Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008930.1 Hibiscus syriacus cultivar Beakdansim tig00112236_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 792381
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 5
Found at i:531634 original size:57 final size:58
Alignment explanation
Indices: 531518--531635 Score: 154
Period size: 57 Copynumber: 2.1 Consensus size: 58
531508 ATATACTTTA
* * *
531518 ATACTTTATATTTATATACTTTAATACTTTATATTTAATACTTATATTATATAGTTTT
1 ATACTTTATATGTATATACTTTAATACTTTATATTTAATACTTATATAATATAGGTTT
531576 ATACTTTATA-GTATATACTTTAATACTTTATA-TTATATACTT-TATAA-ACTATGGTTT
1 ATACTTTATATGTATATACTTTAATACTTTATATTTA-ATACTTATATAATA-TA-GGTTT
531633 ATA
1 ATA
531636 TCTATACTTA
Statistics
Matches: 54, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
55 1 0.02
56 9 0.17
57 34 0.63
58 10 0.19
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.53
Consensus pattern (58 bp):
ATACTTTATATGTATATACTTTAATACTTTATATTTAATACTTATATAATATAGGTTT
Found at i:531678 original size:26 final size:26
Alignment explanation
Indices: 531649--531708 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
531639 ATACTTATGG
*
531649 TTTATAGTTTATAT-ATATATATACAC
1 TTTATACTTTATATAAT-TATATACAC
*
531675 TTTATACTTTATATAATTATATATAC
1 TTTATACTTTATATAATTATATACAC
531701 TTTATACT
1 TTTATACT
531709 AAAACTTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
26 29 0.94
27 2 0.06
ACGTcount: A:0.37, C:0.08, G:0.02, T:0.53
Consensus pattern (26 bp):
TTTATACTTTATATAATTATATACAC
Found at i:531696 original size:32 final size:31
Alignment explanation
Indices: 531008--531776 Score: 105
Period size: 29 Copynumber: 25.0 Consensus size: 31
530998 ATTTATTTAT
*
531008 ATATATTTATATACTTTATA-TTTA-ATAATT
1 ATATATATATATACTTTATACTTTATAT-ATT
531038 AATATTGTATATTAATATAC-TTATAC-TTATATAGTT
1 -ATA---TATA-T-ATATACTTTATACTTTATATA-TT
*
531074 ATATATACTTTATACTTTATA-TTTA-ATACTT
1 ATATATA-TATATACTTTATACTTTATATA-TT
* *
531105 CTATACT-T-TATA-TTACATACTTGTATAT-TT
1 ATATA-TATATATACTT-TATACTT-TATATATT
*
531135 -TATATTTA-ATACTTATATACTTTTATATATAT
1 ATATATATATATACTT-TATAC-TTTATATAT-T
* *
531167 ATATATATATAAACTTT-TA--TTATA-CTT
1 ATATATATATATACTTTATACTTTATATATT
*
531194 -TATAT-TATATAC-TTATACATTATAGT-TT
1 ATATATATATATACTTTATACTTTATA-TATT
*
531222 -T-TATATATAAAC-TTATACT-TATATAGTT
1 ATATATATATATACTTTATACTTTATATA-TT
* * *
531250 -TATATATTTATACATTATAGTTTATATA-T
1 ATATATATATATACTTTATACTTTATATATT
* *
531279 ATGTATACTTCTATACTTTCATAC-TTATAT-TCT
1 ATATATA--TATATACTTT-ATACTTTATATAT-T
* *
531312 ATA-AT-TTTATACTTTAATAC-TTATACACTTT
1 ATATATATATATACTTT-ATACTTTATATA--TT
*
531343 AATACTTATATTATATAGTTTTATACTTTATACTA-T
1 -ATA--TATA-TATATA-CTTTATACTTTATA-TATT
*
531379 ATACT-T-TA-ATAC-TTATA-TTCTAT-TGTT
1 ATA-TATATATATACTTTATACTT-TATATATT
* * *
531406 TTATACTTTA-ATACTTTTACACTTTA-ATACTT
1 ATATA-TATATATAC-TTTATACTTTATATA-TT
*
531438 ATAT-TATATAGT--TTTATACTTTATCGTA-T
1 ATATATATATA-TACTTTATACTTTAT-ATATT
* *
531467 ATACT-T-TA-ATACTTGTAT--TCTATAGTTTT
1 ATA-TATATATATACTT-TATACTTTATA-TATT
531496 ATACTTTATAGTATATACTTTAATACTTTATAT-TT
1 ATA---TATA-TATATACTTT-ATACTTTATATATT
*
531531 ATATACTTTA-ATACTTTATA-TTTA-ATACTT
1 ATATA-TATATATACTTTATACTTTATATA-TT
531561 ATAT-TATATAGT--TTTATACTTTATAGTA-T
1 ATATATATATA-TACTTTATACTTTATA-TATT
531590 ATACT-T-TA-ATACTTTATA--TTATATACTT
1 ATA-TATATATATACTTTATACTTTATATA-TT
** * *
531618 -TATA-A-ACTATGGTTTATATCTATACTTATGGTTT
1 ATATATATA-TATACTTTATA-CTTTA--TAT--ATT
* *
531652 ATAGTTTATATATATA-TATACACTTTATACT-TT
1 ATA---TATATATATACTTTATACTTTATA-TATT
* * *
531685 ATATAATTATATATACTTTATAC-TAAAACTTTAT
1 ATAT-A-TATATATACTTTATACTTTATA-TAT-T
*
531719 ATATATATATATAC-ATATACTTTA-ATATT
1 ATATATATATATACTTTATACTTTATATATT
* * *
531748 TTATATATTTATACTTTATA-TATATATAT
1 ATATATATATATACTTTATACTTTATATAT
531777 ACTTTTATAC
Statistics
Matches: 555, Mismatches: 63, Indels: 241
0.65 0.07 0.28
Matches are distributed among these distances:
24 2 0.00
25 8 0.01
26 12 0.02
27 27 0.05
28 58 0.10
29 113 0.20
30 63 0.11
31 60 0.11
32 76 0.14
33 31 0.06
34 19 0.03
35 35 0.06
36 13 0.02
37 18 0.03
38 14 0.03
39 5 0.01
40 1 0.00
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.53
Consensus pattern (31 bp):
ATATATATATATACTTTATACTTTATATATT
Found at i:531764 original size:48 final size:49
Alignment explanation
Indices: 531712--531823 Score: 142
Period size: 48 Copynumber: 2.3 Consensus size: 49
531702 TTATACTAAA
* *
531712 ACTTTATATATATATATA-TACATATACTTTAATATTTTATATA-TT-TAT
1 ACTTTATATATATATATACT-CATATAC-TAAATAGTTTATATACTTATAT
**
531760 ACTTTATATATATATATACTTTTATACTAAATAGTTTATATACTTATAT
1 ACTTTATATATATATATACTCATATACTAAATAGTTTATATACTTATAT
531809 ACTTTATAT-TATATA
1 ACTTTATATATATATA
531824 CTTATATCCT
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
47 13 0.23
48 31 0.54
49 13 0.23
ACGTcount: A:0.39, C:0.07, G:0.01, T:0.53
Consensus pattern (49 bp):
ACTTTATATATATATATACTCATATACTAAATAGTTTATATACTTATAT
Found at i:531776 original size:56 final size:57
Alignment explanation
Indices: 531658--531974 Score: 155
Period size: 54 Copynumber: 5.5 Consensus size: 57
531648 GTTTATAGTT
* * * * *
531658 TATATATATATATACACTTTATACTTTATATAATTATATATACTTTATAC--TA-AAACTT
1 TATATATATATATATACTATATACTTTA-AT-ATTTTATATA-TTTATACTTTATATA-TA
531716 TATATATATATATATAC-ATATACTTTAATATTTTATATATTTATACTTTATATATA
1 TATATATATATATATACTATATACTTTAATATTTTATATATTTATACTTTATATATA
* *
531772 TATATACT-T-T-TATACTAAATAGTTTATATACTTATATACTTTATATTATATAC-TTATATCC
1 TATATA-TATATATATACTATATACTTTA-ATA-TT-T-TA---TATATT-TATACTTTATAT--
* *
531833 TTT
55 ATA
* * * * * * * *
531836 TGTCTTTATAATATATA-TATACACATT-ATAGTTTATA-GTTTATACTTTGTATATA
1 TATATATAT-ATATATACTATATACTTTAATATTTTATATATTTATACTTTATATATA
* * *
531891 TACT-TATATATATATA-TATATACTTTTATATTAATATGTATTTATA-TTTATATATA
1 TA-TATATATATATATACTATATACTTTAATATT-TTATATATTTATACTTTATATATA
*
531947 -AT-TACATATATA-ACTATATACTTATAAT
1 TATATATATATATATACTATATACTT-TAAT
531975 GTATTAATGT
Statistics
Matches: 201, Mismatches: 32, Indels: 55
0.70 0.11 0.19
Matches are distributed among these distances:
53 1 0.00
54 46 0.23
55 32 0.16
56 33 0.16
57 27 0.13
58 19 0.09
59 2 0.01
61 2 0.01
62 13 0.06
63 7 0.03
64 8 0.04
66 7 0.03
67 4 0.02
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.51
Consensus pattern (57 bp):
TATATATATATATATACTATATACTTTAATATTTTATATATTTATACTTTATATATA
Found at i:531900 original size:10 final size:9
Alignment explanation
Indices: 531885--531972 Score: 58
Period size: 10 Copynumber: 9.4 Consensus size: 9
531875 TTATACTTTG
531885 TATATATACT
1 TATATATA-T
531895 TATATATAT
1 TATATATAT
531904 ATATATATACT
1 -TATATATA-T
531915 T-T-TATAT
1 TATATATAT
*
531922 TAATATGTAT
1 T-ATATATAT
531932 T-TATAT-T
1 TATATATAT
531939 TATATATAAT
1 TATATAT-AT
*
531949 TACATATAT
1 TATATATAT
*
531958 AACTATATACT
1 TA-TATATA-T
531969 TATA
1 TATA
531973 ATGTATTAAT
Statistics
Matches: 62, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
7 4 0.06
8 13 0.21
9 6 0.10
10 36 0.58
11 3 0.05
ACGTcount: A:0.42, C:0.06, G:0.01, T:0.51
Consensus pattern (9 bp):
TATATATAT
Found at i:531904 original size:16 final size:16
Alignment explanation
Indices: 531885--531972 Score: 50
Period size: 16 Copynumber: 5.9 Consensus size: 16
531875 TTATACTTTG
531885 TATATATACTTATATA
1 TATATATACTTATATA
531901 TATATATA--TATACT-
1 TATATATACTTATA-TA
*
531915 T-T-TATA-TTAATATG
1 TATATATACTT-ATATA
* *
531929 TATTTATATTTATATA
1 TATATATACTTATATA
*
531945 TA-AT-TACATATATA
1 TATATATACTTATATA
531959 -ACTATATACTTATA
1 TA-TATATACTTATA
531973 ATGTATTAAT
Statistics
Matches: 57, Mismatches: 5, Indels: 20
0.70 0.06 0.24
Matches are distributed among these distances:
12 4 0.07
13 4 0.07
14 17 0.30
15 5 0.09
16 25 0.44
17 2 0.04
ACGTcount: A:0.42, C:0.06, G:0.01, T:0.51
Consensus pattern (16 bp):
TATATATACTTATATA
Found at i:531908 original size:20 final size:19
Alignment explanation
Indices: 531885--531972 Score: 78
Period size: 20 Copynumber: 4.7 Consensus size: 19
531875 TTATACTTTG
531885 TATATATACTTATATATATA
1 TATATATACTTATATAT-TA
*
531905 TATATATACTTTTATATTA
1 TATATATACTTATATATTA
*
531924 -ATATGTA-TT-TATATT-
1 TATATATACTTATATATTA
* *
531939 TATATATAATTACATA-TA
1 TATATATACTTATATATTA
531957 TAACTATATACTTATA
1 T-A-TATATACTTATA
531973 ATGTATTAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
16 12 0.21
17 5 0.09
18 10 0.18
19 3 0.05
20 26 0.46
ACGTcount: A:0.42, C:0.06, G:0.01, T:0.51
Consensus pattern (19 bp):
TATATATACTTATATATTA
Found at i:532076 original size:19 final size:19
Alignment explanation
Indices: 532033--532090 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 19
532023 TATATACATG
* *
532033 CATCATATCATTATTATTAT
1 CATCATAACA-TATTAATAT
*
532053 TATCATAACATATTAATAT
1 CATCATAACATATTAATAT
532072 CATCAT-ACATATTATATAT
1 CATCATAACATATTA-ATAT
532091 ATATACCAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 8 0.24
19 17 0.52
20 8 0.24
ACGTcount: A:0.41, C:0.14, G:0.00, T:0.45
Consensus pattern (19 bp):
CATCATAACATATTAATAT
Found at i:537957 original size:195 final size:198
Alignment explanation
Indices: 537625--538017 Score: 765
Period size: 195 Copynumber: 2.0 Consensus size: 198
537615 TAAATTTGAA
537625 AAACAATTATCTTATGATTATTTTCTTTATTTTCTTTGTTTATCCCTTAGGCTTTGAGAGGCTAT
1 AAACAATTATCTTATGATTATTTTCTTTATTTTCTTTGTTTATCCCTTAGGCTTTGAGAGGCTAT
537690 AAATACCCACTTGGGGTAAGCCTAAACTCATCATTCAGATTACATTCTTATTTTCTCTTTAGTTT
66 AAATACCCACTTGGGGTAAGCCTAAACTCATCATTCAGATTACATTCTTATTTTCTCTTTAGTTT
537755 TTATAAAAG-TTTCTC-TTTTACTTTTCAAGTTCTTTTCATTTTTCTTTTA-TTTTTAAGCTTTG
131 TTATAAAAGTTTTCTCTTTTTACTTTTCAAGTTCTTTTCATTTTTCTTTTATTTTTTAAGCTTTG
537817 TTT
196 TTT
537820 AAACAATTATCTTATGATTATTTTCTTTATTTTCTTTGTTTATCCCTTAGGCTTTGAGAGGCTAT
1 AAACAATTATCTTATGATTATTTTCTTTATTTTCTTTGTTTATCCCTTAGGCTTTGAGAGGCTAT
537885 AAATACCCACTTGGGGTAAGCCTAAACTCATCATTCAGATTACATTCTTATTTTCTCTTTAGTTT
66 AAATACCCACTTGGGGTAAGCCTAAACTCATCATTCAGATTACATTCTTATTTTCTCTTTAGTTT
537950 TTATAAAAGTTTTCTCTTTTTACTTTTCAAGTTCTTTTCATTTTTCTTTTATTTTTTAAGCTTTG
131 TTATAAAAGTTTTCTCTTTTTACTTTTCAAGTTCTTTTCATTTTTCTTTTATTTTTTAAGCTTTG
538015 TTT
196 TTT
538018 TCAAAATGCT
Statistics
Matches: 195, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
195 139 0.71
196 6 0.03
197 34 0.17
198 16 0.08
ACGTcount: A:0.23, C:0.16, G:0.10, T:0.52
Consensus pattern (198 bp):
AAACAATTATCTTATGATTATTTTCTTTATTTTCTTTGTTTATCCCTTAGGCTTTGAGAGGCTAT
AAATACCCACTTGGGGTAAGCCTAAACTCATCATTCAGATTACATTCTTATTTTCTCTTTAGTTT
TTATAAAAGTTTTCTCTTTTTACTTTTCAAGTTCTTTTCATTTTTCTTTTATTTTTTAAGCTTTG
TTT
Found at i:538604 original size:18 final size:18
Alignment explanation
Indices: 538558--538600 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
538548 TCTTCTTATT
*
538558 TTTACTTTAATTGCTTTTA
1 TTTA-TTTAATCGCTTTTA
538577 TTTATTTAATCGCTTTTA
1 TTTATTTAATCGCTTTTA
538595 -TTATTT
1 TTTATTT
538601 TAATATTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.26
18 13 0.57
19 4 0.17
ACGTcount: A:0.21, C:0.09, G:0.05, T:0.65
Consensus pattern (18 bp):
TTTATTTAATCGCTTTTA
Found at i:544095 original size:17 final size:18
Alignment explanation
Indices: 544066--544102 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
544056 CATTTAGATG
544066 ATGAAATGATGAAT-TAT
1 ATGAAATGATGAATATAT
544083 ATGAACATG-TGAATATAT
1 ATGAA-ATGATGAATATAT
544101 AT
1 AT
544103 ATATATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.46, C:0.03, G:0.16, T:0.35
Consensus pattern (18 bp):
ATGAAATGATGAATATAT
Found at i:544102 original size:2 final size:2
Alignment explanation
Indices: 544095--544127 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
544085 GAACATGTGA
544095 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
544128 ATAAGACATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:544553 original size:23 final size:23
Alignment explanation
Indices: 544518--544580 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
544508 AACCTTATAT
*
544518 GGCACTTCGGTGCATTTCTACGC
1 GGCACTTCAGTGCATTTCTACGC
* * * *
544541 GGCACTACAGTGCAATTGTACGT
1 GGCACTTCAGTGCATTTCTACGC
544564 GGCACTTCAGTGCATTT
1 GGCACTTCAGTGCATTT
544581 ATATGAGCTA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.30
Consensus pattern (23 bp):
GGCACTTCAGTGCATTTCTACGC
Found at i:546206 original size:36 final size:36
Alignment explanation
Indices: 546159--546232 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
546149 GGAAAGCTTG
546159 ATGATGGCGCAAACGTCAATACCTTGGTTCGCAGAT
1 ATGATGGCGCAAACGTCAATACCTTGGTTCGCAGAT
546195 ATGATGGCGCAAACGTCAATACCTTGGTTCGCAGAT
1 ATGATGGCGCAAACGTCAATACCTTGGTTCGCAGAT
546231 AT
1 AT
546233 AGTCAATTAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (36 bp):
ATGATGGCGCAAACGTCAATACCTTGGTTCGCAGAT
Found at i:547113 original size:44 final size:44
Alignment explanation
Indices: 547050--547138 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
547040 ACCATATCGC
547050 CTTGTGTTCGGTAAGTCGTGCCATTTACCCGTCGAGCTAGAACA
1 CTTGTGTTCGGTAAGTCGTGCCATTTACCCGTCGAGCTAGAACA
547094 CTTGTGTTCGGTAAGTCGTGCCATTTACCCGTCGAGCTAGAACA
1 CTTGTGTTCGGTAAGTCGTGCCATTTACCCGTCGAGCTAGAACA
547138 C
1 C
547139 AAGGCATATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.20, C:0.26, G:0.25, T:0.29
Consensus pattern (44 bp):
CTTGTGTTCGGTAAGTCGTGCCATTTACCCGTCGAGCTAGAACA
Found at i:550329 original size:18 final size:18
Alignment explanation
Indices: 550283--550325 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
550273 TCTTCTTATT
550283 TTTACTTTAATTGCTTTTA
1 TTTA-TTTAATTGCTTTTA
550302 TTTATTTAATTGCTTTTA
1 TTTATTTAATTGCTTTTA
550320 -TTATTT
1 TTTATTT
550326 TAATATTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 6 0.25
18 14 0.58
19 4 0.17
ACGTcount: A:0.21, C:0.07, G:0.05, T:0.67
Consensus pattern (18 bp):
TTTATTTAATTGCTTTTA
Found at i:554440 original size:29 final size:28
Alignment explanation
Indices: 554395--554451 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
554385 AGAGTCGAGG
* *
554395 GTATACGCGGTCATTCGAGACATATACA
1 GTATACGAGGTCATTCGAGACAAATACA
* *
554423 GTATACAGAGGTCCTTCGGGACAAATACA
1 GTATAC-GAGGTCATTCGAGACAAATACA
554452 TAGGTCCTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 6 0.25
29 18 0.75
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (28 bp):
GTATACGAGGTCATTCGAGACAAATACA
Found at i:554456 original size:22 final size:22
Alignment explanation
Indices: 554425--554470 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
554415 CATATACAGT
554425 ATACAGAGGTCCTTCGGGACAA
1 ATACAGAGGTCCTTCGGGACAA
*
554447 ATACATAGGTCCTTCGGGACAA
1 ATACAGAGGTCCTTCGGGACAA
554469 AT
1 AT
554471 TTCACATGCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.22
Consensus pattern (22 bp):
ATACAGAGGTCCTTCGGGACAA
Found at i:555633 original size:21 final size:21
Alignment explanation
Indices: 555607--555660 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
555597 GTTTCCAGAT
*
555607 TCGCAACGCGAACTTCGACTA
1 TCGCAATGCGAACTTCGACTA
*
555628 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTCGACTA
555649 TCGCAATGCGAA
1 TCGCAATGCGAA
555661 TATGTAAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (21 bp):
TCGCAATGCGAACTTCGACTA
Found at i:556203 original size:6 final size:6
Alignment explanation
Indices: 556193--556225 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
556183 TCTCGTCTCG
*
556193 GGTCGG GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
556226 AATACGTGTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.15, G:0.55, T:0.30
Consensus pattern (6 bp):
GGTCGT
Found at i:556343 original size:21 final size:21
Alignment explanation
Indices: 556318--556483 Score: 155
Period size: 21 Copynumber: 7.8 Consensus size: 21
556308 ATTTTGGACT
556318 ATCGCAACGAACTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
* *
556339 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAACTTGGAATAA
556360 ATCGCAACGAACTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
*
556381 ATCGCAATGCGAACTTGGACT--
1 ATCGCAA--CGAACTTGGAATAA
*
556402 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
* * *
556423 ATCGCATCGCGAACTTTGACT--
1 ATCGCA--ACGAACTTGGAATAA
556444 ATCGCAACGAACTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
556465 ATCGCAACGCGAACTTGGA
1 ATCGCAA--CGAACTTGGA
556484 CTATCGCAAT
Statistics
Matches: 117, Mismatches: 14, Indels: 26
0.75 0.09 0.17
Matches are distributed among these distances:
19 30 0.26
21 47 0.40
23 40 0.34
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (21 bp):
ATCGCAACGAACTTGGAATAA
Found at i:556373 original size:42 final size:42
Alignment explanation
Indices: 556311--556492 Score: 319
Period size: 42 Copynumber: 4.3 Consensus size: 42
556301 CGTTGCGATT
556311 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
* *
556353 TTCGACTATCGCAACGAACTTGGAATAAATCGCAATGCGAAC
1 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
* *
556395 TTGGACTATCGCAACGAATTTGGAATAAATCGCATCGCGAAC
1 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
*
556437 TTTGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
556479 TTGGACTATCGCAA
1 TTGGACTATCGCAA
556493 TGCGAATATG
Statistics
Matches: 130, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 130 1.00
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (42 bp):
TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
Found at i:568356 original size:16 final size:16
Alignment explanation
Indices: 568335--568366 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
568325 ATACTAGATC
*
568335 AATAAGTTGTTGATAT
1 AATAAGCTGTTGATAT
568351 AATAAGCTGTTGATAT
1 AATAAGCTGTTGATAT
568367 TCCAGCTTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.03, G:0.19, T:0.41
Consensus pattern (16 bp):
AATAAGCTGTTGATAT
Found at i:569908 original size:20 final size:20
Alignment explanation
Indices: 569880--569927 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
569870 TCTGTTGGGA
569880 TTAGGGTTATAAATAAGGGT
1 TTAGGGTTATAAATAAGGGT
*
569900 TTAGTGTTATAAATAAGGGT
1 TTAGGGTTATAAATAAGGGT
569920 TTAGGGTT
1 TTAGGGTT
569928 TAAGATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.29, T:0.40
Consensus pattern (20 bp):
TTAGGGTTATAAATAAGGGT
Found at i:573684 original size:31 final size:31
Alignment explanation
Indices: 573614--573684 Score: 74
Period size: 31 Copynumber: 2.3 Consensus size: 31
573604 AAAAGAACTT
* *
573614 TAACTTTTGGTCACTTGCATTATTTTCTATA
1 TAACTTTTGATCACTTACATTATTTTCTATA
* *
573645 TAAGTTTTGATCACTTACGTTATCGTTT-TATA
1 TAACTTTTGATCACTTACATTAT--TTTCTATA
573677 -AACTTTTG
1 TAACTTTTG
573685 GTCATTGAGA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
31 26 0.79
32 4 0.12
33 3 0.09
ACGTcount: A:0.24, C:0.14, G:0.11, T:0.51
Consensus pattern (31 bp):
TAACTTTTGATCACTTACATTATTTTCTATA
Found at i:574912 original size:31 final size:31
Alignment explanation
Indices: 574874--574948 Score: 150
Period size: 31 Copynumber: 2.4 Consensus size: 31
574864 TAGGGTATGC
574874 AAATTTGGATATCGGATCGGATTTGATATAA
1 AAATTTGGATATCGGATCGGATTTGATATAA
574905 AAATTTGGATATCGGATCGGATTTGATATAA
1 AAATTTGGATATCGGATCGGATTTGATATAA
574936 AAATTTGGATATC
1 AAATTTGGATATC
574949 CGAAATTTCT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (31 bp):
AAATTTGGATATCGGATCGGATTTGATATAA
Found at i:575043 original size:21 final size:21
Alignment explanation
Indices: 574996--575039 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
574986 ATTCGAAAAA
* *
574996 ATCGGATATCCGAATTTTCAG
1 ATCGAATATCCGAATTATCAG
*
575017 ATCGAATATCCGAA-TATCCG
1 ATCGAATATCCGAATTATCAG
575037 ATC
1 ATC
575040 CGAACATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.30
Consensus pattern (21 bp):
ATCGAATATCCGAATTATCAG
Found at i:575959 original size:2 final size:2
Alignment explanation
Indices: 575952--575976 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
575942 TCGTTTACCC
575952 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
575977 CTTTGATAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:585627 original size:21 final size:22
Alignment explanation
Indices: 585598--585643 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
585588 CCGGAAATGT
*
585598 TAAATAATATTAATGTTTTAGG
1 TAAATAATAATAATGTTTTAGG
585620 TAAA-AATAATAATGTTTTAGG
1 TAAATAATAATAATGTTTTAGG
585641 TAA
1 TAA
585644 TTTTTTACCG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.13, T:0.41
Consensus pattern (22 bp):
TAAATAATAATAATGTTTTAGG
Found at i:586048 original size:30 final size:28
Alignment explanation
Indices: 586014--586070 Score: 96
Period size: 30 Copynumber: 2.0 Consensus size: 28
586004 AAATCCAAAC
586014 CCAACCTAAACGTATTTTTCTTAAAAAAAA
1 CCAACCTAAACGTA-TTTTC-TAAAAAAAA
586044 CCAACCTAAACGTATTTTCTAAAAAAA
1 CCAACCTAAACGTATTTTCTAAAAAAA
586071 CTCGATCTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 8 0.30
29 5 0.19
30 14 0.52
ACGTcount: A:0.47, C:0.21, G:0.04, T:0.28
Consensus pattern (28 bp):
CCAACCTAAACGTATTTTCTAAAAAAAA
Found at i:591705 original size:54 final size:54
Alignment explanation
Indices: 591638--591769 Score: 165
Period size: 54 Copynumber: 2.4 Consensus size: 54
591628 ATGGAGTAGA
* ** * * *
591638 AACTCGTACAATCTTTTGCCTACGGGCTCGCTCCCTCTTTCTTCAGGGAGTATAG
1 AACTCG-AAAATCTTTTGCAAACGGGCTCGCTCACACTTTCTTCAGGGAGCATAG
* * *
591693 AACTTGAAAATCTTCTGCAAACGGGTTCGCTCACACTTTCTTCAGGGAGCATAG
1 AACTCGAAAATCTTTTGCAAACGGGCTCGCTCACACTTTCTTCAGGGAGCATAG
*
591747 AACTCGAAAATCTTTTGAAAACG
1 AACTCGAAAATCTTTTGCAAACG
591770 TGTATGCTCC
Statistics
Matches: 65, Mismatches: 12, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
54 60 0.92
55 5 0.08
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.30
Consensus pattern (54 bp):
AACTCGAAAATCTTTTGCAAACGGGCTCGCTCACACTTTCTTCAGGGAGCATAG
Found at i:591835 original size:55 final size:55
Alignment explanation
Indices: 591776--591934 Score: 273
Period size: 55 Copynumber: 2.9 Consensus size: 55
591766 AACGTGTATG
*
591776 CTCCCTATTCCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTA
1 CTCCCTATTCTTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTA
* *
591831 CTCCCTATTCTTTCAGAGAGTATGAGACTCGAATAATCTTCAACAATCGTGTCTG
1 CTCCCTATTCTTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTA
* *
591886 CTCCCTATTCTTTCAGAGAGTATAAGACTCGAACAAACTTCAACAATCG
1 CTCCCTATTCTTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCG
591935 AGTTCGTTCC
Statistics
Matches: 98, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 98 1.00
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (55 bp):
CTCCCTATTCTTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTA
Found at i:591971 original size:110 final size:108
Alignment explanation
Indices: 591768--591980 Score: 270
Period size: 110 Copynumber: 1.9 Consensus size: 108
591758 CTTTTGAAAA
* * *
591768 CGTGTATGCTCCCTATTCCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTACT
1 CGTGTATGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAAACTTCAACAATCGAGTCTA-T
*
591833 CCCTATTCTTTCAGAGAGTATGAGACTCGAATAATCTTCAACAAT
65 CCCTATTCTCTCAGAGAGTATGAGACTCGAAT-ATCTTCAACAAT
* *
591878 CGTGTCTGCTCCCTATTCTTTCAGAGAGTATAAGACTCGAACAAACTTCAACAATCGAGTTCGT-
1 CGTGTATGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAAACTTCAACAATCGAG-TC-TA
* * *
591942 TCCCTCTT-TCTCTAGGGATTATG-GAACTCGAATATCTTC
64 TCCCTATTCTCTC-AGAGAGTATGAG-ACTCGAATATCTTC
591981 TGCAAACGAG
Statistics
Matches: 90, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
109 10 0.11
110 77 0.86
111 2 0.02
112 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (108 bp):
CGTGTATGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAAACTTCAACAATCGAGTCTATC
CCTATTCTCTCAGAGAGTATGAGACTCGAATATCTTCAACAAT
Found at i:592160 original size:51 final size:51
Alignment explanation
Indices: 591659--592553 Score: 639
Period size: 51 Copynumber: 17.0 Consensus size: 51
591649 TCTTTTGCCT
* * * * *
591659 ACGGGCTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTTGAAAATCTTCTGCAA
1 ACGGGTTCGCTCCCTCTTTCTTTAAGGAGTATAGAACTCGAACATC-T-T-CAA
* * * * * * *
591713 ACGGGTTCGCTCACACTTTCTTCAGGGAGCATAGAACTCGAAAATCTTTTGAAA
1 ACGGGTTCGCTCCCTCTTTCTTTAAGGAGTATAGAACTCGAACATC--TT-CAA
* * * *
591767 ACGTGTAT-GCTCCCT-ATTCCTTCAGAGAGTAT-GAGACTCGAACAATCTTCAACA
1 ACGGGT-TCGCTCCCTCTTTCTTTAAG-GAGTATAGA-ACTCGAAC-ATCTTC-A-A
* * * * *
591821 ATCGTG-TCTACTCCCT-ATTCTTTCAGAGAGTAT-GAGACTCGAATAATCTTCAACA
1 A-CGGGTTC-GCTCCCTCTTTCTTTAAG-GAGTATAGA-ACTCGAA-CATCTTC-A-A
* * * *
591876 ATCGTG-TCTGCTCCCT-ATTCTTTCAGAGAGTATA-AGACTCGAACAAACTTCAACA
1 A-CGGGTTC-GCTCCCTCTTTCTTTAAG-GAGTATAGA-ACTCGAAC-ATCTTC-A-A
* * * * * * *
591931 ATCGAGTTCGTTCCCTCTTTCTCTAGGGATTATGGAACTCGAATATCTTCTGCAA
1 A-CGGGTTCGCTCCCTCTTTCTTTAAGGAGTATAGAACTCGAACATC-T-T-CAA
* * * * *
591986 ACGAGTTCGCTCTCTCTTTCTCTAGGGAGTATAGAACTCGAACAATTTTCAA
1 ACGGGTTCGCTCCCTCTTTCTTTAAGGAGTATAGAACTCGAAC-ATCTTCAA
* * * *
592038 ACGGGTTCGCTCCCTTTTTCTCTAGGGAGTATGGAACTC-AGACATCTCTTCAA
1 ACGGGTTCGCTCCCTCTTTCTTTAAGGAGTATAGAACTCGA-ACA--TCTTCAA
*
592091 ACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTCAA
1 ACGGGTTCGCTCCCTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTCAA
*
592142 ACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTCTTC--
1 ACGGGTTCGCTCCCTCTTTCTTTAAGGAGTATAGAACTCGAACA--TCTTCAA
* * *
592193 ACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTC-A
1 ACGGGTTCGCTCCCTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTCAA
* * * * * * **
592243 ACTGGGTTCGCTCCCTTTTTCTTCAGGGCGTATAGAACTCAAAAATCTTCTTCTT
1 AC-GGGTTCGCTCCCTCTTTCTTTAAGGAGTATAGAACTC--GAA-CATCTTCAA
* * * * *
592298 ACAGGTTCGATCCTTCTCTCTTTAAAGAGTATAGAACTCGAACATCTTCAA
1 ACGGGTTCGCTCCCTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTCAA
* * * * * *
592349 ACGGGTTCGCTCCTTCTTTCATTAAGGAGTATGGAACTCGGATATCTTCAC
1 ACGGGTTCGCTCCCTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTCAA
* * * *
592400 ACGGGTTCGCTCCCTCTTTCTCTATGGAGTATGGAACT-TAGACATCTCTTCAA
1 ACGGGTTCGCTCCCTCTTTCTTTAAGGAGTATAGAACTCGA-ACA--TCTTCAA
*
592453 ACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTCAA
1 ACGGGTTCGCTCCCTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTCAA
* * * *
592504 ACGGGTTCGCTTCTTCTTTCTTTAAGGAGTATAGAACTCGCATATCTTCA
1 ACGGGTTCGCTCCCTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTCA
592554 TTTGCTTCAC
Statistics
Matches: 706, Mismatches: 99, Indels: 75
0.80 0.11 0.09
Matches are distributed among these distances:
49 5 0.01
50 2 0.00
51 263 0.37
52 42 0.06
53 105 0.15
54 145 0.21
55 132 0.19
56 11 0.02
57 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.33
Consensus pattern (51 bp):
ACGGGTTCGCTCCCTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTCAA
Found at i:592217 original size:207 final size:205
Alignment explanation
Indices: 591936--592553 Score: 773
Period size: 207 Copynumber: 3.0 Consensus size: 205
591926 CAACAATCGA
* * * * * *
591936 GTTCGTTCCCTCTTTCTCTAGGGATTATGGAACTCGAATATCTTCTGCAAACGAGTTCGCTCTCT
1 GTTCGCTCCCTCTTTCTTTAGGGAGTATGGAACTCGAATATC-TCT--ACACGGGTTCGCTCCCT
*
592001 CTTTCTCTAGGGAGTATAGAACTCGAACAATTTTCAAACGGGTTCGCTCCCTTTTTCTCTAGGGA
63 CTTTCTCTAGGGAGTATGGAACTCGAAC-ATTTTCAAACGGGTTCGCTCCCTTTTTCT-TAGGGA
*
592066 GTATGGAACTCAGACATC-TCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTC
126 GTATAGAACTCAGA-ATCATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTC
592130 GAACATCTTCAAACGG
190 GAACATCTTCAAACGG
* * *
592146 GTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTCTTCACGGGTTCGCTCCCTCTT
1 GTTCGCTCCCTCTTTCTTTAGGGAGTATGGAACTCGAATATCTCTACACGGGTTCGCTCCCTCTT
* *
592211 TCTCTAGGGAGTATGGAACTCGAACATCTTC-AACTGGGTTCGCTCCCTTTTTCTTCAGGGCGTA
66 TCTCTAGGGAGTATGGAACTCGAACATTTTCAAAC-GGGTTCGCTCCCTTTTTCTT-AGGGAGTA
* * ** * * * *
592275 TAGAACTCAAAAATCTTCTTCTTACAGGTTCGATCCTTCTCTCTTTAAAGAGTATAGAACTCGAA
129 TAGAACTC-AGAATCATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGAA
592340 CATCTTCAAACGG
193 CATCTTCAAACGG
* * * *
592353 GTTCGCTCCTTCTTTCATTAAGGAGTATGGAACTCGGATATCT-TCACACGGGTTCGCTCCCTCT
1 GTTCGCTCCCTCTTTCTTTAGGGAGTATGGAACTCGAATATCTCT-ACACGGGTTCGCTCCCTCT
* * *
592417 TTCTCTATGGAGTATGGAACT-TAGACATCTCTTCAAACGGGTTCGCT-CCTTCTTTCTTTAAGG
65 TTCTCTAGGGAGTATGGAACTCGA-ACAT-T-TTCAAACGGGTTCGCTCCCTT-TTTC-TTAGGG
*
592480 AGTATAGAACTC-GAA-CATCTTCAAACGGGTTCGCTTCTTCTTTCTTTAAGGAGTATAGAACTC
125 AGTATAGAACTCAGAATCATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTC
* *
592543 GCATATCTTCA
190 GAACATCTTCA
592554 TTTGCTTCAC
Statistics
Matches: 354, Mismatches: 43, Indels: 26
0.84 0.10 0.06
Matches are distributed among these distances:
205 4 0.01
206 92 0.26
207 179 0.51
208 4 0.01
209 33 0.09
210 42 0.12
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (205 bp):
GTTCGCTCCCTCTTTCTTTAGGGAGTATGGAACTCGAATATCTCTACACGGGTTCGCTCCCTCTT
TCTCTAGGGAGTATGGAACTCGAACATTTTCAAACGGGTTCGCTCCCTTTTTCTTAGGGAGTATA
GAACTCAGAATCATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGAACAT
CTTCAAACGG
Found at i:592295 original size:156 final size:154
Alignment explanation
Indices: 591965--592553 Score: 620
Period size: 156 Copynumber: 3.8 Consensus size: 154
591955 AGGGATTATG
* * * * * * *
591965 GAACTCGAATATCTTCTGCAAACGAGTTCGCTCTCTCTTTCTCTAGGGAGTATAGAACTCGAACA
1 GAACTCAAAAATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTTAAGGAGTATAGAACTCGAAC-
* * *
592030 ATTTTCAAACGGGTTCGCTCCCTTTTTCTCTAGGGAGTATGGAACTC-AGACATCTCTTCAAACG
65 ATCTTC-AACGGGTTCGCTCCCTCTTTCTCTAAGGAGTATGGAACTCGA-ACA--TCTTC-AACG
*
592094 GGTTCGCT-CCTTCTTTCTTTAAGGAGTATA
125 GGTTCGCTCCCTT-TTTCTTCAAGGAGTATA
* * *
592124 GAACTC--GAA-CATCTTCAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACA
1 GAACTCAAAAATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTTAAGGAGTATAGAACTCGAACA
*
592186 TCTCTTC-ACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCAACTGGGT
66 --TCTTCAACGGGTTCGCTCCCTCTTTCTCTAAGGAGTATGGAACTCGAACATCTTCAAC-GGGT
* *
592250 TCGCTCCCTTTTTCTTCAGGGCGTATA
128 TCGCTCCCTTTTTCTTCAAGGAGTATA
** * * * * *
592277 GAACTCAAAAATCTTCTTCTTACAGGTTCGATCCTTCTCTCTTTAAAGAGTATAGAACTCGAACA
1 GAACTCAAAAATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTTAAGGAGTATAGAACTCGAACA
* * *
592342 TCTTCAAACGGGTTCGCTCCTTCTTTCAT-TAAGGAGTATGGAACTCGGATATCTTCACACGGGT
66 TCTTC-AACGGGTTCGCTCCCTCTTTC-TCTAAGGAGTATGGAACTCGAACATCTTCA-ACGGGT
* * *
592406 TCGCTCCCTCTTTC-TCTATGGAGTATG
128 TCGCTCCCTTTTTCTTC-AAGGAGTATA
* * * *
592433 GAACTTAGACATC-TCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGAACA
1 GAACTCAAAAATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTTAAGGAGTATAGAACTCGAACA
* * * * * *
592497 TCTTCAAACGGGTTCGCTTCTTCTTTCTTTAAGGAGTATAGAACTCGCATATCTTCA
66 TCTTC-AACGGGTTCGCTCCCTCTTTCTCTAAGGAGTATGGAACTCGAACATCTTCA
592554 TTTGCTTCAC
Statistics
Matches: 374, Mismatches: 42, Indels: 32
0.83 0.09 0.07
Matches are distributed among these distances:
152 3 0.01
153 34 0.09
154 10 0.03
155 143 0.38
156 170 0.45
157 8 0.02
159 6 0.02
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.33
Consensus pattern (154 bp):
GAACTCAAAAATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTTAAGGAGTATAGAACTCGAACA
TCTTCAACGGGTTCGCTCCCTCTTTCTCTAAGGAGTATGGAACTCGAACATCTTCAACGGGTTCG
CTCCCTTTTTCTTCAAGGAGTATA
Found at i:592981 original size:36 final size:36
Alignment explanation
Indices: 592923--593112 Score: 229
Period size: 36 Copynumber: 5.2 Consensus size: 36
592913 ACTCTTCTGA
* * **
592923 GAAGGCTTAATATGGATCTGCTTCACTACTT-TTTGGT
1 GAAGGCTTAAGATGG-TTTGCTTCACTA-TTCTCCGGT
* * *
592960 GAAGACTTAAGATGGTTTGCTTCACTACTCTCTGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* *
592996 GAAGACTTATGATGGTTTGCTTCACTATTCTCCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* * * *
593032 GAAGGCTTCATATTGATTGCTTCACTATTCTCCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
*
593068 GAAGGCTTCAGATGGTTTGCTTCACTATTCTCCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
593104 GAAGGCTTA
1 GAAGGCTTA
593113 GGATTGACTT
Statistics
Matches: 134, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
35 1 0.01
36 120 0.90
37 13 0.10
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (36 bp):
GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
Found at i:595830 original size:16 final size:16
Alignment explanation
Indices: 595812--595841 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
595802 TTCATTCTTT
595812 TTTTC-ATTTTTCTCA
1 TTTTCAATTTTTCTCA
595827 TTTTCAATTTTTCTC
1 TTTTCAATTTTTCTC
595842 TTTCTCTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.13, C:0.20, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTCAATTTTTCTCA
Found at i:595869 original size:24 final size:22
Alignment explanation
Indices: 595796--595902 Score: 72
Period size: 24 Copynumber: 4.4 Consensus size: 22
595786 GTTTGATCGA
*
595796 TTTTC-TTTCATTCTTTTTTTCATT
1 TTTTCTTTTCATT-TTTTTTT--TC
*
595820 TTTCTCATTTTCAATTTTTCTCTTTC
1 TTT-TC-TTTTC-ATTTTT-TTTTTC
*
595846 TCTTTCTTTTCCTTTTTTATTTTC
1 T-TTTCTTTTCATTTTTT-TTTTC
*
595870 TTTTTCATTTCATTTTTTTTTATC
1 -TTTTCTTTTCATTTTTTTTT-TC
595894 TTTTCTTTT
1 TTTTCTTTT
595903 TATCTTTCTA
Statistics
Matches: 67, Mismatches: 7, Indels: 19
0.72 0.08 0.20
Matches are distributed among these distances:
23 12 0.18
24 28 0.42
25 8 0.12
26 4 0.06
27 9 0.13
28 6 0.09
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.74
Consensus pattern (22 bp):
TTTTCTTTTCATTTTTTTTTTC
Found at i:595902 original size:13 final size:13
Alignment explanation
Indices: 595850--595909 Score: 52
Period size: 13 Copynumber: 4.4 Consensus size: 13
595840 TCTTTCTCTT
595850 TCTTTTCCTTTTT-
1 TCTTTT-CTTTTTA
*
595863 TATTTTCTTTTTCA
1 TCTTTTCTTTTT-A
595877 TTTCATTTT-TTTTTA
1 --TC-TTTTCTTTTTA
595892 TCTTTTCTTTTTA
1 TCTTTTCTTTTTA
595905 TCTTT
1 TCTTT
595910 CTATATTTCT
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
12 10 0.26
13 18 0.46
15 1 0.03
16 6 0.15
17 4 0.10
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (13 bp):
TCTTTTCTTTTTA
Found at i:598524 original size:21 final size:21
Alignment explanation
Indices: 598480--598637 Score: 207
Period size: 21 Copynumber: 7.6 Consensus size: 21
598470 CATGTGATGC
* *
598480 GGTCTTCTCGTCTTTACGAA-
1 GGTCTTCTCGTCTTGATGAAT
*
598500 GGTCTTCTCGTCGTT-ATGAAA
1 GGTCTTCTCGTC-TTGATGAAT
598521 GGTCTTCTCGTCTTGATGAAT
1 GGTCTTCTCGTCTTGATGAAT
598542 GGTCTTCTCGTCTTGATGAAT
1 GGTCTTCTCGTCTTGATGAAT
*
598563 GGCCTTCTCGTCTTGATGAAT
1 GGTCTTCTCGTCTTGATGAAT
598584 GG-CATTCTCGTCTTGATGAAT
1 GGTC-TTCTCGTCTTGATGAAT
*
598605 -GACATTCTCGTCTTGATGAAT
1 GGTC-TTCTCGTCTTGATGAAT
*
598626 GCTCTTCTCGTC
1 GGTCTTCTCGTC
598638 CTTGGTACAA
Statistics
Matches: 127, Mismatches: 5, Indels: 11
0.89 0.03 0.08
Matches are distributed among these distances:
20 20 0.16
21 106 0.83
22 1 0.01
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.40
Consensus pattern (21 bp):
GGTCTTCTCGTCTTGATGAAT
Found at i:602708 original size:2 final size:2
Alignment explanation
Indices: 602701--602735 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
602691 GGGTATTACA
602701 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
602736 GTAAAATAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:602793 original size:17 final size:16
Alignment explanation
Indices: 602747--602796 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 16
602737 TAAAATAACA
602747 TTATCATAGAATATGTAT
1 TTAT-ATAGAATAT-TAT
*
602765 TTATATATAATATTAT
1 TTATATAGAATATTAT
*
602781 TTATTTAAGAATATTA
1 TTATAT-AGAATATTA
602797 ATGGTGGCCA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 8 0.29
17 16 0.57
18 4 0.14
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (16 bp):
TTATATAGAATATTAT
Found at i:603066 original size:36 final size:36
Alignment explanation
Indices: 602988--603068 Score: 144
Period size: 36 Copynumber: 2.2 Consensus size: 36
602978 CCCCCTTTTA
*
602988 CTTTTTACCAGCCAAGATTGGGATATTACTGTATAG
1 CTTTTTCCCAGCCAAGATTGGGATATTACTGTATAG
*
603024 CTTTTTCCCGGCCAAGATTGGGATATTACTGTATAG
1 CTTTTTCCCAGCCAAGATTGGGATATTACTGTATAG
603060 CTTTTTCCC
1 CTTTTTCCC
603069 TGTAGATAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.38
Consensus pattern (36 bp):
CTTTTTCCCAGCCAAGATTGGGATATTACTGTATAG
Found at i:603449 original size:2 final size:2
Alignment explanation
Indices: 603442--603473 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
603432 TTGAATTTGA
603442 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
603474 TCAAAGATTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:604206 original size:23 final size:23
Alignment explanation
Indices: 604176--604221 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
604166 TCTTGGAATG
*
604176 AAAATATTATATATGAATTTAAT
1 AAAATATTATATATAAATTTAAT
* *
604199 AAAATATTTTATTTAAATTTAAT
1 AAAATATTATATATAAATTTAAT
604222 TACAAAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
AAAATATTATATATAAATTTAAT
Found at i:604305 original size:14 final size:14
Alignment explanation
Indices: 604286--604314 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
604276 ATTTGTTTCA
604286 CAGAAAACAAATTC
1 CAGAAAACAAATTC
604300 CAGAAAACAAATTC
1 CAGAAAACAAATTC
604314 C
1 C
604315 GTAAAGTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.24, G:0.07, T:0.14
Consensus pattern (14 bp):
CAGAAAACAAATTC
Found at i:604690 original size:8 final size:8
Alignment explanation
Indices: 604662--604713 Score: 52
Period size: 8 Copynumber: 6.2 Consensus size: 8
604652 ACTAATTAGT
604662 TATTAAAA
1 TATTAAAA
*
604670 TAATAATAA
1 TATTAA-AA
604679 TATTAAAA
1 TATTAAAA
604687 TATTAAAA
1 TATTAAAA
*
604695 -AGTATATAA
1 TA-T-TAAAA
604704 TATTAAAA
1 TATTAAAA
604712 TA
1 TA
604714 GTAATACCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
7 1 0.03
8 22 0.61
9 12 0.33
10 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (8 bp):
TATTAAAA
Found at i:604690 original size:25 final size:25
Alignment explanation
Indices: 604662--604713 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
604652 ACTAATTAGT
604662 TATTAAAATAATA-ATAATATTAAAA
1 TATTAAAA-AATATATAATATTAAAA
*
604687 TATTAAAAAGTATATAATATTAAAA
1 TATTAAAAAATATATAATATTAAAA
604712 TA
1 TA
604714 GTAATACCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 3 0.12
25 22 0.88
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (25 bp):
TATTAAAAAATATATAATATTAAAA
Found at i:604898 original size:36 final size:33
Alignment explanation
Indices: 604783--604907 Score: 83
Period size: 36 Copynumber: 3.5 Consensus size: 33
604773 AATTTTATGA
*
604783 ATAATTTATTA-TATATTATTAAAA-TAAAAAT
1 ATAATTTAATATTATATTATTAAAATTAAAAAT
* * * *
604814 ATGATATTATATATTATAATAATACAATTAAAACAATT
1 ATAAT-TTA-ATATTATATTATTAAAATT-AAA-AA-T
* *
604852 ACAATATAATATTATATTATTAAAATTATTAATAAT
1 ATAATTTAATATTATATTATTAAAATTA--AA-AAT
604888 ATAATTTAATAATTAATATT
1 ATAATTTAAT-ATT-ATATT
604908 TTTATTAAAG
Statistics
Matches: 69, Mismatches: 14, Indels: 15
0.70 0.14 0.15
Matches are distributed among these distances:
31 4 0.06
32 3 0.04
33 2 0.03
34 10 0.14
35 2 0.03
36 28 0.41
37 11 0.16
38 9 0.13
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (33 bp):
ATAATTTAATATTATATTATTAAAATTAAAAAT
Found at i:606071 original size:25 final size:25
Alignment explanation
Indices: 606008--606060 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
605998 TTAGAGAAAA
606008 CCAGTAACATCTATGTTAAAAGTTG
1 CCAGTAACATCTATGTTAAAAGTTG
606033 CCAGTAACATCTATGTTAAAAGTTG
1 CCAGTAACATCTATGTTAAAAGTTG
606058 CCA
1 CCA
606061 TCACCATCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (25 bp):
CCAGTAACATCTATGTTAAAAGTTG
Found at i:609498 original size:29 final size:28
Alignment explanation
Indices: 609466--609522 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
609456 GGTAAACCAC
* *
609466 GTTAACAACTAAAATTTTATAACATTTGT
1 GTTAACAA-GAAAAATTTATAACATTTGT
*
609495 GTTACCAAGAAAAATTTATAACATTTGT
1 GTTAACAAGAAAAATTTATAACATTTGT
609523 ATTTTGATTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 18 0.72
29 7 0.28
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.39
Consensus pattern (28 bp):
GTTAACAAGAAAAATTTATAACATTTGT
Found at i:612749 original size:13 final size:13
Alignment explanation
Indices: 612733--612772 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
612723 TTGACCAACA
*
612733 GATTTGATTAGCT
1 GATTTGATTAACT
**
612746 GATTTGAGAAACT
1 GATTTGATTAACT
612759 GATTTGATTAACT
1 GATTTGATTAACT
612772 G
1 G
612773 TTTATATAGA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (13 bp):
GATTTGATTAACT
Found at i:612995 original size:16 final size:18
Alignment explanation
Indices: 612974--613008 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
612964 AATTTTGAAT
612974 ATATTTTTA-AAAT-TTA
1 ATATTTTTACAAATATTA
612990 ATATTTTTACAAATATTA
1 ATATTTTTACAAATATTA
613008 A
1 A
613009 CCTTGTGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 4 0.24
18 4 0.24
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (18 bp):
ATATTTTTACAAATATTA
Found at i:618627 original size:2 final size:2
Alignment explanation
Indices: 618620--618684 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
618610 TCATAACCCA
618620 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
618662 AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
618685 AAGAATGCAA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:618811 original size:25 final size:25
Alignment explanation
Indices: 618782--618830 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
618772 TGCATTCATA
* *
618782 TCATTTGCACCAACGGTATCTTTCT
1 TCATTTACACCAACAGTATCTTTCT
*
618807 TCATTTACACCAATAGTATCTTTC
1 TCATTTACACCAACAGTATCTTTC
618831 ATAAAGTACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.24, C:0.27, G:0.08, T:0.41
Consensus pattern (25 bp):
TCATTTACACCAACAGTATCTTTCT
Found at i:621172 original size:30 final size:29
Alignment explanation
Indices: 621136--621220 Score: 89
Period size: 30 Copynumber: 2.9 Consensus size: 29
621126 AAAAATATAT
*
621136 AACTTTTAAAAATTATAGTTTTGGTCCCTA
1 AACTTTTAAAAATTATA-TTTTGGTCACTA
* * *
621166 AACTTTTCAAAATCTATATTGTGGTCATTA
1 AACTTTTAAAAAT-TATATTTTGGTCACTA
* * *
621196 AACTTTCAAAACTTACATTTTGGTC
1 AACTTTTAAAAATTATATTTTGGTC
621221 GCTACCCAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
29 10 0.22
30 31 0.69
31 4 0.09
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.42
Consensus pattern (29 bp):
AACTTTTAAAAATTATATTTTGGTCACTA
Found at i:621219 original size:29 final size:28
Alignment explanation
Indices: 621144--621220 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 28
621134 ATAACTTTTA
*
621144 AAAATTATAGTTTTGGTCCCTAAACTTTTC
1 AAAATTATA-TTTTGGTCACTAAAC-TTTC
* *
621174 AAAATCTATATTGTGGTCATTAAACTTTC
1 AAAAT-TATATTTTGGTCACTAAACTTTC
*
621203 AAAACTTACATTTTGGTC
1 AAAA-TTATATTTTGGTC
621221 GCTACCCAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
29 18 0.45
30 18 0.45
31 4 0.10
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (28 bp):
AAAATTATATTTTGGTCACTAAACTTTC
Found at i:625291 original size:5 final size:5
Alignment explanation
Indices: 625278--625357 Score: 83
Period size: 5 Copynumber: 16.2 Consensus size: 5
625268 TAAATTTATT
* * * *
625278 TTTAT TTTAA TTTAA TTTAA TTTAA TAT-A TTT-A TTTAT TTTAT TTTAA
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA
* *
625326 TATAT TATTAA TTTAA TTTAA TTTAA TTTAA T
1 TTTAA T-TTAA TTTAA TTTAA TTTAA TTTAA T
625358 ATATTTATTT
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
4 7 0.11
5 54 0.84
6 3 0.05
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (5 bp):
TTTAA
Found at i:630373 original size:23 final size:23
Alignment explanation
Indices: 630346--630391 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
630336 GAAGACGTCA
630346 ACATGAATGGATAGGAAGAACCC
1 ACATGAATGGATAGGAAGAACCC
*
630369 ACATGAATGGATCGGAAGAACCC
1 ACATGAATGGATAGGAAGAACCC
630392 GGGGCAAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.41, C:0.20, G:0.26, T:0.13
Consensus pattern (23 bp):
ACATGAATGGATAGGAAGAACCC
Found at i:642550 original size:63 final size:64
Alignment explanation
Indices: 642430--642551 Score: 158
Period size: 63 Copynumber: 1.9 Consensus size: 64
642420 TGCACATGAC
* **
642430 GTGCATCGATGCACTCTTTTAAAATACAAACATCAAATGTCATTAATGCATCGATGCATAAGGA
1 GTGCATCGATGCACCCCCTTAAAATACAAACATCAAATGTCATTAATGCATCGATGCATAAGGA
* * * *
642494 GTGCATCGATGCACCCCCTT-AAATATAAACATCGAATAG-GATTTATGCATCGATGCAT
1 GTGCATCGATGCACCCCCTTAAAATACAAACATCAAAT-GTCATTAATGCATCGATGCAT
642552 GGTGTTGTGC
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
63 32 0.64
64 18 0.36
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.28
Consensus pattern (64 bp):
GTGCATCGATGCACCCCCTTAAAATACAAACATCAAATGTCATTAATGCATCGATGCATAAGGA
Found at i:645691 original size:44 final size:44
Alignment explanation
Indices: 645638--645723 Score: 136
Period size: 44 Copynumber: 2.0 Consensus size: 44
645628 TCGGGATAAT
*
645638 TATGTGGTCATTCGGGACAAATATGTGACACTTCGGTGCAAACC
1 TATGTGGTCATTCGGGACAAATATGTGACACTTCGATGCAAACC
* * *
645682 TATGTGGTCATTCGGGATAATTATGTGGCACTTCGATGCAAA
1 TATGTGGTCATTCGGGACAAATATGTGACACTTCGATGCAAA
645724 TTACGTGTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (44 bp):
TATGTGGTCATTCGGGACAAATATGTGACACTTCGATGCAAACC
Found at i:645716 original size:21 final size:21
Alignment explanation
Indices: 645616--645709 Score: 93
Period size: 21 Copynumber: 4.4 Consensus size: 21
645606 GTCGAGGGTT
*
645616 TTATGTAGTCATTCGGGATAA
1 TTATGTGGTCATTCGGGATAA
*
645637 TTATGTGGTCATTCGGGACAA
1 TTATGTGGTCATTCGGGATAA
* *
645658 ATATGT-GACACTTCGGTGCA-AA
1 TTATGTGGTCA-TTCGG-G-ATAA
*
645680 CCTATGTGGTCATTCGGGATAA
1 -TTATGTGGTCATTCGGGATAA
645702 TTATGTGG
1 TTATGTGG
645710 CACTTCGATG
Statistics
Matches: 60, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
20 3 0.05
21 37 0.62
22 6 0.10
23 11 0.18
24 3 0.05
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.34
Consensus pattern (21 bp):
TTATGTGGTCATTCGGGATAA
Found at i:646659 original size:19 final size:20
Alignment explanation
Indices: 646616--646665 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
646606 TATTGTTCAT
* *
646616 TACTTTTCATACAGTATCGG
1 TACTATTCATACAGTATCAG
646636 TACTATTCATACAGTA-CAG
1 TACTATTCATACAGTATCAG
646655 TACTATTCATA
1 TACTATTCATA
646666 AAACATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.38
Consensus pattern (20 bp):
TACTATTCATACAGTATCAG
Found at i:648588 original size:2 final size:2
Alignment explanation
Indices: 648581--648644 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
648571 GATATTTGGG
648581 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
648623 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
648645 TTTTTATTTA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:650451 original size:24 final size:23
Alignment explanation
Indices: 650423--650471 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
650413 ATAATTTGTT
*
650423 TTTATCGTCTCAAAATTTTATAAA
1 TTTAT-GTCTCAAAATTTTAGAAA
* *
650447 TTTATTTCTTAAAATTTTAGAAA
1 TTTATGTCTCAAAATTTTAGAAA
650470 TT
1 TT
650472 CACCTCAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.37, C:0.08, G:0.04, T:0.51
Consensus pattern (23 bp):
TTTATGTCTCAAAATTTTAGAAA
Found at i:651015 original size:16 final size:16
Alignment explanation
Indices: 650981--651016 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
650971 CACAAATAAA
*
650981 TTAATTTTTTATTATT
1 TTAATTTTTTATTACT
*
650997 TTAATTTTTTATTCCT
1 TTAATTTTTTATTACT
651013 TTAA
1 TTAA
651017 AAATACTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (16 bp):
TTAATTTTTTATTACT
Found at i:651093 original size:60 final size:61
Alignment explanation
Indices: 651027--651159 Score: 171
Period size: 61 Copynumber: 2.2 Consensus size: 61
651017 AAATACTGAA
* * * *
651027 ACATACTTACACCAATATAATTATGTGTTTA-TTTTTAGGTATCAAGATTTTG-GAAGATGT
1 ACATACTTACACCAATATAAATATGTATTTATTTTTTAGGTACCAAGATATTGAG-AGATGT
** * *
651087 ACATACTTACACCTGTGTAAATATGTATTTATTTTTTAGGTACCAAGGTATTGAGAGATGT
1 ACATACTTACACCAATATAAATATGTATTTATTTTTTAGGTACCAAGATATTGAGAGATGT
651148 ACATACTTACAC
1 ACATACTTACAC
651160 TGATCTAAGT
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
60 26 0.41
61 36 0.57
62 1 0.02
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (61 bp):
ACATACTTACACCAATATAAATATGTATTTATTTTTTAGGTACCAAGATATTGAGAGATGT
Found at i:657225 original size:32 final size:33
Alignment explanation
Indices: 657166--657227 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
657156 CCCGAACCTG
657166 ACCCGAATATCACACTTAAAAAAACCCGACTCA
1 ACCCGAATATCACACTTAAAAAAACCCGACTCA
*
657199 ACCCTAATATCACACTT-AAAAAACCCGAC
1 ACCCGAATATCACACTTAAAAAAACCCGAC
657228 CCAAACAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.45, C:0.34, G:0.05, T:0.16
Consensus pattern (33 bp):
ACCCGAATATCACACTTAAAAAAACCCGACTCA
Found at i:658880 original size:26 final size:26
Alignment explanation
Indices: 658848--658921 Score: 114
Period size: 26 Copynumber: 2.9 Consensus size: 26
658838 ACTATGAGAG
658848 ATAAATTTATAAAATTTTAAGAAACA
1 ATAAATTTATAAAATTTTAAGAAACA
* *
658874 GTAAATTTATAAAATTTTAAGAGACA
1 ATAAATTTATAAAATTTTAAGAAACA
*
658900 ATAAATCTATAAAA-TTTAAGAA
1 ATAAATTTATAAAATTTTAAGAA
658922 GGTAAATAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
25 7 0.16
26 36 0.84
ACGTcount: A:0.55, C:0.04, G:0.07, T:0.34
Consensus pattern (26 bp):
ATAAATTTATAAAATTTTAAGAAACA
Found at i:659608 original size:35 final size:35
Alignment explanation
Indices: 659562--659636 Score: 143
Period size: 35 Copynumber: 2.2 Consensus size: 35
659552 GTTACTTTAC
659562 TATTTATTGCACTGGTTTAGCAAAAACAATATGTA
1 TATTTATTGCACTGGTTTAGCAAAAACAATATGTA
659597 TATTTATTGCACTGGTTTAGCAAAAACAATATGTA
1 TATTTATTGCACTGGTTTAGCAAAAACAATATGTA
659632 -ATTTA
1 TATTTA
659637 CTGATCATCA
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
34 5 0.12
35 35 0.88
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (35 bp):
TATTTATTGCACTGGTTTAGCAAAAACAATATGTA
Found at i:659919 original size:3 final size:3
Alignment explanation
Indices: 659901--659968 Score: 52
Period size: 3 Copynumber: 22.3 Consensus size: 3
659891 CGAGGTTGTG
* *
659901 AGA AGA AGGA AGGA AGA AGA AGA AGG AG- AGA AGA AAA AGA AGA A-A
1 AGA AGA A-GA A-GA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
*
659946 CA-A AGA AGGA AGA ATA AGA AGA A
1 -AGA AGA A-GA AGA AGA AGA AGA A
659969 TCTGTTTCTG
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
2 4 0.07
3 41 0.75
4 10 0.18
ACGTcount: A:0.65, C:0.01, G:0.32, T:0.01
Consensus pattern (3 bp):
AGA
Found at i:659920 original size:14 final size:14
Alignment explanation
Indices: 659900--659966 Score: 59
Period size: 14 Copynumber: 4.9 Consensus size: 14
659890 ACGAGGTTGT
659900 GAGAAGAAGGAAGGA
1 GAGAAGAA-GAAGGA
659915 -AGAAGAAGAAGGA
1 GAGAAGAAGAAGGA
* *
659928 GAGAAGAAAAAGAA
1 GAGAAGAAGAAGGA
*
659942 GA-AACAAAGAAGGA
1 GAGAA-GAAGAAGGA
*
659956 -AGAATAAGAAG
1 GAGAAGAAGAAG
659967 AATCTGTTTC
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
13 15 0.35
14 28 0.65
ACGTcount: A:0.63, C:0.01, G:0.34, T:0.01
Consensus pattern (14 bp):
GAGAAGAAGAAGGA
Found at i:659923 original size:17 final size:17
Alignment explanation
Indices: 659901--659942 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
659891 CGAGGTTGTG
659901 AGAAGAAGGA-AGGAAGA
1 AGAAGAAGGAGA-GAAGA
659918 AGAAGAAGGAGAGAAGA
1 AGAAGAAGGAGAGAAGA
*
659935 AAAAGAAG
1 AGAAGAAG
659943 AAACAAAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 22 0.96
18 1 0.04
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (17 bp):
AGAAGAAGGAGAGAAGA
Found at i:661140 original size:2 final size:2
Alignment explanation
Indices: 661133--661179 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
661123 TATATTATGT
*
661133 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
661175 TA TA T
1 TA TA T
661180 CTATGATTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:665563 original size:6 final size:6
Alignment explanation
Indices: 665546--665574 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
665536 TCGTTAAGAA
665546 CTCGAG -TCGAG CTCGAG CTCGAG CTCGAG
1 CTCGAG CTCGAG CTCGAG CTCGAG CTCGAG
665575 TCCATTCGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.17, C:0.31, G:0.34, T:0.17
Consensus pattern (6 bp):
CTCGAG
Found at i:667077 original size:58 final size:58
Alignment explanation
Indices: 667003--667115 Score: 190
Period size: 58 Copynumber: 1.9 Consensus size: 58
666993 GATCCCTCCT
*
667003 ATCTCCTCAACATTTGCATTTCATGGACCAAGCATTATTATGAAGTTGCTGCATTCCC
1 ATCTCCTCAACATTTGCATTTCATGGACCAAGCATTATTATGAAGCTGCTGCATTCCC
* * *
667061 ATCTCCTCAACTTTTGCATTTCATGGGCCAAGCATTATTATGAAGCTGTTGCATT
1 ATCTCCTCAACATTTGCATTTCATGGACCAAGCATTATTATGAAGCTGCTGCATT
667116 ATCTGCTATC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 51 1.00
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (58 bp):
ATCTCCTCAACATTTGCATTTCATGGACCAAGCATTATTATGAAGCTGCTGCATTCCC
Found at i:675873 original size:17 final size:17
Alignment explanation
Indices: 675853--675898 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 17
675843 TTATATTTGA
*
675853 ATAATTAAAAAAAATCT
1 ATAATTAAAAAAAATAT
675870 ATAAATGTAAAAAAAATAT
1 AT-AAT-TAAAAAAAATAT
675889 AT-ATTAAAAA
1 ATAATTAAAAA
675899 TACAAAAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 6 0.23
17 4 0.15
18 3 0.12
19 13 0.50
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (17 bp):
ATAATTAAAAAAAATAT
Found at i:682421 original size:23 final size:23
Alignment explanation
Indices: 682374--682423 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
682364 AATAACATAT
* **
682374 TAGGTAGTGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATAAAA
682397 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAGCGCTTATATAATAAAA
682420 TAGG
1 TAGG
682424 AATTTAACCG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.06, G:0.22, T:0.34
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATAAAA
Found at i:682484 original size:87 final size:87
Alignment explanation
Indices: 682338--682586 Score: 437
Period size: 87 Copynumber: 2.9 Consensus size: 87
682328 ATGTTATATT
682338 ATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAGTGCTTATATAATGTAATAGGTA
1 ATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAGTGCTTATATAATGTAATAGGTA
682403 GCGCTTATATAATAAAATAGGA-
66 GCGCTTATATAATAAAATA-GAC
* **
682425 ATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGGTA
1 ATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAGTGCTTATATAATGTAATAGGTA
*
682490 TCGCTTATATAATAAAATAGAC
66 GCGCTTATATAATAAAATAGAC
*
682512 ATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAGTACTTATATAATGTAATAGGTA
1 ATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAGTGCTTATATAATGTAATAGGTA
682577 GCGCTTATAT
66 GCGCTTATAT
682587 TGACTTATTT
Statistics
Matches: 152, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
86 2 0.01
87 150 0.99
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (87 bp):
ATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAGTGCTTATATAATGTAATAGGTA
GCGCTTATATAATAAAATAGAC
Found at i:682508 original size:23 final size:23
Alignment explanation
Indices: 682461--682509 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
682451 AATAACATAT
**
682461 TAGGTAACGCTTATATAATGTAA
1 TAGGTAACGCTTATATAATAAAA
*
682484 TAGGTATCGCTTATATAATAAAA
1 TAGGTAACGCTTATATAATAAAA
682507 TAG
1 TAG
682510 ACATTTAACC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.35
Consensus pattern (23 bp):
TAGGTAACGCTTATATAATAAAA
Found at i:683013 original size:200 final size:198
Alignment explanation
Indices: 682604--683110 Score: 619
Period size: 200 Copynumber: 2.5 Consensus size: 198
682594 TTTTCTAAGT
* * *
682604 AAACCGGTATATTTATACC-TGTAACATTGCAAATTTACCTATTATATTATAATTATCGGTTTCG
1 AAACCGGTATATTTATACCAGGT-ACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCG
* * * *
682668 ATGTTTTTTGGATCGATACAATTT--TAAATGTATCGACACTTTATGCATGCACCTCGTTGGGCA
65 ATG-TTTTGGGATCGATAC-TTTTAATAAATGTATCGACACTTTATGCATGCACCCCGTTGGACA
* * * *
682731 TTCATTCTGGAAAAAAGTATCGAAACAAACTTAAAAAGTGTCGATACATTATTTAGACTTATTTT
128 TTCATTATGGAAAAAAGTATCGAAACAAACTTAAAAAGTGTCAATACATTATCTAGACCTATTTT
682796 CTCATA
193 CTCATA
* *** * * *
682802 AAACCGGTATATTTCTATTGGGTACATTGTAAATTTACCTATCACATTGTAATTATCGGTTTTGA
1 AAACCGGTATATTTATACCAGGTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
* ** *
682867 TGTTTGTGGGATTGATACTTTTAATAAATGTATCGACACTTTATGTGTGCACCCCGTTTGACATT
66 TGTTT-TGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCATGCACCCCGTTGGACATT
* ** ** *
682932 CATTATGGACAAAAAGTATCGACACAATTTTAAATGGTG-CTAATACTTTATGCT-GACCTATTT
130 CATTATGGA-AAAAAGTATCGAAACAAACTTAAAAAGTGTC-AATACATTAT-CTAGACCTATTT
*
682995 TCTTATA
192 TCTCATA
* *
683002 AAACTGGTATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
1 AAACCGGTATATTTATACCAGGTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
*
683067 TGTTATTGGGACCGATACTTTTAATAAATGTATCGACACTTTAT
66 TGTT-TTGGGATCGATACTTTTAATAAATGTATCGACACTTTAT
683111 ATTCTGGACA
Statistics
Matches: 262, Mismatches: 39, Indels: 14
0.83 0.12 0.04
Matches are distributed among these distances:
197 6 0.02
198 65 0.25
199 47 0.18
200 142 0.54
201 2 0.01
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.39
Consensus pattern (198 bp):
AAACCGGTATATTTATACCAGGTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
TGTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCATGCACCCCGTTGGACATTC
ATTATGGAAAAAAGTATCGAAACAAACTTAAAAAGTGTCAATACATTATCTAGACCTATTTTCTC
ATA
Found at i:687159 original size:199 final size:199
Alignment explanation
Indices: 686798--687564 Score: 1039
Period size: 199 Copynumber: 3.8 Consensus size: 199
686788 ACGTAATTTA
* *
686798 AAAACGTATCGACACAAATTT-AAAAGTGTCGATACACTATGTTAACCTATTTTC-CATAAAACC
1 AAAATGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTT-ACCTATTTTCTCATAAAACC
* * *
686861 GATATATTTATACTGGTTACATTGTAAATTTACCTATTACATTATAATTTTCGGTTTCGATATTT
65 GGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTTTCGGTTTCGATGTTT
* *
686926 TTTGGATCGATATTTTTTATAAATGTATCGACACTTTATGCGTGCACCCCGTTTTGCATTCATTC
130 TTTGGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTGCACCCCGTTTTGCATTCATTC
686991 TGGAC
195 TGGAC
* *
686996 AAAATGTATCGACACAAATCTAAAAAGTGTCGATACATTATGTTCACCTATTTTCTCATAAAATC
1 AAAATGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTT-ACCTATTTTCTCATAAAACC
* * *
687061 GGTATACTTATACCGGTTACATTGT-AATTTACCTATTGCATTATAATTATCGGTTTCGATG-TT
65 GGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTTTCGGTTTCGATGTTT
687124 TTTGAGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTGCACCCCG-TTTGACATTCAT
130 TTTG-GATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTGCACCCCGTTTTG-CATTCAT
*
687188 TATGGAC
193 TCTGGAC
* *
687195 AAAATGTATCGACACAAATTTAAAAAGTGACGACACATTATGTATACCTATTTTCTCATAAAACC
1 AAAATGTATCGACACAAATTTAAAAAGTGTCGATACATTATGT-TACCTATTTTCTCATAAAACC
*
687260 GGTATATTTATACCGGTTATATTGTAAATTTACCTATTACATTATAATTTTCGGTTTCGATGTTT
65 GGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTTTCGGTTTCGATGTTT
* * * * * * * ** ** *
687325 TTTGGATCTATACAATTTT--AAATGTATTGACACTTTTATGCGTGAAGCTCATTGAG-A-AAAG
130 TTTGGATCGATAC-TTTTTAAAAATGTATCGACAC-TTTATGCGTGCACCCCGTTTTGCATTCAT
* *
687386 GCTCGAAC
193 TCT-GGAC
* * * * * * *
687394 AAAAAGTATCGACACAAATTTAAAAGGTGTCGATACTTTATGCTGACATATTTGCTCATAAAATC
1 AAAATGTATCGACACAAATTTAAAAAGTGTCGATACATTATG-TTACCTATTTTCTCATAAAACC
*
687459 GGTATATTTATACCGGTCACATTGTAAATTTACCTATTACATTATAATTTTCGGTTTCGATGTTT
65 GGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTTTCGGTTTCGATGTTT
687524 TTTGGATCGATACTTTTTAAAATATGTATCGACACTTTATG
130 TTTGGATCGATACTTTTTAAAA-ATGTATCGACACTTTATG
687565 GGAAACTTTA
Statistics
Matches: 503, Mismatches: 51, Indels: 28
0.86 0.09 0.05
Matches are distributed among these distances:
198 35 0.07
199 350 0.70
200 95 0.19
201 23 0.05
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.39
Consensus pattern (199 bp):
AAAATGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTACCTATTTTCTCATAAAACCG
GTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTTTCGGTTTCGATGTTTT
TTGGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTGCACCCCGTTTTGCATTCATTCT
GGAC
Found at i:687822 original size:18 final size:18
Alignment explanation
Indices: 687799--687835 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
687789 CGAAATTTAT
*
687799 ATTGAAATTCAAACTCAA
1 ATTGAAATTAAAACTCAA
*
687817 ATTGAAATTAAAATTCAA
1 ATTGAAATTAAAACTCAA
687835 A
1 A
687836 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.11, G:0.05, T:0.30
Consensus pattern (18 bp):
ATTGAAATTAAAACTCAA
Found at i:691328 original size:200 final size:199
Alignment explanation
Indices: 690649--691808 Score: 1477
Period size: 200 Copynumber: 5.8 Consensus size: 199
690639 ATTTAAAATG
* * * * * * * *
690649 GTATCGACACAAATTTA-ACAATTGTTGATAC-TTTATGCT-GACCTATTTTGTCTTAAAATCGG
1 GTATCGACACAAA-ATACACAAGTGTCGATACATTT-T-CTAGACCTATTCTCTCATAAAACCGA
* * * *
690711 TATATTTATATCGGTTATATTACAAAATTACCTATTACATTATAATTATGAGTTTCGATGTTTTT
63 TATATTTATACCGGTTACATT-GAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTT
* * * * *
690776 GGAATTGACACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTGGGTATTCCTTCTG
127 GGGATCGACACTTTTTATAAATGTATCGACACTTTATGGGTGCACCCTTTTGGGCATTCATTCTG
690841 GACAAAAA
192 GACAAAAA
*
690849 GTATCGACACAAAATACACAAGTGTTGATACATTTTCTAGACCTATTCTCTCATAAAACCGATAT
1 GTATCGACACAAAATACACAAGTGTCGATACATTTTCTAGACCTATTCTCTCATAAAACCGATAT
* * ** *
690914 ATTTATACCGGTTACATTGAAATTTACCTATTACGTTATAATTATCTGTTTCGATATTTTTGGGA
66 ATTTATACCGGTTACATTGAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGA
* *
690979 TCGACACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTGGGCATTCAGTCTGGACA
131 TCGACACTTTTTATAAATGTATCGACACTTTATGGGTGCACCCTTTTGGGCATTCATTCTGGACA
691044 AAAA
196 AAAA
*
691048 GTATCGACACAAAATACACAAGTGTCGATACATTTTCTAGACATATTCTCTCATAAAACCGATAT
1 GTATCGACACAAAATACACAAGTGTCGATACATTTTCTAGACCTATTCTCTCATAAAACCGATAT
* * ** *
691113 ATTTATACTGGTTACATTGAAATTTACCTATTACATTATAATTATCTGTTTCAATGTTTTTGGGA
66 ATTTATACCGGTTACATTGAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGA
* *
691178 TCGACATTTTTTA-AAAGTGTATCGACACTTTATGGGTGCATCCTTTTTGGGCATTCATTCTGGA
131 TCGACACTTTTTATAAA-TGTATCGACACTTTATGGGTGCA-CCCTTTTGGGCATTCATTCTGGA
691242 CAAAAA
194 CAAAAA
** * * *
691248 AAATCGACACAAAATACACAAGTATTGATACATTTTCTAGACCTATTCTCTCATAAAACCAATAT
1 GTATCGACACAAAATACACAAGTGTCGATACATTTTCTAGACCTATTCTCTCATAAAACCGATAT
* * *
691313 ATTTTTACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGAG
66 ATTTATACCGGTTACATTG-AAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGG
* * * *
691378 ATCGATACTTTTTATAAATGTATTGACACTTTATGCGTGCACCATTTTTTGGGCATTCATTCTGG
130 ATCGACACTTTTTATAAATGTATCGACACTTTATGGGTGCACC--CTTTTGGGCATTCATTCTGG
*
691443 ACAAAAT
193 ACAAAAA
* * * *
691450 GTATCGACACAAAATTA-AAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGGTA
1 GTATCGACACAAAA-TACACAAGTGTCGATACATTTTCTAGACCTATTCTCTCATAAAACCGATA
* * * * *
691514 TAGTTATATCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGTTTTCGATATTTTTGG
65 TATTTATACCGGTTACATTG-AAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGG
* * * * * *
691579 GATCGATACTTTTTATAAATATATCGACACTTTATGCGTTCACCATTTTAGGCATTCATTCTGGA
129 GATCGACACTTTTTATAAATGTATCGACACTTTATGGGTGCACCCTTTTGGGCATTCATTCTGGA
691644 CAAAAA
194 CAAAAA
* * * * * * *
691650 GTATCGACACCAATTTCAAAAGTGTCGATACATTATGTAGACCTATTCTCAT-ATAAAACCGGTA
1 GTATCGACACAAAATACACAAGTGTCGATACATTTTCTAGACCTATTCTC-TCATAAAACCGATA
** * * * **
691714 TATTTATACATGTTATATTACAAAATTACCTACTACATTATAATTATGGGTTTTAATGTTTTTGG
65 TATTTATACCGGTTACATT-GAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGG
*
691779 GATCGATACTTTTTATAAATGTATCGACAC
129 GATCGACACTTTTTATAAATGTATCGACAC
691809 ATCTGGTTAC
Statistics
Matches: 859, Mismatches: 88, Indels: 26
0.88 0.09 0.03
Matches are distributed among these distances:
198 3 0.00
199 269 0.31
200 331 0.39
201 76 0.09
202 178 0.21
203 2 0.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (199 bp):
GTATCGACACAAAATACACAAGTGTCGATACATTTTCTAGACCTATTCTCTCATAAAACCGATAT
ATTTATACCGGTTACATTGAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGA
TCGACACTTTTTATAAATGTATCGACACTTTATGGGTGCACCCTTTTGGGCATTCATTCTGGACA
AAAA
Found at i:691641 original size:402 final size:398
Alignment explanation
Indices: 690643--691808 Score: 1547
Period size: 402 Copynumber: 2.9 Consensus size: 398
690633 CGCGATATTT
* * * * * * *
690643 AAAATGGTATCGACACAAATTTAACAATTGTTGATACTTTATGCT-GACCTATTTTGTCTTAAAA
1 AAAAT-GTATCGACACAAAATTAACAAGTGTCGATACATTATG-TAGACCTATTCTCTCATAAAA
* * * *
690707 TCGGTATATTTATATCGGTTATATTACAAAATTACCTATTACATTATAATTATGAG-TTTCGATG
64 CCGGTATATTTATATCGGTTACATT-GAAATTTACCTATTACATTATAATTATG-GTTTTCGATG
* * * * *
690771 TTTTTGGAATTGACACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTGGGTATTCC
127 TTTTTGGGATCGACACTTTTT-AAAATGTATCGACACTTTATGGGTGCACCATTTTGGGCATTCA
690836 TTCTGGACAAAAAGTATCGACACAAAATACACAAGTGTTGATACATTTTCTAGACCTATTCTCTC
191 TTCTGGACAAAAAGTATCGACACAAAATACACAAGTGTTGATACATTTTCTAGACCTATTCTCTC
* * **
690901 ATAAAACCGATATATTTATACCGGTTACATTG-AAATTTACCTATTACGTTATAATTATCTGTTT
256 ATAAAACCGATATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTT
* * * *
690965 CGATATTTTTGGGATCGACACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTGGGC
321 CGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCCTTTTGGGC
691030 ATTCAGTCTGGAC
386 ATTCAGTCTGGAC
* * * *
691043 AAAAAGTATCGACACAAAA-TACACAAGTGTCGATACATTTTCTAGACATATTCTCTCATAAAAC
1 AAAATGTATCGACACAAAATTA-ACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAAC
* * *
691107 CGATATATTTATA-CTGGTTACATTGAAATTTACCTATTACATTATAATTAT-CTGTTTCAATGT
65 CGGTATATTTATATC-GGTTACATTGAAATTTACCTATTACATTATAATTATGGT-TTTCGATGT
* *
691170 TTTTGGGATCGACATTTTTTAAAAGTGTATCGACACTTTATGGGTGCATCCTTTTTGGGCATTCA
128 TTTTGGGATCGACACTTTTTAAAA-TGTATCGACACTTTATGGGTGCA-CCATTTTGGGCATTCA
** *
691235 TTCTGGACAAAAAAAATCGACACAAAATACACAAGTATTGATACATTTTCTAGACCTATTCTCTC
191 TTCTGGACAAAAAGTATCGACACAAAATACACAAGTGTTGATACATTTTCTAGACCTATTCTCTC
* *
691300 ATAAAACCAATATATTTTTACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTT
256 ATAAAACCGATATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTT
* * * *
691365 CGATGTTTCTGAGATCGATACTTTTTATAAATGTATTGACACTTTATGCGTGCACCATTTTTTGG
321 CGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACC--CTTTTGG
*
691430 GCATTCATTCTGGAC
384 GCATTCAGTCTGGAC
*
691445 AAAATGTATCGACACAAAATTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACC
1 AAAATGTATCGACACAAAATTAACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACC
* *
691510 GGTATAGTTATATCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGTTTTCGATATTT
66 GGTATATTTATATCGGTTACATTG-AAATTTACCTATTACATTATAATTATGGTTTTCGATGTTT
* * * * *
691575 TTGGGATCGATACTTTTTATAAATATATCGACACTTTATGCGTTCACCATTTTAGGCATTCATTC
130 TTGGGATCGACACTTTTTA-AAATGTATCGACACTTTATGGGTGCACCATTTTGGGCATTCATTC
* * * * * * *
691640 TGGACAAAAAGTATCGACACCAATTTCAAAAGTGTCGATACATTATGTAGACCTATTCTCAT-AT
194 TGGACAAAAAGTATCGACACAAAATACACAAGTGTTGATACATTTTCTAGACCTATTCTC-TCAT
* ** * * *
691704 AAAACCGGTATATTTATACATGTTATATT-ACAAAATTACCTACTACATTATAATTATGGGTTTT
258 AAAACCGATATATTTATACCGGTTACATTGA-AAAATTACCTATTACATTATAATTATGGGTTTC
*
691768 AATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACAC
322 GATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACAC
691809 ATCTGGTTAC
Statistics
Matches: 668, Mismatches: 81, Indels: 32
0.86 0.10 0.04
Matches are distributed among these distances:
397 4 0.01
398 77 0.12
399 168 0.25
400 81 0.12
401 1 0.00
402 257 0.38
403 76 0.11
404 4 0.01
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (398 bp):
AAAATGTATCGACACAAAATTAACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACC
GGTATATTTATATCGGTTACATTGAAATTTACCTATTACATTATAATTATGGTTTTCGATGTTTT
TGGGATCGACACTTTTTAAAATGTATCGACACTTTATGGGTGCACCATTTTGGGCATTCATTCTG
GACAAAAAGTATCGACACAAAATACACAAGTGTTGATACATTTTCTAGACCTATTCTCTCATAAA
ACCGATATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATG
TTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCCTTTTGGGCATTCA
GTCTGGAC
Found at i:691849 original size:15 final size:15
Alignment explanation
Indices: 691825--691878 Score: 99
Period size: 15 Copynumber: 3.6 Consensus size: 15
691815 TTACCTATTT
*
691825 TTTGGAAACTTTACG
1 TTTGGGAACTTTACG
691840 TTTGGGAACTTTACG
1 TTTGGGAACTTTACG
691855 TTTGGGAACTTTACG
1 TTTGGGAACTTTACG
691870 TTTGGGAAC
1 TTTGGGAAC
691879 CATACTTGAC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.22, C:0.13, G:0.26, T:0.39
Consensus pattern (15 bp):
TTTGGGAACTTTACG
Found at i:692216 original size:19 final size:19
Alignment explanation
Indices: 692192--692237 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
692182 CATTCACATG
692192 CAAAATTATAAATCGTATA
1 CAAAATTATAAATCGTATA
*
692211 CAAAATTATAAATCTTATA
1 CAAAATTATAAATCGTATA
692230 CAAAATTA
1 CAAAATTA
692238 ACCCTATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.54, C:0.11, G:0.02, T:0.33
Consensus pattern (19 bp):
CAAAATTATAAATCGTATA
Found at i:693828 original size:18 final size:18
Alignment explanation
Indices: 693801--693838 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
693791 TCTCCTCATC
* *
693801 TCCTCTATCTTTTCTTCT
1 TCCTCCATCTTTTATTCT
693819 TCCTCCATCTTTTATTCT
1 TCCTCCATCTTTTATTCT
693837 TC
1 TC
693839 ATATTTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.08, C:0.34, G:0.00, T:0.58
Consensus pattern (18 bp):
TCCTCCATCTTTTATTCT
Found at i:694113 original size:21 final size:21
Alignment explanation
Indices: 694088--694131 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
694078 CCCCTTATGC
*
694088 CTCTCAAGTGTTTCTTCGACT
1 CTCTCAAGTGTCTCTTCGACT
694109 CTCTCAAGTGTCTCTTCGACT
1 CTCTCAAGTGTCTCTTCGACT
694130 CT
1 CT
694132 TGATTGTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.32, G:0.14, T:0.41
Consensus pattern (21 bp):
CTCTCAAGTGTCTCTTCGACT
Found at i:694234 original size:15 final size:15
Alignment explanation
Indices: 694214--694246 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
694204 ACTCTATTTT
694214 CCCTCACCGTCATCC
1 CCCTCACCGTCATCC
694229 CCCTCACCGTCATCC
1 CCCTCACCGTCATCC
694244 CCC
1 CCC
694247 AATACAACCA
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:0.12, C:0.64, G:0.06, T:0.18
Consensus pattern (15 bp):
CCCTCACCGTCATCC
Found at i:696856 original size:182 final size:182
Alignment explanation
Indices: 696549--697220 Score: 1046
Period size: 182 Copynumber: 3.7 Consensus size: 182
696539 TACGCGTACT
* * * * *
696549 TATTAAAGTATCAACACTTTCAATATATCCGGTAGCGCTTTACTGGTTTTGTCATTTCGAGACCG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCTCTATACCGGTTTTGTCATTTAGAGACCG
*
696614 GTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTTTTATAAAGTATCGACACT
66 GTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTGTTATAAAGTATCGACACT
*
696679 TTATAGACGCTAAAACTGCTTCTCTTTTAAATTCATAAAGTGTCGATACTTA
131 TTATAGACGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
* * * *
696731 TATTAAAATATCGACACTTTCAATATATCTGGTCGCTCTATACCGGTTTTGTCCTTTAGAGACCG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCTCTATACCGGTTTTGTCATTTAGAGACCG
* *
696796 ATTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTGTTATAAAGTATCGACACT
66 GTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTGTTATAAAGTATCGACACT
*
696861 TTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
131 TTATAGACGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
* * *
696913 TATTAAAGCATCGACACTTTCAATATATCTGGTAGCTCTATACCGGTTTTGTCATTTAGAGATCG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCTCTATACCGGTTTTGTCATTTAGAGACCG
*
696978 G--TTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTGTTATAAAGTATCGACACT
66 GTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTGTTATAAAGTATCGACACT
*
697041 TTATA-AGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCAATACTTA
131 TTATAGA-CGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
* * * *
697093 TATTAAAGTATCGACATTTTCAATATATCCGGTAGCGT-TTTACCGGTTTTGTCTTTTCGAGACC
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGC-TCTATACCGGTTTTGTCATTTAGAGACC
* * * * *
697157 GGTTTTGTCATATTTTTACTTGTTATATTGATATAGATCGATACATTTTTATAAAGTATCGACA
65 GGTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTGTTATAAAGTATCGACA
697221 TAAACAGACA
Statistics
Matches: 451, Mismatches: 35, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
180 168 0.37
181 1 0.00
182 282 0.63
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (182 bp):
TATTAAAGTATCGACACTTTCAATATATCCGGTAGCTCTATACCGGTTTTGTCATTTAGAGACCG
GTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTGTTATAAAGTATCGACACT
TTATAGACGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
Found at i:697211 original size:362 final size:363
Alignment explanation
Indices: 696549--697220 Score: 1062
Period size: 362 Copynumber: 1.9 Consensus size: 363
696539 TACGCGTACT
* * * *
696549 TATTAAAGTATCAACACTTTCAATATATCCGGTAGCGCTTTACTGGTTTTGTCATTTCGAGACCG
1 TATTAAAGCATCAACACTTTCAATATATCCGGTAGCGCTATACCGGTTTTGTCATTTAGAGACCG
*
696614 GTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTTTTATAAAGTATCGACACT
66 G-TTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTGTTATAAAGTATCGACACT
* *
696679 TTATAGACGCTAAAACTGCTTCTCTTTTAAATTCATAAAGTGTCGATACTTATATTAAAATATCG
130 TTATAGACGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCAATACTTATATTAAAATATCG
* *
696744 ACACTTTCAATATATCTGGTCGCTCTATACCGGTTTTGTCCTTTAGAGACCGATTTTGTCATATT
195 ACACTTTCAATATATCCGGTAGCTCTATACCGGTTTTGTCCTTTAGAGACCGATTTTGTCATATT
* * *
696809 TTTACCTGTTATATCGTTGTGGATCGATACATTGTTATAAAGTATCGACACTTTATAGGCGCTAA
260 TTTACCTGTTATATCGATATAGATCGATACATTGTTATAAAGTATCGACACTTTATAGGCGCTAA
696874 AACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
325 AACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
* * * *
696913 TATTAAAGCATCGACACTTTCAATATATCTGGTAGCTCTATACCGGTTTTGTCATTTAGAGATCG
1 TATTAAAGCATCAACACTTTCAATATATCCGGTAGCGCTATACCGGTTTTGTCATTTAGAGACCG
*
696978 G-TTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTGTTATAAAGTATCGACACTT
66 GTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTGTTATAAAGTATCGACACTT
*
697042 TATA-AGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCAATACTTATATTAAAGTATCG
131 TATAGA-CGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCAATACTTATATTAAAATATCG
* * * * *
697106 ACATTTTCAATATATCCGGTAGCGT-TTTACCGGTTTTGTCTTTTCGAGACCGGTTTTGTCATAT
195 ACACTTTCAATATATCCGGTAGC-TCTATACCGGTTTTGTCCTTTAGAGACCGATTTTGTCATAT
* * *
697170 TTTTACTTGTTATATTGATATAGATCGATACATTTTTATAAAGTATCGACA
259 TTTTACCTGTTATATCGATATAGATCGATACATTGTTATAAAGTATCGACA
697221 TAAACAGACA
Statistics
Matches: 280, Mismatches: 26, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
361 1 0.00
362 220 0.79
363 1 0.00
364 58 0.21
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (363 bp):
TATTAAAGCATCAACACTTTCAATATATCCGGTAGCGCTATACCGGTTTTGTCATTTAGAGACCG
GTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTGTTATAAAGTATCGACACTT
TATAGACGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCAATACTTATATTAAAATATCGA
CACTTTCAATATATCCGGTAGCTCTATACCGGTTTTGTCCTTTAGAGACCGATTTTGTCATATTT
TTACCTGTTATATCGATATAGATCGATACATTGTTATAAAGTATCGACACTTTATAGGCGCTAAA
ACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
Found at i:698909 original size:19 final size:19
Alignment explanation
Indices: 698885--698938 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
698875 TTGTCCTCAT
698885 GATTCTTATCCTTTAAAAG
1 GATTCTTATCCTTTAAAAG
*
698904 GATTCTTATCCTTTAAAAT
1 GATTCTTATCCTTTAAAAG
698923 GATTCTTATCCTTTAA
1 GATTCTTATCCTTTAA
698939 GGGTGCGTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.30, C:0.17, G:0.07, T:0.46
Consensus pattern (19 bp):
GATTCTTATCCTTTAAAAG
Found at i:699926 original size:2 final size:2
Alignment explanation
Indices: 699921--699946 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
699911 TTCATGTGTG
699921 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
699947 ACTTTCAATC
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):
TA
Found at i:714927 original size:21 final size:21
Alignment explanation
Indices: 714901--714945 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
714891 ACTTGGACAC
714901 GTAGTCTACTACTATGAGTAT
1 GTAGTCTACTACTATGAGTAT
*
714922 GTAGTCTACTACTATGAGTGT
1 GTAGTCTACTACTATGAGTAT
714943 GTA
1 GTA
714946 CAGATCACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.38
Consensus pattern (21 bp):
GTAGTCTACTACTATGAGTAT
Found at i:717205 original size:16 final size:16
Alignment explanation
Indices: 717180--717224 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
717170 CTCCAGCTGT
* *
717180 AAAAAGTTACTGCAAC
1 AAAAATTTACAGCAAC
* *
717196 AAAAATTTACAGTAGC
1 AAAAATTTACAGCAAC
717212 AAAAATTTACAGC
1 AAAAATTTACAGC
717225 TCCATCCTCA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.51, C:0.16, G:0.11, T:0.22
Consensus pattern (16 bp):
AAAAATTTACAGCAAC
Found at i:719387 original size:21 final size:21
Alignment explanation
Indices: 719363--719410 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
719353 TTGAGCATGA
719363 CTGCTTTAAGCTCAAAATGGG
1 CTGCTTTAAGCTCAAAATGGG
719384 CTGCTTTAAGCTCAAAATGGG
1 CTGCTTTAAGCTCAAAATGGG
719405 CTGCTT
1 CTGCTT
719411 AGATCTCGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (21 bp):
CTGCTTTAAGCTCAAAATGGG
Found at i:720108 original size:24 final size:25
Alignment explanation
Indices: 720065--720111 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
720055 TGGAATATTA
720065 TGGCAAGAATGGAGTGAAATTGTTG
1 TGGCAAGAATGGAGTGAAATTGTTG
* *
720090 TGGCAATAATTGA-TGAAATTGT
1 TGGCAAGAATGGAGTGAAATTGT
720112 AAAAGTGTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.34, C:0.04, G:0.30, T:0.32
Consensus pattern (25 bp):
TGGCAAGAATGGAGTGAAATTGTTG
Found at i:722742 original size:98 final size:97
Alignment explanation
Indices: 722476--722747 Score: 292
Period size: 98 Copynumber: 2.7 Consensus size: 97
722466 GTTTTTAGCT
* * * *
722476 AACTGTGTATATTATGAAAAAGTAATAAAAATTCGGTTGCGAGGGTAACGTAATAGGTTTCACCT
1 AACTATGTATATTATGAAAAAGTAATACAAATT-GGTTGTGAGGGTAACGTAATAGGTTGCACC-
* * * *
722541 TGTTTTTATCTTAACCAATTAAGTCATAAGGTTGT
64 T-TTTTTATCGTAACCAATTAAGTAATAAGGCTGC
* * * * * * *
722576 AACCATGTTTATTATAAAAAAAAAGTAATACAAATTTGGTTTTAAGGGTAACATAATAGGTTGTA
1 AACTATGTATATTAT---GAAAAAGTAATACAAA-TTGGTTGTGAGGGTAACGTAATAGGTTGCA
* *
722641 CCTTTTTTATCGTAATCGATTAAGTAATAAGGCTGC
62 CCTTTTTTATCGTAACCAATTAAGTAATAAGGCTGC
* *
722677 AACTATGTATATTATGAAAAAGTAATACAAATCTGGTTGTGATGATAACGTAATAGGTTGCACCT
1 AACTATGTATATTATGAAAAAGTAATACAAAT-TGGTTGTGAGGGTAACGTAATAGGTTGCACCT
722742 TGTTTT
65 T-TTTT
722748 TTTTTTAAAA
Statistics
Matches: 140, Mismatches: 26, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
97 1 0.01
98 42 0.30
99 4 0.03
100 12 0.09
101 40 0.29
102 1 0.01
103 38 0.27
104 2 0.01
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (97 bp):
AACTATGTATATTATGAAAAAGTAATACAAATTGGTTGTGAGGGTAACGTAATAGGTTGCACCTT
TTTTATCGTAACCAATTAAGTAATAAGGCTGC
Found at i:724634 original size:15 final size:15
Alignment explanation
Indices: 724616--724644 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
724606 GACCACTACA
724616 TCCCGAAGGACTATG
1 TCCCGAAGGACTATG
724631 TCCCGAAGGACTAT
1 TCCCGAAGGACTAT
724645 TATACCCTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.21
Consensus pattern (15 bp):
TCCCGAAGGACTATG
Found at i:724771 original size:29 final size:29
Alignment explanation
Indices: 724728--724833 Score: 187
Period size: 29 Copynumber: 3.7 Consensus size: 29
724718 TTTTATATGT
724728 TCATGTA-CTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
*
724756 TCATGTAGTTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
724785 TCATGTAGCTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
*
724814 TCATGTAGCTCATATCATTT
1 TCATGTAGCTCATGTCATTT
724834 TCTCATATCA
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
28 7 0.09
29 67 0.91
ACGTcount: A:0.19, C:0.20, G:0.15, T:0.46
Consensus pattern (29 bp):
TCATGTAGCTCATGTCATTTCTCTTGTGA
Found at i:726178 original size:15 final size:15
Alignment explanation
Indices: 726160--726189 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
726150 CACATAAACT
*
726160 CATATCTTCTTATCA
1 CATAGCTTCTTATCA
726175 CATAGCTTCTTATCA
1 CATAGCTTCTTATCA
726190 TATCATTCAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.27, G:0.03, T:0.43
Consensus pattern (15 bp):
CATAGCTTCTTATCA
Found at i:726280 original size:16 final size:17
Alignment explanation
Indices: 726259--726293 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
726249 TATAACTCAT
*
726259 TATCACATA-AATCACA
1 TATCACATATAAACACA
726275 TATCACATATAAACACA
1 TATCACATATAAACACA
726292 TA
1 TA
726294 GATCATTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (17 bp):
TATCACATATAAACACA
Found at i:726470 original size:2 final size:2
Alignment explanation
Indices: 726458--726498 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
726448 ATTTCATACT
*
726458 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
726499 CACTTCTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:731185 original size:17 final size:19
Alignment explanation
Indices: 731151--731185 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
731141 GGGTTGAAAG
731151 ATTATAAAGAAATATAAAT
1 ATTATAAAGAAATATAAAT
731170 ATTA-AAAGAAAT-TAAA
1 ATTATAAAGAAATATAAA
731186 AGAAATCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 8 0.50
19 4 0.25
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.29
Consensus pattern (19 bp):
ATTATAAAGAAATATAAAT
Found at i:732117 original size:12 final size:12
Alignment explanation
Indices: 732100--732125 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
732090 AGTCAGACGC
732100 GTCATGCCCCAA
1 GTCATGCCCCAA
732112 GTCATGCCCCAA
1 GTCATGCCCCAA
732124 GT
1 GT
732126 TTGGTGTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.38, G:0.19, T:0.19
Consensus pattern (12 bp):
GTCATGCCCCAA
Found at i:733105 original size:47 final size:47
Alignment explanation
Indices: 733036--733130 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
733026 CCATACAAGT
733036 TAACTTAAAACAGTGATACATGTTTTCTTTACAAAAAATGTTAAGAA
1 TAACTTAAAACAGTGATACATGTTTTCTTTACAAAAAATGTTAAGAA
733083 TAACTTAAAACAGTGATACATGTTTTCTTTACAAAAAATGTTAAGAA
1 TAACTTAAAACAGTGATACATGTTTTCTTTACAAAAAATGTTAAGAA
733130 T
1 T
733131 TTCAAGTTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.35
Consensus pattern (47 bp):
TAACTTAAAACAGTGATACATGTTTTCTTTACAAAAAATGTTAAGAA
Found at i:743893 original size:2 final size:2
Alignment explanation
Indices: 743886--743914 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
743876 TATATGAAAG
743886 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
743915 GCACGCACCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:747011 original size:16 final size:16
Alignment explanation
Indices: 746990--747023 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
746980 ATATTTTGAT
*
746990 TTTTTTAGAATTTAAA
1 TTTTTTAGAAATTAAA
*
747006 TTTTTTATAAATTAAA
1 TTTTTTAGAAATTAAA
747022 TT
1 TT
747024 AATGGTGCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
TTTTTTAGAAATTAAA
Found at i:752242 original size:14 final size:14
Alignment explanation
Indices: 752210--752256 Score: 67
Period size: 14 Copynumber: 3.3 Consensus size: 14
752200 TGCAGAACTG
*
752210 ATACTACAAGTACCA
1 ATACTGCAAGTA-CA
752225 ATACTGCAAGTACA
1 ATACTGCAAGTACA
*
752239 ATACTGCGAGTACA
1 ATACTGCAAGTACA
752253 ATAC
1 ATAC
752257 CAATACTCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
14 19 0.63
15 11 0.37
ACGTcount: A:0.43, C:0.23, G:0.13, T:0.21
Consensus pattern (14 bp):
ATACTGCAAGTACA
Found at i:752414 original size:27 final size:28
Alignment explanation
Indices: 752363--752420 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
752353 CTAAATTATG
*
752363 AAATTACCCAAATACCCCTAGATGACTT
1 AAATTACCAAAATACCCCTAGATGACTT
* *
752391 AAATTACCAAAATACCCTTA-ATGAGTT
1 AAATTACCAAAATACCCCTAGATGACTT
752418 AAA
1 AAA
752421 AACTTTAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 9 0.33
28 18 0.67
ACGTcount: A:0.45, C:0.22, G:0.07, T:0.26
Consensus pattern (28 bp):
AAATTACCAAAATACCCCTAGATGACTT
Found at i:759995 original size:18 final size:18
Alignment explanation
Indices: 759972--760009 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
759962 ATCGATACTC
759972 ACTCCCTTC-GGTATCGAT
1 ACTCCC-TCAGGTATCGAT
759990 ACTCCCTCAGGTATCGAT
1 ACTCCCTCAGGTATCGAT
760008 AC
1 AC
760010 CAAAATTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.21, C:0.34, G:0.16, T:0.29
Consensus pattern (18 bp):
ACTCCCTCAGGTATCGAT
Found at i:764948 original size:6 final size:6
Alignment explanation
Indices: 764883--764944 Score: 97
Period size: 6 Copynumber: 10.3 Consensus size: 6
764873 TATTGTAGCT
*
764883 GTGGAA GTGGAA GTGGAA GTGGAA GTGGAA GTGGAA GTGGAA GTAGAA
1 GTGGAA GTGGAA GTGGAA GTGGAA GTGGAA GTGGAA GTGGAA GTGGAA
* *
764931 GTAGAA GTAGAA GT
1 GTGGAA GTGGAA GT
764945 AGAACGAATT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 55 1.00
ACGTcount: A:0.37, C:0.00, G:0.45, T:0.18
Consensus pattern (6 bp):
GTGGAA
Found at i:767459 original size:22 final size:23
Alignment explanation
Indices: 767432--767478 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
767422 AATTATCTTT
* *
767432 TAAATTTTA-TGAAAATTATATA
1 TAAATTTTATTAAAAAGTATATA
767454 TAAATTTTATTAAAAAGTATATA
1 TAAATTTTATTAAAAAGTATATA
767477 TA
1 TA
767479 TTAAAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (23 bp):
TAAATTTTATTAAAAAGTATATA
Found at i:768807 original size:15 final size:16
Alignment explanation
Indices: 768782--768811 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
768772 CACCATAAAT
768782 TAAATGCATAATAACA
1 TAAATGCATAATAACA
768798 TAAA-GCATAATAAC
1 TAAATGCATAATAAC
768812 TCAATTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.57, C:0.13, G:0.07, T:0.23
Consensus pattern (16 bp):
TAAATGCATAATAACA
Found at i:769184 original size:21 final size:21
Alignment explanation
Indices: 769158--769197 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
769148 TCCAAAATCA
769158 TTGCGATAGCACTGTTCACCG
1 TTGCGATAGCACTGTTCACCG
769179 TTGCGATAGCACTGTTCAC
1 TTGCGATAGCACTGTTCAC
769198 ATTGCGAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.28, G:0.23, T:0.30
Consensus pattern (21 bp):
TTGCGATAGCACTGTTCACCG
Found at i:769470 original size:22 final size:22
Alignment explanation
Indices: 769445--769490 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
769435 AAAATTTACA
* *
769445 AAAACAAGATAAAAATTTGTAC
1 AAAACAAGATAAAAACTTGAAC
*
769467 AAAATAAGATAAAAACTTGAAC
1 AAAACAAGATAAAAACTTGAAC
769489 AA
1 AA
769491 TTTTTATAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.63, C:0.09, G:0.09, T:0.20
Consensus pattern (22 bp):
AAAACAAGATAAAAACTTGAAC
Found at i:769781 original size:16 final size:17
Alignment explanation
Indices: 769752--769803 Score: 63
Period size: 16 Copynumber: 3.1 Consensus size: 17
769742 ATCATAAATA
*
769752 ATTTAGAATTTATATTT
1 ATTTAAAATTTATATTT
*
769769 ATTT-AATTTTATA-TT
1 ATTTAAAATTTATATTT
769784 ATTTAAAATTTATAGTTT
1 ATTTAAAATTTATA-TTT
769802 AT
1 AT
769804 CATAAATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 6 0.21
16 15 0.52
17 4 0.14
18 4 0.14
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.60
Consensus pattern (17 bp):
ATTTAAAATTTATATTT
Done.