Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007960.1 Hibiscus syriacus cultivar Beakdansim tig00110387_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: 7905731
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 25 of 39
Found at i:4882008 original size:19 final size:20
Alignment explanation
Indices: 4881858--4882008 Score: 152
Period size: 19 Copynumber: 7.7 Consensus size: 20
4881848 AACAAAGAAG
*
4881858 TCAAATTCGCAACGCG--TT
1 TCAAATTCGCAACACGAATT
4881876 TGCCAAATTCGCAACACTGAATT
1 T--CAAATTCGCAACAC-GAATT
*
4881899 TCAAATTCGCAAC-TGAATT
1 TCAAATTCGCAACACGAATT
*
4881918 TCAAATTCGCAAC-TGAATT
1 TCAAATTCGCAACACGAATT
* *
4881937 TCAAATTCGTAAC-TGAATT
1 TCAAATTCGCAACACGAATT
* *
4881956 TCAAATTCGCAACTCGATTT
1 TCAAATTCGCAACACGAATT
*
4881976 TCGAATTCGCAACACGAATT
1 TCAAATTCGCAACACGAATT
*
4881996 T-AATTTCGCAACA
1 TCAAATTCGCAACA
4882009 GGTTTTAGTT
Statistics
Matches: 116, Mismatches: 11, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
18 1 0.01
19 64 0.55
20 35 0.30
21 13 0.11
23 3 0.03
ACGTcount: A:0.34, C:0.23, G:0.12, T:0.30
Consensus pattern (20 bp):
TCAAATTCGCAACACGAATT
Found at i:4885265 original size:6 final size:6
Alignment explanation
Indices: 4885256--4885297 Score: 66
Period size: 6 Copynumber: 7.0 Consensus size: 6
4885246 AAAGCAAAAG
**
4885256 AAAATC AAAATC GCAATC AAAATC AAAATC AAAATC AAAATC
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC
4885298 TCAATCACAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.62, C:0.19, G:0.02, T:0.17
Consensus pattern (6 bp):
AAAATC
Found at i:4885836 original size:13 final size:13
Alignment explanation
Indices: 4885818--4885842 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4885808 ATACGAGTTC
4885818 GTTTGGGTTTTGT
1 GTTTGGGTTTTGT
4885831 GTTTGGGTTTTG
1 GTTTGGGTTTTG
4885843 ACCCGCGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.00, G:0.40, T:0.60
Consensus pattern (13 bp):
GTTTGGGTTTTGT
Found at i:4885999 original size:61 final size:61
Alignment explanation
Indices: 4885891--4886032 Score: 221
Period size: 61 Copynumber: 2.3 Consensus size: 61
4885881 TTGTCTCCTA
* * *
4885891 ATTTTAAATTTGTTCAATTTAGTCCAAATTTAATGATGCAATATATTAATTTAAGCTTCAT
1 ATTTAAAATTTGTTCAATTTAGTCCAAATTGAATGATACAATATATTAATTTAAGCTTCAT
* * * *
4885952 ATTTCAAATTTCTTCAATTTAGTCCAAATTGAATGTTACAATTTATTAATTTAAGCTTCAT
1 ATTTAAAATTTGTTCAATTTAGTCCAAATTGAATGATACAATATATTAATTTAAGCTTCAT
4886013 ATTTAAAATTTGTTCAATTT
1 ATTTAAAATTTGTTCAATTT
4886033 GATCCTTATA
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
61 73 1.00
ACGTcount: A:0.35, C:0.11, G:0.07, T:0.47
Consensus pattern (61 bp):
ATTTAAAATTTGTTCAATTTAGTCCAAATTGAATGATACAATATATTAATTTAAGCTTCAT
Found at i:4886089 original size:26 final size:27
Alignment explanation
Indices: 4886060--4886141 Score: 94
Period size: 26 Copynumber: 2.9 Consensus size: 27
4886050 CAATTCTTTC
4886060 AATTAATATATATGTTTATAT-TAATA
1 AATTAATATATATGTTTATATATAATA
* *
4886086 AATTAATATATAGGTTATATATACTAATG
1 AATTAATATATATGTT-TATATA-TAATA
4886115 AATTATATAATATATAGTTTATATATA
1 AATTA-AT-ATATAT-GTTTATATATA
4886142 CTAATAACTA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
26 15 0.32
27 5 0.11
29 9 0.19
30 4 0.09
31 11 0.23
32 3 0.06
ACGTcount: A:0.46, C:0.01, G:0.06, T:0.46
Consensus pattern (27 bp):
AATTAATATATATGTTTATATATAATA
Found at i:4886141 original size:18 final size:18
Alignment explanation
Indices: 4886089--4886191 Score: 60
Period size: 18 Copynumber: 6.1 Consensus size: 18
4886079 ATTAATAAAT
*
4886089 TAATATATAGGTTATATA
1 TAATATATAGTTTATATA
* **
4886107 TACTA-AT-GAAT-TATA
1 TAATATATAGTTTATATA
4886122 TAATATATAGTTTATATA
1 TAATATATAGTTTATATA
*
4886140 TACTA-ATA----ACTATA
1 TAATATATAGTTTA-TATA
*
4886154 TAATATATAGTTTGTATA
1 TAATATATAGTTTATATA
** *
4886172 TACCATATACTTTATATA
1 TAATATATAGTTTATATA
4886190 TA
1 TA
4886192 TAGTTCATAT
Statistics
Matches: 63, Mismatches: 13, Indels: 18
0.67 0.14 0.19
Matches are distributed among these distances:
13 1 0.02
14 8 0.13
15 11 0.17
16 4 0.06
17 7 0.11
18 32 0.51
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.45
Consensus pattern (18 bp):
TAATATATAGTTTATATA
Found at i:4886159 original size:32 final size:32
Alignment explanation
Indices: 4886089--4886201 Score: 140
Period size: 32 Copynumber: 3.5 Consensus size: 32
4886079 ATTAATAAAT
* *
4886089 TAATATATAGGTTATATATACTAATGAATTATA
1 TAATATATAGTTTATATATACTAAT-AACTATA
4886122 TAATATATAGTTTATATATACTAATAACTATA
1 TAATATATAGTTTATATATACTAATAACTATA
* * *
4886154 TAATATATAGTTTGTATATAC-CATATACTTTA
1 TAATATATAGTTTATATATACTAATA-ACTATA
*
4886186 T-ATATATAGTTCATAT
1 TAATATATAGTTTATAT
4886202 GTAAACTATA
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
31 16 0.22
32 32 0.44
33 24 0.33
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.45
Consensus pattern (32 bp):
TAATATATAGTTTATATATACTAATAACTATA
Found at i:4886240 original size:18 final size:18
Alignment explanation
Indices: 4886188--4886242 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 18
4886178 ATACTTTATA
*
4886188 TATATAGTTCATATGTAAAC
1 TATATAG-T-ATATATAAAC
4886208 TATATAGTATATATAAAC
1 TATATAGTATATATAAAC
4886226 TATATATGTAGTATATA
1 TATATA-GTA-TATATA
4886243 CTATATAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 15 0.47
19 4 0.12
20 13 0.41
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (18 bp):
TATATAGTATATATAAAC
Found at i:4886245 original size:18 final size:17
Alignment explanation
Indices: 4886118--4886249 Score: 59
Period size: 18 Copynumber: 7.8 Consensus size: 17
4886108 ACTAATGAAT
*
4886118 TATATAA-TATATAGTT
1 TATATAACTATATAGTA
4886134 TATATATACTA-ATA--A
1 TATATA-ACTATATAGTA
*
4886149 CTATATAA-TATATAGTT
1 -TATATAACTATATAGTA
* * *
4886166 TGTATATACCATATACT-
1 TATATA-ACTATATAGTA
4886183 T-TAT-A-TATATAGTTCA
1 TATATAACTATATAG-T-A
*
4886199 TATGTAAACTATATAGTA
1 TATAT-AACTATATAGTA
4886217 TATATAAACTATATATGTA
1 TATAT-AACTATATA-GTA
4886236 GTATAT-ACTATATA
1 -TATATAACTATATA
4886250 AATCGTTTAT
Statistics
Matches: 90, Mismatches: 9, Indels: 32
0.69 0.07 0.24
Matches are distributed among these distances:
13 5 0.06
14 4 0.04
15 4 0.04
16 21 0.23
17 8 0.09
18 31 0.34
19 5 0.06
20 12 0.13
ACGTcount: A:0.43, C:0.07, G:0.06, T:0.44
Consensus pattern (17 bp):
TATATAACTATATAGTA
Found at i:4886429 original size:7 final size:7
Alignment explanation
Indices: 4886419--4886507 Score: 53
Period size: 7 Copynumber: 13.1 Consensus size: 7
4886409 TATAGTCTAT
4886419 ATATATA
1 ATATATA
4886426 ATATATA
1 ATATATA
*
4886433 GTATATA
1 ATATATA
4886440 A-ATATA
1 ATATATA
*
4886446 A-A-CTA
1 ATATATA
* *
4886451 GTATGTA
1 ATATATA
4886458 ATATATA
1 ATATATA
4886465 A-ATATA
1 ATATATA
4886471 A-ACTATA
1 ATA-TATA
* *
4886478 GTTTATA
1 ATATATA
4886485 TATATATA
1 -ATATATA
*
4886493 GTATATA
1 ATATATA
*
4886500 CTATATA
1 ATATATA
4886507 A
1 A
4886508 ATAGTTTATA
Statistics
Matches: 63, Mismatches: 14, Indels: 10
0.72 0.16 0.11
Matches are distributed among these distances:
5 2 0.03
6 15 0.24
7 41 0.65
8 5 0.08
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (7 bp):
ATATATA
Found at i:4886429 original size:18 final size:18
Alignment explanation
Indices: 4886408--4886519 Score: 66
Period size: 20 Copynumber: 5.8 Consensus size: 18
4886398 AAATTATACT
*
4886408 ATATAGTCTATATATATAA
1 ATATAGTATATATATAT-A
*
4886427 TATATAGTATATAAATATA
1 -ATATAGTATATATATATA
*
4886446 A-ACTAGTATGTAATATATAA
1 ATA-TAGTATAT-ATATAT-A
* *
4886466 ATATAAACTATAGTTTATATA
1 ATAT--AGTATA-TATATATA
4886487 TATATAGTATATACTATATA
1 -ATATAGTATATA-TATATA
*
4886507 A-ATAGTTTATATA
1 ATATAGTATATATA
4886520 GTTCACTAAT
Statistics
Matches: 73, Mismatches: 10, Indels: 21
0.70 0.10 0.20
Matches are distributed among these distances:
17 3 0.04
18 17 0.23
19 8 0.11
20 29 0.40
21 2 0.03
22 13 0.18
23 1 0.01
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (18 bp):
ATATAGTATATATATATA
Found at i:4886430 original size:20 final size:20
Alignment explanation
Indices: 4886402--4886507 Score: 85
Period size: 20 Copynumber: 5.2 Consensus size: 20
4886392 ATAAGTAAAT
* *
4886402 TATACTATATAGTCTATATA
1 TATAATATATAGTATATATA
*
4886422 TATAATATATAGTATATAAA
1 TATAATATATAGTATATATA
4886442 TATAA-ACTAGTATGTA-ATATA
1 TATAATA-TA-TA-GTATATATA
* * *
4886463 TA-AATATAAACTATAGTTTA
1 TATAATATATAGTATA-TATA
4886483 TAT-ATATATAGTATATACTA
1 TATAATATATAGTATATA-TA
4886503 TATAA
1 TATAA
4886508 ATAGTTTATA
Statistics
Matches: 67, Mismatches: 10, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
18 2 0.03
19 4 0.06
20 48 0.72
21 10 0.15
22 3 0.04
ACGTcount: A:0.48, C:0.05, G:0.06, T:0.42
Consensus pattern (20 bp):
TATAATATATAGTATATATA
Found at i:4886519 original size:2 final size:2
Alignment explanation
Indices: 4886402--4886506 Score: 52
Period size: 2 Copynumber: 49.0 Consensus size: 2
4886392 ATAAGTAAAT
* *
4886402 TA TA CTA TA TA GTC TA TA TA TA TA -A TA TA TA GTA TA TA AA TA
1 TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
* * * * *
4886444 TA AA CTA GTA TG TA -A TA TA TA AA TA TA AA CTA TA GTT TA TA TA
1 TA TA -TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA -TA TA TA TA
4886487 TA TA TA GTA TA TA CTA TA TA
1 TA TA TA -TA TA TA -TA TA TA
4886507 AATAGTTTAT
Statistics
Matches: 78, Mismatches: 15, Indels: 20
0.69 0.13 0.18
Matches are distributed among these distances:
1 2 0.03
2 62 0.79
3 14 0.18
ACGTcount: A:0.48, C:0.05, G:0.06, T:0.42
Consensus pattern (2 bp):
TA
Found at i:4886619 original size:23 final size:23
Alignment explanation
Indices: 4886575--4886619 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
4886565 ATAGTTTATG
**
4886575 TATAGTTCATATCATATGTATAC
1 TATAGTTCATATCATAACTATAC
4886598 TATAGTTCATAT-ATCAACTATA
1 TATAGTTCATATCAT-AACTATA
4886620 TAATTTATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.38, C:0.13, G:0.07, T:0.42
Consensus pattern (23 bp):
TATAGTTCATATCATAACTATAC
Found at i:4886756 original size:27 final size:27
Alignment explanation
Indices: 4886726--4886783 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
4886716 AGTTTATATA
*
4886726 TATAATATAG-AGTATATAAATATCAAC
1 TATAATAT-GTAGTATATAAATATAAAC
*
4886753 TATAGTATGTAGTATATAAATATAAAC
1 TATAATATGTAGTATATAAATATAAAC
4886780 TATA
1 TATA
4886784 GTTTATATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 1 0.04
27 27 0.96
ACGTcount: A:0.50, C:0.05, G:0.09, T:0.36
Consensus pattern (27 bp):
TATAATATGTAGTATATAAATATAAAC
Found at i:4886776 original size:20 final size:20
Alignment explanation
Indices: 4886712--4886814 Score: 68
Period size: 20 Copynumber: 5.2 Consensus size: 20
4886702 TATATATACC
*
4886712 ATATAGTTTATA-TATATAA
1 ATATAGTATATAGTATATAA
* *
4886731 TATAGAGTATATA-AATATCAA
1 -ATATAGTATATAGTATAT-AA
* *
4886752 CTATAGTATGTAGTATATAA
1 ATATAGTATATAGTATATAA
* * *
4886772 ATATA-AACTATAGTTTATAT
1 ATATAGTA-TATAGTATATAA
* *
4886792 ATATAGTATTTACTATATAA
1 ATATAGTATATAGTATATAA
4886812 ATA
1 ATA
4886815 GTTTATGTAG
Statistics
Matches: 62, Mismatches: 17, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
19 1 0.02
20 54 0.87
21 7 0.11
ACGTcount: A:0.47, C:0.04, G:0.08, T:0.42
Consensus pattern (20 bp):
ATATAGTATATAGTATATAA
Found at i:4886876 original size:22 final size:22
Alignment explanation
Indices: 4886851--4886940 Score: 62
Period size: 22 Copynumber: 4.2 Consensus size: 22
4886841 ATATATAGGT
4886851 TATATGTAAACTATATAGTTTA
1 TATATGTAAACTATATAGTTTA
* *
4886873 TATAATTTATA-TATATAGTTTA
1 TAT-ATGTAAACTATATAGTTTA
* * *
4886895 TACAGTTTATAC-ATATAG-TT-
1 TATA-TGTAAACTATATAGTTTA
* * *
4886915 CATATGTAAATTATATAGTATA
1 TATATGTAAACTATATAGTTTA
4886937 TATA
1 TATA
4886941 GTTTACATAT
Statistics
Matches: 52, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
19 4 0.08
20 8 0.15
21 4 0.08
22 31 0.60
23 5 0.10
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.47
Consensus pattern (22 bp):
TATATGTAAACTATATAGTTTA
Found at i:4887094 original size:22 final size:22
Alignment explanation
Indices: 4887068--4887117 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
4887058 CCTTAAACCA
4887068 TATATACTATATA-TATATAAAC
1 TATATACTATATATTA-ATAAAC
* *
4887090 TATATAGTTTATATTAATAAAC
1 TATATACTATATATTAATAAAC
4887112 TATATA
1 TATATA
4887118 ATTTATACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 23 0.92
23 2 0.08
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (22 bp):
TATATACTATATATTAATAAAC
Found at i:4887122 original size:22 final size:24
Alignment explanation
Indices: 4887075--4887398 Score: 94
Period size: 24 Copynumber: 13.5 Consensus size: 24
4887065 CCATATATAC
*
4887075 TATATATATATAAACTATATAGTT
1 TATATATATATAAACTATATAATT
4887099 TATAT-TA-ATAAACTATATAATT
1 TATATATATATAAACTATATAATT
* *
4887121 TATACA-ATA-AATATTATTTATAATT
1 TATATATATATAA-ACTA--TATAATT
*
4887146 ATACATAATATATAAA-TATA-AATT
1 -TATAT-ATATATAAACTATATAATT
* *
4887170 ATATAGTTTATATATAATTCATAT-A-T
1 -TATA-TATATATA-AACT-ATATAATT
* * *
4887196 AATTTATATATAAACTTTATAATT
1 TATATATATATAAACTATATAATT
* *
4887220 TATAT-TA-ATAAACTATGTAGTT
1 TATATATATATAAACTATATAATT
* * *
4887242 CATATATAGT-TCAA-TAGT-TCA--
1 TATATATA-TATAAACTA-TATAATT
* * * *
4887263 TATATAAACTATATAGTATTATATTT
1 TATATATA-TATAAACTA-TATAATT
* * * *
4887289 TATACATGGTATATA-TAGT-TTATT
1 TATATAT-ATATAAACTA-TATAATT
* *
4887313 CATA-ATATATATAA-TATATAGTT
1 TATATATATATA-AACTATATAATT
*
4887336 TATATATAGTATATAA-TATATATATA
1 TATATATA-TATA-AACTATATA-ATT
*
4887362 TATATATATATAAACTATATAGTT
1 TATATATATATAAACTATATAATT
4887386 TATATTATATATA
1 TATA-TATATATA
4887399 TATTATAGTT
Statistics
Matches: 222, Mismatches: 45, Indels: 65
0.67 0.14 0.20
Matches are distributed among these distances:
21 7 0.03
22 47 0.21
23 31 0.14
24 51 0.23
25 48 0.22
26 25 0.11
27 7 0.03
28 4 0.02
29 2 0.01
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.46
Consensus pattern (24 bp):
TATATATATATAAACTATATAATT
Found at i:4887214 original size:13 final size:11
Alignment explanation
Indices: 4887090--4887228 Score: 67
Period size: 11 Copynumber: 12.7 Consensus size: 11
4887080 ATATATAAAC
*
4887090 TATATAGTTTA
1 TATATAATTTA
**
4887101 TAT-TAATAAA
1 TATATAATTTA
4887111 CTATATAATTTA
1 -TATATAATTTA
*
4887123 TACAATAAATATTA
1 TA-TAT-AAT-TTA
*
4887137 TTTATAA-TTA
1 TATATAATTTA
*
4887147 TACATAATATATA
1 TATATAAT-T-TA
* *
4887160 AATATAA-AT-
1 TATATAATTTA
*
4887169 TATATAGTTTA
1 TATATAATTTA
*
4887180 TATATAATTCA
1 TATATAATTTA
4887191 TATATAATTTA
1 TATATAATTTA
**
4887202 TATATAAACT-
1 TATATAATTTA
4887212 T-TATAATTTA
1 TATATAATTTA
4887222 TAT-TAAT
1 TATATAAT
4887229 AAACTATGTA
Statistics
Matches: 93, Mismatches: 23, Indels: 25
0.66 0.16 0.18
Matches are distributed among these distances:
9 11 0.12
10 20 0.22
11 36 0.39
12 10 0.11
13 12 0.13
14 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.47
Consensus pattern (11 bp):
TATATAATTTA
Found at i:4887310 original size:20 final size:20
Alignment explanation
Indices: 4887275--4887325 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
4887265 TATAAACTAT
*
4887275 ATAGTAT-TATATTTTATAC
1 ATAGTATATATAGTTTATAC
* *
4887294 ATGGTATATATAGTTTATTC
1 ATAGTATATATAGTTTATAC
*
4887314 ATAATATATATA
1 ATAGTATATATA
4887326 ATATATAGTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 6 0.23
20 20 0.77
ACGTcount: A:0.39, C:0.04, G:0.08, T:0.49
Consensus pattern (20 bp):
ATAGTATATATAGTTTATAC
Found at i:4887322 original size:2 final size:2
Alignment explanation
Indices: 4887317--4887405 Score: 87
Period size: 2 Copynumber: 44.5 Consensus size: 2
4887307 TTTATTCATA
*
4887317 AT AT AT AT A- AT AT AT AGT TT AT AT AT AGT AT AT A- AT AT AT AT
1 AT AT AT AT AT AT AT AT A-T AT AT AT AT A-T AT AT AT AT AT AT AT
* *
4887359 AT AT AT AT AT AT AT AA ACT AT AT AGT TT AT AT -T AT AT AT AT AT
1 AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT AT AT AT AT AT AT AT
4887402 -T AT A
1 AT AT A
4887406 GTTGTTTCAA
Statistics
Matches: 73, Mismatches: 6, Indels: 16
0.77 0.06 0.17
Matches are distributed among these distances:
1 4 0.05
2 64 0.88
3 5 0.07
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4887328 original size:9 final size:9
Alignment explanation
Indices: 4887314--4887405 Score: 71
Period size: 9 Copynumber: 9.9 Consensus size: 9
4887304 TAGTTTATTC
4887314 ATAATATAT
1 ATAATATAT
4887323 ATAATATAT
1 ATAATATAT
*
4887332 AGT-TTATAT
1 A-TAATATAT
*
4887341 ATAGTATAT
1 ATAATATAT
4887350 AATATATATAT
1 -ATA-ATATAT
4887361 ATATATATAT
1 ATA-ATATAT
4887371 ATAA-ACTAT
1 ATAATA-TAT
* *
4887380 ATAGTTTAT
1 ATAATATAT
*
4887389 ATTATATAT
1 ATAATATAT
*
4887398 ATATTATA
1 ATAATATA
4887406 GTTGTTTCAA
Statistics
Matches: 67, Mismatches: 10, Indels: 12
0.75 0.11 0.13
Matches are distributed among these distances:
8 2 0.03
9 43 0.64
10 17 0.25
11 5 0.07
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (9 bp):
ATAATATAT
Found at i:4887329 original size:27 final size:24
Alignment explanation
Indices: 4887299--4887408 Score: 127
Period size: 25 Copynumber: 4.4 Consensus size: 24
4887289 TATACATGGT
4887299 ATATATAGTTTATTCATAATATATATA
1 ATATATAGTTTA-T-AT-ATATATATA
4887326 ATATATAGTTTATATATAGTATATA
1 ATATATAGTTTATATATA-TATATA
*
4887351 ATATATA-TATATATATATATATAA
1 ATATATAGTTTATATATATATAT-A
4887375 ACTATATAGTTTATAT-TATATAT-
1 A-TATATAGTTTATATATATATATA
4887398 ATATTATAGTT
1 ATA-TATAGTT
4887409 GTTTCAATTT
Statistics
Matches: 76, Mismatches: 2, Indels: 14
0.83 0.02 0.15
Matches are distributed among these distances:
22 2 0.03
23 13 0.17
24 14 0.18
25 28 0.37
26 7 0.09
27 12 0.16
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.49
Consensus pattern (24 bp):
ATATATAGTTTATATATATATATA
Found at i:4887838 original size:195 final size:196
Alignment explanation
Indices: 4887506--4888112 Score: 722
Period size: 195 Copynumber: 3.0 Consensus size: 196
4887496 TTGATTCATT
*
4887506 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTTAAAA
1 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTATTCAATTTAGTCCTTAAAA
*
4887571 TTATTTTTGCATCTGAAATTGGCCCATACTTATTACTTATTTATATTTTTTAATTGGCCCGTAAC
66 TTATTTTTGCATCTGAAATTGGCCCATACTTATTACTTATTTATATTTTTTAATTGGCCCATAAC
* *
4887636 TTTTTAAATGGGTATAACTCATTAC-TTTTTTGTATTAATTCAAACCTCACAATTTAAAATTATT
131 TTTTTAAATGGATATAACTCAGTACTTTTTTTGTATTAATTCAAACCTCACAATTTAAAATTATT
4887700 G
196 G
*
4887701 TGTGTTGTTTAATTTATTTAAATTTTTGTTTGTAATTTCATATTTATTCAATTTAGTCCTTAAAA
1 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTATTCAATTTAGTCCTTAAAA
*
4887766 TTATATTTT-CATCTGAAATTGGCCCATACTTATTACTTATTTATATTTTTTAATTGGTCCATAA
66 TTAT-TTTTGCATCTGAAATTGGCCCATACTTATTACTTATTTATATTTTTTAATTGGCCCATAA
* * * * *
4887830 CTTTTTAAATGGATATAAGTTAGTACTTTTTTTTGTATTAATTTAAATCTTACAATTTAAAATTA
130 CTTTTTAAATGGATATAACTCAGTAC-TTTTTTTGTATTAATTCAAACCTCACAATTTAAAATTA
4887895 TT-
194 TTG
* * * * * *
4887897 TCGAT-TTAATCCCTCATCAATGTGTGTTGTTTAATTTATTTAAATTTTTATTTATAATTTCATA
1 T-G-TGTT-GT---T--T-AA----T-TTATTTAAATT-TTT--ATTTGTAATT-TCA--T---A
* * * *
4887961 TTTGTTCAATTTAGTCCTTAAAATTATATTTACATCTGAAATTGGCTCATACTTATTACTTATTT
43 TTTATTCAATTTAGTCCTTAAAATTATTTTTGCATCTGAAATTGGCCCATACTTATTACTTATTT
* * *
4888026 ATATTTTTTAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTAC-TTTTTTGTATTAATTT
108 ATATTTTTTAATTGGCCCATAACTTTTTAAATGGATATAACTCAGTACTTTTTTTGTATTAA-TT
4888090 C-AACCTCACAATTTAAAATTATT
172 CAAACCTCACAATTTAAAATTATT
4888113 TCGATTTGAT
Statistics
Matches: 357, Mismatches: 27, Indels: 35
0.85 0.06 0.08
Matches are distributed among these distances:
195 142 0.40
196 5 0.01
197 39 0.11
198 2 0.01
201 1 0.00
203 1 0.00
204 2 0.01
208 1 0.00
209 9 0.03
210 3 0.01
212 7 0.02
213 2 0.01
215 1 0.00
216 33 0.09
217 5 0.01
218 104 0.29
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.51
Consensus pattern (196 bp):
TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTATTCAATTTAGTCCTTAAAA
TTATTTTTGCATCTGAAATTGGCCCATACTTATTACTTATTTATATTTTTTAATTGGCCCATAAC
TTTTTAAATGGATATAACTCAGTACTTTTTTTGTATTAATTCAAACCTCACAATTTAAAATTATT
G
Found at i:4888206 original size:216 final size:217
Alignment explanation
Indices: 4887699--4888207 Score: 858
Period size: 218 Copynumber: 2.3 Consensus size: 217
4887689 TTAAAATTAT
*
4887699 TGTGTGTTGTTTAATTTATTTAAATTTTTGTTTGTAATTTCATATTTATTCAATTTAGTCCTTAA
1 TGTGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTATTCAATTTAGTCCTTAA
* *
4887764 AATTATATTTTCATCTGAAATTGGCCCATACTTATTACTTATTTATATTTTTTAATTGGTCCATA
66 AATTATATTTACATCTGAAATTGGCCCATACTTATTACTTATTTATATTTTTTAATTGGCCCATA
* *
4887829 ACTTTTTAAATGGATATAAGTTAGTACTTTTTTTTGTATTAATTTAAATCTTACAATTTAAAATT
131 ACTTTTTAAATGGATATAAGTTAGTAC-TTTTTTTGTATTAATTTAAACCTCACAATTTAAAATT
4887894 ATTTCGATTTAATCCCTCATCAA
195 ATTTCGATTTAATCCCTCATCAA
* *
4887917 TGTGTGTTGTTTAATTTATTTAAATTTTTATTTATAATTTCATATTTGTTCAATTTAGTCCTTAA
1 TGTGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTATTCAATTTAGTCCTTAA
*
4887982 AATTATATTTACATCTGAAATTGGCTCATACTTATTACTTATTTATATTTTTTAATTGGCCCATA
66 AATTATATTTACATCTGAAATTGGCCCATACTTATTACTTATTTATATTTTTTAATTGGCCCATA
* * *
4888047 ACTTTTTAAATGGGTATAATTTAGTAC-TTTTTTGTATTAATTTCAACCTCACAATTTAAAATTA
131 ACTTTTTAAATGGATATAAGTTAGTACTTTTTTTGTATTAATTTAAACCTCACAATTTAAAATTA
*
4888111 TTTCGATTTGATCCCTCATCAA
196 TTTCGATTTAATCCCTCATCAA
** *
4888133 TGTGTGTTGTTTAATTTATTTAAATTTAAATTTGTAATTTCATATTTATTCAATTTAGTTCTTAA
1 TGTGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTATTCAATTTAGTCCTTAA
*
4888198 ATTTATATTT
66 AATTATATTT
4888208 TTCATAAAAT
Statistics
Matches: 273, Mismatches: 18, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
216 124 0.45
218 149 0.55
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.52
Consensus pattern (217 bp):
TGTGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTATTCAATTTAGTCCTTAA
AATTATATTTACATCTGAAATTGGCCCATACTTATTACTTATTTATATTTTTTAATTGGCCCATA
ACTTTTTAAATGGATATAAGTTAGTACTTTTTTTGTATTAATTTAAACCTCACAATTTAAAATTA
TTTCGATTTAATCCCTCATCAA
Found at i:4890280 original size:29 final size:28
Alignment explanation
Indices: 4890226--4890281 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
4890216 CTATCGTTGT
* *
4890226 TTTCAAGCACTGACTCGACAATATAATG
1 TTTCAAGCACTGACTCAACAACATAATG
* *
4890254 TTTCAAGCATTTGACTCAACGACATAAT
1 TTTCAAGCA-CTGACTCAACAACATAAT
4890282 ATAAACATAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 9 0.39
29 14 0.61
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.30
Consensus pattern (28 bp):
TTTCAAGCACTGACTCAACAACATAATG
Found at i:4890361 original size:3 final size:3
Alignment explanation
Indices: 4890353--4890458 Score: 176
Period size: 3 Copynumber: 35.0 Consensus size: 3
4890343 CCATATAGAT
4890353 TTA TTA TTA TTA TTA TTA TTAA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA
* * *
4890399 TTA TTA TAA TTA TTA TAA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4890447 TTA TTA TTA TTA
1 TTA TTA TTA TTA
4890459 AATATATTAA
Statistics
Matches: 96, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
3 93 0.97
4 3 0.03
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:4890986 original size:15 final size:15
Alignment explanation
Indices: 4890966--4891007 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
4890956 ACAACGCAGC
4890966 AAAGAAATAG-AAAAG
1 AAAGAAA-AGAAAAAG
4890981 AAAGAAAAGAAAAAG
1 AAAGAAAAGAAAAAG
*
4890996 AAAGAAGAGAAA
1 AAAGAAAAGAAA
4891008 CTTACCGAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 2 0.08
15 23 0.92
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.02
Consensus pattern (15 bp):
AAAGAAAAGAAAAAG
Found at i:4890991 original size:20 final size:20
Alignment explanation
Indices: 4890966--4891007 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
4890956 ACAACGCAGC
*
4890966 AAAGAAATAGAAAAGAA-AGA
1 AAAGAAAAAG-AAAGAAGAGA
4890986 AAAGAAAAAGAAAGAAGAGA
1 AAAGAAAAAGAAAGAAGAGA
4891006 AA
1 AA
4891008 CTTACCGAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.02
Consensus pattern (20 bp):
AAAGAAAAAGAAAGAAGAGA
Found at i:4903306 original size:12 final size:12
Alignment explanation
Indices: 4903263--4903322 Score: 70
Period size: 12 Copynumber: 4.9 Consensus size: 12
4903253 ATTATGCTTG
4903263 AAGAA-AAAAAA
1 AAGAAGAAAAAA
4903274 AAG-AGAAAAAGA
1 AAGAAGAAAAA-A
4903286 AAGAAAAGAAAAAA
1 AAG--AAGAAAAAA
*
4903300 AAGAAGAGAAAA
1 AAGAAGAAAAAA
4903312 AAGAAGAAAAA
1 AAGAAGAAAAA
4903323 GGGAGGGGTC
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
10 1 0.02
11 8 0.19
12 22 0.52
14 4 0.10
15 7 0.17
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (12 bp):
AAGAAGAAAAAA
Found at i:4903306 original size:29 final size:28
Alignment explanation
Indices: 4903263--4903321 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 28
4903253 ATTATGCTTG
4903263 AAGAAAAAAAAAAGAG-AAAAAGAAAGAA
1 AAGAAAAAAAAAAGAGAAAAAAG-AAGAA
4903291 AAGAAAAAAAAGAAGAGAAAAAAGAAGAA
1 AAGAAAAAAAA-AAGAGAAAAAAGAAGAA
4903320 AA
1 AA
4903322 AGGGAGGGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
28 11 0.38
29 12 0.41
30 6 0.21
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (28 bp):
AAGAAAAAAAAAAGAGAAAAAAGAAGAA
Found at i:4903314 original size:26 final size:27
Alignment explanation
Indices: 4903263--4903321 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 27
4903253 ATTATGCTTG
4903263 AAGAAAAAAAAAAGAGAAAAAGAAAGAA
1 AAGAAAAAAAAAAGAG-AAAAGAAAGAA
*
4903291 AAGAAAAAAAAGAAGAGAAAAAAGAAGAA
1 AAGAAAAAAAA-AAGAGAAAAGA-AAGAA
4903320 AA
1 AA
4903322 AGGGAGGGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 16 0.57
29 12 0.43
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (27 bp):
AAGAAAAAAAAAAGAGAAAAGAAAGAA
Found at i:4904605 original size:83 final size:83
Alignment explanation
Indices: 4904466--4905022 Score: 1078
Period size: 83 Copynumber: 6.7 Consensus size: 83
4904456 ACTGGAACAA
4904466 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACC
1 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACC
4904531 AGTTATTGAATTTGAAAG
66 AGTTATTGAATTTGAAAG
4904549 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACC
1 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACC
4904614 AGTTATTGAATTTGAAAG
66 AGTTATTGAATTTGAAAG
4904632 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACC
1 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACC
4904697 AGTTATTGAATTTGAAAG
66 AGTTATTGAATTTGAAAG
4904715 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACC
1 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACC
4904780 AGTTATTGAATTTGAAAG
66 AGTTATTGAATTTGAAAG
4904798 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACC
1 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACC
4904863 AGTTATTGAATTTGAAAG
66 AGTTATTGAATTTGAAAG
*
4904881 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGGTTTGGCAGAACC
1 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACC
4904946 AGTTATTGAATTTGAAAG
66 AGTTATTGAATTTGAAAG
* *
4904964 ATGAATGTGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGATATCTGATCTGGTTTGG
1 ATGAATGTGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG
4905023 TATGAACCCC
Statistics
Matches: 469, Mismatches: 4, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
83 425 0.91
84 44 0.09
ACGTcount: A:0.25, C:0.13, G:0.24, T:0.37
Consensus pattern (83 bp):
ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACC
AGTTATTGAATTTGAAAG
Found at i:4906048 original size:113 final size:113
Alignment explanation
Indices: 4905889--4906966 Score: 1607
Period size: 113 Copynumber: 9.5 Consensus size: 113
4905879 TTTCCAAAAA
* * * *
4905889 AGTTCATAATAAGAAGAACTCATCTGAAGGAGGAAGAAGAAATTCATAATGAGAAGAATTTATTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * ** *
4905954 AACCTTATGTTTAAATCCATCACTTGATGGATTAGCTTTTCCAGAGAA
66 AACCTTTTGCTTAAATCCATCACTTGATGGATTAGCTTTTCCAGTTAG
* *
4906002 AGTTCATAATGATAAGAACTCATTTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * *
4906067 AACCTTTTGCTTAAATCCATTACTTAATGGATTAGACTTTTCCAGTTCG
66 AACCTTTTGCTTAAATCCATCACTTGATGGATTAG-CTTTTCCAGTTAG
* *
4906116 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTATTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * *
4906181 AACCTTATGTTTAAATCCATCACTTGATGGATTAGCTTTTCCAGTTCG
66 AACCTTTTGCTTAAATCCATCACTTGATGGATTAGCTTTTCCAGTTAG
* *
4906229 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTATTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * ** *
4906294 AACCTTATGTTTAAATCCATCACTTGATGGATTAGCTTTTCCAGAGAA
66 AACCTTTTGCTTAAATCCATCACTTGATGGATTAGCTTTTCCAGTTAG
*
4906342 AGTTCATAATGAGAAGAACTCATTTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * *
4906407 AACCTTTTGCTTAAATCCATTACTTAATGGATTAGACTTTTCCAGTTCG
66 AACCTTTTGCTTAAATCCATCACTTGATGGATTAG-CTTTTCCAGTTAG
* * *
4906456 AGTTCATAATGAGAAGAGCTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTATTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * *
4906521 AACCTTATGTTTAAATCCATCACTTGATGGATTAGCTTTTCCAGTTCG
66 AACCTTTTGCTTAAATCCATCACTTGATGGATTAGCTTTTCCAGTTAG
*
4906569 AGTTCATAATGAGAATAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
** * *
4906634 AAAATTTTGCTTAAATCCATAACTTGATGGATTAGCTTTTCCAGGTAG
66 AACCTTTTGCTTAAATCCATCACTTGATGGATTAGCTTTTCCAGTTAG
*
4906682 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGATGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * * *
4906747 AACCTTTTGCTCAAATCTATCACTTGATGGACTAGCTTTTCCAGTTCG
66 AACCTTTTGCTTAAATCCATCACTTGATGGATTAGCTTTTCCAGTTAG
* * *
4906795 AGTTCATATTGAGAAGAACTCATCTGAAGAAGGATGAAGAAGTTCATAACGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* ** *
4906860 AACCTTTTGCTTAAATCCATCACTTGATGGATTAACTTTTCCAGAGAA
66 AACCTTTTGCTTAAATCCATCACTTGATGGATTAGCTTTTCCAGTTAG
* * * * *
4906908 AGTTCATAATGAGAATAATTTATCTTAATAAGGAAGAAGAGAGTTCATAATGAGAAGAA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA-AGTTCATAATGAGAAGAA
4906967 CTCATCTGAA
Statistics
Matches: 878, Mismatches: 84, Indels: 5
0.91 0.09 0.01
Matches are distributed among these distances:
113 659 0.75
114 219 0.25
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (113 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
AACCTTTTGCTTAAATCCATCACTTGATGGATTAGCTTTTCCAGTTAG
Found at i:4906284 original size:227 final size:226
Alignment explanation
Indices: 4905889--4906966 Score: 1625
Period size: 227 Copynumber: 4.8 Consensus size: 226
4905879 TTTCCAAAAA
* * * *
4905889 AGTTCATAATAAGAAGAACTCATCTGAAGGAGGAAGAAGAAATTCATAATGAGAAGAATTTATTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * * * *
4905954 AACCTTATGTTTAAATCCATCACTTGATGGATTAGCTTTTCCAGAGAAAGTTCATAATGATAAGA
66 AACCTTTTGCTTAAATCCATCACTTGATGGATTAGCTTTTCCAGATAGAGTTCATAATGAGAAGA
* * *
4906019 ACTCATTTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAATC
131 ACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTATTCAACCTTATGCTTAAATC
* *
4906084 CATTACTTAATGGATTAGACTTTTCCAGTTCG
196 CATCACTTGATGGATTAG-CTTTTCCAGTTCG
* *
4906116 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTATTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * * *
4906181 AACCTTATGTTTAAATCCATCACTTGATGGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAAGA
66 AACCTTTTGCTTAAATCCATCACTTGATGGATTAGCTTTTCCAGATAGAGTTCATAATGAGAAGA
* *
4906246 ACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTATTCAACCTTATGTTTAAATC
131 ACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTATTCAACCTTATGCTTAAATC
****
4906311 CATCACTTGATGGATTAGCTTTTCCAGAGAA
196 CATCACTTGATGGATTAGCTTTTCCAGTTCG
*
4906342 AGTTCATAATGAGAAGAACTCATTTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * * *
4906407 AACCTTTTGCTTAAATCCATTACTTAATGGATTAGACTTTTCCAGTTCGAGTTCATAATGAGAAG
66 AACCTTTTGCTTAAATCCATCACTTGATGGATTAG-CTTTTCCAGATAGAGTTCATAATGAGAAG
* * *
4906472 AGCTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTATTCAACCTTATGTTTAAAT
130 AACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTATTCAACCTTATGCTTAAAT
4906537 CCATCACTTGATGGATTAGCTTTTCCAGTTCG
195 CCATCACTTGATGGATTAGCTTTTCCAGTTCG
*
4906569 AGTTCATAATGAGAATAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
** * *
4906634 AAAATTTTGCTTAAATCCATAACTTGATGGATTAGCTTTTCCAGGTAGAGTTCATAATGAGAAGA
66 AACCTTTTGCTTAAATCCATCACTTGATGGATTAGCTTTTCCAGATAGAGTTCATAATGAGAAGA
* * * *
4906699 ACTCATCTGAAGAAGGATGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATC
131 ACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTATTCAACCTTATGCTTAAATC
* *
4906764 TATCACTTGATGGACTAGCTTTTCCAGTTCG
196 CATCACTTGATGGATTAGCTTTTCCAGTTCG
* * *
4906795 AGTTCATATTGAGAAGAACTCATCTGAAGAAGGATGAAGAAGTTCATAACGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * * *
4906860 AACCTTTTGCTTAAATCCATCACTTGATGGATTAACTTTTCCAGAGAAAGTTCATAATGAGAATA
66 AACCTTTTGCTTAAATCCATCACTTGATGGATTAGCTTTTCCAGATAGAGTTCATAATGAGAAGA
* * * *
4906925 ATTTATCTTAATAAGGAAGAAGAGAGTTCATAATGAGAAGAA
131 ACTCATCTGAAGAAGGAAGAAGA-AGTTCATAATGAGAAGAA
4906967 CTCATCTGAA
Statistics
Matches: 785, Mismatches: 64, Indels: 4
0.92 0.08 0.00
Matches are distributed among these distances:
226 353 0.45
227 432 0.55
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (226 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
AACCTTTTGCTTAAATCCATCACTTGATGGATTAGCTTTTCCAGATAGAGTTCATAATGAGAAGA
ACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTATTCAACCTTATGCTTAAATC
CATCACTTGATGGATTAGCTTTTCCAGTTCG
Found at i:4906509 original size:340 final size:340
Alignment explanation
Indices: 4905889--4906966 Score: 1782
Period size: 340 Copynumber: 3.2 Consensus size: 340
4905879 TTTCCAAAAA
* *
4905889 AGTTCATAATAAGAAGAACTCATCTGAAGGAGGAAGAAGAAATTCATAATGAGAAGAATTTATTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTATTC
*
4905954 AACCTTATGTTTAAATCCATCACTTGATGGATTAGCTTTTCCAGAGAAAGTTCATAATGATAAGA
66 AACCTTATGTTTAAATCCATCACTTGATGGATTAGCTTTTCCAGAGAAAGTTCATAATGAGAAGA
4906019 ACTCATTTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAATC
131 ACTCATTTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAATC
4906084 CATTACTTAATGGATTAGACTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
196 CATTACTTAATGGATTAGACTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
4906149 AAGAAGAAATTCATAATGAGAAGAATTTATTCAACCTTATGTTTAAATCCATCACTTGATGGATT
261 AAGAAGAAATTCATAATGAGAAGAATTTATTCAACCTTATGTTTAAATCCATCACTTGATGGATT
4906214 AGCTTTTCCAGTTCG
326 AGCTTTTCCAGTTCG
4906229 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTATTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTATTC
4906294 AACCTTATGTTTAAATCCATCACTTGATGGATTAGCTTTTCCAGAGAAAGTTCATAATGAGAAGA
66 AACCTTATGTTTAAATCCATCACTTGATGGATTAGCTTTTCCAGAGAAAGTTCATAATGAGAAGA
4906359 ACTCATTTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAATC
131 ACTCATTTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAATC
*
4906424 CATTACTTAATGGATTAGACTTTTCCAGTTCGAGTTCATAATGAGAAGAGCTCATCTGAAGAAGG
196 CATTACTTAATGGATTAGACTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
4906489 AAGAAGAAATTCATAATGAGAAGAATTTATTCAACCTTATGTTTAAATCCATCACTTGATGGATT
261 AAGAAGAAATTCATAATGAGAAGAATTTATTCAACCTTATGTTTAAATCCATCACTTGATGGATT
4906554 AGCTTTTCCAGTTCG
326 AGCTTTTCCAGTTCG
* * *
4906569 AGTTCATAATGAGAATAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTATTC
** * * * *
4906634 AAAATTTTGCTTAAATCCATAACTTGATGGATTAGCTTTTCCAG-GTAGAGTTCATAATGAGAAG
66 AACCTTATGTTTAAATCCATCACTTGATGGATTAGCTTTTCCAGAG-AAAGTTCATAATGAGAAG
* * *
4906698 AACTCATCTGAAGAAGGATGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAAT
130 AACTCATTTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAAT
* * * * *
4906763 CTATCACTTGATGGACTAG-CTTTTCCAGTTCGAGTTCATATTGAGAAGAACTCATCTGAAGAAG
195 CCATTACTTAATGGATTAGACTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAG
* * * * * *
4906827 GATGAAGAAGTTCATAACGAGAAGAATTTGTTCAACCTTTTGCTTAAATCCATCACTTGATGGAT
260 GAAGAAGAAATTCATAATGAGAAGAATTTATTCAACCTTATGTTTAAATCCATCACTTGATGGAT
* ****
4906892 TAACTTTTCCAGAGAA
325 TAGCTTTTCCAGTTCG
* * * * * *
4906908 AGTTCATAATGAGAATAATTTATCTTAATAAGGAAGAAGAGAGTTCATAATGAGAAGAA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA-AATTCATAATGAGAAGAA
4906967 CTCATCTGAA
Statistics
Matches: 699, Mismatches: 37, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
339 150 0.21
340 549 0.79
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (340 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTATTC
AACCTTATGTTTAAATCCATCACTTGATGGATTAGCTTTTCCAGAGAAAGTTCATAATGAGAAGA
ACTCATTTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAATC
CATTACTTAATGGATTAGACTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
AAGAAGAAATTCATAATGAGAAGAATTTATTCAACCTTATGTTTAAATCCATCACTTGATGGATT
AGCTTTTCCAGTTCG
Found at i:4907238 original size:3 final size:3
Alignment explanation
Indices: 4907230--4907340 Score: 168
Period size: 3 Copynumber: 37.0 Consensus size: 3
4907220 CCATATTGAT
*
4907230 TTA TTA TTA TTA TTA TTA TTA TAA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
4907278 TTA TTA TTA TAA TTA TTA TAA TTA TAA TTA TTA TTA TTG TCA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4907326 TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
4907341 AATATATTAA
Statistics
Matches: 96, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 96 1.00
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:4907868 original size:15 final size:15
Alignment explanation
Indices: 4907848--4907889 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
4907838 ACAACGCAGC
4907848 AAAGAAATAG-AAAAG
1 AAAGAAA-AGAAAAAG
4907863 AAAGAAAAGAAAAAG
1 AAAGAAAAGAAAAAG
*
4907878 AAAGAAGAGAAA
1 AAAGAAAAGAAA
4907890 CTTACCGAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 2 0.08
15 23 0.92
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.02
Consensus pattern (15 bp):
AAAGAAAAGAAAAAG
Found at i:4907873 original size:20 final size:20
Alignment explanation
Indices: 4907848--4907889 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
4907838 ACAACGCAGC
*
4907848 AAAGAAATAGAAAAGAA-AGA
1 AAAGAAAAAG-AAAGAAGAGA
4907868 AAAGAAAAAGAAAGAAGAGA
1 AAAGAAAAAGAAAGAAGAGA
4907888 AA
1 AA
4907890 CTTACCGAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.02
Consensus pattern (20 bp):
AAAGAAAAAGAAAGAAGAGA
Found at i:4909578 original size:60 final size:60
Alignment explanation
Indices: 4909457--4909583 Score: 150
Period size: 60 Copynumber: 2.1 Consensus size: 60
4909447 GATAATATGA
* * * * *
4909457 ATAGTCGTGTGATCATTTTATAACTTTTAATAGTCAATGGACTCAATAAAGCTGCATCCT
1 ATAGTCGTGTGATCATTTTATAACTTTTAATAGTCAAAGAACTCAATAAAGATACACCCT
* * *
4909517 ATAGTCAGTG-GATTATTTTGTAACTTTTAATATTCAAAGAACTCAATAAA-ATAACACCCT
1 ATAGTC-GTGTGATCATTTTATAACTTTTAATAGTCAAAGAACTCAATAAAGAT-ACACCCT
4909577 ATAGTCG
1 ATAGTCG
4909584 GGGGACTATT
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
59 2 0.04
60 52 0.91
61 3 0.05
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (60 bp):
ATAGTCGTGTGATCATTTTATAACTTTTAATAGTCAAAGAACTCAATAAAGATACACCCT
Found at i:4909594 original size:60 final size:60
Alignment explanation
Indices: 4909471--4909603 Score: 144
Period size: 60 Copynumber: 2.2 Consensus size: 60
4909461 TCGTGTGATC
* * * * * * * *
4909471 ATTTTATAACTTTTAATAGTCAATGGACTCAATAAAGCTGCATCCTATAGTCAGTGGATT
1 ATTTTGTAACTTTTAATAGTCAAAGAACTCAATAAAGATACACCCTATAGTCAGGGGACT
* *
4909531 ATTTTGTAACTTTTAATATTCAAAGAACTCAATAAA-ATAACACCCTATAGTCGGGGGACT
1 ATTTTGTAACTTTTAATAGTCAAAGAACTCAATAAAGAT-ACACCCTATAGTCAGGGGACT
4909591 ATTTGTGT-ACTTT
1 ATTT-TGTAACTTT
4909604 ACCCTTTTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
59 1 0.02
60 57 0.93
61 3 0.05
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (60 bp):
ATTTTGTAACTTTTAATAGTCAAAGAACTCAATAAAGATACACCCTATAGTCAGGGGACT
Found at i:4922362 original size:17 final size:17
Alignment explanation
Indices: 4922340--4922373 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
4922330 TACATCTTTG
4922340 ATTACTCAATCACCTAA
1 ATTACTCAATCACCTAA
4922357 ATTACTCAATCACCTAA
1 ATTACTCAATCACCTAA
4922374 TAAATTTCGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.29, G:0.00, T:0.29
Consensus pattern (17 bp):
ATTACTCAATCACCTAA
Found at i:4930185 original size:117 final size:116
Alignment explanation
Indices: 4929965--4930186 Score: 279
Period size: 117 Copynumber: 1.9 Consensus size: 116
4929955 CTTTCAAATC
*
4929965 GAAATTTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTTCAAGATTT
1 GAAATTTTCTTTTTCAATA-TTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTTCAACATTT
* *
4930030 CATTTTGATTGTCAAAATCCATTTTCGTTTCTAGAAGAAGTTTGTCTAATTT
65 CATTTTGATTGTCAAAATCCATTTTAGTTTCTAAAAGAAGTTTGTCTAATTT
* ** *
4930082 GAAATTTTCTTTTTCAGAGT-TTTCAGATTTTGTTTTTGAAAGCTCTAACTCCTT-TCTCAACAT
1 GAAATTTTCTTTTTCA-A-TATTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCT-TCAACAT
* * **
4930145 TTCATTTTGATTTTCTAAATCTGTTTTAGCTTTC-AAAAGAAG
63 TTCATTTTGATTGTCAAAATCCATTTTAG-TTTCTAAAAGAAG
4930187 ATCATTTTTA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
116 1 0.01
117 83 0.92
118 5 0.06
119 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.10, T:0.47
Consensus pattern (116 bp):
GAAATTTTCTTTTTCAATATTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTTCAACATTTC
ATTTTGATTGTCAAAATCCATTTTAGTTTCTAAAAGAAGTTTGTCTAATTT
Found at i:4932516 original size:29 final size:29
Alignment explanation
Indices: 4932451--4932516 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
4932441 TCACCGTTGA
* *
4932451 ACAGTATATTTTTCGATCAGGCACCCGTC
1 ACAGTATATTTTTCGATCAGACACCCATC
* * *
4932480 AGATTATATTTTTCGATCTA-ACACCCATT
1 ACAGTATATTTTTCGATC-AGACACCCATC
4932509 ACAGTATA
1 ACAGTATA
4932517 GCGTGCCCCA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
29 28 0.97
30 1 0.03
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (29 bp):
ACAGTATATTTTTCGATCAGACACCCATC
Found at i:4933321 original size:20 final size:19
Alignment explanation
Indices: 4933296--4933352 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
4933286 TATAAAAAAT
4933296 ATAAAATAAATAAAAATGCA
1 ATAAAATAAATAAAAATG-A
*
4933316 ATAAAA-AGAATTAAAATGA
1 ATAAAATA-AATAAAAATGA
*
4933335 ATAAAATTCAATAAAAAT
1 ATAAAA-TAAATAAAAAT
4933353 ATAATGTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 8 0.26
20 23 0.74
ACGTcount: A:0.68, C:0.04, G:0.05, T:0.23
Consensus pattern (19 bp):
ATAAAATAAATAAAAATGA
Found at i:4933340 original size:29 final size:30
Alignment explanation
Indices: 4933289--4933351 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 30
4933279 TATTAATTAT
4933289 AAAAAATATAAAATAAATAAAAATGCAATA
1 AAAAAATATAAAATAAATAAAAATGCAATA
* *
4933319 AAAAGAAT-TAAAATGAAT-AAAATTCAATA
1 AAAA-AATATAAAATAAATAAAAATGCAATA
4933348 AAAA
1 AAAA
4933352 TATAATGTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 14 0.47
30 13 0.43
31 3 0.10
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (30 bp):
AAAAAATATAAAATAAATAAAAATGCAATA
Found at i:4933916 original size:33 final size:31
Alignment explanation
Indices: 4933867--4933964 Score: 90
Period size: 30 Copynumber: 3.1 Consensus size: 31
4933857 CAACAGTTAA
* *
4933867 TAATGTTTATTCATTTTTAATAAAATTAAATTT
1 TAATATTTATTTATTTTTAA-AAAATT-AATTT
* * **
4933900 TAATATTTATTTATTTTTTAAAAAGTGAATAA
1 TAATATTTATTTA-TTTTTAAAAAATTAATTT
* *
4933932 TAATTTTTA-ATATTTTTAAAAAATTAATTT
1 TAATATTTATTTATTTTTAAAAAATTAATTT
4933962 TAA
1 TAA
4933965 AAGTTAATAA
Statistics
Matches: 52, Mismatches: 12, Indels: 5
0.75 0.17 0.07
Matches are distributed among these distances:
30 17 0.33
31 2 0.04
32 11 0.21
33 15 0.29
34 7 0.13
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (31 bp):
TAATATTTATTTATTTTTAAAAAATTAATTT
Found at i:4933918 original size:65 final size:60
Alignment explanation
Indices: 4933838--4933964 Score: 139
Period size: 65 Copynumber: 2.0 Consensus size: 60
4933828 AATGAATTAT
*
4933838 TATTCATTAATTTTTTTAACAACAGT-TAATAATGTTTATTCATTTTTAATAAAATTAAATTTTA
1 TATTCATTAA-TTTTTTAA-AA-AGTATAATAATGTTTAAT-ATTTTTAA-AAAATT-AATTTTA
4933902 A
60 A
* * *
4933903 TATTTATTTATTTTTTAAAAAGTGAATAATAATTTTTAATATTTTTAAAAAATTAATTTTAA
1 TATTCATTAATTTTTTAAAAAGT--ATAATAATGTTTAATATTTTTAAAAAATTAATTTTAA
4933965 AAGTTAATAA
Statistics
Matches: 55, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
62 11 0.20
63 8 0.15
64 16 0.29
65 20 0.36
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (60 bp):
TATTCATTAATTTTTTAAAAAGTATAATAATGTTTAATATTTTTAAAAAATTAATTTTAA
Found at i:4933974 original size:43 final size:43
Alignment explanation
Indices: 4933915--4933999 Score: 102
Period size: 43 Copynumber: 2.0 Consensus size: 43
4933905 TTTATTTATT
* * *
4933915 TTTTAAAAAGTGAAT-AATAATTTTTAATATTTTTAAAAAATTAA
1 TTTTAAAAAGTGAATAAAT-ATTATTAA-ATATTAAAAAAATTAA
*
4933959 TTTT-AAAAGTTAATAAATATTATTAAATATTAAAAAAATTA
1 TTTTAAAAAGTGAATAAATATTATTAAATATTAAAAAAATTA
4934000 TTAGTAAAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
42 13 0.36
43 16 0.44
44 7 0.19
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (43 bp):
TTTTAAAAAGTGAATAAATATTATTAAATATTAAAAAAATTAA
Found at i:4934628 original size:22 final size:20
Alignment explanation
Indices: 4934603--4934656 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 20
4934593 AATTAAAAGA
4934603 TAAATCATATTAAATTAAATT
1 TAAATCATATTAAA-TAAATT
*
4934624 CTAAATTAGTA-TAAATAAATT
1 -TAAATCA-TATTAAATAAATT
4934645 TAAAATCATATT
1 T-AAATCATATT
4934657 TGTTTTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
20 3 0.11
21 12 0.44
22 10 0.37
23 2 0.07
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.41
Consensus pattern (20 bp):
TAAATCATATTAAATAAATT
Found at i:4934801 original size:21 final size:21
Alignment explanation
Indices: 4934779--4934821 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
4934769 CTCAACGTTT
*
4934779 TTTTTTATA-TTTT-TGTAAA
1 TTTTTTATATTTTTATGAAAA
4934798 TTTTTTATATTTTTATGAAAA
1 TTTTTTATATTTTTATGAAAA
4934819 TTT
1 TTT
4934822 GGTATTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.43
20 4 0.19
21 8 0.38
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (21 bp):
TTTTTTATATTTTTATGAAAA
Found at i:4940084 original size:31 final size:31
Alignment explanation
Indices: 4940048--4940107 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
4940038 AACTTAAAAG
*
4940048 AGTTTTGCAATACCGAAATTTAAATAATTTT
1 AGTTTTACAATACCGAAATTTAAATAATTTT
*
4940079 AGTTTTACAATACTGAAATTTAAATAATT
1 AGTTTTACAATACCGAAATTTAAATAATT
4940108 CATACAACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACCGAAATTTAAATAATTTT
Found at i:4940596 original size:20 final size:20
Alignment explanation
Indices: 4940573--4940634 Score: 60
Period size: 19 Copynumber: 3.2 Consensus size: 20
4940563 AACTTAAATC
4940573 AAAATAATTAAAATAA-ATAT
1 AAAATAATT-AAATAATATAT
*
4940593 AAAAT--TTTAATAATATAT
1 AAAATAATTAAATAATATAT
* *
4940611 AAAATAATT-TATATTATAT
1 AAAATAATTAAATAATATAT
4940630 AAAAT
1 AAAAT
4940635 TAAATATCTA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
17 5 0.14
18 11 0.31
19 13 0.36
20 7 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAATAATTAAATAATATAT
Found at i:4940630 original size:19 final size:18
Alignment explanation
Indices: 4940584--4940635 Score: 63
Period size: 19 Copynumber: 2.9 Consensus size: 18
4940574 AAATAATTAA
4940584 AATAA-ATATAAAATTTT
1 AATAATATATAAAATTTT
4940601 AATAATATATAAAATAATTT
1 AATAATATATAAAAT--TTT
*
4940621 -ATATTATATAAAATT
1 AATAATATATAAAATT
4940636 AAATATCTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
17 6 0.19
18 9 0.29
19 13 0.42
20 3 0.10
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AATAATATATAAAATTTT
Found at i:4940674 original size:26 final size:26
Alignment explanation
Indices: 4940614--4940694 Score: 78
Period size: 24 Copynumber: 3.0 Consensus size: 26
4940604 AATATATAAA
4940614 ATAATTTATATTATATAAAATTAAATATCT
1 ATAA-TTATATTA-A-AAAATT-AATATCT
4940644 ATAATATAATATTAAAAAATTAATAT-T
1 ATAAT-T-ATATTAAAAAATTAATATCT
4940671 -TAATT-TATTAAAAAAATTAATATC
1 ATAATTATATT-AAAAAATTAATATC
4940695 AAAATTAATA
Statistics
Matches: 47, Mismatches: 0, Indels: 13
0.78 0.00 0.22
Matches are distributed among these distances:
23 4 0.09
24 13 0.28
25 1 0.02
26 4 0.09
27 1 0.02
28 5 0.11
29 7 0.15
30 6 0.13
31 6 0.13
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (26 bp):
ATAATTATATTAAAAAATTAATATCT
Found at i:4940700 original size:12 final size:12
Alignment explanation
Indices: 4940683--4940789 Score: 58
Period size: 12 Copynumber: 8.7 Consensus size: 12
4940673 ATTTATTAAA
4940683 AAAATTAATATC
1 AAAATTAATATC
4940695 AAAATTAATATC
1 AAAATTAATATC
* *
4940707 TATAATATAATATTAA
1 -AAAAT-TAATA-T-C
4940723 AAAATTAATAT-
1 AAAATTAATATC
** * * *
4940734 TTAATTTATTTGA
1 AAAATTAATAT-C
*
4940747 AAAATTAATATT
1 AAAATTAATATC
*
4940759 AAAATTAAAATC
1 AAAATTAATATC
4940771 -AAATATAATAT-
1 AAAAT-TAATATC
4940782 AAAATTAA
1 AAAATTAA
4940790 ATATAAAACC
Statistics
Matches: 72, Mismatches: 15, Indels: 17
0.69 0.14 0.16
Matches are distributed among these distances:
11 14 0.19
12 31 0.43
13 12 0.17
14 10 0.14
15 5 0.07
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (12 bp):
AAAATTAATATC
Found at i:4940705 original size:64 final size:63
Alignment explanation
Indices: 4940626--4940785 Score: 245
Period size: 64 Copynumber: 2.5 Consensus size: 63
4940616 AATTTATATT
4940626 ATATAAAATTAAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTAAAAAAATTA
1 ATATAAAATT-AATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTAAAAAAATTA
**
4940690 ATATCAAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTGAAAAATTA
1 ATAT-AAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTAAAAAAATTA
*
4940754 ATATTAAAATTAAAATC-A-AATATAATA-TAAAA
1 ATA-TAAAATTAATATCTATAATATAATATTAAAA
4940786 TTAAATATAA
Statistics
Matches: 91, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
61 5 0.05
62 9 0.10
63 1 0.01
64 69 0.76
65 7 0.08
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (63 bp):
ATATAAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTAAAAAAATTA
Found at i:4940753 original size:24 final size:27
Alignment explanation
Indices: 4940695--4940759 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 27
4940685 AATTAATATC
4940695 AAAATTAATATCTATAATATAATATTAA
1 AAAATTAATAT-TATAATATAATATTAA
* *
4940723 AAAATTAATATT-TAAT-TTAT-TTGA
1 AAAATTAATATTATAATATAATATTAA
4940747 AAAATTAATATTA
1 AAAATTAATATTA
4940760 AAATTAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
24 15 0.44
25 3 0.09
26 4 0.12
27 1 0.03
28 11 0.32
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (27 bp):
AAAATTAATATTATAATATAATATTAA
Found at i:4940792 original size:12 final size:12
Alignment explanation
Indices: 4940747--4940797 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
4940737 ATTTATTTGA
4940747 AAAATT-AATATT
1 AAAATTAAATA-T
4940759 AAAATTAAA-AT
1 AAAATTAAATAT
*
4940770 CAAA-TATAATAT
1 AAAATTA-AATAT
4940782 AAAATTAAATAT
1 AAAATTAAATAT
4940794 AAAA
1 AAAA
4940798 CCTCTTTGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
10 2 0.06
11 6 0.18
12 21 0.64
13 4 0.12
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAATTAAATAT
Found at i:4942158 original size:33 final size:33
Alignment explanation
Indices: 4942121--4942186 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
4942111 TCAACTATTA
4942121 ACCTAGACAAGATATATAAAATTAACAGACTAT
1 ACCTAGACAAGATATATAAAATTAACAGACTAT
4942154 ACCTAGACAAGATATATAAAATTAACAGACTAT
1 ACCTAGACAAGATATATAAAATTAACAGACTAT
4942187 GAAAGACAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.52, C:0.15, G:0.09, T:0.24
Consensus pattern (33 bp):
ACCTAGACAAGATATATAAAATTAACAGACTAT
Found at i:4942644 original size:2 final size:2
Alignment explanation
Indices: 4942637--4942671 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
4942627 CCGCCCCGAT
4942637 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4942672 TTAACCTAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4944361 original size:18 final size:18
Alignment explanation
Indices: 4944340--4944395 Score: 85
Period size: 18 Copynumber: 3.1 Consensus size: 18
4944330 CTCTGCTACA
* *
4944340 CAAAACGAGTCTGATACC
1 CAAAACGAGTATAATACC
*
4944358 CAAAACGAGTGTAATACC
1 CAAAACGAGTATAATACC
4944376 CAAAACGAGTATAATACC
1 CAAAACGAGTATAATACC
4944394 CA
1 CA
4944396 TGAAACTTTC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.45, C:0.25, G:0.14, T:0.16
Consensus pattern (18 bp):
CAAAACGAGTATAATACC
Found at i:4949079 original size:23 final size:23
Alignment explanation
Indices: 4949053--4949104 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
4949043 TCAATAGCCT
*
4949053 AGATCTATTTACATCAACGGTTA
1 AGATCTACTTACATCAACGGTTA
* *
4949076 AGATCTGCTTACATCAATGGTTA
1 AGATCTACTTACATCAACGGTTA
4949099 AGATCT
1 AGATCT
4949105 GCTCAATCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (23 bp):
AGATCTACTTACATCAACGGTTA
Found at i:4949105 original size:23 final size:23
Alignment explanation
Indices: 4949061--4949115 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
4949051 CTAGATCTAT
*
4949061 TTACATCAACGGTTAAGATCTGC
1 TTACATCAATGGTTAAGATCTGC
4949084 TTACATCAATGGTTAAGATCTGC
1 TTACATCAATGGTTAAGATCTGC
*
4949107 TCA-ATCAAT
1 TTACATCAAT
4949116 ACAAGATCCC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 6 0.20
23 24 0.80
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.33
Consensus pattern (23 bp):
TTACATCAATGGTTAAGATCTGC
Found at i:4952348 original size:20 final size:21
Alignment explanation
Indices: 4952323--4952361 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
4952313 TCCTCATCTT
4952323 TTGTTTGCCATCTC-AAAAAA
1 TTGTTTGCCATCTCGAAAAAA
4952343 TTGTTTGCCATCTCGAAAA
1 TTGTTTGCCATCTCGAAAA
4952362 CTCATTTGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.36
Consensus pattern (21 bp):
TTGTTTGCCATCTCGAAAAAA
Found at i:4952369 original size:20 final size:20
Alignment explanation
Indices: 4952326--4952372 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
4952316 TCATCTTTTG
**
4952326 TTTGCCATCTCAAAAAATTG
1 TTTGCCATCTCAAAAAATCA
* *
4952346 TTTGCCATCTCGAAAACTCA
1 TTTGCCATCTCAAAAAATCA
4952366 TTTGCCA
1 TTTGCCA
4952373 CGAACTAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.34
Consensus pattern (20 bp):
TTTGCCATCTCAAAAAATCA
Found at i:4953779 original size:29 final size:30
Alignment explanation
Indices: 4953710--4953779 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 30
4953700 TTTAAGAAAC
* * *
4953710 AATTTAAAATATTGTCATAATTTAAGAATT
1 AATTTAAAATATTGTAAAAATCTAAGAATT
* * * *
4953740 GATATATAATATT-TAAAAATCTAAGGATT
1 AATTTAAAATATTGTAAAAATCTAAGAATT
4953769 AATTTAAAATA
1 AATTTAAAATA
4953780 AGGATTATAA
Statistics
Matches: 30, Mismatches: 10, Indels: 1
0.73 0.24 0.02
Matches are distributed among these distances:
29 20 0.67
30 10 0.33
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (30 bp):
AATTTAAAATATTGTAAAAATCTAAGAATT
Found at i:4956111 original size:21 final size:21
Alignment explanation
Indices: 4956085--4956327 Score: 277
Period size: 21 Copynumber: 11.8 Consensus size: 21
4956075 ATTTCCAGAT
* *
4956085 TCGCAACGCGAACTTCGACTA
1 TCGCAATGCGAACTTGGACTA
4956106 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
4956127 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
* * *
4956148 TCGCAATGC-AAATATGTA-AA
1 TCGCAATGCGAACT-TGGACTA
4956168 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
4956189 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
4956210 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
* * *
4956231 TCGTAATGCGAA-TATGTA-AA
1 TCGCAATGCGAACT-TGGACTA
* *
4956251 TCGCAATGCG-A-TATGCA-AA
1 TCGCAATGCGAACT-TGGACTA
* *
4956270 TCGCAATGCGATA-GTCGACTA
1 TCGCAATGCGA-ACTTGGACTA
*
4956291 TCGCAATGAGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
4956312 TCGCAATGCGAACTTG
1 TCGCAATGCGAACTTG
4956328 TGTTGGGAAC
Statistics
Matches: 193, Mismatches: 21, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
19 18 0.09
20 30 0.16
21 145 0.75
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (21 bp):
TCGCAATGCGAACTTGGACTA
Found at i:4956171 original size:62 final size:63
Alignment explanation
Indices: 4956102--4956327 Score: 254
Period size: 62 Copynumber: 3.7 Consensus size: 63
4956092 GCGAACTTCG
4956102 ACTATCGCAATGCGAACTTGGACTATCGCAATGCGAACTTGGACTATCGCAATGCAAATATGT
1 ACTATCGCAATGCGAACTTGGACTATCGCAATGCGAACTTGGACTATCGCAATGCAAATATGT
* * *
4956165 A-AATCGCAATGCGAACTTGGACTATCGCAATGCGAACTTGGACTATCGCAATGCGAACT-TGG
1 ACTATCGCAATGCGAACTTGGACTATCGCAATGCGAACTTGGACTATCGCAATGC-AAATATGT
* * * * * *
4956227 ACTATCGTAATGCGAA-TATGTA-AATCGCAATGCG-A-TATGCA-AATCGCAATGC-GATA-GT
1 ACTATCGCAATGCGAACT-TGGACTATCGCAATGCGAACT-TGGACTATCGCAATGCAAATATGT
*
4956285 CGACTATCGCAATGAGAACTTGGACTATCGCAATGCGAACTTG
1 --ACTATCGCAATGCGAACTTGGACTATCGCAATGCGAACTTG
4956328 TGTTGGGAAC
Statistics
Matches: 136, Mismatches: 16, Indels: 23
0.78 0.09 0.13
Matches are distributed among these distances:
58 2 0.01
60 28 0.21
61 16 0.12
62 70 0.51
63 20 0.15
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.24
Consensus pattern (63 bp):
ACTATCGCAATGCGAACTTGGACTATCGCAATGCGAACTTGGACTATCGCAATGCAAATATGT
Found at i:4956179 original size:83 final size:83
Alignment explanation
Indices: 4956085--4956320 Score: 345
Period size: 83 Copynumber: 2.9 Consensus size: 83
4956075 ATTTCCAGAT
*
4956085 TCGCAACGCGAACTTCGACTATCGCAATGCGAACTTGGACTATCGCAATGCGAACTTGGACTATC
1 TCGCAATGCGAACTTCGACTATCGCAATGCGAACTTGGACTATCGCAATGCGAACTTGGACTATC
4956150 GCAATGCAAATATGTAAA
66 GCAATGCAAATATGTAAA
*
4956168 TCGCAATGCGAACTTGGACTATCGCAATGCGAACTTGGACTATCGCAATGCGAACTTGGACTATC
1 TCGCAATGCGAACTTCGACTATCGCAATGCGAACTTGGACTATCGCAATGCGAACTTGGACTATC
* *
4956233 GTAATGCGAATATGTAAA
66 GCAATGCAAATATGTAAA
* * * * *
4956251 TCGCAATGCGATA-TGC-A-AATCGCAATGCGATA-GTCGACTATCGCAATGAGAACTTGGACTA
1 TCGCAATGCGA-ACTTCGACTATCGCAATGCGA-ACTTGGACTATCGCAATGCGAACTTGGACTA
4956312 TCGCAATGC
64 TCGCAATGC
4956321 GAACTTGTGT
Statistics
Matches: 140, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
81 46 0.33
82 2 0.01
83 91 0.65
84 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (83 bp):
TCGCAATGCGAACTTCGACTATCGCAATGCGAACTTGGACTATCGCAATGCGAACTTGGACTATC
GCAATGCAAATATGTAAA
Found at i:4956270 original size:19 final size:19
Alignment explanation
Indices: 4956230--4956282 Score: 79
Period size: 19 Copynumber: 2.7 Consensus size: 19
4956220 AACTTGGACT
* *
4956230 ATCGTAATGCGAATATGTAA
1 ATCGCAATGCG-ATATGCAA
4956250 ATCGCAATGCGATATGCAA
1 ATCGCAATGCGATATGCAA
4956269 ATCGCAATGCGATA
1 ATCGCAATGCGATA
4956283 GTCGACTATC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 21 0.68
20 10 0.32
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.25
Consensus pattern (19 bp):
ATCGCAATGCGATATGCAA
Found at i:4956621 original size:21 final size:21
Alignment explanation
Indices: 4956597--4956752 Score: 117
Period size: 21 Copynumber: 7.4 Consensus size: 21
4956587 ATTTTAGACT
*
4956597 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
* *
4956618 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAACTTGGAATAA
* *
4956639 ATCGCAACGAATTTGTAATAA
1 ATCGCAACGAACTTGGAATAA
* *
4956660 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAACTTGGAATAA
*
4956681 ATCGCAACGAACTTGAAATAA
1 ATCGCAACGAACTTGGAATAA
*
4956702 ATCGCAACGCGAACTTGGACT--
1 ATCGCAA--CGAACTTGGAATAA
* *
4956723 ATCGTAACGAATTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
4956744 ATCGCAACG
1 ATCGCAACG
4956753 CGAACTTCGA
Statistics
Matches: 103, Mismatches: 20, Indels: 24
0.70 0.14 0.16
Matches are distributed among these distances:
19 27 0.26
21 49 0.48
23 27 0.26
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (21 bp):
ATCGCAACGAACTTGGAATAA
Found at i:4956652 original size:42 final size:42
Alignment explanation
Indices: 4956593--4956789 Score: 313
Period size: 42 Copynumber: 4.7 Consensus size: 42
4956583 TGCGATTTTA
*
4956593 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGAAATAAATCGCAACGCGAACTTC
*
4956635 GACTATCGCAACGAATTTGTAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGAAATAAATCGCAACGCGAACTTC
* *
4956677 GACTATCGCAACGAACTTGAAATAAATCGCAACGCGAACTTG
1 GACTATCGCAACGAATTTGAAATAAATCGCAACGCGAACTTC
* *
4956719 GACTATCGTAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGAAATAAATCGCAACGCGAACTTC
* * *
4956761 GACTATCACAACGAACTTAAAATAAATCG
1 GACTATCGCAACGAATTTGAAATAAATCG
4956790 TATATTATAA
Statistics
Matches: 142, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 142 1.00
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.22
Consensus pattern (42 bp):
GACTATCGCAACGAATTTGAAATAAATCGCAACGCGAACTTC
Found at i:4961091 original size:27 final size:28
Alignment explanation
Indices: 4961060--4961113 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
4961050 GTTCAAAATT
4961060 TTGAATTAATTCGATTAA-TCGATCGAA
1 TTGAATTAATTCGATTAATTCGATCGAA
* *
4961087 TTGAATTAGTTCGGTTAATTCGATCGA
1 TTGAATTAATTCGATTAATTCGATCGA
4961114 TCATCGAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (28 bp):
TTGAATTAATTCGATTAATTCGATCGAA
Found at i:4961125 original size:30 final size:27
Alignment explanation
Indices: 4961062--4961131 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 27
4961052 TCAAAATTTT
* * *
4961062 GAATTAATTCGATTAATCGATCGAATT
1 GAATTAGTTCGGTTAATCGATCGAATC
4961089 GAATTAGTTCGGTTAATTCGATCGATCATC
1 GAATTAGTTCGGTTAA-TCGATCGA--ATC
4961119 GAATTAGTTCGGT
1 GAATTAGTTCGGT
4961132 CGGTTAACGG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 14 0.38
28 8 0.22
30 15 0.41
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (27 bp):
GAATTAGTTCGGTTAATCGATCGAATC
Found at i:4961360 original size:22 final size:21
Alignment explanation
Indices: 4961335--4961398 Score: 53
Period size: 20 Copynumber: 3.1 Consensus size: 21
4961325 AAAAAATTTA
4961335 TATAAACTTTTTATTTTATAAT
1 TATAAACTTTTTATTTT-TAAT
* **
4961357 TATATA-TTATTTA-AATTAAT
1 TATAAACTT-TTTATTTTTAAT
*
4961377 TATAAACTTTTT-TTTTGAAT
1 TATAAACTTTTTATTTTTAAT
4961397 TA
1 TA
4961399 AAAATATATT
Statistics
Matches: 32, Mismatches: 7, Indels: 8
0.68 0.15 0.17
Matches are distributed among these distances:
20 18 0.56
21 5 0.16
22 9 0.28
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.58
Consensus pattern (21 bp):
TATAAACTTTTTATTTTTAAT
Found at i:4961425 original size:44 final size:42
Alignment explanation
Indices: 4961328--4961425 Score: 103
Period size: 44 Copynumber: 2.3 Consensus size: 42
4961318 ATCAATTAAA
** *
4961328 AAATT-TATATAAACTTTTTATTTTATAATTATATATTATTT
1 AAATTATATATAAACTTTTTATTTTATAAAAATATATTATAT
4961369 AAATTA-ATTATAAACTTTTT-TTTTGAATTAAAAATATATTATAT
1 AAATTATA-TATAAACTTTTTATTTT--A-TAAAAATATATTATAT
*
4961413 ATATTATATATAA
1 AAATTATATATAA
4961426 CATATGGGCT
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
41 10 0.21
42 12 0.26
43 1 0.02
44 23 0.49
45 1 0.02
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.53
Consensus pattern (42 bp):
AAATTATATATAAACTTTTTATTTTATAAAAATATATTATAT
Found at i:4961463 original size:187 final size:186
Alignment explanation
Indices: 4961224--4961591 Score: 630
Period size: 187 Copynumber: 2.0 Consensus size: 186
4961214 TAAATTTTAA
** *
4961224 ATATATTATATATAACATATGGGCTCAGCTTAAATTATTTAAAATCCAATTAATAATTTAAGATC
1 ATATATTATATATAACATATGGGCTCAGCCCAAATCATTTAAAATCCAATTAATAATTTAAGATC
*
4961289 CAATAACTTTTAAACCTAAATTAATATTAATCAATTAAAAAATTTATATAAACTTTTTATTTTAT
66 CAATAACTTTTAAACCTAAATCAATATTAATCAATTAAAAAATTTATATAAACTTTTTATTTTAT
* *
4961354 AATTATATATTATTTAAATTAATTATAAACTTTTTTTTTGAATTAAAAATATATTAT
131 AATTATATATTATTTAAATTAATTAGAAACTGTTTTTTT-AATTAAAAATATATTAT
4961411 ATATATTATATATAACATATGGGCTCAGCCCAAATCATTTAAAA-CTCAATTAATAATTTAAGAT
1 ATATATTATATATAACATATGGGCTCAGCCCAAATCATTTAAAATC-CAATTAATAATTTAAGAT
* * *
4961475 CCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAATTTTATATAAATTTTTTATTTTA
65 CCAATAACTTTTAAACCTAAATCAATATTAATCAATTAAAAAATTTATATAAACTTTTTATTTTA
4961540 TAATTATATATTATTTAAATTAATTAGAAACTGTTTTTTTAATTAAAAATAT
130 TAATTATATATTATTTAAATTAATTAGAAACTGTTTTTTTAATTAAAAATAT
4961592 TTAATTTTTA
Statistics
Matches: 171, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
186 13 0.08
187 158 0.92
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (186 bp):
ATATATTATATATAACATATGGGCTCAGCCCAAATCATTTAAAATCCAATTAATAATTTAAGATC
CAATAACTTTTAAACCTAAATCAATATTAATCAATTAAAAAATTTATATAAACTTTTTATTTTAT
AATTATATATTATTTAAATTAATTAGAAACTGTTTTTTTAATTAAAAATATATTAT
Found at i:4964882 original size:39 final size:39
Alignment explanation
Indices: 4964839--4964917 Score: 106
Period size: 39 Copynumber: 2.0 Consensus size: 39
4964829 TATGCACCAT
* *
4964839 GTCCCCTCCCGTTTTGCCCCAAT-CCTTTAACTAGGGATG
1 GTCCCCTCACATTTTGCCCC-ATCCCTTTAACTAGGGATG
* *
4964878 GTCCCCTCATATTTTGCCCCATCCCTTTAACTAGTGATG
1 GTCCCCTCACATTTTGCCCCATCCCTTTAACTAGGGATG
4964917 G
1 G
4964918 ATCGAGAAGG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 2 0.06
39 33 0.94
ACGTcount: A:0.16, C:0.34, G:0.16, T:0.33
Consensus pattern (39 bp):
GTCCCCTCACATTTTGCCCCATCCCTTTAACTAGGGATG
Found at i:4966989 original size:44 final size:41
Alignment explanation
Indices: 4966918--4967059 Score: 144
Period size: 44 Copynumber: 3.3 Consensus size: 41
4966908 TTTTCATACG
* *
4966918 TTTTTGTTTTTTTAATTTTATATGTTTTTATTTTCTGTTTTC
1 TTTTTATTTTTTT-ATATTATATGTTTTTATTTTCTGTTTTC
4966960 TTTTTATTTTTTGTATACATTATATGTTTTTACTTTT-TGTTTTC
1 TTTTTATTTTTT-TAT--ATTATATGTTTTTA-TTTTCTGTTTTC
* *
4967004 TATTTT-TTCTATTTTATTTTATTTGTTTTTTATTTTCTGTTTTC
1 T-TTTTATT-T-TTTTATATTATATG-TTTTTATTTTCTGTTTTC
*
4967048 TATTTATTTTTT
1 TTTTTATTTTTT
4967060 ATTTGTTTTC
Statistics
Matches: 85, Mismatches: 5, Indels: 20
0.77 0.05 0.18
Matches are distributed among these distances:
42 16 0.19
43 15 0.18
44 39 0.46
45 12 0.14
46 3 0.04
ACGTcount: A:0.13, C:0.06, G:0.06, T:0.75
Consensus pattern (41 bp):
TTTTTATTTTTTTATATTATATGTTTTTATTTTCTGTTTTC
Found at i:4967030 original size:30 final size:31
Alignment explanation
Indices: 4966995--4967077 Score: 87
Period size: 36 Copynumber: 2.5 Consensus size: 31
4966985 GTTTTTACTT
4966995 TTTGTTTTCTATTTTTTCTATTT-TATTTTA
1 TTTGTTTTCTATTTTTTCTATTTATATTTTA
* *
4967025 TTTGTTTTTTATTTTCTGTTTTCTATTTATTTTTTA
1 TTTGTTTTCTA---T-T-TTTTCTATTTATATTTTA
*
4967061 TTTGTTTTCTGTTTTTT
1 TTTGTTTTCTATTTTTT
4967078 ATAAGTTTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
30 10 0.23
31 4 0.09
32 1 0.02
33 2 0.05
34 1 0.02
35 10 0.23
36 15 0.35
ACGTcount: A:0.10, C:0.06, G:0.06, T:0.78
Consensus pattern (31 bp):
TTTGTTTTCTATTTTTTCTATTTATATTTTA
Found at i:4967077 original size:44 final size:42
Alignment explanation
Indices: 4966925--4967077 Score: 116
Period size: 44 Copynumber: 3.5 Consensus size: 42
4966915 ACGTTTTTGT
* *
4966925 TTTTTTAATTTTATATG--TTTTTATTTTCTGTTTTCTTTTTA
1 TTTTTT-ATTTTATTTGTTTTTTTATTTTCTGTTTTCTATTTA
* ** * * *
4966966 TTTTTTGTATACATTATATGTTTTTACTTTT-TGTTTTCTATTTTT
1 TTTTTTAT-TTTATT-TGTTTTTTTA-TTTTCTGTTTTCTA-TTTA
4967011 TCTATTTTATTTTATTTG-TTTTTTATTTTCTGTTTTCTATTTA
1 T-T-TTTTATTTTATTTGTTTTTTTATTTTCTGTTTTCTATTTA
*
4967054 TTTTTTATTTGTTTTCTGTTTTTT
1 TTTTTTATTT-TATT-TGTTTTTT
4967078 ATAAGTTTAA
Statistics
Matches: 86, Mismatches: 14, Indels: 21
0.71 0.12 0.17
Matches are distributed among these distances:
40 1 0.01
41 17 0.20
42 5 0.06
43 10 0.12
44 34 0.40
45 9 0.10
46 5 0.06
47 5 0.06
ACGTcount: A:0.13, C:0.06, G:0.06, T:0.75
Consensus pattern (42 bp):
TTTTTTATTTTATTTGTTTTTTTATTTTCTGTTTTCTATTTA
Found at i:4967107 original size:22 final size:19
Alignment explanation
Indices: 4967020--4967108 Score: 60
Period size: 18 Copynumber: 4.7 Consensus size: 19
4967010 TTCTATTTTA
4967020 TTTTATTTGTTTT-TTATT
1 TTTTATTTGTTTTCTTATT
* * *
4967038 TTCTGTTT-TCTAT-TTATT
1 TTTTATTTGT-TTTCTTATT
*
4967056 TTTTATTTGTTTTC-TGTT
1 TTTTATTTGTTTTCTTATT
**
4967074 TTTTATAAGTTTAATCTTATCT
1 TTTTATTTGTTT--TCTTAT-T
4967096 TTTTATTTGTTTT
1 TTTTATTTGTTTT
4967109 ATTAGTTGAT
Statistics
Matches: 52, Mismatches: 12, Indels: 12
0.68 0.16 0.16
Matches are distributed among these distances:
17 1 0.02
18 34 0.65
19 1 0.02
20 3 0.06
21 2 0.04
22 11 0.21
ACGTcount: A:0.13, C:0.06, G:0.07, T:0.74
Consensus pattern (19 bp):
TTTTATTTGTTTTCTTATT
Found at i:4967330 original size:31 final size:32
Alignment explanation
Indices: 4967261--4967338 Score: 140
Period size: 32 Copynumber: 2.5 Consensus size: 32
4967251 TATTTTTATT
*
4967261 TGTTGATGTGAAGGATATTAGCTGATTCTTAA
1 TGTTAATGTGAAGGATATTAGCTGATTCTTAA
4967293 TGTTAATGTGAAGGATATTAGCTGATTCTT-A
1 TGTTAATGTGAAGGATATTAGCTGATTCTTAA
4967324 TGTTAATGTGAAGGA
1 TGTTAATGTGAAGGA
4967339 CTTTGAATTA
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
31 16 0.36
32 29 0.64
ACGTcount: A:0.29, C:0.05, G:0.26, T:0.40
Consensus pattern (32 bp):
TGTTAATGTGAAGGATATTAGCTGATTCTTAA
Found at i:4967390 original size:17 final size:17
Alignment explanation
Indices: 4967370--4967464 Score: 61
Period size: 17 Copynumber: 5.4 Consensus size: 17
4967360 TATTGTTTTC
4967370 TATTTTTTATTTTTATT
1 TATTTTTTATTTTTATT
*
4967387 TATTTATTT-TTATTATT
1 TATTT-TTTATTTTTATT
*
4967404 TAGTTTCTGT-TTTTTATT
1 TA-TTT-TTTATTTTTATT
* * *
4967422 TGTTTTCTATTATTA-T
1 TATTTTTTATTTTTATT
4967438 TATTTTGTTATTTATATAATT
1 TATTTT-TTATTT-T-T-ATT
4967459 TATTTT
1 TATTTT
4967465 GTTTATATTT
Statistics
Matches: 60, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
16 8 0.13
17 26 0.43
18 17 0.28
19 1 0.02
20 1 0.02
21 7 0.12
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.74
Consensus pattern (17 bp):
TATTTTTTATTTTTATT
Found at i:4967394 original size:21 final size:20
Alignment explanation
Indices: 4967366--4967443 Score: 63
Period size: 20 Copynumber: 3.9 Consensus size: 20
4967356 CTTATATTGT
4967366 TTTCTATTTTTTATTTTTA-
1 TTTCTATTTTTTATTTTTAG
* *
4967385 TTTATTTATTTTTATTATTTAG
1 TTTCTAT-TTTTTATT-TTTAG
* *
4967407 TTTCTGTTTTTTATTTGT--
1 TTTCTATTTTTTATTTTTAG
4967425 TTTCTATTATTATTATTTT
1 TTTCTATT-TT-TTATTTT
4967444 GTTATTTATA
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
18 7 0.15
19 7 0.15
20 16 0.34
21 12 0.26
22 5 0.11
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.76
Consensus pattern (20 bp):
TTTCTATTTTTTATTTTTAG
Found at i:4969809 original size:57 final size:57
Alignment explanation
Indices: 4969762--4969895 Score: 241
Period size: 57 Copynumber: 2.4 Consensus size: 57
4969752 TATTATATGG
* *
4969762 TGCTACTGGTTTTACATTTACTATTTTTTCATTAATTTTCATGGATTTCAACAAGCA
1 TGCTACTGCTTTTACATTTACTAGTTTTTCATTAATTTTCATGGATTTCAACAAGCA
*
4969819 TGCTACTGCTTTTACATTTACTGGTTTTTCATTAATTTTCATGGATTTCAACAAGCA
1 TGCTACTGCTTTTACATTTACTAGTTTTTCATTAATTTTCATGGATTTCAACAAGCA
4969876 TGCTACTGCTTTTACATTTA
1 TGCTACTGCTTTTACATTTA
4969896 TGGTTCTTTT
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 74 1.00
ACGTcount: A:0.25, C:0.17, G:0.11, T:0.47
Consensus pattern (57 bp):
TGCTACTGCTTTTACATTTACTAGTTTTTCATTAATTTTCATGGATTTCAACAAGCA
Found at i:4969979 original size:17 final size:17
Alignment explanation
Indices: 4969957--4969990 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
4969947 TGATTTACCG
4969957 TTGTTTTAAATTATGTA
1 TTGTTTTAAATTATGTA
4969974 TTGTTTTAAATTATGTA
1 TTGTTTTAAATTATGTA
4969991 GGTTTCGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.59
Consensus pattern (17 bp):
TTGTTTTAAATTATGTA
Found at i:4970086 original size:22 final size:21
Alignment explanation
Indices: 4970047--4970112 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 21
4970037 CCCTTACCAT
*
4970047 TAATTGGATTGGTATGAATGC
1 TAATTGGATTGGTCTGAATGC
*
4970068 TAATTGGACTTGGTCTGAATGT
1 TAATTGGA-TTGGTCTGAATGC
* *
4970090 TGATTGGAATTCGTCTGAATGC
1 TAATTGG-ATTGGTCTGAATGC
4970112 T
1 T
4970113 TATTAGAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
21 8 0.21
22 29 0.76
23 1 0.03
ACGTcount: A:0.24, C:0.09, G:0.27, T:0.39
Consensus pattern (21 bp):
TAATTGGATTGGTCTGAATGC
Found at i:4970125 original size:22 final size:22
Alignment explanation
Indices: 4970080--4970140 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
4970070 ATTGGACTTG
* *
4970080 GTCTGAATGTTGATTGGAATTC
1 GTCTGAATGTTGATTAGAAATC
4970102 GTCTGAATGCTT-ATTAGAAATC
1 GTCTGAATG-TTGATTAGAAATC
*
4970124 GTTTGAATGTTGATTAG
1 GTCTGAATGTTGATTAG
4970141 TTTTGGTCTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.26, C:0.08, G:0.25, T:0.41
Consensus pattern (22 bp):
GTCTGAATGTTGATTAGAAATC
Found at i:4970753 original size:19 final size:19
Alignment explanation
Indices: 4970729--4970765 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
4970719 AATAAATATA
*
4970729 TAAAGTCAATTTAGTAATT
1 TAAAGTAAATTTAGTAATT
4970748 TAAAGTAAATTTAGTAAT
1 TAAAGTAAATTTAGTAAT
4970766 ATAATGATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.03, G:0.11, T:0.41
Consensus pattern (19 bp):
TAAAGTAAATTTAGTAATT
Found at i:4970987 original size:16 final size:16
Alignment explanation
Indices: 4970966--4971011 Score: 74
Period size: 16 Copynumber: 2.9 Consensus size: 16
4970956 CAGTTACAGA
*
4970966 TCAGGTTGGTAACATG
1 TCAGGTTGATAACATG
4970982 TCAGGTTGATAACATG
1 TCAGGTTGATAACATG
*
4970998 TGAGGTTGATAACA
1 TCAGGTTGATAACA
4971012 AATCATGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.30, C:0.11, G:0.28, T:0.30
Consensus pattern (16 bp):
TCAGGTTGATAACATG
Found at i:4975120 original size:9 final size:9
Alignment explanation
Indices: 4975106--4975150 Score: 54
Period size: 10 Copynumber: 4.8 Consensus size: 9
4975096 AGCTGCTGGA
4975106 AACCGGTTT
1 AACCGGTTT
4975115 AACCGGTTT
1 AACCGGTTT
*
4975124 CAACCGGTTCG
1 -AACCGGTT-T
4975135 AACCGGTTT
1 AACCGGTTT
*
4975144 GACCGGT
1 AACCGGT
4975151 CTGACCCGAC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
9 15 0.48
10 16 0.52
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (9 bp):
AACCGGTTT
Found at i:4975130 original size:10 final size:10
Alignment explanation
Indices: 4975106--4975143 Score: 53
Period size: 9 Copynumber: 3.9 Consensus size: 10
4975096 AGCTGCTGGA
4975106 AACCGGTTT-
1 AACCGGTTTC
4975115 AACCGGTTTC
1 AACCGGTTTC
4975125 AACCGG-TTC
1 AACCGGTTTC
4975134 GAACCGGTTT
1 -AACCGGTTT
4975144 GACCGGTCTG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 12 0.46
10 12 0.46
11 2 0.08
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (10 bp):
AACCGGTTTC
Found at i:4975174 original size:17 final size:17
Alignment explanation
Indices: 4975152--4975196 Score: 55
Period size: 12 Copynumber: 2.9 Consensus size: 17
4975142 TTGACCGGTC
4975152 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
4975169 T-----GACCCGACCGT
1 TGACCCGACCCGACCGT
4975181 TGACCCGACCCGACCG
1 TGACCCGACCCGACCG
4975197 AACCGTTGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 10
0.70 0.00 0.30
Matches are distributed among these distances:
12 12 0.52
17 11 0.48
ACGTcount: A:0.18, C:0.47, G:0.24, T:0.11
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:4975175 original size:12 final size:12
Alignment explanation
Indices: 4975158--4975190 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
4975148 GGTCTGACCC
4975158 GACCCGACCGTT
1 GACCCGACCGTT
4975170 GACCCGACCGTT
1 GACCCGACCGTT
4975182 GACCCGACC
1 GACCCGACC
4975191 CGACCGAACC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.18, C:0.45, G:0.24, T:0.12
Consensus pattern (12 bp):
GACCCGACCGTT
Found at i:4975210 original size:7 final size:7
Alignment explanation
Indices: 4975198--4975227 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
4975188 ACCCGACCGA
4975198 ACCGTTG
1 ACCGTTG
4975205 ACCGTTG
1 ACCGTTG
4975212 ACCGTTG
1 ACCGTTG
4975219 ACCGTTG
1 ACCGTTG
4975226 AC
1 AC
4975228 TTTCTTTGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.17, C:0.30, G:0.27, T:0.27
Consensus pattern (7 bp):
ACCGTTG
Found at i:4982396 original size:9 final size:9
Alignment explanation
Indices: 4982382--4982449 Score: 64
Period size: 10 Copynumber: 6.9 Consensus size: 9
4982372 GGCTGCTGGA
4982382 AACCGGTTT
1 AACCGGTTT
4982391 AACCGGTTTT
1 AACCGG-TTT
4982401 CAACCGGTTTT
1 -AACCGG-TTT
4982412 CAACCGGTTCT
1 -AACCGGTT-T
*
4982423 GACCGGTTT
1 AACCGGTTT
*
4982432 GACCGGTTTT
1 AACCGG-TTT
4982442 AACCGGTT
1 AACCGGTT
4982450 CGAACTGGTT
Statistics
Matches: 53, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
9 15 0.28
10 20 0.38
11 18 0.34
ACGTcount: A:0.18, C:0.25, G:0.24, T:0.34
Consensus pattern (9 bp):
AACCGGTTT
Found at i:4982407 original size:11 final size:10
Alignment explanation
Indices: 4982382--4982449 Score: 77
Period size: 11 Copynumber: 6.8 Consensus size: 10
4982372 GGCTGCTGGA
4982382 AACCGG-TTT
1 AACCGGTTTT
4982391 AACCGGTTTT
1 AACCGGTTTT
4982401 CAACCGGTTTT
1 -AACCGGTTTT
*
4982412 CAACCGGTTCT
1 -AACCGGTTTT
*
4982423 GACCGG-TTT
1 AACCGGTTTT
*
4982432 GACCGGTTTT
1 AACCGGTTTT
4982442 AACCGGTT
1 AACCGGTT
4982450 CGAACTGGTT
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
9 14 0.27
10 18 0.35
11 20 0.38
ACGTcount: A:0.18, C:0.25, G:0.24, T:0.34
Consensus pattern (10 bp):
AACCGGTTTT
Found at i:4982438 original size:19 final size:19
Alignment explanation
Indices: 4982414--4982482 Score: 70
Period size: 19 Copynumber: 3.7 Consensus size: 19
4982404 CCGGTTTTCA
4982414 ACCGGTTCTGACCGGTTTG
1 ACCGGTTCTGACCGGTTTG
* * *
4982433 ACCGGTTTTAACCGGTTCG
1 ACCGGTTCTGACCGGTTTG
* *
4982452 AACTGGTT-TGACCGGTCTG
1 -ACCGGTTCTGACCGGTTTG
4982471 ACCGG-TCTGACC
1 ACCGGTTCTGACC
4982483 CGACCCGACC
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
17 1 0.03
18 9 0.22
19 24 0.60
20 6 0.15
ACGTcount: A:0.14, C:0.28, G:0.29, T:0.29
Consensus pattern (19 bp):
ACCGGTTCTGACCGGTTTG
Found at i:4982450 original size:29 final size:30
Alignment explanation
Indices: 4982403--4982467 Score: 98
Period size: 29 Copynumber: 2.2 Consensus size: 30
4982393 CCGGTTTTCA
4982403 ACCGGTTTTCAACCGGTTCTG-ACCGGTTTG
1 ACCGGTTTTCAACCGGTTC-GAACCGGTTTG
*
4982433 ACCGGTTTT-AACCGGTTCGAACTGGTTTG
1 ACCGGTTTTCAACCGGTTCGAACCGGTTTG
4982462 ACCGGT
1 ACCGGT
4982468 CTGACCGGTC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
28 1 0.03
29 23 0.70
30 9 0.27
ACGTcount: A:0.15, C:0.25, G:0.28, T:0.32
Consensus pattern (30 bp):
ACCGGTTTTCAACCGGTTCGAACCGGTTTG
Found at i:4982474 original size:9 final size:9
Alignment explanation
Indices: 4982414--4982482 Score: 50
Period size: 9 Copynumber: 7.3 Consensus size: 9
4982404 CCGGTTTTCA
4982414 ACCGGTTCTG
1 ACCGG-TCTG
*
4982424 ACCGGTTTG
1 ACCGGTCTG
* *
4982433 ACCGGTTTTA
1 ACCGG-TCTG
4982443 ACCGGT-TCG
1 ACCGGTCT-G
* *
4982452 AACTGGTTTG
1 -ACCGGTCTG
4982462 ACCGGTCTG
1 ACCGGTCTG
4982471 ACCGGTCTG
1 ACCGGTCTG
4982480 ACC
1 ACC
4982483 CGACCCGACC
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
8 1 0.02
9 28 0.57
10 19 0.39
11 1 0.02
ACGTcount: A:0.14, C:0.28, G:0.29, T:0.29
Consensus pattern (9 bp):
ACCGGTCTG
Found at i:4982505 original size:22 final size:22
Alignment explanation
Indices: 4982479--4982543 Score: 105
Period size: 22 Copynumber: 3.0 Consensus size: 22
4982469 TGACCGGTCT
4982479 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
*
4982501 GACCCGACCTGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
4982523 GACCCGA-CCGAACCGTTGACC
1 GACCCGACCCG-ACCGTTGACC
4982544 GTTGACCGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
21 2 0.05
22 38 0.95
ACGTcount: A:0.20, C:0.46, G:0.23, T:0.11
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:4982546 original size:7 final size:7
Alignment explanation
Indices: 4982534--4982563 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
4982524 ACCCGACCGA
4982534 ACCGTTG
1 ACCGTTG
4982541 ACCGTTG
1 ACCGTTG
4982548 ACCGTTG
1 ACCGTTG
4982555 ACCGTTG
1 ACCGTTG
4982562 AC
1 AC
4982564 TTTCTTTGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.17, C:0.30, G:0.27, T:0.27
Consensus pattern (7 bp):
ACCGTTG
Found at i:4988134 original size:18 final size:20
Alignment explanation
Indices: 4988113--4988164 Score: 67
Period size: 18 Copynumber: 2.8 Consensus size: 20
4988103 ATTTGGTTTA
4988113 TTTTATA-ATATA-ATATAG
1 TTTTATATATATATATATAG
4988131 TTTTATATATATATATATA-
1 TTTTATATATATATATATAG
*
4988150 -TATATATATATATAT
1 TTTTATATATATATAT
4988165 GTAGGATATG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 21 0.68
19 5 0.16
20 5 0.16
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
TTTTATATATATATATATAG
Found at i:4988141 original size:2 final size:2
Alignment explanation
Indices: 4988134--4988234 Score: 64
Period size: 2 Copynumber: 50.0 Consensus size: 2
4988124 AATATAGTTT
* * * *
4988134 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA GGA TA TGG TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA T-A TA
* * * *
4988178 TA AA AA TA TA -A TG TA GTA GTA AA TA -A 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
*
4988220 TA TA -A AA TA TA TA TA
1 TA TA TA TA TA TA TA TA
4988235 ATAATCTAGT
Statistics
Matches: 79, Mismatches: 14, Indels: 12
0.75 0.13 0.11
Matches are distributed among these distances:
1 3 0.04
2 69 0.87
3 7 0.09
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.43
Consensus pattern (2 bp):
TA
Found at i:4991562 original size:17 final size:19
Alignment explanation
Indices: 4991537--4991573 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
4991527 TCACCACCTG
4991537 ATTTGAATTT-TTTA-TTA
1 ATTTGAATTTATTTAGTTA
*
4991554 ATTTTAATTTATTTAGTTA
1 ATTTGAATTTATTTAGTTA
4991573 A
1 A
4991574 ATAAATTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 9 0.53
18 4 0.24
19 4 0.24
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (19 bp):
ATTTGAATTTATTTAGTTA
Found at i:4992094 original size:39 final size:39
Alignment explanation
Indices: 4992040--4992118 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
4992030 GCATTAAACC
4992040 AATTAAAATGAACGTAATAAACACACCAGAAAAATTCTA
1 AATTAAAATGAACGTAATAAACACACCAGAAAAATTCTA
*
4992079 AATTAAAATGAACGTAATAAACACACCAGAAAATTTCTA
1 AATTAAAATGAACGTAATAAACACACCAGAAAAATTCTA
4992118 A
1 A
4992119 TAGAAAGCAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.56, C:0.15, G:0.08, T:0.22
Consensus pattern (39 bp):
AATTAAAATGAACGTAATAAACACACCAGAAAAATTCTA
Found at i:4992229 original size:28 final size:28
Alignment explanation
Indices: 4992197--4992250 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
4992187 GACTTCTTCC
*
4992197 ATAAATTTAATTTTAAAATATAAAAATT
1 ATAAATTTAATTTAAAAATATAAAAATT
4992225 ATAAATTTAATTTAAAAATATAAAAA
1 ATAAATTTAATTTAAAAATATAAAAA
4992251 CAATAAACTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (28 bp):
ATAAATTTAATTTAAAAATATAAAAATT
Found at i:4992256 original size:28 final size:28
Alignment explanation
Indices: 4992197--4992257 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
4992187 GACTTCTTCC
* **
4992197 ATAAATTTAATTTTAAAATATAAAAATT
1 ATAAATTTAATTTAAAAATATAAAAACA
4992225 ATAAATTTAATTTAAAAATATAAAAACA
1 ATAAATTTAATTTAAAAATATAAAAACA
4992253 ATAAA
1 ATAAA
4992258 CTTATCTTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (28 bp):
ATAAATTTAATTTAAAAATATAAAAACA
Found at i:4993768 original size:22 final size:22
Alignment explanation
Indices: 4993738--4993781 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
4993728 TTGGGGTTTT
4993738 TTATGATTTGATT-TTTTAAAAAA
1 TTATGATTT--TTATTTTAAAAAA
4993761 TTAT-ATTTTTATTTTAAAAAA
1 TTATGATTTTTATTTTAAAAAA
4993782 AAATTCTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 2 0.10
21 10 0.50
22 4 0.20
23 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (22 bp):
TTATGATTTTTATTTTAAAAAA
Found at i:4999904 original size:20 final size:20
Alignment explanation
Indices: 4999879--4999917 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4999869 AATGAACCGG
**
4999879 CTGAAAACTGGTAAAATCGA
1 CTGAAAACCAGTAAAATCGA
4999899 CTGAAAACCAGTAAAATCG
1 CTGAAAACCAGTAAAATCG
4999918 GGGTGAACCG
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:0.46, C:0.18, G:0.18, T:0.18
Consensus pattern (20 bp):
CTGAAAACCAGTAAAATCGA
Found at i:4999955 original size:30 final size:30
Alignment explanation
Indices: 4999896--4999957 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
4999886 CTGGTAAAAT
* *
4999896 CGACTGAAAACCAGTAAAATCGGGGTGAAC
1 CGACTGAAAACCAGCAAAACCGGGGTGAAC
**
4999926 CGACTGAAAACCAGCAAAACCGGTTTGAAC
1 CGACTGAAAACCAGCAAAACCGGGGTGAAC
4999956 CG
1 CG
4999958 CCGGTTCACT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.39, C:0.24, G:0.24, T:0.13
Consensus pattern (30 bp):
CGACTGAAAACCAGCAAAACCGGGGTGAAC
Found at i:5001602 original size:17 final size:19
Alignment explanation
Indices: 5001563--5001605 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
5001553 ATGTAAAAAT
5001563 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
5001583 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
5001600 ATGATA
1 ATGATA
5001606 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:5001615 original size:178 final size:182
Alignment explanation
Indices: 5001164--5001633 Score: 644
Period size: 182 Copynumber: 2.6 Consensus size: 182
5001154 GATCCAAATT
* * * * * **
5001164 AAAAATGTATCGATCCACAACGATATAACAGGTAAAACTATGACAAAACTAGTATTGAAATGATA
1 AAAAATATATCGATCAACAACGATATAACAGGTAAAAATATGATAAAACTGGTATCAAAATGATA
* * * ** * *
5001229 AAACCGATAAAGCGGTACCAAATATATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTC
66 AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
* *
5001294 ATTAATTTAAAAGAGATGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTCA
131 ATGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTCA
*
5001346 AAAAATATATCGATCAACAACGATATAACAGGTAAAAATATGATAAAACTGGTATCAAAATGATG
1 AAAAATATATCGATCAACAACGATATAACAGGTAAAAATATGATAAAACTGGTATCAAAATGATA
* * * * * *
5001411 AAACCGGTAAAACGCTATCGGATATATTGAAATTGTCGAAACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
* *
5001475 GTGAATTTAAAAGAGAAGTAGTTTTAGCGCCTATAAAGTGTCGATAC-TT-A
131 ATGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTCA
* *
5001525 AAAAA-A-ATCGATCAAACAACGATATAACATGTAAAAATATGATAAAACCGGTATCAAAATGAT
1 AAAAATATATCGATC-AACAACGATATAACAGGTAAAAATATGATAAAACTGGTATCAAAATGAT
*
5001588 AAAACCGGTAAAATGATACCGGATATATTAAAAGTGTCGATACTTT
65 AAAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTT
5001634 CGTAAGTACG
Statistics
Matches: 255, Mismatches: 32, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
177 7 0.03
178 87 0.34
179 6 0.02
180 2 0.01
181 61 0.24
182 92 0.36
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.27
Consensus pattern (182 bp):
AAAAATATATCGATCAACAACGATATAACAGGTAAAAATATGATAAAACTGGTATCAAAATGATA
AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
ATGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTCA
Found at i:5002821 original size:19 final size:20
Alignment explanation
Indices: 5002797--5002845 Score: 84
Period size: 19 Copynumber: 2.5 Consensus size: 20
5002787 AATGTAGGGT
5002797 TAATTTTGTATTA-GATTTA
1 TAATTTTGTATTACGATTTA
5002816 TAATTTTGTA-TACGATTTA
1 TAATTTTGTATTACGATTTA
5002835 TAATTTTGTAT
1 TAATTTTGTAT
5002846 GTGAATGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 2 0.07
19 26 0.93
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (20 bp):
TAATTTTGTATTACGATTTA
Found at i:5003423 original size:200 final size:200
Alignment explanation
Indices: 5003080--5003667 Score: 1079
Period size: 200 Copynumber: 2.9 Consensus size: 200
5003070 AATTTACAAT
*
5003080 ATGGCAAACAGGGTGTAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
5003145 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATA-TCGGATT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACT-GGATT
*
5003209 TATGAGAGAATAGGTGTAATATATGTATCGTCACTTTTTAATTTTGTGTCGATACTATTGGTCCA
130 TATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCA
5003274 GAATGA
195 GAATGA
*
5003280 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAATAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
5003345 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACTGGATTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACTGGATTT
5003410 ATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
131 ATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
5003475 AATGA
196 AATGA
*
5003480 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTATCGATCCCAGAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
* *
5003545 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGAATTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACTGGATTT
* * *
5003610 ATGAGAGAATATGTGTAATATATGTATCGAGACTTTTTAATTTTGTGTTGATACTATT
131 ATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATT
5003668 TTTAAATATC
Statistics
Matches: 377, Mismatches: 10, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
200 376 1.00
201 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (200 bp):
ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACTGGATTT
ATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
AATGA
Found at i:5005965 original size:23 final size:23
Alignment explanation
Indices: 5005939--5005983 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
5005929 CACCACAGCT
*
5005939 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
5005962 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
5005984 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:5006221 original size:149 final size:149
Alignment explanation
Indices: 5005962--5006263 Score: 559
Period size: 149 Copynumber: 2.0 Consensus size: 149
5005952 CGAAGTGCCC
* *
5005962 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACGTAGAATTCTTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
5006027 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
5006092 CATATGTCCCGAAGAACCG
131 CATATGTCCCGAAGAACCG
*
5006111 CGTAGAATTGCACTGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
*
5006176 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCTAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
*
5006241 CATATGTCTCGAAGAACCG
131 CATATGTCCCGAAGAACCG
5006260 CGTA
1 CGTA
5006264 TGTAACACCC
Statistics
Matches: 148, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
149 148 1.00
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
CATATGTCCCGAAGAACCG
Done.