Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008747.1 Hibiscus syriacus cultivar Beakdansim tig00111837_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: 12616935
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 51
Found at i:821218 original size:15 final size:15
Alignment explanation
Indices: 821198--821228 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
821188 ATGAATGAAT
*
821198 TGACATGCTTTCTTG
1 TGACATGCTTGCTTG
821213 TGACATGCTTGCTTG
1 TGACATGCTTGCTTG
821228 T
1 T
821229 ATTCACATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.19, G:0.23, T:0.45
Consensus pattern (15 bp):
TGACATGCTTGCTTG
Found at i:822295 original size:17 final size:16
Alignment explanation
Indices: 822254--822297 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
822244 AAATATCTTT
822254 TAAAATAATTTTAAGA
1 TAAAATAATTTTAAGA
822270 -AAAATAATTTTAAAAGA
1 TAAAATAATTTT--AAGA
822287 TAAAA-AATTTT
1 TAAAATAATTTT
822298 GATATGCGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 11 0.44
17 10 0.40
18 4 0.16
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (16 bp):
TAAAATAATTTTAAGA
Found at i:822598 original size:15 final size:15
Alignment explanation
Indices: 822578--822608 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
822568 ATATTACCCT
822578 AAATTTTTAAATACA
1 AAATTTTTAAATACA
822593 AAATTTTTAAATACA
1 AAATTTTTAAATACA
822608 A
1 A
822609 TAAAATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (15 bp):
AAATTTTTAAATACA
Found at i:824238 original size:6 final size:6
Alignment explanation
Indices: 824203--824245 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
824193 TTATTATTTA
* * *
824203 ATAATA ATAATA ATAATC ATAATC ATAATC ATAATC ACAATC A
1 ATAATC ATAATC ATAATC ATAATC ATAATC ATAATC ATAATC A
824246 CGATCACGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.56, C:0.14, G:0.00, T:0.30
Consensus pattern (6 bp):
ATAATC
Found at i:824246 original size:6 final size:6
Alignment explanation
Indices: 824236--824486 Score: 493
Period size: 6 Copynumber: 41.8 Consensus size: 6
824226 CATAATCATA
*
824236 ATCACA ATCACG ATCACG ATCACG ATCACG ATCACG ATCACG ATCACG
1 ATCACG ATCACG ATCACG ATCACG ATCACG ATCACG ATCACG ATCACG
824284 ATCACG ATCACG ATCACG ATCACG ATCACG ATCACG ATCACG ATCACG
1 ATCACG ATCACG ATCACG ATCACG ATCACG ATCACG ATCACG ATCACG
824332 ATCACG ATCACG ATCACG ATCACG ATCACG ATCACG ATCACG ATCACG
1 ATCACG ATCACG ATCACG ATCACG ATCACG ATCACG ATCACG ATCACG
824380 ATCACG ATCACG ATCACG ATCACG ATCACG ATCACG ATCACG ATCACG
1 ATCACG ATCACG ATCACG ATCACG ATCACG ATCACG ATCACG ATCACG
824428 ATCACG ATCACG ATCACG ATCACG ATCACG ATCACG ATCACG ATCACG
1 ATCACG ATCACG ATCACG ATCACG ATCACG ATCACG ATCACG ATCACG
824476 ATCACG ATCAC
1 ATCACG ATCAC
824487 AATAATAATA
Statistics
Matches: 244, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 244 1.00
ACGTcount: A:0.34, C:0.33, G:0.16, T:0.17
Consensus pattern (6 bp):
ATCACG
Found at i:824495 original size:3 final size:3
Alignment explanation
Indices: 824487--824526 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
824477 TCACGATCAC
824487 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
824527 CAATGTTGGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:825125 original size:89 final size:88
Alignment explanation
Indices: 824972--825226 Score: 314
Period size: 89 Copynumber: 2.9 Consensus size: 88
824962 AAATTTGAAT
* * * * * * *
824972 AAGAAGAATCTGCTCATCTAATCTTTCGGGGAGATCAGACTCAAGATTTATTTGATTCGTTACTC
1 AAGAAGAATCTGCTCA-CTACTCTTCCGTGGTGATCAGACTCGAGATTGATTTGATTCGCTACTC
* * * *
825037 TTTTGGGAATATCAAATCTAG-AAC
65 TTTCGGGAAGAACAAATAT-GTAAC
* * *
825061 AAGAAGAATCTGCTCCACTACTCTTCCGTGGTGATCAGACTTGAGATTGATTTGGTTCACTACTC
1 AAGAAGAATCTGCT-CACTACTCTTCCGTGGTGATCAGACTCGAGATTGATTTGATTCGCTACTC
825126 TTTCGGGAAGAACAAATATGTAAC
65 TTTCGGGAAGAACAAATATGTAAC
*
825150 AAGAAGAATCTGCTTCACTACTCTTCCGTGGTGATCAAACTCGAGATTGATTTTGATTCGCTACT
1 AAGAAGAATCTGC-TCACTACTCTTCCGTGGTGATCAGACTCGAGATTGA-TTTGATTCGCTACT
*
825215 CTTTCGAGAAGA
64 CTTTCGGGAAGA
825227 CTAAATCTGA
Statistics
Matches: 143, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
88 1 0.01
89 116 0.81
90 26 0.18
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.32
Consensus pattern (88 bp):
AAGAAGAATCTGCTCACTACTCTTCCGTGGTGATCAGACTCGAGATTGATTTGATTCGCTACTCT
TTCGGGAAGAACAAATATGTAAC
Found at i:825418 original size:62 final size:62
Alignment explanation
Indices: 825242--825429 Score: 234
Period size: 62 Copynumber: 3.0 Consensus size: 62
825232 TCTGAAATAA
* * * * *
825242 GACTTCTCTTTACGAGGACGTCAAGAATTGACTCTGTTGGGGAAT-AAGGAATAACAAAGGGT
1 GACTTCTCTTTACGAGGAAGTCAAGTATTGACTCTGCTGGGGAGTCAA-GAATAACAAAGGTT
* * ** *
825304 GACTTCTCTTTACGAGGAAATCAAGTATTGACTCTACTGGGGAGTCGGGAATAAAAAAGGTT
1 GACTTCTCTTTACGAGGAAGTCAAGTATTGACTCTGCTGGGGAGTCAAGAATAACAAAGGTT
* * * *
825366 GACTTCTCTTTATGGGGAAGTCAAGTATTGACTCTGCTAGGTAGTCAAGAATAACAAAGGTT
1 GACTTCTCTTTACGAGGAAGTCAAGTATTGACTCTGCTGGGGAGTCAAGAATAACAAAGGTT
825428 GA
1 GA
825430 AAACATCCTA
Statistics
Matches: 106, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
62 106 1.00
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (62 bp):
GACTTCTCTTTACGAGGAAGTCAAGTATTGACTCTGCTGGGGAGTCAAGAATAACAAAGGTT
Found at i:825788 original size:41 final size:41
Alignment explanation
Indices: 825708--825813 Score: 97
Period size: 41 Copynumber: 2.6 Consensus size: 41
825698 ACCCGAAGGT
* * * *
825708 CTTACGGATGGCCCGAAAGACTTATCATCTTGCTCGAAAGA
1 CTTACAGATGACCCGAAAGACTTATCATCATACTCGAAAGA
* * *
825749 CTTACAGATGACCCG-AAGATTTAATCATCATACTGGAAAGG
1 CTTACAGATGACCCGAAAGACTT-ATCATCATACTCGAAAGA
* * * *
825790 CTTACTGATGGCCTGAAGGACTTA
1 CTTACAGATGACCCGAAAGACTTA
825814 CAAATTTTGG
Statistics
Matches: 51, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
40 6 0.12
41 40 0.78
42 5 0.10
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (41 bp):
CTTACAGATGACCCGAAAGACTTATCATCATACTCGAAAGA
Found at i:825973 original size:257 final size:256
Alignment explanation
Indices: 825430--826189 Score: 1153
Period size: 258 Copynumber: 2.9 Consensus size: 256
825420 CAAAGGTTGA
* * * *
825430 AAACATCCTACCCGAAGGTCTTACGAATGGCCCGAAGGACTTATCATCTTGCTCAAAAGACTAAC
1 AAACATCCTACCCGAAGGTCTTACGGATGGCCCGAAAGACTTATCATCTTGCTCGAAAGACTTAC
* *
825495 AGATGACCCGAAGAGTTTAATCATCATGCTCGAAAGACTTACTGATTGCCAAAAGGACTTACAAA
66 AGATGACCCGAAGA-TTTAATCATCATGCTCGAAAGACTTACTGATGGCCTAAAGGACTTACAAA
** * *
825560 TTTTGGAAATGGTTTAATGGGTAAGAAACTTTGGTAATCACTTTCTTACATTTTAAGAATTTCAT
130 TTTTGGAAATAATTTACTGGGTAAGAAACTTTGGTAATCACTTTCTTAC-TTTCAAGAATTTCA-
*
825625 TTTTCTGAAAACATAAAATGAGAAACTTTGGTAATCGCTTTCTCATTTTTTGAAAATCATGTGG
193 TTTTCTGAAAACATTAAATGAGAAACTTTGGTAATCGCTTTCTCATTTTTTGAAAATCATGTGG
825689 AAACATCCTACCCGAAGGTCTTACGGATGGCCCGAAAGACTTATCATCTTGCTCGAAAGACTTAC
1 AAACATCCTACCCGAAGGTCTTACGGATGGCCCGAAAGACTTATCATCTTGCTCGAAAGACTTAC
* * * *
825754 AGATGACCCGAAGATTTAATCATCATACTGGAAAGGCTTACTGATGGCCTGAAGGACTTACAAAT
66 AGATGACCCGAAGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCTAAAGGACTTACAAAT
*
825819 TTTGGAAATAATTTACTGGGCAAGAAACTTTGGTAATCACTTTCTTACTTGTCAAGAATTTCATT
131 TTTGGAAATAATTTACTGGGTAAGAAACTTTGGTAATCACTTTCTTACTT-TCAAGAATTTCATT
*
825884 TTCTGAAAACATTAAATGAGAAACTTTGGTAATCACTTTCTCATTTTTTGAAAATCATGTGG
195 TTCTGAAAACATTAAATGAGAAACTTTGGTAATCGCTTTCTCATTTTTTGAAAATCATGTGG
* * * * * *
825946 AAACATCCTACCCGAAGGTCATACGGATGGCCCGACACACTTACCATTTTTCTCGAAAGACTTAC
1 AAACATCCTACCCGAAGGTCTTACGGATGGCCCGAAAGACTTATCATCTTGCTCGAAAGACTTAC
* * *
826011 AGATGACCTGAGCGATTTAATCATCATGCTCAAAAGACTTACTGATGG-CTCAAAGGACTTACAA
66 AGATGACCCGA-AGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCT-AAAGGACTTACAA
** *** *
826075 ATTTTGGAAATAATTTACTGGGTAAGAAACTTTTCTAATTGTTTTCTTACTTTTCAAGAATTTTA
129 ATTTTGGAAATAATTTACTGGGTAAGAAACTTTGGTAATCACTTTCTTAC-TTTCAAGAATTTCA
*
826140 TTTTCTGAAAACATTAAATGAGAAACTTTGGTAATCGCTTTCTTATTTTT
193 TTTTCTGAAAACATTAAATGAGAAACTTTGGTAATCGCTTTCTCATTTTT
826190 AAAATAATTT
Statistics
Matches: 458, Mismatches: 39, Indels: 9
0.91 0.08 0.02
Matches are distributed among these distances:
257 135 0.29
258 246 0.54
259 77 0.17
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (256 bp):
AAACATCCTACCCGAAGGTCTTACGGATGGCCCGAAAGACTTATCATCTTGCTCGAAAGACTTAC
AGATGACCCGAAGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCTAAAGGACTTACAAAT
TTTGGAAATAATTTACTGGGTAAGAAACTTTGGTAATCACTTTCTTACTTTCAAGAATTTCATTT
TCTGAAAACATTAAATGAGAAACTTTGGTAATCGCTTTCTCATTTTTTGAAAATCATGTGG
Found at i:826993 original size:20 final size:20
Alignment explanation
Indices: 826968--827022 Score: 110
Period size: 20 Copynumber: 2.8 Consensus size: 20
826958 AATGCAATTA
826968 GTGCATCGATGCATCCTTAT
1 GTGCATCGATGCATCCTTAT
826988 GTGCATCGATGCATCCTTAT
1 GTGCATCGATGCATCCTTAT
827008 GTGCATCGATGCATC
1 GTGCATCGATGCATC
827023 AAGGCTGTGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.33
Consensus pattern (20 bp):
GTGCATCGATGCATCCTTAT
Found at i:827202 original size:20 final size:22
Alignment explanation
Indices: 827164--827203 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
827154 TTTGAGTAGA
827164 AAAATCATCCCCAAACGGCTCC
1 AAAATCATCCCCAAACGGCTCC
827186 AAAA-CATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
827204 ATATACAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.40, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCC
Found at i:827457 original size:34 final size:32
Alignment explanation
Indices: 827418--827487 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
827408 TTTTGTAAAG
* *
827418 GGGAAAGGTTCTAGCTTATCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
827452 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
827484 GGGA
1 GGGA
827488 GTTTATAAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 11 0.33
33 1 0.03
34 21 0.64
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:828453 original size:42 final size:42
Alignment explanation
Indices: 828353--828522 Score: 141
Period size: 42 Copynumber: 4.0 Consensus size: 42
828343 CGTAAGATGT
* * * *
828353 TATGGGCCTTCAAAAATGCCCCAACATTTATTATTTCTTGTTGA
1 TATGGACCTTC-AAAATGCCCCAACA-TTAATATTTCTGGCTGA
828397 TAT-GATCCTTCAAAATGCCCCAACATTAATACTTT-TGGCTGA
1 TATGGA-CCTTCAAAATGCCCCAACATTAATA-TTTCTGGCTGA
* * *
828439 TATGGACCTTCAAAATACGCCAACATT--TATTTCTTGCTGA
1 TATGGACCTTCAAAATGCCCCAACATTAATATTTCTGGCTGA
* * * * * * *
828479 AACGGGCCTTCAAAATGCACAAACATATAATATTTTTGGATGA
1 TATGGACCTTCAAAATGCCCCAACAT-TAATATTTCTGGCTGA
828522 T
1 T
828523 CCAGCACTAA
Statistics
Matches: 102, Mismatches: 17, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
39 3 0.03
40 28 0.27
41 1 0.01
42 32 0.31
43 30 0.29
44 8 0.08
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.34
Consensus pattern (42 bp):
TATGGACCTTCAAAATGCCCCAACATTAATATTTCTGGCTGA
Found at i:829349 original size:100 final size:99
Alignment explanation
Indices: 829188--829399 Score: 264
Period size: 100 Copynumber: 2.1 Consensus size: 99
829178 TCAGCTTTAT
*
829188 TATATATTATAATCACCTTTATCAGGCTAGCTGAATCTGATCCATAAAACTGAGGCGTTTAACCA
1 TATATATTATAATCACCTTTATCAGGCTAGCTGAATCTGATCCATAAAACTGAGGCATTTAACCA
*
829253 TTTGCTCTAGAGGGACAACGCAAGCTTTATTGTA
66 ATTGCTCTAGAGGGACAACGCAAGCTTTATTGTA
* ** * * *
829287 TATATATTTATAATCACCTTTATCAGGCTAGCTGAATTTTTTCCAT-AAAGTCGGGGCATTTAAT
1 TATATA-TTATAATCACCTTTATCAGGCTAGCTGAATCTGATCCATAAAACT-GAGGCATTTAAC
* * ** *
829351 CAATTGCTCTAGAGGGATAGCTAAAGCTTTATAGTA
64 CAATTGCTCTAGAGGGACAACGCAAGCTTTATTGTA
* *
829387 TACATATAATAAT
1 TATATATTATAAT
829400 TATATTATGG
Statistics
Matches: 96, Mismatches: 15, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
99 16 0.17
100 80 0.83
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.35
Consensus pattern (99 bp):
TATATATTATAATCACCTTTATCAGGCTAGCTGAATCTGATCCATAAAACTGAGGCATTTAACCA
ATTGCTCTAGAGGGACAACGCAAGCTTTATTGTA
Found at i:840509 original size:18 final size:19
Alignment explanation
Indices: 840488--840526 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
840478 TAATAATATG
*
840488 TATATACATGATAT-GTTT
1 TATAGACATGATATAGTTT
*
840506 TATAGACATGTTATAGTTT
1 TATAGACATGATATAGTTT
840525 TA
1 TA
840527 ATTTTTTATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.33, C:0.05, G:0.13, T:0.49
Consensus pattern (19 bp):
TATAGACATGATATAGTTT
Found at i:845044 original size:3 final size:3
Alignment explanation
Indices: 845036--845109 Score: 121
Period size: 3 Copynumber: 24.7 Consensus size: 3
845026 ATATTATAAA
* *
845036 TAT TAT TAT TAT TGT TAT TAT AAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
845084 TAT TAT CAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
845110 AATATATATT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:845044 original size:12 final size:12
Alignment explanation
Indices: 845027--845109 Score: 94
Period size: 12 Copynumber: 6.9 Consensus size: 12
845017 TTTTTACCCA
*
845027 TATTATAAATAT
1 TATTATAATTAT
* *
845039 TATTATTATTGT
1 TATTATAATTAT
845051 TATTATAATTAT
1 TATTATAATTAT
*
845063 TATTATTATTAT
1 TATTATAATTAT
*
845075 TATTATTATTAT
1 TATTATAATTAT
* *
845087 TATCATTATTAT
1 TATTATAATTAT
*
845099 TATTATTATTA
1 TATTATAATTA
845110 AATATATATT
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 63 1.00
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (12 bp):
TATTATAATTAT
Found at i:845121 original size:11 final size:10
Alignment explanation
Indices: 845105--845145 Score: 55
Period size: 11 Copynumber: 3.8 Consensus size: 10
845095 TTATTATTAT
845105 TATTAAATATA
1 TATTAAATA-A
845116 TATTAAATACA
1 TATTAAATA-A
845127 TATATAAATAA
1 TAT-TAAATAA
845138 TATTAAAT
1 TATTAAAT
845146 TACAAAGCCC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 5 0.18
11 17 0.61
12 6 0.21
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (10 bp):
TATTAAATAA
Found at i:857958 original size:10 final size:9
Alignment explanation
Indices: 857952--858001 Score: 75
Period size: 9 Copynumber: 5.7 Consensus size: 9
857942 GAAAAAATGA
857952 AAAAAAAAG
1 AAAAAAAAG
857961 AAAAAAAAG
1 AAAAAAAAG
*
857970 AGAAAAAAG
1 AAAAAAAAG
*
857979 AAAAAAGA-
1 AAAAAAAAG
857987 AAAAAAAAG
1 AAAAAAAAG
857996 AAAAAA
1 AAAAAA
858002 GGGGGGTCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
8 7 0.19
9 29 0.81
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:857988 original size:25 final size:24
Alignment explanation
Indices: 857954--858002 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 24
857944 AAAAATGAAA
857954 AAAAAAGAAAAAAAAGAGAAAAAAG
1 AAAAAAGAAAAAAAA-AGAAAAAAG
857979 AAAAAAGAAAAAAAAAGAAAAAAG
1 AAAAAAGAAAAAAAAAGAAAAAAG
858003 GGGGGTCAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 9 0.38
25 15 0.62
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (24 bp):
AAAAAAGAAAAAAAAAGAAAAAAG
Found at i:858002 original size:7 final size:7
Alignment explanation
Indices: 857940--857991 Score: 63
Period size: 7 Copynumber: 7.3 Consensus size: 7
857930 ATTATGCTTG
857940 AAGAAAA
1 AAGAAAA
857947 AATGAAAA
1 AA-GAAAA
857955 AA-AAAGA
1 AAGAAA-A
857962 AA-AAAA
1 AAGAAAA
857968 AGAGAAAA
1 A-AGAAAA
857976 AAGAAAA
1 AAGAAAA
857983 AAGAAAA
1 AAGAAAA
857990 AA
1 AA
857992 AAAGAAAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
6 5 0.12
7 24 0.59
8 12 0.29
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (7 bp):
AAGAAAA
Found at i:859295 original size:83 final size:83
Alignment explanation
Indices: 859147--859942 Score: 1362
Period size: 83 Copynumber: 9.6 Consensus size: 83
859137 GAATAAGTGC
* * * *
859147 AATGGGCTCATAGCATCTTTTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGAACCAAT
1 AATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGAACCAAT
*
859212 CATTGAATTTAGAAGATG
66 CATTGAATTTGGAAGATG
*
859230 AATGTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGAACCAAT
1 AATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGAACCAAT
859295 CATTGAATTTGGAAGATG
66 CATTGAATTTGGAAGATG
*
859313 AATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGAACCAAT
1 AATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGAACCAAT
859378 CATTGAATTTGGAAGATG
66 CATTGAATTTGGAAGATG
* *
859396 AATTTGCTAATAGTATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGAACCAAT
1 AATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGAACCAAT
859461 CATTGAATTTGGAAGATG
66 CATTGAATTTGGAAGATG
859479 AAAT-TGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGAACCAA
1 -AATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGAACCAA
859543 TCATTGAATTTGGAAGATG
65 TCATTGAATTTGGAAGATG
*
859562 AATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGAACCAAT
1 AATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGAACCAAT
*
859627 CATTGAATTTGGAAGATAA
66 CATTGAATTTGGAAGAT-G
*
859646 AAT-TGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
1 AATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGAACCAAT
* *
859710 CATTGAACTTAGAAGATG
66 CATTGAATTTGGAAGATG
* *
859728 AATGTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
1 AATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGAACCAAT
*
859793 CATTGAATTTAGAAGATG
66 CATTGAATTTGGAAGATG
* *
859811 AATGTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
1 AATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGAACCAAT
*
859876 CATTGAATTTAGAAGATG
66 CATTGAATTTGGAAGATG
* *
859894 AATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 AATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
859943 ATTCGGTAGG
Statistics
Matches: 691, Mismatches: 18, Indels: 8
0.96 0.03 0.01
Matches are distributed among these distances:
82 6 0.01
83 679 0.98
84 6 0.01
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (83 bp):
AATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGAACCAAT
CATTGAATTTGGAAGATG
Found at i:860887 original size:114 final size:114
Alignment explanation
Indices: 860687--861922 Score: 2048
Period size: 114 Copynumber: 10.8 Consensus size: 114
860677 AATCTATCAT
* * * * *
860687 TTGATAGATTAGCTTTTCCAAAAAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAAAAGA
1 TTGATGGATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
860752 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAA
66 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAA
860801 TTGATGGATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
860866 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAA
66 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAA
*
860915 TTGATGGATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGGAGAAGGAAGAAGA
1 TTGATGGATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
860980 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAA
66 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAA
861029 TTGATGGATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
861094 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAA
66 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAA
* *
861143 TTGATGGATTATCTTTTCCAGAGAAAGTTCATAATGAGAATAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
861208 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAA
66 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAA
*
861257 TTGATGGATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGA
1 TTGATGGATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
861322 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAA
66 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAA
*
861371 TTGATGGATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAATAAGA
1 TTGATGGATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
861436 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAA
66 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAA
861485 TTGATGGATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
861550 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAA
66 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAA
*
861599 TTGATGGATTATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
* * * * *
861664 AGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTCATC-AT
66 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAA
* * * * * *
861712 TTGATGGATCAACATTGCCAG-GTAGAGTTCATAATGAAAAGAACTCGTCATCTGAAGAAGGAAG
1 TTGATGGATTATCTTTTCCAGAGAAG-GTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAG
* * * * *
861776 AAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTCATC-AT
62 AAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAA
* * * * * * *
861828 TTGATGTATCAACATTGCCAG-GTAGAGTTCATAATGAAAAGAACTCGTCATCTGAAGAAGGAAG
1 TTGATGGATTATCTTTTCCAGAGAAG-GTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAG
* *
861892 AAGAAGTTCATAATAAGAAGAACTTGTTCAA
62 AAGAAGTTCATAATGAGAAGAATTTGTTCAA
861923 TAATTCTATC
Statistics
Matches: 1088, Mismatches: 30, Indels: 6
0.97 0.03 0.01
Matches are distributed among these distances:
112 2 0.00
113 34 0.03
114 889 0.82
115 1 0.00
116 162 0.15
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (114 bp):
TTGATGGATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAA
Found at i:862256 original size:3 final size:3
Alignment explanation
Indices: 862248--862327 Score: 124
Period size: 3 Copynumber: 26.7 Consensus size: 3
862238 ATATTATAAA
* * *
862248 TAT TAT TAT TAT TGT TAT TAT AAT TAT AAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
862296 TAT TAT TAT TAT CAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
862328 AATATATATT
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:862339 original size:11 final size:10
Alignment explanation
Indices: 862323--862363 Score: 55
Period size: 11 Copynumber: 3.8 Consensus size: 10
862313 TTATTATTAT
862323 TATTAAATATA
1 TATTAAATA-A
862334 TATTAAATACA
1 TATTAAATA-A
862345 TATATAAATAA
1 TAT-TAAATAA
862356 TATTAAAT
1 TATTAAAT
862364 TACAAAGCCC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 5 0.18
11 17 0.61
12 6 0.21
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (10 bp):
TATTAAATAA
Found at i:865506 original size:2 final size:2
Alignment explanation
Indices: 865499--865639 Score: 259
Period size: 2 Copynumber: 71.5 Consensus size: 2
865489 CTCATATCGG
865499 AT AT 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 AT AT
865541 AT AT 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 AT AT
865583 AT AT 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 AT AT
*
865625 AT -T AT -T TT AT AT AT A
1 AT AT AT AT AT AT AT AT A
865640 CAAATATACT
Statistics
Matches: 136, Mismatches: 1, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
1 2 0.01
2 134 0.99
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:867465 original size:29 final size:29
Alignment explanation
Indices: 867433--867505 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 29
867423 AAAGAAAGTA
*
867433 TAAAATAAATATAACGA-CAAAAATTATCT
1 TAAAATAAATATAACGATCAAAAATTA-CC
* *
867462 TAAAATATATATAA-GATCATAAATTACC
1 TAAAATAAATATAACGATCAAAAATTACC
*
867490 TAAACTAAATAATAAC
1 TAAAATAAAT-ATAAC
867506 AATGTAATAC
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
28 11 0.31
29 25 0.69
ACGTcount: A:0.58, C:0.11, G:0.03, T:0.29
Consensus pattern (29 bp):
TAAAATAAATATAACGATCAAAAATTACC
Found at i:869478 original size:40 final size:39
Alignment explanation
Indices: 869420--869541 Score: 165
Period size: 40 Copynumber: 3.1 Consensus size: 39
869410 TGGAGGTTTA
869420 TAATACACTTCGGTGTATATGGTGGGAATGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGAA-GACCTTATGTG
* * *
869460 TAATACACTTTGGCGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGG-AAGACCTTATGTG
*
869500 TAATACACTTCGATGTATATGGTGGGCACAG-CCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGG-A-AGACCTTATGTG
869540 TA
1 TA
869542 GCACTACGGT
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
40 71 0.97
41 2 0.03
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.34
Consensus pattern (39 bp):
TAATACACTTCGGTGTATATGGTGGGAAGACCTTATGTG
Found at i:869719 original size:45 final size:45
Alignment explanation
Indices: 869629--869929 Score: 482
Period size: 45 Copynumber: 6.8 Consensus size: 45
869619 GTAAGCCTGC
* * * *
869629 AAATAAGCTTACAAGCTTATGGAAT-AATGGAAAGTATATTAGTA
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
869673 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
* *
869718 AAATAAGCTTACGTGCTTATGGGATAAATAGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
* *
869763 AAATAACCTTACGAGCTTATGGGATAAAAGGTAA-TATATTGGTA
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
869807 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
* *
869852 AAATAAGCTTACAAGCTTATGGGATAAATGGTAGGTATATT-GTA
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
*
869896 AAATAAGCTTACGAGCTTATGGGATAAATAGTAA
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAA
869930 ATATGTTGAT
Statistics
Matches: 238, Mismatches: 17, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
44 99 0.42
45 139 0.58
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
Found at i:869736 original size:89 final size:90
Alignment explanation
Indices: 869629--869929 Score: 482
Period size: 89 Copynumber: 3.4 Consensus size: 90
869619 GTAAGCCTGC
* * * *
869629 AAATAAGCTTACAAGCTTATGGAAT-AATGGAAAGTATATTAGTAAAATAAGCTTACGAGCTTAT
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTAT
869693 GGGATAAATGGTAAGTATATTGGTA
66 GGGATAAATGGTAAGTATATTGGTA
* * *
869718 AAATAAGCTTACGTGCTTATGGGATAAATAGTAAGTATATTGGTAAAATAACCTTACGAGCTTAT
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTAT
*
869783 GGGATAAAAGGTAA-TATATTGGTA
66 GGGATAAATGGTAAGTATATTGGTA
*
869807 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACAAGCTTAT
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTAT
*
869872 GGGATAAATGGTAGGTATATT-GTA
66 GGGATAAATGGTAAGTATATTGGTA
*
869896 AAATAAGCTTACGAGCTTATGGGATAAATAGTAA
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAA
869930 ATATGTTGAT
Statistics
Matches: 195, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
89 141 0.72
90 54 0.28
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (90 bp):
AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTAT
GGGATAAATGGTAAGTATATTGGTA
Found at i:869870 original size:134 final size:134
Alignment explanation
Indices: 869629--869923 Score: 477
Period size: 134 Copynumber: 2.2 Consensus size: 134
869619 GTAAGCCTGC
* * *
869629 AAATAAGCTTACAAGCTTATGGAAT-AATGGAAAGTATATTAGTAAAATAAGCTTACGAGCTTAT
1 AAATAAGCTTACGAGCTTATGGGATAAAAGGAAAGTATATTAGTAAAATAAGCTTACGAGCTTAT
**
869693 GGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGTGCTTATGGGATAAATAGTAAGTATAT
66 GGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACAAGCTTATGGGATAAATAGTAAGTATAT
869758 TGGTA
131 T-GTA
* * *
869763 AAATAACCTTACGAGCTTATGGGATAAAAGGTAA-TATATTGGTAAAATAAGCTTACGAGCTTAT
1 AAATAAGCTTACGAGCTTATGGGATAAAAGGAAAGTATATTAGTAAAATAAGCTTACGAGCTTAT
* *
869827 GGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACAAGCTTATGGGATAAATGGTAGGTATAT
66 GGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACAAGCTTATGGGATAAATAGTAAGTATAT
869892 TGTA
131 TGTA
869896 AAATAAGCTTACGAGCTTATGGGATAAA
1 AAATAAGCTTACGAGCTTATGGGATAAA
869924 TAGTAAATAT
Statistics
Matches: 149, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
133 30 0.20
134 113 0.76
135 6 0.04
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (134 bp):
AAATAAGCTTACGAGCTTATGGGATAAAAGGAAAGTATATTAGTAAAATAAGCTTACGAGCTTAT
GGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACAAGCTTATGGGATAAATAGTAAGTATAT
TGTA
Found at i:872793 original size:7 final size:6
Alignment explanation
Indices: 872754--872854 Score: 77
Period size: 6 Copynumber: 16.7 Consensus size: 6
872744 AATATAATAT
* *
872754 AAGAAA AA-AAA TAGAAA AATAAA AAG-AA AAGAAA ACAGAAA AAGAATAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA A-AGAAA AAG-A-AA
* *
872803 AAGGAAA AAGAAA ACGAAGA AA-AAA ATAGAAC AAG-AA AAG-AA AAGAAA
1 AA-GAAA AAGAAA AAGAA-A AAGAAA A-AGAAA AAGAAA AAGAAA AAGAAA
872851 AAGA
1 AAGA
872855 GGAAAAATTA
Statistics
Matches: 77, Mismatches: 8, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
5 20 0.26
6 35 0.45
7 16 0.21
8 5 0.06
9 1 0.01
ACGTcount: A:0.77, C:0.03, G:0.16, T:0.04
Consensus pattern (6 bp):
AAGAAA
Found at i:872814 original size:21 final size:21
Alignment explanation
Indices: 872777--872851 Score: 66
Period size: 21 Copynumber: 3.6 Consensus size: 21
872767 GAAAAATAAA
872777 AAGAAAAGAAAACAGAAAAAG
1 AAGAAAAGAAAACAGAAAAAG
* *
872798 AATAAAAGGAAAA-AGAAAACG
1 AAGAAAA-GAAAACAGAAAAAG
* *
872819 AAG-AAA-AAAATAGAACAAGAA
1 AAGAAAAGAAAACAGAA-AA-AG
872840 AAGAAAAGAAAA
1 AAGAAAAGAAAA
872852 AGAGGAAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
18 4 0.09
19 4 0.09
20 5 0.12
21 18 0.42
22 8 0.19
23 4 0.09
ACGTcount: A:0.76, C:0.04, G:0.17, T:0.03
Consensus pattern (21 bp):
AAGAAAAGAAAACAGAAAAAG
Found at i:872824 original size:15 final size:14
Alignment explanation
Indices: 872780--872846 Score: 59
Period size: 15 Copynumber: 4.6 Consensus size: 14
872770 AAATAAAAAG
872780 AAAAGAAAAC-AGA
1 AAAAGAAAACAAGA
872793 AAAAGAATAA-AAGGA
1 AAAAGAA-AACAA-GA
872808 AAAAGAAAACGAAGA
1 AAAAGAAAAC-AAGA
*
872823 AAAAAATAGAACAAG-
1 AAAAGA-A-AACAAGA
872838 AAAAGAAAA
1 AAAAGAAAA
872847 GAAAAAGAGG
Statistics
Matches: 45, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
13 9 0.20
14 6 0.13
15 21 0.47
16 6 0.13
17 3 0.07
ACGTcount: A:0.76, C:0.04, G:0.16, T:0.03
Consensus pattern (14 bp):
AAAAGAAAACAAGA
Found at i:872838 original size:16 final size:16
Alignment explanation
Indices: 872758--872854 Score: 60
Period size: 16 Copynumber: 6.1 Consensus size: 16
872748 TAATATAAGA
*
872758 AAAAAAATAGAAAAAT
1 AAAAAAATAGAAAAAG
*
872774 AAAAAGAAAAGAAAACAG
1 AAAAA-AATAGAAAA-AG
*
872792 AAAAAGAAT--AAAAGG
1 AAAAA-AATAGAAAAAG
**
872807 AAAAAGAA-A-ACGAAG
1 AAAAA-AATAGAAAAAG
*
872822 AAAAAAATAGAACAAG
1 AAAAAAATAGAAAAAG
872838 AAAAGAAA-AGAAAAAG
1 AAAA-AAATAGAAAAAG
872854 A
1 A
872855 GGAAAAATTA
Statistics
Matches: 65, Mismatches: 10, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
14 2 0.03
15 18 0.28
16 25 0.38
17 11 0.17
18 9 0.14
ACGTcount: A:0.77, C:0.03, G:0.15, T:0.04
Consensus pattern (16 bp):
AAAAAAATAGAAAAAG
Found at i:876528 original size:40 final size:40
Alignment explanation
Indices: 876473--876594 Score: 183
Period size: 40 Copynumber: 3.0 Consensus size: 40
876463 TGCAGGTTTA
* *
876473 TAATACACTTCGGTGTATATGGTGGGCACGACCTTGTGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATATG
* *
876513 TAATACACTTCGGTGTATATGGTAGGCACGGCCTTATATG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATATG
*
876553 TAATACACTTCGGTGTATATGGTGGGCACAATCC-TATATG
1 TAATACACTTCGGTGTATATGGTGGGCACGA-CCTTATATG
876593 TA
1 TA
876595 GTGGTGCAAA
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
40 72 0.97
41 2 0.03
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATATG
Found at i:876783 original size:45 final size:45
Alignment explanation
Indices: 876694--876994 Score: 518
Period size: 45 Copynumber: 6.8 Consensus size: 45
876684 GTAAGCCTGG
* * * *
876694 AAATAAGCTTACAAGCTTATAGAAT-AATGGCAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
876738 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
*
876783 AAATAAGCTTACGAACTTATGGGATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
*
876828 AAATAAGCTTAAGAGCTTATGGGATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
876873 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATT-GTA
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
876917 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATT-GTA
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
*
876961 AAATAAGCTTACGAGCTTATGGGATAAATAGTAA
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAA
876995 ATATGTTGAT
Statistics
Matches: 247, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
44 102 0.41
45 145 0.59
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
Found at i:877324 original size:24 final size:24
Alignment explanation
Indices: 877292--877344 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
877282 GCATGAAATT
877292 AATAATATTCAATTTGTTTTATTG
1 AATAATATTCAATTTGTTTTATTG
*
877316 AATAATATTCAATTTGTTTTGTTG
1 AATAATATTCAATTTGTTTTATTG
877340 AATAA
1 AATAA
877345 ATTTGACTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.36, C:0.04, G:0.09, T:0.51
Consensus pattern (24 bp):
AATAATATTCAATTTGTTTTATTG
Found at i:877791 original size:31 final size:30
Alignment explanation
Indices: 877751--877808 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 30
877741 TGAGCTAAAA
877751 ATTATGAAACTC-AGCTCGAACTCGAAATAT
1 ATTATGAAACTCGA-CTCGAACTCGAAATAT
877781 ATTATTGAAACTCGACTCGAACTCGAAA
1 ATTA-TGAAACTCGACTCGAACTCGAAA
877809 ATGCTCGAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
30 4 0.15
31 21 0.81
32 1 0.04
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.26
Consensus pattern (30 bp):
ATTATGAAACTCGACTCGAACTCGAAATAT
Found at i:879176 original size:115 final size:115
Alignment explanation
Indices: 879045--879262 Score: 339
Period size: 115 Copynumber: 1.9 Consensus size: 115
879035 TATACATAAA
* * * *
879045 TAAGATATTTACTTATTTAGAAATATCAGAAAAG-GCTTTCTAGGTGCTTTAAGACAGCTCTTTT
1 TAAGATATTTACTTATTCAAAAATATCAGAAAAGAGC-TTCTAGGTACCTTAAGACAGCTCTTTT
*
879109 CTTTGATATTAAAAAATAAATAAATATCAAAAACATTTTATTTTAATATAG
65 CTTTGATATTAAAAAATAAATAAATAACAAAAACATTTTATTTTAATATAG
* *
879160 TAAGATATTTATTTATTCAAAAATATCATAAAAGAGCTTCTAGGTACCTTAAGACAGCTCTTTTC
1 TAAGATATTTACTTATTCAAAAATATCAGAAAAGAGCTTCTAGGTACCTTAAGACAGCTCTTTTC
* *
879225 TTTGATATTGAAAAATAAATAAATAACCAAAACATTTT
66 TTTGATATTAAAAAATAAATAAATAACAAAAACATTTT
879263 CTTAAAATAA
Statistics
Matches: 93, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
115 91 0.98
116 2 0.02
ACGTcount: A:0.42, C:0.11, G:0.10, T:0.38
Consensus pattern (115 bp):
TAAGATATTTACTTATTCAAAAATATCAGAAAAGAGCTTCTAGGTACCTTAAGACAGCTCTTTTC
TTTGATATTAAAAAATAAATAAATAACAAAAACATTTTATTTTAATATAG
Found at i:879300 original size:4 final size:4
Alignment explanation
Indices: 879291--879316 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
879281 TTTAATAAGA
879291 TATT TATT TATT TATT TATT TATT TA
1 TATT TATT TATT TATT TATT TATT TA
879317 AAAATATCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
TATT
Found at i:880993 original size:9 final size:8
Alignment explanation
Indices: 880978--881068 Score: 71
Period size: 8 Copynumber: 11.1 Consensus size: 8
880968 GGCCTGCAAT
880978 ATAATAAA
1 ATAATAAA
880986 AT--TAATA
1 ATAATAA-A
880993 ATAATAAA
1 ATAATAAA
881001 ATAATAAAA
1 ATAAT-AAA
881010 ATAATAAAA
1 ATAAT-AAA
*
881019 ATAATAAT
1 ATAATAAA
* *
881027 ATTATAAT
1 ATAATAAA
881035 ATAATAATA
1 ATAATAA-A
*
881044 ATATTAAA
1 ATAATAAA
*
881052 ACAA-AATA
1 ATAATAA-A
881060 ATAATAAA
1 ATAATAAA
881068 A
1 A
881069 CAAATGAAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 14
0.76 0.09 0.16
Matches are distributed among these distances:
6 3 0.04
7 5 0.07
8 32 0.47
9 28 0.41
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.30
Consensus pattern (8 bp):
ATAATAAA
Found at i:880994 original size:3 final size:3
Alignment explanation
Indices: 880978--881066 Score: 82
Period size: 3 Copynumber: 31.3 Consensus size: 3
880968 GGCCTGCAAT
* *
880978 ATA ATA A-A ATTA ATA ATA ATA A-A ATA ATA AAA ATA ATA AAA ATA
1 ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
881022 ATA AT- ATT ATA AT- ATA ATA ATA ATA TTA A-A ACA A-A ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
881066 A
1 A
881067 AACAAATGAA
Statistics
Matches: 72, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
2 12 0.17
3 58 0.81
4 2 0.03
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:881014 original size:32 final size:32
Alignment explanation
Indices: 880978--881068 Score: 110
Period size: 34 Copynumber: 2.8 Consensus size: 32
880968 GGCCTGCAAT
*
880978 ATAATAAAATTAATAATAATAAAATAATAAAA
1 ATAATAAAAATAATAATAATAAAATAATAAAA
* *
881010 ATAATAAAAATAATAATATTATAATATAATAATA
1 ATAATAAAAATAATAATA--ATAAAATAATAAAA
* *
881044 ATATTAAAACAAAATAATAATAAAA
1 ATAATAAAA-ATAATAATAATAAAA
881069 CAAATGAAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
32 17 0.34
33 5 0.10
34 20 0.40
35 8 0.16
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.30
Consensus pattern (32 bp):
ATAATAAAAATAATAATAATAAAATAATAAAA
Found at i:881059 original size:16 final size:16
Alignment explanation
Indices: 880989--881072 Score: 71
Period size: 17 Copynumber: 5.1 Consensus size: 16
880979 TAATAAAATT
*
880989 AATAATAATAAAATAA
1 AATAATAATAAAACAA
* *
881005 TAAAAATAATAAAA-AT
1 -AATAATAATAAAACAA
* *
881021 AATAATATTATAATATAA
1 AATAATA--ATAAAACAA
*
881039 TAATAATATTAAAACAA
1 -AATAATAATAAAACAA
881056 AATAATAATAAAACAA
1 AATAATAATAAAACAA
881072 A
1 A
881073 TGAAATAAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
15 6 0.11
16 17 0.31
17 23 0.43
18 1 0.02
19 7 0.13
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (16 bp):
AATAATAATAAAACAA
Found at i:881519 original size:113 final size:113
Alignment explanation
Indices: 881315--881840 Score: 971
Period size: 113 Copynumber: 4.6 Consensus size: 113
881305 AGAATCATGC
881315 AAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAG-TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
881380 TATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
65 TATGAACTCGACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
*
881429 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTATTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
881494 ATGAACTCGACCTGGTAATGTTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCGACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
881542 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
881607 ATGAACTCGACCTGGTAATGATGATCCATCGAATGATGAATTCAAGCA
66 ATGAACTCGACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
* *
881655 AAAAGTTGAACAAGTTCTTCTCATTATGAATTTCTTATTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
881720 ATGAACTCGACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCGACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
*
881768 AAAAGTTGAACAAGTTGTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
881833 ATGAACTC
66 ATGAACTC
881841 TTCCAGAAAT
Statistics
Matches: 399, Mismatches: 13, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
113 394 0.99
114 5 0.01
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.36
Consensus pattern (113 bp):
AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTCGACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
Found at i:882301 original size:22 final size:22
Alignment explanation
Indices: 882276--882330 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
882266 GATAAAGCTT
882276 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
* *
882298 TCATCTTTAAAAAGGGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
882320 TCATCTTTGAA
1 TCATCTTTGAA
882331 GAGTGTAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:882779 original size:54 final size:54
Alignment explanation
Indices: 882697--882849 Score: 225
Period size: 54 Copynumber: 2.8 Consensus size: 54
882687 AGAATAGCAG
* * *
882697 GTTCGTAAAACATTTGACAGCGCATTCATCCTTTCCTGTGGCTTCCGCTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCCGCTCAGAC
* * *
882751 GTTCGTAAAACATTTGACAACACATTCATCCTTTCTTGTGGTTTCTGCTCAGAC
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCCGCTCAGAC
* * *
882805 GTTCGTAAAGCGTTTGACAACACATTCATCCTTTTCTGTGGCTTC
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTC
882850 TGCCAAGATT
Statistics
Matches: 88, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 88 1.00
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCCGCTCAGAC
Found at i:885171 original size:113 final size:114
Alignment explanation
Indices: 885009--885231 Score: 394
Period size: 113 Copynumber: 2.0 Consensus size: 114
884999 GATCATGCAG
* * *
885009 TTCATCTTTCAATTCCAATGATTGGTTCTGGGGTTCCTACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
885074 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
* *
885123 TTCATCTTTCAAATCCAATGA-TGGTTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
885187 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAG
66 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAG
885232 AACGTGGCAC
Statistics
Matches: 104, Mismatches: 5, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
113 84 0.81
114 20 0.19
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.32
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
Found at i:889473 original size:26 final size:26
Alignment explanation
Indices: 889410--889481 Score: 99
Period size: 26 Copynumber: 2.8 Consensus size: 26
889400 AAATGTAATT
*
889410 ATGTAAAAATGAAAATGTAAATACAA
1 ATGTAAAAATGTAAATGTAAATACAA
* *
889436 ACGTAAAAATGTAAATGTAAATTCAA
1 ATGTAAAAATGTAAATGTAAATACAA
* *
889462 ATGTAAATATGTGAATGTAA
1 ATGTAAAAATGTAAATGTAA
889482 CAATAAAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.54, C:0.04, G:0.14, T:0.28
Consensus pattern (26 bp):
ATGTAAAAATGTAAATGTAAATACAA
Found at i:889546 original size:7 final size:8
Alignment explanation
Indices: 889528--889566 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
889518 ATAAAAGTAT
889528 AAATGCAA
1 AAATGCAA
889536 AAATG-AA
1 AAATGCAA
889543 AAATGCAA
1 AAATGCAA
*
889551 AGATGC-A
1 AAATGCAA
889558 AAATGCAA
1 AAATGCAA
889566 A
1 A
889567 TGTATGTATG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 13 0.48
8 14 0.52
ACGTcount: A:0.62, C:0.10, G:0.15, T:0.13
Consensus pattern (8 bp):
AAATGCAA
Found at i:889546 original size:15 final size:15
Alignment explanation
Indices: 889528--889566 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
889518 ATAAAAGTAT
889528 AAATGCAAAAATGAA
1 AAATGCAAAAATGAA
* *
889543 AAATGCAAAGATGCA
1 AAATGCAAAAATGAA
889558 AAATGCAAA
1 AAATGCAAA
889567 TGTATGTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.62, C:0.10, G:0.15, T:0.13
Consensus pattern (15 bp):
AAATGCAAAAATGAA
Found at i:891155 original size:28 final size:26
Alignment explanation
Indices: 891100--891174 Score: 75
Period size: 28 Copynumber: 2.9 Consensus size: 26
891090 AAACATTAAT
*
891100 AAAATAATATACATATAAATATTATG
1 AAAATAATATACATATAAAAATTATG
* *
891126 AAAATAATAAGTATATATAAAAATTTTG
1 AAAATAAT-A-TACATATAAAAATTATG
*
891154 AAAAGAA-ATA-AT-TAAAAATTA
1 AAAATAATATACATATAAAAATTA
891175 AATATATAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
23 8 0.19
24 2 0.05
25 2 0.05
26 9 0.21
27 1 0.02
28 20 0.48
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.32
Consensus pattern (26 bp):
AAAATAATATACATATAAAAATTATG
Found at i:891800 original size:115 final size:115
Alignment explanation
Indices: 891669--891886 Score: 319
Period size: 115 Copynumber: 1.9 Consensus size: 115
891659 TATACATAAA
* * * * * * *
891669 TAAGATATTTACTTATTTAGAAATATCAAAAAAGGGCTTCTAGGTGCTTTAAGACAGCTCTTTTC
1 TAAGATATTTACTTATTCAAAAATATCAAAAAAGAGCTTCTAGGTACCTTAAAACAACTCTTTTC
* *
891734 TTTGATATTAAAAAATAAATAAATATCAAAAACATTTTATTTTAATATAG
66 TTTAATATTAAAAAATAAATAAATAACAAAAACATTTTATTTTAATATAG
* *
891784 TAAGATATTTATTTATTCAAAAATATCAGAAAAGAGCTTCTAGGTACCTTAAAACAACTCTTTTC
1 TAAGATATTTACTTATTCAAAAATATCAAAAAAGAGCTTCTAGGTACCTTAAAACAACTCTTTTC
* *
891849 TTTAATATTGAAAAATAAATAAATAACCAAAACATTTT
66 TTTAATATTAAAAAATAAATAAATAACAAAAACATTTT
891887 CTTAAAATAA
Statistics
Matches: 90, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
115 90 1.00
ACGTcount: A:0.44, C:0.11, G:0.09, T:0.37
Consensus pattern (115 bp):
TAAGATATTTACTTATTCAAAAATATCAAAAAAGAGCTTCTAGGTACCTTAAAACAACTCTTTTC
TTTAATATTAAAAAATAAATAAATAACAAAAACATTTTATTTTAATATAG
Found at i:893629 original size:16 final size:16
Alignment explanation
Indices: 893610--893642 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
893600 ATAATATAAT
*
893610 AATAATATTAAAACAA
1 AATAATAATAAAACAA
893626 AATAATAATAAAACAA
1 AATAATAATAAAACAA
893642 A
1 A
893643 TGAAATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.73, C:0.06, G:0.00, T:0.21
Consensus pattern (16 bp):
AATAATAATAAAACAA
Found at i:894385 original size:3 final size:3
Alignment explanation
Indices: 894377--894403 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
894367 TTATAAATAT
894377 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
894404 ATACAAACAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:896330 original size:11 final size:11
Alignment explanation
Indices: 896309--896387 Score: 83
Period size: 11 Copynumber: 7.3 Consensus size: 11
896299 TAGTTGTATT
896309 ATATAATTTTTA
1 ATAT-ATTTTTA
896321 ATATATTTTTA
1 ATATATTTTTA
896332 A-A-ATTTTATA
1 ATATATTTT-TA
***
896342 AT-TATCAATA
1 ATATATTTTTA
*
896352 ATGTATTTTTA
1 ATATATTTTTA
896363 ATATATTTTTA
1 ATATATTTTTA
896374 ATATATTTTTA
1 ATATATTTTTA
896385 ATA
1 ATA
896388 ATGTAATTTT
Statistics
Matches: 56, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
9 5 0.09
10 8 0.14
11 39 0.70
12 4 0.07
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (11 bp):
ATATATTTTTA
Found at i:896881 original size:75 final size:75
Alignment explanation
Indices: 896791--896954 Score: 310
Period size: 75 Copynumber: 2.2 Consensus size: 75
896781 TAAAATTCAT
896791 TCAAGTTTTAAATAGATATCTTCCCCTAAAAATACATAGATCTGTTTGAAAATTCATTGCAAGTC
1 TCAAGTTTTAAATAGATATCTTCCCCTAAAAATACATAGATCTGTTTGAAAATTCATTGCAAGTC
896856 TGTTGATGCC
66 TGTTGATGCC
*
896866 TCAAGTTTTAAATAGATATCTTCCCCTAAAAATACATAGATCTGTTTGAAAATTCATTGTAAGTC
1 TCAAGTTTTAAATAGATATCTTCCCCTAAAAATACATAGATCTGTTTGAAAATTCATTGCAAGTC
896931 TGTTGATGCC
66 TGTTGATGCC
896941 TCAAGTTTCTAAAT
1 TCAAGTTT-TAAAT
896955 CAACTTTAAT
Statistics
Matches: 87, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
75 82 0.94
76 5 0.06
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (75 bp):
TCAAGTTTTAAATAGATATCTTCCCCTAAAAATACATAGATCTGTTTGAAAATTCATTGCAAGTC
TGTTGATGCC
Found at i:899525 original size:16 final size:16
Alignment explanation
Indices: 899501--899555 Score: 67
Period size: 15 Copynumber: 3.4 Consensus size: 16
899491 GGTGTGCAAA
899501 TCCGGGTACCCGGATT
1 TCCGGGTACCCGGATT
**
899517 TTTGGGTACCC-GATT
1 TCCGGGTACCCGGATT
*
899532 TCCGGGTACCCGGAACT
1 TCCGGGTACCCGG-ATT
899549 TCCGGGT
1 TCCGGGT
899556 CGACGATTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
15 13 0.41
16 10 0.31
17 9 0.28
ACGTcount: A:0.13, C:0.29, G:0.31, T:0.27
Consensus pattern (16 bp):
TCCGGGTACCCGGATT
Found at i:899603 original size:17 final size:16
Alignment explanation
Indices: 899581--899649 Score: 61
Period size: 15 Copynumber: 4.3 Consensus size: 16
899571 CCGTGTCCCG
*
899581 ACCCGGATGTTACGGGT
1 ACCCGGATATT-CGGGT
*
899598 ACCCGG-TAATCGGGT
1 ACCCGGATATTCGGGT
*
899613 ACCCGGATTTTGCGGGT
1 ACCCGGATATT-CGGGT
* *
899630 ACCTGG-TAATCGGGT
1 ACCCGGATATTCGGGT
899645 ACCCG
1 ACCCG
899650 ATACCCGATT
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
15 20 0.48
16 6 0.14
17 16 0.38
ACGTcount: A:0.17, C:0.26, G:0.33, T:0.23
Consensus pattern (16 bp):
ACCCGGATATTCGGGT
Found at i:899613 original size:15 final size:15
Alignment explanation
Indices: 899593--899649 Score: 69
Period size: 15 Copynumber: 3.7 Consensus size: 15
899583 CCGGATGTTA
899593 CGGGTACCCGGTAAT
1 CGGGTACCCGGTAAT
**
899608 CGGGTACCCGGATTTT
1 CGGGTACCCGG-TAAT
*
899624 GCGGGTACCTGGTAAT
1 -CGGGTACCCGGTAAT
899640 CGGGTACCCG
1 CGGGTACCCG
899650 ATACCCGATT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
15 20 0.59
16 4 0.12
17 10 0.29
ACGTcount: A:0.16, C:0.26, G:0.35, T:0.23
Consensus pattern (15 bp):
CGGGTACCCGGTAAT
Found at i:899617 original size:32 final size:32
Alignment explanation
Indices: 899581--899649 Score: 111
Period size: 32 Copynumber: 2.2 Consensus size: 32
899571 CCGTGTCCCG
899581 ACCCGGATGTTACGGGTACCCGGTAATCGGGT
1 ACCCGGATGTTACGGGTACCCGGTAATCGGGT
* * *
899613 ACCCGGATTTTGCGGGTACCTGGTAATCGGGT
1 ACCCGGATGTTACGGGTACCCGGTAATCGGGT
899645 ACCCG
1 ACCCG
899650 ATACCCGATT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.17, C:0.26, G:0.33, T:0.23
Consensus pattern (32 bp):
ACCCGGATGTTACGGGTACCCGGTAATCGGGT
Found at i:921400 original size:25 final size:24
Alignment explanation
Indices: 921359--921410 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
921349 CACCCTAATC
*
921359 TTTATTTATGTTATTTAATTTATG
1 TTTATTTAAGTTATTTAATTTATG
* * *
921383 TTTATTTTAAGTTTTTTATTTTTTG
1 TTTA-TTTAAGTTATTTAATTTATG
921408 TTT
1 TTT
921411 TACTGTTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.73
Consensus pattern (24 bp):
TTTATTTAAGTTATTTAATTTATG
Found at i:924017 original size:20 final size:20
Alignment explanation
Indices: 923984--924022 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
923974 CTCCCATTTT
* *
923984 TGCATCTTCGCATTTGCATG
1 TGCATCTTCACATTAGCATG
*
924004 TGCATCTTTACATTAGCAT
1 TGCATCTTCACATTAGCAT
924023 ATATACATTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (20 bp):
TGCATCTTCACATTAGCATG
Found at i:924037 original size:21 final size:21
Alignment explanation
Indices: 924012--924053 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
924002 TGTGCATCTT
924012 TACATTAGCAT-ATATACATTG
1 TACATTA-CATGATATACATTG
*
924033 TACATTACATGGTATACATTG
1 TACATTACATGATATACATTG
924054 CATGTGCCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (21 bp):
TACATTACATGATATACATTG
Found at i:924171 original size:12 final size:12
Alignment explanation
Indices: 924152--924193 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
924142 ACTATGGTCA
*
924152 AAGTCAACTATC
1 AAGTCAACGATC
*
924164 AGGTCAACGATC
1 AAGTCAACGATC
*
924176 AAGTCAACGGTC
1 AAGTCAACGATC
924188 AA-TCAA
1 AAGTCAA
924194 AGTCAACAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
11 4 0.15
12 22 0.85
ACGTcount: A:0.40, C:0.24, G:0.17, T:0.19
Consensus pattern (12 bp):
AAGTCAACGATC
Found at i:924318 original size:19 final size:19
Alignment explanation
Indices: 924271--924318 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
924261 GACTCAACTC
*
924271 GACCAGGTTCGGTCTGATTG
1 GACCA-GTTCGGTCTGACTG
* *
924291 GATCGGTTCGGTCTGACTG
1 GACCAGTTCGGTCTGACTG
924310 GACCAGTTC
1 GACCAGTTC
924319 TAGAAGGACA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
19 20 0.87
20 3 0.13
ACGTcount: A:0.15, C:0.23, G:0.33, T:0.29
Consensus pattern (19 bp):
GACCAGTTCGGTCTGACTG
Found at i:924331 original size:22 final size:22
Alignment explanation
Indices: 924306--924356 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
924296 GTTCGGTCTG
*
924306 ACTGGACCAGTTCTAGAAGGAC
1 ACTGGACCAGTTCCAGAAGGAC
*
924328 ACTGGATCAGTTCCAGAAGGAC
1 ACTGGACCAGTTCCAGAAGGAC
924350 ACTGGAC
1 ACTGGAC
924357 TAGCCAAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.31, C:0.24, G:0.27, T:0.18
Consensus pattern (22 bp):
ACTGGACCAGTTCCAGAAGGAC
Found at i:937254 original size:21 final size:21
Alignment explanation
Indices: 937230--937272 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
937220 TCGAAGATAG
937230 ACTTGGAAATCTCGATTATCT
1 ACTTGGAAATCTCGATTATCT
937251 ACTTGGAAATCTCGATTATCT
1 ACTTGGAAATCTCGATTATCT
937272 A
1 A
937273 GAGAGAATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (21 bp):
ACTTGGAAATCTCGATTATCT
Found at i:937464 original size:15 final size:15
Alignment explanation
Indices: 937426--937466 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
937416 TTATTTACTT
*
937426 TATTTATTT-TCTCAT
1 TATTTATTTAT-TCAG
937441 TATTT-TTTATTCAG
1 TATTTATTTATTCAG
937455 TATTTATTTATT
1 TATTTATTTATT
937467 TTATTATTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.22, C:0.07, G:0.02, T:0.68
Consensus pattern (15 bp):
TATTTATTTATTCAG
Found at i:937489 original size:22 final size:22
Alignment explanation
Indices: 937437--937491 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
937427 ATTTATTTTC
*
937437 TCATTATTTT-TTATTCAGTAT
1 TCATTATTTTATTATTCAGCAT
*
937458 TTATTTATTTTATTATTCA-CAT
1 TCA-TTATTTTATTATTCAGCAT
937480 TCATTGATTTTA
1 TCATT-ATTTTA
937492 AAATCCCCCT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 4 0.14
22 17 0.61
23 7 0.25
ACGTcount: A:0.25, C:0.09, G:0.04, T:0.62
Consensus pattern (22 bp):
TCATTATTTTATTATTCAGCAT
Found at i:938601 original size:73 final size:73
Alignment explanation
Indices: 938482--938628 Score: 294
Period size: 73 Copynumber: 2.0 Consensus size: 73
938472 TGACCCCTAA
938482 TGATCAGACTAAGGTATATTTGCAATTCCTTGTAAAATCGGTAAGATTGATATTGAAAGTTCCAT
1 TGATCAGACTAAGGTATATTTGCAATTCCTTGTAAAATCGGTAAGATTGATATTGAAAGTTCCAT
938547 GTGTGATT
66 GTGTGATT
938555 TGATCAGACTAAGGTATATTTGCAATTCCTTGTAAAATCGGTAAGATTGATATTGAAAGTTCCAT
1 TGATCAGACTAAGGTATATTTGCAATTCCTTGTAAAATCGGTAAGATTGATATTGAAAGTTCCAT
938620 GTGTGATT
66 GTGTGATT
938628 T
1 T
938629 AGGATCTTCA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 74 1.00
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.37
Consensus pattern (73 bp):
TGATCAGACTAAGGTATATTTGCAATTCCTTGTAAAATCGGTAAGATTGATATTGAAAGTTCCAT
GTGTGATT
Found at i:939443 original size:14 final size:13
Alignment explanation
Indices: 939418--939449 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
939408 GAGGCAACCC
939418 ATTTTATTATTTT
1 ATTTTATTATTTT
939431 ATTTTATTTATTTT
1 ATTTTA-TTATTTT
939445 ATTTT
1 ATTTT
939450 TTTTGGGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (13 bp):
ATTTTATTATTTT
Found at i:941383 original size:13 final size:13
Alignment explanation
Indices: 941367--941400 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
941357 TAATCTCTAC
941367 TTTTATTTCATTA
1 TTTTATTTCATTA
*
941380 TTTTCTTTCATTA
1 TTTTATTTCATTA
941393 TTTTATTT
1 TTTTATTT
941401 TCACAATGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTATTTCATTA
Found at i:942122 original size:4 final size:4
Alignment explanation
Indices: 942113--942137 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
942103 TACTTCTTTA
942113 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
942138 GAGAATTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:942210 original size:17 final size:17
Alignment explanation
Indices: 942188--942221 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
942178 GTTAAATACC
*
942188 TAAATGCATAAACAACT
1 TAAATGCACAAACAACT
942205 TAAATGCACAAACAACT
1 TAAATGCACAAACAACT
942222 ATCTATGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.53, C:0.21, G:0.06, T:0.21
Consensus pattern (17 bp):
TAAATGCACAAACAACT
Found at i:943645 original size:39 final size:37
Alignment explanation
Indices: 943579--943752 Score: 186
Period size: 39 Copynumber: 4.5 Consensus size: 37
943569 AGCATAAGAA
* *
943579 CCTGTGGTAAGGACTTACCCTGTGCACAAAGCAGTAGAG
1 CCTGCGGTAAGGACTTACCCTGAGCACAAAGC-G-AGAG
*
943618 CCTGCGATAAGGACTTACCCTGAGCACAAAGTCGAGGAG
1 CCTGCGGTAAGGACTTACCCTGAGCACAAAG-CGA-GAG
* *
943657 CCTGCGGTAAGGACTTACCCAGAGCACAAATCCGAGAAG
1 CCTGCGGTAAGGACTTACCCTGAGCACAAA-GCGAG-AG
* * * *
943696 CCTGCGGTAAGGACTTACACTAAGCATAAACCCGAGGAG
1 CCTGCGGTAAGGACTTACCCTGAGCACAAA-GCGA-GAG
*
943735 TCTGCGGTAAGGACTTAC
1 CCTGCGGTAAGGACTTAC
943753 AAGTCATAGA
Statistics
Matches: 118, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.02
39 114 0.97
40 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.27, T:0.17
Consensus pattern (37 bp):
CCTGCGGTAAGGACTTACCCTGAGCACAAAGCGAGAG
Found at i:943713 original size:78 final size:78
Alignment explanation
Indices: 943579--943752 Score: 224
Period size: 78 Copynumber: 2.2 Consensus size: 78
943569 AGCATAAGAA
* * * * *
943579 CCTGTGGTAAGGACTTACCCTGTGCACAAAGCAGTAGAGCCTGCGATAAGGACTTACCCTGAGCA
1 CCTGCGGTAAGGACTTACCCAGAGCACAAAGCAGTAGAGCCTGCGATAAGGACTTACACTAAGCA
**
943644 CAAAGTCGAGGAG
66 CAAACCCGAGGAG
* * *
943657 CCTGCGGTAAGGACTTACCCAGAGCACAAATCCG-AGAAGCCTGCGGTAAGGACTTACACTAAGC
1 CCTGCGGTAAGGACTTACCCAGAGCACAAAGCAGTAG-AGCCTGCGATAAGGACTTACACTAAGC
*
943721 ATAAACCCGAGGAG
65 ACAAACCCGAGGAG
*
943735 TCTGCGGTAAGGACTTAC
1 CCTGCGGTAAGGACTTAC
943753 AAGTCATAGA
Statistics
Matches: 83, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
77 2 0.02
78 81 0.98
ACGTcount: A:0.30, C:0.25, G:0.27, T:0.17
Consensus pattern (78 bp):
CCTGCGGTAAGGACTTACCCAGAGCACAAAGCAGTAGAGCCTGCGATAAGGACTTACACTAAGCA
CAAACCCGAGGAG
Found at i:950701 original size:39 final size:39
Alignment explanation
Indices: 950610--950811 Score: 201
Period size: 39 Copynumber: 5.2 Consensus size: 39
950600 ACATAACATA
* * **
950610 AGGA-CCTGTGGTAAGGACTTACCCTGTGCACAAAGAAG
1 AGGAGCCTGTAGTAAGGACTTACCCTGAGCACAAAGCCG
* * ** * * *
950648 ACGAGCATACAGTAAGGACTAACCCTGCGTACAAAGCCG
1 AGGAGCCTGTAGTAAGGACTTACCCTGAGCACAAAGCCG
* * *
950687 AGGATCCTGTAGTAAAGATTTACCCTGAGCACAAAGCCG
1 AGGAGCCTGTAGTAAGGACTTACCCTGAGCACAAAGCCG
** *
950726 AGGAGCCTGT-GATAAGGACTTACCCAAAGCACAAAGCTG
1 AGGAGCCTGTAG-TAAGGACTTACCCTGAGCACAAAGCCG
* * *
950765 AGGAGCCTGTGGTAAGGACTTACCCTGAGCATAAAGCCT
1 AGGAGCCTGTAGTAAGGACTTACCCTGAGCACAAAGCCG
950804 AGGAGCCT
1 AGGAGCCT
950812 TCAGTATGGA
Statistics
Matches: 130, Mismatches: 31, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
38 4 0.03
39 125 0.96
40 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.26, T:0.17
Consensus pattern (39 bp):
AGGAGCCTGTAGTAAGGACTTACCCTGAGCACAAAGCCG
Found at i:950823 original size:78 final size:77
Alignment explanation
Indices: 950610--950823 Score: 223
Period size: 78 Copynumber: 2.8 Consensus size: 77
950600 ACATAACATA
* ** * * * **
950610 AGGACCTGTGGTAAGGACTTACCCTGTGCACAAAGAAGACGAGCATACAGTAAGGACTAACCCTG
1 AGGACCTGTGGTAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCTTCAGTAAGGACTAACCCAA
* *
950675 CGTACAAAGCCG
66 AGCACAAAGCCG
* * * * *
950687 AGGATCCTGTAGTAAAGATTTACCCTGAGCACAAAGCCGAGGAGCCTGTGA-TAAGGACTTACCC
1 AGGA-CCTGTGGTAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCT-TCAGTAAGGACTAACCC
*
950751 AAAGCACAAAGCTG
64 AAAGCACAAAGCCG
* * *
950765 AGGAGCCTGTGGTAAGGACTTACCCTGAGCATAAAGCCTAGGAGCCTTCAGTATGGACT
1 AGGA-CCTGTGGTAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCTTCAGTAAGGACT
950824 CACAAGTTAT
Statistics
Matches: 110, Mismatches: 24, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
77 6 0.05
78 103 0.94
79 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.26, T:0.18
Consensus pattern (77 bp):
AGGACCTGTGGTAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCTTCAGTAAGGACTAACCCAA
AGCACAAAGCCG
Found at i:959969 original size:15 final size:16
Alignment explanation
Indices: 959942--959973 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
959932 ATTTTTTTAT
959942 ATAAAATAAAAGAAAA
1 ATAAAATAAAAGAAAA
959958 ATAAAA-AAAAGAAAA
1 ATAAAATAAAAGAAAA
959973 A
1 A
959974 GGCACAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.84, C:0.00, G:0.06, T:0.09
Consensus pattern (16 bp):
ATAAAATAAAAGAAAA
Found at i:968098 original size:19 final size:18
Alignment explanation
Indices: 968074--968119 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
968064 ATTAAAATAT
968074 ATAAAAAATATTTCAAAA
1 ATAAAAAATATTTCAAAA
968092 ATAAAAAATATTTCAAAA
1 ATAAAAAATATTTCAAAA
968110 ATAAAAAATA
1 ATAAAAAATA
968120 AAAAAGATCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (18 bp):
ATAAAAAATATTTCAAAA
Found at i:972146 original size:20 final size:20
Alignment explanation
Indices: 972108--972146 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
972098 GTTGGAATTG
*
972108 GATGTTAGAATGTTAATTTT
1 GATGTTAGAAGGTTAATTTT
* *
972128 GATGTTTGAAGGTTGATTT
1 GATGTTAGAAGGTTAATTT
972147 GGATCGTTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (20 bp):
GATGTTAGAAGGTTAATTTT
Found at i:979182 original size:44 final size:44
Alignment explanation
Indices: 979088--979336 Score: 399
Period size: 44 Copynumber: 5.6 Consensus size: 44
979078 ATATATCCAA
* * * *
979088 TATTTTACCAATATACTTACCATTATATCCCTAAGCTCGTAAGCT
1 TATTTTACCAATATACTTACTATAAT-TTCATAAGCTCGTAAGCT
* * *
979133 TATTTTACCAATATACTTACAATTATTCCATAAGCTCGTAAGCT
1 TATTTTACCAATATACTTACTATAATTTCATAAGCTCGTAAGCT
979177 TATTTTACCAATATACTTACTATAATTTCATAAGCTCGTAAGCT
1 TATTTTACCAATATACTTACTATAATTTCATAAGCTCGTAAGCT
*
979221 TATTTTACCAATATAGTTACTATAATTTCATAAGCTCGTAAGCT
1 TATTTTACCAATATACTTACTATAATTTCATAAGCTCGTAAGCT
* *
979265 TATTTTACCAATATACTTACTATAATTTCAGAAGCTCGTAAACT
1 TATTTTACCAATATACTTACTATAATTTCATAAGCTCGTAAGCT
979309 TATTTTACCAATATACTTACTATAATTT
1 TATTTTACCAATATACTTACTATAATTT
979337 GCATCACTGA
Statistics
Matches: 195, Mismatches: 9, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
44 170 0.87
45 25 0.13
ACGTcount: A:0.34, C:0.19, G:0.06, T:0.41
Consensus pattern (44 bp):
TATTTTACCAATATACTTACTATAATTTCATAAGCTCGTAAGCT
Found at i:979921 original size:59 final size:58
Alignment explanation
Indices: 979633--979921 Score: 348
Period size: 59 Copynumber: 4.9 Consensus size: 58
979623 TGATTTTTTT
* * * * * *
979633 TGGAAATCCATACACTCAGTATGATTCCATTACCATTTTAGCACTTA-TTA-TGTTCTATC
1 TGGAAATCCATACATTCAGTATGATTCC-TTATCATTTTAGCAC--ACTCAGTGCTCCATA
* * * * *
979692 TAGAAATCCATATATTCAATATGATTCCCTTATCATATTAGCACACTCAGTTCTCCATA
1 TGGAAATCCATACATTCAGTATGATT-CCTTATCATTTTAGCACACTCAGTGCTCCATA
* *
979751 TGGAAATTCATACATTCAATATGATTTCCTTATCATTTTAGCACACTCAGTGCTCCATA
1 TGGAAATCCATACATTCAGTATGA-TTCCTTATCATTTTAGCACACTCAGTGCTCCATA
*
979810 TGGAAATCCATACACTCAGTATGATTTCCTTATCATTTTAGCACACTCAGTGCTCCATA
1 TGGAAATCCATACATTCAGTATGA-TTCCTTATCATTTTAGCACACTCAGTGCTCCATA
* * *
979869 TGGAAATTCATACATTCAGTATGACTTCCTTATCATTTTATCACACTTAGTGC
1 TGGAAATCCATACATTCAGTATGA-TTCCTTATCATTTTAGCACACTCAGTGC
979922 CATTTGATAA
Statistics
Matches: 202, Mismatches: 24, Indels: 8
0.86 0.10 0.03
Matches are distributed among these distances:
57 1 0.00
58 2 0.01
59 195 0.97
60 4 0.02
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (58 bp):
TGGAAATCCATACATTCAGTATGATTCCTTATCATTTTAGCACACTCAGTGCTCCATA
Found at i:979942 original size:59 final size:58
Alignment explanation
Indices: 979391--979922 Score: 336
Period size: 59 Copynumber: 9.0 Consensus size: 58
979381 TCCATACATT
** * * *
979391 CCATA-GGAAATTTATACAATTC-GTATAATTTCCTTAT-AGTATTAGCACTCTCAGTGC
1 CCATATGGAAATCCATAC-ATTCAGTATGATTTCCTTATCA-TTTTAGCACACTCAGTGC
* * * * * * ** *
979448 TCTATCTGGAATAT-CATATACTT-AATATGATTTCCTTTTTATTTTAGCACACAAAGTTC
1 -CCATATGGAA-ATCCATACA-TTCAGTATGATTTCCTTATCATTTTAGCACACTCAGTGC
* * * *
979507 CC-TATTCGAGAATCCATACCATT-AGTATGA-TTCTTTTATCATTTTTAGCACA-TGAAGTTC
1 CCATA-TGGA-AATCCATA-CATTCAGTATGATTTC-CTTATCA-TTTTAGCACACT-CAGTGC
* * * * * *
979567 CCTATATGAAAATCCATA-ATATTAGTATGATTTCCTTATCCTTGTAGCAC-CATTAGTGATT
1 CC-ATATGGAAATCCATACAT-TCAGTATGATTTCCTTATCATTTTAGCACAC-TCAGTG--C
*** * * * * *
979628 TTTTTTGGAAATCCATACACTCAGTATGA-TTCCATTACCATTTTAGCACTTA-TTA-TGTT
1 CCATATGGAAATCCATACATTCAGTATGATTTCC-TTATCATTTTAGCAC--ACTCAGTG-C
* * * * * * * *
979687 CTATCTAGAAATCCATATATTCAATATGATTCCCTTATCATATTAGCACACTCAGTTC
1 CCATATGGAAATCCATACATTCAGTATGATTTCCTTATCATTTTAGCACACTCAGTGC
* *
979745 TCCATATGGAAATTCATACATTCAATATGATTTCCTTATCATTTTAGCACACTCAGTGC
1 -CCATATGGAAATCCATACATTCAGTATGATTTCCTTATCATTTTAGCACACTCAGTGC
*
979804 TCCATATGGAAATCCATACACTCAGTATGATTTCCTTATCATTTTAGCACACTCAGTGC
1 -CCATATGGAAATCCATACATTCAGTATGATTTCCTTATCATTTTAGCACACTCAGTGC
* * * *
979863 TCCATATGGAAATTCATACATTCAGTATGACTTCCTTATCATTTTATCACACTTAGTGC
1 -CCATATGGAAATCCATACATTCAGTATGATTTCCTTATCATTTTAGCACACTCAGTGC
979922 C
1 C
979923 ATTTGATAAT
Statistics
Matches: 376, Mismatches: 68, Indels: 60
0.75 0.13 0.12
Matches are distributed among these distances:
57 2 0.01
58 18 0.05
59 265 0.70
60 80 0.21
61 9 0.02
62 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.39
Consensus pattern (58 bp):
CCATATGGAAATCCATACATTCAGTATGATTTCCTTATCATTTTAGCACACTCAGTGC
Found at i:984875 original size:58 final size:59
Alignment explanation
Indices: 984783--985115 Score: 251
Period size: 58 Copynumber: 5.7 Consensus size: 59
984773 ATGACACTTT
984783 GTGTGCTAAAATGATAAGG-AA--ATACTGAGTGTATAGATTTCCATATGGAGCATTGA
1 GTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCATTGA
* * *
984839 GTGTGCT-AAATGTTAAGGAAATCATACTGAGTGTATAGATTTCCATATAGAGCACTGA
1 GTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCATTGA
* *** * * * *
984897 GTGTGCT-AAATGATAAGGAAATCATATTGAAAATATGGATTTCTAGATAGG-GCATTTTA
1 GTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATAGATTTCCATAT-GGAGCA-TTGA
* * * * ** * *
984956 -TGTTCTAAAATGGTAAGGGAATCATACTGAGTGTAT-GAATTTCCAGATAAAGCACTAA
1 GTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATAG-ATTTCCATATGGAGCATTGA
* * *
985014 GGGTGCTACAAA-GATAAGGAAATCATACT-AATGGTATGGATTTTCACATA-GG-GCATTTG-
1 GTGTGCTA-AAATGATAAGGAAATCATACTGAGT-GTATAGA-TTTC-CATATGGAGCA-TTGA
* ** * * *
985073 GTGTGCTAAAATGGTAACAAAATCATACTAAGGGTATAAATTT
1 GTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATAGATTT
985116 TTGAATAGGG
Statistics
Matches: 216, Mismatches: 44, Indels: 32
0.74 0.15 0.11
Matches are distributed among these distances:
55 10 0.05
56 9 0.04
58 92 0.43
59 92 0.43
60 10 0.05
61 3 0.01
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.31
Consensus pattern (59 bp):
GTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCATTGA
Found at i:984981 original size:117 final size:118
Alignment explanation
Indices: 984835--985115 Score: 320
Period size: 118 Copynumber: 2.4 Consensus size: 118
984825 ATATGGAGCA
* * * *
984835 TTGAGTGTGCT-AAATGTTAAGGAAATCATACTGAGTGTAT-AGATTTCCATATAGAGCACTGAG
1 TTGA-TGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATGA-ATTTCCAGATAAAGCACTAAG
* * * *
984898 TGTGCTA-AATGATAAGGAAATCATATTGAA-AATATGGA-TTTCTAGATAGGGCAT
64 GGTGCTACAAAGATAAGGAAATCATACT-AATAATATGGATTTTC-ACATAGGGCAT
* * *
984952 TTTATGTTCTAAAATGGTAAGGGAATCATACTGAGTGTATGAATTTCCAGATAAAGCACTAAGGG
1 TTGATGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATGAATTTCCAGATAAAGCACTAAGGG
**
985017 TGCTACAAAGATAAGGAAATCATACTAATGGTATGGATTTTCACATAGGGCAT
66 TGCTACAAAGATAAGGAAATCATACTAATAATATGGATTTTCACATAGGGCAT
* ** * * *
985070 TTGGTGTGCTAAAATGGTAACAAAATCATACTAAGGGTATAAATTT
1 TTGATGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATGAATTT
985116 TTGAATAGGG
Statistics
Matches: 137, Mismatches: 22, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
116 5 0.04
117 56 0.41
118 72 0.53
119 4 0.03
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.31
Consensus pattern (118 bp):
TTGATGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATGAATTTCCAGATAAAGCACTAAGGG
TGCTACAAAGATAAGGAAATCATACTAATAATATGGATTTTCACATAGGGCAT
Found at i:984998 original size:59 final size:58
Alignment explanation
Indices: 984783--985241 Score: 269
Period size: 59 Copynumber: 7.9 Consensus size: 58
984773 ATGACACTTT
* * *
984783 GTGTGCTAAAATGATAAGG-AA--ATACTGAGTGTAT-AGATTTCCATATGGAGCATTGA
1 GTGTGCT-AAATGATAAGGAAATCATACTGAGTGTATGA-ATTTCCAGATAGAGCACTGA
* *
984839 GTGTGCTAAATGTTAAGGAAATCATACTGAGTGTAT-AGATTTCCATATAGAGCACTGA
1 GTGTGCTAAATGATAAGGAAATCATACTGAGTGTATGA-ATTTCCAGATAGAGCACTGA
* *** * * * * *
984897 GTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGATTTCTAGATAGGGCATTTTA
1 GTGTGCTAAATGATAAGGAAATCATACTGAGTGTATGAATTTCCAGATAGAGCA-CTGA
* * * * *
984956 -TGTTCTAAAATGGTAAGGGAATCATACTGAGTGTATGAATTTCCAGATAAAGCACTAA
1 GTGTGCT-AAATGATAAGGAAATCATACTGAGTGTATGAATTTCCAGATAGAGCACTGA
* * * * * * * *
985014 GGGTGCTACAAAGATAAGGAAATCATACT-AATGGTATGGATTTTCACATAGGGCATTTG-
1 GTGTGCTA-AATGATAAGGAAATCATACTGAGT-GTATGAATTTCCAGATAGAGCA-CTGA
* ** * * * ** * **
985073 GTGTGCTAAAATGGTAACAAAATCATACTAAGGGTATAAATTT-TTGAATAGGGCACTTT
1 GTGTGCT-AAATGATAAGGAAATCATACTGAGTGTATGAATTTCCAG-ATAGAGCACTGA
* * * * *
985132 GTGTGCTAAAATGA-AAGGGGAAGCATACTAAGCGTATGATTTTCCAGATAGAGCACTGA
1 GTGTGCT-AAATGATAA-GGAAATCATACTGAGTGTATGAATTTCCAGATAGAGCACTGA
* * * *
985191 GAGTGCTAATATTAAAAGGAAAT--TACTTGAATCGTATGAATTTCCA-ATAGA
1 GTGTGCTAA-ATGATAAGGAAATCATAC-TGAGT-GTATGAATTTCCAGATAGA
985242 ATATATGGAT
Statistics
Matches: 308, Mismatches: 75, Indels: 38
0.73 0.18 0.09
Matches are distributed among these distances:
55 10 0.03
56 9 0.03
57 3 0.01
58 99 0.32
59 181 0.59
60 6 0.02
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.30
Consensus pattern (58 bp):
GTGTGCTAAATGATAAGGAAATCATACTGAGTGTATGAATTTCCAGATAGAGCACTGA
Found at i:985325 original size:44 final size:45
Alignment explanation
Indices: 985278--985530 Score: 386
Period size: 44 Copynumber: 5.7 Consensus size: 45
985268 AAATGAGGTT
985278 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAAT-
1 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATA
* *
985322 AATGGTAATTATATTGGTAAAATAAGCTTACGAGCTTATGAAATA
1 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATA
* * *
985367 AATGGTAAGTATGTTGGTGAAATAAGCTTACGAGCTTATGGGATTA
1 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTAT-GGAATA
* *
985413 AATGGTAACTATATTGTTAAAATAAGCTTACGAGCTTATGG-ATA
1 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATA
* *
985457 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGCAACA
1 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATA
*
985502 AATGGTAAGTATATTGTTAAAAT-AGCTTA
1 AATGGTAAGTATATTGGTAAAATAAGCTTA
985531 TGGGTTAAAT
Statistics
Matches: 189, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
44 88 0.47
45 62 0.33
46 39 0.21
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.33
Consensus pattern (45 bp):
AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATA
Found at i:985448 original size:135 final size:134
Alignment explanation
Indices: 985278--985589 Score: 410
Period size: 135 Copynumber: 2.4 Consensus size: 134
985268 AAATGAGGTT
* *
985278 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGA-ATAATGGTAATTATATTGGTAA
1 AATGGTAACTATATTGGTAAAATAAGCTTACGAGCTTATGGATA-AATGGTAAGTATATTGGTAA
* * *
985342 AATAAGCTTACGAGCTTATGAAATAAATGGTAAGTATGTTGGTGAAATAAGCTTACGAGCTTATG
65 AATAAGCTTACGAGCTTATGAAACAAATGGTAAGTATATTGGTAAAAT-AGCTTACGAGCTTATG
985407 GGATTA
129 GGATTA
*
985413 AATGGTAACTATATTGTTAAAATAAGCTTACGAGCTTATGGATAAATGGTAAGTATATTGGTAAA
1 AATGGTAACTATATTGGTAAAATAAGCTTACGAGCTTATGGATAAATGGTAAGTATATTGGTAAA
* *
985478 ATAAGCTTACGAGCTTATGCAACAAATGGTAAGTATATT-GTTAAA-A---T---AGCTTATGGG
66 ATAAGCTTACGAGCTTATGAAACAAATGGTAAGTATATTGGTAAAATAGCTTACGAGCTTATGGG
985535 -TTA
131 ATTA
* * * *
985538 AATGGTAAGTATTTTGGGAAAAATAAGCTTACAAGCTTATGAGATAAATGGT
1 AATGGTAACTATATT-GGTAAAATAAGCTTACGAGCTTATG-GATAAATGGT
985590 GAGAAATGTT
Statistics
Matches: 162, Mismatches: 12, Indels: 14
0.86 0.06 0.07
Matches are distributed among these distances:
125 16 0.10
126 32 0.20
127 10 0.06
129 1 0.01
132 1 0.01
134 5 0.03
135 96 0.59
136 1 0.01
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.33
Consensus pattern (134 bp):
AATGGTAACTATATTGGTAAAATAAGCTTACGAGCTTATGGATAAATGGTAAGTATATTGGTAAA
ATAAGCTTACGAGCTTATGAAACAAATGGTAAGTATATTGGTAAAATAGCTTACGAGCTTATGGG
ATTA
Found at i:991778 original size:58 final size:58
Alignment explanation
Indices: 991690--991908 Score: 244
Period size: 58 Copynumber: 3.7 Consensus size: 58
991680 ATGGCACTTT
* *
991690 GTGTGCTAAAATGATAAGGAAATTATACTGAGTGTATAGATTTCCATGTGGAGCACTGA
1 GTGTGCT-AAATGATAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTGA
*
991749 GTGTGCTAAATGATAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGTACTGA
1 GTGTGCTAAATGATAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTGA
* * *** * * * *
991807 GTGTGCTAAATGATAAGGAAATCGTATTGAAAATATGGATTTCCAGATAGG-GCATTTTA
1 GTGTGCTAAATGATAAGGAAATCATACTGAGTGTATAGATTTCCATAT-GGAGCA-CTGA
* * * *
991866 -TGTGCTAAAATGGTAAGGGAATCATACTAAGTGTATTGATTTC
1 GTGTGCT-AAATGATAAGGAAATCATACTGAGTGTATAGATTTC
991909 TAGATAAAGA
Statistics
Matches: 135, Mismatches: 22, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
58 97 0.72
59 38 0.28
ACGTcount: A:0.34, C:0.10, G:0.24, T:0.32
Consensus pattern (58 bp):
GTGTGCTAAATGATAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTGA
Found at i:991914 original size:59 final size:58
Alignment explanation
Indices: 991851--992054 Score: 146
Period size: 59 Copynumber: 3.5 Consensus size: 58
991841 ATGGATTTCC
*
991851 AGATAGGGCATTTTATGTGCTAAAATGGTAAGGGAATCATACTAAGTGTATTGATTTCT
1 AGATAGGGCATTTTATGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATTGATTT-T
** ** * * * * *
991910 AGATAAAG-AACTAAGGGTGTTACAAA-GATAAGGAAATCATACTAA-TGGTATGGATTTT
1 AGATAGGGCATTTTA-TGTGCTA-AAATGGTAAGGAAATCATACTAAGT-GTATTGATTTT
* * * ** *
991968 CAAATAGGGCATTTCATGTGCTGAAATGGTAACAAAATCATACTAAGGGTA-TGAATTTT
1 -AGATAGGGCATTTTATGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATTG-ATTTT
* * *
992027 TGAATAGGGCACTTTGTGTGCTAAAATG
1 AG-ATAGGGCATTTTATGTGCTAAAATG
992055 AAAGGGGAGG
Statistics
Matches: 106, Mismatches: 30, Indels: 18
0.69 0.19 0.12
Matches are distributed among these distances:
58 9 0.08
59 91 0.86
60 6 0.06
ACGTcount: A:0.36, C:0.09, G:0.23, T:0.31
Consensus pattern (58 bp):
AGATAGGGCATTTTATGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATTGATTTT
Found at i:992238 original size:32 final size:33
Alignment explanation
Indices: 992202--992272 Score: 101
Period size: 32 Copynumber: 2.2 Consensus size: 33
992192 GTAAGTATAT
*
992202 TGGTAAAAT-AAGCTTACGAGTTTATAGAAT-AA
1 TGGTAAAATAAAG-TTACGAGCTTATAGAATAAA
*
992234 TGGTAAAATAAAGTTACGAGCTTATGGAATAAA
1 TGGTAAAATAAAGTTACGAGCTTATAGAATAAA
992267 TGGTAA
1 TGGTAA
992273 GTATATTGGT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
32 24 0.69
33 11 0.31
ACGTcount: A:0.44, C:0.06, G:0.21, T:0.30
Consensus pattern (33 bp):
TGGTAAAATAAAGTTACGAGCTTATAGAATAAA
Found at i:992363 original size:44 final size:45
Alignment explanation
Indices: 992234--992405 Score: 215
Period size: 45 Copynumber: 3.8 Consensus size: 45
992224 TATAGAATAA
992234 TGGTAAAATAAAG-TTACGAGCTTATGGAATAAATGGTAAGTATAT
1 TGGTAAAAT-AAGCTTACGAGCTTATGGAATAAATGGTAAGTATAT
*
992279 TGGTAAAATAAGCTTACGAGCTTATGGAACAAATGGTAAGTATAT
1 TGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATAT
* ** *** *
992324 TGTTAAAAT-AGCTTACGAGCTTATGGGTTAAACAATAAGTATTT
1 TGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATAT
*
992368 TGGGTAAAATAAGCTTACAAGCTTAT-GAGATAAATGGT
1 T-GGTAAAATAAGCTTACGAGCTTATGGA-ATAAATGGT
992406 GAGAAATTTT
Statistics
Matches: 107, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
44 32 0.30
45 56 0.52
46 19 0.18
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.31
Consensus pattern (45 bp):
TGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATAT
Found at i:996926 original size:19 final size:20
Alignment explanation
Indices: 996904--996947 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
996894 CTTGAAAACA
* *
996904 CATG-ATTTTAATGAATATT
1 CATGCATTTTAATCAAGATT
*
996923 CATGCCTTTTAATCAAGATT
1 CATGCATTTTAATCAAGATT
996943 CATGC
1 CATGC
996948 CTTATGCCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.41
Consensus pattern (20 bp):
CATGCATTTTAATCAAGATT
Found at i:996934 original size:20 final size:20
Alignment explanation
Indices: 996909--996950 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
996899 AAACACATGA
* *
996909 TTTTAATGAATATTCATGCC
1 TTTTAATCAAGATTCATGCC
996929 TTTTAATCAAGATTCATGCC
1 TTTTAATCAAGATTCATGCC
996949 TT
1 TT
996951 ATGCCAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.17, G:0.10, T:0.45
Consensus pattern (20 bp):
TTTTAATCAAGATTCATGCC
Found at i:997729 original size:20 final size:20
Alignment explanation
Indices: 997704--997741 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
997694 ATACTTGCTG
997704 GTGAGCTAAAGA-AAACATGT
1 GTGAGCT-AAGATAAACATGT
997724 GTGAGCTAAGATAAACAT
1 GTGAGCTAAGATAAACAT
997742 CATATGAGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.45, C:0.11, G:0.24, T:0.21
Consensus pattern (20 bp):
GTGAGCTAAGATAAACATGT
Found at i:1000871 original size:2 final size:2
Alignment explanation
Indices: 1000864--1000894 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
1000854 GAATACTTTG
1000864 AT AT AT AT AT AT AT AT AT AT AT AT CAT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT
1000895 GTATGCATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1001720 original size:16 final size:16
Alignment explanation
Indices: 1001699--1001730 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1001689 AGAGAAATGG
1001699 AGGATGAATGTGGACA
1 AGGATGAATGTGGACA
1001715 AGGATGAATGTGGACA
1 AGGATGAATGTGGACA
1001731 TCCTACATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.38, T:0.19
Consensus pattern (16 bp):
AGGATGAATGTGGACA
Found at i:1002419 original size:18 final size:17
Alignment explanation
Indices: 1002381--1002476 Score: 74
Period size: 17 Copynumber: 5.5 Consensus size: 17
1002371 AAATTTGATG
1002381 AATGAACTAGTTTAATT
1 AATGAACTAGTTTAATT
1002398 AATGAACTAGCTTT-ATT
1 AATGAACTAG-TTTAATT
*
1002415 CAATGAACT--TGTAATCTT
1 -AATGAACTAGTTTAA--TT
* *
1002433 GAATGAACTAGTTTGATG
1 -AATGAACTAGTTTAATT
*
1002451 AATGAACGAGTTTAA-T
1 AATGAACTAGTTTAATT
1002467 AGATGAACTA
1 A-ATGAACTA
1002477 CTTAGTTAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 16
0.71 0.10 0.18
Matches are distributed among these distances:
15 2 0.03
16 2 0.03
17 33 0.53
18 22 0.35
20 3 0.05
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.35
Consensus pattern (17 bp):
AATGAACTAGTTTAATT
Found at i:1002455 original size:35 final size:34
Alignment explanation
Indices: 1002374--1002457 Score: 84
Period size: 35 Copynumber: 2.4 Consensus size: 34
1002364 AATATACAAA
*
1002374 TTTGATGAATGAACTAGTTTAATTAATGAACTAGC
1 TTTGATGAATGAACTA-TGTAATTAATGAACTAGC
*
1002409 TTT-ATTCAATGAACT-TGTAATCTTGAATGAACTAG-
1 TTTGA-TGAATGAACTATGTAA--TT-AATGAACTAGC
1002444 TTTGATGAATGAAC
1 TTTGATGAATGAAC
1002458 GAGTTTAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
33 4 0.10
34 1 0.02
35 25 0.61
36 11 0.27
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.38
Consensus pattern (34 bp):
TTTGATGAATGAACTATGTAATTAATGAACTAGC
Found at i:1006265 original size:2 final size:2
Alignment explanation
Indices: 1006260--1006347 Score: 169
Period size: 2 Copynumber: 44.5 Consensus size: 2
1006250 TATGACTTGG
1006260 AT AT 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 AT AT
1006302 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1006343 AT AT A
1 AT AT A
1006348 GTTATAATAA
Statistics
Matches: 85, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
1 1 0.01
2 84 0.99
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1012227 original size:24 final size:24
Alignment explanation
Indices: 1012183--1012231 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
1012173 TCTACTTTTA
*
1012183 TCCATACTTTAATTTCATTTCATT
1 TCCATACATTAATTTCATTTCATT
*
1012207 TCCATACATTCATTATC-TTTCATT
1 TCCATACATTAATT-TCATTTCATT
1012231 T
1 T
1012232 ACTAATATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 20 0.91
25 2 0.09
ACGTcount: A:0.24, C:0.22, G:0.00, T:0.53
Consensus pattern (24 bp):
TCCATACATTAATTTCATTTCATT
Found at i:1014175 original size:17 final size:17
Alignment explanation
Indices: 1014153--1014292 Score: 113
Period size: 17 Copynumber: 8.1 Consensus size: 17
1014143 ATTTAAAAGT
*
1014153 TAGTTTAATAAATGAAC
1 TAGTTTAATCAATGAAC
* *
1014170 TAGTTTGATGAATGAAC
1 TAGTTTAATCAATGAAC
* *
1014187 TAGTTTAATTATTGAAC
1 TAGTTTAATCAATGAAC
* * *
1014204 AAACTTTATTCAATGAAC
1 -TAGTTTAATCAATGAAC
*
1014222 -A-TGTAATCTTCAATGAAC
1 TAGTTTAA---TCAATGAAC
* * *
1014240 TAGTTTGATGAATGAAT
1 TAGTTTAATCAATGAAC
*
1014257 TAGTTTAATGAATGAAC
1 TAGTTTAATCAATGAAC
1014274 TAGTTTAATCAATGAAC
1 TAGTTTAATCAATGAAC
1014291 TA
1 TA
1014293 CATAATTAAA
Statistics
Matches: 98, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
15 3 0.03
16 1 0.01
17 69 0.70
18 21 0.21
19 1 0.01
20 3 0.03
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.37
Consensus pattern (17 bp):
TAGTTTAATCAATGAAC
Found at i:1014304 original size:17 final size:17
Alignment explanation
Indices: 1014284--1014329 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
1014274 TAGTTTAATC
*
1014284 AATGAACTACATAATTA
1 AATGAACTACATAACTA
* * *
1014301 AATGAAGTGCATAGCTA
1 AATGAACTACATAACTA
1014318 AATGAACTACAT
1 AATGAACTACAT
1014330 GTTTAAATGC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.26
Consensus pattern (17 bp):
AATGAACTACATAACTA
Found at i:1014356 original size:34 final size:35
Alignment explanation
Indices: 1014281--1014358 Score: 90
Period size: 34 Copynumber: 2.3 Consensus size: 35
1014271 AACTAGTTTA
*
1014281 ATCAATGAACTACATAATTAAATGAAGTGCATAGC
1 ATCAATGAACTACATAATTAAATGAAGTGAATAGC
* **
1014316 -TAAATGAACTACATGTTTAAATGCAA-TGAAT-GC
1 ATCAATGAACTACATAATTAAATG-AAGTGAATAGC
1014349 ATCAATGAAC
1 ATCAATGAAC
1014359 AACACACTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
33 2 0.06
34 32 0.89
35 2 0.06
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.27
Consensus pattern (35 bp):
ATCAATGAACTACATAATTAAATGAAGTGAATAGC
Found at i:1017926 original size:2 final size:2
Alignment explanation
Indices: 1017919--1017975 Score: 98
Period size: 2 Copynumber: 29.0 Consensus size: 2
1017909 TTATCATGGC
*
1017919 TA TA TA TA TG TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1017960 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
1017976 AAGAAAGATA
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 51 0.98
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1018551 original size:24 final size:24
Alignment explanation
Indices: 1018519--1018564 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
1018509 TTGAATGATC
1018519 ATATCCCTTGGTAT-TCCAAAAGAT
1 ATATCCCTTGGT-TCTCCAAAAGAT
*
1018543 ATATTCCTTGGTTCTCCAAAAG
1 ATATCCCTTGGTTCTCCAAAAG
1018565 TCAAGTCCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (24 bp):
ATATCCCTTGGTTCTCCAAAAGAT
Found at i:1020536 original size:2 final size:2
Alignment explanation
Indices: 1020529--1020580 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
1020519 GCGCTCGGGA
1020529 AT AT 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 AT AT
1020571 AT AT AT AT AT
1 AT AT AT AT AT
1020581 TGGCTTTTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1021681 original size:32 final size:32
Alignment explanation
Indices: 1021640--1021704 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
1021630 TGACGCCACA
* *
1021640 AGTATAAATAAGTATACTTGGTTAATCGATAT
1 AGTATAAATAAGTAGACTTGCTTAATCGATAT
* *
1021672 AGTATAAATAATTAGACTTGCTTAATTGATAT
1 AGTATAAATAAGTAGACTTGCTTAATCGATAT
1021704 A
1 A
1021705 TTTCTTAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.42, C:0.06, G:0.14, T:0.38
Consensus pattern (32 bp):
AGTATAAATAAGTAGACTTGCTTAATCGATAT
Found at i:1024641 original size:15 final size:15
Alignment explanation
Indices: 1024621--1024658 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
1024611 TTTTCTCAAA
1024621 TGGATTTGGTCTTTG
1 TGGATTTGGTCTTTG
1024636 TGGATTTGGTCTTTG
1 TGGATTTGGTCTTTG
*
1024651 TGAATTTG
1 TGGATTTG
1024659 TTTTGGTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.11, C:0.05, G:0.32, T:0.53
Consensus pattern (15 bp):
TGGATTTGGTCTTTG
Found at i:1029540 original size:20 final size:20
Alignment explanation
Indices: 1029494--1029532 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1029484 AAAAGAAAAT
* *
1029494 AAAAAAAGAGAAAAAGGCAC
1 AAAAATAGAGAAAAAGACAC
1029514 AAAAATAGAGAAAAAGACA
1 AAAAATAGAGAAAAAGACA
1029533 AAACAATAAA
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:0.72, C:0.08, G:0.18, T:0.03
Consensus pattern (20 bp):
AAAAATAGAGAAAAAGACAC
Found at i:1031206 original size:17 final size:17
Alignment explanation
Indices: 1031184--1031221 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
1031174 TTCATGCATT
1031184 TAGTTC-TTTAATAAAAC
1 TAGTTCATTT-ATAAAAC
*
1031201 TAGTTCATTTATTAAAC
1 TAGTTCATTTATAAAAC
1031218 TAGT
1 TAGT
1031222 GCAATCTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.45
Consensus pattern (17 bp):
TAGTTCATTTATAAAAC
Found at i:1032881 original size:21 final size:21
Alignment explanation
Indices: 1032828--1032894 Score: 80
Period size: 21 Copynumber: 3.2 Consensus size: 21
1032818 TTTCAGAGAG
*
1032828 ACTTACCAAGGAACTTCATCT
1 ACTTACCAAGGTACTTCATCT
* *
1032849 ATTTAACAAGGTACTTCATCT
1 ACTTACCAAGGTACTTCATCT
* * *
1032870 ACTTACCGAGGTAATTCATAT
1 ACTTACCAAGGTACTTCATCT
1032891 ACTT
1 ACTT
1032895 CCACTTCTTG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.33, C:0.22, G:0.10, T:0.34
Consensus pattern (21 bp):
ACTTACCAAGGTACTTCATCT
Found at i:1048053 original size:17 final size:17
Alignment explanation
Indices: 1048031--1048073 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
1048021 TAGATTAATT
1048031 AATGAACTAGTTAAATG
1 AATGAACTAGTTAAATG
* *
1048048 AATGAACTAGTTTAATT
1 AATGAACTAGTTAAATG
*
1048065 AAAGAACTA
1 AATGAACTA
1048074 ACTTGATTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.49, C:0.07, G:0.14, T:0.30
Consensus pattern (17 bp):
AATGAACTAGTTAAATG
Found at i:1057708 original size:20 final size:21
Alignment explanation
Indices: 1057685--1057731 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
1057675 TATTTTTGTA
*
1057685 TTTTTT-TGTCTTTT-TTTCC
1 TTTTTTGTGCCTTTTATTTCC
*
1057704 TTTTTTGTGCCTTTTATTTTC
1 TTTTTTGTGCCTTTTATTTCC
1057725 TTTTTTG
1 TTTTTTG
1057732 ATTTTTTGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 6 0.25
20 7 0.29
21 11 0.46
ACGTcount: A:0.02, C:0.13, G:0.09, T:0.77
Consensus pattern (21 bp):
TTTTTTGTGCCTTTTATTTCC
Found at i:1057806 original size:19 final size:20
Alignment explanation
Indices: 1057782--1057819 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1057772 CAAAAAGGAA
*
1057782 TTGAAAA-AAACTGAAAATT
1 TTGAAAATAAACTAAAAATT
1057801 TTGAAAATAAACTAAAAAT
1 TTGAAAATAAACTAAAAAT
1057820 GATGAACTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.61, C:0.05, G:0.08, T:0.26
Consensus pattern (20 bp):
TTGAAAATAAACTAAAAATT
Found at i:1057825 original size:20 final size:19
Alignment explanation
Indices: 1057783--1057825 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
1057773 AAAAAGGAAT
* **
1057783 TGAAAAAAACTGAAAATTT
1 TGAAAAAAACTAAAAATGA
1057802 TGAAAATAAACTAAAAATGA
1 TGAAAA-AAACTAAAAATGA
1057822 TGAA
1 TGAA
1057826 CTTGTCTCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.60, C:0.05, G:0.12, T:0.23
Consensus pattern (19 bp):
TGAAAAAAACTAAAAATGA
Done.