Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008152.1 Hibiscus syriacus cultivar Beakdansim tig00110718_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: 877984
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 2 of 5
Found at i:209095 original size:20 final size:20
Alignment explanation
Indices: 209037--209106 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
209027 GAAACTTTAA
* **
209037 ATCGCAACACGAAAATGAAA
1 ATCGCAACGCGAAAATGACT
*
209057 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAAAATGACT
**
209077 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
*
209097 ATCACAACGC
1 ATCGCAACGC
209107 AAGAATCGCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.43, C:0.26, G:0.16, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:209175 original size:20 final size:20
Alignment explanation
Indices: 209150--209196 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
209140 GATTCTCTCG
209150 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
** *
209170 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCA
209190 TTGCGAT
1 TTGCGAT
209197 TCACTCGTTG
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:0.21, C:0.19, G:0.23, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCA
Found at i:209589 original size:22 final size:22
Alignment explanation
Indices: 209528--209589 Score: 62
Period size: 18 Copynumber: 3.0 Consensus size: 22
209518 TGACCGTGAA
* *
209528 TGATTTCGCCGGAGATGGAGAC
1 TGATTTCGTCGGAGATGGGGAC
209550 TG-TTATCGTC---G-TGGGGAC
1 TGATT-TCGTCGGAGATGGGGAC
209568 TGATTTCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
209590 GGATGTCGCC
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
18 13 0.41
19 3 0.09
21 3 0.09
22 13 0.41
ACGTcount: A:0.18, C:0.16, G:0.39, T:0.27
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGGGAC
Found at i:209792 original size:20 final size:20
Alignment explanation
Indices: 209767--209838 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
209757 GCTATGTAAA
209767 TCGCATTGCGATAGTCAG-AT
1 TCGCATTGCGAT-GTCAGTAT
* *
209787 TCGCATTGCGATTTCCGTAT
1 TCGCATTGCGATGTCAGTAT
* *
209807 TCGCATTGCGAT-TTACGTAA
1 TCGCATTGCGATGTCA-GTAT
209827 TCGCATTGCGAT
1 TCGCATTGCGAT
209839 TTAGGAAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
19 4 0.09
20 41 0.91
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (20 bp):
TCGCATTGCGATGTCAGTAT
Found at i:209839 original size:20 final size:20
Alignment explanation
Indices: 209787--209841 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
209777 ATAGTCAGAT
* *
209787 TCGCATTGCGATTTCCGTAT
1 TCGCATTGCGATTTACGTAA
209807 TCGCATTGCGATTTACGTAA
1 TCGCATTGCGATTTACGTAA
209827 TCGCATTGCGATTTA
1 TCGCATTGCGATTTA
209842 GGAAAATCGC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATTTACGTAA
Found at i:209851 original size:21 final size:21
Alignment explanation
Indices: 209807--209880 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 21
209797 ATTTCCGTAT
* * *
209807 TCGCATTGCGATTTACG-TAA
1 TCGCAATGCGATTTAGGAAAA
*
209827 TCGCATTGCGATTTAGGAAAA
1 TCGCAATGCGATTTAGGAAAA
*
209848 TCGCAACGCGAATTT-GGAAAA
1 TCGCAATGCG-ATTTAGGAAAA
209869 TCGCAATGCGAT
1 TCGCAATGCGAT
209881 AGTCAGAATC
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
20 18 0.38
21 25 0.53
22 4 0.09
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (21 bp):
TCGCAATGCGATTTAGGAAAA
Found at i:210099 original size:22 final size:22
Alignment explanation
Indices: 210074--210116 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
210064 TAAAAAAATC
210074 AATATAGATAACATCCATACGA
1 AATATAGATAACATCCATACGA
*
210096 AATATAGATAACATCCGTACG
1 AATATAGATAACATCCATACG
210117 GAATTACGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.23
Consensus pattern (22 bp):
AATATAGATAACATCCATACGA
Found at i:216401 original size:23 final size:22
Alignment explanation
Indices: 216353--216403 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
216343 GTGATGATAT
* *
216353 TTTTCAAATTTTGAATAAAATTA
1 TTTT-AAATTTTAAATAAAATAA
*
216376 TTTTAAATATTTAAATAAACTAA
1 TTTTAAAT-TTTAAATAAAATAA
216399 TTTTA
1 TTTTA
216404 TTGAATATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 4 0.17
23 20 0.83
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (22 bp):
TTTTAAATTTTAAATAAAATAA
Found at i:220389 original size:24 final size:24
Alignment explanation
Indices: 220359--220431 Score: 85
Period size: 24 Copynumber: 3.0 Consensus size: 24
220349 ATATATTACC
220359 TGAATTCTTTTCTGATTTCTGATA
1 TGAATTCTTTTCTGATTTCTGATA
* * * * *
220383 TGGATTCTGTTCTGATATCTAATC
1 TGAATTCTTTTCTGATTTCTGATA
220407 TGAATTCTGTTT-TGATTTCTGATA
1 TGAATTCT-TTTCTGATTTCTGATA
220431 T
1 T
220432 CTCCGTTTAC
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
24 36 0.95
25 2 0.05
ACGTcount: A:0.21, C:0.12, G:0.15, T:0.52
Consensus pattern (24 bp):
TGAATTCTTTTCTGATTTCTGATA
Found at i:220396 original size:48 final size:49
Alignment explanation
Indices: 220321--220431 Score: 138
Period size: 48 Copynumber: 2.3 Consensus size: 49
220311 AAATATTTTA
* *
220321 TCTGATTTCTGACT-TTAATTCTATTCTGATATATTACCTGAATTCT-TT
1 TCTGATTTCTGA-TATGAATTCTATTCTGATATATAACCTGAATTCTGTT
* * * *
220369 TCTGATTTCTGATATGGATTCTGTTCTGATATCTAATCTGAATTCTGTT
1 TCTGATTTCTGATATGAATTCTATTCTGATATATAACCTGAATTCTGTT
220418 T-TGATTTCTGATAT
1 TCTGATTTCTGATAT
220432 CTCCGTTTAC
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 1 0.02
48 51 0.93
49 3 0.05
ACGTcount: A:0.22, C:0.14, G:0.13, T:0.51
Consensus pattern (49 bp):
TCTGATTTCTGATATGAATTCTATTCTGATATATAACCTGAATTCTGTT
Found at i:220598 original size:2 final size:2
Alignment explanation
Indices: 220591--220619 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
220581 CGGATAGGGG
220591 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
220620 GTTTTTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:221784 original size:24 final size:24
Alignment explanation
Indices: 221749--221803 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
221739 CTTTACATGG
221749 GCCATGCGTGGCATGGAATAGGTC
1 GCCATGCGTGGCATGGAATAGGTC
* *
221773 GCTATGCGTGGCATGGGATAGGTC
1 GCCATGCGTGGCATGGAATAGGTC
221797 GCCATGC
1 GCCATGC
221804 ATGCCTATGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.18, C:0.22, G:0.38, T:0.22
Consensus pattern (24 bp):
GCCATGCGTGGCATGGAATAGGTC
Found at i:222166 original size:39 final size:38
Alignment explanation
Indices: 222123--222207 Score: 125
Period size: 39 Copynumber: 2.2 Consensus size: 38
222113 TTAGTTTATG
222123 GTTTAAGGTAAAACAAAATTTTAGTTAATTAGTTAGTTA
1 GTTTAAGGT-AAACAAAATTTTAGTTAATTAGTTAGTTA
** *
222162 GTTTAAGGGTTTACAAAATTTTAGTTAATTAGTTTGTTA
1 GTTTAA-GGTAAACAAAATTTTAGTTAATTAGTTAGTTA
222201 GTTTAAG
1 GTTTAAG
222208 TTATATCATA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
38 1 0.02
39 38 0.90
40 3 0.07
ACGTcount: A:0.35, C:0.02, G:0.18, T:0.45
Consensus pattern (38 bp):
GTTTAAGGTAAACAAAATTTTAGTTAATTAGTTAGTTA
Found at i:233316 original size:27 final size:28
Alignment explanation
Indices: 233265--233321 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
233255 AACACTCATC
*
233265 AATTAGTGTGTTAGTTAGTCTAATATTT
1 AATTAGTGTGTTAGTTAGTCTAATAGTT
*
233293 AATTAGTTTG-TAGTTAGT-TAAATAGTT
1 AATTAGTGTGTTAGTTAGTCT-AATAGTT
233320 AA
1 AA
233322 GTTATATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 1 0.04
27 16 0.62
28 9 0.35
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (28 bp):
AATTAGTGTGTTAGTTAGTCTAATAGTT
Found at i:233474 original size:18 final size:18
Alignment explanation
Indices: 233451--233505 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
233441 AATAATTATT
233451 TAAATTAGTTTATTGTTA
1 TAAATTAGTTTATTGTTA
233469 TAAATTA--TTA--G-T-
1 TAAATTAGTTTATTGTTA
*
233481 T-AATTAGTTTATTATTA
1 TAAATTAGTTTATTGTTA
233498 TAAATTAG
1 TAAATTAG
233506 GGTAAAACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 14
0.66 0.02 0.32
Matches are distributed among these distances:
11 5 0.17
12 1 0.03
13 4 0.14
14 1 0.03
16 4 0.14
17 1 0.03
18 13 0.45
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (18 bp):
TAAATTAGTTTATTGTTA
Found at i:233559 original size:21 final size:21
Alignment explanation
Indices: 233533--233572 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
233523 GATAATGAGT
233533 TTGTTAGTTTAAATTATATTA
1 TTGTTAGTTTAAATTATATTA
*
233554 TTGTTAGTTTAAGTTATAT
1 TTGTTAGTTTAAATTATAT
233573 CATATAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.57
Consensus pattern (21 bp):
TTGTTAGTTTAAATTATATTA
Found at i:233802 original size:29 final size:29
Alignment explanation
Indices: 233756--233846 Score: 112
Period size: 30 Copynumber: 3.1 Consensus size: 29
233746 GTTAATTAGT
* * *
233756 TTTTTAGTAGTAAATTATAATTAAA-AATCG
1 TTTTTAGT-TTAAGTTAT-ATTAAAGAATAG
233786 TTTTTAGTTTAAGTTATATTAAAGAATAG
1 TTTTTAGTTTAAGTTATATTAAAGAATAG
*
233815 TTTATTAGTTAAAGTTATATTAAAGAATAG
1 TTT-TTAGTTTAAGTTATATTAAAGAATAG
233845 TT
1 TT
233847 AAAGTTATAT
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
28 6 0.11
29 14 0.25
30 35 0.64
ACGTcount: A:0.41, C:0.01, G:0.12, T:0.46
Consensus pattern (29 bp):
TTTTTAGTTTAAGTTATATTAAAGAATAG
Found at i:233818 original size:22 final size:22
Alignment explanation
Indices: 233790--233870 Score: 81
Period size: 22 Copynumber: 3.3 Consensus size: 22
233780 AAATCGTTTT
233790 TAGTTTAAGTTATATTAAAGAA
1 TAGTTTAAGTTATATTAAAGAA
233812 TAGTTTATTAGTTAAAGTTATATTAAAGAA
1 TAG-----T--TTA-AGTTATATTAAAGAA
*
233842 TAGTTAAAGTTATATTAAAGAA
1 TAGTTTAAGTTATATTAAAGAA
233864 TAGTTTA
1 TAGTTTA
233871 CGTTTAACTT
Statistics
Matches: 49, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
22 24 0.49
23 2 0.04
25 1 0.02
27 1 0.02
29 3 0.06
30 18 0.37
ACGTcount: A:0.44, C:0.00, G:0.14, T:0.42
Consensus pattern (22 bp):
TAGTTTAAGTTATATTAAAGAA
Found at i:233839 original size:11 final size:11
Alignment explanation
Indices: 233823--233861 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
233813 AGTTTATTAG
233823 TTAAAGTTATA
1 TTAAAGTTATA
*
233834 TTAAAG-AATA
1 TTAAAGTTATA
233844 GTTAAAGTTATA
1 -TTAAAGTTATA
233856 TTAAAG
1 TTAAAG
233862 AATAGTTTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
10 3 0.12
11 18 0.75
12 3 0.12
ACGTcount: A:0.49, C:0.00, G:0.13, T:0.38
Consensus pattern (11 bp):
TTAAAGTTATA
Found at i:234616 original size:41 final size:48
Alignment explanation
Indices: 234571--234680 Score: 128
Period size: 50 Copynumber: 2.4 Consensus size: 48
234561 GTTTAAAGAT
*
234571 ACTAACAAA-TAAAT-TAATTTTTT-T-T-ATAT-TTA-ATAACTTAA
1 ACTAACAAACTAAATATAATTTTTTATATAATATAATATATAACTTAA
*
234612 ACTAAGAAACTAAATAACTAATTTTTTATATAATATAATATATAACTTAA
1 ACTAACAAACTAAAT-A-TAATTTTTTATATAATATAATATATAACTTAA
234662 ACTAACAAACT-AATATAAT
1 ACTAACAAACTAAATATAAT
234681 ATAACTTAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
41 8 0.14
42 5 0.09
45 9 0.16
46 1 0.02
47 5 0.09
48 5 0.09
49 5 0.09
50 19 0.33
ACGTcount: A:0.51, C:0.09, G:0.01, T:0.39
Consensus pattern (48 bp):
ACTAACAAACTAAATATAATTTTTTATATAATATAATATATAACTTAA
Found at i:234682 original size:28 final size:30
Alignment explanation
Indices: 234642--234704 Score: 112
Period size: 28 Copynumber: 2.2 Consensus size: 30
234632 ATTTTTTATA
234642 TAATATAATATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
234672 TAATAT-A-ATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
234700 TAATA
1 TAATA
234705 ATTTATACTA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 26 0.79
29 1 0.03
30 6 0.18
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (30 bp):
TAATATAATATATAACTTAAACTAACAAAC
Found at i:234711 original size:28 final size:28
Alignment explanation
Indices: 234646--234711 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
234636 TTTATATAAT
234646 ATAATATATAACTTAAACTAACAAACTA
1 ATAATATATAACTTAAACTAACAAACTA
234674 AT-ATAATATAACTTAAACTAACAAACTA
1 ATAAT-ATATAACTTAAACTAACAAACTA
*
234702 ATAATTTATA
1 ATAATATATA
234712 CTAACAAACT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
27 2 0.06
28 31 0.89
29 2 0.06
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (28 bp):
ATAATATATAACTTAAACTAACAAACTA
Found at i:234714 original size:21 final size:21
Alignment explanation
Indices: 234681--234729 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
234671 CTAATATAAT
234681 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
234702 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
234723 ATTAACT
1 A-TAACT
234730 AAATTTTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:235117 original size:23 final size:23
Alignment explanation
Indices: 235088--235147 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
235078 TGCAATAATG
*
235088 CAGCTATGGATGCAGGAATCTCC
1 CAGCTATGGATGCAGGAATCTAC
* * *
235111 CAGCTATGAATGCATGAATCTAT
1 CAGCTATGGATGCAGGAATCTAC
235134 CAGCTATGGATGCA
1 CAGCTATGGATGCA
235148 ACGCATGCAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (23 bp):
CAGCTATGGATGCAGGAATCTAC
Found at i:235365 original size:21 final size:21
Alignment explanation
Indices: 235335--235377 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
235325 CATGAGCCAT
* * *
235335 GCACTGCTCCCTGTATAGCTC
1 GCACTCCTCCATGGATAGCTC
235356 GCACTCCTCCATGGATAGCTC
1 GCACTCCTCCATGGATAGCTC
235377 G
1 G
235378 TCGGGCGTGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.37, G:0.21, T:0.26
Consensus pattern (21 bp):
GCACTCCTCCATGGATAGCTC
Found at i:235426 original size:29 final size:29
Alignment explanation
Indices: 235384--235455 Score: 99
Period size: 29 Copynumber: 2.5 Consensus size: 29
235374 CTCGTCGGGC
*
235384 GTGCATGGCGACCTACAAGGTTGTTAGGA
1 GTGCATGGCGACCTACAAGGTCGTTAGGA
*** *
235413 GTGCATGGCGACCTTGTAGGTCGTTGGGA
1 GTGCATGGCGACCTACAAGGTCGTTAGGA
235442 GTGCATGGCGACCT
1 GTGCATGGCGACCT
235456 GTGTTGGGGA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.18, C:0.19, G:0.38, T:0.25
Consensus pattern (29 bp):
GTGCATGGCGACCTACAAGGTCGTTAGGA
Found at i:237395 original size:50 final size:51
Alignment explanation
Indices: 237298--237417 Score: 138
Period size: 51 Copynumber: 2.4 Consensus size: 51
237288 ATAAAGCGCT
* ** *
237298 CCCCTGCACCGCACTATACGATGATTTGGCACCACGTGGGGTATAGCGC-A
1 CCCCTGCACCGCGCTATACGATGAGCTGACACCACGTGGGGTATAGCGCGA
*
237348 CCCCCTGCACCGCGCTATACTG-TGAGCTGACGCCACGT-GGGTATAGCGCGA
1 -CCCCTGCACCGCGCTATAC-GATGAGCTGACACCACGTGGGGTATAGCGCGA
* *
237399 CCCCTGCAGCGTGCTATAC
1 CCCCTGCACCGCGCTATAC
237418 CTATATATCT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
50 28 0.47
51 31 0.52
52 1 0.02
ACGTcount: A:0.19, C:0.35, G:0.27, T:0.19
Consensus pattern (51 bp):
CCCCTGCACCGCGCTATACGATGAGCTGACACCACGTGGGGTATAGCGCGA
Found at i:237568 original size:12 final size:10
Alignment explanation
Indices: 237527--237567 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
237517 TTTATCACAC
237527 CAAATTCTCT
1 CAAATTCTCT
237537 CAAATTCTCT
1 CAAATTCTCT
237547 -AAATTTCTCT
1 CAAA-TTCTCT
*
237557 CAAATACTCT
1 CAAATTCTCT
237567 C
1 C
237568 TTTTTAAGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 3 0.11
10 22 0.79
11 3 0.11
ACGTcount: A:0.32, C:0.29, G:0.00, T:0.39
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:239435 original size:18 final size:18
Alignment explanation
Indices: 239412--239469 Score: 89
Period size: 18 Copynumber: 3.2 Consensus size: 18
239402 CCAGCAGCCA
239412 CCGCAGCCATATATGATG
1 CCGCAGCCATATATGATG
* *
239430 CCGCAGTCATATATGATA
1 CCGCAGCCATATATGATG
*
239448 TCGCAGCCATATATGATG
1 CCGCAGCCATATATGATG
239466 CCGC
1 CCGC
239470 CATCACCTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (18 bp):
CCGCAGCCATATATGATG
Found at i:242092 original size:16 final size:17
Alignment explanation
Indices: 242071--242108 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
242061 TGAATCAAAT
242071 TAATTAGATA-TATTTA
1 TAATTAGATATTATTTA
242087 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
242104 -AATTA
1 TAATTA
242109 ATTGTAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (17 bp):
TAATTAGATATTATTTA
Found at i:244262 original size:50 final size:50
Alignment explanation
Indices: 244142--244266 Score: 148
Period size: 50 Copynumber: 2.5 Consensus size: 50
244132 TTATACAAAA
*
244142 CGCGGTACCTGCCCCGCGCTATATAAAATTATGTCAGGAGTAAAGGTATGT
1 CGCGGTACCTG-CCCGCGCTATATAAAATTATGTCAGGAGTAAAGATATGT
* *
244193 CACGGTACATGCCCGGCGCTATATAAAAATTAT-T-AGGAGTAAAGATATAG-
1 CGCGGTACCTGCCC-GCGCTATAT-AAAATTATGTCAGGAGTAAAGATAT-GT
*
244243 CGCGGTACCTGATCCGCGCTATAT
1 CGCGGTACCTG-CCCGCGCTATAT
244267 CCCTACGTGG
Statistics
Matches: 64, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
50 34 0.53
51 22 0.34
52 8 0.12
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.25
Consensus pattern (50 bp):
CGCGGTACCTGCCCGCGCTATATAAAATTATGTCAGGAGTAAAGATATGT
Found at i:244355 original size:50 final size:51
Alignment explanation
Indices: 244301--244397 Score: 151
Period size: 51 Copynumber: 1.9 Consensus size: 51
244291 CAGGGGCCGT
* **
244301 GCTATA-CCCACGTGGCGCCAGCTCACCGTATAGCGCGGTGCAGGGGGCAC
1 GCTATACCCCACGTGGCACCAAATCACCGTATAGCGCGGTGCAGGGGGCAC
*
244351 GCTATACCCCACGTGGCACCAAATCATCGTATAGCGCGGTGCAGGGG
1 GCTATACCCCACGTGGCACCAAATCACCGTATAGCGCGGTGCAGGGG
244398 CGCGCTTTAC
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
50 6 0.14
51 36 0.86
ACGTcount: A:0.21, C:0.32, G:0.32, T:0.15
Consensus pattern (51 bp):
GCTATACCCCACGTGGCACCAAATCACCGTATAGCGCGGTGCAGGGGGCAC
Found at i:245564 original size:21 final size:22
Alignment explanation
Indices: 245514--245564 Score: 52
Period size: 23 Copynumber: 2.3 Consensus size: 22
245504 TTATATCACG
245514 GATAAATTTGTAATAAATTATGA
1 GATAAATTTGTAAT-AATTATGA
*
245537 GATTAAATTATGTAAT-TTTAT-A
1 GA-TAAATT-TGTAATAATTATGA
245559 GATAAA
1 GATAAA
245565 AATATATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
21 4 0.16
22 3 0.12
23 6 0.24
24 6 0.24
25 6 0.24
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (22 bp):
GATAAATTTGTAATAATTATGA
Found at i:248925 original size:21 final size:21
Alignment explanation
Indices: 248899--248951 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
248889 GTTTCCAGAT
248899 TCGCAACGCGAACTTCAACTA
1 TCGCAACGCGAACTTCAACTA
**
248920 TCGCAACGCGAACTTGGACTA
1 TCGCAACGCGAACTTCAACTA
*
248941 TCGCAATGCGA
1 TCGCAACGCGA
248952 TTTACATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (21 bp):
TCGCAACGCGAACTTCAACTA
Found at i:248990 original size:21 final size:21
Alignment explanation
Indices: 248960--249122 Score: 158
Period size: 21 Copynumber: 8.0 Consensus size: 21
248950 GATTTACATA
*
248960 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
248981 TTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
** *
249002 TTCGCGTTGCGATTTTCCAAA
1 TTCGCGTTGCGATAGTCCAAG
*
249023 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
** *
249042 TTCGCGTTGCGATTTTCCAAA
1 TTCGCGTTGCGATAGTCCAAG
*
249063 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
249082 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
249105 TT--CGTTGCGATAGTCCAA
1 TTCGCGTTGCGATAGTCCAA
249123 AATCGCAACG
Statistics
Matches: 114, Mismatches: 22, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
19 37 0.32
21 69 0.61
23 8 0.07
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.34
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:249040 original size:40 final size:40
Alignment explanation
Indices: 248985--249119 Score: 252
Period size: 40 Copynumber: 3.3 Consensus size: 40
248975 TCCAAGTTCG
248985 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT
249025 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT
249065 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TT-TTCCAAATT
249107 CGTTGCGATAGTC
1 CGTTGCGATAGTC
249120 CAAAATCGCA
Statistics
Matches: 93, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
40 69 0.74
41 2 0.02
42 22 0.24
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (40 bp):
CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT
Found at i:249090 original size:61 final size:62
Alignment explanation
Indices: 248959--249123 Score: 160
Period size: 61 Copynumber: 2.7 Consensus size: 62
248949 CGATTTACAT
* * * **
248959 ATTCGCATTGCGATAGTCCAAGTTCGCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAA
1 ATTCGCGTTGCGATAGTCCAAGTTCGCGTTGCGATAGTCCAAATTC-CGTTGCGATAGTCCAA
* ** *
249022 ATT--CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT-CGTTGCGATAGTCGAA
1 ATTCGCGTTGCGATAGTCCAAGTTCGCGTTGCGATAGTCCAAATTCCGTTGCGATAGTCCAA
* * *
249081 GTTCGCGTTGCGATTTATTCCAAATT--CGTTGCGATAGTCCAAA
1 ATTCGCGTTGCGA--TAGTCCAAGTTCGCGTTGCGATAGTCCAAA
249124 ATCGCAACGA
Statistics
Matches: 83, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
59 15 0.18
61 57 0.69
63 11 0.13
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (62 bp):
ATTCGCGTTGCGATAGTCCAAGTTCGCGTTGCGATAGTCCAAATTCCGTTGCGATAGTCCAA
Found at i:249754 original size:6 final size:6
Alignment explanation
Indices: 249744--249776 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
249734 TCTCGTCTCG
*
249744 GGTCGG GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
249777 AATACGTGTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.15, G:0.55, T:0.30
Consensus pattern (6 bp):
GGTCGT
Found at i:250512 original size:42 final size:42
Alignment explanation
Indices: 249864--250502 Score: 1106
Period size: 42 Copynumber: 15.3 Consensus size: 42
249854 TGCGATTTTG
*
249864 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTG
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
249906 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
* *
249948 GACTATCGCAACGAATTTGGAATAAATTGCAACACGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
* *
249990 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTG
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
250032 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
*
250074 GACTATCGCAACGAATTTGG-A-AAATCGCAACGCGAACTTA
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
250114 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
*
250156 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
*
250198 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
* * *
250240 GACTATCGCAACGAACTTGGAATAAATAGCAAAGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
250282 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
250324 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
* * *
250366 GACTATCGCAACGAACTTGGAATAAATCGCAACGCAAACTTG
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
*
250408 GACTATCGCAACGAATTTGGAATAAATCGCAACGTGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
*
250450 GACTATCGCAACGAATTTGG-A-AAATCGCAACGCAAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
250490 GACTATCGCAACG
1 GACTATCGCAACG
250503 CGAACTTGGA
Statistics
Matches: 569, Mismatches: 26, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
40 68 0.12
41 3 0.01
42 498 0.88
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (42 bp):
GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
Found at i:252359 original size:26 final size:26
Alignment explanation
Indices: 252328--252388 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
252318 CTCAGTTAAA
*
252328 TTTT-AAAGAATATTTTACAAAATTGT
1 TTTTAAAAGAAT-TTTTACAAAATTAT
* *
252354 TTTTAAAATAATTTTTACAATATTATT
1 TTTTAAAAGAATTTTTACAAAATTA-T
252381 TTTTAAAA
1 TTTTAAAA
252389 AGTAATACCG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
26 15 0.50
27 15 0.50
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (26 bp):
TTTTAAAAGAATTTTTACAAAATTAT
Found at i:254032 original size:2 final size:2
Alignment explanation
Indices: 254025--254094 Score: 71
Period size: 2 Copynumber: 36.5 Consensus size: 2
254015 ATATTAACTA
254025 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT CAT -T A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT
254065 AT -T AT A- AT AT GAT AT A- AT AT AT AT ACT AT A
1 AT AT AT AT AT AT -AT AT AT AT AT AT AT A-T AT A
254095 ATTTGAATAT
Statistics
Matches: 59, Mismatches: 0, Indels: 18
0.77 0.00 0.23
Matches are distributed among these distances:
1 6 0.10
2 47 0.80
3 6 0.10
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (2 bp):
AT
Found at i:254386 original size:52 final size:51
Alignment explanation
Indices: 254326--254456 Score: 199
Period size: 52 Copynumber: 2.5 Consensus size: 51
254316 TTACGTCTAG
* * *
254326 ACCAATTGAAAATATGACAACACATAAAATAAAAGTGAGAACTTGCATATAA
1 ACCAATTGAGAATATGACAACACATAAAATAAAAGTGAGAACATACATAT-A
* *
254378 ACTAATTGAGAATATGACAACACATAAAATAAAAGTGAGAACATACATATG
1 ACCAATTGAGAATATGACAACACATAAAATAAAAGTGAGAACATACATATA
*
254429 ACCAATTGAGAATATGACAACACTTAAA
1 ACCAATTGAGAATATGACAACACATAAA
254457 TCACTAAAAT
Statistics
Matches: 72, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
51 26 0.36
52 46 0.64
ACGTcount: A:0.53, C:0.14, G:0.12, T:0.21
Consensus pattern (51 bp):
ACCAATTGAGAATATGACAACACATAAAATAAAAGTGAGAACATACATATA
Found at i:254416 original size:29 final size:29
Alignment explanation
Indices: 254336--254418 Score: 81
Period size: 29 Copynumber: 3.1 Consensus size: 29
254326 ACCAATTGAA
254336 AATATGACAACACATAAAATAAAAGTGAG
1 AATATGACAACACATAAAATAAAAGTGAG
* * *
254365 AACT-TG----CATATAAACT--AATTGAG
1 AA-TATGACAACACATAAAATAAAAGTGAG
254388 AATATGACAACACATAAAATAAAAGTGAG
1 AATATGACAACACATAAAATAAAAGTGAG
254417 AA
1 AA
254419 CATACATATG
Statistics
Matches: 40, Mismatches: 6, Indels: 16
0.65 0.10 0.26
Matches are distributed among these distances:
22 1 0.03
23 10 0.25
25 8 0.20
27 8 0.20
29 12 0.30
30 1 0.03
ACGTcount: A:0.55, C:0.11, G:0.13, T:0.20
Consensus pattern (29 bp):
AATATGACAACACATAAAATAAAAGTGAG
Found at i:261831 original size:31 final size:31
Alignment explanation
Indices: 261743--261837 Score: 102
Period size: 31 Copynumber: 3.1 Consensus size: 31
261733 GAACCTCGGC
* * * *
261743 AACTGTCTATAGGTCCCAAAGAACCTAGGTA
1 AACTGTCCATATGTTCCAAAGAACATAGGTA
**
261774 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTTCCAAAGAACATAGGTA
* *
261805 TACTGTCCATATGTCTCGAAAG-ACATAGGTA
1 AACTGTCCATATGT-TCCAAAGAACATAGGTA
261836 AA
1 AA
261838 ACCCTCGACT
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
31 48 0.92
32 4 0.08
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (31 bp):
AACTGTCCATATGTTCCAAAGAACATAGGTA
Found at i:276025 original size:31 final size:31
Alignment explanation
Indices: 275987--276081 Score: 102
Period size: 31 Copynumber: 3.1 Consensus size: 31
275977 GAACCTCAGC
* *
275987 AACTGTCCATAGGTCCCAAAGAACCTAGGTA
1 AACTGTCCATATGTCCCAAAGAACATAGGTA
* **
276018 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTCCCAAAGAACATAGGTA
* * *
276049 TATTGTCCATATGTCTCGAAAG-ACATAGGTA
1 AACTGTCCATATGTC-CCAAAGAACATAGGTA
276080 AA
1 AA
276082 ACCCTCGACT
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
31 48 0.94
32 3 0.06
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (31 bp):
AACTGTCCATATGTCCCAAAGAACATAGGTA
Found at i:281670 original size:21 final size:21
Alignment explanation
Indices: 281646--281703 Score: 71
Period size: 23 Copynumber: 2.7 Consensus size: 21
281636 TTAGGTCAAG
*
281646 GGATCGATCATTTTTAAAAAT
1 GGATCGATCATTTTTAAAAAA
*
281667 GGATCGATATTATTTTTAAAAAA
1 GGATCG--ATCATTTTTAAAAAA
*
281690 GGATCGATCCTTTT
1 GGATCGATCATTTT
281704 GCTGAAAAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 12 0.39
23 19 0.61
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (21 bp):
GGATCGATCATTTTTAAAAAA
Found at i:286622 original size:27 final size:27
Alignment explanation
Indices: 286571--286623 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
286561 CAGTTGAAAG
* *
286571 ATTCATCATCCGATGGATTTAAGATCA
1 ATTCATCATCAGATGGATATAAGATCA
*
286598 ATTCATCATCAGATGGATATGAGATC
1 ATTCATCATCAGATGGATATAAGATC
286624 GACTCTAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (27 bp):
ATTCATCATCAGATGGATATAAGATCA
Found at i:286852 original size:139 final size:134
Alignment explanation
Indices: 286541--287045 Score: 574
Period size: 135 Copynumber: 3.7 Consensus size: 134
286531 CTGTGCGATC
* * * *
286541 TTCACTAATAGCATAGTTGACAGTTGAAAGATTCATCATCCGATGGATTTAAGATCAATTCATCA
1 TTCATTAATAGCATAGTTGACAGTTCAAAGATCCATCATCCGATGGATTTAAGATCGATTCATCA
* * * * * *
286606 TCAGATGGATATGAGATCGACTCTAATTTCATTTAGCTTGCACACGTGTAGTGTGGACTGCAATG
66 TCAGAT-AATTTGAGATCGACTCTAACTACATTTAGCTTGCACACGTGTAATGTGGACTGCAGTG
286671 CAATT
130 CAATT
* *
286676 TTCATTAATAGCATAGTTGAAAGTTCAAAGATCCATCATCTGATGGATTTAAGATCGATTCATCA
1 TTCATTAATAGCATAGTTGACAGTTCAAAGATCCATCATCCGATGGATTTAAGATCGATTCATCA
* * *
286741 TCAGATATATTTGAGATCGACTCTAAATACATTTATCTGTTAG-AGCCACGTGTAATGTGGACTT
66 TCAGATA-ATTTGAGATCGACTCTAACTACATTTAGC--TT-GCA--CACGTGTAATGTGGACTG
*
286805 CGGTGCAATT
125 CAGTGCAATT
* * * * *
286815 TTCATTAATAGCATAGTTGGC-GCTTGAAAGATTCATCATCCGATGGATTTAAGATCCATT-GTC
1 TTCATTAATAGCATAGTTGACAG-TTCAAAGATCCATCATCCGATGGATTTAAGATCGATTCATC
* * *
286878 A--A-ATGAATTTGAGATCGACCCTAACTACATTTAGCTTGCACATGTGTAGTGTGGACTGCAAG
65 ATCAGAT-AATTTGAGATCGACTCTAACTACATTTAGCTTGCACACGTGTAATGTGGACTGC-AG
*
286940 -GCATTT
128 TGCAATT
* * * * * **
286946 TTCATTAATAGCAGAGTTTACTGTTCAACGATCCGTCATCTAATGGATTTAAGATCGATTCATCA
1 TTCATTAATAGCATAGTTGACAGTTCAAAGATCCATCATCCGATGGATTTAAGATCGATTCATCA
287011 TCAGATAAATTTGAGATCGACTCTAACTACATTTA
66 TCAGAT-AATTTGAGATCGACTCTAACTACATTTA
287046 TCTGTTAGTT
Statistics
Matches: 312, Mismatches: 43, Indels: 30
0.81 0.11 0.08
Matches are distributed among these distances:
131 69 0.22
132 6 0.02
133 3 0.01
134 1 0.00
135 147 0.47
136 2 0.01
137 3 0.01
138 5 0.02
139 76 0.24
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (134 bp):
TTCATTAATAGCATAGTTGACAGTTCAAAGATCCATCATCCGATGGATTTAAGATCGATTCATCA
TCAGATAATTTGAGATCGACTCTAACTACATTTAGCTTGCACACGTGTAATGTGGACTGCAGTGC
AATT
Found at i:287031 original size:270 final size:270
Alignment explanation
Indices: 286541--287140 Score: 814
Period size: 270 Copynumber: 2.2 Consensus size: 270
286531 CTGTGCGATC
*
286541 TTCACTAATAGCATAGTTGACAGTTGAAAGATTCATCATCCGATGGATTTAAGATCAATTCATCA
1 TTCATTAATAGCATAGTTGAC-GTTGAAAGATTCATCATCCGATGGATTTAAGATCAATTCATCA
* * * * *
286606 TCAGATGGATATGAGATCGACTCTAATTTCATTTAGCTTGCACACGTGTAGTGTGGACTGCAATG
65 -CAGATGAATATGAGATCGACCCTAACTACATTTAGCTTGCACACGTGTAGTGTGGACTGCAAGG
* *
286671 CAATTTTCATTAATAGCATAGTTGAAAGTTCAAAGATCCATCATCTGATGGATTTAAGATCGATT
129 CAATTTTCATTAATAGCAGAGTTGAAAGTTCAAAGATCCATCATCTAATGGATTTAAGATCGATT
* *
286736 CATCATCAGATATATTTGAGATCGACTCTAAATACATTTATCTGTTAGAGCCACGTGTAATGTGG
194 CATCATCAGATAAATTTGAGATCGACTCTAAATACATTTATCTGTTAGAGCCACGCGTAATGTGG
*
286801 ACTTCGGTGCAA
259 ACTTCAGTGCAA
* * *
286813 TTTTCATTAATAGCATAGTTGGCGCTTGAAAGATTCATCATCCGATGGATTTAAGATCCATT-GT
1 --TTCATTAATAGCATAGTTGACG-TTGAAAGATTCATCATCCGATGGATTTAAGATCAATTCAT
* *
286877 CA-A-ATGAATTTGAGATCGACCCTAACTACATTTAGCTTGCACATGTGTAGTGTGGACTGCAAG
63 CACAGATGAATATGAGATCGACCCTAACTACATTTAGCTTGCACACGTGTAGTGTGGACTGCAAG
* * ** * *
286940 GCATTTTTCATTAATAGCAGAGTTTACTGTTCAACGATCCGTCATCTAATGGATTTAAGATCGAT
128 GCAATTTTCATTAATAGCAGAGTTGAAAGTTCAAAGATCCATCATCTAATGGATTTAAGATCGAT
* ***
287005 TCATCATCAGATAAATTTGAGATCGACTCTAACTACATTTATCTGTTAGTTTCACGCGTAATGTG
193 TCATCATCAGATAAATTTGAGATCGACTCTAAATACATTTATCTGTTAGAGCCACGCGTAATGTG
*
287070 GACTTCAGTGTAA
258 GACTTCAGTGCAA
* * * * * *
287083 --CATTAATAGCGTACTTGACGGTCGAAAAATTCATCATCCGATGAATTTATGATCAATT
1 TTCATTAATAGCATAGTTGAC-GTTGAAAGATTCATCATCCGATGGATTTAAGATCAATT
287141 ATAGTTGTTT
Statistics
Matches: 289, Mismatches: 35, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
266 48 0.17
267 1 0.00
270 180 0.62
271 1 0.00
273 4 0.01
274 55 0.19
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (270 bp):
TTCATTAATAGCATAGTTGACGTTGAAAGATTCATCATCCGATGGATTTAAGATCAATTCATCAC
AGATGAATATGAGATCGACCCTAACTACATTTAGCTTGCACACGTGTAGTGTGGACTGCAAGGCA
ATTTTCATTAATAGCAGAGTTGAAAGTTCAAAGATCCATCATCTAATGGATTTAAGATCGATTCA
TCATCAGATAAATTTGAGATCGACTCTAAATACATTTATCTGTTAGAGCCACGCGTAATGTGGAC
TTCAGTGCAA
Found at i:287089 original size:135 final size:131
Alignment explanation
Indices: 286546--287136 Score: 494
Period size: 135 Copynumber: 4.4 Consensus size: 131
286536 CGATCTTCAC
* * * *
286546 TAATAGCATAGTTGACAGTTGAAAGATTCATCATCCGATGGATTTAAGATCAATTCATCATCAGA
1 TAATAGCATAGTTGAC-GTTCAAAGATCCATCATCTGATGGATTTAAGATCGATTCATCATCAGA
** * * * * *
286611 TGGATATGAGATCGACTCTAATTTCATTTAGCTTGCACACGTGTAGTGTGGACTGCAATGCAATT
65 TAAATTTGAGATCGACTCTAACTACATTTAGCTTGCACACGTGTAATGTGGACTGCAGTGCAA--
286676 TTCAT
128 -TCAT
*
286681 TAATAGCATAGTTGAAAGTTCAAAGATCCATCATCTGATGGATTTAAGATCGATTCATCATCAGA
1 TAATAGCATAGTTG-ACGTTCAAAGATCCATCATCTGATGGATTTAAGATCGATTCATCATCAGA
* * * * *
286746 TATATTTGAGATCGACTCTAAATACATTTATCTGTTAG-AGCCACGTGTAATGTGGACTTCGGTG
65 TAAATTTGAGATCGACTCTAACTACATTTAGC--TT-GCA--CACGTGTAATGTGGACTGCAGTG
286810 CAATTTTCAT
125 CAA---TCAT
* * * * * *
286820 TAATAGCATAGTTGGCGCTTGAAAGATTCATCATCCGATGGATTTAAGATCCATT-GTCA--A-A
1 TAATAGCATAGTTGACG-TTCAAAGATCCATCATCTGATGGATTTAAGATCGATTCATCATCAGA
* * * *
286881 TGAATTTGAGATCGACCCTAACTACATTTAGCTTGCACATGTGTAGTGTGGACTGCAAG-GCATT
65 TAAATTTGAGATCGACTCTAACTACATTTAGCTTGCACACGTGTAATGTGGACTGC-AGTGCA--
*
286945 TTTCAT
127 -ATCAT
* * * * *
286951 TAATAGCAGAGTTTACTGTTCAACGATCCGTCATCTAATGGATTTAAGATCGATTCATCATCAGA
1 TAATAGCATAGTTGAC-GTTCAAAGATCCATCATCTGATGGATTTAAGATCGATTCATCATCAGA
* ** * * *
287016 TAAATTTGAGATCGACTCTAACTACATTTATCTGTTAGTTTCACGCGTAATGTGGACTTCAGTGT
65 TAAATTTGAGATCGACTCTAACTACATTTAGC--TT-G-CACACGTGTAATGTGGACTGCAGTGC
287081 AA-CAT
126 AATCAT
* * * * * * * *
287086 TAATAGCGTACTTGACGGTCGAAAAATTCATCATCCGATGAATTTATGATC
1 TAATAGCATAGTTGACGTTC-AAAGATCCATCATCTGATGGATTTAAGATC
287137 AATTATAGTT
Statistics
Matches: 366, Mismatches: 67, Indels: 46
0.76 0.14 0.10
Matches are distributed among these distances:
131 66 0.18
132 6 0.02
133 3 0.01
134 4 0.01
135 179 0.49
136 2 0.01
137 5 0.01
138 8 0.02
139 93 0.25
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.34
Consensus pattern (131 bp):
TAATAGCATAGTTGACGTTCAAAGATCCATCATCTGATGGATTTAAGATCGATTCATCATCAGAT
AAATTTGAGATCGACTCTAACTACATTTAGCTTGCACACGTGTAATGTGGACTGCAGTGCAATCA
T
Found at i:289611 original size:46 final size:46
Alignment explanation
Indices: 289544--289654 Score: 222
Period size: 46 Copynumber: 2.4 Consensus size: 46
289534 AATAGTTGGT
289544 TTATATAAATGTCTCTCTCTTGCAAGTACAAGAAGAAGAGCAGTGC
1 TTATATAAATGTCTCTCTCTTGCAAGTACAAGAAGAAGAGCAGTGC
289590 TTATATAAATGTCTCTCTCTTGCAAGTACAAGAAGAAGAGCAGTGC
1 TTATATAAATGTCTCTCTCTTGCAAGTACAAGAAGAAGAGCAGTGC
289636 TTATATAAATGTCTCTCTC
1 TTATATAAATGTCTCTCTC
289655 GCAAGTTCCT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 65 1.00
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (46 bp):
TTATATAAATGTCTCTCTCTTGCAAGTACAAGAAGAAGAGCAGTGC
Found at i:290481 original size:24 final size:23
Alignment explanation
Indices: 290432--290484 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
290422 ATTTTTAATA
*
290432 TTTTAAAATATTTCAATTAATTG
1 TTTTAAAATATTTCAATTAATCG
*
290455 TTTTTAAATATTTCAATCTGAA-CG
1 TTTTAAAATATTTCAAT-T-AATCG
290479 TTTTAA
1 TTTTAA
290485 TTTTTCATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 16 0.64
24 7 0.28
25 2 0.08
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.51
Consensus pattern (23 bp):
TTTTAAAATATTTCAATTAATCG
Found at i:294162 original size:3 final size:3
Alignment explanation
Indices: 294154--294222 Score: 86
Period size: 3 Copynumber: 22.7 Consensus size: 3
294144 TTTTTTCATT
** *
294154 TTA TTA TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA ATA TTA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
294203 TTA -TA TATA TTA TTA TTA TT
1 TTA TTA T-TA TTA TTA TTA TT
294223 TAAAAAATAT
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
2 2 0.04
3 49 0.86
4 6 0.11
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:294787 original size:21 final size:22
Alignment explanation
Indices: 294739--294787 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 22
294729 CAAGAGTCCA
294739 CAAAA-AACAGCAAGCAACAAC
1 CAAAACAACAGCAAGCAACAAC
*
294760 C-ACACAACCAGC-AGCAA-AAC
1 CAAAACAA-CAGCAAGCAACAAC
294780 CAAAACAA
1 CAAAACAA
294788 AGAAAAAGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
20 6 0.26
21 13 0.57
22 4 0.17
ACGTcount: A:0.59, C:0.33, G:0.08, T:0.00
Consensus pattern (22 bp):
CAAAACAACAGCAAGCAACAAC
Found at i:295692 original size:16 final size:17
Alignment explanation
Indices: 295673--295714 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
295663 TTTAGTCATT
295673 ATTTATTTATATTT-TA
1 ATTTATTTATATTTGTA
295689 ATTTTATTT-TATTTGTA
1 A-TTTATTTATATTTGTA
*
295706 ATATATTTA
1 ATTTATTTA
295715 ATTATTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (17 bp):
ATTTATTTATATTTGTA
Found at i:295696 original size:17 final size:17
Alignment explanation
Indices: 295674--295707 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
295664 TTAGTCATTA
295674 TTTATTTATATTT-TAAT
1 TTTATTT-TATTTGTAAT
295691 TTTATTTTATTTGTAAT
1 TTTATTTTATTTGTAAT
295708 ATATTTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (17 bp):
TTTATTTTATTTGTAAT
Found at i:298517 original size:63 final size:63
Alignment explanation
Indices: 298445--298571 Score: 236
Period size: 63 Copynumber: 2.0 Consensus size: 63
298435 ACATTAAATA
* *
298445 TAAAAACATGTAAATAATTAATGAAAGGTTTTGTAACAGTAAAACCAATGTTATTCATTCATT
1 TAAAAACATGTAAATAATTAATGAAAGGTTTTGTAACAGTAAAACCAAGGTCATTCATTCATT
298508 TAAAAACATGTAAATAATTAATGAAAGGTTTTGTAACAGTAAAACCAAGGTCATTCATTCATT
1 TAAAAACATGTAAATAATTAATGAAAGGTTTTGTAACAGTAAAACCAAGGTCATTCATTCATT
298571 T
1 T
298572 TACTTTACTA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.34
Consensus pattern (63 bp):
TAAAAACATGTAAATAATTAATGAAAGGTTTTGTAACAGTAAAACCAAGGTCATTCATTCATT
Found at i:300669 original size:2 final size:2
Alignment explanation
Indices: 300662--300707 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
300652 ATCGTTTTAA
*
300662 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
300704 AT AT
1 AT AT
300708 CCTTTGTTGT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:301028 original size:1 final size:1
Alignment explanation
Indices: 301017--301117 Score: 58
Period size: 1 Copynumber: 101.0 Consensus size: 1
301007 AAGAAGAAGG
* ** ** * ** * ** *
301017 AAAAAAGAAAAAAAAGGAAAAAGGAAAAAAATAAAAAAATTAAAAACAAAAAGGAAAAAAGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * *
301082 AAAGAAAAAAAGAAAAAAAGAAAAAAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
301118 GGAAAATTGA
Statistics
Matches: 76, Mismatches: 24, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 76 1.00
ACGTcount: A:0.84, C:0.01, G:0.12, T:0.03
Consensus pattern (1 bp):
A
Found at i:301039 original size:16 final size:16
Alignment explanation
Indices: 301002--301123 Score: 86
Period size: 17 Copynumber: 7.1 Consensus size: 16
300992 CTCATCCAGC
*
301002 AAAGAAAGAAGAAGGAAA
1 AAAGAAA-AAAAAGG-AA
301020 AAAGAAAAAAAAGGAA
1 AAAGAAAAAAAAGGAA
**
301036 AAAGGAAAAAAATAAAAA
1 AAA-GAAAAAAA-AGGAA
*
301054 AATTAAAAACAAAAAGGAA
1 AA--AGAAA-AAAAAGGAA
301073 AAA-AGAAAAAAA-GAA
1 AAAGA-AAAAAAAGGAA
* *
301088 AAAAAGAAAAAAAGAAAA
1 AAAGA-AAAAAAAG-GAA
301106 AAAGAAAAAAAAGGAA
1 AAAGAAAAAAAAGGAA
301122 AA
1 AA
301124 TTGAATCAAG
Statistics
Matches: 86, Mismatches: 9, Indels: 20
0.75 0.08 0.17
Matches are distributed among these distances:
15 6 0.07
16 24 0.28
17 25 0.29
18 18 0.21
19 8 0.09
20 5 0.06
ACGTcount: A:0.81, C:0.01, G:0.16, T:0.02
Consensus pattern (16 bp):
AAAGAAAAAAAAGGAA
Found at i:301099 original size:37 final size:37
Alignment explanation
Indices: 301027--301099 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
301017 AAAAAAGAAA
* * **
301027 AAAAAGGAAAAAGGAAAAAAATAAAAAAATTAAAAAC
1 AAAAAGGAAAAAAGAAAAAAAGAAAAAAAGAAAAAAC
301064 AAAAAGGAAAAAAGAAAAAAAGAAAAAAAGAAAAAA
1 AAAAAGGAAAAAAGAAAAAAAGAAAAAAAGAAAAAA
301100 AGAAAAAAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.82, C:0.01, G:0.12, T:0.04
Consensus pattern (37 bp):
AAAAAGGAAAAAAGAAAAAAAGAAAAAAAGAAAAAAC
Found at i:301123 original size:8 final size:8
Alignment explanation
Indices: 301002--301116 Score: 110
Period size: 8 Copynumber: 14.4 Consensus size: 8
300992 CTCATCCAGC
301002 AAAGAAAGA
1 AAAGAAA-A
*
301011 AGAAGGAAA
1 A-AAGAAAA
301020 AAAGAAAAA
1 AAAG-AAAA
*
301029 AAAGGAAA
1 AAAGAAAA
*
301037 AAGGAAAA
1 AAAGAAAA
*
301045 AAA-TAAA
1 AAAGAAAA
**
301052 AAA-ATTA
1 AAAGAAAA
*
301059 AAA-ACAA
1 AAAGAAAA
*
301066 AAAGGAAA
1 AAAGAAAA
301074 AAAGAAAA
1 AAAGAAAA
301082 AAAGAAAA
1 AAAGAAAA
301090 AAAGAAAA
1 AAAGAAAA
301098 AAAGAAAA
1 AAAGAAAA
301106 AAAGAAAA
1 AAAGAAAA
301114 AAA
1 AAA
301117 AGGAAAATTG
Statistics
Matches: 88, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
7 15 0.17
8 58 0.66
9 10 0.11
10 5 0.06
ACGTcount: A:0.82, C:0.01, G:0.15, T:0.03
Consensus pattern (8 bp):
AAAGAAAA
Found at i:301123 original size:24 final size:23
Alignment explanation
Indices: 301064--301123 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 23
301054 AATTAAAAAC
301064 AAAAAGGAAAAAAGAAAAAAAGAA
1 AAAAAGG-AAAAAGAAAAAAAGAA
*
301088 AAAAAGAAAAAAAGAAAAAAAGAAA
1 AAAAAG-GAAAAAGAAAAAAAG-AA
301113 AAAAAGGAAAA
1 AAAAAGGAAAA
301124 TTGAATCAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 24 0.75
25 8 0.25
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (23 bp):
AAAAAGGAAAAAGAAAAAAAGAA
Found at i:301769 original size:32 final size:32
Alignment explanation
Indices: 301728--301789 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
301718 GTCAGACACA
*
301728 AGAAATATCTCTACGAA-ATTAGCATAACAACG
1 AGAAATATCTCTAC-AAGATGAGCATAACAACG
*
301760 AGAAGTATCTCTACAAGATGAGCATAACAA
1 AGAAATATCTCTACAAGATGAGCATAACAA
301790 TAATTTCTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 2 0.07
32 25 0.93
ACGTcount: A:0.47, C:0.18, G:0.15, T:0.21
Consensus pattern (32 bp):
AGAAATATCTCTACAAGATGAGCATAACAACG
Found at i:305026 original size:54 final size:52
Alignment explanation
Indices: 304962--305119 Score: 178
Period size: 54 Copynumber: 3.0 Consensus size: 52
304952 TGATTGAGAA
*
304962 ATCTAAGCAGAAGCCACAGAAAAGAATGAATGTGTTTTCAAATGCTTTACGAAC
1 ATCTAAGCAGAAGCCACAGAAAAG-ATGAATGTGTTGTCAAATG-TTTACGAAC
* *
305016 ATCTAAGCAGAAGCCACAGAAAAGGATGAATGTGTTGTCAAGTGTTT---TAC
1 ATCTAAGCAGAAGCCACAGAAAA-GATGAATGTGTTGTCAAATGTTTACGAAC
* * * * *
305066 ATCTGAGCAGAAACCACATGAGATGATGCATGTGTTGTCAAATGTTTTACGAAC
1 ATCTAAGCAGAAGCCACA-GAAAAGATGAATGTGTTGTCAAATG-TTTACGAAC
305120 CAGTTATTCT
Statistics
Matches: 88, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
50 36 0.41
51 6 0.07
53 3 0.03
54 42 0.48
55 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.26
Consensus pattern (52 bp):
ATCTAAGCAGAAGCCACAGAAAAGATGAATGTGTTGTCAAATGTTTACGAAC
Found at i:305099 original size:50 final size:50
Alignment explanation
Indices: 304962--305115 Score: 166
Period size: 50 Copynumber: 3.0 Consensus size: 50
304952 TGATTGAGAA
* * * *
304962 ATCTAAGCAGAAGCCACAGAAAAGAATGAATGTGTTTTCAAATGCTTTACGAAC
1 ATCTAAGCAGAAACCACAGAAAAGGATGAATGTGTTGTCAAATG-TTT---TAC
* *
305016 ATCTAAGCAGAAGCCACAGAAAAGGATGAATGTGTTGTCAAGTGTTTTAC
1 ATCTAAGCAGAAACCACAGAAAAGGATGAATGTGTTGTCAAATGTTTTAC
* * * *
305066 ATCTGAGCAGAAACCACATG-AGATGATGCATGTGTTGTCAAATGTTTTAC
1 ATCTAAGCAGAAACCACA-GAAAAGGATGAATGTGTTGTCAAATGTTTTAC
305116 GAACCAGTTA
Statistics
Matches: 89, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
50 44 0.49
51 1 0.01
53 3 0.03
54 41 0.46
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (50 bp):
ATCTAAGCAGAAACCACAGAAAAGGATGAATGTGTTGTCAAATGTTTTAC
Found at i:305515 original size:22 final size:22
Alignment explanation
Indices: 305486--305540 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
305476 ATCTACACTC
305486 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
305508 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
305530 TTCAAAGATGA
1 TTCAAAGATGA
305541 AAGCTTTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:306340 original size:76 final size:76
Alignment explanation
Indices: 306214--306568 Score: 602
Period size: 76 Copynumber: 4.8 Consensus size: 76
306204 CTATTTCCCA
306214 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
306279 AGCCTTAGGGT
66 AGCCTTAGGGT
** * *
306290 CATCTGTAAGTCCTACAGTTTATGATGTTTCCAAAAAGCCTTTGGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
306355 AGCCTTAGGGT
66 AGCCTTAGGGT
306366 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
306431 AGCCTTAGGGT
66 AGCCTTAGGGT
*
306442 CATCTGTAAGTCCTACAATGCATGATGTTTCCAAAAAG----C-----CTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
306498 AGCCTTAGGGT
66 AGCCTTAGGGT
306509 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT
306569 GTTATTTTGA
Statistics
Matches: 260, Mismatches: 10, Indels: 18
0.90 0.03 0.06
Matches are distributed among these distances:
67 65 0.25
71 1 0.00
72 1 0.00
76 193 0.74
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:306522 original size:67 final size:67
Alignment explanation
Indices: 306414--306550 Score: 265
Period size: 67 Copynumber: 2.0 Consensus size: 67
306404 CCTTCGGGAG
306414 CTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAATGCATGATGTTTCCAAAAA
1 CTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAATGCATGATGTTTCCAAAAA
306479 GC
66 GC
*
306481 CTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAA
1 CTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAATGCATGATGTTTCCAAAAA
306546 GC
66 GC
306548 CTT
1 CTT
306551 CGGGAGCTTT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 69 1.00
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (67 bp):
CTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAATGCATGATGTTTCCAAAAA
GC
Found at i:306794 original size:76 final size:76
Alignment explanation
Indices: 306693--307132 Score: 808
Period size: 76 Copynumber: 5.8 Consensus size: 76
306683 CTATTTCCCA
*
306693 CATCTGTAAGTCCTACAGTGTATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
306758 AGCCTTAGGGT
66 AGCCTTAGGGT
* * *
306769 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCATTTTGATATTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
306834 AGCCTTAGGGT
66 AGCCTTAGGGT
*
306845 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
306910 AGCCTTAGGGT
66 AGCCTTAGGGT
*
306921 AATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
306986 AGCCTTAGGGT
66 AGCCTTAGGGT
*
306997 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTTAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
307062 AGCCTTAGGGT
66 AGCCTTAGGGT
*
307073 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTT
307133 GTTATTTTGA
Statistics
Matches: 352, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 352 1.00
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:307382 original size:76 final size:76
Alignment explanation
Indices: 307256--307619 Score: 674
Period size: 76 Copynumber: 4.8 Consensus size: 76
307246 CTATTTCCCA
*
307256 CATCTATAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
307321 AACCTTAGGGT
66 AGCCTTAGGGT
*
307332 CATCTGTAAGTCCTACACTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
307397 AGCCTTAGGGT
66 AGCCTTAGGGT
307408 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
307473 AGCCTTAGGGT
66 AGCCTTAGGGT
* * *
307484 CATCTATAAGTCCTATAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
307549 AGCCTTAGGGT
66 AGCCTTAGGGT
307560 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT
307620 GTTATTTTGA
Statistics
Matches: 278, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 278 1.00
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:307394 original size:487 final size:487
Alignment explanation
Indices: 306769--308076 Score: 2402
Period size: 487 Copynumber: 2.7 Consensus size: 487
306759 GCCTTAGGGT
* *
306769 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCATTTTGATATTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
306834 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
306899 GATGTTTTCAAAGCCTTAGGGTAATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTC
131 GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTC
* *
306964 AGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCC
196 GGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTATAAGTCCTACAGTGCATGATGTTTCC
*
307029 AAAAAGCCTTTAGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGC
261 AAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGC
307094 ATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTGTTATTTTGAAAAATAATAAGAAAAC
326 ATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTGTTATTTTGAAAAA-AATAAGAAAAC
*
307159 GATTTCCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTAAAAAGTAATAAAACAATTT
390 GATTTCCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTAAAAAGTAAGAAAACAATTT
307224 CCTTAG-TTTTTTACTTAGTAAACTATTTCCCA
455 CCTTAGTTTTTTTACTTAGTAAACTATTTCCCA
*
307256 CATCTATAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
307321 AACCTTAGGGTCATCTGTAAGTCCTACACTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
307386 GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTC
131 GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTC
*
307451 GGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTATAAGTCCTATAGTGCATGATGTTTCC
196 GGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTATAAGTCCTACAGTGCATGATGTTTCC
307516 AAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGC
261 AAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGC
*
307581 ATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTGTTATTTTGAAAAAAATGAGAAAACG
326 ATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTGTTATTTTGAAAAAAATAAGAAAACG
*
307646 ATTTCCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTAAAAAGTAAGAAAACGATTTC
391 ATTTCCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTAAAAAGTAAGAAAACAATTTC
307711 CTTAGTTTTTTTACTTAGTAAACTATTTCCCA
456 CTTAGTTTTTTTACTTAGTAAACTATTTCCCA
*
307743 CATCTGTAAGTCCTATAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
307808 AGCCTTAGGGTCATTTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
307873 GATGTTTACAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTC
131 GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTC
*
307938 GGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCACCTATAAGTCCTACAGTGCATGATGTTTCC
196 GGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTATAAGTCCTACAGTGCATGATGTTTCC
* * * **
308003 AAAAAGCCTTCGGGAGTTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGCCCTTTAGTGC
261 AAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGC
308068 ATGATGTTT
326 ATGATGTTT
308077 TCAACATTTC
Statistics
Matches: 794, Mismatches: 26, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
486 79 0.10
487 715 0.90
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (487 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTC
GGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTATAAGTCCTACAGTGCATGATGTTTCC
AAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGC
ATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTGTTATTTTGAAAAAAATAAGAAAACG
ATTTCCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTAAAAAGTAAGAAAACAATTTC
CTTAGTTTTTTTACTTAGTAAACTATTTCCCA
Found at i:307418 original size:563 final size:562
Alignment explanation
Indices: 306214--307619 Score: 2522
Period size: 563 Copynumber: 2.5 Consensus size: 562
306204 CTATTTCCCA
306214 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
** *
306279 AGCCTTAGGGTCATCTGTAAGTCCTACAGTTTATGATGTTTCCAAAAAGCCTTTGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
306344 GATGTTTTTAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTC
131 GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTC
* *
306409 GGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAATGCATGATGTTTCC
196 AGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCC
306474 AAAAAG-C------CTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCAT
261 AAAAAGCCTTGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCAT
*
306532 GATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTGTTATTTTGAAAAATAATGAGAAAACGA
326 GATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTGTTATTTTGAAAAATAATAAGAAAACGA
* *
306597 TTTCCATAGTTTATCATTTTATCTTTTCTAAAATGAAATTGTTAAAAAGTAAGAAAACGATTTCT
391 TTTCCATAGTTTATCATTTTATCTTTTCTAAAATGAAATTGTTAAAAAGTAAGAAAACAATTTCC
* *
306662 TTAGTTTTTTTACTGAGTAAACTATTTCCCACATCTGTAAGTCCTACAGTGTATGATGTTTCCAA
456 TTAGTTTTTTTACTGAGTAAACTATTTCCCACATCTATAAGTCCTACAGTGCATGATGTTTCCAA
*
306727 AAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
521 AAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAACCTTAGGGT
* *
306769 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCATTTTGATATTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
306834 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
306899 GATGTTTTCAAAGCCTTAGGGTAATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTC
131 GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTC
306964 AGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCC
196 AGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCC
307029 AAAAAGCCTTTAGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGC
261 AAAAAGCC-TT-GGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGC
307094 ATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTGTTATTTTGAAAAATAATAAGAAAAC
324 ATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTGTTATTTTGAAAAATAATAAGAAAAC
* *
307159 GATTTCCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTAAAAAGTAATAAAACAATTT
389 GATTTCCATAGTTTATCATTTTATCTTTTCTAAAATGAAATTGTTAAAAAGTAAGAAAACAATTT
*
307224 CCTTAG-TTTTTTACTTAGTAAACTATTTCCCACATCTATAAGTCCTACAGTGCATGATGTTTCC
454 CCTTAGTTTTTTTACTGAGTAAACTATTTCCCACATCTATAAGTCCTACAGTGCATGATGTTTCC
*
307288 AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTAGGGT
519 AAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAACCTTAGGGT
*
307332 CATCTGTAAGTCCTACACTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
307397 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
* *
307462 GATGTTTTCAAAGCCTTAGGGTCATCTATAAGTCCTATAGTGCATGATGTTTCCAAAAAGCCTTC
131 GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTC
307527 AGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCC
196 AGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCC
307592 AAAAAGCCTTCGGGAGCTTTTTGATGTT
261 AAAAAGCCTT--GGAGCTTTTTGATGTT
307620 GTTATTTTGA
Statistics
Matches: 815, Mismatches: 26, Indels: 12
0.96 0.03 0.01
Matches are distributed among these distances:
555 257 0.32
556 1 0.00
562 2 0.00
563 375 0.46
564 180 0.22
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (562 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTC
AGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCC
AAAAAGCCTTGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCAT
GATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTGTTATTTTGAAAAATAATAAGAAAACGA
TTTCCATAGTTTATCATTTTATCTTTTCTAAAATGAAATTGTTAAAAAGTAAGAAAACAATTTCC
TTAGTTTTTTTACTGAGTAAACTATTTCCCACATCTATAAGTCCTACAGTGCATGATGTTTCCAA
AAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAACCTTAGGGT
Found at i:307532 original size:152 final size:152
Alignment explanation
Indices: 307256--308076 Score: 851
Period size: 152 Copynumber: 5.2 Consensus size: 152
307246 CTATTTCCCA
*
307256 CATCTATAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
307321 AACCTTAGGGTCATCTGTAAGTCCTACACTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AACCTTAGGGTCATCTATAAGTCCTACACTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTT
307386 GATGTTTTCAAAGCCTTAGGGT
131 GATGTTTTCAAAGCCTTAGGGT
307408 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* * *
307473 AGCCTTAGGGTCATCTATAAGTCCTATAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTT
66 AACCTTAGGGTCATCTATAAGTCCTACACTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTT
307538 GATGTTTTCAAAGCCTTAGGGT
131 GATGTTTTCAAAGCCTTAGGGT
307560 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTGTTAT
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGA---TG---T
* ** * *** * * * ** * * *
307625 TTTGAAAAAAATGAGAAAACGATTTCCAT-AGTTTCT-CATTTTAT-CT-TTTCTAAAATGAAAT
60 TTT-CAAAACCTTAG-GGTC-A--TCTATAAG-TCCTACACTGCATGATGTTTC--CAA--AAAG
** * * * * * *****
307686 TGTTAAAAAGTAAGAAAACGATTTCCTT-AGTTTTTTTACTTAGTAAACTATTTCCCA
115 CCTT---CAG---G---A-GCTTT--TTGA-TGTT-TT-C--A--AAGC-CTTAGGGT
*
307743 CATCTGTAAGTCCTATAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* * * * *
307808 AGCCTTAGGGTCATTTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AACCTTAGGGTCATCTATAAGTCCTACACTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTT
*
307873 GATGTTTACAAAGCCTTAGGGT
131 GATGTTTTCAAAGCCTTAGGGT
307895 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* * * * *
307960 AGCCTTAGGGTCACCTATAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGTTTTTT
66 AACCTTAGGGTCATCTATAAGTCCTACACTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTT
308025 GATGTTTTCAAAGCCTTAGGGT
131 GATGTTTTCAAAGCCTTAGGGT
* **
308047 CATCTGTAAGCCCTTTAGTGCATGATGTTT
1 CATCTGTAAGTCCTACAGTGCATGATGTTT
308077 TCAACATTTC
Statistics
Matches: 551, Mismatches: 77, Indels: 82
0.78 0.11 0.12
Matches are distributed among these distances:
152 377 0.68
153 3 0.01
155 3 0.01
157 1 0.00
158 5 0.01
159 11 0.02
160 6 0.01
161 6 0.01
162 9 0.02
163 7 0.01
164 5 0.01
165 1 0.00
167 2 0.00
168 1 0.00
170 1 0.00
171 5 0.01
172 5 0.01
173 10 0.02
174 6 0.01
175 6 0.01
176 11 0.02
177 6 0.01
178 1 0.00
180 3 0.01
182 3 0.01
183 57 0.10
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (152 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AACCTTAGGGTCATCTATAAGTCCTACACTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTT
GATGTTTTCAAAGCCTTAGGGT
Found at i:307842 original size:76 final size:76
Alignment explanation
Indices: 307743--308076 Score: 587
Period size: 76 Copynumber: 4.4 Consensus size: 76
307733 CTATTTCCCA
*
307743 CATCTGTAAGTCCTATAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
307808 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
307819 CATTTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTACAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
307884 AGCCTTAGGGT
66 AGCCTTAGGGT
307895 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
307960 AGCCTTAGGGT
66 AGCCTTAGGGT
* * *
307971 CACCTATAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGTTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
308036 AGCCTTAGGGT
66 AGCCTTAGGGT
* **
308047 CATCTGTAAGCCCTTTAGTGCATGATGTTT
1 CATCTGTAAGTCCTACAGTGCATGATGTTT
308077 TCAACATTTC
Statistics
Matches: 245, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 245 1.00
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:308215 original size:3 final size:3
Alignment explanation
Indices: 308209--308271 Score: 83
Period size: 3 Copynumber: 20.7 Consensus size: 3
308199 TCATTTCGTT
**
308209 TTA TTA TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
308255 -TA TATA TTA TTA TTA TT
1 TTA T-TA TTA TTA TTA TT
308272 TAATAAATAT
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
2 2 0.04
3 45 0.85
4 6 0.11
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:309740 original size:12 final size:11
Alignment explanation
Indices: 309723--309752 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
309713 TTAGTCATTA
309723 TTTATTTATAT
1 TTTATTTATAT
309734 TTATATTTATAT
1 TT-TATTTATAT
309746 TTTATTT
1 TTTATTT
309753 GTAATATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTATTTATAT
Found at i:310963 original size:18 final size:18
Alignment explanation
Indices: 310937--310978 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
310927 GGGGTTATTT
*
310937 AATTTTTTTTAAAAATAA
1 AATTATTTTTAAAAATAA
* *
310955 AATTA-TTTTAAATATTA
1 AATTATTTTTAAAAATAA
310972 AATTATT
1 AATTATT
310979 CAAATATTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
AATTATTTTTAAAAATAA
Found at i:310965 original size:17 final size:17
Alignment explanation
Indices: 310943--310978 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
310933 ATTTAATTTT
310943 TTTTAAAAATAAAATTA
1 TTTTAAAAATAAAATTA
* *
310960 TTTTAAATATTAAATTA
1 TTTTAAAAATAAAATTA
310977 TT
1 TT
310979 CAAATATTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTTAAAAATAAAATTA
Found at i:310985 original size:16 final size:17
Alignment explanation
Indices: 310954--310986 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
310944 TTTAAAAATA
*
310954 AAATTATTTTAAATATT
1 AAATTATTTCAAATATT
310971 AAATTA-TTCAAATATT
1 AAATTATTTCAAATATT
310987 CAAAAAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (17 bp):
AAATTATTTCAAATATT
Found at i:310999 original size:16 final size:15
Alignment explanation
Indices: 310962--311036 Score: 50
Period size: 16 Copynumber: 5.0 Consensus size: 15
310952 TAAAATTATT
**
310962 TTAAATATTAAATTA
1 TTAAATATTAAAAAA
310977 TTCAAATATTCAAAAAA
1 TT-AAATATT-AAAAAA
310994 TTAAATA-TAAAAATA
1 TTAAATATTAAAAA-A
*
311009 CTAAA-A-T-AAAAA
1 TTAAATATTAAAAAA
*
311021 TTAAATTACTAAAAAA
1 TTAAA-TATTAAAAAA
311037 AAATTGAATA
Statistics
Matches: 49, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
12 5 0.10
13 4 0.08
14 8 0.16
15 9 0.18
16 17 0.35
17 6 0.12
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (15 bp):
TTAAATATTAAAAAA
Found at i:313638 original size:2 final size:2
Alignment explanation
Indices: 313633--313679 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
313623 TCTCTCTCTC
313633 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
313675 AA TA T
1 TA TA T
313680 CTTCACTTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:323181 original size:26 final size:24
Alignment explanation
Indices: 323119--323181 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 24
323109 CATTTTCATC
323119 AAAATAT-TAATTATTAAAATATTT
1 AAAATATAT-ATTATTAAAATATTT
*
323143 AAAATATAT-TTATTAATAT-TTAT
1 AAAATATATATTATTAAAATATT-T
323166 AATAATATAATATTAT
1 AA-AATAT-ATATTAT
323182 ATTTTTAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
22 2 0.06
23 12 0.36
24 12 0.36
25 3 0.09
26 4 0.12
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
AAAATATATATTATTAAAATATTT
Found at i:323183 original size:22 final size:23
Alignment explanation
Indices: 323136--323199 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 23
323126 TAATTATTAA
* *
323136 AATATTTAAAAT-ATAT-TTATT
1 AATATTTATAATAATATAATATT
323157 AATATTTATAATAATATAATATT
1 AATATTTATAATAATATAATATT
* *
323180 -ATATTTTTAATATTATAATA
1 AATATTTATAATAATATAATA
323200 AAATAATCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 11 0.30
22 22 0.59
23 4 0.11
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
AATATTTATAATAATATAATATT
Found at i:323198 original size:30 final size:33
Alignment explanation
Indices: 323147--323226 Score: 103
Period size: 32 Copynumber: 2.5 Consensus size: 33
323137 ATATTTAAAA
*
323147 TATATTTATTAATATTTATAATAATATAAT-AT
1 TATATTTATTAATATTTATAATAAAATAATAAT
323179 TATATTT-TTAATA-TTATAATAAAATAATCAAT
1 TATATTTATTAATATTTATAATAAAATAAT-AAT
*
323211 TATATTATAATAATAT
1 TATATT-TATTAATAT
323227 AAGATATTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
30 14 0.34
31 6 0.15
32 15 0.37
33 1 0.02
34 5 0.12
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (33 bp):
TATATTTATTAATATTTATAATAAAATAATAAT
Found at i:323321 original size:28 final size:26
Alignment explanation
Indices: 323256--323321 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 26
323246 TTAATAAATA
*
323256 AATATATAATAAATTTTTTATATATTT
1 AATAT-TAATAAATTATTTATATATTT
*
323283 AATAGTGAATAATATTATTTATATATTTT
1 AATA-TTAATAA-ATTATTTATATA-TTT
323312 AATATTAATA
1 AATATTAATA
323322 TAATAATCTA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
27 9 0.27
28 17 0.52
29 7 0.21
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (26 bp):
AATATTAATAAATTATTTATATATTT
Found at i:323325 original size:30 final size:28
Alignment explanation
Indices: 323256--323326 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 28
323246 TTAATAAATA
323256 AATATATAATA-AAT-TTTTTATATATTT
1 AATAT-TAATATAATATTTTTATATATTT
* *
323283 AATAGTGA-ATAATATTATTTATATATTTT
1 AATATTAATATAATATT-TTTATATA-TTT
323312 AATATTAATATAATA
1 AATATTAATATAATA
323327 ATCTAATAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
25 1 0.03
26 5 0.14
27 6 0.17
28 8 0.23
29 9 0.26
30 6 0.17
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATATTAATATAATATTTTTATATATTT
Found at i:323568 original size:14 final size:14
Alignment explanation
Indices: 323549--323593 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
323539 CCAGAAATGT
323549 AATTCATTTTTCAG
1 AATTCATTTTTCAG
**
323563 AATTCAAATTTCAG
1 AATTCATTTTTCAG
323577 TAATTCATTTTTCAG
1 -AATTCATTTTTCAG
323592 AA
1 AA
323594 AATCAATTAC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
14 14 0.54
15 12 0.46
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (14 bp):
AATTCATTTTTCAG
Found at i:323589 original size:15 final size:15
Alignment explanation
Indices: 323547--323591 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
323537 TTCCAGAAAT
323547 GTAATTCATTTTTCA
1 GTAATTCATTTTTCA
**
323562 G-AATTCAAATTTCA
1 GTAATTCATTTTTCA
323576 GTAATTCATTTTTCA
1 GTAATTCATTTTTCA
323591 G
1 G
323592 AAAATCAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.31, C:0.13, G:0.09, T:0.47
Consensus pattern (15 bp):
GTAATTCATTTTTCA
Found at i:333360 original size:18 final size:19
Alignment explanation
Indices: 333325--333361 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
333315 CACGGAATGT
333325 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
333345 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
333362 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:339192 original size:56 final size:56
Alignment explanation
Indices: 339085--339259 Score: 181
Period size: 56 Copynumber: 3.1 Consensus size: 56
339075 AGGGTTCCTA
* * * * *
339085 AAAAATAGGGGCCCTCGAAATCGAGTATATATATATTAGTTGTTGTCATTAATAAGCAT
1 AAAAATAGGGG-TCTCGAAATTGAGTATAT-T-TATCAGTTGTTGCCATTAAGAAGCAT
*
339144 AAAAATAGGGGTCTCGAAATTGAGTATATTTATCAGATGTTGCCATTAAGAAGCAT
1 AAAAATAGGGGTCTCGAAATTGAGTATATTTATCAGTTGTTGCCATTAAGAAGCAT
** * * * * * *
339200 AAAAATAAAGCT-TCCGAAATTGAATATATCTATCCGTTGTTACTATTAAGAAGCAT
1 AAAAATAGGGGTCT-CGAAATTGAGTATATTTATCAGTTGTTGCCATTAAGAAGCAT
339256 AAAA
1 AAAA
339260 GTAAGAATCT
Statistics
Matches: 100, Mismatches: 15, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
55 1 0.01
56 71 0.71
57 1 0.01
58 16 0.16
59 11 0.11
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (56 bp):
AAAAATAGGGGTCTCGAAATTGAGTATATTTATCAGTTGTTGCCATTAAGAAGCAT
Found at i:340842 original size:35 final size:35
Alignment explanation
Indices: 340802--340908 Score: 187
Period size: 35 Copynumber: 3.1 Consensus size: 35
340792 TATTTCTTTT
* * *
340802 CTGGGCTTCCGGAATAAATATACCAAGAGAAGATC
1 CTGGGCTACCGGAATATATGTACCAAGAGAAGATC
340837 CTGGGCTACCGGAATATATGTACCAAGAGAAGATC
1 CTGGGCTACCGGAATATATGTACCAAGAGAAGATC
340872 CTGGGCTACCGGAATATATGTACCAAGAGAAGATC
1 CTGGGCTACCGGAATATATGTACCAAGAGAAGATC
340907 CT
1 CT
340909 TTATAACATT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 69 1.00
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.21
Consensus pattern (35 bp):
CTGGGCTACCGGAATATATGTACCAAGAGAAGATC
Found at i:351055 original size:20 final size:20
Alignment explanation
Indices: 351030--351080 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
351020 TGGAGCGTGG
351030 GGGGAATCGGTACCCCTTAA
1 GGGGAATCGGTACCCCTTAA
351050 GGGGAATCGGTACCCCTTAA
1 GGGGAATCGGTACCCCTTAA
351070 GGGGAATCGGT
1 GGGGAATCGGT
351081 TCCCTAAGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.24, C:0.22, G:0.35, T:0.20
Consensus pattern (20 bp):
GGGGAATCGGTACCCCTTAA
Found at i:351611 original size:13 final size:13
Alignment explanation
Indices: 351593--351617 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
351583 TTTTCTCCCA
351593 TTAAAACACTTAT
1 TTAAAACACTTAT
351606 TTAAAACACTTA
1 TTAAAACACTTA
351618 ACACTTCTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (13 bp):
TTAAAACACTTAT
Found at i:351909 original size:17 final size:18
Alignment explanation
Indices: 351887--351923 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
351877 TCCAAAGTCT
*
351887 AACAATCCACAATA-TCA
1 AACAATCCAAAATATTCA
351904 AACAATCCAAAATATTCA
1 AACAATCCAAAATATTCA
351922 AA
1 AA
351924 ATGTTAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.57, C:0.24, G:0.00, T:0.19
Consensus pattern (18 bp):
AACAATCCAAAATATTCA
Found at i:352241 original size:12 final size:12
Alignment explanation
Indices: 352224--352261 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
352214 TTATTGTGCT
*
352224 TGCTCCTCGGGC
1 TGCTCCTCAGGC
352236 TGCTCCTCAGGC
1 TGCTCCTCAGGC
*
352248 TGCTCCTCAAGC
1 TGCTCCTCAGGC
352260 TG
1 TG
352262 TTCAGGCTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.08, C:0.39, G:0.26, T:0.26
Consensus pattern (12 bp):
TGCTCCTCAGGC
Found at i:353986 original size:20 final size:20
Alignment explanation
Indices: 353957--353994 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
353947 CCCCTTCAAA
*
353957 GGGGGAATCGGTTCCCTCAT
1 GGGGGAATCGATTCCCTCAT
*
353977 GGGGGTATCGATTCCCTC
1 GGGGGAATCGATTCCCTC
353995 TGCACCAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.26, G:0.34, T:0.26
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTCAT
Found at i:359508 original size:102 final size:102
Alignment explanation
Indices: 359386--359574 Score: 333
Period size: 102 Copynumber: 1.9 Consensus size: 102
359376 TTGTTTTTTT
*
359386 TACGAAGGGAGTCAGACCATCACACCTACCATCCCACACTCTAGATGAAAGGGAGCATACCTTCC
1 TACGAAGGGAGTCAGACCATCACACCTACCATCCCACACGCTAGATGAAAGGGAGCATACCTTCC
*
359451 ATCCCCAAGCTAGTCAGGTAGATTTTTTTTATTCTGC
66 ACCCCCAAGCTAGTCAGGTAGATTTTTTTTATTCTGC
* * *
359488 TACGAAGGGAGTCAGCCCATCACACCTACCATCCCATACGCTAGGTGAAAGGGAGCATACCTTCC
1 TACGAAGGGAGTCAGACCATCACACCTACCATCCCACACGCTAGATGAAAGGGAGCATACCTTCC
359553 ACCCCCAAGCTAGTCAGGTAGA
66 ACCCCCAAGCTAGTCAGGTAGA
359575 GTCATCCCAT
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 82 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (102 bp):
TACGAAGGGAGTCAGACCATCACACCTACCATCCCACACGCTAGATGAAAGGGAGCATACCTTCC
ACCCCCAAGCTAGTCAGGTAGATTTTTTTTATTCTGC
Found at i:362207 original size:22 final size:21
Alignment explanation
Indices: 362139--362205 Score: 64
Period size: 21 Copynumber: 3.0 Consensus size: 21
362129 CCTGAAATAG
362139 ATAAAGAAAATAAAAAGTAAATCTAT
1 ATAAA-AAAATAAAAA-TAAA---AT
*
362165 CTAAAAAAATAAAAATAAAAT
1 ATAAAAAAATAAAAATAAAAT
362186 ATAAAAAAAGT-AAAATAAAA
1 ATAAAAAAA-TAAAAATAAAA
362206 ATGCTATGAC
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
21 19 0.50
22 1 0.03
24 4 0.11
25 10 0.26
26 4 0.11
ACGTcount: A:0.73, C:0.03, G:0.04, T:0.19
Consensus pattern (21 bp):
ATAAAAAAATAAAAATAAAAT
Found at i:364483 original size:20 final size:20
Alignment explanation
Indices: 364439--364483 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
364429 GTTTATTTTC
*
364439 AATTTTTAATTTTGAAACAT
1 AATTTTTAATTTTGAAAAAT
*
364459 CATTTTTATATTTT-AAAAAT
1 AATTTTTA-ATTTTGAAAAAT
364479 AATTT
1 AATTT
364484 CTCATAATCC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.53
Consensus pattern (20 bp):
AATTTTTAATTTTGAAAAAT
Found at i:367424 original size:14 final size:14
Alignment explanation
Indices: 367405--367434 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
367395 AAATATTTTT
367405 AATATATGACTTAG
1 AATATATGACTTAG
367419 AATATATGACTTAG
1 AATATATGACTTAG
367433 AA
1 AA
367435 ATCCGAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.47, C:0.07, G:0.13, T:0.33
Consensus pattern (14 bp):
AATATATGACTTAG
Found at i:367443 original size:21 final size:21
Alignment explanation
Indices: 367418--367458 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
367408 ATATGACTTA
367418 GAATATATGACTTAGAAATCC
1 GAATATATGACTTAGAAATCC
367439 GAATATATGACTTAGAAATC
1 GAATATATGACTTAGAAATC
367459 TGACCCGACC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (21 bp):
GAATATATGACTTAGAAATCC
Found at i:368761 original size:20 final size:20
Alignment explanation
Indices: 368736--368774 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
368726 AGTATGTCCA
*
368736 GGGGGTATCGATTCTCCCTG
1 GGGGGTATCGATTCCCCCTG
368756 GGGGGTATCGATTCCCCCT
1 GGGGGTATCGATTCCCCCT
368775 AAAGGAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.10, C:0.28, G:0.33, T:0.28
Consensus pattern (20 bp):
GGGGGTATCGATTCCCCCTG
Found at i:369435 original size:15 final size:15
Alignment explanation
Indices: 369417--369451 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
369407 CGAGGGTATT
369417 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
*
369432 GTAGTCCTTCGGTAC
1 GTAGTCCTTCGGGAC
369447 GTAGT
1 GTAGT
369452 GGTCCTACGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.14, C:0.23, G:0.31, T:0.31
Consensus pattern (15 bp):
GTAGTCCTTCGGGAC
Found at i:373572 original size:88 final size:87
Alignment explanation
Indices: 373414--373583 Score: 288
Period size: 88 Copynumber: 1.9 Consensus size: 87
373404 ATCATAGATC
*
373414 GTTTTTCGTTGCAAAATCGATACCAAAATGTTCACATTTCAGTAATCATTCTTTTGAAATGATTA
1 GTTTTTCGTTGCAAAATCGATACCAAAATGTTCACATTTCACTAATCATTCTTTTGAAATGATTA
373479 GTTTTCTACAAAACCTACATATT
66 GTTTTC-ACAAAACCTACATATT
*
373502 GTTTTTCGTTGCAAAATCGATACCAAAATGTTCACA-TTCACTGATCATTCTTTTGAAATGATTA
1 GTTTTTCGTTGCAAAATCGATACCAAAATGTTCACATTTCACTAATCATTCTTTTGAAATGATTA
*
373566 CTTTTTCACAAAACCTAC
66 -GTTTTCACAAAACCTAC
373584 TCAAAATCAA
Statistics
Matches: 78, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
87 37 0.47
88 41 0.53
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.39
Consensus pattern (87 bp):
GTTTTTCGTTGCAAAATCGATACCAAAATGTTCACATTTCACTAATCATTCTTTTGAAATGATTA
GTTTTCACAAAACCTACATATT
Found at i:381274 original size:14 final size:14
Alignment explanation
Indices: 381255--381288 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
381245 AGCTTTTGAA
*
381255 AGATAGTGATTGTG
1 AGATAGTGATTGCG
381269 AGATAGTGATTGCG
1 AGATAGTGATTGCG
381283 AGATAG
1 AGATAG
381289 AGTATTACCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.32, C:0.03, G:0.35, T:0.29
Consensus pattern (14 bp):
AGATAGTGATTGCG
Found at i:386009 original size:15 final size:18
Alignment explanation
Indices: 385986--386031 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 18
385976 GGTAAGAAAT
385986 TTATTTTTATATTAG-TA
1 TTATTTTTATATTAGTTA
*
386003 -T-TTTTTA-AATAGTTA
1 TTATTTTTATATTAGTTA
386018 TTATTTTTATATTA
1 TTATTTTTATATTA
386032 ATATATTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 7
0.72 0.06 0.22
Matches are distributed among these distances:
14 4 0.17
15 8 0.35
16 2 0.09
17 6 0.26
18 3 0.13
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.65
Consensus pattern (18 bp):
TTATTTTTATATTAGTTA
Found at i:386022 original size:32 final size:34
Alignment explanation
Indices: 385986--386093 Score: 109
Period size: 35 Copynumber: 3.2 Consensus size: 34
385976 GGTAAGAAAT
*
385986 TTATTTTTATATTAGTAT-TTT-T-TAAATAGTTA
1 TTATTTTTATATTAATATATTTATGTAAATA-TTA
386018 TTATTTTTATATTAATATATTTATGTAAATATTA
1 TTATTTTTATATTAATATATTTATGTAAATATTA
* *
386052 TT-TTTTT-TATTAAAATAATATTTATATAATTATTA
1 TTATTTTTATATT--AAT-ATATTTATGTAAATATTA
386087 TTTATTT
1 -TTATTT
386094 AGAATTATTA
Statistics
Matches: 65, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
32 21 0.32
33 8 0.12
34 9 0.14
35 22 0.34
36 2 0.03
37 3 0.05
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (34 bp):
TTATTTTTATATTAATATATTTATGTAAATATTA
Found at i:386255 original size:17 final size:17
Alignment explanation
Indices: 386233--386286 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
386223 AATGTTAATA
386233 TTTAAATTTATTTTTAT
1 TTTAAATTTATTTTTAT
* * * *
386250 TTTAAAGTTATTATGAA
1 TTTAAATTTATTTTTAT
* *
386267 TTTATATTAATTTTTAT
1 TTTAAATTTATTTTTAT
386284 TTT
1 TTT
386287 TTATAATATA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTAAATTTATTTTTAT
Found at i:387847 original size:21 final size:21
Alignment explanation
Indices: 387817--387864 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
387807 GCAGGGGTAC
* *
387817 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
387838 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
387859 ATGCCA
1 ATGCCA
387865 TCTCCGCAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:387894 original size:21 final size:21
Alignment explanation
Indices: 387868--387961 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
387858 TATGCCATCT
* *
387868 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATGCCTAGC
*
387889 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATGCCTAGC
387910 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
387931 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
387952 CCGCAGGGTT
1 CCGCAGGGTT
387962 TTATACCATA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
20 2 0.03
21 65 0.94
22 2 0.03
ACGTcount: A:0.18, C:0.35, G:0.27, T:0.20
Consensus pattern (21 bp):
CCGCAGGGTTACATGCCTAGC
Found at i:388543 original size:33 final size:34
Alignment explanation
Indices: 388484--388580 Score: 133
Period size: 33 Copynumber: 2.9 Consensus size: 34
388474 AAATGTTTTT
*
388484 AAAATACAAATTATATTATTCGAAATTTAAAATA
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* * *
388518 AAAATAAAAATAATATTATTC-AAATTTAAATTT
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* *
388551 AAAATATAAATTATAGTATTCGAAATTTAA
1 AAAATAAAAATTATATTATTCGAAATTTAA
388581 CATTAAATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 28 0.51
34 27 0.49
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.37
Consensus pattern (34 bp):
AAAATAAAAATTATATTATTCGAAATTTAAAATA
Found at i:388587 original size:34 final size:33
Alignment explanation
Indices: 388482--388587 Score: 133
Period size: 34 Copynumber: 3.2 Consensus size: 33
388472 ATAAATGTTT
*
388482 TTAAAATACAAATTATATTATTCGAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCGAAATTT-AAA
* *
388516 TAAAAATAAAAATAATATTATTC-AAATTTAAA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAA
* *
388548 TTTAAAATATAAATTATAGTATTCGAAATTTAACA
1 -TTAAAATAAAAATTATATTATTCGAAATTTAA-A
388583 TTAAA
1 TTAAA
388588 TTTCAACTTA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
32 3 0.05
33 25 0.40
34 33 0.53
35 1 0.02
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (33 bp):
TTAAAATAAAAATTATATTATTCGAAATTTAAA
Found at i:393388 original size:3 final size:3
Alignment explanation
Indices: 393380--393420 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
393370 TTCGGGTCTT
*
393380 TTA TTA TTA TT- TTA TTA -TC TTA TTA TTA TTAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
393421 ATTTACTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
2 3 0.09
3 27 0.82
4 3 0.09
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:397694 original size:19 final size:20
Alignment explanation
Indices: 397657--397696 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
397647 CAGATTGTCC
*
397657 AGGGGGTACAAATTCCCCCT
1 AGGGGGAACAAATTCCCCCT
*
397677 AGGGGGAACAGATTCCCCCT
1 AGGGGGAACAAATTCCCCCT
397697 GCATGGTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.25, C:0.30, G:0.28, T:0.17
Consensus pattern (20 bp):
AGGGGGAACAAATTCCCCCT
Found at i:397834 original size:21 final size:21
Alignment explanation
Indices: 397808--397849 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
397798 ATTTGAATAT
*
397808 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
397829 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
397850 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:398171 original size:34 final size:32
Alignment explanation
Indices: 398132--398201 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
398122 TTTTGTAAAG
*
398132 GGGAAAGGTTCTAGCTTAACCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAACCCG-G-AAAAACTA
* *
398166 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAACCCGGAAAAACTA
398198 GGGA
1 GGGA
398202 GTTTGTAAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 11 0.33
33 1 0.03
34 21 0.64
ACGTcount: A:0.33, C:0.16, G:0.30, T:0.21
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAACCCGGAAAAACTA
Found at i:398870 original size:2 final size:2
Alignment explanation
Indices: 398857--398886 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
398847 TATCGTTTTC
*
398857 AT AT AC 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
398887 CCAATTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:399017 original size:24 final size:25
Alignment explanation
Indices: 398990--399037 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
398980 TAAACCCTAA
*
398990 AATAATT-AATAATACAAACATTAT
1 AATAATTAAATAATAAAAACATTAT
399014 AATAATTAAATAATAAAAACATTA
1 AATAATTAAATAATAAAAACATTA
399038 AAAAACAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (25 bp):
AATAATTAAATAATAAAAACATTAT
Found at i:399081 original size:28 final size:29
Alignment explanation
Indices: 399029--399083 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
399019 TTAAATAATA
399029 AAAACATTAAAAAACAAAAAAATAAAATT
1 AAAACATTAAAAAACAAAAAAATAAAATT
* * *
399058 AAAACATT-ACAAACTAAATAATAAAA
1 AAAACATTAAAAAACAAAAAAATAAAA
399084 ACGATTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 15 0.65
29 8 0.35
ACGTcount: A:0.73, C:0.09, G:0.00, T:0.18
Consensus pattern (29 bp):
AAAACATTAAAAAACAAAAAAATAAAATT
Done.