Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008745.1 Hibiscus syriacus cultivar Beakdansim tig00111834_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: 1915556
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 8
Found at i:1480823 original size:14 final size:14
Alignment explanation
Indices: 1480794--1480829 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1480784 AAAGATGACG
*
1480794 TATTTTTT-AATTA
1 TATTTTTTAAATAA
1480807 TATTTTTTAAATAA
1 TATTTTTTAAATAA
1480821 TATTTTTTA
1 TATTTTTTA
1480830 TTTAAATTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TATTTTTTAAATAA
Found at i:1482516 original size:15 final size:16
Alignment explanation
Indices: 1482478--1482536 Score: 84
Period size: 16 Copynumber: 3.8 Consensus size: 16
1482468 TCAGAGCATC
1482478 TAAATCATTCAGTATT
1 TAAATCATTCAGTATT
* *
1482494 TGAATCATTCGGTATT
1 TAAATCATTCAGTATT
*
1482510 T-AATCATTCAATATT
1 TAAATCATTCAGTATT
1482525 TAAATCATTCAG
1 TAAATCATTCAG
1482537 CGATTAATCA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
15 13 0.35
16 24 0.65
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.42
Consensus pattern (16 bp):
TAAATCATTCAGTATT
Found at i:1482949 original size:8 final size:8
Alignment explanation
Indices: 1482936--1482993 Score: 57
Period size: 8 Copynumber: 7.4 Consensus size: 8
1482926 AGCGTATAAA
1482936 TTTTTTAT
1 TTTTTTAT
1482944 TTTTTTAT
1 TTTTTTAT
1482952 TTTTTTA-
1 TTTTTTAT
* *
1482959 TATTGTAT
1 TTTTTTAT
*
1482967 TTCTATT-T
1 TT-TTTTAT
*
1482975 TCTTTTAT
1 TTTTTTAT
1482983 TTTTTTAT
1 TTTTTTAT
1482991 TTT
1 TTT
1482994 CAACAAGTAT
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
7 8 0.21
8 29 0.74
9 2 0.05
ACGTcount: A:0.14, C:0.03, G:0.02, T:0.81
Consensus pattern (8 bp):
TTTTTTAT
Found at i:1483597 original size:22 final size:21
Alignment explanation
Indices: 1483563--1483605 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
1483553 TTAAATACAT
*
1483563 ATTTAAGCTCAAATTCATTAAA
1 ATTTAAGCTCAAAAT-ATTAAA
1483585 ATTTAAGAC-CAAAATATTAAA
1 ATTTAAG-CTCAAAATATTAAA
1483606 TTATCAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 6 0.32
22 12 0.63
23 1 0.05
ACGTcount: A:0.51, C:0.12, G:0.05, T:0.33
Consensus pattern (21 bp):
ATTTAAGCTCAAAATATTAAA
Found at i:1484266 original size:60 final size:60
Alignment explanation
Indices: 1484192--1484311 Score: 143
Period size: 60 Copynumber: 2.0 Consensus size: 60
1484182 GTACCCTATG
** * * * * * *
1484192 TCTTCAAACCATGATTTTTATTTTAAATT-GTTCTTTAAACTTTTGAGTATTCTAATTTCA
1 TCTTCAAACCATGATACTCATTATAAATTAG-TCATTAAACTCTTGAATATTCCAATTTCA
*
1484252 TCTTCAAACTATGATACTCATTATAAATTAGTCATTAAACTCTTGAATATTCCAATTTCA
1 TCTTCAAACCATGATACTCATTATAAATTAGTCATTAAACTCTTGAATATTCCAATTTCA
1484312 CCCTTAAACT
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
60 49 0.98
61 1 0.02
ACGTcount: A:0.33, C:0.16, G:0.06, T:0.46
Consensus pattern (60 bp):
TCTTCAAACCATGATACTCATTATAAATTAGTCATTAAACTCTTGAATATTCCAATTTCA
Found at i:1484344 original size:60 final size:60
Alignment explanation
Indices: 1484226--1484344 Score: 141
Period size: 60 Copynumber: 2.0 Consensus size: 60
1484216 AAATTGTTCT
* * * * * *
1484226 TTAAACTTTTGAGTATTCTAATTTCATCTTCAAACTATGATACTCATTATAAATTAGTCA
1 TTAAACTCTTGAATATTCCAATTTCACCTTCAAACTATAATACTCATTATAAACTAGTCA
* * *
1484286 TTAAACTCTTGAATATTCCAATTTCACCCTT-AAACTATAATCCTTATTCTAAACTAGTC
1 TTAAACTCTTGAATATTCCAATTTCA-CCTTCAAACTATAATACTCATTATAAACTAGTC
1484345 CCTAAACCTT
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
60 46 0.94
61 3 0.06
ACGTcount: A:0.34, C:0.19, G:0.05, T:0.41
Consensus pattern (60 bp):
TTAAACTCTTGAATATTCCAATTTCACCTTCAAACTATAATACTCATTATAAACTAGTCA
Found at i:1485318 original size:2 final size:2
Alignment explanation
Indices: 1485311--1485406 Score: 57
Period size: 2 Copynumber: 52.5 Consensus size: 2
1485301 AATAATTAAT
* * *
1485311 TA TA TA TA TA TA TA TA TA T- TA T- TA -A TA AA TT TA -A TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
1485349 AA T- TA -A TA TA TA TA TA -A TA TT TA TA TA TT TA -A TT TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
1485386 TT TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
1485407 GGCTCGATAC
Statistics
Matches: 69, Mismatches: 16, Indels: 18
0.67 0.16 0.17
Matches are distributed among these distances:
1 9 0.13
2 60 0.87
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:1485358 original size:36 final size:37
Alignment explanation
Indices: 1485315--1485402 Score: 133
Period size: 36 Copynumber: 2.4 Consensus size: 37
1485305 ATTAATTATA
1485315 TATATATATATATATTATTAATAAATTTAATTTAAAT
1 TATATATATATATATTATTAATAAATTTAATTTAAAT
* * * *
1485352 TA-ATATATATATAATATTTATATATTTAATTTAATT
1 TATATATATATATATTATTAATAAATTTAATTTAAAT
1485388 TATATATATATATAT
1 TATATATATATATAT
1485403 ATATGGCTCG
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
36 32 0.71
37 13 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (37 bp):
TATATATATATATATTATTAATAAATTTAATTTAAAT
Found at i:1489058 original size:24 final size:25
Alignment explanation
Indices: 1489031--1489087 Score: 59
Period size: 24 Copynumber: 2.4 Consensus size: 25
1489021 GAGTATTCTC
1489031 TTAATTAAATAAA-TAATA-TACAAA
1 TTAATTAAATAAATTAATATTA-AAA
1489055 TTAA--AATATAAATTAATATTAAAA
1 TTAATTAA-ATAAATTAATATTAAAA
*
1489079 ATAATTAAA
1 TTAATTAAA
1489088 AGATATTCAC
Statistics
Matches: 27, Mismatches: 1, Indels: 9
0.73 0.03 0.24
Matches are distributed among these distances:
22 2 0.07
23 5 0.19
24 15 0.56
25 3 0.11
26 2 0.07
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (25 bp):
TTAATTAAATAAATTAATATTAAAA
Found at i:1489428 original size:15 final size:14
Alignment explanation
Indices: 1489405--1489449 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
1489395 ACTCATATTT
1489405 GGGGTAATAATAGAA
1 GGGG-AATAATAGAA
*
1489420 GGGGAAATAATTGAA
1 GGGG-AATAATAGAA
*
1489435 AGGGAATAATAGAA
1 GGGGAATAATAGAA
1489449 G
1 G
1489450 ATGTGCTTCA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 9 0.36
15 16 0.64
ACGTcount: A:0.49, C:0.00, G:0.33, T:0.18
Consensus pattern (14 bp):
GGGGAATAATAGAA
Found at i:1492872 original size:2 final size:2
Alignment explanation
Indices: 1492865--1492897 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1492855 GGATCACGGA
1492865 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1492898 AACAATCATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1496081 original size:132 final size:132
Alignment explanation
Indices: 1495916--1496183 Score: 509
Period size: 132 Copynumber: 2.0 Consensus size: 132
1495906 AATTCGAAAT
* *
1495916 AATGAATTGAAGCTCGTAAAAGCTCGGAAAAAAATCTTAAACTTAACTCCATTAAAGCCTCAAAC
1 AATGAACTGAAGCTCGGAAAAGCTCGGAAAAAAATCTTAAACTTAACTCCATTAAAGCCTCAAAC
1495981 TTAAACTCGAACTTAAAACTTAAATATATGAAAAACCTTATACTGCATTTTAAAAAATCAACACT
66 TTAAACTCGAACTTAAAACTTAAATATATGAAAAACCTTATACTGCATTTTAAAAAATCAACACT
1496046 TA
131 TA
1496048 AATGAACTGAAGCTCGGAAAAGCTCGGAAAAAAATCTTAAACTTAACTCCATTAAAGCCTCAAAC
1 AATGAACTGAAGCTCGGAAAAGCTCGGAAAAAAATCTTAAACTTAACTCCATTAAAGCCTCAAAC
*
1496113 TTAAACTCGAACTTGAAACTTAAATATATGAAAAACCTTATACTGCATTTTAAAAAATCAACACT
66 TTAAACTCGAACTTAAAACTTAAATATATGAAAAACCTTATACTGCATTTTAAAAAATCAACACT
1496178 TA
131 TA
1496180 AATG
1 AATG
1496184 TTAATATTAT
Statistics
Matches: 133, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
132 133 1.00
ACGTcount: A:0.46, C:0.18, G:0.09, T:0.26
Consensus pattern (132 bp):
AATGAACTGAAGCTCGGAAAAGCTCGGAAAAAAATCTTAAACTTAACTCCATTAAAGCCTCAAAC
TTAAACTCGAACTTAAAACTTAAATATATGAAAAACCTTATACTGCATTTTAAAAAATCAACACT
TA
Found at i:1500169 original size:26 final size:27
Alignment explanation
Indices: 1500111--1500174 Score: 94
Period size: 26 Copynumber: 2.4 Consensus size: 27
1500101 ACCCGACCCG
1500111 ACCCGACCCGAATATATAAACTTAGAA
1 ACCCGACCCGAATATATAAACTTAGAA
*
1500138 ACCCGACCCGAATATAT-GACTTAGAA
1 ACCCGACCCGAATATATAAACTTAGAA
* *
1500164 ATCCGATCCGA
1 ACCCGACCCGA
1500175 CCCGACCCGA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 17 0.50
27 17 0.50
ACGTcount: A:0.39, C:0.28, G:0.14, T:0.19
Consensus pattern (27 bp):
ACCCGACCCGAATATATAAACTTAGAA
Found at i:1514834 original size:19 final size:19
Alignment explanation
Indices: 1514810--1514862 Score: 83
Period size: 17 Copynumber: 2.9 Consensus size: 19
1514800 TTGAGTTCAA
1514810 AGCAATCGTATTAGTACAC
1 AGCAATCGTATTAGTACAC
*
1514829 AGCAATCTTATTAGT--AC
1 AGCAATCGTATTAGTACAC
1514846 AGCAATCGTATTAGTAC
1 AGCAATCGTATTAGTAC
1514863 TGTAGTACAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 16 0.53
19 14 0.47
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (19 bp):
AGCAATCGTATTAGTACAC
Found at i:1521728 original size:23 final size:21
Alignment explanation
Indices: 1521690--1521732 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
1521680 ATAATTATTT
1521690 AAAAAATTAAATAAAAATATA
1 AAAAAATTAAATAAAAATATA
*
1521711 AAAAATATTTAATAAAAA-ATA
1 AAAAA-ATTAAATAAAAATATA
1521732 A
1 A
1521733 TTTTTTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (21 bp):
AAAAAATTAAATAAAAATATA
Found at i:1526444 original size:31 final size:32
Alignment explanation
Indices: 1526409--1526470 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 32
1526399 TGATTTTGAA
1526409 AAAAAATAAAAGTTTAAGTACTAAA-ACAAAC
1 AAAAAATAAAAGTTTAAGTACTAAACACAAAC
* * * *
1526440 AAAAACTAATAGTTTAGGTATTAAACACAAA
1 AAAAAATAAAAGTTTAAGTACTAAACACAAA
1526471 ATTTACCCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 21 0.81
32 5 0.19
ACGTcount: A:0.60, C:0.10, G:0.08, T:0.23
Consensus pattern (32 bp):
AAAAAATAAAAGTTTAAGTACTAAACACAAAC
Found at i:1534613 original size:18 final size:18
Alignment explanation
Indices: 1534587--1534621 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1534577 TTTAATTAGT
*
1534587 AAATCAAAAGAGTAGAGC
1 AAATCAAAAGAGAAGAGC
*
1534605 AAATTAAAAGAGAAGAG
1 AAATCAAAAGAGAAGAG
1534622 AGGTGAAATT
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:0.60, C:0.06, G:0.23, T:0.11
Consensus pattern (18 bp):
AAATCAAAAGAGAAGAGC
Found at i:1540239 original size:98 final size:98
Alignment explanation
Indices: 1540070--1540265 Score: 358
Period size: 98 Copynumber: 2.0 Consensus size: 98
1540060 GTCCAGGGGT
*
1540070 GACACTTTTGAAGGATGACATTTAGATTAGGAGTAACACTTGTGGAGAGGTTGCTTGGGATACCC
1 GACACTTTTGAAGGATGACATTTAGATTAGGAATAACACTTGTGGAGAGGTTGCTTGGGATACCC
*
1540135 TGAGCACTATGGAAGTCCACCCCTGAATGAGGG
66 TGAGCACCATGGAAGTCCACCCCTGAATGAGGG
1540168 GACACTTTT-AAGGGATGACATTTAGATTAGGAATAACACTTGTGGAGAGGTTGCTTGGGATACC
1 GACACTTTTGAA-GGATGACATTTAGATTAGGAATAACACTTGTGGAGAGGTTGCTTGGGATACC
1540232 CTGAGCACCATGGAAGTCCACCCCTGAATGAGGG
65 CTGAGCACCATGGAAGTCCACCCCTGAATGAGGG
1540266 ATACTCCGGG
Statistics
Matches: 95, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
97 2 0.02
98 93 0.98
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (98 bp):
GACACTTTTGAAGGATGACATTTAGATTAGGAATAACACTTGTGGAGAGGTTGCTTGGGATACCC
TGAGCACCATGGAAGTCCACCCCTGAATGAGGG
Found at i:1541311 original size:3 final size:3
Alignment explanation
Indices: 1541293--1541352 Score: 59
Period size: 3 Copynumber: 19.3 Consensus size: 3
1541283 GCTTAAAAAA
* * *
1541293 ATT ATA ATT ATA ATT ATT ATT ATT AATA ATT ATT ATT ATT AATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT -ATT ATT
1541340 A-T ATTT ATT ATT A
1 ATT A-TT ATT ATT A
1541353 ATAAATTTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
2 2 0.04
3 38 0.81
4 7 0.15
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:1541323 original size:16 final size:16
Alignment explanation
Indices: 1541293--1541356 Score: 76
Period size: 16 Copynumber: 3.9 Consensus size: 16
1541283 GCTTAAAAAA
*
1541293 ATTATAATT-ATAATT
1 ATTATTATTAATAATT
1541308 ATTATTATTAATAATT
1 ATTATTATTAATAATT
*
1541324 ATTATTATTAATTATTAT
1 ATTATTATTAA-TAAT-T
1541342 ATTTATTATTAATAA
1 A-TTATTATTAATAA
1541357 ATTTATTACA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
15 8 0.19
16 17 0.40
17 3 0.07
18 4 0.10
19 10 0.24
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTATTATTAATAATT
Found at i:1541324 original size:13 final size:13
Alignment explanation
Indices: 1541299--1541356 Score: 63
Period size: 13 Copynumber: 4.8 Consensus size: 13
1541289 AAAAATTATA
*
1541299 ATTA-TAATTATT
1 ATTATTAATAATT
1541311 ATTATTAATAATT
1 ATTATTAATAATT
*
1541324 ATTATTATTAATT
1 ATTATTAATAATT
1541337 ATTA-T-AT--TT
1 ATTATTAATAATT
1541346 ATTATTAATAA
1 ATTATTAATAA
1541357 ATTTATTACA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
9 6 0.16
10 1 0.03
11 3 0.08
12 5 0.13
13 23 0.61
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
ATTATTAATAATT
Found at i:1541363 original size:19 final size:18
Alignment explanation
Indices: 1541309--1541363 Score: 69
Period size: 19 Copynumber: 3.1 Consensus size: 18
1541299 ATTATAATTA
1541309 TTATTATTAATAA-TTA-
1 TTATTATTAATAATTTAT
*
1541325 TTATTATTAATTATTATAT
1 TTATTATTAATAATT-TAT
1541344 TTATTATTAATAAATTTAT
1 TTATTATTAAT-AATTTAT
1541363 T
1 T
1541364 ACATGTGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
16 12 0.36
17 1 0.03
18 2 0.06
19 15 0.45
20 3 0.09
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTATTATTAATAATTTAT
Found at i:1541578 original size:14 final size:16
Alignment explanation
Indices: 1541554--1541586 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
1541544 GCTTATTTTG
1541554 TTTTAAGTATTT-TAT
1 TTTTAAGTATTTGTAT
1541569 TTTTAA-TATTTGTAT
1 TTTTAAGTATTTGTAT
1541584 TTT
1 TTT
1541587 AGTCACACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (16 bp):
TTTTAAGTATTTGTAT
Found at i:1542320 original size:2 final size:2
Alignment explanation
Indices: 1542313--1542341 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1542303 ATTTTCCTTA
1542313 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1542342 CTCAAAAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1543385 original size:9 final size:9
Alignment explanation
Indices: 1543371--1543395 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
1543361 TATTTAATCA
1543371 ATACTAATG
1 ATACTAATG
1543380 ATACTAATG
1 ATACTAATG
1543389 ATACTAA
1 ATACTAA
1543396 AGGATCATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.48, C:0.12, G:0.08, T:0.32
Consensus pattern (9 bp):
ATACTAATG
Found at i:1547691 original size:16 final size:16
Alignment explanation
Indices: 1547670--1547700 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1547660 AATGACTTAA
1547670 TTAAAAAATAATATTT
1 TTAAAAAATAATATTT
*
1547686 TTAAAAAATTATATT
1 TTAAAAAATAATATT
1547701 ATTATCTCGG
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:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAAAATAATATTT
Found at i:1554624 original size:15 final size:15
Alignment explanation
Indices: 1554597--1554638 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
1554587 CTTTATTCAA
1554597 TTTATGTAA-TAATTT
1 TTTAT-TAATTAATTT
1554612 TTTATTAATTAATTT
1 TTTATTAATTAATTT
*
1554627 TTAATTTAATTA
1 TTTA-TTAATTA
1554639 TTTAATATCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 3 0.12
15 14 0.58
16 7 0.29
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (15 bp):
TTTATTAATTAATTT
Found at i:1554771 original size:26 final size:26
Alignment explanation
Indices: 1554729--1554789 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 26
1554719 CAATTTTCAA
* *
1554729 AAAACTGAAAATAAAAATTATTTTCT
1 AAAACTAAAAATAAAAAATATTTTCT
1554755 GAAAA-TAAAAATAAAAAATATTTTCT
1 -AAAACTAAAAATAAAAAATATTTTCT
1554781 AAAACTAAA
1 AAAACTAAA
1554790 CGTAACATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
25 4 0.13
26 23 0.74
27 4 0.13
ACGTcount: A:0.61, C:0.07, G:0.03, T:0.30
Consensus pattern (26 bp):
AAAACTAAAAATAAAAAATATTTTCT
Found at i:1556205 original size:2 final size:2
Alignment explanation
Indices: 1556198--1556232 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1556188 ACACATAAAC
1556198 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1556233 GCGCAGTATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1558050 original size:31 final size:31
Alignment explanation
Indices: 1558007--1558081 Score: 116
Period size: 31 Copynumber: 2.4 Consensus size: 31
1557997 CAACGTCAAT
1558007 TGACCAAAACTTAATAAAACGATAAC-ATAAG
1 TGACCAAAACTTAATAAAACGATAACGA-AAG
* *
1558038 TGACTAAAACTTAATAAAATGATAACGAAAG
1 TGACCAAAACTTAATAAAACGATAACGAAAG
1558069 TGACCAAAACTTA
1 TGACCAAAACTTA
1558082 TGTTTTTTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
31 39 0.98
32 1 0.03
ACGTcount: A:0.53, C:0.15, G:0.11, T:0.21
Consensus pattern (31 bp):
TGACCAAAACTTAATAAAACGATAACGAAAG
Found at i:1564110 original size:343 final size:343
Alignment explanation
Indices: 1563484--1564173 Score: 1362
Period size: 343 Copynumber: 2.0 Consensus size: 343
1563474 CCGACTCAGT
1563484 TTGGTTAAACATTATGCTCGGATCAAGCAGAAACATCATATGAAATCGGCAGGTCACAAATTTAA
1 TTGGTTAAACATTATGCTCGGATCAAGCAGAAACATCATATGAAATCGGCAGGTCACAAATTTAA
1563549 AAGAAATCACAGGCCAGGTTGGTGAGTAAAAGGTCTTTATACGAGCACAATTGTTAACTGCTCAA
66 AAGAAATCACAGGCCAGGTTGGTGAGTAAAAGGTCTTTATACGAGCACAATTGTTAACTGCTCAA
*
1563614 ATAGGTTTGCAGGATAGGCTCTGAGCAAGATTCCGACACTTCTACAGCTGCACGTGTGGTGCAAA
131 ATAGGTTTGCAGGATAGGCTCTCAGCAAGATTCCGACACTTCTACAGCTGCACGTGTGGTGCAAA
1563679 TAGGGACGGTAAAAGCAACAGAACAATCTACTAAGAATAAAGGTCTGTAAAAACCAGACAAAAAC
196 TAGGGACGGTAAAAGCAACAGAACAATCTACTAAGAATAAAGGTCTGTAAAAACCAGACAAAAAC
1563744 AACGAATTGAGTTATAGTGTTTACCTTGGAATAGAGCTCTACATATTTGCGGAATTCAGAGTCAT
261 AACGAATTGAGTTATAGTGTTTACCTTGGAATAGAGCTCTACATATTTGCGGAATTCAGAGTCAT
1563809 CTAACAAAGCCTTGTCTG
326 CTAACAAAGCCTTGTCTG
1563827 TTGGTTAAACATTATGCTCGGATCAAGCAGAAACATCATATGAAATCGGCAGGTCACAAATTTAA
1 TTGGTTAAACATTATGCTCGGATCAAGCAGAAACATCATATGAAATCGGCAGGTCACAAATTTAA
1563892 AAGAAATCACAGGCCAGGTTGGTGAGTAAAAGGTCTTTATACGAGCACAATTGTTAACTGCTCAA
66 AAGAAATCACAGGCCAGGTTGGTGAGTAAAAGGTCTTTATACGAGCACAATTGTTAACTGCTCAA
*
1563957 ATAGGTTTGCAGGATAGGCTCTCAGTAAGATTCCGACACTTCTACAGCTGCACGTGTGGTGCAAA
131 ATAGGTTTGCAGGATAGGCTCTCAGCAAGATTCCGACACTTCTACAGCTGCACGTGTGGTGCAAA
1564022 TAGGGACGGTAAAAGCAACAGAACAATCTACTAAGAATAAAGGTCTGTAAAAACCAGACAAAAAC
196 TAGGGACGGTAAAAGCAACAGAACAATCTACTAAGAATAAAGGTCTGTAAAAACCAGACAAAAAC
1564087 AACGAATTGAGTTATAGTGTTTACCTTGGAATAGAGCTCTACATATTTGCGGAATTCAGAGTCAT
261 AACGAATTGAGTTATAGTGTTTACCTTGGAATAGAGCTCTACATATTTGCGGAATTCAGAGTCAT
1564152 CTAACAAAGCCTTGTCTG
326 CTAACAAAGCCTTGTCTG
1564170 TTGG
1 TTGG
1564174 AAGTTTCAAA
Statistics
Matches: 345, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
343 345 1.00
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.25
Consensus pattern (343 bp):
TTGGTTAAACATTATGCTCGGATCAAGCAGAAACATCATATGAAATCGGCAGGTCACAAATTTAA
AAGAAATCACAGGCCAGGTTGGTGAGTAAAAGGTCTTTATACGAGCACAATTGTTAACTGCTCAA
ATAGGTTTGCAGGATAGGCTCTCAGCAAGATTCCGACACTTCTACAGCTGCACGTGTGGTGCAAA
TAGGGACGGTAAAAGCAACAGAACAATCTACTAAGAATAAAGGTCTGTAAAAACCAGACAAAAAC
AACGAATTGAGTTATAGTGTTTACCTTGGAATAGAGCTCTACATATTTGCGGAATTCAGAGTCAT
CTAACAAAGCCTTGTCTG
Found at i:1578512 original size:19 final size:20
Alignment explanation
Indices: 1578483--1578520 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
1578473 AGAAATTTGT
1578483 TGAAGGTGCATCGATGCATA
1 TGAAGGTGCATCGATGCATA
1578503 TGAA-GTGCATCGATGCAT
1 TGAAGGTGCATCGATGCAT
1578521 TAATTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (20 bp):
TGAAGGTGCATCGATGCATA
Found at i:1578563 original size:63 final size:62
Alignment explanation
Indices: 1578488--1578646 Score: 203
Period size: 63 Copynumber: 2.5 Consensus size: 62
1578478 TTTGTTGAAG
* * * *
1578488 GTGCATCGATGCATATGAAGTGCATCGATGCATTAAT-TTAAATACAAACATCGAATGTCGTCA
1 GTGCATCGATGCATA-GGAGTGCATCGATGCATTAATAATAAA-ACAAACATCGAATGCCCTCA
** **
1578551 GTGCATCGATGCATAAGGAGTGCATCGATGCATTTCTAATAAAATGAACATCGAATGCCCTCA
1 GTGCATCGATGCAT-AGGAGTGCATCGATGCATTAATAATAAAACAAACATCGAATGCCCTCA
1578614 GTGCATCGATGCATCAGGAGTGCATCGATGCAT
1 GTGCATCGATGCAT-AGGAGTGCATCGATGCAT
1578647 GCCTCCATTA
Statistics
Matches: 85, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
63 80 0.94
64 5 0.06
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.26
Consensus pattern (62 bp):
GTGCATCGATGCATAGGAGTGCATCGATGCATTAATAATAAAACAAACATCGAATGCCCTCA
Found at i:1579402 original size:30 final size:30
Alignment explanation
Indices: 1579351--1579414 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
1579341 AAGGAACATA
*
1579351 TGGATAGTTTCCGAGGATCTTTATGACCTC
1 TGGATAGTTTCCGAGGATCTTTATAACCTC
* * *
1579381 TGGATAGTTAT-CGGGGTTCTTTGTAACCTC
1 TGGATAGTT-TCCGAGGATCTTTATAACCTC
1579411 TGGA
1 TGGA
1579415 CAGGTCCTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 28 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.17, G:0.27, T:0.38
Consensus pattern (30 bp):
TGGATAGTTTCCGAGGATCTTTATAACCTC
Found at i:1582853 original size:19 final size:20
Alignment explanation
Indices: 1582824--1582861 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
1582814 AGAAATTTGT
1582824 TGAAGGTGCATCGATGCATA
1 TGAAGGTGCATCGATGCATA
1582844 TGAA-GTGCATCGATGCAT
1 TGAAGGTGCATCGATGCAT
1582862 TAATTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (20 bp):
TGAAGGTGCATCGATGCATA
Found at i:1582904 original size:63 final size:62
Alignment explanation
Indices: 1582829--1582987 Score: 203
Period size: 63 Copynumber: 2.5 Consensus size: 62
1582819 TTTGTTGAAG
* * * *
1582829 GTGCATCGATGCATATGAAGTGCATCGATGCATTAAT-TTAAATACAAACATCGAATGTCGTCA
1 GTGCATCGATGCATA-GGAGTGCATCGATGCATTAATAATAAA-ACAAACATCGAATGCCCTCA
** **
1582892 GTGCATCGATGCATAAGGAGTGCATCGATGCATTTCTAATAAAATGAACATCGAATGCCCTCA
1 GTGCATCGATGCAT-AGGAGTGCATCGATGCATTAATAATAAAACAAACATCGAATGCCCTCA
1582955 GTGCATCGATGCATCAGGAGTGCATCGATGCAT
1 GTGCATCGATGCAT-AGGAGTGCATCGATGCAT
1582988 GCCTCCATTA
Statistics
Matches: 85, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
63 80 0.94
64 5 0.06
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.26
Consensus pattern (62 bp):
GTGCATCGATGCATAGGAGTGCATCGATGCATTAATAATAAAACAAACATCGAATGCCCTCA
Found at i:1589309 original size:37 final size:37
Alignment explanation
Indices: 1589268--1589342 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
1589258 TACTGGAAAG
1589268 TTAGTTTCTCTTACTTTATTTTATCTTCTGTAACTAT
1 TTAGTTTCTCTTACTTTATTTTATCTTCTGTAACTAT
1589305 TTAGTTTCTCTTACTTTATTTTATCTTCTGTAACTAT
1 TTAGTTTCTCTTACTTTATTTTATCTTCTGTAACTAT
1589342 T
1 T
1589343 ATATTGGTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.19, C:0.16, G:0.05, T:0.60
Consensus pattern (37 bp):
TTAGTTTCTCTTACTTTATTTTATCTTCTGTAACTAT
Found at i:1589333 original size:20 final size:20
Alignment explanation
Indices: 1589273--1589333 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
1589263 GAAAGTTAGT
1589273 TTCTCTTACTTTATTTTATC
1 TTCTCTTACTTTATTTTATC
* *
1589293 TTCTGTAAC--TA-TTTAGT-
1 TTCTCTTACTTTATTTTA-TC
1589310 TTCTCTTACTTTATTTTATC
1 TTCTCTTACTTTATTTTATC
1589330 TTCT
1 TTCT
1589334 GTAACTATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
17 11 0.34
18 3 0.09
19 3 0.09
20 15 0.47
ACGTcount: A:0.16, C:0.18, G:0.03, T:0.62
Consensus pattern (20 bp):
TTCTCTTACTTTATTTTATC
Found at i:1596674 original size:6 final size:6
Alignment explanation
Indices: 1596659--1596693 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
1596649 TGTTCCCTTG
*
1596659 ATGGTA ATGGTC ATGGTA ATGGTA ATGGTA ATGGT
1 ATGGTA ATGGTA ATGGTA ATGGTA ATGGTA ATGGT
1596694 GGGTTTAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.29, C:0.03, G:0.34, T:0.34
Consensus pattern (6 bp):
ATGGTA
Found at i:1605722 original size:21 final size:23
Alignment explanation
Indices: 1605693--1605745 Score: 67
Period size: 21 Copynumber: 2.4 Consensus size: 23
1605683 CGGTCCAATC
*
1605693 TAAATGTTTTTAGT-TTTTTA-T
1 TAAAAGTTTTTAGTATTTTTATT
*
1605714 TAAAAGTTTTTGGTATTTTTATT
1 TAAAAGTTTTTAGTATTTTTATT
1605737 TAAAA-TTTT
1 TAAAAGTTTT
1605746 AAATAATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 12 0.43
22 10 0.36
23 6 0.21
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.62
Consensus pattern (23 bp):
TAAAAGTTTTTAGTATTTTTATT
Found at i:1606572 original size:31 final size:32
Alignment explanation
Indices: 1606537--1606614 Score: 79
Period size: 31 Copynumber: 2.5 Consensus size: 32
1606527 TGTGTGTTAC
*
1606537 AAAATGATCATTAAACTTCTCAAATTATTAT-
1 AAAATGATCATTAAACTTATCAAATTATTATA
* * * *
1606568 AAAATGAAT-AATAAATTTATCGAATTTTTATA
1 AAAATG-ATCATTAAACTTATCAAATTATTATA
*
1606600 AAAATAATCATTAAA
1 AAAATGATCATTAAA
1606615 ACTATGAGAA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
31 25 0.68
32 12 0.32
ACGTcount: A:0.51, C:0.08, G:0.04, T:0.37
Consensus pattern (32 bp):
AAAATGATCATTAAACTTATCAAATTATTATA
Found at i:1617058 original size:25 final size:21
Alignment explanation
Indices: 1617010--1617062 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
1617000 TTTGGTAAAG
1617010 GATCGATCCCTCAAGGAAAAA
1 GATCGATCCCTCAAGGAAAAA
*
1617031 GATCGATCCCTCAAGGAAAAG
1 GATCGATCCCTCAAGGAAAAA
*
1617052 GATAGATCCCT
1 GATCGATCCCT
1617063 TCCCTTAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.17
Consensus pattern (21 bp):
GATCGATCCCTCAAGGAAAAA
Found at i:1618397 original size:30 final size:31
Alignment explanation
Indices: 1618363--1618444 Score: 94
Period size: 34 Copynumber: 2.6 Consensus size: 31
1618353 CTACAGTTCG
*
1618363 AATGAAGGTAGCCGGGTGGTCTGGGCGACCAA
1 AATGAAGGTCGCCGGGTGGTCTGGGCGACC-A
* *
1618395 TGAATGAAGGTCGCCGGATGTTCTGGGCGACC-
1 --AATGAAGGTCGCCGGGTGGTCTGGGCGACCA
*
1618427 AATGAAGGTCGCCAGGTG
1 AATGAAGGTCGCCGGGTG
1618445 ATCCATGGGA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
30 16 0.37
34 27 0.63
ACGTcount: A:0.23, C:0.20, G:0.39, T:0.18
Consensus pattern (31 bp):
AATGAAGGTCGCCGGGTGGTCTGGGCGACCA
Found at i:1618401 original size:34 final size:34
Alignment explanation
Indices: 1618362--1618432 Score: 115
Period size: 34 Copynumber: 2.1 Consensus size: 34
1618352 GCTACAGTTC
*
1618362 GAATGAAGGTAGCCGGGTGGTCTGGGCGACCAAT
1 GAATGAAGGTAGCCGGATGGTCTGGGCGACCAAT
* *
1618396 GAATGAAGGTCGCCGGATGTTCTGGGCGACCAAT
1 GAATGAAGGTAGCCGGATGGTCTGGGCGACCAAT
1618430 GAA
1 GAA
1618433 GGTCGCCAGG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.25, C:0.18, G:0.38, T:0.18
Consensus pattern (34 bp):
GAATGAAGGTAGCCGGATGGTCTGGGCGACCAAT
Found at i:1618648 original size:50 final size:50
Alignment explanation
Indices: 1618585--1618686 Score: 195
Period size: 50 Copynumber: 2.0 Consensus size: 50
1618575 TTTATCCTAT
1618585 TTTAGTATGTATTTATTTTAAAATTGATTATTGAGATATCTTGTTTTGTA
1 TTTAGTATGTATTTATTTTAAAATTGATTATTGAGATATCTTGTTTTGTA
*
1618635 TTTAGTATGTATTTATTTTAAAATTGATTATTGGGATATCTTGTTTTGTA
1 TTTAGTATGTATTTATTTTAAAATTGATTATTGAGATATCTTGTTTTGTA
1618685 TT
1 TT
1618687 CAATAATTTT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.26, C:0.02, G:0.15, T:0.57
Consensus pattern (50 bp):
TTTAGTATGTATTTATTTTAAAATTGATTATTGAGATATCTTGTTTTGTA
Found at i:1619282 original size:30 final size:30
Alignment explanation
Indices: 1619241--1619318 Score: 129
Period size: 30 Copynumber: 2.6 Consensus size: 30
1619231 TCCCATGGAT
*
1619241 CACCTGGCGACCTTCATTGGTCGCCCAGAA
1 CACCCGGCGACCTTCATTGGTCGCCCAGAA
*
1619271 CACCCGGCGACCTTCATTGGTCGCCCAGAC
1 CACCCGGCGACCTTCATTGGTCGCCCAGAA
*
1619301 CACCCCGCGACCTTCATT
1 CACCCGGCGACCTTCATT
1619319 CGAACTGTAG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.18, C:0.42, G:0.21, T:0.19
Consensus pattern (30 bp):
CACCCGGCGACCTTCATTGGTCGCCCAGAA
Found at i:1623193 original size:2 final size:2
Alignment explanation
Indices: 1623186--1623210 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1623176 AGGGCAACCA
1623186 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
1623211 GATACTTTTA
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:1623724 original size:16 final size:17
Alignment explanation
Indices: 1623689--1623726 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
1623679 GCCCCTAAAA
1623689 ATTTTAATTTCTTATAT
1 ATTTTAATTTCTTATAT
*
1623706 ATTTTAATTT-TTTTAT
1 ATTTTAATTTCTTATAT
1623722 ATTTT
1 ATTTT
1623727 GTATTAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTTTAATTTCTTATAT
Found at i:1624154 original size:22 final size:22
Alignment explanation
Indices: 1624129--1624187 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 22
1624119 TAATACCCCT
1624129 ATATATTATTTTT-TTCAATTAA
1 ATATATTATTTTTATTCAA-TAA
*
1624151 ATATATATATTTTTATTGAATAA
1 ATATAT-TATTTTTATTCAATAA
* *
1624174 AAATAATATTTTTA
1 ATATATTATTTTTA
1624188 ATAAACATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 14 0.44
23 14 0.44
24 4 0.12
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (22 bp):
ATATATTATTTTTATTCAATAA
Found at i:1624164 original size:24 final size:23
Alignment explanation
Indices: 1624128--1624187 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 23
1624118 ATAATACCCC
1624128 TATATATTATTTTT-TTCAATTAAA
1 TATATA-TATTTTTATTCAA-TAAA
*
1624152 TATATATATTTTTATTGAATAAA
1 TATATATATTTTTATTCAATAAA
*
1624175 AATA-ATATTTTTA
1 TATATATATTTTTA
1624188 ATAAACATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 9 0.27
23 14 0.42
24 10 0.30
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (23 bp):
TATATATATTTTTATTCAATAAA
Found at i:1625089 original size:23 final size:23
Alignment explanation
Indices: 1625063--1625110 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
1625053 ATAAAGTACA
*
1625063 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
1625086 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
1625109 AT
1 AT
1625111 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:1625514 original size:21 final size:20
Alignment explanation
Indices: 1625484--1625537 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
1625474 GATAGACACT
*
1625484 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
1625505 TTACATTATATAAACGATACCTA
1 TTACA-T-TAT-AACCATACCTA
1625528 TTACATTATA
1 TTACATTATA
1625538 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
22 1 0.04
23 14 0.50
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:1625525 original size:23 final size:23
Alignment explanation
Indices: 1625499--1625561 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
1625489 ATATAACCAT
1625499 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
1625522 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
1625545 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1625562 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1625912 original size:427 final size:426
Alignment explanation
Indices: 1625222--1626085 Score: 1671
Period size: 427 Copynumber: 2.0 Consensus size: 426
1625212 GGATCGATAC
1625222 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
1 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
1625287 ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGATTTTTAATTTAATAATAATATATACCG
66 ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGATTTTTAATTTAATAATAATATATACCG
1625352 TAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAA
131 TAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAA
1625417 GATAACCTTAAATTAATGTTTTCCACAGTGAAAAAGTATGGACACTTTTATAAAAAGGATAGACA
196 GATAACCTTAAATTAATGTTTTCCACAGTGAAAAAGTATGGACACTTTTATAAAAAGGATAGACA
1625482 CTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTA
261 CTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTA
1625547 CCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGAT
326 CCTATTACATCATATGTTTACCTA-T-TATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGAT
1625612 ACTTTTTTT-AAACTTATGTAATTTATGTTTCAA-TTT
389 ACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
1625648 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
1 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
1625713 ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACC
66 ATTTGATTGTTTTGATATTTTATAAAATATTATTTAG-ATTTTTAATTTAATAATAATATATACC
1625778 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
130 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC-A
1625843 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAGTATGGACACTTTTAT-AAAAGGATAGA
194 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAGTATGGACACTTTTATAAAAAGGATAGA
1625907 CACTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGC
259 CACTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGC
1625972 TACCTATTACATCATATGTTTACCTATTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGAT
324 TACCTATTACATCATATGTTTACCTATTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGAT
1626037 ACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
389 ACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
1626075 TTTAACAGTGT
1 TTTAACAGTGT
1626086 ACTGCGAATT
Statistics
Matches: 434, Mismatches: 0, Indels: 7
0.98 0.00 0.02
Matches are distributed among these distances:
425 47 0.11
426 127 0.29
427 206 0.47
428 54 0.12
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (426 bp):
TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGATTTTTAATTTAATAATAATATATACCG
TAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAA
GATAACCTTAAATTAATGTTTTCCACAGTGAAAAAGTATGGACACTTTTATAAAAAGGATAGACA
CTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTA
CCTATTACATCATATGTTTACCTATTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC
TTTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
Found at i:1625936 original size:21 final size:20
Alignment explanation
Indices: 1625911--1625964 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
1625901 GATAGACACT
1625911 TTACAATATAACCATTACCTA
1 TTACAATATAACCA-TACCTA
*
1625932 TTACATTATATAAACGATACCTA
1 TTACA--ATAT-AACCATACCTA
*
1625955 TTACATTATA
1 TTACAATATA
1625965 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
23 15 0.54
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACAATATAACCATACCTA
Found at i:1625952 original size:23 final size:23
Alignment explanation
Indices: 1625926--1625988 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
1625916 ATATAACCAT
1625926 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
1625949 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
1625972 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1625989 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1629101 original size:184 final size:184
Alignment explanation
Indices: 1628541--1629395 Score: 1640
Period size: 184 Copynumber: 4.7 Consensus size: 184
1628531 TTTTAAATGG
*
1628541 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
1628606 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
1628671 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
1628725 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1628790 TAAGACCGGTATA-TTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
*
1628854 GATGTGTAAAATGTCGACATTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
1628908 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1628973 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
1629038 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
1629092 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1629157 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
* *
1629222 GATGTGTAAAATGTCGACACTTTTTGAAATCGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
1629276 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
**
1629341 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTTTATTATAAT
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAT
1629396 ATGTTGAAAG
Statistics
Matches: 662, Mismatches: 8, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
183 182 0.27
184 480 0.73
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (184 bp):
TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
Found at i:1630770 original size:3 final size:3
Alignment explanation
Indices: 1630762--1630812 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
1630752 ACTTGTTTGG
* * * *
1630762 ATC ATC ATC TTC ATC ATC ATC GTC ATC ATC ATC ATC ATC GTC ATC TTC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1630810 ATC
1 ATC
1630813 GTCAGCTTCA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.25, C:0.33, G:0.04, T:0.37
Consensus pattern (3 bp):
ATC
Found at i:1630779 original size:12 final size:12
Alignment explanation
Indices: 1630762--1630824 Score: 81
Period size: 12 Copynumber: 5.2 Consensus size: 12
1630752 ACTTGTTTGG
1630762 ATCATCATCTTC
1 ATCATCATCTTC
*
1630774 ATCATCATCGTC
1 ATCATCATCTTC
*
1630786 ATCATCATCATC
1 ATCATCATCTTC
*
1630798 ATCGTCATCTTC
1 ATCATCATCTTC
* *
1630810 ATCGTCAGCTTC
1 ATCATCATCTTC
1630822 ATC
1 ATC
1630825 TTCTGCGACC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 46 1.00
ACGTcount: A:0.24, C:0.33, G:0.06, T:0.37
Consensus pattern (12 bp):
ATCATCATCTTC
Found at i:1630823 original size:18 final size:18
Alignment explanation
Indices: 1630766--1630827 Score: 88
Period size: 18 Copynumber: 3.4 Consensus size: 18
1630756 GTTTGGATCA
1630766 TCATCTTCATCATCATCG
1 TCATCTTCATCATCATCG
*
1630784 TCATCATCATCATCATCG
1 TCATCTTCATCATCATCG
* * *
1630802 TCATCTTCATCGTCAGCT
1 TCATCTTCATCATCATCG
1630820 TCATCTTC
1 TCATCTTC
1630828 TGCGACCGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.21, C:0.34, G:0.06, T:0.39
Consensus pattern (18 bp):
TCATCTTCATCATCATCG
Found at i:1630827 original size:6 final size:6
Alignment explanation
Indices: 1630766--1630827 Score: 61
Period size: 6 Copynumber: 10.3 Consensus size: 6
1630756 GTTTGGATCA
* * * * * *
1630766 TCATCT TCATCA TCATCG TCATCA TCATCA TCATCG TCATCT TCATCG
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
*
1630814 TCAGCT TCATCT TC
1 TCATCT TCATCT TC
1630828 TGCGACCGAT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.21, C:0.34, G:0.06, T:0.39
Consensus pattern (6 bp):
TCATCT
Found at i:1633202 original size:200 final size:198
Alignment explanation
Indices: 1632286--1633505 Score: 2149
Period size: 200 Copynumber: 6.1 Consensus size: 198
1632276 TTTAAATTAG
* *
1632286 TATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
1632351 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
1632416 CGACACTTTTTATATATGGATCGACACTTTATTGATTCACCTTGTAAAAATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGATGCACCTTGTAAAAATTCATTCTGGAAAAA
1632481 AAA
196 AAA
1632484 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1632549 ATTGTACCGGTTAGATT-AAAAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *** *
1632612 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG-GA
131 CGACAC-TTTTTATATATGGATCGACACTTTATGGATGCACCTTG-TAAAAATTCATTCTGGAAA
1632676 AAAAA
194 AAAAA
1632681 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1632746 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
1632811 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGATGCACCTTGTAAAAATTCATTCTGGAAAAA
1632876 AAA
196 AAA
1632879 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1632944 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *** *
1633009 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
131 CGACAC-TTTTTATATATGGATCGACACTTTATGGATGCACCTTG-TAAAAATTCATTCTGGAAA
1633074 AAAAA
194 AAAAA
1633079 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1633144 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *** *
1633209 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
131 CGACAC-TTTTTATATATGGATCGACACTTTATGGATGCACCTTG-TAAAAATTCATTCTGGAAA
1633274 AAAAA
194 AAAAA
1633279 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
1633344 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
1633409 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGATGCACCTTGTAAAAATTCATTCTGGAAAAA
1633474 AAA
196 AAA
*
1633477 TATCGACACAAACTATATTAGTATCGACA
1 TATCGACACAAACTATATTAGTGTCGACA
1633506 TGACCCTTAA
Statistics
Matches: 986, Mismatches: 29, Indels: 14
0.96 0.03 0.01
Matches are distributed among these distances:
196 29 0.03
197 159 0.16
198 342 0.35
199 101 0.10
200 355 0.36
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (198 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGATGCACCTTGTAAAAATTCATTCTGGAAAAA
AAA
Found at i:1633612 original size:37 final size:38
Alignment explanation
Indices: 1633571--1633650 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 38
1633561 TCTCATTCAT
*
1633571 AATTAT-ATTCACATAAAAAAATATAAATCGTATACAA
1 AATTATAAATCACATAAAAAAATATAAATCGTATACAA
** * * *
1633608 AATTATAAATCGTATACAAAATTATAAATCTTATACAA
1 AATTATAAATCACATAAAAAAATATAAATCGTATACAA
1633646 AATTA
1 AATTA
1633651 ACTCGACATT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
37 6 0.17
38 30 0.83
ACGTcount: A:0.55, C:0.10, G:0.03, T:0.33
Consensus pattern (38 bp):
AATTATAAATCACATAAAAAAATATAAATCGTATACAA
Found at i:1633614 original size:19 final size:19
Alignment explanation
Indices: 1633587--1633650 Score: 110
Period size: 19 Copynumber: 3.4 Consensus size: 19
1633577 ATTCACATAA
*
1633587 AAAAATATAAATCGTATAC
1 AAAATTATAAATCGTATAC
1633606 AAAATTATAAATCGTATAC
1 AAAATTATAAATCGTATAC
*
1633625 AAAATTATAAATCTTATAC
1 AAAATTATAAATCGTATAC
1633644 AAAATTA
1 AAAATTA
1633651 ACTCGACATT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 43 1.00
ACGTcount: A:0.56, C:0.09, G:0.03, T:0.31
Consensus pattern (19 bp):
AAAATTATAAATCGTATAC
Found at i:1635481 original size:33 final size:33
Alignment explanation
Indices: 1635444--1635509 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
1635434 CATCTTAATA
*
1635444 TCACCCCTTAACACCGAAACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
***
1635477 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
1635510 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.24, C:0.45, G:0.02, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCGAAACTTCTTTCACCACT
Found at i:1637665 original size:23 final size:23
Alignment explanation
Indices: 1637639--1637685 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
1637629 TATTTTCAGA
*
1637639 GGATAT-TTAGCTTATATTTCATC
1 GGATATGTTA-CTTATATTTAATC
*
1637662 GGATATGTTATTTATATTTAATC
1 GGATATGTTACTTATATTTAATC
1637685 G
1 G
1637686 ATACAAATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.28, C:0.09, G:0.15, T:0.49
Consensus pattern (23 bp):
GGATATGTTACTTATATTTAATC
Found at i:1637871 original size:20 final size:19
Alignment explanation
Indices: 1637825--1637871 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
1637815 TCCGGTATCA
*
1637825 TTTTACCGTTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
1637844 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
1637865 TTTTACC
1 TTTTACC
1637872 TGTTATATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.19, C:0.17, G:0.09, T:0.55
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:1638037 original size:20 final size:20
Alignment explanation
Indices: 1637989--1638038 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
1637979 TCGACACTTT
1637989 TAATTTTACCGGTTTTATCA
1 TAATTTTACCGGTTTTATCA
*
1638009 T-TTTGTTACCGGTTTTATCA
1 TAATT-TTACCGGTTTTATCA
1638029 TAATTTTACC
1 TAATTTTACC
1638039 TGGTATATCG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 2 0.08
20 22 0.85
21 2 0.08
ACGTcount: A:0.22, C:0.16, G:0.10, T:0.52
Consensus pattern (20 bp):
TAATTTTACCGGTTTTATCA
Found at i:1654664 original size:13 final size:13
Alignment explanation
Indices: 1654646--1654675 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
1654636 CAAAAATCAA
1654646 TTAAATAAAAATT
1 TTAAATAAAAATT
1654659 TTAAATAAAAATT
1 TTAAATAAAAATT
1654672 TTAA
1 TTAA
1654676 TCTATGAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TTAAATAAAAATT
Found at i:1665559 original size:15 final size:15
Alignment explanation
Indices: 1665542--1665571 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
1665532 ATCTTTCTTT
1665542 CCCGTTCTGGATTTTC
1 CCCG-TCTGGATTTTC
1665558 CCCGTCTGGATTTT
1 CCCGTCTGGATTTT
1665572 GATCTGCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.07, C:0.30, G:0.20, T:0.43
Consensus pattern (15 bp):
CCCGTCTGGATTTTC
Found at i:1673108 original size:2 final size:2
Alignment explanation
Indices: 1673101--1673129 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1673091 ATAATAAAAC
1673101 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 T
1673130 CATGTAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1675547 original size:39 final size:38
Alignment explanation
Indices: 1675504--1675622 Score: 118
Period size: 39 Copynumber: 3.1 Consensus size: 38
1675494 TTTAAAAAAT
1675504 AATTTAGAATGTTAATGTGAAATAATTTAAGAAATTAAA
1 AATTTAGAATGTTAATGTGAAA-AATTTAAGAAATTAAA
* **
1675543 AATTTAGAATGTT-ATGGTAGCAAAATTTAAGAAATTAGG
1 AATTTAGAATGTTAAT-GT-GAAAAATTTAAGAAATTAAA
* * *
1675582 AATTTATAATGTTAGA-GTGAAACAATTTGA-AAATTATA
1 AATTTAGAATGTTA-ATGTGAAA-AATTTAAGAAATTAAA
1675620 AAT
1 AAT
1675623 AAACATTTAA
Statistics
Matches: 67, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
38 14 0.21
39 49 0.73
40 3 0.04
41 1 0.01
ACGTcount: A:0.48, C:0.02, G:0.15, T:0.35
Consensus pattern (38 bp):
AATTTAGAATGTTAATGTGAAAAATTTAAGAAATTAAA
Found at i:1679137 original size:20 final size:22
Alignment explanation
Indices: 1679096--1679161 Score: 75
Period size: 21 Copynumber: 3.0 Consensus size: 22
1679086 AAAAATTTTC
*
1679096 TATTA-TTAATTTTTAGATTAAT
1 TATTATTTAAATTTTA-ATTAAT
1679118 T-TT-TTTAAATTTTAATTAAT
1 TATTATTTAAATTTTAATTAAT
1679138 TATTATTTATAATTTATAATTAAT
1 TATTATTTA-AATTT-TAATTAAT
1679162 AAAAAATATA
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
20 7 0.18
21 13 0.34
22 5 0.13
23 5 0.13
24 8 0.21
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (22 bp):
TATTATTTAAATTTTAATTAAT
Found at i:1680401 original size:10 final size:10
Alignment explanation
Indices: 1680386--1680410 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1680376 GTAAATGCTT
1680386 CCTGTTTATC
1 CCTGTTTATC
1680396 CCTGTTTATC
1 CCTGTTTATC
1680406 CCTGT
1 CCTGT
1680411 CAGAAACATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.32, G:0.12, T:0.48
Consensus pattern (10 bp):
CCTGTTTATC
Found at i:1684707 original size:22 final size:21
Alignment explanation
Indices: 1684654--1684695 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1684644 TGTTTGGTTG
* *
1684654 AGAAAA-TTAATTACGGTCAA
1 AGAAAAGTGAATTACAGTCAA
1684674 AGAAAAGTGAATTACAGTCAA
1 AGAAAAGTGAATTACAGTCAA
1684695 A
1 A
1684696 AGGAGAGTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.52, C:0.10, G:0.17, T:0.21
Consensus pattern (21 bp):
AGAAAAGTGAATTACAGTCAA
Found at i:1687616 original size:21 final size:21
Alignment explanation
Indices: 1687499--1687636 Score: 77
Period size: 21 Copynumber: 6.7 Consensus size: 21
1687489 ACGCGAAATA
**
1687499 AAAATCGCAACGCGA-TCCCC
1 AAAATCGCAACGCGATTTTCC
* ** *
1687519 AGAATCGCAAATC-AGTTTCC
1 AAAATCGCAACGCGATTTTCC
*
1687539 AAAATCGCAACGCGATTCTT-T
1 AAAATCGCAACGCGATT-TTCC
* ** *
1687560 AAAATCGCAATGCGATAGTAC
1 AAAATCGCAACGCGATTTTCC
* **
1687581 AAATTCGCATTGCGATTTTCC
1 AAAATCGCAACGCGATTTTCC
* * * *
1687602 AGAATCGCAACGCGAATAT-G
1 AAAATCGCAACGCGATTTTCC
1687622 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
1687637 ACACATAAAT
Statistics
Matches: 87, Mismatches: 27, Indels: 8
0.71 0.22 0.07
Matches are distributed among these distances:
19 1 0.01
20 38 0.44
21 46 0.53
22 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.21
Consensus pattern (21 bp):
AAAATCGCAACGCGATTTTCC
Found at i:1687646 original size:20 final size:20
Alignment explanation
Indices: 1687604--1687796 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
1687594 GATTTTCCAG
* ** *
1687604 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
1687624 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
*
1687644 AATCGCAACGAGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1687664 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
1687684 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1687704 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1687724 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* * * *
1687744 AATCACAACG-ATAATACATAA
1 AATCGCAACGCGT-ATCCGT-A
1687765 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
1687785 AATCGCAACGCG
1 AATCGCAACGCG
1687797 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 16 0.11
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:1688215 original size:33 final size:33
Alignment explanation
Indices: 1688176--1688246 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
1688166 TTCACTTAGA
1688176 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
1688209 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1688242 TTTCA
1 TTTCA
1688247 AGTTAGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:1688370 original size:20 final size:20
Alignment explanation
Indices: 1688326--1688435 Score: 108
Period size: 21 Copynumber: 5.8 Consensus size: 20
1688316 TGCAGAAGAG
*
1688326 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGAAAA
***
1688347 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGAAAA
1688367 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAG-AATGAAAA
1688388 TCGCAAC--GAG-A-G--AA
1 TCGCAACGAGAGAATGAAAA
*
1688402 TCGCAACGCGA-AATGAAAA
1 TCGCAACGAGAGAATGAAAA
1688421 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
1688436 CGCAACGCGA
Statistics
Matches: 73, Mismatches: 8, Indels: 17
0.74 0.08 0.17
Matches are distributed among these distances:
14 9 0.12
16 4 0.05
17 2 0.03
19 15 0.21
20 20 0.27
21 23 0.32
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.12
Consensus pattern (20 bp):
TCGCAACGAGAGAATGAAAA
Found at i:1688383 original size:41 final size:38
Alignment explanation
Indices: 1688319--1688435 Score: 145
Period size: 41 Copynumber: 3.1 Consensus size: 38
1688309 TTCAATTTGC
* *
1688319 AGAAGAGTCGCAACGAGATAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
1688357 AGAATGACTGTCGCAACGAGAGAAATGAAAATCGCAACGAG
1 AGAAT-A--GTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
1688398 AG-A-A-TCGCAAC--GCGAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
1688431 AGAAT
1 AGAAT
1688436 CGCAACGCGA
Statistics
Matches: 71, Mismatches: 3, Indels: 13
0.82 0.03 0.15
Matches are distributed among these distances:
33 23 0.32
34 1 0.01
35 7 0.10
38 5 0.07
39 1 0.01
40 1 0.01
41 33 0.46
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (38 bp):
AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
Found at i:1688405 original size:14 final size:14
Alignment explanation
Indices: 1688386--1688442 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1688376 GAGAAATGAA
1688386 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
1688400 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
1688419 AATCGCAACGAGAG
1 AATCGCAACGAGAG
1688433 AATCGCAACG
1 AATCGCAACG
1688443 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:1688418 original size:33 final size:33
Alignment explanation
Indices: 1688378--1688458 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
1688368 CGCAACGAGA
1688378 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1688411 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
1688444 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
1688459 TTGCGATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.47, C:0.22, G:0.22, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:1688476 original size:19 final size:19
Alignment explanation
Indices: 1688454--1688579 Score: 110
Period size: 19 Copynumber: 7.1 Consensus size: 19
1688444 GAAACCAAAA
*
1688454 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1688473 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
1688487 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1688506 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
1688520 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
***
1688539 TCGCGTTGCGACAGTCATT
1 TCGCGTTGCGATTTTCATT
*
1688558 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
1688578 TC
1 TC
1688580 AACCAAAAGA
Statistics
Matches: 84, Mismatches: 12, Indels: 22
0.71 0.10 0.19
Matches are distributed among these distances:
14 20 0.24
16 6 0.07
17 6 0.07
19 37 0.44
20 15 0.18
ACGTcount: A:0.11, C:0.25, G:0.20, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1688495 original size:14 final size:14
Alignment explanation
Indices: 1688476--1688532 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1688466 TTTCATTTCG
1688476 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1688490 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
1688509 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1688523 CGTTGCGATT
1 CGTTGCGATT
1688533 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1688570 original size:39 final size:33
Alignment explanation
Indices: 1688459--1688579 Score: 188
Period size: 33 Copynumber: 3.5 Consensus size: 33
1688449 CAAAATCGCA
1688459 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1688492 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1688525 TTGCGATTTTCATTTCGCGTTGCGACAGTCATTCTCTCG
1 TTGCGATTTTCATTTCGCGTT--G-C-G--ATTCTCTCG
1688564 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
1688580 AACCAAAAGA
Statistics
Matches: 82, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
33 54 0.66
35 1 0.01
36 1 0.01
37 1 0.01
39 25 0.30
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:1690432 original size:93 final size:93
Alignment explanation
Indices: 1690273--1690741 Score: 913
Period size: 93 Copynumber: 5.1 Consensus size: 93
1690263 TAGATTGCTT
* *
1690273 AGTAAATTTATTCGGTTGCTGCCAATTTTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1690338 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1690366 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1690431 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1690459 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1690524 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1690552 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1690617 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1690645 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1690710 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1690737 AGTAA
1 AGTAA
1690742 TGCAATCCAT
Statistics
Matches: 374, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
92 6 0.02
93 368 0.98
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:1690826 original size:19 final size:19
Alignment explanation
Indices: 1690786--1690914 Score: 134
Period size: 19 Copynumber: 7.3 Consensus size: 19
1690776 TAGTTTACTT
* *
1690786 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
1690806 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
1690825 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
1690844 TCGCAA--C-AAA--AGAA
1 TCGCAACGCGAAACCAAAA
1690858 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
1690877 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAACCAAAA
1690891 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
1690910 TCGCA
1 TCGCA
1690915 TTGCGATTTT
Statistics
Matches: 93, Mismatches: 6, Indels: 21
0.77 0.05 0.17
Matches are distributed among these distances:
14 20 0.22
15 1 0.01
16 6 0.06
17 6 0.06
18 1 0.01
19 46 0.49
20 13 0.14
ACGTcount: A:0.48, C:0.28, G:0.16, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:1690860 original size:33 final size:33
Alignment explanation
Indices: 1690821--1690914 Score: 145
Period size: 33 Copynumber: 2.8 Consensus size: 33
1690811 ACGCGAAACC
**
1690821 AAAATCGCAACGCGAAATGAAAATCGCAAC-AA
1 AAAATCGCAACGCGAAACCAAAATCGCAACGAA
*
1690853 AAGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 AA-AATCGCAACGCGAAACCAAAATCGCAACGAA
1690887 AAAATCGCAACGCGAAACCAAAATCGCA
1 AAAATCGCAACGCGAAACCAAAATCGCA
1690915 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
32 2 0.04
33 52 0.91
34 3 0.05
ACGTcount: A:0.50, C:0.27, G:0.16, T:0.07
Consensus pattern (33 bp):
AAAATCGCAACGCGAAACCAAAATCGCAACGAA
Found at i:1690891 original size:14 final size:14
Alignment explanation
Indices: 1690872--1690898 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1690862 AACGCGAAAC
1690872 CAAAATCGCAACGA
1 CAAAATCGCAACGA
1690886 CAAAATCGCAACG
1 CAAAATCGCAACG
1690899 CGAAACCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.30, G:0.15, T:0.07
Consensus pattern (14 bp):
CAAAATCGCAACGA
Found at i:1690912 original size:52 final size:52
Alignment explanation
Indices: 1690786--1690914 Score: 147
Period size: 52 Copynumber: 2.5 Consensus size: 52
1690776 TAGTTTACTT
** *
1690786 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACAAAAAATCGCAACGCGAAACCAAAATCGCAACGCAAAA
* *
1690838 T-G-AAAATCGCAACAAAAGAATCGCAACGCGAAACCAAAATCGCAACGACAAAA
1 TCGCAACA-CGAAACAAAA-AATCGCAACGCGAAACCAAAATCGCAACG-CAAAA
* *
1690891 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACAAAAAATCGCA
1690915 TTGCGATTTT
Statistics
Matches: 63, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
50 3 0.05
51 8 0.13
52 37 0.59
53 7 0.11
54 6 0.10
55 2 0.03
ACGTcount: A:0.48, C:0.28, G:0.16, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACAAAAAATCGCAACGCGAAACCAAAATCGCAACGCAAAA
Found at i:1690932 original size:19 final size:19
Alignment explanation
Indices: 1690910--1691082 Score: 150
Period size: 19 Copynumber: 9.6 Consensus size: 19
1690900 GAAACCAAAA
*
1690910 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1690929 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
1690945 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
** *
1690962 TCGTATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
1690978 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* **
1690995 TCGCGTTACGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
**
1691014 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* *
1691033 TCTCGTTGCGATTATCATT
1 TCGCGTTGCGATTTTCATT
*
1691052 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
1691072 TCGTGTTGCGA
1 TCGCGTTGCGA
1691083 AAGTAAACTA
Statistics
Matches: 124, Mismatches: 19, Indels: 21
0.76 0.12 0.13
Matches are distributed among these distances:
14 14 0.11
16 11 0.09
17 11 0.09
19 76 0.61
20 12 0.10
ACGTcount: A:0.12, C:0.18, G:0.23, T:0.47
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1690951 original size:14 final size:14
Alignment explanation
Indices: 1690932--1690988 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1690922 TTTCATTTCG
1690932 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
1690946 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
1690963 CGTATTGCGATTCTGT
1 CG--TTGCGATTCTTT
1690979 CGTTGCGATT
1 CGTTGCGATT
1690989 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:1690957 original size:33 final size:33
Alignment explanation
Indices: 1690915--1691007 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
1690905 CAAAATCGCA
*
1690915 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
**
1690948 TTGCGATTTTCATTTCGTATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
1690981 TTGCGATTTTCATTTCGCGTTACGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
1691008 TTGGTTTCGC
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 54 1.00
ACGTcount: A:0.12, C:0.19, G:0.20, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:1691045 original size:38 final size:38
Alignment explanation
Indices: 1690910--1691066 Score: 127
Period size: 33 Copynumber: 4.4 Consensus size: 38
1690900 GAAACCAAAA
* *
1690910 TCGCATTGCGATTTTCATTTCGCGTTGCGA-T-TC-TT
1 TCGCGTTGCGATTTTCATTTCGCGTTACGATTATCATT
** * *
1690945 T--CGTTGCGATTTTCATTTCGTATTGCGA-T-TC-TG
1 TCGCGTTGCGATTTTCATTTCGCGTTACGATTATCATT
* **
1690978 T--CGTTGCGATTTTCATTTCGCGTTACGATTTTGGTT
1 TCGCGTTGCGATTTTCATTTCGCGTTACGATTATCATT
** * *
1691014 TCGCGTTGCGATTTTGGTTTCTCGTTGCGATTATCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTACGATTATCATT
1691052 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
1691067 AAGTTTCGTG
Statistics
Matches: 101, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
33 53 0.52
34 1 0.01
35 2 0.02
36 2 0.02
38 43 0.43
ACGTcount: A:0.11, C:0.19, G:0.22, T:0.48
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTACGATTATCATT
Found at i:1693026 original size:14 final size:14
Alignment explanation
Indices: 1693007--1693042 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
1692997 ATTGTTTAAT
1693007 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
1693021 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
1693035 TGATTTGT
1 TGATTTGT
1693043 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1693165 original size:19 final size:19
Alignment explanation
Indices: 1693149--1693246 Score: 134
Period size: 19 Copynumber: 5.4 Consensus size: 19
1693139 AAAAATGACT
1693149 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1693168 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
1693187 ATCCCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
1693201 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1693220 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
1693240 ATCGCAA
1 ATCGCAA
1693247 CGAGAGAATC
Statistics
Matches: 69, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
14 9 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 38 0.55
20 16 0.23
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:1693278 original size:53 final size:53
Alignment explanation
Indices: 1693149--1693265 Score: 218
Period size: 53 Copynumber: 2.2 Consensus size: 53
1693139 AAAAATGACT
1693149 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCCCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCCCAACGAGAGA
*
1693201 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCCCAACGAGAGA
1693254 ATCGCAATGCGA
1 ATCGCAATGCGA
1693266 TTTTAATTTC
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 29 0.46
53 34 0.54
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCCCAACGAGAGA
Found at i:1693298 original size:33 final size:33
Alignment explanation
Indices: 1693261--1693424 Score: 154
Period size: 33 Copynumber: 4.8 Consensus size: 33
1693251 AGAATCGCAA
*
1693261 TGCGATTTTAATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
* *
1693294 TGCGATTTTCATTTTGCATTGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--T
* * * * *
1693332 TGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCAT
1 TGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCGT
1693365 TGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTT-CGCATTGCGATTCTCTCGT
1693399 TGCGATTTTCATTTCGCATTGCGATT
1 TGCGATTTTCATTTCGCATTGCGATT
1693425 TTCATTTCCG
Statistics
Matches: 104, Mismatches: 15, Indels: 24
0.73 0.10 0.17
Matches are distributed among these distances:
31 4 0.04
32 6 0.06
33 46 0.44
34 18 0.17
35 5 0.05
36 4 0.04
37 2 0.02
38 8 0.08
39 3 0.03
40 8 0.08
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:1693407 original size:53 final size:52
Alignment explanation
Indices: 1693255--1693477 Score: 367
Period size: 53 Copynumber: 4.2 Consensus size: 52
1693245 AACGAGAGAA
* *
1693255 TCGCAATGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
*
1693307 TTGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1693359 TCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTT-CGCATTGCGATTCTCTCGTTGCGATTTTCATT
* *
1693412 TCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCAT-GTTGGGATTTTCATT
1 TCGCATTGCGATTTTCATTT-CGCATTGCGATTCTC-TCGTTGCGATTTTCATT
1693465 TCGCATTGCGATT
1 TCGCATTGCGATT
1693478 CTCTCGTTGC
Statistics
Matches: 163, Mismatches: 6, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
52 68 0.42
53 94 0.58
54 1 0.01
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.46
Consensus pattern (52 bp):
TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:1693422 original size:86 final size:84
Alignment explanation
Indices: 1693312--1693491 Score: 242
Period size: 86 Copynumber: 2.1 Consensus size: 84
1693302 TCATTTTGCA
1693312 TTGCGATTTTCATTTCGCATTGCGA-TTC-TCT-CG-TTGCGATTTTCATTTCGCATTGCGATTT
1 TTGCGATTTTCATTTCGCATTGCGATTTCATCTCCGATTGCGATTTTCA--T-G--TTGCGATTT
1693373 TCATTTCCGCATTGCGATTCTCTCG
61 TCATTT-CGCATTGCGATTCTCTCG
* *
1693398 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCATGTTGGGATTTTCA
1 TTGCGATTTTCATTTCGCATTGCGA-TTTCATCTCCG-ATTGCGATTTTCATGTTGCGATTTTCA
1693463 TTTCGCATTGCGATTCTCTCG
64 TTTCGCATTGCGATTCTCTCG
1693484 TTGCGATT
1 TTGCGATT
1693492 GTAATTTCCG
Statistics
Matches: 86, Mismatches: 2, Indels: 12
0.86 0.02 0.12
Matches are distributed among these distances:
86 51 0.59
87 14 0.16
88 3 0.03
89 3 0.03
90 3 0.03
92 12 0.14
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.46
Consensus pattern (84 bp):
TTGCGATTTTCATTTCGCATTGCGATTTCATCTCCGATTGCGATTTTCATGTTGCGATTTTCATT
TCGCATTGCGATTCTCTCG
Found at i:1693475 original size:33 final size:34
Alignment explanation
Indices: 1693312--1693491 Score: 183
Period size: 33 Copynumber: 5.2 Consensus size: 34
1693302 TCATTTTGCA
*
1693312 TTGCGATTTTCATTTCGCATTGCGATTCTC-TCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATCG
1693345 TTGCGATTTTCATTTCGCATTGCGATTTTCAT--
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATCG
* * * *
1693377 TTCCGCA-TTGCGATTCTCTCGTTGCGATTTTCATTTCG
1 TTGCG-ATTTTC-ATT-TCGCATTGCGATTTTCA--TCG
1693415 CATTGCGATTTTCATTTCCGCATTGCGATTTTCAT-G
1 --TTGCGATTTTCATTT-CGCATTGCGATTTTCATCG
* *
1693451 TTGGGATTTTCATTTCGCATTGCGATTCTC-TCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATCG
1693484 TTGCGATT
1 TTGCGATT
1693492 GTAATTTCCG
Statistics
Matches: 122, Mismatches: 12, Indels: 26
0.76 0.08 0.16
Matches are distributed among these distances:
32 8 0.07
33 55 0.45
34 30 0.25
36 2 0.02
37 1 0.01
38 1 0.01
39 18 0.15
40 7 0.06
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.46
Consensus pattern (34 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTCATCG
Found at i:1693477 original size:19 final size:19
Alignment explanation
Indices: 1693255--1693477 Score: 225
Period size: 19 Copynumber: 12.7 Consensus size: 19
1693245 AACGAGAGAA
* *
1693255 TCGCAATGCGATTTTAATT
1 TCGCATTGCGATTTTCATT
*
1693274 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
1693290 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
1693307 TTGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
1693326 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
1693342 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1693359 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
1693378 TCCGCATTGCGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
1693395 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1693412 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1693431 TCCGCATTGCGATTTTCA--
1 T-CGCATTGCGATTTTCATT
*
1693449 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
1693465 TCGCATTGCGATT
1 TCGCATTGCGATT
1693478 CTCTCGTTGC
Statistics
Matches: 170, Mismatches: 12, Indels: 44
0.75 0.05 0.19
Matches are distributed among these distances:
14 29 0.17
16 21 0.12
17 19 0.11
18 4 0.02
19 71 0.42
20 26 0.15
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:1693506 original size:53 final size:53
Alignment explanation
Indices: 1693292--1693510 Score: 227
Period size: 53 Copynumber: 4.2 Consensus size: 53
1693282 CGATTCTCTC
* * *
1693292 GTTGCGATTTTCATTTTGCATTGCGATTTTCA-TTTCGCATTGCGA-TTCTC-T
1 GTTGCGATTTTCATTTCGCATTGCGATTTTCAGTTCCGCATTGCAATTTC-CAT
* *
1693343 CGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGA-TTCTC-T
1 -GTTGCGATTTTCATTTCGCATTGCGATTTTCAGTTCCGCATTGCAATTTC-CAT
* * *
1693396 CGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCAT
1 -GTTGCGATTTTCATTTCGCATTGCGATTTTCAGTTCCGCATTGCAATTTCCAT
* * * *
1693450 GTTGGGATTTTCATTTCGCATTGCGATTCTCTC-GTTGCG-ATTGTAATTTCCGT
1 GTTGCGATTTTCATTTCGCATTGCGATT-T-TCAGTTCCGCATTGCAATTTCCAT
1693503 GTTGCGAT
1 GTTGCGAT
1693511 AGTCAAATGC
Statistics
Matches: 151, Mismatches: 11, Indels: 9
0.88 0.06 0.05
Matches are distributed among these distances:
52 31 0.21
53 110 0.73
54 8 0.05
55 2 0.01
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.46
Consensus pattern (53 bp):
GTTGCGATTTTCATTTCGCATTGCGATTTTCAGTTCCGCATTGCAATTTCCAT
Found at i:1695788 original size:12 final size:12
Alignment explanation
Indices: 1695771--1695795 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1695761 TCTTCGGGGA
1695771 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1695783 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1695795 C
1 C
1695796 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:1696004 original size:24 final size:24
Alignment explanation
Indices: 1695970--1696016 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1695960 CTGAAACATC
1695970 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
1695994 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
1696017 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:1696737 original size:20 final size:20
Alignment explanation
Indices: 1696709--1696939 Score: 291
Period size: 20 Copynumber: 11.6 Consensus size: 20
1696699 AAATTTCAGT
* *
1696709 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
1696729 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
1696749 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
1696769 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
1696789 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
1696809 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
* *
1696829 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
1696849 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
1696869 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* *
1696889 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCTC
* *
1696909 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
1696929 GTTGCGATTTA
1 GTTGCGATTTA
1696940 TGTGTTCGCG
Statistics
Matches: 191, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 191 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCTC
Found at i:1696957 original size:40 final size:40
Alignment explanation
Indices: 1696709--1696977 Score: 288
Period size: 40 Copynumber: 6.7 Consensus size: 40
1696699 AAATTTCAGT
* * * **
1696709 GTTGTGATTTACAGATTCTCGTTGCGATTTACGGATTATC
1 GTTGCGATTTACAGATACGCGTTGCGATTTACGGATTCGC
* * **
1696749 GTTGCGATTTACAGATTCTCGTTGCGATTTACGGATTATC
1 GTTGCGATTTACAGATACGCGTTGCGATTTACGGATTCGC
* * **
1696789 GTTGCGATTTACAGATTCTCGTTGCGATTTACGGATTATC
1 GTTGCGATTTACAGATACGCGTTGCGATTTACGGATTCGC
* * *
1696829 GTTGCGATTTACGGATACGCGTTGCGATATACGGATACGC
1 GTTGCGATTTACAGATACGCGTTGCGATTTACGGATTCGC
* * * *
1696869 ATTGCGATTTACGGATACGCGTTGCGATTTACGGATACAC
1 GTTGCGATTTACAGATACGCGTTGCGATTTACGGATTCGC
* *
1696909 GTTGCGATTTACGGATACGCGTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACAGATACGCGTTGCGATTTACG-GATTCGC
* * * *
1696949 GTTACGATTTTCATATTCGCGTTGCGATT
1 GTTGCGATTTACAGATACGCGTTGCGATT
1696978 CTGGAAAATC
Statistics
Matches: 208, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
40 207 1.00
41 1 0.00
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (40 bp):
GTTGCGATTTACAGATACGCGTTGCGATTTACGGATTCGC
Found at i:1696972 original size:60 final size:60
Alignment explanation
Indices: 1696709--1696977 Score: 283
Period size: 60 Copynumber: 4.5 Consensus size: 60
1696699 AAATTTCAGT
* * * * * * *
1696709 GTTGTGATTTACAGATTCTCGTTGCGATTTACGGATTA-TCGTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGCGTTGCGATTTACGGA-TACGCGTTGCGATTTACGGATTCGC
* * * * **
1696769 GTTGCGATTTACGGATTA-TCGTTGCGATTTACAGATTCTCGTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGA-TACGCGTTGCGATTTACGGATACGCGTTGCGATTTACGGATTCGC
* * *
1696829 GTTGCGATTTACGGATACGCGTTGCGATATACGGATACGCATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGCGTTGCGATTTACGGATACGCGTTGCGATTTACGGATTCGC
* *
1696889 GTTGCGATTTACGGATACACGTTGCGATTTACGGATACGCGTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACGGATACGCGTTGCGATTTACGGATACGCGTTGCGATTTACG-GATTCGC
* * ** *
1696949 GTTACGATTTTCATATTCGCGTTGCGATT
1 GTTGCGATTTACGGATACGCGTTGCGATT
1696978 CTGGAAAATC
Statistics
Matches: 178, Mismatches: 27, Indels: 8
0.84 0.13 0.04
Matches are distributed among these distances:
59 3 0.02
60 173 0.97
61 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (60 bp):
GTTGCGATTTACGGATACGCGTTGCGATTTACGGATACGCGTTGCGATTTACGGATTCGC
Found at i:1704806 original size:15 final size:15
Alignment explanation
Indices: 1704786--1704838 Score: 79
Period size: 15 Copynumber: 3.5 Consensus size: 15
1704776 TGAGACATTA
1704786 CCCGCCCCGCATCCG
1 CCCGCCCCGCATCCG
*
1704801 CCCGCCCCACATCCG
1 CCCGCCCCGCATCCG
*
1704816 CCCGCCCAGCTATCCG
1 CCCGCCCCGC-ATCCG
1704832 CCCGCCC
1 CCCGCCC
1704839 AGTTAAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
15 22 0.65
16 12 0.35
ACGTcount: A:0.09, C:0.66, G:0.17, T:0.08
Consensus pattern (15 bp):
CCCGCCCCGCATCCG
Found at i:1704832 original size:16 final size:15
Alignment explanation
Indices: 1704786--1704840 Score: 76
Period size: 16 Copynumber: 3.6 Consensus size: 15
1704776 TGAGACATTA
*
1704786 CCCGCCCCGCATCCG
1 CCCGCCCAGCATCCG
1704801 CCCGCCCCA-CATCCG
1 CCCG-CCCAGCATCCG
1704816 CCCGCCCAGCTATCCG
1 CCCGCCCAGC-ATCCG
1704832 CCCGCCCAG
1 CCCGCCCAG
1704841 TTAAATATCT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
14 4 0.11
15 15 0.42
16 17 0.47
ACGTcount: A:0.11, C:0.64, G:0.18, T:0.07
Consensus pattern (15 bp):
CCCGCCCAGCATCCG
Found at i:1708277 original size:2 final size:2
Alignment explanation
Indices: 1708270--1708315 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
1708260 ATAAGAATTA
1708270 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
1708312 AT AT
1 AT AT
1708316 TTTAAACCCG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1708658 original size:84 final size:84
Alignment explanation
Indices: 1708524--1708711 Score: 268
Period size: 84 Copynumber: 2.2 Consensus size: 84
1708514 CTGAATGAAA
* * *
1708524 TCGAACTCGTCAGGTCTTTGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATG
1 TCGAACTCG-AAGGTCTTTGGTTAGCAAATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATG
1708589 TGCCTCGGAGCTGAGAGTAG
65 TGCCTCGGAGCTGAGAGTAG
* * * *
1708609 TCGAACTCGAAGGTCTTTGGTTAGCAAATAGCCCTTCTTGCCTTGAGCTATGTTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTGGTTAGCAAATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
* * *
1708674 GCCTTGGAGTTGAGCGTAG
66 GCCTCGGAGCTGAGAGTAG
*
1708693 TCGAACTCAAAGGTCTTTG
1 TCGAACTCGAAGGTCTTTG
1708712 TGTTTCAAGA
Statistics
Matches: 92, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
84 83 0.90
85 9 0.10
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (84 bp):
TCGAACTCGAAGGTCTTTGGTTAGCAAATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
GCCTCGGAGCTGAGAGTAG
Found at i:1708809 original size:67 final size:64
Alignment explanation
Indices: 1708699--1708821 Score: 176
Period size: 67 Copynumber: 1.9 Consensus size: 64
1708689 GTAGTCGAAC
* *
1708699 TCAAAGGTCTTTGTGTTTCAAGAGAAACATTTTCAAAGGTTTTTTTGTGTTTCAAGAGGCACGAT
1 TCAAAGGTCTTTGTGTTTCAAGAGAAACATTTTCAAA-G-ATTTTTGTGTTTAAAGAGGCACGAT
1708764 T
64 T
*
1708765 TCAAAGGTTTTTTGTGTTTCAAGAGAAACGA-TTTCAAAGATTTTTGTGTTTAAAGAG
1 TCAAAGG-TCTTTGTGTTTCAAGAGAAAC-ATTTTCAAAGATTTTTGTGTTTAAAGAG
1708822 AAACTGTCTC
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
65 16 0.31
66 8 0.15
67 27 0.52
68 1 0.02
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (64 bp):
TCAAAGGTCTTTGTGTTTCAAGAGAAACATTTTCAAAGATTTTTGTGTTTAAAGAGGCACGATT
Found at i:1708814 original size:32 final size:33
Alignment explanation
Indices: 1708699--1708825 Score: 170
Period size: 33 Copynumber: 3.9 Consensus size: 33
1708689 GTAGTCGAAC
*
1708699 TCAAAGG-TCTTTGTGTTTCAAGAGAAAC-ATTT
1 TCAAAGGTTTTTTGTGTTTCAAGAGAAACGA-TT
**
1708731 TCAAAGGTTTTTTTGTGTTTCAAGAGGCACGATT
1 TCAAAGG-TTTTTTGTGTTTCAAGAGAAACGATT
1708765 TCAAAGGTTTTTTGTGTTTCAAGAGAAACGATT
1 TCAAAGGTTTTTTGTGTTTCAAGAGAAACGATT
* *
1708798 TCAAA-GATTTTTGTGTTTAAAGAGAAAC
1 TCAAAGGTTTTTTGTGTTTCAAGAGAAAC
1708826 TGTCTCCATG
Statistics
Matches: 85, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
32 28 0.33
33 29 0.34
34 27 0.32
35 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (33 bp):
TCAAAGGTTTTTTGTGTTTCAAGAGAAACGATT
Found at i:1708924 original size:36 final size:36
Alignment explanation
Indices: 1708874--1708980 Score: 178
Period size: 36 Copynumber: 3.0 Consensus size: 36
1708864 TATTGGTTGG
*
1708874 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
1708910 TGTTTCAAGAGAAACCGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
1708946 TGGTTCAAGAGAAATTGTCTCAAGAGAGACAAAAT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAT
1708981 CTTTAGTTTC
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 66 1.00
ACGTcount: A:0.41, C:0.14, G:0.21, T:0.23
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:1710972 original size:105 final size:105
Alignment explanation
Indices: 1709404--1710972 Score: 2469
Period size: 105 Copynumber: 14.9 Consensus size: 105
1709394 TGGAAAATTA
* * *
1709404 TTTGTTGACAACCAGCCGTCCCTTCGTTTGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATC
1 TTTGTTGACAACCAGCGGTCCCTTCG-TCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATC
* * *
1709469 CTTCGCTGTGAAGTTGAAATTGGCTCTTGAAATTGGGAAATTG
65 CTTCGTTGTGAAGTTGAAATTGACTC-TGAAATTGAGAAA-TG
*
1709512 TTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
1 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
* *
1709577 TTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG
66 TTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAA-ATG
* * *
1709618 TTTGTTGACAACCAGCGGCCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATGTCC
1 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
* *
1709683 TTCGCTGTGAAGTTGAAATTGACTCTGAAATTGGGAAATTG
66 TTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAA-TG
* *
1709724 TTTATTGACAACCAGCGGTCCTTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
1 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
* * *
1709789 TTCGTTGTGAAGTTAAAATTGGCTCTTGAAATTGGGAAATTG
66 TTCGTTGTGAAGTTGAAATTGACTC-TGAAATTGAGAAA-TG
* * * *
1709831 TTTATTGACAACCAGCGGTCCATTCATAGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
1 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
* *
1709896 TTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGT-
66 TTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAATG
* * *
1709935 TATTGTTGACAATCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATC
1 T-TTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATC
* *
1710000 CTTCGCTGTGAAGTTGAAATTGACTCTGAAATTGGGAAATTG
65 CTTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAA-TG
* *
1710042 TTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCC
1 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
* * * *
1710107 TTCGATGTGAAGTCGAAATTGGCTCTGAAATTGGGAAATG
66 TTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAATG
* *
1710147 TTTATTGACAACCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
1 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
* *
1710212 TTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATG
66 TTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAATG
**
1710252 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTATGTTGTCTGGAGTCCAATATCC
1 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
* * * *
1710317 TTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG
66 TTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAA-ATG
1710358 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
1 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
* *
1710423 TTCATTGTGAAGTTGAAATTGACTCTGAAATCGAG-AATG
66 TTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAATG
1710462 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
1 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
*
1710527 TTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAAATG
66 TTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAATG
1710567 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
1 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
*
1710632 TTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAAATG
66 TTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAATG
1710672 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
1 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
*
1710737 TTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAAATG
66 TTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAATG
*
1710777 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCA
1 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
*
1710842 TTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAAATG
66 TTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAATG
* * * * * *
1710882 TTTGTTGACAACCAGCGGCCCCTTCGTCATGAAGTTGAGCTTGTGTTGTCTTGGA-TTCAAGATC
1 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TGGAGTCCAATATC
* *
1710946 CTTCGTTGAGAAGTTGAAATTTACTCT
65 CTTCGTTGTGAAGTTGAAATTGACTCT
1710973 CGAGTAAGTT
Statistics
Matches: 1376, Mismatches: 76, Indels: 21
0.93 0.05 0.01
Matches are distributed among these distances:
104 102 0.07
105 689 0.50
106 397 0.29
107 164 0.12
108 24 0.02
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (105 bp):
TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
TTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAATG
Found at i:1715569 original size:2 final size:2
Alignment explanation
Indices: 1715562--1715590 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1715552 TAATAAGAAT
1715562 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 T
1715591 TTTAAACCCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1737478 original size:20 final size:20
Alignment explanation
Indices: 1737450--1737504 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
1737440 GGACGACTAT
*
1737450 GTATTTTTCGAAAGACAATG
1 GTATCTTTCGAAAGACAATG
1737470 GTATCTTTCGAAAGACAATG
1 GTATCTTTCGAAAGACAATG
1737490 GTATCTTTCGAAAGA
1 GTATCTTTCGAAAGA
1737505 TGGTAAGACG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.33
Consensus pattern (20 bp):
GTATCTTTCGAAAGACAATG
Found at i:1739328 original size:27 final size:29
Alignment explanation
Indices: 1739270--1739338 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
1739260 AAATAATACT
*
1739270 AATAAAATTATCTTATTTTCTTAACTAAA
1 AATAAAATTATATTATTTTCTTAACTAAA
1739299 AATAAAATTATATTA-TTT-TTAACTAAA
1 AATAAAATTATATTATTTTCTTAACTAAA
1739326 AATTAAATATTAT
1 AA-TAAA-ATTAT
1739339 TAATTAATAG
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
27 11 0.30
28 7 0.19
29 19 0.51
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (29 bp):
AATAAAATTATATTATTTTCTTAACTAAA
Found at i:1739339 original size:27 final size:26
Alignment explanation
Indices: 1739282--1739340 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 26
1739272 TAAAATTATC
1739282 TTATT-TTCTTAACTAAAAATAAAAT
1 TTATTATTCTTAACTAAAAATAAAAT
* *
1739307 TATATTATTTTTAACTAAAAATTAAAT
1 T-TATTATTCTTAACTAAAAATAAAAT
1739334 ATTATTA
1 -TTATTA
1739341 ATTAATAGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 1 0.03
26 4 0.14
27 23 0.79
28 1 0.03
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (26 bp):
TTATTATTCTTAACTAAAAATAAAAT
Done.