T
1 T
2688191 TCTTGTGGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.43
Consensus pattern (17 bp):
TGGCATATAATATTTCC
Found at i:2690078 original size:21 final size:20
Alignment explanation
Indices: 2690053--2690124 Score: 64
Period size: 21 Copynumber: 3.7 Consensus size: 20
2690043 GGTGACTTAG
2690053 GTAGCTAGCTAGGTTAGTAA
1 GTAGCTAGCTAGGTTAGTAA
* *
2690073 GCTAGCTA--TAAGCT--TAA
1 G-TAGCTAGCTAGGTTAGTAA
2690090 GTAGCTAGCTAGG-TAGTATA
1 GTAGCTAGCTAGGTTAGTA-A
2690110 GGTAGCTAGCTAGGT
1 -GTAGCTAGCTAGGT
2690125 ACGTATTGTC
Statistics
Matches: 41, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
16 6 0.15
17 5 0.12
18 3 0.07
19 6 0.15
20 2 0.05
21 19 0.46
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.29
Consensus pattern (20 bp):
GTAGCTAGCTAGGTTAGTAA
Found at i:2690125 original size:21 final size:22
Alignment explanation
Indices: 2690090--2690130 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
2690080 ATAAGCTTAA
2690090 GTAGCTAGCTAGGTA-GTATAG
1 GTAGCTAGCTAGGTACGTATAG
2690111 GTAGCTAGCTAGGTACGTAT
1 GTAGCTAGCTAGGTACGTAT
2690131 TGTCACTCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.27, C:0.12, G:0.32, T:0.29
Consensus pattern (22 bp):
GTAGCTAGCTAGGTACGTATAG
Found at i:2694217 original size:46 final size:46
Alignment explanation
Indices: 2694164--2694270 Score: 160
Period size: 46 Copynumber: 2.3 Consensus size: 46
2694154 AAACTACCTA
* * *
2694164 TGAAAAGTAGCTGAAATGGTGCATTATTGCTGCAATAAATGACTTC
1 TGAAAAGTAGCTGAAACGATGCATTATTGCTGCAATAAATGACATC
* *
2694210 TGAAAAGTGGCTTAAACGATGCATTATTGCTGCAATAAATGACATC
1 TGAAAAGTAGCTGAAACGATGCATTATTGCTGCAATAAATGACATC
*
2694256 TGAAAAGTAGTTGAA
1 TGAAAAGTAGCTGAA
2694271 GCAGTGAATA
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 53 1.00
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.29
Consensus pattern (46 bp):
TGAAAAGTAGCTGAAACGATGCATTATTGCTGCAATAAATGACATC
Found at i:2694631 original size:241 final size:240
Alignment explanation
Indices: 2694194--2694752 Score: 839
Period size: 241 Copynumber: 2.3 Consensus size: 240
2694184 GCATTATTGC
* * * * * *
2694194 TGCAATAAATGACTTCTGAAAAGTGGCTTAAACGATGCATTATTGCTGCAATAAATGACATCTGA
1 TGCATTAAATGACCTCTGAAAAGTAGCTAAAACG-TGCATTATTGTTGCAATAAATGACCTCTGA
* *
2694259 AAAGTAGTTGAAGCAGTGAATAATTTGGTATGATTAAAATACACATTTTTTATGATTTGAAGTGA
65 AAAGTAGTTGAAGCAGTGAATAATTTGGCATGATTAAAATACACATTTTTTATGATTTGAAGTAA
* * *
2694324 CAATTTAACACTGAAATGTTTTCTGATTTGAGTTGATATATCACTGAGAAGTTACAGAATATGAT
130 CAATTCAACACTGAAAAGTTTTCTGATTTGAGTTGATATATCACTGAGAAGTTACAGAAGATGAT
* * *
2694389 AATGCATCACTATTTTCACCCGTTTTCTAAATAGTTGCTTGAATTA
195 AATGCAACACTATTTTAACCCGTTTTCTAAATAGATGCTTGAATTA
* * * *
2694435 TGCATTAAATGACCTCTAAAAAGTAGCTAAAACAGTGCATTATTGTTGCAATAGATGACCTTTGT
1 TGCATTAAATGACCTCTGAAAAGTAGCTAAAAC-GTGCATTATTGTTGCAATAAATGACCTCTGA
* *
2694500 AAAGTAGTTGAAGCAGTGAATAATTTGGCCTGGTTAAAATACACATTTTTTATGATTTGAAGTAA
65 AAAGTAGTTGAAGCAGTGAATAATTTGGCATGATTAAAATACACATTTTTTATGATTTGAAGTAA
* *
2694565 CAATTCAACACTGAAAAGTTTTCTTATTTGAGTTGATATATCACTGAGAAGTTGCAGAAGATGAT
130 CAATTCAACACTGAAAAGTTTTCTGATTTGAGTTGATATATCACTGAGAAGTTACAGAAGATGAT
** *
2694630 AATGCAACACTATTTTAATTCGTTTTCTAAATAGATGTTTGAATTA
195 AATGCAACACTATTTTAACCCGTTTTCTAAATAGATGCTTGAATTA
* *
2694676 TACATTAAATGACCTCTGAAAAGTAGCTGAAACGGTGCATTATTGTTGCAATAAATGACCTCTGA
1 TGCATTAAATGACCTCTGAAAAGTAGCTAAAAC-GTGCATTATTGTTGCAATAAATGACCTCTGA
*
2694741 AAAGTAGCTGAA
65 AAAGTAGTTGAA
2694753 AGATTGAAGA
Statistics
Matches: 284, Mismatches: 33, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
241 283 1.00
242 1 0.00
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (240 bp):
TGCATTAAATGACCTCTGAAAAGTAGCTAAAACGTGCATTATTGTTGCAATAAATGACCTCTGAA
AAGTAGTTGAAGCAGTGAATAATTTGGCATGATTAAAATACACATTTTTTATGATTTGAAGTAAC
AATTCAACACTGAAAAGTTTTCTGATTTGAGTTGATATATCACTGAGAAGTTACAGAAGATGATA
ATGCAACACTATTTTAACCCGTTTTCTAAATAGATGCTTGAATTA
Found at i:2696232 original size:30 final size:30
Alignment explanation
Indices: 2696198--2696270 Score: 137
Period size: 30 Copynumber: 2.4 Consensus size: 30
2696188 CCCGAATGAC
2696198 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
2696228 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
2696258 CTATCCATAGGTC
1 CTATCCAGAGGTC
2696271 CCGAAGAACC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:2696287 original size:30 final size:30
Alignment explanation
Indices: 2696198--2696297 Score: 110
Period size: 30 Copynumber: 3.3 Consensus size: 30
2696188 CCCGAATGAC
* *
2696198 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCATAGGTCACAAAGATCCTCGGTAA
* *
2696228 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCATAGGTCACAAAGATCCTCGGTAA
* * * *
2696258 CTATCCATAGGTCCCGAAGAACCTAGGTAAA
1 CTATCCATAGGTCACAAAGATCCTCGGT-AA
*
2696289 CTGTCCATA
1 CTATCCATA
2696298 TGTTCCTTAG
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
30 52 0.84
31 10 0.16
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (30 bp):
CTATCCATAGGTCACAAAGATCCTCGGTAA
Found at i:2696310 original size:31 final size:31
Alignment explanation
Indices: 2696275--2696351 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 31
2696265 TAGGTCCCGA
* *
2696275 AGAACCTAGGTAAACTGTCCATATGTTCCTT
1 AGAACATAGGTAAACTGCCCATATGTTCCTT
* *
2696306 AGAACATAGGTATACTGCCCATATGTTTCTT
1 AGAACATAGGTAAACTGCCCATATGTTCCTT
*
2696337 AAAACATAGGTAAAC
1 AGAACATAGGTAAAC
2696352 CCTTGACTCT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (31 bp):
AGAACATAGGTAAACTGCCCATATGTTCCTT
Found at i:2699994 original size:31 final size:30
Alignment explanation
Indices: 2699928--2699997 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
2699918 CCCGAAGGAC
* * * *
2699928 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCATAGGTCACAAAGAACCTAGGTAA
*
2699958 CTATCCATAGGTCCCAAAGAACCTAGGTAAA
1 CTATCCATAGGTCACAAAGAACCTAGGT-AA
2699989 CTATCCATA
1 CTATCCATA
2699998 TGTTCCTTAG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 23 0.68
31 11 0.32
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.23
Consensus pattern (30 bp):
CTATCCATAGGTCACAAAGAACCTAGGTAA
Found at i:2700010 original size:31 final size:31
Alignment explanation
Indices: 2699956--2700051 Score: 93
Period size: 31 Copynumber: 3.1 Consensus size: 31
2699946 GATCCTCGGT
* * ** *
2699956 AACTATCCATAGGTCCCAAAGAACCTAGGTA
1 AACTATCCATATGTTCCTTAGAACATAGGTA
2699987 AACTATCCATATGTTCCTTAGAACATAGGTA
1 AACTATCCATATGTTCCTTAGAACATAGGTA
* * * * * *
2700018 TACTGTTCATATGTTTCTTAAAACATAGGCA
1 AACTATCCATATGTTCCTTAGAACATAGGTA
2700049 AAC
1 AAC
2700052 CCTCGACTCT
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 53 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (31 bp):
AACTATCCATATGTTCCTTAGAACATAGGTA
Found at i:2709631 original size:136 final size:136
Alignment explanation
Indices: 2709387--2709659 Score: 546
Period size: 136 Copynumber: 2.0 Consensus size: 136
2709377 TAGACATAAT
2709387 GTCTCCAGATCTTCAAAGCAAATACCACTGTAGCTAACTCCATATCGTGGGTGAGATAATTACGT
1 GTCTCCAGATCTTCAAAGCAAATACCACTGTAGCTAACTCCATATCGTGGGTGAGATAATTACGT
2709452 TCATGAAAATTTAACTGACGGGATGCATAAGCTACAACCTTCTCATATTGCACCAGAACACATCC
66 TCATGAAAATTTAACTGACGGGATGCATAAGCTACAACCTTCTCATATTGCACCAGAACACATCC
2709517 AGTCTA
131 AGTCTA
2709523 GTCTCCAGATCTTCAAAGCAAATACCACTGTAGCTAACTCCATATCGTGGGTGAGATAATTACGT
1 GTCTCCAGATCTTCAAAGCAAATACCACTGTAGCTAACTCCATATCGTGGGTGAGATAATTACGT
2709588 TCATGAAAATTTAACTGACGGGATGCATAAGCTACAACCTTCTCATATTGCACCAGAACACATCC
66 TCATGAAAATTTAACTGACGGGATGCATAAGCTACAACCTTCTCATATTGCACCAGAACACATCC
2709653 AGTCTA
131 AGTCTA
2709659 G
1 G
2709660 AGTGAAAAGG
Statistics
Matches: 137, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
136 137 1.00
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.26
Consensus pattern (136 bp):
GTCTCCAGATCTTCAAAGCAAATACCACTGTAGCTAACTCCATATCGTGGGTGAGATAATTACGT
TCATGAAAATTTAACTGACGGGATGCATAAGCTACAACCTTCTCATATTGCACCAGAACACATCC
AGTCTA
Found at i:2715575 original size:77 final size:77
Alignment explanation
Indices: 2715474--2715802 Score: 408
Period size: 77 Copynumber: 4.2 Consensus size: 77
2715464 ATAAAATACA
* * * * *
2715474 GTTGCGCCTAAAAATGACATGGTTCACTAGGAAACAGGTTGCGATCTGGAATGTTAATATTTTTA
1 GTTGCGCCCAAGAATGTCATGGTTCACTAAGAAATAGGTTGCGATCTGGAATGTTAATATTTTTA
2715539 TTAATAAAATGG
66 TTAATAAAATGG
* * * * *
2715551 GTTGAGCCCAAGAATGTCATGGTTCACTAAAAAAATAGGTTGTGATTTGTAATG-TAATATTAAT
1 GTTGCGCCCAAGAATGTCATGGTTCACT-AAGAAATAGGTTGCGATCTGGAATGTTAATA-T--T
* *
2715615 ATTTTTTAATAAAATAG
62 -TTTATTAATAAAATGG
* * * * * *
2715632 GTTGCGCCCAAGAATATCATGGTTCATTAAGAAATGGGTTGCAAACTGGAATGTTAATAATTTTA
1 GTTGCGCCCAAGAATGTCATGGTTCACTAAGAAATAGGTTGCGATCTGGAATGTTAATATTTTTA
2715697 TTAATAAAATGG
66 TTAATAAAATGG
* * *
2715709 GTTTCGCTCAAGAATGTCATGGTTCATTAAGAAATAGGTTGCGATCTGGAATGTTAATATTTTTA
1 GTTGCGCCCAAGAATGTCATGGTTCACTAAGAAATAGGTTGCGATCTGGAATGTTAATATTTTTA
2715774 TTAATAAAATGG
66 TTAATAAAATGG
*
2715786 GTTGCGCACAAGAATGT
1 GTTGCGCCCAAGAATGT
2715803 TAACCTTAAC
Statistics
Matches: 212, Mismatches: 34, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
77 128 0.60
78 21 0.10
80 19 0.09
81 44 0.21
ACGTcount: A:0.35, C:0.10, G:0.21, T:0.34
Consensus pattern (77 bp):
GTTGCGCCCAAGAATGTCATGGTTCACTAAGAAATAGGTTGCGATCTGGAATGTTAATATTTTTA
TTAATAAAATGG
Found at i:2715708 original size:40 final size:40
Alignment explanation
Indices: 2715663--2715791 Score: 120
Period size: 40 Copynumber: 3.3 Consensus size: 40
2715653 GTTCATTAAG
* *
2715663 AAATGGGTTGCAAACTGGAATGTTAATAATTTTATTAATA
1 AAATGGGTTGCGATCTGGAATGTTAATAATTTTATTAATA
* * ** * ** * *
2715703 AAATGGGTTTCGCTCAAGAATG-TCAT-GGTTCATTAA-G
1 AAATGGGTTGCGATCTGGAATGTTAATAATTTTATTAATA
* *
2715740 AAATAGGTTGCGATCTGGAATGTTAATATTTTTATTAATA
1 AAATGGGTTGCGATCTGGAATGTTAATAATTTTATTAATA
2715780 AAATGGGTTGCG
1 AAATGGGTTGCG
2715792 CACAAGAATG
Statistics
Matches: 64, Mismatches: 22, Indels: 6
0.70 0.24 0.07
Matches are distributed among these distances:
37 17 0.27
38 10 0.16
39 10 0.16
40 27 0.42
ACGTcount: A:0.34, C:0.08, G:0.22, T:0.36
Consensus pattern (40 bp):
AAATGGGTTGCGATCTGGAATGTTAATAATTTTATTAATA
Found at i:2715762 original size:37 final size:37
Alignment explanation
Indices: 2715643--2715762 Score: 96
Period size: 37 Copynumber: 3.2 Consensus size: 37
2715633 TTGCGCCCAA
* * *
2715643 GAATATCATGGTTCATTAAGAAATGGGTTGCAAACTG
1 GAATGTCATGGTTCATTAAGAAATGGGTTGCGATCTG
* ** * * * * **
2715680 GAATGTTAATAATTTTATTAATAAAATGGGTTTCGCTCAA
1 GAATG-TCAT-GGTTCATTAA-GAAATGGGTTGCGATCTG
*
2715720 GAATGTCATGGTTCATTAAGAAATAGGTTGCGATCTG
1 GAATGTCATGGTTCATTAAGAAATGGGTTGCGATCTG
2715757 GAATGT
1 GAATGT
2715763 TAATATTTTT
Statistics
Matches: 58, Mismatches: 22, Indels: 6
0.67 0.26 0.07
Matches are distributed among these distances:
37 22 0.38
38 10 0.17
39 10 0.17
40 16 0.28
ACGTcount: A:0.34, C:0.09, G:0.23, T:0.34
Consensus pattern (37 bp):
GAATGTCATGGTTCATTAAGAAATGGGTTGCGATCTG
Found at i:2715767 original size:158 final size:154
Alignment explanation
Indices: 2715464--2715801 Score: 410
Period size: 158 Copynumber: 2.2 Consensus size: 154
2715454 ATATATATAT
* * * * * *
2715464 ATAAAATACAGTTGCGCCTAAAAATGACATGGTTCACTAGGAAACAGGTTGCGATCTGGAATGTT
1 ATAAAATA-GGTTGCGCCCAAGAATGACATGGTTCACTAAGAAACAGGTTGCAAACTGGAATGTT
* *
2715529 AATATTTTTATTAATAAAATGGGTTGAGCCCAAGAATGTCATGGTTCACTAAAAAAATAGGTTGT
65 AATAATTTTATTAATAAAATGGGTTGAGCCCAAGAATGTCATGGTTCACTAAAAAAATAGGTTGC
* * *
2715594 GATTTGTAATGTAATATTAATATTTTTTA
130 GATCTGGAATGTAATA-T--T-TTTATTA
* **
2715623 ATAAAATAGGTTGCGCCCAAGAAT-ATCATGGTTCATTAAGAAATGGGTTGCAAACTGGAATGTT
1 ATAAAATAGGTTGCGCCCAAGAATGA-CATGGTTCACTAAGAAACAGGTTGCAAACTGGAATGTT
** * * *
2715687 AATAATTTTATTAATAAAATGGGTTTCGCTCAAGAATGTCATGGTTCA-TTAAGAAATAGGTTGC
65 AATAATTTTATTAATAAAATGGGTTGAGCCCAAGAATGTCATGGTTCACTAAAAAAATAGGTTGC
2715751 GATCTGGAATGTTAATATTTTTATTA
130 GATCTGGAATG-TAATATTTTTATTA
* *
2715777 ATAAAATGGGTTGCGCACAAGAATG
1 ATAAAATAGGTTGCGCCCAAGAATG
2715802 TTAACCTTAA
Statistics
Matches: 155, Mismatches: 21, Indels: 10
0.83 0.11 0.05
Matches are distributed among these distances:
154 28 0.18
155 1 0.01
157 24 0.15
158 94 0.61
159 8 0.05
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.34
Consensus pattern (154 bp):
ATAAAATAGGTTGCGCCCAAGAATGACATGGTTCACTAAGAAACAGGTTGCAAACTGGAATGTTA
ATAATTTTATTAATAAAATGGGTTGAGCCCAAGAATGTCATGGTTCACTAAAAAAATAGGTTGCG
ATCTGGAATGTAATATTTTTATTA
Found at i:2715801 original size:40 final size:40
Alignment explanation
Indices: 2715680--2715805 Score: 116
Period size: 40 Copynumber: 3.2 Consensus size: 40
2715670 TTGCAAACTG
* *
2715680 GAATGTTAATAATTTTATTAATAAAATGGGTTTCGCTCAA
1 GAATGTTAATAATTTTATTAATAAAATGGGTTGCGCACAA
* ** * * * **
2715720 GAATG-TCAT-GGTTCATTAA-GAAATAGGTTGCG-ATCTG
1 GAATGTTAATAATTTTATTAATAAAATGGGTTGCGCA-CAA
*
2715757 GAATGTTAATATTTTTATTAATAAAATGGGTTGCGCACAA
1 GAATGTTAATAATTTTATTAATAAAATGGGTTGCGCACAA
2715797 GAATGTTAA
1 GAATGTTAA
2715806 CCTTAACATT
Statistics
Matches: 63, Mismatches: 18, Indels: 10
0.69 0.20 0.11
Matches are distributed among these distances:
37 16 0.25
38 10 0.16
39 10 0.16
40 26 0.41
41 1 0.02
ACGTcount: A:0.36, C:0.08, G:0.20, T:0.37
Consensus pattern (40 bp):
GAATGTTAATAATTTTATTAATAAAATGGGTTGCGCACAA
Found at i:2715844 original size:36 final size:38
Alignment explanation
Indices: 2715800--2715891 Score: 125
Period size: 39 Copynumber: 2.4 Consensus size: 38
2715790 CGCACAAGAA
* * *
2715800 TGTTAACCTTAACATTCTA-GA-TCGACTATTATAATT
1 TGTTAACCTTAACATTATATGAGTCAACTATTACAATT
2715836 TGTTAACCTTAACATTATATGAGTTCAACTATTACAATT
1 TGTTAACCTTAACATTATATGAG-TCAACTATTACAATT
*
2715875 TGTTAAACTTAACATTA
1 TGTTAACCTTAACATTA
2715892 AACTCATATC
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
36 18 0.37
37 2 0.04
39 29 0.59
ACGTcount: A:0.36, C:0.15, G:0.08, T:0.41
Consensus pattern (38 bp):
TGTTAACCTTAACATTATATGAGTCAACTATTACAATT
Found at i:2716160 original size:17 final size:17
Alignment explanation
Indices: 2716138--2716178 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
2716128 ACATAAATAA
2716138 ATCTAAACCT-GAAAATG
1 ATCTAAA-CTAGAAAATG
*
2716155 ATCTAAACTAGAAAGTG
1 ATCTAAACTAGAAAATG
2716172 ATCTAAA
1 ATCTAAA
2716179 AGTAACTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 2 0.09
17 20 0.91
ACGTcount: A:0.49, C:0.15, G:0.12, T:0.24
Consensus pattern (17 bp):
ATCTAAACTAGAAAATG
Found at i:2717304 original size:35 final size:35
Alignment explanation
Indices: 2717257--2717370 Score: 165
Period size: 35 Copynumber: 3.3 Consensus size: 35
2717247 AAAATAGTCC
* *
2717257 TCAATTTCATTCTAAACCCCAAATTCCAAAGTAAT
1 TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
* *
2717292 TCAATTTTATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
* * *
2717327 TCAATTAAATTCTAAACCCCAAATTCTAAAATACT
1 TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
2717362 TCAATTTAA
1 TCAATTTAA
2717371 GGTTTAGAAT
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 70 1.00
ACGTcount: A:0.43, C:0.22, G:0.01, T:0.34
Consensus pattern (35 bp):
TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
Found at i:2717410 original size:35 final size:35
Alignment explanation
Indices: 2717364--2717438 Score: 116
Period size: 35 Copynumber: 2.1 Consensus size: 35
2717354 AAAATACTTC
*
2717364 AATTTAAGGTTTAGAATGTAATTGAATTA-TTTTGG
1 AATTTAAGGTTTAGAATGAAATTGAATTACTTTT-G
*
2717399 AATTTAGGGTTTAGAATGAAATTGAATTACTTTTG
1 AATTTAAGGTTTAGAATGAAATTGAATTACTTTTG
2717434 AATTT
1 AATTT
2717439 TGAACATGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 33 0.89
36 4 0.11
ACGTcount: A:0.35, C:0.01, G:0.19, T:0.45
Consensus pattern (35 bp):
AATTTAAGGTTTAGAATGAAATTGAATTACTTTTG
Found at i:2717442 original size:24 final size:24
Alignment explanation
Indices: 2717415--2717486 Score: 62
Period size: 24 Copynumber: 3.0 Consensus size: 24
2717405 GGGTTTAGAA
2717415 TGAAATTGAATTACTTTTGAATTT
1 TGAAATTGAATTACTTTTGAATTT
2717439 TGAACA-TGAATTTACTATTTAGAA---
1 TGAA-ATTGAA-TTACT-TTT-GAATTT
* *
2717463 TAAAATTGAATTACTTTGGAATTT
1 TGAAATTGAATTACTTTTGAATTT
2717487 GGGGTTTAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 16
0.68 0.04 0.29
Matches are distributed among these distances:
21 3 0.08
22 2 0.05
23 6 0.16
24 15 0.39
25 6 0.16
26 3 0.08
27 3 0.08
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (24 bp):
TGAAATTGAATTACTTTTGAATTT
Found at i:2717883 original size:2 final size:2
Alignment explanation
Indices: 2717878--2717926 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
2717868 TAACCGTGTG
2717878 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
2717920 TA TA TA T
1 TA TA TA T
2717927 TCATAATATT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2720791 original size:11 final size:11
Alignment explanation
Indices: 2720775--2720807 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
2720765 TAAATGAAAA
2720775 AAATATTTTTT
1 AAATATTTTTT
2720786 AAATATTTTTT
1 AAATATTTTTT
*
2720797 -AACATTTTTT
1 AAATATTTTTT
2720807 A
1 A
2720808 TTGATATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (11 bp):
AAATATTTTTT
Found at i:2720855 original size:21 final size:21
Alignment explanation
Indices: 2720813--2720860 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
2720803 TTTTATTGAT
**
2720813 ATATTAAAAATATTATTCAAA
1 ATATTAAAAATATTATAAAAA
* *
2720834 ATATTTAAAATTTTATAAAAA
1 ATATTAAAAATATTATAAAAA
*
2720855 AAATTA
1 ATATTA
2720861 TTGGCACATT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
ATATTAAAAATATTATAAAAA
Found at i:2725574 original size:183 final size:182
Alignment explanation
Indices: 2724925--2725766 Score: 1168
Period size: 182 Copynumber: 4.6 Consensus size: 182
2724915 TGTCGGTATG
* *
2724925 TGTCGATACAAATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACCAAACCGG
1 TGTCGATACAAATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGG
* ** ** * *
2724990 TTTCATTATGATAAAACCGGTAAAGAACTACCTAATTTGTTGAAAGTATCGATTCCATTGAAATA
66 TTTCATTATGACAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTATCAATTCCATTGAAATA
** * *
2725055 AGTATCGACACTTTT-AGAATTTAAAAGAGATGCAGTAATAGCGGCTATAAAG
131 AGTATCGACACTTTTGA-AATTTAAAAGAGAAACAGTAATAGCGCCTATAAAA
* * * *
2725107 TATCAATACAAATAAAAATGTATCGATTCATAACAATATAACAGGTAAAAATATGACCAAACCGG
1 TGTCGATACAAATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGG
* * * ** *
2725172 TTTCATTATGAAAAAACCGATAAAGCACTACCTAATATGTTGAAAGTATCGATTCCATTGAAATA
66 TTTCATTATGACAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTATCAATTCCATTGAAATA
* * * *
2725237 AGTATCGACACTTTTGGAATTTAAAAGAGAAGCTGTAATAGCGCCTATAAAG
131 AGTATCGACACTTTTGAAATTTAAAAGAGAAACAGTAATAGCGCCTATAAAA
*
2725289 TGTCGATACAAATAAAAATGTATCGATCTATAACAATATAACAGGTAAAAATATGACAAAACCGG
1 TGTCGATACAAATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGG
* *
2725354 TTTCATTATGACAAAACCAGTAAAGCGCTACCGGATATGTTGAAATTATCAATTCCATTGAAATA
66 TTTCATTATGACAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTATCAATTCCATTGAAATA
2725419 AGTATCGACACTTTTGAAATTTAAAAGAGAAACAGTAATAGCGCCTATAAAA
131 AGTATCGACACTTTTGAAATTTAAAAGAGAAACAGTAATAGCGCCTATAAAA
** * *
2725471 TGTCGATACTTTATAAAAATATATCGATCCATAACAATATAAGAGGTAAAAATATGACAAAACCG
1 TGTCGATAC-AAATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCG
* *
2725536 GTTTCATTATGACAAAACCGGTAAAGCGCTATCGGATATGTTGAAAGTATCAATTCCATTGAAAA
65 GTTTCATTATGACAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTATCAATTCCATTGAAAT
* * * * *
2725601 AAATATCGACACTTTTGGAATTTAAAAGA-AAAGTAGTAATAGTGTCTATAAAA
130 AAGTATCGACACTTTTGAAATTTAAAAGAGAAA-CAGTAATAGCGCCTATAAAA
** * *
2725654 TGTCGATACTTTATAAAAATGTATCGATCTATAACAATATAACATGTAAAAATATGA-AAAACTC
1 TGTCGATAC-AAATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAAC-C
** * * *
2725718 GGTTTCATTATGACAAAACTAGTAAAGTGTTATCGGATATGTTGAAAGT
64 GGTTTCATTATGACAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGT
2725767 GTCGATACTT
Statistics
Matches: 605, Mismatches: 51, Indels: 7
0.91 0.08 0.01
Matches are distributed among these distances:
182 351 0.58
183 254 0.42
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.28
Consensus pattern (182 bp):
TGTCGATACAAATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGG
TTTCATTATGACAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTATCAATTCCATTGAAATA
AGTATCGACACTTTTGAAATTTAAAAGAGAAACAGTAATAGCGCCTATAAAA
Found at i:2725892 original size:21 final size:21
Alignment explanation
Indices: 2725837--2725893 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
2725827 TATCCTATCG
* *
2725837 AAAGTATCAACACCTGACATA
1 AAAGTATCGACACTTGACATA
2725858 AAAGTATCGACACTTGACATA
1 AAAGTATCGACACTTGACATA
2725879 AAAGTATCGACACTT
1 AAAGTATCGACACTT
2725894 TGGTAATTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.44, C:0.21, G:0.12, T:0.23
Consensus pattern (21 bp):
AAAGTATCGACACTTGACATA
Found at i:2728236 original size:66 final size:66
Alignment explanation
Indices: 2728105--2728240 Score: 175
Period size: 66 Copynumber: 2.1 Consensus size: 66
2728095 AAGGGGAAAG
** * *
2728105 TGGGTGGAAAAATAGATGAAGTAGTGAAAGAAGTTGAGGTGTTGAGGGGTGAACTTAAGATGGTG
1 TGGGTGGAAAAATAGATGAAGTAGTGAAAGAAGTTGAGGAATTGAGGAGTGAACTTAAGAGGGTG
2728170 A
66 A
* * * * *
2728171 TGGGTGGAAAAATTA-ATGGAGTGGTGAAAGAAGTTGTGGAATTGAGGAGTGAACTTACGGGGGT
1 TGGGTGGAAAAA-TAGATGAAGTAGTGAAAGAAGTTGAGGAATTGAGGAGTGAACTTAAGAGGGT
2728235 GA
65 GA
2728237 TGGG
1 TGGG
2728241 GTGGTTGATA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
66 58 0.97
67 2 0.03
ACGTcount: A:0.32, C:0.02, G:0.41, T:0.24
Consensus pattern (66 bp):
TGGGTGGAAAAATAGATGAAGTAGTGAAAGAAGTTGAGGAATTGAGGAGTGAACTTAAGAGGGTG
A
Found at i:2733462 original size:20 final size:20
Alignment explanation
Indices: 2733426--2733464 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2733416 AAACCGATAA
*
2733426 TTATAATGTAATAGGTAAAT
1 TTATAATGTAACAGGTAAAT
*
2733446 TTATAATGTAACCGGTAAA
1 TTATAATGTAACAGGTAAA
2733465 AATATACCGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.05, G:0.15, T:0.36
Consensus pattern (20 bp):
TTATAATGTAACAGGTAAAT
Found at i:2733470 original size:20 final size:20
Alignment explanation
Indices: 2733427--2733470 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
2733417 AACCGATAAT
* **
2733427 TATAATGTAATAGGTAAATT
1 TATAATGTAACAGGTAAAAA
*
2733447 TATAATGTAACCGGTAAAAA
1 TATAATGTAACAGGTAAAAA
2733467 TATA
1 TATA
2733471 CCGGTTTAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.48, C:0.05, G:0.14, T:0.34
Consensus pattern (20 bp):
TATAATGTAACAGGTAAAAA
Found at i:2733523 original size:199 final size:198
Alignment explanation
Indices: 2732930--2733729 Score: 1073
Period size: 199 Copynumber: 4.1 Consensus size: 198
2732920 GATCAACATA
* * **
2732930 TTGTGTCGATACTTTTGGTCCATAATGAATGCCCAACGAGGTATACGCATAAAGTGTCGATACAT
1 TTGTGTCGATACTTTTGGTCCAGAATGAATACCCAA-GAGGTGCACGCATAAAGTGTCGATACAT
* * * ** *
2732995 TTAAAATTGTATTGATCTCGAAAACATCGGAACCGATAATTATAATGTAATAGGTAAGTTTACAA
65 TTAAAATTGTATCGATCCCAAAAACATCAAAACCGATAATTATAATGTAATAGGTAAATTTACAA
* * *
2733060 TGTAACCAGTAGAAATATA-C-ATATTAATTAGAAAATAGGTCAAAATAATGTATCGACACTTTT
130 TGTAACCGGTAAAAATATACCGAT-TTAATTAGAAAATAGGTCAACATAATGTATCGACACTTTT
2733123 TAAAT
194 TAAAT
* *
2733128 TTGTGTCGATACTTTTTGTCTAGAATGAATACCCAAAGAGGTGCACGCATAAAGTGTCGATACAT
1 TTGTGTCGATACTTTTGGTCCAGAATGAATACCC-AAGAGGTGCACGCATAAAGTGTCGATACAT
* * * *
2733193 TTATTAAA-AGTATCGATCCCAAAAACATCGAAACTGATAATTATAATGTAATAGGTAAATATAC
65 TTA--AAATTGTATCGATCCCAAAAACATCAAAACCGATAATTATAATGTAATAGGTAAATTTAC
* *
2733257 AATGTAA---G---AAATATACCGATTTAATTAAAAAATAGGTCCACATAATGTATCGACACTTT
128 AATGTAACCGGTAAAAATATACCGATTTAATTAGAAAATAGGTCAACATAATGTATCGACACTTT
*
2733316 TCAAAT
193 TTAAAT
* * *
2733322 TTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAATGAGGTGCACGTATAAAGTGTCGATATAT
1 TTGTGTCGATACTTTTGGTCCAGAATGAATACCCAA-GAGGTGCACGCATAAAGTGTCGATACAT
* * *
2733387 TTAAAATTGTATAGATCCCAAAACCATCAAAACCGATAATTATAATGTAATAGGTAAATTTATAA
65 TTAAAATTGTATCGATCCCAAAAACATCAAAACCGATAATTATAATGTAATAGGTAAATTTACAA
* *
2733452 TGTAACCGGTAAAAATATACCGGTTTAATTAGAAAATAGGTCAACATAATATATCGACACTTTTT
130 TGTAACCGGTAAAAATATACCGATTTAATTAGAAAATAGGTCAACATAATGTATCGACACTTTTT
2733517 AAAT
195 AAAT
* * *
2733521 TTGTGTCGATACATTTT-TTCCAGAATGAATACCCAACAGGGTGCACGCATAAAGTGCCGATACA
1 TTGTGTCGATAC-TTTTGGTCCAGAATGAATACCCAAGA-GGTGCACGCATAAAGTGTCGATACA
*
2733585 TTTAAAATTGTATCGATCCCAAAAACATTAAAACCGATAATTATAATGTAATAGGTAAATTTACA
64 TTTAAAATTGTATCGATCCCAAAAACATCAAAACCGATAATTATAATGTAATAGGTAAATTTACA
* * * * * * *
2733650 ATGTAACCGATAAAAATATATCGATTTTATGAGAGAATAGGTAAACATATTGTATCGACACTTTT
129 ATGTAACCGGTAAAAATATACCGATTTAATTAGAAAATAGGTCAACATAATGTATCGACACTTTT
2733715 TAAA-
194 TAAAT
*
2733719 TTGTATCGATA
1 TTGTGTCGATA
2733730 TATTTTTTAA
Statistics
Matches: 532, Mismatches: 55, Indels: 30
0.86 0.09 0.05
Matches are distributed among these distances:
192 3 0.01
193 65 0.12
194 102 0.19
195 2 0.00
196 2 0.00
198 70 0.13
199 281 0.53
200 7 0.01
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (198 bp):
TTGTGTCGATACTTTTGGTCCAGAATGAATACCCAAGAGGTGCACGCATAAAGTGTCGATACATT
TAAAATTGTATCGATCCCAAAAACATCAAAACCGATAATTATAATGTAATAGGTAAATTTACAAT
GTAACCGGTAAAAATATACCGATTTAATTAGAAAATAGGTCAACATAATGTATCGACACTTTTTA
AAT
Found at i:2733654 original size:392 final size:391
Alignment explanation
Indices: 2732930--2733655 Score: 1138
Period size: 392 Copynumber: 1.9 Consensus size: 391
2732920 GATCAACATA
* *
2732930 TTGTGTCGATACTTTTGGTCCATAATGAATGCCCAACGAGGTATACGCATAAAGTGTCGATACAT
1 TTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTACACGCATAAAGTGTCGATACAT
* * ** *
2732995 TTAAAATTGTATTGATCTCGAAAACATCGGAACCGATAATTATAATGTAATAGGTAAGTTTACAA
66 TTAAAATTGTATAGATCTCCAAAACATCAAAACCGATAATTATAATGTAATAGGTAAATTTACAA
* *
2733060 TGTAACCAGTAGAAATATACATATTAATTAGAAAATAGGTCAAAATAATGTATCGACACTTTTTA
131 TGTAACCAGTAAAAATATACATATTAATTAGAAAATAGGTCAAAATAATATATCGACACTTTTTA
* *
2733125 AATTTGTGTCGATACTTTTTGTCTAGAATGAATACCCAAAGAGGTGCACGCATAAAGTGTCGATA
196 AATTTGTGTCGATACTTTTTGTCCAGAATGAATACCCAAAGAGGTGCACGCATAAAGTGCCGATA
* *
2733190 CATTTATTAAAAGTATCGATCCCAAAAACATCGAAACTGATAATTATAATGTAATAGGTAAATAT
261 CATTTA-TAAAAGTATCGATCCCAAAAACATCAAAACCGATAATTATAATGTAATAGGTAAATAT
2733255 ACAATGTAAGAAATATACCGATTTAATTAAAAAATAGGTCCACATAATGTATCGACACTTTTCAA
325 ACAATGTAAGAAATATACCGATTTAATTAAAAAATAGGTCCACATAATGTATCGACACTTTTCAA
2733320 AT
390 AT
* * * *
2733322 TTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAATGAGGTGCACGTATAAAGTGTCGATATAT
1 TTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTACACGCATAAAGTGTCGATACAT
*
2733387 TTAAAATTGTATAGATC-CCAAAACCATCAAAACCGATAATTATAATGTAATAGGTAAATTTATA
66 TTAAAATTGTATAGATCTCCAAAA-CATCAAAACCGATAATTATAATGTAATAGGTAAATTTACA
* * *
2733451 ATGTAACCGGTAAAAATATACCGGT-TTAATTAGAAAATAGGTCAACATAATATATCGACACTTT
130 ATGTAACCAGTAAAAATATA-C-ATATTAATTAGAAAATAGGTCAAAATAATATATCGACACTTT
2733515 TTAAATTTGTGTCGATACATTTTT-TCCAGAATGAATACCCAACAG-GGTGCACGCATAAAGTGC
193 TTAAATTTGTGTCGATAC-TTTTTGTCCAGAATGAATACCCAA-AGAGGTGCACGCATAAAGTGC
* *
2733578 CGATACATTTA-AAATTGTATCGATCCCAAAAACATTAAAACCGATAATTATAATGTAATAGGTA
256 CGATACATTTATAAA-AGTATCGATCCCAAAAACATCAAAACCGATAATTATAATGTAATAGGTA
*
2733642 AATTTACAATGTAA
320 AATATACAATGTAA
2733656 CCGATAAAAA
Statistics
Matches: 304, Mismatches: 24, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
391 8 0.03
392 187 0.62
393 101 0.33
394 8 0.03
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (391 bp):
TTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTACACGCATAAAGTGTCGATACAT
TTAAAATTGTATAGATCTCCAAAACATCAAAACCGATAATTATAATGTAATAGGTAAATTTACAA
TGTAACCAGTAAAAATATACATATTAATTAGAAAATAGGTCAAAATAATATATCGACACTTTTTA
AATTTGTGTCGATACTTTTTGTCCAGAATGAATACCCAAAGAGGTGCACGCATAAAGTGCCGATA
CATTTATAAAAGTATCGATCCCAAAAACATCAAAACCGATAATTATAATGTAATAGGTAAATATA
CAATGTAAGAAATATACCGATTTAATTAAAAAATAGGTCCACATAATGTATCGACACTTTTCAAA
T
Found at i:2736552 original size:24 final size:24
Alignment explanation
Indices: 2736514--2736565 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
2736504 TTCCATGTTC
2736514 ATTTGAAATTTAATTGGAGTTTGA
1 ATTTGAAATTTAATTGGAGTTTGA
*
2736538 ATTT-AAATTTCAATTTGAGTTTGA
1 ATTTGAAATTT-AATTGGAGTTTGA
2736562 ATTT
1 ATTT
2736566 CGATATAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 6 0.23
24 20 0.77
ACGTcount: A:0.33, C:0.02, G:0.15, T:0.50
Consensus pattern (24 bp):
ATTTGAAATTTAATTGGAGTTTGA
Found at i:2736576 original size:24 final size:24
Alignment explanation
Indices: 2736525--2736576 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
2736515 TTTGAAATTT
* *
2736525 AATTGGAGTTTGAATTTAAATTTC
1 AATTGGAGTTTGAATTTAAATATA
* **
2736549 AATTTGAGTTTGAATTTCGATATA
1 AATTGGAGTTTGAATTTAAATATA
2736573 AATT
1 AATT
2736577 CAACTTCACT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.04, G:0.15, T:0.46
Consensus pattern (24 bp):
AATTGGAGTTTGAATTTAAATATA
Found at i:2738672 original size:198 final size:198
Alignment explanation
Indices: 2738044--2738980 Score: 1311
Period size: 199 Copynumber: 4.7 Consensus size: 198
2738034 TTTTAAAATT
*
2738044 GTATCAATCCCAAAAACATCGAAATCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCG
1 GTATCGATCCCAAAAACATCGAAATCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCG
* * * *
2738109 GAAGAAATATACCAGTTTAATTAGTAAATAGGTCAACATAATGTATCGACACTTTTTAAATTTGT
66 GTAGAAATATA-CAGGTTAATTAGAAAATAGGTCAACATAATGTATCGATACTTTTTAAA-TTGT
* ** * * *
2738174 GTTGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTACACGCATAAAATGTCGATACATTTAT
129 GTCGATACTTTTTATCCAGAATGAATGCCAAACGAGGTACACGCATAAAGTGTCGATACATTTAC
**
2738239 TGTAA
194 TAAAA
*
2738244 GTATCGATCCCAAAAACATCAAAATTC-ATAATTATAATGTAATAGGTAAATTTACAATGTAACC
1 GTATCGATCCCAAAAACATCGAAA-TCGATAATTATAATGTAATAGGTAAATTTACAATGTAACC
* * *
2738308 AGTAGAAATATACTGGTTAATTAGAAAATAGGTCAACATAATGTATCAATACATTTTTAAATTGT
65 GGTAGAAATATACAGGTTAATTAGAAAATAGGTCAACATAATGTATCGATAC-TTTTTAAATTGT
* * *
2738373 GTCGATACTTTTTATCCATAATGAATGCCAAACGAGGTGCACACATAAAGTGTCGATACATTTAC
129 GTCGATACTTTTTATCCAGAATGAATGCCAAACGAGGTACACGCATAAAGTGTCGATACATTTAC
2738438 TAAAA
194 TAAAA
* * * * *
2738443 TTATCGACCCCAAAAACATTGAAACCGATAATTATAATGTAATAGGTAAATTTATAATGTAACCG
1 GTATCGATCCCAAAAACATCGAAATCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCG
* *
2738508 GTAGAAATATACTGGTTAATTAGAAAATAGGTCAACATAATGCATCGATACTTTTTAAATTGTGT
66 GTAGAAATATACAGGTTAATTAGAAAATAGGTCAACATAATGTATCGATACTTTTTAAATTGTGT
* * * *
2738573 CGATACTTTTTGTCCAGAATGAATGTCAAACAAGGTGCACGCATAAAGTGTCGATACATTTACTA
131 CGATACTTTTTATCCAGAATGAATGCCAAACGAGGTACACGCATAAAGTGTCGATACATTTACTA
2738638 AAA
196 AAA
* * * *
2738641 GTATAGATCTCAAAAACATCGAAATCGATAATTATAATGTGATAGGTAAATTTACAATGTAACTG
1 GTATCGATCCCAAAAACATCGAAATCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCG
* * * * *
2738706 GTAGAAATATACCGGTTAATTAGAAAATAGGCCAATATAATGTATCGATACCATTTTAAATTGTT
66 GTAGAAATATACAGGTTAATTAGAAAATAGGTCAACATAATGTATCGATA-CTTTTTAAATTGTG
* * *
2738771 TCGATACTTTTTATCCAGAATGAATGCCAAATGAGGTACACGCATAAAGTGTCGATATATTTATT
130 TCGATACTTTTTATCCAGAATGAATGCCAAACGAGGTACACGCATAAAGTGTCGATACATTTACT
2738836 AAAA
195 AAAA
* * * * *
2738840 GTATTGATCCCTAAAACATCAAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAATCG
1 GTATCGATCCCAAAAACATCGAAATCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCG
* ** * *
2738905 GTAGAATTATACCAATTTAATTAGAAAATAGGTCAACATAATGTATCAACACTTTTTAAAATTGT
66 GTAGAAATATA-CAGGTTAATTAGAAAATAGGTCAACATAATGTATCGATACTTTTT-AAATTGT
*
2738970 ATCGATA-TTTT
129 GTCGATACTTTT
2738981 CTTAAATTAT
Statistics
Matches: 657, Mismatches: 74, Indels: 13
0.88 0.10 0.02
Matches are distributed among these distances:
198 180 0.27
199 353 0.54
200 122 0.19
201 2 0.00
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.32
Consensus pattern (198 bp):
GTATCGATCCCAAAAACATCGAAATCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCG
GTAGAAATATACAGGTTAATTAGAAAATAGGTCAACATAATGTATCGATACTTTTTAAATTGTGT
CGATACTTTTTATCCAGAATGAATGCCAAACGAGGTACACGCATAAAGTGTCGATACATTTACTA
AAA
Found at i:2738787 original size:397 final size:398
Alignment explanation
Indices: 2738052--2738980 Score: 1380
Period size: 397 Copynumber: 2.3 Consensus size: 398
2738042 TTGTATCAAT
* *
2738052 CCCAAAAACATCGAAATCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGAAGAAAT
1 CCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAAT
* *
2738117 ATACCAGTTTAATTAGTAAATAGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTTGATAC
66 ATACCAGTTTAATTAGAAAATAGGTCAACATAATGTATCGACACTTTTTAAA-TTGTGTCGATAC
* * * **
2738182 TTTTGGTCCAGAATGAATGCCCAACGAGGTACACGCATAAAATGTCGATACATTTATTGTAAGTA
130 TTTTGGTCCAGAATGAATGCCAAACAAGGTACACGCATAAAATGTCGATACATTTACTAAAAGTA
*
2738247 TCGATCCCAAAAACATCAAAATTCATAATTATAATGTAATAGGTAAATTTACAATGTAACCAGTA
195 TAGATCCCAAAAACATCAAAATTCATAATTATAATGTAATAGGTAAATTTACAATGTAACCAGTA
* *
2738312 GAAATATACTGGTTAATTAGAAAATAGGTCAACATAATGTATCAATACATTTTTAAATTGTGTCG
260 GAAATATACCGGTTAATTAGAAAATAGGCCAACATAATGTATCAATACATTTTTAAATTGTGTCG
* *
2738377 ATACTTTTTATCCATAATGAATGCCAAACGAGGTGCACACATAAAGTGTCGATACATTTACTAAA
325 ATACTTTTTATCCAGAATGAATGCCAAACGAGGTACACACATAAAGTGTCGATACATTTACTAAA
*
2738442 ATTATCGAC
390 AGTATCGAC
* *
2738451 CCCAAAAACATTGAAACCGATAATTATAATGTAATAGGTAAATTTATAATGTAACCGGTAGAAAT
1 CCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAAT
* * * *
2738516 ATA-CTGGTTAATTAGAAAATAGGTCAACATAATGCATCGATACTTTTTAAATTGTGTCGATACT
66 ATACCAGTTTAATTAGAAAATAGGTCAACATAATGTATCGACACTTTTTAAATTGTGTCGATACT
* * * *
2738580 TTTTGTCCAGAATGAATGTCAAACAAGGTGCACGCATAAAGTGTCGATACATTTACTAAAAGTAT
131 TTTGGTCCAGAATGAATGCCAAACAAGGTACACGCATAAAATGTCGATACATTTACTAAAAGTAT
* * * **
2738645 AGATCTCAAAAACATCGAAA-TCGATAATTATAATGTGATAGGTAAATTTACAATGTAACTGGTA
196 AGATCCCAAAAACATCAAAATTC-ATAATTATAATGTAATAGGTAAATTTACAATGTAACCAGTA
* * *
2738709 GAAATATACCGGTTAATTAGAAAATAGGCCAATATAATGTATCGATACCA-TTTTAAATTGTTTC
260 GAAATATACCGGTTAATTAGAAAATAGGCCAACATAATGTATCAATA-CATTTTTAAATTGTGTC
* * * *
2738773 GATACTTTTTATCCAGAATGAATGCCAAATGAGGTACACGCATAAAGTGTCGATATATTTATTAA
324 GATACTTTTTATCCAGAATGAATGCCAAACGAGGTACACACATAAAGTGTCGATACATTTACTAA
* *
2738838 AAGTATTGAT
389 AAGTATCGAC
* * * *
2738848 CCCTAAAACATCAAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAATCGGTAGAATT
1 CCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAAT
* * *
2738913 ATACCAATTTAATTAGAAAATAGGTCAACATAATGTATCAACACTTTTTAAAATTGTATCGATA-
66 ATACCAGTTTAATTAGAAAATAGGTCAACATAATGTATCGACACTTTTT-AAATTGTGTCGATAC
2738977 TTTT
130 TTTT
2738981 CTTAAATTAT
Statistics
Matches: 474, Mismatches: 52, Indels: 9
0.89 0.10 0.02
Matches are distributed among these distances:
396 2 0.00
397 307 0.65
398 88 0.19
399 77 0.16
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.32
Consensus pattern (398 bp):
CCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAAT
ATACCAGTTTAATTAGAAAATAGGTCAACATAATGTATCGACACTTTTTAAATTGTGTCGATACT
TTTGGTCCAGAATGAATGCCAAACAAGGTACACGCATAAAATGTCGATACATTTACTAAAAGTAT
AGATCCCAAAAACATCAAAATTCATAATTATAATGTAATAGGTAAATTTACAATGTAACCAGTAG
AAATATACCGGTTAATTAGAAAATAGGCCAACATAATGTATCAATACATTTTTAAATTGTGTCGA
TACTTTTTATCCAGAATGAATGCCAAACGAGGTACACACATAAAGTGTCGATACATTTACTAAAA
GTATCGAC
Found at i:2740458 original size:17 final size:17
Alignment explanation
Indices: 2740436--2740468 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
2740426 TTTATTTAAA
2740436 TATTAAAAAAATATTTT
1 TATTAAAAAAATATTTT
2740453 TATTAAAAAAATATTT
1 TATTAAAAAAATATTT
2740469 AAATTATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TATTAAAAAAATATTTT
Found at i:2740467 original size:28 final size:27
Alignment explanation
Indices: 2740433--2740487 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
2740423 TATTTTATTT
2740433 AAATATTAAAAAAATATTTTTATTAAAA
1 AAATATTAAAAAAATA-TTTTATTAAAA
* **
2740461 AAATATTTAAATTATATTTTATTAAAA
1 AAATATTAAAAAAATATTTTATTAAAA
2740488 GACTATTTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 11 0.46
28 13 0.54
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (27 bp):
AAATATTAAAAAAATATTTTATTAAAA
Found at i:2740474 original size:17 final size:17
Alignment explanation
Indices: 2740437--2740474 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
2740427 TTATTTAAAT
**
2740437 ATTAAAAAAATATTTTT
1 ATTAAAAAAATATTTAA
2740454 ATTAAAAAAATATTTAA
1 ATTAAAAAAATATTTAA
2740471 ATTA
1 ATTA
2740475 TATTTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTAAAAAAATATTTAA
Found at i:2745291 original size:76 final size:75
Alignment explanation
Indices: 2745196--2745348 Score: 220
Period size: 75 Copynumber: 2.0 Consensus size: 75
2745186 GTGTTTGGAG
*
2745196 TGAGCAAAACTCGACTAAGGG-TTTT-TAGTAGATAATTGTCCCCATATTTTTTTTTTCAAAAAT
1 TGAGCAAAACTCGACTAAGGGTTTTTCTAGTAGATAATTGTCCCC--A-TTTATTTTTCAAAAAT
*
2745259 GTGTACCAACTAA
63 GTATACCAACTAA
* * *
2745272 TGAGTAAAACTCGACTAAGGGTTTTTCTGGTAGATAATTGTCCCCATTTATTTTTCAATAATGTA
1 TGAGCAAAACTCGACTAAGGGTTTTTCTAGTAGATAATTGTCCCCATTTATTTTTCAAAAATGTA
2745337 TACCAACTAA
66 TACCAACTAA
2745347 TG
1 TG
2745349 GTGCTTATCG
Statistics
Matches: 70, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
75 28 0.40
76 21 0.30
77 4 0.06
78 17 0.24
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (75 bp):
TGAGCAAAACTCGACTAAGGGTTTTTCTAGTAGATAATTGTCCCCATTTATTTTTCAAAAATGTA
TACCAACTAA
Found at i:2746766 original size:20 final size:20
Alignment explanation
Indices: 2746741--2746791 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
2746731 TTGTTTCTTC
2746741 AGTATCAATACCACATGAAT
1 AGTATCAATACCACATGAAT
* *
2746761 AGTATCGATACCATATGAAT
1 AGTATCAATACCACATGAAT
2746781 AGTATCAATAC
1 AGTATCAATAC
2746792 TTAAGGCAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.43, C:0.18, G:0.12, T:0.27
Consensus pattern (20 bp):
AGTATCAATACCACATGAAT
Found at i:2749864 original size:32 final size:32
Alignment explanation
Indices: 2749815--2749878 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
2749805 AGAATGAAAA
*
2749815 AGGGGGAGCTTTCATATTTTCCAAAATATTTC
1 AGGGGGAGCTTTAATATTTTCCAAAATATTTC
*
2749847 AGGGGGAGGTTTAATATTTTCCAAAATATTTC
1 AGGGGGAGCTTTAATATTTTCCAAAATATTTC
2749879 TCTCTTTCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (32 bp):
AGGGGGAGCTTTAATATTTTCCAAAATATTTC
Found at i:2751048 original size:99 final size:99
Alignment explanation
Indices: 2750908--2751107 Score: 382
Period size: 99 Copynumber: 2.0 Consensus size: 99
2750898 CAGTTGATTA
*
2750908 ATTGAGCTTCATAAATCCCAACATGAACCTTTGATAGTAACCAGCAAGTCCCAAGAAACCTCAAC
1 ATTGAGCTTCATAAATCCCAACATGAACCTTTGATAATAACCAGCAAGTCCCAAGAAACCTCAAC
2750973 ATTCAAAAAATTCCTTGAACGTTATCATTCGACT
66 ATTCAAAAAATTCCTTGAACGTTATCATTCGACT
2751007 ATTGAGCTTCATAAATCCCAACATGAACCTTTGATAATAACCAGCAAGTCCCAAGAAACCTCAAC
1 ATTGAGCTTCATAAATCCCAACATGAACCTTTGATAATAACCAGCAAGTCCCAAGAAACCTCAAC
*
2751072 ATTCGAAAAATTCCTTGAACGTTATCATTCGACT
66 ATTCAAAAAATTCCTTGAACGTTATCATTCGACT
2751106 AT
1 AT
2751108 GGATCGTGCT
Statistics
Matches: 99, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
99 99 1.00
ACGTcount: A:0.38, C:0.25, G:0.11, T:0.27
Consensus pattern (99 bp):
ATTGAGCTTCATAAATCCCAACATGAACCTTTGATAATAACCAGCAAGTCCCAAGAAACCTCAAC
ATTCAAAAAATTCCTTGAACGTTATCATTCGACT
Found at i:2752909 original size:21 final size:23
Alignment explanation
Indices: 2752866--2752915 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
2752856 AAAAATTGTC
2752866 TGATTTAAAATCCAATTGATTAA
1 TGATTTAAAATCCAATTGATTAA
*
2752889 T-ATTTTAAA-CCAATT-ATTTAA
1 TGATTTAAAATCCAATTGA-TTAA
2752910 TGATTT
1 TGATTT
2752916 GCATACAGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 1 0.04
21 11 0.46
22 11 0.46
23 1 0.04
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (23 bp):
TGATTTAAAATCCAATTGATTAA
Found at i:2767592 original size:21 final size:20
Alignment explanation
Indices: 2767564--2767602 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
2767554 TACTGCAAGA
* *
2767564 ATTTATGGTTTTGACAAAAG
1 ATTTATGGCTTTAACAAAAG
2767584 ATTTCATGGCTTTAACAAA
1 ATTT-ATGGCTTTAACAAA
2767603 GACCTTGATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.38
Consensus pattern (20 bp):
ATTTATGGCTTTAACAAAAG
Found at i:2774856 original size:23 final size:23
Alignment explanation
Indices: 2774826--2774877 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
2774816 TATGGCTAGT
2774826 GGAACATAAGAAGACGACAATGA
1 GGAACATAAGAAGACGACAATGA
2774849 GGAACATAAGAAGACGACAATGA
1 GGAACATAAGAAGACGACAATGA
2774872 GGAACA
1 GGAACA
2774878 AATTTTCTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.52, C:0.13, G:0.27, T:0.08
Consensus pattern (23 bp):
GGAACATAAGAAGACGACAATGA
Found at i:2784150 original size:57 final size:57
Alignment explanation
Indices: 2784078--2784197 Score: 231
Period size: 57 Copynumber: 2.1 Consensus size: 57
2784068 CAAATGTAGC
2784078 TCATTTAGATAAAATTTGGTAAGTTGCATAAGCTTACGCATGTTCATGGTAGTTGGA
1 TCATTTAGATAAAATTTGGTAAGTTGCATAAGCTTACGCATGTTCATGGTAGTTGGA
*
2784135 TCATTTAGATGAAATTTGGTAAGTTGCATAAGCTTACGCATGTTCATGGTAGTTGGA
1 TCATTTAGATAAAATTTGGTAAGTTGCATAAGCTTACGCATGTTCATGGTAGTTGGA
2784192 TCATTT
1 TCATTT
2784198 GAGTGTTTTT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 62 1.00
ACGTcount: A:0.28, C:0.11, G:0.23, T:0.38
Consensus pattern (57 bp):
TCATTTAGATAAAATTTGGTAAGTTGCATAAGCTTACGCATGTTCATGGTAGTTGGA
Found at i:2787446 original size:22 final size:22
Alignment explanation
Indices: 2787397--2787640 Score: 107
Period size: 23 Copynumber: 10.0 Consensus size: 22
2787387 TTTGGGATGG
*
2787397 ATATGGATTGATTTAATTTTATA
1 ATATGGATTGATTT-ATTTTAAA
*
2787420 GTATGGATTGATTTATTTTAAA
1 ATATGGATTGATTTATTTTAAA
2787442 ATATGGATTGATTTATTTTAAATA
1 ATATGGATTGATTTATTTT-AA-A
* * *
2787466 ATTTATTAGTATGGATTGATTTATTTTAAA
1 A--TA-T-GGATTGATTTA-TT---TTAAA
**
2787496 ATATGGATTGATTTATTATTGTA
1 ATATGGATTGATTTATT-TTAAA
*
2787519 GTATGGATTGA-TTATTTTAAATA
1 ATATGGATTGATTTATTTT-AA-A
* * *
2787542 ATTTATTAGTATGGATTGATTTATTTTAAA
1 A--TA-T-GGATTGATTTA-TT---TTAAA
*
2787572 ATATGGATTGATTTATTTAAATAATTT
1 ATATGGATTGATTTATTT---TAA--A
*
2787599 ATATTGATTGATTTA-TTTAAA
1 ATATGGATTGATTTATTTTAAA
2787620 ATATGGA-TGATTTATTTTAAA
1 ATATGGATTGATTTATTTTAAA
2787641 TATTTATTAG
Statistics
Matches: 168, Mismatches: 26, Indels: 56
0.67 0.10 0.22
Matches are distributed among these distances:
20 7 0.04
21 14 0.08
22 31 0.18
23 32 0.19
24 2 0.01
25 9 0.05
26 21 0.12
27 22 0.13
28 14 0.08
29 4 0.02
30 4 0.02
31 4 0.02
32 4 0.02
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
ATATGGATTGATTTATTTTAAA
Found at i:2787504 original size:76 final size:75
Alignment explanation
Indices: 2787398--2787589 Score: 312
Period size: 76 Copynumber: 2.5 Consensus size: 75
2787388 TTGGGATGGA
* *
2787398 TATGGATTGATTTAATTTTATAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
1 TATGGATTGATTT-ATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTGA-TTATTTTAA
2787463 ATAATTTATTAG
64 ATAATTTATTAG
** *
2787475 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTATGGATTGATTATTTTAAA
1 TATGGATTGATTTATTTTAAAATATGGATTGATTTATT-TTAAAATATGGATTGATTATTTTAAA
2787540 TAATTTATTAG
65 TAATTTATTAG
2787551 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTT
1 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTT
2787590 AAATAATTTA
Statistics
Matches: 109, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
75 1 0.01
76 82 0.75
77 26 0.24
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (75 bp):
TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTGATTATTTTAAAT
AATTTATTAG
Found at i:2787769 original size:22 final size:21
Alignment explanation
Indices: 2787731--2787789 Score: 102
Period size: 21 Copynumber: 2.8 Consensus size: 21
2787721 TTTAGTAGTA
2787731 GGATGATTTA-TTTAAAATAT
1 GGATGATTTATTTTAAAATAT
2787751 GGATTGATTTATTTTAAAATAT
1 GGA-TGATTTATTTTAAAATAT
2787773 GGATGATTTATTTTAAA
1 GGATGATTTATTTTAAA
2787790 TAATTATTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
20 3 0.08
21 21 0.57
22 13 0.35
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.47
Consensus pattern (21 bp):
GGATGATTTATTTTAAAATAT
Found at i:2787806 original size:107 final size:108
Alignment explanation
Indices: 2787701--2787929 Score: 328
Period size: 107 Copynumber: 2.2 Consensus size: 108
2787691 TATTTGTATA
2787701 GATTGATTTATTTTAAATAATTTAGTAGTA-GGA-TGATTTATTTAAAATATGGATTGATTTATT
1 GATTGATTTATTTTAAATAATTTAGTAGTATGGATTGATTTATTT-AAATATGGATTGATTTATT
*
2787764 TTA-AAATATGGA-TGATTTATTTTAAATAA-TTATTAGTATGT
65 GTAGAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGT
* * *
2787805 -ATTGATTTATTTTAAATAATTTATTTGTATGTATTGATTTATTTAAATATGGATTGATTTATTG
1 GATTGATTTATTTTAAATAATTTAGTAGTATGGATTGATTTATTTAAATATGGATTGATTTATTG
***
2787869 TAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATG-
66 TAGAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGT
*
2787911 GATTGATTTATTTAAAATA
1 GATTGATTTATTTTAAATA
2787930 TGGATTGATT
Statistics
Matches: 111, Mismatches: 8, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
103 27 0.24
104 23 0.21
105 16 0.14
106 17 0.15
107 28 0.25
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (108 bp):
GATTGATTTATTTTAAATAATTTAGTAGTATGGATTGATTTATTTAAATATGGATTGATTTATTG
TAGAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGT
Found at i:2787811 original size:31 final size:32
Alignment explanation
Indices: 2787776--2787929 Score: 141
Period size: 32 Copynumber: 4.5 Consensus size: 32
2787766 AAAATATGGA
2787776 TGATTTATTTTAAATAA-TTATTAGTATGTAT
1 TGATTTATTTTAAATAATTTATTAGTATGTAT
*
2787807 TGATTTATTTTAAATAATTTATTTGTATGTAT
1 TGATTTATTTTAAATAATTTATTAGTATGTAT
*
2787839 TGATTTA-TTTAAATATGGATTGATTTATTGTAGTTGTAT
1 TGATTTATTTTAAATA---ATTTA-TTA--GTA--TGTAT
* *
2787878 GGATTGATTTATTTTAAATAATTTATTAGTATGGAT
1 TGA----TTTATTTTAAATAATTTATTAGTATGTAT
*
2787914 TGATTTATTTAAAATA
1 TGATTTATTTTAAATA
2787930 TGGATTGATT
Statistics
Matches: 101, Mismatches: 8, Indels: 27
0.74 0.06 0.20
Matches are distributed among these distances:
31 25 0.25
32 32 0.32
34 4 0.04
35 2 0.02
36 6 0.06
37 3 0.03
38 3 0.03
39 7 0.07
40 3 0.03
41 4 0.04
43 4 0.04
44 8 0.08
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (32 bp):
TGATTTATTTTAAATAATTTATTAGTATGTAT
Found at i:2787868 original size:28 final size:32
Alignment explanation
Indices: 2787776--2787859 Score: 111
Period size: 31 Copynumber: 2.7 Consensus size: 32
2787766 AAAATATGGA
* *
2787776 TGATTTATTTTAAATAAT-TATTAGTATGTAT
1 TGATTTATTTTAAATAATGGATTTGTATGTAT
**
2787807 TGATTTATTTTAAATAATTTATTTGTATGTAT
1 TGATTTATTTTAAATAATGGATTTGTATGTAT
2787839 TGATTTA-TTTAAAT-ATGGATT
1 TGATTTATTTTAAATAATGGATT
2787860 GATTTATTGT
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
30 5 0.10
31 25 0.51
32 19 0.39
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (32 bp):
TGATTTATTTTAAATAATGGATTTGTATGTAT
Found at i:2787889 original size:75 final size:76
Alignment explanation
Indices: 2787799--2787943 Score: 256
Period size: 75 Copynumber: 1.9 Consensus size: 76
2787789 ATAATTATTA
* * *
2787799 GTATGTATTGATTTATTTTAAATAATTTATTTGTATGTATTGATTTATTT-AAATATGGATTGAT
1 GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTAAAATATGGATTGAT
2787863 TTATTGTAGTT
66 TTATTGTAGTT
2787874 GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTAAAATATGGATTGAT
1 GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTAAAATATGGATTGAT
2787939 TTATT
66 TTATT
2787944 TTAAATAATT
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
75 47 0.71
76 19 0.29
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (76 bp):
GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTAAAATATGGATTGAT
TTATTGTAGTT
Found at i:2787894 original size:149 final size:149
Alignment explanation
Indices: 2787580--2787958 Score: 389
Period size: 149 Copynumber: 2.5 Consensus size: 149
2787570 AAATATGGAT
* * *
2787580 TGATTTATTTAAATAATTTATATTGATTGATTTATTTAAAATATGGATGATTTATTTTAAATATT
1 TGATTTATTT--ATAATATATATGGATTGATTTATTTAAAATATGGATGATTTATTTTAAATAAT
* * *
2787645 TATTAGTATGGATTGATTTATTTAAAATATGAATTATTTATTATTGTATTTGTATAGATTGATTT
64 TATTAGTATGGATTGATTTATTTAAAATA-GAATTATTTATTATTGTATTTATATAAATTGATTG
*
2787710 ATTTTAAATAATTTAGTAGTAGGA
128 ATTTT-AAT-ATGTAGTAGTAGGA
2787734 TGATTTA-TT-TAA-A-ATATGGATTGATTTATTTTAAAATATGGATGATTTATTTTAAATAATT
1 TGATTTATTTATAATATATATGGATTGATTTA-TTTAAAATATGGATGATTTATTTTAAATAATT
* * * *
2787795 ATTAGTATGTATTGATTTATTTTAAATA-ATTTATTTGTATGTATTG-ATTTATTTAAATATGGA
65 ATTAGTATGGATTGATTTATTTAAAATAGAATTA-TT-TAT-TATTGTATTTATATAAAT-T-GA
*
2787858 TTGA-TTT-AT-TGTAGTTGTATGGA
125 TTGATTTTAATATGTAGTAGTA-GGA
2787881 TTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTAAAATATGGATTGATTTATTTT
1 -TGATTTA-TTT--ATAA--TA-TA-TATGGATTGATTTATTTAAAATATGGA-TGATTTATTTT
2787946 AAATAATTTATTA
57 AAATAA-TTATTA
2787959 TTGTAGTTGT
Statistics
Matches: 192, Mismatches: 12, Indels: 36
0.80 0.05 0.15
Matches are distributed among these distances:
146 8 0.04
147 7 0.04
148 25 0.13
149 69 0.36
150 14 0.07
151 5 0.03
153 5 0.03
154 7 0.04
156 1 0.01
158 14 0.07
159 31 0.16
160 6 0.03
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.53
Consensus pattern (149 bp):
TGATTTATTTATAATATATATGGATTGATTTATTTAAAATATGGATGATTTATTTTAAATAATTA
TTAGTATGGATTGATTTATTTAAAATAGAATTATTTATTATTGTATTTATATAAATTGATTGATT
TTAATATGTAGTAGTAGGA
Found at i:2787933 original size:21 final size:21
Alignment explanation
Indices: 2787907--2787950 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
2787897 AATTTATTAG
2787907 TATGGATTGATTTATTTAAAA
1 TATGGATTGATTTATTTAAAA
*
2787928 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTAAAA
2787949 TA
1 TA
2787951 ATTTATTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (21 bp):
TATGGATTGATTTATTTAAAA
Found at i:2788008 original size:31 final size:31
Alignment explanation
Indices: 2787973--2788031 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
2787963 AGTTGTATGG
*
2787973 ATTATTTAAATTTCAGTATTGGAAAACTAAA
1 ATTATTTAAATCTCAGTATTGGAAAACTAAA
*
2788004 ATTATTTAAATCTCAGTATTGTAAAACT
1 ATTATTTAAATCTCAGTATTGGAAAACT
2788032 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGGAAAACTAAA
Found at i:2788128 original size:171 final size:172
Alignment explanation
Indices: 2787933--2788276 Score: 681
Period size: 171 Copynumber: 2.0 Consensus size: 172
2787923 TAAAATATGG
2787933 ATTGATTTATTTTAAATAATTTATTATTGTAGTTGTATGGATTATTTAAATTTCAGTATTGGAAA
1 ATTGATTTATTTTAAATAATTTATTATTGTAGTTGTATGGATTATTTAAATTTCAGTATTGGAAA
2787998 ACTAAAATTATTTAAATCTCAGTATTGTAAAACTCTTTTAAGTTTAAAAAATTAGTTTATTTATA
66 ACTAAAATTATTTAAATCTCAGTATTGTAAAACTCTTTTAAGTTTAAAAAATTAGTTTATTTATA
2788063 -TTCAGTTCATTTTAGCAGTCTGCAGACGTTAAAAAACAAAC
131 TTTCAGTTCATTTTAGCAGTCTGCAGACGTTAAAAAACAAAC
2788104 ATTGATTTATTTTAAATAATTTATTATTGTAGTTGTATGGATTATTTAAATTTCAGTATTGGAAA
1 ATTGATTTATTTTAAATAATTTATTATTGTAGTTGTATGGATTATTTAAATTTCAGTATTGGAAA
2788169 ACTAAAATTATTTAAATCTCAGTATTGTAAAACTCTTTTAAGTTTAAAAAATTAGTTTATTTATA
66 ACTAAAATTATTTAAATCTCAGTATTGTAAAACTCTTTTAAGTTTAAAAAATTAGTTTATTTATA
2788234 TTTCAGTTCATTTTAGCAGTCTGCAGACGTTAAAAAACAAAC
131 TTTCAGTTCATTTTAGCAGTCTGCAGACGTTAAAAAACAAAC
2788276 A
1 A
2788277 GTCTTCTTCT
Statistics
Matches: 172, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
171 130 0.76
172 42 0.24
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.43
Consensus pattern (172 bp):
ATTGATTTATTTTAAATAATTTATTATTGTAGTTGTATGGATTATTTAAATTTCAGTATTGGAAA
ACTAAAATTATTTAAATCTCAGTATTGTAAAACTCTTTTAAGTTTAAAAAATTAGTTTATTTATA
TTTCAGTTCATTTTAGCAGTCTGCAGACGTTAAAAAACAAAC
Found at i:2788179 original size:31 final size:31
Alignment explanation
Indices: 2788144--2788202 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
2788134 AGTTGTATGG
*
2788144 ATTATTTAAATTTCAGTATTGGAAAACTAAA
1 ATTATTTAAATCTCAGTATTGGAAAACTAAA
*
2788175 ATTATTTAAATCTCAGTATTGTAAAACT
1 ATTATTTAAATCTCAGTATTGGAAAACT
2788203 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGGAAAACTAAA
Found at i:2792237 original size:18 final size:18
Alignment explanation
Indices: 2792196--2792295 Score: 94
Period size: 18 Copynumber: 5.6 Consensus size: 18
2792186 TATCATGCCA
* **
2792196 ACTTGAATGAACTAATTT
1 ACTTAAATGAACTAACAT
* *
2792214 AATTAAATGAACTATCAT
1 ACTTAAATGAACTAACAT
*
2792232 ACTTAAATAAACTAACAT
1 ACTTAAATGAACTAACAT
** *
2792250 GTTTAAAT-AAATAACAT
1 ACTTAAATGAACTAACAT
*
2792267 ACTTAAATGAGCTAACAT
1 ACTTAAATGAACTAACAT
*
2792285 GCTTAAATGAA
1 ACTTAAATGAA
2792296 TTAGCATGCA
Statistics
Matches: 64, Mismatches: 17, Indels: 2
0.77 0.20 0.02
Matches are distributed among these distances:
17 14 0.22
18 50 0.78
ACGTcount: A:0.48, C:0.12, G:0.08, T:0.32
Consensus pattern (18 bp):
ACTTAAATGAACTAACAT
Found at i:2794470 original size:23 final size:23
Alignment explanation
Indices: 2794431--2794483 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
2794421 ACTAAACATG
2794431 TAAAATATATTGATAAA-AAAAGA
1 TAAAATATATTGATAAATAAAA-A
*
2794454 TAAAATATTATT-TTAAATAAAAA
1 TAAAATA-TATTGATAAATAAAAA
2794477 TATAAAT
1 TA-AAAT
2794484 TAATTAAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 14 0.54
24 12 0.46
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (23 bp):
TAAAATATATTGATAAATAAAAA
Found at i:2802330 original size:36 final size:36
Alignment explanation
Indices: 2802283--2802423 Score: 221
Period size: 36 Copynumber: 3.9 Consensus size: 36
2802273 TGAGGAAGAA
*
2802283 GAACGAAAGGAAGCATCGACACTTTCGATTCAAAGT
1 GAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGT
* * *
2802319 GAACGGAAGGAAACATCGGCACTTTCGATTC-AAGAA
1 GAACGAAAGGAAGCATCGGCACTTTCGATTCAAAG-T
2802355 GAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGT
1 GAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGT
*
2802391 GAACGGAAGGAAGCATCGGCACTTTCGATTCAA
1 GAACGAAAGGAAGCATCGGCACTTTCGATTCAA
2802424 TTGTTCATCT
Statistics
Matches: 95, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
35 3 0.03
36 89 0.94
37 3 0.03
ACGTcount: A:0.37, C:0.20, G:0.25, T:0.18
Consensus pattern (36 bp):
GAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGT
Found at i:2802395 original size:72 final size:72
Alignment explanation
Indices: 2802278--2802423 Score: 274
Period size: 72 Copynumber: 2.0 Consensus size: 72
2802268 GAAGGTGAGG
2802278 AAGAAGAACGAAAGGAAGCATCGACACTTTCGATTCAAAGTGAACGGAAGGAAACATCGGCACTT
1 AAGAAGAACGAAAGGAAGCATCGACACTTTCGATTCAAAGTGAACGGAAGGAAACATCGGCACTT
2802343 TCGATTC
66 TCGATTC
* *
2802350 AAGAAGAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGTGAACGGAAGGAAGCATCGGCACTT
1 AAGAAGAACGAAAGGAAGCATCGACACTTTCGATTCAAAGTGAACGGAAGGAAACATCGGCACTT
2802415 TCGATTC
66 TCGATTC
2802422 AA
1 AA
2802424 TTGTTCATCT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.18
Consensus pattern (72 bp):
AAGAAGAACGAAAGGAAGCATCGACACTTTCGATTCAAAGTGAACGGAAGGAAACATCGGCACTT
TCGATTC
Found at i:2802631 original size:20 final size:20
Alignment explanation
Indices: 2802603--2802647 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
2802593 GTTTGTTAGC
*
2802603 AGTTAAGGTTGTTAATGTTT
1 AGTTAAGGTTGTTAATGGTT
*
2802623 AGTTGAGGTTGTTAATGGTT
1 AGTTAAGGTTGTTAATGGTT
2802643 AGTTA
1 AGTTA
2802648 CAAAGTCTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.47
Consensus pattern (20 bp):
AGTTAAGGTTGTTAATGGTT
Done.