Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004976.1 Hibiscus syriacus cultivar Beakdansim tig00011171_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: 78349
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:855 original size:45 final size:45
Alignment explanation
Indices: 804--1335 Score: 640
Period size: 45 Copynumber: 11.9 Consensus size: 45
794 AAAGGATGTC
* ** *
804 ATAGTTGAAATGTATATGGGTACATTATCAACATAAAAAAATAGT
1 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
* *
849 TTAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATGCT
1 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
* * * *
894 AGAGTTGAAATGTCTGTGGGTGCATTATCAACAGAAAAGTATACT
1 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
* *
939 ATGGTTGAAATGTATATGGGTACATTATCAACAGAAAAAGCATACT
1 ATAGTTGAAATGTATATGGGTACATTATCAACAG-AAAAGTATACT
* *
985 TTAGTTGAAATG--TAT--GTAACATTATCAACAGAAAAGTATGCT
1 ATAGTTGAAATGTATATGGGT-ACATTATCAACAGAAAAGTATACT
* * * * *
1027 AGAATTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACC
1 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
* * *
1072 AGAGTTAAAATGTATATGGGTACATTATCAACAGAAAAGTATATT
1 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
* * *
1117 ATGGTTGAAATGTATAAGGGTACATTATCTACAGAAAAGTATACT
1 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
* * ** * * *
1162 ATAGTTGATATGCATATGGGTGTATTATCAACATAAATGTATGCT
1 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
* * * * *
1207 ACAGTTAAAATGTATATGTGTACATTATCAATAGAAAAGTATATT
1 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
* *
1252 ATGGTTGAAATGTATATTGGTACATTATCAACAGAAAAGTATACT
1 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
* * *
1297 ATAGTTGAAATGCATATGGGTGCATTATCAACATAAAAG
1 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAG
1336 ATGTTATATT
Statistics
Matches: 407, Mismatches: 74, Indels: 12
0.83 0.15 0.02
Matches are distributed among these distances:
42 20 0.05
43 13 0.03
44 6 0.01
45 346 0.85
46 22 0.05
ACGTcount: A:0.41, C:0.09, G:0.19, T:0.31
Consensus pattern (45 bp):
ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
Found at i:1396 original size:135 final size:134
Alignment explanation
Indices: 854--1396 Score: 436
Period size: 135 Copynumber: 4.0 Consensus size: 134
844 ATAGTTTAGT
* * * *
854 TGAAATGTATATGGGTACATTATCAACAGAAAAGTATGCTAGAGTTGAAATGTC-TGTGGGTGCA
1 TGAAATGTATAAGGGTACATTATCAACAGAAAAGTATACTATAGTTGAAATG-CATATGGGTGCA
* * ** * * * * * * *
918 TTATCAACAGAAAAGTATACTATGGTTGAAATGTATATGGGTACATTATCAACAGAAAAAGCATA
65 TTATCAACATAAAAGTATGCTACAGTTAAAATGCATATGTGTA-ATTATAAATAG-AAAAGGAGA
* **
983 CTT-TAGT
128 -TTACAAA
* * *
990 TGAAATGTAT----GTAACATTATCAACAGAAAAGTATGCTAGAATTGAAATGCATATGGGTGCA
1 TGAAATGTATAAGGGT-ACATTATCAACAGAAAAGTATACTATAGTTGAAATGCATATGGGTGCA
* * * * * * * * * *
1051 TTATCAACAGAAAAGTATACCAGAGTTAAAATGTATATGGGTACATTATCAACAGAAAAGTATAT
65 TTATCAACATAAAAGTATGCTACAGTTAAAATGCATATGTGTA-ATTATAAATAGAAAAGGAGAT
****
1116 TATGGT
129 TACAAA
* * *
1122 TGAAATGTATAAGGGTACATTATCTACAGAAAAGTATACTATAGTTGATATGCATATGGGTGTAT
1 TGAAATGTATAAGGGTACATTATCAACAGAAAAGTATACTATAGTTGAAATGCATATGGGTGCAT
* * * * *
1187 TATCAACATAAATGTATGCTACAGTTAAAATGTATATGTGTACATTATCAATAGAAAAGTATATT
66 TATCAACATAAAAGTATGCTACAGTTAAAATGCATATGTGTA-ATTATAAATAGAAAAGGAGATT
****
1252 ATGGT
130 ACAAA
**
1257 TGAAATGTATATTGGTACATTATCAACAGAAAAGTATACTATAGTTGAAATGCATATGGGTGCAT
1 TGAAATGTATAAGGGTACATTATCAACAGAAAAGTATACTATAGTTGAAATGCATATGGGTGCAT
* * * * * * *
1322 TATCAACATAAAAG-ATGTTATATTTTAAAGTGCATACTGGTGT-ATTATAAATATAAAGGGAGG
66 TATCAACATAAAAGTATGCTACA-GTTAAAATGCATA-T-GTGTAATTATAAATAGAAAAGGAGA
1385 TTACAAA
128 TTACAAA
1392 TGAAA
1 TGAAA
1397 ATAAAGAATT
Statistics
Matches: 355, Mismatches: 42, Indels: 21
0.85 0.10 0.05
Matches are distributed among these distances:
131 2 0.01
132 24 0.07
133 95 0.27
134 6 0.02
135 211 0.59
136 13 0.04
137 4 0.01
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.31
Consensus pattern (134 bp):
TGAAATGTATAAGGGTACATTATCAACAGAAAAGTATACTATAGTTGAAATGCATATGGGTGCAT
TATCAACATAAAAGTATGCTACAGTTAAAATGCATATGTGTAATTATAAATAGAAAAGGAGATTA
CAAA
Found at i:7655 original size:45 final size:45
Alignment explanation
Indices: 7089--7621 Score: 714
Period size: 45 Copynumber: 11.9 Consensus size: 45
7079 AAAGGATGTC
*
7089 ATAGTTGAAATGTATATAGGTACATTATCAACAGAAAA-TCATACT
1 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGT-ATACT
* * **
7134 TTAGTTGAAATGTATATAGGTACATTATCAACAGAAAAGTATGTT
1 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
* * * * *
7179 AGAGTTGAAATGCATGTGGGTGCATTATCAACAGAAAAATATACT
1 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
* * *
7224 ATGGTTGAAATGTATATGGATACATTATCAGCAG-AAA-TCATACT
1 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGT-ATACT
* * *
7268 TTAGTTGAAA-GATATATGGGTACATTATCAATAGAAAAGTATGCT
1 ATAGTTGAAATG-TATATGGGTACATTATCAACAGAAAAGTATACT
* * * * *
7313 AGAGTTGAAATGCATATGGGTGCATTATCAACATAAAAGTATGCT
1 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
*
7358 AGAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
1 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
* *
7403 ATGGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATATT
1 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
* * *
7448 ATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATGCT
1 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
*
7493 AGAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
1 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
* * *
7538 ATGGTTGAAATGTATATGGTTACATTATCAATAGAAAAGTATACT
1 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
* *
7583 ATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAG
1 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAG
7622 ATGTTATAGT
Statistics
Matches: 426, Mismatches: 56, Indels: 12
0.86 0.11 0.02
Matches are distributed among these distances:
43 2 0.00
44 35 0.08
45 386 0.91
46 3 0.01
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (45 bp):
ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
Found at i:7682 original size:135 final size:135
Alignment explanation
Indices: 7091--7621 Score: 802
Period size: 135 Copynumber: 3.9 Consensus size: 135
7081 AGGATGTCAT
* * *
7091 AGTTGAAATGTATATAGGTACATTATCAACAGAAAA-TCATACTTTAGTTGAAATGTATATAGGT
1 AGTTGAAATGTATATGGGTACATTATCAACAGAAAAGT-ATACTATAGTTGAAATGTATATGGGT
** * *
7155 ACATTATCAACAGAAAAGTATGTTAGAGTTGAAATGCATGTGGGTGCATTATCAACAGAAAAATA
65 ACATTATCAACAGAAAAGTATACTAGAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTA
*
7220 TACTATG
130 TGCTA-G
* * *
7227 -GTTGAAATGTATATGGATACATTATCAGCAG-AAA-TCATACTTTAGTTGAAA-GATATATGGG
1 AGTTGAAATGTATATGGGTACATTATCAACAGAAAAGT-ATACTATAGTTGAAATG-TATATGGG
* * *
7288 TACATTATCAATAGAAAAGTATGCTAGAGTTGAAATGCATATGGGTGCATTATCAACATAAAAGT
64 TACATTATCAACAGAAAAGTATACTAGAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGT
7353 ATGCTAG
129 ATGCTAG
*
7360 AGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACTATGGTTGAAATGTATATGGGTA
1 AGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACTATAGTTGAAATGTATATGGGTA
* *
7425 CATTATCAACAGAAAAGTATATTATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTAT
66 CATTATCAACAGAAAAGTATACTAGAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTAT
7490 GCTAG
131 GCTAG
* *
7495 AGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACTATGGTTGAAATGTATATGGTTA
1 AGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACTATAGTTGAAATGTATATGGGTA
* *
7560 CATTATCAATAGAAAAGTATACTATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAG
66 CATTATCAACAGAAAAGTATACTAGAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAG
7622 ATGTTATAGT
Statistics
Matches: 368, Mismatches: 22, Indels: 11
0.92 0.05 0.03
Matches are distributed among these distances:
133 2 0.01
134 121 0.33
135 243 0.66
136 2 0.01
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (135 bp):
AGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACTATAGTTGAAATGTATATGGGTA
CATTATCAACAGAAAAGTATACTAGAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTAT
GCTAG
Found at i:17475 original size:18 final size:18
Alignment explanation
Indices: 17452--17489 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
17442 ACTATAGTGA
17452 AACCCCTCAAACTTAGGC
1 AACCCCTCAAACTTAGGC
17470 AACCCCTCAAACTTAGGC
1 AACCCCTCAAACTTAGGC
17488 AA
1 AA
17490 AAAAAGAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.37, G:0.11, T:0.16
Consensus pattern (18 bp):
AACCCCTCAAACTTAGGC
Found at i:19457 original size:15 final size:15
Alignment explanation
Indices: 19437--19488 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
19427 CTTTGAAGAC
19437 ATATATAGTTTATAT
1 ATATATAGTTTATAT
* *
19452 ATATATA-TTTGAAAA
1 ATATATAGTTT-ATAT
*
19467 ATATATAGCTTATAT
1 ATATATAGTTTATAT
19482 ATATATA
1 ATATATA
19489 TATATATAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
14 3 0.10
15 25 0.83
16 2 0.07
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (15 bp):
ATATATAGTTTATAT
Found at i:19491 original size:32 final size:31
Alignment explanation
Indices: 19428--19489 Score: 99
Period size: 30 Copynumber: 2.0 Consensus size: 31
19418 TATATGTAGC
*
19428 TTTGAAGACATATATAGTTTATATATATATA
1 TTTGAAGAAATATATAGTTTATATATATATA
*
19459 TTTGAA-AAATATATAGCTTATATATATATA
1 TTTGAAGAAATATATAGTTTATATATATATA
19489 T
1 T
19490 ATATATAACA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 23 0.79
31 6 0.21
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (31 bp):
TTTGAAGAAATATATAGTTTATATATATATA
Found at i:19569 original size:29 final size:29
Alignment explanation
Indices: 19522--19592 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
19512 AACAGATAGT
19522 TTTC-AAAA-ATATATATAATATAAATAA
1 TTTCGAAAACATATATATAATATAAATAA
* * *
19549 TTTCGGAAACATATATATAATATATATAG
1 TTTCGAAAACATATATATAATATAAATAA
*
19578 TTTTGAAAACATATA
1 TTTCGAAAACATATA
19593 GTTTTTAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 4 0.11
28 3 0.08
29 30 0.81
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.38
Consensus pattern (29 bp):
TTTCGAAAACATATATATAATATAAATAA
Found at i:19593 original size:16 final size:16
Alignment explanation
Indices: 19572--19608 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
19562 TATATAATAT
19572 ATATAGTTTTGAAAAC
1 ATATAGTTTTGAAAAC
* *
19588 ATATAGTTTTTAAAAT
1 ATATAGTTTTGAAAAC
19604 ATATA
1 ATATA
19609 ATATATATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (16 bp):
ATATAGTTTTGAAAAC
Found at i:19649 original size:41 final size:41
Alignment explanation
Indices: 19563--19650 Score: 131
Period size: 41 Copynumber: 2.1 Consensus size: 41
19553 GGAAACATAT
** *
19563 ATATAATATATATAGTTTTGAAAACATATAGTTTTTAAAAT
1 ATATAATATATATAGTTTTGAAAACATATAGTTTAGAAAAA
* *
19604 ATATAATATATATTGTTTTGAAGACATATAGTTTAGAAAAA
1 ATATAATATATATAGTTTTGAAAACATATAGTTTAGAAAAA
19645 ATATAA
1 ATATAA
19651 CGTATATAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.48, C:0.02, G:0.09, T:0.41
Consensus pattern (41 bp):
ATATAATATATATAGTTTTGAAAACATATAGTTTAGAAAAA
Found at i:21950 original size:92 final size:92
Alignment explanation
Indices: 21793--21982 Score: 371
Period size: 92 Copynumber: 2.1 Consensus size: 92
21783 TAATACTTGG
21793 TATGTTATATTTTTTTAAATACTATCAGGATGAACTTTAAATTGATAGTTTTTAGGCAGTCTCAC
1 TATGTTATATTTTTTTAAATACTATCAGGATGAACTTTAAATTGATAGTTTTTAGGCAGTCTCAC
*
21858 TCTTTAATTGAAACAATCTTAAACTGC
66 TCTTTAATTAAAACAATCTTAAACTGC
21885 TATGTTATATTTTTTTAAATACTATCAGGATGAACTTTAAATTGATAGTTTTTAGGCAGTCTCAC
1 TATGTTATATTTTTTTAAATACTATCAGGATGAACTTTAAATTGATAGTTTTTAGGCAGTCTCAC
21950 TCTTTAATTAAAACAATCTTAAACTGC
66 TCTTTAATTAAAACAATCTTAAACTGC
21977 TATGTT
1 TATGTT
21983 GCTGTCTAAA
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
92 97 1.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.43
Consensus pattern (92 bp):
TATGTTATATTTTTTTAAATACTATCAGGATGAACTTTAAATTGATAGTTTTTAGGCAGTCTCAC
TCTTTAATTAAAACAATCTTAAACTGC
Found at i:22028 original size:92 final size:92
Alignment explanation
Indices: 21809--22007 Score: 233
Period size: 92 Copynumber: 2.2 Consensus size: 92
21799 ATATTTTTTT
* * * * *
21809 AAATACTATCAGGATGAACTTTAAATTGATAGTTTTTAGGCAGTCTCACTCTTTAATTGAAACAA
1 AAATACGATCACGATAAACTTTAAAGTGATAGTTTTTAGGCAGTCTCACTCTTTAATTAAAACAA
* * * *
21874 TCTTAAACTGCTATGTTATATTTTTTT
66 TCTTAAACTGCTATGTTATACTGTCTA
* * * *
21901 AAATACTATCAGGATGAACTTTAAATTGATAGTTTTTAGGCAGTCTCACTCTTTAATTAAAACAA
1 AAATACGATCACGATAAACTTTAAAGTGATAGTTTTTAGGCAGTCTCACTCTTTAATTAAAACAA
*
21966 TCTTAAACTGCTATG-T-TGCTGTCTA
66 TCTTAAACTGCTATGTTATACTGTCTA
**
21991 AAATTGGAT-ACGATAAA
1 AAATACGATCACGATAAA
22008 TATTTTAAAG
Statistics
Matches: 96, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
89 6 0.06
90 10 0.10
91 1 0.01
92 79 0.82
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.39
Consensus pattern (92 bp):
AAATACGATCACGATAAACTTTAAAGTGATAGTTTTTAGGCAGTCTCACTCTTTAATTAAAACAA
TCTTAAACTGCTATGTTATACTGTCTA
Found at i:26388 original size:864 final size:864
Alignment explanation
Indices: 24719--26411 Score: 2931
Period size: 864 Copynumber: 2.0 Consensus size: 864
24709 TTGATCCTTA
*
24719 AAAGGTTTTATATGAGATTTCATAAAATGGGTTTTTAAATGATTTGATGAAATATGGATAGTTAT
1 AAAGGTTGTATATGAGATTTCATAAAATGGGTTTTTAAATGATTTGATGAAATATGGATAGTTAT
*
24784 GGAAGATTTAAGGCATTTTTGACTTGTCAAAGAAGTAAATAAGAGATTAGAAGCCTTGGATATGA
66 GGAAGATTTAAGGCATTTTTGACTTGTCAAAGAAGTAAATAAGAGATTAAAAGCCTTGGATATGA
24849 TAAAAAAAACATGTTCGAAAAAGGTGTGTGATTCTTGGTTTGGAGTGTTCTTTAGAGAATTTGGA
131 T-AAAAAAACATGTTCGAAAAAGGTGTGTGATTCTTGGTTTGGAGTGTTCTTTAGAGAATTTGGA
* *
24914 TGTTATAGGAAGAATAATGAAGGAAAGTTAGTTGGGTTAAGGGATGTTAAGTTTAAGGGTATTGT
195 TGTTATAGGAAGAATAATGAAAGAAAGTTAGTTAGGTTAAGGGATGTTAAGTTTAAGGGTATTGT
* * *
24979 TGGAGGTAAAATAAAGAGAATTTAAAGAAATTTGAGTAAAATTTGAGCTGATAATTTGAAAATAT
260 TGGAGGTAAAAGAAAGAGAATTTAAAGAAATTTGAGTAAAATTCGAGCTGAAAATTTGAAAATAT
* ** *
25044 GGGTAAGGGTATCGGTACTGGAAGAATAGTATTGATACTATATGTTTAAATTTGGGGAAATACAA
325 GGGTAAGGGTATCGGTACTGGAAGAATAATACAGATACTATATGTTTAAATTTGGGAAAATACAA
* *
25109 TGAACAGTATCGATACTGATGCAAGTAGTATCGATACTGTTGTGGGTATCAATACTAATAGGAAG
390 TGAACAATATCGATACTGATGCAAGTAGTATCGATACTGTTGTGGGTATCAATACTAATAGAAAG
*
25174 GTATTGATACCATGGATTCCAGAATACAGAAATGGTAACGGTACTGAAGGGAGTATCGGTACCAT
455 GTATCGATACCATGGATTCCAGAATACAGAAATGGTAACGGTACTGAAGGGAGTATCGGTACCAT
* *
25239 AGTATAGAAGTATTGATACCATAGAAGGGGTACCAATACTAAGCAACCTGAAATTTTAGGTTAGG
520 AGTATAGAAGTATCGATACCATAGAAAGGGTACCAATACTAAGCAACCTGAAATTTTAGGTTAGG
*
25304 ATGAGCTTAAAGAGAATTCGAGAATAATAGTACTTTTGAGTATTATTAATGTGTATAAATGTTAG
585 ATGAGATTAAAGAGAATTCGAGAATAATAGTACTTTTGAGTATTATTAATGTGTATAAATGTTAG
* *
25369 AAAGTAAACTTTCATTTGTATTGTATGTGTGATTATGGATACTTGTGTAGATCGTAATCAAGCTC
650 AAAGTAAACTTACATTTGTATTGTATGTGTGATTATAGATACTTGTGTAGATCGTAATCAAGCTC
* * *
25434 TCGAGTCAAGCAAACAGAAAGGCAAAGTTAAAGTCGCCGATTAGTAGGATTTAAATTTTGGGTAT
715 TCGAGTCAAACAAACAGAAAGGAAAAGTTAAAGTCACCGATTAGTAGGATTTAAATTTTGGGTAT
*
25499 AATAGCGAGGTAGACCAGGTGAGTGCATTTATTATGTACTTAAATGTTAAAAAGGAAGGTTCAAG
780 AATAGCGAGGCAGACCAGGTGAGTGCATTTATTATGTACTTAAATGTTAAAAAGGAAGGTTCAAG
25564 GAGGATTAAAAATAAGAGAC
845 GAGGATTAAAAATAAGAGAC
* *
25584 AAAGGTTGTATATGAGATTTCATAAAATGGGTTTTTAAATTATTTGATGAAATATGGTTAGTTAT
1 AAAGGTTGTATATGAGATTTCATAAAATGGGTTTTTAAATGATTTGATGAAATATGGATAGTTAT
*
25649 GGAAGATTTAAGGCATTTTTGACTTGTCAAAGAAGTAAATAAGGGATTAAAAGCCTTGGATATGA
66 GGAAGATTTAAGGCATTTTTGACTTGTCAAAGAAGTAAATAAGAGATTAAAAGCCTTGGATATGA
* * *
25714 T-TAAAAATATGTTGGAAAAA-GTAGTGTGATTCTTGGTTTGGAGTGTTCTTTAGAGAATTTGGA
131 TAAAAAAACATGTTCGAAAAAGGT-GTGTGATTCTTGGTTTGGAGTGTTCTTTAGAGAATTTGGA
* *
25777 TGTTATAGGAAGATTAATGAAAGAAAGTTAGTTAGGTTAAGTGATGTTAAGTTTAAGGGTATTGT
195 TGTTATAGGAAGAATAATGAAAGAAAGTTAGTTAGGTTAAGGGATGTTAAGTTTAAGGGTATTGT
* *
25842 TGGAGGTGAAAGAAAGAGAATTTAAAGAAATTTGGGTAAAATTCGAGCTGAAAATTTGAAAATAT
260 TGGAGGTAAAAGAAAGAGAATTTAAAGAAATTTGAGTAAAATTCGAGCTGAAAATTTGAAAATAT
*
25907 GGGTAAGGGTATCGGTACTGGAAGAATAATACAGATACTATATGTTTTAATTTAGGGAAAATACA
325 GGGTAAGGGTATCGGTACTGGAAGAATAATACAGATACTATATGTTTAAATTT-GGGAAAATACA
* * *
25972 ATGAACAATATCGATATTGATGCAAGTAGTATCGATACTGTTGTGGGTATCGATACTAATATAAA
389 ATGAACAATATCGATACTGATGCAAGTAGTATCGATACTGTTGTGGGTATCAATACTAATAGAAA
* *
26037 GGTATCGATACCATGGATTTCAGAATGCAGAAATGGTAACGGTACTGAAGGGAGTATCGGTACCA
454 GGTATCGATACCATGGATTCCAGAATACAGAAATGGTAACGGTACTGAAGGGAGTATCGGTACCA
* * *
26102 TAGTATAGAAGTATCGATACCATAGAAATGGTACCGATACTAAGCAATCTGAAATTTTAGGTTAG
519 TAGTATAGAAGTATCGATACCATAGAAAGGGTACCAATACTAAGCAACCTGAAATTTTAGGTTAG
* *
26167 GATGAGATTAAATAGAATTCGAGAATAATAGTACTTTTGAGTCTTATTAATGTGTATAAATGTTA
584 GATGAGATTAAAGAGAATTCGAGAATAATAGTACTTTTGAGTATTATTAATGTGTATAAATGTTA
26232 GAAAGTAAACTTACATTTGTATTGTATGTGTGATTATAGATACTTGTGTAGATCGTAATCAAGCT
649 GAAAGTAAACTTACATTTGTATTGTATGTGTGATTATAGATACTTGTGTAGATCGTAATCAAGCT
*
26297 CTCGAGTCAAACAAACAGAAAGGAAAAGTTAAAGTCACCGATTAGTCGGATTTAAATTTTGGGTA
714 CTCGAGTCAAACAAACAGAAAGGAAAAGTTAAAGTCACCGATTAGTAGGATTTAAATTTTGGGTA
*
26362 TAATAGCGAGGCAGACCAGGTGAGTGCATTTATTATGTACTTATATGTTA
779 TAATAGCGAGGCAGACCAGGTGAGTGCATTTATTATGTACTTAAATGTTA
26412 TGATAGTCAT
Statistics
Matches: 780, Mismatches: 46, Indels: 5
0.94 0.06 0.01
Matches are distributed among these distances:
862 2 0.00
863 226 0.29
864 426 0.55
865 126 0.16
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.32
Consensus pattern (864 bp):
AAAGGTTGTATATGAGATTTCATAAAATGGGTTTTTAAATGATTTGATGAAATATGGATAGTTAT
GGAAGATTTAAGGCATTTTTGACTTGTCAAAGAAGTAAATAAGAGATTAAAAGCCTTGGATATGA
TAAAAAAACATGTTCGAAAAAGGTGTGTGATTCTTGGTTTGGAGTGTTCTTTAGAGAATTTGGAT
GTTATAGGAAGAATAATGAAAGAAAGTTAGTTAGGTTAAGGGATGTTAAGTTTAAGGGTATTGTT
GGAGGTAAAAGAAAGAGAATTTAAAGAAATTTGAGTAAAATTCGAGCTGAAAATTTGAAAATATG
GGTAAGGGTATCGGTACTGGAAGAATAATACAGATACTATATGTTTAAATTTGGGAAAATACAAT
GAACAATATCGATACTGATGCAAGTAGTATCGATACTGTTGTGGGTATCAATACTAATAGAAAGG
TATCGATACCATGGATTCCAGAATACAGAAATGGTAACGGTACTGAAGGGAGTATCGGTACCATA
GTATAGAAGTATCGATACCATAGAAAGGGTACCAATACTAAGCAACCTGAAATTTTAGGTTAGGA
TGAGATTAAAGAGAATTCGAGAATAATAGTACTTTTGAGTATTATTAATGTGTATAAATGTTAGA
AAGTAAACTTACATTTGTATTGTATGTGTGATTATAGATACTTGTGTAGATCGTAATCAAGCTCT
CGAGTCAAACAAACAGAAAGGAAAAGTTAAAGTCACCGATTAGTAGGATTTAAATTTTGGGTATA
ATAGCGAGGCAGACCAGGTGAGTGCATTTATTATGTACTTAAATGTTAAAAAGGAAGGTTCAAGG
AGGATTAAAAATAAGAGAC
Found at i:26523 original size:54 final size:54
Alignment explanation
Indices: 26457--26626 Score: 286
Period size: 54 Copynumber: 3.1 Consensus size: 54
26447 TTGTATTTTT
* *
26457 CGTATTGACACTGTGTGTACAACTTAAGAAATTCATAATGAGTTTATGAATTTC
1 CGTATTGGCACTGTGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTC
*
26511 TGTATTGGCACTGTGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTC
1 CGTATTGGCACTGTGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTC
* * *
26565 CGTATTGGCATTGTGTGTGCAACTTAAGAAATTCATAATGAGTTTGTGAATTAC
1 CGTATTGGCACTGTGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTC
26619 CGTATTGG
1 CGTATTGG
26627 TACTACATGT
Statistics
Matches: 109, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 109 1.00
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.38
Consensus pattern (54 bp):
CGTATTGGCACTGTGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTC
Found at i:28897 original size:29 final size:30
Alignment explanation
Indices: 28856--28929 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
28846 TATGGTCAAA
*
28856 AATCAATAAGACCACCAAACT-TTCAATTG
1 AATCAATCAGACCACCAAACTATTCAATTG
* *
28885 AATCAATCAGACCACCCAACTATTTAATTG
1 AATCAATCAGACCACCAAACTATTCAATTG
* *
28915 ATTCAATCAAACCAC
1 AATCAATCAGACCAC
28930 TAGCCGTTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 19 0.49
30 20 0.51
ACGTcount: A:0.43, C:0.27, G:0.05, T:0.24
Consensus pattern (30 bp):
AATCAATCAGACCACCAAACTATTCAATTG
Found at i:30035 original size:20 final size:20
Alignment explanation
Indices: 30010--30049 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
30000 TTAAAAAATA
*
30010 ATAATAAATAATTTATTTTT
1 ATAATAAATAAATTATTTTT
*
30030 ATAATATATAAATTATTTTT
1 ATAATAAATAAATTATTTTT
30050 TTATAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATAATAAATAAATTATTTTT
Found at i:30115 original size:27 final size:28
Alignment explanation
Indices: 30084--30138 Score: 69
Period size: 30 Copynumber: 2.0 Consensus size: 28
30074 TGAGAAATGT
30084 AATA-TCATTT-ATAAAATTATTTATATC
1 AATATTCATTTAATAAAATTA-TTATATC
*
30111 AATATTCATTTGAATATAATTATTATAT
1 AATATTCATTT-AATAAAATTATTATAT
30139 TATTTTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 4 0.17
28 6 0.25
29 6 0.25
30 8 0.33
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (28 bp):
AATATTCATTTAATAAAATTATTATATC
Found at i:30499 original size:16 final size:16
Alignment explanation
Indices: 30480--30540 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
30470 AGCCAAATCG
*
30480 AAAGTAACCCGAACCG
1 AAAGTAACCCGAACCA
*
30496 AAAGCAA-CCGAATCCA
1 AAAGTAACCCGAA-CCA
* *
30512 AAAATAACCTGAACCA
1 AAAGTAACCCGAACCA
*
30528 AAAGTAACTCGAA
1 AAAGTAACCCGAA
30541 TTTAATTTAT
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
15 5 0.14
16 26 0.74
17 4 0.11
ACGTcount: A:0.51, C:0.26, G:0.13, T:0.10
Consensus pattern (16 bp):
AAAGTAACCCGAACCA
Found at i:32446 original size:6 final size:6
Alignment explanation
Indices: 32427--32458 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
32417 GTGCCCTCTC
32427 CCCCTT CTCCCTT CCCCTT CCCCTT CCCCTT C
1 CCCCTT C-CCCTT CCCCTT CCCCTT CCCCTT C
32459 TATATCGGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (6 bp):
CCCCTT
Found at i:33651 original size:42 final size:42
Alignment explanation
Indices: 33595--33708 Score: 174
Period size: 42 Copynumber: 2.7 Consensus size: 42
33585 TTTTTTCGAA
33595 TTTTCGTGTTTGTTTCACGTAATTCGTTTTTCGAAAAATATT
1 TTTTCGTGTTTGTTTCACGTAATTCGTTTTTCGAAAAATATT
* * *
33637 TTTTCGCGTTTGTTTCACGTAATTCGTTTTTCGGAAAATGTT
1 TTTTCGTGTTTGTTTCACGTAATTCGTTTTTCGAAAAATATT
** *
33679 TTCCCGTGTTTGTTTCACGTAATTGGTTTT
1 TTTTCGTGTTTGTTTCACGTAATTCGTTTT
33709 CCGGATGTAA
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.17, C:0.14, G:0.18, T:0.52
Consensus pattern (42 bp):
TTTTCGTGTTTGTTTCACGTAATTCGTTTTTCGAAAAATATT
Found at i:33925 original size:22 final size:22
Alignment explanation
Indices: 33900--33948 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 22
33890 ATTATTTATT
33900 TATT-TATTAATATTTATAATAA
1 TATTATATT-ATATTTATAATAA
33922 TATTATATTATATTT-T--TAA
1 TATTATATTATATTTATAATAA
33941 TATTATAT
1 TATTATAT
33949 AAATAATCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 11 0.42
21 1 0.04
22 10 0.38
23 4 0.15
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TATTATATTATATTTATAATAA
Found at i:34029 original size:27 final size:28
Alignment explanation
Indices: 33999--34061 Score: 76
Period size: 27 Copynumber: 2.2 Consensus size: 28
33989 TTTATTTTAA
33999 TAATATAT-AATAAAATT-TTTATATATT
1 TAATA-ATGAATAAAATTATTTATATATT
* *
34026 TAATAATGAATAATATTATTTATATGTT
1 TAATAATGAATAAAATTATTTATATATT
34054 TAAATAAT
1 T-AATAAT
34062 ATTTTAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 2 0.06
27 13 0.42
28 10 0.32
29 6 0.19
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (28 bp):
TAATAATGAATAAAATTATTTATATATT
Found at i:34056 original size:58 final size:56
Alignment explanation
Indices: 33915--34072 Score: 133
Period size: 58 Copynumber: 2.7 Consensus size: 56
33905 ATTAATATTT
* *
33915 ATAATAATATTATATTATATTTTTAATATTATATAA-ATAATCAATTATATTATAATA
1 ATAATAATATTAT-TTATA-TTTTAATAATATATAATAAAATCAATTATATTATAATA
* ** *
33972 AT-ATAAGTTATTATATTTTTATTTTAATAATATATAATAAAAT-TTTTATATATTTAATA
1 ATAATAA--TA-T-TATTTATATTTTAATAATATATAATAAAATCAATTATAT-TATAATA
*
34031 ATGAATAATATTATTTATATGTTTAAATAATATTTTAATAAA
1 AT-AATAATATTATTTATAT-TTT-AATAATA-TATAATAAA
34073 GATATTTAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 19
0.75 0.07 0.17
Matches are distributed among these distances:
56 4 0.05
57 10 0.12
58 27 0.33
59 26 0.32
60 11 0.13
61 4 0.05
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.51
Consensus pattern (56 bp):
ATAATAATATTATTTATATTTTAATAATATATAATAAAATCAATTATATTATAATA
Found at i:34217 original size:30 final size:32
Alignment explanation
Indices: 34150--34220 Score: 87
Period size: 31 Copynumber: 2.3 Consensus size: 32
34140 AATATAATTT
*
34150 ATAATA-TTTTATTTCACTAAAATATACAAAA
1 ATAATATTTTTATTTCAATAAAATATACAAAA
34181 ATTAATATTTTTA-TT-AATAAAATTATA-AAAA
1 A-TAATATTTTTATTTCAATAAAA-TATACAAAA
34212 ATAATATTT
1 ATAATATTT
34221 AATAATAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
30 8 0.22
31 12 0.33
32 11 0.31
33 5 0.14
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (32 bp):
ATAATATTTTTATTTCAATAAAATATACAAAA
Found at i:34241 original size:20 final size:20
Alignment explanation
Indices: 34205--34244 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
34195 TAATAAAATT
34205 ATAAAAAATAATATTTAATA
1 ATAAAAAATAATATTTAATA
*
34225 ATAAATAAATTAT-TTTAATA
1 ATAAA-AAATAATATTTAATA
34245 TTTTAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
ATAAAAAATAATATTTAATA
Found at i:34521 original size:21 final size:21
Alignment explanation
Indices: 34479--34521 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
34469 ATAATTCAAA
** *
34479 TTCCAGTAATTCATTTTTCAG
1 TTCCAGTAATTCAAATTCCAG
34500 TTCCAGTAATTCAAATTCCAG
1 TTCCAGTAATTCAAATTCCAG
34521 T
1 T
34522 AATTCATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.42
Consensus pattern (21 bp):
TTCCAGTAATTCAAATTCCAG
Found at i:34533 original size:15 final size:15
Alignment explanation
Indices: 34455--34535 Score: 65
Period size: 15 Copynumber: 5.1 Consensus size: 15
34445 TTCCAGAAAT
34455 GTAATTCATTTTCCA
1 GTAATTCATTTTCCA
**
34470 -TAATTCAAATTCCA
1 GTAATTCATTTTCCA
34484 GTAATTCATTTTTCAGTTCCA
1 GTAATTCA---TT---TTCCA
**
34505 GTAATTCAAATTCCA
1 GTAATTCATTTTCCA
34520 GTAATTCATTTTCCA
1 GTAATTCATTTTCCA
34535 G
1 G
34536 AAAACCAATT
Statistics
Matches: 51, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
14 12 0.24
15 26 0.51
21 13 0.25
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.42
Consensus pattern (15 bp):
GTAATTCATTTTCCA
Found at i:35055 original size:90 final size:89
Alignment explanation
Indices: 34896--35058 Score: 299
Period size: 90 Copynumber: 1.8 Consensus size: 89
34886 CCTAACACAC
*
34896 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATA
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATATATA
34961 TTTAATTAATTAGATTTTAATAAT
66 TTTAATTAATTAGATTTTAATAAT
*
34985 CCTTTTATATCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATATAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGG-TTTTATTATTTCAAATTAATTAAATATAT
35050 ATTTAATTA
65 ATTTAATTA
35059 GTTGAAATTA
Statistics
Matches: 71, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
89 34 0.48
90 37 0.52
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.46
Consensus pattern (89 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATATATA
TTTAATTAATTAGATTTTAATAAT
Found at i:37569 original size:59 final size:59
Alignment explanation
Indices: 37445--37588 Score: 168
Period size: 59 Copynumber: 2.5 Consensus size: 59
37435 ACATGTTTTT
* * * * * *
37445 TTAACGTTTGTG-A-ATGGTCATTTATATTTTCACAAACATGTTCATGAATATATTCGT
1 TTAACGTTCGTGAACATGTTCATTTATATGTTCACAAACATGTTCACGAACATATTCGC
* * *
37502 TTATCGTTCGTGAACATGTTCATTTATATGTTCACAAATATGTTCACGAACATGTGT-GC
1 TTAACGTTCGTGAACATGTTCATTTATATGTTCACAAACATGTTCACGAACATAT-TCGC
*
37561 TTAACGTTCATGAACATGTTCATTTATA
1 TTAACGTTCGTGAACATGTTCATTTATA
37589 CGCTCACGAA
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
57 10 0.14
58 1 0.01
59 61 0.84
60 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.42
Consensus pattern (59 bp):
TTAACGTTCGTGAACATGTTCATTTATATGTTCACAAACATGTTCACGAACATATTCGC
Found at i:37580 original size:47 final size:47
Alignment explanation
Indices: 37529--37629 Score: 121
Period size: 47 Copynumber: 2.1 Consensus size: 47
37519 GTTCATTTAT
* * *
37529 ATGTTCACAAATATGTTCACGAACATGTGTGCTTAACGTTCATGAAC
1 ATGTTCACAAATACGCTCACGAACATATGTGCTTAACGTTCATGAAC
*** * * *
37576 ATGTTCATTTATACGCTCACGAACATATTTGTTTAACGTTTATGAAC
1 ATGTTCACAAATACGCTCACGAACATATGTGCTTAACGTTCATGAAC
37623 ATGTTCA
1 ATGTTCA
37630 TTTATATGTT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.37
Consensus pattern (47 bp):
ATGTTCACAAATACGCTCACGAACATATGTGCTTAACGTTCATGAAC
Found at i:37630 original size:47 final size:47
Alignment explanation
Indices: 37545--37680 Score: 155
Period size: 47 Copynumber: 2.9 Consensus size: 47
37535 ACAAATATGT
* * *
37545 TCACGAACATGTGTGCTTAACGTTCATGAACATGTTCATTTATACGC
1 TCACGAACATGTTTGTTTAACGTTTATGAACATGTTCATTTATACGC
* * *
37592 TCACGAACATATTTGTTTAACGTTTATGAACATGTTCATTTATATGT
1 TCACGAACATGTTTGTTTAACGTTTATGAACATGTTCATTTATACGC
* * * *** *
37639 TCATGACCATGTTTCTTTAGTATTTGTGAACATGTTCATTTA
1 TCACGAACATGTTTGTTTAACGTTTATGAACATGTTCATTTA
37681 GTGTTCGTTT
Statistics
Matches: 75, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 75 1.00
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (47 bp):
TCACGAACATGTTTGTTTAACGTTTATGAACATGTTCATTTATACGC
Found at i:37649 original size:24 final size:24
Alignment explanation
Indices: 37564--37680 Score: 98
Period size: 24 Copynumber: 5.0 Consensus size: 24
37554 TGTGTGCTTA
37564 ACGTTCATGAACATGTTCATTTAT
1 ACGTTCATGAACATGTTCATTTAT
* * * **
37588 ACGCTCACGAACATATTTGTTTA-
1 ACGTTCATGAACATGTTCATTTAT
*
37611 ACGTTTATGAACATGTTCATTTAT
1 ACGTTCATGAACATGTTCATTTAT
* *
37635 ATGTTCATGACCATGTTTC-TTTAGT
1 ACGTTCATGAACATG-TTCATTTA-T
**
37660 A--TTTGTGAACATGTTCATTTA
1 ACGTTCATGAACATGTTCATTTA
37681 GTGTTCGTTT
Statistics
Matches: 72, Mismatches: 17, Indels: 9
0.73 0.17 0.09
Matches are distributed among these distances:
22 3 0.04
23 30 0.42
24 34 0.47
25 5 0.07
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.44
Consensus pattern (24 bp):
ACGTTCATGAACATGTTCATTTAT
Found at i:39363 original size:18 final size:18
Alignment explanation
Indices: 39340--39408 Score: 68
Period size: 18 Copynumber: 3.8 Consensus size: 18
39330 TTAATATACG
39340 TCTGATAATTGTAAAACA
1 TCTGATAATTGTAAAACA
* * **
39358 TCTGATAACTGAAAAATG
1 TCTGATAATTGTAAAACA
*
39376 TTTGATAATTGT-AAACTA
1 TCTGATAATTGTAAAAC-A
*
39394 TCTTATAATTGTAAA
1 TCTGATAATTGTAAA
39409 CATTTAGAAT
Statistics
Matches: 38, Mismatches: 11, Indels: 3
0.73 0.21 0.06
Matches are distributed among these distances:
17 3 0.08
18 33 0.87
19 2 0.05
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.38
Consensus pattern (18 bp):
TCTGATAATTGTAAAACA
Found at i:42219 original size:6 final size:6
Alignment explanation
Indices: 42208--42234 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
42198 ATTCCAACTT
42208 TTATAA TTATAA TTATAA TTATAA TTA
1 TTATAA TTATAA TTATAA TTATAA TTA
42235 ACAGTGGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTATAA
Found at i:47306 original size:2 final size:2
Alignment explanation
Indices: 47299--47346 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
47289 ATATGAAGAA
47299 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
47341 AT AT AT
1 AT AT AT
47347 TCTTTTGGTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:48736 original size:17 final size:17
Alignment explanation
Indices: 48710--48743 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
48700 AACCTTATGC
48710 ATCATCTTTTAT-TTTA
1 ATCATCTTTTATATTTA
48726 ATCAGTCTTTTATATTTA
1 ATCA-TCTTTTATATTTA
48744 TCTTTGAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 8 0.50
18 4 0.25
ACGTcount: A:0.26, C:0.12, G:0.03, T:0.59
Consensus pattern (17 bp):
ATCATCTTTTATATTTA
Found at i:49743 original size:20 final size:20
Alignment explanation
Indices: 49666--49777 Score: 120
Period size: 20 Copynumber: 5.6 Consensus size: 20
49656 TGCAATTTTT
*
49666 TGACTATCGCAATGCGAATA
1 TGACTATCGCAATGCGATTA
* *
49686 TGTA-AATCGCAATGCGAATA
1 TG-ACTATCGCAATGCGATTA
*
49706 TGTA-AATCGCAATGCGATTA
1 TG-ACTATCGCAATGCGATTA
*
49726 TGACTATCGCAATGCGATTC
1 TGACTATCGCAATGCGATTA
* *
49746 TGACTATCGCAACGCGATTC
1 TGACTATCGCAATGCGATTA
*
49766 TGACTGTCGCAA
1 TGACTATCGCAA
49778 CACTGAATTT
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
19 1 0.01
20 82 0.98
21 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (20 bp):
TGACTATCGCAATGCGATTA
Found at i:50558 original size:24 final size:24
Alignment explanation
Indices: 50526--50579 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
50516 GTATTCAAAA
50526 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
50550 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
50574 TTTGAT
1 TTTGAT
50580 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:50789 original size:14 final size:14
Alignment explanation
Indices: 50760--50796 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
50750 AGAAAAAGAA
50760 GAAGAAGAAATCCCC
1 GAAGAA-AAATCCCC
*
50775 GAAGAAAAGTCCCC
1 GAAGAAAAATCCCC
50789 GAAGAAAA
1 GAAGAAAA
50797 TGCCACAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.51, C:0.22, G:0.22, T:0.05
Consensus pattern (14 bp):
GAAGAAAAATCCCC
Found at i:52856 original size:18 final size:18
Alignment explanation
Indices: 52833--52867 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
52823 AGAAAAAGGC
*
52833 AATCAAAATCGCAATCAA
1 AATCAAAATCCCAATCAA
52851 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
52868 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.26, G:0.03, T:0.17
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:53092 original size:34 final size:34
Alignment explanation
Indices: 53036--53102 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 34
53026 TCATTTGAAT
* * *
53036 ATCGCACCGCGAATTTAACTATCGTAACGCAAAA
1 ATCGCAACGCAAATTTAACTATCGCAACGCAAAA
** *
53070 ATCGCAACGCAAATTTCTCTATCGCAACTCAAA
1 ATCGCAACGCAAATTTAACTATCGCAACGCAAA
53103 TTTGACTATC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.37, C:0.28, G:0.12, T:0.22
Consensus pattern (34 bp):
ATCGCAACGCAAATTTAACTATCGCAACGCAAAA
Found at i:53095 original size:20 final size:20
Alignment explanation
Indices: 53070--53198 Score: 134
Period size: 20 Copynumber: 6.5 Consensus size: 20
53060 TAACGCAAAA
**
53070 ATCGCAACGCAAATTTCTCT
1 ATCGCAACGCAAATTTGACT
*
53090 ATCGCAACTCAAATTTGACT
1 ATCGCAACGCAAATTTGACT
*
53110 ATCGCAACAGC-TATTTGACT
1 ATCGCAAC-GCAAATTTGACT
* *
53130 ATCGCAACGCGAATTTGAGT
1 ATCGCAACGCAAATTTGACT
* *
53150 ATCGCAACGCGAATTTGATT
1 ATCGCAACGCAAATTTGACT
***
53170 ATCGCAACGGGTATTTGACT
1 ATCGCAACGCAAATTTGACT
*
53190 ATCACAACG
1 ATCGCAACG
53199 AGAAAATTGC
Statistics
Matches: 95, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
19 2 0.02
20 92 0.97
21 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (20 bp):
ATCGCAACGCAAATTTGACT
Found at i:53132 original size:40 final size:40
Alignment explanation
Indices: 53028--53198 Score: 140
Period size: 40 Copynumber: 4.4 Consensus size: 40
53018 TTACACATTC
* * * *
53028 ATTTGAATATCGCACCGCGAATTTAACTATCGTAACGCAA
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCAA
* ** *
53068 A----A--ATCGCAACGCAAATTTCTCTATCGCAACTCAA
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCAA
* *
53102 ATTTGACTATCGCAACAGC-TATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAAC-GCGAATTTGACTATCGCAACGCAA
* * ***
53142 ATTTGAGTATCGCAACGCGAATTTGATTATCGCAACGGGT
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCAA
*
53182 ATTTGACTATCACAACG
1 ATTTGACTATCGCAACG
53199 AGAAAATTGC
Statistics
Matches: 105, Mismatches: 18, Indels: 16
0.76 0.13 0.12
Matches are distributed among these distances:
34 27 0.26
36 1 0.01
38 1 0.01
39 2 0.02
40 72 0.69
41 2 0.02
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.27
Consensus pattern (40 bp):
ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCAA
Found at i:53165 original size:60 final size:60
Alignment explanation
Indices: 53070--53198 Score: 168
Period size: 60 Copynumber: 2.1 Consensus size: 60
53060 TAACGCAAAA
* *
53070 ATCGCAACGCAAATTTCTCTATCGCAACTCAAATTTGACTATCGCAACAGCTATTTGACT
1 ATCGCAACGCAAATTTCACTATCGCAACGCAAATTTGACTATCGCAACAGCTATTTGACT
* * * * * * *
53130 ATCGCAACGCGAATTTGAGTATCGCAACGCGAATTTGATTATCGCAACGGGTATTTGACT
1 ATCGCAACGCAAATTTCACTATCGCAACGCAAATTTGACTATCGCAACAGCTATTTGACT
*
53190 ATCACAACG
1 ATCGCAACG
53199 AGAAAATTGC
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (60 bp):
ATCGCAACGCAAATTTCACTATCGCAACGCAAATTTGACTATCGCAACAGCTATTTGACT
Found at i:53266 original size:20 final size:20
Alignment explanation
Indices: 53237--53294 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
53227 GCAACGCAAA
53237 TTGACTTTCGCGTTGCGATT
1 TTGACTTTCGCGTTGCGATT
* * *
53257 TTGTCTTTCGCATTGCAATT
1 TTGACTTTCGCGTTGCGATT
* *
53277 TTGAGTTTAGCGTTGCGA
1 TTGACTTTCGCGTTGCGA
53295 AAGTGTACCT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.14, C:0.17, G:0.24, T:0.45
Consensus pattern (20 bp):
TTGACTTTCGCGTTGCGATT
Found at i:54957 original size:42 final size:42
Alignment explanation
Indices: 54850--54961 Score: 104
Period size: 42 Copynumber: 2.7 Consensus size: 42
54840 TCTATAATGT
* *
54850 TGGGAG-GGACCTCTTCAACGATGACAGTGGCCTCTTGAACAG
1 TGGGAGAGG-CCTCTTGAACGATGACAGGGGCCTCTTGAACAG
* * ** *
54892 TGGGAGGGGACTCTTGAGGGATGATAGGGGCCTCTTGAAC-G
1 TGGGAGAGGCCTCTTGAACGATGACAGGGGCCTCTTGAACAG
*
54933 ATAGGG-GATGCCTCTTGAACGATGACAGG
1 -T-GGGAGAGGCCTCTTGAACGATGACAGG
54962 TGAGTCGGGC
Statistics
Matches: 55, Mismatches: 12, Indels: 6
0.75 0.16 0.08
Matches are distributed among these distances:
41 1 0.02
42 49 0.89
43 5 0.09
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.21
Consensus pattern (42 bp):
TGGGAGAGGCCTCTTGAACGATGACAGGGGCCTCTTGAACAG
Found at i:55470 original size:20 final size:20
Alignment explanation
Indices: 55447--55515 Score: 102
Period size: 20 Copynumber: 3.5 Consensus size: 20
55437 GAAACTTAAA
*
55447 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCAAAAATGACT
55467 ATCGCAACGCAAAAATGACT
1 ATCGCAACGCAAAAATGACT
* **
55487 ATCGCAACGCTAATTTGACT
1 ATCGCAACGCAAAAATGACT
55507 ATCGCAACG
1 ATCGCAACG
55516 AGAGAATGCG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.38, C:0.26, G:0.17, T:0.19
Consensus pattern (20 bp):
ATCGCAACGCAAAAATGACT
Found at i:55558 original size:20 final size:20
Alignment explanation
Indices: 55533--55580 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
55523 GCGATTCTCT
55533 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
**
55553 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
55573 CGTTGCGA
1 CGTTGCGA
55581 AAGTAAACTA
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:0.19, C:0.21, G:0.27, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:57496 original size:20 final size:20
Alignment explanation
Indices: 57473--57528 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
57463 TCTGAAACTT
57473 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
57493 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** *
57513 ACTATCGCAACGCGAA
1 AAAATCGCAACACGAA
57529 TTTGACTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.50, C:0.23, G:0.16, T:0.11
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:57534 original size:20 final size:20
Alignment explanation
Indices: 57476--57547 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
57466 GAAACTTAAA
* **
57476 ATCGCAACACGAAAATGAAA
1 ATCGCAACGCGAAAATGACT
*
57496 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAAAATGACT
**
57516 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
*
57536 ATTGCAACGCGA
1 ATCGCAACGCGA
57548 GAATCGCAAC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.42, C:0.24, G:0.18, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:57967 original size:22 final size:22
Alignment explanation
Indices: 57942--57983 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
57932 AACTAGACAA
57942 ATTTCACT-GGAGATGGGGACTG
1 ATTTC-CTCGGAGATGGGGACTG
*
57964 ATTTCGTCGGAGATGGGGAC
1 ATTTCCTCGGAGATGGGGAC
57984 GGATGTCGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.21, C:0.14, G:0.38, T:0.26
Consensus pattern (22 bp):
ATTTCCTCGGAGATGGGGACTG
Found at i:58323 original size:20 final size:20
Alignment explanation
Indices: 58273--58343 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
58263 GCGATTTTCC
58273 GACTATCGCAATGCGAATAT
1 GACTATCGCAATGCGAATAT
* *
58293 GTA-AATCGCAATGCGAGTAT
1 G-ACTATCGCAATGCGAATAT
* *
58313 GACTATTGCAATGC-AATTCT
1 GACTATCGCAATGCGAA-TAT
58333 GACTATCGCAA
1 GACTATCGCAA
58344 CGAGATTCTA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
19 2 0.05
20 38 0.93
21 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (20 bp):
GACTATCGCAATGCGAATAT
Found at i:58351 original size:20 final size:20
Alignment explanation
Indices: 58328--58403 Score: 82
Period size: 20 Copynumber: 3.8 Consensus size: 20
58318 TTGCAATGCA
58328 ATTCTGACTATCGCAACGAG
1 ATTCTGACTATCGCAACGAG
* *
58348 ATTCTAACTATCGCAAC-ACC
1 ATTCTGACTATCGCAACGA-G
* *
58368 ATTCTGACTGTCGCAACGCG
1 ATTCTGACTATCGCAACGAG
* *
58388 ATGCTTACTATCGCAA
1 ATTCTGACTATCGCAA
58404 TACGATTTTC
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
19 1 0.02
20 44 0.98
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (20 bp):
ATTCTGACTATCGCAACGAG
Found at i:58358 original size:40 final size:40
Alignment explanation
Indices: 58314--58406 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 40
58304 TGCGAGTATG
* * *
58314 ACTATTGCAATGCAATTCTGACTATCGCAACGAGATTCTA
1 ACTATCGCAATACAATTCTGACTATCGCAACGAGATGCTA
* * * * *
58354 ACTATCGCAACACCATTCTGACTGTCGCAACGCGATGCTT
1 ACTATCGCAATACAATTCTGACTATCGCAACGAGATGCTA
58394 ACTATCGCAATAC
1 ACTATCGCAATAC
58407 GATTTTCAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (40 bp):
ACTATCGCAATACAATTCTGACTATCGCAACGAGATGCTA
Found at i:58625 original size:22 final size:22
Alignment explanation
Indices: 58586--58627 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
58576 GCAACATCCC
* *
58586 TCCCCATCTCCGATGAAATCAA
1 TCCCCAGCTCCGACGAAATCAA
*
58608 TCCCCAGCTCCGGCGAAATC
1 TCCCCAGCTCCGACGAAATC
58628 CGTCTATCTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.26, C:0.40, G:0.14, T:0.19
Consensus pattern (22 bp):
TCCCCAGCTCCGACGAAATCAA
Found at i:59035 original size:19 final size:19
Alignment explanation
Indices: 59013--59056 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
59003 AGAATCGCAA
*
59013 TGCGATTTT-AGTTTCGCGT
1 TGCGATTTTCA-TTTCACGT
59032 TGCGATTTTCATTTCACGT
1 TGCGATTTTCATTTCACGT
59051 TGCGAT
1 TGCGAT
59057 AGTCAAATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 22 0.96
20 1 0.04
ACGTcount: A:0.14, C:0.18, G:0.23, T:0.45
Consensus pattern (19 bp):
TGCGATTTTCATTTCACGT
Found at i:59087 original size:20 final size:20
Alignment explanation
Indices: 59024--59107 Score: 80
Period size: 20 Copynumber: 4.2 Consensus size: 20
59014 GCGATTTTAG
**
59024 TTTCGCGTTGCGATTTTCA-
1 TTTCGCGTTGCGATAGTCAT
* *
59043 TTTCACGTTGCGATAGTCAA
1 TTTCGCGTTGCGATAGTCAT
*
59063 ATTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATAGTCAT
* * **
59083 TTTCGTGTTGCAATTTTCAT
1 TTTCGCGTTGCGATAGTCAT
59103 TTTCG
1 TTTCG
59108 TGTTTCGATT
Statistics
Matches: 53, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
19 16 0.30
20 37 0.70
ACGTcount: A:0.17, C:0.19, G:0.20, T:0.44
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGTCAT
Found at i:59126 original size:20 final size:20
Alignment explanation
Indices: 59083--59126 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
59073 CGATAGTCAT
* *
59083 TTTCGTGTTGCAATTTTCAT
1 TTTCGTGTTGCAATTTTAAG
* *
59103 TTTCGTGTTTCGATTTTAAG
1 TTTCGTGTTGCAATTTTAAG
59123 TTTC
1 TTTC
59127 AGAAACTATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.14, C:0.14, G:0.16, T:0.57
Consensus pattern (20 bp):
TTTCGTGTTGCAATTTTAAG
Found at i:60862 original size:18 final size:18
Alignment explanation
Indices: 60839--60888 Score: 100
Period size: 18 Copynumber: 2.8 Consensus size: 18
60829 TTTACTCGTA
60839 ATTTCACTTAGATTAACC
1 ATTTCACTTAGATTAACC
60857 ATTTCACTTAGATTAACC
1 ATTTCACTTAGATTAACC
60875 ATTTCACTTAGATT
1 ATTTCACTTAGATT
60889 GCTTTCGCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.32, C:0.20, G:0.06, T:0.42
Consensus pattern (18 bp):
ATTTCACTTAGATTAACC
Found at i:60926 original size:20 final size:20
Alignment explanation
Indices: 60893--60960 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
60883 TAGATTGCTT
* *
60893 TCGCAATGCAAAAATGACTA
1 TCGCAACGCGAAAATGACTA
*
60913 TTGCAACGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
* **
60933 TCGCAACGTGAATTTGACTA
1 TCGCAACGCGAAAATGACTA
*
60953 TCGTAACG
1 TCGCAACG
60961 AGAGAATCAC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.24
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:61029 original size:20 final size:20
Alignment explanation
Indices: 61003--61091 Score: 115
Period size: 20 Copynumber: 4.5 Consensus size: 20
60993 GCGATTATCT
*
61003 CGTTGCGATAGTTAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
61023 TGTTGCGATAGTCAAATTTG
1 CGTTGCGATAGTCAAATTCG
**
61043 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
**
61063 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
61083 CGTTGCGAT
1 CGTTGCGAT
61092 TTTAAGTTTC
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 62 1.00
ACGTcount: A:0.19, C:0.17, G:0.26, T:0.38
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:61101 original size:20 final size:20
Alignment explanation
Indices: 61003--61101 Score: 85
Period size: 20 Copynumber: 5.0 Consensus size: 20
60993 GCGATTATCT
*
61003 CGTTGCGATAGTTAA-ATTCG
1 CGTTGCGATAG-TAAGTTTCG
* *
61023 TGTTGCGATAGTCAAATTT-G
1 CGTTGCGATAGT-AAGTTTCG
* *
61043 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTAAGTTTCG
* *
61063 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTAAGTTTCG
**
61083 CGTTGCGATTTTAAGTTTC
1 CGTTGCGATAGTAAGTTTC
61102 AGATTCTATT
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
19 5 0.07
20 60 0.90
21 2 0.03
ACGTcount: A:0.19, C:0.16, G:0.24, T:0.40
Consensus pattern (20 bp):
CGTTGCGATAGTAAGTTTCG
Found at i:61672 original size:21 final size:20
Alignment explanation
Indices: 61581--61684 Score: 75
Period size: 21 Copynumber: 5.0 Consensus size: 20
61571 GACTCACCTA
*
61581 TCATCGTTCAAGAGGCTTCCCC
1 TCATCGTTCAAGAGGC--CCCT
61603 T-ATCGTTCAAGAGGCCCCT
1 TCATCGTTCAAGAGGCCCCT
** *
61622 ATCATCCCTCAAGAGTCCCCT
1 -TCATCGTTCAAGAGGCCCCT
* * *
61643 CCACACGTTCAAGAGGCCACT
1 TCA-TCGTTCAAGAGGCCCCT
* *
61664 GTCATCGTTGAAGAGGTCCCT
1 -TCATCGTTCAAGAGGCCCCT
61685 CTCAACATTC
Statistics
Matches: 63, Mismatches: 15, Indels: 9
0.72 0.17 0.10
Matches are distributed among these distances:
19 3 0.05
20 3 0.05
21 54 0.86
22 3 0.05
ACGTcount: A:0.22, C:0.35, G:0.19, T:0.24
Consensus pattern (20 bp):
TCATCGTTCAAGAGGCCCCT
Found at i:63109 original size:14 final size:14
Alignment explanation
Indices: 63075--63136 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 14
63065 TTGCTTGTTT
*
63075 AATTGATTTATAAA
1 AATTGATTTGTAAA
*
63089 AACTGATTTGTAAA
1 AATTGATTTGTAAA
* *
63103 AGTTGATTTGTTTAA
1 AATTGATTTG-TAAA
* *
63118 TATTGATGTGTAAA
1 AATTGATTTGTAAA
63132 TAATT
1 -AATT
63137 CTTATTTGTG
Statistics
Matches: 36, Mismatches: 10, Indels: 3
0.73 0.20 0.06
Matches are distributed among these distances:
14 23 0.64
15 13 0.36
ACGTcount: A:0.39, C:0.02, G:0.15, T:0.45
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:63288 original size:20 final size:20
Alignment explanation
Indices: 63235--63288 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
63225 AGGTACACTT
* **
63235 TCGCAACGCTAAACTCAAAA
1 TCGCAACGCGAAAGACAAAA
*
63255 TCGCAATGCGAAAGACAAAA
1 TCGCAACGCGAAAGACAAAA
63275 TCGCAACGCGAAAG
1 TCGCAACGCGAAAG
63289 TCAATTCACG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.44, C:0.26, G:0.19, T:0.11
Consensus pattern (20 bp):
TCGCAACGCGAAAGACAAAA
Found at i:63367 original size:20 final size:20
Alignment explanation
Indices: 63331--63609 Score: 164
Period size: 20 Copynumber: 14.8 Consensus size: 20
63321 GCGATTTTCT
* * *
63331 CGTTGCGATAGTTAAATACC
1 CGTTGCGATAGTCAAATTCG
*
63351 CGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* * *
63371 TGTTGCGATACTCAAATTTG
1 CGTTGCGATAGTCAAATTCG
* *
63391 TGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
63411 CGTTGTGAT--T----TTCT
1 CGTTGCGATAGTCAAATTCG
*
63425 CGTTGCGATAGTCAAA-TAG
1 CGTTGCGATAGTCAAATTCG
*
63444 CCGTTGCGATAGTCAAATTCA
1 -CGTTGCGATAGTCAAATTCG
** *
63465 CGTTGCGATAGAGAAATTTG
1 CGTTGCGATAGTCAAATTCG
* *
63485 TGTTGCGAT--T----TTTG
1 CGTTGCGATAGTCAAATTCG
* *
63499 CGTTGCGATTGTCATATTCG
1 CGTTGCGATAGTCAAATTCG
*
63519 TGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
63539 CATTGCGAT--T----TTTG
1 CGTTGCGATAGTCAAATTCG
* * *
63553 AGTTGCGATAATCAAATTTG
1 CGTTGCGATAGTCAAATTCG
*
63573 CGTTGCGATAGTCAAATCCG
1 CGTTGCGATAGTCAAATTCG
*
63593 CGTTGCGATATTCAAAT
1 CGTTGCGATAGTCAAAT
63610 GAATATGTAA
Statistics
Matches: 201, Mismatches: 38, Indels: 40
0.72 0.14 0.14
Matches are distributed among these distances:
14 33 0.16
16 3 0.01
18 2 0.01
19 1 0.00
20 161 0.80
21 1 0.00
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:63433 original size:74 final size:74
Alignment explanation
Indices: 63351--63547 Score: 211
Period size: 74 Copynumber: 2.7 Consensus size: 74
63341 GTTAAATACC
* * ***
63351 CGTTGCGATAATCAAATTCGTGTTGCGATACTCAAATTTGTGTTGCGATA-ATCAAATTCGCGTT
1 CGTTGCGATAGTCAAATTCGTGTTGCGATAGTCAAATTCACGTTGCGATAGA-CAAATTCGCGTT
*
63415 GTGATTTTCT-
65 GCGATTTT-TG
* * * * *
63425 CGTTGCGATAGTCAAA-TAGCCGTTGCGATAGTCAAATTCACGTTGCGATAGAGAAATTTGTGTT
1 CGTTGCGATAGTCAAATTCG-TGTTGCGATAGTCAAATTCACGTTGCGATAGACAAATTCGCGTT
63489 GCGATTTTTG
65 GCGATTTTTG
* * * *
63499 CGTTGCGATTGTCATATTCGTGTTGCGATAGTCAAATTCGCATTGCGAT
1 CGTTGCGATAGTCAAATTCGTGTTGCGATAGTCAAATTCACGTTGCGAT
63548 TTTTGAGTTG
Statistics
Matches: 102, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
73 3 0.03
74 96 0.94
75 3 0.03
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.37
Consensus pattern (74 bp):
CGTTGCGATAGTCAAATTCGTGTTGCGATAGTCAAATTCACGTTGCGATAGACAAATTCGCGTTG
CGATTTTTG
Found at i:63484 original size:94 final size:94
Alignment explanation
Indices: 63323--63493 Score: 270
Period size: 94 Copynumber: 1.8 Consensus size: 94
63313 TACGCTTTGC
* ** *
63323 GATTTTCTCGTTGCGATAGTTAAATACCCGTTGCGATAATCAAATTCGTGTTGCGATACTCAAAT
1 GATTTTCTCGTTGCGATAGTCAAATACCCGTTGCGATAATCAAATTCACGTTGCGATACACAAAT
63388 TTGTGTTGCGATAATCAAATTCGCGTTGT
66 TTGTGTTGCGATAATCAAATTCGCGTTGT
* * * *
63417 GATTTTCTCGTTGCGATAGTCAAATAGCCGTTGCGATAGTCAAATTCACGTTGCGATAGAGAAAT
1 GATTTTCTCGTTGCGATAGTCAAATACCCGTTGCGATAATCAAATTCACGTTGCGATACACAAAT
63482 TTGTGTTGCGAT
66 TTGTGTTGCGAT
63494 TTTTGCGTTG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
94 69 1.00
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (94 bp):
GATTTTCTCGTTGCGATAGTCAAATACCCGTTGCGATAATCAAATTCACGTTGCGATACACAAAT
TTGTGTTGCGATAATCAAATTCGCGTTGT
Found at i:63503 original size:54 final size:54
Alignment explanation
Indices: 63445--63601 Score: 179
Period size: 54 Copynumber: 2.9 Consensus size: 54
63435 GTCAAATAGC
* * * **
63445 CGTTGCGATAGTCAAATTCACGTTGCGATAGAGAAATTTGTGTTGCGATTTTTG
1 CGTTGCGATAGTCAAATTCGCGTTGCGATAGACAAATTCGCATTGCGATTTTTG
* * * *
63499 CGTTGCGATTGTCATATTCGTGTTGCGATAGTCAAATTCGCATTGCGATTTTTG
1 CGTTGCGATAGTCAAATTCGCGTTGCGATAGACAAATTCGCATTGCGATTTTTG
* * * * * *
63553 AGTTGCGATAATCAAATTTGCGTTGCGATAGTCAAATCCGCGTTGCGAT
1 CGTTGCGATAGTCAAATTCGCGTTGCGATAGACAAATTCGCATTGCGAT
63602 ATTCAAATGA
Statistics
Matches: 86, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 86 1.00
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (54 bp):
CGTTGCGATAGTCAAATTCGCGTTGCGATAGACAAATTCGCATTGCGATTTTTG
Found at i:63832 original size:140 final size:140
Alignment explanation
Indices: 63580--63849 Score: 486
Period size: 140 Copynumber: 1.9 Consensus size: 140
63570 TTGCGTTGCG
* *
63580 ATAGTCAAATCCGCGTTGCGATATTCAAATGAATATGTAATAAGTGATAACAACTGAACATATCA
1 ATAGTCAAATCCGCATTGCGATATTCAAATGAATATGTAATAAGTGATAACAACTGAACAGATCA
63645 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
63710 AATACACATA
131 AATACACATA
** * *
63720 ATAGTCAAATTTGCATTGTGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
1 ATAGTCAAATCCGCATTGCGATATTCAAATGAATATGTAATAAGTGATAACAACTGAACAGATCA
63785 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
63850 TACAACGTTT
Statistics
Matches: 124, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
140 124 1.00
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.29
Consensus pattern (140 bp):
ATAGTCAAATCCGCATTGCGATATTCAAATGAATATGTAATAAGTGATAACAACTGAACAGATCA
TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
AATACACATA
Found at i:63924 original size:12 final size:12
Alignment explanation
Indices: 63909--63949 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
63899 AAGCCGGTTG
*
63909 TGATTGGGATTT
1 TGATTGTGATTT
*
63921 TGATTTTGATTT
1 TGATTGTGATTT
63933 TGATTGTGATTT
1 TGATTGTGATTT
63945 TGATT
1 TGATT
63950 TCCTTTTTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.17, C:0.00, G:0.24, T:0.59
Consensus pattern (12 bp):
TGATTGTGATTT
Found at i:63925 original size:6 final size:6
Alignment explanation
Indices: 63916--63950 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
63906 TTGTGATTGG
*
63916 GATTTT GATTTT GATTTT GATTGT GATTTT GATTT
1 GATTTT GATTTT GATTTT GATTTT GATTTT GATTT
63951 CCTTTTTCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.17, C:0.00, G:0.20, T:0.63
Consensus pattern (6 bp):
GATTTT
Found at i:63957 original size:24 final size:24
Alignment explanation
Indices: 63909--63957 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
63899 AAGCCGGTTG
**
63909 TGATTGGGATTTTGATTTTGATTT
1 TGATTGGGATTTTGATTTCCATTT
* *
63933 TGATTGTGATTTTGATTTCCTTTT
1 TGATTGGGATTTTGATTTCCATTT
63957 T
1 T
63958 CTTGACATCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.14, C:0.04, G:0.20, T:0.61
Consensus pattern (24 bp):
TGATTGGGATTTTGATTTCCATTT
Found at i:66000 original size:13 final size:13
Alignment explanation
Indices: 65982--66006 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65972 TCCGTGGCAT
65982 TTTCTTCGGGGAC
1 TTTCTTCGGGGAC
65995 TTTCTTCGGGGA
1 TTTCTTCGGGGA
66007 TTTTTTCTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.20, G:0.32, T:0.40
Consensus pattern (13 bp):
TTTCTTCGGGGAC
Found at i:66240 original size:24 final size:24
Alignment explanation
Indices: 66206--66259 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
66196 CTAAAACATC
66206 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
66230 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
*
66254 ACCAAA
1 ATCAAA
66260 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.22, G:0.19, T:0.19
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:67104 original size:20 final size:20
Alignment explanation
Indices: 67079--67137 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
67069 GAAATTCAGT
*
67079 GTTGCGACAGTCAAAATCGC
1 GTTGCGATAGTCAAAATCGC
* *
67099 GTTGCGATAGACAGAATCGC
1 GTTGCGATAGTCAAAATCGC
* *
67119 ATTGCGATAGTCATAATCG
1 GTTGCGATAGTCAAAATCG
67138 TAATGCGATT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (20 bp):
GTTGCGATAGTCAAAATCGC
Found at i:67144 original size:20 final size:20
Alignment explanation
Indices: 67101--67146 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
67091 AAAATCGCGT
*
67101 TGCGATAGACAGAATCGCAT
1 TGCGATAGACAGAATCGCAA
* * *
67121 TGCGATAGTCATAATCGTAA
1 TGCGATAGACAGAATCGCAA
67141 TGCGAT
1 TGCGAT
67147 TTACATATTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (20 bp):
TGCGATAGACAGAATCGCAA
Found at i:67145 original size:40 final size:40
Alignment explanation
Indices: 67115--67210 Score: 140
Period size: 40 Copynumber: 2.4 Consensus size: 40
67105 ATAGACAGAA
*
67115 TCGCATTGCGATAGTCATAATCGTAATGCGATTTACATAT
1 TCGCATTGCGATAGTCATAATCGCAATGCGATTTACATAT
* * *
67155 TCGCATTGCGAT-TTACATATTCGCATTGCGATTTACATAT
1 TCGCATTGCGATAGT-CATAATCGCAATGCGATTTACATAT
67195 TCGCATTGCGATAGTC
1 TCGCATTGCGATAGTC
67211 GGAAAATCGC
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
39 1 0.02
40 47 0.96
41 1 0.02
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (40 bp):
TCGCATTGCGATAGTCATAATCGCAATGCGATTTACATAT
Found at i:67153 original size:20 final size:20
Alignment explanation
Indices: 67141--67206 Score: 132
Period size: 20 Copynumber: 3.3 Consensus size: 20
67131 ATAATCGTAA
67141 TGCGATTTACATATTCGCAT
1 TGCGATTTACATATTCGCAT
67161 TGCGATTTACATATTCGCAT
1 TGCGATTTACATATTCGCAT
67181 TGCGATTTACATATTCGCAT
1 TGCGATTTACATATTCGCAT
67201 TGCGAT
1 TGCGAT
67207 AGTCGGAAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (20 bp):
TGCGATTTACATATTCGCAT
Found at i:70352 original size:16 final size:16
Alignment explanation
Indices: 70331--70367 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
70321 CCGAGTCGAT
70331 CTCGAGTATTGCTGAG
1 CTCGAGTATTGCTGAG
70347 CTCGAGTATTGCTGAG
1 CTCGAGTATTGCTGAG
70363 CTCGA
1 CTCGA
70368 CTCAAACTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.19, C:0.22, G:0.30, T:0.30
Consensus pattern (16 bp):
CTCGAGTATTGCTGAG
Found at i:70519 original size:11 final size:11
Alignment explanation
Indices: 70503--70553 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
70493 CTTGAAACTC
70503 AAGCTCGATTG
1 AAGCTCGATTG
70514 AAGCTCGATTTTG
1 AAGCTCGA--TTG
*
70527 -AGCTCGATTC
1 AAGCTCGATTG
* *
70537 AAGCTCGTTTA
1 AAGCTCGATTG
70548 AAGCTC
1 AAGCTC
70554 AAAGATGGGT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
10 2 0.06
11 22 0.65
12 7 0.21
13 3 0.09
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (11 bp):
AAGCTCGATTG
Found at i:75679 original size:47 final size:47
Alignment explanation
Indices: 75605--75910 Score: 452
Period size: 47 Copynumber: 6.5 Consensus size: 47
75595 AAACCGAATT
* * *
75605 CATAACAAAAAATGCATGAACGGATGCATTAAGGCTTGAAATGATGC
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
** *
75652 CATAACTAAAAATGCATGAACATATGCATTAAGGCATGAAAGGATAC
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
* * * *
75699 CATAACTAAGAATGCATGAACGGATGCATTTAGGCATGAAAGGACGT
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
*
75746 CATAACTAAAAATGCATGAACTGATGCATTAAGGCATGAAAGGATGC
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
*
75793 CATAAATAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
* *
75840 CATAACTAAAAATGCGTGAACGGATGCATTAAGGCATGAAAGGATGT
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
* * *
75887 AATAACT-AGAATGCATGAAAGGAT
1 CATAACTAAAAATGCATGAACGGAT
75911 TGAAAATATA
Statistics
Matches: 232, Mismatches: 27, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
46 14 0.06
47 218 0.94
ACGTcount: A:0.43, C:0.14, G:0.22, T:0.21
Consensus pattern (47 bp):
CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
Found at i:75791 original size:20 final size:20
Alignment explanation
Indices: 75768--75885 Score: 65
Period size: 20 Copynumber: 5.2 Consensus size: 20
75758 TGCATGAACT
75768 GATGCATTAAGGCATGAAAG
1 GATGCATTAAGGCATGAAAG
* *
75788 GATGCCATAAATAAAAATGCATGAACG
1 GATG-CAT---T---AAGGCATGAAAG
75815 GATGCATTAAGGCATGAAAG
1 GATGCATTAAGGCATGAAAG
* * *
75835 GATGCCATAACTAAAAATGCGTGAACG
1 GATG-CAT---T---AAGGCATGAAAG
75862 GATGCATTAAGGCATGAAAG
1 GATGCATTAAGGCATGAAAG
75882 GATG
1 GATG
75886 TAATAACTAG
Statistics
Matches: 74, Mismatches: 10, Indels: 28
0.66 0.09 0.25
Matches are distributed among these distances:
20 31 0.42
21 6 0.08
23 2 0.03
24 2 0.03
26 6 0.08
27 27 0.36
ACGTcount: A:0.42, C:0.13, G:0.26, T:0.19
Consensus pattern (20 bp):
GATGCATTAAGGCATGAAAG
Found at i:75817 original size:27 final size:26
Alignment explanation
Indices: 75779--75866 Score: 80
Period size: 27 Copynumber: 3.5 Consensus size: 26
75769 ATGCATTAAG
75779 GCATGAAAGGATGCCATAAATAAAAAT
1 GCATGAAAGGATGCCAT-AATAAAAAT
* *
75806 GCATGAACGGATG-CAT--T---AAG
1 GCATGAAAGGATGCCATAATAAAAAT
75826 GCATGAAAGGATGCCATAACTAAAAAT
1 GCATGAAAGGATGCCATAA-TAAAAAT
* *
75853 GCGTGAACGGATGC
1 GCATGAAAGGATGC
75867 ATTAAGGCAT
Statistics
Matches: 48, Mismatches: 6, Indels: 14
0.71 0.09 0.21
Matches are distributed among these distances:
20 14 0.29
21 3 0.06
23 1 0.02
24 1 0.02
26 3 0.06
27 26 0.54
ACGTcount: A:0.42, C:0.15, G:0.25, T:0.18
Consensus pattern (26 bp):
GCATGAAAGGATGCCATAATAAAAAT
Done.