Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold287
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: 796744
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.34
File 3 of 5
Found at i:311106 original size:112 final size:111
Alignment explanation
Indices: 310927--311200 Score: 276
Period size: 112 Copynumber: 2.5 Consensus size: 111
310917 CTAAAGCGCC
* * * *
310927 AATGGATTAAATTGAATAAAATATGAA-TT-TTTGAAAATCAGACAAGTTTGAAGCTATTGGCTC
1 AATGGATTAAGTTGTATAAAACATGAATTTCTTTGAAAATCAGACAAATTTG-AGCTATTGGCTC
* *
310990 AAAAAATTCAAAAATGATAGGATAT-AAGCCCCA-TTTTCC-TAGGCATG
65 AAAAAATTCAAAAACGATAGCAT-TCAAG--CCATTTTTCCTTAGGCATG
* *
311037 AATGGATTAGGTTGTATAAAACATGAATTTCTTTGAAAATCAGACAAACTTGA-C-ATTGTCTGC
1 AATGGATTAAGTTGTATAAAACATGAATTTCTTTGAAAATCAGACAAATTTGAGCTATTG---GC
* * * *
311100 TTAAAAATTTCAAAACCGATAGCATTCATGCCATTTTTCCTTAGGCATG
63 TCAAAAAATTCAAAAACGATAGCATTCAAGCCATTTTTCCTTAGGCATG
* * * * *
311149 TATGGATCAAGTTGTATAAAACATTAATTTCTTT-TAAATCAAACAAATTTGA
1 AATGGATTAAGTTGTATAAAACATGAATTTCTTTGAAAATCAGACAAATTTGA
311201 TGTTCTTTCA
Statistics
Matches: 137, Mismatches: 19, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
109 4 0.03
110 27 0.20
111 25 0.18
112 81 0.59
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (111 bp):
AATGGATTAAGTTGTATAAAACATGAATTTCTTTGAAAATCAGACAAATTTGAGCTATTGGCTCA
AAAAATTCAAAAACGATAGCATTCAAGCCATTTTTCCTTAGGCATG
Found at i:312201 original size:12 final size:11
Alignment explanation
Indices: 312172--312218 Score: 51
Period size: 12 Copynumber: 4.2 Consensus size: 11
312162 TTACATTCTA
312172 TTTTTC-TTTT
1 TTTTTCTTTTT
*
312182 TCTTTCTTTCTT
1 TTTTTCTTT-TT
312194 TTTTTCTTTTGT
1 TTTTTCTTTT-T
*
312206 TTTTTATTTTT
1 TTTTTCTTTTT
312217 TT
1 TT
312219 ATTTTTTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
10 5 0.16
11 6 0.19
12 20 0.65
ACGTcount: A:0.02, C:0.11, G:0.02, T:0.85
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:312215 original size:20 final size:21
Alignment explanation
Indices: 312172--312223 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
312162 TTACATTCTA
*
312172 TTTTTCTTTTTCTTTCTTTCTT
1 TTTTTC-TTTTCTTTCTTTATT
*
312194 TTTTTCTTTTGTTT-TTTATT
1 TTTTTCTTTTCTTTCTTTATT
*
312214 TTTTTATTTT
1 TTTTTCTTTT
312224 TTATATTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 14 0.52
21 7 0.26
22 6 0.22
ACGTcount: A:0.04, C:0.10, G:0.02, T:0.85
Consensus pattern (21 bp):
TTTTTCTTTTCTTTCTTTATT
Found at i:312224 original size:21 final size:21
Alignment explanation
Indices: 312172--312224 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
312162 TTACATTCTA
* *
312172 TTTTTCTTTTTCTTTCTTTCT
1 TTTTTTTTTTTCTTTCTTTAT
* *
312193 TTTTTTCTTTTGTTT-TTTAT
1 TTTTTTTTTTTCTTTCTTTAT
312213 TTTTTTATTTTT
1 TTTTTT-TTTTT
312225 TATATTTATG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 10 0.38
21 16 0.62
ACGTcount: A:0.04, C:0.09, G:0.02, T:0.85
Consensus pattern (21 bp):
TTTTTTTTTTTCTTTCTTTAT
Found at i:315784 original size:153 final size:152
Alignment explanation
Indices: 315494--315793 Score: 326
Period size: 153 Copynumber: 2.0 Consensus size: 152
315484 AGCATCGATG
*
315494 AACCTATCCTAAACGTATACCTTTAGCATAAAAGTGACTCGGTGACTACCTAAGACTTGGTTCTA
1 AACCTATCCTAAACGTATACCTTGAGCATAAAAGTGACTCGGTGACTACCTAAGACTTGGTTCTA
** * * * *** * *
315559 AAAAATTACCAAAATGCCCCTAAGGTATACCTTTGATGTGAAAATACTTAGTTATTGTAAAGGTC
66 AAAAATTACCAAAATGCCCCTAAAATATACCTTCGATGTGAAAATACTGAGTAACCCTAAAAGAC
*
315624 ATGAAAAT-ATTATAAAAAAATA
131 ATAAAAATGA-TATAAAAAAATA
*
315646 AACCTATCCTAAACGTATACCTTCGA-CATAAAA-TGACTCGGTGACTACC-AAGGACTT-ATGT
1 AACCTATCCTAAACGTATACCTT-GAGCATAAAAGTGACTCGGTGACTACCTAA-GACTTGGT-T
* ** *
315707 CTAAGAAAAATTACCGAAATGCCTTTAAAATATACCTTCGACT-TGAAAGTACTCGA-TAACCCT
63 CT-A-AAAAATTACCAAAATGCCCCTAAAATATACCTTCGA-TGTGAAAATACT-GAGTAACCCT
315770 AAAAGACATAAAAATGATATAAAA
124 AAAAGACATAAAAATGATATAAAA
315794 TGATGACTTT
Statistics
Matches: 123, Mismatches: 17, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
150 3 0.02
151 24 0.20
152 31 0.25
153 62 0.50
154 3 0.02
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.27
Consensus pattern (152 bp):
AACCTATCCTAAACGTATACCTTGAGCATAAAAGTGACTCGGTGACTACCTAAGACTTGGTTCTA
AAAAATTACCAAAATGCCCCTAAAATATACCTTCGATGTGAAAATACTGAGTAACCCTAAAAGAC
ATAAAAATGATATAAAAAAATA
Found at i:326848 original size:20 final size:20
Alignment explanation
Indices: 326819--326936 Score: 125
Period size: 20 Copynumber: 5.8 Consensus size: 20
326809 GTAAAAGGAC
*
326819 AGAATATATCGATACATTGA
1 AGAATGTATCGATACATTGA
*
326839 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTGA
*
326859 TA-CATGTATCGATACATTGGA
1 -AGAATGTATCGATACATT-GA
326880 AG-ATGTATCGATACATCT-A
1 AGAATGTATCGATACAT-TGA
* *
326899 GGTAATGTATCGATATATTGA
1 AG-AATGTATCGATACATTGA
*
326920 AAAATGTATCGATACAT
1 AGAATGTATCGATACAT
326937 CTAGGTAAAA
Statistics
Matches: 82, Mismatches: 9, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
19 2 0.02
20 63 0.77
21 17 0.21
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:326907 original size:41 final size:41
Alignment explanation
Indices: 326825--326944 Score: 158
Period size: 41 Copynumber: 3.0 Consensus size: 41
326815 GGACAGAATA
326825 TATCGATACATT-GAAGAATGTATCGATACAT-TCA--TACATG
1 TATCGATACATTGGAAG-ATGTATCGATACATCT-AGGTA-ATG
326865 TATCGATACATTGGAAGATGTATCGATACATCTAGGTAATG
1 TATCGATACATTGGAAGATGTATCGATACATCTAGGTAATG
* * *
326906 TATCGATATATTGAAAAATGTATCGATACATCTAGGTAA
1 TATCGATACATTGGAAGATGTATCGATACATCTAGGTAA
326945 AAATATGACT
Statistics
Matches: 73, Mismatches: 3, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
40 27 0.37
41 44 0.60
42 2 0.03
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (41 bp):
TATCGATACATTGGAAGATGTATCGATACATCTAGGTAATG
Found at i:333418 original size:18 final size:19
Alignment explanation
Indices: 333395--333430 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
333385 TTTATAAATT
*
333395 AATAAAT-ATTAATTTATC
1 AATAAATAAATAATTTATC
333413 AATAAATAAATAATTTAT
1 AATAAATAAATAATTTAT
333431 TCATGTAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
AATAAATAAATAATTTATC
Found at i:334389 original size:16 final size:16
Alignment explanation
Indices: 334350--334389 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
334340 ATTAAAAATT
* *
334350 AAACATGTTCATATTC
1 AAACATATTCATATTA
334366 AAACATATTCATATTA
1 AAACATATTCATATTA
*
334382 AAATATAT
1 AAACATAT
334390 ATAATAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.38
Consensus pattern (16 bp):
AAACATATTCATATTA
Found at i:334862 original size:24 final size:24
Alignment explanation
Indices: 334790--334886 Score: 87
Period size: 24 Copynumber: 4.2 Consensus size: 24
334780 ATTGAAAGTG
* *
334790 AATTTTTATTTATAACTTAAATAT
1 AATTTTTATTTAAAAATTAAATAT
* * **
334814 -ATTTTTA--TAACAATGAAATCG
1 AATTTTTATTTAAAAATTAAATAT
334835 AATTTTTATTTAAAAATTAAATAT
1 AATTTTTATTTAAAAATTAAATAT
*
334859 AATTTTATATTT-AAAA-TAAAAAT
1 AATTTT-TATTTAAAAATTAAATAT
334882 AATTT
1 AATTT
334887 AAAATATAAT
Statistics
Matches: 58, Mismatches: 11, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
21 8 0.14
22 7 0.12
23 18 0.31
24 20 0.34
25 5 0.09
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.47
Consensus pattern (24 bp):
AATTTTTATTTAAAAATTAAATAT
Found at i:334878 original size:23 final size:24
Alignment explanation
Indices: 334835--334886 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
334825 AATGAAATCG
*
334835 AATTTTTATTTAAAAATTAAATAT
1 AATTTTTATTTAAAAATTAAAAAT
334859 AATTTTATATTT-AAAA-TAAAAAT
1 AATTTT-TATTTAAAAATTAAAAAT
334882 AATTT
1 AATTT
334887 AAAATATAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 11 0.42
24 10 0.38
25 5 0.19
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
AATTTTTATTTAAAAATTAAAAAT
Found at i:335472 original size:24 final size:23
Alignment explanation
Indices: 335427--335472 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
335417 TTGAGTATAT
*
335427 TGATAATAAAATTTAATATTTTA
1 TGATAATAAAATATAATATTTTA
* *
335450 TGATATTAAATATATAATGTTTT
1 TGATAATAAA-ATATAATATTTT
335473 TAATTAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (23 bp):
TGATAATAAAATATAATATTTTA
Found at i:336618 original size:18 final size:20
Alignment explanation
Indices: 336595--336646 Score: 67
Period size: 18 Copynumber: 2.8 Consensus size: 20
336585 TACTTTTAAA
336595 TTATTATTATAAATA-TT-T
1 TTATTATTATAAATATTTAT
336613 TTATTATTA-ATAATATTTAT
1 TTATTATTATA-AATATTTAT
336633 TTATT-TTATAAATA
1 TTATTATTATAAATA
336647 AAAAATATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
17 1 0.03
18 13 0.43
19 9 0.30
20 7 0.23
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TTATTATTATAAATATTTAT
Found at i:337534 original size:21 final size:21
Alignment explanation
Indices: 337510--337549 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
337500 CATATAAAAT
*
337510 TTTTC-CAGTAAACTTTTTATC
1 TTTTCACA-TAAAATTTTTATC
337531 TTTTCACATAAAATTTTTA
1 TTTTCACATAAAATTTTTA
337550 ATTATATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.30, C:0.15, G:0.03, T:0.53
Consensus pattern (21 bp):
TTTTCACATAAAATTTTTATC
Found at i:341931 original size:16 final size:16
Alignment explanation
Indices: 341897--341930 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
341887 TAAAGATTAG
341897 AAAGGAAAGAAGACAA
1 AAAGGAAAGAAGACAA
*
341913 AAAGGGAAGAA-ACAA
1 AAAGGAAAGAAGACAA
341928 AAA
1 AAA
341931 AAATAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.71, C:0.06, G:0.24, T:0.00
Consensus pattern (16 bp):
AAAGGAAAGAAGACAA
Found at i:343433 original size:25 final size:25
Alignment explanation
Indices: 343390--343443 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
343380 TAAGTTTATG
*
343390 ATTATTATTATTTGATTATAATATT
1 ATTATTATTATTTGATTATAATATA
*
343415 ATTATT-TTATTTTATTTATAATATA
1 ATTATTATTATTTGA-TTATAATATA
343440 ATTA
1 ATTA
343444 ATAATAATAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 7 0.27
25 19 0.73
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (25 bp):
ATTATTATTATTTGATTATAATATA
Found at i:345173 original size:16 final size:16
Alignment explanation
Indices: 345145--345178 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
345135 TGATTTCCCT
345145 TTTTGCTTCATTTTTA
1 TTTTGCTTCATTTTTA
345161 TTTT-CTTCAATTTTTA
1 TTTTGCTTC-ATTTTTA
345177 TT
1 TT
345179 AAAAAAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.15, C:0.12, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTTGCTTCATTTTTA
Found at i:348584 original size:2 final size:2
Alignment explanation
Indices: 348577--348602 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
348567 CAAGCACCTG
348577 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
348603 GCTTATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:349480 original size:21 final size:21
Alignment explanation
Indices: 349456--349499 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
349446 TTTCAATCTT
349456 AAAATGAC-AAAAACAAAAGAA
1 AAAATGACGAAAAA-AAAAGAA
* *
349477 AAAATTACGAAAAAATAAGAA
1 AAAATGACGAAAAAAAAAGAA
349498 AA
1 AA
349500 TCGAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.75, C:0.07, G:0.09, T:0.09
Consensus pattern (21 bp):
AAAATGACGAAAAAAAAAGAA
Found at i:361535 original size:21 final size:23
Alignment explanation
Indices: 361480--361536 Score: 59
Period size: 21 Copynumber: 2.6 Consensus size: 23
361470 AAAAAGTATG
361480 AAGATAAAA-ATTTAATATATTC
1 AAGATAAAATATTTAATATATTC
* *
361502 AA-TTAAAATTATTTACT-T-TTC
1 AAGATAAAA-TATTTAATATATTC
361523 AAGATAAAATATTT
1 AAGATAAAATATTT
361537 TATGTAAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
21 15 0.52
22 8 0.28
23 6 0.21
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.42
Consensus pattern (23 bp):
AAGATAAAATATTTAATATATTC
Found at i:361664 original size:21 final size:21
Alignment explanation
Indices: 361640--361679 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
361630 AAATTCTTAT
361640 TAAT-ATTAAAATAATTTAGAA
1 TAATAATTAAAA-AATTTAGAA
*
361661 TAATAATTTAAAAATTTAG
1 TAATAATTAAAAAATTTAG
361680 TGAACAACGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (21 bp):
TAATAATTAAAAAATTTAGAA
Found at i:361799 original size:2 final size:2
Alignment explanation
Indices: 361792--361829 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
361782 GCATAATAAG
*
361792 AT AT AT AT AT GT 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
361830 GATAAAGCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:362711 original size:8 final size:8
Alignment explanation
Indices: 362683--362711 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
362673 GCTATCTTTC
362683 TTTTTCTT
1 TTTTTCTT
362691 TTTTT-TT
1 TTTTTCTT
362698 TTTTTCTT
1 TTTTTCTT
362706 TTTTTC
1 TTTTTC
362712 AAAAGAGATC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (8 bp):
TTTTTCTT
Found at i:362865 original size:3 final size:3
Alignment explanation
Indices: 362859--362891 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
362849 GTTGTTAGAC
362859 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
362892 GTGTTTTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:364509 original size:19 final size:20
Alignment explanation
Indices: 364485--364525 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
364475 ATATTTTAAA
364485 TATATT-GTTTTATATTTAT
1 TATATTAGTTTTATATTTAT
* *
364504 TATATTATTTTTGTATTTAT
1 TATATTAGTTTTATATTTAT
364524 TA
1 TA
364526 ATCATACTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (20 bp):
TATATTAGTTTTATATTTAT
Found at i:365963 original size:275 final size:274
Alignment explanation
Indices: 365459--366012 Score: 1013
Period size: 274 Copynumber: 2.0 Consensus size: 274
365449 CTTTGTTATC
365459 ATATACGTTTTTTTTAATGGATTTTGGAACAACAATTGATGAATATAGTGCCGGTGAGGTTACAT
1 ATATACGTTTTTTTTAATGGATTTTGGAACAACAATTGATGAATATAGTGCCGGTGAGGTTACAT
365524 GATCATTATCTCGGGTATCTTTTGATGAGTAGAGAGGAAAAGAAAATGAAAAATAAAAAACTTGA
66 GATCATTATCTCGGGTATCTTTTGATGAGTAGAGAGGAAAAGAAAATGAAAAATAAAAAACTTGA
* *
365589 CAATAAAAATATAAAAAGGAAAAATATTCATACACTTTTTACAAAAACATAATAATGATTAAAAT
131 CAATAAAAATATAAAAAAGAAAAATATTCATACACTTTTTACAAAAACAAAATAATGATTAAAAT
365654 GTATTTTGCAAATTTAAGACAATATGTTAATTAAATTGTTGAGAATCTTCTCTCTCTCTCTCTCT
196 GTATTTTGCAAATTTAAGACAATATGTTAATTAAATTGTTGAGAATCTTCTCTCTCTCTCTCTCT
365719 CTCTATATATATAT
261 CTCTATATATATAT
* *
365733 ATATACGTTTTTTTTAATGGATTTTTGAACAGA-AATTGATGAATTTAGTGCCGGTGAGGTTACA
1 ATATACGTTTTTTTTAATGGATTTTGGAACA-ACAATTGATGAATATAGTGCCGGTGAGGTTACA
365797 TGATCATTATCTCGGGTATCTTTTGATGAGTAGAGAGGAAAAGAAAATGAAAAATAAAAAACTTG
65 TGATCATTATCTCGGGTATCTTTTGATGAGTAGAGAGGAAAAGAAAATGAAAAATAAAAAACTTG
365862 ACAATAAAAATAATAAAAAAGAAAAATATTCATACACTTTTTA-AAAACACAAAATAATGATTAA
130 ACAATAAAAAT-ATAAAAAAGAAAAATATTCATACACTTTTTACAAAA-ACAAAATAATGATTAA
365926 AATGTATTTTGCAAATTTAAGACAATATGTTAATTAAATTGTTGAGAATCTTCTCTCTCTCTCTC
193 AATGTATTTTGCAAATTTAAGACAATATGTTAATTAAATTGTTGAGAATCTTCTCTCTCTCTCTC
* *
365991 TCTCTCTCTCTATATAT
258 TCTCTCTATATATATAT
366008 ATATA
1 ATATA
366013 TATATGAAAA
Statistics
Matches: 271, Mismatches: 6, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
274 140 0.52
275 131 0.48
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (274 bp):
ATATACGTTTTTTTTAATGGATTTTGGAACAACAATTGATGAATATAGTGCCGGTGAGGTTACAT
GATCATTATCTCGGGTATCTTTTGATGAGTAGAGAGGAAAAGAAAATGAAAAATAAAAAACTTGA
CAATAAAAATATAAAAAAGAAAAATATTCATACACTTTTTACAAAAACAAAATAATGATTAAAAT
GTATTTTGCAAATTTAAGACAATATGTTAATTAAATTGTTGAGAATCTTCTCTCTCTCTCTCTCT
CTCTATATATATAT
Found at i:365984 original size:2 final size:2
Alignment explanation
Indices: 365977--366001 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
365967 TTGAGAATCT
365977 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
366002 ATATATATAT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:366407 original size:34 final size:34
Alignment explanation
Indices: 366377--366454 Score: 142
Period size: 34 Copynumber: 2.4 Consensus size: 34
366367 ATAAATATTT
366377 AAAGAAAGAAAGGGATTAAATTAAAAAAATAAAG
1 AAAGAAAGAAAGGGATTAAATTAAAAAAATAAAG
366411 AAAGAAAGAAAGGGATTAAA-TAAAAAAA-AAAG
1 AAAGAAAGAAAGGGATTAAATTAAAAAAATAAAG
366443 AAAGAAAGAAAG
1 AAAGAAAGAAAG
366455 AAAGGGATTG
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
32 16 0.36
33 8 0.18
34 20 0.45
ACGTcount: A:0.71, C:0.00, G:0.19, T:0.10
Consensus pattern (34 bp):
AAAGAAAGAAAGGGATTAAATTAAAAAAATAAAG
Found at i:366447 original size:36 final size:34
Alignment explanation
Indices: 366377--366463 Score: 138
Period size: 36 Copynumber: 2.5 Consensus size: 34
366367 ATAAATATTT
* *
366377 AAAGAAAGAAAGGGATTAAATTAAAAAAATAAAG
1 AAAGAAAGAAAGGGATTAAATAAAAAAAAGAAAG
366411 AAAGAAAGAAAGGGATTAAATAAAAAAAAAAGAAAG
1 AAAGAAAGAAAGGGATTAAAT--AAAAAAAAGAAAG
366447 AAAGAAAGAAAGGGATT
1 AAAGAAAGAAAGGGATT
366464 GTACCATGAA
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
34 21 0.43
36 28 0.57
ACGTcount: A:0.68, C:0.00, G:0.21, T:0.11
Consensus pattern (34 bp):
AAAGAAAGAAAGGGATTAAATAAAAAAAAGAAAG
Found at i:367653 original size:22 final size:22
Alignment explanation
Indices: 367620--367671 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
367610 AATTTCAATT
* *
367620 CTTTTGCAGCTACTACTCTTTA
1 CTTTTGCCGCTACAACTCTTTA
*
367642 GTTTTGCCGCTACAACTCTTTA
1 CTTTTGCCGCTACAACTCTTTA
367664 CTTTTGCC
1 CTTTTGCC
367672 ATATATTTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.15, C:0.29, G:0.12, T:0.44
Consensus pattern (22 bp):
CTTTTGCCGCTACAACTCTTTA
Found at i:368912 original size:2 final size:2
Alignment explanation
Indices: 368905--368965 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
368895 CATCAGCAAG
368905 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
368947 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
368966 GACTATATGT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:369485 original size:22 final size:23
Alignment explanation
Indices: 369438--369482 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
369428 TTTTAAACTT
*
369438 ATTTTAAATTCAATTATATATTA
1 ATTTTAAAATCAATTATATATTA
*
369461 ATTTTAAAAT-AATTTTAT-TTA
1 ATTTTAAAATCAATTATATATTA
369482 A
1 A
369483 ATTAATTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 4 0.20
22 7 0.35
23 9 0.45
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
ATTTTAAAATCAATTATATATTA
Found at i:369512 original size:37 final size:37
Alignment explanation
Indices: 369440--369512 Score: 89
Period size: 38 Copynumber: 1.9 Consensus size: 37
369430 TTAAACTTAT
369440 TTTAAATTCAATTATATATTAATTTTAAAATAATTTTA
1 TTTAAATTCAATTATATATTAA-TTTAAAATAATTTTA
369478 TTTAAATT-AATTAATTACTATTAA-TTAAAA-AATTT
1 TTTAAATTCAATT-A-TA-TATTAATTTAAAATAATTT
369513 AGTGATAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
37 9 0.28
38 15 0.47
39 2 0.06
40 6 0.19
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.51
Consensus pattern (37 bp):
TTTAAATTCAATTATATATTAATTTAAAATAATTTTA
Found at i:369617 original size:36 final size:37
Alignment explanation
Indices: 369574--369650 Score: 120
Period size: 37 Copynumber: 2.1 Consensus size: 37
369564 ATAAAAAATA
369574 TATAG-AAAAATAGATATTATCTCTTGAAAAAGAAAC
1 TATAGAAAAAATAGATATTATCTCTTGAAAAAGAAAC
* **
369610 TATAGAAAAAATAGATTTTATCTCTTGAAAAATTAAC
1 TATAGAAAAAATAGATATTATCTCTTGAAAAAGAAAC
369647 TATA
1 TATA
369651 TAGCATTATA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
36 5 0.14
37 32 0.86
ACGTcount: A:0.51, C:0.08, G:0.09, T:0.32
Consensus pattern (37 bp):
TATAGAAAAAATAGATATTATCTCTTGAAAAAGAAAC
Found at i:369820 original size:2 final size:2
Alignment explanation
Indices: 369813--369841 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
369803 ATTAAATTTA
369813 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
369842 ATTGAATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:370098 original size:8 final size:8
Alignment explanation
Indices: 370085--370116 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
370075 TACTTTGAGT
370085 AAAAAATA
1 AAAAAATA
370093 AAAAAAT-
1 AAAAAATA
370100 AAAAAATA
1 AAAAAATA
370108 AAAAAATA
1 AAAAAATA
370116 A
1 A
370117 TTGATAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.30
8 16 0.70
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAAATA
Found at i:370123 original size:15 final size:15
Alignment explanation
Indices: 370084--370116 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
370074 GTACTTTGAG
370084 TAAAAAATAAAAAAA
1 TAAAAAATAAAAAAA
370099 TAAAAAATAAAAAAA
1 TAAAAAATAAAAAAA
370114 TAA
1 TAA
370117 TTGATAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (15 bp):
TAAAAAATAAAAAAA
Found at i:371289 original size:17 final size:17
Alignment explanation
Indices: 371264--371304 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
371254 CACAAAGAGC
*
371264 TTAGGAGGTATGATGAG
1 TTAGTAGGTATGATGAG
371281 TTAGTAGGTATGATGAG
1 TTAGTAGGTATGATGAG
371298 TTAGTAG
1 TTAGTAG
371305 ATGATTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.34
Consensus pattern (17 bp):
TTAGTAGGTATGATGAG
Found at i:371557 original size:14 final size:15
Alignment explanation
Indices: 371540--371573 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
371530 ATTTATATAA
*
371540 ATAAATTTACA-GTT
1 ATAAATTTAAACGTT
371554 ATAAATTTAAACGTT
1 ATAAATTTAAACGTT
371569 ATAAA
1 ATAAA
371574 CTATTAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (15 bp):
ATAAATTTAAACGTT
Found at i:371972 original size:22 final size:24
Alignment explanation
Indices: 371945--371988 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
371935 AATTTTTGAA
*
371945 TTATTTAA-ATA-TATATTATATT
1 TTATTTAATATACTATAATATATT
371967 TTATTTAATATACTATAATATA
1 TTATTTAATATACTATAATATA
371989 ATAAATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 3 0.16
24 8 0.42
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
TTATTTAATATACTATAATATATT
Found at i:372016 original size:26 final size:28
Alignment explanation
Indices: 371966--372021 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 28
371956 TATATTATAT
* *
371966 TTTATTTAATATACTATAATATAATAAA
1 TTTATGTAATATACTATAAAATAATAAA
*
371994 TTTATGTAAT-TA-TATAAAATAATTAA
1 TTTATGTAATATACTATAAAATAATAAA
372020 TT
1 TT
372022 AACTAATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 14 0.56
27 2 0.08
28 9 0.36
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (28 bp):
TTTATGTAATATACTATAAAATAATAAA
Found at i:372636 original size:31 final size:31
Alignment explanation
Indices: 372593--372661 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 31
372583 TTACTCTGTA
372593 TCTATCACCAGGAAAAATACAAACTCATTCTC
1 TCTA-CACCAGGAAAAATACAAACTCATTCTC
*
372625 TCTACACCAGGAAAAATACAAAGTCATTCTC
1 TCTACACCAGGAAAAATACAAACTCATTCTC
*
372656 TATACA
1 TCTACA
372662 TCCTCTTGCT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
31 31 0.89
32 4 0.11
ACGTcount: A:0.42, C:0.26, G:0.07, T:0.25
Consensus pattern (31 bp):
TCTACACCAGGAAAAATACAAACTCATTCTC
Found at i:373454 original size:24 final size:25
Alignment explanation
Indices: 373418--373468 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
373408 TCTTTTTCTC
* *
373418 AAAAATTTATTTTT-AAGTTACAAAT
1 AAAAATATATTTTTGAA-TTAAAAAT
373443 AAAAATAT-TTTTTGAATTAAAAAT
1 AAAAATATATTTTTGAATTAAAAAT
373467 AA
1 AA
373469 GAAAAGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (25 bp):
AAAAATATATTTTTGAATTAAAAAT
Found at i:373572 original size:13 final size:13
Alignment explanation
Indices: 373554--373579 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
373544 AAAATTTTAA
373554 AAAAGAAAAAAAG
1 AAAAGAAAAAAAG
373567 AAAAGAAAAAAAG
1 AAAAGAAAAAAAG
373580 GATAGGTGAA
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:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAAAAG
Found at i:374842 original size:2 final size:2
Alignment explanation
Indices: 374835--374873 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
374825 ATTTCCTTCC
*
374835 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AA 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
374874 TGACTTTCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:385495 original size:27 final size:27
Alignment explanation
Indices: 385443--387839 Score: 2360
Period size: 27 Copynumber: 87.7 Consensus size: 27
385433 ACACCTTTTT
* * *
385443 AACTCTGTGGCATTCTTTTAAAGTCCAC
1 AACTCCGTGGCA-CCTTTTTAAGTCCAC
*
385471 AACTCTGTGGCACCTTTTTAAGTCCAC
1 AACTCCGTGGCACCTTTTTAAGTCCAC
* *
385498 AACTCCATGACACCTTTATTAAAGTCCATC
1 AACTCCGTGGCACCTTT-TT-AAGTCCA-C
* *
385528 -ACTCCGTGGCACCCTTTTAGGTCCAC
1 AACTCCGTGGCACCTTTTTAAGTCCAC
** *
385554 AACTTTGTGGCACCTATTTAAGTCCAC
1 AACTCCGTGGCACCTTTTTAAGTCCAC
*
385581 AACTCCGTGGCACCCTTTTAAAGTCCAC
1 AACTCCGTGGCA-CCTTTTTAAGTCCAC
385609 AACTCCGTGGCATCCTTTTTAAGTCCAC
1 AACTCCGTGGCA-CCTTTTTAAGTCCAC
* *
385637 AACTCCATGGTACCTTTTTAAGTCCAC
1 AACTCCGTGGCACCTTTTTAAGTCCAC
* *
385664 AACTCTGTGGCATCCTTTTAAAGTCCAC
1 AACTCCGTGGCA-CCTTTTTAAGTCCAC
* * *
385692 AAGTCCGTGGCACCCTTTTAAGCCCAC
1 AACTCCGTGGCACCTTTTTAAGTCCAC
** *
385719 AACTTGGTGGCACCCTTTTAAAGTCCAC
1 AACTCCGTGGCA-CCTTTTTAAGTCCAC
*
385747 AACTCTGTGGCATCC-TTTTAAGTCCAC
1 AACTCCGTGGCA-CCTTTTTAAGTCCAC
*
385774 AACTCCGTGGCA-CTATTTTAAATCCAC
1 AACTCCGTGGCACCT-TTTTAAGTCCAC
* *
385801 AACTCCGTGGCACCATTTTAAATCCAC
1 AACTCCGTGGCACCTTTTTAAGTCCAC
* *
385828 AACTCCGTGACACCCTTTTAAAGTCCAC
1 AACTCCGTGGCA-CCTTTTTAAGTCCAC
*
385856 AACTCTGTGGCATCC-TTTTAAGTCCAC
1 AACTCCGTGGCA-CCTTTTTAAGTCCAC
* * *
385883 AACTCCGTGGCACCTTTTGAAGTTCAT
1 AACTCCGTGGCACCTTTTTAAGTCCAC
* *
385910 AACTCCGTGGAACCATTTTAAGTCCAC
1 AACTCCGTGGCACCTTTTTAAGTCCAC
*
385937 AACTCTGTGGCACCCTTTTTAAAGTCCAC
1 AACTCCGTGGCA-CCTTTTT-AAGTCCAC
* * * * *
385966 CACTCCATGGCACCCTTTTAGGCCCAC
1 AACTCCGTGGCACCTTTTTAAGTCCAC
* * *
385993 AACTTCATGGCACCTATTTAAGTCCAC
1 AACTCCGTGGCACCTTTTTAAGTCCAC
* *
386020 AACTCTGTGGCACCCTTTTAAGTCCAC
1 AACTCCGTGGCACCTTTTTAAGTCCAC
* *
386047 AACTCCGTGGCATCCTATTAAAGTCCAC
1 AACTCCGTGGCA-CCTTTTTAAGTCCAC
386075 AACTCCGTGGCACCTTTTTAAAGTCCA-
1 AACTCCGTGGCACCTTTTT-AAGTCCAC
* *
386102 AACTCTGTTGCATCCTTTTTAAGTCCAC
1 AACTCCGTGGCA-CCTTTTTAAGTCCAC
* *
386130 AACTCCGTGGCACCCTTTTAAAGTTCAC
1 AACTCCGTGGCA-CCTTTTTAAGTCCAC
*
386158 AACTCCGTGGCACTTTTTTAAGTCCAC
1 AACTCCGTGGCACCTTTTTAAGTCCAC
** *
386185 AACTCCGACGCATCCTTTTAAAGTCCAC
1 AACTCCGTGGCA-CCTTTTTAAGTCCAC
* * ** * * *
386213 GATTTAGTGGCATCATTTTAAGTCTAC
1 AACTCCGTGGCACCTTTTTAAGTCCAC
* * * * *
386240 AACTTCATAGCA-CTCTTTAAAGTCTAC
1 AACTCCGTGGCACCT-TTTTAAGTCCAC
* *
386267 AACACCGTGGCACCCTTTTAAGTCCAC
1 AACTCCGTGGCACCTTTTTAAGTCCAC
* * * *
386294 AACTCCATGGCACCCTTTAAAGTCTAC
1 AACTCCGTGGCACCTTTTTAAGTCCAC
386321 AACTCCGTGGCACCCTTTTTAAGTCCAC
1 AACTCCGTGGCA-CCTTTTTAAGTCCAC
* * *
386349 AACTCCATGGCACCCATTTAAAGTCCAC
1 AACTCCGTGGCA-CCTTTTTAAGTCCAC
*
386377 AACTCCGTGGTATCC-TTTTAAGTCCAC
1 AACTCCGTGGCA-CCTTTTTAAGTCCAC
* ** *
386404 CACTCTATGGCATCC-TTTTAAGTCCAT
1 AACTCCGTGGCA-CCTTTTTAAGTCCAC
* ** *
386431 AACTCCATGATACC-TTTAAAGTCCAC
1 AACTCCGTGGCACCTTTTTAAGTCCAC
* *
386457 AACTCTGT-GCAACCCTTTTAAGTCCAC
1 AACTCCGTGGC-ACCTTTTTAAGTCCAC
**
386484 AACTCTATGGCACCCTTTTTAAAGTCCAC
1 AACTCCGTGGCA-CCTTTTT-AAGTCCAC
* * * * *
386513 CACTCAGTGGCACCCTTTTAGGTCCAT
1 AACTCCGTGGCACCTTTTTAAGTCCAC
* * *
386540 AACTTCGTGGCACCTATTTAAGTCCAT
1 AACTCCGTGGCACCTTTTTAAGTCCAC
* *
386567 AACTCCGTGGCACCCTTTTAAATCCAC
1 AACTCCGTGGCACCTTTTTAAGTCCAC
** * * **
386594 AACTTTGTGGGATTCTTTCAAAGTCCAC
1 AACTCCGTGGCA-CCTTTTTAAGTCCAC
* * *
386622 AACTCCGTGACACCCTTTTAAGTTCAC
1 AACTCCGTGGCACCTTTTTAAGTCCAC
* * * *
386649 AACTCTGTGACACCCTTTTAAAGTCTAC
1 AACTCCGTGGCA-CCTTTTTAAGTCCAC
*
386677 AACTCCGTGGCATCC-TTTTATGTCCAC
1 AACTCCGTGGCA-CCTTTTTAAGTCCAC
*
386704 AACTCTGTGGCACCTTTTTAAGTCCAC
1 AACTCCGTGGCACCTTTTTAAGTCCAC
* * *
386731 AACTCTGTGGCA-TTGTTTTAAACTCCAC
1 AACTCCGTGGCACCT-TTTT-AAGTCCAC
*
386759 AACTCCGTGGCATCCTTTTAAAGTCCAC
1 AACTCCGTGGCA-CCTTTTTAAGTCCAC
* * *
386787 AACTTCGTGGCACCCTTTTAAGTCCAT
1 AACTCCGTGGCACCTTTTTAAGTCCAC
** *
386814 AACTCTATGGCAACCTTTTAAAGTCCAC
1 AACTCCGTGGC-ACCTTTTTAAGTCCAC
* *
386842 AACTCCGTGGCATCTTTTCAAGTCCAC
1 AACTCCGTGGCACCTTTTTAAGTCCAC
* * *
386869 AACTCCATGACACATTTTTAAGTCCAC
1 AACTCCGTGGCACCTTTTTAAGTCCAC
* * *
386896 AACTCTGTGGCATACTTTTAAAGTCCAC
1 AACTCCGTGGCA-CCTTTTTAAGTCCAC
* *
386924 AACTCTGTGGCACCCTTTTAAGTCCAC
1 AACTCCGTGGCACCTTTTTAAGTCCAC
** ** * *
386951 AACTCTATGATACCCTTTTAAAGTCCCC
1 AACTCCGTGGCA-CCTTTTTAAGTCCAC
**
386979 AACTCCACGGCATCC--TTTAAGTCCAC
1 AACTCCGTGGCA-CCTTTTTAAGTCCAC
*
387005 AACTCTGTGGCACCTTTTTAAGTCCAC
1 AACTCCGTGGCACCTTTTTAAGTCCAC
*
387032 AACTCCGTGGCATCC--TTTAAGTTCAC
1 AACTCCGTGGCA-CCTTTTTAAGTCCAC
* *
387058 AACTCCGTGGCACCTTTTAAAGTCAAC
1 AACTCCGTGGCACCTTTTTAAGTCCAC
* *
387085 AACTCCGTGGCACCCTTTAAAGTCCAC
1 AACTCCGTGGCACCTTTTTAAGTCCAC
* *
387112 AACTCTGTGGCA-CTCTTTCAAGTCCAC
1 AACTCCGTGGCACCT-TTTTAAGTCCAC
* * * *
387139 AACTCCGTGGAACCCTTTTGAGTCAAC
1 AACTCCGTGGCACCTTTTTAAGTCCAC
*
387166 AATTCCGTGGCAACCTTTTTAAAGTCCAC
1 AACTCCGTGGC-ACCTTTTT-AAGTCCAC
* * * *
387195 CACTTCGTGGCACCCTTTTAGGTCCAC
1 AACTCCGTGGCACCTTTTTAAGTCCAC
* * *
387222 AACTTCGTGGCAACTATTTAAGTCCAC
1 AACTCCGTGGCACCTTTTTAAGTCCAC
* * * *
387249 AACTCTGTGGCACCCTTTTAAGTCTAT
1 AACTCCGTGGCACCTTTTTAAGTCCAC
* *
387276 AACTCCGTGGCATCCTTTTAAAATCCAC
1 AACTCCGTGGCA-CCTTTTTAAGTCCAC
* *
387304 ATCTCCGTGGCA-CTCTTTCAAGTCCAC
1 AACTCCGTGGCACCT-TTTTAAGTCCAC
*
387331 AACTCCGTGGCACC-TTATAATGTCCAC
1 AACTCCGTGGCACCTTTTTAA-GTCCAC
* *
387358 AACTCCGTGGCACCCTTTTAAAGTCCAT
1 AACTCCGTGGCA-CCTTTTTAAGTCCAC
387386 AACTCCGTGGCACCTTTTTAAGTCCAC
1 AACTCCGTGGCACCTTTTTAAGTCCAC
*
387413 AACTCCGTGGCACCCTTTTAAAGTCCAC
1 AACTCCGTGGCA-CCTTTTTAAGTCCAC
* *
387441 AACTCCGTAGCATCTTTTTAAGTCCAC
1 AACTCCGTGGCACCTTTTTAAGTCCAC
*
387468 AACTCCGTGGCATCCTTTTAAAGTCCAC
1 AACTCCGTGGCA-CCTTTTTAAGTCCAC
* *
387496 AACTCCGTGGCACATTTTTAAGTCTAC
1 AACTCCGTGGCACCTTTTTAAGTCCAC
**
387523 AACTCTAT-GCAATCC--TTTAAGTCCAC
1 AACTCCGTGGC-A-CCTTTTTAAGTCCAC
387549 AACTCCGTGGCACCTTTTTAAGTCCAC
1 AACTCCGTGGCACCTTTTTAAGTCCAC
*
387576 AACTCCGTGGCACCCTTTTAAAGTCCAC
1 AACTCCGTGGCA-CCTTTTTAAGTCCAC
*
387604 AACTCCGTGGCACCTTTTTAAGTCCAT
1 AACTCCGTGGCACCTTTTTAAGTCCAC
*
387631 AACTCCGTAGCACCTTTTTAAAGTCCAC
1 AACTCCGTGGCACCTTTTT-AAGTCCAC
* * **
387659 AACTCCCTAGCATCC-TTTTAAGTTAAC
1 AACTCCGTGGCA-CCTTTTTAAGTCCAC
* *
387686 AACTCCGTGGCATCC-TTTTAGGTCTAC
1 AACTCCGTGGCA-CCTTTTTAAGTCCAC
*
387713 AACTCCGTGGCATCC-TTTAAAGTCCAC
1 AACTCCGTGGCA-CCTTTTTAAGTCCAC
*
387740 AACTCCGTGGCACCTTTTTAAGTCCAT
1 AACTCCGTGGCACCTTTTTAAGTCCAC
*
387767 AACTCCGTGGCACCTTTTTAAGTCTAC
1 AACTCCGTGGCACCTTTTTAAGTCCAC
* * *
387794 TACTCCGTGACACCTTTTAAAGTCCAC
1 AACTCCGTGGCACCTTTTTAAGTCCAC
*
387821 AACTCCGTGGCACCATTTT
1 AACTCCGTGGCACCTTTTT
387840 CAAAGCCCAC
Statistics
Matches: 1952, Mismatches: 354, Indels: 127
0.80 0.15 0.05
Matches are distributed among these distances:
25 7 0.00
26 96 0.05
27 1162 0.60
28 608 0.31
29 77 0.04
30 2 0.00
ACGTcount: A:0.25, C:0.31, G:0.14, T:0.30
Consensus pattern (27 bp):
AACTCCGTGGCACCTTTTTAAGTCCAC
Found at i:385653 original size:55 final size:55
Alignment explanation
Indices: 385443--387861 Score: 2362
Period size: 55 Copynumber: 44.2 Consensus size: 55
385433 ACACCTTTTT
* * * * *
385443 AACTCTGTGGCATTCTTTTAAAGTCCACAACTCTGTGGCA-CCTTTTTAAGTCCAC
1 AACTCCGTGGCA-CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC
* * *
385498 AACTCCATGACACCTTTATTAAAGTCCATC-ACTCCGTGGCACCCTTTT-AGGTCCAC
1 AACTCCGTGGCACCTTT-TT-AAGTCCA-CAACTCCGTGGCACCCTTTTAAAGTCCAC
** *
385554 AACTTTGTGGCACCTATTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC
1 AACTCCGTGGCACCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC
* * *
385609 AACTCCGTGGCATCCTTTTTAAGTCCACAACTCCATGGTA-CCTTTTTAAGTCCAC
1 AACTCCGTGGCA-CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC
* * * *
385664 AACTCTGTGGCATCCTTTTAAAGTCCACAAGTCCGTGGCACCCTTTT-AAGCCCAC
1 AACTCCGTGGCA-CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC
** * * *
385719 AACTTGGTGGCACCCTTTTAAAGTCCACAACTCTGTGGCATCCTTTT-AAGTCCAC
1 AACTCCGTGGCA-CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC
* *
385774 AACTCCGTGGCA-CTATTTTAAATCCACAACTCCGTGGCACCATTTTAAA-TCCAC
1 AACTCCGTGGCACCT-TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC
* * * *
385828 AACTCCGTGACACCCTTTTAAAGTCCACAACTCTGTGGCATCCTTTT-AAGTCCAC
1 AACTCCGTGGCA-CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC
* * * * *
385883 AACTCCGTGGCACCTTTTGAAGTTCATAACTCCGTGGAACCATTTT-AAGTCCAC
1 AACTCCGTGGCACCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC
* * * * *
385937 AACTCTGTGGCACCCTTTTTAAAGTCCACCACTCCATGGCACCCTTTT-AGGCCCAC
1 AACTCCGTGGCA-CCTTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC
* * * *
385993 AACTTCATGGCACCTATTTAAGTCCACAACTCTGTGGCACCCTTTT-AAGTCCAC
1 AACTCCGTGGCACCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC
* * *
386047 AACTCCGTGGCATCCTATTAAAGTCCACAACTCCGTGGCACCTTTTTAAAGTCCA-
1 AACTCCGTGGCA-CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC
* * *
386102 AACTCTGTTGCATCCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTTCAC
1 AACTCCGTGGCA-CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC
* ** *
386158 AACTCCGTGGCACTTTTTTAAGTCCACAACTCCGACGCATCCTTTTAAAGTCCAC
1 AACTCCGTGGCACCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC
* * ** * * * * * * * *
386213 GATTTAGTGGCATCATTTTAAGTCTACAACTTCATAGCACTC-TTTAAAGTCTAC
1 AACTCCGTGGCACCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC
* * * *
386267 AACACCGTGGCACCCTTTTAAGTCCACAACTCCATGGCACCC-TTTAAAGTCTAC
1 AACTCCGTGGCACCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC
* *
386321 AACTCCGTGGCACCCTTTTTAAGTCCACAACTCCATGGCACCCATTTAAAGTCCAC
1 AACTCCGTGGCA-CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC
* * ** * *
386377 AACTCCGTGGTATCC-TTTTAAGTCCACCACTCTATGGCATCCTTTT-AAGTCCAT
1 AACTCCGTGGCA-CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC
* ** * *
386431 AACTCCATGATACC-TTTAAAGTCCACAACTCTGT-GCAACCCTTTT-AAGTCCAC
1 AACTCCGTGGCACCTTTTTAAGTCCACAACTCCGTGGC-ACCCTTTTAAAGTCCAC
** * * * *
386484 AACTCTATGGCACCCTTTTTAAAGTCCACCACTCAGTGGCACCCTTTT-AGGTCCAT
1 AACTCCGTGGCA-CCTTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC
* * *
386540 AACTTCGTGGCACCTATTTAAGTCCATAACTCCGTGGCACCCTTTTAAA-TCCAC
1 AACTCCGTGGCACCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC
** * * ** * *
386594 AACTTTGTGGGATTCTTTCAAAGTCCACAACTCCGTGACACCCTTTT-AAGTTCAC
1 AACTCCGTGGCA-CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC
* * * * * *
386649 AACTCTGTGACACCCTTTTAAAGTCTACAACTCCGTGGCATCCTTTT-ATGTCCAC
1 AACTCCGTGGCA-CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC
* * *** *
386704 AACTCTGTGGCACCTTTTTAAGTCCACAACTCTGTGGCATTGTTTTAAACTCCAC
1 AACTCCGTGGCACCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC
* * *
386759 AACTCCGTGGCATCCTTTTAAAGTCCACAACTTCGTGGCACCCTTTT-AAGTCCAT
1 AACTCCGTGGCA-CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC
** * * *
386814 AACTCTATGGCAACCTTTTAAAGTCCACAACTCCGTGGCA-TCTTTTCAAGTCCAC
1 AACTCCGTGGC-ACCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC
* * * * **
386869 AACTCCATGACACATTTTTAAGTCCACAACTCTGTGGCATACTTTTAAAGTCCAC
1 AACTCCGTGGCACCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC
* * ** ** *
386924 AACTCTGTGGCACCCTTTTAAGTCCACAACTCTATGATACCCTTTTAAAGTCCCC
1 AACTCCGTGGCACCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC
** * *
386979 AACTCCACGGCATCC--TTTAAGTCCACAACTCTGTGGCA-CCTTTTTAAGTCCAC
1 AACTCCGTGGCA-CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC
* *
387032 AACTCCGTGGCATCC--TTTAAGTTCACAACTCCGTGGCA-CCTTTTAAAGTCAAC
1 AACTCCGTGGCA-CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC
* * * * *
387085 AACTCCGTGGCACCCTTTAAAGTCCACAACTCTGTGGCACTC-TTTCAAGTCCAC
1 AACTCCGTGGCACCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC
* * * * * *
387139 AACTCCGTGGAACCCTTTTGAGTCAACAATTCCGTGGCAACCTTTTTAAAGTCCAC
1 AACTCCGTGGCACCTTTTTAAGTCCACAACTCCGTGGC-ACCCTTTTAAAGTCCAC
* * * * * *
387195 CACTTCGTGGCACCCTTTTAGGTCCACAACTTCGTGGCA-ACTATTT-AAGTCCAC
1 AACTCCGTGGCACCTTTTTAAGTCCACAACTCCGTGGCACCCT-TTTAAAGTCCAC
* * * * * *
387249 AACTCTGTGGCACCCTTTTAAGTCTATAACTCCGTGGCATCCTTTTAAAATCCAC
1 AACTCCGTGGCACCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC
* * * *
387304 ATCTCCGTGGCA-CTCTTTCAAGTCCACAACTCCGTGGCA-CCTTATAATGTCCAC
1 AACTCCGTGGCACCT-TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC
* * *
387358 AACTCCGTGGCACCCTTTTAAAGTCCATAACTCCGTGGCA-CCTTTTTAAGTCCAC
1 AACTCCGTGGCA-CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC
* * * *
387413 AACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTAGCA-TCTTTTTAAGTCCAC
1 AACTCCGTGGCA-CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC
* * * *
387468 AACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCA-CATTTTTAAGTCTAC
1 AACTCCGTGGCA-CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC
** *
387523 AACTCTAT-GCAATCC--TTTAAGTCCACAACTCCGTGGCA-CCTTTTTAAGTCCAC
1 AACTCCGTGGC-A-CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC
* * *
387576 AACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCA-CCTTTTTAAGTCCAT
1 AACTCCGTGGCA-CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC
* * * * **
387631 AACTCCGTAGCACCTTTTTAAAGTCCACAACTCCCTAGCATCCTTTT-AAGTTAAC
1 AACTCCGTGGCACCTTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC
* * *
387686 AACTCCGTGGCATCC-TTTTAGGTCTACAACTCCGTGGCATCC-TTTAAAGTCCAC
1 AACTCCGTGGCA-CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC
* * *
387740 AACTCCGTGGCACCTTTTTAAGTCCATAACTCCGTGGCA-CCTTTTTAAGTCTAC
1 AACTCCGTGGCACCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC
* * * * *
387794 TACTCCGTGACACCTTTTAAAGTCCACAACTCCGTGGCACCATTTTCAAAGCCCAC
1 AACTCCGTGGCACCTTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAAGTCCAC
* *
387850 AAGTCAGTGGCA
1 AACTCCGTGGCA
387862 ACTCTTTTCA
Statistics
Matches: 1985, Mismatches: 322, Indels: 113
0.82 0.13 0.05
Matches are distributed among these distances:
52 4 0.00
53 168 0.08
54 605 0.30
55 921 0.46
56 278 0.14
57 9 0.00
ACGTcount: A:0.25, C:0.31, G:0.14, T:0.30
Consensus pattern (55 bp):
AACTCCGTGGCACCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC
Found at i:387872 original size:30 final size:28
Alignment explanation
Indices: 387804--388705 Score: 505
Period size: 30 Copynumber: 30.3 Consensus size: 28
387794 TACTCCGTGA
* * *
387804 CACCTTTT-AAAGTCCACAACTCCGTGG
1 CACCTTTTCAAAGCCCACAAGTCAGTGG
387831 CACCATTTTCAAAGCCCACAAGTCAGTGG
1 CACC-TTTTCAAAGCCCACAAGTCAGTGG
*
387860 CAACTCTTTTCAAAGCCCACAAGTGAGTGG
1 C-AC-CTTTTCAAAGCCCACAAGTCAGTGG
387890 CAACTCTTTTCAAAGTCCACACAAGTC-GATGG
1 C-AC-CTTTTCAAAG-CC-CACAAGTCAG-TGG
*
387922 CAACTCTTTTCAAAGCCCACACAAATC-GATGG
1 C-AC-CTTTTCAAAG-CC-CACAAGTCAG-TGG
* *
387954 CACCCTTTTCAAAGCCCACAAGTCAATGA
1 CA-CCTTTTCAAAGCCCACAAGTCAGTGG
*
387983 CAACTCTTTTCAAAGTCCACACAAGTCGGTGG
1 C-AC-CTTTTCAAAG-CC-CACAAGTCAGTGG
* * * * *
388015 AAACTCCTTTCAAAGCCTACACAAATCGGTCG
1 -CAC-CTTTTCAAAGCC--CACAAGTCAGTGG
* * * * *
388047 CACCCTTCCAAAGCCCATAAATTAGT-G
1 CACCTTTTCAAAGCCCACAAGTCAGTGG
* *
388074 CACC-CTTCTAAAGCCTACACAAGTC-GTAG
1 CACCTTTTC-AAAGCC--CACAAGTCAGTGG
* *
388103 CAACTCTTTTCAAAGCCCACTCAA-ACTGGTGG
1 C-AC-CTTTTCAAAGCCCA--CAAGTC-AGTGG
* * * *
388135 CACCCTTCCAAAGCCTATAAGTCAGT-G
1 CACCTTTTCAAAGCCCACAAGTCAGTGG
* *
388162 -ACTCTCTTTCAAAGTCCACATAAGTCGGTGG
1 CAC-CT-TTTCAAAG-CC-CACAAGTCAGTGG
* *
388193 CAACTCTTTTCAAAGCCAACATAAATC-GATGG
1 C-AC-CTTTTCAAAGCC--CACAAGTCAG-TGG
* * ** * *
388225 CACCATTCCAAAGCTTATAAGTTAGTGG
1 CACCTTTTCAAAGCCCACAAGTCAGTGG
* *
388253 CACCTTTTTAAAGCCCATAAGTCAGTGG
1 CACCTTTTCAAAGCCCACAAGTCAGTGG
* *
388281 CATACCCTTTCAAAGCCCACAAGTCGGTGG
1 C--ACCTTTTCAAAGCCCACAAGTCAGTGG
*
388311 CACCCTTTT-AAAGCTCACCCAAGTCAGTGG
1 CA-CCTTTTCAAAGC-C-CACAAGTCAGTGG
* *
388341 CACCATTTCAAAACCCACAAGTCAGTGG
1 CACCTTTTCAAAGCCCACAAGTCAGTGG
* *
388369 CATACCTTTTCAAAGCCCATAAGTCGGTGG
1 C--ACCTTTTCAAAGCCCACAAGTCAGTGG
*
388399 CACCATTTCAAAGCCCACACAAGTCAGTGG
1 CACCTTTTCAAAG-CC-CACAAGTCAGTGG
* *
388429 CACCCCTTTCAAAGCCCACAAGTCAATGG
1 CA-CCTTTTCAAAGCCCACAAGTCAGTGG
* * *
388458 CATCATTTCAAAGCCCACAAGTTAGTGG
1 CACCTTTTCAAAGCCCACAAGTCAGTGG
* * *
388486 CACCATTTCAAAACCCACAAGTCAATGG
1 CACCTTTTCAAAGCCCACAAGTCAGTGG
* *
388514 CATACCCTTTCAAAGCCCACAAGTCGGTGG
1 C--ACCTTTTCAAAGCCCACAAGTCAGTGG
* * *
388544 TACCCTTTCAAAGCACGCACAAGT-TGATGG
1 CACCTTTTCAAAGC-C-CACAAGTCAG-TGG
*
388574 CAACTCTTTTCAAAGCCTACAAGTCAGTGG
1 C-AC-CTTTTCAAAGCCCACAAGTCAGTGG
* * * *
388604 AACCCTTTAAAAGCACACACAGGTCAGTGG
1 CACCTTTTCAAAGC-C-CACAAGTCAGTGG
* **
388634 CAACTCTTTTCAAATCCCACACAGGTTGGTGG
1 C-AC-CTTTTCAAAGCCCACA-A-GTCAGTGG
*
388666 CAACTCTTTTCAAAGCCCAAACAAGTTAGTGG
1 C-AC-CTTTTCAAAGCCC--ACAAGTCAGTGG
*
388698 CACATTTT
1 CACCTTTT
388706 TTTAAAGCCC
Statistics
Matches: 706, Mismatches: 105, Indels: 125
0.75 0.11 0.13
Matches are distributed among these distances:
26 4 0.01
27 17 0.02
28 155 0.22
29 74 0.10
30 237 0.34
31 58 0.08
32 152 0.22
33 6 0.01
34 3 0.00
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.23
Consensus pattern (28 bp):
CACCTTTTCAAAGCCCACAAGTCAGTGG
Found at i:388138 original size:88 final size:90
Alignment explanation
Indices: 387870--388656 Score: 482
Period size: 88 Copynumber: 8.8 Consensus size: 90
387860 CAACTCTTTT
* * * *
387870 CAAAGCCCACAAGTGAGTGGCAACTCTTTTCAAAGTCCACACAAGTCGATGGCAACTCTTTTCAA
1 CAAAGCCCATAAGTCAGT-GC-ACCCTTTTCAAAGTCCACACAAGTCGGTGGCAACTCTTTTCAA
*
387935 AGCCCACACAAATCGATGGCACCCTTTT
64 AGCCCACACAAATCGATGGCACCC-TTC
* * * * *
387963 CAAAGCCCACAAGTCAATGACAACTCTTTTCAAAGTCCACACAAGTCGGTGGAAACTCCTTTCAA
1 CAAAGCCCATAAGTCAGTG-C-ACCCTTTTCAAAGTCCACACAAGTCGGTGGCAACTCTTTTCAA
* * *
388028 AGCCTACACAAATCGGTCGCACCCTTC
64 AGCCCACACAAATCGATGGCACCCTTC
* * * *
388055 CAAAGCCCATAAATTAGTGCACCCTTCT-AAAG-CCTACACAAGTC-GTAGCAACTCTTTTCAAA
1 CAAAGCCCATAAGTCAGTGCACCCTTTTCAAAGTCC-ACACAAGTCGGTGGCAACTCTTTTCAAA
* *
388117 GCCCACTCAAA-CTGGTGGCACCCTTC
65 GCCCACACAAATC-GATGGCACCCTTC
* * *
388143 CAAAGCCTATAAGTCAGTG-ACTCTCTTTCAAAGTCCACATAAGTCGGTGGCAACTCTTTTCAAA
1 CAAAGCCCATAAGTCAGTGCACCCT-TTTCAAAGTCCACACAAGTCGGTGGCAACTCTTTTCAAA
* * *
388207 GCCAACATAAATCGATGGCACCATTC
65 GCCCACACAAATCGATGGCACCCTTC
** * * * * *
388233 CAAAGCTTATAAGTTAGTGGCA-CCTTTTTAAAG-CC-CATAAGTCAGTGGCATAC-CCTTTCAA
1 CAAAGCCCATAAGTCAGT-GCACCCTTTTCAAAGTCCACACAAGTCGGTGGCA-ACTCTTTTCAA
* * *
388294 AG-CC-CACAAGTCGGTGGCACCCTTT
64 AGCCCACACAAATCGATGGCACCCTTC
* ** * * *
388319 TAAAGCTCACCCAAGTCAGTGGCA-CCATTTCAAA-ACC-CACAAGTCAGTGGCATAC-CTTTTC
1 CAAAGC-C-CATAAGTCAGT-GCACCCTTTTCAAAGTCCACACAAGTCGGTGGCA-ACTCTTTTC
* * * * *
388380 AAAG-CC-CATAAGTCGGTGGCACCATTT
62 AAAGCCCACACAAATCGATGGCACCCTTC
* * ** *
388407 CAAAGCCCACACAAGTCAGTGGCACCCCTTTCAAAG-CC-CACAAGTCAATGGC-A-TCATTTCA
1 CAAAG-CC-CATAAGTCAGT-GCACCCTTTTCAAAGTCCACACAAGTCGGTGGCAACTCTTTTCA
** * * *
388468 AAGCCCACA-AGTTAG-TGGCACCATTT
63 AAGCCCACACAAATCGATGGCACCCTTC
* * * * *
388494 CAAAACCCACAAGTCAATGGCATACCC-TTTCAAAG-CC-CACAAGTCGGTGG-TAC-CCTTTCA
1 CAAAGCCCATAAGTCAGT-GC--ACCCTTTTCAAAGTCCACACAAGTCGGTGGCAACTCTTTTCA
* * * * * *
388554 AAGCACGCACAAGTTGATGGCAACTCTTTT
63 AAGCCCACACAAATCGATGGC-AC-CCTTC
* * * * * *
388584 CAAAGCCTACAAGTCAGTGGAACCC-TTTAAAAG-CACACACAGGTCAGTGGCAACTCTTTTCAA
1 CAAAGCCCATAAGTCAGT-GCACCCTTTTCAAAGTC-CACACAAGTCGGTGGCAACTCTTTTCAA
*
388647 ATCCCACACA
64 AGCCCACACA
388657 GGTTGGTGGC
Statistics
Matches: 574, Mismatches: 88, Indels: 65
0.79 0.12 0.09
Matches are distributed among these distances:
85 13 0.02
86 58 0.10
87 38 0.07
88 188 0.33
89 59 0.10
90 99 0.17
91 7 0.01
92 33 0.06
93 79 0.14
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (90 bp):
CAAAGCCCATAAGTCAGTGCACCCTTTTCAAAGTCCACACAAGTCGGTGGCAACTCTTTTCAAAG
CCCACACAAATCGATGGCACCCTTC
Found at i:388206 original size:178 final size:181
Alignment explanation
Indices: 387901--388656 Score: 530
Period size: 178 Copynumber: 4.2 Consensus size: 181
387891 AACTCTTTTC
*
387901 AAAGTCCACACAAGTCGATGGCAACTCTTTTCAAAGCCCACACAAATCGATGGCACCCTTTTCAA
1 AAAG-CCACACAAGTCG-TGGCAACTCTTTTCAAAGCCCACACAAATCGATGGCACCCTTTCCAA
387966 AGCCCACAAGTCAATGACAACTCTTTTCAAAGTCCACACAAGTCGGTGGAAACTCCTTTCAAAGC
64 AGCCCACAAGTCAATGACAACTCTTTTCAAAGTCCACACAAGTCGGTGGAAACTCCTTTCAAAGC
* * *
388031 CTACACAAATCGGTCGCACCCTTCCAAAGCCCATAAATTAGT-GCACCCTTCT
129 CAACACAAATCGATCGCACCATTCCAAAGCCCATAAATTAGTGGCACCCTTCT
* * *
388083 AAAGCCTACACAAGTCGTAGCAACTCTTTTCAAAGCCCACTCAAA-CTGGTGGCACCC-TTCCAA
1 AAAGCC-ACACAAGTCGTGGCAACTCTTTTCAAAGCCCACACAAATC-GATGGCACCCTTTCCAA
* * * * * * *
388146 AGCCTATAAGTCAGTGAC-TCTC-TTTCAAAGTCCACATAAGTCGGTGGCAACTCTTTTCAAAGC
64 AGCCCACAAGTCAATGACAACTCTTTTCAAAGTCCACACAAGTCGGTGGAAACTCCTTTCAAAGC
* * ** * * *
388209 CAACATAAATCGATGGCACCATTCCAAAGCTTATAAGTTAGTGGCACCTTTTT
129 CAACACAAATCGATCGCACCATTCCAAAGCCCATAAATTAGTGGCACCCTTCT
* * * * *
388262 AAAGCC-CATAAGTCAGTGGCATAC-CCTTTCAAAG-CC-CACAAGTCGGTGGCACCCTTT-TAA
1 AAAGCCACACAAGTC-GTGGCA-ACTCTTTTCAAAGCCCACACAAATCGATGGCACCCTTTCCAA
* * * * * * * *
388322 AGCTCACCCAAGTCAGTGGC-AC-CATTTCAAA-ACC-CACAAGTCAGTGGCATAC-CTTTTCAA
64 AGC-C-CACAAGTCAATGACAACTCTTTTCAAAGTCCACACAAGTCGGTGG-AAACTCCTTTCAA
* * * * * * *
388382 AGCC--CATAAGTCGGTGGCACCATTTCAAAGCCCACACAAGTCAGTGGCACCCCTT-T
126 AGCCAACACAAATCGATCGCACCATTCCAAAGCCCATA-AA-TTAGTGGCA-CCCTTCT
* * ** * *
388438 CAAAGCC-CACAAGTCAATGGC-A-TCATTTCAAAGCCCACA-AGTTAG-TGGCACCATTT-CAA
1 -AAAGCCACACAAGTC-GTGGCAACTCTTTTCAAAGCCCACACAAATCGATGGCACCCTTTCCAA
* * * *
388497 AACCCACAAGTCAATGGCATAC-CCTTTCAAAG-CC-CACAAGTCGGTGG-TAC-CCTTTCAAAG
64 AGCCCACAAGTCAATGACA-ACTCTTTTCAAAGTCCACACAAGTCGGTGGAAACTCCTTTCAAAG
* * * * * * * * * * *
388557 -CACGCACAAGTTGATGGCAACTCTTTTCAAAGCCTACAAGTCAGTGGAACCCTT-T
128 CCA-ACACAAATCGATCGC-AC-CATTCCAAAGCCCATAAATTAGTGGCACCCTTCT
* *
388612 AAAAGCACACACAGGTCAGTGGCAACTCTTTTCAAATCCCACACA
1 -AAAGC-CACACAAGTC-GTGGCAACTCTTTTCAAAGCCCACACA
388657 GGTTGGTGGC
Statistics
Matches: 471, Mismatches: 72, Indels: 65
0.77 0.12 0.11
Matches are distributed among these distances:
172 1 0.00
173 24 0.05
174 38 0.08
175 69 0.15
176 71 0.15
177 57 0.12
178 119 0.25
179 20 0.04
180 21 0.04
181 37 0.08
182 14 0.03
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (181 bp):
AAAGCCACACAAGTCGTGGCAACTCTTTTCAAAGCCCACACAAATCGATGGCACCCTTTCCAAAG
CCCACAAGTCAATGACAACTCTTTTCAAAGTCCACACAAGTCGGTGGAAACTCCTTTCAAAGCCA
ACACAAATCGATCGCACCATTCCAAAGCCCATAAATTAGTGGCACCCTTCT
Found at i:389245 original size:17 final size:16
Alignment explanation
Indices: 389222--389260 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
389212 TGACTTATTT
389222 GAAAAAATACAAAAAAA
1 GAAAAAATA-AAAAAAA
* *
389239 TAAAAAATAAGAAAAA
1 GAAAAAATAAAAAAAA
389255 GAAAAA
1 GAAAAA
389261 TTGAGTGGCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.82, C:0.03, G:0.08, T:0.08
Consensus pattern (16 bp):
GAAAAAATAAAAAAAA
Found at i:396092 original size:20 final size:21
Alignment explanation
Indices: 396044--396096 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
396034 TAAGTGAATG
**
396044 TATCGATACATGCTTGCAATA
1 TATCGATACATTATTGCAATA
* *
396065 TATTGATACATTATT-CATTA
1 TATCGATACATTATTGCAATA
396085 TATCGATACATT
1 TATCGATACATT
396097 CTGGGTTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.42
Consensus pattern (21 bp):
TATCGATACATTATTGCAATA
Found at i:397106 original size:20 final size:19
Alignment explanation
Indices: 397081--397129 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
397071 ATAAAACCAT
*
397081 AAAAAATAAAAAAATCAACA
1 AAAAAATAAAAAAAACAA-A
*
397101 AAAAAATATAAAAAAACCAA
1 AAAAAATA-AAAAAAACAAA
397121 AAAAAATAA
1 AAAAAATAA
397130 TCAAAATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 1 0.04
20 17 0.65
21 8 0.31
ACGTcount: A:0.82, C:0.08, G:0.00, T:0.10
Consensus pattern (19 bp):
AAAAAATAAAAAAAACAAA
Found at i:397111 original size:22 final size:20
Alignment explanation
Indices: 397081--397154 Score: 67
Period size: 22 Copynumber: 3.4 Consensus size: 20
397071 ATAAAACCAT
*
397081 AAAAAATAAAAAAATCAACAA
1 AAAAAATAAAAAAACCAA-AA
397102 AAAAATATAAAAAAACCAAAA
1 AAAAA-ATAAAAAAACCAAAA
* *
397123 AAAATAATCAAAATAATCGAAATA
1 AAAA-AAT-AAAA-AAACCAAA-A
397147 AAAAAATA
1 AAAAAATA
397155 TTATTATTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
21 13 0.29
22 18 0.40
23 9 0.20
24 5 0.11
ACGTcount: A:0.77, C:0.08, G:0.01, T:0.14
Consensus pattern (20 bp):
AAAAAATAAAAAAACCAAAA
Found at i:398105 original size:24 final size:25
Alignment explanation
Indices: 398052--398108 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 25
398042 AACAAGCAAT
*
398052 ATGAGCAAAGGAGAGTAGTAAAAGG
1 ATGAGCAAAGGAGAGCAGTAAAAGG
* * *
398077 -CGAGCAAAGGATAGCAG-CAAAGG
1 ATGAGCAAAGGAGAGCAGTAAAAGG
398100 ATGAGCAAA
1 ATGAGCAAA
398109 AGGGAATACG
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
23 5 0.19
24 21 0.81
ACGTcount: A:0.47, C:0.11, G:0.33, T:0.09
Consensus pattern (25 bp):
ATGAGCAAAGGAGAGCAGTAAAAGG
Found at i:398821 original size:16 final size:16
Alignment explanation
Indices: 398786--398820 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
398776 TTAAATTTTC
398786 AAAA-AAAATAATAAT
1 AAAATAAAATAATAAT
398801 AAAATAAAATAATAAAT
1 AAAATAAAATAAT-AAT
398818 AAA
1 AAA
398821 TTCATTTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
16 8 0.44
17 6 0.33
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (16 bp):
AAAATAAAATAATAAT
Found at i:403348 original size:13 final size:13
Alignment explanation
Indices: 403330--403355 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
403320 CTATTTATGA
403330 TGTATCGATACAC
1 TGTATCGATACAC
403343 TGTATCGATACAC
1 TGTATCGATACAC
403356 ACAAATATGT
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:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:405313 original size:20 final size:18
Alignment explanation
Indices: 405288--405326 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
405278 ATGCTTGTAC
*
405288 TTGCATTGTTTCATGCATAT
1 TTGCATT-TTACATG-ATAT
405308 TTGCATTTTACATGATAT
1 TTGCATTTTACATGATAT
405326 T
1 T
405327 GGGATTTGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 6 0.33
20 7 0.39
ACGTcount: A:0.23, C:0.13, G:0.13, T:0.51
Consensus pattern (18 bp):
TTGCATTTTACATGATAT
Found at i:406241 original size:10 final size:10
Alignment explanation
Indices: 406226--406282 Score: 53
Period size: 10 Copynumber: 5.5 Consensus size: 10
406216 TTGGTTGTTG
406226 AAAAAGAAAA
1 AAAAAGAAAA
*
406236 AAAAAGAGAA
1 AAAAAGAAAA
406246 AAAAAGATGAAA
1 AAAAAGA--AAA
*
406258 ATAAA-AAAA
1 AAAAAGAAAA
*
406267 AAAAGGAAAA
1 AAAAAGAAAA
406277 AGAAAA
1 A-AAAA
406283 AAATTTCTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
9 6 0.16
10 21 0.57
11 4 0.11
12 6 0.16
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:406247 original size:12 final size:11
Alignment explanation
Indices: 406226--406285 Score: 59
Period size: 12 Copynumber: 5.2 Consensus size: 11
406216 TTGGTTGTTG
406226 AAAAAGAAAAA
1 AAAAAGAAAAA
406237 AAAAGAGAAAAA
1 AAAA-AGAAAAA
* *
406249 AAGATGAAAATA
1 AAAAAGAAAA-A
406261 AAAAA-AAAAA
1 AAAAAGAAAAA
406271 GGAAAAAGAAAAA
1 --AAAAAGAAAAA
406284 AA
1 AA
406286 TTTCTAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
10 1 0.03
11 15 0.38
12 19 0.47
13 5 0.12
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.03
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:406258 original size:19 final size:18
Alignment explanation
Indices: 406236--406285 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
406226 AAAAAGAAAA
* *
406236 AAAAAGAGAAAAAAAGATG
1 AAAAAGA-AAAAAAAAAGG
406255 AAAATA-AAAAAAAAAAGG
1 AAAA-AGAAAAAAAAAAGG
406273 AAAAAGAAAAAAA
1 AAAAAGAAAAAAA
406286 TTTCTAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 1 0.04
18 20 0.74
19 5 0.19
20 1 0.04
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (18 bp):
AAAAAGAAAAAAAAAAGG
Found at i:406559 original size:90 final size:90
Alignment explanation
Indices: 406402--406951 Score: 626
Period size: 90 Copynumber: 6.1 Consensus size: 90
406392 TATCTTTTGA
* * * *
406402 TTTC-TTGGGGCAAGGTGTAGCCCACACCTTCCCAATCGTATCCCCTTCATCCAACTATTAGATG
1 TTTCTTTGGGGCAAGGTGCAGCCCACACATTCCCAATCATATCCCCTTCATCCAACTACTAGATG
*
406466 GTATTGATGCATCACAAAGCCTAAT
66 GTATTGATGCATCACAAAGCCTGAT
* * *
406491 TTTCTTTGGGGTAAGATGCAGCCCACACCTTCCCAATCATATCCCCTTCATCCAACTACTAGATG
1 TTTCTTTGGGGCAAGGTGCAGCCCACACATTCCCAATCATATCCCCTTCATCCAACTACTAGATG
406556 GTATTGATGCATCACAAAGCCTGAT
66 GTATTGATGCATCACAAAGCCTGAT
* * * *
406581 TTCCTTTGAGGCAAGCTGCAGCCCACACATTCCCAATTATATCCCCTTCATCCAACTACTAGATG
1 TTTCTTTGGGGCAAGGTGCAGCCCACACATTCCCAATCATATCCCCTTCATCCAACTACTAGATG
*
406646 GTATTGATGCATCACAAAACCTGAT
66 GTATTGATGCATCACAAAGCCTGAT
* * * ** * ** *
406671 ATCCTTTGGGGTAAGGTGGTGCCCACACATTCCCAATCATATCCCCTTTATTGAACCACTAGATG
1 TTTCTTTGGGGCAAGGTGCAGCCCACACATTCCCAATCATATCCCCTTCATCCAACTACTAGATG
*
406736 GTATTGATGCATCACAAAGCCTAAT
66 GTATTGATGCATCACAAAGCCTGAT
* * * * ** * * * *
406761 TTCCTTTGGGACAAGGTGTAACCCTTACATTCCCAATGATATCCCCTTTATTCAACCACTAGATG
1 TTTCTTTGGGGCAAGGTGCAGCCCACACATTCCCAATCATATCCCCTTCATCCAACTACTAGATG
* ** *
406826 GTATTGATACATCATGAAGCTTGA-
66 GTATTGATGCATCACAAAGCCTGAT
* * * * * * *
406850 TTT-TATGAAGGCAAGGTGCAGCCCCCACATTCCCGATCATATTCCATTCA-CACAA-TCATTAG
1 TTTCTTTG-GGGCAAGGTGCAGCCCACACATTCCCAATCATATCCCCTTCATC-CAACT-ACTAG
406912 ATGGTATTGATGCATCACAAAGCCTGA-
63 ATGGTATTGATGCATCACAAAGCCTGAT
*
406939 TTTCCTTGGGGCA
1 TTTCTTTGGGGCA
406952 GGGATATCCC
Statistics
Matches: 392, Mismatches: 64, Indels: 10
0.84 0.14 0.02
Matches are distributed among these distances:
88 3 0.01
89 74 0.19
90 315 0.80
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.29
Consensus pattern (90 bp):
TTTCTTTGGGGCAAGGTGCAGCCCACACATTCCCAATCATATCCCCTTCATCCAACTACTAGATG
GTATTGATGCATCACAAAGCCTGAT
Found at i:407225 original size:35 final size:36
Alignment explanation
Indices: 407186--407279 Score: 100
Period size: 36 Copynumber: 2.6 Consensus size: 36
407176 CGATCAAATT
* * * *
407186 TTTTCATCATT-GTTTGACTGTATCTGGTTAAACTC
1 TTTTCATCATTCATTTGACTATACCTGGTCAAACTC
* *
407221 TTTTCATCTTTCATTTGATTATACCTGGTCAAACTC
1 TTTTCATCATTCATTTGACTATACCTGGTCAAACTC
** *
407257 TTTTCATCCCTCGTTTGACTATA
1 TTTTCATCATTCATTTGACTATA
407280 TTGGTGTTAG
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
35 10 0.21
36 38 0.79
ACGTcount: A:0.20, C:0.21, G:0.11, T:0.48
Consensus pattern (36 bp):
TTTTCATCATTCATTTGACTATACCTGGTCAAACTC
Found at i:407274 original size:36 final size:36
Alignment explanation
Indices: 407198--407279 Score: 101
Period size: 36 Copynumber: 2.3 Consensus size: 36
407188 TTCATCATTG
* * * **
407198 TTTGACTGTATCTGGTTAAACTCTTTTCATCTTTCA
1 TTTGACTATACCTGGTCAAACTCTTTTCATCCCTCA
* *
407234 TTTGATTATACCTGGTCAAACTCTTTTCATCCCTCG
1 TTTGACTATACCTGGTCAAACTCTTTTCATCCCTCA
407270 TTTGACTATA
1 TTTGACTATA
407280 TTGGTGTTAG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.21, C:0.22, G:0.11, T:0.46
Consensus pattern (36 bp):
TTTGACTATACCTGGTCAAACTCTTTTCATCCCTCA
Found at i:408104 original size:13 final size:13
Alignment explanation
Indices: 408086--408111 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
408076 CAATTTTTTG
408086 TGTATCGATACAT
1 TGTATCGATACAT
408099 TGTATCGATACAT
1 TGTATCGATACAT
408112 ACTTGTTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:410672 original size:13 final size:13
Alignment explanation
Indices: 410654--410692 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
410644 ATAATCACCC
410654 TGTATCGATACAA
1 TGTATCGATACAA
410667 TGTATCGATACAA
1 TGTATCGATACAA
*
410680 TGTATCAATACAA
1 TGTATCGATACAA
410693 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:414633 original size:21 final size:21
Alignment explanation
Indices: 414604--414648 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
414594 AAGTTTTCAT
*
414604 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
414624 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
414646 TTT
1 TTT
414649 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:417683 original size:85 final size:84
Alignment explanation
Indices: 417593--420827 Score: 1068
Period size: 85 Copynumber: 38.2 Consensus size: 84
417583 CCTCATCTCA
* *
417593 AGTCTGCCTGTCGGCTTTAACCCTAAAGACTTCTTTACCCTTAAGT-TAGCTTGTCGGCTTTGAC
1 AGTCTGCCTGTCGGCTTTGACCCTAAAGACTTCTTCA-CCTTAAGTCT-GCTTGTCGGCTTTGAC
*
417657 CCTTGAAACTTTTTTACCTTC
64 CCTGGAAACTTTTTTACCTTC
* * * *
417678 AGTCTGCCTG-CTGACTTTGACCCTAGAGACTTCTTCACCTTAAGTCTGCTTGTTGGCTTTGACT
1 AGTCTGCCTGTC-GGCTTTGACCCTAAAGACTTCTTCACCTTAAGTCTGCTTGTCGGCTTTGACC
* *
417742 CTGGAGACTTTTTTACCTTT
65 CTGGAAACTTTTTTACCTTC
* *** * * * * ** *
417762 AGTCTGCCTATCGGCTTTGACCCGGGAGACTGCCTCATCTTAAGTCTGCCTGTTAGCTTTGACCT
1 AGTCTGCCTGTCGGCTTTGACCCTAAAGACTTCTTCACCTTAAGTCTGCTTGTCGGCTTTGACCC
* * *
417827 TGGAGACTTTTTCACCCTTA
66 TGGAAACTTTTTTA-CCTTC
* * * * * * *
417847 AGTCTGCCTGTTGACTTTGACCCTAGAGACTTTCTT-ACTTTCAGTCTGCATGTCGACTTTGACC
1 AGTCTGCCTGTCGGCTTTGACCCTAAAGAC-TTCTTCACCTTAAGTCTGCTTGTCGGCTTTGACC
* * * *
417911 TTGGAGA-TTGCTTCATCC--C
65 CTGGAAACTT-TTTTA-CCTTC
* * * * *
417930 AAGTATGCCCGTTGGCTTTGACCCTAAAGACTTCTTCACCCTTAAGTCTACTTGTCGACTTTGAC
1 -AGTCTGCCTGTCGGCTTTGACCCTAAAGACTTCTTCA-CCTTAAGTCTGCTTGTCGGCTTTGAC
* * * * *
417995 CCTAGAGACATTCTTACCTTT
64 CCTGGAAACTTTTTTACCTTC
*** * * * * * * * *
418016 AGTCTATTTGTCGGCTTTGACCTTGGAA-ACTGCCTT-ATCTCAAGTCTACCTGCCGGCTTTGAC
1 AGTCTGCCTGTCGGCTTTGACCCT-AAAGACT-TCTTCACCTTAAGTCTGCTTGTCGGCTTTGAC
* * * * *
418079 CTTAGAGACTTTTTCACCCTTA
64 CCTGGAAACTTTTTTA-CCTTC
* * ** * * *
418101 AGTCTGCTTATCAACTTTGACCCTAGAA-ACTTTCTT-ACCTTCAGTTTGCTTGTTGGCTTTGAC
1 AGTCTGCCTGTCGGCTTTGACCCTA-AAGAC-TTCTTCACCTTAAGTCTGCTTGTCGGCTTTGAC
* *** * * *
418164 TC-GAGAGAA-TGGCTCATCTTA
64 CCTG-GA-AACTTTTTTACCTTC
* * * ** * * *
418185 AGTCTGCCTATCGGTTTTGACCTTGGAGACTTTTTTACCCTTAAGTCTGCTTGTCGACTTTGACC
1 AGTCTGCCTGTCGGCTTTGACCCTAAAGACTTCTTCA-CCTTAAGTCTGCTTGTCGGCTTTGACC
* *
418250 TTGGAGACTTTTTTACCTTC
65 CTGGAAACTTTTTTACCTTC
* * * * * * ** * * * * *
418270 ACTCTTCGTGTCAGTTTTGACCTTGGAGA-TTGCCTCATCTCAAGTCTGCATGTCAGCTTTGACC
1 AGTCTGCCTGTCGGCTTTGACCCTAAAGACTT-CTTCACCTTAAGTCTGCTTGTCGGCTTTGACC
* *
418334 CTGGAGACTTCTTTACCCTT-
65 CTGGAAACTTTTTTA-CCTTC
* * * * ** * * * * *
418354 ATGTTTGCCTATCAGCTTTGACCTTGGAGACTTTCTT-ACTTTCAG-CTTGCCTATCGGTTTTGA
1 A-GTCTGCCTGTCGGCTTTGACCCTAAAGAC-TTCTTCACCTTAAGTC-TGCTTGTCGGCTTTGA
* * *** * *
418417 CCTTGGAGACTAGCTCATC-TC
63 CCCTGGAAACTTTTTTACCTTC
* * * * * * *
418438 AAGTCTACCTATCAGCGTTGACCCTGAAGACTTCTTCACCCTTAAGTCTACTTGTCAGCTTTGAC
1 -AGTCTGCCTGTCGGCTTTGACCCTAAAGACTTCTTCA-CCTTAAGTCTGCTTGTCGGCTTTGAC
*
418503 CCTGGAGACTTTTTTACCTTC
64 CCTGGAAACTTTTTTACCTTC
* * ** * * * * * * * * * ** *
418524 AATCTGCCTATCAACTTTTACCTTAGAGACTACCTCATCTCAAGTCTACCTGTCACCTTTGACCT
1 AGTCTGCCTGTCGGCTTTGACCCTAAAGACTTCTTCACCTTAAGTCTGCTTGTCGGCTTTGACCC
* * * *
418589 TGGAGACTTCTTCACCCTTA
66 TGGAAACTTTTTTA-CCTTC
** * * * * * *
418609 AGTCTGCCTGTTTGCTTTGACCCTAGAGACTTTTTTACCTTAAGTCTGCCTATCGGCTTTGACCT
1 AGTCTGCCTGTCGGCTTTGACCCTAAAGACTTCTTCACCTTAAGTCTGCTTGTCGGCTTTGACCC
* *** * **
418674 TGGAGACTACCTTATCTAA
66 TGGAAACTTTTTTACCTTC
* *** * *
418693 AGTTTGCCTGTCGGCTTTGATGTTAGAGACTTCTTCACGCTTAAGTCTGCTTGTTGGCTTTGACC
1 AGTCTGCCTGTCGGCTTTGACCCTAAAGACTTCTTCAC-CTTAAGTCTGCTTGTCGGCTTTGACC
** * *
418758 CTACAGACTTTCTTACCTTC
65 CTGGAAACTTTTTTACCTTC
* * * * ** * * * * *
418778 AGTCTGCTTATCGGCCTTGACCTTGGAGACTACCTT-ATCTTAGGTCTACCTGTCGGCTTTGACC
1 AGTCTGCCTGTCGGCTTTGACCCTAAAGACT-TCTTCACCTTAAGTCTGCTTGTCGGCTTTGACC
* * * * *
418842 TTGGAGACTTCTTCACTCTTA
65 CTGGAAACTTTTTTAC-CTTC
* * * * * * * * * * *
418863 AGTTTGCTTATCAGCTTTGACCCTAGAGACTTTTTTACCTTCAGTTTTCTTGTTGGCTTTGACCC
1 AGTCTGCCTGTCGGCTTTGACCCTAAAGACTTCTTCACCTTAAGTCTGCTTGTCGGCTTTGACCC
* * *** * *
418928 GGGAGACTACCTCATC-TC
66 TGGAAACTTTTTTACCTTC
* * * * ** * ***
418946 AAGTCTGCCTATCGGCTTTGACCTTGGAA-ACTTTTTCACCTTTAAACCTGCCTGTCCATTTTGA
1 -AGTCTGCCTGTCGGCTTTGACCCT-AAAGACTTCTTCACC-TTAAGTCTGCTTGTCGGCTTTGA
*
419010 CCCTGGAGACTTTTTTACCTTC
63 CCCTGGAAACTTTTTTACCTTC
* * * * * ** * * * * *
419032 AATCTTCGTGTCAGCTTTGACCTTGGAGA-TTGCCTCAACTCAAGTCTGCCTGTCGGTTTTGACC
1 AGTCTGCCTGTCGGCTTTGACCCTAAAGACTT-CTTCACCTTAAGTCTGCTTGTCGGCTTTGACC
* * * *
419096 TTGGAGACTTCTTTACCCTTA
65 CTGGAAACTTTTTTA-CCTTC
* * ** * * * * *
419117 AGTCTGCCTATCGGCTTTGACCTTGGAGACTT-TTTACCTTTAGTTTGCCTATCGGCTTTGACCC
1 AGTCTGCCTGTCGGCTTTGACCCTAAAGACTTCTTCACCTTAAGTCTGCTTGTCGGCTTTGACCC
* *** * *
419181 T-GATGACTGGCTCATC-TC
66 TGGA-AACTTTTTTACCTTC
* * * * * * *
419199 TAGTCTGCCTATCGGCGTTGACCTTAGAGACTTTTTCACCCTTAAGTCTACTTGTCAGCTTTGAC
1 -AGTCTGCCTGTCGGCTTTGACCCTAAAGACTTCTTCA-CCTTAAGTCTGCTTGTCGGCTTTGAC
* * *
419264 CCTAGAGATTTTTTTACCTTC
64 CCTGGAAACTTTTTTACCTTC
* * * * ** * * * * * * *
419285 AATCTGCCTGTCAGCTTTTACCATGGAGACTGCCTCATCTGAAGTCTGCCTATCAGCTTTGACCC
1 AGTCTGCCTGTCGGCTTTGACCCTAAAGACTTCTTCACCTTAAGTCTGCTTGTCGGCTTTGACCC
* * *
419350 TAGAGACTTTCTTACCTTC
66 TGGAAACTTTTTTACCTTC
* * * * * * * * * * *
419369 AATCTGCCTGTCGACTTTGACTCTAGAGACTGCCTT-ATCTCAAGTGTGCCTATCAGCTTTGACC
1 AGTCTGCCTGTCGGCTTTGACCCTAAAGACT-TCTTCACCTTAAGTCTGCTTGTCGGCTTTGACC
* * * * *
419433 TTGGAGACTTCTTGACCTTTA
65 CTGGAAACTTTTTTACC-TTC
* * ** * * * * *
419454 AGTTTGCCTATCGGCTTTGACCCTGGACACTTTTTTACCCTT-AGTCTACATGTCGGC-TTGACC
1 AGTCTGCCTGTCGGCTTTGACCCTAAAGACTTCTTCA-CCTTAAGTCTGCTTGTCGGCTTTGACC
* *** * *
419517 TTGGAAA-TTGCCT-CATGTAA
65 CTGGAAACTTTTTTACCT-T-C
* * * ** ** * *
419537 AGTCTTCTTGTCAGCTTTGACTTTGGAGACTTCTTCACCCTTAAGTCTACTTGCCGGCTTTGACC
1 AGTCTGCCTGTCGGCTTTGACCCTAAAGACTTCTTCA-CCTTAAGTCTGCTTGTCGGCTTTGACC
* * *
419602 CTGGAGACTTTCTTACCTTT
65 CTGGAAACTTTTTTACCTTC
* * * * * * * * * *
419622 AGTCTACCTGTCGACTTTGACCTTAGAGACTGCCTT-ATCTCAAGTCTG-TCTATCAGCTTTAAC
1 AGTCTGCCTGTCGGCTTTGACCCTAAAGACT-TCTTCACCTTAAGTCTGCT-TGTCGGCTTTGAC
* * * *
419685 CCTGGAGACTTCTTCACCTTTA
64 CCTGGAAACTTTTTTACC-TTC
* * * ** * * * *
419707 AGTCTGTCTATAGGCTTTGACCCTGGAGACTTTTTCACCCTTAAATCTGCTTGTCAGCTTTGACT
1 AGTCTGCCTGTCGGCTTTGACCCTAAAGACTTCTTCA-CCTTAAGTCTGCTTGTCGGCTTTGACC
* * * * *
419772 TTAGAGACTTTTTTATCTTT
65 CTGGAAACTTTTTTACCTTC
* * * * * * * * * * *
419792 AGT-TGCCTGTCGGCTTTAACCTTAGAGACTGCCTAATCTCAAGTCTGCTTATCGGTTTTGACCT
1 AGTCTGCCTGTCGGCTTTGACCCTAAAGACTTCTTCACCTTAAGTCTGCTTGTCGGCTTTGACCC
* * *
419856 TGGAGA-TTTCTTCACCCTTA
66 TGGAAACTTT-TTTA-CCTTC
* * * ** ** * *
419876 AGTTTGCCTATCGGCTTTAACTTTGGAGACTTTCTT-ACCTTCAGTCTGCTTGTCGACTTTGACC
1 AGTCTGCCTGTCGGCTTTGACCCTAAAGAC-TTCTTCACCTTAAGTCTGCTTGTCGGCTTTGACC
* *** * *
419940 CT-AAAGACTGCCTCATC-TC
65 CTGGAA-ACTTTTTTACCTTC
* * * ** * * * * * **
419959 AAGTATGTCTATCAACTTTAACCTTAGAGACTTCTTTACCCTTAAGTCTGCCTGTTAGCTTTGAC
1 -AGTCTGCCTGTCGGCTTTGACCCTAAAGACTTCTTCA-CCTTAAGTCTGCTTGTCGGCTTTGAC
* * * * * *
420024 TCTAGAGACTTCTTCACCCTTA
64 CCTGGAAACTTTTTTA-CCTTC
* * * * * * * *
420046 AGTCTGCTTGTCGGCTTTGACCTTGAAGACTTTTTTACCTTCAGTCTGCCTGTCAGCTTTGACCC
1 AGTCTGCCTGTCGGCTTTGACCCTAAAGACTTCTTCACCTTAAGTCTGCTTGTCGGCTTTGACCC
* *** * *
420111 TGGAGACTGCCTCATC-TC
66 TGGAAACTTTTTTACCTTC
* * * *
420129 ACGTCTGCCTATCGACTTTGACCCTAAAAACTTTCTTCACCCTTAAGTCTGCTTGTCGGCTTTAA
1 A-GTCTGCCTGTCGGCTTTGACCCTAAAGAC-TTCTTCA-CCTTAAGTCTGCTTGTCGGCTTTGA
* *
420194 CCCTGGAGACTTTTTTACCTTT
63 CCCTGGAAACTTTTTTACCTTC
* * * * ** * * * * * * *
420216 AATCTGCCTGTCGACGTTGACCTTGGAGACTACCTCATCTCAAGTCTGCCTATCGACTTTGACCC
1 AGTCTGCCTGTCGGCTTTGACCCTAAAGACTTCTTCACCTTAAGTCTGCTTGTCGGCTTTGACCC
* * * *
420281 TGGAGACTTCTTCACCCTTA
66 TGGAAACTTTTTTA-CCTTC
* ** * *
420301 AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTT-ACCTTTAGTCTGCCTGTCGGCTTTGACC
1 AGTCTGCCTGTCGGCTTTGACCCTAAAGAC-TTCTTCACCTTAAGTCTGCTTGTCGGCTTTGACC
* * * *
420365 CTAGAGACTTTTTCACCCTTA
65 CTGGAAACTTTTTTA-CCTTC
* * * * * * * *
420386 AGTTTGCTTGTCGGATTTGACCCTAGAGACTTTTTTACCTTCAA-TCTGCCTGTCAGCTTTGACC
1 AGTCTGCCTGTCGGCTTTGACCCTAAAGACTTCTTCACCTT-AAGTCTGCTTGTCGGCTTTGACC
* * *** * *
420450 TTGGAGACTACCTCATC-TC
65 CTGGAAACTTTTTTACCTTC
* *
420469 AAGTCTGCCTGTCAGCTTTGACCCTAGAGACTTCTTCACCCTTAAGTCTGCTTGTCGGCTTTGAC
1 -AGTCTGCCTGTCGGCTTTGACCCTAAAGACTTCTTCA-CCTTAAGTCTGCTTGTCGGCTTTGAC
* * *
420534 CCTAGAGACTTTTTTACCTTT
64 CCTGGAAACTTTTTTACCTTC
* * * * * * * * * *
420555 AGTCTGCCTGTCAGCTTTGACCCTAAAGACTACCTGATCTCAAGTCTACCTGTTGTCTTTGACCC
1 AGTCTGCCTGTCGGCTTTGACCCTAAAGACTTCTTCACCTTAAGTCTGCTTGTCGGCTTTGACCC
* * *
420620 T-GAAGACTTCTTCACCCTTA
66 TGGAA-ACTTTTTTA-CCTTC
* * * ** * * * * * *
420640 AGTCTGCTTATCGACTTTGACCCTGGAGACTTTTTTACCTTCAGTTTGCCTGTCGGCTTTGACCT
1 AGTCTGCCTGTCGGCTTTGACCCTAAAGACTTCTTCACCTTAAGTCTGCTTGTCGGCTTTGACCC
* ** * *
420705 TGGAGACTGCTTCATC-TC
66 TGGAAACTTTTTTACCTTC
* * * * * * * * * **
420723 AAGTTTGCCTATC-GATTTAAACCTGGAAGACTTCTTCACCCTTAAATCTGCCTATAAGCTTTGA
1 -AGTCTGCCTGTCGGCTTTGACCCT-AAAGACTTCTTCA-CCTTAAGTCTGCTTGTCGGCTTTGA
*
420787 CCCT-GAAGACTTTTTTACCTTT
63 CCCTGGAA-ACTTTTTTACCTTC
*
420809 AGTCTACCTGTCGGCTTTG
1 AGTCTGCCTGTCGGCTTTG
420828 CCTCGGGGGA
Statistics
Matches: 2370, Mismatches: 676, Indels: 207
0.73 0.21 0.06
Matches are distributed among these distances:
81 1 0.00
82 6 0.00
83 134 0.06
84 834 0.35
85 1216 0.51
86 171 0.07
87 8 0.00
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.37
Consensus pattern (84 bp):
AGTCTGCCTGTCGGCTTTGACCCTAAAGACTTCTTCACCTTAAGTCTGCTTGTCGGCTTTGACCC
TGGAAACTTTTTTACCTTC
Found at i:417718 original size:42 final size:42
Alignment explanation
Indices: 417548--420827 Score: 1285
Period size: 42 Copynumber: 77.5 Consensus size: 42
417538 TACTTTACCG
* ** * * *
417548 TTCAGTCTGCCTGTCGGCTTTGACCCTAAAGACTACCTCATC
1 TTCAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCTTCACC
* * ** *
417590 -TCAAGTCTGCCTGTCGGCTTTAACCCTAAAGACTTCTTTACCC
1 TTC-AGTCTGCCTGTCGACTTTGACCCTGGAGACTTCTTCA-CC
* * * * * * *
417633 TTAAGT-TAGCTTGTCGGCTTTGACCCTTGAAACTTTTTTACC
1 TTCAGTCT-GCCTGTCGACTTTGACCCTGGAGACTTCTTCACC
*
417675 TTCAGTCTGCCTG-CTGACTTTGACCCTAGAGACTTCTTCACC
1 TTCAGTCTGCCTGTC-GACTTTGACCCTGGAGACTTCTTCACC
* * * * * * *
417717 TTAAGTCTGCTTGTTGGCTTTGACTCTGGAGACTTTTTTACC
1 TTCAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCTTCACC
* * * * * * *
417759 TTTAGTCTGCCTATCGGCTTTGACCCGGGAGACTGCCTCATC
1 TTCAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCTTCACC
* * * *
417801 TTAAGTCTGCCTGT-TAGCTTTGACCTTGGAGACTTTTTCACCC
1 TTCAGTCTGCCTGTCGA-CTTTGACCCTGGAGACTTCTTCA-CC
* * * *
417844 TTAAGTCTGCCTGTTGACTTTGACCCTAGAGACTTTCTT-ACT
1 TTCAGTCTGCCTGTCGACTTTGACCCTGGAGAC-TTCTTCACC
* *
417886 TTCAGTCTGCATGTCGACTTTGACCTTGGAGA-TTGCTTCATCC
1 TTCAGTCTGCCTGTCGACTTTGACCCTGGAGACTT-CTTCA-CC
* * * * **
417929 --CAAGTATGCCCGTTGGCTTTGACCCTAAAGACTTCTTCACCC
1 TTC-AGTCTGCCTGTCGACTTTGACCCTGGAGACTTCTTCA-CC
* * * *
417971 TTAAGTCTACTTGTCGACTTTGACCCTAGAGACATTCTT-ACC
1 TTCAGTCTGCCTGTCGACTTTGACCCTGGAGAC-TTCTTCACC
* *** * * * * *
418013 TTTAGTCTATTTGTCGGCTTTGACCTTGGAAACTGCCTT-ATC
1 TTCAGTCTGCCTGTCGACTTTGACCCTGGAGACT-TCTTCACC
* * * * * *
418055 -TCAAGTCTACCTGCCGGCTTTGACCTTAGAGACTTTTTCACCC
1 TTC-AGTCTGCCTGTCGACTTTGACCCTGGAGACTTCTTCA-CC
* * * * * *
418098 TTAAGTCTGCTTATCAACTTTGACCCTAGAAACTTTCTT-ACC
1 TTCAGTCTGCCTGTCGACTTTGACCCTGGAGAC-TTCTTCACC
* * * * * * * *
418140 TTCAGTTTGCTTGTTGGCTTTGACTC-GAGAGAATGGC-TCATC
1 TTCAGTCTGCCTGTCGACTTTGACCCTG-GAGACT-TCTTCACC
* * ** * * *
418182 TTAAGTCTGCCTATCGGTTTTGACCTTGGAGACTTTTTTACCC
1 TTCAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCTTCA-CC
* * * * *
418225 TTAAGTCTGCTTGTCGACTTTGACCTTGGAGACTTTTTTACC
1 TTCAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCTTCACC
* * * * * * *
418267 TTCACTCTTCGTGTC-AGTTTTGACCTTGGAGA-TTGCCTCATC
1 TTCAGTCTGCCTGTCGA-CTTTGACCCTGGAGACTT-CTTCACC
* *
418309 -TCAAGTCTGCATGTC-AGCTTTGACCCTGGAGACTTCTTTACCC
1 TTC-AGTCTGCCTGTCGA-CTTTGACCCTGGAGACTTCTTCA-CC
* * * *
418352 TT-ATGTTTGCCTATC-AGCTTTGACCTTGGAGACTTTCTT-ACT
1 TTCA-GTCTGCCTGTCGA-CTTTGACCCTGGAGAC-TTCTTCACC
* ** * * *
418394 TTCAG-CTTGCCTATCGGTTTTGACCTTGGAGACTAGC-TCATC
1 TTCAGTC-TGCCTGTCGACTTTGACCCTGGAGACT-TCTTCACC
* * * *
418436 -TCAAGTCTACCTATC-AGCGTTGACCCTGAAGACTTCTTCACCC
1 TTC-AGTCTGCCTGTCGA-CTTTGACCCTGGAGACTTCTTCA-CC
* * * * *
418479 TTAAGTCTACTTGTC-AGCTTTGACCCTGGAGACTTTTTTACC
1 TTCAGTCTGCCTGTCGA-CTTTGACCCTGGAGACTTCTTCACC
* * * * * * * * *
418521 TTCAATCTGCCTATCAACTTTTACCTTAGAGACTACCTCATC
1 TTCAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCTTCACC
* *
418563 -TCAAGTCTACCTGTC-ACCTTTGACCTTGGAGACTTCTTCACCC
1 TTC-AGTCTGCCTGTCGA-CTTTGACCCTGGAGACTTCTTCA-CC
* * * * *
418606 TTAAGTCTGCCTGTTTG-CTTTGACCCTAGAGACTTTTTTACC
1 TTCAGTCTGCCTG-TCGACTTTGACCCTGGAGACTTCTTCACC
* * * * * *
418648 TTAAGTCTGCCTATCGGCTTTGACCTTGGAGACTACCTT-ATC
1 TTCAGTCTGCCTGTCGACTTTGACCCTGGAGACT-TCTTCACC
** * * *** *
418690 TAAAGTTTGCCTGTCGGCTTTGATGTTAGAGACTTCTTCACGC
1 TTCAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCTTCAC-C
* * * * **
418733 TTAAGTCTGCTTGTTGGCTTTGACCCTACAGACTTTCTT-ACC
1 TTCAGTCTGCCTGTCGACTTTGACCCTGGAGAC-TTCTTCACC
* * * * * * *
418775 TTCAGTCTGCTTATCGGCCTTGACCTTGGAGACTACCTT-ATC
1 TTCAGTCTGCCTGTCGACTTTGACCCTGGAGACT-TCTTCACC
* * *
418817 TT-AGGTCTACCTGTCGGCTTTGACCTTGGAGACTTCTTCACTC
1 TTCA-GTCTGCCTGTCGACTTTGACCCTGGAGACTTCTTCAC-C
* * * * * * *
418860 TTAAGTTTGCTTATC-AGCTTTGACCCTAGAGACTTTTTTACC
1 TTCAGTCTGCCTGTCGA-CTTTGACCCTGGAGACTTCTTCACC
* * * * * * * * *
418902 TTCAGTTTTCTTGTTGGCTTTGACCCGGGAGACTACCTCATC
1 TTCAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCTTCACC
* * * * *
418944 -TCAAGTCTGCCTATCGGCTTTGACCTTGGAAACTTTTTCACC
1 TTC-AGTCTGCCTGTCGACTTTGACCCTGGAGACTTCTTCACC
* ** * * * *
418986 TTTAAACCTGCCTGTCCATTTTGACCCTGGAGACTTTTTTACC
1 -TTCAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCTTCACC
* * * * * *
419029 TTCAATCTTCGTGTC-AGCTTTGACCTTGGAGA-TTGCCTCAAC
1 TTCAGTCTGCCTGTCGA-CTTTGACCCTGGAGACTT-CTTCACC
** * *
419071 -TCAAGTCTGCCTGTCGGTTTTGACCTTGGAGACTTCTTTACCC
1 TTC-AGTCTGCCTGTCGACTTTGACCCTGGAGACTTCTTCA-CC
* * * * *
419114 TTAAGTCTGCCTATCGGCTTTGACCTTGGAGACTT-TTTACC
1 TTCAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCTTCACC
* * * * * *
419155 TTTAGTTTGCCTATCGGCTTTGACCCT-GATGACTGGC-TCATC
1 TTCAGTCTGCCTGTCGACTTTGACCCTGGA-GACT-TCTTCACC
* * * * * *
419197 -TCTAGTCTGCCTATCGGCGTTGACCTTAGAGACTTTTTCACCC
1 TTC-AGTCTGCCTGTCGACTTTGACCCTGGAGACTTCTTCA-CC
* * * * * * *
419240 TTAAGTCTACTTGTC-AGCTTTGACCCTAGAGATTTTTTTACC
1 TTCAGTCTGCCTGTCGA-CTTTGACCCTGGAGACTTCTTCACC
* * * * * *
419282 TTCAATCTGCCTGTC-AGCTTTTACCATGGAGACTGCCTCATC
1 TTCAGTCTGCCTGTCGA-CTTTGACCCTGGAGACTTCTTCACC
** * *
419324 TGAAGTCTGCCTATC-AGCTTTGACCCTAGAGACTTTCTT-ACC
1 TTCAGTCTGCCTGTCGA-CTTTGACCCTGGAGAC-TTCTTCACC
* * * * *
419366 TTCAATCTGCCTGTCGACTTTGACTCTAGAGACTGCCTT-ATC
1 TTCAGTCTGCCTGTCGACTTTGACCCTGGAGACT-TCTTCACC
* * * *
419408 -TCAAGTGTGCCTATC-AGCTTTGACCTTGGAGACTTCTTGACC
1 TTC-AGTCTGCCTGTCGA-CTTTGACCCTGGAGACTTCTTCACC
* * * * * * *
419450 TTTAAGTTTGCCTATCGGCTTTGACCCTGGACACTTTTTTACCC
1 -TTCAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCTTCA-CC
* * * * * * **
419494 TT-AGTCTACATGTCGGC-TTGACCTTGGA-AATTGCCTCATG
1 TTCAGTCTGCCTGTCGACTTTGACCCTGGAGACTT-CTTCACC
** * * **
419534 TAAAGTCTTCTTGTC-AGCTTTGACTTTGGAGACTTCTTCACCC
1 TTCAGTCTGCCTGTCGA-CTTTGACCCTGGAGACTTCTTCA-CC
* * * * *
419577 TTAAGTCTACTTGCCGGCTTTGACCCTGGAGACTTTCTT-ACC
1 TTCAGTCTGCCTGTCGACTTTGACCCTGGAGAC-TTCTTCACC
* * * * * *
419619 TTTAGTCTACCTGTCGACTTTGACCTTAGAGACTGCCTT-ATC
1 TTCAGTCTGCCTGTCGACTTTGACCCTGGAGACT-TCTTCACC
* * *
419661 -TCAAGTCTGTCTATC-AGCTTTAACCCTGGAGACTTCTTCACC
1 TTC-AGTCTGCCTGTCGA-CTTTGACCCTGGAGACTTCTTCACC
* * * * * *
419703 TTTAAGTCTGTCTATAGGCTTTGACCCTGGAGACTTTTTCACCC
1 -TTCAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCTTCA-CC
* * * ** * * * *
419747 TTAAATCTGCTTGTC-AGCTTTGACTTTAGAGACTTTTTTATC
1 TTCAGTCTGCCTGTCGA-CTTTGACCCTGGAGACTTCTTCACC
* * * * * * * * *
419789 TTTAGT-TGCCTGTCGGCTTTAACCTTAGAGACTGCCTAATC
1 TTCAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCTTCACC
* * ** * *
419830 -TCAAGTCTGCTTATCGGTTTTGACCTTGGAGATTTCTTCACCC
1 TTC-AGTCTGCCTGTCGACTTTGACCCTGGAGACTTCTTCA-CC
* * * * * **
419873 TTAAGTTTGCCTATCGGCTTTAACTTTGGAGACTTTCTT-ACC
1 TTCAGTCTGCCTGTCGACTTTGACCCTGGAGAC-TTCTTCACC
* ** * * *
419915 TTCAGTCTGCTTGTCGACTTTGACCCTAAAGACTGCCTCATC
1 TTCAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCTTCACC
* * * * * * * *
419957 -TCAAGTATGTCTATCAACTTTAACCTTAGAGACTTCTTTACCC
1 TTC-AGTCTGCCTGTCGACTTTGACCCTGGAGACTTCTTCA-CC
* * * *
420000 TTAAGTCTGCCTGT-TAGCTTTGACTCTAGAGACTTCTTCACCC
1 TTCAGTCTGCCTGTCGA-CTTTGACCCTGGAGACTTCTTCA-CC
* * * * * * *
420043 TTAAGTCTGCTTGTCGGCTTTGACCTTGAAGACTTTTTTACC
1 TTCAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCTTCACC
* * *
420085 TTCAGTCTGCCTGTC-AGCTTTGACCCTGGAGACTGCCTCATC
1 TTCAGTCTGCCTGTCGA-CTTTGACCCTGGAGACTTCTTCACC
* ** *
420127 -TCACGTCTGCCTATCGACTTTGACCCTAAAAACTTTCTTCACCC
1 TTCA-GTCTGCCTGTCGACTTTGACCCTGGAGAC-TTCTTCA-CC
* * * * * *
420171 TTAAGTCTGCTTGTCGGCTTTAACCCTGGAGACTTTTTTACC
1 TTCAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCTTCACC
* * * * * * *
420213 TTTAATCTGCCTGTCGACGTTGACCTTGGAGACTACCTCATC
1 TTCAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCTTCACC
*
420255 -TCAAGTCTGCCTATCGACTTTGACCCTGGAGACTTCTTCACCC
1 TTC-AGTCTGCCTGTCGACTTTGACCCTGGAGACTTCTTCA-CC
* * *
420298 TTAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTT-ACC
1 TTCAGTCTGCCTGTCGACTTTGACCCTGGAGAC-TTCTTCACC
* * * *
420340 TTTAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTTTCACCC
1 TTCAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCTTCA-CC
* * * * * *
420383 TTAAGTTTGCTTGTCGGA-TTTGACCCTAGAGACTTTTTTACC
1 TTCAGTCTGCCTGTC-GACTTTGACCCTGGAGACTTCTTCACC
* * * * *
420425 TTCAATCTGCCTGTC-AGCTTTGACCTTGGAGACTACCTCATC
1 TTCAGTCTGCCTGTCGA-CTTTGACCCTGGAGACTTCTTCACC
*
420467 -TCAAGTCTGCCTGTC-AGCTTTGACCCTAGAGACTTCTTCACCC
1 TTC-AGTCTGCCTGTCGA-CTTTGACCCTGGAGACTTCTTCA-CC
* * * * * *
420510 TTAAGTCTGCTTGTCGGCTTTGACCCTAGAGACTTTTTTACC
1 TTCAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCTTCACC
* ** * * * *
420552 TTTAGTCTGCCTGTC-AGCTTTGACCCTAAAGACTACCTGATC
1 TTCAGTCTGCCTGTCGA-CTTTGACCCTGGAGACTTCTTCACC
* * * *
420594 -TCAAGTCTACCTGTTGTCTTTGACCCTGAAGACTTCTTCACCC
1 TTC-AGTCTGCCTGTCGACTTTGACCCTGGAGACTTCTTCA-CC
* * * * *
420637 TTAAGTCTGCTTATCGACTTTGACCCTGGAGACTTTTTTACC
1 TTCAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCTTCACC
* * * * *
420679 TTCAGTTTGCCTGTCGGCTTTGACCTTGGAGACTGCTTCATC
1 TTCAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCTTCACC
* * * *
420721 -TCAAGTTTGCCTATCGA-TTTAAACCTGGAAGACTTCTTCACCC
1 TTC-AGTCTGCCTGTCGACTTTGACCCTGG-AGACTTCTTCA-CC
* * * * * * *
420764 TTAAATCTGCCTAT-AAGCTTTGACCCTGAAGACTTTTTTACC
1 TTCAGTCTGCCTGTCGA-CTTTGACCCTGGAGACTTCTTCACC
* * *
420806 TTTAGTCTACCTGTCGGCTTTG
1 TTCAGTCTGCCTGTCGACTTTG
420828 CCTCGGGGGA
Statistics
Matches: 2437, Mismatches: 643, Indels: 316
0.72 0.19 0.09
Matches are distributed among these distances:
40 10 0.00
41 165 0.07
42 1399 0.57
43 768 0.32
44 93 0.04
45 2 0.00
ACGTcount: A:0.18, C:0.27, G:0.17, T:0.37
Consensus pattern (42 bp):
TTCAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCTTCACC
Found at i:417907 original size:127 final size:127
Alignment explanation
Indices: 417551--420827 Score: 2423
Period size: 127 Copynumber: 25.8 Consensus size: 127
417541 TTTACCGTTC
** *** * * * *
417551 AGTCTGCCTGTCGGCTTTGACCCTAAAGACTACCTCA-TCTCAAGTCTGCCTGTCGGCTTTAACC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTTCACCCTTAAGTCTGCCTGTCGACTTTGACC
* * * * *** * *
417615 CTAAAGAC-TTCTTTACCCTTAAGT-TAGCTTGTCGGCTTTGACCCTT-GAAACTTTTTTACCTT
66 CTAGAGACTTTC-TTA-CCTTCAGTCT-GCCTGTCGGCTTTGA-CCTTGGAGACTGCCTCATC-T
417677 C-
126 CA
* * * * * *
417678 AGTCTGCCTG-CTGACTTTGACCCTAGAGACTTCTTCA-CCTTAAGTCTGCTTGTTGGCTTTGAC
1 AGTCTGCCTGTC-GGCTTTGACCCTGGAGACTTTTTCACCCTTAAGTCTGCCTGTCGACTTTGAC
* * * * * ** *
417741 TCTGGAGACTTTTTTACCTTTAGTCTGCCTATCGGCTTTGACCCGGGAGACTGCCTCATCTTA
65 CCTAGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTCA
** * *
417804 AGTCTGCCTGTTAGCTTTGACCTTGGAGACTTTTTCACCCTTAAGTCTGCCTGTTGACTTTGACC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTTCACCCTTAAGTCTGCCTGTCGACTTTGACC
* * * * * *
417869 CTAGAGACTTTCTTACTTTCAGTCTGCATGTCGACTTTGACCTTGGAGATTGCTTCATCCCA
66 CTAGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTCA
* * * ** * * *
417931 AGTATGCCCGTTGGCTTTGACCCTAAAGACTTCTTCACCCTTAAGTCTACTTGTCGACTTTGACC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTTCACCCTTAAGTCTGCCTGTCGACTTTGACC
* * *** * *
417996 CTAGAGACATTCTTACCTTTAGTCTATTTGTCGGCTTTGACCTTGGAAACTGCCTTATCTCA
66 CTAGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTCA
* * * * * * *
418058 AGTCTACCTGCCGGCTTTGACCTTAGAGACTTTTTCACCCTTAAGTCTGCTTATCAACTTTGACC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTTCACCCTTAAGTCTGCCTGTCGACTTTGACC
* * * * * * * *
418123 CTAGAAACTTTCTTACCTTCAGTTTGCTTGTTGGCTTTGA-CTCGAGAGAATGGCTCATCTTA
66 CTAGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCTTG-GAGACTGCCTCATCTCA
* * * * *
418185 AGTCTGCCTATCGGTTTTGACCTTGGAGACTTTTTTACCCTTAAGTCTGCTTGTCGACTTTGACC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTTCACCCTTAAGTCTGCCTGTCGACTTTGACC
* * * * * * * * *
418250 TTGGAGACTTTTTTACCTTCACTCTTCGTGTCAGTTTTGACCTTGGAGATTGCCTCATCTCA
66 CTAGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTCA
* * * * *
418312 AGTCTGCATGTCAGCTTTGACCCTGGAGACTTCTTT-ACCCTTATGTTTGCCTATC-AGCTTTGA
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTT-TTTCACCCTTAAGTCTGCCTGTCGA-CTTTGA
* * * * *
418375 CCTTGGAGACTTTCTTACTTTCAG-CTTGCCTATCGGTTTTGACCTTGGAGACTAG-CTCATCTC
64 CCCTAGAGACTTTCTTACCTTCAGTC-TGCCTGTCGGCTTTGACCTTGGAGACT-GCCTCATCTC
418438 A
127 A
* * * * * * * *
418439 AGTCTACCTATCAGCGTTGACCCTGAAGACTTCTTCACCCTTAAGTCTACTTGTC-AGCTTTGAC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTTCACCCTTAAGTCTGCCTGTCGA-CTTTGAC
* * * * ** * * *
418503 CCTGGAGACTTTTTTACCTTCAATCTGCCTATCAACTTTTACCTTAGAGACTACCTCATCTCA
65 CCTAGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTCA
* ** * * *
418566 AGTCTACCTGTCACCTTTGACCTTGGAGACTTCTTCACCCTTAAGTCTGCCTGTTTG-CTTTGAC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTTCACCCTTAAGTCTGCCTG-TCGACTTTGAC
* * * * * *
418630 CCTAGAGACTTTTTTACCTTAAGTCTGCCTATCGGCTTTGACCTTGGAGACTACCTTATCTAA
65 CCTAGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTCA
* *** * * * * * *
418693 AGTTTGCCTGTCGGCTTTGATGTTAGAGACTTCTTCACGCTTAAGTCTGCTTGTTGGCTTTGACC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTTCACCCTTAAGTCTGCCTGTCGACTTTGACC
* * * * * * *
418758 CTACAGACTTTCTTACCTTCAGTCTGCTTATCGGCCTTGACCTTGGAGACTACCTTATCTTA
66 CTAGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTCA
* * * * * * * *
418820 GGTCTACCTGTCGGCTTTGACCTTGGAGACTTCTTCACTCTTAAGTTTGCTTATC-AGCTTTGAC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTTCACCCTTAAGTCTGCCTGTCGA-CTTTGAC
* * * * * ** *
418884 CCTAGAGACTTTTTTACCTTCAGTTTTCTTGTTGGCTTTGACCCGGGAGACTACCTCATCTCA
65 CCTAGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTCA
* * * * ** * *
418947 AGTCTGCCTATCGGCTTTGACCTTGGAAACTTTTTCACCTTTAAACCTGCCTGTCCATTTTGACC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTTCACCCTTAAGTCTGCCTGTCGACTTTGACC
* * * * * * * *
419012 CTGGAGACTTTTTTACCTTCAATCTTCGTGTCAGCTTTGACCTTGGAGATTGCCTCAACTCA
66 CTAGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTCA
* * * *
419074 AGTCTGCCTGTCGGTTTTGACCTTGGAGACTTCTTT-ACCCTTAAGTCTGCCTATCGGCTTTGAC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTT-TTTCACCCTTAAGTCTGCCTGTCGACTTTGAC
* * * * * * * *
419138 CTTGGAGACTTT-TTACCTTTAGTTTGCCTATCGGCTTTGACCCT-GATGACTGGCTCATCTCT
65 CCTAGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCTTGGA-GACTGCCTCATCTCA
* * * * * *
419200 AGTCTGCCTATCGGCGTTGACCTTAGAGACTTTTTCACCCTTAAGTCTACTTGTC-AGCTTTGAC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTTCACCCTTAAGTCTGCCTGTCGA-CTTTGAC
* * * * * * *
419264 CCTAGAGATTTTTTTACCTTCAATCTGCCTGTCAGCTTTTACCATGGAGACTGCCTCATCTGA
65 CCTAGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTCA
* * *
419327 AGTCTGCCTATCAGCTTTGACCCTAGAGACTTTCTT-A-CCTTCAA-TCTGCCTGTCGACTTTGA
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTT-TTCACCCTT-AAGTCTGCCTGTCGACTTTGA
* ** * * * * * * * * *
419389 CTCTAGAGACTGCCTTATC-TCAAGTGTGCCTATCAGCTTTGACCTTGGAGACTTCTTGACCTTT
64 CCCTAGAGACTTTCTTACCTTC-AGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATC-TC
419453 A
127 A
* * * * * * *
419454 AGTTTGCCTATCGGCTTTGACCCTGGACACTTTTTTACCCTT-AGTCTACATGTCGGC-TTGACC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTTCACCCTTAAGTCTGCCTGTCGACTTTGACC
* * * * * * * * * * * * * * *
419517 TTGGA-AATTGCCT-CATGTAAAGTCTTCTTGTCAGCTTTGACTTTGGAGACTTCTTCACCCTTA
66 CTAGAGACTTTCTTACCT-T-CAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCA-TCTCA
* * * * *
419580 AGTCTACTTGCCGGCTTTGACCCTGGAGACTTTCTT-A-CCTTTAGTCTACCTGTCGACTTTGAC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTT-TTCACCCTTAAGTCTGCCTGTCGACTTTGAC
* ** * * * * * * * * * *
419643 CTTAGAGACTGCCTTATC-TCAAGTCTGTCTATCAGCTTTAACCCTGGAGACTTCTTCACCTTTA
65 CCTAGAGACTTTCTTACCTTC-AGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATC-TCA
* * * * *
419707 AGTCTGTCTATAGGCTTTGACCCTGGAGACTTTTTCACCCTTAAATCTGCTTGTC-AGCTTTGAC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTTCACCCTTAAGTCTGCCTGTCGA-CTTTGAC
** * * * * * *
419771 TTTAGAGACTTTTTTATCTTTAGT-TGCCTGTCGGCTTTAACCTTAGAGACTGCCTAATCTCA
65 CCTAGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTCA
* * * * * * * *
419833 AGTCTGCTTATCGGTTTTGACCTTGGAGA-TTTCTTCACCCTTAAGTTTGCCTATCGGCTTTAAC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTT-TTCACCCTTAAGTCTGCCTGTCGACTTTGAC
** * * * * **
419897 TTTGGAGACTTTCTTACCTTCAGTCTGCTTGTCGACTTTGACCCTAAAGACTGCCTCATCTCA
65 CCTAGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTCA
* * * ** * * * *
419960 AGTATGTCTATCAACTTTAACCTTAGAGACTTCTTT-ACCCTTAAGTCTGCCTGT-TAGCTTTGA
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTT-TTTCACCCTTAAGTCTGCCTGTCGA-CTTTGA
* * * * *** * *
420023 CTCTAGAGAC-TTCTTCACCCTTAAGTCTGCTTGTCGGCTTTGACCTTGAAGACTTTTTTACCTT
64 CCCTAGAGACTTTCTT-A-CCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATC-T
420087 C-
126 CA
* *** * * * *
420088 AGTCTGCCTGTCAGCTTTGACCCTGGAGACTGCCTCA-TCTCACGTCTGCCTATCGACTTTGACC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTTCACCCTTAAGTCTGCCTGTCGACTTTGACC
* * * * * * *** * * *
420152 CTAAAAACTTTCTTCACCCTTAAGTCTGCTTGTCGGCTTTAACCCTGGAGACTTTTTTACCTTTA
66 CTAGAGACTTTCTT-A-CCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATC-TCA
* * * *** * * *
420217 A-TCTGCCTGTCGACGTTGACCTTGGAGACTACCTCA-TCTCAAGTCTGCCTATCGACTTTGACC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTTCACCCTTAAGTCTGCCTGTCGACTTTGACC
* * ** * * **
420280 CTGGAGAC-TTCTTCACCCTTAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTT
66 CTAGAGACTTTCTT-A-CCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTCA
* * *
420343 AGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTTTCACCCTTAAGTTTGCTTGTCGGA-TTTGAC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTTCACCCTTAAGTCTGCCTGTC-GACTTTGAC
* * * *
420407 CCTAGAGACTTTTTTACCTTCAATCTGCCTGTCAGCTTTGACCTTGGAGACTACCTCATCTCA
65 CCTAGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTCA
* * * * *
420470 AGTCTGCCTGTCAGCTTTGACCCTAGAGACTTCTTCACCCTTAAGTCTGCTTGTCGGCTTTGACC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTTCACCCTTAAGTCTGCCTGTCGACTTTGACC
* * * * ** * *
420535 CTAGAGACTTTTTTACCTTTAGTCTGCCTGTCAGCTTTGACCCTAAAGACTACCTGATCTCA
66 CTAGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTCA
* * * * * * *
420597 AGTCTACCTGTTGTCTTTGACCCTGAAGACTTCTTCACCCTTAAGTCTGCTTATCGACTTTGACC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTTCACCCTTAAGTCTGCCTGTCGACTTTGACC
* * * *
420662 CTGGAGACTTTTTTACCTTCAGTTTGCCTGTCGGCTTTGACCTTGGAGACTGCTTCATCTCA
66 CTAGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTCA
* * * * * * * * *
420724 AGTTTGCCTATC-GATTTAAACCTGGAAGACTTCTTCACCCTTAAATCTGCCTAT-AAGCTTTGA
1 AGTCTGCCTGTCGGCTTTGACCCTGG-AGACTTTTTCACCCTTAAGTCTGCCTGTCGA-CTTTGA
* * *
420787 CCCT-GAAGACTTTTTTACCTTTAGTCTACCTGTCGGCTTTG
64 CCCTAG-AGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTG
420828 CCTCGGGGGA
Statistics
Matches: 2564, Mismatches: 515, Indels: 142
0.80 0.16 0.04
Matches are distributed among these distances:
125 21 0.01
126 405 0.16
127 1859 0.73
128 268 0.10
129 11 0.00
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.37
Consensus pattern (127 bp):
AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTTCACCCTTAAGTCTGCCTGTCGACTTTGACC
CTAGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATCTCA
Found at i:417946 original size:211 final size:212
Alignment explanation
Indices: 417541--417951 Score: 492
Period size: 211 Copynumber: 1.9 Consensus size: 212
417531 TATCTGATAC
* * *
417541 TTTACCGTTCAGTCTGCCTGTCGGCTTTGACCCTAAAGACTACCTCATCTCAAGTCTGCCTGTCG
1 TTTACCGTTCAGTCTGCCTATCGGCTTTGACCCGAAAGACTACCTCATCTCAAGTCTGCCTGTCA
* * * *
417606 GCTTTAACCCTAAAGACTTCTTTACCCTTAAGTTAGCTTGTCGGCTTTGACCCTTGAAACTTTTT
66 GCTTTAACCCTAAAGACTTCTTTACCCTTAAGTTAGCCTGTCGACTTTGACCCTAGAAACTTTCT
* * * **
417671 TACCTTCAGTCTGCCTGCTGACTTTGACCCTAGAGACTTCTTCACCTTAAGTCTGCTTGTTGGCT
131 TACCTTCAGTCTGCATGCTGACTTTGACCCTAGAGACTTCTTCACCTCAAGTATGCCCGTTGGCT
417736 TTGACTCTGGAGACTTT
196 TTGACTCTGGAGACTTT
* ** * * *
417753 TTTACC-TTTAGTCTGCCTATCGGCTTTGACCCGGGAGACTGCCTCATCTTAAGTCTGCCTGTTA
1 TTTACCGTTCAGTCTGCCTATCGGCTTTGACCCGAAAGACTACCTCATCTCAAGTCTGCCTGTCA
* * ** * *
417817 GCTTTGACCTTGGAGACTT-TTTCACCCTTAAGTCT-GCCTGTTGACTTTGACCCTAGAGACTTT
66 GCTTTAACCCTAAAGACTTCTTT-ACCCTTAAGT-TAGCCTGTCGACTTTGACCCTAGAAACTTT
* * *
417880 CTTACTTTCAGTCTGCATG-TCGACTTTGACCTTGGAGA-TTGCTTCATCC-CAAGTATGCCCGT
129 CTTACCTTCAGTCTGCATGCT-GACTTTGACCCTAGAGACTT-CTTCA-CCTCAAGTATGCCCGT
417942 TGGCTTTGAC
191 TGGCTTTGAC
417952 CCTAAAGACT
Statistics
Matches: 167, Mismatches: 27, Indels: 11
0.81 0.13 0.05
Matches are distributed among these distances:
210 6 0.04
211 152 0.91
212 9 0.05
ACGTcount: A:0.17, C:0.27, G:0.19, T:0.37
Consensus pattern (212 bp):
TTTACCGTTCAGTCTGCCTATCGGCTTTGACCCGAAAGACTACCTCATCTCAAGTCTGCCTGTCA
GCTTTAACCCTAAAGACTTCTTTACCCTTAAGTTAGCCTGTCGACTTTGACCCTAGAAACTTTCT
TACCTTCAGTCTGCATGCTGACTTTGACCCTAGAGACTTCTTCACCTCAAGTATGCCCGTTGGCT
TTGACTCTGGAGACTTT
Found at i:421181 original size:42 final size:43
Alignment explanation
Indices: 421008--421406 Score: 221
Period size: 42 Copynumber: 9.5 Consensus size: 43
420998 GAGAGGCCTA
** ** *
421008 TCAGCTTAGACCCGAGAGA-TTTATCATCAATTGTCTG-CCTG
1 TCAGCTTAGACCCGAGAGACTTCCTCATCTTTTGTCTGCCCAG
** * ** * *
421049 TTGGCTTGGACCCGAGAGACTTTTTCATCTTTCGTTTGCCCA-
1 TCAGCTTAGACCCGAGAGACTTCCTCATCTTTTGTCTGCCCAG
* * * ** * ** **
421091 TTAACTCAGAGTCGAGAGACTTCCTCATATTTCATCT--ATAGG
1 TCAGCTTAGACCCGAGAGACTTCCTCATCTTTTGTCTGCCCA-G
** * *
421133 TCAGCTTAGACCCGAGAGACTTTTTCATCTTTTGTTTGCCCAA
1 TCAGCTTAGACCCGAGAGACTTCCTCATCTTTTGTCTGCCCAG
* * **
421176 T-AGCTTAGACCCGAGAAACCTCCTCATCTTTCATCTG--CAGG
1 TCAGCTTAGACCCGAGAGACTTCCTCATCTTTTGTCTGCCCA-G
* * * * * * *
421217 TCGGCCTAGACCCAAGAAACTTCCTCATCTTTTATTTGCCTA-
1 TCAGCTTAGACCCGAGAGACTTCCTCATCTTTTGTCTGCCCAG
* * * * * *
421259 TTAGCTCAGACTCGGGAGACTTCCTCATCTTTCGTCTACCC-G
1 TCAGCTTAGACCCGAGAGACTTCCTCATCTTTTGTCTGCCCAG
* * *
421301 TTAGCTTAGACCCGAGAGACTTCCTCATCTTTTGTTTG-CCTG
1 TCAGCTTAGACCCGAGAGACTTCCTCATCTTTTGTCTGCCCAG
* * **
421343 TCAGCTCAGACCTGAGAGAC-TCCTTCATCCATTGTCTGCCC-G
1 TCAGCTTAGACCCGAGAGACTTCC-TCATCTTTTGTCTGCCCAG
*
421385 TCAGCTTAGTCCCGAGAGACTT
1 TCAGCTTAGACCCGAGAGACTT
421407 TTTTTTCATC
Statistics
Matches: 264, Mismatches: 79, Indels: 28
0.71 0.21 0.08
Matches are distributed among these distances:
40 3 0.01
41 22 0.08
42 231 0.88
43 6 0.02
44 2 0.01
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (43 bp):
TCAGCTTAGACCCGAGAGACTTCCTCATCTTTTGTCTGCCCAG
Found at i:421200 original size:84 final size:84
Alignment explanation
Indices: 421052--421406 Score: 338
Period size: 84 Copynumber: 4.2 Consensus size: 84
421042 CTGCCTGTTG
* ** * * *
421052 GCTTGGACCCGAGAGACTTTTTCATCTTTCGTTTGCCCATTAACTCAGAGTCGAGAGACTTCCTC
1 GCTTAGACCCGAGAGACTTCCTCATCTTTTGTTTGCCCATTAGCTCAGACTCGAGAGACTTCCTC
* *
421117 ATATTTCATCTATAGGTCA
66 ATCTTTCATCTACAGGTCA
** * * * * *
421136 GCTTAGACCCGAGAGACTTTTTCATCTTTTGTTTGCCCAATAGCTTAGACCCGAGAAACCTCCTC
1 GCTTAGACCCGAGAGACTTCCTCATCTTTTGTTTGCCCATTAGCTCAGACTCGAGAGACTTCCTC
* *
421201 ATCTTTCATCTGCAGGTCG
66 ATCTTTCATCTACAGGTCA
* * * * * *
421220 GCCTAGACCCAAGAAACTTCCTCATCTTTTATTTGCCTATTAGCTCAGACTCGGGAGACTTCCTC
1 GCTTAGACCCGAGAGACTTCCTCATCTTTTGTTTGCCCATTAGCTCAGACTCGAGAGACTTCCTC
* ** *
421285 ATCTTTCGTCTACCCGTTA
66 ATCTTTCATCTACAGGTCA
** *
421304 GCTTAGACCCGAGAGACTTCCTCATCTTTTGTTTGCCTGTCAGCTCAGAC-CTGAGAGAC-TCCT
1 GCTTAGACCCGAGAGACTTCCTCATCTTTTGTTTGCCCATTAGCTCAGACTC-GAGAGACTTCC-
* * * **
421367 TCATCCATT-GTCTGCCCGTCA
64 TCAT-CTTTCATCTACAGGTCA
*
421388 GCTTAGTCCCGAGAGACTT
1 GCTTAGACCCGAGAGACTT
421407 TTTTTTCATC
Statistics
Matches: 225, Mismatches: 43, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
83 4 0.02
84 218 0.97
85 3 0.01
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.32
Consensus pattern (84 bp):
GCTTAGACCCGAGAGACTTCCTCATCTTTTGTTTGCCCATTAGCTCAGACTCGAGAGACTTCCTC
ATCTTTCATCTACAGGTCA
Found at i:421701 original size:43 final size:43
Alignment explanation
Indices: 421637--421824 Score: 166
Period size: 44 Copynumber: 4.3 Consensus size: 43
421627 TTTATTAACT
*
421637 TGTCGGCTTTGT-CCTCGGTCAACCTTTTTTACCCTTGGTGACC
1 TGTCGGCTTTGTCCCT-GGTCAACCTTTCTTACCCTTGGTGACC
* * * * * *
421680 TGACGGCTTTGTCCCTAGTCAACCATTCTTACCTTTTGTTTACC
1 TGTCGGCTTTGTCCCTGGTCAACCTTTCTTACC-CTTGGTGACC
* * *
421724 TGTCGGCTATGCCCCTGGT-AAAC-TTCTTACCCCTTGGTGACC
1 TGTCGGCTTTGTCCCTGGTCAACCTTTCTTA-CCCTTGGTGACC
* * * * * *
421766 TGTCGACTTTATCCCCGGTCAGCCTTTCTTACCCTTTGTTTACC
1 TGTCGGCTTTGTCCCTGGTCAACCTTTCTTACCC-TTGGTGACC
*
421810 TGTCGGCTATGTCCC
1 TGTCGGCTTTGTCCC
421825 AGGTAAATTT
Statistics
Matches: 112, Mismatches: 27, Indels: 11
0.75 0.18 0.07
Matches are distributed among these distances:
42 27 0.24
43 35 0.31
44 50 0.45
ACGTcount: A:0.12, C:0.32, G:0.18, T:0.38
Consensus pattern (43 bp):
TGTCGGCTTTGTCCCTGGTCAACCTTTCTTACCCTTGGTGACC
Found at i:421852 original size:86 final size:85
Alignment explanation
Indices: 421661--421839 Score: 241
Period size: 86 Copynumber: 2.1 Consensus size: 85
421651 TCGGTCAACC
* * * *
421661 TTTTTTACCCTTGGTGACCTGACGGCTTTGTCCCTAGTCAACCATTCTTACCTTTTGTTTACCTG
1 TTTTTTACCCTTGGTGACCTGACGACTTTATCCCCAGTCAACCATTCTTACCCTTTGTTTACCTG
*
421726 TCGGCTATGCCCCTGGTAAA
66 TCGGCTATGCCCCAGGTAAA
* * * * * *
421746 CTTCTTACCCCTTGGTGACCTGTCGACTTTATCCCCGGTCAGCCTTTCTTACCCTTTGTTTACCT
1 TTTTTTA-CCCTTGGTGACCTGACGACTTTATCCCCAGTCAACCATTCTTACCCTTTGTTTACCT
*
421811 GTCGGCTATGTCCCAGGTAAA
65 GTCGGCTATGCCCCAGGTAAA
421832 TTTTTTAC
1 TTTTTTAC
421840 TCCTAAGTGA
Statistics
Matches: 79, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
85 6 0.08
86 73 0.92
ACGTcount: A:0.15, C:0.30, G:0.17, T:0.39
Consensus pattern (85 bp):
TTTTTTACCCTTGGTGACCTGACGACTTTATCCCCAGTCAACCATTCTTACCCTTTGTTTACCTG
TCGGCTATGCCCCAGGTAAA
Found at i:422404 original size:8 final size:8
Alignment explanation
Indices: 422388--422466 Score: 79
Period size: 8 Copynumber: 9.2 Consensus size: 8
422378 ATAATATAGT
422388 AATCAAAAA
1 AATC-AAAA
422397 AATC-AAA
1 AATCAAAA
422404 AATCATAAA
1 AATCA-AAA
*
422413 ACCATAAAAA
1 A--ATCAAAA
422423 AATCAAAA
1 AATCAAAA
422431 AATCAAAA
1 AATCAAAA
422439 AATCAAAAA
1 AATC-AAAA
*
422448 AATCAACA
1 AATCAAAA
422456 AATCAACAA
1 AATCAA-AA
422465 AA
1 AA
422467 ATATCGAAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
7 7 0.12
8 27 0.45
9 19 0.32
10 4 0.07
11 3 0.05
ACGTcount: A:0.72, C:0.15, G:0.00, T:0.13
Consensus pattern (8 bp):
AATCAAAA
Found at i:422421 original size:25 final size:25
Alignment explanation
Indices: 422392--422466 Score: 89
Period size: 25 Copynumber: 2.9 Consensus size: 25
422382 TATAGTAATC
*
422392 AAAAAAATCAAAAATCATAAAACCA
1 AAAAAAATCAAAAATCAAAAAACCA
*
422417 TAAAAAAATCAAAAAATCAAAAAATC-
1 -AAAAAAATC-AAAAATCAAAAAACCA
422443 AAAAAAATCAACAAATCAACAAAA
1 AAAAAAATCAA-AAATCAA-AAAA
422467 ATATCGAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
24 2 0.05
25 16 0.36
26 13 0.30
27 13 0.30
ACGTcount: A:0.73, C:0.15, G:0.00, T:0.12
Consensus pattern (25 bp):
AAAAAAATCAAAAATCAAAAAACCA
Found at i:422447 original size:17 final size:17
Alignment explanation
Indices: 422388--422468 Score: 94
Period size: 17 Copynumber: 4.7 Consensus size: 17
422378 ATAATATAGT
422388 AATCAAAAAAATC-AAA
1 AATCAAAAAAATCAAAA
* *
422404 AATCATAAAACCATAAAAA
1 AATCA-AAAA-AATCAAAA
422423 AATC-AAAAAATCAAAA
1 AATCAAAAAAATCAAAA
*
422439 AATCAAAAAAATCAACA
1 AATCAAAAAAATCAAAA
422456 AATCAACAAAAAT
1 AATCAA-AAAAAT
422469 ATCGAAAAAC
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
16 15 0.27
17 25 0.45
18 8 0.15
19 7 0.13
ACGTcount: A:0.72, C:0.15, G:0.00, T:0.14
Consensus pattern (17 bp):
AATCAAAAAAATCAAAA
Found at i:422465 original size:20 final size:19
Alignment explanation
Indices: 422427--422496 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 19
422417 TAAAAAAATC
*
422427 AAAAAATCAAAAA--ATCA
1 AAAAAATCAAAAACCAACA
*
422444 AAAAAATCAACAAATCAACA
1 AAAAAATCAA-AAACCAACA
* *
422464 AAAATATCGAAAAACCAAAA
1 AAAAAATC-AAAAACCAACA
422484 AAAATAATCAAAA
1 AAAA-AATCAAAA
422497 TAATCAAAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
17 10 0.23
18 3 0.07
20 25 0.58
21 5 0.12
ACGTcount: A:0.73, C:0.14, G:0.01, T:0.11
Consensus pattern (19 bp):
AAAAAATCAAAAACCAACA
Found at i:422496 original size:9 final size:9
Alignment explanation
Indices: 422484--422517 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
422474 AAAACCAAAA
422484 AAAATAATC
1 AAAATAATC
422493 AAAATAATC
1 AAAATAATC
422502 AAAATAATC
1 AAAATAATC
*
422511 GAAATAA
1 AAAATAA
422518 AAAATTATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.68, C:0.09, G:0.03, T:0.21
Consensus pattern (9 bp):
AAAATAATC
Found at i:425875 original size:20 final size:21
Alignment explanation
Indices: 425850--425889 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
425840 TCTTAACAGC
425850 CTATG-TTCATGCATTTTGTG
1 CTATGTTTCATGCATTTTGTG
425870 CTATGTTTCATGCATTTTGT
1 CTATGTTTCATGCATTTTGT
425890 ATTTTGTGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.15, C:0.15, G:0.17, T:0.53
Consensus pattern (21 bp):
CTATGTTTCATGCATTTTGTG
Found at i:432450 original size:156 final size:154
Alignment explanation
Indices: 432086--432692 Score: 589
Period size: 156 Copynumber: 3.9 Consensus size: 154
432076 GCGCTAATGA
* * * * * *
432086 TAAAGGACAC-AAAAAGAT-AATAAAAGGATGAGCTTACCCTAAATACACACCTTTGGCATAAAA
1 TAAAGAACACGAAAAAGATAAATAAAAGGATAAACCTATCCTAAATGCACACCTTTGGCATAAAA
* * * * * * *
432149 GTGACCCAGTGACGACCTAAGACTCGATTCTAAAGAAATTACCAAGATACCCTAAGTATACCTTA
66 GTGACTCAATGATGACCTAGGACTTGATTCTAAAGAAATTACCAAAATACCCTAAGTATACCTTT
* ** **
432214 GACATGAAAGTAACCCGATAACTT
131 GACATGAAAGTATCCTAATAACCC
* * * * * * *
432238 TAAAAAACAC-AAAAATGATAAGTAAAAGCACAAACCTATCATAAATGCATATCTTTGGCATAAA
1 TAAAGAACACGAAAAA-GATAAATAAAAGGATAAACCTATCCTAAATGCACACCTTTGGCATAAA
* * *
432302 AGTGACTCAATGATGACCTAGGACTTGATTTTATAGAAATTACCAAAATACCTCTAGGGTATACC
65 AGTGACTCAATGATGACCTAGGACTTGATTCTAAAGAAATTACCAAAATACC-CTA-AGTATACC
* *
432367 TTTGATATAAAAGTATCCTAATAACCC
128 TTTGACATGAAAGTATCCTAATAACCC
* * *
432394 TAAAGGACACGAAAATGATAAATAAAAGGATGAACCTATCCT-AATGGCACACCTTTGGCATAAA
1 TAAAGAACACGAAAAAGATAAATAAAAGGATAAACCTATCCTAAAT-GCACACCTTTGGCATAAA
** * * *
432458 AGCAACTCAATGATGACCTAGGACTTGATTCTAGAGATATTACCAAAATACCCTTAATGTATACT
65 AGTGACTCAATGATGACCTAGGACTTGATTCTAAAGAAATTACCAAAATACCC-TAA-GTATACC
* * *
432523 TTTGACGTGAAAGTATTCTAGTAACCC
128 TTTGACATGAAAGTATCCTAATAACCC
* * * * *
432550 TAAAGAATACGAAAAAGATAAGTAAAATGATAAACCTATCGTAAATGCACACCTTTGGTATAAAA
1 TAAAGAACACGAAAAAGATAAATAAAAGGATAAACCTATCCTAAATGCACACCTTTGGCATAAAA
** * * * * * * *
432615 GTGAC-CTGGTAATGACTTAAGACTTGATTCTAAGGAAATTATCAAAATGCCTCTAAG-GTA-CT
66 GTGACTC-AATGATGACCTAGGACTTGATTCTAAAGAAATTACCAAAATACC-CTAAGTATACCT
432677 TTCGACATGAAAGTAT
129 TT-GACATGAAAGTAT
432693 TTTAGTAACC
Statistics
Matches: 368, Mismatches: 75, Indels: 22
0.79 0.16 0.05
Matches are distributed among these distances:
152 13 0.04
153 6 0.02
154 91 0.25
155 9 0.02
156 241 0.65
157 8 0.02
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.25
Consensus pattern (154 bp):
TAAAGAACACGAAAAAGATAAATAAAAGGATAAACCTATCCTAAATGCACACCTTTGGCATAAAA
GTGACTCAATGATGACCTAGGACTTGATTCTAAAGAAATTACCAAAATACCCTAAGTATACCTTT
GACATGAAAGTATCCTAATAACCC
Found at i:432641 original size:312 final size:308
Alignment explanation
Indices: 432086--432674 Score: 695
Period size: 312 Copynumber: 1.9 Consensus size: 308
432076 GCGCTAATGA
* * *
432086 TAAAGGACACAAAAAGATAATAAAAGGATGAGCTTACCCTAAATACACACCTTTGGCATAAAAGT
1 TAAAGGACACAAAAAGATAATAAAAGGATGAACCTACCCTAAATACACACCTTTGGCATAAAAGC
* * *
432151 GACCCAGTGACGACCTAAGACTCGATTCTAAAGAAATTACCAAGATACCCTAAGTATACCTTAGA
66 AACCCAATGACGACCTAAGACTCGATTCTAAAGAAATTACCAAAATACCCTAAGTATACCTTAGA
* **
432216 CATGAAAGTAACCCGATAACTTTAAAAAACACAAAAATGATAAGTAAAAGCACAAACCTATCATA
131 CATGAAAGTAACCAGATAACCCTAAAAAACACAAAAATGATAAGTAAAAGCACAAACCTATCATA
* * * * *
432281 AATGCATATCTTTGGCATAAAAGTGACTCAATGATGACCTAGGACTTGATTTTATA-GAAATTAC
196 AATGCACACCTTTGGCATAAAAGTGACTCAATAATGACCTAAGACTTGATTCTA-AGGAAATTAC
*
432345 CAAAATACCTCTAGGGTATACCTTTGATATAAAAGTATCCTAATAACCC
260 CAAAATACCTCTAAGGTATACCTTTGATATAAAAGTATCCTAATAACCC
* * *
432394 TAAAGGACACGAAAATGATAAATAAAAGGATGAACCTATCCT-AATGGCACACCTTTGGCATAAA
1 TAAAGGACAC-AAAAAGAT-AATAAAAGGATGAACCTACCCTAAAT-ACACACCTTTGGCATAAA
* * * * * * *
432458 AGCAACTCAATGATGACCTAGGACTTGATTCTAGAGATATTACCAAAATACCCTTAATGTATACT
63 AGCAACCCAATGACGACCTAAGACTCGATTCTAAAGAAATTACCAAAATACCC-TAA-GTATACC
* * * * * * *
432523 TTTGACGTGAAAGTATTCTAG-TAACCCTAAAGAATACGAAAAA-GATAAGTAAAATG-ATAAAC
126 TTAGACATGAAAGTA-ACCAGATAACCCTAAAAAACAC-AAAAATGATAAGTAAAA-GCACAAAC
* * ** *
432585 CTATCGTAAATGCACACCTTTGGTATAAAAGTGAC-CTGGTAATGACTTAAGACTTGATTCTAAG
188 CTATCATAAATGCACACCTTTGGCATAAAAGTGACTC-AATAATGACCTAAGACTTGATTCTAAG
* *
432649 GAAATTATCAAAATGCCTCTAAGGTA
252 GAAATTACCAAAATACCTCTAAGGTA
432675 CTTTCGACAT
Statistics
Matches: 232, Mismatches: 39, Indels: 16
0.81 0.14 0.06
Matches are distributed among these distances:
308 10 0.04
309 10 0.04
310 79 0.34
311 5 0.02
312 120 0.52
313 8 0.03
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.25
Consensus pattern (308 bp):
TAAAGGACACAAAAAGATAATAAAAGGATGAACCTACCCTAAATACACACCTTTGGCATAAAAGC
AACCCAATGACGACCTAAGACTCGATTCTAAAGAAATTACCAAAATACCCTAAGTATACCTTAGA
CATGAAAGTAACCAGATAACCCTAAAAAACACAAAAATGATAAGTAAAAGCACAAACCTATCATA
AATGCACACCTTTGGCATAAAAGTGACTCAATAATGACCTAAGACTTGATTCTAAGGAAATTACC
AAAATACCTCTAAGGTATACCTTTGATATAAAAGTATCCTAATAACCC
Found at i:434500 original size:165 final size:166
Alignment explanation
Indices: 434158--434679 Score: 660
Period size: 165 Copynumber: 3.2 Consensus size: 166
434148 TCAATTAGTC
* * * * ** * *
434158 CCCTAAACTCTTAAAAAATTTCATTTCTTCCTTGACCAAAAACCGAGAGGATACGAAAAGTCTTG
1 CCCTAAACT-TTTAAAAATTTCATTTCATACTCGATAAAAAATCAAGAGGATACGAAAAGTCTTG
* * *
434223 AAATTTTTTATACCTCTATAGAAGGCCATAAGAACAATAAAAATATTTAAAAATGACTAAAATGA
65 AAAATTTTTATACCTCTACAGAAGGCCATAAGAATAATAAAAATATTTAAAAATGACTAAAATGA
*
434288 TGATTATACCTCTAAAAACTAAAATTTACTATTTAAT
130 TGATTATACCTCTAAAAACTAAAATTTGCTATTTAAT
* *
434325 CCCTAAACTTTTAAAAATTTCATTTCATACTCGATGAAAAATTAAGAGGATACG-AAAGATCTTG
1 CCCTAAACTTTTAAAAATTTCATTTCATACTCGATAAAAAATCAAGAGGATACGAAAAG-TCTTG
* * * *
434389 AAAATTTTTATACCCCTACGGAAGGCCATAGGAATAATAAAAAT-TTTAAAAATGTCTAAAATGA
65 AAAATTTTTATACCTCTACAGAAGGCCATAAGAATAATAAAAATATTTAAAAATGACTAAAATGA
* *
434453 TGAGTATACCTCTAAAAACTAAAATTTGGTATTTAAT
130 TGATTATACCTCTAAAAACTAAAATTTGCTATTTAAT
* * * * *
434490 CCCTAAACTTTTAAAAATTTCATTTCGTAC-CTAATAAAAAATCGAA-AAGCTACGAAAAGTTTT
1 CCCTAAACTTTTAAAAATTTCATTTCATACTC-GATAAAAAATC-AAGAGGATACGAAAAGTCTT
* ** * *
434553 AAAAATTTTTGCACCTCTACAGAAGGCCATAAGAATAATAGAAATCTTT-AAAATGACTAAAATG
64 GAAAATTTTTATACCTCTACAGAAGGCCATAAGAATAATAAAAATATTTAAAAATGACTAAAATG
* *
434617 AT-ATTTTACCTCTAAAAACTAAAATTTGTTATTTAAT
129 ATGATTATACCTCTAAAAACTAAAATTTGCTATTTAAT
*
434654 CCCTAAACTTTCAAAAATTTTCATTT
1 CCCTAAACTTTTAAAAA-TTTCATTT
434680 TAGTCCTTAC
Statistics
Matches: 311, Mismatches: 38, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
164 49 0.16
165 165 0.53
166 88 0.28
167 9 0.03
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.32
Consensus pattern (166 bp):
CCCTAAACTTTTAAAAATTTCATTTCATACTCGATAAAAAATCAAGAGGATACGAAAAGTCTTGA
AAATTTTTATACCTCTACAGAAGGCCATAAGAATAATAAAAATATTTAAAAATGACTAAAATGAT
GATTATACCTCTAAAAACTAAAATTTGCTATTTAAT
Found at i:441351 original size:106 final size:105
Alignment explanation
Indices: 441179--441562 Score: 334
Period size: 106 Copynumber: 3.7 Consensus size: 105
441169 TCAAACAAAG
* * * * * *
441179 GTGACCAGGATATATCC-TAAGTCAG-AAAAGATTGACCAAGGCGAAATC-AATAAGCCAACAAA
1 GTGACTAGGATAAAACCTTAAGTCAGAAAAAGATTGACCAAGGCGAAACCGAA-AAGTCAACAAG
* * * *
441241 TTTAAGTAGTTAACTGGGATGAAACCGACAAATCAACAAAGA
65 TTTAA-AAGTTGACTGGGATAAAACCGACAAATCAACAAAAA
* * *
441283 GTGACTAGGATAAAACCTTAAGTCAGAAAAAGATTGATCAAAGTGAAACCGAAAAGTCAACAAGT
1 GTGACTAGGATAAAACCTTAAGTCAGAAAAAGATTGACCAAGGCGAAACCGAAAAGTCAACAAGT
** ** *
441348 TTAAAAAGTTGACTTAGATAAAACTAACAAGTCAACAAAAA
66 TT-AAAAGTTGACTGGGATAAAACCGACAAATCAACAAAAA
* * * * * * * *
441389 GTGACAAGGAT-AAAGCTTAAGTTAGAAAAAGGGTTGACCAGGGCAAAACTGATAAGTCAACAAG
1 GTGACTAGGATAAAACCTTAAGTCAGAAAAA-GATTGACCAAGGCGAAACCGAAAAGTCAACAAG
* * * *
441453 TTTAAAAGGTTGACTGGGATAAAATCGACAAGTTAATAAAAA
65 TTTAAAA-GTTGACTGGGATAAAACCGACAAATCAACAAAAA
** ** * * *
441495 GTGACTAAAATAAAA-CTTAAGTCAGAAAAAG-TTGATTAAGGTGAGA-CGATAAGTCAACAAG-
1 GTGACTAGGATAAAACCTTAAGTCAGAAAAAGATTGACCAAGGCGAAACCGAAAAGTCAACAAGT
441556 TTAAAAG
66 TTAAAAG
441563 GGTTGATTAG
Statistics
Matches: 226, Mismatches: 47, Indels: 17
0.78 0.16 0.06
Matches are distributed among these distances:
101 1 0.00
102 6 0.03
103 14 0.06
104 23 0.10
105 30 0.13
106 145 0.64
107 7 0.03
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (105 bp):
GTGACTAGGATAAAACCTTAAGTCAGAAAAAGATTGACCAAGGCGAAACCGAAAAGTCAACAAGT
TTAAAAGTTGACTGGGATAAAACCGACAAATCAACAAAAA
Found at i:441753 original size:105 final size:104
Alignment explanation
Indices: 441596--441800 Score: 272
Period size: 105 Copynumber: 2.0 Consensus size: 104
441586 AACCAAATAG
* *
441596 TTTAAGAGGTTGATTAAGACAAAACTAACAAGTCAACAAAGAGTGATGAGGATAAAACTTAAGTT
1 TTTAAGAGGTTGATTAAGACAAAACTAACAAGTCAACAAAAAGTGATGAGGATAAAACCTAAG-T
441661 TAGAAAGGAATTGACCAGGGCA-AAACTGATAAGTTAACAAA
65 TAGAAAGG-ATTGACCAGGG-AGAAACTGATAAGTTAACAAA
** * * *
441702 TTTAAGAGGTTGATTGGGAC-AAATTGATAAGTCAACAAAAAGTGACT-AGGATAAAACCTAAGT
1 TTTAAGAGGTTGATTAAGACAAAACTAACAAGTCAACAAAAAGTGA-TGAGGATAAAACCTAAGT
* *
441765 TAGAAAGGGTTGACCAGGGAGAGACTGATAAGTTAA
65 TAGAAAGGATTGACCAGGGAGAAACTGATAAGTTAA
441801 TCAGTTAAAA
Statistics
Matches: 88, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
102 1 0.01
103 24 0.27
104 9 0.10
105 35 0.40
106 19 0.22
ACGTcount: A:0.44, C:0.10, G:0.23, T:0.22
Consensus pattern (104 bp):
TTTAAGAGGTTGATTAAGACAAAACTAACAAGTCAACAAAAAGTGATGAGGATAAAACCTAAGTT
AGAAAGGATTGACCAGGGAGAAACTGATAAGTTAACAAA
Found at i:441797 original size:249 final size:248
Alignment explanation
Indices: 441345--441815 Score: 608
Period size: 249 Copynumber: 1.9 Consensus size: 248
441335 AAAGTCAACA
* *
441345 AGTTTAAAAAGTTGACTTAGATAAAACTAACAAGTCAACAAAAAGTGACAAGGATAAAGCTTAAG
1 AGTTTAAAAAGTTGACTTAGACAAAACTAACAAGTCAACAAAAAGTGACAAGGATAAAACTTAAG
* *
441410 TTAGAAAAAGGGTTGACCAGGGCAAAACTGATAAGTCAACAAGTTTAAAAGGTTGACTGGGATAA
66 TTAG-AAAAGGATTGACCAGGGCAAAACTGATAAGTCAACAAATTTAAAAGGTTGACTGGGATAA
* * * ** *
441475 AATCGACAAGTTAATAAAAAGTGACTAAAATAAAACTTAAGTCAGAAAAAGTTGATTAAGGTGAG
130 AATCGACAAGTCAACAAAAAGTGACTAAAATAAAACCTAAGTCAGAAAAAGTTGACCAAGGAGAG
441540 ACGATAAGTCAA-CAAGTTAAAAGGGTTGATTAGGGTGAAACTAATAAACCAAAT
195 ACGATAAGTCAATC-AGTTAAAAGGGTTGATTAGGGTGAAACTAATAAACCAAAT
* * * **
441594 AGTTTAAGAGGTTGA-TTAAGACAAAACTAACAAGTCAACAAAGAGTGATGAGGATAAAACTTAA
1 AGTTTAAAAAGTTGACTT-AGACAAAACTAACAAGTCAACAAAAAGTGACAAGGATAAAACTTAA
* * *
441658 GTTTAG-AAAGGAATTGACCAGGGCAAAACTGATAAGTTAACAAATTTAAGAGGTTGATTGGGA-
65 G-TTAGAAAAGG-ATTGACCAGGGCAAAACTGATAAGTCAACAAATTTAAAAGGTTGACTGGGAT
* * * ** * ** *
441721 CAAATTGATAAGTCAACAAAAAGTGACTAGGATAAAACCTAAGTTAGAAAGGGTTGACCAGGGAG
128 AAAATCGACAAGTCAACAAAAAGTGACTAAAATAAAACCTAAGTCAGAAAAAGTTGACCAAGGAG
*
441786 AGACTGATAAGTTAATCAGTTAAAAGGGTT
193 AGAC-GATAAGTCAATCAGTTAAAAGGGTT
441816 AACCAGAGCA
Statistics
Matches: 189, Mismatches: 28, Indels: 10
0.83 0.12 0.04
Matches are distributed among these distances:
248 61 0.32
249 123 0.65
250 5 0.03
ACGTcount: A:0.46, C:0.10, G:0.22, T:0.23
Consensus pattern (248 bp):
AGTTTAAAAAGTTGACTTAGACAAAACTAACAAGTCAACAAAAAGTGACAAGGATAAAACTTAAG
TTAGAAAAGGATTGACCAGGGCAAAACTGATAAGTCAACAAATTTAAAAGGTTGACTGGGATAAA
ATCGACAAGTCAACAAAAAGTGACTAAAATAAAACCTAAGTCAGAAAAAGTTGACCAAGGAGAGA
CGATAAGTCAATCAGTTAAAAGGGTTGATTAGGGTGAAACTAATAAACCAAAT
Found at i:442033 original size:51 final size:51
Alignment explanation
Indices: 441960--442056 Score: 131
Period size: 51 Copynumber: 1.9 Consensus size: 51
441950 GAGCGAAATC
* *
441960 GATAAACTCAACTAAAGATGACTAGGACGAAACTTAAGTTAAAAAAGTACT
1 GATAAACTCAACTAAAGATGACTAGGACGAAACCTAAGTCAAAAAAGTACT
* * * * *
442011 GATAAAGTTAACTGAAGGTGACTAGGATGAAACCTAAGTCAAAAAA
1 GATAAACTCAACTAAAGATGACTAGGACGAAACCTAAGTCAAAAAA
442057 AATGTTGACC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 39 1.00
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.21
Consensus pattern (51 bp):
GATAAACTCAACTAAAGATGACTAGGACGAAACCTAAGTCAAAAAAGTACT
Found at i:442130 original size:67 final size:65
Alignment explanation
Indices: 442008--442514 Score: 351
Period size: 67 Copynumber: 7.6 Consensus size: 65
441998 TTAAAAAAGT
* * * * ** ***
442008 ACTGATAAAGTTAACTGAAGGTGACTAGGATGAAACCTAAGTCAAAAAAAATGTTGACCAAGCTG
1 ACTGATAAAGTCAACTAAAAGTGACTAGGATAAAACCTAAGT-TGAAAAGGGGTTGACCAAGC-G
442073 AA
64 AA
* * ** * *
442075 ACTGATAAAGTCAACTAAAAGTAACTAAGACGAAACCTAAGTTGAAAAGGGTGTTGATCAAGGTG
1 ACTGATAAAGTCAACTAAAAGTGACTAGGATAAAACCTAAGTTGAAAAGGG-GTTGACCAA-GCG
442140 AA
64 AA
* * * * * * *
442142 ACTGATAAAATCAACTATAAGTGACTAGGATGAAACCTACGTCGAAAAGGGTGTTGACCAGGACC
1 ACTGATAAAGTCAACTAAAAGTGACTAGGATAAAACCTAAGTTGAAAAGGG-GTTGACCAAG-CG
442207 AA
64 AA
** * ** * * *
442209 ACCAATAAAGTCAACTAAAGGAAACTAGGGTAAAACCTAAG-TCAAAATGGGGTTGACCAAGGCA
1 ACTGATAAAGTCAACTAAAAGTGACTAGGATAAAACCTAAGTTGAAAA-GGGGTTGACCAA-GCG
442273 AA
64 AA
* * * * * * *
442275 ACCGATAAATTTAACTAAAAGTGACTAAGACAAAACCTAAGTTGAAAAAAGGGGTTGACTATG-G
1 ACTGATAAAGTCAACTAAAAGTGACTAGGATAAAACCTAAGTTG--AAAAGGGGTTGACCAAGCG
442339 CAA
64 -AA
* * * * * * *
442342 AATCGATAAAGTCAACTAAAAGTGACTAGGATAAAACCTGAGTCGAAAAAGGATTGATC-AGGGC
1 ACT-GATAAAGTCAACTAAAAGTGACTAGGATAAAACCTAAGTTGAAAAGGGGTTGACCAAGCG-
442406 AA
64 AA
* * * * *
442408 AATGGATAAAGTCAACTAAAAATGA-TCAAGATAAAACCTAAG-TCAAAATGGGGTTGACTAAG-
1 ACT-GATAAAGTCAACTAAAAGTGACT-AGGATAAAACCTAAGTTGAAAA-GGGGTTGACCAAGC
442470 GTAAA
63 G--AA
* *
442475 ACTGATAAAGTCAACTAAAAGTGACTAGGGTGAAACCTAA
1 ACTGATAAAGTCAACTAAAAGTGACTAGGATAAAACCTAA
442515 ATCGAAAAAA
Statistics
Matches: 344, Mismatches: 80, Indels: 33
0.75 0.18 0.07
Matches are distributed among these distances:
65 6 0.02
66 140 0.41
67 148 0.43
68 46 0.13
69 4 0.01
ACGTcount: A:0.45, C:0.14, G:0.21, T:0.20
Consensus pattern (65 bp):
ACTGATAAAGTCAACTAAAAGTGACTAGGATAAAACCTAAGTTGAAAAGGGGTTGACCAAGCGAA
Found at i:442248 original size:134 final size:133
Alignment explanation
Indices: 442028--442514 Score: 403
Period size: 134 Copynumber: 3.6 Consensus size: 133
442018 TTAACTGAAG
* *** * * *
442028 GTGACTAGGATGAAACCTAAGTCAAAAAAAATGTTGACCAAGCTGAAACTGATAAAGTCAACTAA
1 GTGACTAGGATGAAACCTAAGTCGAAAAGGGTGTTGACCAGGC-AAAACCGATAAAGTCAACTAA
* ** * ** *
442093 AAGTAACTAAGACGAAACCTAAGTTGAAAA-GGGTGTTGATCAAGGTGAAACTGATAAAATCAAC
65 AAGTAACTAGGATAAAACCTAAGTTGAAAATGGG-GTTGACCAAGGCAAAACCGATAAAATCAAC
*
442157 TATAA
129 TAAAA
* * *
442162 GTGACTAGGATGAAACCTACGTCGAAAAGGGTGTTGACCAGGACCAAACCAATAAAGTCAACTAA
1 GTGACTAGGATGAAACCTAAGTCGAAAAGGGTGTTGACCAGG-CAAAACCGATAAAGTCAACTAA
* * * * * *
442227 AGGAAACTAGGGTAAAACCTAAG-TCAAAATGGGGTTGACCAAGGCAAAACCGATAAATTTAACT
65 AAGTAACTAGGATAAAACCTAAGTTGAAAATGGGGTTGACCAAGGCAAAACCGATAAAATCAACT
442291 AAAA
130 AAAA
* ** * * *
442295 GTGACTAAGACAAAACCTAAGTTGAAAAAAGGG-GTTGACTATGGCAAAATCGATAAAGTCAACT
1 GTGACTAGGATGAAACCTAAGTCG--AAAAGGGTGTTGACCA-GGCAAAACCGATAAAGTCAACT
* * * * * * * ** *
442359 AAAAGTGACTAGGATAAAACCTGAGTCGAAAA-AGGATTGATCAGGGCAAAATGGATAAAGTCAA
63 AAAAGTAACTAGGATAAAACCTAAGTTGAAAATGGGGTTGACCAAGGCAAAACCGATAAAATCAA
442423 CTAAAA
128 CTAAAA
* * * * * *
442429 ATGA-TCAAGATAAAACCTAAGTC-AAAATGGG-GTTGACTAAGGTAAAACTGATAAAGTCAACT
1 GTGACT-AGGATGAAACCTAAGTCGAAAA-GGGTGTTGAC-CAGGCAAAACCGATAAAGTCAACT
* * *
442491 AAAAGTGACTAGGGTGAAACCTAA
63 AAAAGTAACTAGGATAAAACCTAA
442515 ATCGAAAAAA
Statistics
Matches: 287, Mismatches: 57, Indels: 20
0.79 0.16 0.05
Matches are distributed among these distances:
131 4 0.01
132 49 0.17
133 54 0.19
134 166 0.58
135 14 0.05
ACGTcount: A:0.45, C:0.14, G:0.21, T:0.19
Consensus pattern (133 bp):
GTGACTAGGATGAAACCTAAGTCGAAAAGGGTGTTGACCAGGCAAAACCGATAAAGTCAACTAAA
AGTAACTAGGATAAAACCTAAGTTGAAAATGGGGTTGACCAAGGCAAAACCGATAAAATCAACTA
AAA
Found at i:442291 original size:66 final size:65
Alignment explanation
Indices: 442011--442514 Score: 402
Period size: 66 Copynumber: 7.6 Consensus size: 65
442001 AAAAAGTACT
* * * * *** *
442011 GATAAAGTTAACTGAAGGTGACTAGGATGAAACCTAAGTCAAAAAAAATGTTGACCAA-GCTGAA
1 GATAAAGTCAACTAAAAGTGACTAGGATAAAACCTAAGTC--AAAAGGGGTTGACCAAGGC-AAA
*
442075 ACT
63 ACC
* * ** * * **
442078 GATAAAGTCAACTAAAAGTAACTAAGACGAAACCTAAGTTGAAAAGGGTGTTGATCAAGGTGAAA
1 GATAAAGTCAACTAAAAGTGACTAGGATAAAACCTAAG-TCAAAAGGG-GTTGACCAAGGCAAAA
*
442143 CT
64 CC
* * * * *
442145 GATAAAATCAACTATAAGTGACTAGGATGAAACCTACGTCGAAAAGGGTGTTGACC-AGGACCAA
1 GATAAAGTCAACTAAAAGTGACTAGGATAAAACCTAAGTC-AAAAGGG-GTTGACCAAGG-CAAA
442209 ACC
63 ACC
* * ** *
442212 AATAAAGTCAACTAAAGGAAACTAGGGTAAAACCTAAGTCAAAATGGGGTTGACCAAGGCAAAAC
1 GATAAAGTCAACTAAAAGTGACTAGGATAAAACCTAAGTCAAAA-GGGGTTGACCAAGGCAAAAC
442277 C
65 C
* * * * * * *
442278 GATAAATTTAACTAAAAGTGACTAAGACAAAACCTAAGTTGAAAAAAGGGGTTGACTATGGCAAA
1 GATAAAGTCAACTAAAAGTGACTAGGATAAAACCTAAG-T--CAAAAGGGGTTGACCAAGGCAAA
*
442343 ATC
63 ACC
* * * * * *
442346 GATAAAGTCAACTAAAAGTGACTAGGATAAAACCTGAGTCGAAAAAGGATTGATCAGGGCAAAAT
1 GATAAAGTCAACTAAAAGTGACTAGGATAAAACCTAAGTC-AAAAGGGGTTGACCAAGGCAAAAC
*
442411 G
65 C
* * * *
442412 GATAAAGTCAACTAAAAATGA-TCAAGATAAAACCTAAGTCAAAATGGGGTTGACTAAGGTAAAA
1 GATAAAGTCAACTAAAAGTGACT-AGGATAAAACCTAAGTCAAAA-GGGGTTGACCAAGGCAAAA
*
442476 CT
64 CC
* *
442478 GATAAAGTCAACTAAAAGTGACTAGGGTGAAACCTAA
1 GATAAAGTCAACTAAAAGTGACTAGGATAAAACCTAA
442515 ATCGAAAAAA
Statistics
Matches: 350, Mismatches: 73, Indels: 29
0.77 0.16 0.06
Matches are distributed among these distances:
65 5 0.01
66 152 0.43
67 136 0.39
68 53 0.15
69 4 0.01
ACGTcount: A:0.45, C:0.14, G:0.21, T:0.19
Consensus pattern (65 bp):
GATAAAGTCAACTAAAAGTGACTAGGATAAAACCTAAGTCAAAAGGGGTTGACCAAGGCAAAACC
Found at i:442513 original size:200 final size:201
Alignment explanation
Indices: 442060--442524 Score: 527
Period size: 200 Copynumber: 2.3 Consensus size: 201
442050 CAAAAAAAAT
* *
442060 GTTGACCAA-GCTGAAACTGATAAAGTCAACTAAAAGTAACTAAGACGAAACCTAAGTTG--AAA
1 GTTGACCAAGGC-AAAACTGATAAAGTCAACTAAAAGTGACTAAGACGAAACCTAAGTTGAAAAA
** * *
442122 AGGGTGTTGATCAAGGTGAAACTGATAAAATCAACTATAAGTGACTAGGATGAAACCTACGTCGA
65 AGGGTGTTGATCAAGGCAAAACTGATAAAATCAACTAAAAGTGACTAGGATAAAACCTACGTCGA
* * * * *
442187 AAAGGGTGTTGACCAGGACCAAACCAATAAAGTCAACTAAAGGAAACTAGGGTAAAACCTAAGTC
130 AAAAGGTATTGACCAGGACAAAACCAATAAAGTCAACTAAA-GAAACTAAGATAAAACCTAAGTC
442252 AAAATGGG
194 AAAATGGG
* * * *
442260 GTTGACCAAGGCAAAACCGATAAATTTAACTAAAAGTGACTAAGACAAAACCTAAGTTGAAAAAA
1 GTTGACCAAGGCAAAACTGATAAAGTCAACTAAAAGTGACTAAGACGAAACCTAAGTTGAAAAAA
* *
442325 GGG-GTTGA-CTATGGCAAAA-TCGATAAAGTCAACTAAAAGTGACTAGGATAAAACCTGA-GTC
66 GGGTGTTGATC-AAGGCAAAACT-GATAAAATCAACTAAAAGTGACTAGGATAAAACCT-ACGTC
* * ***
442386 GAAAAAGG-ATTGATCAGGGCAAAATGGATAAAGTCAACTAAA-AATGA-TCAAGATAAAACCTA
128 GAAAAAGGTATTGACCAGGACAAAACCAATAAAGTCAACTAAAGAA--ACT-AAGATAAAACCTA
442448 AGTCAAAATGGG
190 AGTCAAAATGGG
* * * ** * *
442460 GTTGACTAAGGTAAAACTGATAAAGTCAACTAAAAGTGACTAGGGTGAAACCTAAATCGAAAAAA
1 GTTGACCAAGGCAAAACTGATAAAGTCAACTAAAAGTGACTAAGACGAAACCTAAGTTGAAAAAA
442525 TATTGACAGG
Statistics
Matches: 223, Mismatches: 33, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
198 2 0.01
199 1 0.00
200 157 0.70
201 55 0.25
202 8 0.04
ACGTcount: A:0.46, C:0.14, G:0.21, T:0.19
Consensus pattern (201 bp):
GTTGACCAAGGCAAAACTGATAAAGTCAACTAAAAGTGACTAAGACGAAACCTAAGTTGAAAAAA
GGGTGTTGATCAAGGCAAAACTGATAAAATCAACTAAAAGTGACTAGGATAAAACCTACGTCGAA
AAAGGTATTGACCAGGACAAAACCAATAAAGTCAACTAAAGAAACTAAGATAAAACCTAAGTCAA
AATGGG
Found at i:444623 original size:3 final size:3
Alignment explanation
Indices: 444577--444604 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
444567 TAATGTAAAA
444577 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
444605 GTCAAATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:444880 original size:24 final size:26
Alignment explanation
Indices: 444848--444896 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
444838 GATATATTAT
444848 TTTATTATA-AAA-CAATAAAATTTA
1 TTTATTATACAAATCAATAAAATTTA
444872 TTTATTATATCAAATCAATAAAATT
1 TTTATTATA-CAAATCAATAAAATT
444897 ACTTCAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 9 0.41
26 3 0.14
27 10 0.45
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (26 bp):
TTTATTATACAAATCAATAAAATTTA
Found at i:445271 original size:24 final size:24
Alignment explanation
Indices: 445224--445272 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
445214 AAAATAAAAA
**
445224 ATTAAATTAAAAGTTGAATCAATT
1 ATTAAATTAAAAGTAAAATCAATT
445248 ATTAAATTAAAAGTCAAAAT-AATT
1 ATTAAATTAAAAGT-AAAATCAATT
445272 A
1 A
445273 ATTTTTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 19 0.86
25 3 0.14
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (24 bp):
ATTAAATTAAAAGTAAAATCAATT
Found at i:449249 original size:26 final size:26
Alignment explanation
Indices: 449213--449270 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
449203 GCATTTTACC
* ***
449213 AAATATCATAAGAATTCATTGAAAAG
1 AAATATAATAAGAATTCACCAAAAAG
*
449239 AAATATAATAAGGATTCACCAAAAAG
1 AAATATAATAAGAATTCACCAAAAAG
449265 AAATAT
1 AAATAT
449271 CATAGCAACA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.57, C:0.09, G:0.10, T:0.24
Consensus pattern (26 bp):
AAATATAATAAGAATTCACCAAAAAG
Found at i:450218 original size:13 final size:12
Alignment explanation
Indices: 450169--450214 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
450159 ACCTTCACTG
450169 TTTCAAATTGAA
1 TTTCAAATTGAA
*
450181 TTTCAACATTTACTA
1 TTTCAA-ATTGA--A
450196 TTTCAAATTGAA
1 TTTCAAATTGAA
450208 TTTCAAA
1 TTTCAAA
450215 ATTGGCGGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 14 0.48
13 4 0.14
14 4 0.14
15 7 0.24
ACGTcount: A:0.39, C:0.13, G:0.04, T:0.43
Consensus pattern (12 bp):
TTTCAAATTGAA
Found at i:454965 original size:13 final size:12
Alignment explanation
Indices: 454916--454966 Score: 57
Period size: 12 Copynumber: 3.9 Consensus size: 12
454906 ACCTTCACTG
454916 TTTCAAATTGAA
1 TTTCAAATTGAA
*
454928 TTTCAACATTTACTA
1 TTTCAA-ATTGA--A
454943 TTTCAAATTGAA
1 TTTCAAATTGAA
454955 TTTCAAAATTGA
1 TTTC-AAATTGA
454967 TGACATGGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
12 11 0.33
13 11 0.33
14 4 0.12
15 7 0.21
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (12 bp):
TTTCAAATTGAA
Found at i:455892 original size:41 final size:40
Alignment explanation
Indices: 455846--455987 Score: 178
Period size: 41 Copynumber: 3.4 Consensus size: 40
455836 TCTTTAATTA
* *
455846 AATTAAATTAATTAAGAGATAAATAAATAAATTTTATCTCT
1 AATTAAATTAATTAAAAGATAAATAAA-AAATTTTATCTTT
455887 AATTAAATTAATTAAAAGATAAATAAAAAA-TTTATCTTTAATT
1 AATTAAATTAATTAAAAGATAAATAAAAAATTTTATC--T--TT
*
455930 AAATTAAATTAATTAAAAGATAAATAAAATAATATTATCTTT
1 -AATTAAATTAATTAAAAGATAAATAAAA-AATTTTATCTTT
455972 AATTAAATTAAATTAA
1 AATTAAATT-AATTAA
455988 TTAAAAAATA
Statistics
Matches: 90, Mismatches: 3, Indels: 15
0.83 0.03 0.14
Matches are distributed among these distances:
39 6 0.07
40 3 0.03
41 36 0.40
42 8 0.09
43 1 0.01
44 29 0.32
45 2 0.02
46 5 0.06
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (40 bp):
AATTAAATTAATTAAAAGATAAATAAAAAATTTTATCTTT
Found at i:455932 original size:85 final size:86
Alignment explanation
Indices: 455828--455987 Score: 270
Period size: 85 Copynumber: 1.9 Consensus size: 86
455818 CGTGCGAATC
* *
455828 AAAATTTATCTTTAATTAAATTAAATTAATTAAGAGATAAAT-AAATAAATTTTATCTCTAATTA
1 AAAATTTATCTTTAATTAAATTAAATTAATTAAAAGATAAATAAAAT-AATATTATCTCTAATTA
455892 AATT-AATTAAAAGATAAATAA
65 AATTAAATTAAAAGATAAATAA
*
455913 AAAATTTATCTTTAATTAAATTAAATTAATTAAAAGATAAATAAAATAATATTATCTTTAATTAA
1 AAAATTTATCTTTAATTAAATTAAATTAATTAAAAGATAAATAAAATAATATTATCTCTAATTAA
455978 ATTAAATTAA
66 ATTAAATTAA
455988 TTAAAAAATA
Statistics
Matches: 70, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
85 60 0.86
86 10 0.14
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (86 bp):
AAAATTTATCTTTAATTAAATTAAATTAATTAAAAGATAAATAAAATAATATTATCTCTAATTAA
ATTAAATTAAAAGATAAATAA
Found at i:455993 original size:46 final size:45
Alignment explanation
Indices: 455830--456002 Score: 236
Period size: 46 Copynumber: 4.0 Consensus size: 45
455820 TGCGAATCAA
*
455830 AATTTATCTTTAATTAAATTAAATTAATTAAGAGATAAAT-AAAT
1 AATTTATCTTTAATTAAATTAAATTAATTAAAAGATAAATAAAAT
*
455874 AA---AT-TTT-ATCTCTAATTAAATTAATTAAAAGATAAATAAAA-
1 AATTTATCTTTAAT-T-AAATTAAATTAATTAAAAGATAAATAAAAT
455915 AATTTATCTTTAATTAAATTAAATTAATTAAAAGATAAATAAAAT
1 AATTTATCTTTAATTAAATTAAATTAATTAAAAGATAAATAAAAT
*
455960 AATATTATCTTTAATTAAATTAAATTAATTAAAAAAT-AATAAA
1 AAT-TTATCTTTAATTAAATTAAATTAATTAAAAGATAAATAAA
456003 GAAGATAAGT
Statistics
Matches: 115, Mismatches: 4, Indels: 19
0.83 0.03 0.14
Matches are distributed among these distances:
39 2 0.02
40 4 0.03
41 27 0.23
42 3 0.03
44 32 0.28
45 13 0.11
46 34 0.30
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.39
Consensus pattern (45 bp):
AATTTATCTTTAATTAAATTAAATTAATTAAAAGATAAATAAAAT
Found at i:456474 original size:26 final size:26
Alignment explanation
Indices: 456423--456475 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
456413 AAATTTCAAG
* **
456423 ATCAAGTTTCAAAAACTCTTGTAGTA
1 ATCAAGTTTCAAAAACCCTTCAAGTA
456449 ATCAA-TTCTCAAAAACCCTTCAAGTA
1 ATCAAGTT-TCAAAAACCCTTCAAGTA
456475 A
1 A
456476 ACTTCAAGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 2 0.09
26 21 0.91
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.30
Consensus pattern (26 bp):
ATCAAGTTTCAAAAACCCTTCAAGTA
Found at i:458994 original size:17 final size:18
Alignment explanation
Indices: 458951--459000 Score: 57
Period size: 19 Copynumber: 2.8 Consensus size: 18
458941 TCAACTAGGT
*
458951 AAATATAAATATAATATA
1 AAATTTAAATATAATATA
* *
458969 AATTATTAAATATATTA-A
1 AAAT-TTAAATATAATATA
458987 AAATTTAAATATAA
1 AAATTTAAATATAA
459001 ATTTATATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
17 9 0.35
18 7 0.27
19 10 0.38
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AAATTTAAATATAATATA
Found at i:459027 original size:15 final size:14
Alignment explanation
Indices: 458978--459028 Score: 61
Period size: 15 Copynumber: 3.6 Consensus size: 14
458968 AAATTATTAA
458978 ATATATTAAAAATTT
1 ATATATT-AAAATTT
*
458993 AAATA-T-AAATTT
1 ATATATTAAAATTT
459005 ATATATTAAAATTT
1 ATATATTAAAATTT
459019 ATCATATTAA
1 AT-ATATTAA
459029 TCATGTTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
12 10 0.32
13 1 0.03
14 9 0.29
15 11 0.35
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (14 bp):
ATATATTAAAATTT
Found at i:459306 original size:28 final size:27
Alignment explanation
Indices: 459250--459307 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 27
459240 ATTAATATTT
* *
459250 ATTTAATAAAAAATATATATTTATTTAA
1 ATTTAATAAAAAATATATA-TAATATAA
459278 ATTTAATTATAAAAATATATA-AATATAA
1 ATTTAA-TA-AAAAATATATATAATATAA
459306 AT
1 AT
459308 ATAAAATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 13 0.50
29 2 0.08
30 11 0.42
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (27 bp):
ATTTAATAAAAAATATATATAATATAA
Found at i:461379 original size:3 final size:3
Alignment explanation
Indices: 461371--461405 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
461361 ATAAAATTAC
461371 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
461406 AAAATAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:461823 original size:22 final size:22
Alignment explanation
Indices: 461798--461839 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
461788 AAATATTTAA
461798 ATTAAAA-AATAAAACTAAAGTT
1 ATTAAAATAATAAAA-TAAAGTT
*
461820 ATTAAAATCATAAAATAAAG
1 ATTAAAATAATAAAATAAAG
461840 AAAACAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.26
Consensus pattern (22 bp):
ATTAAAATAATAAAATAAAGTT
Found at i:462651 original size:2 final size:2
Alignment explanation
Indices: 462644--462690 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
462634 GAACCATGTC
462644 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
462686 AT AT A
1 AT AT A
462691 AATTAAAGAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:463736 original size:122 final size:121
Alignment explanation
Indices: 463553--463791 Score: 426
Period size: 122 Copynumber: 2.0 Consensus size: 121
463543 TGACATTCTC
* *
463553 TATTAATATAATAATTTTATATAAATTATAAAAAAATTATTTATTTTTATTAAATTAATTGAATA
1 TATTAATATAATAATTTTATATAAAATATAAAAAAATTATTTATTTTTACTAAATTAATTGAATA
463618 ATTACACAATTAAAAGTATATACATAATAATTAGAAAGAAAAGAAAATAATTTTAT
66 ATTACACAATTAAAAGTATATACATAATAATTAGAAAGAAAAGAAAATAATTTTAT
*
463674 TATT-ATATACATAATTTTATATAATAATATAAAAAAATTATTTCTTTTTACTAAATTAATTGAA
1 TATTAATATA-ATAATTTTATATAA-AATATAAAAAAATTATTTATTTTTACTAAATTAATTGAA
463738 TAATTACACAATTAAAAGTATATACATAATAATTAGAAAGAAAAGAAAATAATT
64 TAATTACACAATTAAAAGTATATACATAATAATTAGAAAGAAAAGAAAATAATT
463792 ATAAAATTAA
Statistics
Matches: 113, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
120 5 0.04
121 18 0.16
122 90 0.80
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.39
Consensus pattern (121 bp):
TATTAATATAATAATTTTATATAAAATATAAAAAAATTATTTATTTTTACTAAATTAATTGAATA
ATTACACAATTAAAAGTATATACATAATAATTAGAAAGAAAAGAAAATAATTTTAT
Found at i:463792 original size:49 final size:49
Alignment explanation
Indices: 463736--463830 Score: 136
Period size: 49 Copynumber: 1.9 Consensus size: 49
463726 AAATTAATTG
* * *
463736 AATAATTACACAATTAAAAGTATATACATAATAATTAGAAAGAAAAGAA
1 AATAATTACAAAATTAAAAGTATATACATAATAATCACAAAGAAAAGAA
* * *
463785 AATAATTATAAAATTAAACGTATATACATATTAATCACAAAGAAAA
1 AATAATTACAAAATTAAAAGTATATACATAATAATCACAAAGAAAA
463831 TAAATTTATA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 40 1.00
ACGTcount: A:0.60, C:0.07, G:0.06, T:0.26
Consensus pattern (49 bp):
AATAATTACAAAATTAAAAGTATATACATAATAATCACAAAGAAAAGAA
Found at i:463979 original size:2 final size:2
Alignment explanation
Indices: 463974--464015 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
463964 GTTAAAATGA
463974 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
464016 CAAAGTTAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:464775 original size:4 final size:4
Alignment explanation
Indices: 464766--464791 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
464756 TTATGCATTA
464766 TAAT TAAT TAAT TAAT TAAT TAAT TA
1 TAAT TAAT TAAT TAAT TAAT TAAT TA
464792 TAATTTTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TAAT
Found at i:464816 original size:11 final size:11
Alignment explanation
Indices: 464800--464840 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
464790 TATAATTTTG
464800 ATTTATATAAA
1 ATTTATATAAA
464811 ATTTATA-AAA
1 ATTTATATAAA
*
464821 ATATTATATGAA
1 AT-TTATATAAA
464833 ATTTATAT
1 ATTTATAT
464841 TTTTAAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
10 5 0.19
11 18 0.67
12 4 0.15
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (11 bp):
ATTTATATAAA
Found at i:470063 original size:2 final size:2
Alignment explanation
Indices: 470056--470091 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
470046 ACTCTTAATA
470056 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
470092 TTAAGACTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:475369 original size:4 final size:4
Alignment explanation
Indices: 475362--475431 Score: 56
Period size: 4 Copynumber: 18.0 Consensus size: 4
475352 TCGTTCAGCT
* * * *
475362 AAGA AAGA AAGA AAGA AAAA AAGA AAGA GAGA ATG- GAGA AA-A GAAGA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA -AAGA
* *
475409 AA-A AAGA AAAA AAGA AAAA AAGA
1 AAGA AAGA AAGA AAGA AAGA AAGA
475432 GAAATGAAAA
Statistics
Matches: 50, Mismatches: 12, Indels: 8
0.71 0.17 0.11
Matches are distributed among these distances:
3 5 0.10
4 44 0.88
5 1 0.02
ACGTcount: A:0.76, C:0.00, G:0.23, T:0.01
Consensus pattern (4 bp):
AAGA
Found at i:475386 original size:16 final size:16
Alignment explanation
Indices: 475365--475444 Score: 62
Period size: 15 Copynumber: 5.2 Consensus size: 16
475355 TTCAGCTAAG
475365 AAAGAAAGAAAGAAAA
1 AAAGAAAGAAAGAAAA
* *
475381 AAAGAAAGAGAG-AAT
1 AAAGAAAGAAAGAAAA
**
475396 GGAGAAA-AGAAG-AAA
1 AAAGAAAGA-AAGAAAA
*
475411 AAAGAAAAAAAGAAAA
1 AAAGAAAGAAAGAAAA
475427 AAAG--AGAAATGAAAA
1 AAAGAAAGAAA-GAAAA
475442 AAA
1 AAA
475445 TTTATTCGTT
Statistics
Matches: 51, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
14 5 0.10
15 27 0.53
16 19 0.37
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (16 bp):
AAAGAAAGAAAGAAAA
Found at i:475424 original size:23 final size:23
Alignment explanation
Indices: 475365--475444 Score: 72
Period size: 23 Copynumber: 3.5 Consensus size: 23
475355 TTCAGCTAAG
*
475365 AAAGAAAGAAAGAAAAAAAG-AA
1 AAAGAAAAAAAGAAAAAAAGAAA
* *** *
475387 AGAGAGAATGGAGAAAAGAAGAAA
1 AAAGA-AAAAAAGAAAAAAAGAAA
*
475411 AAAGAAAAAAAGAAAAAAAGAGA
1 AAAGAAAAAAAGAAAAAAAGAAA
*
475434 AATGAAAAAAA
1 AAAGAAAAAAA
475445 TTTATTCGTT
Statistics
Matches: 44, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
22 4 0.09
23 34 0.77
24 6 0.14
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (23 bp):
AAAGAAAAAAAGAAAAAAAGAAA
Found at i:475538 original size:17 final size:18
Alignment explanation
Indices: 475495--475543 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
475485 ATATTTCTTC
*
475495 ATATTTTTATATATTATA
1 ATATTTTTATATAATATA
* *
475513 ATTTATTTTATTTAATA-A
1 ATAT-TTTTATATAATATA
475531 ATATTTTTATATA
1 ATATTTTTATATA
475544 TGTGTATATT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
17 8 0.32
18 7 0.28
19 10 0.40
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
ATATTTTTATATAATATA
Found at i:475859 original size:343 final size:341
Alignment explanation
Indices: 475468--476089 Score: 883
Period size: 342 Copynumber: 1.8 Consensus size: 341
475458 ATTTATATTA
* *
475468 TTTTTATTTAAAATATTATATTTCTTCATATTTTTATATATTATAATTTATTTTATTTAAT-AAA
1 TTTTTATTTAAAATATTATATTTCTTCATATTTTTACAGATTATAATTTATTTTATTTAATGAAA
** * * * *
475532 TATTTTTATATATGTGTATATTCGTGTTATACATATATTATTTTTATGTTATGTTTTAAATATTT
66 -ATTTTTATATATACGTATATTCATGTTATACACATATTATTTTCATGTTAT-TTTAAAATATTT
* * * *
475597 TTTATAAATATCGTGTTTA-TTTTTTATATTTAAAATAAAATAAATTTATATAAATTTTTATATA
129 TTTATAAACATCGTGTTTATTTTTTTATATTTAAAATAAAATAAA-ATATATAAATTTTTACACA
* * * *
475661 TTAATTATTCATTTATCTATATTTTAATATATTCGTGTATTCATACTGTATTTATATTATTTTTC
193 TTAATTATTCATATATCTATATTTTAATATATTCATGCATTCATACTGTATTTATATTATCTTTC
*
475726 ATGTTATGTTTTAATTTTTTATTTATATGACAGAAAGGAGAAAAAAATAAAAAGAAAAAAAAATT
258 ATATTATGTTTTAATTTTTTATTTATATGACAGAAAGGAGAAAAAAATAAAAAGAAAAAAAAATT
475791 TATGTGCTCGTATTTATGT
323 TATGTGCTCGTATTTATGT
* *
475810 TTTTTATTTAAAATATTATATTT-TT-ATATTTTTTTACAGATTAATAATTTATTTTGTTTCATG
1 TTTTTATTTAAAATATTATATTTCTTCATA--TTTTTACAGATT-ATAATTTATTTTATTTAATG
* * ***
475873 TAAATTTTTATATGTACGTATATTCATGTTATGTGCATATTATTTTCATGTTATTTTAAAATATT
63 AAAATTTTTATATATACGTATATTCATGTTATACACATATTATTTTCATGTTATTTTAAAATATT
* * *
475938 TTTTATAAACATCGTGTTTATTTTTTTATGTTTAAAATAAAATAAAATATTTAAATTTTTACACG
128 TTTTATAAACATCGTGTTTATTTTTTTATATTTAAAATAAAATAAAATATATAAATTTTTACACA
* *
476003 TTAATTATTTATATATCTATATTTTGATATATTCATGCATTCATACTGTATTTATATTATCTTTC
193 TTAATTATTCATATATCTATATTTTAATATATTCATGCATTCATACTGTATTTATATTATCTTTC
* *
476068 ATATTGTGTTTTTATTTTTTAT
258 ATATTATGTTTTAATTTTTTAT
476090 ATATGTTAAG
Statistics
Matches: 244, Mismatches: 31, Indels: 10
0.86 0.11 0.04
Matches are distributed among these distances:
340 3 0.01
341 2 0.01
342 154 0.63
343 83 0.34
344 2 0.01
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.55
Consensus pattern (341 bp):
TTTTTATTTAAAATATTATATTTCTTCATATTTTTACAGATTATAATTTATTTTATTTAATGAAA
ATTTTTATATATACGTATATTCATGTTATACACATATTATTTTCATGTTATTTTAAAATATTTTT
TATAAACATCGTGTTTATTTTTTTATATTTAAAATAAAATAAAATATATAAATTTTTACACATTA
ATTATTCATATATCTATATTTTAATATATTCATGCATTCATACTGTATTTATATTATCTTTCATA
TTATGTTTTAATTTTTTATTTATATGACAGAAAGGAGAAAAAAATAAAAAGAAAAAAAAATTTAT
GTGCTCGTATTTATGT
Found at i:476616 original size:11 final size:11
Alignment explanation
Indices: 476600--476673 Score: 57
Period size: 11 Copynumber: 7.1 Consensus size: 11
476590 CATATTTGTG
*
476600 TATTTATGTTA
1 TATTTATATTA
476611 TATTTATATTA
1 TATTTATATTA
* *
476622 TTTTTATATCA
1 TATTTATATTA
*
476633 TA-TTATATTT
1 TATTTATATTA
*
476643 TAATTAT-TT-
1 TATTTATATTA
*
476652 T-TTAATATTA
1 TATTTATATTA
*
476662 TATTTATGTTA
1 TATTTATATTA
476673 T
1 T
476674 GTTTCAGTTT
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
8 3 0.06
9 3 0.06
10 11 0.22
11 32 0.65
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (11 bp):
TATTTATATTA
Done.