Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005203.1 Hibiscus syriacus cultivar Beakdansim tig00011761_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: 1490345
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 8
Found at i:576061 original size:66 final size:65
Alignment explanation
Indices: 575980--576146 Score: 193
Period size: 64 Copynumber: 2.6 Consensus size: 65
575970 GAGGTACATT
575980 TTTTTTGCTTGTTTAATTGAATTTTATATTGAAAGTTGATTTG-T-A-TTGATGAGGAAATAAGA
1 TTTTTTGCTTGTTTAATTGAA-TTTATA---AAAGTTGATTTGTTAATTTGATGAGGAAATAAGA
576042 ATTA
62 ATTA
* * * * *
576046 TTTTTTGCTTATTTAATTG-ATTTGTAAAAGTTGATTTGTTTAATTTGATGTGTAAATAATAATT
1 TTTTTTGCTTGTTTAATTGAATTTATAAAAGTTGATTTG-TTAATTTGATGAGGAAATAAGAATT
576110 A
65 A
*
576111 TTTTTT-CTTGTTTAATTG-ATTTGTAAAAGTTGATTT
1 TTTTTTGCTTGTTTAATTGAATTTATAAAAGTTGATTT
576147 ATTGTTTTAA
Statistics
Matches: 91, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
61 12 0.13
63 1 0.01
64 35 0.38
65 25 0.27
66 18 0.20
ACGTcount: A:0.29, C:0.02, G:0.16, T:0.53
Consensus pattern (65 bp):
TTTTTTGCTTGTTTAATTGAATTTATAAAAGTTGATTTGTTAATTTGATGAGGAAATAAGAATTA
Found at i:576228 original size:20 final size:20
Alignment explanation
Indices: 576204--576284 Score: 103
Period size: 20 Copynumber: 4.1 Consensus size: 20
576194 TTGAAGGTAT
576204 AAATTCGCAACGCGAAAGGT-
1 AAATTCGCAACGCGAAA-GTA
*
576224 AAATTCGCAACGTGAAAGTA
1 AAATTCGCAACGCGAAAGTA
* *
576244 AAATTCGCAACGAGAAAGTG
1 AAATTCGCAACGCGAAAGTA
*
576264 AAATTTGCAACGCGAAA-TA
1 AAATTCGCAACGCGAAAGTA
576283 AA
1 AA
576285 CGTTGCGATA
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.09
20 49 0.91
ACGTcount: A:0.46, C:0.16, G:0.21, T:0.17
Consensus pattern (20 bp):
AAATTCGCAACGCGAAAGTA
Found at i:576694 original size:21 final size:21
Alignment explanation
Indices: 576668--576708 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
576658 GCATTGCGAA
576668 TTGCGATTTCCCAAATTCGCG
1 TTGCGATTTCCCAAATTCGCG
* *
576689 TTGCGATTTTCCTAATTCGC
1 TTGCGATTTCCCAAATTCGC
576709 AATGCGAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.27, G:0.17, T:0.39
Consensus pattern (21 bp):
TTGCGATTTCCCAAATTCGCG
Found at i:576714 original size:21 final size:21
Alignment explanation
Indices: 576669--576715 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
576659 CATTGCGAAT
**
576669 TGCGATTTCCCAAATTCGCGT
1 TGCGATTTCCCAAATTCGCAA
* *
576690 TGCGATTTTCCTAATTCGCAA
1 TGCGATTTCCCAAATTCGCAA
576711 TGCGA
1 TGCGA
576716 ATACGTAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TGCGATTTCCCAAATTCGCAA
Found at i:576959 original size:22 final size:22
Alignment explanation
Indices: 576934--576995 Score: 69
Period size: 18 Copynumber: 3.0 Consensus size: 22
576924 GGCGACATCC
576934 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
*
576956 GTCCCCA--T--GACGATATCA
1 GTCCCCATCTCCGACGAAATCA
* *
576974 GTCTCCATCTCCGGCGAAATCA
1 GTCCCCATCTCCGACGAAATCA
576996 TTCGCGGTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
18 15 0.47
20 2 0.06
22 15 0.47
ACGTcount: A:0.26, C:0.37, G:0.16, T:0.21
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:577404 original size:20 final size:20
Alignment explanation
Indices: 577331--577420 Score: 92
Period size: 20 Copynumber: 4.5 Consensus size: 20
577321 GCGATTCTGT
*
577331 CGTTGCGATTTTTA-TTTCG
1 CGTTGCGATTTTCATTTTCG
** **
577350 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATTTTCATTTTCG
**
577370 CGTTGCGATAATCATTTTCG
1 CGTTGCGATTTTCATTTTCG
*
577390 TGTTGCGATTTTCATTTTCG
1 CGTTGCGATTTTCATTTTCG
*
577410 TGTTGCGATTT
1 CGTTGCGATTT
577421 AAAGTTTCAG
Statistics
Matches: 60, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
19 11 0.18
20 49 0.82
ACGTcount: A:0.16, C:0.17, G:0.22, T:0.46
Consensus pattern (20 bp):
CGTTGCGATTTTCATTTTCG
Found at i:577428 original size:20 final size:20
Alignment explanation
Indices: 577385--577428 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
577375 CGATAATCAT
** *
577385 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTAAAG
577405 TTTCGTGTTGCGATTTAAAG
1 TTTCGTGTTGCGATTTAAAG
577425 TTTC
1 TTTC
577429 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.20, T:0.52
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTAAAG
Found at i:579329 original size:20 final size:20
Alignment explanation
Indices: 579304--579409 Score: 107
Period size: 20 Copynumber: 5.6 Consensus size: 20
579294 AGAATAGTTT
*
579304 ACTATCGCAATACGAAAATG
1 ACTATCGCAATGCGAAAATG
*
579324 ACTATCGCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
*
579340 A--ATTGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
579358 ACTATCGCAATGCGAAAAGG
1 ACTATCGCAATGCGAAAATG
**
579378 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
*
579398 ACTATCACAATG
1 ACTATCGCAATG
579410 AAAGAATCGC
Statistics
Matches: 71, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
14 6 0.08
16 4 0.06
17 4 0.06
18 4 0.06
20 53 0.75
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.21
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:579424 original size:34 final size:34
Alignment explanation
Indices: 579307--579428 Score: 127
Period size: 34 Copynumber: 3.4 Consensus size: 34
579297 ATAGTTTACT
* * *
579307 ATCGCAATACGAAAATGACTATCGCAACGAGAGA
1 ATCGCAATGCGAAAATGACTATCGCAATGAAAGA
*
579341 ATTGCAATGCGAAAATGACTATCGCAATGCGAAAAGGA
1 ATCGCAATGCGAAAATGACTATCGCAAT--G-AAA-GA
** *
579379 CTATCGCAATGCGAATTTGACTATCACAATGAAAGA
1 --ATCGCAATGCGAAAATGACTATCGCAATGAAAGA
579415 ATCGCAATGCGAAA
1 ATCGCAATGCGAAA
579429 TGAAAATCGC
Statistics
Matches: 73, Mismatches: 9, Indels: 12
0.78 0.10 0.13
Matches are distributed among these distances:
34 38 0.52
36 3 0.04
37 5 0.07
38 3 0.04
40 24 0.33
ACGTcount: A:0.42, C:0.19, G:0.20, T:0.19
Consensus pattern (34 bp):
ATCGCAATGCGAAAATGACTATCGCAATGAAAGA
Found at i:579506 original size:20 final size:20
Alignment explanation
Indices: 579454--579607 Score: 111
Period size: 20 Copynumber: 8.3 Consensus size: 20
579444 GATTCTCTCG
**
579454 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
* *
579474 TTCCGATAGTCATTTTTGCA
1 TTGCGATAGTCATTTTCGCA
*
579494 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
579514 TTGCGAT--T--TTGTT-G--
1 TTGCGATAGTCATT-TTCGCA
**
579528 TTGCGATTTTCA-TTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
579547 TTGCGAT--TC--TCTCG--
1 TTGCGATAGTCATTTTCGCA
*
579561 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
*
579581 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
579601 TTGCGAT
1 TTGCGAT
579608 TTTAAATTTC
Statistics
Matches: 111, Mismatches: 9, Indels: 28
0.75 0.06 0.19
Matches are distributed among these distances:
14 14 0.13
16 12 0.11
17 6 0.05
18 5 0.05
19 7 0.06
20 67 0.60
ACGTcount: A:0.16, C:0.19, G:0.22, T:0.42
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:579544 original size:33 final size:34
Alignment explanation
Indices: 579435--579587 Score: 128
Period size: 34 Copynumber: 4.4 Consensus size: 34
579425 GAAATGAAAA
* **
579435 TCGCATTGCGATTCTCTCGTTGCGATAGTCAAAT
1 TCGCGTTGCGATTCTCTCGTTGCGATAGTCATTT
* * * *
579469 TCGCATTCCGATAGTCATTTTTGCATTGCGATAGTCATTT
1 TCGCGTTGCGAT--TC---TCT-CGTTGCGATAGTCATTT
* * * **
579509 TCGCGTTGCGATTTTGTTGTTGCGATTTTCA-TT
1 TCGCGTTGCGATTCTCTCGTTGCGATAGTCATTT
*
579542 TCGCATTGCGATTCTCTCGTTGCGATAGTCATTT
1 TCGCGTTGCGATTCTCTCGTTGCGATAGTCATTT
579576 TCGCGTTGCGAT
1 TCGCGTTGCGAT
579588 AGTCATTTTC
Statistics
Matches: 92, Mismatches: 20, Indels: 14
0.73 0.16 0.11
Matches are distributed among these distances:
33 27 0.29
34 34 0.37
35 2 0.02
36 2 0.02
38 1 0.01
39 2 0.02
40 24 0.26
ACGTcount: A:0.16, C:0.21, G:0.22, T:0.42
Consensus pattern (34 bp):
TCGCGTTGCGATTCTCTCGTTGCGATAGTCATTT
Found at i:579617 original size:20 final size:20
Alignment explanation
Indices: 579559--579617 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
579549 GCGATTCTCT
* *
579559 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTAAATTTCG
* *
579579 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTAAATTTCG
**
579599 CGTTGCGATTTTAAATTTC
1 CGTTGCGATAGTAAATTTC
579618 AGATTCTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (20 bp):
CGTTGCGATAGTAAATTTCG
Found at i:580132 original size:18 final size:19
Alignment explanation
Indices: 580093--580134 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
580083 CTCACCTGTC
580093 ATCGTTCAAGAGGCCTCCCCT
1 ATCGTTCAAGAGG-C-CCCCT
580114 ATCGTTCAAGAGG-CCCCT
1 ATCGTTCAAGAGGCCCCCT
580132 ATC
1 ATC
580135 ATCCCTCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
21 13 0.62
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (19 bp):
ATCGTTCAAGAGGCCCCCT
Found at i:580182 original size:21 final size:20
Alignment explanation
Indices: 580091--580187 Score: 52
Period size: 21 Copynumber: 4.7 Consensus size: 20
580081 GACTCACCTG
*
580091 TCATCGTTCAAGAGG-CCTCC
1 TCATCGTTCAAGAGGCCCT-T
* *
580111 CCTATCGTTCAAGAGGCCCCTA
1 TC-ATCGTTCAAGAGG-CCCTT
** * *
580133 TCATCCCTCAAGAGTCCCCT
1 TCATCGTTCAAGAGGCCCTT
* *
580153 CCTACCGTTCAAGAGGCCACTT
1 TC-ATCGTTCAAGAGGCC-CTT
*
580175 TCATCGTTGAAGA
1 TCATCGTTCAAGA
580188 TGTCCCTCCC
Statistics
Matches: 55, Mismatches: 17, Indels: 9
0.68 0.21 0.11
Matches are distributed among these distances:
20 5 0.09
21 43 0.78
22 4 0.07
23 3 0.05
ACGTcount: A:0.23, C:0.35, G:0.18, T:0.25
Consensus pattern (20 bp):
TCATCGTTCAAGAGGCCCTT
Found at i:580196 original size:42 final size:42
Alignment explanation
Indices: 580098--580179 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
580088 CTGTCATCGT
* * *
580098 TCAAGAGGCCTCC-CCTATCGTTCAAGAGGCCCCTATCATCCC
1 TCAAGAGTCC-CCTCCTACCGTTCAAGAGGCCACTATCATCCC
*
580140 TCAAGAGTCCCCTCCTACCGTTCAAGAGGCCACTTTCATC
1 TCAAGAGTCCCCTCCTACCGTTCAAGAGGCCACTATCATC
580180 GTTGAAGATG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 2 0.06
42 33 0.94
ACGTcount: A:0.22, C:0.39, G:0.16, T:0.23
Consensus pattern (42 bp):
TCAAGAGTCCCCTCCTACCGTTCAAGAGGCCACTATCATCCC
Found at i:581575 original size:14 final size:14
Alignment explanation
Indices: 581556--581591 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
581546 ATTGTTTAAT
581556 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
581570 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
581584 TGATTTGT
1 TGATTTGT
581592 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:581781 original size:34 final size:33
Alignment explanation
Indices: 581704--581788 Score: 125
Period size: 33 Copynumber: 2.5 Consensus size: 33
581694 TTGCAACGCG
** *
581704 GAAATGACTATCGCAATGAGAGAATCGCAATGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAATGC
*
581737 GAAATGAAAATCGCAACGAGTGAATCGCAATGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAATGC
581770 GAAAATGAAAATCGCAACG
1 G-AAATGAAAATCGCAACG
581789 CGAAATTTCT
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 30 0.64
34 17 0.36
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAATGC
Found at i:581784 original size:20 final size:19
Alignment explanation
Indices: 581726--581794 Score: 76
Period size: 19 Copynumber: 3.8 Consensus size: 19
581716 GCAATGAGAG
581726 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
581745 AATCGCAA--CG-AGTG--
1 AATCGCAATGCGAAATGAA
581759 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
*
581779 AATCGCAACGCGAAAT
1 AATCGCAATGCGAAAT
581795 TTCTCTCGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
14 8 0.20
16 5 0.12
17 2 0.05
18 3 0.07
19 12 0.29
20 11 0.27
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:581812 original size:14 final size:14
Alignment explanation
Indices: 581795--581823 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
581785 AACGCGAAAT
581795 TTCTCTCGTTGCGA
1 TTCTCTCGTTGCGA
581809 TTCTCTCGTTGCGA
1 TTCTCTCGTTGCGA
581823 T
1 T
581824 AGTCATTTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.07, C:0.28, G:0.21, T:0.45
Consensus pattern (14 bp):
TTCTCTCGTTGCGA
Found at i:581840 original size:20 final size:20
Alignment explanation
Indices: 581815--581908 Score: 136
Period size: 20 Copynumber: 4.7 Consensus size: 20
581805 GCGATTCTCT
581815 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
* *
581835 CGTTGCGATTGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
*
581855 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTCCG
*
581875 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
581895 CGTTGCGATAGTCA
1 CGTTGCGATAGTCA
581909 AATGAATATC
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
20 64 0.97
21 2 0.03
ACGTcount: A:0.17, C:0.21, G:0.26, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:584362 original size:24 final size:24
Alignment explanation
Indices: 584328--584381 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
584318 CTGAAAAATC
584328 ATCAAAATCCGAGTATTAACCAAG
1 ATCAAAATCCGAGTATTAACCAAG
* * *
584352 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTAACCAAG
584376 ATCAAA
1 ATCAAA
584382 TTTTGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTAACCAAG
Found at i:585288 original size:20 final size:20
Alignment explanation
Indices: 585249--585355 Score: 162
Period size: 20 Copynumber: 5.3 Consensus size: 20
585239 GTTGCGATTT
585249 ATTGCGATTTACGT-ATCGC
1 ATTGCGATTTACGTAATCGC
585268 ATTGCGATTTACGTAATCGC
1 ATTGCGATTTACGTAATCGC
585288 ATTGCGATTTACGTAATCGC
1 ATTGCGATTTACGTAATCGC
* **
585308 ATTGCGATTTTCCAAATTCGC
1 ATTGCGATTTACGTAA-TCGC
*
585329 ATTGCGATTTACGTATTCGC
1 ATTGCGATTTACGTAATCGC
585349 ATTGCGA
1 ATTGCGA
585356 ATTAGGAAAA
Statistics
Matches: 79, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
19 14 0.18
20 49 0.62
21 16 0.20
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (20 bp):
ATTGCGATTTACGTAATCGC
Found at i:585370 original size:41 final size:40
Alignment explanation
Indices: 585249--585377 Score: 170
Period size: 41 Copynumber: 3.2 Consensus size: 40
585239 GTTGCGATTT
*
585249 ATTGCGATTTACGTATCGCATTGCGATTTACG-TAATCGC
1 ATTGCGATTTACGTATCGCATTGCGATTTACGAAAATCGC
* * *
585288 ATTGCGATTTACGTAATCGCATTGCGATTTTCCAAATTCGC
1 ATTGCGATTTACGT-ATCGCATTGCGATTTACGAAAATCGC
* *
585329 ATTGCGATTTACGTATTCGCATTGCGAATTAGGAAAATCGC
1 ATTGCGATTTACGTA-TCGCATTGCGATTTACGAAAATCGC
*
585370 AATGCGAT
1 ATTGCGAT
585378 AGTCAGAATC
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 14 0.18
40 17 0.22
41 46 0.60
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.34
Consensus pattern (40 bp):
ATTGCGATTTACGTATCGCATTGCGATTTACGAAAATCGC
Found at i:585395 original size:61 final size:60
Alignment explanation
Indices: 585263--585396 Score: 162
Period size: 61 Copynumber: 2.2 Consensus size: 60
585253 CGATTTACGT
* * * **
585263 ATCGCATTGCGATTTACGTAATCGCATTGCGATTTACGTAATCGCATTGCGATTTTCCAA
1 ATCGCATTGCGATTTACGTAATCGCATTGCGAATTACGAAATCGCAATGCGATAGTCCAA
* *
585323 ATTCGCATTGCGATTTACGTATTCGCATTGCGAATTAGGAAAATCGCAATGCGATAGT-CAGA
1 A-TCGCATTGCGATTTACGTAATCGCATTGCGAATTACG-AAATCGCAATGCGATAGTCCA-A
*
585385 ATCGCGTTGCGA
1 ATCGCATTGCGA
585397 ATCTGGAAAC
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
60 1 0.02
61 46 0.73
62 16 0.25
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (60 bp):
ATCGCATTGCGATTTACGTAATCGCATTGCGAATTACGAAATCGCAATGCGATAGTCCAA
Found at i:586236 original size:12 final size:12
Alignment explanation
Indices: 586215--586248 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
586205 GGTTGTGGGT
*
586215 TTTGAGATTGTG
1 TTTGATATTGTG
586227 TTTGATATTGTG
1 TTTGATATTGTG
*
586239 TTTGGTATTG
1 TTTGATATTG
586249 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:586972 original size:19 final size:20
Alignment explanation
Indices: 586912--587023 Score: 104
Period size: 20 Copynumber: 5.7 Consensus size: 20
586902 ACTAAAACCT
*
586912 GTTGCGAAATT-AAATTCGA
1 GTTGCGAATTTGAAATTCGA
* * * *
586931 GTTACGAATTCGAAAATCTA
1 GTTGCGAATTTGAAATTCGA
586951 GTTGCGAATTTGAAATTC-A
1 GTTGCGAATTTGAAATTCGA
* *
586970 GTTGCGAATTTAAAATTCCGC
1 GTTGCGAATTTGAAATT-CGA
* *
586991 GTTGCGAATTT-AACTATCGC
1 GTTGCGAATTTGAAAT-TCGA
587011 GTTGCGAATTTGA
1 GTTGCGAATTTGA
587024 CTTATGTGTT
Statistics
Matches: 77, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
19 25 0.32
20 39 0.51
21 13 0.17
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (20 bp):
GTTGCGAATTTGAAATTCGA
Found at i:587034 original size:20 final size:20
Alignment explanation
Indices: 586988--587043 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
586978 TTTAAAATTC
*
586988 CGCGTTGCGAATTTAACTAT
1 CGCGTTGCGAATTTGACTAT
587008 CGCGTTGCGAATTTGACTTAT
1 CGCGTTGCGAATTTGAC-TAT
* *
587029 -GTGTTGCGAAATTGA
1 CGCGTTGCGAATTTGA
587044 AAAATGATTG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
20 29 0.91
21 3 0.09
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGAATTTGACTAT
Found at i:587075 original size:20 final size:20
Alignment explanation
Indices: 587050--587097 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
587040 TTGAAAAATG
*
587050 ATTGCGAAATTAAAGTTTGC
1 ATTGCGAAATTAAAGTTCGC
* **
587070 ATTGCGAATTTGGAGTTCGC
1 ATTGCGAAATTAAAGTTCGC
587090 ATTGCGAA
1 ATTGCGAA
587098 TTTATTGATC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.33
Consensus pattern (20 bp):
ATTGCGAAATTAAAGTTCGC
Found at i:587098 original size:20 final size:20
Alignment explanation
Indices: 587063--587100 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
587053 GCGAAATTAA
*
587063 AGTTTGCATTGCGAATTTGG
1 AGTTCGCATTGCGAATTTGG
587083 AGTTCGCATTGCGAATTT
1 AGTTCGCATTGCGAATTT
587101 ATTGATCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.13, G:0.26, T:0.39
Consensus pattern (20 bp):
AGTTCGCATTGCGAATTTGG
Found at i:587297 original size:13 final size:13
Alignment explanation
Indices: 587279--587304 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
587269 TGATTATATT
587279 CCCATACAAAATC
1 CCCATACAAAATC
587292 CCCATACAAAATC
1 CCCATACAAAATC
587305 TTAAGGGTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.38, G:0.00, T:0.15
Consensus pattern (13 bp):
CCCATACAAAATC
Found at i:587450 original size:73 final size:72
Alignment explanation
Indices: 587326--587479 Score: 231
Period size: 73 Copynumber: 2.1 Consensus size: 72
587316 CTTGGTTTTA
* *
587326 GAAAATAAAAATATATAGAAAATGTTGAAAAAATGTGTTTGATTATAAAATTAGAAAATGATTTA
1 GAAAATAAAAATATATAGAAAATGTTGAAAAAATATGTTTGATTACAAAATTAGAAAATGA-TTA
*
587391 TGAAAATT
65 TGAAAAAT
* *
587399 GAAAATATAAAATATATAGAAAATGTTG-AAAAATATGTTTGGTTACAAAATTAGAAAATTATTA
1 GAAAATA-AAAATATATAGAAAATGTTGAAAAAATATGTTTGATTACAAAATTAGAAAATGATTA
587463 TGAAAAAT
65 TGAAAAAT
587471 GAAAA-AAAA
1 GAAAATAAAA
587480 TAAGTGAAAA
Statistics
Matches: 75, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
70 3 0.04
71 1 0.01
72 15 0.20
73 36 0.48
74 20 0.27
ACGTcount: A:0.56, C:0.01, G:0.13, T:0.31
Consensus pattern (72 bp):
GAAAATAAAAATATATAGAAAATGTTGAAAAAATATGTTTGATTACAAAATTAGAAAATGATTAT
GAAAAAT
Found at i:587611 original size:2 final size:2
Alignment explanation
Indices: 587604--587633 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
587594 TTATTATTAT
587604 TA TA TA TA TA TCA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA T-A TA TA TA TA TA TA TA TA T
587634 TAATTAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:589064 original size:24 final size:24
Alignment explanation
Indices: 589011--589064 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 24
589001 TATATATATA
*
589011 TATTGTTTTGTTTTATTACGTTTTT
1 TATTTTTTTGTTTTATTAC-TTTTT
*
589036 T-TTTTTTTGTTTTTTTA-TTTATT
1 TATTTTTTTGTTTTATTACTTT-TT
589059 TATTTT
1 TATTTT
589065 GATTTATTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
22 3 0.12
23 3 0.12
24 18 0.72
25 1 0.04
ACGTcount: A:0.11, C:0.02, G:0.07, T:0.80
Consensus pattern (24 bp):
TATTTTTTTGTTTTATTACTTTTT
Found at i:589120 original size:22 final size:22
Alignment explanation
Indices: 589095--589145 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
589085 AAAATTATTG
*
589095 TTTTTTA-TCTATTGTTTTTT-
1 TTTTTTATTCTAATGTTTTTTC
*
589115 TCTTTTCATTCTAATGTTTTTTC
1 T-TTTTTATTCTAATGTTTTTTC
589138 TTTATTTA
1 TTT-TTTA
589146 AATATTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
20 1 0.04
21 5 0.21
22 14 0.58
23 4 0.17
ACGTcount: A:0.14, C:0.10, G:0.04, T:0.73
Consensus pattern (22 bp):
TTTTTTATTCTAATGTTTTTTC
Found at i:594931 original size:84 final size:83
Alignment explanation
Indices: 594393--595239 Score: 804
Period size: 84 Copynumber: 10.3 Consensus size: 83
594383 ACTCAAGGCT
* *
594393 AGAATGGTTATCT-TCCAATAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
1 AGAAGGGTTATCTGT-CACTAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
* * *
594457 TGCAGCATAGCTTAAGTCG
65 TACAGCATAACTTAAGTCA
* * * ** * * * * * * *
594476 AGAAGGGCTATCT-AC-CAAAAGACCCCCGAGTTCTATTACACTCAGCTTCGAGGACACATAATC
1 AGAAGGGTTATCTGTCACTAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG-CACATCATT
* * *
594539 TACAACATAACTCAATGT-T
65 TACAGCATAACTTAA-GTCA
* *
594558 AGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATT
1 AGAAGGGTTATCTGTCA-CTAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
*
594623 T--AGCATAACTTAAGTCG
65 TACAGCATAACTTAAGTCA
* * * * **
594640 AGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTTCAAGGTGCAT-ATT
1 AGAAGGGTTATCTGTC-ACTAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
** *
594704 TGTAGCATAGCTTAAGTCA
65 TACAGCATAACTTAAGTCA
* * * * * * ** * *
594723 AAAAGGGCTATATG-C-C-AAAGACCCTCGAGTTCAATTATACTCAGCTTCGAGGGCACATCATT
1 AGAAGGGTTATCTGTCACTAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATT
**
594785 TACAATATAACTTAAGTCA
65 TACAGCATAACTTAAGTCA
* * *
594804 AGAA-GGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGACATATCATTT
1 AGAAGGGTTATCTGTCACTAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
* * *
594868 GCAACATAACTTAAGTCG
66 ACAGCATAACTTAAGTCA
* * *
594886 AGAAGGGTTATCTGCCAACTAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCGCATCATT
1 AGAAGGGTTATCTGTC-ACTAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
* *
594951 TGCAGCATAGCTTAAGTCA
65 TACAGCATAACTTAAGTCA
* * * * * *
594970 AGAAGGGCTATCTG-C-C-AAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATT
1 AGAAGGGTTATCTGTCACTAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATT
*
595032 TACATCATAACTTAAGTCA
65 TACAGCATAACTTAAGTCA
* * * * *
595051 AGAAGGGTTATCTGTCACTAAAGGCCTTCGAGTTCGACTACGCTCAGCTTCGAGGGTATATCATT
1 AGAAGGGTTATCTGTCACTAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATT
* * *
595116 TACAGCATAACTCAAGGCT
65 TACAGCATAACTTAAGTCA
* ** * *
595135 AGAAGGGTTATATGTCACCGAAGACCTTCGAGTTCGATTACACTCAGCTCCAAGGCACATCATTT
1 AGAAGGGTTATCTGTCACTAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
* * *
595200 ACAGCATAGCTCAAGGCA
66 ACAGCATAACTTAAGTCA
*
595218 AGAAGGGTTATCTGTCAATAAA
1 AGAAGGGTTATCTGTCACTAAA
595240 ATTGTCGAGT
Statistics
Matches: 620, Mismatches: 124, Indels: 40
0.79 0.16 0.05
Matches are distributed among these distances:
79 23 0.04
80 40 0.06
81 99 0.16
82 128 0.21
83 123 0.20
84 176 0.28
85 31 0.05
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (83 bp):
AGAAGGGTTATCTGTCACTAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
ACAGCATAACTTAAGTCA
Found at i:595020 original size:247 final size:248
Alignment explanation
Indices: 594363--595231 Score: 1173
Period size: 247 Copynumber: 3.5 Consensus size: 248
594353 TTTTTTTAAA
* * * * *
594363 AAGACA-AT-ATTTGCAGTATAACTCAAGGCTAGAATGGTTATCTTCCAA-TAAAGACCTTCGAG
1 AAGACATATCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAG
* *
594425 TTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTA
66 TTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTG
* * * * * * *
594490 CCAAAAGACCCCCGAGTTCTATTACACTCAGCTTCGAGGACACATAATCTACAACATAACTCAAT
131 CC-AAAGACCCTCGAGTTCAATTACACTCAGCTTCGAGGGCACATCATTTACAATATAACTTAA-
*
594555 GT-TAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
194 GTCAAGAAGGGTTATCTGTCACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCC
* * * *
594610 AAGGCATATCATTT--AGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAG
1 AAGACATATCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAG
* ** * * *
594673 TTCGACTACGCTCAGCTTCAAGGTGCAT-ATTTGTAGCATAGCTTAAGTCAAAAAGGGCTATATG
66 TTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTG
*
594737 CCAAAGACCCTCGAGTTCAATTATACTCAGCTTCGAGGGCACATCATTTACAATATAACTTAAGT
131 CCAAAGACCCTCGAGTTCAATTACACTCAGCTTCGAGGGCACATCATTTACAATATAACTTAAGT
594802 CAAGAA-GGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
196 CAAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
* * * *
594854 AAGACATATCATTTGCAACATAACTTAAGTCGAGAAGGGTTATCTGCCAACTAAAGACCTTCGAG
1 AAGACATATCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAG
* *
594919 TTTGACTACGCTCAGCTCCAAGGCGCATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTG
66 TTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTG
*
594984 CCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTAC-ATCATAACTTAAG
131 CCAAAGACCCTCGAGTTCAATTACACTCAGCTTCGAGGGCACATCATTTACAAT-ATAACTTAAG
* * *
595048 TCAAGAAGGGTTATCTGTCACTAAAGGCCTTCGAGTTCGACTACGCTCAGCTTCG
195 TCAAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCC
* ** * * * * *
595103 AGGGTATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATATGTC-ACCGAAGACCTTCGAG
1 AAGACATATCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAG
* * * * * *
595167 TTCGATTACACTCAGCTCCAAGGCACATCATTTACAGCATAGCTCAAGGCAAGAAGGGTTATCTG
66 TTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTG
595232 TCAATAAAAT
Statistics
Matches: 551, Mismatches: 61, Indels: 19
0.87 0.10 0.03
Matches are distributed among these distances:
244 45 0.08
245 16 0.03
246 130 0.24
247 165 0.30
248 151 0.27
249 44 0.08
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (248 bp):
AAGACATATCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAG
TTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTG
CCAAAGACCCTCGAGTTCAATTACACTCAGCTTCGAGGGCACATCATTTACAATATAACTTAAGT
CAAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
Found at i:597176 original size:2 final size:2
Alignment explanation
Indices: 597171--597195 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
597161 TTTTTAAATT
597171 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
597196 TGTTTTGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:597433 original size:7 final size:7
Alignment explanation
Indices: 597417--597460 Score: 58
Period size: 6 Copynumber: 6.6 Consensus size: 7
597407 CAAATTAGAT
597417 TTTTTAAA
1 TTTTT-AA
597425 TTTTTAA
1 TTTTTAA
597432 -TTTTAA
1 TTTTTAA
597438 -TTTTAA
1 TTTTTAA
597444 -TTTTAA
1 TTTTTAA
597450 TTTTTAA
1 TTTTTAA
597457 TTTT
1 TTTT
597461 CGCAATTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
6 18 0.51
7 12 0.34
8 5 0.14
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
TTTTTAA
Found at i:597437 original size:6 final size:6
Alignment explanation
Indices: 597426--597460 Score: 61
Period size: 6 Copynumber: 5.7 Consensus size: 6
597416 TTTTTTAAAT
597426 TTTTAA TTTTAA TTTTAA TTTTAA TTTTTAA TTTT
1 TTTTAA TTTTAA TTTTAA TTTTAA -TTTTAA TTTT
597461 CGCAATTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 22 0.79
7 6 0.21
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTAA
Found at i:597443 original size:12 final size:13
Alignment explanation
Indices: 597418--597460 Score: 70
Period size: 12 Copynumber: 3.3 Consensus size: 13
597408 AAATTAGATT
597418 TTTTAAATTTTTAA
1 TTTT-AATTTTTAA
597432 TTTTAA-TTTTAA
1 TTTTAATTTTTAA
597444 TTTTAATTTTTAA
1 TTTTAATTTTTAA
597457 TTTT
1 TTTT
597461 CGCAATTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.43
13 12 0.43
14 4 0.14
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTAATTTTTAA
Found at i:597958 original size:26 final size:25
Alignment explanation
Indices: 597929--597986 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 25
597919 ATTTTATATT
597929 TTTAATCTAAATAAATTT-TTAATTTC
1 TTTAATC-AAAT-AATTTCTTAATTTC
*
597955 TTTAAATCAAATAATTTCTTAATTTT
1 TTT-AATCAAATAATTTCTTAATTTC
597981 TTTAAT
1 TTTAAT
597987 AATCAATTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 8 0.28
26 17 0.59
27 4 0.14
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (25 bp):
TTTAATCAAATAATTTCTTAATTTC
Found at i:598163 original size:80 final size:80
Alignment explanation
Indices: 598069--598297 Score: 377
Period size: 80 Copynumber: 2.9 Consensus size: 80
598059 AAAATTGTAG
* * *
598069 ATTATCATATAAGTTTATGAACTATCATGTAAGTGTCGTGACTATTAATATTTGATTCATTTATT
1 ATTATCATGTAAGTTTATGAACTATCATGTAAGTGTCGTGACTATTAATATTTGATTCCTCTATT
598134 TAAAACATTAAGCAT
66 TAAAACATTAAGCAT
* * *
598149 ATTATCATGCAAGTTTCTGAATTATCATGTAAGTGTCGTGACTATTAATATTTGATTCCTCTATT
1 ATTATCATGTAAGTTTATGAACTATCATGTAAGTGTCGTGACTATTAATATTTGATTCCTCTATT
* *
598214 TAAAGCATTAAGTAT
66 TAAAACATTAAGCAT
*
598229 ATTATCATGTAAGTTTACGAACTATCATGTAAGTGTCGTGACTATTAATATTTGATTCCTCTATT
1 ATTATCATGTAAGTTTATGAACTATCATGTAAGTGTCGTGACTATTAATATTTGATTCCTCTATT
598294 TAAA
66 TAAA
598298 GCGTTAGGTT
Statistics
Matches: 137, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
80 137 1.00
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (80 bp):
ATTATCATGTAAGTTTATGAACTATCATGTAAGTGTCGTGACTATTAATATTTGATTCCTCTATT
TAAAACATTAAGCAT
Found at i:598322 original size:80 final size:80
Alignment explanation
Indices: 598078--598325 Score: 315
Period size: 80 Copynumber: 3.1 Consensus size: 80
598068 GATTATCATA
* * * *
598078 TAAGTTTATGAACTATCATGTAAGTGTCGTGACTATTAATATTTGATTCATTTATTTAAAACATT
1 TAAGTTTACGAACTATCATGTAAGTGTCGTGACTATTAATATTTGATTCCTCTATTTAAAGCATT
* * *
598143 AAGCATATTATCATGC
66 AAGTATATT-TTATTC
*
598159 -AAGTTT-CTGAATTATCATGTAAGTGTCGTGACTATTAATATTTGATTCCTCTATTTAAAGCAT
1 TAAGTTTAC-GAACTATCATGTAAGTGTCGTGACTATTAATATTTGATTCCTCTATTTAAAGCAT
* *
598222 TAAGTATATTATCA-TG
65 TAAGTATATT-TTATTC
*
598238 TAAGTTTACGAACTATCATGTAAGTGTCGTGACTATTAATATTTGATTCCTCTATTTAAAGCGTT
1 TAAGTTTACGAACTATCATGTAAGTGTCGTGACTATTAATATTTGATTCCTCTATTTAAAGCATT
* *
598303 AGGT-TAATTTTTTTC
66 AAGTAT-ATTTTATTC
598318 TAAGTTTA
1 TAAGTTTA
598326 AGAATCATAT
Statistics
Matches: 148, Mismatches: 14, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
79 2 0.01
80 145 0.98
81 1 0.01
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.44
Consensus pattern (80 bp):
TAAGTTTACGAACTATCATGTAAGTGTCGTGACTATTAATATTTGATTCCTCTATTTAAAGCATT
AAGTATATTTTATTC
Found at i:599370 original size:30 final size:29
Alignment explanation
Indices: 599293--599370 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 29
599283 ATGATTAAGT
* * *
599293 TTTAACTTAACCCTTAAATTTTAGATAGAA
1 TTTAATTTAACCC-TAAAATTTAGATAAAA
* *
599323 TACTAGTTTAACCCTAAAATTTAGATAAAA
1 T-TTAATTTAACCCTAAAATTTAGATAAAA
599353 TTTAATTTAACCACTAAA
1 TTTAATTTAACC-CTAAA
599371 CTATAACTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
29 9 0.23
30 21 0.54
31 9 0.23
ACGTcount: A:0.44, C:0.14, G:0.05, T:0.37
Consensus pattern (29 bp):
TTTAATTTAACCCTAAAATTTAGATAAAA
Found at i:603110 original size:18 final size:20
Alignment explanation
Indices: 603064--603110 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 20
603054 TTATATAAGA
603064 ATATGAA-ATAAGAGATATG
1 ATATGAACATAAGAGATATG
* *
603083 ATAAGGACATAAG-GA-ATG
1 ATATGAACATAAGAGATATG
603101 ATATGAACAT
1 ATATGAACAT
603111 GTGACATAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 11 0.48
19 7 0.30
20 5 0.22
ACGTcount: A:0.51, C:0.04, G:0.21, T:0.23
Consensus pattern (20 bp):
ATATGAACATAAGAGATATG
Found at i:603452 original size:20 final size:21
Alignment explanation
Indices: 603427--603474 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 21
603417 TTTATATGTC
603427 TATAAGAAGATATA-ATAATA
1 TATAAGAAGATATATATAATA
*
603447 TATAAGAATATATATATAAGTCA
1 TATAAGAAGATATATATAA-T-A
603470 TATAA
1 TATAA
603475 TATGCGCTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 13 0.54
21 4 0.17
22 1 0.04
23 6 0.25
ACGTcount: A:0.56, C:0.02, G:0.08, T:0.33
Consensus pattern (21 bp):
TATAAGAAGATATATATAATA
Found at i:620990 original size:61 final size:60
Alignment explanation
Indices: 620864--620999 Score: 157
Period size: 61 Copynumber: 2.2 Consensus size: 60
620854 TGCTGGAGTC
* *** * *
620864 TTTACGACCACTTTCCGCTTGAGATGCTTTTCAATACCAGAGTTTTCTGCGTTCGAAAAA
1 TTTATGACCACTTTCCGCTTGAGATGCTTTTCAATACCAGAACCTTCCGCATTCGAAAAA
** *
620924 TTTATGACCACTTTCCGCTTGAGATGGCTTTTCAATGTC-GAAACCTTCCGCATTCGGAAAA
1 TTTATGACCACTTTCCGCTTGAGAT-GCTTTTCAATACCAG-AACCTTCCGCATTCGAAAAA
*
620985 TTTATGGCCACTTTC
1 TTTATGACCACTTTC
621000 ATGTCACACC
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
60 25 0.39
61 39 0.61
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (60 bp):
TTTATGACCACTTTCCGCTTGAGATGCTTTTCAATACCAGAACCTTCCGCATTCGAAAAA
Found at i:621973 original size:20 final size:20
Alignment explanation
Indices: 621913--621959 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
621903 AACTGATCCT
** *
621913 AGTCAACTCGGACCGAACTG
1 AGTCAACTCAAACCGATCTG
621933 AGTCAACTCAAACCGATCTG
1 AGTCAACTCAAACCGATCTG
621953 AGTCAAC
1 AGTCAAC
621960 CTGAACCGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.34, C:0.30, G:0.19, T:0.17
Consensus pattern (20 bp):
AGTCAACTCAAACCGATCTG
Found at i:622036 original size:19 final size:20
Alignment explanation
Indices: 621996--622060 Score: 100
Period size: 19 Copynumber: 3.4 Consensus size: 20
621986 ACCCGACCCA
*
621996 TTGACTTTGA-CA-TGACCG
1 TTGACTTTAACCATTGACCG
622014 TTGACTTTAACCATTGA-CG
1 TTGACTTTAACCATTGACCG
622033 TTGACTTTAACCATTGACCG
1 TTGACTTTAACCATTGACCG
622053 TTGACTTT
1 TTGACTTT
622061 GGCCCAAAAG
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
18 9 0.21
19 21 0.49
20 13 0.30
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
TTGACTTTAACCATTGACCG
Found at i:622660 original size:28 final size:28
Alignment explanation
Indices: 622607--622662 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
622597 CTTGATTACA
* * *
622607 TATGATTTATTAGATTTAAAGTCTGATT
1 TATGATTTACTAAATTTAAAGCCTGATT
622635 TATGATTTACTAAAGTTT-AAGCCTGATT
1 TATGATTTACTAAA-TTTAAAGCCTGATT
622663 GTTTGATTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 21 0.88
29 3 0.12
ACGTcount: A:0.32, C:0.07, G:0.14, T:0.46
Consensus pattern (28 bp):
TATGATTTACTAAATTTAAAGCCTGATT
Found at i:622846 original size:35 final size:35
Alignment explanation
Indices: 622798--622865 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 35
622788 AAGTCTCTGC
** *
622798 AGGTTCAGCTCGATAAAATTGGTAATTCCTTATAT
1 AGGTTCAAATCGATAAAACTGGTAATTCCTTATAT
** *
622833 AGGTTCAAATCGATCGAGCTGGTAATTCCTTAT
1 AGGTTCAAATCGATAAAACTGGTAATTCCTTAT
622866 GGACCTAAGG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 27 1.00
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.35
Consensus pattern (35 bp):
AGGTTCAAATCGATAAAACTGGTAATTCCTTATAT
Found at i:623810 original size:61 final size:62
Alignment explanation
Indices: 623698--623894 Score: 167
Period size: 61 Copynumber: 3.2 Consensus size: 62
623688 AGGGGTTACA
* *
623698 CTTCCGTTTGTGATGGATTTTCAATGTCGAAGCCTTTCGCGTTCGGGAAATTT-GTGGCCAC
1 CTTCCGTTTGTGATGGATTTTCAATGCCGAAGCCTTTCGCGTTCGGAAAATTTAGTGGCCAC
* ** *
623759 CTTCCGTTTGTTG-TGGCTTTTCAATGCC-AGAGCC-TTCTGCGTTTTGAAAATTTATTGGCCAC
1 CTTCCGTTTG-TGATGGATTTTCAATGCCGA-AGCCTTTC-GCGTTCGGAAAATTTAGTGGCCAC
** * * * *
623821 CTTTTGCTTGTGAT-GACTTTCAATGCCAAAGTCTTAT-GCGTTC-GAAATATTTA-TGGCCAC
1 CTTCCGTTTGTGATGGATTTTCAATGCCGAAGCCTT-TCGCGTTCGGAAA-ATTTAGTGGCCAC
* *
623881 TTTCCGCTTGTGAT
1 CTTCCGTTTGTGAT
623895 TAGGCATGTA
Statistics
Matches: 111, Mismatches: 16, Indels: 19
0.76 0.11 0.13
Matches are distributed among these distances:
60 26 0.23
61 65 0.59
62 19 0.17
63 1 0.01
ACGTcount: A:0.18, C:0.21, G:0.22, T:0.39
Consensus pattern (62 bp):
CTTCCGTTTGTGATGGATTTTCAATGCCGAAGCCTTTCGCGTTCGGAAAATTTAGTGGCCAC
Found at i:624096 original size:25 final size:25
Alignment explanation
Indices: 624067--624115 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
624057 CGTTCGTGAA
624067 CGTTCGGTTATGTTCGTTTATGTTT
1 CGTTCGGTTATGTTCGTTTATGTTT
624092 CGTTCGGTTATGTTCGTTTATGTT
1 CGTTCGGTTATGTTCGTTTATGTT
624116 CATTCATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.08, C:0.12, G:0.24, T:0.55
Consensus pattern (25 bp):
CGTTCGGTTATGTTCGTTTATGTTT
Found at i:625230 original size:16 final size:16
Alignment explanation
Indices: 625210--625269 Score: 84
Period size: 16 Copynumber: 3.8 Consensus size: 16
625200 TCCAACGTTT
*
625210 ATGTTCGTTTATGTTT
1 ATGTTCGTTTATGTTC
* *
625226 GTGTTCATTTATGTTC
1 ATGTTCGTTTATGTTC
*
625242 GTGTTCGTTTATGTTC
1 ATGTTCGTTTATGTTC
625258 ATGTTCGTTTAT
1 ATGTTCGTTTAT
625270 TTATTAAATG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.12, C:0.10, G:0.20, T:0.58
Consensus pattern (16 bp):
ATGTTCGTTTATGTTC
Found at i:625251 original size:26 final size:26
Alignment explanation
Indices: 625207--625259 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
625197 GTCTCCAACG
* *
625207 TTTATGTTCGTTTATGTTTGTGTTCA
1 TTTATGTTCGTTTACGTTTATGTTCA
625233 TTTATGTTCGTGTT-CGTTTATGTTCA
1 TTTATGTTCGT-TTACGTTTATGTTCA
625259 T
1 T
625260 GTTCGTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 22 0.92
27 2 0.08
ACGTcount: A:0.11, C:0.09, G:0.19, T:0.60
Consensus pattern (26 bp):
TTTATGTTCGTTTACGTTTATGTTCA
Found at i:629852 original size:20 final size:20
Alignment explanation
Indices: 629829--629917 Score: 108
Period size: 20 Copynumber: 4.5 Consensus size: 20
629819 GCTTCCAGAT
*
629829 TCGCAACGCGATTTTGACTA
1 TCGCAACGCGATTCTGACTA
* * * *
629849 TCGCAATGCGAATATGTA-AA
1 TCGCAACGCGATTCTG-ACTA
629869 TCGCAACGCGATTCTGACTA
1 TCGCAACGCGATTCTGACTA
*
629889 TCGCAACGCGATTCTGACTG
1 TCGCAACGCGATTCTGACTA
629909 TCGCAACGC
1 TCGCAACGC
629918 TGAATTTCAA
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
19 1 0.02
20 56 0.97
21 1 0.02
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (20 bp):
TCGCAACGCGATTCTGACTA
Found at i:630760 original size:24 final size:24
Alignment explanation
Indices: 630733--630786 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
630723 GTATTCAAAA
630733 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
630757 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
630781 TTTGAT
1 TTTGAT
630787 GTTGTTTTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:633392 original size:140 final size:140
Alignment explanation
Indices: 633140--633422 Score: 530
Period size: 140 Copynumber: 2.0 Consensus size: 140
633130 GCAAACGTTG
* *
633140 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
1 TATTATGTATATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATATATTAGTAACTTGAGT
633205 TTGAACATTGCTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
66 TTGAACATTGCTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
633270 CGAATTTGAC
131 CGAATTTGAC
633280 TATTATGTATATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATATATTAGTAACTTGAGT
1 TATTATGTATATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATATATTAGTAACTTGAGT
* *
633345 TTGAACATTGCTATGATCTGTTTAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
66 TTGAACATTGCTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
633410 CGAATTTGAC
131 CGAATTTGAC
633420 TAT
1 TAT
633423 CGAAACGTGA
Statistics
Matches: 139, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
140 139 1.00
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.43
Consensus pattern (140 bp):
TATTATGTATATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATATATTAGTAACTTGAGT
TTGAACATTGCTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
CGAATTTGAC
Found at i:633418 original size:20 final size:20
Alignment explanation
Indices: 633393--633523 Score: 130
Period size: 20 Copynumber: 6.8 Consensus size: 20
633383 TTACACATTC
*
633393 ATTTGAATATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
633413 ATTTGACTATCGAAACGTGA
1 ATTTGACTATCGCAACGCGA
* *
633433 ATTTGACTAACGCAACTC-A
1 ATTTGACTATCGCAACGCGA
* *
633452 A----A-AATCGCAATGCGA
1 ATTTGACTATCGCAACGCGA
*
633467 ATTTGACTATCGCAACGTGA
1 ATTTGACTATCGCAACGCGA
* *
633487 ATTTGATTATCGCAACGGGA
1 ATTTGACTATCGCAACGCGA
633507 ATTTGACTATCGCAACG
1 ATTTGACTATCGCAACG
633524 AGAAAATCGC
Statistics
Matches: 88, Mismatches: 17, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
14 7 0.08
15 3 0.03
19 3 0.03
20 75 0.85
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:633514 original size:74 final size:74
Alignment explanation
Indices: 633393--633563 Score: 236
Period size: 74 Copynumber: 2.3 Consensus size: 74
633383 TTACACATTC
* * *
633393 ATTTGAATATCGCAACGCGAATTTGACTATCGAAACGTGAATTTGACTAACGCAACTCA-AAAAT
1 ATTTGACTATCGCAACGTGAATTTGACTATCGAAACGGGAATTTGACTAACGCAAC-CAGAAAAT
*
633457 CGCAATGCGA
65 CGCAAAGCGA
* * * *
633467 ATTTGACTATCGCAACGTGAATTTGATTATCGCAACGGGAATTTGACTATCGCAACGAGAAAATC
1 ATTTGACTATCGCAACGTGAATTTGACTATCGAAACGGGAATTTGACTAACGCAACCAGAAAATC
*
633532 GCAAAGCGT
66 GCAAAGCGA
*
633541 ATTAGACTATCGCAACGTGAATT
1 ATTTGACTATCGCAACGTGAATT
633564 GAATTTCACG
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
73 1 0.01
74 85 0.99
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (74 bp):
ATTTGACTATCGCAACGTGAATTTGACTATCGAAACGGGAATTTGACTAACGCAACCAGAAAATC
GCAAAGCGA
Found at i:633592 original size:20 final size:20
Alignment explanation
Indices: 633562--633625 Score: 83
Period size: 20 Copynumber: 3.2 Consensus size: 20
633552 GCAACGTGAA
* * *
633562 TTGAATTTCACGTTGCAATT
1 TTGACTTTCACATTGCGATT
*
633582 TTGGCTTTCACATTGCGATT
1 TTGACTTTCACATTGCGATT
*
633602 TTGACTTTCGCATTGCGATT
1 TTGACTTTCACATTGCGATT
633622 TTGA
1 TTGA
633626 GTTTAGCGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.19, C:0.17, G:0.19, T:0.45
Consensus pattern (20 bp):
TTGACTTTCACATTGCGATT
Found at i:633778 original size:14 final size:14
Alignment explanation
Indices: 633759--633795 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
633749 CATCAATTAA
633759 ACAAATCAACTTTT
1 ACAAATCAACTTTT
633773 ACAAATCAACTTTT
1 ACAAATCAACTTTT
633787 ACAAATCAA
1 ACAAATCAA
633796 TTAAACAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:635243 original size:42 final size:42
Alignment explanation
Indices: 635184--635306 Score: 142
Period size: 42 Copynumber: 2.9 Consensus size: 42
635174 ATGAATCGGT
* * *
635184 CTCTTGAATGGTGGGAGGGACCTCTTCAACGATGACAGGGGC
1 CTCTTGAACGGTGGGAGGGACCTCTTGAAAGATGACAGGGGC
** *
635226 CTCTTGAACGGTGGGAGGGGA-CTCTTGAGGGATGATAGGGGC
1 CTCTTGAACGGTGGGA-GGGACCTCTTGAAAGATGACAGGGGC
* *
635268 CTCTTGAACGATAGGAGAGG-CCTCTTGAAAGATGACAGG
1 CTCTTGAACGGTGGGAG-GGACCTCTTGAAAGATGACAGG
635307 TGAGTCGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 1 0.01
42 63 0.93
43 4 0.06
ACGTcount: A:0.24, C:0.18, G:0.37, T:0.21
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGGGACCTCTTGAAAGATGACAGGGGC
Found at i:635244 original size:21 final size:21
Alignment explanation
Indices: 635184--635296 Score: 93
Period size: 21 Copynumber: 5.4 Consensus size: 21
635174 ATGAATCGGT
* *
635184 CTCTTGAATGGTGGGAGGGAC
1 CTCTTGAACGGTGGGAGGGGC
* * **
635205 CTCTTCAACGATGACAGGGGC
1 CTCTTGAACGGTGGGAGGGGC
*
635226 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGC
* **
635247 CTCTTG-AGGGATGATAGGGGC
1 CTCTTGAACGG-TGGGAGGGGC
* * *
635268 CTCTTGAACGATAGGAGAGGC
1 CTCTTGAACGGTGGGAGGGGC
635289 CTCTTGAA
1 CTCTTGAA
635297 AGATGACAGG
Statistics
Matches: 69, Mismatches: 21, Indels: 4
0.73 0.22 0.04
Matches are distributed among these distances:
20 3 0.04
21 64 0.93
22 2 0.03
ACGTcount: A:0.22, C:0.19, G:0.37, T:0.22
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGC
Found at i:635812 original size:19 final size:20
Alignment explanation
Indices: 635781--635822 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
635771 ATAGTTTCTA
635781 AAACTTAAAATCGCAACACG
1 AAACTTAAAATCGCAACACG
*
635801 AAACTT-AAATCGCAACGCG
1 AAACTTAAAATCGCAACACG
635820 AAA
1 AAA
635823 ATGACTATCG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.50, C:0.24, G:0.12, T:0.14
Consensus pattern (20 bp):
AAACTTAAAATCGCAACACG
Found at i:635837 original size:20 final size:20
Alignment explanation
Indices: 635809--635855 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
635799 CGAAACTTAA
635809 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
635829 ATCGTAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
635849 ATCGCAA
1 ATCGCAA
635856 TGGGATAATC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.21
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:635886 original size:33 final size:34
Alignment explanation
Indices: 635849--635931 Score: 105
Period size: 33 Copynumber: 2.5 Consensus size: 34
635839 GAATTTGACT
*
635849 ATCGCAATGGGATAATCGCAATGCG-AAATAAAA
1 ATCGCAATGGGAAAATCGCAATGCGAAAATAAAA
* * * *
635882 ATCGCAACGTGAAAATCGTAATGCGAAAATGAAA
1 ATCGCAATGGGAAAATCGCAATGCGAAAATAAAA
*
635916 ATCGCAATGCGAAAAT
1 ATCGCAATGGGAAAAT
635932 GAAAATCGCA
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
33 21 0.50
34 21 0.50
ACGTcount: A:0.46, C:0.16, G:0.20, T:0.18
Consensus pattern (34 bp):
ATCGCAATGGGAAAATCGCAATGCGAAAATAAAA
Found at i:635914 original size:20 final size:20
Alignment explanation
Indices: 635891--635948 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
635881 AATCGCAACG
*
635891 TGAAAATCGTAATGCGAAAA
1 TGAAAATCGCAATGCGAAAA
635911 TGAAAATCGCAATGCGAAAA
1 TGAAAATCGCAATGCGAAAA
*
635931 TGAAAATCGCAACGCGAA
1 TGAAAATCGCAATGCGAA
635949 TTTAGTTTCG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.48, C:0.16, G:0.21, T:0.16
Consensus pattern (20 bp):
TGAAAATCGCAATGCGAAAA
Found at i:635922 original size:34 final size:33
Alignment explanation
Indices: 635862--635931 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 33
635852 GCAATGGGAT
*
635862 AATCGCAATGCGAAATAAAAATCGCAACGTGAA
1 AATCGCAATGCGAAATAAAAATCGCAACGCGAA
* * *
635895 AATCGTAATGCGAAAATGAAAATCGCAATGCGAA
1 AATCGCAATGCG-AAATAAAAATCGCAACGCGAA
635929 AAT
1 AAT
635932 GAAAATCGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 11 0.34
34 21 0.66
ACGTcount: A:0.49, C:0.16, G:0.19, T:0.17
Consensus pattern (33 bp):
AATCGCAATGCGAAATAAAAATCGCAACGCGAA
Found at i:635966 original size:19 final size:19
Alignment explanation
Indices: 635944--635983 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
635934 AAATCGCAAC
635944 GCGAATTTAGTTTCGCGTT
1 GCGAATTTAGTTTCGCGTT
* *
635963 GCGATTTTGGTTTCGCGTT
1 GCGAATTTAGTTTCGCGTT
635982 GC
1 GC
635984 CATTTTCTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.10, C:0.17, G:0.30, T:0.42
Consensus pattern (19 bp):
GCGAATTTAGTTTCGCGTT
Found at i:635988 original size:19 final size:19
Alignment explanation
Indices: 635953--635989 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
635943 CGCGAATTTA
*
635953 GTTTCGCGTTGCGATTTTG
1 GTTTCGCGTTGCCATTTTG
635972 GTTTCGCGTTGCCATTTT
1 GTTTCGCGTTGCCATTTT
635990 CTCGTTGCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.05, C:0.19, G:0.27, T:0.49
Consensus pattern (19 bp):
GTTTCGCGTTGCCATTTTG
Found at i:636037 original size:33 final size:33
Alignment explanation
Indices: 635959--636038 Score: 97
Period size: 33 Copynumber: 2.4 Consensus size: 33
635949 TTTAGTTTCG
** * * * *
635959 CGTTGCGATTTTGGTTTCGCGTTGCCATTTTCT
1 CGTTGCGATTTTTATGTCGCATTGCCATTATCC
*
635992 CGTTGCGATTTTTATGTCGCATTGCGATTATCC
1 CGTTGCGATTTTTATGTCGCATTGCCATTATCC
636025 CGTTGCGATTTTTA
1 CGTTGCGATTTTTA
636039 AGTTTCATGT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.11, C:0.20, G:0.23, T:0.46
Consensus pattern (33 bp):
CGTTGCGATTTTTATGTCGCATTGCCATTATCC
Found at i:637995 original size:20 final size:20
Alignment explanation
Indices: 637947--637995 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
637937 GAAACTTAAA
*
637947 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAAAATGACT
**
637967 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
637987 ATCGCAACG
1 ATCGCAACG
637996 AGATAATCAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:638704 original size:20 final size:19
Alignment explanation
Indices: 638681--638725 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
638671 GAAACTGATC
* *
638681 TGCGATACTGGAGATCGCGT
1 TGCGAT-CTAGAGATCGCAT
*
638701 TGCGATTTAGAGATCGCAT
1 TGCGATCTAGAGATCGCAT
638720 TGCGAT
1 TGCGAT
638726 TTTGTTGGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (19 bp):
TGCGATCTAGAGATCGCAT
Found at i:638715 original size:19 final size:19
Alignment explanation
Indices: 638691--638727 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
638681 TGCGATACTG
*
638691 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
638710 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
638728 TGTTGGTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:639514 original size:40 final size:40
Alignment explanation
Indices: 639438--639515 Score: 95
Period size: 40 Copynumber: 1.9 Consensus size: 40
639428 ATTAAAAGCG
* * * *
639438 AAGGTGCGGCCCTTACACCGCGTCTTAACCTACGTGGCAT
1 AAGGCGCGGCCCATACACCGCGCCTTAACCCACGTGGCAT
*
639478 AAGGCGCGGCCCATGCACCGCGCCTT-ACCCAGCGTGGC
1 AAGGCGCGGCCCATACACCGCGCCTTAACCCA-CGTGGC
639516 GCCACGTCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
39 4 0.12
40 28 0.88
ACGTcount: A:0.18, C:0.37, G:0.28, T:0.17
Consensus pattern (40 bp):
AAGGCGCGGCCCATACACCGCGCCTTAACCCACGTGGCAT
Found at i:639536 original size:51 final size:51
Alignment explanation
Indices: 639477--639581 Score: 133
Period size: 51 Copynumber: 2.1 Consensus size: 51
639467 CTACGTGGCA
639477 TAAGGCGCGGCCCATGCACCGCGCCTTA-CCCAGCGTGGCGCCAC-GTCAGCG
1 TAAGGCGCGGCCCATGCACCGCGCCTTACCCCA-CGTGGCGCCACAG-CAGCG
** ** *
639528 TAAGGCGCGGTGCATGGGCCGCGTCTTACCCCACGTGGCGCCACAGCAGCG
1 TAAGGCGCGGCCCATGCACCGCGCCTTACCCCACGTGGCGCCACAGCAGCG
639579 TAA
1 TAA
639582 AGCGTGATGC
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
51 42 0.89
52 5 0.11
ACGTcount: A:0.17, C:0.37, G:0.32, T:0.13
Consensus pattern (51 bp):
TAAGGCGCGGCCCATGCACCGCGCCTTACCCCACGTGGCGCCACAGCAGCG
Found at i:639593 original size:51 final size:51
Alignment explanation
Indices: 639495--639596 Score: 136
Period size: 51 Copynumber: 2.0 Consensus size: 51
639485 GGCCCATGCA
* *
639495 CCGCGCCTTACCCAGCGTGGCGCCACGTCAGCGTAAGGCGCGGTGCATGGG
1 CCGCGCCTTACCCAGCGTGGCGCCACGTCAGCGTAAAGCGCGATGCATGGG
* *
639546 CCGCGTCTTACCCCA-CGTGGCGCCACAG-CAGCGTAAAGCGTGATGCATGGG
1 CCGCGCCTTA-CCCAGCGTGGCGCCAC-GTCAGCGTAAAGCGCGATGCATGGG
639597 TCGCACATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
51 40 0.89
52 5 0.11
ACGTcount: A:0.17, C:0.34, G:0.34, T:0.15
Consensus pattern (51 bp):
CCGCGCCTTACCCAGCGTGGCGCCACGTCAGCGTAAAGCGCGATGCATGGG
Found at i:640633 original size:29 final size:29
Alignment explanation
Indices: 640587--640654 Score: 118
Period size: 29 Copynumber: 2.3 Consensus size: 29
640577 ATTCTACAAT
*
640587 GACCAAAGAGGTCGCCATGCACGCCCAAC
1 GACCAAGGAGGTCGCCATGCACGCCCAAC
*
640616 GACCAAGGAGGTCTCCATGCACGCCCAAC
1 GACCAAGGAGGTCGCCATGCACGCCCAAC
640645 GACCAAGGAG
1 GACCAAGGAG
640655 AGGGAGCTGC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.31, C:0.35, G:0.26, T:0.07
Consensus pattern (29 bp):
GACCAAGGAGGTCGCCATGCACGCCCAAC
Found at i:641477 original size:21 final size:22
Alignment explanation
Indices: 641452--641503 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 22
641442 AATTAGTTTG
* *
641452 TTAGTATAAATTATTTGTTAT-
1 TTAGTATAAATTATATATTATA
* *
641473 TTAGTTTAAGTTATATATTATA
1 TTAGTATAAATTATATATTATA
641495 TTA-TATAAA
1 TTAGTATAAA
641504 AAATTAGTTT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (22 bp):
TTAGTATAAATTATATATTATA
Found at i:642029 original size:22 final size:23
Alignment explanation
Indices: 641986--642029 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
641976 TATTGTGTTT
**
641986 AAAAATATTTAGTGTTGTTTTAA
1 AAAAATATTTAGTGTTAATTTAA
*
642009 AAAAATATTTTGT-TTAATTTA
1 AAAAATATTTAGTGTTAATTTA
642030 TATTGTATGT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (23 bp):
AAAAATATTTAGTGTTAATTTAA
Found at i:642197 original size:22 final size:23
Alignment explanation
Indices: 642154--642197 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
642144 TATTGTGTTT
**
642154 AAAAATATTTAGTGTTGTTTTAA
1 AAAAATATTTAGTGTTAATTTAA
*
642177 AAAAATATTTTGT-TTAATTTA
1 AAAAATATTTAGTGTTAATTTA
642198 TATTGTATGT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (23 bp):
AAAAATATTTAGTGTTAATTTAA
Found at i:642253 original size:168 final size:169
Alignment explanation
Indices: 641970--642316 Score: 669
Period size: 168 Copynumber: 2.1 Consensus size: 169
641960 TTTCTGTTTA
641970 AAAACATATTGTGTTTAAAAATATTTAGTGTTGTTTTAAAAAAATATTTTGTTTAATTTATATTG
1 AAAA-ATATTGTGTTTAAAAATATTTAGTGTTGTTTTAAAAAAATATTTTGTTTAATTTATATTG
642035 TATGTATAAATTAGTAAGGAGTAAAAATTAATTGAATGAAATAATCCGGCCAACGCATTATCACG
65 TATGTATAAATTAGTAAGGAGTAAAAATTAATTGAATGAAATAATCCGGCCAACGCATTATCACG
642100 ATATTTTGCCTAACAAATTTGTTTGATATTTTAAAAAAAT
130 ATATTTTGCCTAACAAATTTGTTTGATATTTTAAAAAAAT
642140 -AAAATATTGTGTTTAAAAATATTTAGTGTTGTTTTAAAAAAATATTTTGTTTAATTTATATTGT
1 AAAAATATTGTGTTTAAAAATATTTAGTGTTGTTTTAAAAAAATATTTTGTTTAATTTATATTGT
*
642204 ATGTGTAAATTAGTAAGGAGTAAAAATTAATTGAATGAAATAATCCGGCCAACGCATTATCACGA
66 ATGTATAAATTAGTAAGGAGTAAAAATTAATTGAATGAAATAATCCGGCCAACGCATTATCACGA
642269 TATTTTGCCTAACAAATTTGTTTGATATTTTAAAAAAAT
131 TATTTTGCCTAACAAATTTGTTTGATATTTTAAAAAAAT
642308 AAAAATATT
1 AAAAATATT
642317 ATCAAACTAA
Statistics
Matches: 175, Mismatches: 1, Indels: 3
0.98 0.01 0.02
Matches are distributed among these distances:
168 164 0.94
169 11 0.06
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.40
Consensus pattern (169 bp):
AAAAATATTGTGTTTAAAAATATTTAGTGTTGTTTTAAAAAAATATTTTGTTTAATTTATATTGT
ATGTATAAATTAGTAAGGAGTAAAAATTAATTGAATGAAATAATCCGGCCAACGCATTATCACGA
TATTTTGCCTAACAAATTTGTTTGATATTTTAAAAAAAT
Found at i:645126 original size:26 final size:26
Alignment explanation
Indices: 645081--645141 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
645071 ATATTTTATA
* *
645081 TTTTTAATTTAAATACATTTTTAA-TT
1 TTTTTAA-TTAAATAAATTTTCAAGTT
645107 TCTTTTAATTAAATAAATTTTCAAGTT
1 T-TTTTAATTAAATAAATTTTCAAGTT
645134 TTTTTAAT
1 TTTTTAAT
645142 AATTAATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 22 0.71
27 9 0.29
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (26 bp):
TTTTTAATTAAATAAATTTTCAAGTT
Found at i:646299 original size:85 final size:83
Alignment explanation
Indices: 646155--646356 Score: 251
Period size: 85 Copynumber: 2.4 Consensus size: 83
646145 TCTCAGCCTA
* * * * * *
646155 TTACAGCATAGCTCAAGGCGATAAGGGCTATATGTTAACAAACCTTCGAGTTTGATTACACTCAG
1 TTACAGCATAACTCAAGGCGAAAAGGGTTATCTATTAAAAAACCTTCGAGTTTGATTACACTCAG
646220 CTCAAGGGCACATCAAAT
66 CTCAAGGGCACATCAAAT
* * *
646238 TTACAGTATAACTCAAGGCGAGAAGGGTTATCTATTAATAAAAACCTTCGAGTTTGATTACATTC
1 TTACAGCATAACTCAAGGCGAAAAGGGTTATCTATT-A-AAAAACCTTCGAGTTTGATTACACTC
* * *
646303 AGCTTAATGGCATATCAAAT
64 AGCTCAAGGGCACATCAAAT
* *
646323 TTTCAGCATAACTCAAGGGCGAAAAGAGTTATCT
1 TTACAGCATAACTCAA-GGCGAAAAGGGTTATCT
646357 GTCAACAAGA
Statistics
Matches: 101, Mismatches: 15, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
83 30 0.30
84 1 0.01
85 55 0.54
86 15 0.15
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.28
Consensus pattern (83 bp):
TTACAGCATAACTCAAGGCGAAAAGGGTTATCTATTAAAAAACCTTCGAGTTTGATTACACTCAG
CTCAAGGGCACATCAAAT
Found at i:646391 original size:86 final size:85
Alignment explanation
Indices: 646155--646393 Score: 203
Period size: 85 Copynumber: 2.8 Consensus size: 85
646145 TCTCAGCCTA
* * * * * * * * * * *
646155 TTACAGCATAGCTCAAGGCGATAAGGGCTATATGTTAAC--AAACCTTCGAGTTTGATTACACTC
1 TTACAGCATAACTCAAGGCGAAAAGAGTTATCTATCAACAAAAACCTTCGAGATCGATCACATTC
646218 AGCTCAAGGGCACATCAAAT
66 AGCTCAAGGGCACATCAAAT
* * * * * * * *
646238 TTACAGTATAACTCAAGGCGAGAAGGGTTATCTATTAATAAAAACCTTCGAGTTTGATTACATTC
1 TTACAGCATAACTCAAGGCGAAAAGAGTTATCTATCAACAAAAACCTTCGAGATCGATCACATTC
* * *
646303 AGCTTAATGGCATATCAAAT
66 AGCTCAAGGGCACATCAAAT
* * * * **
646323 TTTCAGCATAACTCAAGGGCGAAAAGAGTTATCTGTCAACAAGAACTTTCGAGATCGATCATGTT
1 TTACAGCATAACTCAA-GGCGAAAAGAGTTATCTATCAACAAAAACCTTCGAGATCGATCACATT
646388 CAGCTC
65 CAGCTC
646394 GAGAGCGTAC
Statistics
Matches: 127, Mismatches: 26, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
83 32 0.25
85 54 0.43
86 41 0.32
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.28
Consensus pattern (85 bp):
TTACAGCATAACTCAAGGCGAAAAGAGTTATCTATCAACAAAAACCTTCGAGATCGATCACATTC
AGCTCAAGGGCACATCAAAT
Found at i:647085 original size:10 final size:12
Alignment explanation
Indices: 647051--647086 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
647041 TATATAACCC
647051 ATACTACTACAT
1 ATACTACTACAT
647063 ATACTACTACAT
1 ATACTACTACAT
647075 ATAC-A-TACAT
1 ATACTACTACAT
647085 AT
1 AT
647087 TAACTTGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 7 0.29
11 1 0.04
12 16 0.67
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (12 bp):
ATACTACTACAT
Found at i:648618 original size:27 final size:26
Alignment explanation
Indices: 648586--648645 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
648576 ATATTTTATA
* * *
648586 TTTTTAATTTAAATAATTTTTTAGTT
1 TTTTTAATTTAAATAAATTTTCAATT
648612 TCTTTTAA-TTAAATAAATTTTCAATT
1 T-TTTTAATTTAAATAAATTTTCAATT
648638 TTTTTAAT
1 TTTTTAAT
648646 AATTAATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 6 0.21
26 17 0.59
27 6 0.21
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (26 bp):
TTTTTAATTTAAATAAATTTTCAATT
Found at i:648627 original size:26 final size:25
Alignment explanation
Indices: 648586--648653 Score: 75
Period size: 26 Copynumber: 2.7 Consensus size: 25
648576 ATATTTTATA
* *
648586 TTTTTAATTTAAATAATTTTTTAGTT
1 TTTTTAA-TTAAATAATTTTTCAATT
*
648612 TCTTTTAATTAAATAAATTTTCAATT
1 T-TTTTAATTAAATAATTTTTCAATT
*
648638 TTTTTAA-TAATTAATT
1 TTTTTAATTAAATAATT
648654 AAGTCCATCA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 7 0.19
25 6 0.17
26 17 0.47
27 6 0.17
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.60
Consensus pattern (25 bp):
TTTTTAATTAAATAATTTTTCAATT
Found at i:651861 original size:21 final size:21
Alignment explanation
Indices: 651822--651862 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
651812 CAGTAAAAAT
* **
651822 TACCTAAAATATTTTTATTTA
1 TACCTAAAACATTAATATTTA
651843 TACCTAAAACATTAATATTT
1 TACCTAAAACATTAATATTT
651863 TTTAACAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.46
Consensus pattern (21 bp):
TACCTAAAACATTAATATTTA
Found at i:657747 original size:21 final size:21
Alignment explanation
Indices: 657721--657774 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
657711 TTATAAGGGT
* *
657721 AGTATCGATACTCAATGAATG
1 AGTATCGATACTCAAGGAAGG
* *
657742 AGTATCGATAC-CAGGGCAGG
1 AGTATCGATACTCAAGGAAGG
657762 AGTATCGATACTC
1 AGTATCGATACTC
657775 CCCATAGGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (21 bp):
AGTATCGATACTCAAGGAAGG
Found at i:660758 original size:91 final size:92
Alignment explanation
Indices: 660646--661166 Score: 623
Period size: 91 Copynumber: 5.7 Consensus size: 92
660636 ATCACCAAAT
**
660646 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTGTCAGATGAGTTCTTCTCATTATGAAC
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTGTTGGATGAGTTCTTCTCATTATGAAC
* *
660711 TCCCTGCTGGAAATATTGATG-CAAGG
66 TCCCTACTGGAAATATTGAGGCCAAGG
* * * *
660737 TTGAACAAGTTCTACTCATTATAAACTTATTCTCCCTCGTTGGATGAGTTCTTCTCATTATGAAC
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTGTTGGATGAGTTCTTCTCATTATGAAC
* **
660802 T-CTTCACTGGAAATGCTGA-GCCAAGG
66 TCCCT-ACTGGAAATATTGAGGCCAAGG
* * * *
660828 TTGAACAAGTTCTTCTCGTTATGAACTTCTTCTCCCTCGTTGAATGAGTTCTTCTCATTATCAAC
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTGTTGGATGAGTTCTTCTCATTATGAAC
* * * * *
660893 -CCTCAATTAGAAATATTGATG-CAAGA
66 TCC-CTACTGGAAATATTGAGGCCAAGG
* * * *
660919 TTGAACAAGTTCTTCTCATTATGAACTTATTCT-TCTTCATTGGATGAGTTTTTCTCATTATGAA
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTT-GTTGGATGAGTTCTTCTCATTATGAA
* *
660983 CTCTCC-ACTAGAAATGTTG-GGCCAAGG
65 CTC-CCTACTGGAAATATTGAGGCCAAGG
*
661010 TTGAACAAGTTCTTCTCATTATGAACTTCTT-T-CCTTCGTTGGATGGGTTCTTCTCATTATGAA
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTT-GTTGGATGAGTTCTTCTCATTATGAA
* **
661073 CTCTCTACTGGAAATATTG-GGCCAATA
65 CTCCCTACTGGAAATATTGAGGCCAAGG
* * *
661100 TTGAGCAAGTTCTTCTCATTATAAACTTCTTCTCCCTTGTTGGATGAGTTCTTCACATTATGAAC
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTGTTGGATGAGTTCTTCTCATTATGAAC
661165 TC
66 TC
661167 TTCATGTTAA
Statistics
Matches: 369, Mismatches: 49, Indels: 24
0.83 0.11 0.05
Matches are distributed among these distances:
89 1 0.00
90 83 0.22
91 277 0.75
92 7 0.02
93 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (92 bp):
TTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTGTTGGATGAGTTCTTCTCATTATGAAC
TCCCTACTGGAAATATTGAGGCCAAGG
Found at i:660964 original size:182 final size:182
Alignment explanation
Indices: 660646--661170 Score: 727
Period size: 182 Copynumber: 2.9 Consensus size: 182
660636 ATCACCAAAT
* *
660646 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTG-TCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGA-ATGAGTTCTTCTCATTATGAA
* * * *
660710 CTCC-CTGCTGGAAATATTGATGCAAGGTTGAACAAGTTCTACTCATTATAAACTTATTCTCCCT
65 C-CCTCTACTGGAAATATTGATGCAAGATTGAACAAGTTCTTCTCATTATAAACTTATTCTCCTT
*
660774 CGTTGGATGAGTTCTTCTCATTATGAACTCTTCACTGGAAATGCTGAGCCAAGG
129 CGTTGGATGAGTTCTTCTCATTATGAACTCTTCACTAGAAATGCTGAGCCAAGG
* *
660828 TTGAACAAGTTCTTCTCGTTATGAACTTCTTCTCCCTCGTTGAATGAGTTCTTCTCATTATCAAC
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGAATGAGTTCTTCTCATTATGAAC
* * * * * *
660893 CCTCAATTAGAAATATTGATGCAAGATTGAACAAGTTCTTCTCATTATGAACTTATTCTTCTTCA
66 CCTCTACTGGAAATATTGATGCAAGATTGAACAAGTTCTTCTCATTATAAACTTATTCTCCTTCG
* * * *
660958 TTGGATGAGTTTTTCTCATTATGAACTCTCCACTAGAAATGTTGGGCCAAGG
131 TTGGATGAGTTCTTCTCATTATGAACTCTTCACTAGAAATGCTGAGCCAAGG
* * *
661010 TTGAACAAGTTCTTCTCATTATGAACTTCTT-TCCTTCGTTGGATGGGTTCTTCTCATTATGAAC
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGAATGAGTTCTTCTCATTATGAAC
* * * * *
661074 TCTCTACTGGAAATATTG-GGCCAATATTGAGCAAGTTCTTCTCATTATAAACTTCTTCTCCCTT
66 CCTCTACTGGAAATATTGATG-CAAGATTGAACAAGTTCTTCTCATTATAAACTTATTCT-CCTT
*
661138 -GTTGGATGAGTTCTTCACATTATGAACTCTTCA
129 CGTTGGATGAGTTCTTCTCATTATGAACTCTTCA
661171 TGTTAATCCC
Statistics
Matches: 301, Mismatches: 38, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
180 1 0.00
181 108 0.36
182 190 0.63
183 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.38
Consensus pattern (182 bp):
TTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGAATGAGTTCTTCTCATTATGAAC
CCTCTACTGGAAATATTGATGCAAGATTGAACAAGTTCTTCTCATTATAAACTTATTCTCCTTCG
TTGGATGAGTTCTTCTCATTATGAACTCTTCACTAGAAATGCTGAGCCAAGG
Found at i:663429 original size:28 final size:28
Alignment explanation
Indices: 663397--663457 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
663387 GATAAAATGA
*
663397 TCAGGCTGACTTGGGAAGGTAATGTGTT
1 TCAGGCTAACTTGGGAAGGTAATGTGTT
* * *
663425 TCAGGTTAATTTGGGGAGGTAATGTGTT
1 TCAGGCTAACTTGGGAAGGTAATGTGTT
663453 TCAGG
1 TCAGG
663458 TTGGTTTCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.21, C:0.08, G:0.36, T:0.34
Consensus pattern (28 bp):
TCAGGCTAACTTGGGAAGGTAATGTGTT
Found at i:664416 original size:2 final size:2
Alignment explanation
Indices: 664409--664443 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
664399 ACAACAATGG
664409 AT 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 AT A
664444 AAAGGATAAA
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:671775 original size:37 final size:37
Alignment explanation
Indices: 671734--671805 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
671724 TCTCAAATTT
*
671734 TCTAAACTATCAATTAAACAATTATGTGACAACATCA
1 TCTAAAATATCAATTAAACAATTATGTGACAACATCA
*
671771 TCTAAAATATCAATTAAACAATTGTGTGACAACAT
1 TCTAAAATATCAATTAAACAATTATGTGACAACAT
671806 TATAGTACCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.31
Consensus pattern (37 bp):
TCTAAAATATCAATTAAACAATTATGTGACAACATCA
Found at i:674435 original size:43 final size:42
Alignment explanation
Indices: 674322--674517 Score: 204
Period size: 43 Copynumber: 4.6 Consensus size: 42
674312 AGGTGATATT
* * * *
674322 TAGCGGCGTTTTTGGAA-TAATGCTGCAAAAGGTCGATATCTA
1 TAGCGACGTTTTTGGAACAAACGCCGCAAAAGGTC-ATATCTA
*
674364 TA---ACGTATTTTGGAACAAACGCCACAAAAGGTCAATATCTA
1 TAGCGACGT-TTTTGGAACAAACGCCGCAAAAGGTC-ATATCTA
* * *
674405 TAGCGACGTTTTTGGAACAAACGCCGCAAAAAGTTAGATCTA
1 TAGCGACGTTTTTGGAACAAACGCCGCAAAAGGTCATATCTA
*
674447 TAGC-AGCGTTTTTGGATACAAACGCTGCAAAAGGTCATATCTA
1 TAGCGA-CGTTTTTGGA-ACAAACGCCGCAAAAGGTCATATCTA
* *
674490 TAGCGGCGTTTTTGGATACAAATGCCGC
1 TAGCGACGTTTTTGGA-ACAAACGCCGC
674518 TAATCACCTT
Statistics
Matches: 129, Mismatches: 17, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
39 3 0.02
40 8 0.06
41 23 0.18
42 22 0.17
43 69 0.53
44 4 0.03
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (42 bp):
TAGCGACGTTTTTGGAACAAACGCCGCAAAAGGTCATATCTA
Found at i:678081 original size:41 final size:41
Alignment explanation
Indices: 678017--678105 Score: 97
Period size: 41 Copynumber: 2.2 Consensus size: 41
678007 CATATTGCAT
* * * * *
678017 CGTTTGTATAAAAACGCCACTAAAGTATTATTCTGTTACGG
1 CGTTTGTATAAAAACACCACTAAAATACTATTATGTTACAG
* ** *
678058 CGTTTGTATAAAAATACTGCTAAAATACTATTATTTTACAG
1 CGTTTGTATAAAAACACCACTAAAATACTATTATGTTACAG
678099 CGTTTGT
1 CGTTTGT
678106 TGAATAGATG
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.38
Consensus pattern (41 bp):
CGTTTGTATAAAAACACCACTAAAATACTATTATGTTACAG
Found at i:678275 original size:81 final size:80
Alignment explanation
Indices: 678109--678281 Score: 192
Period size: 80 Copynumber: 2.1 Consensus size: 80
678099 CGTTTGTTGA
* * * *
678109 ATAGATGAACCCTATTATGGTATTTTTATACAAACGCCGCTAAAGTATTACTTTTCACGATGTGT
1 ATAGATGAA-CCTATTATGGCATTTGTATAAAAACGCCGCTAAAGTACTACTTTTCACGATGTGT
* *
678174 GTTGAGAAATGCCACT
65 GTTGAGAAACGCCAAT
* *
678190 ATAGATGAACCTATTGTGGCGTTTGTATAAAAACGCCGCTAAAGTACTACTCTGTTGCAGCG-T-
1 ATAGATGAACCTATTATGGCATTTGTATAAAAACGCCGCTAAAGTACTACT-T-TT-CA-CGATG
678253 T-TGTTGGAGAAACG-CAAT
62 TGTGTT-GAGAAACGCCAAT
678271 ATAGATGAACC
1 ATAGATGAACC
678282 CAATTAATAG
Statistics
Matches: 79, Mismatches: 8, Indels: 10
0.81 0.08 0.10
Matches are distributed among these distances:
80 36 0.46
81 28 0.35
82 10 0.13
83 3 0.04
84 2 0.03
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (80 bp):
ATAGATGAACCTATTATGGCATTTGTATAAAAACGCCGCTAAAGTACTACTTTTCACGATGTGTG
TTGAGAAACGCCAAT
Found at i:679197 original size:582 final size:583
Alignment explanation
Indices: 678292--679753 Score: 2013
Period size: 582 Copynumber: 2.5 Consensus size: 583
678282 CAATTAATAG
* * *
678292 TAATTGATTATTTCTGATTTTATTCAGATACTAATTAATAGTCTGAATATATTATTTCCAATTCG
1 TAATTGATTATTTCTGATTTTATT-AGATACTAATTAATAGCCCGAATATATTCTTTCCAATTCG
678357 TCTCCCTTGTGAAACACTATAAATAATGTGTCAACCTACTAGGTTACACACGGTTCAAAAACGTT
65 TCTCCCTTGTGAAACACTATAAATAATGTGT-AACCTACTAGGTTA-ACACGGTTCAAAAAC-TT
* **
678422 TTTCCTTCTCTCTTGTTTTTGGTGATATTCTCTAGCAAGATAAAGTTCGTGATCTAGCAAGTTGT
127 TTTCCTTCTCACTTGTTTTCAGTGATATTCTCTAGCAAGATAAAGTTCGTGATCTAGCAAGTTGT
** * * * *
678487 -CCTACTGTGCGCTGATCATATTGTTGTTGTATTGTGAGAGACATACGACAAAGACATCTCAT-T
192 ACC-ACTGTGCGCTGATCATATTGTTGTTGTATCCTGGGAGACAGACGACCAAGACATCTCGTGT
* * * ** * *
678550 CACCAAGGAGTGACCGAAAATCTATCTTAAAAAAATTATGTAGTTTTAAGCCTTTCGGGGTTGGG
256 -ACCAAGGAGTGGCCGAAAATATATCTTAAAAAAATTACGTAGTTGCAAGCATTTCGGAGTTGGG
* *
678615 GACGTACTCGCACGATGTG-GGAGACGCGAATGTCCGAACTGGTCAGGGCTTGTGGATATTTTAC
320 GACGTACTCGCACGATGTGAGCA-ACGCAAATGTCCGAACTGGTCAGGGCTTGTGGATATTTTAC
* * *
678679 CTACTATGAACTAAATATTTTCCTAAAGTGATGCTTATCTTTTTTAATATTCTGAATTAAAATAA
384 CCACTATGAACTAAATATTTTCCTAAAGTGATGATTATCTTTTTGAATATTCTGAATTAAAA-AA
* *
678744 ATATTATGTAATTTCCTTTTAATTTAAATATTAAATATGGTATGTCTTGCAATTCACGAATATAT
448 ATATTATGTAATTTCCTTTTAATTTAAACATTAAATATGGTATGACTTGCAATTCACGAATATAT
* * * *
678809 TCGAAATGATACGATGTTAATTGATTTTATTCGGATACTTATTAACAAATGAAAT-ATTTTAAGG
513 TCGAAATGATACGATGTTAATTGATTTTATTCGAATACTTATTAACAAACGAAATAAATATAAGG
678873 C-G-AT
578 CGGTAT
* * * *
678877 TAATTAATTATTT-TTATTTTATTAGGTACTAATTAATAGCCGGAATATATTCTTTCCAATTCGT
1 TAATTGATTATTTCTGATTTTATTAGATACTAATTAATAGCCCGAATATATTCTTTCCAATTCGT
678941 CTCCCTTGTGAAACACTATAAATAATGTGCTAACCT-CATAGGTTAAGCACGGTTCAAAAACTTT
66 CTCCCTTGTGAAACACTATAAATAATGTG-TAACCTAC-TAGGTTAA-CACGGTTCAAAAACTTT
* * * * * *
679005 TTCATTTTCGCTTGTTTTCAGTGATATTCGCTAGCAAGATAAAGTTCATGATCTAGCAAGCTGTA
128 TTCCTTCTCACTTGTTTTCAGTGATATTCTCTAGCAAGATAAAGTTCGTGATCTAGCAAGTTGTA
* ** * *
679070 CCACTGTGCGCTGATCATATTGTTATTGTATCCTGGGATTCAGGCGACCAAGACATATCGTGTAC
193 CCACTGTGCGCTGATCATATTGTTGTTGTATCCTGGGAGACAGACGACCAAGACATCTCGTGTAC
* * * ** * *
679135 TAAGGAGCGGCCGAAAATATGTCTTAAGGAAATTACGTAGTTGCAGGCATTTCGGAGTTGGGGGC
258 CAAGGAGTGGCCGAAAATATATCTTAAAAAAATTACGTAGTTGCAAGCATTTCGGAGTTGGGGAC
* * * *
679200 GTACTCGCACGATGTGAGCAACGCAAATGTTCGGACTGTTCGGGGCTTGTGGATATTTTACCCAC
323 GTACTCGCACGATGTGAGCAACGCAAATGTCCGAACTGGTCAGGGCTTGTGGATATTTTACCCAC
* *
679265 TATGAACTAAATATTTTCCTAAATTGATGATTATCTTTTTGAATATTCTGAATTAAAAAGATATT
388 TATGAACTAAATATTTTCCTAAAGTGATGATTATCTTTTTGAATATTCTGAATTAAAAAAATATT
* * * *
679330 ATGTGATTTTCTTTTAATTTAAACATTAATTATGGTATGACTTGCAATTCACGAATATATTCGAT
453 ATGTAATTTCCTTTTAATTTAAACATTAAATATGGTATGACTTGCAATTCACGAATATATTCGAA
* **
679395 ATGATACGGTGTTAATTGATTTTATTCGAATACTTATTAACATCCGAAATAAATATAAGGCGGTA
518 ATGATACGATGTTAATTGATTTTATTCGAATACTTATTAACAAACGAAATAAATATAAGGCGGTA
679460 T
583 T
* *
679461 TAATTGATTATTTCTGATTTTATTTCGATACTAATTAATATCCCGAATATATTCTTTCCAATTCG
1 TAATTGATTATTTCTGATTTTA-TTAGATACTAATTAATAGCCCGAATATATTCTTTCCAATTCG
* * * *
679526 TCTCTCTTGTGAAACACTATAAATAATGTGTTAACCTACTAGGTTAAATACGATTCAAAAACCCT
65 TCTCCCTTGTGAAACACTATAAATAATGTG-TAACCTACTAGGTT-AACACGGTTCAAAAA-CTT
* *
679591 TTTCCTTCTCACTTGCTTTCAGTGATATTCTCTAGCAAGATAAAGTTCGTGATCTCGCAAGTTGT
127 TTTCCTTCTCACTTGTTTTCAGTGATATTCTCTAGCAAGATAAAGTTCGTGATCTAGCAAGTTGT
* * * * *
679656 ACTATTGTGCGCTGATCATATTTTTGTTGTATCCTGGGAGACAGACAACCAAGACATCTCGTGCA
192 ACCACTGTGCGCTGATCATATTGTTGTTGTATCCTGGGAGACAGACGACCAAGACATCTCGTGTA
* *
679721 CCAAGGAGTGGCCGAAAATCTATCTTGAAAAAA
257 CCAAGGAGTGGCCGAAAATATATCTTAAAAAAA
679754 CTGCATAGTG
Statistics
Matches: 764, Mismatches: 99, Indels: 26
0.86 0.11 0.03
Matches are distributed among these distances:
581 110 0.14
582 280 0.37
583 98 0.13
584 24 0.03
585 19 0.02
586 90 0.12
587 143 0.19
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (583 bp):
TAATTGATTATTTCTGATTTTATTAGATACTAATTAATAGCCCGAATATATTCTTTCCAATTCGT
CTCCCTTGTGAAACACTATAAATAATGTGTAACCTACTAGGTTAACACGGTTCAAAAACTTTTTC
CTTCTCACTTGTTTTCAGTGATATTCTCTAGCAAGATAAAGTTCGTGATCTAGCAAGTTGTACCA
CTGTGCGCTGATCATATTGTTGTTGTATCCTGGGAGACAGACGACCAAGACATCTCGTGTACCAA
GGAGTGGCCGAAAATATATCTTAAAAAAATTACGTAGTTGCAAGCATTTCGGAGTTGGGGACGTA
CTCGCACGATGTGAGCAACGCAAATGTCCGAACTGGTCAGGGCTTGTGGATATTTTACCCACTAT
GAACTAAATATTTTCCTAAAGTGATGATTATCTTTTTGAATATTCTGAATTAAAAAAATATTATG
TAATTTCCTTTTAATTTAAACATTAAATATGGTATGACTTGCAATTCACGAATATATTCGAAATG
ATACGATGTTAATTGATTTTATTCGAATACTTATTAACAAACGAAATAAATATAAGGCGGTAT
Found at i:682499 original size:2 final size:2
Alignment explanation
Indices: 682494--682541 Score: 57
Period size: 2 Copynumber: 25.5 Consensus size: 2
682484 TATGGAAAAA
* *
682494 AT AT AT AA AT A- AT AC AT AT AT AT AT -T AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
682534 -T AT AT AT A
1 AT AT AT AT A
682542 AATTATAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
1 3 0.08
2 36 0.92
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:682531 original size:15 final size:15
Alignment explanation
Indices: 682494--682541 Score: 69
Period size: 15 Copynumber: 3.2 Consensus size: 15
682484 TATGGAAAAA
* * *
682494 ATATATAAATAATAC
1 ATATATATATTATAT
682509 ATATATATATTATAT
1 ATATATATATTATAT
682524 ATATATATATTATAT
1 ATATATATATTATAT
682539 ATA
1 ATA
682542 AATTATAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (15 bp):
ATATATATATTATAT
Found at i:682546 original size:11 final size:11
Alignment explanation
Indices: 682494--682548 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
682484 TATGGAAAAA
* *
682494 ATATATAAATA
1 ATATATATATT
*
682505 ATACATATA-T
1 ATATATATATT
682515 ATAT-TATA-T
1 ATATATATATT
682524 ATATATATATT
1 ATATATATATT
*
682535 ATATATAAATT
1 ATATATATATT
682546 ATA
1 ATA
682549 AAAACCATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
9 9 0.24
10 7 0.19
11 21 0.57
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (11 bp):
ATATATATATT
Found at i:683383 original size:20 final size:21
Alignment explanation
Indices: 683358--683409 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
683348 TTTTCCTAAT
*
683358 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
683378 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
683399 TCGCAATGCGA
1 TCGCAATGCGA
683410 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:683472 original size:60 final size:60
Alignment explanation
Indices: 683395--683524 Score: 170
Period size: 60 Copynumber: 2.2 Consensus size: 60
683385 GCGAATTGGG
* * * * *
683395 AAAATCGCAATGCGATACTGACTATCACAATGCGATACTTACTATCGCAATGCGATATAC
1 AAAATCGCAACGAGATACTGACTATCACAACGCGATACTGACTATCGCAACGCGATATAC
* * * *
683455 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGATATAC
1 AAAATCGCAACGAGATACTGACTATCACAACGCGATACTGACTATCGCAACGCGATATAC
*
683515 ATAATCGCAA
1 AAAATCGCAA
683525 TGCGATTTTC
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (60 bp):
AAAATCGCAACGAGATACTGACTATCACAACGCGATACTGACTATCGCAACGCGATATAC
Found at i:683482 original size:20 final size:20
Alignment explanation
Indices: 683399--683511 Score: 95
Period size: 20 Copynumber: 5.7 Consensus size: 20
683389 ATTGGGAAAA
* *
683399 TCGCAATGCGATACTGACTA
1 TCGCAACGCGATACTGACTT
* * * *
683419 TCACAATGCGATACTTACTA
1 TCGCAACGCGATACTGACTT
* **
683439 TCGCAATGCGATA-T-ACAAAA
1 TCGCAACGCGATACTGAC--TT
*
683459 TCGCAACGAGATACTGACTT
1 TCGCAACGCGATACTGACTT
*
683479 TCGCAACGCGATTCTGACTT
1 TCGCAACGCGATACTGACTT
683499 TCGCAACGCGATA
1 TCGCAACGCGATA
683512 TACATAATCG
Statistics
Matches: 78, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
18 2 0.03
19 1 0.01
20 72 0.92
21 1 0.01
22 2 0.03
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.25
Consensus pattern (20 bp):
TCGCAACGCGATACTGACTT
Found at i:683522 original size:20 final size:19
Alignment explanation
Indices: 683398--683530 Score: 81
Period size: 20 Copynumber: 6.7 Consensus size: 19
683388 AATTGGGAAA
*
683398 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATA-TGACT
* * *
683418 ATCACAATGCGATACTTACT
1 ATCGCAACGCGATA-TGACT
* *
683438 ATCGCAATGCGATAT-ACAAA
1 ATCGCAACGCGATATGAC--T
*
683458 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATA-TGACT
* *
683478 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGA-TATGACT
*
683498 TTCGCAACGCGATAT-ACAT
1 ATCGCAACGCGATATGAC-T
*
683517 AATCGCAATGCGAT
1 -ATCGCAACGCGAT
683531 TTTCAAAGCG
Statistics
Matches: 93, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
18 4 0.04
19 4 0.04
20 81 0.87
21 2 0.02
22 2 0.02
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (19 bp):
ATCGCAACGCGATATGACT
Found at i:683741 original size:20 final size:20
Alignment explanation
Indices: 683694--683732 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
683684 CACTCTCTCA
*
683694 CCCATCT-CGACGAAATCCG
1 CCCATCTCCGGCGAAATCCG
683713 CCCATCTCCGGCGAAATCCG
1 CCCATCTCCGGCGAAATCCG
683733 TCTATCTCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.23, C:0.44, G:0.18, T:0.15
Consensus pattern (20 bp):
CCCATCTCCGGCGAAATCCG
Found at i:684179 original size:105 final size:105
Alignment explanation
Indices: 684044--685057 Score: 1869
Period size: 105 Copynumber: 9.7 Consensus size: 105
684034 GAACTTTAAT
* *
684044 CCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTTTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
684109 GGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTC
66 GGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTC
684149 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
* *
684214 GGCTCTGAATTTGAGAAATATTTGTTGACAACCAGCGGTC
66 GGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTC
684254 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGTGAAGTTGAAA
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG-T-TGTGAAGTTGAAA
*
684319 TTGGCTCTGAAATTGAGAGATGTTTGTTGACAACCAGCGGTC
64 TTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTC
684361 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
684426 GGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTC
66 GGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTC
*
684466 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAG-TGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
684530 GGCTCTGAAATTG-GAAATTGTTTGTTGACAACCAGCGGTC
66 GGCTCTGAAATTGAGAAA-TGTTTGTTGACAACCAGCGGTC
684570 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
*
684635 GGCTCTGAATTTGAG-AATGTTTGTTGACAACCAGCGGTC
66 GGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTC
684674 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
*
684739 GGCTCTGAAATTGAGAGATGTTTGTTGACAACCAGCGGTC
66 GGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTC
684779 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG-T-T-AAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
*
684841 GGCTCTGAAATTGAGAGATGTTTGTTGACAACCAGCGGTC
66 GGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTC
684881 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
*
684946 GGCTCTGAAATTGAGAAATATTTGTTGACAACCAGCGGTC
66 GGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTC
684986 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
685051 GGCTCTG
66 GGCTCTG
685058 GGTAAAACCT
Statistics
Matches: 885, Mismatches: 15, Indels: 18
0.96 0.02 0.02
Matches are distributed among these distances:
102 100 0.11
103 6 0.01
104 201 0.23
105 474 0.54
106 3 0.00
107 101 0.11
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (105 bp):
CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
GGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTC
Found at i:685031 original size:520 final size:525
Alignment explanation
Indices: 684044--685057 Score: 1903
Period size: 520 Copynumber: 1.9 Consensus size: 525
684034 GAACTTTAAT
*
684044 CCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTTTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
684109 GGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
66 GGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
*
684174 TTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATATTTGT
131 TTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATATTTGT
684239 TGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGT
196 TGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTC--
684304 TGTGTGAAGTTGAAATTGGCTCTGAAATTGAGAGATGTTTGTTGACAACCAGCGGTCCCTTCGTC
259 TGTGTGAAGTTGAAATTGGCTCTGAAATTGAGAGATGTTTGTTGACAACCAGCGGTCCCTTCGTC
684369 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
324 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
*
684434 AATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
389 AATTGAGAAATATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
684499 AGTCCAATATCCTTCGCTGTGAAG-TGAAATTGGCTCTGAAATTGGAAATTGTTTGTTGACAACC
454 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGAAATTGTTTGTTGACAACC
684563 AGCGGTC
519 AGCGGTC
*
684570 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
*
684635 GGCTCTGAATTTGAG-AATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
66 GGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
* *
684699 TTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAGATGTTTGT
131 TTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATATTTGT
684764 TGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTC-G
196 TGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCTG
684828 T-T-AAGTTGAAATTGGCTCTGAAATTGAGAGATGTTTGTTGACAACCAGCGGTCCCTTCGTCGT
261 TGTGAAGTTGAAATTGGCTCTGAAATTGAGAGATGTTTGTTGACAACCAGCGGTCCCTTCGTCGT
684891 GAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAA
326 GAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAA
684956 TTGAGAAATATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
391 TTGAGAAATATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
*
685021 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
456 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTG
685058 GGTAAAACCT
Statistics
Matches: 479, Mismatches: 8, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
520 211 0.44
521 15 0.03
522 2 0.00
525 174 0.36
526 77 0.16
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (525 bp):
CCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
GGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
TTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATATTTGT
TGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCTG
TGTGAAGTTGAAATTGGCTCTGAAATTGAGAGATGTTTGTTGACAACCAGCGGTCCCTTCGTCGT
GAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAA
TTGAGAAATATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGAAATTGTTTGTTGACAACCAG
CGGTC
Found at i:697027 original size:20 final size:20
Alignment explanation
Indices: 697002--697040 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
696992 GCCACCACGT
*
697002 CGGCCGCCGCTGATCGGCGC
1 CGGCCGCCGCTCATCGGCGC
*
697022 CGGCCGCCGTTCATCGGCG
1 CGGCCGCCGCTCATCGGCG
697041 ACGAACCTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.05, C:0.44, G:0.38, T:0.13
Consensus pattern (20 bp):
CGGCCGCCGCTCATCGGCGC
Found at i:698712 original size:16 final size:16
Alignment explanation
Indices: 698691--698729 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
698681 GAATGATGTT
698691 ACGTGTCACTAGTATC
1 ACGTGTCACTAGTATC
698707 ACGTGTCACTAGTATC
1 ACGTGTCACTAGTATC
698723 ACGTGTC
1 ACGTGTC
698730 TTGTCATATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.31
Consensus pattern (16 bp):
ACGTGTCACTAGTATC
Found at i:701069 original size:2 final size:2
Alignment explanation
Indices: 701025--701061 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
701015 TATGGAAAAA
*
701025 AT AT AT AA AT A- 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
701062 TGTATATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:701679 original size:15 final size:17
Alignment explanation
Indices: 701653--701699 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
701643 ATTTTTTAAG
701653 ATAAACATAAAT-TTTTT
1 ATAAA-ATAAATATTTTT
701670 -TAAAATAAATACTTTTT
1 ATAAAATAAATA-TTTTT
701687 AATAAAATAAATA
1 -ATAAAATAAATA
701700 ATTAATAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 6 0.23
16 4 0.15
17 5 0.19
19 11 0.42
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.40
Consensus pattern (17 bp):
ATAAAATAAATATTTTT
Found at i:702377 original size:18 final size:18
Alignment explanation
Indices: 702356--702391 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
702346 TAAAACAAGT
* *
702356 GAAAATGTATAAAATAAA
1 GAAAATGAAGAAAATAAA
702374 GAAAATGAAGAAAATAAA
1 GAAAATGAAGAAAATAAA
702392 ATAAAATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.17
Consensus pattern (18 bp):
GAAAATGAAGAAAATAAA
Found at i:702394 original size:23 final size:23
Alignment explanation
Indices: 702364--702424 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
702354 GTGAAAATGT
702364 ATAAAATAAAGA-AAATGAAGA-AA
1 ATAAAATAAA-ATAAAT-AAGATAA
702387 ATAAAATAAAATAAATAAGATAA
1 ATAAAATAAAATAAATAAGATAA
* *
702410 ATAAAGTACAATAAA
1 ATAAAATAAAATAAA
702425 GAAAAGAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 5 0.15
23 29 0.85
ACGTcount: A:0.72, C:0.02, G:0.08, T:0.18
Consensus pattern (23 bp):
ATAAAATAAAATAAATAAGATAA
Found at i:702402 original size:14 final size:14
Alignment explanation
Indices: 702364--702424 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
702354 GTGAAAATGT
*
702364 ATAAAATAAAGAAA
1 ATAAAATAAATAAA
*
702378 ATGAAGA-AAATAAA
1 AT-AAAATAAATAAA
*
702392 ATAAAATAAATAAG
1 ATAAAATAAATAAA
*
702406 AT-AAATAAAGTACA
1 ATAAAATAAA-TAAA
702420 ATAAA
1 ATAAA
702425 GAAAAGAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
13 10 0.27
14 22 0.59
15 5 0.14
ACGTcount: A:0.72, C:0.02, G:0.08, T:0.18
Consensus pattern (14 bp):
ATAAAATAAATAAA
Found at i:702558 original size:14 final size:15
Alignment explanation
Indices: 702522--702558 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
702512 AAAATAATGC
*
702522 AAGATAAAAATAAAT
1 AAGATAAAAAGAAAT
702537 AA-ATAAAAAGAAAT
1 AAGATAAAAAGAAAT
702551 AAGA-AAAA
1 AAGATAAAA
702559 CAAACGTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 17 0.85
15 3 0.15
ACGTcount: A:0.78, C:0.00, G:0.08, T:0.14
Consensus pattern (15 bp):
AAGATAAAAAGAAAT
Found at i:702646 original size:16 final size:14
Alignment explanation
Indices: 702605--702657 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 14
702595 TAAGGAAAAG
*
702605 AAAAGAAAA-TAAA
1 AAAATAAAAGTAAA
*
702618 TAAATAAAAGTAAA
1 AAAATAAAAGTAAA
702632 ACAAATAATAAGTAAA
1 A-AAATAA-AAGTAAA
702648 AAAATGAAAA
1 AAAAT-AAAA
702658 TAATAATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 7 0.21
14 4 0.12
15 12 0.36
16 10 0.30
ACGTcount: A:0.75, C:0.02, G:0.08, T:0.15
Consensus pattern (14 bp):
AAAATAAAAGTAAA
Found at i:704467 original size:30 final size:30
Alignment explanation
Indices: 704431--704511 Score: 98
Period size: 30 Copynumber: 2.8 Consensus size: 30
704421 AGATGAAATT
704431 TGTTTCAAGAGAAA-TAATCTCAAAGGTTGG
1 TGTTTCAAGAGAAACT-ATCTCAAAGGTTGG
*
704461 TGTTTCAAGAGAAACTGTCTCAAAGG-T--
1 TGTTTCAAGAGAAACTATCTCAAAGGTTGG
* *
704488 TGTTTCAAGGGGAACTATCTCAAA
1 TGTTTCAAGAGAAACTATCTCAAA
704512 AATTCATTTC
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
27 21 0.46
29 1 0.02
30 23 0.50
31 1 0.02
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.30
Consensus pattern (30 bp):
TGTTTCAAGAGAAACTATCTCAAAGGTTGG
Done.