Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_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: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 91
Found at i:458966 original size:18 final size:17
Alignment explanation
Indices: 458912--458960 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
458902 TTAGACCCTT
* *
458912 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
458930 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
458948 AGTGCATTCGATG
1 AGTGCA-TCGATG
458961 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:459018 original size:64 final size:65
Alignment explanation
Indices: 458932--459076 Score: 188
Period size: 64 Copynumber: 2.2 Consensus size: 65
458922 TGCACTAAGA
*
458932 GTGCATCGATGCATCAAGTGCATTCGATGTTTCAAAAT-AGCCA-GAGTACATCGATGCATGG-C
1 GTGCATCGATGCATCAAATGCATTCGATG-TTCAAAATAAGCCATG-GTACATCGATGCATGGAC
458994 TG
64 TG
** ** * *
458996 GTGCATCGATGCATCAAATGCATTCGATGTTCAATTTAATTCATGGTGCATCGATGCATGGATTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTCAAAATAAGCCATGGTACATCGATGCATGGACTG
459061 GTGCATCGATGCATCA
1 GTGCATCGATGCATCA
459077 CTTTGATAAA
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
63 6 0.08
64 46 0.65
65 19 0.27
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (65 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTCAAAATAAGCCATGGTACATCGATGCATGGACTG
Found at i:459995 original size:16 final size:16
Alignment explanation
Indices: 459974--460010 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
459964 ACCTAGACTG
459974 TCTACCGATATTCTCA
1 TCTACCGATATTCTCA
459990 TCTACCGATATTCTCA
1 TCTACCGATATTCTCA
460006 TCTAC
1 TCTAC
460011 AAAAGATTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.24, C:0.32, G:0.05, T:0.38
Consensus pattern (16 bp):
TCTACCGATATTCTCA
Found at i:464135 original size:45 final size:44
Alignment explanation
Indices: 464071--464155 Score: 143
Period size: 45 Copynumber: 1.9 Consensus size: 44
464061 TATTGCTTAT
464071 CCATCCTATTCTTACATGATTGATGAGAATGAAGATTAATTTTAC
1 CCATCCTATTCTTACATGATTGATGAGAATG-AGATTAATTTTAC
* *
464116 CCATCCTATTCTTACATGATTGATTAGAATGATATTAATT
1 CCATCCTATTCTTACATGATTGATGAGAATGAGATTAATT
464156 AGAATCATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 8 0.21
45 30 0.79
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (44 bp):
CCATCCTATTCTTACATGATTGATGAGAATGAGATTAATTTTAC
Found at i:466993 original size:6 final size:6
Alignment explanation
Indices: 466978--467035 Score: 62
Period size: 6 Copynumber: 9.0 Consensus size: 6
466968 TGATATTTCA
* *
466978 TTATTG TTATTT TTATTTT TTAATTT TTATTTT TTATTT TTTTTT GTTATTT
1 TTATTT TTATTT TTA-TTT TT-ATTT TTA-TTT TTATTT TTATTT -TTATTT
467030 TTATTT
1 TTATTT
467036 GACGAAAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
6 23 0.51
7 21 0.47
8 1 0.02
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.81
Consensus pattern (6 bp):
TTATTT
Found at i:466999 original size:7 final size:7
Alignment explanation
Indices: 466987--467035 Score: 66
Period size: 7 Copynumber: 7.3 Consensus size: 7
466977 ATTATTGTTA
466987 TTTTTAT
1 TTTTTAT
*
466994 TTTTTAA
1 TTTTTAT
467001 TTTTTAT
1 TTTTTAT
467008 TTTTTAT
1 TTTTTAT
467015 TTTTT-T
1 TTTTTAT
*
467021 TTGTTA-
1 TTTTTAT
467027 TTTTTAT
1 TTTTTAT
467034 TT
1 TT
467036 GACGAAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
6 10 0.28
7 26 0.72
ACGTcount: A:0.14, C:0.00, G:0.02, T:0.84
Consensus pattern (7 bp):
TTTTTAT
Found at i:467010 original size:13 final size:13
Alignment explanation
Indices: 466984--467035 Score: 79
Period size: 13 Copynumber: 3.9 Consensus size: 13
466974 TTCATTATTG
466984 TTATTTTTATTTT
1 TTATTTTTATTTT
466997 TTAATTTTTATTTT
1 TT-ATTTTTATTTT
467011 TTATTTTT-TTTT
1 TTATTTTTATTTT
467023 GTTATTTTTATTT
1 -TTATTTTTATTT
467036 GACGAAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.11
13 16 0.44
14 16 0.44
ACGTcount: A:0.15, C:0.00, G:0.02, T:0.83
Consensus pattern (13 bp):
TTATTTTTATTTT
Found at i:468652 original size:155 final size:155
Alignment explanation
Indices: 468363--468664 Score: 426
Period size: 155 Copynumber: 1.9 Consensus size: 155
468353 GGAACATCTA
* * ** *
468363 GGACAGTTGGAAGGATGAGAGAAGAAAGAAGTTCTACCAACGCTATGGCGATATTGCATATCTAC
1 GGACAGTTGGAAGGATGAAAGAAGAAAAAAGTTCTACCAACGCTATAACGACATTGCATATCTAC
* *
468428 TATATGTTAAGGTGCACAAACCTTTGATCCAGACACTAGTCTAGTTCTGGAATCCGGGGATCAAT
66 TATATGTTAAGGTGCACAAACCTTTGATCCAGACACTAGTCTAGTTCTGGAATCAGGGGATCAAC
468493 TGTTTCACCTTCAACAACGAAGTTG
131 TGTTTCACCTTCAACAACGAAGTTG
468518 GGACAGTTGGAAGGATGAAAGAAGAAAAAAGTTCTACCAACGCTATAACGACATTGCATATCTAC
1 GGACAGTTGGAAGGATGAAAGAAGAAAAAAGTTCTACCAACGCTATAACGACATTGCATATCTAC
* * ** ** ** * * *
468583 TCTATGTTAAGGTGGATGAACCTTTGATCTGGGTACTAGTCTAGTTTTGGAATTCAGGGTA-CAG
66 TATATGTTAAGGTGCACAAACCTTTGATCCAGACACTAGTCTAGTTCTGGAA-TCAGGGGATCAA
468647 CTGTTTCACCTTCAACAA
130 CTGTTTCACCTTCAACAA
468665 AGAAAATATG
Statistics
Matches: 128, Mismatches: 18, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
155 122 0.95
156 6 0.05
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (155 bp):
GGACAGTTGGAAGGATGAAAGAAGAAAAAAGTTCTACCAACGCTATAACGACATTGCATATCTAC
TATATGTTAAGGTGCACAAACCTTTGATCCAGACACTAGTCTAGTTCTGGAATCAGGGGATCAAC
TGTTTCACCTTCAACAACGAAGTTG
Found at i:482694 original size:16 final size:16
Alignment explanation
Indices: 482673--482703 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
482663 ATAAGTGAAC
482673 AGATATAATAATAAAG
1 AGATATAATAATAAAG
*
482689 AGATATAATATTAAA
1 AGATATAATAATAAA
482704 TAAAAATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (16 bp):
AGATATAATAATAAAG
Found at i:483262 original size:25 final size:24
Alignment explanation
Indices: 483211--483290 Score: 87
Period size: 23 Copynumber: 3.4 Consensus size: 24
483201 GAAAATAAAA
*
483211 ATAAAATTATTTTAATTAAGTT-A-
1 ATAAAAATATTTTAA-TAAGTTAAT
483234 ATAAAAATATATTTAATAAGTTAAT
1 ATAAAAATAT-TTTAATAAGTTAAT
*
483259 ATAAAAATATTTT--TATGTTAAT
1 ATAAAAATATTTTAATAAGTTAAT
483281 ATACAAAATA
1 ATA-AAAATA
483291 CTATGATTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
22 11 0.22
23 21 0.41
24 9 0.18
25 10 0.20
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.42
Consensus pattern (24 bp):
ATAAAAATATTTTAATAAGTTAAT
Found at i:483302 original size:23 final size:22
Alignment explanation
Indices: 483253--483302 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
483243 TATTTAATAA
* * *
483253 GTTAATATAAAAATATTTTTAT
1 GTTAATATAAAAATACTATGAT
483275 GTTAATATACAAAATACTATGAT
1 GTTAATATA-AAAATACTATGAT
*
483298 TTTAA
1 GTTAA
483303 GTATTATACA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (22 bp):
GTTAATATAAAAATACTATGAT
Found at i:484121 original size:7 final size:7
Alignment explanation
Indices: 484096--484150 Score: 53
Period size: 7 Copynumber: 8.1 Consensus size: 7
484086 TCTCCCTTCC
*
484096 TTCCCAT
1 TTCCCCT
484103 TT-CCCT
1 TTCCCCT
484109 TT-CCCT
1 TTCCCCT
484115 TTCCCC-
1 TTCCCCT
484121 TTCCCCT
1 TTCCCCT
*
484128 TTCCCCA
1 TTCCCCT
*
484135 TTCCCAT
1 TTCCCCT
484142 TTCCTCCT
1 TTCC-CCT
484150 T
1 T
484151 CTATGGGGTT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
6 17 0.43
7 20 0.50
8 3 0.08
ACGTcount: A:0.05, C:0.51, G:0.00, T:0.44
Consensus pattern (7 bp):
TTCCCCT
Found at i:484121 original size:13 final size:14
Alignment explanation
Indices: 484096--484150 Score: 62
Period size: 13 Copynumber: 4.1 Consensus size: 14
484086 TCTCCCTTCC
484096 TTCCCATTT-CCCT
1 TTCCCATTTCCCCT
484109 TTCCC-TTTCCCC-
1 TTCCCATTTCCCCT
* *
484121 TTCCCCTTTCCCCA
1 TTCCCATTTCCCCT
484135 TTCCCATTTCCTCCT
1 TTCCCATTTCC-CCT
484150 T
1 T
484151 CTATGGGGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
12 8 0.22
13 15 0.42
14 10 0.28
15 3 0.08
ACGTcount: A:0.05, C:0.51, G:0.00, T:0.44
Consensus pattern (14 bp):
TTCCCATTTCCCCT
Found at i:493771 original size:18 final size:20
Alignment explanation
Indices: 493748--493784 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
493738 CATTTTAAAA
493748 ATCACAAA-AAT-AATTTTC
1 ATCACAAATAATCAATTTTC
493766 ATCACAAATAATCAATTTT
1 ATCACAAATAATCAATTTT
493785 TTGTGAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 3 0.18
20 6 0.35
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (20 bp):
ATCACAAATAATCAATTTTC
Found at i:494364 original size:15 final size:14
Alignment explanation
Indices: 494337--494366 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
494327 TTCGGTTCGG
*
494337 TTTTTTATCAAAAA
1 TTTTTTACCAAAAA
494351 TTTTTTACCAAAAA
1 TTTTTTACCAAAAA
494365 TT
1 TT
494367 AATCTTTGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (14 bp):
TTTTTTACCAAAAA
Found at i:496250 original size:62 final size:62
Alignment explanation
Indices: 496176--496299 Score: 239
Period size: 62 Copynumber: 2.0 Consensus size: 62
496166 CTATTGTGGT
496176 ATATAAGCATGTGGTTCAAATTTAATAAAAACGGACTTAGAATAAAAGATGAATTGATGAAA
1 ATATAAGCATGTGGTTCAAATTTAATAAAAACGGACTTAGAATAAAAGATGAATTGATGAAA
*
496238 ATATAAGCATGTGGTTCAAATTTGATAAAAACGGACTTAGAATAAAAGATGAATTGATGAAA
1 ATATAAGCATGTGGTTCAAATTTAATAAAAACGGACTTAGAATAAAAGATGAATTGATGAAA
496300 TAAGGAAATT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.48, C:0.06, G:0.19, T:0.27
Consensus pattern (62 bp):
ATATAAGCATGTGGTTCAAATTTAATAAAAACGGACTTAGAATAAAAGATGAATTGATGAAA
Found at i:498878 original size:84 final size:84
Alignment explanation
Indices: 498730--498902 Score: 301
Period size: 84 Copynumber: 2.1 Consensus size: 84
498720 CAAATCATAA
* * * * *
498730 CTGAAACTGCGATATGATGCACTTCAGTGTAATCGTAACCTGAGCACCAACGGTGTTGAGCATTG
1 CTGAAACTGCGATATGATGCACTTCAGTGCAATCATAACCTGAGCACCAACGATGCTGAACATTG
498795 GTACACGAATGTACCAAAG
66 GTACACGAATGTACCAAAG
498814 CTGAAACTGCGATATGATGCACTTCAGTGCAATCATAACCTGAGCACCAACGATGCTGAACATTG
1 CTGAAACTGCGATATGATGCACTTCAGTGCAATCATAACCTGAGCACCAACGATGCTGAACATTG
498879 GTACACGAATGTACCAAAG
66 GTACACGAATGTACCAAAG
498898 CTGAA
1 CTGAA
498903 CTGATAACTG
Statistics
Matches: 84, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
84 84 1.00
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.23
Consensus pattern (84 bp):
CTGAAACTGCGATATGATGCACTTCAGTGCAATCATAACCTGAGCACCAACGATGCTGAACATTG
GTACACGAATGTACCAAAG
Found at i:499043 original size:18 final size:19
Alignment explanation
Indices: 499020--499105 Score: 101
Period size: 18 Copynumber: 4.8 Consensus size: 19
499010 TTAATCCATG
499020 TCTGATAACTGTAAAA-CA
1 TCTGATAACTGTAAAATCA
499038 TCTGATAACTG-AAAATCA
1 TCTGATAACTGTAAAATCA
*
499056 TATGATAACTGT-AAAT-A
1 TCTGATAACTGTAAAATCA
* *
499073 TCTAATAACT-AAAAATCA
1 TCTGATAACTGTAAAATCA
*
499091 TCTTATAACTGTAAA
1 TCTGATAACTGTAAA
499106 CATTTAAAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
17 17 0.30
18 37 0.65
19 3 0.05
ACGTcount: A:0.47, C:0.14, G:0.08, T:0.31
Consensus pattern (19 bp):
TCTGATAACTGTAAAATCA
Found at i:499088 original size:35 final size:35
Alignment explanation
Indices: 499022--499108 Score: 120
Period size: 35 Copynumber: 2.5 Consensus size: 35
499012 AATCCATGTC
* *
499022 TGATAACTGTAAAACATCTGATAACTGAAAATCATA
1 TGATAACTGT-AAACATCTAATAACTAAAAATCATA
* *
499058 TGATAACTGTAAATATCTAATAACTAAAAATCATC
1 TGATAACTGTAAACATCTAATAACTAAAAATCATA
*
499093 TTATAACTGTAAACAT
1 TGATAACTGTAAACAT
499109 TTAAAATTCA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
35 35 0.78
36 10 0.22
ACGTcount: A:0.47, C:0.14, G:0.08, T:0.31
Consensus pattern (35 bp):
TGATAACTGTAAACATCTAATAACTAAAAATCATA
Found at i:501862 original size:29 final size:29
Alignment explanation
Indices: 501804--501869 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
501794 TCAACTTATT
*
501804 AAATATATTTTATTCTTTTTGTAACCTAA
1 AAATATATTGTATTCTTTTTGTAACCTAA
* **
501833 AAGTATATTGTATTCTTATTT-TAATTTAA
1 AAATATATTGTATTCTT-TTTGTAACCTAA
501862 AAATATAT
1 AAATATAT
501870 ATTTTAATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 28 0.90
30 3 0.10
ACGTcount: A:0.38, C:0.06, G:0.05, T:0.52
Consensus pattern (29 bp):
AAATATATTGTATTCTTTTTGTAACCTAA
Found at i:501913 original size:30 final size:31
Alignment explanation
Indices: 501843--501938 Score: 104
Period size: 31 Copynumber: 3.1 Consensus size: 31
501833 AAGTATATTG
* * *
501843 TATTCTTATTTTAATTTAAAAATATATATTT
1 TATTCTTATCTTAAATTAAAAATATATAATT
* *
501874 TAATATTATCTTAAATTAAAAA-ATATAATT
1 TATTCTTATCTTAAATTAAAAATATATAATT
* * * *
501904 TATTCTTATCTTAACTTAAATATTTATATTT
1 TATTCTTATCTTAAATTAAAAATATATAATT
501935 TATT
1 TATT
501939 TTGATAATAT
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
30 25 0.47
31 28 0.53
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (31 bp):
TATTCTTATCTTAAATTAAAAATATATAATT
Found at i:502003 original size:28 final size:28
Alignment explanation
Indices: 501948--502035 Score: 92
Period size: 28 Copynumber: 3.1 Consensus size: 28
501938 TTTGATAATA
*
501948 TTTTAAATTTAAAATAAAAACTATAATATAT
1 TTTTATATTTAAAATAAAAA--A-AATATAT
* *
501979 TTTTGTATTTAAGATAAAAAAAATATAT
1 TTTTATATTTAAAATAAAAAAAATATAT
502007 TTTTAT-TGTTAAAAT-AAAAAAATAT-T
1 TTTTATAT-TTAAAATAAAAAAAATATAT
502033 TTT
1 TTT
502036 AAGTCAAGAT
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
26 4 0.08
27 11 0.22
28 18 0.35
29 1 0.02
31 17 0.33
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.45
Consensus pattern (28 bp):
TTTTATATTTAAAATAAAAAAAATATAT
Found at i:502137 original size:13 final size:13
Alignment explanation
Indices: 502112--502149 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
502102 AGATAAGAAT
502112 AGAATAT-ATTTA
1 AGAATATAATTTA
* *
502124 ATAATTTAATTTA
1 AGAATATAATTTA
502137 AGAATATAATTTA
1 AGAATATAATTTA
502150 TGTAATAAGT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 5 0.24
13 16 0.76
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (13 bp):
AGAATATAATTTA
Found at i:502292 original size:30 final size:30
Alignment explanation
Indices: 502035--502301 Score: 195
Period size: 30 Copynumber: 8.9 Consensus size: 30
502025 AAAATATTTT
* * *
502035 TAAGTCAAGATAAGAATAAAAGATATGTT-T
1 TAAGTTAAGATAAGAATAAAATATAT-TTAA
* * * *
502065 TATGTTGAA-ATAAGAATTAATTATATTAAA
1 TAAGTT-AAGATAAGAATAAAATATATTTAA
* *
502095 TAATTTAAGATAAGAATAGAATATATTTAA
1 TAAGTTAAGATAAGAATAAAATATATTTAA
* ** * * *
502125 TAATTTAATTTAAGAATATAATTTATGTAA
1 TAAGTTAAGATAAGAATAAAATATATTTAA
* *
502155 TAAGTTAAGATGAGAATAAAATAGT-TTT-T
1 TAAGTTAAGATAAGAATAAAATA-TATTTAA
* *
502184 TAAGTTAAGATAAAGATTAAAAATATATTT-T
1 TAAGTTAAGAT-AAGAAT-AAAATATATTTAA
* * * *
502215 TAACTTAAAATAAAAATAAAATATATTT-T
1 TAAGTTAAGATAAGAATAAAATATATTTAA
* * *
502244 TAGGTTAAAACAAGAATAAAATATATTTAA
1 TAAGTTAAGATAAGAATAAAATATATTTAA
* *
502274 TAAGTTAATATAAAAATAAAATATATTT
1 TAAGTTAAGATAAGAATAAAATATATTT
502302 TTAATATTAC
Statistics
Matches: 188, Mismatches: 41, Indels: 16
0.77 0.17 0.07
Matches are distributed among these distances:
29 50 0.27
30 116 0.62
31 22 0.12
ACGTcount: A:0.52, C:0.01, G:0.09, T:0.37
Consensus pattern (30 bp):
TAAGTTAAGATAAGAATAAAATATATTTAA
Found at i:503191 original size:48 final size:48
Alignment explanation
Indices: 503133--503232 Score: 146
Period size: 48 Copynumber: 2.1 Consensus size: 48
503123 GATTAATTTA
* *
503133 TAATTGTACGTTGAGTCCTTTAAAATTTCAAATTTTTATAAATTAAAT
1 TAATTATACGTTGAATCCTTTAAAATTTCAAATTTTTATAAATTAAAT
* * * *
503181 TAATTATACGTTTAATCCTTTATAGTTTTAAATTTTTATAAATTAAAT
1 TAATTATACGTTGAATCCTTTAAAATTTCAAATTTTTATAAATTAAAT
503229 TAAT
1 TAAT
503233 AATGTTTATC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.38, C:0.07, G:0.06, T:0.49
Consensus pattern (48 bp):
TAATTATACGTTGAATCCTTTAAAATTTCAAATTTTTATAAATTAAAT
Found at i:503632 original size:22 final size:24
Alignment explanation
Indices: 503587--503636 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
503577 ACAAGTGCAA
503587 AGGAACGAAAAAAATCGAAGAGAG
1 AGGAACGAAAAAAATCGAAGAGAG
503611 AGGAACGAAAAAAATCGAAGAGAG
1 AGGAACGAAAAAAATCGAAGAGAG
503635 AG
1 AG
503637 AGAAGAGGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.58, C:0.08, G:0.30, T:0.04
Consensus pattern (24 bp):
AGGAACGAAAAAAATCGAAGAGAG
Found at i:503851 original size:21 final size:21
Alignment explanation
Indices: 503826--503867 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
503816 TCACGGTAGA
503826 AGAGGCTGAATCTCACGAAAT
1 AGAGGCTGAATCTCACGAAAT
*
503847 AGAGGTTGAATCTCACGAAAT
1 AGAGGCTGAATCTCACGAAAT
503868 GGACCCTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (21 bp):
AGAGGCTGAATCTCACGAAAT
Found at i:503877 original size:21 final size:21
Alignment explanation
Indices: 503831--503880 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
503821 GTAGAAGAGG
**
503831 CTGAATCTCACGAAATAGAGG
1 CTGAATCTCACGAAATAGACC
* *
503852 TTGAATCTCACGAAATGGACC
1 CTGAATCTCACGAAATAGACC
503873 CTGAATCT
1 CTGAATCT
503881 ATGCTCCTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (21 bp):
CTGAATCTCACGAAATAGACC
Found at i:504343 original size:27 final size:28
Alignment explanation
Indices: 504286--504384 Score: 121
Period size: 29 Copynumber: 3.5 Consensus size: 28
504276 TTTAGGATTA
*
504286 TATTTTTTACACTTAGGTCCC-AAACATTT
1 TATTTTTTACACTTAGGTCCCTAGAC--TT
*
504315 TATTTTTTACACATAGG-CCCTAGACTT
1 TATTTTTTACACTTAGGTCCCTAGACTT
* *
504342 TATTTTATACACTTAGGTCCCTAGACGT
1 TATTTTTTACACTTAGGTCCCTAGACTT
504370 TAGTTTTTTACACTT
1 TA-TTTTTTACACTT
504385 TAATCTCTAG
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
27 17 0.28
28 14 0.23
29 30 0.49
ACGTcount: A:0.25, C:0.20, G:0.10, T:0.44
Consensus pattern (28 bp):
TATTTTTTACACTTAGGTCCCTAGACTT
Found at i:506817 original size:19 final size:20
Alignment explanation
Indices: 506793--506840 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
506783 AATGCTTTTG
* *
506793 TTTTGAAAGTAAAAATG-GA
1 TTTTGAAAATAAAAATGAAA
*
506812 TTTTGAAAATCAAAATGAAA
1 TTTTGAAAATAAAAATGAAA
506832 TTTTGAAAA
1 TTTTGAAAA
506841 AGGATTTAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.50, C:0.02, G:0.15, T:0.33
Consensus pattern (20 bp):
TTTTGAAAATAAAAATGAAA
Found at i:510042 original size:28 final size:28
Alignment explanation
Indices: 510011--510121 Score: 78
Period size: 28 Copynumber: 4.2 Consensus size: 28
510001 CATTTTCATA
510011 TTTGCATCTTTACATTTGCTTTCGCATC
1 TTTGCATCTTTACATTTGCTTTCGCATC
** * *
510039 TTTG------T--ATTTGCACTCCCATA
1 TTTGCATCTTTACATTTGCTTTCGCATC
*
510059 TTTGCATCTTTACATTTG-TGTTTGCATC
1 TTTGCATCTTTACATTTGCT-TTCGCATC
* * *
510087 TTTTCATATTTACATTTGCGTTCGCATC
1 TTTGCATCTTTACATTTGCTTTCGCATC
510115 TTTGCAT
1 TTTGCAT
510122 TTGCACTGCC
Statistics
Matches: 59, Mismatches: 14, Indels: 20
0.63 0.15 0.22
Matches are distributed among these distances:
20 15 0.25
22 1 0.02
26 1 0.02
28 42 0.71
ACGTcount: A:0.16, C:0.22, G:0.12, T:0.50
Consensus pattern (28 bp):
TTTGCATCTTTACATTTGCTTTCGCATC
Found at i:511626 original size:28 final size:26
Alignment explanation
Indices: 511585--511651 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
511575 TAAATGATAG
* * * *
511585 AAAAAGAGAGAATATATAGTAAAGAA
1 AAAAAAAGAGAAAATAAAGCAAAGAA
511611 AAAAAAAGAGAAAATAAAGCAAAGAA
1 AAAAAAAGAGAAAATAAAGCAAAGAA
*
511637 AAAGAAAAAAGAAAA
1 AAA-AAAAGAGAAAA
511652 AAAAATCAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
26 25 0.71
27 10 0.29
ACGTcount: A:0.75, C:0.01, G:0.16, T:0.07
Consensus pattern (26 bp):
AAAAAAAGAGAAAATAAAGCAAAGAA
Found at i:511638 original size:21 final size:20
Alignment explanation
Indices: 511604--511656 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
511594 GAATATATAG
511604 TAAAGAAAAAAAAAGAGAAAA
1 TAAAGAAAAAAAAA-AGAAAA
* *
511625 TAAAGCAAAGAAAAAG-AAA
1 TAAAGAAAAAAAAAAGAAAA
511644 -AAAGAAAAAAAAA
1 TAAAGAAAAAAAAA
511657 TCAAGTACTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
18 11 0.39
19 3 0.11
20 2 0.07
21 12 0.43
ACGTcount: A:0.81, C:0.02, G:0.13, T:0.04
Consensus pattern (20 bp):
TAAAGAAAAAAAAAAGAAAA
Found at i:511641 original size:22 final size:21
Alignment explanation
Indices: 511604--511656 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
511594 GAATATATAG
*
511604 TAAAGAAAAAAAAAGAGAAAA
1 TAAAGAAAAAAAAAGAAAAAA
*
511625 TAAAGCAAAGAAAAAGAAAAAA
1 TAAAG-AAAAAAAAAGAAAAAA
*
511647 GAAA-AAAAAA
1 TAAAGAAAAAA
511657 TCAAGTACTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 5 0.19
21 5 0.19
22 17 0.63
ACGTcount: A:0.81, C:0.02, G:0.13, T:0.04
Consensus pattern (21 bp):
TAAAGAAAAAAAAAGAAAAAA
Found at i:512251 original size:60 final size:60
Alignment explanation
Indices: 512178--512293 Score: 187
Period size: 60 Copynumber: 1.9 Consensus size: 60
512168 CTAAAAAGGT
* * *
512178 GGCTCGAATAAGCAGATCGTGTAGCTATTTCATAATAAGATGTCTTATACGATAAATTAG
1 GGCTCGAATAAGCAGATCGTATAGCTATTGCATAATAAGAGGTCTTATACGATAAATTAG
* *
512238 GGCTCGAATAAGCAGATCTTATAGTTATTGCATAATAAGAGGTCTTATACGATAAA
1 GGCTCGAATAAGCAGATCGTATAGCTATTGCATAATAAGAGGTCTTATACGATAAA
512294 GTAGCAAATC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 51 1.00
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (60 bp):
GGCTCGAATAAGCAGATCGTATAGCTATTGCATAATAAGAGGTCTTATACGATAAATTAG
Found at i:514344 original size:21 final size:21
Alignment explanation
Indices: 514315--514357 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
514305 TTATTGTAGT
* *
514315 TGTATTGTAGCAGTGCATCGA
1 TGTACTGTAGCAGTACATCGA
514336 TGTACTGTAGCAGTACATCGA
1 TGTACTGTAGCAGTACATCGA
514357 T
1 T
514358 ACACAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (21 bp):
TGTACTGTAGCAGTACATCGA
Found at i:515333 original size:185 final size:183
Alignment explanation
Indices: 515019--515350 Score: 463
Period size: 185 Copynumber: 1.8 Consensus size: 183
515009 TAAATACTAG
* ** *
515019 TTTTATATTTTTATTTAAATATTTAAAAAAATAGAAAGAAAAAAAACTTCAAAAATAATGTTTAT
1 TTTTATATTTTTATTGAAATATTTAAAAAAATAGAAAGAAAAAAAACTAAAAAAAGAATGTTTAT
** *
515084 TATAATTAAAAAAAGATATGATTTGTTAATCATTTCTCAGTTGAATTGATTTAATTTAACTTGTA
66 TATAATTAAAAAAAGATATGATGCGTTAATCATTTCTCAATTGAATTGATTTAATTTAACTTGTA
*
515149 AA-TCAATTCATTCAAAGGTTAAATATATATATATCAAATAGACAATATGTAGT
131 AACT-AATTCAATCAAAGGTTAAATATATATATATCAAATAGACAATATGTAGT
*** *
515202 TTTTATATTTTTATTGAAATATTTTAAAATTTTAGAAAGATAAAAACACATAAAAAAAAGAATGT
1 TTTTATATTTTTATTGAAATA-TTTAAAAAAATAGAAAGA-AAAAAAAC-T-AAAAAAAGAATGT
** *
515267 TTATTATAATT-TTAAAA-ATATGATGCGTTAATCATTTCTCAATTGAATTGATTTAATTTGACT
62 TTATTATAATTAAAAAAAGATATGATGCGTTAATCATTTCTCAATTGAATTGATTTAATTTAACT
515330 TGTAAACTAATTCAATCAAAG
127 TGTAAACTAATTCAATCAAAG
515351 ATGATATATA
Statistics
Matches: 129, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
183 20 0.16
184 15 0.12
185 67 0.52
186 6 0.05
187 21 0.16
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.40
Consensus pattern (183 bp):
TTTTATATTTTTATTGAAATATTTAAAAAAATAGAAAGAAAAAAAACTAAAAAAAGAATGTTTAT
TATAATTAAAAAAAGATATGATGCGTTAATCATTTCTCAATTGAATTGATTTAATTTAACTTGTA
AACTAATTCAATCAAAGGTTAAATATATATATATCAAATAGACAATATGTAGT
Found at i:517156 original size:30 final size:30
Alignment explanation
Indices: 517120--517178 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
517110 CAAACGCCGT
*
517120 AAAAGGTCAGATTTATAGTGGCATTTTTGC
1 AAAAGGTCAGATCTATAGTGGCATTTTTGC
*
517150 AAAAGGTCAGATCTATAGTGGCGTTTTTG
1 AAAAGGTCAGATCTATAGTGGCATTTTTG
517179 GATACAAACG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.29, C:0.10, G:0.25, T:0.36
Consensus pattern (30 bp):
AAAAGGTCAGATCTATAGTGGCATTTTTGC
Found at i:517220 original size:73 final size:72
Alignment explanation
Indices: 517086--517223 Score: 170
Period size: 73 Copynumber: 1.9 Consensus size: 72
517076 CAATAGATCA
* * * ** *
517086 AGATCTATTGCGGTGTTTTCGGATCAAACGCCGTAAAAGGTCAGATTTATAGTGGCATTTTTGCA
1 AGATCTATAGCGGCGTTTTCGGATCAAACGCCGCAAAAGGTCAGATTTATAACGACATTTTTGCA
517151 AAAGGTC
66 AAAGGTC
* * *
517158 AGATCTATAGTGGCGTTTTTGGATACAAACGCCGCAAAAGGTCAG-TTATATAACGACGTTTTTG
1 AGATCTATAGCGGCGTTTTCGGAT-CAAACGCCGCAAAAGGTCAGATT-TATAACGACATTTTTG
517222 CA
64 CA
517224 TACAAACGCC
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
72 22 0.40
73 33 0.60
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (72 bp):
AGATCTATAGCGGCGTTTTCGGATCAAACGCCGCAAAAGGTCAGATTTATAACGACATTTTTGCA
AAAGGTC
Found at i:517289 original size:43 final size:43
Alignment explanation
Indices: 517148--517293 Score: 217
Period size: 43 Copynumber: 3.4 Consensus size: 43
517138 TGGCATTTTT
*
517148 GCAAAAGGTCAGATCTATAGTGGCGTTTTTGGATACAAACGCC
1 GCAAAAGGTCAGATCTATAGTAGCGTTTTTGGATACAAACGCC
*
517191 GCAAAAGGTCAG-T-TATA-TAACGACGTTTTTGCATACAAACGCC
1 GCAAAAGGTCAGATCTATAGT-A-G-CGTTTTTGGATACAAACGCC
*
517234 GCAAAATGTCAGATCTATAGTAGCGTTTTTGGATACAAACGCC
1 GCAAAAGGTCAGATCTATAGTAGCGTTTTTGGATACAAACGCC
517277 GCAAAAGGTCAGATCTA
1 GCAAAAGGTCAGATCTA
517294 GCACTATGTT
Statistics
Matches: 92, Mismatches: 5, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
40 1 0.01
41 4 0.04
42 2 0.02
43 77 0.84
44 2 0.02
45 5 0.05
46 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (43 bp):
GCAAAAGGTCAGATCTATAGTAGCGTTTTTGGATACAAACGCC
Found at i:520917 original size:6 final size:6
Alignment explanation
Indices: 520906--520931 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
520896 CAAAGCCACG
520906 AATCAA AATCAA AATCAA AATCAA AA
1 AATCAA AATCAA AATCAA AATCAA AA
520932 GAACAACAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.15, G:0.00, T:0.15
Consensus pattern (6 bp):
AATCAA
Found at i:521256 original size:41 final size:41
Alignment explanation
Indices: 521189--521469 Score: 264
Period size: 41 Copynumber: 6.9 Consensus size: 41
521179 TTGTAAACAC
** * * *
521189 AAACGCCACTAAAGTATGAGTCTATAGCGGCGTATGTATAT
1 AAACGCCACTAAAGTACAAGTGTATAGCGGCGTTTGTATAA
* * *
521230 AAACTCCACTAAAGTACAATTATATAGCGG-G-TTGTATAA
1 AAACGCCACTAAAGTACAAGTGTATAGCGGCGTTTGTATAA
* * *
521269 AAACGCCACCAAAGTACAAGTGTATAGCGGCGTTTATATAT
1 AAACGCCACTAAAGTACAAGTGTATAGCGGCGTTTGTATAA
* * * *
521310 AAACGCCACTAAATTACAAGTCTTTAGCGGCGTTTATA-ACA
1 AAACGCCACTAAAGTACAAGTGTATAGCGGCGTTTGTATA-A
*
521351 CAAACGCCACT-AAGTACAATTGTATAGCGGCGTTTGTATAA
1 -AAACGCCACTAAAGTACAAGTGTATAGCGGCGTTTGTATAA
* * ** * *
521392 AAACTCCACTAAAGTACGAGCCTTTAGCGTCGTTTGTATAA
1 AAACGCCACTAAAGTACAAGTGTATAGCGGCGTTTGTATAA
* * * * * *
521433 AAACGCCATTAAAATACTACTGTGTTGCGGCGTTTGT
1 AAACGCCACTAAAGTACAAGTGTATAGCGGCGTTTGT
521470 TGAAAAATAC
Statistics
Matches: 194, Mismatches: 40, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
39 32 0.16
40 12 0.06
41 139 0.72
42 11 0.06
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (41 bp):
AAACGCCACTAAAGTACAAGTGTATAGCGGCGTTTGTATAA
Found at i:521402 original size:82 final size:82
Alignment explanation
Indices: 521184--521426 Score: 287
Period size: 80 Copynumber: 3.0 Consensus size: 82
521174 AGTGTTTGTA
** * *
521184 AACACAAACGCCACTAAAGTATGAGTCTATAGCGGCGTATGTATATAAACTCCACTAAAGTACAA
1 AACACAAACGCCACT-AAGTACAAGTGTATAGCGGCGTTTGTATATAAACTCCACTAAAGTACAA
* * *
521249 TTATATAGCGG-GTTGTAT
65 GTCTTTAGCGGCGTT-TAT
* * * *
521267 -A-A-AAACGCCACCAAAGTACAAGTGTATAGCGGCGTTTATATATAAACGCCACTAAATTACAA
1 AACACAAACGCCA-CTAAGTACAAGTGTATAGCGGCGTTTGTATATAAACTCCACTAAAGTACAA
521329 GTCTTTAGCGGCGTTTAT
65 GTCTTTAGCGGCGTTTAT
* * *
521347 AACACAAACGCCACTAAGTACAATTGTATAGCGGCGTTTGTATAAAAACTCCACTAAAGTACGAG
1 AACACAAACGCCACTAAGTACAAGTGTATAGCGGCGTTTGTATATAAACTCCACTAAAGTACAAG
* *
521412 CCTTTAGCGTCGTTT
66 TCTTTAGCGGCGTTT
521427 GTATAAAAAC
Statistics
Matches: 135, Mismatches: 20, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
80 61 0.45
81 6 0.04
82 60 0.44
83 8 0.06
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (82 bp):
AACACAAACGCCACTAAGTACAAGTGTATAGCGGCGTTTGTATATAAACTCCACTAAAGTACAAG
TCTTTAGCGGCGTTTAT
Found at i:521463 original size:123 final size:122
Alignment explanation
Indices: 521230--521467 Score: 291
Period size: 123 Copynumber: 1.9 Consensus size: 122
521220 GTATGTATAT
* **
521230 AAACTCCACTAAAGTACAATTATATAGCGGGTTGTATAAAAACGCCACCAAAGTACAAGTGTATA
1 AAACGCCACTAAAGTACAATTATATAGCGGGTTGTATAAAAACGCCACCAAAGTACAAGCCTATA
* * *
521295 GCGGCGTTTATATATAAACGCCACTAAATTACAAGTCTTTAGCGGCGTTTATAACAC
66 GCGGCGTTTATATAAAAACGCCACTAAAATACAACTCTTTAGCGGCGTTTATAACAC
* * * * *
521352 AAACGCCACT-AAGTACAATTGTATAGCGGCGTTTGTATAAAAACTCCACTAAAGTACGAGCCTT
1 AAACGCCACTAAAGTACAATTATATAGCGG-G-TTGTATAAAAACGCCACCAAAGTACAAGCCTA
* * * * *
521416 TAGCGTCGTTTGTATAAAAACGCCATTAAAATACTACTGTGTT-GCGGCGTTT
64 TAGCGGCGTTTATATAAAAACGCCACTAAAATACAACTCT-TTAGCGGCGTTT
521468 GTTGAAAAAT
Statistics
Matches: 97, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
121 18 0.19
122 10 0.10
123 67 0.69
124 2 0.02
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.28
Consensus pattern (122 bp):
AAACGCCACTAAAGTACAATTATATAGCGGGTTGTATAAAAACGCCACCAAAGTACAAGCCTATA
GCGGCGTTTATATAAAAACGCCACTAAAATACAACTCTTTAGCGGCGTTTATAACAC
Found at i:522346 original size:2 final size:2
Alignment explanation
Indices: 522339--522374 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
522329 TTACCCTTAT
522339 TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
522375 CGAAGATCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:522362 original size:15 final size:15
Alignment explanation
Indices: 522342--522371 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
522332 CCCTTATTAT
522342 ATATATATATATATA
1 ATATATATATATATA
522357 ATATATATATATATA
1 ATATATATATATATA
522372 TATCGAAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATATATATATATATA
Found at i:522362 original size:17 final size:17
Alignment explanation
Indices: 522340--522373 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
522330 TACCCTTATT
522340 ATATATATATATATATA
1 ATATATATATATATATA
522357 ATATATATATATATATA
1 ATATATATATATATATA
522374 TCGAAGATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATATATATATATATA
Found at i:523615 original size:18 final size:19
Alignment explanation
Indices: 523588--523623 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
523578 TTAGATAATG
523588 AATAATAAAAAAATAATAA
1 AATAATAAAAAAATAATAA
*
523607 AATAA-AAAAACATAATA
1 AATAATAAAAAAATAATA
523624 GTTGGCAGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (19 bp):
AATAATAAAAAAATAATAA
Found at i:524971 original size:2 final size:2
Alignment explanation
Indices: 524964--524996 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
524954 TATAAAAACA
524964 AT AT AT AT AT AT AT AT AT -T 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
524997 TAATAAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:524985 original size:15 final size:15
Alignment explanation
Indices: 524967--524998 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
524957 AAAAACAATA
524967 TATATATATATATAT
1 TATATATATATATAT
524982 TATATATATATATAT
1 TATATATATATATAT
524997 TA
1 TA
524999 ATAAATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATATATATATATAT
Found at i:525020 original size:18 final size:20
Alignment explanation
Indices: 524989--525037 Score: 64
Period size: 19 Copynumber: 2.4 Consensus size: 20
524979 TATTATATAT
*
524989 ATATATATTAATAAATAAATAA
1 ATATATAATAAT-AA-AAATAA
525011 AT-TATAATAATAAAAATAA
1 ATATATAATAATAAAAATAA
525030 ATATATAA
1 ATATATAA
525038 AACCCGGTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 8 0.32
20 7 0.28
21 8 0.32
22 2 0.08
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
ATATATAATAATAAAAATAA
Found at i:528233 original size:21 final size:21
Alignment explanation
Indices: 528209--528265 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
528199 CCTGCGAGCG
528209 TGACATGTAAACCGAAGGGCT
1 TGACATGTAAACCGAAGGGCT
* **
528230 TGACATATAAATTGAAGGGCT
1 TGACATGTAAACCGAAGGGCT
* * *
528251 TCAGATGTAATCCGA
1 TGACATGTAAACCGA
528266 CGAGCTCAAA
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.25
Consensus pattern (21 bp):
TGACATGTAAACCGAAGGGCT
Found at i:529685 original size:20 final size:21
Alignment explanation
Indices: 529662--529712 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
529652 TATTAAAATT
*
529662 TAAAATATTTAATAAA-ATAC
1 TAAAATATTTAATAAACATAA
* *
529682 TAAAAAATTAAATAAACATAA
1 TAAAATATTTAATAAACATAA
*
529703 TTAAATATTT
1 TAAAATATTT
529713 TTATCATATT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATATTTAATAAACATAA
Found at i:530663 original size:10 final size:9
Alignment explanation
Indices: 530637--530684 Score: 60
Period size: 9 Copynumber: 5.0 Consensus size: 9
530627 AGAATCGGCT
530637 GAAAACCGG
1 GAAAACCGG
530646 GAAAACCGG
1 GAAAACCGG
530655 GATAAACCGG
1 GA-AAACCGG
530665 CTGAAAACCGG
1 --GAAAACCGG
*
530676 CAAAACCGG
1 GAAAACCGG
530685 TTTGAACCAC
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
9 19 0.54
10 7 0.20
11 7 0.20
12 2 0.06
ACGTcount: A:0.42, C:0.25, G:0.29, T:0.04
Consensus pattern (9 bp):
GAAAACCGG
Found at i:530690 original size:21 final size:21
Alignment explanation
Indices: 530639--530684 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
530629 AATCGGCTGA
*
530639 AAACCGG--GAAAACCGGGAT
1 AAACCGGCTGAAAACCGGCAT
530658 AAACCGGCTGAAAACCGGCA-
1 AAACCGGCTGAAAACCGGCAT
530678 AAACCGG
1 AAACCGG
530685 TTTGAACCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 7 0.29
20 7 0.29
21 10 0.42
ACGTcount: A:0.41, C:0.26, G:0.28, T:0.04
Consensus pattern (21 bp):
AAACCGGCTGAAAACCGGCAT
Found at i:553307 original size:3 final size:3
Alignment explanation
Indices: 553301--553345 Score: 72
Period size: 3 Copynumber: 14.7 Consensus size: 3
553291 TTAATTGTTG
*
553301 TTA TTA TTA TTTA TTA TTA TTA TTA TTA TTA TTA TTA TTA ATA TT
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
553346 GCATTTTTAC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:563789 original size:10 final size:9
Alignment explanation
Indices: 563765--563792 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
563755 TCAACCTCCT
563765 GGAAAAAGG
1 GGAAAAAGG
563774 GGAAAAAGG
1 GGAAAAAGG
563783 GGAAAAAGG
1 GGAAAAAGG
563792 G
1 G
563793 ATATTACAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (9 bp):
GGAAAAAGG
Found at i:571187 original size:64 final size:63
Alignment explanation
Indices: 571118--571274 Score: 167
Period size: 64 Copynumber: 2.5 Consensus size: 63
571108 TAATGAAGGT
* * **
571118 ATGCATCGATGCACTACTTGTGCATCGGTGCA-TAAAATGTATTCGAT-ATTTTATTATTAATGG
1 ATGCATCGATGCACTACTTGTGCATCGATGCACT-AAATGCATTCGATCATTTTATT-TTAA-AA
571181 G
63 G
* * *
571182 ATGCATCGATGCA-TACCTTATGCATCGATGCACTAATTGCATTCGATCTTTTTATTTTAAAAG
1 ATGCATCGATGCACTA-CTTGTGCATCGATGCACTAAATGCATTCGATCATTTTATTTTAAAAG
* *
571245 AGTACATCGATGCACTACCTGTGCATCGAT
1 A-TGCATCGATGCACTACTTGTGCATCGAT
571275 ACACCTTCAA
Statistics
Matches: 78, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
63 4 0.05
64 64 0.82
65 10 0.13
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (63 bp):
ATGCATCGATGCACTACTTGTGCATCGATGCACTAAATGCATTCGATCATTTTATTTTAAAAG
Found at i:578084 original size:64 final size:63
Alignment explanation
Indices: 578015--578171 Score: 167
Period size: 64 Copynumber: 2.5 Consensus size: 63
578005 TAATGAAGGT
* **
578015 ATGCATCGATGCACTACTTGTGCATCGGTGCA-TAAAATGCATTCGAT-GTTTTATTATTAATGG
1 ATGCATCGATGCACTACTTGTGCATCGATGCACT-AAATGCATTCGATCGTTTTATT-TTAA-AA
578078 G
63 G
* * * * *
578079 ATGCATCGGTGCA-TGCCTTATGCATCGATGCACTAATTGCATTCGATCTTTTTATTTTAAAAG
1 ATGCATCGATGCACT-ACTTGTGCATCGATGCACTAAATGCATTCGATCGTTTTATTTTAAAAG
*
578142 AGTGCATCGATGCACTACCTGTGCATCGAT
1 A-TGCATCGATGCACTACTTGTGCATCGAT
578172 ACACCTTCAA
Statistics
Matches: 76, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
63 3 0.04
64 64 0.84
65 9 0.12
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.35
Consensus pattern (63 bp):
ATGCATCGATGCACTACTTGTGCATCGATGCACTAAATGCATTCGATCGTTTTATTTTAAAAG
Found at i:579648 original size:34 final size:34
Alignment explanation
Indices: 579592--579657 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
579582 TCAATCACAT
* * *
579592 CATTTAATACTTTGAACTAAATAAAACCTCAAAA
1 CATTTAATACTTTAAACAAAATAAAACATCAAAA
*
579626 CATTTAATATTTTAAACAAAATAAAACATCAA
1 CATTTAATACTTTAAACAAAATAAAACATCAA
579658 GATCGAACTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.53, C:0.15, G:0.02, T:0.30
Consensus pattern (34 bp):
CATTTAATACTTTAAACAAAATAAAACATCAAAA
Found at i:586450 original size:18 final size:19
Alignment explanation
Indices: 586408--586447 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
586398 TTTGGTTCAC
*
586408 GGAATGTAAGATTACTAGTG
1 GGAATGTAAGATTACCAG-G
586428 GGAATGTAAGATTACCAGG
1 GGAATGTAAGATTACCAGG
586447 G
1 G
586448 AATAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.35, C:0.07, G:0.33, T:0.25
Consensus pattern (19 bp):
GGAATGTAAGATTACCAGG
Found at i:586673 original size:36 final size:36
Alignment explanation
Indices: 586600--586673 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 36
586590 CAAGTTGGAA
**
586600 AATATTTATATATTTTCTTTAAAAATTTAAATTTAT
1 AATATTTATATATTTTCTTTAAAAATTTAAAAATAT
586636 AATATTTATATAATTTT-TTTACAAAA-TTAAAAATAT
1 AATATTTATAT-ATTTTCTTTA-AAAATTTAAAAATAT
586672 AA
1 AA
586674 AAAAAGGTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 25 0.74
37 9 0.26
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (36 bp):
AATATTTATATATTTTCTTTAAAAATTTAAAAATAT
Found at i:590685 original size:413 final size:416
Alignment explanation
Indices: 589915--590740 Score: 1419
Period size: 413 Copynumber: 2.0 Consensus size: 416
589905 ACCCAACAAA
589915 ATAAGTCTAGATTCATTGTTTTCACCCACTTGATTCTCATGTTTAGAACAATTTTTAGGGGCTAA
1 ATAAGTCTAGATTCATTGTTTTCACCCACTTGATTCTCATGTTTAGAACAATTTTTAGGGGCTAA
* * * * *
589980 ACAAACATTAGGTTTAGCTTTTAAAATCCCAGGTTCGTCAGTTTTGTAAGTAAATCTTGTTTTAT
66 ACAAACATCAGGTTTAGCTTTTAAAATCCCAGGTTCATCAGTTTTGTAAGTAAATATGGATTTAT
* *
590045 CATTCACTAAAGTAACCAAAACAGGGTTCTTCCCTTCATTTTTAAAGGTATTAGGAGTTTGTACC
131 CATTCACTAAAGTAACCAAAACAGGGTTCTTCCATTCATTTTTAAAGGTATTAGGAGTTTGTACA
590110 TATTCACCAGCAGAATTTTCTTGCTCACCATTTCTGTCTGTTAAGATCTTTAACAGCTCCTCAAC
196 TATTCACCAGCAGAATTTTCTTGCTCACCATTTCTGTCTGTTAAGATCTTTAACAGCTCCTCAAC
* * *
590175 ATAACCTTGATTAGTAGACATCCTTGATTCCAATGCAGTAATTTGATTTTCTAAGTTTCCCACCA
261 ATAACCTTGATTAGTAGACATCCTTGATTCCAATACAGTAATTCGATTTTCTAAATTTCCCACCA
*
590240 TTTAGGTGGATTAGTTTTTTCTTGGCCTTGTTTCACCAACGCAACTAAATCTTCAATATGTTTTT
326 TTTAGGTGGATTAGTTTTTTATTGGCCTTGTTTCACCAACGCAACTAAATCTTCAATATGTTTTT
590305 GTAGCGCAGAGAAATCAGCTTCAACC
391 GTAGCGCAGAGAAATCAGCTTCAACC
*
590331 ATAAGTCTAGATTCATTGTTTTCACCCACTTGATTCTCATGTTTATAACAA-TTTTA-GGGCTAA
1 ATAAGTCTAGATTCATTGTTTTCACCCACTTGATTCTCATGTTTAGAACAATTTTTAGGGGCTAA
*
590394 ACAAACATCAGGTTTAGCTTTTAAAAT-CCAGGTTCATCAGTTTTGTAAGTAAATATGGATTTGT
66 ACAAACATCAGGTTTAGCTTTTAAAATCCCAGGTTCATCAGTTTTGTAAGTAAATATGGATTTAT
* * *
590458 CATTCATTACAA-TAACCAAAACAGGGTTCTTCCATTTATTTTTAGAGGTATTAGGAGTTTGTAC
131 CATTCACTA-AAGTAACCAAAACAGGGTTCTTCCATTCATTTTTAAAGGTATTAGGAGTTTGTAC
*
590522 ATGTTCACCAGCAGAATTTTCTTGCTCACCA-TTCTGTCTGTTAAGATCTTTAACAGCTCCTCAA
195 ATATTCACCAGCAGAATTTTCTTGCTCACCATTTCTGTCTGTTAAGATCTTTAACAGCTCCTCAA
590586 CATAACCTTGATTAGTAGACATCCTTGATTCCAATACAGTAATTCGATTTTCTTAAATTTCCCAC
260 CATAACCTTGATTAGTAGACATCCTTGATTCCAATACAGTAATTCGATTTTC-TAAATTTCCCAC
* *
590651 CATTTTGGTGGATTAGTTTTTTATTGGCCTTGTTTCACCAACGCAACTAAATCTTCAATCTGTTT
324 CATTTAGGTGGATTAGTTTTTTATTGGCCTTGTTTCACCAACGCAACTAAATCTTCAATATGTTT
*
590716 TTGTAGCGTAGAGAAATCAGCTTCA
389 TTGTAGCGCAGAGAAATCAGCTTCA
590741 GTCATATTCT
Statistics
Matches: 388, Mismatches: 20, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
412 83 0.21
413 215 0.55
414 35 0.09
415 5 0.01
416 50 0.13
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (416 bp):
ATAAGTCTAGATTCATTGTTTTCACCCACTTGATTCTCATGTTTAGAACAATTTTTAGGGGCTAA
ACAAACATCAGGTTTAGCTTTTAAAATCCCAGGTTCATCAGTTTTGTAAGTAAATATGGATTTAT
CATTCACTAAAGTAACCAAAACAGGGTTCTTCCATTCATTTTTAAAGGTATTAGGAGTTTGTACA
TATTCACCAGCAGAATTTTCTTGCTCACCATTTCTGTCTGTTAAGATCTTTAACAGCTCCTCAAC
ATAACCTTGATTAGTAGACATCCTTGATTCCAATACAGTAATTCGATTTTCTAAATTTCCCACCA
TTTAGGTGGATTAGTTTTTTATTGGCCTTGTTTCACCAACGCAACTAAATCTTCAATATGTTTTT
GTAGCGCAGAGAAATCAGCTTCAACC
Found at i:593932 original size:16 final size:16
Alignment explanation
Indices: 593913--593990 Score: 68
Period size: 16 Copynumber: 4.9 Consensus size: 16
593903 AACCATAACT
593913 AAAATTAACCCGAACC
1 AAAATTAACCCGAACC
** *
593929 AAAAGCAACCTGAACC
1 AAAATTAACCCGAACC
* *
593945 GAAATTAAACCGAACC
1 AAAATTAACCCGAACC
* **
593961 GAAAA-CAACTTGAACC
1 -AAAATTAACCCGAACC
593977 AAAATTAACCCGAA
1 AAAATTAACCCGAA
593991 TCGAAGGAAA
Statistics
Matches: 44, Mismatches: 16, Indels: 4
0.69 0.25 0.06
Matches are distributed among these distances:
15 4 0.09
16 37 0.84
17 3 0.07
ACGTcount: A:0.51, C:0.27, G:0.10, T:0.12
Consensus pattern (16 bp):
AAAATTAACCCGAACC
Found at i:593938 original size:32 final size:32
Alignment explanation
Indices: 593913--593995 Score: 114
Period size: 32 Copynumber: 2.6 Consensus size: 32
593903 AACCATAACT
593913 AAAATTAACCCGAACC-AAAAGCAACCTGAACC
1 AAAATTAACCCGAACCGAAAA-CAACCTGAACC
* * *
593945 GAAATTAAACCGAACCGAAAACAACTTGAACC
1 AAAATTAACCCGAACCGAAAACAACCTGAACC
*
593977 AAAATTAACCCGAATCGAA
1 AAAATTAACCCGAACCGAA
593996 GGAAATCTGA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
32 40 0.91
33 4 0.09
ACGTcount: A:0.51, C:0.27, G:0.11, T:0.12
Consensus pattern (32 bp):
AAAATTAACCCGAACCGAAAACAACCTGAACC
Found at i:594281 original size:19 final size:20
Alignment explanation
Indices: 594257--594294 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
594247 TTTACTTATC
*
594257 TTATAA-AAAAATATTAGAT
1 TTATAATAAAAATAATAGAT
594276 TTATAATAAAAATAATAGA
1 TTATAATAAAAATAATAGA
594295 AAACAACTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (20 bp):
TTATAATAAAAATAATAGAT
Found at i:600020 original size:32 final size:32
Alignment explanation
Indices: 599984--600062 Score: 115
Period size: 32 Copynumber: 2.5 Consensus size: 32
599974 ATGTCCAATT
599984 ACTTCACTTT-AGAAACTTTTCAGTGAGATATC
1 ACTTCA-TTTCAGAAACTTTTCAGTGAGATATC
*
600016 ACTTCATTTCAGAAACTTTTCAGTGATATATC
1 ACTTCATTTCAGAAACTTTTCAGTGAGATATC
* *
600048 ACTTTATTTAAGAAA
1 ACTTCATTTCAGAAA
600063 AATCATTGTA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
31 3 0.07
32 40 0.93
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.39
Consensus pattern (32 bp):
ACTTCATTTCAGAAACTTTTCAGTGAGATATC
Found at i:600968 original size:19 final size:19
Alignment explanation
Indices: 600898--600968 Score: 61
Period size: 19 Copynumber: 3.6 Consensus size: 19
600888 ATGCAATAAT
* *
600898 GGTATCGATACCATGGGAA
1 GGTATCGATACCATGGTAG
* * *
600917 GGTATCGGTACCCTAGTATG
1 GGTATCGATACCATGGTA-G
*
600937 GTAGTATCAATACCATGGTAG
1 G--GTATCGATACCATGGTAG
600958 GGTATCGATAC
1 GGTATCGATAC
600969 TGTGGAACCA
Statistics
Matches: 39, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
19 23 0.59
20 1 0.03
21 2 0.05
22 13 0.33
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (19 bp):
GGTATCGATACCATGGTAG
Found at i:601466 original size:34 final size:34
Alignment explanation
Indices: 601418--601549 Score: 113
Period size: 34 Copynumber: 3.6 Consensus size: 34
601408 CCATAGCTGA
*
601418 AATGTATATGGGTGCATTATCGACATAAAAGAAT
1 AATGCATATGGGTGCATTATCGACATAAAAGAAT
* *
601452 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCT
1 AATGCATATGGGTGCATTATCGACAT-AAA--A-G--A-A--T
*
601495 GAATGCAGT-TGAGTGCATTATCGACATAAAAGAAT
1 -AATGCA-TATGGGTGCATTATCGACATAAAAGAAT
*
601530 AATGCATATGGATGCATTAT
1 AATGCATATGGGTGCATTAT
601550 TGAAAGGATG
Statistics
Matches: 78, Mismatches: 8, Indels: 24
0.71 0.07 0.22
Matches are distributed among these distances:
33 1 0.01
34 39 0.50
35 4 0.05
37 2 0.03
38 2 0.03
40 2 0.03
41 2 0.03
43 4 0.05
44 21 0.27
45 1 0.01
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.29
Consensus pattern (34 bp):
AATGCATATGGGTGCATTATCGACATAAAAGAAT
Found at i:601521 original size:78 final size:76
Alignment explanation
Indices: 601366--601595 Score: 321
Period size: 78 Copynumber: 3.0 Consensus size: 76
601356 GAATGAATGA
*
601366 ATAAAAG-ATAATGCATATGGGTGCATTATTACATGAAA-GATGCCATAGCTGAAATGTATATGG
1 ATAAAAGAATAATGCATATGGGTGCATTATT-CATGAAAGGATGCCATAGCTGAAATGCATAT-G
601429 GTGCATTATCGAC
64 GTGCATTATCGAC
601442 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTG-AATGCAGT-T
1 ATAAAAGAATAATGCATATGGGTGCATTATT--CATGAAAGGATGCCATAGCTGAAATGCA-TAT
601505 GAGTGCATTATCGAC
63 G-GTGCATTATCGAC
* * *
601520 ATAAAAGAATAATGCATATGGATGCATTA-T--TGAAAGGATGTCAAAGCTGAAATGCATATGGT
1 ATAAAAGAATAATGCATATGGGTGCATTATTCATGAAAGGATGCCATAGCTGAAATGCATATGGT
601582 GCATTATCGAC
66 GCATTATCGAC
601593 ATA
1 ATA
601596 GAAGTATGCT
Statistics
Matches: 142, Mismatches: 5, Indels: 17
0.87 0.03 0.10
Matches are distributed among these distances:
73 34 0.24
74 8 0.06
76 7 0.05
77 25 0.18
78 54 0.38
79 14 0.10
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (76 bp):
ATAAAAGAATAATGCATATGGGTGCATTATTCATGAAAGGATGCCATAGCTGAAATGCATATGGT
GCATTATCGAC
Found at i:609438 original size:21 final size:20
Alignment explanation
Indices: 609387--609457 Score: 58
Period size: 20 Copynumber: 3.5 Consensus size: 20
609377 ATGCAAAAAT
*
609387 GGTATCGATACCAT-G-AGAA
1 GGTATCGATACCATAGTAG-G
*
609406 GGTATCTG-TACCCTAGTATGG
1 GGTATC-GATACCATAGTA-GG
* *
609427 TGTATCGATACCATGGTAGG
1 GGTATCGATACCATAGTAGG
609447 GGTATCGATAC
1 GGTATCGATAC
609458 TGTGGAACCA
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
19 11 0.27
20 15 0.37
21 14 0.34
22 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (20 bp):
GGTATCGATACCATAGTAGG
Found at i:609999 original size:79 final size:79
Alignment explanation
Indices: 609864--610106 Score: 378
Period size: 79 Copynumber: 3.1 Consensus size: 79
609854 TAACGAATGA
* * * **
609864 ATAAAAGAATAATACATATGGGTGCATTATTGGCATGAAAGGATTACATAGCTGAAATGTATACA
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATTCCATAGCTGAAATGAATATG
*
609929 GGTGCATTATCGGC
66 GGTGCATTATCGAC
* * *
609943 ATATAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATTCCATAGTTGAAATGCATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATTCCATAGCTGAAATGAATATG
610008 GGTGCATTATCGAC
66 GGTGCATTATCGAC
* * *
610022 ATAAAATAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATGGCTGAAATGAATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATTCCATAGCTGAAATGAATATG
610087 GGTGCATTATCGAC
66 GGTGCATTATCGAC
610101 ATAAAA
1 ATAAAA
610107 ATATGCTATA
Statistics
Matches: 150, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
79 150 1.00
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.28
Consensus pattern (79 bp):
ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATTCCATAGCTGAAATGAATATG
GGTGCATTATCGAC
Found at i:610017 original size:45 final size:44
Alignment explanation
Indices: 609953--610096 Score: 155
Period size: 45 Copynumber: 3.5 Consensus size: 44
609943 ATATAAGAAT
609953 AATGCATATGGGTGCATTATTGGCATGAAAGGATTCCATAGTTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATTCCATAG-TGA
* *
609998 AATGCATATGGGTGCATTATCGACAT-AAA--A-T--A-A-T--
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATTCCATAGTGA
* *
610032 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATGGCTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATTCCATAG-TGA
*
610077 AATGAATATGGGTGCATTAT
1 AATGCATATGGGTGCATTAT
610097 CGACATAAAA
Statistics
Matches: 81, Mismatches: 7, Indels: 22
0.74 0.06 0.20
Matches are distributed among these distances:
34 24 0.30
35 3 0.04
36 1 0.01
37 1 0.01
38 1 0.01
39 1 0.01
40 1 0.01
41 1 0.01
42 1 0.01
43 1 0.01
44 3 0.04
45 43 0.53
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (44 bp):
AATGCATATGGGTGCATTATTGGCATGAAAGGATTCCATAGTGA
Found at i:623558 original size:22 final size:22
Alignment explanation
Indices: 623544--623587 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
623534 TTAGTATTAT
*
623544 TAATTCATATCATTATATTTAA
1 TAATTAATATCATTATATTTAA
*
623566 TAATTAATATTATTA-A-TTAA
1 TAATTAATATCATTATATTTAA
623586 TA
1 TA
623588 TCATTATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 1 0.05
22 13 0.65
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (22 bp):
TAATTAATATCATTATATTTAA
Found at i:623562 original size:35 final size:34
Alignment explanation
Indices: 623489--623599 Score: 145
Period size: 35 Copynumber: 3.2 Consensus size: 34
623479 ATTTAATTAC
* * *
623489 TATATTT-ATATATTATTATTTTTAATTAT-TTAT
1 TATATTTAATA-ATTAATATTATTAATTATATCAT
*
623522 TATATTTAATAATTAGTATTATTAATTCATATCAT
1 TATATTTAATAATTAATATTATTAATT-ATATCAT
623557 TATATTTAATAATTAATATTATTAATTAATATCAT
1 TATATTTAATAATTAATATTATTAATT-ATATCAT
623592 TATATTTA
1 TATATTTA
623600 TTTATTATAT
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
33 21 0.30
34 5 0.07
35 44 0.63
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.57
Consensus pattern (34 bp):
TATATTTAATAATTAATATTATTAATTATATCAT
Found at i:623613 original size:13 final size:13
Alignment explanation
Indices: 623590--623616 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
623580 AATTAATATC
623590 ATTATATTTATTT
1 ATTATATTTATTT
623603 ATTATATTTATTT
1 ATTATATTTATTT
623616 A
1 A
623617 ATATCTACGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
ATTATATTTATTT
Found at i:623614 original size:35 final size:35
Alignment explanation
Indices: 623489--623614 Score: 138
Period size: 35 Copynumber: 3.7 Consensus size: 35
623479 ATTTAATTAC
* *
623489 TATATTT-ATATATTATTATTT-TTAATTAT-TTAT
1 TATATTTAATA-ATTAGTATTTATTAATTATATCAT
623522 TATATTTAATAATTAGTA-TTATTAATTCATATCAT
1 TATATTTAATAATTAGTATTTATTAATT-ATATCAT
*
623557 TATATTTAATAATTAATA-TTATTAATTAATATCAT
1 TATATTTAATAATTAGTATTTATTAATT-ATATCAT
* *
623592 TATATTTATTTATTA-TATTTATT
1 TATATTTAATAATTAGTATTTATT
623615 TAATATCTAC
Statistics
Matches: 82, Mismatches: 6, Indels: 8
0.85 0.06 0.08
Matches are distributed among these distances:
32 2 0.02
33 19 0.23
34 7 0.09
35 54 0.66
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.59
Consensus pattern (35 bp):
TATATTTAATAATTAGTATTTATTAATTATATCAT
Found at i:637809 original size:20 final size:20
Alignment explanation
Indices: 637784--637828 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
637774 GTGAGTATCG
*
637784 ATACTTCATAGGTGGTAACA
1 ATACTTCACAGGTGGTAACA
*
637804 ATACTTCACAGGTGGTATCA
1 ATACTTCACAGGTGGTAACA
637824 ATACT
1 ATACT
637829 CGAGGCCTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (20 bp):
ATACTTCACAGGTGGTAACA
Found at i:638616 original size:151 final size:151
Alignment explanation
Indices: 638342--638645 Score: 581
Period size: 151 Copynumber: 2.0 Consensus size: 151
638332 TTTTACACGG
638342 GATTAGCTAGAACCTTTCCCTTTTATAAAATGATAAAAGAAGTAAACAAGAAAACCTCTCTAAGG
1 GATTAGCTAGAACCTTTCCCTTTTATAAAATGATAAAAGAAGTAAACAAGAAAACCTCTCTAAGG
* *
638407 TAGGTGTTTACAAGATTGAGCTCACAATAACAAAATATTTACAAGAGAAAGATGAAATAAGAATA
66 TAGGTGTTTACAAGACTGAGCTCACAAGAACAAAATATTTACAAGAGAAAGATGAAATAAGAATA
638472 AAAAACTCTTCTCTTGTGTTT
131 AAAAACTCTTCTCTTGTGTTT
638493 GATTAGCTAGAACCTTTCCCTTTTATAAAATGATAAAAGAAGTAAACAAGAAAACCTCTCTAAGG
1 GATTAGCTAGAACCTTTCCCTTTTATAAAATGATAAAAGAAGTAAACAAGAAAACCTCTCTAAGG
*
638558 TAGGTGTTTACAAGACTGAGCTCACAAGAACAAAATATTTACAAGAGAAAGATGAAATAAGAATG
66 TAGGTGTTTACAAGACTGAGCTCACAAGAACAAAATATTTACAAGAGAAAGATGAAATAAGAATA
638623 AAAAACTCTTCTCTTGTGTTT
131 AAAAACTCTTCTCTTGTGTTT
638644 GA
1 GA
638646 ATACTTGGAT
Statistics
Matches: 150, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
151 150 1.00
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.28
Consensus pattern (151 bp):
GATTAGCTAGAACCTTTCCCTTTTATAAAATGATAAAAGAAGTAAACAAGAAAACCTCTCTAAGG
TAGGTGTTTACAAGACTGAGCTCACAAGAACAAAATATTTACAAGAGAAAGATGAAATAAGAATA
AAAAACTCTTCTCTTGTGTTT
Found at i:638752 original size:20 final size:22
Alignment explanation
Indices: 638727--638766 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
638717 TGTTGTATAT
638727 AGCCA-TTGGGGATG-TTTTGG
1 AGCCATTTGGGGATGATTTTGG
638747 AGCCATTTGGGGATGATTTT
1 AGCCATTTGGGGATGATTTT
638767 TCTACTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.17, C:0.10, G:0.35, T:0.38
Consensus pattern (22 bp):
AGCCATTTGGGGATGATTTTGG
Found at i:638923 original size:21 final size:21
Alignment explanation
Indices: 638897--638949 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
638887 TGCACAGCAG
638897 GATGCATCGATGCACAACCTT
1 GATGCATCGATGCACAACCTT
*
638918 GATGCATCGATGCACGACCTT
1 GATGCATCGATGCACAACCTT
638939 GATGCATCGAT
1 GATGCATCGAT
638950 ATACAGAAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (21 bp):
GATGCATCGATGCACAACCTT
Found at i:639063 original size:21 final size:20
Alignment explanation
Indices: 638994--639092 Score: 119
Period size: 21 Copynumber: 4.8 Consensus size: 20
638984 CGGTGTTTGA
*
638994 GTGCATGGATGCACTGCATG
1 GTGCATGGATGCACTGCAGG
**
639014 GTGCATCCATGCACTAGTACA-G
1 GTGCATGGATGCACT-G--CAGG
639036 GTGCATGGATGCACTGCAGG
1 GTGCATGGATGCACTGCAGG
639056 GATGCATGGATGCACTGCAGGG
1 G-TGCATGGATGCACTGCA-GG
639078 GTGCATGGATGCACT
1 GTGCATGGATGCACT
639093 TTGACACCCT
Statistics
Matches: 69, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
19 2 0.03
20 15 0.22
21 33 0.48
22 17 0.25
23 2 0.03
ACGTcount: A:0.22, C:0.21, G:0.34, T:0.22
Consensus pattern (20 bp):
GTGCATGGATGCACTGCAGG
Found at i:639193 original size:29 final size:29
Alignment explanation
Indices: 639172--639229 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
639162 AAACTTTGAA
639172 TAAATTCAATT-AAGTCCAAAAACATTTTG
1 TAAATTCAATTCAAGTCCAAAAACA-TTTG
639201 TAAATTCAATTCAAGTCCAAAAACCATTT
1 TAAATTCAATTCAAGTCCAAAAA-CATTT
639230 TGCCTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 11 0.41
30 14 0.52
31 2 0.07
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (29 bp):
TAAATTCAATTCAAGTCCAAAAACATTTG
Found at i:639219 original size:30 final size:30
Alignment explanation
Indices: 639172--639231 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 30
639162 AAACTTTGAA
639172 TAAATTCAATTAAGTCCAAAAA-CATTTTG
1 TAAATTCAATTAAGTCCAAAAACCATTTTG
639201 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATT-AAGTCCAAAAACCATTTTG
639232 CCTTAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 11 0.38
31 7 0.24
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAACCATTTTG
Found at i:640472 original size:19 final size:20
Alignment explanation
Indices: 640429--640476 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
640419 TCTAAATCCT
*
640429 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
640449 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
640468 TTTTCAAAA
1 TTTTCAAAA
640477 GAAAATCGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:641640 original size:20 final size:22
Alignment explanation
Indices: 641615--641654 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
641605 TGTTGTATAT
641615 AGCCG-TTGGGGATG-TTTTGG
1 AGCCGTTTGGGGATGATTTTGG
641635 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
641655 TCTACTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTGG
Found at i:641811 original size:21 final size:21
Alignment explanation
Indices: 641767--641863 Score: 124
Period size: 21 Copynumber: 4.7 Consensus size: 21
641757 GCAGCCTTCG
* **
641767 TGCATGGATGCACAA-CAGGA
1 TGCATCGATGCACAACCTTGA
* *
641787 TGCATCAATGCACAGCCTTGA
1 TGCATCGATGCACAACCTTGA
641808 TGCATCGATGCACAACCTTGA
1 TGCATCGATGCACAACCTTGA
*
641829 TGTATCGATGCACAACCTTGA
1 TGCATCGATGCACAACCTTGA
*
641850 TGCATTGATGCACA
1 TGCATCGATGCACA
641864 GAAAGATGCA
Statistics
Matches: 66, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
20 12 0.18
21 54 0.82
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.24
Consensus pattern (21 bp):
TGCATCGATGCACAACCTTGA
Found at i:641972 original size:21 final size:20
Alignment explanation
Indices: 641903--642001 Score: 119
Period size: 21 Copynumber: 4.8 Consensus size: 20
641893 CGGTGTTTTA
* *
641903 GTGCATGGATGCACTGTATG
1 GTGCATGGATGCACTGCAGG
*
641923 GTGCATCGATGCACTAGTGCA-G
1 GTGCATGGATGCAC---TGCAGG
641945 GTGCATGGATGCACTGCAGG
1 GTGCATGGATGCACTGCAGG
641965 GATGCATGGATGCACTGCAGGG
1 G-TGCATGGATGCACTGCA-GG
641987 GTGCATGGATGCACT
1 GTGCATGGATGCACT
642002 TTGACACCCT
Statistics
Matches: 70, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
19 4 0.06
20 15 0.21
21 31 0.44
22 17 0.24
23 3 0.04
ACGTcount: A:0.21, C:0.19, G:0.36, T:0.23
Consensus pattern (20 bp):
GTGCATGGATGCACTGCAGG
Found at i:642128 original size:30 final size:30
Alignment explanation
Indices: 642081--642139 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
642071 AAACTTTGAA
* *
642081 TAAATTCAATTAAGTCCAAATA-CATTTTG
1 TAAATTCAATCAAGTCCAAAAACCATTTTG
642110 TAAATTCAAATCAAGTCCAAAAACCATTTT
1 TAAATTC-AATCAAGTCCAAAAACCATTTT
642140 TCCTTAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 7 0.27
30 13 0.50
31 6 0.23
ACGTcount: A:0.44, C:0.17, G:0.05, T:0.34
Consensus pattern (30 bp):
TAAATTCAATCAAGTCCAAAAACCATTTTG
Found at i:648853 original size:12 final size:13
Alignment explanation
Indices: 648825--648867 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
648815 TATTTTATTC
* *
648825 TCATTTTCCACTT
1 TCATATTCCATTT
648838 TCATATT-CATTT
1 TCATATTCCATTT
*
648850 TCATATTCCATGT
1 TCATATTCCATTT
648863 TCATA
1 TCATA
648868 ATAAGTACTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
12 11 0.42
13 15 0.58
ACGTcount: A:0.23, C:0.23, G:0.02, T:0.51
Consensus pattern (13 bp):
TCATATTCCATTT
Found at i:648981 original size:19 final size:19
Alignment explanation
Indices: 648910--648984 Score: 89
Period size: 19 Copynumber: 3.9 Consensus size: 19
648900 TGAATCAGAA
*
648910 CTTA-TTTCTAGATTCATAA
1 CTTATTTTC-AGATTCATAG
*
648929 CTTATTTTCAGACTCATAG
1 CTTATTTTCAGATTCATAG
* *
648948 CTTACTGTCAGATTCATAG
1 CTTATTTTCAGATTCATAG
*
648967 CTTATTTTCAAATTCATA
1 CTTATTTTCAGATTCATA
648985 TCCCAATGCA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
19 43 0.91
20 4 0.09
ACGTcount: A:0.29, C:0.19, G:0.08, T:0.44
Consensus pattern (19 bp):
CTTATTTTCAGATTCATAG
Found at i:652868 original size:76 final size:78
Alignment explanation
Indices: 652782--652936 Score: 296
Period size: 78 Copynumber: 2.0 Consensus size: 78
652772 GAAATCAGCC
652782 TTTCAAACTAAAGATGGTAAAA-TTCTCTTTTGGTCCCTTT-ACTTTGGCCATAACATAAAAATA
1 TTTCAAACTAAAGATGGTAAAATTTCTCTTTTGGTCCCTTTAACTTTGGCCATAACATAAAAATA
652845 CGCTTTTTTATCA
66 CGCTTTTTTATCA
652858 TTTCAAACTAAAGATGGTAAAATTTCTCTTTTGGTCCCTTTAACTTTGGCCATAACATAAAAATA
1 TTTCAAACTAAAGATGGTAAAATTTCTCTTTTGGTCCCTTTAACTTTGGCCATAACATAAAAATA
652923 CGCTTTTTTATCA
66 CGCTTTTTTATCA
652936 T
1 T
652937 CCATTGGGCC
Statistics
Matches: 77, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
76 22 0.29
77 18 0.23
78 37 0.48
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.40
Consensus pattern (78 bp):
TTTCAAACTAAAGATGGTAAAATTTCTCTTTTGGTCCCTTTAACTTTGGCCATAACATAAAAATA
CGCTTTTTTATCA
Found at i:654159 original size:22 final size:20
Alignment explanation
Indices: 654134--654191 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 20
654124 CTTCAAGAAA
*
654134 GACATAAAATAAGAGAAAAGGG
1 GACA-AAAA-AAGAGAAAAGAG
654156 GACAAGAAAAA-AGAAAAGAG
1 GACAA-AAAAAGAGAAAAGAG
*
654176 GAGAGAAAAAAGAGAA
1 GACA-AAAAAAGAGAA
654192 TTACTAAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
20 16 0.52
21 8 0.26
22 7 0.23
ACGTcount: A:0.66, C:0.03, G:0.28, T:0.03
Consensus pattern (20 bp):
GACAAAAAAAGAGAAAAGAG
Found at i:654172 original size:20 final size:19
Alignment explanation
Indices: 654147--654188 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
654137 ATAAAATAAG
*
654147 AGAAAAGGGGACAAGAAAAA
1 AGAAAAGAGGA-AAGAAAAA
*
654167 AGAAAAGAGGAGAGAAAAA
1 AGAAAAGAGGAAAGAAAAA
654186 AGA
1 AGA
654189 GAATTACTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.67, C:0.02, G:0.31, T:0.00
Consensus pattern (19 bp):
AGAAAAGAGGAAAGAAAAA
Found at i:657048 original size:21 final size:21
Alignment explanation
Indices: 657024--657066 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
657014 TCTGGTTCGT
*
657024 TTGAGGGGGTATC-AGTTCCCC
1 TTGAAGGGGTATCGA-TTCCCC
*
657045 TTGAATGGGTATCGATTCCCC
1 TTGAAGGGGTATCGATTCCCC
657066 T
1 T
657067 AGACCAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.16, C:0.23, G:0.28, T:0.33
Consensus pattern (21 bp):
TTGAAGGGGTATCGATTCCCC
Found at i:660582 original size:23 final size:23
Alignment explanation
Indices: 660556--660600 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
660546 CACCACAGCT
*
660556 CGTATAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGGAGTGCCG
*
660579 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGGAGTGCC
660601 ATATAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.29, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGGAGTGCCG
Found at i:672741 original size:118 final size:114
Alignment explanation
Indices: 672537--672767 Score: 408
Period size: 118 Copynumber: 2.0 Consensus size: 114
672527 CAGAAGGCTA
* *
672537 TAATTTTTTAAAACAAAATGTGTGATTTATTTATTTGATAGTGAATTGATATTTTGCTTTAATTT
1 TAATTTTTGAAAACAAAATGTGTGATTTATTTATTTGATAGTGAATTGATATTTTGCTTCAATTT
672602 TAAGTTTAAATGAGCATTATTGTGTTATATAAATATTTACATTGAACTG
66 TAAGTTTAAATGAGCATTATTGTGTTATATAAATATTTACATTGAACTG
672651 TAATTTTTGAAAACAAAATGTGTGATTTATTTATTTGATATTCAGTGAATTGATATTTTGCTTCA
1 TAATTTTTGAAAACAAAATGTGTGATTTATTTATTTG--A-T-AGTGAATTGATATTTTGCTTCA
672716 ATTTTAAGTTTAAATGAGCATTATTGTGTTATATAAATATTTACATTGAACT
62 ATTTTAAGTTTAAATGAGCATTATTGTGTTATATAAATATTTACATTGAACT
672768 TTTCAATACT
Statistics
Matches: 111, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
114 36 0.32
116 1 0.01
117 1 0.01
118 73 0.66
ACGTcount: A:0.34, C:0.05, G:0.13, T:0.48
Consensus pattern (114 bp):
TAATTTTTGAAAACAAAATGTGTGATTTATTTATTTGATAGTGAATTGATATTTTGCTTCAATTT
TAAGTTTAAATGAGCATTATTGTGTTATATAAATATTTACATTGAACTG
Found at i:673069 original size:13 final size:13
Alignment explanation
Indices: 673051--673079 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
673041 TTATGCTAAG
673051 CATAAAATGATCA
1 CATAAAATGATCA
673064 CATAAAATGATCA
1 CATAAAATGATCA
673077 CAT
1 CAT
673080 CAAACCTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.52, C:0.17, G:0.07, T:0.24
Consensus pattern (13 bp):
CATAAAATGATCA
Found at i:678349 original size:37 final size:35
Alignment explanation
Indices: 678306--678419 Score: 141
Period size: 36 Copynumber: 3.3 Consensus size: 35
678296 GGTCAACTCG
678306 TTGACTTTGACCGAGTCAACCCGTTGACCGTTGATT
1 TTGACTTTGACCGAGTCAACCCGTTGACCGTTGA-T
678342 GTTGACTTTGACCGAGTC-ACCCGTTGA-C--TGA-
1 -TTGACTTTGACCGAGTCAACCCGTTGACCGTTGAT
*
678373 -TGACTTTGATCGAGTCAACCCGTTGACCGTTGACT
1 TTGACTTTGACCGAGTCAACCCGTTGACCGTTGA-T
*
678408 TTAACTTTGACC
1 TTGACTTTGACC
678420 AAAAAGCCAA
Statistics
Matches: 67, Mismatches: 3, Indels: 15
0.79 0.04 0.18
Matches are distributed among these distances:
29 15 0.22
30 9 0.13
31 1 0.01
33 6 0.09
35 1 0.01
36 18 0.27
37 17 0.25
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (35 bp):
TTGACTTTGACCGAGTCAACCCGTTGACCGTTGAT
Found at i:678367 original size:29 final size:30
Alignment explanation
Indices: 678333--678409 Score: 111
Period size: 29 Copynumber: 2.6 Consensus size: 30
678323 AACCCGTTGA
*
678333 CCGTTGATTGTTGACTTTGACCGAGTC-AC
1 CCGTTGACTGTTGACTTTGACCGAGTCAAC
* *
678362 CCGTTGACTGATGACTTTGATCGAGTCAAC
1 CCGTTGACTGTTGACTTTGACCGAGTCAAC
*
678392 CCGTTGACCGTTGACTTT
1 CCGTTGACTGTTGACTTT
678410 AACTTTGACC
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 24 0.57
30 18 0.43
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (30 bp):
CCGTTGACTGTTGACTTTGACCGAGTCAAC
Found at i:678704 original size:20 final size:20
Alignment explanation
Indices: 678679--678727 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
678669 CTCGATTCGA
678679 TCCGTTTTTCACAATTAAGC
1 TCCGTTTTTCACAATTAAGC
*
678699 TCCGTTTTTCATAATTAAGC
1 TCCGTTTTTCACAATTAAGC
*
678719 TCCATTTTT
1 TCCGTTTTT
678728 AATGACATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.22, C:0.22, G:0.08, T:0.47
Consensus pattern (20 bp):
TCCGTTTTTCACAATTAAGC
Found at i:686222 original size:29 final size:30
Alignment explanation
Indices: 686161--686236 Score: 100
Period size: 29 Copynumber: 2.5 Consensus size: 30
686151 TCAAAAAATA
* *
686161 TAAGATTTGGTCATTTTTGGTTTGTTTTAAT
1 TAAGATTTGGTCA-CTTTGATTTGTTTTAAT
686192 TAAGATTTGGTCACTTT-ATTTGTTTTAAT
1 TAAGATTTGGTCACTTTGATTTGTTTTAAT
* *
686221 TATGATATGGTCACTT
1 TAAGATTTGGTCACTT
686237 AAGATTAATA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 25 0.61
30 3 0.07
31 13 0.32
ACGTcount: A:0.22, C:0.07, G:0.17, T:0.54
Consensus pattern (30 bp):
TAAGATTTGGTCACTTTGATTTGTTTTAAT
Found at i:686690 original size:30 final size:31
Alignment explanation
Indices: 686656--686722 Score: 100
Period size: 30 Copynumber: 2.2 Consensus size: 31
686646 TAGTGGCCAC
*
686656 ATCTTAATTAAAACGAAA-GAAAGCGACCAA
1 ATCTTAATTAAAACAAAACGAAAGCGACCAA
* *
686686 ATCTTAATTAAAACAAAACGAAAGTGATCAA
1 ATCTTAATTAAAACAAAACGAAAGCGACCAA
686717 ATCTTA
1 ATCTTA
686723 TGTTTTTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 17 0.52
31 16 0.48
ACGTcount: A:0.52, C:0.15, G:0.10, T:0.22
Consensus pattern (31 bp):
ATCTTAATTAAAACAAAACGAAAGCGACCAA
Found at i:690429 original size:22 final size:22
Alignment explanation
Indices: 690401--690476 Score: 125
Period size: 22 Copynumber: 3.5 Consensus size: 22
690391 GGAGGTAACT
690401 TTTATTTATTTATTTTGAATTA
1 TTTATTTATTTATTTTGAATTA
*
690423 TTTATTTATTTATTTTAAATTA
1 TTTATTTATTTATTTTGAATTA
* *
690445 TTTATTTATTTATTTCGAATAA
1 TTTATTTATTTATTTTGAATTA
690467 TTTATTTATT
1 TTTATTTATT
690477 CATTCATTTA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.67
Consensus pattern (22 bp):
TTTATTTATTTATTTTGAATTA
Found at i:690437 original size:26 final size:25
Alignment explanation
Indices: 690401--690507 Score: 109
Period size: 22 Copynumber: 4.3 Consensus size: 25
690391 GGAGGTAACT
690401 TTTATTTATTTATTTTG-A-A-TTA
1 TTTATTTATTTATTTTGAATATTTA
690423 TTTATTTATTTATTTT-AA-A-TTA
1 TTTATTTATTTATTTTGAATATTTA
*
690445 TTTATTTATTTATTTCGAATAATTTA
1 TTTATTTATTTATTTTGAAT-ATTTA
*
690471 TTTATTCATTCATTTATTTTGAATAATTA
1 TTTA-T--TT-ATTTATTTTGAATATTTA
690500 TTTATTTA
1 TTTATTTA
690508 ATTAAAGGGA
Statistics
Matches: 73, Mismatches: 3, Indels: 15
0.80 0.03 0.16
Matches are distributed among these distances:
22 36 0.49
23 2 0.03
25 2 0.03
26 9 0.12
27 1 0.01
28 1 0.01
29 10 0.14
30 12 0.16
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (25 bp):
TTTATTTATTTATTTTGAATATTTA
Found at i:690476 original size:30 final size:29
Alignment explanation
Indices: 690442--690507 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 29
690432 TTATTTTAAA
*
690442 TTATTTATTTATTTATTTCGAATAATTTAT
1 TTATTTATTCATTTATTTCGAATAA-TTAT
* *
690472 TTATTCATTCATTTATTTTGAATAATTAT
1 TTATTTATTCATTTATTTCGAATAATTAT
690501 TTATTTA
1 TTATTTA
690508 ATTAAAGGGA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 10 0.31
30 22 0.69
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (29 bp):
TTATTTATTCATTTATTTCGAATAATTAT
Found at i:690507 original size:4 final size:4
Alignment explanation
Indices: 690401--690489 Score: 70
Period size: 4 Copynumber: 20.8 Consensus size: 4
690391 GGAGGTAACT
* *
690401 TTTA TTTA TTTA TTTTGA ATTA TTTA TTTA TTTA TTTTAA ATTA TTTA
1 TTTA TTTA TTTA -TTT-A TTTA TTTA TTTA TTTA -TTT-A TTTA TTTA
* * * *
690449 TTTA TTTA TTTCGA ATAA TTTA TTTA TTCA TTCA TTTA TTT
1 TTTA TTTA TTT--A TTTA TTTA TTTA TTTA TTTA TTTA TTT
690490 TGAATAATTA
Statistics
Matches: 69, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
4 55 0.80
5 10 0.14
6 4 0.06
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.66
Consensus pattern (4 bp):
TTTA
Found at i:690958 original size:26 final size:25
Alignment explanation
Indices: 690924--690973 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
690914 TTATTTTATT
690924 TTTTATTTATAATATTGAAATTTTA
1 TTTTATTTATAATATTGAAATTTTA
** *
690949 TTTTAGTTTATGTTATTGTAATTTT
1 TTTTA-TTTATAATATTGAAATTTT
690974 TTACGATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (25 bp):
TTTTATTTATAATATTGAAATTTTA
Found at i:692401 original size:3 final size:3
Alignment explanation
Indices: 692395--692451 Score: 60
Period size: 3 Copynumber: 18.7 Consensus size: 3
692385 ACGATGATGA
* * * *
692395 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGA TGT TGA TGA TGG TGAG
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TG-G
*
692441 TGA TGG TGG TG
1 TGG TGG TGG TG
692452 ATAGTGATGG
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
3 44 0.94
4 3 0.06
ACGTcount: A:0.09, C:0.00, G:0.56, T:0.35
Consensus pattern (3 bp):
TGG
Found at i:692407 original size:9 final size:9
Alignment explanation
Indices: 692398--692469 Score: 72
Period size: 9 Copynumber: 7.6 Consensus size: 9
692388 ATGATGATGG
*
692398 TGGTGGTGG
1 TGGTGGTGA
*
692407 TGGTGGTGG
1 TGGTGGTGA
692416 TGGTGGTGA
1 TGGTGGTGA
* *
692425 TGTTGATGA
1 TGGTGGTGA
692434 TGGTGAGTGA
1 TGGTG-GTGA
692444 TGGTGGTGA
1 TGGTGGTGA
692453 TAGTGATGGTGA
1 T-G-G-TGGTGA
692465 TGGTG
1 TGGTG
692470 ATGAAGATAG
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
9 35 0.65
10 10 0.19
11 2 0.04
12 7 0.13
ACGTcount: A:0.12, C:0.00, G:0.53, T:0.35
Consensus pattern (9 bp):
TGGTGGTGA
Found at i:692464 original size:6 final size:6
Alignment explanation
Indices: 692387--692472 Score: 64
Period size: 6 Copynumber: 13.7 Consensus size: 6
692377 CGTAGATGAC
* * * * *
692387 GATGAT GATGGT GGTGGT GGTGGT GGTGGT GGTGGT GATGTTGAT GATGGT
1 GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT GATG--G-T GATGGT
* * *
692438 GAGTGAT GGTGGT GATAGT GATGGT GATGGT GATG
1 GA-TGGT GATGGT GATGGT GATGGT GATGGT GATG
692473 AAGATAGATT
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
6 56 0.84
7 5 0.07
8 1 0.01
9 5 0.07
ACGTcount: A:0.15, C:0.00, G:0.51, T:0.34
Consensus pattern (6 bp):
GATGGT
Found at i:697019 original size:20 final size:20
Alignment explanation
Indices: 696996--697038 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
696986 TTTTAATTCG
*
696996 TTTTG-TTTCTTTTATTTTAT
1 TTTTGATTT-TTTAATTTTAT
697016 TTTTGATTTTTTAATTTTAT
1 TTTTGATTTTTTAATTTTAT
697036 TTT
1 TTT
697039 CATTTAACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.14, C:0.02, G:0.05, T:0.79
Consensus pattern (20 bp):
TTTTGATTTTTTAATTTTAT
Found at i:705248 original size:15 final size:14
Alignment explanation
Indices: 705220--705254 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
705210 TATCCGAATC
705220 AGAAGAGAAAAAGA
1 AGAAGAGAAAAAGA
*
705234 AGAACGAGAAGAAGA
1 AGAA-GAGAAAAAGA
705249 AGAAGA
1 AGAAGA
705255 AGGCAAAACG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.66, C:0.03, G:0.31, T:0.00
Consensus pattern (14 bp):
AGAAGAGAAAAAGA
Found at i:712247 original size:16 final size:18
Alignment explanation
Indices: 712215--712250 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
712205 TAAATTGTCG
712215 TTAAATTTATCAAATAAT
1 TTAAATTTATCAAATAAT
712233 TTAAATTT-T-AAATAAT
1 TTAAATTTATCAAATAAT
712249 TT
1 TT
712251 TGAGTTACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.50
17 1 0.06
18 8 0.44
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
TTAAATTTATCAAATAAT
Found at i:712377 original size:2 final size:2
Alignment explanation
Indices: 712370--712400 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
712360 ATTTAATGAT
712370 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
712401 TAACTTTATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:712462 original size:2 final size:2
Alignment explanation
Indices: 712455--712479 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
712445 AATTTATTAA
712455 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
712480 AATGAGTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:714181 original size:5 final size:5
Alignment explanation
Indices: 714173--714210 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
714163 ATAAACAATT
714173 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TAT
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TAT
714211 ATAATAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATTA
Found at i:714851 original size:18 final size:19
Alignment explanation
Indices: 714828--714866 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
714818 ACATTTAATA
714828 TTTA-TTTTC-TTTCTATTT
1 TTTATTTTTCATTTC-ATTT
714846 TTTATTTTTCATTTCATTT
1 TTTATTTTTCATTTCATTT
714865 TT
1 TT
714867 ATATGTCTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 11 0.58
20 4 0.21
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTATTTTTCATTTCATTT
Found at i:715054 original size:18 final size:18
Alignment explanation
Indices: 715031--715065 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
715021 AGATGTGTAT
* *
715031 ATTGTTATTGATTAAGAG
1 ATTGTTAATAATTAAGAG
715049 ATTGTTAATAATTAAGA
1 ATTGTTAATAATTAAGA
715066 AAGATTATGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (18 bp):
ATTGTTAATAATTAAGAG
Found at i:722512 original size:6 final size:6
Alignment explanation
Indices: 722501--722525 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
722491 ATGTACGGAA
722501 ATGGAT ATGGAT ATGGAT ATGGAT A
1 ATGGAT ATGGAT ATGGAT ATGGAT A
722526 CAGTACAGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (6 bp):
ATGGAT
Done.