Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008010.1 Hibiscus syriacus cultivar Beakdansim tig00110472_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: 3152856
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 14
Found at i:2240994 original size:11 final size:11
Alignment explanation
Indices: 2240980--2241126 Score: 60
Period size: 11 Copynumber: 13.3 Consensus size: 11
2240970 ATTAAAGGAA
2240980 AAAATAATAAT
1 AAAATAATAAT
*
2240991 AAAAAAATAAGT
1 AAAATAATAA-T
** *
2241003 CAAAGGAAAAAT
1 -AAAATAATAAT
2241015 AAAAT-A-AAT
1 AAAATAATAAT
2241024 AAAA-ATATAA-
1 AAAATA-ATAAT
2241034 AAAA-AAT-AT
1 AAAATAATAAT
*
2241043 AAAATAAAAATAT
1 AAAAT-AATA-AT
2241056 AATAATAATAAT
1 AA-AATAATAAT
2241068 AAAATAA-AAT
1 AAAATAATAAT
*
2241078 AAATAGAGATAAAT
1 AAA-ATA-AT-AAT
* *
2241092 AAAAT-TTAGT
1 AAAATAATAAT
*
2241102 AAAAAAATAAT
1 AAAATAATAAT
2241113 AAAAATAA-AAT
1 -AAAATAATAAT
2241124 AAA
1 AAA
2241127 CAAAAAAAAG
Statistics
Matches: 103, Mismatches: 16, Indels: 35
0.67 0.10 0.23
Matches are distributed among these distances:
8 1 0.01
9 13 0.13
10 22 0.21
11 30 0.29
12 13 0.13
13 15 0.15
14 9 0.09
ACGTcount: A:0.73, C:0.01, G:0.04, T:0.22
Consensus pattern (11 bp):
AAAATAATAAT
Found at i:2241025 original size:33 final size:31
Alignment explanation
Indices: 2240973--2241033 Score: 86
Period size: 33 Copynumber: 1.9 Consensus size: 31
2240963 AATAAAAATT
*
2240973 AAAGGAAAAAATAATAATAAAAAAATAAGTC
1 AAAGGAAAAAAAAATAATAAAAAAATAAGTC
*
2241004 AAAGGAAAAATAAAATAAATAAAAATATAA
1 AAAGGAAAAA-AAAAT-AATAAAAAAATAA
2241034 AAAAAATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 10 0.38
32 4 0.15
33 12 0.46
ACGTcount: A:0.74, C:0.02, G:0.08, T:0.16
Consensus pattern (31 bp):
AAAGGAAAAAAAAATAATAAAAAAATAAGTC
Found at i:2241036 original size:24 final size:24
Alignment explanation
Indices: 2241009--2241076 Score: 95
Period size: 24 Copynumber: 2.8 Consensus size: 24
2240999 AAGTCAAAGG
2241009 AAAAATAAAAT-AAATAAAAATAT
1 AAAAATAAAATAAAATAAAAATAT
2241032 AAAAA-AAATATAAAATAAAAATAT
1 AAAAATAAA-ATAAAATAAAAATAT
*
2241056 AATAATAATAATAAAATAAAA
1 AAAAATAA-AATAAAATAAAA
2241077 TAAATAGAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
22 3 0.08
23 7 0.17
24 16 0.40
25 13 0.32
26 1 0.03
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (24 bp):
AAAAATAAAATAAAATAAAAATAT
Found at i:2241133 original size:11 final size:10
Alignment explanation
Indices: 2240876--2241154 Score: 64
Period size: 10 Copynumber: 26.4 Consensus size: 10
2240866 AATCAAAGAA
2240876 AAAAAACAAAT
1 AAAAAA-AAAT
*
2240887 AAAAACAAAT
1 AAAAAAAAAT
*
2240897 -AAAAATAAT
1 AAAAAAAAAT
** *
2240906 -AAATCAAAG
1 AAAAAAAAAT
* *
2240915 GAAAAAAAAG
1 AAAAAAAAAT
*
2240925 AGAAAAAAAT
1 AAAAAAAAAT
*
2240935 AAAAATAAA-
1 AAAAAAAAAT
*** *
2240944 AAAGTCAAAG
1 AAAAAAAAAT
2240954 AAAAAACTAAAT
1 AAAAAA--AAAT
**
2240966 AAAAATTAAAGG
1 AAAAA--AAAAT
*
2240978 AAAAAATAAT
1 AAAAAAAAAT
2240988 AATAAAAAAAT
1 AA-AAAAAAAT
*** **
2240999 AAGTCAAAGG
1 AAAAAAAAAT
2241009 AAAAATAAAAT
1 AAAAA-AAAAT
2241020 AAATAAAAATAT
1 AAA-AAAAA-AT
2241032 AAAAAAAATAT
1 AAAAAAAA-AT
2241043 AAAATAAAAAT
1 AAAA-AAAAAT
2241054 ATAATAATAATAAT
1 A-AA-AA-AA-AAT
*
2241068 AAAATAAAAT
1 AAAAAAAAAT
* * *
2241078 AAATAGAGAT
1 AAAAAAAAAT
**
2241088 AAATAAAATTT
1 AAA-AAAAAAT
*
2241099 AGTAAAAAAAT
1 A-AAAAAAAAT
*
2241110 -AATAAAAAT
1 AAAAAAAAAT
*
2241119 AAAATAAACA-
1 AAAA-AAAAAT
*
2241129 AAAAAAAGAT
1 AAAAAAAAAT
2241139 AAAAAACGAAAT
1 AAAAAA--AAAT
2241151 AAAA
1 AAAA
2241155 TTTAAAAATT
Statistics
Matches: 191, Mismatches: 55, Indels: 43
0.66 0.19 0.15
Matches are distributed among these distances:
9 29 0.15
10 61 0.32
11 53 0.28
12 38 0.20
13 5 0.03
14 5 0.03
ACGTcount: A:0.75, C:0.03, G:0.06, T:0.16
Consensus pattern (10 bp):
AAAAAAAAAT
Found at i:2242394 original size:24 final size:24
Alignment explanation
Indices: 2242367--2242418 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
2242357 TAATAATATT
2242367 ATATAAAATATATATTTCCAAAAA
1 ATATAAAATATATATTTCCAAAAA
* * *
2242391 ATATATAATATATTTTTTCAAAAA
1 ATATAAAATATATATTTCCAAAAA
2242415 ATAT
1 ATAT
2242419 TTTAAAACTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (24 bp):
ATATAAAATATATATTTCCAAAAA
Found at i:2242432 original size:37 final size:37
Alignment explanation
Indices: 2242378--2242709 Score: 262
Period size: 36 Copynumber: 9.0 Consensus size: 37
2242368 TATAAAATAT
* *
2242378 ATATTTCCAAAA-AATATATAATATATTTTTTCAAAAA
1 ATATTTTCAAAACTATATATAATATATTTTTTC-AAAA
* *
2242415 ATATTTT-AAAACTATATAT--TATA-TATTTAAAAA
1 ATATTTTCAAAACTATATATAATATATTTTTTCAAAA
* * *
2242448 ATGTTTTCAAAACTATATATTATATA-GTTTTCAAAA
1 ATATTTTCAAAACTATATATAATATATTTTTTCAAAA
* *
2242484 ATATTTTCAAAACTATATATTATATATATTTTCAAAA
1 ATATTTTCAAAACTATATATAATATATTTTTTCAAAA
* * **
2242521 ATGTTTTCAAAACTATATATTATATAAGTTTTC-AAA
1 ATATTTTCAAAACTATATATAATATATTTTTTCAAAA
* * *
2242557 ATGA-TTTCAAAATTATATATTATATAAGTTTTTC-AAA
1 AT-ATTTTCAAAACTATATATAATAT-ATTTTTTCAAAA
2242594 ATGA-TTTCAAAACTATATATATTATATAAGTTTTTT--AAA
1 AT-ATTTTCAAAACTATATATA--ATAT-A-TTTTTTCAAAA
* *
2242633 ATGTTTTCAAAAACTATATATTATATATATATTTT--AAA
1 ATATTTTC-AAAACTATATA-TA-ATATATTTTTTCAAAA
* *
2242671 ATGTTTTCAAAA-TATATATATTATATATATTTTCAAAA
1 ATATTTTCAAAACTATATATA--ATATATTTTTTCAAAA
2242709 A
1 A
2242710 GTGTTTTTTT
Statistics
Matches: 257, Mismatches: 22, Indels: 31
0.83 0.07 0.10
Matches are distributed among these distances:
33 10 0.04
34 16 0.06
35 6 0.02
36 83 0.32
37 83 0.32
38 20 0.08
39 16 0.06
40 21 0.08
41 2 0.01
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (37 bp):
ATATTTTCAAAACTATATATAATATATTTTTTCAAAA
Found at i:2242484 original size:36 final size:36
Alignment explanation
Indices: 2242387--2242716 Score: 341
Period size: 37 Copynumber: 9.0 Consensus size: 36
2242377 TATATTTCCA
* * * *
2242387 AAAAATATATAATATAT-TTTTTCAAAAAATATTTT-
1 AAAACTATATATTATATAGTTTTC-AAAAATGTTTTC
*
2242422 AAAACTATATATTATATA--TTTAAAAAATGTTTTC
1 AAAACTATATATTATATAGTTTTCAAAAATGTTTTC
*
2242456 AAAACTATATATTATATAGTTTTCAAAAATATTTTC
1 AAAACTATATATTATATAGTTTTCAAAAATGTTTTC
*
2242492 AAAACTATATATTATATATATTTTCAAAAATGTTTTC
1 AAAACTATATATTATATA-GTTTTCAAAAATGTTTTC
*
2242529 AAAACTATATATTATATAAGTTTTC-AAAATGATTTC
1 AAAACTATATATTATAT-AGTTTTCAAAAATGTTTTC
* *
2242565 AAAATTATATATTATATAAGTTTTTC-AAAATGATTTC
1 AAAACTATATATTATAT-AG-TTTTCAAAAATGTTTTC
**
2242602 AAAACTATATATATTATATAAGTTTTTTAAAATGTTTTC
1 AAAAC--TATATATTATAT-AGTTTTCAAAAATGTTTTC
**
2242641 AAAAACTATATATTATATA-TATATTTTAAAATGTTTTC
1 -AAAACTATATATTATATAGT-T-TTCAAAAATGTTTTC
* *
2242679 AAAATATATATATTATATATATTTTCAAAAAGTGTTTT
1 AAAA-CTATATATTATATA-GTTTTCAAAAA-TGTTTT
2242717 TTTAATAAAA
Statistics
Matches: 261, Mismatches: 17, Indels: 30
0.85 0.06 0.10
Matches are distributed among these distances:
33 10 0.04
34 21 0.08
35 15 0.06
36 62 0.24
37 64 0.25
38 51 0.20
39 32 0.12
40 6 0.02
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.46
Consensus pattern (36 bp):
AAAACTATATATTATATAGTTTTCAAAAATGTTTTC
Found at i:2242492 original size:12 final size:12
Alignment explanation
Indices: 2242475--2242532 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
2242465 TATTATATAG
2242475 TTTTCAAAAATA
1 TTTTCAAAAATA
2242487 TTTTCAAAACTATA
1 TTTTCAAAA--ATA
* * *
2242501 TATT-ATATATA
1 TTTTCAAAAATA
*
2242512 TTTTCAAAAATG
1 TTTTCAAAAATA
2242524 TTTTCAAAA
1 TTTTCAAAA
2242533 CTATATATTA
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
11 6 0.17
12 22 0.61
13 2 0.06
14 6 0.17
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.45
Consensus pattern (12 bp):
TTTTCAAAAATA
Found at i:2242709 original size:27 final size:27
Alignment explanation
Indices: 2242655--2242708 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
2242645 ACTATATATT
* *
2242655 ATATATATATTTTAAAATGTTTTCAAA
1 ATATATATATTATAAAATATTTTCAAA
*
2242682 ATATATATATTAT-ATATATTTTCAAA
1 ATATATATATTATAAAATATTTTCAAA
2242708 A
1 A
2242709 AGTGTTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 12 0.50
27 12 0.50
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (27 bp):
ATATATATATTATAAAATATTTTCAAA
Found at i:2246163 original size:19 final size:19
Alignment explanation
Indices: 2246139--2246177 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
2246129 GGCTGCTGGA
2246139 AACCGGTTTAACCGGTCTG
1 AACCGGTTTAACCGGTCTG
*
2246158 AACCGGTTTGACCGGTCTG
1 AACCGGTTTAACCGGTCTG
2246177 A
1 A
2246178 CCCGACCCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.26, G:0.28, T:0.26
Consensus pattern (19 bp):
AACCGGTTTAACCGGTCTG
Found at i:2246186 original size:5 final size:5
Alignment explanation
Indices: 2246176--2246233 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
2246166 TGACCGGTCT
* *
2246176 GACCC GACCC GACCGTT GACCC GACCC GACCC GACCGTT GACCC GACCC
1 GACCC GACCC GACC--C GACCC GACCC GACCC GACC--C GACCC GACCC
2246225 GACCC GACC
1 GACCC GACC
2246234 GTTGACCGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 37 0.82
7 8 0.18
ACGTcount: A:0.19, C:0.52, G:0.22, T:0.07
Consensus pattern (5 bp):
GACCC
Found at i:2246202 original size:22 final size:22
Alignment explanation
Indices: 2246176--2246240 Score: 130
Period size: 22 Copynumber: 3.0 Consensus size: 22
2246166 TGACCGGTCT
2246176 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
2246198 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
2246220 GACCCGACCCGACCGTTGACC
1 GACCCGACCCGACCGTTGACC
2246241 GTTGACCGTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.18, C:0.49, G:0.23, T:0.09
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:2246242 original size:7 final size:7
Alignment explanation
Indices: 2246230--2246260 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
2246220 GACCCGACCC
2246230 GACCGTT
1 GACCGTT
2246237 GACCGTT
1 GACCGTT
2246244 GACCGTT
1 GACCGTT
2246251 GACCGTT
1 GACCGTT
2246258 GAC
1 GAC
2246261 TTTCTTTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:2248152 original size:21 final size:21
Alignment explanation
Indices: 2248126--2248170 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2248116 GATTTTTGGG
* *
2248126 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
2248147 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
2248168 CAA
1 CAA
2248171 ACGAACAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:2249037 original size:2 final size:2
Alignment explanation
Indices: 2249030--2249067 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
2249020 AATCTTGAGA
2249030 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2249068 GGATATGAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2249878 original size:149 final size:149
Alignment explanation
Indices: 2249700--2250014 Score: 544
Period size: 149 Copynumber: 2.1 Consensus size: 149
2249690 GAGTCGAGGG
* *
2249700 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACA-
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
*
2249764 AATATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTATT
66 AAT-TGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
2249829 ATATGGCACTACGGTGCAAT
130 ATATGGCACTACGGTGCAAT
* *
2249849 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAGAGACACAT
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
*
2249914 ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 AATTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
2249979 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
2249998 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
2250015 TGCAATTATA
Statistics
Matches: 158, Mismatches: 6, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
148 1 0.01
149 155 0.98
150 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.34
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
AATTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:2250015 original size:23 final size:23
Alignment explanation
Indices: 2249982--2250026 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
2249972 ATCATTATAT
*
2249982 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
2250005 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
2250027 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:2253213 original size:21 final size:21
Alignment explanation
Indices: 2253187--2253230 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
2253177 GATTTCTGGG
*
2253187 CAAGGGGAATCGATACCCATT
1 CAAGGGGAACCGATACCCATT
*
2253208 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
2253229 CA
1 CA
2253231 GACGAACAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.32, C:0.30, G:0.23, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:2254096 original size:2 final size:2
Alignment explanation
Indices: 2254089--2254117 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2254079 AATCTTGAGA
2254089 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2254118 GATGGATATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2255025 original size:149 final size:149
Alignment explanation
Indices: 2254755--2255069 Score: 535
Period size: 149 Copynumber: 2.1 Consensus size: 149
2254745 GAGTCGAGGG
* *
2254755 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAA
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAA
*
2254820 ATATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATATGGTCCTTATGGACATTATTA
66 ATATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATATGGTCCTTATGGACATCATTA
2254885 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
* *
2254904 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAGAGACACAT
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACA-
* *
2254969 ACT-TGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
65 AATATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATATGGTCCTTATGGACATCATT
2255033 ATATGGCACTACGGTGCAAT
130 ATATGGCACTACGGTGCAAT
2255053 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
2255070 TGTAATTATA
Statistics
Matches: 157, Mismatches: 7, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
148 1 0.01
149 154 0.98
150 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAA
ATATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATATGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:2255070 original size:23 final size:23
Alignment explanation
Indices: 2255037--2255081 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2255027 ATCATTATAT
*
2255037 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
2255060 GGCACTTCGGTGTAATTATACG
1 GGCACTACGGTGCAATTATACG
2255082 AGCTGTGGTG
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:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:2261832 original size:20 final size:21
Alignment explanation
Indices: 2261807--2261845 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2261797 GGCTGCTGGA
2261807 AACCGGTT-TAACCGGTTTTC
1 AACCGGTTCTAACCGGTTTTC
*
2261827 AACCGGTTCTGACCGGTTT
1 AACCGGTTCTAACCGGTTT
2261846 GACCGGTCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.18, C:0.26, G:0.23, T:0.33
Consensus pattern (21 bp):
AACCGGTTCTAACCGGTTTTC
Found at i:2261852 original size:19 final size:18
Alignment explanation
Indices: 2261828--2261877 Score: 73
Period size: 19 Copynumber: 2.7 Consensus size: 18
2261818 CCGGTTTTCA
2261828 ACCGGTTCTGACCGGTTTG
1 ACCGG-TCTGACCGGTTTG
*
2261847 ACCGGTCTGAATCGGTTTG
1 ACCGGTCTG-ACCGGTTTG
2261866 ACCGGTCTGACC
1 ACCGGTCTGACC
2261878 CGACCCGACC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 6 0.21
19 22 0.79
ACGTcount: A:0.14, C:0.28, G:0.30, T:0.28
Consensus pattern (18 bp):
ACCGGTCTGACCGGTTTG
Found at i:2261876 original size:9 final size:9
Alignment explanation
Indices: 2261828--2261877 Score: 55
Period size: 9 Copynumber: 5.3 Consensus size: 9
2261818 CCGGTTTTCA
2261828 ACCGGTTCTG
1 ACCGG-TCTG
*
2261838 ACCGGTTTG
1 ACCGGTCTG
2261847 ACCGGTCTG
1 ACCGGTCTG
* *
2261856 AATCGGTTTG
1 -ACCGGTCTG
2261866 ACCGGTCTG
1 ACCGGTCTG
2261875 ACC
1 ACC
2261878 CGACCCGACC
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
9 21 0.64
10 12 0.36
ACGTcount: A:0.14, C:0.28, G:0.30, T:0.28
Consensus pattern (9 bp):
ACCGGTCTG
Found at i:2261896 original size:12 final size:12
Alignment explanation
Indices: 2261879--2261916 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
2261869 GGTCTGACCC
2261879 GACCCGACCGTT
1 GACCCGACCGTT
2261891 GACCCGACC--T
1 GACCCGACCGTT
*
2261901 GACCCAACCGTT
1 GACCCGACCGTT
2261913 GACC
1 GACC
2261917 GTTGACCGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
10 9 0.39
12 14 0.61
ACGTcount: A:0.21, C:0.45, G:0.21, T:0.13
Consensus pattern (12 bp):
GACCCGACCGTT
Found at i:2261904 original size:22 final size:22
Alignment explanation
Indices: 2261874--2261916 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
2261864 TGACCGGTCT
*
2261874 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCAACCGTTGACCC
*
2261896 GACCTGACCCAACCGTTGACC
1 GACCCGACCCAACCGTTGACC
2261917 GTTGACCGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.47, G:0.21, T:0.12
Consensus pattern (22 bp):
GACCCGACCCAACCGTTGACCC
Found at i:2263820 original size:78 final size:78
Alignment explanation
Indices: 2263722--2263878 Score: 305
Period size: 78 Copynumber: 2.0 Consensus size: 78
2263712 GAAACATGCG
*
2263722 ACGCAATAAAACCAGCAGCCCCAGTTATGAGGATGTTCTTAGGGGTATAGTTAGCCATTGTTGAA
1 ACGCAATAAAACCAGCAGCCCCAGTTATGAGGATGTTCTTAGGGGTATAGTTAGCCATAGTTGAA
2263787 CCAATTCTGCAAA
66 CCAATTCTGCAAA
2263800 ACGCAATAAAACCAGCAGCCCCAGTTATGAGGATGTTCTTAGGGGTATAGTTAGCCATAGTTGAA
1 ACGCAATAAAACCAGCAGCCCCAGTTATGAGGATGTTCTTAGGGGTATAGTTAGCCATAGTTGAA
2263865 CCAATTCTGCAAA
66 CCAATTCTGCAAA
2263878 A
1 A
2263879 GTATGCCTAA
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 78 1.00
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (78 bp):
ACGCAATAAAACCAGCAGCCCCAGTTATGAGGATGTTCTTAGGGGTATAGTTAGCCATAGTTGAA
CCAATTCTGCAAA
Found at i:2272003 original size:65 final size:64
Alignment explanation
Indices: 2271934--2272058 Score: 162
Period size: 64 Copynumber: 1.9 Consensus size: 64
2271924 ATGCACATAA
* * *
2271934 CATGCACCGATGCACTGAGGAT-TTTATGAAAACATCGAATGCATTTGATGCATCGATGCACCAG
1 CATGCACCGATGCACTCAGGATATTT-TG-AAACATCGAATGCACTTGATACATCGATGCACCAG
2271998 C
64 C
* * * *
2271999 CATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCACTTGATACATCGGTGCAC
1 CATGCACCGATGCACTCAGGATATTTTGAAACATCGAATGCACTTGATACATCGATGCAC
2272059 TCTTAGTGCA
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
64 29 0.56
65 20 0.38
66 3 0.06
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (64 bp):
CATGCACCGATGCACTCAGGATATTTTGAAACATCGAATGCACTTGATACATCGATGCACCAGC
Found at i:2272074 original size:64 final size:63
Alignment explanation
Indices: 2271936--2272084 Score: 151
Period size: 64 Copynumber: 2.3 Consensus size: 63
2271926 GCACATAACA
* * *
2271936 TGCACCGATGCACTGAGGATTTTATGAAAACATCGAATGCATTTGATGCATCGATGCACCAGCC
1 TGCACCGATGCACTCAGGATTTTATGAAAACATCGAATGCACTTGATACATCGATGCACCAG-C
* * * *
2272000 ATGCATCGATGCACTCTGGCTATTT-TG-AAACATCGAATGCACTTGATACATCGGTGCACTCTT
1 -TGCACCGATGCACTCAGGAT-TTTATGAAAACATCGAATGCACTTGATACATCGATGCAC-C--
2272063 AG-
61 AGC
*
2272065 TGCACCGATGCACTAAGGAT
1 TGCACCGATGCACTCAGGAT
2272085 CCAACGGTCA
Statistics
Matches: 69, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
64 45 0.65
65 19 0.28
66 3 0.04
67 2 0.03
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.27
Consensus pattern (63 bp):
TGCACCGATGCACTCAGGATTTTATGAAAACATCGAATGCACTTGATACATCGATGCACCAGC
Found at i:2273431 original size:19 final size:20
Alignment explanation
Indices: 2273407--2273454 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
2273397 ATCGATTTTC
* *
2273407 TTTTGAAAAC-AAAATTAGA
1 TTTTGAAAACAAAAATGAAA
*
2273426 TTTTGAAAGCAAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
2273446 TTTTGAAAA
1 TTTTGAAAA
2273455 AGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.52, C:0.04, G:0.12, T:0.31
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:2274728 original size:34 final size:30
Alignment explanation
Indices: 2274690--2274758 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 30
2274680 CGATATAACA
2274690 AATTTAAGGCAAAATGGTTTTTGGACTTGAATTG
1 AATTTAA--CAAAAT-GTTTTTGGACTT-AATTG
2274724 AATTT-ACAAAATGTTTTTGGACTTAATTG
1 AATTTAACAAAATGTTTTTGGACTTAATTG
2274753 AATTTA
1 AATTTA
2274759 TTCAAAGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
29 10 0.29
30 12 0.35
31 6 0.18
33 1 0.03
34 5 0.15
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.42
Consensus pattern (30 bp):
AATTTAACAAAATGTTTTTGGACTTAATTG
Found at i:2274769 original size:29 final size:30
Alignment explanation
Indices: 2274699--2274758 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
2274689 AAATTTAAGG
2274699 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTGAATTTA
2274730 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
2274759 TTCAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 12 0.41
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:2274864 original size:21 final size:21
Alignment explanation
Indices: 2274838--2274894 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
2274828 AGGGTGTCAA
2274838 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCACCCCTGC
*
2274859 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCACCCCTGC
2274880 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
2274895 TTGCACTAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.21, C:0.39, G:0.19, T:0.21
Consensus pattern (21 bp):
AGTGCATCCATGCACCCCTGC
Found at i:2274908 original size:22 final size:19
Alignment explanation
Indices: 2274838--2274937 Score: 74
Period size: 21 Copynumber: 4.8 Consensus size: 19
2274828 AGGGTGTCAA
* *
2274838 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCA--CTTAC
* *
2274859 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCA--CTTAC
2274880 AGTGCATCCATGCACTTGCAC
1 AGTGCATCCATGCACTT--AC
* *
2274901 TAGTGCATCGATGCATCATAC
1 -AGTGCATCCATGCA-CTTAC
2274922 AGTGCATCCATGCACT
1 AGTGCATCCATGCACT
2274938 CAAACACCGA
Statistics
Matches: 68, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
19 3 0.04
20 13 0.19
21 37 0.54
22 13 0.19
23 2 0.03
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.24
Consensus pattern (19 bp):
AGTGCATCCATGCACTTAC
Found at i:2274982 original size:20 final size:20
Alignment explanation
Indices: 2274957--2275030 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
2274947 AATACAATTA
*
2274957 GTGCATCGATGCATCCTTCT
1 GTGCATCGATGCATCCTGCT
**
2274977 GTGCATCGATGCATCAAGGCT
1 GTGCATCGATGCATC-CTGCT
2274998 GTGCATCGATGCATCCTGCT
1 GTGCATCGATGCATCCTGCT
*
2275018 GTGCATCCATGCA
1 GTGCATCGATGCA
2275031 CGAAGGCTGC
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
20 30 0.64
21 17 0.36
ACGTcount: A:0.19, C:0.28, G:0.24, T:0.28
Consensus pattern (20 bp):
GTGCATCGATGCATCCTGCT
Found at i:2275004 original size:41 final size:41
Alignment explanation
Indices: 2274957--2275039 Score: 132
Period size: 41 Copynumber: 2.0 Consensus size: 41
2274947 AATACAATTA
* *
2274957 GTGCATCGATGCATCCTTCTGTGCATCGATGCATC-AAGGCT
1 GTGCATCGATGCATCCTGCTGTGCATCCATGCA-CGAAGGCT
2274998 GTGCATCGATGCATCCTGCTGTGCATCCATGCACGAAGGCT
1 GTGCATCGATGCATCCTGCTGTGCATCCATGCACGAAGGCT
2275039 G
1 G
2275040 CAACGGCTAG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
40 1 0.03
41 38 0.97
ACGTcount: A:0.19, C:0.28, G:0.27, T:0.27
Consensus pattern (41 bp):
GTGCATCGATGCATCCTGCTGTGCATCCATGCACGAAGGCT
Found at i:2275426 original size:34 final size:32
Alignment explanation
Indices: 2275387--2275456 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 32
2275377 TTTTGTAAAG
* *
2275387 GGGAAAGGTTCTAGCTTATCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
* *
2275421 GGGAAATGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
2275453 GGGA
1 GGGA
2275457 GTTGTAAGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 11 0.34
33 1 0.03
34 20 0.62
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:2276234 original size:24 final size:23
Alignment explanation
Indices: 2276202--2276282 Score: 80
Period size: 24 Copynumber: 3.6 Consensus size: 23
2276192 ACACTTAACA
2276202 GTGCATCGATGCATCCCTTTGAAT
1 GTGCATCGATGCAT-CCTTTGAAT
* *
2276226 GTGCATCGATTCATCATGTTG-A-
1 GTGCATCGATGCATCCT-TTGAAT
*
2276248 -TGCACCGATGCATGCC-TTGAAT
1 GTGCATCGATGCAT-CCTTTGAAT
2276270 GTGCATCGATGCA
1 GTGCATCGATGCA
2276283 CCTGGTCATG
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
20 3 0.07
21 12 0.26
22 1 0.02
23 14 0.30
24 16 0.35
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.31
Consensus pattern (23 bp):
GTGCATCGATGCATCCTTTGAAT
Found at i:2277836 original size:21 final size:21
Alignment explanation
Indices: 2277794--2277837 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
2277784 ACTCCGGGAG
* *
2277794 CTAGTTCCTCACGAGCTGCTC
1 CTAGCTCCTCACGAGCTCCTC
* *
2277815 CTAGCTCCTCTCGTGCTCCTC
1 CTAGCTCCTCACGAGCTCCTC
2277836 CT
1 CT
2277838 CCTCCAGCTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.43, G:0.16, T:0.32
Consensus pattern (21 bp):
CTAGCTCCTCACGAGCTCCTC
Found at i:2278956 original size:65 final size:64
Alignment explanation
Indices: 2278839--2279043 Score: 204
Period size: 65 Copynumber: 3.2 Consensus size: 64
2278829 TTTCAGAGTA
* * * *
2278839 ATGCACCGATGCACCGATCCATGCATCGATGCAC-CATGA-ATTAAATTG-AACATCGAATGCAT
1 ATGCATCGATGCACC-AACCATGCACCGATGCACTCAGGATATT---TTGAAACATCGAATGCAT
*
2278901 TTC
62 TTG
*
2278904 ATGCATCGATGCA-CATACCATGCACCGATGCACTGAGGAT-TTTATGAAAACATCGAATGCATT
1 ATGCATCGATGCACCA-ACCATGCACCGATGCACTCAGGATATTT-TG-AAACATCGAATGCATT
2278967 TG
63 TG
* * * * *
2278969 ATGCATCGATGCACCAGCCATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCACTTG
1 ATGCATCGATGCACCAACCATGCACCGATGCACTCAGGATATTTTGAAACATCGAATGCATTTG
*
2279033 ATGTATCGATG
1 ATGCATCGATG
2279044 TACTCTTAGT
Statistics
Matches: 119, Mismatches: 13, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
62 1 0.01
63 3 0.03
64 43 0.36
65 67 0.56
66 5 0.04
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (64 bp):
ATGCATCGATGCACCAACCATGCACCGATGCACTCAGGATATTTTGAAACATCGAATGCATTTG
Found at i:2279062 original size:64 final size:63
Alignment explanation
Indices: 2278887--2279066 Score: 168
Period size: 65 Copynumber: 2.8 Consensus size: 63
2278877 AATTAAATTG
* * * * *
2278887 AACATCGAATGCATTTCATGCATCGATGCACATACCATGCACCGATGCACTGAGGATTTTATGAA
1 AACATCGAATGCACTTGATGCATCGATGCAC-CAGC-TGCACCGATGCACTCAGGATTTTATGAA
* * * *
2278952 AACATCGAATGCATTTGATGCATCGATGCACCAGCCATGCATCGATGCACTCTGGCTATTT-TG-
1 AACATCGAATGCACTTGATGCATCGATGCACCAG-C-TGCACCGATGCACTCAGGAT-TTTATGA
2279015 A
63 A
* *
2279016 AACATCGAATGCACTTGATGTATCGATGTACTCTTAG-TGCACCGATGCACT
1 AACATCGAATGCACTTGATGCATCGATGCAC-C--AGCTGCACCGATGCACT
2279067 AAGGGTCCAA
Statistics
Matches: 99, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
64 43 0.43
65 51 0.52
66 3 0.03
67 2 0.02
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (63 bp):
AACATCGAATGCACTTGATGCATCGATGCACCAGCTGCACCGATGCACTCAGGATTTTATGAA
Found at i:2282734 original size:31 final size:31
Alignment explanation
Indices: 2282693--2282787 Score: 99
Period size: 31 Copynumber: 3.1 Consensus size: 31
2282683 AAGTGATGAT
2282693 AAAGATAAAATATATATCAATAAATTAA-A-ATA
1 AAAGA-AAAATATAT-TCAATAAATTAAGACA-A
*
2282725 AAAGAAAAATATATTTAATAAATTAAGACAA
1 AAAGAAAAATATATTCAATAAATTAAGACAA
* * *
2282756 AAATAAAAATAT-TT-AATAACTTAAAACAA
1 AAAGAAAAATATATTCAATAAATTAAGACAA
2282785 AAA
1 AAA
2282788 TAAAGAGATA
Statistics
Matches: 57, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
29 16 0.28
30 13 0.23
31 22 0.39
32 6 0.11
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.26
Consensus pattern (31 bp):
AAAGAAAAATATATTCAATAAATTAAGACAA
Found at i:2282773 original size:29 final size:30
Alignment explanation
Indices: 2282697--2282791 Score: 122
Period size: 29 Copynumber: 3.2 Consensus size: 30
2282687 GATGATAAAG
* *
2282697 ATAAAATATATATCAATAAATTAAAATAAAA
1 ATAAAATATAT-TTAATAAATTAAAACAAAA
*
2282728 GA-AAAATATATTTAATAAATTAAGACAAAA
1 -ATAAAATATATTTAATAAATTAAAACAAAA
*
2282758 ATAAAA-ATATTTAATAACTTAAAACAAAA
1 ATAAAATATATTTAATAAATTAAAACAAAA
2282787 ATAAA
1 ATAAA
2282792 GAGATAATTT
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
29 27 0.47
30 20 0.35
31 9 0.16
32 1 0.02
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.27
Consensus pattern (30 bp):
ATAAAATATATTTAATAAATTAAAACAAAA
Found at i:2291759 original size:16 final size:15
Alignment explanation
Indices: 2291738--2291767 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
2291728 TTTTCATTTT
2291738 ATATTTTTTATATATA
1 ATATTTTTTA-ATATA
2291754 ATATTTTTTAATAT
1 ATATTTTTTAATAT
2291768 TTTGAGATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
ATATTTTTTAATATA
Found at i:2291956 original size:29 final size:30
Alignment explanation
Indices: 2291914--2291985 Score: 101
Period size: 29 Copynumber: 2.4 Consensus size: 30
2291904 AGTAATCTTG
2291914 CAGGTCGCCATGTAATCAAAACAACCAA-A
1 CAGGTCGCCATGTAATCAAAACAACCAACA
* *
2291943 CAGGTCGCCATGTAATCAGAACGACCAAGCA
1 CAGGTCGCCATGTAATCAAAACAACCAA-CA
*
2291974 AAGGTCGCCATG
1 CAGGTCGCCATG
2291986 CACGCCCCGC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 26 0.68
31 12 0.32
ACGTcount: A:0.38, C:0.28, G:0.21, T:0.14
Consensus pattern (30 bp):
CAGGTCGCCATGTAATCAAAACAACCAACA
Found at i:2292549 original size:35 final size:37
Alignment explanation
Indices: 2292507--2292593 Score: 105
Period size: 35 Copynumber: 2.5 Consensus size: 37
2292497 AATTTAGTTC
2292507 ATTAGTTTATTAGTTTAAG-TTATA-TTATAATAAAA-A
1 ATTAGTTTATTAGTTTAAGTTTA-AGTTAT-ATAAAAGA
2292543 A-TAGTTTATTAG-TT-AGTTTAAGTTATATAAAAGA
1 ATTAGTTTATTAGTTTAAGTTTAAGTTATATAAAAGA
*
2292577 ATTAGTTTGTTAGTTTA
1 ATTAGTTTATTAGTTTA
2292594 GGGTTTATAT
Statistics
Matches: 44, Mismatches: 1, Indels: 11
0.79 0.02 0.20
Matches are distributed among these distances:
33 9 0.20
34 11 0.25
35 21 0.48
36 3 0.07
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (37 bp):
ATTAGTTTATTAGTTTAAGTTTAAGTTATATAAAAGA
Found at i:2292645 original size:180 final size:179
Alignment explanation
Indices: 2292433--2292780 Score: 615
Period size: 180 Copynumber: 1.9 Consensus size: 179
2292423 CTGAACTAAC
*
2292433 TTTAATAGTTTGTTAGATAAATAATTTAAGTTATATTTGTTTGTTGAATTTATTTTATATAAAAA
1 TTTAATAGTTTGTTAGATAAATAATTTAAGTTATATTTGTTTGTTGAATTTATATTATATAAAAA
* * * *
2292498 ATTTAGTTCATTAGTTTATTAGTTTAAGTTATATTATAATAAAAAATAGTTTATTAGTTAGTTTA
66 ATTTAGTTAATTAGTTTATTAGTTTAAGTTATATTAAAATAAAAAACAGTTTATTAGTTAATTTA
2292563 AGTTATATAAAAGAATTAGTTTGTTAGTTTAGGGTTTATATAAAAAATA
131 AGTTATATAAAAGAATTAGTTTGTTAGTTTAGGGTTTATATAAAAAATA
* *
2292612 TTTAATTAGTTTGTTAGTTAAATAGTTTAAGTTATATTTGTTTGTTGAATTTATATTATATAAAA
1 TTTAA-TAGTTTGTTAGATAAATAATTTAAGTTATATTTGTTTGTTGAATTTATATTATATAAAA
*
2292677 AATTTAGTTAATTAGTTTATTAGTTTAAGTTATATTAAAATAAAAAGCAGTTTATTAGTTAATTT
65 AATTTAGTTAATTAGTTTATTAGTTTAAGTTATATTAAAATAAAAAACAGTTTATTAGTTAATTT
2292742 AAGTTATATAAAAGAATTAGTTTGTTAGTTTAGGGTTTA
130 AAGTTATATAAAAGAATTAGTTTGTTAGTTTAGGGTTTA
2292781 GGGTTTATAG
Statistics
Matches: 160, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
179 5 0.03
180 155 0.97
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.49
Consensus pattern (179 bp):
TTTAATAGTTTGTTAGATAAATAATTTAAGTTATATTTGTTTGTTGAATTTATATTATATAAAAA
ATTTAGTTAATTAGTTTATTAGTTTAAGTTATATTAAAATAAAAAACAGTTTATTAGTTAATTTA
AGTTATATAAAAGAATTAGTTTGTTAGTTTAGGGTTTATATAAAAAATA
Found at i:2292781 original size:7 final size:7
Alignment explanation
Indices: 2292769--2292835 Score: 98
Period size: 7 Copynumber: 9.6 Consensus size: 7
2292759 TAGTTTGTTA
2292769 GTTTAGG
1 GTTTAGG
2292776 GTTTAGG
1 GTTTAGG
**
2292783 GTTTATA
1 GTTTAGG
2292790 GTTTAGG
1 GTTTAGG
*
2292797 GTTTAGT
1 GTTTAGG
2292804 GTTTAGG
1 GTTTAGG
2292811 GTTTAGG
1 GTTTAGG
2292818 GTTTAGG
1 GTTTAGG
*
2292825 GTTTAGA
1 GTTTAGG
2292832 GTTT
1 GTTT
2292836 CCACTCATGT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 53 1.00
ACGTcount: A:0.16, C:0.00, G:0.36, T:0.48
Consensus pattern (7 bp):
GTTTAGG
Found at i:2292791 original size:21 final size:21
Alignment explanation
Indices: 2292768--2292835 Score: 109
Period size: 21 Copynumber: 3.2 Consensus size: 21
2292758 TTAGTTTGTT
*
2292768 AGTTTAGGGTTTAGGGTTTAT
1 AGTTTAGGGTTTAGGGTTTAG
*
2292789 AGTTTAGGGTTTAGTGTTTAG
1 AGTTTAGGGTTTAGGGTTTAG
*
2292810 GGTTTAGGGTTTAGGGTTTAG
1 AGTTTAGGGTTTAGGGTTTAG
2292831 AGTTT
1 AGTTT
2292836 CCACTCATGT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.18, C:0.00, G:0.35, T:0.47
Consensus pattern (21 bp):
AGTTTAGGGTTTAGGGTTTAG
Found at i:2292869 original size:7 final size:7
Alignment explanation
Indices: 2292857--2292978 Score: 156
Period size: 7 Copynumber: 17.6 Consensus size: 7
2292847 ACATATACTA
2292857 TAAACCC
1 TAAACCC
2292864 TAAACCC
1 TAAACCC
*
2292871 T-AACCT
1 TAAACCC
2292877 TAAACCC
1 TAAACCC
2292884 TAAACCC
1 TAAACCC
2292891 TAAACCC
1 TAAACCC
2292898 TAAACCC
1 TAAACCC
2292905 TAAACCC
1 TAAACCC
**
2292912 TAAACAA
1 TAAACCC
2292919 TAAACCC
1 TAAACCC
**
2292926 TAAACAA
1 TAAACCC
*
2292933 TAAACCT
1 TAAACCC
*
2292940 TAAATCC
1 TAAACCC
* *
2292947 TAAATCA
1 TAAACCC
2292954 TAAACCC
1 TAAACCC
2292961 TAAACCC
1 TAAACCC
2292968 TAAACCC
1 TAAACCC
2292975 TAAA
1 TAAA
2292979 TTAATAAACT
Statistics
Matches: 99, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
6 5 0.05
7 94 0.95
ACGTcount: A:0.48, C:0.34, G:0.00, T:0.18
Consensus pattern (7 bp):
TAAACCC
Found at i:2293027 original size:7 final size:7
Alignment explanation
Indices: 2293005--2293155 Score: 52
Period size: 7 Copynumber: 21.7 Consensus size: 7
2292995 CTAAATTATA
*
2293005 GTTTAAG
1 GTTTAGG
*
2293012 GTCTAGG
1 GTTTAGG
2293019 GTTTAGG
1 GTTTAGG
*
2293026 GTCTAGG
1 GTTTAGG
* **
2293033 GTATAAT
1 GTTTAGG
* *
2293040 ATTTAAG
1 GTTTAGG
**
2293047 GTTTATT
1 GTTTAGG
2293054 GTTTAGG
1 GTTTAGG
* **
2293061 ATTTATA
1 GTTTAGG
**
2293068 GTTTTTG
1 GTTTAGG
2293075 GTTTAGG
1 GTTTAGG
2293082 GTTTAGG
1 GTTTAGG
**
2293089 GTTTATA
1 GTTTAGG
** *
2293096 GACTAAG
1 GTTTAGG
**
2293103 GTTTATA
1 GTTTAGG
*
2293110 GTTTATG
1 GTTTAGG
* *
2293117 ATTTAAG
1 GTTTAGG
*
2293124 G-TTAGA
1 GTTTAGG
2293130 GTTTAGG
1 GTTTAGG
2293137 GTTTAGG
1 GTTTAGG
*
2293144 GTTTAGA
1 GTTTAGG
2293151 GTTTA
1 GTTTA
2293156 TAGTATATAC
Statistics
Matches: 102, Mismatches: 41, Indels: 2
0.70 0.28 0.01
Matches are distributed among these distances:
6 4 0.04
7 98 0.96
ACGTcount: A:0.24, C:0.02, G:0.28, T:0.46
Consensus pattern (7 bp):
GTTTAGG
Found at i:2293064 original size:21 final size:22
Alignment explanation
Indices: 2293040--2293094 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
2293030 AGGGTATAAT
2293040 ATTTAAGGTTTATT-GTTTAGG
1 ATTTAAGGTTTATTGGTTTAGG
2293061 ATTTATA-GTTT-TTGGTTTAGG
1 ATTTA-AGGTTTATTGGTTTAGG
* *
2293082 GTTTAGGGTTTAT
1 ATTTAAGGTTTAT
2293095 AGACTAAGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 2 0.07
21 24 0.86
22 2 0.07
ACGTcount: A:0.20, C:0.00, G:0.25, T:0.55
Consensus pattern (22 bp):
ATTTAAGGTTTATTGGTTTAGG
Found at i:2293123 original size:21 final size:21
Alignment explanation
Indices: 2293062--2293156 Score: 77
Period size: 21 Copynumber: 4.6 Consensus size: 21
2293052 TTGTTTAGGA
* * * *
2293062 TTTATAGTTTTTGGTTTAGGG
1 TTTAGAGTTTATGATTTAAGG
* *
2293083 TTTAGGGTTTATAGA-CTAAGG
1 TTTAGAGTTTAT-GATTTAAGG
*
2293104 TTTATAGTTTATGATTTAAGG
1 TTTAGAGTTTATGATTTAAGG
* * *
2293125 -TTAGAGTTTAGGGTTTAGGG
1 TTTAGAGTTTATGATTTAAGG
2293145 TTTAGAGTTTAT
1 TTTAGAGTTTAT
2293157 AGTATATACA
Statistics
Matches: 57, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
20 18 0.32
21 38 0.67
22 1 0.02
ACGTcount: A:0.23, C:0.01, G:0.27, T:0.48
Consensus pattern (21 bp):
TTTAGAGTTTATGATTTAAGG
Found at i:2293206 original size:7 final size:7
Alignment explanation
Indices: 2293196--2293222 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
2293186 ACCTTAAATC
2293196 CTAAACA
1 CTAAACA
2293203 CTAAACA
1 CTAAACA
2293210 CTAAACA
1 CTAAACA
2293217 CTAAAC
1 CTAAAC
2293223 CTTAAATCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.56, C:0.30, G:0.00, T:0.15
Consensus pattern (7 bp):
CTAAACA
Found at i:2293208 original size:21 final size:20
Alignment explanation
Indices: 2293177--2293305 Score: 84
Period size: 21 Copynumber: 6.1 Consensus size: 20
2293167 ACACGAGTGG
* * *
2293177 AAACCTAAAACCTTAAATCCT
1 AAACCTTAAACCCTAAA-CAT
*
2293198 AAACAC-TAAACACTAAACACT
1 AAAC-CTTAAACCCTAAACA-T
* *
2293219 AAACCTTAAATCATAAACTAT
1 AAACCTTAAACCCTAAAC-AT
2293240 AAACCTTAAACCCTAAATCAT
1 AAACCTTAAACCCTAAA-CAT
2293261 AAA-CTATAAACCCTAAAC-T
1 AAACCT-TAAACCCTAAACAT
*
2293280 AACAAACTATAAACCCTAAATCAT
1 -A-AACCT-TAAACCCTAAA-CAT
2293304 AA
1 AA
2293306 CTTAAACGTG
Statistics
Matches: 88, Mismatches: 9, Indels: 21
0.75 0.08 0.18
Matches are distributed among these distances:
19 1 0.01
20 6 0.07
21 60 0.68
22 18 0.20
23 2 0.02
24 1 0.01
ACGTcount: A:0.53, C:0.26, G:0.00, T:0.22
Consensus pattern (20 bp):
AAACCTTAAACCCTAAACAT
Found at i:2293235 original size:28 final size:27
Alignment explanation
Indices: 2293184--2293278 Score: 104
Period size: 28 Copynumber: 3.4 Consensus size: 27
2293174 TGGAAACCTA
*
2293184 AAACCTTAAATCCTAAA-CACTAAAC-ACT
1 AAACC-TAAACCCTAAATCA-TAAACTA-T
*
2293212 AAACACTAAACCTTAAATCATAAACTAT
1 AAAC-CTAAACCCTAAATCATAAACTAT
2293240 AAACCTTAAACCCTAAATCATAAACTAT
1 AAACC-TAAACCCTAAATCATAAACTAT
2293268 AAACCCTAAAC
1 AAA-CCTAAAC
2293279 TAACAAACTA
Statistics
Matches: 59, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
27 1 0.02
28 52 0.88
29 6 0.10
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.22
Consensus pattern (27 bp):
AAACCTAAACCCTAAATCATAAACTAT
Found at i:2293279 original size:14 final size:14
Alignment explanation
Indices: 2293197--2293280 Score: 55
Period size: 14 Copynumber: 6.0 Consensus size: 14
2293187 CCTTAAATCC
*
2293197 TAAACACTAAAC-A
1 TAAACCCTAAACTA
*
2293210 CTAAACACTAAACCT-
1 -TAAACCCTAAA-CTA
* *
2293225 TAAATCATAAACTA
1 TAAACCCTAAACTA
* **
2293239 TAAACCTTAAACCC
1 TAAACCCTAAACTA
* *
2293253 TAAATCATAAACTA
1 TAAACCCTAAACTA
2293267 TAAACCCTAAACTA
1 TAAACCCTAAACTA
2293281 ACAAACTATA
Statistics
Matches: 54, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
13 2 0.04
14 51 0.94
15 1 0.02
ACGTcount: A:0.52, C:0.25, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:2293289 original size:22 final size:21
Alignment explanation
Indices: 2293246--2293300 Score: 83
Period size: 22 Copynumber: 2.6 Consensus size: 21
2293236 CTATAAACCT
* *
2293246 TAAACCCTAAATCATAAACTA
1 TAAACCCTAAATAACAAACTA
2293267 TAAACCCTAAACTAACAAACTA
1 TAAACCCTAAA-TAACAAACTA
2293289 TAAACCCTAAAT
1 TAAACCCTAAAT
2293301 CATAACTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
21 12 0.39
22 19 0.61
ACGTcount: A:0.53, C:0.25, G:0.00, T:0.22
Consensus pattern (21 bp):
TAAACCCTAAATAACAAACTA
Found at i:2293385 original size:33 final size:34
Alignment explanation
Indices: 2293324--2293391 Score: 88
Period size: 34 Copynumber: 2.0 Consensus size: 34
2293314 TGAATTTTCC
*
2293324 ACTTAAACAACTGATACACTATTCTTTTA-TATA
1 ACTTAAACAACTAATACACTATTCTTTTATTATA
2293357 ACTTAAACTAACTAATGA-ACTATT-TTTTATTATA
1 ACTTAAAC-AACTAAT-ACACTATTCTTTTATTATA
2293391 A
1 A
2293392 TATAACTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
33 13 0.42
34 17 0.55
35 1 0.03
ACGTcount: A:0.41, C:0.15, G:0.03, T:0.41
Consensus pattern (34 bp):
ACTTAAACAACTAATACACTATTCTTTTATTATA
Found at i:2301388 original size:22 final size:22
Alignment explanation
Indices: 2301360--2301403 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
2301350 AATGTCAAGC
2301360 CATAGGCTCCTTCAGCTTGTAA
1 CATAGGCTCCTTCAGCTTGTAA
2301382 CATAGGCTCCTTCAGCTTGTAA
1 CATAGGCTCCTTCAGCTTGTAA
2301404 AATCTTCCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.32
Consensus pattern (22 bp):
CATAGGCTCCTTCAGCTTGTAA
Found at i:2302794 original size:20 final size:20
Alignment explanation
Indices: 2302748--2302837 Score: 101
Period size: 20 Copynumber: 4.5 Consensus size: 20
2302738 CGATTTTCTA
*
2302748 ACTATCGCAATGCGAATATG
1 ACTATCGCAATGCGATTATG
*
2302768 TA-AATCGCAATGCGATTATG
1 -ACTATCGCAATGCGATTATG
* * *
2302788 ACTATCGCAATGTGATTCTT
1 ACTATCGCAATGCGATTATG
*
2302808 ACTATCGCAATGCGATTCTG
1 ACTATCGCAATGCGATTATG
*
2302828 ACTGTCGCAA
1 ACTATCGCAA
2302838 CACTGAATTT
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
19 1 0.02
20 57 0.97
21 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (20 bp):
ACTATCGCAATGCGATTATG
Found at i:2304727 original size:140 final size:140
Alignment explanation
Indices: 2304475--2304740 Score: 487
Period size: 140 Copynumber: 1.9 Consensus size: 140
2304465 AAACGTTGTA
*
2304475 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTACTA
1 TTATGTGTAAACTTTTAACATTTTCAGTTAGACATGTATTAGTAACTTGAGTTTGAACATTACTA
* *
2304540 TGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
66 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTAAATATCGCAACGCGAATTTGACTAT
2304605 TATGTGTATT
131 TATGTGTATT
* *
2304615 TTATGTGTAAACTTTTAACATTTTCAGTTAGACATGTATTAGTAACTTGATTTTGAACATTGCTA
1 TTATGTGTAAACTTTTAACATTTTCAGTTAGACATGTATTAGTAACTTGAGTTTGAACATTACTA
2304680 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTAAATATCGCAACGCGAATTTGA
66 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTAAATATCGCAACGCGAATTTGA
2304741 TTATCGCAAC
Statistics
Matches: 121, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
140 121 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (140 bp):
TTATGTGTAAACTTTTAACATTTTCAGTTAGACATGTATTAGTAACTTGAGTTTGAACATTACTA
TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTAAATATCGCAACGCGAATTTGACTAT
TATGTGTATT
Found at i:2304745 original size:20 final size:20
Alignment explanation
Indices: 2304722--2304933 Score: 156
Period size: 20 Copynumber: 11.5 Consensus size: 20
2304712 TTCATTTAAA
*
2304722 TATCGCAACGCGAATTTGAT
1 TATCGCAACGCGAATTTGAC
*
2304742 TATCGCAACTC-AA----A-
1 TATCGCAACGCGAATTTGAC
* *
2304756 AATCGCAACGCAAATTTGAC
1 TATCGCAACGCGAATTTGAC
* * *
2304776 TATCGCAACACTAATATGAC
1 TATCGCAACGCGAATTTGAC
2304796 TATCGCAACGC-AA----A-
1 TATCGCAACGCGAATTTGAC
* * *
2304810 AATCGCAACGCGGATTTGTC
1 TATCGCAACGCGAATTTGAC
2304830 TATCGCAACGCGAATTTGAC
1 TATCGCAACGCGAATTTGAC
*
2304850 TATCGCAACG-GCTATTTGAC
1 TATCGCAACGCG-AATTTGAC
*
2304870 TATCGCAACGAGAA----A-
1 TATCGCAACGCGAATTTGAC
2304885 -ATCGCAACGCGAATTTGAC
1 TATCGCAACGCGAATTTGAC
* *
2304904 TATCGCAACGCGAATTTAAT
1 TATCGCAACGCGAATTTGAC
2304924 TATCGCAACG
1 TATCGCAACG
2304934 AGAAAATCGC
Statistics
Matches: 153, Mismatches: 19, Indels: 40
0.72 0.09 0.19
Matches are distributed among these distances:
14 31 0.20
15 5 0.03
16 1 0.01
18 1 0.01
19 6 0.04
20 108 0.71
21 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (20 bp):
TATCGCAACGCGAATTTGAC
Found at i:2304804 original size:54 final size:54
Alignment explanation
Indices: 2304722--2304859 Score: 204
Period size: 54 Copynumber: 2.6 Consensus size: 54
2304712 TTCATTTAAA
* *
2304722 TATCGCAACGCGAATTTGATTATCGCAACTCAAAAATCGCAACGCAAATTTGAC
1 TATCGCAACGCGAATTTGACTATCGCAACGCAAAAATCGCAACGCAAATTTGAC
* * * ** *
2304776 TATCGCAACACTAATATGACTATCGCAACGCAAAAATCGCAACGCGGATTTGTC
1 TATCGCAACGCGAATTTGACTATCGCAACGCAAAAATCGCAACGCAAATTTGAC
2304830 TATCGCAACGCGAATTTGACTATCGCAACG
1 TATCGCAACGCGAATTTGACTATCGCAACG
2304860 GCTATTTGAC
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 73 1.00
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (54 bp):
TATCGCAACGCGAATTTGACTATCGCAACGCAAAAATCGCAACGCAAATTTGAC
Found at i:2304835 original size:74 final size:74
Alignment explanation
Indices: 2304757--2304934 Score: 261
Period size: 74 Copynumber: 2.4 Consensus size: 74
2304747 CAACTCAAAA
*
2304757 ATCGCAACGCAAATTTGACTATCGCAAC-ACTAATATGACTATCGCAACGCA-AAAATCGCAACG
1 ATCGCAACGCGAATTTGACTATCGCAACGACT-ATATGACTATCGCAACG-AGAAAATCGCAACG
* *
2304820 CGGATTTGTCT
64 CGAATTTGACT
* *
2304831 ATCGCAACGCGAATTTGACTATCGCAACGGCTATTTGACTATCGCAACGAGAAAATCGCAACGCG
1 ATCGCAACGCGAATTTGACTATCGCAACGACTATATGACTATCGCAACGAGAAAATCGCAACGCG
2304896 AATTTGACT
66 AATTTGACT
* *
2304905 ATCGCAACGCGAATTTAATTATCGCAACGA
1 ATCGCAACGCGAATTTGACTATCGCAACGA
2304935 GAAAATCGCA
Statistics
Matches: 94, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
73 1 0.01
74 91 0.97
75 2 0.02
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (74 bp):
ATCGCAACGCGAATTTGACTATCGCAACGACTATATGACTATCGCAACGAGAAAATCGCAACGCG
AATTTGACT
Found at i:2304889 original size:54 final size:55
Alignment explanation
Indices: 2304831--2304973 Score: 202
Period size: 54 Copynumber: 2.7 Consensus size: 55
2304821 GGATTTGTCT
* *
2304831 ATCGCAACGCGAATTTGACTATCGCAACGGC-TATTTGACTATCGCAACGAGAAA
1 ATCGCAACGCGAATTTGACTATCGCAACGGCGAATTTAACTATCGCAACGAGAAA
*
2304885 ATCGCAACGCGAATTTGACTATCGCAAC-GCGAATTTAATTATCGCAACGAGAAA
1 ATCGCAACGCGAATTTGACTATCGCAACGGCGAATTTAACTATCGCAACGAGAAA
* * * *
2304939 ATCGCAAAGCGTATTAGACTATCACAAC-GCGAATT
1 ATCGCAACGCGAATTTGACTATCGCAACGGCGAATT
2304974 GACTTTCGCG
Statistics
Matches: 81, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 2 0.02
54 79 0.98
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.22
Consensus pattern (55 bp):
ATCGCAACGCGAATTTGACTATCGCAACGGCGAATTTAACTATCGCAACGAGAAA
Found at i:2305001 original size:20 final size:20
Alignment explanation
Indices: 2304972--2305029 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
2304962 ACAACGCGAA
2304972 TTGACTTTCGCGTTGCGATT
1 TTGACTTTCGCGTTGCGATT
* *
2304992 TTGTCTTTCGCATTGCGATT
1 TTGACTTTCGCGTTGCGATT
* *
2305012 TTGAGTTTAGCGTTGCGA
1 TTGACTTTCGCGTTGCGA
2305030 AAGTGTACCT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.12, C:0.17, G:0.26, T:0.45
Consensus pattern (20 bp):
TTGACTTTCGCGTTGCGATT
Found at i:2307222 original size:18 final size:18
Alignment explanation
Indices: 2307192--2307258 Score: 71
Period size: 20 Copynumber: 3.5 Consensus size: 18
2307182 GAAACTTAAA
*
2307192 ATCGCAACACGAATGACT
1 ATCGCAACGCGAATGACT
*
2307210 ATCACAACGCGAAAATGACT
1 ATCGCAACGCG--AATGACT
*
2307230 ATCGCAACGTGAATTTGACT
1 ATCGCAACGCGAA--TGACT
2307250 ATCGCAACG
1 ATCGCAACG
2307259 AGAGAATCGC
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
18 11 0.27
20 30 0.73
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.19
Consensus pattern (18 bp):
ATCGCAACGCGAATGACT
Found at i:2307228 original size:20 final size:20
Alignment explanation
Indices: 2307203--2307258 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
2307193 TCGCAACACG
*
2307203 AATGACTATCACAACGCGAA
1 AATGACTATCGCAACGCGAA
*
2307223 AATGACTATCGCAACGTGAA
1 AATGACTATCGCAACGCGAA
**
2307243 TTTGACTATCGCAACG
1 AATGACTATCGCAACG
2307259 AGAGAATCGC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.21
Consensus pattern (20 bp):
AATGACTATCGCAACGCGAA
Found at i:2307331 original size:20 final size:20
Alignment explanation
Indices: 2307306--2307348 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
2307296 TCTTTCGTTT
2307306 CGATAGTCAAATTCGAGTTG
1 CGATAGTCAAATTCGAGTTG
** *
2307326 CGATAGTCATTTTCGCGTTG
1 CGATAGTCAAATTCGAGTTG
2307346 CGA
1 CGA
2307349 AAGTAAACTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.33
Consensus pattern (20 bp):
CGATAGTCAAATTCGAGTTG
Found at i:2307519 original size:18 final size:18
Alignment explanation
Indices: 2307496--2307545 Score: 100
Period size: 18 Copynumber: 2.8 Consensus size: 18
2307486 TTTACTAAGC
2307496 AATCTAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
2307514 AATCTAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
2307532 AATCTAAGTGAAAT
1 AATCTAAGTGAAAT
2307546 TACGAGTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.42, C:0.06, G:0.20, T:0.32
Consensus pattern (18 bp):
AATCTAAGTGAAATGGTT
Found at i:2309253 original size:19 final size:20
Alignment explanation
Indices: 2309174--2309280 Score: 139
Period size: 20 Copynumber: 5.5 Consensus size: 20
2309164 TCTGAAACTT
2309174 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
2309194 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
2309214 -AAATCCGCAACACGAAAATG
1 AAAAT-CGCAACACGAAAATG
** *
2309234 ACTATCGCAACGCG-AAATG
1 AAAATCGCAACACGAAAATG
* *
2309253 AAAATCGCAACGCGAAACT-
1 AAAATCGCAACACGAAAATG
2309272 AAAATCGCA
1 AAAATCGCA
2309281 TTGCGATTCT
Statistics
Matches: 78, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
19 30 0.38
20 46 0.59
21 2 0.03
ACGTcount: A:0.50, C:0.23, G:0.16, T:0.11
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:2309835 original size:20 final size:20
Alignment explanation
Indices: 2309805--2309918 Score: 165
Period size: 20 Copynumber: 5.7 Consensus size: 20
2309795 GCTCTTTGAA
*
2309805 AATCGCATTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
* *
2309825 CATCGCGTTGCGACAGTCAG
1 AATCGCGTTGCGATAGTCAG
2309845 AATCGCGTTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
*
2309865 AATCTCGTTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
*
2309885 AATCGCGTTGCGATAGTCAT
1 AATCGCGTTGCGATAGTCAG
* *
2309905 ACTCGCATTGCGAT
1 AATCGCGTTGCGAT
2309919 TTACATATTC
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 84 1.00
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (20 bp):
AATCGCGTTGCGATAGTCAG
Found at i:2309993 original size:20 final size:20
Alignment explanation
Indices: 2309805--2310000 Score: 153
Period size: 20 Copynumber: 9.7 Consensus size: 20
2309795 GCTCTTTGAA
2309805 AATCGCATTGCGATAGTCAG
1 AATCGCATTGCGATAGTCAG
* * *
2309825 CATCGCGTTGCGACAGTCAG
1 AATCGCATTGCGATAGTCAG
*
2309845 AATCGCGTTGCGATAGTCAG
1 AATCGCATTGCGATAGTCAG
* *
2309865 AATCTCGTTGCGATAGTCAG
1 AATCGCATTGCGATAGTCAG
* *
2309885 AATCGCGTTGCGATAGTCAT
1 AATCGCATTGCGATAGTCAG
* * *
2309905 ACTCGCATTGCGAT-TTACAT
1 AATCGCATTGCGATAGT-CAG
* * *
2309925 ATTCGCATTGTGATAGTCGGAA
1 AATCGCATTGCGATAGTC--AG
** * *
2309947 AATCGCAACGCGA-ATTTAG
1 AATCGCATTGCGATAGTCAG
*
2309966 AAAATCGCAATGCGATAGTCAG
1 --AATCGCATTGCGATAGTCAG
*
2309988 AATCGCGTTGCGA
1 AATCGCATTGCGA
2310001 ATCTGGAAAC
Statistics
Matches: 142, Mismatches: 27, Indels: 14
0.78 0.15 0.08
Matches are distributed among these distances:
19 2 0.01
20 111 0.78
21 15 0.11
22 14 0.10
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (20 bp):
AATCGCATTGCGATAGTCAG
Found at i:2317301 original size:14 final size:14
Alignment explanation
Indices: 2317269--2317310 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
2317259 AAGATTGAGT
*
2317269 TGAATATAAACGAA
1 TGAACATAAACGAA
* *
2317283 CGAACATAAATGAA
1 TGAACATAAACGAA
2317297 TGAACATAAACGAA
1 TGAACATAAACGAA
2317311 CAGATTATCG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.57, C:0.12, G:0.14, T:0.17
Consensus pattern (14 bp):
TGAACATAAACGAA
Found at i:2329440 original size:2 final size:2
Alignment explanation
Indices: 2329433--2329463 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2329423 GGTGTTTTAT
2329433 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 T
2329464 TCTTAACCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2334280 original size:14 final size:14
Alignment explanation
Indices: 2334261--2334292 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
2334251 AGCTATAGTA
2334261 TATTATCATAAATT
1 TATTATCATAAATT
*
2334275 TATTATCATAACTT
1 TATTATCATAAATT
2334289 TATT
1 TATT
2334293 TTAAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (14 bp):
TATTATCATAAATT
Found at i:2337970 original size:36 final size:36
Alignment explanation
Indices: 2337923--2338002 Score: 126
Period size: 36 Copynumber: 2.2 Consensus size: 36
2337913 TAGCAATCAA
2337923 CTTTGAAAAATATTTTTTAAAATTTGGTAAATGTTT
1 CTTTGAAAAATATTTTTTAAAATTTGGTAAATGTTT
* *
2337959 CTTTGAAAAATATTTTTTAAAGTTTGGTAGATGTTT
1 CTTTGAAAAATATTTTTTAAAATTTGGTAAATGTTT
*
2337995 -GTTGAAAA
1 CTTTGAAAA
2338003 TAGGAATGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
35 7 0.17
36 34 0.83
ACGTcount: A:0.35, C:0.03, G:0.15, T:0.47
Consensus pattern (36 bp):
CTTTGAAAAATATTTTTTAAAATTTGGTAAATGTTT
Found at i:2342506 original size:21 final size:21
Alignment explanation
Indices: 2342482--2342542 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
2342472 GGCAACCAAC
2342482 TTTGAAAAATGTTTTTCAAAG
1 TTTGAAAAATGTTTTTCAAAG
**
2342503 TTTGGTAAATG--TTTC----
1 TTTGAAAAATGTTTTTCAAAG
2342518 TTTGAAAAATGTTTTTCAAAG
1 TTTGAAAAATGTTTTTCAAAG
2342539 TTTG
1 TTTG
2342543 GTAAAGTTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 12
0.65 0.09 0.26
Matches are distributed among these distances:
15 9 0.30
17 4 0.13
19 4 0.13
21 13 0.43
ACGTcount: A:0.31, C:0.05, G:0.16, T:0.48
Consensus pattern (21 bp):
TTTGAAAAATGTTTTTCAAAG
Found at i:2342528 original size:36 final size:35
Alignment explanation
Indices: 2342481--2342551 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 35
2342471 TGGCAACCAA
2342481 CTTTGAAAAATGTTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGTTTTTCAAAGTTTGGTAAA-GTTT
2342517 CTTTGAAAAATGTTTTTCAAAGTTTGGTAAAGTTT
1 CTTTGAAAAATGTTTTTCAAAGTTTGGTAAAGTTT
2342552 GATAGATGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 4 0.11
36 31 0.89
ACGTcount: A:0.31, C:0.06, G:0.17, T:0.46
Consensus pattern (35 bp):
CTTTGAAAAATGTTTTTCAAAGTTTGGTAAAGTTT
Found at i:2343706 original size:24 final size:24
Alignment explanation
Indices: 2343679--2343784 Score: 86
Period size: 24 Copynumber: 4.4 Consensus size: 24
2343669 AAACGGAGAT
*
2343679 ATCAGAAATCAAAACATAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * * *
2343703 ATCATATATCAGAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * * * *
2343727 GTTAGGAATCAGAACAGATTTCAG
1 ATCAGAAATCAAAACAGAATTCAG
** * *
2343751 ATCAGATGTCAAAACATAATTCAA
1 ATCAGAAATCAAAACAGAATTCAG
2343775 ATCAGAAATC
1 ATCAGAAATC
2343785 GAATAAAATA
Statistics
Matches: 59, Mismatches: 23, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
24 59 1.00
ACGTcount: A:0.47, C:0.17, G:0.13, T:0.23
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:2346373 original size:18 final size:18
Alignment explanation
Indices: 2346350--2346385 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
2346340 ATCAACGGTC
2346350 AACGGGTCAGGTCGGGTT
1 AACGGGTCAGGTCGGGTT
*
2346368 AACGGGTCGGGTCGGGTT
1 AACGGGTCAGGTCGGGTT
2346386 GTGACCGGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.17, G:0.47, T:0.22
Consensus pattern (18 bp):
AACGGGTCAGGTCGGGTT
Found at i:2348308 original size:20 final size:19
Alignment explanation
Indices: 2348272--2348316 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
2348262 TTTTAATTTT
** *
2348272 TTAAAAAAATATCAAATTA
1 TTAAAAAAATAAAAAATAA
2348291 TTAATAAAAATAAAAAATAA
1 TTAA-AAAAATAAAAAATAA
2348311 TTAAAA
1 TTAAAA
2348317 TATATAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (19 bp):
TTAAAAAAATAAAAAATAA
Found at i:2348316 original size:16 final size:16
Alignment explanation
Indices: 2348292--2348334 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
2348282 ATCAAATTAT
*
2348292 TAATAAAAATAAAAAA
1 TAATTAAAATAAAAAA
* *
2348308 TAATTAAAATATATAA
1 TAATTAAAATAAAAAA
2348324 TAATTTAAAAT
1 TAA-TTAAAAT
2348335 TCTTAAAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 16 0.70
17 7 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TAATTAAAATAAAAAA
Found at i:2349125 original size:20 final size:20
Alignment explanation
Indices: 2349100--2349141 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
2349090 GTAGTGTTTG
2349100 TACTCTGTAGAACTTTCACA
1 TACTCTGTAGAACTTTCACA
2349120 TACTCTGTAGAACTTTCACA
1 TACTCTGTAGAACTTTCACA
2349140 TA
1 TA
2349142 TAAGCTACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.36
Consensus pattern (20 bp):
TACTCTGTAGAACTTTCACA
Found at i:2352235 original size:16 final size:16
Alignment explanation
Indices: 2352193--2352235 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
2352183 GTTCTACCCA
2352193 TTGCTCGTTAAGCTCG
1 TTGCTCGTTAAGCTCG
* * *
2352209 TTACTTGTTAAGTTCG
1 TTGCTCGTTAAGCTCG
*
2352225 TTGCTCATTAA
1 TTGCTCGTTAA
2352236 AAGCGTTGCT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.44
Consensus pattern (16 bp):
TTGCTCGTTAAGCTCG
Found at i:2353448 original size:29 final size:29
Alignment explanation
Indices: 2353379--2353489 Score: 132
Period size: 29 Copynumber: 3.8 Consensus size: 29
2353369 GAAACATTCG
* * * *
2353379 AGTGACCAAAATAGAAGTAAATTAAAAGTTT
1 AGTGACTAAAATAAAAATAAA-T-AAATTTT
* *
2353410 AGTGAGTAAATTAAAAATAAATAAATTTT
1 AGTGACTAAAATAAAAATAAATAAATTTT
2353439 AGTGACTAAAATAAAAATAAATAAATTTT
1 AGTGACTAAAATAAAAATAAATAAATTTT
* *
2353468 AGTGACTAAAATAGAAGTAAAT
1 AGTGACTAAAATAAAAATAAAT
2353490 TGAAAAAAAT
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
29 53 0.76
30 1 0.01
31 16 0.23
ACGTcount: A:0.55, C:0.04, G:0.13, T:0.29
Consensus pattern (29 bp):
AGTGACTAAAATAAAAATAAATAAATTTT
Found at i:2357624 original size:2 final size:2
Alignment explanation
Indices: 2357617--2357641 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2357607 GTAATTAAAT
2357617 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 T
2357642 TTAAAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2357886 original size:21 final size:21
Alignment explanation
Indices: 2357848--2357888 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
2357838 GTTGGATTAG
*
2357848 GTCAGGTCATAATCAAATCAT
1 GTCAGGTCAGAATCAAATCAT
* *
2357869 GTCAGGTCAGAGTTAAATCA
1 GTCAGGTCAGAATCAAATCA
2357889 GATGAGGTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.27
Consensus pattern (21 bp):
GTCAGGTCAGAATCAAATCAT
Found at i:2362805 original size:37 final size:37
Alignment explanation
Indices: 2362747--2362865 Score: 163
Period size: 37 Copynumber: 3.3 Consensus size: 37
2362737 TCCCATTATC
* * *
2362747 ATTTTTC-AACAAACATCTACCAAACTTTGAAAAACT
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAAACA
*
2362783 ATTTTTCAAAGAAACATTTACCAAACTTTG-AAAACC
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAAACA
* *
2362819 A-TTTTCAAATAAACATTTACCAAACTTTGAAAACCA
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAAACA
2362855 ATTTTTCAAAG
1 ATTTTTCAAAG
2362866 TTGGTTGCCA
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
35 27 0.37
36 18 0.25
37 28 0.38
ACGTcount: A:0.45, C:0.19, G:0.04, T:0.32
Consensus pattern (37 bp):
ATTTTTCAAAGAAACATTTACCAAACTTTGAAAAACA
Found at i:2362833 original size:35 final size:36
Alignment explanation
Indices: 2362746--2362864 Score: 170
Period size: 35 Copynumber: 3.3 Consensus size: 36
2362736 ATCCCATTAT
*
2362746 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAAC
1 CATTTTTCAAACAAACATTTACCAAACTTTG-AAAAC
* *
2362782 TATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAACAAACATTTACCAAACTTTGAAAAC
*
2362818 CA-TTTTCAAATAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAACAAACATTTACCAAACTTTGAAAAC
2362853 CAATTTTTCAAA
1 C-ATTTTTCAAA
2362865 GTTGGTTGCC
Statistics
Matches: 75, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
35 33 0.44
36 14 0.19
37 28 0.37
ACGTcount: A:0.45, C:0.20, G:0.03, T:0.32
Consensus pattern (36 bp):
CATTTTTCAAACAAACATTTACCAAACTTTGAAAAC
Found at i:2363389 original size:25 final size:25
Alignment explanation
Indices: 2363300--2363381 Score: 146
Period size: 25 Copynumber: 3.3 Consensus size: 25
2363290 ATATATTCTG
* *
2363300 CTTCAGTTGTGGAGAGAGAAACTAT
1 CTTCTGTTGTGGAGAGAGCAACTAT
2363325 CTTCTGTTGTGGAGAGAGCAACTAT
1 CTTCTGTTGTGGAGAGAGCAACTAT
2363350 CTTCTGTTGTGGAGAGAGCAACTAT
1 CTTCTGTTGTGGAGAGAGCAACTAT
2363375 CTTCTGT
1 CTTCTGT
2363382 AGTTGAGAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 55 1.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (25 bp):
CTTCTGTTGTGGAGAGAGCAACTAT
Found at i:2367491 original size:35 final size:37
Alignment explanation
Indices: 2367447--2367529 Score: 125
Period size: 35 Copynumber: 2.3 Consensus size: 37
2367437 TTGAAAAATT
2367447 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAA-CA
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACCA
* * *
2367483 A-TTTTCAAATAAATATTTACCGAACTTTGAAAACCA
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACCA
2367519 ATTTTTCAAAG
1 ATTTTTCAAAG
2367530 TTGGTTGTCA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
35 29 0.71
36 4 0.10
37 8 0.20
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.34
Consensus pattern (37 bp):
ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACCA
Found at i:2373650 original size:7 final size:8
Alignment explanation
Indices: 2373627--2373655 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
2373617 ATTGTAAAAA
2373627 TATATTTT
1 TATATTTT
2373635 TATATTTT
1 TATATTTT
2373643 TATA-TTT
1 TATATTTT
2373650 TATATT
1 TATATT
2373656 GATAAAGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (8 bp):
TATATTTT
Found at i:2379751 original size:15 final size:15
Alignment explanation
Indices: 2379702--2379753 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
2379692 AGTGAATAAT
2379702 ATATTTTTTGATCTA
1 ATATTTTTTGATCTA
** *
2379717 ATATCGGTTAGAT-T-
1 ATAT-TTTTTGATCTA
2379731 ATATTTTTTGATCTA
1 ATATTTTTTGATCTA
2379746 ATATTTTT
1 ATATTTTT
2379754 AACAGTAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
13 5 0.18
14 5 0.18
15 13 0.46
16 5 0.18
ACGTcount: A:0.27, C:0.06, G:0.10, T:0.58
Consensus pattern (15 bp):
ATATTTTTTGATCTA
Found at i:2380046 original size:20 final size:19
Alignment explanation
Indices: 2380006--2380046 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
2379996 TTTTATCACA
* *
2380006 CTAAATTCTCTCAATTTCT
1 CTAAATTCTCTCAAATACT
2380025 CTAAATTTCTCTCAAATACT
1 CTAAA-TTCTCTCAAATACT
2380045 CT
1 CT
2380047 CTTTTTAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.29, C:0.27, G:0.00, T:0.44
Consensus pattern (19 bp):
CTAAATTCTCTCAAATACT
Found at i:2380301 original size:100 final size:102
Alignment explanation
Indices: 2380170--2380371 Score: 313
Period size: 100 Copynumber: 2.0 Consensus size: 102
2380160 TGGAAATCAT
* *
2380170 ATATCTCTACACTTTGCTAATACGGTAACATTTTAACGTTTTAAATT-A-TTAGTAATATTTAGT
1 ATATCTCTACACTTTGCTAATACGGTAACATTTTAACGTTTTAAATTAATTTA-AAATAATTAGT
*
2380233 T-ATTTATTTAATGCATGATTATTAGATTAAGAATTAA
65 TGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
* *
2380270 ATATCT-TGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAAATAATTAGT
1 ATATCTCT-ACACTTTGCTAATACGGTAACATTTTAACGTTTTAAATTAATTTAAAATAATTAGT
2380334 TGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
65 TGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
2380372 TTTTTGTAAT
Statistics
Matches: 93, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
99 1 0.01
100 43 0.46
101 11 0.12
102 38 0.41
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.44
Consensus pattern (102 bp):
ATATCTCTACACTTTGCTAATACGGTAACATTTTAACGTTTTAAATTAATTTAAAATAATTAGTT
GATTCATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:2381832 original size:46 final size:46
Alignment explanation
Indices: 2381765--2381884 Score: 161
Period size: 51 Copynumber: 2.5 Consensus size: 46
2381755 TTATACAAAA
2381765 CGCGGTACCTGCCCCGCGCTATATAAAATTATGT-GTAAAGGTATGT
1 CGCGGTACCTG-CCCGCGCTATATAAAATTATGTAGTAAAGGTATGT
*
2381811 CGCGGTATCTGCCCAGCGCTATATAAAATTATGTAAGGAGTAAAGGTATGT
1 CGCGGTACCTGCCC-GCGCTATATAAAATTATGT----AGTAAAGGTATGT
2381862 CGCGGTACCTGCCTCGCGCTATA
1 CGCGGTACCTGCC-CGCGCTATA
2381885 CCCCTACATG
Statistics
Matches: 65, Mismatches: 2, Indels: 9
0.86 0.03 0.12
Matches are distributed among these distances:
45 3 0.05
46 29 0.45
51 32 0.49
52 1 0.02
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.27
Consensus pattern (46 bp):
CGCGGTACCTGCCCGCGCTATATAAAATTATGTAGTAAAGGTATGT
Found at i:2382002 original size:51 final size:51
Alignment explanation
Indices: 2381895--2382024 Score: 136
Period size: 51 Copynumber: 2.5 Consensus size: 51
2381885 CCCCTACATG
* * * * * *
2381895 TCGTATAGCGCGCTACAGGGGCCGTGCTATACCCACGTATATGCCAGATCA
1 TCGTATAGCGCGATACAGGGGACGCGCTATACCCACGTAGACGCCAAATCA
* * * * *
2381946 CCGTATAGCGCGGTACAGGGGGCGCGCTATACCCCACGT-GGCGTCAAATCA
1 TCGTATAGCGCGATACAGGGGACGCGCTATA-CCCACGTAGACGCCAAATCA
*
2381997 TCGTATAGCGCGATGCAGGGGACGCGCT
1 TCGTATAGCGCGATACAGGGGACGCGCT
2382025 TTACTGCTAA
Statistics
Matches: 65, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
51 58 0.89
52 7 0.11
ACGTcount: A:0.22, C:0.29, G:0.31, T:0.18
Consensus pattern (51 bp):
TCGTATAGCGCGATACAGGGGACGCGCTATACCCACGTAGACGCCAAATCA
Found at i:2382887 original size:11 final size:11
Alignment explanation
Indices: 2382841--2382918 Score: 56
Period size: 11 Copynumber: 7.4 Consensus size: 11
2382831 ATAACTATTC
* *
2382841 AAATGATTAAA
1 AAATTATTATA
*
2382852 AAATTATTATT
1 AAATTATTATA
* *
2382863 ACATT-TTATC
1 AAATTATTATA
2382873 AAATTATTATA
1 AAATTATTATA
* *
2382884 AAATAATTATT
1 AAATTATTATA
2382895 AAATTA--ATCA
1 AAATTATTAT-A
2382905 AAA-TATTATA
1 AAATTATTATA
2382915 AAAT
1 AAAT
2382919 AATGCTTAAA
Statistics
Matches: 51, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
9 4 0.08
10 15 0.29
11 32 0.63
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (11 bp):
AAATTATTATA
Found at i:2382912 original size:31 final size:31
Alignment explanation
Indices: 2382841--2382943 Score: 118
Period size: 31 Copynumber: 3.3 Consensus size: 31
2382831 ATAACTATTC
* * *
2382841 AAATGATTAAAAAATTATTATTACATTTTATCA
1 AAAT-ATTATAAAATAATTATTA-AATTTATCA
* *
2382874 AATTATTATAAAATAATTATTAAATTAATCA
1 AAATATTATAAAATAATTATTAAATTTATCA
**
2382905 AAATATTATAAAATAATGCTTAAATTTATCA
1 AAATATTATAAAATAATTATTAAATTTATCA
2382936 AAAT-TTAT
1 AAATATTAT
2382944 TATTTTTATA
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
30 4 0.07
31 38 0.62
32 16 0.26
33 3 0.05
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (31 bp):
AAATATTATAAAATAATTATTAAATTTATCA
Found at i:2382968 original size:22 final size:22
Alignment explanation
Indices: 2382942--2382986 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
2382932 ATCAAAATTT
2382942 ATTATTTTTATAATA-TATAATA
1 ATTA-TTTTATAATAGTATAATA
*
2382964 ATTATTTTATAATAGTTTAATA
1 ATTATTTTATAATAGTATAATA
2382986 A
1 A
2382987 ATTAATAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
ATTATTTTATAATAGTATAATA
Found at i:2383013 original size:19 final size:19
Alignment explanation
Indices: 2382962--2383024 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
2382952 TAATATATAA
*
2382962 TAATTATTTTATAATAGTT
1 TAATAATTTTATAATAGTT
* *
2382981 TAATAAATTAATAATTA-TT
1 TAATAATTTTATAA-TAGTT
* *
2383000 TTATAATTTTATAA-ATTT
1 TAATAATTTTATAATAGTT
2383018 TAATAAT
1 TAATAAT
2383025 AAAAAATATC
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
17 1 0.03
18 8 0.23
19 24 0.69
20 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (19 bp):
TAATAATTTTATAATAGTT
Found at i:2384235 original size:26 final size:26
Alignment explanation
Indices: 2384205--2384259 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
2384195 AAGATGTGTA
2384205 AGTTTTTTCAAGGATCTCAGTTTTAT
1 AGTTTTTTCAAGGATCTCAGTTTTAT
2384231 AGTTTTTTCAAGGATCTCAGTTTTAT
1 AGTTTTTTCAAGGATCTCAGTTTTAT
2384257 AGT
1 AGT
2384260 CATAGGTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.24, C:0.11, G:0.16, T:0.49
Consensus pattern (26 bp):
AGTTTTTTCAAGGATCTCAGTTTTAT
Found at i:2389377 original size:15 final size:15
Alignment explanation
Indices: 2389351--2389398 Score: 51
Period size: 17 Copynumber: 3.0 Consensus size: 15
2389341 TTCAAACATC
*
2389351 CAAACAAATCCAAAGT
1 CAAAC-AATCCAAAAT
*
2389367 CTAACAATCCACAAAAT
1 CAAACAAT-C-CAAAAT
2389384 CAAACAATCCAAAAT
1 CAAACAATCCAAAAT
2389399 ATTCAAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 9 0.33
16 6 0.22
17 12 0.44
ACGTcount: A:0.56, C:0.27, G:0.02, T:0.15
Consensus pattern (15 bp):
CAAACAATCCAAAAT
Found at i:2391385 original size:21 final size:21
Alignment explanation
Indices: 2391359--2391398 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2391349 CAGAACCCCA
*
2391359 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
2391380 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
2391399 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:2395325 original size:22 final size:21
Alignment explanation
Indices: 2395283--2395322 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2395273 GAGTTTATTT
*
2395283 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
2395304 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
2395323 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:2397730 original size:21 final size:21
Alignment explanation
Indices: 2397704--2397748 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2397694 GATTTCTGGG
* *
2397704 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
2397725 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
2397746 CAA
1 CAA
2397749 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:2398353 original size:18 final size:18
Alignment explanation
Indices: 2398330--2398364 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
2398320 CTAGGAGATT
2398330 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
2398348 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
2398365 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:2398608 original size:2 final size:2
Alignment explanation
Indices: 2398601--2398634 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
2398591 AATCTTGAGG
*
2398601 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2398635 GAAATGAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2399431 original size:22 final size:22
Alignment explanation
Indices: 2399403--2399483 Score: 144
Period size: 22 Copynumber: 3.6 Consensus size: 22
2399393 ATTATTATAT
2399403 GGCACTTCGGTGCAATTCTACG
1 GGCACTTCGGTGCAATTCTACG
*
2399425 GGCACTTCGGTGCAATTCTACA
1 GGCACTTCGGTGCAATTCTACG
2399447 GGCACTTCGGTGCAATTCTACGG
1 GGCACTTCGGTGCAATTCTAC-G
2399470 GGCACTTCGGTGCA
1 GGCACTTCGGTGCA
2399484 TTTATACGAG
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
22 42 0.75
23 14 0.25
ACGTcount: A:0.19, C:0.27, G:0.28, T:0.26
Consensus pattern (22 bp):
GGCACTTCGGTGCAATTCTACG
Found at i:2402677 original size:21 final size:21
Alignment explanation
Indices: 2402651--2402695 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2402641 GATTTCTGGG
* *
2402651 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
2402672 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
2402693 CAA
1 CAA
2402696 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:2403303 original size:18 final size:18
Alignment explanation
Indices: 2403280--2403314 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
2403270 CTAGGAGATT
2403280 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
2403298 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
2403315 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:2403821 original size:2 final size:2
Alignment explanation
Indices: 2403814--2403843 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2403804 ATGATATGAA
2403814 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2403844 GTGAAAACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2404389 original size:22 final size:22
Alignment explanation
Indices: 2404361--2404441 Score: 153
Period size: 22 Copynumber: 3.6 Consensus size: 22
2404351 ATTATTATAT
2404361 GGCACTTCGGTGCAATTCTACG
1 GGCACTTCGGTGCAATTCTACG
2404383 GGCACTTCGGTGCAATTCTACG
1 GGCACTTCGGTGCAATTCTACG
2404405 GGCACTTCGGTGCAATTCTACGG
1 GGCACTTCGGTGCAATTCTAC-G
2404428 GGCACTTCGGTGCA
1 GGCACTTCGGTGCA
2404442 TTTATACGAG
Statistics
Matches: 58, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
22 43 0.74
23 15 0.26
ACGTcount: A:0.17, C:0.27, G:0.30, T:0.26
Consensus pattern (22 bp):
GGCACTTCGGTGCAATTCTACG
Found at i:2406323 original size:23 final size:23
Alignment explanation
Indices: 2406293--2406376 Score: 105
Period size: 23 Copynumber: 3.7 Consensus size: 23
2406283 CTCATATAAA
** *
2406293 TGCACCGAAGTGAAATGTAGATT
1 TGCACCGAAGTGCCACGTAGATT
*
2406316 TGCACCGAAATGCCACGTAGATT
1 TGCACCGAAGTGCCACGTAGATT
*
2406339 TGCACTGAAGTGCCACGTAGATT
1 TGCACCGAAGTGCCACGTAGATT
**
2406362 TGCATTGAAGTGCCA
1 TGCACCGAAGTGCCA
2406377 TATAAGATGT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 54 1.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGATT
Found at i:2409297 original size:60 final size:60
Alignment explanation
Indices: 2409225--2409419 Score: 157
Period size: 60 Copynumber: 3.2 Consensus size: 60
2409215 TTGCATCTTA
* * *
2409225 CATCCTCAAATTATGACTCTTATTCTAAATTAGT-TTCTAAACTTTTAAATA-TTCTAATTT
1 CATCCTCAAATTATAAATCTTATTCTAAATTAGTCCT-TAAACTTTTAAATATTTC-AATTT
* * * * *
2409285 CATCCTTAAATTATAAATTTTATTTTAAATTAGTCCTTAAACTTTTGAATATTTCATTTT
1 CATCCTCAAATTATAAATCTTATTCTAAATTAGTCCTTAAACTTTTAAATATTTCAATTT
* * * * * * * * *
2409345 CATCCTCAAACTGT-AACCTTCATT-TAAAATTAATTCTCAACCTTTTTGAACATTTCAATTT
1 CATCCTCAAATTATAAATCTT-ATTCT-AAATTAGTCCTTAAAC-TTTTAAATATTTCAATTT
2409406 CAT-CTCAAATTATA
1 CATCCTCAAATTATA
2409420 TGTATATACT
Statistics
Matches: 108, Mismatches: 21, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
59 5 0.05
60 80 0.74
61 23 0.21
ACGTcount: A:0.34, C:0.17, G:0.03, T:0.46
Consensus pattern (60 bp):
CATCCTCAAATTATAAATCTTATTCTAAATTAGTCCTTAAACTTTTAAATATTTCAATTT
Found at i:2409612 original size:60 final size:60
Alignment explanation
Indices: 2409538--2409701 Score: 199
Period size: 60 Copynumber: 2.8 Consensus size: 60
2409528 TTTGGATGAC
* * *
2409538 TTTGGGAATGAAATTGAAAGATTCAAAAGTTTATGGATCAATTTAGAATGAGAA-TCATAG
1 TTTGGGGATGAAATTGAAAGATTCAAAAGTTTAAGGATAAATTTAGAATGA-AAGTCATAG
* *
2409598 TTTGGGGATGAAATTGAAATG-TTCAAAGGTTTAAGGATTAATTTAGAATGAAAGTCATAG
1 TTTGGGGATGAAATTGAAA-GATTCAAAAGTTTAAGGATAAATTTAGAATGAAAGTCATAG
** * * *
2409658 TTTAAGGATGGAA-TGGAATATTCAAAAGTTTAAGGATAAATTTA
1 TTTGGGGATGAAATTGAAAGATTCAAAAGTTTAAGGATAAATTTA
2409702 AAGTAGGGAT
Statistics
Matches: 90, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
59 28 0.31
60 61 0.68
61 1 0.01
ACGTcount: A:0.41, C:0.04, G:0.23, T:0.33
Consensus pattern (60 bp):
TTTGGGGATGAAATTGAAAGATTCAAAAGTTTAAGGATAAATTTAGAATGAAAGTCATAG
Found at i:2411539 original size:34 final size:35
Alignment explanation
Indices: 2411491--2411558 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 35
2411481 ATATAATTTG
*
2411491 GATAAATTAATCGATT-ATATAAATTTGGATATCT
1 GATAAATTAATCGATTAATATAAATTTAGATATCT
* *
2411525 GATATATTAATCGATTAATGTAAATTTAGATATC
1 GATAAATTAATCGATTAATATAAATTTAGATATC
2411559 GCAGAGATTC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 15 0.50
35 15 0.50
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (35 bp):
GATAAATTAATCGATTAATATAAATTTAGATATCT
Found at i:2427924 original size:60 final size:60
Alignment explanation
Indices: 2427837--2427976 Score: 149
Period size: 60 Copynumber: 2.3 Consensus size: 60
2427827 TAAATGTTTT
* * * * *
2427837 AATTTCATGCTTAAACTATAAATTTCA-TTATAAATTAGTCCTTAAAC-TTTTGAATATTTC
1 AATTTCAT-CTCAAACTATAAACTTCATTTA-AAATTAATCCTCAAACTTTTTGAACATTTC
* * * *
2427897 ATTTTTATCCTCAAACTATAACCTTCATTTAAAATTAATTCTCAAACTTTTTGAACATTTC
1 AATTTCAT-CTCAAACTATAAACTTCATTTAAAATTAATCCTCAAACTTTTTGAACATTTC
*
2427958 AATTTCATCTCAAATTATA
1 AATTTCATCTCAAACTATA
2427977 TGTATATACT
Statistics
Matches: 65, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
60 44 0.68
61 21 0.32
ACGTcount: A:0.36, C:0.16, G:0.03, T:0.44
Consensus pattern (60 bp):
AATTTCATCTCAAACTATAAACTTCATTTAAAATTAATCCTCAAACTTTTTGAACATTTC
Done.